Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP09323
DateThu Jan 5 11:02:10 GMT 2012
Unique Job ID2a9618f9a83e0693

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1glaf_
Top template information
Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
Confidence and coverage
Confidence:100.0% Coverage: 24%
155 residues ( 24% 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.
620 residues ( 96%) 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  MNILGFFQRLGRALQLPIAVLPVAALLLRFGQPDLLNVAFIAQAGGAIFDNLALIFAIGV
Secondary structure 
SS confidence 
Disorder  ???
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  ASSWSKDSAGAAALAGAVGYFVLTKAMVTINPEINMGVLAGIITGLVGGAAYNRWSDIKL
Secondary structure 
SS confidence 
Disorder 
??????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  PDFLSFFGGKRFVPIATGFFCLVLAAIFGYVWPPVQHAIHAGGEWIVSAGALGSGIFGFI
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  NRLLIPTGLHQVLNTIAWFQIGEFTNAAGTVFHGDINRFYAGDGTAGMFMSGFFPIMMFG
Secondary structure 
SS confidence 
Disorder 
?
????????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  LPGAALAMYFAAPKERRPMVGGMLLSVAVTAFLTGVTEPLEFLFMFLAPLLYLLHALLTG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  ISLFVATLLGIHAGFSFSAGAIDYALMYNLPAASQNVWMLLVMGVIFFAIYFVVFSLVIR
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  MFNLKTPGREDKEDEIVTEEANSNTEEGLTQLATNYIAAVGGTDNLKAIDACITRLRLTV
Secondary structure 
SS confidence 
Disorder 
????????????????????
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  ADSARVNDTMCKRLGASGVVKLNKQTIQVIVGAKAESIGDAMKKVVARGPVAAASAEATP
Secondary structure 
SS confidence 
Disorder 
??
??
?
??????????????
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  ATAAPVAKPQAVPNAVSIAELVSPITGDVVALDQVPDEAFASKAVGDGVAVKPTDKIVVS
Secondary structure 
SS confidence 
Disorder  ?????????????
?????
??
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  PAAGTIVKIFNTNHAFCLETEKGAEIVVHMGIDTVALEGKGFKRLVEEGAQVSAGQPILE
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........610.........620.........630.........640........
Sequence  MDLDYLNANARSMISPVVCSNIDDFSGLIIKAQGHIVAGQTPLYEIKK
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 1gla chain F

3D model

Region: 493 - 648
Aligned: 155
Modelled: 156
Confidence: 100.0%
Identity: 49%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2

PDB 1gpr chain A

3D model

Region: 490 - 647
Aligned: 158
Modelled: 158
Confidence: 100.0%
Identity: 41%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2

PDB 2f3g chain A

3D model

Region: 498 - 648
Aligned: 150
Modelled: 151
Confidence: 100.0%
Identity: 49%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2

PDB 2gpr chain A

3D model

Region: 495 - 647
Aligned: 151
Modelled: 153
Confidence: 100.0%
Identity: 32%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2

PDB 3qnq chain D

3D model

Region: 6 - 377
Aligned: 368
Modelled: 372
Confidence: 100.0%
Identity: 14%
PDB header:membrane protein, transport protein
Chain: D: PDB Molecule:pts system, cellobiose-specific iic component;
PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system

Phyre2

PDB 3bp8 chain C domain 1

3D model

Region: 392 - 466
Aligned: 74
Modelled: 75
Confidence: 99.8%
Identity: 41%
Fold: Homing endonuclease-like
Superfamily: Glucose permease domain IIB
Family: Glucose permease domain IIB

Phyre2

PDB 1iba chain A

3D model

Region: 392 - 469
Aligned: 77
Modelled: 78
Confidence: 99.8%
Identity: 39%
PDB header:phoshphotransferase
Chain: A: PDB Molecule:glucose permease;
PDBTitle: glucose permease (domain iib), nmr, 11 structures

Phyre2

PDB 3ipj chain B

3D model

Region: 384 - 477
Aligned: 92
Modelled: 94
Confidence: 99.7%
Identity: 24%
PDB header:transferase
Chain: B: PDB Molecule:pts system, iiabc component;
PDBTitle: the crystal structure of one domain of the pts system, iiabc component2 from clostridium difficile

