Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	I	R	L	Y	K	L	A	V	A	L	G	V	F	I	V	S	A	P	A	F	S	H	G	H	H	S	H	G	K	P	L	T	E	V	E	Q	K	A	A	N	G	V	F	D	D	A	N	V	Q	N	R	T	L	S	D	W	D	G
Secondary structure
SS confidence
Disorder		?	?	?	?														?	?	?	?	?	?	?	?	?	?	?	?	?	?	?							?	?	?	?	?	?	?	?	?	?	?	?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	W	Q	S	V	Y	P	L	L	Q	S	G	K	L	D	P	V	F	Q	K	K	A	D	A	D	K	T	K	T	F	A	E	I	K	D	Y	Y	H	K	G	Y	A	T	D	I	E	M	I	G	I	E	D	G	I	V	E	F	H	R	N
Secondary structure
SS confidence
Disorder																									?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		N	E	T	T	S	C	K	Y	D	Y	D	G	Y	K	I	L	T	Y	K	S	G	K	K	G	V	R	Y	L	F	E	C	K	D	P	E	S	K	A	P	K	Y	I	Q	F	S	D	H	I	I	A	P	R	K	S	S	H	F	H	I	F
Secondary structure
SS confidence
Disorder				?																?	?																													?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.
Sequence		M	G	N	D	S	Q	Q	S	L	L	N	E	M	E	N	W	P	T	Y	Y	P	Y	Q	L	S	S	E	E	V	V	E	E	M	M	S	H
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 1txl chain A Region: 29 - 216 Aligned: 188 Modelled: 188 Confidence: 100.0% Identity: 100% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:metal-binding protein yoda; PDBTitle: crystal structure of metal-binding protein yoda from e.2 coli, pfam duf149 Phyre2 PDB 1txl chain A Region: 29 - 216 Aligned: 188 Modelled: 188 Confidence: 100.0% Identity: 100% Fold: Lipocalins Superfamily: Lipocalins Family: Hypothetical protein YodA Phyre2 PDB 1c8b chain A Region: 162 - 215 Aligned: 45 Modelled: 54 Confidence: 55.3% Identity: 33% Fold: Phosphorylase/hydrolase-like Superfamily: HybD-like Family: Germination protease Phyre2 PDB 2nvu chain B Region: 48 - 72 Aligned: 25 Modelled: 25 Confidence: 39.0% Identity: 32% PDB header:protein turnover, ligase Chain: B: PDB Molecule:maltose binding protein/nedd8-activating enzyme PDBTitle: structure of appbp1-uba3~nedd8-nedd8-mgatp-ubc12(c111a), a2 trapped ubiquitin-like protein activation complex Phyre2 PDB 2nog chain A Region: 78 - 102 Aligned: 25 Modelled: 25 Confidence: 29.7% Identity: 20% PDB header:dna binding protein Chain: A: PDB Molecule:iswi protein; PDBTitle: sant domain structure of xenopus remodeling factor iswi Phyre2 PDB 1nkg chain A domain 3 Region: 100 - 186 Aligned: 85 Modelled: 87 Confidence: 27.3% Identity: 12% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: Rhamnogalacturonase B, RhgB, N-terminal domain Phyre2 PDB 2kkm chain A Region: 46 - 68 Aligned: 21 Modelled: 23 Confidence: 27.2% Identity: 29% PDB header:translation Chain: A: PDB Molecule:translation machinery-associated protein 16; PDBTitle: solution nmr structure of yeast protein yor252w [residues2 38-178]: northeast structural genomics consortium target3 yt654 Phyre2 PDB 1gjj chain A domain 1 Region: 201 - 216 Aligned: 16 Modelled: 16 Confidence: 24.0% Identity: 19% Fold: LEM/SAP HeH motif Superfamily: LEM domain Family: LEM domain Phyre2 PDB 1h9e chain A Region: 201 - 216 Aligned: 16 Modelled: 16 Confidence: 22.0% Identity: 19% Fold: LEM/SAP HeH motif Superfamily: LEM domain Family: LEM domain Phyre2 PDB 1yov chain B domain 1 Region: 57 - 73 Aligned: 17 Modelled: 17 Confidence: 17.8% Identity: 35% Fold: Activating enzymes of the ubiquitin-like proteins Superfamily: Activating enzymes of the ubiquitin-like proteins Family: Ubiquitin activating enzymes (UBA) Phyre2 PDB 1x41 chain A Region: 78 - 107 Aligned: 30 Modelled: 30 Confidence: 16.4% Identity: 27% PDB header:transcription Chain: A: PDB Molecule:transcriptional adaptor 2-like, isoform b; PDBTitle: solution structure of the myb-like dna binding domain of2 human transcriptional adaptor 2-like, isoform b Phyre2 PDB 3gzn chain B Region: 57 - 73 Aligned: 17 Modelled: 17 Confidence: 15.1% Identity: 35% PDB header:protein binding/ligase