Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	Q	P	S	I	K	P	A	D	E	H	S	A	G	D	I	I	A	R	I	G	S	L	T	R	M	L	R	D	S	L	R	E	L	G	L	D	Q	A	I	A	E	A	A	E	A	I	P	D	A	R	D	R	L	Y	Y	V	V	Q
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?		?	?	?	?	?																				?	?	?	?	?	?	?							?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	T	A	Q	A	A	E	R	A	L	N	S	V	E	A	S	Q	P	H	Q	D	Q	M	E	K	S	A	K	A	L	T	Q	R	W	D	D	W	F	A	D	P	I	D	L	A	D	A	R	E	L	V	T	D	T	R	Q	F	L	A	D
Secondary structure
SS confidence
Disorder																																							?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	P	A	H	T	S	F	T	N	A	Q	L	L	E	I	M	M	A	Q	D	F	Q	D	L	T	G	Q	V	I	K	R	M	M	D	V	I	Q	E	I	E	R	Q	L	L	M	V	L	L	E	N	I	P	E	Q	E	S	R	P	K	R
Secondary structure
SS confidence
Disorder		?																																																	?		?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.
Sequence		E	N	Q	S	L	L	N	G	P	Q	V	D	T	S	K	A	G	V	V	A	S	Q	D	Q	V	D	D	L	L	D	S	L	G	F
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 1kmi chain Z Region: 5 - 213 Aligned: 177 Modelled: 177 Confidence: 100.0% Identity: 100% PDB header:signaling protein Chain: Z: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of an e.coli chemotaxis protein, chez Phyre2 PDB 2pl9 chain D Region: 196 - 214 Aligned: 19 Modelled: 19 Confidence: 97.1% Identity: 100% PDB header:signaling protien Chain: D: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of chey-mg(2+)-bef(3)(-) in complex with chez(c19)2 peptide solved from a p2(1)2(1)2 crystal Phyre2 PDB 2pl9 chain E Region: 200 - 214 Aligned: 15 Modelled: 15 Confidence: 95.9% Identity: 100% PDB header:signaling protien Chain: E: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of chey-mg(2+)-bef(3)(-) in complex with chez(c19)2 peptide solved from a p2(1)2(1)2 crystal Phyre2 PDB 2pl9 chain F Region: 200 - 214 Aligned: 15 Modelled: 15 Confidence: 95.9% Identity: 100% PDB header:signaling protien Chain: F: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of chey-mg(2+)-bef(3)(-) in complex with chez(c19)2 peptide solved from a p2(1)2(1)2 crystal Phyre2 PDB 2dam chain A Region: 139 - 146 Aligned: 8 Modelled: 8 Confidence: 43.1% Identity: 75% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:etea protein; PDBTitle: solution structure of the novel identified uba-like domain2 in the n-terminal of human etea protein Phyre2 PDB 1zvz chain A Region: 15 - 144 Aligned: 130 Modelled: 130 Confidence: 35.4% Identity: 14% PDB header:protein binding Chain: A: PDB Molecule:vinculin; PDBTitle: vinculin head (0-258) in complex with the talin rod residue2 820-844 Phyre2 PDB 1szi chain A Region: 26 - 165 Aligned: 122 Modelled: 140 Confidence: 34.5% Identity: 15% Fold: Four-helical up-and-down bundle Superfamily: Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain Family: Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain Phyre2 PDB 2a2p chain A domain 1 Region: 200 - 214 Aligned: 15 Modelled: 15 Confidence: 32.2% Identity: 33% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: Selenoprotein W-related Phyre2 PDB 1rqb chain A domain 1 Region: 22 - 62 Aligned: 41 Modelled: 40 Confidence: 30.8% Identity: 20% Fold: RuvA C-terminal domain-like Superfamily: post-HMGL domain-like Family: Conserved carboxylase domain Phyre2 PDB 2wpq chain A Region: 41 - 135 Aligned: 95 Modelled: 95 Confidence: 27.6% Identity: 7% PDB header:membrane protein Chain: A: PDB Molecule:trimeric autotransporter adhesin fragment; PDBTitle: salmonella enterica sada 479-519 fused to gcn4 adaptors (2 sadak3, in-register fusion) Phyre2 PDB 2vs0 chain B Region: 60 - 143 Aligned: 79 Modelled: 84 Confidence: 21.7% Identity: 9% PDB header:cell invasion Chain: B: PDB Molecule:virulence factor esxa; PDBTitle: structural analysis of homodimeric staphylococcal aureus2 virulence factor esxa Phyre2 PDB 3gvm chain A Region: 60 - 143 Aligned: 79 Modelled: 84 Confidence: 18.2% Identity: 13% PDB header:viral protein