Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	H	A	I	Y	T	A	M	G	A	A	S	Q	T	L	N	Q	Q	A	V	T	A	S	N	L	A	N	A	S	T	P	G	F	R	A	Q	L	N	A	L	R	A	V	P	V	E	G	L	S	L	P	T	R	T	L	V	T	A	S
Secondary structure
SS confidence
Disorder		?	?	?																?																	?			?	?						?	?	?	?	?	?	?	?	?	?	?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	P	G	A	D	M	T	P	G	K	M	D	Y	T	S	R	P	L	D	V	A	L	Q	Q	D	G	W	L	A	V	Q	T	A	D	G	S	E	G	Y	T	R	N	G	S	I	Q	V	D	P	T	G	Q	L	T	I	Q	G	H	P	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?							?		?																																														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	G	E	A	G	P	I	A	V	P	E	G	A	E	I	T	I	A	A	D	G	T	I	S	A	L	N	P	G	D	P	A	N	T	V	A	P	V	G	R	L	K	L	V	K	A	T	G	S	E	V	Q	R	G	D	D	G	I	F	R
Secondary structure
SS confidence
Disorder								?				?	?	?	?		?	?									?	?	?	?	?	?	?	?	?	?		?	?										?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	S	A	E	T	Q	A	T	R	G	P	V	L	Q	A	D	P	T	L	R	V	M	S	G	V	L	E	G	S	N	V	N	A	V	A	A	M	S	D	M	I	A	S	A	R	R	F	E	M	Q	M	K	V	I	S	S	V	D	D	N
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?				?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.
Sequence		A	G	R	A	N	Q	L	L	S	M	S
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 3a69 chain A Region: 4 - 248 Aligned: 185 Modelled: 196 Confidence: 100.0% Identity: 26% PDB header:motor protein Chain: A: PDB Molecule:flagellar hook protein flge; PDBTitle: atomic model of the bacterial flagellar hook based on2 docking an x-ray derived structure and terminal two alpha-3 helices into an 7.1 angstrom resolution cryoem map Phyre2 PDB 1wlg chain A Region: 78 - 209 Aligned: 130 Modelled: 132 Confidence: 99.9% Identity: 28% Fold: Flagellar hook protein flgE Superfamily: Flagellar hook protein flgE Family: Flagellar hook protein flgE Phyre2 PDB 1ucu chain A Region: 210 - 249 Aligned: 40 Modelled: 40 Confidence: 91.7% Identity: 13% Fold: Phase 1 flagellin Superfamily: Phase 1 flagellin Family: Phase 1 flagellin Phyre2 PDB 1ory chain B Region: 210 - 249 Aligned: 40 Modelled: 39 Confidence: 65.5% Identity: 18% PDB header:chaperone Chain: B: PDB Molecule:flagellin; PDBTitle: flagellar export chaperone in complex with its cognate binding partner Phyre2 PDB 2czr chain A domain 1 Region: 83 - 125 Aligned: 43 Modelled: 43 Confidence: 34.6% Identity: 26% Fold: Restriction endonuclease-like Superfamily: TBP-interacting protein-like Family: TBP-interacting protein-like Phyre2 PDB 3k8v chain B Region: 211 - 231 Aligned: 21 Modelled: 21 Confidence: 31.6% Identity: 0% PDB header:structural protein Chain: B: PDB Molecule:flagellin homolog; PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c20 Phyre2 PDB 1b2p chain A Region: 74 - 120 Aligned: 47 Modelled: 47 Confidence: 25.3% Identity: 23% Fold: beta-Prism II Superfamily: alpha-D-mannose-specific plant lectins Family: alpha-D-mannose-specific plant lectins Phyre2 PDB 2d9s chain A Region: 207 - 249 Aligned: 43 Modelled: 43 Confidence: 22.3% Identity: 14% PDB header:ligase Chain: A: PDB Molecule:cbl e3 ubiquitin protein ligase; PDBTitle: solution structure of rsgi ruh-049, a uba domain from mouse2 cdna Phyre2 PDB 1kj1 chain D Region: 94 - 150 Aligned: 57 Modelled: 57 Confidence: 20.8% Identity: 12% Fold: beta-Prism II Superfamily: alpha-D-mannose-specific plant lectins Family: alpha-D-mannose-specific plant lectins Phyre2 PDB 2axw chain A domain 1 Region: 72 - 130 Aligned: 59 Modelled: 59 Confidence: 18.3% Identity: 22% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1eej chain A domain 2 Region: 85 - 120 Aligned: 36 Modelled: 36 Confidence: 14.5% Identity: 22% Fold: Cystatin-like Superfamily: DsbC/DsbG N-terminal