Chain: B: PDB Molecule:nedd8-activating enzyme e1 catalytic subunit; PDBTitle: structure of nedd8-activating enzyme in complex with nedd82 and mln4924 Phyre2 PDB 2l5q chain A Region: 64 - 99 Aligned: 36 Modelled: 36 Confidence: 12.4% Identity: 14% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of bvu_3817 from bacteroides vulgatus,2 northeast structural genomics consortium target bvr159 Phyre2 PDB 1jlx chain A domain 1 Region: 156 - 186 Aligned: 31 Modelled: 31 Confidence: 12.3% Identity: 10% Fold: beta-Trefoil Superfamily: Agglutinin Family: Agglutinin Phyre2 PDB 1izn chain A Region: 58 - 73 Aligned: 16 Modelled: 16 Confidence: 11.1% Identity: 25% Fold: Subunits of heterodimeric actin filament capping protein Capz Superfamily: Subunits of heterodimeric actin filament capping protein Capz Family: Capz alpha-1 subunit Phyre2 PDB 3lgg chain A Region: 31 - 65 Aligned: 35 Modelled: 35 Confidence: 10.5% Identity: 11% PDB header:hydrolase Chain: A: PDB Molecule:adenosine deaminase cecr1; PDBTitle: crystal structure of human adenosine deaminase growth factor,2 adenosine deaminase type 2 (ada2) complexed with transition state3 analogue, coformycin Phyre2 PDB 1q8c chain A Region: 31 - 67 Aligned: 32 Modelled: 37 Confidence: 10.2% Identity: 19% Fold: NusB-like Superfamily: NusB-like Family: Hypothetical protein MG027 Phyre2 PDB 1w5r chain A domain 1 Region: 59 - 125 Aligned: 67 Modelled: 67 Confidence: 10.2% Identity: 15% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Arylamine N-acetyltransferase Phyre2 PDB 3deo chain A domain 1 Region: 182 - 212 Aligned: 31 Modelled: 31 Confidence: 9.4% Identity: 23% Fold: SH3-like barrel Superfamily: Chromo domain-like Family: Chromo domain Phyre2 PDB 1cmc chain A Region: 56 - 67 Aligned: 12 Modelled: 12 Confidence: 9.3% Identity: 33% Fold: Ribbon-helix-helix Superfamily: Ribbon-helix-helix Family: Met repressor, MetJ (MetR) Phyre2 1 c1txlA_ 2 d1txla_ 3 d1c8ba_ 4 c2nvuB_ 5 c2nogA_ 6 d1nkga3 7 c2kkmA_ 8 d1gjja1 9 d1h9ea_ 10 d1yovb1 11 c1x41A_ 12 c3gznB_ 13 c2l5qA_ 14 d1jlxa1 15 d1izna_ 16 c3lggA_ 17 d1q8ca_ 18 d1w5ra1 19 d3deoa1 20 d1cmca_ 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 56 57 58

Detailed template information

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

1 c1txlA_ 100.0 100 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:metal-binding protein yoda; PDBTitle: crystal structure of metal-binding protein yoda from e.2 coli, pfam duf149 2 d1txla_ 100.0 100 Fold:Lipocalins Superfamily:Lipocalins Family:Hypothetical protein YodA 3 d1c8ba_ 55.3 33 Fold:Phosphorylase/hydrolase-like Superfamily:HybD-like Family:Germination protease 4 c2nvuB_ 39.0 32 PDB header:protein turnover, ligase Chain: B: PDB Molecule:maltose binding protein/nedd8-activating enzyme PDBTitle: structure of appbp1-uba3~nedd8-nedd8-mgatp-ubc12(c111a), a2 trapped ubiquitin-like protein activation complex 5 c2nogA_ 29.7 20 PDB header:dna binding protein Chain: A: PDB Molecule:iswi protein; PDBTitle: sant domain structure of xenopus remodeling factor iswi 6 d1nkga3 27.3 12 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:Rhamnogalacturonase B, RhgB, N-terminal domain 7 c2kkmA_ 27.2 29 PDB header:translation Chain: A: PDB Molecule:translation machinery-associated protein 16; PDBTitle: solution nmr structure of yeast protein yor252w [residues2 38-178]: northeast structural genomics consortium target3 yt654 8 d1gjja1 24.0 19 Fold:LEM/SAP HeH motif Superfamily:LEM domain Family:LEM domain 9 d1h9ea_ 22.0 19 Fold:LEM/SAP HeH motif Superfamily:LEM domain Family:LEM domain 10 d1yovb1 17.8 35 Fold:Activating enzymes of the ubiquitin-like proteins Superfamily:Activating enzymes of the ubiquitin-like proteins Family:Ubiquitin activating enzymes (UBA) 11 