Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP30871
DateThu Jan 5 11:46:46 GMT 2012
Unique Job IDa12f3ea2bcde6bab

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3e0sA_
Top template information
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an uncharacterized protein from2 chlorobium tepidum
Confidence and coverage
Confidence:100.0% Coverage: 49%
212 residues ( 49% 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.
421 residues ( 97%) 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  MAQEIELKFIVNHSAVEALRDHLNTLGGEHHDPVQLLNIYYETPDNWLRGHDMGLRIRGE
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??

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   .........70.........80.........90.........100.........110.........120
Sequence  NGRYEMTMKVAGRVTGGLHQRPEYNVALSEPTLDLAQLPTEVWPNGELPADLASRVQPLF
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??????
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?
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   .........130.........140.........150.........160.........170.........180
Sequence  STDFYREKWLVAVDGSQIEIALDQGEVKAGEFAEPICELELELLSGDTRAVLKLANQLVS
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   .........190.........200.........210.........220.........230.........240
Sequence  QTGLRQGSLSKAARGYHLAQGNPAREIKPTTILHVAAKADVEQGLEAALELALAQWQYHE
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??????????????????





















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   .........250.........260.........270.........280.........290.........300
Sequence  ELWVRGNDAAKEQVLAAISLVRHTLMLFGGIVPRKASTHLRDLLTQCEATIASAVSAVTA
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   .........310.........320.........330.........340.........350.........360
Sequence  VYSTETAMAKLALTEWLVSKAWQPFLDAKAQGKISDSFKRFADIHLSRHAAELKSVFCQP
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?



?
???????????
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???
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   .........370.........380.........390.........400.........410.........420
Sequence  LGDRYRDQLPRLTRDIDSILLLAGYYDPVVAQAWLENWQGLHHAIATGQRIEIEHFRNEA
Secondary structure 



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   .........430...
Sequence  NNQEPFWLHSGKR
Secondary structure 






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Disorder 







?????
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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 3e0s chain A

3D model

Region: 213 - 429
Aligned: 212
Modelled: 217
Confidence: 100.0%
Identity: 12%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an uncharacterized protein from2 chlorobium tepidum

Phyre2

PDB 2gfg chain B

3D model

Region: 2 - 197
Aligned: 178
Modelled: 196
Confidence: 100.0%
Identity: 24%
PDB header:unknown function
Chain: B: PDB Molecule:bh2851;
PDBTitle: crystal structure of a putative adenylate cyclase (bh2851) from2 bacillus halodurans at 2.12 a resolution

Phyre2

PDB 2jmu chain A domain 1

3D model

Region: 1 - 224
Aligned: 217
Modelled: 222
Confidence: 100.0%
Identity: 19%
Fold: CYTH-like phosphatases
Superfamily: CYTH-like phosphatases
Family: CYTH domain

Phyre2

PDB 3sy3 chain D

3D model

Region: 1 - 186
Aligned: 166
Modelled: 186
Confidence: 100.0%
Identity: 23%
PDB header:lyase
Chain: D: PDB Molecule:gbaa_1210 protein;
PDBTitle: gbaa_1210 protein, a putative adenylate cyclase, from bacillus2 anthracis

Phyre2

PDB 2fjt chain A

3D model

Region: 4 - 190
Aligned: 157
Modelled: 174
Confidence: 99.8%
Identity: 18%
PDB header:lyase
Chain: A: PDB Molecule:adenylyl cyclase class iv;
PDBTitle: adenylyl cyclase class iv from yersinia pestis

Phyre2

PDB 2aca chain A domain 1

3D model

Region: 2 - 190
Aligned: 160
Modelled: 176
Confidence: 99.8%
Identity: 16%
Fold: CYTH-like phosphatases
Superfamily: CYTH-like phosphatases
Family: CYTH domain

Phyre2

PDB 2dc4 chain A

3D model

Region: 3 - 191
Aligned: 156
Modelled: 185
Confidence: 99.8%
Identity: 21%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:165aa long hypothetical protein;
PDBTitle: structure of ph1012 protein from pyrococcus horikoshii ot3

Phyre2

PDB 1yem chain A

3D model

Region: 3 - 191
Aligned: 156
Modelled: 176
Confidence: 99.7%
Identity: 17%
Fold: CYTH-like phosphatases
Superfamily: CYTH-like phosphatases
Family: CYTH domain

Phyre2

PDB 2een chain A

3D model

Region: 4 - 198
Aligned: 168
Modelled: 183
Confidence: 99.7%
Identity: 25%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ph1819;
PDBTitle: structure of ph1819 protein from pyrococcus horikoshii ot3