domain-like Family: DsbC/DsbG N-terminal domain-like Phyre2 PDB 3mez chain B Region: 75 - 120 Aligned: 46 Modelled: 46 Confidence: 12.9% Identity: 15% PDB header:sugar binding protein Chain: B: PDB Molecule:mannose-specific lectin 3 chain 2; PDBTitle: x-ray structural analysis of a mannose specific lectin from dutch2 crocus (crocus vernus) Phyre2 PDB 1lvo chain A Region: 25 - 35 Aligned: 11 Modelled: 11 Confidence: 12.3% Identity: 36% Fold: Trypsin-like serine proteases Superfamily: Trypsin-like serine proteases Family: Viral cysteine protease of trypsin fold Phyre2 PDB 3afo chain B Region: 78 - 163 Aligned: 80 Modelled: 85 Confidence: 12.0% Identity: 21% PDB header:transferase Chain: B: PDB Molecule:nadh kinase pos5; PDBTitle: crystal structure of yeast nadh kinase complexed with nadh Phyre2 PDB 2q6f chain B Region: 25 - 35 Aligned: 11 Modelled: 11 Confidence: 11.9% Identity: 45% PDB header:hydrolase Chain: B: PDB Molecule:infectious bronchitis virus (ibv) main protease; PDBTitle: crystal structure of infectious bronchitis virus (ibv) main2 protease in complex with a michael acceptor inhibitor n3 Phyre2 PDB 1t3b chain A domain 2 Region: 85 - 110 Aligned: 26 Modelled: 26 Confidence: 11.8% Identity: 15% Fold: Cystatin-like Superfamily: DsbC/DsbG N-terminal domain-like Family: DsbC/DsbG N-terminal domain-like Phyre2 PDB 2fvn chain A Region: 72 - 134 Aligned: 63 Modelled: 63 Confidence: 11.0% Identity: 21% PDB header:cell adhesion Chain: A: PDB Molecule:protein afad; PDBTitle: the fibrillar tip complex of the afa/dr adhesins from2 pathogen e. coli displays synergistic binding to 5 1 and v3 3 integrins Phyre2 PDB 2oqk chain A Region: 80 - 101 Aligned: 22 Modelled: 22 Confidence: 10.1% Identity: 18% PDB header:translation Chain: A: PDB Molecule:putative translation initiation factor eif-1a; PDBTitle: crystal structure of putative cryptosporidium parvum translation2 initiation factor eif-1a Phyre2 PDB 2duc chain A domain 1 Region: 25 - 35 Aligned: 11 Modelled: 11 Confidence: 10.1% Identity: 27% Fold: Trypsin-like serine proteases Superfamily: Trypsin-like serine proteases Family: Viral cysteine protease of trypsin fold Phyre2 PDB 3d23 chain A Region: 25 - 35 Aligned: 11 Modelled: 11 Confidence: 9.5% Identity: 36% PDB header:hydrolase Chain: A: PDB Molecule:3c-like proteinase; PDBTitle: main protease of hcov-hku1 Phyre2 1 c3a69A_ 2 d1wlga_ 3 d1ucua_ 4 c1oryB_ 5 d2czra1 6 c3k8vB_ 7 d1b2pa_ 8 c2d9sA_ 9 d1kj1d_ 10 d2axwa1 11 d1eeja2 12 c3mezB_ 13 d1lvoa_ 14 c3afoB_ 15 c2q6fB_ 16 d1t3ba2 17 c2fvnA_ 18 c2oqkA_ 19 d2duca1 20 c3d23A_ 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 Coverage 3D Model Confidence % i.d. Template Information

1 c3a69A_ 100.0 26 PDB header:motor protein Chain: A: PDB Molecule:flagellar hook protein flge; PDBTitle: atomic model of the bacterial flagellar hook based on2 docking an x-ray derived structure and terminal two alpha-3 helices into an 7.1 angstrom resolution cryoem map 2 d1wlga_ 99.9 28 Fold:Flagellar hook protein flgE Superfamily:Flagellar hook protein flgE Family:Flagellar hook protein flgE 3 d1ucua_ 91.7 13 Fold:Phase 1 flagellin Superfamily:Phase 1 flagellin Family:Phase 1 flagellin 4 c1oryB_ 65.5 18 PDB header:chaperone Chain: B: PDB Molecule:flagellin; PDBTitle: flagellar export chaperone in complex with its cognate binding partner 5 d2czra1 34.6 26 Fold:Restriction endonuclease-like Superfamily:TBP-interacting protein-like Family:TBP-interacting protein-like 6 c3k8vB_ 31.6 0 PDB header:structural protein Chain: B: PDB Molecule:flagellin homolog; PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c20 7 d1b2pa_ 25.3 23 