Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	E	F	V	Y	P	H	T	Q	L	V	A	G	V	D	E	V	G	R	G	P	L	V	G	A	V	V	T	A	A	V	I	L	D	P	A	R	P	I	A	G	L	N	D	S	K	K	L	S	E	K	R	R	L	A	L	Y	E	E
Secondary structure
SS confidence
Disorder		?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	K	E	K	A	L	S	W	S	L	G	R	A	E	P	H	E	I	D	E	L	N	I	L	H	A	T	M	L	A	M	Q	R	A	V	A	G	L	H	I	A	P	E	Y	V	L	I	D	G	N	R	C	P	K	L	P	M	P	A	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	V	V	K	G	D	S	R	V	P	E	I	S	A	A	S	I	L	A	K	V	T	R	D	A	E	M	A	A	L	D	I	V	F	P	Q	Y	G	F	A	Q	H	K	G	Y	P	T	A	F	H	L	E	K	L	A	E	H	G	A	T
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.
Sequence		E	H	H	R	R	S	F	G	P	V	K	R	A	L	G	L	A	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 2etj chain A domain 1 Region: 3 - 195 Aligned: 179 Modelled: 181 Confidence: 100.0% Identity: 45% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Ribonuclease H Phyre2 PDB 2etj chain A Region: 3 - 195 Aligned: 179 Modelled: 181 Confidence: 100.0% Identity: 45% PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease hii; PDBTitle: crystal structure of ribonuclease hii (ec 3.1.26.4) (rnase hii)2 (tm0915) from thermotoga maritima at 1.74 a resolution Phyre2 PDB 3kio chain A Region: 2 - 195 Aligned: 194 Modelled: 194 Confidence: 100.0% Identity: 27% PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease h2 subunit a; PDBTitle: mouse rnase h2 complex Phyre2 PDB 1io2 chain A Region: 11 - 195 Aligned: 185 Modelled: 185 Confidence: 100.0% Identity: 30% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Ribonuclease H Phyre2 PDB 1uax chain A Region: 11 - 197 Aligned: 187 Modelled: 187 Confidence: 100.0% Identity: 29% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Ribonuclease H Phyre2 PDB 1i3a chain A Region: 11 - 195 Aligned: 182 Modelled: 185 Confidence: 100.0% Identity: 30% PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease hii; PDBTitle: rnase hii from archaeoglobus fulgidus with cobalt hexammine2 chloride Phyre2 PDB 1i39 chain A Region: 11 - 194 Aligned: 181 Modelled: 184 Confidence: 100.0% Identity: 30% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Ribonuclease H Phyre2 PDB 1eke chain A Region: 10 - 198 Aligned: 184 Modelled: 184 Confidence: 100.0% Identity: 26% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: Ribonuclease H Phyre2 PDB 2d0b chain A Region: 12 - 197 Aligned: 182 Modelled: 186 Confidence: 100.0% Identity: 25% PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease hiii; PDBTitle: crystal structure of bst-rnase hiii in complex with mg2+ Phyre2 PDB 3goc chain B Region: 90 - 112 Aligned: 23 Modelled: 23 Confidence: 33.1% Identity: 22% PDB header:hydrolase Chain: B: PDB Molecule:endonuclease v; PDBTitle: crystal structure of the endonuclease v (sav1684) from streptomyces2 avermitilis. northeast structural genomics consortium target svr196 Phyre2 PDB 1c8b chain A Region: 26 - 96 Aligned: 69 Modelled: 71 Confidence: 32.9% Identity: 14% Fold: Phosphorylase/hydrolase-like Superfamily: HybD-like Family: Germination protease Phyre2 PDB 3c6a chain A Region: 1 - 21 Aligned: 21 Modelled: 21 Confidence: 32.5% Identity: 33% PDB header:viral protein Chain: A: PDB Molecule:terminase large subunit; PDBTitle: crystal structure of the rb49 gp17 nuclease domain Phyre2 PDB 3ga2 chain A Region: 90 - 112 Aligned: 23 Modelled: 23 Confidence: 32.3% Identity: 30% PDB header:hydrolase Chain: A: PDB Molecule:endonuclease v; PDBTitle: crystal structure of the endonuclease_v (bsu36170) from2 bacillus subtilis, northeast structural genomics3 consortium target sr624 Phyre2 PDB 2w36 chain B Region: 90 - 112 Aligned: 23 Modelled: 23 Confidence: 29.9% Identity: 26% PDB header:hydrolase Chain: B: PDB Molecule:endonuclease v; PDBTitle: structures of endonuclease v with dna reveal initiation of2 deaminated adenine repair Phyre2 PDB 3lbw chain C Region: 130 - 139 Aligned: 10 Modelled: 10 Confidence: 22.5% Identity: 60% PDB header:transport protein Chain: C: PDB Molecule:m2 protein; PDBTitle: high resolution crystal structure of transmembrane domain of m2 Phyre2 PDB 3lbw chain A Region: 130 - 139 Aligned: 10 Modelled: 10 Confidence: 22.5% Identity: 60% PDB header:transport protein Chain: A: PDB Molecule:m2 protein; PDBTitle: high resolution crystal structure of transmembrane domain of m2 Phyre2 PDB 3lbw chain B Region: 130 - 139 Aligned: 10 Modelled: 10 Confidence: 22.5% Identity: 60% PDB header:transport protein Chain: B: PDB Molecule:m2 protein; PDBTitle: high resolution crystal structure of transmembrane domain of m2 Phyre2 PDB 3lbw chain D Region: 130 - 139 Aligned: 10 Modelled: 10 Confidence: 22.5% Identity: 60% PDB header:transport protein Chain: D: PDB Molecule:m2 protein; PDBTitle: high resolution crystal structure of transmembrane domain of m2 Phyre2 PDB 3c9j chain A Region: 127 - 139 Aligned: 13 Modelled: 13 Confidence: 20.6% Identity: 54% PDB header:membrane protein Chain: A: PDB Molecule:proton channel protein m2, transmembrane segment; PDBTitle: the crystal structure of transmembrane domain of m2 protein and2 amantadine complex Phyre2 PDB 3c9j chain B Region: 127 - 139 Aligned: 13 Modelled: 13 Confidence: 20.6% Identity: 54% PDB header:membrane protein Chain: B: PDB Molecule:proton channel protein m2, transmembrane segment; PDBTitle: the crystal structure of transmembrane domain of m2 protein and2 amantadine complex Phyre2 1 d2etja1 2 c2etjA_ 3 c3kioA_ 4 d1io2a_ 5 d1uaxa_ 6 c1i3aA_ 7 d1i39a_ 8 d1ekea_ 9 c2d0bA_ 10 c3gocB_ 11 d1c8ba_ 12 c3c6aA_ 13 c3ga2A_ 14 c2w36B_ 15 c3lbwC_ 16 c3lbwA_ 17 c3lbwB_ 18 c3lbwD_ 19 c3c9jA_ 20 c3c9jB_ 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 59 60 61 62 63

