Phyre 2 Results for Q9JMT4

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | Q9JMT4
Date | Thu Jan 5 12:38:09 GMT 2012
Unique Job ID | 1d2b5dea1f46d245

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template d1fsea_
Top template information
Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
Confidence and coverage
Confidence: | 48.8% | Coverage: | 20%
41 residues ( 20% of your sequence) have been modelled with 48.8% confidence by the single highest scoring template.
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3D viewing
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Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | Y | C | I | N | T | D | C | T | Y | T | K | I | A | I | E | Q | L | L | H | E | K | Y | F | D | D | R | R | Y | C | H | S | I | K | I | Y | D | L | R | F | F | K | I | E | D | V | A | Y | K | L | I | Q | L | F | K | E | R | R | K | E
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | N | I | I | F | L | C | S | D | R | F | I | H | S | K | E | K | P | R | N | I | F | F | L | D | T | K | D | S | I | R | N | W | S | R | H | L | K | K | L | R | Y | C | N | S | N | L | L | I | C | F | L | F | L | C | G | L | Y | H | I | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | V | F | T | G | K | K | Q | V | I | I | A | C | I | K | K | G | F | S | F | A | E | I | V | N | F | L | N | I | N | A | R | T | L | V | N | Y | L | G | G | L | T | T | Y | F | I | L | P | Y | S | D | S | L | Y | K | Y | I | I | D | N | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200
Sequence |  | I | A | S | S | T | E | E | Y | H | I | L | L | T | N | Q | R | R | Y | Y | V
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

Rank | Aligned region
--- | ---
1 |
| d1fsea_ |

### PDB 1fse chain A

Region: 120 - 160
Aligned: 41
Modelled: 41
Confidence: 48.8%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: C-terminal effector domain of the bipartite response regulators
Family: GerE-like (LuxR/UhpA family of transcriptional regulators)

Phyre2
2 |
| d1p4wa_ |

### PDB 1p4w chain A

Region: 122 - 186
Aligned: 65
Modelled: 65
Confidence: 45.9%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: C-terminal effector domain of the bipartite response regulators
Family: GerE-like (LuxR/UhpA family of transcriptional regulators)

Phyre2
3 |
| c2rnjA_ |

### PDB 2rnj chain A

Region: 119 - 157
Aligned: 39
Modelled: 39
Confidence: 44.2%
Identity: 26%
PDB header:transcription
Chain: A: PDB Molecule:response regulator protein vrar;
PDBTitle: nmr structure of the s. aureus vrar dna binding domain

Phyre2
4 |
| d1sqwa2 |

### PDB 1sqw chain A domain 2

Region: 170 - 200
Aligned: 31
Modelled: 31
Confidence: 38.4%
Identity: 32%
Fold: Cystatin-like
Superfamily: Pre-PUA domain
Family: Nip7p homolog, N-terminal domain

Phyre2
5 |
| c1zljE_ |

### PDB 1zlj chain E

Region: 119 - 160
Aligned: 42
Modelled: 42
Confidence: 30.9%
Identity: 19%
PDB header:transcription
Chain: E: PDB Molecule:dormancy survival regulator;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain

Phyre2
6 |
| c2krfB_ |

### PDB 2krf chain B

Region: 120 - 157
Aligned: 38
Modelled: 38
Confidence: 30.8%
Identity: 29%
PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulatory protein coma;
PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a

Phyre2
7 |
| d1yioa1 |

### PDB 1yio chain A domain 1

Region: 122 - 157
Aligned: 36
Modelled: 36
Confidence: 30.3%
Identity: 22%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: C-terminal effector domain of the bipartite response regulators
Family: GerE-like (LuxR/UhpA family of transcriptional regulators)

Phyre2
8 |
| d1rp3a2 |

### PDB 1rp3 chain A domain 2

Region: 126 - 157
Aligned: 32
Modelled: 32
Confidence: 28.7%
Identity: 16%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family: Sigma4 domain

