Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP71296
DateThu Jan 5 12:12:41 GMT 2012
Unique Job ID99327265e9614ee0

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3ebkA_
Top template information
PDB header:allergen
Chain: A: PDB Molecule:allergen bla g 4;
PDBTitle: crystal structure of major allergens, bla g 4 from2 cockroaches
Confidence and coverage
Confidence: 48.0% Coverage: 10%
27 residues ( 10% of your sequence) have been modelled with 48.0% 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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3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MSNSVTNFEMSSVLPGKKPCQGKNNESQVVQTTPIKKHSVTFKNQSSLGVIDHYARLTNK
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Disorder  ???????



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   .........70.........80.........90.........100.........110.........120
Sequence  SHSSVIAEVVDLAIPILEKCNRHNWSINEIKNDLLKFSIKESINRSRGKTEVTLEEYCSL
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   .........130.........140.........150.........160.........170.........180
Sequence  IWKTNIMSPLKIPIADYFQLNANDEFMGKDEKTVIRERLSSLRENYDMEKAIYIYNQRHF
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   .........190.........200.........210.........220.........230.........240
Sequence  DVKHQSVSGYSNIILIHRTTFEGYYFDAGQALLLSTSQLIIFGINEVLRRKGIVMPYPVV
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   .........250.........260.........270.........280....
Sequence  CWIDIYHVNEMVVMLPVLRKTDVSNRVNVPDDIIINPYSQESRT
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?????????????







?????
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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 3ebk chain A

3D model

Region: 219 - 253
Aligned: 27
Modelled: 35
Confidence: 48.0%
Identity: 33%
PDB header:allergen
Chain: A: PDB Molecule:allergen bla g 4;
PDBTitle: crystal structure of major allergens, bla g 4 from2 cockroaches

Phyre2

PDB 1ksi chain A

3D model

Region: 164 - 208
Aligned: 45
Modelled: 45
Confidence: 34.0%
Identity: 18%
PDB header:oxidoreductase
Chain: A: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of a eukaryotic (pea seedling) copper-containing2 amine oxidase at 2.2a resolution

Phyre2

PDB 3loy chain B

3D model

Region: 164 - 208
Aligned: 45
Modelled: 45
Confidence: 28.0%
Identity: 9%
PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of a copper-containing benzylamine oxidase from2 hansenula polymorpha

Phyre2

PDB 2cs0 chain A domain 1

3D model

Region: 186 - 239
Aligned: 54
Modelled: 54
Confidence: 24.6%
Identity: 7%
Fold: SH2-like
Superfamily: SH2 domain
Family: SH2 domain

Phyre2

PDB 2cwo chain D

3D model

Region: 51 - 62
Aligned: 12
Modelled: 12
Confidence: 19.1%
Identity: 25%
PDB header:rna binding protein
Chain: D: PDB Molecule:rna silencing suppressor;
PDBTitle: crystal structure of rna silencing suppressor p21 from beet yellows2 virus

Phyre2

PDB 2aze chain A domain 1

3D model

Region: 203 - 212
Aligned: 10
Modelled: 10
Confidence: 18.3%
Identity: 20%
Fold: E2F-DP heterodimerization region
Superfamily: E2F-DP heterodimerization region
Family: DP dimerization segment

Phyre2

PDB 1d6u chain B

3D model

Region: 164 - 208
Aligned: 45
Modelled: 45
Confidence: 18.0%
Identity: 20%
PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of e. coli amine oxidase anaerobically reduced with2 beta-phenylethylamine

Phyre2

PDB 3hiz chain B

3D model

Region: 186 - 239
Aligned: 52
Modelled: 54
Confidence: 17.1%
Identity: 21%
PDB header:transferase/oncoprotein
Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit
PDBTitle: crystal structure of p110alpha h1047r mutant in complex with2 nish2 of p85alpha

Phyre2

PDB 1x37 chain A

3D model

Region: 35 - 56
Aligned: 22
Modelled: 22
Confidence: 16.1%
Identity: 32%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease la 1;
PDBTitle: structure of bacillus subtilis lon protease ssd domain

Phyre2

PDB 1kcf chain A domain 1

3D model

Region: 48 - 70
Aligned: 23
Modelled: 23
Confidence: 16.0%
Identity: 30%
Fold: LEM/SAP HeH motif
Superfamily: SAP domain
Family: SAP domain

Phyre2

PDB 3rpj chain A

3D model

Region: 202 - 217
Aligned: 15
Modelled: 16
Confidence: 15.8%
Identity: 20%
PDB header:transcription regulator
Chain: A: PDB Molecule:curlin genes transcriptional regulator;
PDBTitle: structure of a curlin genes transcriptional regulator protein from2 proteus mirabilis hi4320.