Fold:beta-Prism II Superfamily:alpha-D-mannose-specific plant lectins Family:alpha-D-mannose-specific plant lectins 8 c2d9sA_ 22.3 14 PDB header:ligase Chain: A: PDB Molecule:cbl e3 ubiquitin protein ligase; PDBTitle: solution structure of rsgi ruh-049, a uba domain from mouse2 cdna 9 d1kj1d_ 20.8 12 Fold:beta-Prism II Superfamily:alpha-D-mannose-specific plant lectins Family:alpha-D-mannose-specific plant lectins 10 d2axwa1 18.3 22 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 11 d1eeja2 14.5 22 Fold:Cystatin-like Superfamily:DsbC/DsbG N-terminal domain-like Family:DsbC/DsbG N-terminal domain-like 12 c3mezB_ 12.9 15 PDB header:sugar binding protein Chain: B: PDB Molecule:mannose-specific lectin 3 chain 2; PDBTitle: x-ray structural analysis of a mannose specific lectin from dutch2 crocus (crocus vernus) 13 d1lvoa_ 12.3 36 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Viral cysteine protease of trypsin fold 14 c3afoB_ 12.0 21 PDB header:transferase Chain: B: PDB Molecule:nadh kinase pos5; PDBTitle: crystal structure of yeast nadh kinase complexed with nadh 15 c2q6fB_ 11.9 45 PDB header:hydrolase Chain: B: PDB Molecule:infectious bronchitis virus (ibv) main protease; PDBTitle: crystal structure of infectious bronchitis virus (ibv) main2 protease in complex with a michael acceptor inhibitor n3 16 d1t3ba2 11.8 15 Fold:Cystatin-like Superfamily:DsbC/DsbG N-terminal domain-like Family:DsbC/DsbG N-terminal domain-like 17 c2fvnA_ 11.0 21 PDB header:cell adhesion Chain: A: PDB Molecule:protein afad; PDBTitle: the fibrillar tip complex of the afa/dr adhesins from2 pathogen e. coli displays synergistic binding to 5 1 and v3 3 integrins 18 c2oqkA_ 10.1 18 PDB header:translation Chain: A: PDB Molecule:putative translation initiation factor eif-1a; PDBTitle: crystal structure of putative cryptosporidium parvum translation2 initiation factor eif-1a 19 d2duca1 10.1 27 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Viral cysteine protease of trypsin fold 20 c3d23A_ 9.5 36 PDB header:hydrolase Chain: A: PDB Molecule:3c-like proteinase; PDBTitle: main protease of hcov-hku1 21 d1g73a_ not modelled 9.1 11 Fold:Spectrin repeat-like Superfamily:Smac/diablo Family:Smac/diablo 22 c2cazF_ not modelled 9.0 17 PDB header:protein transport Chain: F: PDB Molecule:protein srn2; PDBTitle: escrt-i core 23 c2iyjA_ not modelled 8.8 23 PDB header:isomerase Chain: A: PDB Molecule:thiol disulfide interchange protein dsbc; PDBTitle: crystal structure of the n-terminal dimer domain of e.coli2 dsbc 24 c3ec1A_ not modelled 8.5 15 PDB header:hydrolase, signaling protein Chain: A: PDB Molecule:yqeh gtpase; PDBTitle: structure of yqeh gtpase from geobacillus stearothermophilus2 (an atnos1 / atnoa1 ortholog) 25 d1p9sa_ not modelled 8.1 27 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Viral cysteine protease of trypsin fold 26 c3h2yA_ not modelled 8.1 18 PDB header:hydrolase Chain: A: PDB Molecule:gtpase family protein; PDBTitle: crystal structure of yqeh gtpase from bacillus anthracis with dgdp2 bound 27 c3lyvF_ not modelled 8.0 19 PDB header:chaperone Chain: F: PDB Molecule:ribosome-associated factor y; PDBTitle: crystal structure of a domain of ribosome-associated factor y from2 streptococcus pyogenes serotype m6. northeast structural genomics3 consortium target id dr64a 28 d1niga_ not modelled 8.0 29 Fold:Ferritin-like Superfamily:Cobalamin adenosyltransferase-like Family:Hypothetical protein Ta1238 29 c1jzdA_ not modelled 7.7 26 PDB header:oxidoreductase Chain: A: PDB Molecule:thiol:disulfide interchange protein dsbc; PDBTitle: dsbc-dsbdalpha complex 30 c2dk7A_ not modelled 7.3 21 PDB