Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP10100
DateThu Jan 5 11:32:01 GMT 2012
Unique Job ID146d326858d897b4

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1x60A_
Top template information
PDB header:hydrolase
Chain: A: PDB Molecule:sporulation-specific n-acetylmuramoyl-l-alanine
PDBTitle: solution structure of the peptidoglycan binding domain of2 b. subtilis cell wall lytic enzyme cwlc
Confidence and coverage
Confidence: 99.6% Coverage: 21%
76 residues ( 21% of your sequence) have been modelled with 99.6% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
169 residues ( 47%) 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.
Warning: 54% of your sequence is predicted disordered. Disordered regions cannot be meaningfully predicted.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MRKQWLGICIAAGMLAACTSDDGQQQTVSVPQPAVCNGPIVEISGADPRFEPLNATANQD
Secondary structure 
SS confidence 
Disorder  ????
???????????????????????????????????????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  YQRDGKSYKIVQDPSRFSQAGLAAIYDAEPGSNLTASGEAFDPTQLTAAHPTLPIPSYAR
Secondary structure 
SS confidence 
Disorder 
?
?
?
??
???
??
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  ITNLANGRMIVVRINDRGPYGNDRVISLSRAAADRLNTSNNTKVRIDPIIVAQDGSLSGP
Secondary structure 
SS confidence 
Disorder 
??????????
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  GMACTTVAKQTYALPAPPDLSGGAGTSSVSGPQGDILPVSNSTLKSEDPTGAPVTSSGFL
Secondary structure 
SS confidence 
Disorder  ????????????????????????????????????????????????????????????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  GAPTTLAPGVLEGSEPTPAPQPVVTAPSTTPATSPAMVTPQAVSQSASGNFMVQVGAVSD
Secondary structure 
SS confidence 
Disorder  ?????????????????????????????????????????????????
???
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  QARAQQYQQQLGQKFGVPGRVTQNGAVWRIQLGPFASKAEASTLQQRLQTEAQLQSFITT
Secondary structure 
SS confidence 
Disorder 
???????
?
????
?
Disorder confidence 
 
   ..
Sequence  AQ
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 1x60 chain A

3D model

Region: 284 - 361
Aligned: 76
Modelled: 78
Confidence: 99.6%
Identity: 26%
PDB header:hydrolase
Chain: A: PDB Molecule:sporulation-specific n-acetylmuramoyl-l-alanine
PDBTitle: solution structure of the peptidoglycan binding domain of2 b. subtilis cell wall lytic enzyme cwlc

Phyre2

PDB 1uta chain A

3D model

Region: 287 - 361
Aligned: 74
Modelled: 75
Confidence: 99.5%
Identity: 24%
Fold: Ferredoxin-like
Superfamily: Sporulation related repeat
Family: Sporulation related repeat

Phyre2

PDB 3d30 chain A

3D model

Region: 80 - 172
Aligned: 91
Modelled: 91
Confidence: 98.8%
Identity: 19%
PDB header:peptidoglycan-binding protein
Chain: A: PDB Molecule:expansin like protein;
PDBTitle: structure of an expansin like protein from bacillus subtilis at 1.9a2 resolution

Phyre2

PDB 1n10 chain A domain 2

3D model

Region: 79 - 172
Aligned: 92
Modelled: 94
Confidence: 97.7%
Identity: 15%
Fold: Double psi beta-barrel
Superfamily: Barwin-like endoglucanases
Family: Pollen allergen PHL P 1 N-terminal domain

Phyre2

PDB 1n10 chain A

3D model

Region: 80 - 172
Aligned: 91
Modelled: 93
Confidence: 97.2%
Identity: 15%
PDB header:allergen
Chain: A: PDB Molecule:pollen allergen phl p 1;
PDBTitle: crystal structure of phl p 1, a major timothy grass pollen allergen

