Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0ACI3
DateThu Jan 5 11:18:15 GMT 2012
Unique Job ID6a0030182eb397f8

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3h5oB_
Top template information
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator gntr;
PDBTitle: the crystal structure of transcription regulator gntr from2 chromobacterium violaceum
Confidence and coverage
Confidence:100.0% Coverage: 67%
263 residues ( 67% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
389 residues ( 99%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MFTKRHRITLLFNANKAYDRQVVEGVGEYLQASQSEWDIFIEEDFRARIDKIKDWLGDGV
Secondary structure 































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Disorder  ??????





































??













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   .........70.........80.........90.........100.........110.........120
Sequence  IADFDDKQIEQALADVDVPIVGVGGSYHLAESYPPVHYIATDNYALVESAFLHLKEKGVN
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Disorder 

























??????



























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   .........130.........140.........150.........160.........170.........180
Sequence  RFAFYGLPESSGKRWATEREYAFRQLVAEEKYRGVVYQGLETAPENWQHAQNRLADWLQT
Secondary structure 


















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Disorder 








???



























??????













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   .........190.........200.........210.........220.........230.........240
Sequence  LPPQTGIIAVTDARARHILQVCEHLHIPVPEKLCVIGIDNEELTRYLSRVALSSVAQGAR
Secondary structure 
















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Disorder 



















































??????

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   .........250.........260.........270.........280.........290.........300
Sequence  QMGYQAAKLLHRLLDKEEMPLQRILVPPVRVIERRSTDYRSLTDPAVIQAMHYIRNHACK
Secondary structure 












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Disorder 














?

















??????????















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   .........310.........320.........330.........340.........350.........360
Sequence  GIKVDQVLDAVGISRSNLEKRFKEEVGETIHAMIHAEKLEKARSLLISTTLSINEISQMC
Secondary structure 














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Disorder 















































?










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   .........370.........380.........390..
Sequence  GYPSLQYFYSVFKKAYDTTPKEYRDVNSEVML
Secondary structure 












SS confidence 































Disorder 
























???????
Disorder confidence 































 

Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 3h5o chain B

3D model

Region: 6 - 278
Aligned: 263
Modelled: 268
Confidence: 100.0%
Identity: 21%
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator gntr;
PDBTitle: the crystal structure of transcription regulator gntr from2 chromobacterium violaceum

Phyre2

PDB 3qk7 chain C

3D model

Region: 4 - 277
Aligned: 265
Modelled: 272
Confidence: 100.0%
Identity: 19%
PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulators;
PDBTitle: crystal structure of putative transcriptional regulator from yersinia2 pestis biovar microtus str. 91001

Phyre2

PDB 2nzu chain G domain 1

3D model

Region: 4 - 277
Aligned: 266
Modelled: 274
Confidence: 100.0%
Identity: 17%
Fold: Periplasmic binding protein-like I
Superfamily: Periplasmic binding protein-like I
Family: L-arabinose binding protein-like

Phyre2

PDB 2iks chain A

3D model

Region: 4 - 279
Aligned: 266
Modelled: 268
Confidence: 100.0%
Identity: 16%
PDB header:transcription
Chain: A: PDB Molecule:dna-binding transcriptional dual regulator;
PDBTitle: crystal structure of n-terminal truncated dna-binding transcriptional2 dual regulator from escherichia coli k12

Phyre2

PDB 3k4h chain A

3D model

Region: 4 - 280
Aligned: 269
Modelled: 276
Confidence: 100.0%
Identity: 19%
PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator laci from2 bacillus cereus subsp. cytotoxis nvh 391-98

Phyre2

PDB 3c3k chain A

3D model

Region: 4 - 278
Aligned: 261
Modelled: 269
Confidence: 100.0%
Identity: 19%
PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of an uncharacterized protein from actinobacillus2 succinogenes

Phyre2

PDB 3dbi chain A

3D model

Region: 4 - 281
Aligned: 268
Modelled: 277
Confidence: 100.0%
Identity: 17%
PDB header:transcription regulator
Chain: A: PDB Molecule:sugar-binding transcriptional regulator, laci family;
PDBTitle: crystal structure of sugar-binding transcriptional regulator (laci2 family) from escherichia coli complexed with phosphate

Phyre2

PDB 3e3m chain A

3D model

Region: 7 - 277
Aligned: 259
Modelled: 267
Confidence: 100.0%
Identity: 19%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a laci family transcriptional2 regulator from silicibacter pomeroyi

Phyre2

PDB 3k9c chain A

3D model

Region: 6 - 282
Aligned: 264
Modelled: 276
Confidence: 100.0%
Identity: 16%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family protein;
PDBTitle: crystal structure of laci transcriptional regulator from rhodococcus2 species.