Phyre2

PDB 1dcz chain A

3D model

Region: 532 - 646
Aligned: 72
Modelled: 79
Confidence: 97.3%
Identity: 32%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2

PDB 2b44 chain A

3D model

Region: 527 - 601
Aligned: 66
Modelled: 75
Confidence: 97.3%
Identity: 23%
PDB header:hydrolase
Chain: A: PDB Molecule:glycyl-glycine endopeptidase lytm;
PDBTitle: truncated s. aureus lytm, p 32 2 1 crystal form

Phyre2

PDB 3n6r chain K

3D model

Region: 534 - 647
Aligned: 71
Modelled: 79
Confidence: 97.2%
Identity: 30%
PDB header:ligase
Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)

Phyre2

PDB 2gu1 chain A

3D model

Region: 472 - 601
Aligned: 123
Modelled: 130
Confidence: 97.1%
Identity: 15%
PDB header:hydrolase
Chain: A: PDB Molecule:zinc peptidase;
PDBTitle: crystal structure of a zinc containing peptidase from2 vibrio cholerae

Phyre2

PDB 1qwy chain A

3D model

Region: 481 - 601
Aligned: 106
Modelled: 121
Confidence: 97.0%
Identity: 17%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Peptidoglycan hydrolase LytM

Phyre2

PDB 2qf7 chain A

3D model

Region: 478 - 601
Aligned: 80
Modelled: 89
Confidence: 97.0%
Identity: 28%
PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase protein;
PDBTitle: crystal structure of a complete multifunctional pyruvate carboxylase2 from rhizobium etli

Phyre2

PDB 1o78 chain A

3D model

Region: 532 - 646
Aligned: 72
Modelled: 80
Confidence: 96.8%
Identity: 32%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2

PDB 1bdo chain A

3D model

Region: 534 - 647
Aligned: 78
Modelled: 86
Confidence: 96.7%
Identity: 22%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2

PDB 2hsi chain B

3D model

Region: 527 - 601
Aligned: 68
Modelled: 75
Confidence: 96.4%
Identity: 22%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative peptidase m23;
PDBTitle: crystal structure of putative peptidase m23 from2 pseudomonas aeruginosa, new york structural genomics3 consortium

Phyre2

PDB 1vf7 chain A

3D model

Region: 531 - 608
Aligned: 43
Modelled: 43
Confidence: 96.3%
Identity: 37%
Fold: HlyD-like secretion proteins
Superfamily: HlyD-like secretion proteins
Family: HlyD-like secretion proteins

Phyre2

PDB 2ejg chain D

3D model

Region: 574 - 646
Aligned: 65
Modelled: 73
Confidence: 96.2%
Identity: 28%
PDB header:ligase
Chain: D: PDB Molecule:149aa long hypothetical methylmalonyl-coa decarboxylase
PDBTitle: crystal structure of the biotin protein ligase (mutation r48a) and2 biotin carboxyl carrier protein complex from pyrococcus horikoshii3 ot3

Phyre2

PDB 2auk chain A

3D model

Region: 528 - 602
Aligned: 75
Modelled: 75
Confidence: 96.2%
Identity: 16%
PDB header:transferase
Chain: A: PDB Molecule:dna-directed rna polymerase beta' chain;
PDBTitle: structure of e. coli rna polymerase beta' g/g' insert

