Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP15029
DateThu Jan 5 11:34:13 GMT 2012
Unique Job ID1c8a5da8bf0a3b23

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1l7va_
Top template information
Fold:ABC transporter involved in vitamin B12 uptake, BtuC
Superfamily:ABC transporter involved in vitamin B12 uptake, BtuC
Family:ABC transporter involved in vitamin B12 uptake, BtuC
Confidence and coverage
Confidence:100.0% Coverage: 97%
309 residues ( 97% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

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












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Disorder  ??




















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   .........70.........80.........90.........100.........110.........120
Sequence  VGAALAVAGVLIQGIVRNPLASPDILGVNHAASLASVGALLLMPSLPVMVLPLLAFAGGM
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   .........130.........140.........150.........160.........170.........180
Sequence  AGLILLKMLAKTHQPMKLALTGVALSACWASLTDYLMLSRPQDVNNALLWLTGSLWGRDW
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   .........190.........200.........210.........220.........230.........240
Sequence  SFVKIAIPLMILFLPLSLSFCRDLDLLALGDARATTLGVSVPHTRFWALLLAVAMTSTGV
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   .........250.........260.........270.........280.........290.........300
Sequence  AACGPISFIGLVVPHMMRSITGGRHRRLLPVSALTGALLLVVADLLARIIHPPLELPVGV
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   .........310........
Sequence  LTAIIGAPWFVWLLVRMR
Secondary structure 

SS confidence 

















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 1l7v chain A

3D model

Region: 2 - 316
Aligned: 309
Modelled: 315
Confidence: 100.0%
Identity: 33%
Fold: ABC transporter involved in vitamin B12 uptake, BtuC
Superfamily: ABC transporter involved in vitamin B12 uptake, BtuC
Family: ABC transporter involved in vitamin B12 uptake, BtuC

Phyre2

PDB 2nq2 chain A

3D model

Region: 5 - 316
Aligned: 302
Modelled: 312
Confidence: 100.0%
Identity: 31%
PDB header:metal transport
Chain: A: PDB Molecule:hypothetical abc transporter permease protein
PDBTitle: an inward-facing conformation of a putative metal-chelate2 type abc transporter.

Phyre2

PDB 2b2h chain A

3D model

Region: 49 - 221
Aligned: 166
Modelled: 173
Confidence: 47.3%
Identity: 12%
PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter;
PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)

Phyre2

PDB 1q1h chain A

3D model

Region: 210 - 231
Aligned: 22
Modelled: 22
Confidence: 24.0%
Identity: 27%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Transcription factor E/IIe-alpha, N-terminal domain

Phyre2

PDB 1q1h chain A

3D model

Region: 210 - 231
Aligned: 22
Modelled: 22
Confidence: 24.0%
Identity: 27%
PDB header:transcription
Chain: A: PDB Molecule:transcription factor e;
PDBTitle: an extended winged helix domain in general transcription2 factor e/iie alpha

Phyre2

PDB 3dh4 chain A

3D model

Region: 3 - 203
Aligned: 193
Modelled: 201
Confidence: 6.4%
Identity: 10%
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 3u5e chain L

3D model

Region: 203 - 222
Aligned: 20
Modelled: 20
Confidence: 5.2%
Identity: 30%
PDB header:ribosome
Chain: L: PDB Molecule:60s ribosomal protein l13-a;
PDBTitle: the structure of the eukaryotic ribosome at 3.0 resolution

Phyre2
1

d1l7va_
2

c2nq2A_
3

c2b2hA_
4

d1q1ha_
5

c1q1hA_
6

c3dh4A_
7

c3u5eL_



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1l7va_



100.0 33 Fold:ABC transporter involved in vitamin B12 uptake, BtuC
Superfamily:ABC transporter involved in vitamin B12 uptake, BtuC
Family:ABC transporter involved in vitamin B12 uptake, BtuC
2c2nq2A_



100.0 31 PDB header:metal transport
Chain: A: PDB Molecule:hypothetical abc transporter permease protein
PDBTitle: an inward-facing conformation of a putative metal-chelate2 type abc transporter.
3c2b2hA_



47.3 12 PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter;
PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)
4d1q1ha_



24.0 27 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcription factor E/IIe-alpha, N-terminal domain
5c1q1hA_



24.0 27 PDB header:transcription
Chain: A: PDB Molecule:transcription factor e;
PDBTitle: an extended winged helix domain in general transcription2 factor e/iie alpha
6c3dh4A_



6.4 10 PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus
7c3u5eL_



5.2 30 PDB header:ribosome
Chain: L: PDB Molecule:60s ribosomal protein l13-a;
PDBTitle: the structure of the eukaryotic ribosome at 3.0 resolution

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