Phyre2

PDB 3gv0 chain A

3D model

Region: 4 - 269
Aligned: 258
Modelled: 266
Confidence: 100.0%
Identity: 17%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of laci family transcription regulator from2 agrobacterium tumefaciens

Phyre2

PDB 3d8u chain A

3D model

Region: 6 - 278
Aligned: 257
Modelled: 264
Confidence: 100.0%
Identity: 15%
PDB header:transcription regulator
Chain: A: PDB Molecule:purr transcriptional regulator;
PDBTitle: the crystal structure of a purr family transcriptional regulator from2 vibrio parahaemolyticus rimd 2210633

Phyre2

PDB 3hcw chain B

3D model

Region: 4 - 279
Aligned: 267
Modelled: 275
Confidence: 100.0%
Identity: 18%
PDB header:rna binding protein
Chain: B: PDB Molecule:maltose operon transcriptional repressor;
PDBTitle: crystal structure of probable maltose operon transcriptional repressor2 malr from staphylococcus areus

Phyre2

PDB 3miz chain B

3D model

Region: 5 - 278
Aligned: 268
Modelled: 267
Confidence: 100.0%
Identity: 18%
PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator protein, laci
PDBTitle: crystal structure of a putative transcriptional regulator2 protein, lacl family from rhizobium etli

Phyre2

PDB 3kke chain A

3D model

Region: 7 - 277
Aligned: 262
Modelled: 269
Confidence: 100.0%
Identity: 19%
PDB header:transcription regulator
Chain: A: PDB Molecule:laci family transcriptional regulator;
PDBTitle: crystal structure of a laci family transcriptional regulator2 from mycobacterium smegmatis

Phyre2

PDB 3brq chain A

3D model

Region: 5 - 277
Aligned: 261
Modelled: 273
Confidence: 100.0%
Identity: 16%
PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator ascg;
PDBTitle: crystal structure of the escherichia coli transcriptional repressor2 ascg

Phyre2

PDB 3cs3 chain A

3D model

Region: 4 - 278
Aligned: 259
Modelled: 273
Confidence: 100.0%
Identity: 15%
PDB header:transcription regulator
Chain: A: PDB Molecule:sugar-binding transcriptional regulator, laci family;
PDBTitle: crystal structure of sugar-binding transcriptional regulator (laci2 family) from enterococcus faecalis

Phyre2

PDB 2rgy chain A

3D model

Region: 8 - 279
Aligned: 262
Modelled: 270
Confidence: 100.0%
Identity: 19%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of transcriptional regulator of laci family from2 burkhoderia phymatum

Phyre2

PDB 3clk chain B

3D model

Region: 10 - 280
Aligned: 260
Modelled: 266
Confidence: 100.0%
Identity: 18%
PDB header:transcription regulator
Chain: B: PDB Molecule:transcription regulator;
PDBTitle: crystal structure of a transcription regulator from lactobacillus2 plantarum

Phyre2

PDB 3bbl chain A

3D model

Region: 5 - 280
Aligned: 268
Modelled: 265
Confidence: 100.0%
Identity: 19%
PDB header:regulatory protein
Chain: A: PDB Molecule:regulatory protein of laci family;
PDBTitle: crystal structure of a regulatory protein of laci family from2 chloroflexus aggregans

Phyre2

PDB 3g85 chain A

3D model

Region: 5 - 275
Aligned: 261
Modelled: 271
Confidence: 100.0%
Identity: 15%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (laci family);
PDBTitle: crystal structure of laci family transcription regulator from2 clostridium acetobutylicum