Phyre2
9 |
| c2jpcA_ |

### PDB 2jpc chain A

Region: 129 - 157
Aligned: 29
Modelled: 29
Confidence: 26.4%
Identity: 21%
PDB header:dna binding protein
Chain: A: PDB Molecule:ssrb;
PDBTitle: ssrb dna binding protein

Phyre2
10 |
| d1a04a1 |

### PDB 1a04 chain A domain 1

Region: 119 - 179
Aligned: 61
Modelled: 61
Confidence: 22.8%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: C-terminal effector domain of the bipartite response regulators
Family: GerE-like (LuxR/UhpA family of transcriptional regulators)

Phyre2
11 |
| d1l3la1 |

### PDB 1l3l chain A domain 1

Region: 122 - 157
Aligned: 36
Modelled: 36
Confidence: 21.5%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: C-terminal effector domain of the bipartite response regulators
Family: GerE-like (LuxR/UhpA family of transcriptional regulators)

Phyre2
12 |
| c3cloC_ |

### PDB 3clo chain C

Region: 118 - 160
Aligned: 43
Modelled: 43
Confidence: 20.3%
Identity: 28%
PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator containing a2 luxr dna binding domain (np_811094.1) from bacteroides3 thetaiotaomicron vpi-5482 at 2.04 a resolution

Phyre2
13 |
| c1x3uA_ |

### PDB 1x3u chain A

Region: 122 - 157
Aligned: 36
Modelled: 36
Confidence: 19.3%
Identity: 17%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein fixj;
PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot

Phyre2
14 |
| d1nh2b_ |

### PDB 1nh2 chain B

Region: 171 - 188
Aligned: 18
Modelled: 18
Confidence: 15.9%
Identity: 17%
Fold: Transcription factor IIA (TFIIA), alpha-helical domain
Superfamily: Transcription factor IIA (TFIIA), alpha-helical domain
Family: Transcription factor IIA (TFIIA), alpha-helical domain

Phyre2
15 |
| d1or7a1 |

### PDB 1or7 chain A domain 1

Region: 126 - 157
Aligned: 32
Modelled: 32
Confidence: 15.2%
Identity: 19%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors
Family: Sigma4 domain

Phyre2
16 |
| c2latA_ |

### PDB 2lat chain A

Region: 104 - 127
Aligned: 24
Modelled: 24
Confidence: 13.3%
Identity: 50%
PDB header:membrane protein
Chain: A: PDB Molecule:dolichyl-diphosphooligosaccharide--protein
PDBTitle: solution structure of a human minimembrane protein ost4

Phyre2
17 |
| c3hugA_ |

### PDB 3hug chain A

Region: 126 - 157
Aligned: 32
Modelled: 32
Confidence: 13.1%
Identity: 31%
PDB header:transcription/membrane protein
Chain: A: PDB Molecule:rna polymerase sigma factor;
PDBTitle: crystal structure of mycobacterium tuberculosis anti-sigma factor rsla2 in complex with -35 promoter binding domain of sigl

Phyre2
18 |
| d2ixoa1 |

### PDB 2ixo chain A domain 1

Region: 97 - 168
Aligned: 64
Modelled: 72
Confidence: 13.1%
Identity: 23%
Fold: PTPA-like
Superfamily: PTPA-like
Family: PTPA-like

Phyre2
19 |
| c2pcoA_ |

### PDB 2pco chain A

Region: 92 - 100
Aligned: 9
Modelled: 9
Confidence: 12.6%
Identity: 78%
PDB header:toxin
Chain: A: PDB Molecule:latarcin-1;
PDBTitle: spatial structure and membrane permeabilization for2 latarcin-1, a spider antimicrobial peptide

Phyre2
20 |
| d1gxla_ |

### PDB 1gxl chain A

Region: 44 - 115
Aligned: 66
Modelled: 72
Confidence: 12.3%
Identity: 21%
Fold: Smc hinge domain
Superfamily: Smc hinge domain
Family: Smc hinge domain

