Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionQ96A56
DateFri May 25 09:58:32 BST 2012
Unique Job ID5f67cf71a1889a93

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3npeA_
Top template information
PDB header:oxidoreductase
Chain: A: PDB Molecule:9-cis-epoxycarotenoid dioxygenase 1, chloroplastic;
PDBTitle: structure of vp14 in complex with oxygen
Confidence and coverage
Confidence: 32.9% Coverage: 9%
21 residues ( 9% of your sequence) have been modelled with 32.9% 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.
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Warning: 67% of your sequence is predicted disordered. Disordered regions cannot be meaningfully predicted.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MFQRLNKMFVGEVSSSSNQEPEFNEKEDDEWILVDFIDTCTGFSAEEEEEEEDISEESPT
Secondary structure 
SS confidence 
Disorder  ????
?
?????
?
???????????????????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  EHPSVFSCLPASLECLADTSDSCFLQFESCPMEESWFITPPPCFTAGGLTTIKVETSPME
Secondary structure 
SS confidence 
Disorder  ???????????????????????????????????
????????????????
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  NLLIEHPSMSVYAVHNSCPGLSEATRGTDELHSPSSPRVEAQNEMGQHIHCYVAALAAHT
Secondary structure 
SS confidence 
Disorder 
?
??????????????????????????????????????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  TFLEQPKSFRPSQWIKEHSERQPLNRNSLRRQNLTRDCHPRQVKHNGWVVHQPCPRQYNY
Secondary structure 
SS confidence 
Disorder 
????????
????????????????
???????
Disorder confidence 
 
  
Sequence 
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 3npe chain A

3D model

Region: 24 - 44
Aligned: 21
Modelled: 21
Confidence: 32.9%
Identity: 33%
PDB header:oxidoreductase
Chain: A: PDB Molecule:9-cis-epoxycarotenoid dioxygenase 1, chloroplastic;
PDBTitle: structure of vp14 in complex with oxygen

Phyre2

PDB 2id1 chain A domain 1

3D model

Region: 3 - 38
Aligned: 36
Modelled: 36
Confidence: 27.8%
Identity: 22%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: Iojap/YbeB-like

Phyre2

PDB 2biw chain C

3D model

Region: 24 - 44
Aligned: 21
Modelled: 21
Confidence: 26.7%
Identity: 29%
PDB header:oxidoreductase
Chain: C: PDB Molecule:apocarotenoid-cleaving oxygenase;
PDBTitle: crystal structure of apocarotenoid cleavage oxygenase from2 synechocystis, native enzyme

Phyre2

PDB 3ups chain A

3D model

Region: 26 - 38
Aligned: 13
Modelled: 13
Confidence: 26.4%
Identity: 31%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:iojap-like protein;
PDBTitle: crystal structure of iojap-like protein from zymomonas mobilis

Phyre2

PDB 3hxr chain A

3D model

Region: 13 - 43
Aligned: 31
Modelled: 31
Confidence: 26.3%
Identity: 26%
PDB header:structural protein
Chain: A: PDB Molecule:nucleoporin nup120;
PDBTitle: nucleoporin nup120 from s.cerevisiae (aa 1-757)

Phyre2

PDB 2o5a chain A domain 1

3D model

Region: 26 - 38
Aligned: 13
Modelled: 13
Confidence: 26.2%
Identity: 38%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: Iojap/YbeB-like

Phyre2

PDB 3fsn chain A

3D model

Region: 24 - 34
Aligned: 11
Modelled: 11
Confidence: 24.5%
Identity: 36%
PDB header:isomerase
Chain: A: PDB Molecule:retinal pigment epithelium-specific 65 kda protein;
PDBTitle: crystal structure of rpe65 at 2.14 angstrom resolution

Phyre2

PDB 1oa8 chain A

3D model

Region: 101 - 125
Aligned: 23
Modelled: 25
Confidence: 18.0%
Identity: 35%
Fold: AXH domain
Superfamily: AXH domain
Family: AXH domain

Phyre2

PDB 2yhe chain D

3D model

Region: 28 - 63
Aligned: 31
Modelled: 36
Confidence: 16.7%
Identity: 29%
PDB header:hydrolase
Chain: D: PDB Molecule:sec-alkyl sulfatase;
PDBTitle: structure determination of the stereoselective inverting2 sec-alkylsulfatase pisa1 from pseudomonas sp.