Phyre2
1
d1glaf_
2
d1gpra_
3
d2f3ga_
4
d2gpra_
5
c3qnqD_
6
d3bp8c1
7
c1ibaA_
8
c3ipjB_
9
d1dcza_
10
c2b44A_
11
c3n6rK_
12
c2gu1A_
13
d1qwya_
14
c2qf7A_
15
d1o78a_
16
d1bdoa_
17
c2hsiB_
18
d1vf7a_
19
c2ejgD_
20
c2aukA_
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24
25
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27
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1glaf_
100.0 49 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
2d1gpra_
100.0 41 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
3d2f3ga_
100.0 49 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
4d2gpra_
100.0 32 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
5c3qnqD_
100.0 14 PDB header:membrane protein, transport protein
Chain: D: PDB Molecule:pts system, cellobiose-specific iic component;
PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system
6d3bp8c1
99.8 41 Fold:Homing endonuclease-like
Superfamily:Glucose permease domain IIB
Family:Glucose permease domain IIB
7c1ibaA_
99.8 39 PDB header:phoshphotransferase
Chain: A: PDB Molecule:glucose permease;
PDBTitle: glucose permease (domain iib), nmr, 11 structures
8c3ipjB_
99.7 24 PDB header:transferase
Chain: B: PDB Molecule:pts system, iiabc component;
PDBTitle: the crystal structure of one domain of the pts system, iiabc component2 from clostridium difficile
9d1dcza_
97.3 32 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
10c2b44A_
97.3 23 PDB header:hydrolase
Chain: A: PDB Molecule:glycyl-glycine endopeptidase lytm;
PDBTitle: truncated s. aureus lytm, p 32 2 1 crystal form
11c3n6rK_
97.2 30 PDB header:ligase
Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)
12c2gu1A_
97.1 15 PDB header:hydrolase
Chain: A: PDB Molecule:zinc peptidase;
PDBTitle: crystal structure of a zinc containing peptidase from2 vibrio cholerae
13d1qwya_
97.0 17 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Peptidoglycan hydrolase LytM
14c2qf7A_
97.0 28 PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase protein;
PDBTitle: crystal structure of a complete multifunctional pyruvate carboxylase2 from rhizobium etli
15d1o78a_
96.8 32 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
16d1bdoa_
96.7 22 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
17c2hsiB_
96.4 22 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative peptidase m23;
PDBTitle: crystal structure of putative peptidase m23 from2 pseudomonas aeruginosa, new york structural genomics3 consortium
18d1vf7a_
96.3 37 Fold:HlyD-like secretion proteins
Superfamily:HlyD-like secretion proteins
Family:HlyD-like secretion proteins
19c2ejgD_
96.2 28 PDB header:ligase
Chain: D: PDB Molecule:149aa long hypothetical methylmalonyl-coa decarboxylase
PDBTitle: crystal structure of the biotin protein ligase (mutation r48a) and2 biotin carboxyl carrier protein complex from pyrococcus horikoshii3 ot3
20c2aukA_
96.2 16 PDB header:transferase
Chain: A: PDB Molecule:dna-directed rna polymerase beta' chain;
PDBTitle: structure of e. coli rna polymerase beta' g/g' insert
21c2ejmA_
not modelled 96.0 23 PDB header:ligase
Chain: A: PDB Molecule:methylcrotonoyl-coa carboxylase subunit alpha;
PDBTitle: solution structure of ruh-072, an apo-biotnyl domain form2 human acetyl coenzyme a carboxylase
22c3nyyA_
not modelled 95.8 17 PDB header:hydrolase
Chain: A: PDB Molecule:putative glycyl-glycine endopeptidase lytm;
PDBTitle: crystal structure of a putative glycyl-glycine endopeptidase lytm2 (rumgna_02482) from ruminococcus gnavus atcc 29149 at 1.60 a3 resolution
23c2b8gA_
not modelled 95.6 21 PDB header:biosynthetic protein
Chain: A: PDB Molecule:biotin/lipoyl attachment protein;
PDBTitle: solution structure of bacillus subtilis blap biotinylated-2 form (energy minimized mean structure)
24d1iyua_
not modelled 95.3 15 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
25d1ci3m2
not modelled 95.2 35 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
26d1ghja_
not modelled 95.0 11 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