Phyre2

PDB 2al6 chain A domain 2

3D model

Region: 51 - 66
Aligned: 16
Modelled: 16
Confidence: 15.6%
Identity: 50%
Fold: PH domain-like barrel
Superfamily: PH domain-like
Family: Third domain of FERM

Phyre2

PDB 1qzm chain A

3D model

Region: 35 - 56
Aligned: 22
Modelled: 22
Confidence: 14.6%
Identity: 32%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1w7c chain A

3D model

Region: 164 - 208
Aligned: 43
Modelled: 43
Confidence: 13.7%
Identity: 26%
PDB header:oxidoreductase
Chain: A: PDB Molecule:lysyl oxidase;
PDBTitle: pplo at 1.23 angstroms

Phyre2

PDB 1qmg chain A domain 1

3D model

Region: 75 - 123
Aligned: 39
Modelled: 49
Confidence: 12.6%
Identity: 31%
Fold: 6-phosphogluconate dehydrogenase C-terminal domain-like
Superfamily: 6-phosphogluconate dehydrogenase C-terminal domain-like
Family: Acetohydroxy acid isomeroreductase (ketol-acid reductoisomerase, KARI)

Phyre2

PDB 2oqe chain A domain 1

3D model

Region: 164 - 208
Aligned: 45
Modelled: 45
Confidence: 11.9%
Identity: 13%
Fold: Supersandwich
Superfamily: Amine oxidase catalytic domain
Family: Amine oxidase catalytic domain

Phyre2

PDB 3cuq chain D

3D model

Region: 49 - 69
Aligned: 21
Modelled: 21
Confidence: 11.5%
Identity: 19%
PDB header:protein transport
Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25;
PDBTitle: integrated structural and functional model of the human escrt-ii2 complex

Phyre2

PDB 1gng chain X

3D model

Region: 218 - 230
Aligned: 13
Modelled: 13
Confidence: 11.0%
Identity: 54%
PDB header:transferase
Chain: X: PDB Molecule:frattide;
PDBTitle: glycogen synthase kinase-3 beta (gsk3) complex with frattide2 peptide

Phyre2

PDB 2zme chain D

3D model

Region: 49 - 69
Aligned: 21
Modelled: 21
Confidence: 10.8%
Identity: 19%
PDB header:protein transport
Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25;
PDBTitle: integrated structural and functional model of the human escrt-ii2 complex

Phyre2

PDB 3nbb chain C

3D model

Region: 164 - 208
Aligned: 45
Modelled: 45
Confidence: 10.7%
Identity: 13%
PDB header:oxidoreductase
Chain: C: PDB Molecule:peroxisomal primary amine oxidase;
PDBTitle: crystal structure of mutant y305f expressed in e. coli in the copper2 amine oxidase from hansenula polymorpha

Phyre2
1

c3ebkA_
2

c1ksiA_
3

c3loyB_
4

d2cs0a1
5

c2cwoD_
6

d2azea1
7

c1d6uB_
8

c3hizB_
9

c1x37A_
10

d1kcfa1
11

c3rpjA_
12

d2al6a2
13

d1qzma_
14

c1w7cA_
15

d1qmga1
16

d2oqea1
17

c3cuqD_
18

c1gngX_
19

c2zmeD_
20

c3nbbC_
21



22



23



24



25



26



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31



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33



34



35



36



37



38



39



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42



43



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46



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48



49



50



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53



54



55






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3ebkA_



48.0 33 PDB header:allergen
Chain: A: PDB Molecule:allergen bla g 4;
PDBTitle: crystal structure of major allergens, bla g 4 from2 cockroaches
2c1ksiA_



34.0 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of a eukaryotic (pea seedling) copper-containing2 amine oxidase at 2.2a resolution
3c3loyB_



28.0 9 PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of a copper-containing benzylamine oxidase from2 hansenula polymorpha
4d2cs0a1



24.6 7 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
5c2cwoD_



19.1 25 PDB header:rna binding protein
Chain: D: PDB Molecule:rna silencing suppressor;
PDBTitle: crystal structure of rna silencing suppressor p21 from beet yellows2 virus
6d2azea1



18.3 20 Fold:E2F-DP heterodimerization region
Superfamily:E2F-DP heterodimerization region
Family:DP dimerization segment
7c1d6uB_



18.0 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of e. coli amine oxidase anaerobically reduced with2 beta-phenylethylamine
8c3hizB_



17.1 21 PDB header:transferase/oncoprotein
Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit
PDBTitle: crystal structure of p110alpha h1047r mutant in complex with2 nish2 of p85alpha
9c1x37A_



16.1 32 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease la 1;
PDBTitle: structure of bacillus subtilis lon protease ssd domain
10d1kcfa1



16.0 30 Fold:LEM/SAP HeH motif
Superfamily:SAP domain
Family:SAP domain
11c3rpjA_



15.8 20 PDB header:transcription regulator
Chain: A: PDB Molecule:curlin genes transcriptional regulator;
PDBTitle: structure of a curlin genes transcriptional regulator protein from2 proteus mirabilis hi4320.
12d2al6a2



15.6 50 Fold:PH domain-like barrel
Superfamily:PH domain-like
Family:Third domain of FERM
13d1qzma_



14.6 32 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
14c1w7cA_



13.7 26 PDB header:oxidoreductase
Chain: A: PDB Molecule:lysyl oxidase;
PDBTitle: pplo at 1.23 angstroms
15d1qmga1



12.6 31 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like
Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like
Family:Acetohydroxy acid isomeroreductase (ketol-acid reductoisomerase, KARI)
16d2oqea1



11.9 13 Fold:Supersandwich
Superfamily:Amine oxidase catalytic domain
Family:Amine oxidase catalytic domain
17c3cuqD_



11.5 19 PDB header:protein transport
Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25;
PDBTitle: integrated structural and functional model of the human escrt-ii2 complex
18c1gngX_



11.0 54 PDB header:transferase
Chain: X: PDB Molecule:frattide;
PDBTitle: glycogen synthase kinase-3 beta (gsk3) complex with frattide2 peptide
19c2zmeD_



10.8 19 PDB header:protein transport
Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25;
PDBTitle: integrated structural and functional model of the human escrt-ii2 complex
20c3nbbC_



10.7 13 PDB header:oxidoreductase
Chain: C: PDB Molecule:peroxisomal primary amine oxidase;
PDBTitle: crystal structure of mutant y305f expressed in e. coli in the copper2 amine oxidase from hansenula polymorpha
21d2e1fa1



not modelled 10.2 29 Fold:SAM domain-like
Superfamily:HRDC-like
Family:HRDC domain from helicases
22d2odka1



not modelled 9.6 31 Fold:YefM-like
Superfamily:YefM-like
Family:YefM-like
23d1ylxa1



not modelled 9.1 35 Fold:N domain of copper amine oxidase-like
Superfamily:GK1464-like
Family:GK1464-like
24d1w2za1



not modelled 8.6 20 Fold:Supersandwich
Superfamily:Amine oxidase catalytic domain
Family:Amine oxidase catalytic domain
25c2owyB_



not modelled 8.5 6 PDB header:dna binding protein
Chain: B: PDB Molecule:recombination-associated protein rdgc;
PDBTitle: the recombination-associated protein rdgc adopts a novel toroidal2 architecture for dna binding
26d1pprm2



not modelled 8.2 18 Fold:Peridinin-chlorophyll protein
Superfamily:Peridinin-chlorophyll protein
Family:Peridinin-chlorophyll protein
27d1q9ja2



not modelled 8.1 16 Fold:CoA-dependent acyltransferases
Superfamily:CoA-dependent acyltransferases
Family:NRPS condensation domain (amide synthase)
28c1yveK_



not modelled 7.5 31 PDB header:oxidoreductase
Chain: K: PDB Molecule:acetohydroxy acid isomeroreductase;
PDBTitle: acetohydroxy acid isomeroreductase complexed with nadph,2 magnesium and inhibitor ipoha (n-hydroxy-n-3 isopropyloxamate)
29c3jqoV_



not modelled 7.3 27 PDB header:transport protein
Chain: V: PDB Molecule:traf protein;
PDBTitle: crystal structure of the outer membrane complex of a type iv2 secretion system
30c3u5cH_



not modelled 7.2 27 PDB header:ribosome
Chain: H: PDB Molecule:40s ribosomal protein s7-a;
PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution
31c1eakA_



not modelled 7.0 9 PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:72 kda type iv collagenase;
PDBTitle: catalytic domain of prommp-2 e404q mutant
32c2jerG_



not modelled 6.8 15 PDB header:hydrolase
Chain: G: PDB Molecule:agmatine deiminase;
PDBTitle: agmatine deiminase of enterococcus faecalis catalyzing its2 reaction.
33d2jera1



not modelled 6.7 15 Fold:Pentein, beta/alpha-propeller
Superfamily:Pentein
Family:Porphyromonas-type peptidylarginine deiminase
34c3higB_