Phyre2

PDB 2hcz chain X

3D model

Region: 80 - 172
Aligned: 92
Modelled: 93
Confidence: 96.2%
Identity: 15%
PDB header:allergen
Chain: X: PDB Molecule:beta-expansin 1a;
PDBTitle: crystal structure of expb1 (zea m 1), a beta-expansin and group-12 pollen allergen from maize

Phyre2

PDB 1bw3 chain A

3D model

Region: 116 - 172
Aligned: 54
Modelled: 57
Confidence: 86.3%
Identity: 22%
Fold: Double psi beta-barrel
Superfamily: Barwin-like endoglucanases
Family: Barwin

Phyre2

PDB 1wc2 chain A domain 1

3D model

Region: 116 - 172
Aligned: 56
Modelled: 57
Confidence: 85.9%
Identity: 11%
Fold: Double psi beta-barrel
Superfamily: Barwin-like endoglucanases
Family: Eng V-like

Phyre2

PDB 1grj chain A domain 2

3D model

Region: 115 - 166
Aligned: 52
Modelled: 52
Confidence: 74.5%
Identity: 17%
Fold: FKBP-like
Superfamily: FKBP-like
Family: GreA transcript cleavage factor, C-terminal domain

Phyre2

PDB 3bmb chain B

3D model

Region: 112 - 168
Aligned: 57
Modelled: 57
Confidence: 73.0%
Identity: 14%
PDB header:rna binding protein
Chain: B: PDB Molecule:regulator of nucleoside diphosphate kinase;
PDBTitle: crystal structure of a new rna polymerase interacting2 protein

Phyre2

PDB 1w2z chain A domain 3

3D model

Region: 85 - 139
Aligned: 51
Modelled: 54
Confidence: 70.7%
Identity: 20%
Fold: Cystatin-like
Superfamily: Amine oxidase N-terminal region
Family: Amine oxidase N-terminal region

Phyre2

PDB 1grj chain A

3D model

Region: 112 - 166
Aligned: 55
Modelled: 55
Confidence: 60.1%
Identity: 16%
PDB header:transcription regulation
Chain: A: PDB Molecule:grea protein;
PDBTitle: grea transcript cleavage factor from escherichia coli

Phyre2

PDB 1vqo chain Q domain 1

3D model

Region: 98 - 138
Aligned: 40
Modelled: 41
Confidence: 45.0%
Identity: 20%
Fold: SH3-like barrel
Superfamily: Translation proteins SH3-like domain
Family: Ribosomal proteins L24p and L21e

Phyre2

PDB 2f23 chain A domain 2

3D model

Region: 112 - 168
Aligned: 57
Modelled: 57
Confidence: 38.9%
Identity: 11%
Fold: FKBP-like
Superfamily: FKBP-like
Family: GreA transcript cleavage factor, C-terminal domain

Phyre2

PDB 3fuy chain C

3D model

Region: 116 - 148
Aligned: 33
Modelled: 33
Confidence: 37.8%
Identity: 33%
PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:putative integron gene cassette protein;
PDBTitle: structure from the mobile metagenome of cole harbour salt2 marsh: integron cassette protein hfx_cass1

Phyre2

PDB 2c0r chain A domain 1

3D model

Region: 298 - 350
Aligned: 53
Modelled: 53
Confidence: 37.8%
Identity: 9%
Fold: PLP-dependent transferase-like
Superfamily: PLP-dependent transferases
Family: GABA-aminotransferase-like

Phyre2

PDB 2pn0 chain D

3D model

Region: 113 - 167
Aligned: 54
Modelled: 55
Confidence: 37.4%
Identity: 7%
PDB header:transcription
Chain: D: PDB Molecule:prokaryotic transcription elongation factor
PDBTitle: prokaryotic transcription elongation factor grea/greb from2 nitrosomonas europaea

Phyre2

PDB 3cai chain A

3D model

Region: 303 - 352
Aligned: 50
Modelled: 50
Confidence: 37.2%
Identity: 20%
PDB header:transferase
Chain: A: PDB Molecule:possible aminotransferase;
PDBTitle: crystal structure of mycobacterium tuberculosis rv3778c2 protein