Phyre2

PDB 3g3r chain A

3D model

Region: 5 - 208
Aligned: 202
Modelled: 204
Confidence: 98.5%
Identity: 16%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:vacuolar transporter chaperone 4;
PDBTitle: crystal structure of a eukaryotic polyphosphate polymerase2 in complex with appnhp-mn2+

Phyre2

PDB 3g3o chain A

3D model

Region: 8 - 198
Aligned: 186
Modelled: 190
Confidence: 98.3%
Identity: 17%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:vacuolar transporter chaperone 2;
PDBTitle: crystal structure of the cytoplasmic tunnel domain in yeast2 vtc2p

Phyre2

PDB 2fbl chain A domain 1

3D model

Region: 3 - 165
Aligned: 110
Modelled: 151
Confidence: 97.2%
Identity: 28%
Fold: CYTH-like phosphatases
Superfamily: CYTH-like phosphatases
Family: CYTH domain

Phyre2

PDB 3oq0 chain D

3D model

Region: 39 - 45
Aligned: 7
Modelled: 7
Confidence: 21.0%
Identity: 43%
PDB header:cell cycle
Chain: D: PDB Molecule:dbf4;
PDBTitle: crystal structure of motif n of saccharomyces cerevisiae dbf4

Phyre2

PDB 1b77 chain A domain 2

3D model

Region: 159 - 178
Aligned: 20
Modelled: 20
Confidence: 9.5%
Identity: 20%
Fold: DNA clamp
Superfamily: DNA clamp
Family: DNA polymerase processivity factor

Phyre2

PDB 2y3y chain C

3D model

Region: 159 - 192
Aligned: 34
Modelled: 34
Confidence: 9.4%
Identity: 26%
PDB header:transcription
Chain: C: PDB Molecule:putative nickel-responsive regulator;
PDBTitle: holo-ni(ii) hpnikr is a symmetric tetramer containing four2 canonic square-planar ni(ii) ions at physiological ph

Phyre2

PDB 2agh chain A

3D model

Region: 1 - 8
Aligned: 8
Modelled: 8
Confidence: 8.9%
Identity: 63%
PDB header:transcription
Chain: A: PDB Molecule:myb proto-oncogene protein;
PDBTitle: structural basis for cooperative transcription factor2 binding to the cbp coactivator

Phyre2

PDB 1czd chain A domain 2

3D model

Region: 159 - 178
Aligned: 20
Modelled: 20
Confidence: 8.8%
Identity: 20%
Fold: DNA clamp
Superfamily: DNA clamp
Family: DNA polymerase processivity factor

Phyre2

PDB 1nh1 chain A

3D model

Region: 168 - 228
Aligned: 61
Modelled: 61
Confidence: 8.4%
Identity: 15%
Fold: Antivirulence factor
Superfamily: Antivirulence factor
Family: Antivirulence factor

Phyre2

PDB 1nh1 chain A

3D model

Region: 168 - 228
Aligned: 61
Modelled: 61
Confidence: 8.4%
Identity: 15%
PDB header:avirulence protein
Chain: A: PDB Molecule:avirulence b protein;
PDBTitle: crystal structure of the type iii effector avrb from2 pseudomonas syringae.

Phyre2

PDB 2y9x chain G

3D model

Region: 58 - 75
Aligned: 18
Modelled: 18
Confidence: 7.8%
Identity: 28%
PDB header:oxidoreductase
Chain: G: PDB Molecule:lectin-like fold protein;
PDBTitle: crystal structure of ppo3, a tyrosinase from agaricus bisporus, in2 deoxy-form that contains additional unknown lectin-like subunit,3 with inhibitor tropolone

Phyre2
1

c3e0sA_
2

c2gfgB_
3

d2jmua1
4

c3sy3D_
5

c2fjtA_
6

d2acaa1
7

c2dc4A_
8

d1yema_
9

c2eenA_
10

c3g3rA_
11

c3g3oA_
12

d2fbla1
13

c3oq0D_
14

d1b77a2
15

c2y3yC_
16

c2aghA_
17

d1czda2
18

d1nh1a_
19

c1nh1A_
20

c2y9xG_
21



22



23



24



25



26



27



28



29



30



31



32



33



34



35



36



37



38



39



40



41



42



43



44



45



46



47



48



49



50



51



52






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3e0sA_



100.0 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an uncharacterized protein from2 chlorobium tepidum
2c2gfgB_



100.0 24 PDB header:unknown function
Chain: B: PDB Molecule:bh2851;
PDBTitle: crystal structure of a putative adenylate cyclase (bh2851) from2 bacillus halodurans at 2.12 a resolution
3d2jmua1



100.0 19 Fold:CYTH-like phosphatases
Superfamily:CYTH-like phosphatases
Family:CYTH domain
4c3sy3D_



