Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0A940
DateThu Jan 5 11:09:19 GMT 2012
Unique Job IDa52ee0e5b33074ab

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2qdzA_
Top template information
PDB header:protein transport
Chain: A: PDB Molecule:tpsb transporter fhac;
PDBTitle: structure of the membrane protein fhac: a member of the2 omp85/tpsb transporter family
Confidence and coverage
Confidence:100.0% Coverage: 58%
473 residues ( 58% 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.
714 residues ( 88%) 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  MAMKKLLIASLLFSSATVYGAEGFVVKDIHFEGLQRVAVGAALLSMPVRTGDTVNDEDIS
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   .........70.........80.........90.........100.........110.........120
Sequence  NTIRALFATGNFEDVRVLRDGDTLLVQVKERPTIASITFSGNKSVKDDMLKQNLEASGVR
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   .........130.........140.........150.........160.........170.........180
Sequence  VGESLDRTTIADIEKGLEDFYYSVGKYSASVKAVVTPLPRNRVDLKLVFQEGVSAEIQQI
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   .........190.........200.........210.........220.........230.........240
Sequence  NIVGNHAFTTDELISHFQLRDEVPWWNVVGDRKYQKQKLAGDLETLRSYYLDRGYARFNI
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   .........250.........260.........270.........280.........290.........300
Sequence  DSTQVSLTPDKKGIYVTVNITEGDQYKLSGVEVSGNLAGHSAEIEQLTKIEPGELYNGTK
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   .........310.........320.........330.........340.........350.........360
Sequence  VTKMEDDIKKLLGRYGYAYPRVQSMPEINDADKTVKLRVNVDAGNRFYVRKIRFEGNDTS
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   .........370.........380.........390.........400.........410.........420
Sequence  KDAVLRREMRQMEGAWLGSDLVDQGKERLNRLGFFETVDTDTQRVPGSPDQVDVVYKVKE
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   .........430.........440.........450.........460.........470.........480
Sequence  RNTGSFNFGIGYGTESGVSFQAGVQQDNWLGTGYAVGINGTKNDYQTYAELSVTNPYFTV
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   .........490.........500.........510.........520.........530.........540
Sequence  DGVSLGGRLFYNDFQADDADLSDYTNKSYGTDVTLGFPINEYNSLRAGLGYVHNSLSNMQ
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   .........550.........560.........570.........580.........590.........600
Sequence  PQVAMWRYLYSMGEHPSTSDQDNSFKTDDFTFNYGWTYNKLDRGYFPTDGSRVNLTGKVT
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   .........610.........620.........630.........640.........650.........660
Sequence  IPGSDNEYYKVTLDTATYVPIDDDHKWVVLGRTRWGYGDGLGGKEMPFYENFYAGGSSTV
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   .........670.........680.........690.........700.........710.........720
Sequence  RGFQSNTIGPKAVYFPHQASNYDPDYDYECATQDGAKDLCKSDDAVGGNAMAVASLEFIT
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   .........730.........740.........750.........760.........770.........780
Sequence  PTPFISDKYANSVRTSFFWDMGTVWDTNWDSSQYSGYPDYSDPSNIRMSAGIALQWMSPL
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   .........790.........800.........810
Sequence  GPLVFSYAQPFKKYDGDKAEQFQFNIGKTW
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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 2qdz chain A

3D model

Region: 260 - 810
Aligned: 473
Modelled: 499
Confidence: 100.0%
Identity: 14%
PDB header:protein transport
Chain: A: PDB Molecule:tpsb transporter fhac;
PDBTitle: structure of the membrane protein fhac: a member of the2 omp85/tpsb transporter family

Phyre2

PDB 3efc chain A

3D model

Region: 23 - 349
Aligned: 327
Modelled: 327
Confidence: 100.0%
Identity: 100%
PDB header:membrane protein
Chain: A: PDB Molecule:outer membrane protein assembly factor yaet;
PDBTitle: crystal structure of yaet periplasmic domain

Phyre2

PDB 2qcz chain A

3D model

Region: 22 - 351
Aligned: 310
Modelled: 313
Confidence: 100.0%
Identity: 97%
PDB header:membrane protein, protein transport
Chain: A: PDB Molecule:outer membrane protein assembly factor yaet;
PDBTitle: structure of n-terminal domain of e. coli yaet