Phyre2

PDB 3gbg chain A

3D model

Region: 270 - 390
Aligned: 120
Modelled: 120
Confidence: 99.9%
Identity: 18%
PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395

Phyre2

PDB 1d5y chain D

3D model

Region: 283 - 392
Aligned: 110
Modelled: 110
Confidence: 99.9%
Identity: 26%
PDB header:transcription/dna
Chain: D: PDB Molecule:rob transcription factor;
PDBTitle: crystal structure of the e. coli rob transcription factor2 in complex with dna

Phyre2

PDB 3oio chain A

3D model

Region: 281 - 389
Aligned: 109
Modelled: 108
Confidence: 99.9%
Identity: 28%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (arac-type dna-binding domain-
PDBTitle: crystal structure of transcriptional regulator (arac-type dna-binding2 domain-containing proteins) from chromobacterium violaceum

Phyre2

PDB 3oou chain A

3D model

Region: 285 - 388
Aligned: 104
Modelled: 101
Confidence: 99.9%
Identity: 26%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua

Phyre2

PDB 2k9s chain A

3D model

Region: 284 - 388
Aligned: 105
Modelled: 105
Confidence: 99.9%
Identity: 27%
PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac

Phyre2

PDB 1bl0 chain A

3D model

Region: 283 - 389
Aligned: 107
Modelled: 107
Confidence: 99.9%
Identity: 21%
PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex

Phyre2
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c3h5oB_
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c3qk7C_
3

d2nzug1
4

c2iksA_
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c3k4hA_
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c3c3kA_
7

c3dbiA_
8

c3e3mA_
9

c3k9cA_
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c3gv0A_
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c3d8uA_
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c3hcwB_
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c3mizB_
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c3kkeA_
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c3brqA_
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c3cs3A_
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c2rgyA_
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c3clkB_
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c3bblA_
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c3g85A_
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c3gbgA_
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c1d5yD_
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c3oioA_
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c3oouA_
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c2k9sA_
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c1bl0A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3h5oB_



100.0 21 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator gntr;
PDBTitle: the crystal structure of transcription regulator gntr from2 chromobacterium violaceum
2c3qk7C_



100.0 19 PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulators;
PDBTitle: crystal structure of putative transcriptional regulator from yersinia2 pestis biovar microtus str. 91001
3d2nzug1



100.0 17 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
4c2iksA_



100.0 16 PDB header:transcription
Chain: A: PDB Molecule:dna-binding transcriptional dual regulator;
PDBTitle: crystal structure of n-terminal truncated dna-binding transcriptional2 dual regulator from escherichia coli k12
5c3k4hA_



100.0 19 PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator laci from2 bacillus cereus subsp. cytotoxis nvh 391-98
6c3c3kA_



100.0 19 PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of an uncharacterized protein from actinobacillus2 succinogenes
7c3dbiA_



100.0 17 PDB header:transcription regulator
Chain: A: PDB Molecule:sugar-binding transcriptional regulator, laci family;
PDBTitle: crystal structure of sugar-binding transcriptional regulator (laci2 family) from escherichia coli complexed with phosphate
8c3e3mA_



100.0 19 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a laci family transcriptional2 regulator from silicibacter pomeroyi
9c3k9cA_



100.0 16 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family protein;
PDBTitle: crystal structure of laci transcriptional regulator from rhodococcus2 species.
10c3gv0A_



100.0 17 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of laci family transcription regulator from2 agrobacterium tumefaciens
11c3d8uA_



100.0 15 PDB header:transcription regulator
Chain: A: PDB Molecule:purr transcriptional regulator;
PDBTitle: the crystal structure of a purr family transcriptional regulator from2 vibrio parahaemolyticus rimd 2210633
12c3hcwB_



100.0 18 PDB header:rna binding protein
Chain: B: PDB Molecule:maltose operon transcriptional repressor;
PDBTitle: crystal structure of probable maltose operon transcriptional repressor2 malr from staphylococcus areus
13c3mizB_



100.0 18 PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator protein, laci
PDBTitle: crystal structure of a putative transcriptional regulator2 protein, lacl family from rhizobium etli
14c3kkeA_