Chain: A: PDB Molecule:putative uncharacterized protein sag1039; PDBTitle: structure of the homodimeric wxg-100 family protein from streptococcus2 agalactiae Phyre2 PDB 1rr2 chain A Region: 22 - 62 Aligned: 41 Modelled: 41 Confidence: 18.1% Identity: 20% PDB header:transferase Chain: A: PDB Molecule:transcarboxylase 5s subunit; PDBTitle: propionibacterium shermanii transcarboxylase 5s subunit bound to 2-2 ketobutyric acid Phyre2 PDB 1wa8 chain A domain 1 Region: 60 - 135 Aligned: 71 Modelled: 76 Confidence: 15.4% Identity: 15% Fold: Ferritin-like Superfamily: EsxAB dimer-like Family: ESAT-6 like Phyre2 PDB 3hkz chain Z Region: 91 - 114 Aligned: 24 Modelled: 24 Confidence: 14.5% Identity: 33% PDB header:transferase Chain: Z: PDB Molecule:dna-directed rna polymerase subunit 13; PDBTitle: the x-ray crystal structure of rna polymerase from archaea Phyre2 PDB 3ayh chain A Region: 26 - 78 Aligned: 53 Modelled: 53 Confidence: 14.3% Identity: 13% PDB header:transcription Chain: A: PDB Molecule:dna-directed rna polymerase iii subunit rpc9; PDBTitle: crystal structure of the c17/25 subcomplex from s. pombe rna2 polymerase iii Phyre2 PDB 3hkz chain Y Region: 91 - 115 Aligned: 25 Modelled: 25 Confidence: 13.8% Identity: 32% PDB header:transferase Chain: Y: PDB Molecule:dna-directed rna polymerase subunit 13; PDBTitle: the x-ray crystal structure of rna polymerase from archaea Phyre2 PDB 2waq chain Q Region: 91 - 115 Aligned: 25 Modelled: 25 Confidence: 13.6% Identity: 28% PDB header:transcription Chain: Q: PDB Molecule:dna-directed rna polymerase rpo13 subunit; PDBTitle: the complete structure of the archaeal 13-subunit dna-2 directed rna polymerase Phyre2 PDB 2e1f chain A domain 1 Region: 3 - 82 Aligned: 80 Modelled: 80 Confidence: 12.5% Identity: 10% Fold: SAM domain-like Superfamily: HRDC-like Family: HRDC domain from helicases Phyre2 PDB 2y0s chain J Region: 91 - 113 Aligned: 23 Modelled: 23 Confidence: 12.0% Identity: 30% PDB header:transferase Chain: J: PDB Molecule:rna polymerase subunit 13; PDBTitle: crystal structure of sulfolobus shibatae rna polymerase in2 p21 space group Phyre2 1 c1kmiZ_ 2 c2pl9D_ 3 c2pl9E_ 4 c2pl9F_ 5 c2damA_ 6 c1zvzA_ 7 d1szia_ 8 d2a2pa1 9 d1rqba1 10 c2wpqA_ 11 c2vs0B_ 12 c3gvmA_ 13 c1rr2A_ 14 d1wa8a1 15 c3hkzZ_ 16 c3ayhA_ 17 c3hkzY_ 18 c2waqQ_ 19 d2e1fa1 20 c2y0sJ_ 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 54 55

Detailed template information

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

1 c1kmiZ_ 100.0 100 PDB header:signaling protein Chain: Z: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of an e.coli chemotaxis protein, chez 2 c2pl9D_ 97.1 100 PDB header:signaling protien Chain: D: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of chey-mg(2+)-bef(3)(-) in complex with chez(c19)2 peptide solved from a p2(1)2(1)2 crystal 3 c2pl9E_ 95.9 100 PDB header:signaling protien Chain: E: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of chey-mg(2+)-bef(3)(-) in complex with chez(c19)2 peptide solved from a p2(1)2(1)2 crystal 4 c2pl9F_ 95.9 100 PDB header:signaling protien Chain: F: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of chey-mg(2+)-bef(3)(-) in complex with chez(c19)2 peptide solved from a p2(1)2(1)2 crystal 5 c2damA_ 43.1 75 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:etea protein; PDBTitle: solution structure of the novel identified uba-like domain2 in the n-terminal of human etea protein 6 c1zvzA_ 35.4 14 PDB header:protein binding Chain: A: PDB Molecule:vinculin; PDBTitle: vinculin head (0-258) in complex with the talin rod residue2 820-844 7 d1szia_ 34.5 15 Fold:Four-helical up-and-down bundle Superfamily:Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain Family:Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain 8 d2a2pa1 32.2 33 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Selenoprotein W-related 9 d1rqba1 30.8 20 Fold:RuvA C-terminal