27c1q90A_
not modelled 94.6 32 PDB header:photosynthesis
Chain: A: PDB Molecule:apocytochrome f;
PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii
28c2l5tA_
not modelled 94.5 18 PDB header:transferase
Chain: A: PDB Molecule:lipoamide acyltransferase;
PDBTitle: solution nmr structure of e2 lipoyl domain from thermoplasma2 acidophilum
29c1e2vB_
not modelled 94.4 33 PDB header:electron transport proteins
Chain: B: PDB Molecule:cytochrome f;
PDBTitle: n153q mutant of cytochrome f from chlamydomonas reinhardtii
30d1qjoa_
not modelled 94.3 15 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
31d1k8ma_
not modelled 94.2 21 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
32c2jxmB_
not modelled 94.1 29 PDB header:electron transport
Chain: B: PDB Molecule:cytochrome f;
PDBTitle: ensemble of twenty structures of the prochlorothrix2 hollandica plastocyanin- cytochrome f complex
33d1gjxa_
not modelled 94.1 10 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
34c2q8iB_
not modelled 93.8 16 PDB header:transferase
Chain: B: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase component of
PDBTitle: pyruvate dehydrogenase kinase isoform 3 in complex with antitumor drug2 radicicol
35c1tu2B_
not modelled 93.8 28 PDB header:electron transport
Chain: B: PDB Molecule:apocytochrome f;
PDBTitle: the complex of nostoc cytochrome f and plastocyanin determin with2 paramagnetic nmr. based on the structures of cytochrome f and3 plastocyanin, 10 structures
36c3csqC_
not modelled 93.7 13 PDB header:hydrolase
Chain: C: PDB Molecule:morphogenesis protein 1;
PDBTitle: crystal and cryoem structural studies of a cell wall2 degrading enzyme in the bacteriophage phi29 tail
37c2dn8A_
not modelled 93.5 24 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of rsgi ruh-053, an apo-biotin carboxy2 carrier protein from human transcarboxylase
38c1t5eB_
not modelled 93.5 33 PDB header:transport protein
Chain: B: PDB Molecule:multidrug resistance protein mexa;
PDBTitle: the structure of mexa
39d1laba_
not modelled 93.5 19 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
40d1uoua3
not modelled 93.1 26 Fold:alpha/beta-Hammerhead
Superfamily:Pyrimidine nucleoside phosphorylase C-terminal domain
Family:Pyrimidine nucleoside phosphorylase C-terminal domain
41d1y8ob1
not modelled 93.0 16 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
42c3h9iB_
not modelled 92.6 31 PDB header:transport protein
Chain: B: PDB Molecule:cation efflux system protein cusb;
PDBTitle: crystal structure of the membrane fusion protein cusb from escherichia2 coli
43c2dncA_
not modelled 92.3 24 PDB header:transferase
Chain: A: PDB Molecule:pyruvate dehydrogenase protein x component;
PDBTitle: solution structure of rsgi ruh-054, a lipoyl domain from2 human 2-oxoacid dehydrogenase
44c3fppB_
not modelled 92.0 17 PDB header:membrane protein
Chain: B: PDB Molecule:macrolide-specific efflux protein maca;
PDBTitle: crystal structure of e.coli maca
45c2f1mA_
not modelled 92.0 25 PDB header:transport protein
Chain: A: PDB Molecule:acriflavine resistance protein a;
PDBTitle: conformational flexibility in the multidrug efflux system protein acra
46c2kccA_
not modelled 91.8 23 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of biotinoyl domain from human acetyl-2 coa carboxylase 2
47c3lnnB_
not modelled 91.8 22 PDB header:metal transport
Chain: B: PDB Molecule:membrane fusion protein (mfp) heavy metal cation efflux
PDBTitle: crystal structure of zneb from cupriavidus metallidurans
48d1e2wa2
not modelled 91.6 35 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
49c1ctmA_
not modelled 90.6 25 PDB header:electron transport(cytochrome)
Chain: A: PDB Molecule:cytochrome f;
PDBTitle: crystal structure of chloroplast cytochrome f reveals a2 novel cytochrome fold and unexpected heme ligation
50d1pmra_
not modelled 89.9 11 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
51c2k33A_
not modelled 89.4 21 PDB header:membrane protein, transport protein
Chain: A: PDB Molecule:acra;