100.0 19 PDB header:transcription regulator
Chain: A: PDB Molecule:laci family transcriptional regulator;
PDBTitle: crystal structure of a laci family transcriptional regulator2 from mycobacterium smegmatis
15c3brqA_



100.0 16 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator ascg;
PDBTitle: crystal structure of the escherichia coli transcriptional repressor2 ascg
16c3cs3A_



100.0 15 PDB header:transcription regulator
Chain: A: PDB Molecule:sugar-binding transcriptional regulator, laci family;
PDBTitle: crystal structure of sugar-binding transcriptional regulator (laci2 family) from enterococcus faecalis
17c2rgyA_



100.0 19 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of transcriptional regulator of laci family from2 burkhoderia phymatum
18c3clkB_



100.0 18 PDB header:transcription regulator
Chain: B: PDB Molecule:transcription regulator;
PDBTitle: crystal structure of a transcription regulator from lactobacillus2 plantarum
19c3bblA_



100.0 19 PDB header:regulatory protein
Chain: A: PDB Molecule:regulatory protein of laci family;
PDBTitle: crystal structure of a regulatory protein of laci family from2 chloroflexus aggregans
20c3g85A_



100.0 15 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (laci family);
PDBTitle: crystal structure of laci family transcription regulator from2 clostridium acetobutylicum
21c3ctpB_



not modelled 100.0 19 PDB header:transcription regulator
Chain: B: PDB Molecule:periplasmic binding protein/laci transcriptional regulator;
PDBTitle: crystal structure of periplasmic binding protein/laci transcriptional2 regulator from alkaliphilus metalliredigens qymf complexed with d-3 xylulofuranose
22c3egcF_



not modelled 100.0 16 PDB header:structural genomics, unknown function
Chain: F: PDB Molecule:putative ribose operon repressor;
PDBTitle: crystal structure of a putative ribose operon repressor from2 burkholderia thailandensis
23d1tlfa_



not modelled 100.0 17 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
24c2o20H_



not modelled 100.0 18 PDB header:transcription
Chain: H: PDB Molecule:catabolite control protein a;
PDBTitle: crystal structure of transcription regulator ccpa of lactococcus2 lactis
25c1zvvA_



not modelled 100.0 18 PDB header:transcription/dna
Chain: A: PDB Molecule:glucose-resistance amylase regulator;
PDBTitle: crystal structure of a ccpa-crh-dna complex
26c2qu7B_



not modelled 100.0 14 PDB header:transcription
Chain: B: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of a putative transcription regulator2 from staphylococcus saprophyticus subsp. saprophyticus
27c2h0aA_



not modelled 100.0 23 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of probable transcription regulator from2 thermus thermophilus
28c2ioyB_



not modelled 100.0 15 PDB header:sugar binding protein
Chain: B: PDB Molecule:periplasmic sugar-binding protein;
PDBTitle: crystal structure of thermoanaerobacter tengcongensis2 ribose binding protein
29d1dbqa_



not modelled 100.0 19 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
30d1jyea_



not modelled 100.0 16 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
31c1jyeA_



not modelled 100.0 16 PDB header:transcription
Chain: A: PDB Molecule:lactose operon repressor;
PDBTitle: structure of a dimeric lac repressor with c-terminal deletion and k84l2 substitution
32d2dria_



not modelled 100.0 16 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
33c3jy6B_



not modelled 100.0 17 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of laci transcriptional regulator from lactobacillus2 brevis
34c3hs3A_



not modelled 100.0 20 PDB header:transcription regulator
Chain: A: PDB Molecule:ribose operon repressor;
PDBTitle: crystal structure of periplasmic binding ribose operon2 repressor protein from lactobacillus acidophilus
35c3huuC_



not modelled 100.0 21 PDB header:transcription regulator
Chain: C: PDB Molecule:transcription regulator like protein;
PDBTitle: crystal structure of transcription regulator like protein from2 staphylococcus haemolyticus
36c3jvdA_



not modelled 100.0 12 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulators;
PDBTitle: crystal structure of putative transcription regulation repressor (laci2 family) from corynebacterium glutamicum
37c3o74A_