100.0 23 PDB header:lyase
Chain: D: PDB Molecule:gbaa_1210 protein;
PDBTitle: gbaa_1210 protein, a putative adenylate cyclase, from bacillus2 anthracis
5c2fjtA_



99.8 18 PDB header:lyase
Chain: A: PDB Molecule:adenylyl cyclase class iv;
PDBTitle: adenylyl cyclase class iv from yersinia pestis
6d2acaa1



99.8 16 Fold:CYTH-like phosphatases
Superfamily:CYTH-like phosphatases
Family:CYTH domain
7c2dc4A_



99.8 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:165aa long hypothetical protein;
PDBTitle: structure of ph1012 protein from pyrococcus horikoshii ot3
8d1yema_



99.7 17 Fold:CYTH-like phosphatases
Superfamily:CYTH-like phosphatases
Family:CYTH domain
9c2eenA_



99.7 25 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ph1819;
PDBTitle: structure of ph1819 protein from pyrococcus horikoshii ot3
10c3g3rA_



98.5 16 PDB header:biosynthetic protein
Chain: A: PDB Molecule:vacuolar transporter chaperone 4;
PDBTitle: crystal structure of a eukaryotic polyphosphate polymerase2 in complex with appnhp-mn2+
11c3g3oA_



98.3 17 PDB header:biosynthetic protein
Chain: A: PDB Molecule:vacuolar transporter chaperone 2;
PDBTitle: crystal structure of the cytoplasmic tunnel domain in yeast2 vtc2p
12d2fbla1



97.2 28 Fold:CYTH-like phosphatases
Superfamily:CYTH-like phosphatases
Family:CYTH domain
13c3oq0D_



21.0 43 PDB header:cell cycle
Chain: D: PDB Molecule:dbf4;
PDBTitle: crystal structure of motif n of saccharomyces cerevisiae dbf4
14d1b77a2



9.5 20 Fold:DNA clamp
Superfamily:DNA clamp
Family:DNA polymerase processivity factor
15c2y3yC_



9.4 26 PDB header:transcription
Chain: C: PDB Molecule:putative nickel-responsive regulator;
PDBTitle: holo-ni(ii) hpnikr is a symmetric tetramer containing four2 canonic square-planar ni(ii) ions at physiological ph
16c2aghA_



8.9 63 PDB header:transcription
Chain: A: PDB Molecule:myb proto-oncogene protein;
PDBTitle: structural basis for cooperative transcription factor2 binding to the cbp coactivator
17d1czda2



8.8 20 Fold:DNA clamp
Superfamily:DNA clamp
Family:DNA polymerase processivity factor
18d1nh1a_



8.4 15 Fold:Antivirulence factor
Superfamily:Antivirulence factor
Family:Antivirulence factor
19c1nh1A_



8.4 15 PDB header:avirulence protein
Chain: A: PDB Molecule:avirulence b protein;
PDBTitle: crystal structure of the type iii effector avrb from2 pseudomonas syringae.
20c2y9xG_



7.8 28 PDB header:oxidoreductase
Chain: G: PDB Molecule:lectin-like fold protein;
PDBTitle: crystal structure of ppo3, a tyrosinase from agaricus bisporus, in2 deoxy-form that contains additional unknown lectin-like subunit,3 with inhibitor tropolone
21c1sb0B_



not modelled 7.6 63 PDB header:transcription
Chain: B: PDB Molecule:protein c-myb;
PDBTitle: solution structure of the kix domain of cbp bound to the2 transactivation domain of c-myb
22d1n8ia_



not modelled 7.4 22 Fold:TIM beta/alpha-barrel
Superfamily:Malate synthase G
Family:Malate synthase G
23c3ectA_



not modelled 7.4 12 PDB header:transferase
Chain: A: PDB Molecule:hexapeptide-repeat containing-acetyltransferase;
PDBTitle: crystal structure of the hexapeptide-repeat containing-2 acetyltransferase vca0836 from vibrio cholerae
24c2imuA_



not modelled 7.2 28 PDB header:viral protein
Chain: A: PDB Molecule:structural polyprotein (pp) p1;
PDBTitle: nmr structure of pep46 from the infectious bursal disease2 virus (ibdv) in dodecylphosphocholin (dpc).
25d2oyza1



not modelled 7.1 33 Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:VPA0057-like
26d1qr5a_



not modelled 6.8 31 Fold:HPr-like
Superfamily:HPr-like
Family:HPr-like
27d1ka5a_



not modelled 6.8 25 Fold:HPr-like
Superfamily:HPr-like
Family:HPr-like
28c2eqeA_



not modelled 6.6 43 PDB header:hydrolase
Chain: A: PDB Molecule:tumor necrosis factor, alpha-induced protein 3;
PDBTitle: solution structure of the fourth a20-type zinc finger2 domain from human tumor necrosis factor, alpha-induced3 protein3
29d2ae8a2