Phyre2

PDB 2cfu chain A domain 2

3D model

Region: 28 - 35
Aligned: 8
Modelled: 8
Confidence: 13.6%
Identity: 63%
Fold: Metallo-hydrolase/oxidoreductase
Superfamily: Metallo-hydrolase/oxidoreductase
Family: Alkylsulfatase-like

Phyre2

PDB 1k12 chain A

3D model

Region: 21 - 42
Aligned: 22
Modelled: 22
Confidence: 13.4%
Identity: 18%
Fold: Galactose-binding domain-like
Superfamily: Galactose-binding domain-like
Family: Fucose binding lectin

Phyre2

PDB 3s63 chain B

3D model

Region: 234 - 240
Aligned: 7
Modelled: 7
Confidence: 13.3%
Identity: 57%
PDB header:lipid binding protein
Chain: B: PDB Molecule:saposin-like protein;
PDBTitle: saposin-like protein na-slp-1

Phyre2

PDB 2i7f chain B

3D model

Region: 11 - 37
Aligned: 27
Modelled: 26
Confidence: 13.1%
Identity: 22%
PDB header:oxidoreductase
Chain: B: PDB Molecule:ferredoxin component of dioxygenase;
PDBTitle: sphingomonas yanoikuyae b1 ferredoxin

Phyre2

PDB 1p5d chain X domain 4

3D model

Region: 28 - 34
Aligned: 7
Modelled: 7
Confidence: 11.7%
Identity: 43%
Fold: TBP-like
Superfamily: Phosphoglucomutase, C-terminal domain
Family: Phosphoglucomutase, C-terminal domain

Phyre2

PDB 1w66 chain A domain 1

3D model

Region: 96 - 110
Aligned: 15
Modelled: 15
Confidence: 11.1%
Identity: 33%
Fold: Class II aaRS and biotin synthetases
Superfamily: Class II aaRS and biotin synthetases
Family: LplA-like

Phyre2

PDB 2cfu chain A

3D model

Region: 28 - 35
Aligned: 8
Modelled: 8
Confidence: 10.9%
Identity: 63%
PDB header:hydrolase
Chain: A: PDB Molecule:sdsa1;
PDBTitle: crystal structure of sdsa1, an alkylsulfatase from2 pseudomonas aeruginosa, in complex with 1-decane-sulfonic-3 acid.

Phyre2

PDB 2jeu chain A

3D model

Region: 93 - 108
Aligned: 16
Modelled: 16
Confidence: 9.8%
Identity: 38%
PDB header:transcription
Chain: A: PDB Molecule:regulatory protein e2;
PDBTitle: transcription activator structure reveals redox control of2 a replication initiation reaction

Phyre2

PDB 3ce8 chain A

3D model

Region: 119 - 130
Aligned: 12
Modelled: 12
Confidence: 9.7%
Identity: 33%
PDB header:unknown function
Chain: A: PDB Molecule:putative pii-like nitrogen regulatory protein;
PDBTitle: crystal structure of a duf3240 family protein (sbal_0098) from2 shewanella baltica os155 at 2.40 a resolution

Phyre2

PDB 3zv0 chain D

3D model

Region: 98 - 131
Aligned: 31
Modelled: 34
Confidence: 9.2%
Identity: 29%
PDB header:cell cycle
Chain: D: PDB Molecule:h/aca ribonucleoprotein complex subunit 4;
PDBTitle: structure of the shq1p-cbf5p complex

Phyre2

PDB 1sr4 chain A

3D model

Region: 96 - 102
Aligned: 7
Modelled: 7
Confidence: 8.9%
Identity: 43%
PDB header:toxin
Chain: A: PDB Molecule:cytolethal distending toxin subunit a;
PDBTitle: crystal structure of the haemophilus ducreyi cytolethal2 distending toxin

Phyre2
1
c3npeA_
2
d2id1a1
3
c2biwC_
4
c3upsA_
5
c3hxrA_
6
d2o5aa1
7
c3fsnA_
8
d1oa8a_
9
c2yheD_
10
d2cfua2
11
d1k12a_
12
c3s63B_
13
c2i7fB_
14
d1p5dx4
15
d1w66a1
16
c2cfuA_
17
c2jeuA_
18
c3ce8A_
19
c3zv0D_
20
c1sr4A_
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
46
47
48
49
50
51