Phyre2

PDB 2x8x chain X

3D model

Region: 171 - 423
Aligned: 230
Modelled: 247
Confidence: 100.0%
Identity: 21%
PDB header:chaperone
Chain: X: PDB Molecule:tlr1789 protein;
PDBTitle: structure of the n-terminal domain of omp85 from the2 thermophilic cyanobacterium thermosynechococcus elongatus

Phyre2

PDB 3mc8 chain A

3D model

Region: 173 - 422
Aligned: 236
Modelled: 244
Confidence: 100.0%
Identity: 17%
PDB header:membrane protein
Chain: A: PDB Molecule:alr2269 protein;
PDBTitle: potra1-3 of the periplasmic domain of omp85 from anabaena

Phyre2

PDB 3og5 chain A

3D model

Region: 263 - 421
Aligned: 159
Modelled: 158
Confidence: 100.0%
Identity: 97%
PDB header:protein binding
Chain: A: PDB Molecule:outer membrane protein assembly complex, yaet protein;
PDBTitle: crystal structure of bama potra45 tandem

Phyre2

PDB 2v9h chain A

3D model

Region: 21 - 173
Aligned: 153
Modelled: 153
Confidence: 99.9%
Identity: 100%
PDB header:protein-binding
Chain: A: PDB Molecule:outer membrane protein assembly factor yaet;
PDBTitle: solution structure of an escherichia coli yaet tandem potra2 domain

Phyre2

PDB 2vh2 chain A

3D model

Region: 25 - 95
Aligned: 71
Modelled: 71
Confidence: 95.6%
Identity: 11%
PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein ftsq;
PDBTitle: crystal structure of cell divison protein ftsq from2 yersinia enterecolitica

Phyre2

PDB 2vh1 chain A

3D model

Region: 27 - 97
Aligned: 71
Modelled: 71
Confidence: 94.0%
Identity: 15%
PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein ftsq;
PDBTitle: crystal structure of bacterial cell division protein ftsq2 from e.coli

Phyre2

PDB 1vqz chain A domain 1

3D model

Region: 327 - 398
Aligned: 68
Modelled: 72
Confidence: 61.4%
Identity: 13%
Fold: SufE/NifU
Superfamily: SufE/NifU
Family: SP1160 C-terminal domain-like

Phyre2

PDB 2k0l chain A

3D model

Region: 711 - 810
Aligned: 93
Modelled: 100
Confidence: 42.0%
Identity: 6%
PDB header:membrane protein
Chain: A: PDB Molecule:outer membrane protein a;
PDBTitle: nmr structure of the transmembrane domain of the outer2 membrane protein a from klebsiella pneumoniae in dhpc3 micelles.

Phyre2

PDB 1vqz chain A

3D model

Region: 282 - 398
Aligned: 113
Modelled: 117
Confidence: 40.5%
Identity: 11%
PDB header:ligase
Chain: A: PDB Molecule:lipoate-protein ligase, putative;
PDBTitle: crystal structure of a putative lipoate-protein ligase a (sp_1160)2 from streptococcus pneumoniae tigr4 at 1.99 a resolution

Phyre2

PDB 3t9a chain A

3D model

Region: 55 - 145
Aligned: 90
Modelled: 91
Confidence: 31.3%
Identity: 11%
PDB header:transferase
Chain: A: PDB Molecule:inositol pyrophosphate kinase;
PDBTitle: crystal structure of the catalytic domain of human diphosphoinositol2 pentakisphosphate kinase 2 (ppip5k2) in complex with amppnp at ph 7.0

Phyre2

PDB 2fna chain A domain 1

3D model

Region: 40 - 71
Aligned: 32
Modelled: 32
Confidence: 29.3%
Identity: 16%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Helicase DNA-binding domain

Phyre2

PDB 3pjv chain D

3D model

Region: 55 - 97
Aligned: 43
Modelled: 43
Confidence: 25.4%
Identity: 16%
PDB header:lyase
Chain: D: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd periplasmic domain

Phyre2

PDB 1x2g chain A domain 1

3D model

Region: 327 - 390
Aligned: 60
Modelled: 64
Confidence: 25.1%
Identity: 17%
Fold: SufE/NifU
Superfamily: SufE/NifU
Family: SP1160 C-terminal domain-like

Phyre2

PDB 2k4v chain A

3D model

Region: 365 - 384
Aligned: 20
Modelled: 20
Confidence: 24.3%
Identity: 10%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pa1076;
PDBTitle: solution structure of uncharacterized protein pa1076 from2 pseudomonas aeruginosa. northeast structural genomics3 consortium (nesg) target pat3, ontario center for4 structural proteomics target pa1076 .