c1x41A_ 16.4 27 PDB header:transcription Chain: A: PDB Molecule:transcriptional adaptor 2-like, isoform b; PDBTitle: solution structure of the myb-like dna binding domain of2 human transcriptional adaptor 2-like, isoform b 12 c3gznB_ 15.1 35 PDB header:protein binding/ligase Chain: B: PDB Molecule:nedd8-activating enzyme e1 catalytic subunit; PDBTitle: structure of nedd8-activating enzyme in complex with nedd82 and mln4924 13 c2l5qA_ 12.4 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of bvu_3817 from bacteroides vulgatus,2 northeast structural genomics consortium target bvr159 14 d1jlxa1 12.3 10 Fold:beta-Trefoil Superfamily:Agglutinin Family:Agglutinin 15 d1izna_ 11.1 25 Fold:Subunits of heterodimeric actin filament capping protein Capz Superfamily:Subunits of heterodimeric actin filament capping protein Capz Family:Capz alpha-1 subunit 16 c3lggA_ 10.5 11 PDB header:hydrolase Chain: A: PDB Molecule:adenosine deaminase cecr1; PDBTitle: crystal structure of human adenosine deaminase growth factor,2 adenosine deaminase type 2 (ada2) complexed with transition state3 analogue, coformycin 17 d1q8ca_ 10.2 19 Fold:NusB-like Superfamily:NusB-like Family:Hypothetical protein MG027 18 d1w5ra1 10.2 15 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Arylamine N-acetyltransferase 19 d3deoa1 9.4 23 Fold:SH3-like barrel Superfamily:Chromo domain-like Family:Chromo domain 20 d1cmca_ 9.3 33 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:Met repressor, MetJ (MetR) 21 d1dixa_ not modelled 9.2 25 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 22 d1ofcx1 not modelled 9.0 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 23 c2x0lB_ not modelled 8.6 19 PDB header:transcription Chain: B: PDB Molecule:rest corepressor 1; PDBTitle: crystal structure of a neuro-specific splicing variant of2 human histone lysine demethylase lsd1. 24 c2iw5B_ not modelled 8.6 19 PDB header:oxidoreductase/transcription regulator Chain: B: PDB Molecule:rest corepressor 1; PDBTitle: structural basis for corest-dependent demethylation of2 nucleosomes by the human lsd1 histone demethylase 25 c2xajB_ not modelled 8.6 19 PDB header:transcription Chain: B: PDB Molecule:rest corepressor 1; PDBTitle: crystal structure of lsd1-corest in complex with (-)-trans-2 2-phenylcyclopropyl-1-amine 26 c2v1dB_ not modelled 8.6 19 PDB header:oxidoreductase/repressor Chain: B: PDB Molecule:rest corepressor 1; PDBTitle: structural basis of lsd1-corest selectivity in histone h32 recognition 27 d1xc5a1 not modelled 8.6 30 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 28 d2cqqa1 not modelled 8.6 7 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 29 d1mdwa_ not modelled 8.4 16 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Calpain large subunit, catalytic domain (domain II) 30 d1a4ma_ not modelled 8.1 15 Fold:TIM beta/alpha-barrel Superfamily:Metallo-dependent hydrolases Family:Adenosine/AMP deaminase 31 d1x41a1 not modelled 8.1 33 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 32 d2ijra1 not modelled 8.1 19 Fold:Api92-like Superfamily:Api92-like Family:Api92-like 33 d1vmha_ not modelled 7.8 57 Fold:YjbQ-like Superfamily:YjbQ-like Family:YjbQ-like 34 d1j0ha1 not modelled 7.2 17 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:E-set domains of sugar-utilizing enzymes 35 d1vmfa_ not modelled 7.1 71 Fold:YjbQ-like Superfamily:YjbQ-like Family:YjbQ-like 36 c2kmuA_ not modelled 6.9 18 PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent dna helicase q4; PDBTitle: recql4 amino-terminal domain 37 d1vmja_ not modelled 6.8 43 Fold:YjbQ-like Superfamily:YjbQ-like Family:YjbQ-like 38 c2p6cB_ not modelled 6.7 43 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:aq_2013 protein; PDBTitle: crystal structure of hypothetical protein aq_2013 from aquifex2 aeolicus vf5. 