PDBTitle: solution structure of an n-glycosylated protein using in2 vitro glycosylation
52d1brwa3
not modelled 88.4 17 Fold:alpha/beta-Hammerhead
Superfamily:Pyrimidine nucleoside phosphorylase C-terminal domain
Family:Pyrimidine nucleoside phosphorylase C-terminal domain
53c2e75C_
not modelled 87.2 29 PDB header:photosynthesis
Chain: C: PDB Molecule:apocytochrome f;
PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus
54d2tpta3
not modelled 86.3 25 Fold:alpha/beta-Hammerhead
Superfamily:Pyrimidine nucleoside phosphorylase C-terminal domain
Family:Pyrimidine nucleoside phosphorylase C-terminal domain
55c3fmcC_
not modelled 86.2 19 PDB header:hydrolase
Chain: C: PDB Molecule:putative succinylglutamate desuccinylase / aspartoacylase;
PDBTitle: crystal structure of a putative succinylglutamate desuccinylase /2 aspartoacylase family protein (sama_0604) from shewanella amazonensis3 sb2b at 1.80 a resolution
56c2aujD_
not modelled 84.7 19 PDB header:transferase
Chain: D: PDB Molecule:dna-directed rna polymerase beta' chain;
PDBTitle: structure of thermus aquaticus rna polymerase beta'-subunit2 insert
57c2dneA_
not modelled 84.3 13 PDB header:transferase
Chain: A: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase
PDBTitle: solution structure of rsgi ruh-058, a lipoyl domain of2 human 2-oxoacid dehydrogenase
58d2pnrc1
not modelled 83.8 20 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
59c1brwB_
not modelled 80.3 17 PDB header:transferase
Chain: B: PDB Molecule:protein (pyrimidine nucleoside phosphorylase);
PDBTitle: the crystal structure of pyrimidine nucleoside2 phosphorylase in a closed conformation
60c2dsjA_
not modelled 80.2 25 PDB header:transferase
Chain: A: PDB Molecule:pyrimidine-nucleoside (thymidine) phosphorylase;
PDBTitle: crystal structure of project id tt0128 from thermus thermophilus hb8
61c3h5qA_
not modelled 79.7 21 PDB header:transferase
Chain: A: PDB Molecule:pyrimidine-nucleoside phosphorylase;
PDBTitle: crystal structure of a putative pyrimidine-nucleoside phosphorylase2 from staphylococcus aureus
62c2qj8B_
not modelled 79.4 8 PDB header:hydrolase
Chain: B: PDB Molecule:mlr6093 protein;
PDBTitle: crystal structure of an aspartoacylase family protein (mlr6093) from2 mesorhizobium loti maff303099 at 2.00 a resolution
63d1kl9a2
not modelled 79.1 16 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
64c1otpA_
not modelled 79.0 25 PDB header:phosphorylase
Chain: A: PDB Molecule:thymidine phosphorylase;
PDBTitle: structural and theoretical studies suggest domain movement produces an2 active conformation of thymidine phosphorylase
65c2j0fC_
not modelled 78.5 33 PDB header:transferase
Chain: C: PDB Molecule:thymidine phosphorylase;
PDBTitle: structural basis for non-competitive product inhibition in2 human thymidine phosphorylase: implication for drug design
66d1q46a2
not modelled 77.7 11 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
67c3na6A_
not modelled 69.9 20 PDB header:hydrolase
Chain: A: PDB Molecule:succinylglutamate desuccinylase/aspartoacylase;
PDBTitle: crystal structure of a succinylglutamate desuccinylase (tm1040_2694)2 from silicibacter sp. tm1040 at 2.00 a resolution
68c3i4oA_
not modelled 64.9 25 PDB header:translation
Chain: A: PDB Molecule:translation initiation factor if-1;
PDBTitle: crystal structure of translation initiation factor 1 from2 mycobacterium tuberculosis
69d1o4ua2
not modelled 64.9 30 Fold:alpha/beta-Hammerhead
Superfamily:Nicotinate/Quinolinate PRTase N-terminal domain-like
Family:NadC N-terminal domain-like
70d1qpoa2
not modelled 64.6 30 Fold:alpha/beta-Hammerhead
Superfamily:Nicotinate/Quinolinate PRTase N-terminal domain-like
Family:NadC N-terminal domain-like
71c3it5B_
not modelled 63.2 27 PDB header:hydrolase
Chain: B: PDB Molecule:protease lasa;
PDBTitle: crystal structure of the lasa virulence factor from pseudomonas2 aeruginosa
72d2es2a1
not modelled 60.6 33 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
73c2xhaB_
not modelled 60.6 39 PDB header:transcription
