Secondary structure and disorder prediction

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Sequence		M	S	V	L	Y	I	Q	I	R	R	N	Q	I	T	V	R	D	L	E	S	K	R	E	V	S	G	D	A	A	F	S	N	Q	R	L	L	I	A	N	F	F	V	A	E	K	V	L	Q	D	L	V	L	Q	L	H	P	R	S	T	W
Secondary structure
SS confidence
Disorder		?	?	?																																			?	?																			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		H	S	F	L	P	A	K	R	M	D	I	V	V	S	A	L	E	M	N	E	G	G	L	S	Q	V	E	E	R	I	L	H	E	V	V	A	G	A	T	L	M	K	Y	R	Q	F	H	I	H	A	Q	S	A	V	L	S	D	S	A	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?										?	?	?	?	?														?	?													?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		M	A	M	L	K	Q	K
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 1jce chain A domain 1 Region: 2 - 117 Aligned: 104 Modelled: 116 Confidence: 98.8% Identity: 19% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 3h1q chain B Region: 23 - 113 Aligned: 79 Modelled: 91 Confidence: 97.5% Identity: 15% PDB header:structural protein Chain: B: PDB Molecule:ethanolamine utilization protein eutj; PDBTitle: crystal structure of ethanolamine utilization protein eutj from2 carboxydothermus hydrogenoformans Phyre2 PDB 1o1f chain 4 Region: 20 - 113 Aligned: 81 Modelled: 92 Confidence: 97.0% Identity: 6% PDB header:contractile protein Chain: 4: PDB Molecule:skeletal muscle actin; PDBTitle: molecular models of averaged rigor crossbridges from2 tomograms of insect flight muscle Phyre2 PDB 1bup chain A domain 1 Region: 21 - 113 Aligned: 83 Modelled: 93 Confidence: 96.8% Identity: 11% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 1jcg chain A Region: 19 - 113 Aligned: 83 Modelled: 93 Confidence: 96.8% Identity: 17% PDB header:structural protein Chain: A: PDB Molecule:rod shape-determining protein mreb; PDBTitle: mreb from thermotoga maritima, amppnp Phyre2 PDB 2e8a chain A domain 1 Region: 21 - 113 Aligned: 83 Modelled: 93 Confidence: 96.8% Identity: 10% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 3dwl chain B Region: 28 - 113 Aligned: 73 Modelled: 84 Confidence: 96.1% Identity: 7% PDB header:structural protein Chain: B: PDB Molecule:actin-related protein 3; PDBTitle: crystal structure of fission yeast arp2/3 complex lacking the arp22 subunit Phyre2 PDB 2p9l chain A Region: 20 - 113 Aligned: 81 Modelled: 92 Confidence: 95.9% Identity: 4% PDB header:structural protein Chain: A: PDB Molecule:actin-like protein 3; PDBTitle: crystal structure of bovine arp2/3 complex Phyre2 PDB 3qb0 chain C Region: 18 - 113 Aligned: 84 Modelled: 96 Confidence: 95.6% Identity: 12% PDB header:structural protein Chain: C: PDB Molecule:actin-related protein 4; PDBTitle: crystal structure of actin-related protein arp4 from s. cerevisiae2 complexed with atp Phyre2 PDB 2v7y chain A Region: 14 - 113 Aligned: 88 Modelled: 100 Confidence: 94.8% Identity: 11% PDB header:chaperone Chain: A: PDB Molecule:chaperone protein dnak; PDBTitle: crystal structure of the molecular chaperone dnak from2 geobacillus kaustophilus hta426 in post-atp hydrolysis3 state Phyre2 PDB 1dkg chain D domain 1 Region: 37 - 113 Aligned: 67 Modelled: 77 Confidence: 93.8% Identity: 13% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 2kho chain A Region: 41 - 113 Aligned: 63 Modelled: 73 Confidence: 91.8% Identity: 13% PDB header:chaperone Chain: A: PDB Molecule:heat shock protein 70; PDBTitle: nmr-rdc / xray structure of e. coli hsp70 (dnak) chaperone2 (1-605) complexed with adp and substrate Phyre2 PDB 3d2f chain C Region: 21 - 113 Aligned: 83 Modelled: 