Phyre2

PDB 1bs0 chain A

3D model

Region: 298 - 352
Aligned: 55
Modelled: 55
Confidence: 36.7%
Identity: 24%
Fold: PLP-dependent transferase-like
Superfamily: PLP-dependent transferases
Family: GABA-aminotransferase-like

Phyre2

PDB 1w6g chain A domain 3

3D model

Region: 85 - 140
Aligned: 54
Modelled: 56
Confidence: 35.1%
Identity: 15%
Fold: Cystatin-like
Superfamily: Amine oxidase N-terminal region
Family: Amine oxidase N-terminal region

Phyre2
1
c1x60A_
2
d1utaa_
3
c3d30A_
4
d1n10a2
5
c1n10A_
6
c2hczX_
7
d1bw3a_
8
d1wc2a1
9
d1grja2
10
c3bmbB_
11
d1w2za3
12
c1grjA_
13
d1vqoq1
14
d2f23a2
15
c3fuyC_
16
d2c0ra1
17
c2pn0D_
18
c3caiA_
19
d1bs0a_
20
d1w6ga3
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1x60A_
99.6 26 PDB header:hydrolase
Chain: A: PDB Molecule:sporulation-specific n-acetylmuramoyl-l-alanine
PDBTitle: solution structure of the peptidoglycan binding domain of2 b. subtilis cell wall lytic enzyme cwlc
2d1utaa_
99.5 24 Fold:Ferredoxin-like
Superfamily:Sporulation related repeat
Family:Sporulation related repeat
3c3d30A_
98.8 19 PDB header:peptidoglycan-binding protein
Chain: A: PDB Molecule:expansin like protein;
PDBTitle: structure of an expansin like protein from bacillus subtilis at 1.9a2 resolution
4d1n10a2
97.7 15 Fold:Double psi beta-barrel
Superfamily:Barwin-like endoglucanases
Family:Pollen allergen PHL P 1 N-terminal domain
5c1n10A_
97.2 15 PDB header:allergen
Chain: A: PDB Molecule:pollen allergen phl p 1;
PDBTitle: crystal structure of phl p 1, a major timothy grass pollen allergen
6c2hczX_
96.2 15 PDB header:allergen
Chain: X: PDB Molecule:beta-expansin 1a;
PDBTitle: crystal structure of expb1 (zea m 1), a beta-expansin and group-12 pollen allergen from maize
7d1bw3a_
86.3 22 Fold:Double psi beta-barrel
Superfamily:Barwin-like endoglucanases
Family:Barwin
8d1wc2a1
85.9 11 Fold:Double psi beta-barrel
Superfamily:Barwin-like endoglucanases
Family:Eng V-like
9d1grja2
74.5 17 Fold:FKBP-like
Superfamily:FKBP-like
Family:GreA transcript cleavage factor, C-terminal domain
10c3bmbB_
73.0 14 PDB header:rna binding protein
Chain: B: PDB Molecule:regulator of nucleoside diphosphate kinase;
PDBTitle: crystal structure of a new rna polymerase interacting2 protein
11d1w2za3
70.7 20 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
12c1grjA_
60.1 16 PDB header:transcription regulation
Chain: A: PDB Molecule:grea protein;
PDBTitle: grea transcript cleavage factor from escherichia coli
13d1vqoq1
45.0 20 Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:Ribosomal proteins L24p and L21e
14d2f23a2
38.9 11 Fold:FKBP-like
Superfamily:FKBP-like
Family:GreA transcript cleavage factor, C-terminal domain
15c3fuyC_
37.8 33 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:putative integron gene cassette protein;
PDBTitle: structure from the mobile metagenome of cole harbour salt2 marsh: integron cassette protein hfx_cass1
16d2c0ra1
37.8 9 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:GABA-aminotransferase-like
17c2pn0D_
37.4 7 PDB header:transcription
Chain: D: PDB Molecule:prokaryotic transcription elongation factor
PDBTitle: prokaryotic transcription elongation factor grea/greb from2 nitrosomonas europaea
18c3caiA_
37.2 20 PDB header:transferase
Chain: A: PDB Molecule:possible aminotransferase;
PDBTitle: crystal structure of mycobacterium tuberculosis rv3778c2 protein
19d1bs0a_
