Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP31437
DateThu Jan 5 11:47:28 GMT 2012
Unique Job IDa0ccb5beb37107d7

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1s7ba_
Top template information
Fold:Multidrug resistance efflux transporter EmrE
Superfamily:Multidrug resistance efflux transporter EmrE
Family:Multidrug resistance efflux transporter EmrE
Confidence and coverage
Confidence: 97.7% Coverage: 24%
74 residues ( 24% of your sequence) have been modelled with 97.7% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

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











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   .........70.........80.........90.........100.........110.........120
Sequence  KIFSIINNHKDAISLLIFSVVGALTVQLTFLLTIEKSNAATATVLQFLSPTIIVAWFSLV
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   .........130.........140.........150.........160.........170.........180
Sequence  RKSRPGILVFCAILTSLVGTFLLVTHGNPTSLSISPAALFWGIASAFAAAFYTTYPSTLI
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?
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   .........190.........200.........210.........220.........230.........240
Sequence  ARYGTLPVVGWSMLIGGLILLPFYARQGTNFVVNGSLILAFFYLVVIGTSLTFSLYLKGA
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   .........250.........260.........270.........280.........290.........300
Sequence  QLIGGPKASILSCAEPLSSALLSLLLLGITFTLPDWLGTLLILSSVILISMDSRRRARKI
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??
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???????????
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   .......
Sequence  NRPARHK
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 1s7b chain A

3D model

Region: 224 - 297
Aligned: 74
Modelled: 74
Confidence: 97.7%
Identity: 27%
Fold: Multidrug resistance efflux transporter EmrE
Superfamily: Multidrug resistance efflux transporter EmrE
Family: Multidrug resistance efflux transporter EmrE

Phyre2

PDB 2i68 chain B

3D model

Region: 228 - 291
Aligned: 58
Modelled: 64
Confidence: 84.2%
Identity: 22%
PDB header:transport protein
Chain: B: PDB Molecule:protein emre;
PDBTitle: cryo-em based theoretical model structure of transmembrane2 domain of the multidrug-resistance antiporter from e. coli3 emre

Phyre2

PDB 2xq2 chain A

3D model

Region: 158 - 307
Aligned: 148
Modelled: 150
Confidence: 75.8%
Identity: 13%
PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: structure of the k294a mutant of vsglt

Phyre2

PDB 3b9y chain A

3D model

Region: 12 - 236
Aligned: 224
Modelled: 225
Confidence: 46.7%
Identity: 12%
PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter family rh-like protein;
PDBTitle: crystal structure of the nitrosomonas europaea rh protein

Phyre2

PDB 3aqp chain B

3D model

Region: 215 - 306
Aligned: 92
Modelled: 92
Confidence: 42.8%
Identity: 21%
PDB header:membrane protein
Chain: B: PDB Molecule:probable secdf protein-export membrane protein;
PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus

Phyre2

PDB 3rko chain F

3D model

Region: 130 - 300
Aligned: 161
Modelled: 171
Confidence: 36.8%
Identity: 12%
PDB header:oxidoreductase
Chain: F: PDB Molecule:nadh-quinone oxidoreductase subunit j;
PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution

Phyre2

PDB 1iwg chain A domain 8

3D model

Region: 221 - 307
Aligned: 87
Modelled: 87
Confidence: 35.3%
Identity: 14%
Fold: Multidrug efflux transporter AcrB transmembrane domain
Superfamily: Multidrug efflux transporter AcrB transmembrane domain
Family: Multidrug efflux transporter AcrB transmembrane domain

Phyre2

PDB 3dh4 chain A

3D model

Region: 158 - 307
Aligned: 148
Modelled: 150
Confidence: 26.2%
Identity: 12%
PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus

Phyre2

PDB 3lrc chain C

3D model

Region: 177 - 300
Aligned: 124
Modelled: 124
Confidence: 25.6%
Identity: 10%
PDB header:transport protein
Chain: C: PDB Molecule:arginine/agmatine antiporter;
PDBTitle: structure of e. coli adic (p1)