header:transcription Chain: A: PDB Molecule:transcription elongation regulator 1; PDBTitle: solution structure of ww domain in transcription elongation2 regulator 1 31 d1vhoa1 not modelled 7.1 21 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like Superfamily:Aminopeptidase/glucanase lid domain Family:Aminopeptidase/glucanase lid domain 32 c2dgyA_ not modelled 7.1 18 PDB header:translation Chain: A: PDB Molecule:mgc11102 protein; PDBTitle: solution structure of the eukaryotic initiation factor 1a2 in mgc11102 protein 33 c3r0eD_ not modelled 6.9 9 PDB header:sugar binding protein Chain: D: PDB Molecule:lectin; PDBTitle: structure of remusatia vivipara lectin 34 c2kjzA_ not modelled 6.9 18 PDB header:unknown function Chain: A: PDB Molecule:atc0852; PDBTitle: solution nmr structure of protein atc0852 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att2. 35 d1fewa_ not modelled 6.9 11 Fold:Spectrin repeat-like Superfamily:Smac/diablo Family:Smac/diablo 36 c3bqxA_ not modelled 6.8 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:glyoxalase-related enzyme; PDBTitle: high resolution crystal structure of a glyoxalase-related enzyme from2 fulvimarina pelagi 37 d1pn0a1 not modelled 6.6 27 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:FAD-linked reductases, N-terminal domain 38 c2jnhA_ not modelled 6.5 18 PDB header:ligase Chain: A: PDB Molecule:e3 ubiquitin-protein ligase cbl-b; PDBTitle: solution structure of the uba domain from cbl-b 39 c1yt5A_ not modelled 6.3 20 PDB header:transferase Chain: A: PDB Molecule:inorganic polyphosphate/atp-nad kinase; PDBTitle: crystal structure of nad kinase from thermotoga maritima 40 c3ohgA_ not modelled 6.1 9 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein from duf2233 family; PDBTitle: crystal structure of a protein with unknown function from duf22332 family (bacova_00430) from bacteroides ovatus at 1.80 a resolution 41 c2an1D_ not modelled 5.9 14 PDB header:transferase Chain: D: PDB Molecule:putative kinase; PDBTitle: structural genomics, the crystal structure of a putative kinase from2 salmonella typhimurim lt2 42 d1o6wa2 not modelled 5.7 39 Fold:WW domain-like Superfamily:WW domain Family:WW domain 43 c3jr0B_ not modelled 5.7 38 PDB header:structural protein Chain: B: PDB Molecule:gene 9 protein; PDBTitle: crystal structure of phage sf6 gp26 c-terminal knob domain 44 d1nrja_ not modelled 5.5 67 Fold:Profilin-like Superfamily:SNARE-like Family:SRP alpha N-terminal domain-like 45 d1jt8a_ not modelled 5.5 22 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 46 d1m9sa4 not modelled 5.5 16 Fold:SH3-like barrel Superfamily:Prokaryotic SH3-related domain Family:GW domain 47 c3bk2A_ not modelled 5.4 26 PDB header:hydrolase Chain: A: PDB Molecule:metal dependent hydrolase; PDBTitle: crystal structure analysis of the rnase j/ump complex 48 c3kglB_ not modelled 5.2 13 PDB header:plant protein Chain: B: PDB Molecule:cruciferin; PDBTitle: crystal structure of procruciferin, 11s globulin from2 brassica napus 49 c2dbhA_ not modelled 5.1 43 PDB header:signaling protein Chain: A: PDB Molecule:tumor necrosis factor receptor superfamily PDBTitle: solution structure of the carboxyl-terminal card-like2 domain in human tnfr-related death receptor-6 50 c2gq1A_ not modelled 5.1 16 PDB header:hydrolase Chain: A: PDB Molecule:fructose-1,6-bisphosphatase; PDBTitle: crystal structure of recombinant type i fructose-1,6-bisphosphatase2 from escherichia coli complexed with sulfate ions 51 d1d7qa_ not modelled 5.1 18 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like

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