36.7 24 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:GABA-aminotransferase-like
20d1w6ga3
35.1 15 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
21d1m32a_
not modelled 33.8 14 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
22c2p4vA_
not modelled 32.3 18 PDB header:transcription
Chain: A: PDB Molecule:transcription elongation factor greb;
PDBTitle: crystal structure of the transcript cleavage factor, greb2 at 2.6a resolution
23d2etna2
not modelled 31.2 13 Fold:FKBP-like
Superfamily:FKBP-like
Family:GreA transcript cleavage factor, C-terminal domain
24c3efyB_
not modelled 26.4 25 PDB header:cell cycle
Chain: B: PDB Molecule:cif (cell cycle inhibiting factor);
PDBTitle: structure of the cyclomodulin cif from pathogenic2 escherichia coli
25c2yrrA_
not modelled 24.7 19 PDB header:transferase
Chain: A: PDB Molecule:aminotransferase, class v;
PDBTitle: hypothetical alanine aminotransferase (tth0173) from thermus2 thermophilus hb8
26d1v72a1
not modelled 24.6 9 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:AAT-like
27c3gqjA_
not modelled 22.4 25 PDB header:unknown function
Chain: A: PDB Molecule:cell inhibiting factor (cif);
PDBTitle: crystal structure of cell inhibiting factor (cif) from photorhabdus2 luminescens
28c3m3gA_
not modelled 22.3 20 PDB header:polysaccharide-binding protein
Chain: A: PDB Molecule:epl1 protein;
PDBTitle: crystal structure of sm1, an elicitor of plant defence responses from2 trichoderma virens.
29c2etnA_
not modelled 22.2 13 PDB header:transcription
Chain: A: PDB Molecule:anti-cleavage anti-grea transcription factor
PDBTitle: crystal structure of thermus aquaticus gfh1
30c3eitB_
not modelled 21.9 32 PDB header:unknown function
Chain: B: PDB Molecule:putative atp/gtp binding protein;
PDBTitle: the 2.6 angstrom crystal structure of chbp, the cif homologue from2 burkholderia pseudomallei
31d1qz9a_
not modelled 21.7 17 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
32c2fyfB_
not modelled 20.9 15 PDB header:transferase
Chain: B: PDB Molecule:phosphoserine aminotransferase;
PDBTitle: structure of a putative phosphoserine aminotransferase from2 mycobacterium tuberculosis
33d1m6sa_
not modelled 20.7 11 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:AAT-like
34d2jioa1
not modelled 20.6 11 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
35d1t3ia_
not modelled 20.6 20 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
36d2f8ja1
not modelled 20.0 18 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:AAT-like
37d1g8ka1
not modelled 19.8 11 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
38c2huuA_
not modelled 19.5 24 PDB header:transferase
Chain: A: PDB Molecule:alanine glyoxylate aminotransferase;
PDBTitle: crystal structure of aedes aegypti alanine glyoxylate2 aminotransferase in complex with alanine
39d1ogya1
not modelled 18.9 15 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
40c3iz6Y_
not modelled 18.2 23 PDB header:ribosome
Chain: Y: PDB Molecule:40s ribosomal protein s28 (s28e);
PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
41d1vq3a_
not modelled 18.0 15 Fold:PurS-like
Superfamily:PurS-like
Family:PurS subunit of FGAM synthetase
42c3hqtB_
not modelled 17.7 9 PDB header:transferase
Chain: B: PDB Molecule:cai-1 autoinducer synthase;
PDBTitle: plp-dependent acyl-coa transferase cqsa
43c3f9tB_
not modelled 16.8 13 PDB header:lyase