Phyre2

PDB 2jo1 chain A

3D model

Region: 276 - 307
Aligned: 32
Modelled: 32
Confidence: 25.4%
Identity: 9%
PDB header:hydrolase regulator
Chain: A: PDB Molecule:phospholemman;
PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles

Phyre2

PDB 1iwg chain A domain 7

3D model

Region: 207 - 307
Aligned: 101
Modelled: 101
Confidence: 23.2%
Identity: 11%
Fold: Multidrug efflux transporter AcrB transmembrane domain
Superfamily: Multidrug efflux transporter AcrB transmembrane domain
Family: Multidrug efflux transporter AcrB transmembrane domain

Phyre2

PDB 2jp3 chain A

3D model

Region: 276 - 307
Aligned: 32
Modelled: 32
Confidence: 22.8%
Identity: 16%
PDB header:transcription
Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4;
PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles

Phyre2

PDB 2knc chain A

3D model

Region: 273 - 307
Aligned: 35
Modelled: 35
Confidence: 15.6%
Identity: 26%
PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex

Phyre2

PDB 3dtu chain B domain 2

3D model

Region: 276 - 307
Aligned: 32
Modelled: 32
Confidence: 15.0%
Identity: 9%
Fold: Transmembrane helix hairpin
Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region
Family: Cytochrome c oxidase subunit II-like, transmembrane region

Phyre2

PDB 1fft chain B domain 2

3D model

Region: 281 - 307
Aligned: 27
Modelled: 27
Confidence: 12.9%
Identity: 7%
Fold: Transmembrane helix hairpin
Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region
Family: Cytochrome c oxidase subunit II-like, transmembrane region

Phyre2

PDB 3m7b chain A

3D model

Region: 122 - 306
Aligned: 185
Modelled: 185
Confidence: 12.1%
Identity: 18%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:tellurite resistance protein teha homolog;
PDBTitle: crystal structure of plant slac1 homolog teha

Phyre2

PDB 1pw4 chain A

3D model

Region: 3 - 306
Aligned: 303
Modelled: 304
Confidence: 11.7%
Identity: 10%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: Glycerol-3-phosphate transporter

Phyre2

PDB 1wpg chain A domain 4

3D model

Region: 2 - 183
Aligned: 182
Modelled: 182
Confidence: 10.4%
Identity: 11%
Fold: Calcium ATPase, transmembrane domain M
Superfamily: Calcium ATPase, transmembrane domain M
Family: Calcium ATPase, transmembrane domain M

Phyre2

PDB 2oar chain A domain 1

3D model

Region: 273 - 307
Aligned: 35
Modelled: 35
Confidence: 9.7%
Identity: 6%
Fold: Gated mechanosensitive channel
Superfamily: Gated mechanosensitive channel
Family: Gated mechanosensitive channel

Phyre2

PDB 2hg5 chain D

3D model

Region: 275 - 307
Aligned: 33
Modelled: 33
Confidence: 9.5%
Identity: 3%
PDB header:membrane protein
Chain: D: PDB Molecule:kcsa channel;
PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter

Phyre2
1

d1s7ba_
2

c2i68B_
3

c2xq2A_
4

c3b9yA_
5

c3aqpB_
6

c3rkoF_
7

d1iwga8
8

c3dh4A_
9

c3lrcC_
10

c2jo1A_
11

d1iwga7
12

c2jp3A_
13

c2kncA_
14

d3dtub2
15

d1fftb2
16

c3m7bA_
17

d1pw4a_
18

d1wpga4
19

d2oara1
20

c2hg5D_
21



22



23



24



25



26



27



28



29






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1s7ba_



97.7 27 Fold:Multidrug resistance efflux transporter EmrE
Superfamily:Multidrug resistance efflux transporter EmrE
Family:Multidrug resistance efflux transporter EmrE
2c2i68B_



84.2 22 PDB header:transport protein
Chain: B: PDB Molecule:protein emre;
PDBTitle: cryo-em based theoretical model structure of transmembrane2 domain of the multidrug-resistance antiporter from e. coli3 emre
3c2xq2A_