93 Confidence: 91.1% Identity: 8% PDB header:chaperone Chain: C: PDB Molecule:heat shock protein homolog sse1; PDBTitle: crystal structure of a complex of sse1p and hsp70 Phyre2 PDB 2hf3 chain A domain 1 Region: 21 - 113 Aligned: 80 Modelled: 93 Confidence: 87.4% Identity: 6% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 2fxu chain A domain 1 Region: 22 - 113 Aligned: 79 Modelled: 87 Confidence: 86.7% Identity: 8% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 1yag chain A domain 1 Region: 23 - 113 Aligned: 78 Modelled: 91 Confidence: 86.0% Identity: 6% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 1c0f chain A domain 1 Region: 21 - 113 Aligned: 80 Modelled: 87 Confidence: 73.9% Identity: 9% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 2v7z chain A Region: 21 - 113 Aligned: 83 Modelled: 93 Confidence: 73.0% Identity: 11% PDB header:chaperone Chain: A: PDB Molecule:heat shock cognate 71 kda protein; PDBTitle: crystal structure of the 70-kda heat shock cognate protein2 from rattus norvegicus in post-atp hydrolysis state Phyre2 PDB 3iuc chain C Region: 20 - 113 Aligned: 84 Modelled: 94 Confidence: 64.3% Identity: 13% PDB header:chaperone Chain: C: PDB Molecule:heat shock 70kda protein 5 (glucose-regulated PDBTitle: crystal structure of the human 70kda heat shock protein 52 (bip/grp78) atpase domain in complex with adp Phyre2 PDB 1dn1 chain A Region: 67 - 126 Aligned: 52 Modelled: 60 Confidence: 58.7% Identity: 19% Fold: Sec1/munc18-like (SM) proteins Superfamily: Sec1/munc18-like (SM) proteins Family: Sec1/munc18-like (SM) proteins Phyre2 1 d1jcea1 2 c3h1qB_ 3 c1o1f4_ 4 d1bupa1 5 c1jcgA_ 6 d2e8aa1 7 c3dwlB_ 8 c2p9lA_ 9 c3qb0C_ 10 c2v7yA_ 11 d1dkgd1 12 c2khoA_ 13 c3d2fC_ 14 d2hf3a1 15 d2fxua1 16 d1yaga1 17 d1c0fa1 18 c2v7zA_ 19 c3iucC_ 20 d1dn1a_ 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

Detailed template information

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

1 d1jcea1 98.8 19 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 2 c3h1qB_ 97.5 15 PDB header:structural protein Chain: B: PDB Molecule:ethanolamine utilization protein eutj; PDBTitle: crystal structure of ethanolamine utilization protein eutj from2 carboxydothermus hydrogenoformans 3 c1o1f4_ 97.0 6 PDB header:contractile protein Chain: 4: PDB Molecule:skeletal muscle actin; PDBTitle: molecular models of averaged rigor crossbridges from2 tomograms of insect flight muscle 4 d1bupa1 96.8 11 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 5 c1jcgA_ 96.8 17 PDB header:structural protein Chain: A: PDB Molecule:rod shape-determining protein mreb; PDBTitle: mreb from thermotoga maritima, amppnp 6 d2e8aa1 96.8 10 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 7 c3dwlB_ 96.1 7 PDB header:structural protein Chain: B: PDB Molecule:actin-related protein 3; PDBTitle: crystal structure of fission yeast arp2/3 complex lacking the arp22 subunit 8 c2p9lA_ 95.9 4 PDB header:structural protein Chain: A: PDB Molecule:actin-like protein 3; PDBTitle: crystal structure of bovine arp2/3 complex 9 c3qb0C_ 95.6 12 PDB header:structural protein Chain: C: PDB Molecule:actin-related protein 4; PDBTitle: crystal structure of actin-related protein arp4 from s. cerevisiae2 complexed with atp 10 c2v7yA_ 94.8 11 PDB header:chaperone Chain: A: PDB Molecule:chaperone protein dnak; PDBTitle: crystal structure of the molecular chaperone dnak from2 geobacillus kaustophilus hta426 in post-atp hydrolysis3 state 11 d1dkgd1 93.8 13 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 