Chain: B: PDB Molecule:l-tyrosine decarboxylase mfna;
PDBTitle: crystal structure of l-tyrosine decarboxylase mfna (ec 4.1.1.25)2 (np_247014.1) from methanococcus jannaschii at 2.11 a resolution
44d1j5ya2
not modelled 16.6 11 Fold:HPr-like
Superfamily:Putative transcriptional regulator TM1602, C-terminal domain
Family:Putative transcriptional regulator TM1602, C-terminal domain
45c2yx5A_
not modelled 16.1 9 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0062 protein mj1593;
PDBTitle: crystal structure of methanocaldococcus jannaschii purs, one of the2 subunits of formylglycinamide ribonucleotide amidotransferase in the3 purine biosynthetic pathway
46c2zw2B_
not modelled 15.3 18 PDB header:ligase
Chain: B: PDB Molecule:putative uncharacterized protein sts178;
PDBTitle: crystal structure of formylglycinamide ribonucleotide amidotransferase2 iii from sulfolobus tokodaii (stpurs)
47c3hyjD_
not modelled 15.1 4 PDB header:transcription regulator
Chain: D: PDB Molecule:protein duf199/whia;
PDBTitle: crystal structure of the n-terminal laglidadg domain of duf199/whia
48c3eh7A_
not modelled 14.8 22 PDB header:transferase
Chain: A: PDB Molecule:4-hydroxybutyrate coa-transferase;
PDBTitle: the structure of a putative 4-hydroxybutyrate coa-transferase from2 porphyromonas gingivalis w83
49d1bjna_
not modelled 13.5 8 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:GABA-aminotransferase-like
50d1iuga_
not modelled 13.0 16 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
51d1eg5a_
not modelled 12.5 12 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
52c2eefA_
not modelled 12.2 24 PDB header:sugar binding protein
Chain: A: PDB Molecule:protein phosphatase 1, regulatory (inhibitor)
PDBTitle: solution structure of the cbm_21 domain from human protein2 phosphatase 1, regulatory (inhibitor) subunit 3b
53d1elua_
not modelled 12.1 17 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
54c3seeA_
not modelled 11.9 13 PDB header:sugar binding protein
Chain: A: PDB Molecule:hypothetical sugar binding protein;
PDBTitle: crystal structure of a hypothetical sugar binding protein (bt_4411)2 from bacteroides thetaiotaomicron vpi-5482 at 1.25 a resolution
55d1oj4a2
not modelled 11.4 14 Fold:Ferredoxin-like
Superfamily:GHMP Kinase, C-terminal domain
Family:4-(cytidine 5'-diphospho)-2C-methyl-D-erythritol kinase IspE
56c3f0hA_
not modelled 11.4 12 PDB header:transferase
Chain: A: PDB Molecule:aminotransferase;
PDBTitle: crystal structure of aminotransferase (rer070207000802) from2 eubacterium rectale at 1.70 a resolution
57d1h0ca_
not modelled 11.3 20 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
58c3qm2A_
not modelled 11.2 5 PDB header:transferase
Chain: A: PDB Molecule:phosphoserine aminotransferase;
PDBTitle: 2.25 angstrom crystal structure of phosphoserine aminotransferase2 (serc) from salmonella enterica subsp. enterica serovar typhimurium
59c2yujA_
not modelled 11.2 14 PDB header:protein binding
Chain: A: PDB Molecule:ubiquitin fusion degradation 1-like;
PDBTitle: solution structure of human ubiquitin fusion degradation2 protein 1 homolog ufd1
60c3mazA_
not modelled 11.0 33 PDB header:signaling protein
Chain: A: PDB Molecule:signal-transducing adaptor protein 1;
PDBTitle: crystal structure of the human brdg1/stap-1 sh2 domain in complex with2 the ntal ptyr136 peptide
61d1uh6a_
not modelled 11.0 60 Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