75.8 13 PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: structure of the k294a mutant of vsglt
4c3b9yA_



46.7 12 PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter family rh-like protein;
PDBTitle: crystal structure of the nitrosomonas europaea rh protein
5c3aqpB_



42.8 21 PDB header:membrane protein
Chain: B: PDB Molecule:probable secdf protein-export membrane protein;
PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus
6c3rkoF_



36.8 12 PDB header:oxidoreductase
Chain: F: PDB Molecule:nadh-quinone oxidoreductase subunit j;
PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution
7d1iwga8



35.3 14 Fold:Multidrug efflux transporter AcrB transmembrane domain
Superfamily:Multidrug efflux transporter AcrB transmembrane domain
Family:Multidrug efflux transporter AcrB transmembrane domain
8c3dh4A_



26.2 12 PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus
9c3lrcC_



25.6 10 PDB header:transport protein
Chain: C: PDB Molecule:arginine/agmatine antiporter;
PDBTitle: structure of e. coli adic (p1)
10c2jo1A_



25.4 9 PDB header:hydrolase regulator
Chain: A: PDB Molecule:phospholemman;
PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles
11d1iwga7



23.2 11 Fold:Multidrug efflux transporter AcrB transmembrane domain
Superfamily:Multidrug efflux transporter AcrB transmembrane domain
Family:Multidrug efflux transporter AcrB transmembrane domain
12c2jp3A_



22.8 16 PDB header:transcription
Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4;
PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles
13c2kncA_



15.6 26 PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
14d3dtub2



15.0 9 Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
15d1fftb2



12.9 7 Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
16c3m7bA_



12.1 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:tellurite resistance protein teha homolog;
PDBTitle: crystal structure of plant slac1 homolog teha
17d1pw4a_



11.7 10 Fold:MFS general substrate transporter
Superfamily:MFS general substrate transporter
Family:Glycerol-3-phosphate transporter
18d1wpga4



10.4 11 Fold:Calcium ATPase, transmembrane domain M
Superfamily:Calcium ATPase, transmembrane domain M
Family:Calcium ATPase, transmembrane domain M
19d2oara1



9.7 6 Fold:Gated mechanosensitive channel
Superfamily:Gated mechanosensitive channel
Family:Gated mechanosensitive channel
20c2hg5D_



9.5 3 PDB header:membrane protein
Chain: D: PDB Molecule:kcsa channel;
PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter
21c2akhZ_



not modelled 8.7 16 PDB header:protein transport
Chain: Z: PDB Molecule:preprotein translocase sece subunit;
PDBTitle: normal mode-based flexible fitted coordinates of a non-2 translocating secyeg protein-conducting channel into the3 cryo-em map of a secyeg-nascent chain-70s ribosome complex4 from e. coli
22d3ehbb2



not modelled 8.5 9 Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
23c1wazA_



not modelled 8.2 26 PDB header:transport protein
Chain: A: PDB Molecule:merf;
PDBTitle: nmr structure determination of the bacterial mercury2 transporter, merf, in micelles
24c2w8aC_



not modelled 8.0 12 PDB header:membrane protein
Chain: C: PDB Molecule:glycine betaine transporter betp;
PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate
25c2jwaA_



not modelled 7.2 23 PDB header:transferase
Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2;
PDBTitle: erbb2 transmembrane segment dimer spatial structure
26c2oarA_



not modelled 6.9 6 PDB header:membrane protein
Chain: A: PDB Molecule:large-conductance mechanosensitive channel;
PDBTitle: mechanosensitive channel of large conductance (mscl)
27c2k21A_



not modelled 6.4 17 PDB header:membrane protein
Chain: A: PDB Molecule:potassium voltage-gated channel subfamily e
PDBTitle: nmr structure of human kcne1 in lmpg micelles at ph 6.0 and2 40 degree c
28c2rddB_



not modelled 6.3 6 PDB header:membrane protein/transport protein
Chain: B: PDB Molecule:upf0092 membrane protein yajc;
PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix.
29c2b2hA_



not modelled 5.4 12 PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter;
PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)

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