39 c3oiqB_ not modelled 6.7 44 PDB header:protein binding Chain: B: PDB Molecule:dna polymerase alpha catalytic subunit a; PDBTitle: crystal structure of yeast telomere protein cdc13 ob1 and the2 catalytic subunit of dna polymerase alpha pol1 40 d1gvia1 not modelled 6.7 13 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:E-set domains of sugar-utilizing enzymes 41 c3efcA_ not modelled 6.6 13 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein assembly factor yaet; PDBTitle: crystal structure of yaet periplasmic domain 42 c2cu5C_ not modelled 6.5 57 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:conserved hypothetical protein tt1486; PDBTitle: crystal structure of the conserved hypothetical protein tt1486 from2 thermus thermophilus hb8 43 c2vzkD_ not modelled 6.3 12 PDB header:transferase Chain: D: PDB Molecule:glutamate n-acetyltransferase 2 beta chain; PDBTitle: structure of the acyl-enzyme complex of an n-terminal2 nucleophile (ntn) hydrolase, oat2 44 d2ok5a4 not modelled 6.2 16 Fold:Complement control module/SCR domain Superfamily:Complement control module/SCR domain Family:Complement control module/SCR domain 45 c1v91A_ not modelled 6.2 17 PDB header:toxin Chain: A: PDB Molecule:delta-palutoxin it2; PDBTitle: solution structure of insectidal toxin delta-paluit2-nh2 46 d2fefa1 not modelled 6.1 32 Fold:Bromodomain-like Superfamily:PA2201 N-terminal domain-like Family:PA2201 N-terminal domain-like 47 c3fljA_ not modelled 5.9 0 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein conserved in bacteria with a PDBTitle: crystal structure of uncharacterized protein conserved in bacteria2 with a cystatin-like fold (yp_168589.1) from silicibacter pomeroyi3 dss-3 at 2.00 a resolution 48 d2soba_ not modelled 5.9 11 Fold:OB-fold Superfamily:Staphylococcal nuclease Family:Staphylococcal nuclease 49 c3lnbA_ not modelled 5.8 6 PDB header:transferase Chain: A: PDB Molecule:n-acetyltransferase family protein; PDBTitle: crystal structure analysis of arylamine n-acetyltransferase c from2 bacillus anthracis 50 d1vpha_ not modelled 5.8 43 Fold:YjbQ-like Superfamily:YjbQ-like Family:YjbQ-like 51 c1vraB_ not modelled 5.8 4 PDB header:transferase Chain: B: PDB Molecule:arginine biosynthesis bifunctional protein argj; PDBTitle: crystal structure of arginine biosynthesis bifunctional protein argj2 (10175521) from bacillus halodurans at 2.00 a resolution 52 d1xcra1 not modelled 5.8 31 Fold:AF0104/ALDC/Ptd012-like Superfamily:AF0104/ALDC/Ptd012-like Family:PTD012-like 53 c1ve0A_ not modelled 5.7 43 PDB header:metal binding protein Chain: A: PDB Molecule:hypothetical protein (st2072); PDBTitle: crystal structure of uncharacterized protein st2072 from sulfolobus2 tokodaii 54 c3it4B_ not modelled 5.5 12 PDB header:transferase Chain: B: PDB Molecule:arginine biosynthesis bifunctional protein argj PDBTitle: the crystal structure of ornithine acetyltransferase from2 mycobacterium tuberculosis (rv1653) at 1.7 a 55 c3acgA_ not modelled 5.5 12 PDB header:hydrolase Chain: A: PDB Molecule:beta-1,4-endoglucanase; PDBTitle: crystal structure of carbohydrate-binding module family 282 from clostridium josui cel5a in complex with cellobiose 56 c2elkA_ not modelled 5.4 33 PDB header:transcription Chain: A: PDB Molecule:spcc24b10.08c protein; PDBTitle: solution structure of the sant domain of fission yeast2 spcc24b10.08c protein 57 c2p6hB_ not modelled 5.3 43 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of hypothetical protein ape1520 from aeropyrum2 pernix k1 58 d2v94a1 not modelled 5.2 13 Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:Ribosomal protein S24e

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