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3npeA_
32.9 33 PDB header:oxidoreductase
Chain: A: PDB Molecule:9-cis-epoxycarotenoid dioxygenase 1, chloroplastic;
PDBTitle: structure of vp14 in complex with oxygen
2d2id1a1
27.8 22 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Iojap/YbeB-like
3c2biwC_
26.7 29 PDB header:oxidoreductase
Chain: C: PDB Molecule:apocarotenoid-cleaving oxygenase;
PDBTitle: crystal structure of apocarotenoid cleavage oxygenase from2 synechocystis, native enzyme
4c3upsA_
26.4 31 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:iojap-like protein;
PDBTitle: crystal structure of iojap-like protein from zymomonas mobilis
5c3hxrA_
26.3 26 PDB header:structural protein
Chain: A: PDB Molecule:nucleoporin nup120;
PDBTitle: nucleoporin nup120 from s.cerevisiae (aa 1-757)
6d2o5aa1
26.2 38 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Iojap/YbeB-like
7c3fsnA_
24.5 36 PDB header:isomerase
Chain: A: PDB Molecule:retinal pigment epithelium-specific 65 kda protein;
PDBTitle: crystal structure of rpe65 at 2.14 angstrom resolution
8d1oa8a_
18.0 35 Fold:AXH domain
Superfamily:AXH domain
Family:AXH domain
9c2yheD_
16.7 29 PDB header:hydrolase
Chain: D: PDB Molecule:sec-alkyl sulfatase;
PDBTitle: structure determination of the stereoselective inverting2 sec-alkylsulfatase pisa1 from pseudomonas sp.
10d2cfua2
13.6 63 Fold:Metallo-hydrolase/oxidoreductase
Superfamily:Metallo-hydrolase/oxidoreductase
Family:Alkylsulfatase-like
11d1k12a_
13.4 18 Fold:Galactose-binding domain-like
Superfamily:Galactose-binding domain-like
Family:Fucose binding lectin
12c3s63B_
13.3 57 PDB header:lipid binding protein
Chain: B: PDB Molecule:saposin-like protein;
PDBTitle: saposin-like protein na-slp-1
13c2i7fB_
13.1 22 PDB header:oxidoreductase
Chain: B: PDB Molecule:ferredoxin component of dioxygenase;
PDBTitle: sphingomonas yanoikuyae b1 ferredoxin
14d1p5dx4
11.7 43 Fold:TBP-like
Superfamily:Phosphoglucomutase, C-terminal domain
Family:Phosphoglucomutase, C-terminal domain
15d1w66a1
11.1 33 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:LplA-like
16c2cfuA_
10.9 63 PDB header:hydrolase
Chain: A: PDB Molecule:sdsa1;
PDBTitle: crystal structure of sdsa1, an alkylsulfatase from2 pseudomonas aeruginosa, in complex with 1-decane-sulfonic-3 acid.
17c2jeuA_
9.8 38 PDB header:transcription
Chain: A: PDB Molecule:regulatory protein e2;
PDBTitle: transcription activator structure reveals redox control of2 a replication initiation reaction
18c3ce8A_
9.7 33 PDB header:unknown function
Chain: A: PDB Molecule:putative pii-like nitrogen regulatory protein;
PDBTitle: crystal structure of a duf3240 family protein (sbal_0098) from2 shewanella baltica os155 at 2.40 a resolution
19c3zv0D_
9.2 29 PDB header:cell cycle
Chain: D: PDB Molecule:h/aca ribonucleoprotein complex subunit 4;
PDBTitle: structure of the shq1p-cbf5p complex
20c1sr4A_
8.9 43 PDB header:toxin
Chain: A: PDB Molecule:cytolethal distending toxin subunit a;
PDBTitle: crystal structure of the haemophilus ducreyi cytolethal2 distending toxin
21d1sr4a_
not modelled 8.9 43 Fold:beta-Trefoil
Superfamily:Ricin B-like lectins
Family:Ricin B-like
22d1aisb1
not modelled 8.4 43 Fold:Cyclin-like
Superfamily:Cyclin-like
Family:Transcription factor IIB (TFIIB), core domain
23d3proc2
not modelled 8.3 50 Fold:Alpha-lytic protease prodomain-like
Superfamily:Alpha-lytic protease prodomain
Family:Alpha-lytic protease prodomain
24d1v5xa_
not modelled 7.8 28 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
25d1piia1
not modelled 7.7 22 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
26c2zpnB_
not modelled 7.6 21 PDB header:protein transport
Chain: B: PDB Molecule:autophagy-related protein 8;
PDBTitle: the crystal structure of saccharomyces cerevisiae atg8-2 atg19(412-415) complex
27c2fugC_
not modelled 7.3 44 PDB header:oxidoreductase
Chain: C: PDB Molecule:nadh-quinone oxidoreductase chain 3;