Phyre2

PDB 1ssn chain A

3D model

Region: 347 - 400
Aligned: 52
Modelled: 54
Confidence: 19.1%
Identity: 17%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: Staphylokinase/streptokinase
Family: Staphylokinase/streptokinase

Phyre2

PDB 1x2g chain B

3D model

Region: 244 - 308
Aligned: 61
Modelled: 65
Confidence: 13.1%
Identity: 15%
PDB header:ligase
Chain: B: PDB Molecule:lipoate-protein ligase a;
PDBTitle: crystal structure of lipate-protein ligase a from2 escherichia coli

Phyre2

PDB 2f1t chain B

3D model

Region: 706 - 810
Aligned: 101
Modelled: 105
Confidence: 12.1%
Identity: 9%
PDB header:membrane protein
Chain: B: PDB Molecule:outer membrane protein w;
PDBTitle: outer membrane protein ompw

Phyre2
1

c2qdzA_
2

c3efcA_
3

c2qczA_
4

c2x8xX_
5

c3mc8A_
6

c3og5A_
7

c2v9hA_
8

c2vh2A_
9

c2vh1A_
10

d1vqza1
11

c2k0lA_
12

c1vqzA_
13

c3t9aA_
14

d2fnaa1
15

c3pjvD_
16

d1x2ga1
17

c2k4vA_
18

d1ssna_
19

c1x2gB_
20

c2f1tB_
21



22



23



24



25



26



27



28



29



30



31



32



33



34



35



36



37






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2qdzA_



100.0 14 PDB header:protein transport
Chain: A: PDB Molecule:tpsb transporter fhac;
PDBTitle: structure of the membrane protein fhac: a member of the2 omp85/tpsb transporter family
2c3efcA_



100.0 100 PDB header:membrane protein
Chain: A: PDB Molecule:outer membrane protein assembly factor yaet;
PDBTitle: crystal structure of yaet periplasmic domain
3c2qczA_



100.0 97 PDB header:membrane protein, protein transport
Chain: A: PDB Molecule:outer membrane protein assembly factor yaet;
PDBTitle: structure of n-terminal domain of e. coli yaet
4c2x8xX_



100.0 21 PDB header:chaperone
Chain: X: PDB Molecule:tlr1789 protein;
PDBTitle: structure of the n-terminal domain of omp85 from the2 thermophilic cyanobacterium thermosynechococcus elongatus
5c3mc8A_



100.0 17 PDB header:membrane protein
Chain: A: PDB Molecule:alr2269 protein;
PDBTitle: potra1-3 of the periplasmic domain of omp85 from anabaena
6c3og5A_



100.0 97 PDB header:protein binding
Chain: A: PDB Molecule:outer membrane protein assembly complex, yaet protein;
PDBTitle: crystal structure of bama potra45 tandem
7c2v9hA_



99.9 100 PDB header:protein-binding
Chain: A: PDB Molecule:outer membrane protein assembly factor yaet;
PDBTitle: solution structure of an escherichia coli yaet tandem potra2 domain
8c2vh2A_



95.6 11 PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein ftsq;
PDBTitle: crystal structure of cell divison protein ftsq from2 yersinia enterecolitica
9c2vh1A_



94.0 15 PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein ftsq;
PDBTitle: crystal structure of bacterial cell division protein ftsq2 from e.coli
10d1vqza1



61.4 13 Fold:SufE/NifU
Superfamily:SufE/NifU
Family:SP1160 C-terminal domain-like
11c2k0lA_



42.0 6 PDB header:membrane protein
Chain: A: PDB Molecule:outer membrane protein a;
PDBTitle: nmr structure of the transmembrane domain of the outer2 membrane protein a from klebsiella pneumoniae in dhpc3 micelles.
12c1vqzA_



40.5 11 PDB header:ligase
Chain: A: PDB Molecule:lipoate-protein ligase, putative;
PDBTitle: crystal structure of a putative lipoate-protein ligase a (sp_1160)2 from streptococcus pneumoniae tigr4 at 1.99 a resolution
13c3t9aA_



31.3 11 PDB header:transferase
Chain: A: PDB Molecule:inositol pyrophosphate kinase;
PDBTitle: crystal structure of the catalytic domain of human diphosphoinositol2 pentakisphosphate kinase 2 (ppip5k2) in complex with amppnp at ph 7.0
14d2fnaa1



29.3 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Helicase DNA-binding domain
15c3pjvD_



25.4 16 PDB header:lyase
Chain: D: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd periplasmic domain
16d1x2ga1