not modelled 100.0 10 PDB header:transcription
Chain: A: PDB Molecule:fructose transport system repressor frur;
PDBTitle: crystal structure of cra transcriptional dual regulator from2 pseudomonas putida
38c3gybB_



not modelled 100.0 22 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulators (laci-family
PDBTitle: crystal structure of a laci-family transcriptional2 regulatory protein from corynebacterium glutamicum
39c2fn9A_



not modelled 100.0 17 PDB header:sugar binding protein
Chain: A: PDB Molecule:ribose abc transporter, periplasmic ribose-binding protein;
PDBTitle: thermotoga maritima ribose binding protein unliganded form
40c3bilA_



not modelled 100.0 15 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:probable laci-family transcriptional regulator;
PDBTitle: crystal structure of a probable laci family transcriptional2 regulator from corynebacterium glutamicum
41c3kjxD_



not modelled 100.0 13 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from silicibacter pomeroyi
42d1jx6a_



not modelled 100.0 12 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
43c3l6uA_



not modelled 100.0 12 PDB header:transport protein
Chain: A: PDB Molecule:abc-type sugar transport system periplasmic
PDBTitle: crystal structure of abc-type sugar transport system,2 periplasmic component from exiguobacterium sibiricum
44d1byka_



not modelled 100.0 16 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
45c3h5tA_



not modelled 100.0 18 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from corynebacterium glutamicum
46d1guda_



not modelled 100.0 13 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
47d8abpa_



not modelled 100.0 15 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
48c3e61A_



not modelled 100.0 17 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative transcriptional repressor of ribose operon;
PDBTitle: crystal structure of a putative transcriptional repressor of ribose2 operon from staphylococcus saprophyticus subsp. saprophyticus
49c3ksmA_



not modelled 100.0 17 PDB header:transport protein
Chain: A: PDB Molecule:abc-type sugar transport system, periplasmic component;
PDBTitle: crystal structure of abc-type sugar transport system, periplasmic2 component from hahella chejuensis
50c3brsA_



not modelled 100.0 14 PDB header:transport protein
Chain: A: PDB Molecule:periplasmic binding protein/laci transcriptional regulator;
PDBTitle: crystal structure of sugar transporter from clostridium2 phytofermentans
51c1bdhA_



not modelled 100.0 18 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (purine repressor);
PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
52c3ma0A_



not modelled 100.0 11 PDB header:sugar binding protein
Chain: A: PDB Molecule:d-xylose-binding periplasmic protein;
PDBTitle: closed liganded crystal structure of xylose binding protein from2 escherichia coli
53c3rotA_



not modelled 100.0 14 PDB header:transport protein
Chain: A: PDB Molecule:abc sugar transporter, periplasmic sugar binding protein;
PDBTitle: crystal structure of abc sugar transporter (periplasmic sugar binding2 protein) from legionella pneumophila
54c3h75A_



not modelled 100.0 14 PDB header:sugar binding protein
Chain: A: PDB Molecule:periplasmic sugar-binding domain protein;
PDBTitle: crystal structure of a periplasmic sugar-binding protein from the2 pseudomonas fluorescens
55c3g1wB_



not modelled 100.0 15 PDB header:transport protein
Chain: B: PDB Molecule:sugar abc transporter;
PDBTitle: crystal structure of sugar abc transporter (sugar-binding protein)2 from bacillus halodurans
56c3l49D_



not modelled 100.0 14 PDB header:transport protein
Chain: D: PDB Molecule:abc sugar (ribose) transporter, periplasmic
PDBTitle: crystal structure of abc sugar transporter subunit from2 rhodobacter sphaeroides 2.4.1
57c2vk2A_



not modelled 100.0 9 PDB header:transport protein
Chain: A: PDB Molecule:abc transporter periplasmic-binding protein ytfq;
PDBTitle: crystal structure of a galactofuranose binding protein
58c2rjoA_



not modelled 100.0 15 PDB header:signaling protein
Chain: A: PDB Molecule:twin-arginine translocation pathway signal protein;
PDBTitle: crystal structure of twin-arginine translocation pathway signal2 protein from burkholderia phytofirmans
59c3gbvB_