Phyre2
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 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1fsea_ |
|  | 48.8 | 17 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
2 | d1p4wa_ |
|  | 45.9 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
3 | c2rnjA_ |
|  | 44.2 | 26 | PDB header:transcription Chain: A: PDB Molecule:response regulator protein vrar; PDBTitle: nmr structure of the s. aureus vrar dna binding domain
4 | d1sqwa2 |
|  | 38.4 | 32 | Fold:Cystatin-like Superfamily:Pre-PUA domain Family:Nip7p homolog, N-terminal domain
5 | c1zljE_ |
|  | 30.9 | 19 | PDB header:transcription Chain: E: PDB Molecule:dormancy survival regulator; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain
6 | c2krfB_ |
|  | 30.8 | 29 | PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein coma; PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a
7 | d1yioa1 |
|  | 30.3 | 22 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
8 | d1rp3a2 |
|  | 28.7 | 16 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain
9 | c2jpcA_ |
|  | 26.4 | 21 | PDB header:dna binding protein Chain: A: PDB Molecule:ssrb; PDBTitle: ssrb dna binding protein
10 | d1a04a1 |
|  | 22.8 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
11 | d1l3la1 |
|  | 21.5 | 17 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
12 | c3cloC_ |
|  | 20.3 | 28 | PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator containing a2 luxr dna binding domain (np_811094.1) from bacteroides3 thetaiotaomicron vpi-5482 at 2.04 a resolution
13 | c1x3uA_ |
|  | 19.3 | 17 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein fixj; PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot
14 | d1nh2b_ |
|  | 15.9 | 17 | Fold:Transcription factor IIA (TFIIA), alpha-helical domain Superfamily:Transcription factor IIA (TFIIA), alpha-helical domain Family:Transcription factor IIA (TFIIA), alpha-helical domain
15 | d1or7a1 |
|  | 15.2 | 19 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain
16 | c2latA_ |
|  | 13.3 | 50 | PDB header:membrane protein Chain: A: PDB Molecule:dolichyl-diphosphooligosaccharide--protein PDBTitle: solution structure of a human minimembrane protein ost4
17 | c3hugA_ |
|  | 13.1 | 31 | PDB header:transcription/membrane protein Chain: A: PDB Molecule:rna polymerase sigma factor; PDBTitle: crystal structure of mycobacterium tuberculosis anti-sigma factor rsla2 in complex with -35 promoter binding domain of sigl
18 | d2ixoa1 |
|  | 13.1 | 23 | Fold:PTPA-like Superfamily:PTPA-like Family:PTPA-like
19 | c2pcoA_ |
|  | 12.6 | 78 | PDB header:toxin Chain: A: PDB Molecule:latarcin-1; PDBTitle: spatial structure and membrane permeabilization for2 latarcin-1, a spider antimicrobial peptide
20 | d1gxla_ |
|  | 12.3 | 21 | Fold:Smc hinge domain Superfamily:Smc hinge domain Family:Smc hinge domain
21 | d1nvpb_ |
| not modelled | 11.6 | 22 | Fold:Transcription factor IIA (TFIIA), alpha-helical domain Superfamily:Transcription factor IIA (TFIIA), alpha-helical domain Family:Transcription factor IIA (TFIIA), alpha-helical domain
22 | c1nvpB_ |
| not modelled | 11.6 | 22 | PDB header:transcription/dna Chain: B: PDB Molecule:transcription initiation factor iia alpha chain; PDBTitle: human tfiia/tbp/dna complex
23 | c3sztB_ |
| not modelled | 11.5 | 22 | PDB header:transcription Chain: B: PDB Molecule:quorum-sensing control repressor; PDBTitle: quorum sensing control repressor, qscr, bound to n-3-oxo-dodecanoyl-l-2 homoserine lactone
24 | c3c3wB_ |
| not modelled | 7.9 | 17 | PDB header:transcription Chain: B: PDB Molecule:two component transcriptional regulatory protein devr; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic response2 regulator dosr
25 | c2x3gA_ |
