Phyre 2 Results for P69348

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | P69348
Date | Thu Jan 5 12:11:24 GMT 2012
Unique Job ID | bb62f62bf0e83e8a

Summary |

Top model
Image coloured by rainbow N → C terminus
| Close Jmol

Model (left) based on template d2a6sa1
Top template information
Fold:RelE-like Superfamily:RelE-like Family:YoeB/Txe-like
Confidence and coverage
Confidence: | 100.0% | Coverage: | 99%
83 residues ( 99% 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 |  | M | K | L | I | W | S | E | E | S | W | D | D | Y | L | Y | W | Q | E | T | D | K | R | I | V | K | K | I | N | E | L | I | K | D | T | R | R | T | P | F | E | G | K | G | K | P | E | P | L | K | H | N | L | S | G | F | W | S | R | R | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | .
Sequence |  | T | E | E | H | R | L | V | Y | A | V | T | D | D | S | L | L | I | A | A | C | R | Y | H | Y
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 |
| d2a6sa1 |

### PDB 2a6s chain A domain 1

Region: 1 - 83
Aligned: 83
Modelled: 83
Confidence: 100.0%
Identity: 100%
Fold: RelE-like
Superfamily: RelE-like
Family: YoeB/Txe-like

Phyre2
2 |
| c3oeiH_ |

### PDB 3oei chain H

Region: 2 - 84
Aligned: 83
Modelled: 83
Confidence: 100.0%
Identity: 46%
PDB header:toxin, protein binding
Chain: H: PDB Molecule:relk (toxin rv3358);
PDBTitle: crystal structure of mycobacterium tuberculosis reljk (rv3357-rv3358-2 relbe3)

Phyre2
3 |
| d1z8ma1 |

### PDB 1z8m chain A domain 1

Region: 1 - 83
Aligned: 83
Modelled: 83
Confidence: 99.8%
Identity: 19%
Fold: RelE-like
Superfamily: RelE-like
Family: RelE-like

Phyre2
4 |
| c2otrA_ |

### PDB 2otr chain A

Region: 1 - 83
Aligned: 83
Modelled: 83
Confidence: 99.8%
Identity: 18%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein hp0892;
PDBTitle: solution structure of conserved hypothetical protein hp0892 from2 helicobacter pylori

Phyre2
5 |
| c2kheA_ |

### PDB 2khe chain A

Region: 2 - 83
Aligned: 78
Modelled: 82
Confidence: 99.4%
Identity: 18%
PDB header:hydrolase
Chain: A: PDB Molecule:toxin-like protein;
PDBTitle: solution structure of the bacterial toxin rele from thermus2 thermophilus hb8

Phyre2
6 |
| c3bpqD_ |

### PDB 3bpq chain D

Region: 3 - 83
Aligned: 76
Modelled: 81
Confidence: 99.3%
Identity: 13%
PDB header:toxin
Chain: D: PDB Molecule:toxin rele3;
PDBTitle: crystal structure of relb-rele antitoxin-toxin complex from2 methanococcus jannaschii

Phyre2
7 |
| c3g5oC_ |

### PDB 3g5o chain C

Region: 1 - 82
Aligned: 75
Modelled: 82
Confidence: 99.3%
Identity: 25%
PDB header:toxin/antitoxin
Chain: C: PDB Molecule:uncharacterized protein rv2866;
PDBTitle: the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2 2866) from mycobacterium tuberculosis

Phyre2
8 |
| d1wmia1 |

### PDB 1wmi chain A domain 1

Region: 2 - 83
Aligned: 78
Modelled: 82
Confidence: 99.3%
Identity: 14%
Fold: RelE-like
Superfamily: RelE-like
Family: RelE-like

Phyre2
9 |
| c3kixy_ |

### PDB 3kix chain Y

Region: 2 - 82
Aligned: 75
Modelled: 75
Confidence: 98.6%
Identity: 15%
PDB header:ribosome
Chain: Y: PDB Molecule:
PDBTitle: structure of rele nuclease bound to the 70s ribosome2 (postcleavage state; part 3 of 4)