domain-like Superfamily:post-HMGL domain-like Family:Conserved carboxylase domain 10 c2wpqA_ 27.6 7 PDB header:membrane protein Chain: A: PDB Molecule:trimeric autotransporter adhesin fragment; PDBTitle: salmonella enterica sada 479-519 fused to gcn4 adaptors (2 sadak3, in-register fusion) 11 c2vs0B_ 21.7 9 PDB header:cell invasion Chain: B: PDB Molecule:virulence factor esxa; PDBTitle: structural analysis of homodimeric staphylococcal aureus2 virulence factor esxa 12 c3gvmA_ 18.2 13 PDB header:viral protein Chain: A: PDB Molecule:putative uncharacterized protein sag1039; PDBTitle: structure of the homodimeric wxg-100 family protein from streptococcus2 agalactiae 13 c1rr2A_ 18.1 20 PDB header:transferase Chain: A: PDB Molecule:transcarboxylase 5s subunit; PDBTitle: propionibacterium shermanii transcarboxylase 5s subunit bound to 2-2 ketobutyric acid 14 d1wa8a1 15.4 15 Fold:Ferritin-like Superfamily:EsxAB dimer-like Family:ESAT-6 like 15 c3hkzZ_ 14.5 33 PDB header:transferase Chain: Z: PDB Molecule:dna-directed rna polymerase subunit 13; PDBTitle: the x-ray crystal structure of rna polymerase from archaea 16 c3ayhA_ 14.3 13 PDB header:transcription Chain: A: PDB Molecule:dna-directed rna polymerase iii subunit rpc9; PDBTitle: crystal structure of the c17/25 subcomplex from s. pombe rna2 polymerase iii 17 c3hkzY_ 13.8 32 PDB header:transferase Chain: Y: PDB Molecule:dna-directed rna polymerase subunit 13; PDBTitle: the x-ray crystal structure of rna polymerase from archaea 18 c2waqQ_ 13.6 28 PDB header:transcription Chain: Q: PDB Molecule:dna-directed rna polymerase rpo13 subunit; PDBTitle: the complete structure of the archaeal 13-subunit dna-2 directed rna polymerase 19 d2e1fa1 12.5 10 Fold:SAM domain-like Superfamily:HRDC-like Family:HRDC domain from helicases 20 c2y0sJ_ 12.0 30 PDB header:transferase Chain: J: PDB Molecule:rna polymerase subunit 13; PDBTitle: crystal structure of sulfolobus shibatae rna polymerase in2 p21 space group 21 c2y0sQ_ not modelled 12.0 30 PDB header:transferase Chain: Q: PDB Molecule:rna polymerase subunit 13; PDBTitle: crystal structure of sulfolobus shibatae rna polymerase in2 p21 space group 22 c2nx9B_ not modelled 11.7 20 PDB header:lyase Chain: B: PDB Molecule:oxaloacetate decarboxylase 2, subunit alpha; PDBTitle: crystal structure of the carboxyltransferase domain of the2 oxaloacetate decarboxylase na+ pump from vibrio cholerae 23 d1wa8b1 not modelled 11.3 12 Fold:Ferritin-like Superfamily:EsxAB dimer-like Family:ESAT-6 like 24 d1we1a_ not modelled 10.9 22 Fold:Heme oxygenase-like Superfamily:Heme oxygenase-like Family:Eukaryotic type heme oxygenase 25 c2wb1Q_ not modelled 10.3 30 PDB header:transcription Chain: Q: PDB Molecule:dna-directed rna polymerase rpo13 subunit; PDBTitle: the complete structure of the archaeal 13-subunit dna-2 directed rna polymerase 26 c2dnxA_ not modelled 10.1 13 PDB header:transport protein Chain: A: PDB Molecule:syntaxin-12; PDBTitle: solution structure of rsgi ruh-063, an n-terminal domain of2 syntaxin 12 from human cdna 27 c2wb1J_ not modelled 9.7 30 PDB header:transcription Chain: J: PDB Molecule:dna-directed rna polymerase rpo13 subunit; PDBTitle: the complete structure of the archaeal 13-subunit dna-2 directed rna polymerase 28 d2fyma2 not modelled 9.6 20 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 29 c3g67A_ not modelled 9.4 12 PDB header:signaling protein Chain: A: PDB Molecule:methyl-accepting chemotaxis protein; PDBTitle: crystal structure of a soluble chemoreceptor from thermotoga2 maritima 30 d1eija_ not modelled 9.3 50 Fold:RuvA C-terminal domain-like Superfamily:Double-stranded DNA-binding domain Family:Double-stranded DNA-binding domain 31 c2vzdD_ not modelled 9.2 50 PDB header:cell adhesion Chain: D: PDB Molecule:paxillin; PDBTitle: crystal structure of the c-terminal calponin homology2 domain of alpha parvin in complex with paxillin ld1 motif 32 