| not modelled | 7.8 | 80 | PDB header:viral protein Chain: A: PDB Molecule:sirv1 hypothetical protein orf119; PDBTitle: crystal structure of the hypothetical protein orf119 from2 sulfolobus islandicus rod-shaped virus 1
26 | d1u1ha1 |
| not modelled | 7.7 | 29 | Fold:TIM beta/alpha-barrel Superfamily:UROD/MetE-like Family:Cobalamin-independent methionine synthase
27 | d1xsva_ |
| not modelled | 6.9 | 13 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-like
28 | c2uvpB_ |
| not modelled | 6.5 | 58 | PDB header:unknown function Chain: B: PDB Molecule:hoba; PDBTitle: crystal structure of hoba (hp1230)from helicobacter pylori
29 | d1b0na2 |
| not modelled | 6.5 | 15 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
30 | d1vp7a_ |
| not modelled | 6.4 | 25 | Fold:Spectrin repeat-like Superfamily:XseB-like Family:XseB-like
31 | c3e3vA_ |
| not modelled | 6.1 | 26 | PDB header:recombination Chain: A: PDB Molecule:regulatory protein recx; PDBTitle: crystal structure of recx from lactobacillus salivarius
32 | d1kxpd3 |
| not modelled | 5.9 | 40 | Fold:Serum albumin-like Superfamily:Serum albumin-like Family:Serum albumin-like
33 | c3d5lA_ |
| not modelled | 5.9 | 26 | PDB header:signaling protein Chain: A: PDB Molecule:regulatory protein recx; PDBTitle: crystal structure of regulatory protein recx
34 | c3mzyA_ |
| not modelled | 5.9 | 22 | PDB header:rna binding protein Chain: A: PDB Molecule:rna polymerase sigma-h factor; PDBTitle: the crystal structure of the rna polymerase sigma-h factor from2 fusobacterium nucleatum to 2.5a
35 | c2cxaA_ |
| not modelled | 5.7 | 27 | PDB header:transferase Chain: A: PDB Molecule:leucyl/phenylalanyl-trna-protein transferase; PDBTitle: crystal structure of leucyl/phenylalanyl-trna protein2 transferase from escherichia coli
36 | d2cxaa1 |
| not modelled | 5.7 | 27 | Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:LFTR-like
37 | d2go8a1 |
| not modelled | 5.7 | 31 | Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:PG130-like
38 | c2jmlA_ |
| not modelled | 5.6 | 19 | PDB header:transcription Chain: A: PDB Molecule:dna binding domain/transcriptional regulator; PDBTitle: solution structure of the n-terminal domain of cara repressor
39 | c2o8xA_ |
| not modelled | 5.4 | 13 | PDB header:transcription Chain: A: PDB Molecule:probable rna polymerase sigma-c factor; PDBTitle: crystal structure of the "-35 element" promoter recognition domain of2 mycobacterium tuberculosis sigc
40 | c3ltiA_ |
| not modelled | 5.3 | 36 | PDB header:transferase Chain: A: PDB Molecule:dna-directed rna polymerase subunit beta; PDBTitle: crystal structure of the escherichia coli rna polymerase beta subunit2 beta2-betai4 domains
41 | c1u22A_ |
| not modelled | 5.3 | 29 | PDB header:transferase Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate-- PDBTitle: a. thaliana cobalamine independent methionine synthase
42 | c3zr8X_ |
| not modelled | 5.2 | 31 | PDB header:protein binding Chain: X: PDB Molecule:avr3a11; PDBTitle: crystal structure of rxlr effector avr3a11 from phytophthora capsici
43 | c2lc2A_ |
| not modelled | 5.1 | 33 | PDB header:protein binding Chain: A: PDB Molecule:avr3a4; PDBTitle: solution structure of the rxlr effector p. capsici avr3a4
44 | c2a7uB_ |
| not modelled | 5.1 | 13 | PDB header:hydrolase Chain: B: PDB Molecule:atp synthase delta chain; PDBTitle: nmr solution structure of the e.coli f-atpase delta subunit n-terminal2 domain in complex with alpha subunit n-terminal 22 residues
45 | d1abva_ |
| not modelled | 5.1 | 13 | Fold:ATPD N-terminal domain-like Superfamily:N-terminal domain of the delta subunit of the F1F0-ATP synthase Family:N-terminal domain of the delta subunit of the F1F0-ATP synthase

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
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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