Phyre2
10 |
| c3kxeB_ |

### PDB 3kxe chain B

Region: 2 - 82
Aligned: 75
Modelled: 77
Confidence: 97.5%
Identity: 16%
PDB header:protein binding
Chain: B: PDB Molecule:toxin protein pare-1;
PDBTitle: a conserved mode of protein recognition and binding in a2 pard-pare toxin-antitoxin complex

Phyre2
11 |
| d2p2ea1 |

### PDB 2p2e chain A domain 1

Region: 1 - 15
Aligned: 15
Modelled: 15
Confidence: 32.3%
Identity: 7%
Fold: HesB-like domain
Superfamily: HesB-like domain
Family: HesB-like domain

Phyre2
12 |
| c2qgoA_ |

### PDB 2qgo chain A

Region: 1 - 15
Aligned: 15
Modelled: 15
Confidence: 31.9%
Identity: 7%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:putative fe-s biosynthesis protein;
PDBTitle: crystal structure of a putative fe-s biosynthesis protein from2 lactobacillus acidophilus

Phyre2
13 |
| d3bb9a1 |

### PDB 3bb9 chain A domain 1

Region: 39 - 67
Aligned: 29
Modelled: 29
Confidence: 24.1%
Identity: 7%
Fold: Cystatin-like
Superfamily: NTF2-like
Family: SO0125-like

Phyre2
14 |
| d2qn6a2 |

### PDB 2qn6 chain A domain 2

Region: 57 - 67
Aligned: 11
Modelled: 11
Confidence: 22.0%
Identity: 36%
Fold: Elongation factor/aminomethyltransferase common domain
Superfamily: EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
Family: EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain

Phyre2
15 |
| d1s0ua2 |

### PDB 1s0u chain A domain 2

Region: 57 - 67
Aligned: 11
Modelled: 11
Confidence: 21.9%
Identity: 45%
Fold: Elongation factor/aminomethyltransferase common domain
Superfamily: EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
Family: EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain

Phyre2
16 |
| c2l09A_ |

### PDB 2l09 chain A

Region: 1 - 15
Aligned: 15
Modelled: 15
Confidence: 20.7%
Identity: 27%
PDB header:oxidoreductase
Chain: A: PDB Molecule:asr4154 protein;
PDBTitle: solution nmr structure of protein asr4154 from nostoc sp. pcc71202 northeast structural genomics consortium target id nsr143

Phyre2
17 |
| d1kk1a2 |

### PDB 1kk1 chain A domain 2

Region: 57 - 67
Aligned: 11
Modelled: 11
Confidence: 20.5%
Identity: 45%
Fold: Elongation factor/aminomethyltransferase common domain
Superfamily: EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
Family: EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain

Phyre2
18 |
| d3e9va1 |

### PDB 3e9v chain A domain 1

Region: 14 - 62
Aligned: 47
Modelled: 49
Confidence: 17.7%
Identity: 15%
Fold: BTG domain-like
Superfamily: BTG domain-like
Family: BTG domain-like

Phyre2
19 |
| c1wmvA_ |

### PDB 1wmv chain A

Region: 41 - 68
Aligned: 28
Modelled: 28
Confidence: 16.2%
Identity: 18%
PDB header:oxidoreductase, apoptosis
Chain: A: PDB Molecule:ww domain containing oxidoreductase;
PDBTitle: solution structure of the second ww domain of wwox

Phyre2
20 |
| c2dogA_ |

### PDB 2dog chain A

Region: 42 - 83
Aligned: 41
Modelled: 42
Confidence: 14.5%
Identity: 22%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:probable 16s rrna-processing protein rimm;
PDBTitle: solution structure of the n-terminal domain of rimm from thermus2 thermophilus hb8