PDBTitle: crystal structure of the hydrophilic domain of respiratory complex i2 from thermus thermophilus
28d1d0qa_
not modelled 7.2 50 Fold:Rubredoxin-like
Superfamily:Zinc beta-ribbon
Family:DNA primase zinc finger
29d1ee8a2
not modelled 7.0 25 Fold:N-terminal domain of MutM-like DNA repair proteins
Superfamily:N-terminal domain of MutM-like DNA repair proteins
Family:N-terminal domain of MutM-like DNA repair proteins
30d1xzwa1
not modelled 6.7 56 Fold:Immunoglobulin-like beta-sandwich
Superfamily:Purple acid phosphatase, N-terminal domain
Family:Purple acid phosphatase, N-terminal domain
31d1usra_
not modelled 6.7 29 Fold:6-bladed beta-propeller
Superfamily:Sialidases
Family:Sialidases (neuraminidases)
32c2c2xB_
not modelled 6.3 22 PDB header:oxidoreductase
Chain: B: PDB Molecule:methylenetetrahydrofolate dehydrogenase-
PDBTitle: three dimensional structure of bifunctional2 methylenetetrahydrofolate dehydrogenase-cyclohydrolase3 from mycobacterium tuberculosis
33c2eouA_
not modelled 6.2 100 PDB header:transcription
Chain: A: PDB Molecule:zinc finger protein 473;
PDBTitle: solution structure of the c2h2 type zinc finger (region 370-2 400) of human zinc finger protein 473
34d1a4ia1
not modelled 6.1 35 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
35c3h7nD_
not modelled 6.1 26 PDB header:structural protein
Chain: D: PDB Molecule:nucleoporin nup120;
PDBTitle: structure of nup120
36c2kqrA_
not modelled 6.0 18 PDB header:ligase
Chain: A: PDB Molecule:asparaginyl-trna synthetase, cytoplasmic;
PDBTitle: solution structure of the n-terminal domain (residues 1-111) of brugia2 malayi asparaginyl-trna synthetase
37c3r8kB_
not modelled 6.0 24 PDB header:apoptosis
Chain: B: PDB Molecule:heme-binding protein 2;
PDBTitle: crystal structure of human soul protein (hexagonal form)
38c3cs5B_
not modelled 6.0 57 PDB header:photosynthesis
Chain: B: PDB Molecule:phycobilisome degradation protein nbla;
PDBTitle: nbla protein from synechococcus elongatus pcc 7942
39d2gova1
not modelled 5.9 12 Fold:Probable bacterial effector-binding domain
Superfamily:Probable bacterial effector-binding domain
Family:SOUL heme-binding protein
40c2gl1A_
not modelled 5.8 83 PDB header:plant protein
Chain: A: PDB Molecule:pdf1;
PDBTitle: nmr solution structure of vigna radiata defensin 2 (vrd2)
41d2f2fa1
not modelled 5.5 43 Fold:beta-Trefoil
Superfamily:Ricin B-like lectins
Family:Ricin B-like
42d1sgva2
not modelled 5.4 15 Fold:Pseudouridine synthase
Superfamily:Pseudouridine synthase
Family:Pseudouridine synthase II TruB
43d1prtd_
not modelled 5.4 40 Fold:OB-fold
Superfamily:Bacterial enterotoxins
Family:Bacterial AB5 toxins, B-subunits
44d1oh1a_
not modelled 5.4 22 Fold:Streptavidin-like
Superfamily:beta-Barrel protease inhibitors
Family:Staphostatin
45c2qhsA_
not modelled 5.4 21 PDB header:transferase
Chain: A: PDB Molecule:lipoyltransferase;
PDBTitle: structural basis of octanoic acid recognition by lipoate-protein2 ligase b
46c2qhvA_
not modelled 5.4 21 PDB header:transferase
Chain: A: PDB Molecule:lipoyltransferase;
PDBTitle: structural basis of octanoic acid recognition by lipoate-protein2 ligase b
47d1v3ea_
not modelled 5.3 29 Fold:6-bladed beta-propeller
Superfamily:Sialidases
Family:Sialidases (neuraminidases)
48d1nsja_
not modelled 5.3 27 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
49c3metB_
not modelled 5.3 15 PDB header:transcription
Chain: B: PDB Molecule:saga-associated factor 29 homolog;
PDBTitle: crystal structure of sgf29 in complex with h3k4me2
50d1k6ya1
not modelled 5.1 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:N-terminal Zn binding domain of HIV integrase
Family:N-terminal Zn binding domain of HIV integrase
51d1ckaa_
not modelled 5.1 9 Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain

Binding site prediction 

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If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite