Secondary structure and disorder prediction

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Sequence		M	N	D	S	E	F	H	R	L	A	D	Q	L	W	L	T	I	E	E	R	L	D	D	W	D	G	D	S	D	I	D	C	E	I	N	G	G	V	L	T	I	T	F	E	N	G	S	K	I	I	I	N	R	Q	E	P	L	H	Q	V
Secondary structure
SS confidence
Disorder		?	?																																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.
Sequence		W	L	A	T	K	Q	G	G	Y	H	F	D	L	K	G	D	E	W	I	C	D	R	S	G	E	T	F	W	D	L	L	E	Q	A	A	T	Q	Q	A	G	E	T	V	S	F	R
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

PDB 1ew4 chain A Region: 1 - 106 Aligned: 106 Modelled: 106 Confidence: 100.0% Identity: 100% Fold: N domain of copper amine oxidase-like Superfamily: Frataxin/Nqo15-like Family: Frataxin-like Phyre2 PDB 1ekg chain A Region: 1 - 106 Aligned: 106 Modelled: 106 Confidence: 100.0% Identity: 25% Fold: N domain of copper amine oxidase-like Superfamily: Frataxin/Nqo15-like Family: Frataxin-like Phyre2 PDB 2ga5 chain A domain 1 Region: 1 - 102 Aligned: 102 Modelled: 102 Confidence: 100.0% Identity: 27% Fold: N domain of copper amine oxidase-like Superfamily: Frataxin/Nqo15-like Family: Frataxin-like Phyre2 PDB 2fql chain A domain 1 Region: 1 - 101 Aligned: 101 Modelled: 101 Confidence: 100.0% Identity: 28% Fold: N domain of copper amine oxidase-like Superfamily: Frataxin/Nqo15-like Family: Frataxin-like Phyre2 PDB 1xkp chain B domain 1 Region: 17 - 70 Aligned: 54 Modelled: 54 Confidence: 61.4% Identity: 11% Fold: Secretion chaperone-like Superfamily: Type III secretory system chaperone-like Family: Type III secretory system chaperone Phyre2 PDB 1q40 chain C Region: 43 - 65 Aligned: 23 Modelled: 23 Confidence: 32.2% Identity: 43% PDB header:translation Chain: C: PDB Molecule:mrna transport regulator mtr2; PDBTitle: crystal structure of the c. albicans mtr2-mex67 m domain complex Phyre2 PDB 1mby chain A Region: 29 - 75 Aligned: 45 Modelled: 47 Confidence: 29.1% Identity: 13% Fold: Polo-box domain Superfamily: Polo-box domain Family: Swapped Polo-box domain Phyre2 PDB 2ebs chain A domain 1 Region: 49 - 83 Aligned: 34 Modelled: 35 Confidence: 23.9% Identity: 24% Fold: 7-bladed beta-propeller Superfamily: Oligoxyloglucan reducing end-specific cellobiohydrolase Family: Oligoxyloglucan reducing end-specific cellobiohydrolase Phyre2 PDB 2ogq chain A domain 2 Region: 32 - 54 Aligned: 23 Modelled: 23 Confidence: 22.1% Identity: 26% Fold: Polo-box domain Superfamily: Polo-box domain Family: Polo-box duplicated region Phyre2 PDB 3e11 chain A domain 1 Region: 1 - 33 Aligned: 33 Modelled: 33 Confidence: 21.0% Identity: 15% Fold: Zincin-like Superfamily: Metalloproteases ("zincins"), catalytic domain Family: TTHA0227-like Phyre2 PDB 1q42 chain A Region: 43 - 65 Aligned: 23 Modelled: 23 Confidence: 20.4% Identity: 43% Fold: Cystatin-like Superfamily: NTF2-like Family: NTF2-like Phyre2 PDB 1umw chain B Region: 32 - 54 Aligned: 23 Modelled: 23 Confidence: 19.5% Identity: 22% PDB header:kinase Chain: B: PDB Molecule:serine/threonine-protein kinase plk; PDBTitle: structure of a human plk1 polo-box domain/phosphopeptide2 complex Phyre2 PDB 2bsg chain A Region: 64 - 83 Aligned: 20 Modelled: 20 Confidence: 18.8% Identity: 20% PDB header:viral protein Chain: A: PDB Molecule:fibritin; PDBTitle: the modeled structure of fibritin (gpwac) of bacteriophage2 t4 based on cryo-em reconstruction of the extended tail of3 bacteriophage t4 Phyre2 PDB 2v5i chain A