25.1 17 Fold:SufE/NifU
Superfamily:SufE/NifU
Family:SP1160 C-terminal domain-like
17c2k4vA_



24.3 10 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pa1076;
PDBTitle: solution structure of uncharacterized protein pa1076 from2 pseudomonas aeruginosa. northeast structural genomics3 consortium (nesg) target pat3, ontario center for4 structural proteomics target pa1076 .
18d1ssna_



19.1 17 Fold:beta-Grasp (ubiquitin-like)
Superfamily:Staphylokinase/streptokinase
Family:Staphylokinase/streptokinase
19c1x2gB_



13.1 15 PDB header:ligase
Chain: B: PDB Molecule:lipoate-protein ligase a;
PDBTitle: crystal structure of lipate-protein ligase a from2 escherichia coli
20c2f1tB_



12.1 9 PDB header:membrane protein
Chain: B: PDB Molecule:outer membrane protein w;
PDBTitle: outer membrane protein ompw
21c1khdD_



not modelled 10.7 17 PDB header:transferase
Chain: D: PDB Molecule:anthranilate phosphoribosyltransferase;
PDBTitle: crystal structure analysis of the anthranilate2 phosphoribosyltransferase from erwinia carotovora at 1.93 resolution (current name, pectobacterium carotovorum)
22c3bryB_



not modelled 10.5 13 PDB header:transport protein
Chain: B: PDB Molecule:tbux;
PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux
23d1iooa_



not modelled 8.7 15 Fold:Ribonuclease Rh-like
Superfamily:Ribonuclease Rh-like
Family:Ribonuclease Rh-like
24d1bola_



not modelled 8.3 21 Fold:Ribonuclease Rh-like
Superfamily:Ribonuclease Rh-like
Family:Ribonuclease Rh-like
25c1vquB_



not modelled 7.8 15 PDB header:transferase
Chain: B: PDB Molecule:anthranilate phosphoribosyltransferase 2;
PDBTitle: crystal structure of anthranilate phosphoribosyltransferase 22 (17130499) from nostoc sp. at 1.85 a resolution
26d1g90a_



not modelled 7.7 6 Fold:Transmembrane beta-barrels
Superfamily:OMPA-like
Family:Outer membrane protein
27c2x4gA_



not modelled 7.6 26 PDB header:isomerase
Chain: A: PDB Molecule:nucleoside-diphosphate-sugar epimerase;
PDBTitle: crystal structure of pa4631, a nucleoside-diphosphate-sugar2 epimerase from pseudomonas aeruginosa
28c3e19D_



not modelled 7.5 7 PDB header:transcription regulator, metal binding p
Chain: D: PDB Molecule:feoa;
PDBTitle: crystal structure of iron uptake regulatory protein (feoa) solved by2 sulfur sad in a monoclinic space group
29d1t16a_



not modelled 7.4 10 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Outer membrane protein transport protein
30d2saka_



not modelled 6.8 18 Fold:beta-Grasp (ubiquitin-like)
Superfamily:Staphylokinase/streptokinase
Family:Staphylokinase/streptokinase
31c3h0dB_



not modelled 6.7 9 PDB header:transcription/dna
Chain: B: PDB Molecule:ctsr;
PDBTitle: crystal structure of ctsr in complex with a 26bp dna duplex
32d1udxa3



not modelled 6.4 48 Fold:Obg GTP-binding protein C-terminal domain
Superfamily:Obg GTP-binding protein C-terminal domain
Family:Obg GTP-binding protein C-terminal domain
33d1vqqa1



not modelled 6.2 17 Fold:Cystatin-like
Superfamily:NTF2-like
Family:Penicillin binding protein 2a (PBP2A), N-terminal domain
34d1hdoa_



not modelled 5.4 63 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
35c2nn2A_



not modelled 5.3 22 PDB header:transcription
Chain: A: PDB Molecule:zinc finger and btb domain-containing protein 7a;
PDBTitle: crystal structure of the btb domain from the lrf/zbtb72 transcriptional regulator
36c2yy9A_



not modelled 5.3 9 PDB header:transcription
Chain: A: PDB Molecule:zinc finger and btb domain-containing protein 48;
PDBTitle: crystal structure of btb domain from mouse hkr3
37c2glwA_



not modelled 5.2 9 PDB header:transcription
Chain: A: PDB Molecule:92aa long hypothetical protein;
PDBTitle: the solution structure of phs018 from pyrococcus horikoshii

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