not modelled 6.7 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:amiloride-sensitive amine oxidase;
PDBTitle: crystal structure of human diamine oxidase in complex with the2 inhibitor berenil
35d1w6ga1



not modelled 6.5 16 Fold:Supersandwich
Superfamily:Amine oxidase catalytic domain
Family:Amine oxidase catalytic domain
36d2ewoa1



not modelled 6.4 15 Fold:Pentein, beta/alpha-propeller
Superfamily:Pentein
Family:Porphyromonas-type peptidylarginine deiminase
37c2odkD_



not modelled 6.4 31 PDB header:structural genomics, unknown function
Chain: D: PDB Molecule:hypothetical protein;
PDBTitle: putative prevent-host-death protein from nitrosomonas europaea
38d1pprm1



not modelled 6.2 8 Fold:Peridinin-chlorophyll protein
Superfamily:Peridinin-chlorophyll protein
Family:Peridinin-chlorophyll protein
39c2bj3D_



not modelled 6.2 15 PDB header:transcription
Chain: D: PDB Molecule:nickel responsive regulator;
PDBTitle: nikr-apo
40d1uptd_



not modelled 6.0 36 Fold:GRIP domain
Superfamily:GRIP domain
Family:GRIP domain
41c3zrkY_



not modelled 6.0 54 PDB header:transferase/peptide
Chain: Y: PDB Molecule:proto-oncogene frat1;
PDBTitle: identification of 2-(4-pyridyl)thienopyridinones as gsk-3beta2 inhibitors
42c3mazA_



not modelled 5.8 4 PDB header:signaling protein
Chain: A: PDB Molecule:signal-transducing adaptor protein 1;
PDBTitle: crystal structure of the human brdg1/stap-1 sh2 domain in complex with2 the ntal ptyr136 peptide
43d1vkpa_



not modelled 5.7 10 Fold:Pentein, beta/alpha-propeller
Superfamily:Pentein
Family:Porphyromonas-type peptidylarginine deiminase
44c2owlA_



not modelled 5.7 9 PDB header:recombination
Chain: A: PDB Molecule:recombination-associated protein rdgc;
PDBTitle: crystal structure of e. coli rdgc
45d2cmua1



not modelled 5.6 8 Fold:Pentein, beta/alpha-propeller
Superfamily:Pentein
Family:Porphyromonas-type peptidylarginine deiminase
46c2o01J_



not modelled 5.6 19 PDB header:photosynthesis
Chain: J: PDB Molecule:photosystem i reaction center subunit ix;
PDBTitle: the structure of a plant photosystem i supercomplex at 3.42 angstrom resolution
47d2hzaa1



not modelled 5.6 17 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
48c3e7nB_



not modelled 5.6 50 PDB header:transport protein
Chain: B: PDB Molecule:d-ribose high-affinity transport system;
PDBTitle: crystal structure of d-ribose high-affinity transport system from2 salmonella typhimurium lt2
49c3pamB_



not modelled 5.5 38 PDB header:transport protein
Chain: B: PDB Molecule:transmembrane protein;
PDBTitle: crystal structure of a domain of transmembrane protein of abc-type2 oligopeptide transport system from bartonella henselae str. houston-1
50d1nexa2



not modelled 5.3 19 Fold:POZ domain
Superfamily:POZ domain
Family:BTB/POZ domain
51c2p9rA_



not modelled 5.3 0 PDB header:signaling protein
Chain: A: PDB Molecule:alpha-2-macroglobulin;
PDBTitle: human alpha2-macroglogulin is composed of multiple domains,2 as predicted by homology with complement component c3
52c1q5vB_



not modelled 5.3 17 PDB header:transcription
Chain: B: PDB Molecule:nickel responsive regulator;
PDBTitle: apo-nikr
53c3zvkG_



not modelled 5.2 24 PDB header:antitoxin/toxin/dna
Chain: G: PDB Molecule:antitoxin of toxin-antitoxin system vapb;
PDBTitle: crystal structure of vapbc2 from rickettsia felis bound to2 a dna fragment from their promoter
54d1xkna_



not modelled 5.2 23 Fold:Pentein, beta/alpha-propeller
Superfamily:Pentein
Family:Porphyromonas-type peptidylarginine deiminase
55c2ca9B_



not modelled 5.1 17 PDB header:transcriptional regulation
Chain: B: PDB Molecule:putative nickel-responsive regulator;
PDBTitle: apo-nikr from helicobacter pylori in closed trans-2 conformation

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