Phyre2
21 |
22 |
23 |
24 |
25 |
26 |
27 |
28 |
29 |
30 |
31 |
32 |
33 |
34 |
35 |
36 |
37 |
38 |
39 |
40 |
41 |
42 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d2a6sa1 |
|  | 100.0 | 100 | Fold:RelE-like Superfamily:RelE-like Family:YoeB/Txe-like
2 | c3oeiH_ |
|  | 100.0 | 46 | PDB header:toxin, protein binding Chain: H: PDB Molecule:relk (toxin rv3358); PDBTitle: crystal structure of mycobacterium tuberculosis reljk (rv3357-rv3358-2 relbe3)
3 | d1z8ma1 |
|  | 99.8 | 19 | Fold:RelE-like Superfamily:RelE-like Family:RelE-like
4 | c2otrA_ |
|  | 99.8 | 18 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein hp0892; PDBTitle: solution structure of conserved hypothetical protein hp0892 from2 helicobacter pylori
5 | c2kheA_ |
|  | 99.4 | 18 | PDB header:hydrolase Chain: A: PDB Molecule:toxin-like protein; PDBTitle: solution structure of the bacterial toxin rele from thermus2 thermophilus hb8
6 | c3bpqD_ |
|  | 99.3 | 13 | PDB header:toxin Chain: D: PDB Molecule:toxin rele3; PDBTitle: crystal structure of relb-rele antitoxin-toxin complex from2 methanococcus jannaschii
7 | c3g5oC_ |
|  | 99.3 | 25 | PDB header:toxin/antitoxin Chain: C: PDB Molecule:uncharacterized protein rv2866; PDBTitle: the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2 2866) from mycobacterium tuberculosis
8 | d1wmia1 |
|  | 99.3 | 14 | Fold:RelE-like Superfamily:RelE-like Family:RelE-like
9 | c3kixy_ |
|  | 98.6 | 15 | PDB header:ribosome Chain: Y: PDB Molecule: PDBTitle: structure of rele nuclease bound to the 70s ribosome2 (postcleavage state; part 3 of 4)
10 | c3kxeB_ |
|  | 97.5 | 16 | PDB header:protein binding Chain: B: PDB Molecule:toxin protein pare-1; PDBTitle: a conserved mode of protein recognition and binding in a2 pard-pare toxin-antitoxin complex
11 | d2p2ea1 |
|  | 32.3 | 7 | Fold:HesB-like domain Superfamily:HesB-like domain Family:HesB-like domain
12 | c2qgoA_ |
|  | 31.9 | 7 | PDB header:biosynthetic protein Chain: A: PDB Molecule:putative fe-s biosynthesis protein; PDBTitle: crystal structure of a putative fe-s biosynthesis protein from2 lactobacillus acidophilus
13 | d3bb9a1 |
|  | 24.1 | 7 | Fold:Cystatin-like Superfamily:NTF2-like Family:SO0125-like
14 | d2qn6a2 |
|  | 22.0 | 36 | Fold:Elongation factor/aminomethyltransferase common domain Superfamily:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Family:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
15 | d1s0ua2 |
|  | 21.9 | 45 | Fold:Elongation factor/aminomethyltransferase common domain Superfamily:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Family:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
16 | c2l09A_ |
|  | 20.7 | 27 | PDB header:oxidoreductase Chain: A: PDB Molecule:asr4154 protein; PDBTitle: solution nmr structure of protein asr4154 from nostoc sp. pcc71202 northeast structural genomics consortium target id nsr143
17 | d1kk1a2 |
|  | 20.5 | 45 | Fold:Elongation factor/aminomethyltransferase common domain Superfamily:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Family:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
18 | d3e9va1 |
|  | 17.7 | 15 | Fold:BTG domain-like Superfamily:BTG domain-like Family:BTG domain-like
19 | c1wmvA_ |
|  | 16.2 | 18 | PDB header:oxidoreductase, apoptosis Chain: A: PDB Molecule:ww domain containing oxidoreductase; PDBTitle: solution structure of the second ww domain of wwox
20 | c2dogA_ |
|  | 14.5 | 22 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:probable 16s rrna-processing protein rimm; PDBTitle: solution structure of the n-terminal domain of rimm from thermus2 thermophilus hb8
21 | d2ux0a1 |
| not modelled | 13.6 | 26 | Fold:Cystatin-like Superfamily:NTF2-like Family:Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A
22 | c2kruA_ |
| not modelled | 13.3 | 21 | PDB header:oxidoreductase Chain: A: PDB Molecule:light-independent protochlorophyllide reductase PDBTitle: solution nmr structure of the pcp_red domain of light-2 independent protochlorophyllide reductase subunit b from3 chlorobium tepidum. northeast structural genomics4 consortium target ctr69a (casp target)
23 | c2apnA_ |
| not modelled | 13.1 | 5 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein hi1723; PDBTitle: hi1723 solution structure
24 | d1khba2 |
| not modelled | 13.0 | 28 | Fold:PEP carboxykinase N-terminal domain Superfamily:PEP carboxykinase N-terminal domain Family:PEP carboxykinase N-terminal domain
25 | d2z15a1 |
| not modelled | 11.5 | 29 | Fold:BTG domain-like Superfamily:BTG domain-like Family:BTG domain-like
26 | c3sjaG_ |
| not modelled | 10.3 | 16 | PDB header:hydrolase/transport protein Chain: G: PDB Molecule:golgi to er traffic protein 1; PDBTitle: crystal structure of s. cerevisiae get3 in the open state in complex2 with get1 cytosolic domain
27 | d2f86b1 |
| not modelled | 8.6 | 19 | Fold:Cystatin-like Superfamily:NTF2-like Family:Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A
28 | d1hkxa_ |
| not modelled | 8.5 | 22 | Fold:Cystatin-like Superfamily:NTF2-like Family:Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A
29 | c2l4jA_ |
| not modelled | 8.4 | 29 | PDB header:transcription Chain: A: PDB Molecule:yes-associated protein 2 (yap2); PDBTitle: yap ww2
30 | c3hx8A_ |
| not modelled | 8.4 | 10 | PDB header:isomerase Chain: A: PDB Molecule:putative ketosteroid isomerase; PDBTitle: crystal structure of putative ketosteroid isomerase2 (np_103587.1) from mesorhizobium loti at 1.45 a resolution
31 | d1jtma_ |
| not modelled | 8.2 | 13 | Fold:Lysozyme-like Superfamily:Lysozyme-like Family:Phage lysozyme
32 | c3sjbC_ |
| not modelled | 8.1 | 14 | PDB header:hydrolase/transport protein Chain: C: PDB Molecule:golgi to er traffic protein 1; PDBTitle: crystal structure of s. cerevisiae get3 in the open state in complex2 with get1 cytosolic domain
33 | d1p5ca_ |
| not modelled | 7.8 | 11 | Fold:Lysozyme-like Superfamily:Lysozyme-like Family:Phage lysozyme
34 | c3q9cF_ |
| not modelled | 7.4 | 15 | PDB header:hydrolase Chain: F: PDB Molecule:acetylpolyamine amidohydrolase; PDBTitle: crystal structure of h159a apah complexed with n8-acetylspermidine
35 | c3robC_ |
| not modelled | 7.1 | 20 | PDB header:structural genomics, unknown function Chain: C: PDB Molecule:uncharacterized conserved protein; PDBTitle: the crystal structure of a conserved protein from planctomyces2 limnophilus dsm 3776
36 | c2qeyA_ |
| not modelled | 6.5 | 29 | PDB header:lyase Chain: A: PDB Molecule:phosphoenolpyruvate carboxykinase, cytosolic [gtp]; PDBTitle: rat cytosolic pepck in complex with gtp
37 | d1nwba_ |
| not modelled | 5.7 | 0 | Fold:HesB-like domain Superfamily:HesB-like domain Family:HesB-like domain
38 | c2fh0A_ |
| not modelled | 5.6 | 6 | PDB header:unknown function Chain: A: PDB Molecule:hypothetical 16.0 kda protein in abf2-chl12 PDBTitle: nmr ensemble of the yeast saccharomyces cerevisiae protein2 ymr074cp core region
39 | d2jb0b1 |
| not modelled | 5.2 | 11 | Fold:His-Me finger endonucleases Superfamily:His-Me finger endonucleases Family:HNH-motif
40 | d1eija_ |
| not modelled | 5.2 | 19 | Fold:RuvA C-terminal domain-like Superfamily:Double-stranded DNA-binding domain Family:Double-stranded DNA-binding domain
41 | d1tbga_ |
| not modelled | 5.2 | 12 | Fold:7-bladed beta-propeller Superfamily:WD40 repeat-like Family:WD40-repeat
42 | c2awyB_ |
| not modelled | 5.1 | 30 | PDB header:oxygen storage/transport Chain: B: PDB Molecule:hemerythrin-like domain protein dcrh; PDBTitle: met-dcrh-hr

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