62d1uasa1
not modelled 10.9 23 Fold:Glycosyl hydrolase domain
Superfamily:Glycosyl hydrolase domain
Family:alpha-Amylases, C-terminal beta-sheet domain
63c3p04B_
not modelled 10.8 12 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized bcr;
PDBTitle: crystal structure of the bcr protein from corynebacterium glutamicum.2 northeast structural genomics consortium target cgr8
64d1y0ya2
not modelled 10.4 16 Fold:Phosphorylase/hydrolase-like
Superfamily:Zn-dependent exopeptidases
Family:Bacterial dinuclear zinc exopeptidases
65c2l9vA_
not modelled 10.3 22 PDB header:rna binding protein
Chain: A: PDB Molecule:pre-mrna-processing factor 40 homolog a;
PDBTitle: nmr structure of the ff domain l24a mutant's folding transition state
66d1sddb2
not modelled 10.0 18 Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
67c3iz5U_
not modelled 9.9 33 PDB header:ribosome
Chain: U: PDB Molecule:60s ribosomal protein l21 (l21e);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
68d1vpra1
not modelled 9.9 50 Fold:Lipocalins
Superfamily:Lipocalins
Family:Dinoflagellate luciferase repeat
69c2hzpA_
not modelled 9.8 17 PDB header:hydrolase
Chain: A: PDB Molecule:kynureninase;
PDBTitle: crystal structure of homo sapiens kynureninase
70d2gova1
not modelled 9.6 20 Fold:Probable bacterial effector-binding domain
Superfamily:Probable bacterial effector-binding domain
Family:SOUL heme-binding protein
71c3p04A_
not modelled 9.6 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized bcr;
PDBTitle: crystal structure of the bcr protein from corynebacterium glutamicum.2 northeast structural genomics consortium target cgr8
72c3bpqD_
not modelled 9.4 23 PDB header:toxin
Chain: D: PDB Molecule:toxin rele3;
PDBTitle: crystal structure of relb-rele antitoxin-toxin complex from2 methanococcus jannaschii
73c3e77A_
not modelled 9.4 10 PDB header:transferase
Chain: A: PDB Molecule:phosphoserine aminotransferase;
PDBTitle: human phosphoserine aminotransferase in complex with plp
74c2ivwA_
not modelled 9.4 24 PDB header:lipoprotein
Chain: A: PDB Molecule:pilp pilot protein;
PDBTitle: the solution structure of a domain from the neisseria2 meningitidis pilp pilot protein.
75d1vjoa_
not modelled 9.3 20 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
76d2iv2x1
not modelled 8.9 14 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
77d2exda1
not modelled 8.8 12 Fold:OB-fold
Superfamily:NfeD domain-like
Family:NfeD domain-like
78c2dr1A_
not modelled 8.8 8 PDB header:transferase
Chain: A: PDB Molecule:386aa long hypothetical serine aminotransferase;
PDBTitle: crystal structure of the ph1308 protein from pyrococcus horikoshii ot3
79c3h14A_
not modelled 8.7 16 PDB header:transferase
Chain: A: PDB Molecule:aminotransferase, classes i and ii;
PDBTitle: crystal structure of a putative aminotransferase from silicibacter2 pomeroyi
80c3cq6E_
not modelled 8.7 21 PDB header:transferase
Chain: E: PDB Molecule:histidinol-phosphate aminotransferase;
PDBTitle: histidinol-phosphate aminotransferase from corynebacterium2 glutamicum holo-form (plp covalently bound )
81c2w8wA_
not modelled 8.6 18 PDB header:transferase
Chain: A: PDB Molecule:serine palmitoyltransferase;
PDBTitle: n100y spt with plp-ser
82c2xx7B_
not modelled 8.6 22 PDB header:transport protein
Chain: B: PDB Molecule:glutamate receptor 2;