12 c2khoA_ 91.8 13 PDB header:chaperone Chain: A: PDB Molecule:heat shock protein 70; PDBTitle: nmr-rdc / xray structure of e. coli hsp70 (dnak) chaperone2 (1-605) complexed with adp and substrate 13 c3d2fC_ 91.1 8 PDB header:chaperone Chain: C: PDB Molecule:heat shock protein homolog sse1; PDBTitle: crystal structure of a complex of sse1p and hsp70 14 d2hf3a1 87.4 6 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 15 d2fxua1 86.7 8 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 16 d1yaga1 86.0 6 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 17 d1c0fa1 73.9 9 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 18 c2v7zA_ 73.0 11 PDB header:chaperone Chain: A: PDB Molecule:heat shock cognate 71 kda protein; PDBTitle: crystal structure of the 70-kda heat shock cognate protein2 from rattus norvegicus in post-atp hydrolysis state 19 c3iucC_ 64.3 13 PDB header:chaperone Chain: C: PDB Molecule:heat shock 70kda protein 5 (glucose-regulated PDBTitle: crystal structure of the human 70kda heat shock protein 52 (bip/grp78) atpase domain in complex with adp 20 d1dn1a_ 58.7 19 Fold:Sec1/munc18-like (SM) proteins Superfamily:Sec1/munc18-like (SM) proteins Family:Sec1/munc18-like (SM) proteins 21 c1dkgD_ not modelled 57.9 13 PDB header:complex (hsp24/hsp70) Chain: D: PDB Molecule:molecular chaperone dnak; PDBTitle: crystal structure of the nucleotide exchange factor grpe2 bound to the atpase domain of the molecular chaperone dnak 22 c1hpmA_ not modelled 54.2 11 PDB header:hydrolase (acting on acid anhydrides) Chain: A: PDB Molecule:44k atpase fragment (n-terminal) of 7o kd heat- PDBTitle: how potassium affects the activity of the molecular2 chaperone hsc70. ii. potassium binds specifically in the3 atpase active site 23 d1k8ka1 not modelled 49.2 5 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 24 d1epua_ not modelled 33.3 21 Fold:Sec1/munc18-like (SM) proteins Superfamily:Sec1/munc18-like (SM) proteins Family:Sec1/munc18-like (SM) proteins 25 c2xheA_ not modelled 27.6 14 PDB header:exocytosis Chain: A: PDB Molecule:unc18; PDBTitle: crystal structure of the unc18-syntaxin 1 complex from monosiga2 brevicollis 26 c1xofA_ not modelled 19.5 50 PDB header:de novo protein Chain: A: PDB Molecule:bbahett1; PDBTitle: heterooligomeric beta beta alpha miniprotein 27 c1bmtB_ not modelled 17.8 15 PDB header:methyltransferase Chain: B: PDB Molecule:methionine synthase; PDBTitle: how a protein binds b12: a 3.o angstrom x-ray structure of2 the b12-binding domains of methionine synthase 28 d1sqsa_ not modelled 15.9 13 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Hypothetical protein SP1951 29 d1mqsa_ not modelled 14.6 13 Fold:Sec1/munc18-like (SM) proteins Superfamily:Sec1/munc18-like (SM) proteins Family:Sec1/munc18-like (SM) proteins 30 c2kk4A_ not modelled 14.5 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein af_2094; PDBTitle: solution nmr structure of protein af2094 from archaeoglobus2 fulgidus. northeast structural genomics consotium (nesg)3 target gt2 31 c2pjxB_ not modelled 11.9 15 PDB header:endocytosis/exocytosis Chain: B: PDB Molecule:syntaxin-binding protein 3; PDBTitle: crystal structure of the munc18c/syntaxin4 n-peptide complex 32 d1wdea_ not modelled 11.3 27 Fold:Tetrapyrrole methylase Superfamily:Tetrapyrrole methylase Family:Tetrapyrrole methylase 33 d1xsza2 not modelled 10.2 7 Fold:TBP-like Superfamily:RalF, C-terminal domain Family:RalF, C-terminal domain 34 c2phjA_ not modelled 10.1 11 PDB header:hydrolase Chain: A: PDB Molecule:5'-nucleotidase sure; PDBTitle: crystal structure of sure protein from aquifex aeolicus 35 d1mixa2 not modelled 9.7 19 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Third domain of FERM 36 d1vhka2 not modelled 9.3 33 Fold:alpha/beta knot Superfamily:alpha/beta knot Family:YggJ C-terminal domain-like 37 d3d37a2 not modelled 9.0 11 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like 38 c3itqB_ not modelled 8.8 23 PDB header:oxidoreductase Chain: B: PDB Molecule:prolyl 4-hydroxylase, alpha subunit domain protein; PDBTitle: crystal structure of a prolyl 4-hydroxylase from bacillus anthracis 39 c3cq9C_ not modelled 8.7 7 PDB header:transferase Chain: C: PDB Molecule:uncharacterized protein lp_1622; PDBTitle: crystal structure of the lp_1622 protein from lactobacillus2 plantarum. northeast structural genomics consortium target3 lpr114 40 d1omwa2 not modelled 8.5 18 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Pleckstrin-homology domain (PH domain) 41 d1gyxa_ not modelled 7.9 13 Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:4-oxalocrotonate tautomerase-like 42 c2wj8N_ not modelled 7.5 29 PDB header:rna binding protein/rna Chain: N: PDB Molecule:nucleoprotein; PDBTitle: respiratory syncitial virus ribonucleoprotein 43 c3lmmA_ not modelled 7.1 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the dip2311 protein from2 corynebacterium diphtheriae, northeast structural genomics3 consortium target cdr35 44 c3kw2A_ not modelled 6.5 26 PDB header:transferase Chain: A: PDB Molecule:probable r-rna methyltransferase; PDBTitle: crystal structure of probable rrna-methyltransferase from2 porphyromonas gingivalis 45 c1mszA_ not modelled 6.4 15 PDB header:dna binding protein Chain: A: PDB Molecule:dna-binding protein smubp-2; PDBTitle: solution structure of the r3h domain from human smubp-2 46 d1msza_ not modelled 6.4 15 Fold:IF3-like Superfamily:R3H domain Family:R3H domain 47 d1cqxa3 not modelled 6.1 18 Fold:Ferredoxin reductase-like, C-terminal NADP-linked domain Superfamily:Ferredoxin reductase-like, C-terminal NADP-linked domain Family:Flavohemoglobin, C-terminal domain 48 d2dw4a1 not modelled 6.1 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:SWIRM domain 49 c2pihA_ not modelled 6.1 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ymca; PDBTitle: crystal structure of protein ymca from bacillus subtilis,2 northeast structural genomics target sr375 50 d2piha1 not modelled 6.1 17 Fold:YheA-like Superfamily:YheA/YmcA-like Family:YmcA-like 51 d2bz2a1 not modelled 5.9 12 Fold:Ferredoxin-like Superfamily:RNA-binding domain, RBD Family:Canonical RBD 52 d1gph11 not modelled 5.9 9 Fold:PRTase-like Superfamily:PRTase-like Family:Phosphoribosyltransferases (PRTases) 53 c2rm4A_ not modelled 5.7 26 PDB header:protein binding Chain: A: PDB Molecule:cg6311-pb; PDBTitle: solution structure of the lsm domain of dm edc3 (enhancer2 of decapping 3) 54 d2nu7a1 not modelled 5.5 13 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain 55 c3bt6B_ not modelled 5.4 18 PDB header:viral protein Chain: B: PDB Molecule:influenza b hemagglutinin (ha); PDBTitle: crystal structure of influenza b virus hemagglutinin 56 c3melC_ not modelled 5.3 12 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:thiamin pyrophosphokinase family protein; PDBTitle: crystal structure of thiamin pyrophosphokinase family protein from2 enterococcus faecalis, northeast structural genomics consortium3 target efr150

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