not modelled 100.0 19 PDB header:transcription regulator
Chain: B: PDB Molecule:putative laci-family transcriptional regulator;
PDBTitle: crystal structure of a putative laci transcriptional regulator from2 bacteroides fragilis
60c3d02A_



not modelled 100.0 11 PDB header:sugar binding protein
Chain: A: PDB Molecule:putative laci-type transcriptional regulator;
PDBTitle: crystal structure of periplasmic sugar-binding protein2 (yp_001338366.1) from klebsiella pneumoniae subsp. pneumoniae mgh3 78578 at 1.30 a resolution
61d1gcaa_



not modelled 100.0 15 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
62c2x7xA_



not modelled 100.0 16 PDB header:transferase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: fructose binding periplasmic domain of hybrid two component2 system bt1754
63c2qvcC_



not modelled 100.0 16 PDB header:transport protein
Chain: C: PDB Molecule:sugar abc transporter, periplasmic sugar-binding
PDBTitle: crystal structure of a periplasmic sugar abc transporter2 from thermotoga maritima
64d2fvya1



not modelled 99.9 15 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
65c3gbgA_



99.9 18 PDB header:transcription regulator
Chain: A: PDB Molecule:tcp pilus virulence regulatory protein;
PDBTitle: crystal structure of toxt from vibrio cholerae o395
66c3o1hB_



not modelled 99.9 10 PDB header:signaling protein
Chain: B: PDB Molecule:periplasmic protein tort;
PDBTitle: crystal structure of the tors sensor domain - tort complex in the2 presence of tmao
67d1tjya_



not modelled 99.9 12 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
68c1d5yD_



99.9 26 PDB header:transcription/dna
Chain: D: PDB Molecule:rob transcription factor;
PDBTitle: crystal structure of the e. coli rob transcription factor2 in complex with dna
69c3oioA_



99.9 28 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (arac-type dna-binding domain-
PDBTitle: crystal structure of transcriptional regulator (arac-type dna-binding2 domain-containing proteins) from chromobacterium violaceum
70c3oouA_



99.9 26 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2118 protein;
PDBTitle: the structure of a protein with unkown function from listeria innocua
71c2k9sA_



99.9 27 PDB header:transcription
Chain: A: PDB Molecule:arabinose operon regulatory protein;
PDBTitle: solution structure of dna binding domain of e. coli arac
72c1bl0A_



99.9 21 PDB header:transcription/dna
Chain: A: PDB Molecule:protein (multiple antibiotic resistance protein);
PDBTitle: multiple antibiotic resistance protein (mara)/dna complex
73c3mn2B_



not modelled 99.9 23 PDB header:transcription regulator
Chain: B: PDB Molecule:probable arac family transcriptional regulator;
PDBTitle: the crystal structure of a probable arac family transcriptional2 regulator from rhodopseudomonas palustris cga009
74c3mklB_



not modelled 99.9 24 PDB header:transcription regulator
Chain: B: PDB Molecule:hth-type transcriptional regulator gadx;
PDBTitle: crystal structure of dna-binding transcriptional dual regulator from2 escherichia coli k-12
75c3lftA_



not modelled 99.9 14 PDB header:structure genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: the crystal structure of the abc domain in complex with l-trp from2 streptococcus pneumonia to 1.35a
76c2qh8A_



not modelled 99.8 15 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of conserved domain protein from vibrio2 cholerae o1 biovar eltor str. n16961
77c2fqxA_



not modelled 99.8 14 PDB header:transport protein
Chain: A: PDB Molecule:membrane lipoprotein tmpc;
PDBTitle: pnra from treponema pallidum complexed with guanosine
78c3lsgD_



not modelled 99.8 25 PDB header:transcription regulator
Chain: D: PDB Molecule:two-component response regulator yesn;
PDBTitle: the crystal structure of the c-terminal domain of the two-2 component response regulator yesn from fusobacterium3 nucleatum subsp. nucleatum atcc 25586
79c2hqbA_