not modelled 6.6 16 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Imidazole glycerol phosphate dehydratase
30c2bnoA_



not modelled 6.5 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:epoxidase;
PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
31d2ofya1



not modelled 6.3 20 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
32d1ok7a2



not modelled 6.2 15 Fold:DNA clamp
Superfamily:DNA clamp
Family:DNA polymerase III, beta subunit
33d2nzul1



not modelled 6.1 31 Fold:HPr-like
Superfamily:HPr-like
Family:HPr-like
34c3eo6B_



not modelled 6.1 17 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:protein of unknown function (duf1255);
PDBTitle: crystal structure of protein of unknown function (duf1255)2 (afe_2634) from acidithiobacillus ferrooxidans ncib8455 at3 0.97 a resolution
35c3pxpA_



not modelled 6.0 20 PDB header:transcription regulator
Chain: A: PDB Molecule:helix-turn-helix domain protein;
PDBTitle: crystal structure of a pas and dna binding domain containing protein2 (caur_2278) from chloroflexus aurantiacus j-10-fl at 2.30 a3 resolution
36c3hqxA_



not modelled 5.9 33 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0345 protein aciad0356;
PDBTitle: crystal structure of protein of unknown function (duf1255,pf06865)2 from acinetobacter sp. adp1
37c3fbnC_



not modelled 5.8 17 PDB header:transcription
Chain: C: PDB Molecule:mediator of rna polymerase ii transcription subunit 7;
PDBTitle: structure of the mediator submodule med7n/31
38c1y9qA_



not modelled 5.8 25 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, hth_3 family;
PDBTitle: crystal structure of hth_3 family transcriptional regulator2 from vibrio cholerae
39c3eusB_



not modelled 5.8 15 PDB header:dna binding protein
Chain: B: PDB Molecule:dna-binding protein;
PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi
40d1w0ba_



not modelled 5.8 20 Fold:Spectrin repeat-like
Superfamily:Alpha-hemoglobin stabilizing protein AHSP
Family:Alpha-hemoglobin stabilizing protein AHSP
41c3f3bA_



not modelled 5.7 67 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:phage-like element pbsx protein xkdh;
PDBTitle: structure of the phage-like element pbsx protein xkdh from2 bacillus subtilus. northeast structural genomics3 consortium target sr352.
42d2j0oa1



not modelled 5.6 9 Fold:IpaD-like
Superfamily:IpaD-like
Family:IpaD-like
43c2j0oA_



not modelled 5.6 9 PDB header:cell invasion
Chain: A: PDB Molecule:invasin ipad;
PDBTitle: shigella flexneri ipad
44d1d8ca_



not modelled 5.6 19 Fold:TIM beta/alpha-barrel
Superfamily:Malate synthase G
Family:Malate synthase G
45c2hw2A_



not modelled 5.5 14 PDB header:transferase
Chain: A: PDB Molecule:rifampin adp-ribosyl transferase;
PDBTitle: crystal structure of rifampin adp-ribosyl transferase in2 complex with rifampin
46d1xu2r_



not modelled 5.3 25 Fold:TNF receptor-like
Superfamily:TNF receptor-like
Family:BAFF receptor-like
47c1xu2R_



not modelled 5.3 25 PDB header:cytokine, hormone/growth factor receptor
Chain: R: PDB Molecule:tumor necrosis factor receptor superfamily member 17;
PDBTitle: the crystal structure of april bound to bcma
48d1d8ia_



not modelled 5.3 23 Fold:CYTH-like phosphatases
Superfamily:CYTH-like phosphatases
Family:mRNA triphosphatase CET1
49c1b8hA_



not modelled 5.1 21 PDB header:transferase
Chain: A: PDB Molecule:dna polymerase processivity component;
PDBTitle: sliding clamp, dna polymerase
50d1z8ua1



not modelled 5.1 20 Fold:Spectrin repeat-like
Superfamily:Alpha-hemoglobin stabilizing protein AHSP
Family:Alpha-hemoglobin stabilizing protein AHSP
51c3sr2A_



not modelled 5.1 3 PDB header:dna binding protein/protein binding
Chain: A: PDB Molecule:dna repair protein xrcc4;
PDBTitle: crystal structure of human xlf-xrcc4 complex
52d1v7wa2



not modelled 5.1 5 Fold:Supersandwich
Superfamily:Galactose mutarotase-like
Family:Glycosyltransferase family 36 N-terminal domain

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