PDBTitle: crystal structure of 1-(4-(1-pyrrolidinylcarbonyl)phenyl)-3-2 (trifluoromethyl)-4,5,6,7-tetrahydro-1h-indazole in complex with3 the ligand binding domain of the rat glua2 receptor and glutamate4 at 2.2a resolution.
83c3ffrA_
not modelled 8.6 18 PDB header:transferase
Chain: A: PDB Molecule:phosphoserine aminotransferase serc;
PDBTitle: crystal structure of a phosphoserine aminotransferase serc (chu_0995)2 from cytophaga hutchinsonii atcc 33406 at 1.75 a resolution
84d1s50a1
not modelled 8.5 28 Fold:Periplasmic binding protein-like II
Superfamily:Periplasmic binding protein-like II
Family:Phosphate binding protein-like
85c3a2bA_
not modelled 8.4 7 PDB header:transferase
Chain: A: PDB Molecule:serine palmitoyltransferase;
PDBTitle: crystal structure of serine palmitoyltransferase from sphingobacterium2 multivorum with substrate l-serine
86c4a1aP_
not modelled 8.4 27 PDB header:ribosome
Chain: P: PDB Molecule:60s ribosomal protein l21;
PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 3.
87d1xjva2
not modelled 8.3 35 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
88d1qpga_
not modelled 8.3 17 Fold:Phosphoglycerate kinase
Superfamily:Phosphoglycerate kinase
Family:Phosphoglycerate kinase
89c3bdlA_
not modelled 8.1 11 PDB header:hydrolase
Chain: A: PDB Molecule:staphylococcal nuclease domain-containing
PDBTitle: crystal structure of a truncated human tudor-sn
90c1zc1A_
not modelled 8.0 14 PDB header:protein turnover
Chain: A: PDB Molecule:ubiquitin fusion degradation protein 1;
PDBTitle: ufd1 exhibits the aaa-atpase fold with two distinct2 ubiquitin interaction sites
91c1wwtA_
not modelled 7.9 25 PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase, cytoplasmic;
PDBTitle: solution structure of the tgs domain from human threonyl-2 trna synthetase
92c2ordA_
not modelled 7.8 8 PDB header:transferase
Chain: A: PDB Molecule:acetylornithine aminotransferase;
PDBTitle: crystal structure of acetylornithine aminotransferase (ec 2.6.1.11)2 (acoat) (tm1785) from thermotoga maritima at 1.40 a resolution
93c2el8A_
not modelled 7.8 24 PDB header:signaling protein
Chain: A: PDB Molecule:signal-transducing adaptor protein 2;
PDBTitle: solution structure of the human stap2 sh2 domain
94d1gtda_
not modelled 7.8 11 Fold:PurS-like
Superfamily:PurS-like
Family:PurS subunit of FGAM synthetase
95c2v3tA_
not modelled 7.7 19 PDB header:receptor
Chain: A: PDB Molecule:glutamate receptor delta-2 subunit synonym
PDBTitle: structure of the ligand-binding core of the ionotropic2 glutamate receptor-like glurdelta2 in the apo form
96c1d2fB_
not modelled 7.7 9 PDB header:transferase
Chain: B: PDB Molecule:maly protein;
PDBTitle: x-ray structure of maly from escherichia coli: a pyridoxal-5'-2 phosphate-dependent enzyme acting as a modulator in mal gene3 expression
97d2h9fa1
not modelled 7.5 22 Fold:Diaminopimelate epimerase-like
Superfamily:Diaminopimelate epimerase-like
Family:PA0793-like
98c3dxvA_
not modelled 7.5 15 PDB header:isomerase
Chain: A: PDB Molecule:alpha-amino-epsilon-caprolactam racemase;
PDBTitle: the crystal structure of alpha-amino-epsilon-caprolactam racemase from2 achromobacter obae
99d2gkea2
not modelled 7.5 28 Fold:Diaminopimelate epimerase-like
Superfamily:Diaminopimelate epimerase-like
Family:Diaminopimelate epimerase

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
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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