c2krcA_ not modelled 9.1 13 PDB header:transcription Chain: A: PDB Molecule:dna-directed rna polymerase subunit delta; PDBTitle: solution structure of the n-terminal domain of bacillus2 subtilis delta subunit of rna polymerase 33 c2pmzF_ not modelled 9.1 16 PDB header:translation, transferase Chain: F: PDB Molecule:dna-directed rna polymerase subunit f; PDBTitle: archaeal rna polymerase from sulfolobus solfataricus 34 c2vzdC_ not modelled 9.0 50 PDB header:cell adhesion Chain: C: PDB Molecule:paxillin; PDBTitle: crystal structure of the c-terminal calponin homology2 domain of alpha parvin in complex with paxillin ld1 motif 35 d2dnaa1 not modelled 8.4 31 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 36 d1dd5a_ not modelled 8.2 14 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Ribosome recycling factor, RRF Family:Ribosome recycling factor, RRF 37 d2akza2 not modelled 7.6 33 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 38 d1ug7a_ not modelled 7.4 19 Fold:Four-helical up-and-down bundle Superfamily:Domain from hypothetical 2610208m17rik protein Family:Domain from hypothetical 2610208m17rik protein 39 d2al1a2 not modelled 7.3 53 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 40 d1pdza2 not modelled 7.1 27 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 41 c3k8wA_ not modelled 7.0 17 PDB header:structural protein Chain: A: PDB Molecule:flagellin homolog; PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c45 42 c3s90B_ not modelled 6.7 14 PDB header:cell adhesion Chain: B: PDB Molecule:vinculin; PDBTitle: human vinculin head domain vh1 (residues 1-252) in complex with murine2 talin (vbs33; residues 1512-1546) 43 d2dsma1 not modelled 6.6 40 Fold:YqaI-like Superfamily:YqaI-like Family:YqaI-like 44 c2drnC_ not modelled 6.6 36 PDB header:transferase Chain: C: PDB Molecule:24-residues peptide from an a-kinase anchoring PDBTitle: docking and dimerization domain (d/d) of the type ii-alpha2 regulatory subunity of protein kinase a (pka) in complex3 with a peptide from an a-kinase anchoring protein 45 d1jjcb2 not modelled 6.2 22 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Domains B1 and B5 of PheRS-beta, PheT 46 d1st6a5 not modelled 6.1 15 Fold:Four-helical up-and-down bundle Superfamily:alpha-catenin/vinculin-like Family:alpha-catenin/vinculin 47 c2a93B_ not modelled 6.0 57 PDB header:leucine zippers Chain: B: PDB Molecule:c-myc-max heterodimeric leucine zipper; PDBTitle: nmr solution structure of the c-myc-max heterodimeric2 leucine zipper, 40 structures 48 d1qf9a_ not modelled 5.9 38 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nucleotide and nucleoside kinases 49 d1u2ma_ not modelled 5.7 40 Fold:OmpH-like Superfamily:OmpH-like Family:OmpH-like 50 c2k5cA_ not modelled 5.7 27 PDB header:metal binding protein Chain: A: PDB Molecule:uncharacterized protein pf0385; PDBTitle: nmr structure for pf0385 51 d1s94a_ not modelled 5.5 14 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 52 c1s94A_ not modelled 5.5 14 PDB header:endocytosis/exocytosis Chain: A: PDB Molecule:s-syntaxin; PDBTitle: crystal structure of the habc domain of neuronal syntaxin from the2 squid loligo pealei 53 c3cdhB_ not modelled 5.4 19 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of the marr family transcriptional regulator spo14532 from silicibacter pomeroyi dss-3 54 c2ch7A_ not modelled 5.2 14 PDB header:chemotaxis Chain: A: PDB Molecule:methyl-accepting chemotaxis protein; PDBTitle: crystal structure of the cytoplasmic domain of a bacterial2 chemoreceptor from thermotoga maritima 55 c3tj5A_ not modelled 5.1 17 PDB header:protein binding/toxin Chain: A: PDB Molecule:vinculin; PDBTitle: human vinculin head domain (vh1, residues 1-258) in complex with the2 vinculin binding site of the surface cell antigen 4 (sca4-vbs-n;3 residues 412-434) from rickettsia rickettsii

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