not modelled 99.8 11 PDB header:transcription
Chain: A: PDB Molecule:transcriptional activator of comk gene;
PDBTitle: crystal structure of a transcriptional activator of comk2 gene from bacillus halodurans
80c3s99A_



not modelled 99.3 12 PDB header:lipid binding protein
Chain: A: PDB Molecule:basic membrane lipoprotein;
PDBTitle: crystal structure of a basic membrane lipoprotein from brucella2 melitensis, iodide soak
81d1bl0a2



not modelled 99.3 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
82d1d5ya2



not modelled 99.3 31 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
83d1bl0a1



not modelled 99.0 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
84d1d5ya1



not modelled 99.0 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
85c1zgwA_



not modelled 98.9 18 PDB header:transcription regulator/dna
Chain: A: PDB Molecule:ada polyprotein;
PDBTitle: nmr structure of e. coli ada protein in complex with dna
86c3snrA_



not modelled 98.7 9 PDB header:transport protein
Chain: A: PDB Molecule:extracellular ligand-binding receptor;
PDBTitle: rpd_1889 protein, an extracellular ligand-binding receptor from2 rhodopseudomonas palustris.
87c3i09A_



not modelled 98.6 11 PDB header:transport protein
Chain: A: PDB Molecule:periplasmic branched-chain amino acid-binding protein;
PDBTitle: crystal structure of a periplasmic binding protein (bma2936) from2 burkholderia mallei at 1.80 a resolution
88c3sg0A_



not modelled 98.6 8 PDB header:signaling protein
Chain: A: PDB Molecule:extracellular ligand-binding receptor;
PDBTitle: the crystal structure of an extracellular ligand-binding receptor from2 rhodopseudomonas palustris haa2
89c3lopA_



not modelled 98.5 14 PDB header:substrate binding protein
Chain: A: PDB Molecule:substrate binding periplasmic protein;
PDBTitle: crystal structure of substrate-binding periplasmic protein2 (pbp) from ralstonia solanacearum
90c3t0nA_



not modelled 98.5 12 PDB header:signaling protein
Chain: A: PDB Molecule:twin-arginine translocation pathway signal;
PDBTitle: crystal structure of twin-arginine translocation pathway signal from2 rhodopseudomonas palustris bisb5
91d1qo0a_



not modelled 98.5 14 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
92d3ckma1



not modelled 98.5 11 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
93c3hutA_



not modelled 98.5 18 PDB header:transport protein
Chain: A: PDB Molecule:putative branched-chain amino acid abc
PDBTitle: crystal structure of a putative branched-chain amino acid2 abc transporter from rhodospirillum rubrum
94c3ip5A_



not modelled 98.5 11 PDB header:transport protein
Chain: A: PDB Molecule:abc transporter, substrate binding protein (amino acid);
PDBTitle: structure of atu2422-gaba receptor in complex with alanine
95c3qi7A_



not modelled 98.3 15 PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of a putative transcriptional regulator2 (yp_001089212.1) from clostridium difficile 630 at 1.86 a resolution
96c3n0wA_



not modelled 98.3 10 PDB header:transport protein
Chain: A: PDB Molecule:abc branched chain amino acid family transporter,
PDBTitle: crystal structure of a branched chain amino acid abc transporter2 periplasmic ligand-binding protein (bxe_c0949) from burkholderia3 xenovorans lb400 at 1.88 a resolution
97c3h5lB_



not modelled 98.2 13 PDB header:transport protein
Chain: B: PDB Molecule:putative branched-chain amino acid abc
PDBTitle: crystal structure of a putative branched-chain amino acid2 abc transporter from silicibacter pomeroyi
98d2liva_



not modelled 98.1 13 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
99c3i45A_



not modelled 98.1 10 PDB header:signaling protein
Chain: A: PDB Molecule:twin-arginine translocation pathway signal protein;
PDBTitle: crystal structure of putative twin-arginine translocation pathway2 signal protein from rhodospirillum rubrum atcc 11170
100d1jdpa_



not modelled 98.0 12 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
101c1jdpA_



not modelled 98.0 12 PDB header:signaling protein
Chain: A: PDB Molecule:atrial natriuretic peptide clearance receptor;
PDBTitle: crystal structure of hormone/receptor complex
102c3eafA_