Region: 13 - 79 Aligned: 67 Modelled: 67 Confidence: 18.1% Identity: 24% PDB header:viral protein Chain: A: PDB Molecule:salmonella typhimurium db7155 bacteriophage det7 PDBTitle: structure of the receptor-binding protein of bacteriophage2 det7: a podoviral tailspike in a myovirus Phyre2 PDB 2aze chain B domain 1 Region: 38 - 68 Aligned: 31 Modelled: 31 Confidence: 14.4% Identity: 23% Fold: E2F-DP heterodimerization region Superfamily: E2F-DP heterodimerization region Family: E2F dimerization segment Phyre2 PDB 3aab chain A Region: 23 - 44 Aligned: 22 Modelled: 22 Confidence: 12.9% Identity: 32% PDB header:chaperone Chain: A: PDB Molecule:putative uncharacterized protein st1653; PDBTitle: small heat shock protein hsp14.0 with the mutations of i120f and i122f2 in the form i crystal Phyre2 PDB 2h50 chain A domain 1 Region: 26 - 44 Aligned: 19 Modelled: 19 Confidence: 12.7% Identity: 26% Fold: HSP20-like chaperones Superfamily: HSP20-like chaperones Family: HSP20 Phyre2 PDB 2v1l chain A Region: 9 - 70 Aligned: 37 Modelled: 48 Confidence: 12.4% Identity: 19% PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: structure of the conserved hypothetical protein vc1805 from2 pathogenicity island vpi-2 of vibrio cholerae o1 biovar3 eltor str. n16961 shares structural homology with the4 human p32 protein Phyre2 PDB 1gme chain A Region: 26 - 44 Aligned: 19 Modelled: 19 Confidence: 11.6% Identity: 26% Fold: HSP20-like chaperones Superfamily: HSP20-like chaperones Family: HSP20 Phyre2 PDB 3nrl chain B Region: 67 - 82 Aligned: 16 Modelled: 16 Confidence: 11.6% Identity: 50% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein rumgna_01417; PDBTitle: crystal structure of protein rumgna_01417 from ruminococcus gnavus,2 northeast structural genomics consortium target ugr76 Phyre2 1 d1ew4a_ 2 d1ekga_ 3 d2ga5a1 4 d2fqla1 5 d1xkpb1 6 c1q40C_ 7 d1mbya_ 8 d2ebsa1 9 d2ogqa2 10 d3e11a1 11 d1q42a_ 12 c1umwB_ 13 c2bsgA_ 14 c2v5iA_ 15 d2azeb1 16 c3aabA_ 17 d2h50a1 18 c2v1lA_ 19 d1gmea_ 20 c3nrlB_ 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 52 53

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 d1ew4a_ 100.0 100 Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like 2 d1ekga_ 100.0 25 Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like 3 d2ga5a1 100.0 27 Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like 4 d2fqla1 100.0 28 Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like 5 d1xkpb1 61.4 11 Fold:Secretion chaperone-like Superfamily:Type III secretory system chaperone-like Family:Type III secretory system chaperone 6 c1q40C_ 32.2 43 PDB header:translation Chain: C: PDB Molecule:mrna transport regulator mtr2; PDBTitle: crystal structure of the c. albicans mtr2-mex67 m domain complex 7 d1mbya_ 29.1 13 Fold:Polo-box domain Superfamily:Polo-box domain Family:Swapped Polo-box domain 8 d2ebsa1 23.9 24 Fold:7-bladed beta-propeller Superfamily:Oligoxyloglucan reducing end-specific cellobiohydrolase Family:Oligoxyloglucan reducing end-specific cellobiohydrolase 9 d2ogqa2 22.1 26 Fold:Polo-box domain Superfamily:Polo-box domain Family:Polo-box duplicated region 10 d3e11a1 21.0 15 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:TTHA0227-like 11 d1q42a_ 20.4 43 Fold:Cystatin-like Superfamily:NTF2-like Family:NTF2-like 12 c1umwB_ 19.5 22 PDB header:kinase Chain: B: PDB Molecule:serine/threonine-protein kinase plk; PDBTitle: structure of a human plk1 polo-box domain/phosphopeptide2 complex 13 c2bsgA_ 18.8 20 PDB header:viral protein Chain: A: PDB Molecule:fibritin; PDBTitle: the modeled structure of fibritin (gpwac) of bacteriophage2 t4 based on cryo-em reconstruction of the extended tail of3 bacteriophage t4 14 c2v5iA_ 18.1 24 PDB header:viral protein Chain: A: PDB Molecule:salmonella typhimurium db7155 bacteriophage det7 PDBTitle: structure of the receptor-binding protein of bacteriophage2 det7: a podoviral tailspike in a myovirus 15 d2azeb1 14.4 23 Fold:E2F-DP heterodimerization region Superfamily:E2F-DP heterodimerization region Family:E2F dimerization segment 16 c3aabA_ 12.9 32 PDB header:chaperone Chain: A: PDB Molecule:putative uncharacterized protein st1653; PDBTitle: small heat shock protein hsp14.0 with the mutations of i120f and i122f2 in the form i crystal 17 d2h50a1 12.7 26 Fold:HSP20-like chaperones Superfamily:HSP20-like chaperones Family:HSP20 18 c2v1lA_ 12.4 19 PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: structure of the conserved hypothetical protein vc1805 from2 pathogenicity island vpi-2 of vibrio cholerae o1 biovar3 eltor str. n16961 shares structural homology with the4 human p32 protein 19 d1gmea_ 11.6 26 Fold:HSP20-like chaperones Superfamily:HSP20-like chaperones Family:HSP20 20 c3nrlB_ 11.6 50 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein rumgna_01417; PDBTitle: crystal structure of protein rumgna_01417 from ruminococcus gnavus,2 northeast structural genomics consortium target ugr76 21 c2qlvB_ not modelled 11.3 16 PDB header:transferase/protein binding Chain: B: PDB Molecule:protein sip2; PDBTitle: crystal structure of the heterotrimer core of the s.2 cerevisiae ampk homolog snf1 22 c3nmeA_ not modelled 11.3 16 PDB header:hydrolase Chain: A: PDB Molecule:sex4 glucan phosphatase; PDBTitle: structure of a plant phosphatase 23 c3btpA_ not modelled 11.1 33 PDB header:dna binding protein, chaperone Chain: A: PDB Molecule:single-strand dna-binding protein; PDBTitle: crystal structure of agrobacterium tumefaciens vire2 in complex with2 its chaperone vire1: a novel fold and implications for dna binding 24 d2qlvb1 not modelled 11.0 16 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like 25 c3igmA_ not modelled 11.0 10 PDB header:transcription/dna Chain: A: PDB Molecule:pf14_0633 protein; PDBTitle: a 2.2a crystal structure of the ap2 domain of pf14_0633 from p.2 falciparum, bound as a domain-swapped dimer to its cognate dna 26 d1gmeb_ not modelled 10.6 26 Fold:HSP20-like chaperones Superfamily:HSP20-like chaperones Family:HSP20 27 d2f15a1 not modelled 10.2 18 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like 28 d2je8a2 not modelled 9.5 6 Fold:Immunoglobulin-like beta-sandwich Superfamily:beta-Galactosidase/glucuronidase domain Family:beta-Galactosidase/glucuronidase domain 29 d1yuaa2 not modelled 8.9 18 Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Prokaryotic DNA topoisomerase I, a C-terminal fragment 30 d1z0mb1 not modelled 8.7 21 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like 31 c2euzA_ not modelled 8.6 33 PDB header:cell cycle/dna Chain: A: PDB Molecule:ndt80 protein; PDBTitle: structure of a ndt80-dna complex (mse mutant mc5t) 32 d1mnna_ not modelled 8.6 33 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:p53-like transcription factors Family:DNA-binding domain from NDT80 33 c3glaA_ not modelled 8.3 26 PDB header:chaperone Chain: A: PDB Molecule:low molecular weight heat shock protein; PDBTitle: crystal structure of the hspa from xanthomonas axonopodis 34 c1yuaA_ not modelled 7.8 18 PDB header:dna binding protein Chain: A: PDB Molecule:topoisomerase i; PDBTitle: c-terminal domain of escherichia coli topoisomerase i 35 d1z0na1 not modelled 7.6 18 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like 36 c2yz0A_ not modelled 7.5 10 PDB header:transferase Chain: A: PDB Molecule:serine/threonine-protein kinase gcn2; PDBTitle: solution structure of rwd/gi domain of saccharomyces2 cerevisiae gcn2 37 c2vecA_ not modelled 7.4 19 PDB header:cytosolic protein Chain: A: PDB Molecule:pirin-like protein yhak; PDBTitle: the crystal structure of the protein yhak from escherichia2 coli 38 d1veha_ not modelled 6.8 18 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 39 d1xhja_ not modelled 6.7 8 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 40 c2pmzQ_ not modelled 6.1 28 PDB header:translation, transferase Chain: Q: PDB Molecule:dna-directed rna polymerase subunit a; PDBTitle: archaeal rna polymerase from sulfolobus solfataricus 41 d2p3ya1 not modelled 6.1 19 Fold:VPA0735-like Superfamily:VPA0735-like Family:VPA0735-like 42 c2p3yA_ not modelled 6.1 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein vpa0735; PDBTitle: crystal structure of vpa0735 from vibrio parahaemolyticus. northeast2 structural genomics target vpr109 43 c3q9qB_ not modelled 6.0 16 PDB header:chaperone Chain: B: PDB Molecule:heat shock protein beta-1; PDBTitle: hspb1 fragment second crystal form 44 d1shsa_ not modelled 6.0 16 Fold:HSP20-like chaperones Superfamily:HSP20-like chaperones Family:HSP20 45 c1shsD_ not modelled 6.0 16 PDB header:heat shock protein Chain: D: PDB Molecule:small heat shock protein; PDBTitle: small heat shock protein from methanococcus jannaschii 46 c3n23E_ not modelled 5.6 17 PDB header:hydrolase Chain: E: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the high affinity complex between ouabain and the2 e2p form of the sodium-potassium pump 47 c2wj5A_ not modelled 5.5 21 PDB header:chaperone Chain: A: PDB Molecule:heat shock protein beta-6; PDBTitle: rat alpha crystallin domain 48 c2k38A_ not modelled 5.5 40 PDB header:antimicrobial protein Chain: A: PDB Molecule:cupiennin-1a; PDBTitle: cupiennin 1a, nmr, minimized average structure 49 d1j1la_ not modelled 5.4 20 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Pirin-like 50 c3k6qB_ not modelled 5.4 7 PDB header:ligand binding protein Chain: B: PDB Molecule:putative ligand binding protein; PDBTitle: crystal structure of an antitoxin part of a putative toxin/antitoxin2 system (swol_0700) from syntrophomonas wolfei subsp. wolfei at 1.80 a3 resolution 51 d1ro0a_ not modelled 5.3 36 Fold:Prim-pol domain Superfamily:Prim-pol domain Family:Bifunctional DNA primase/polymerase N-terminal domain 52 c2x6vB_ not modelled 5.2 7 PDB header:transcription/dna Chain: B: PDB Molecule:t-box transcription factor tbx5; PDBTitle: crystal structure of human tbx5 in the dna-bound and dna-2 free form 53 d1p5ta_ not modelled 5.1 21 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Phosphotyrosine-binding domain (PTB)

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

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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