Chain: B: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: crystal structure of domain 2 of thermotoga maritima n-utilization2 substance g (nusg)
74d1qapa2
not modelled 60.2 25 Fold:alpha/beta-Hammerhead
Superfamily:Nicotinate/Quinolinate PRTase N-terminal domain-like
Family:NadC N-terminal domain-like
75c3a0jB_
not modelled 59.6 27 PDB header:transcription
Chain: B: PDB Molecule:cold shock protein;
PDBTitle: crystal structure of cold shock protein 1 from thermus2 thermophilus hb8
76d1ah9a_
not modelled 58.5 27 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
77c2jkuA_
not modelled 56.8 27 PDB header:ligase
Chain: A: PDB Molecule:propionyl-coa carboxylase alpha chain,
PDBTitle: crystal structure of the n-terminal region of the biotin2 acceptor domain of human propionyl-coa carboxylase
78d2nn6h1
not modelled 56.7 19 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
79c3b9yA_
not modelled 56.4 11 PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter family rh-like protein;
PDBTitle: crystal structure of the nitrosomonas europaea rh protein
80c2hc8A_
not modelled 55.9 20 PDB header:transport protein
Chain: A: PDB Molecule:cation-transporting atpase, p-type;
PDBTitle: structure of the a. fulgidus copa a-domain
81c2xhcA_
not modelled 51.2 39 PDB header:transcription
Chain: A: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: crystal structure of thermotoga maritima n-utilization substance g2 (nusg)
82d1hcza2
not modelled 50.8 23 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
83c3a8jF_
not modelled 50.0 30 PDB header:transferase/transport protein
Chain: F: PDB Molecule:glycine cleavage system h protein;
PDBTitle: crystal structure of et-ehred complex
84c3gnnA_
not modelled 48.8 25 PDB header:transferase
Chain: A: PDB Molecule:nicotinate-nucleotide pyrophosphorylase;
PDBTitle: crystal structure of nicotinate-nucleotide2 pyrophosphorylase from burkholderi pseudomallei
85d1at0a_
not modelled 48.3 16 Fold:Hedgehog/intein (Hint) domain
Superfamily:Hedgehog/intein (Hint) domain
Family:Hedgehog C-terminal (Hog) autoprocessing domain
86d1smxa_
not modelled 46.7 18 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
87d2z0sa1
not modelled 45.8 13 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
88d1g6pa_
not modelled 44.6 26 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
89c1vdzA_
not modelled 44.6 34 PDB header:hydrolase
Chain: A: PDB Molecule:a-type atpase subunit a;
PDBTitle: crystal structure of a-type atpase catalytic subunit a from2 pyrococcus horikoshii ot3
90c1yz6A_
not modelled 44.4 21 PDB header:translation
Chain: A: PDB Molecule:probable translation initiation factor 2 alpha
PDBTitle: crystal structure of intact alpha subunit of aif2 from2 pyrococcus abyssi
91c1q46A_
not modelled 43.1 12 PDB header:translation
Chain: A: PDB Molecule:translation initiation factor 2 alpha subunit;
PDBTitle: crystal structure of the eif2 alpha subunit from2 saccharomyces cerevisia
92c3pajA_
not modelled 39.7 15 PDB header:transferase
Chain: A: PDB Molecule:nicotinate-nucleotide pyrophosphorylase, carboxylating;
PDBTitle: 2.00 angstrom resolution crystal structure of a quinolinate2 phosphoribosyltransferase from vibrio cholerae o1 biovar eltor str.3 n16961
93c3cdxB_
not modelled 39.5 16 PDB header:hydrolase
Chain: B: PDB Molecule:succinylglutamatedesuccinylase/aspartoacylase;
PDBTitle: crystal structure of2 succinylglutamatedesuccinylase/aspartoacylase from3 rhodobacter sphaeroides
94c3tqvA_
not modelled 39.3 25 PDB header:transferase
Chain: A: PDB Molecule:nicotinate-nucleotide pyrophosphorylase;
PDBTitle: structure of the nicotinate-nucleotide pyrophosphorylase from2 francisella tularensis.
95d1tu2b2
not modelled 38.9 35 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
96d1c9oa_
not modelled 38.5 38 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
97d1y14b1
not modelled 37.4 16 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
98c3ic8D_
not modelled 36.7 21 PDB header:structural genomics, unknown function