not modelled 97.9 8 PDB header:transport protein
Chain: A: PDB Molecule:abc transporter, substrate binding protein;
PDBTitle: crystal structure of abc transporter, substrate binding protein2 aeropyrum pernix
103d1usga_



not modelled 97.9 11 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
104c1yk1B_



not modelled 97.8 12 PDB header:hormone/growth factor receptor
Chain: B: PDB Molecule:atrial natriuretic peptide clearance receptor;
PDBTitle: structure of natriuretic peptide receptor-c complexed with brain2 natriuretic peptide
105c3lkbB_



not modelled 97.8 11 PDB header:transport protein
Chain: B: PDB Molecule:probable branched-chain amino acid abc
PDBTitle: crystal structure of a branched chain amino acid abc2 transporter from thermus thermophilus with bound valine
106c3n0xA_



not modelled 97.5 18 PDB header:transport protein
Chain: A: PDB Molecule:possible substrate binding protein of abc transporter
PDBTitle: crystal structure of an abc-type branched-chain amino acid transporter2 (rpa4397) from rhodopseudomonas palustris cga009 at 1.50 a resolution
107c3td9A_



not modelled 97.4 12 PDB header:transport protein
Chain: A: PDB Molecule:branched chain amino acid abc transporter, periplasmic
PDBTitle: crystal structure of a leucine binding protein livk (tm1135) from2 thermotoga maritima msb8 at 1.90 a resolution
108c3om1A_



not modelled 97.2 11 PDB header:membrane protein
Chain: A: PDB Molecule:glutamate receptor gluk5 (ka2);
PDBTitle: crystal structure of the gluk5 (ka2) atd dimer at 1.7 angstrom2 resolution
109c3q41B_



not modelled 97.1 11 PDB header:transport protein
Chain: B: PDB Molecule:glutamate [nmda] receptor subunit zeta-1;
PDBTitle: crystal structure of the glun1 n-terminal domain (ntd)
110c3kg2A_



not modelled 96.9 12 PDB header:membrane protein, transport protein
Chain: A: PDB Molecule:glutamate receptor 2;
PDBTitle: ampa subtype ionotropic glutamate receptor in complex with competitive2 antagonist zk 200775
111c3sajB_



not modelled 96.7 11 PDB header:transport protein
Chain: B: PDB Molecule:glutamate receptor 1;
PDBTitle: crystal structure of glutamate receptor glua1 amino terminal domain
112c2wjxA_



not modelled 96.2 12 PDB header:transport protein
Chain: A: PDB Molecule:glutamate receptor 2;
PDBTitle: crystal structure of the human ionotropic glutamate2 receptor glur2 atd region at 4.1 a resolution
113c1zxxA_



not modelled 96.1 17 PDB header:transferase
Chain: A: PDB Molecule:6-phosphofructokinase;
PDBTitle: the crystal structure of phosphofructokinase from lactobacillus2 delbrueckii
114d1ewka_



not modelled 96.0 14 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
115c3khtA_



not modelled 95.9 15 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator from hahella chejuensis
116d1dp4a_



not modelled 95.8 10 Fold:Periplasmic binding protein-like I
Superfamily:Periplasmic binding protein-like I
Family:L-arabinose binding protein-like
117c2e4wA_



not modelled 95.7 11 PDB header:signaling protein
Chain: A: PDB Molecule:metabotropic glutamate receptor 3;
PDBTitle: crystal structure of the extracellular region of the group ii2 metabotropic glutamate receptor complexed with 1s,3s-acpd
118c3h6hB_



not modelled 95.6 7 PDB header:membrane protein
Chain: B: PDB Molecule:glutamate receptor, ionotropic kainate 2;
PDBTitle: crystal structure of the glur6 amino terminal domain dimer assembly2 mpd form
119d4pfka_



not modelled 95.6 18 Fold:Phosphofructokinase
Superfamily:Phosphofructokinase
Family:Phosphofructokinase
120d1pfka_



not modelled 95.1 15 Fold:Phosphofructokinase
Superfamily:Phosphofructokinase
Family:Phosphofructokinase

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite



Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
Disclaimer
Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0