Chain: D: PDB Molecule:uncharacterized gst-like proteinprotein;
PDBTitle: the crystal structure of a gst-like protein from pseudomonas syringae2 to 2.4a
99c1x1oC_
not modelled 35.8 40 PDB header:transferase
Chain: C: PDB Molecule:nicotinate-nucleotide pyrophosphorylase;
PDBTitle: crystal structure of project id tt0268 from thermus thermophilus hb8
100c1qapA_
not modelled 35.0 25 PDB header:glycosyltransferase
Chain: A: PDB Molecule:quinolinic acid phosphoribosyltransferase;
PDBTitle: quinolinic acid phosphoribosyltransferase with bound2 quinolinic acid
101c2kncA_
not modelled 33.3 14 PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
102c2ka7A_
not modelled 32.6 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:glycine cleavage system h protein;
PDBTitle: nmr solution structure of tm0212 at 40 c
103c3mxuA_
not modelled 32.4 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycine cleavage system h protein;
PDBTitle: crystal structure of glycine cleavage system protein h from bartonella2 henselae
104d2je6i2
not modelled 30.6 8 Fold:Barrel-sandwich hybrid
Superfamily:Ribosomal L27 protein-like
Family:ECR1 N-terminal domain-like
105c3iftA_
not modelled 30.1 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycine cleavage system h protein;
PDBTitle: crystal structure of glycine cleavage system protein h from2 mycobacterium tuberculosis, using x-rays from the compact light3 source.
106c3l0gD_
not modelled 29.8 5 PDB header:transferase
Chain: D: PDB Molecule:nicotinate-nucleotide pyrophosphorylase;
PDBTitle: crystal structure of nicotinate-nucleotide pyrophosphorylase from2 ehrlichia chaffeensis at 2.05a resolution
107c2kcmA_
not modelled 29.5 17 PDB header:nucleic acid binding protein
Chain: A: PDB Molecule:cold shock domain family protein;
PDBTitle: solution nmr structure of the n-terminal ob-domain of so_1732 from2 shewanella oneidensis. northeast structural genomics consortium3 target sor210a.
108c2edgA_
not modelled 29.4 16 PDB header:biosynthetic protein
Chain: A: PDB Molecule:glycine cleavage system h protein;
PDBTitle: solution structure of the gcv_h domain from mouse glycine
109d1hr0w_
not modelled 29.2 23 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
110c2jbmA_
not modelled 27.8 12 PDB header:transferase
Chain: A: PDB Molecule:nicotinate-nucleotide pyrophosphorylase;
PDBTitle: qprtase structure from human
111d1onla_
not modelled 27.1 42 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
112c2eqsA_
not modelled 26.4 21 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dhx8;
PDBTitle: solution structure of the s1 rna binding domain of human2 atp-dependent rna helicase dhx8
113c2b7pA_
not modelled 26.4 5 PDB header:transferase
Chain: A: PDB Molecule:probable nicotinate-nucleotide pyrophosphorylase;
PDBTitle: crystal structure of quinolinic acid phosphoribosyltransferase from2 helicobacter pylori
114d2c35b1
not modelled 25.7 2 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
115d1d7qa_
not modelled 25.6 18 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
116c1o4uA_
not modelled 25.3 27 PDB header:transferase
Chain: A: PDB Molecule:type ii quinolic acid phosphoribosyltransferase;
PDBTitle: crystal structure of a nicotinate nucleotide pyrophosphorylase2 (tm1645) from thermotoga maritima at 2.50 a resolution
117d1jt8a_
not modelled 25.3 21 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
118c1q8kA_
not modelled 25.2 12 PDB header:translation
Chain: A: PDB Molecule:eukaryotic translation initiation factor 2
PDBTitle: solution structure of alpha subunit of human eif2
119c2ka3C_
not modelled 25.2 18 PDB header:structural protein
Chain: C: PDB Molecule:emilin-1;
PDBTitle: structure of emilin-1 c1q-like domain
120c1qpoA_
not modelled 24.7 30 PDB header:transferase
Chain: A: PDB Molecule:quinolinate acid phosphoribosyl transferase;
PDBTitle: quinolinate phosphoribosyl transferase (qaprtase) apo-enzyme from2 mycobacterium tuberculosis

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