Detailed template information

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

1 d2etja1 100.0 45 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Ribonuclease H 2 c2etjA_ 100.0 45 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease hii; PDBTitle: crystal structure of ribonuclease hii (ec 3.1.26.4) (rnase hii)2 (tm0915) from thermotoga maritima at 1.74 a resolution 3 c3kioA_ 100.0 27 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease h2 subunit a; PDBTitle: mouse rnase h2 complex 4 d1io2a_ 100.0 30 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Ribonuclease H 5 d1uaxa_ 100.0 29 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Ribonuclease H 6 c1i3aA_ 100.0 30 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease hii; PDBTitle: rnase hii from archaeoglobus fulgidus with cobalt hexammine2 chloride 7 d1i39a_ 100.0 30 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Ribonuclease H 8 d1ekea_ 100.0 26 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Ribonuclease H 9 c2d0bA_ 100.0 25 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease hiii; PDBTitle: crystal structure of bst-rnase hiii in complex with mg2+ 10 c3gocB_ 33.1 22 PDB header:hydrolase Chain: B: PDB Molecule:endonuclease v; PDBTitle: crystal structure of the endonuclease v (sav1684) from streptomyces2 avermitilis. northeast structural genomics consortium target svr196 11 d1c8ba_ 32.9 14 Fold:Phosphorylase/hydrolase-like Superfamily:HybD-like Family:Germination protease 12 c3c6aA_ 32.5 33 PDB header:viral protein Chain: A: PDB Molecule:terminase large subunit; PDBTitle: crystal structure of the rb49 gp17 nuclease domain 13 c3ga2A_ 32.3 30 PDB header:hydrolase Chain: A: PDB Molecule:endonuclease v; PDBTitle: crystal structure of the endonuclease_v (bsu36170) from2 bacillus subtilis, northeast structural genomics3 consortium target sr624 14 c2w36B_ 29.9 26 PDB header:hydrolase Chain: B: PDB Molecule:endonuclease v; PDBTitle: structures of endonuclease v with dna reveal initiation of2 deaminated adenine repair 15 c3lbwC_ 22.5 60 PDB header:transport protein Chain: C: PDB Molecule:m2 protein; PDBTitle: high resolution crystal structure of transmembrane domain of m2 16 c3lbwA_ 22.5 60 PDB header:transport protein Chain: A: PDB Molecule:m2 protein; PDBTitle: high resolution crystal structure of transmembrane domain of m2 17 c3lbwB_ 22.5 60 PDB header:transport protein Chain: B: PDB Molecule:m2 protein; PDBTitle: high resolution crystal structure of transmembrane domain of m2 18 c3lbwD_ 22.5 60 PDB header:transport protein Chain: D: PDB Molecule:m2 protein; PDBTitle: high resolution crystal structure of transmembrane domain of m2 19 c3c9jA_ 20.6 54 PDB header:membrane protein Chain: A: PDB Molecule:proton channel protein m2, transmembrane segment; PDBTitle: the crystal structure of transmembrane domain of m2 protein and2 amantadine complex 20 c3c9jB_ 20.6 54 PDB header:membrane protein Chain: B: PDB Molecule:proton channel protein m2, transmembrane segment; PDBTitle: the crystal structure of transmembrane domain of m2 protein and2 amantadine complex 21 d1tlha_ not modelled 18.6 30 Fold:Anti-sigma factor AsiA Superfamily:Anti-sigma factor AsiA Family:Anti-sigma factor AsiA 22 c3c9jC_ not modelled 17.7 54 PDB header:membrane protein Chain: C: PDB Molecule:proton channel protein m2, transmembrane segment; PDBTitle: the crystal structure of transmembrane domain of m2 protein and2 amantadine complex 23 c3c9jD_ not modelled 17.7 54 PDB header:membrane protein Chain: D: PDB Molecule:proton channel protein m2, transmembrane segment; PDBTitle: the crystal structure of transmembrane domain of m2 protein and2 amantadine complex 24 c2zpaB_ not modelled 15.3 8 PDB header:transferase Chain: B: PDB Molecule:uncharacterized protein ypfi; PDBTitle: crystal structure of trna(met) cytidine acetyltransferase 25 c2kqtD_ not modelled 12.4 50 PDB header:transport protein Chain: D: PDB Molecule:m2 protein; PDBTitle: solid-state nmr structure of the m2 transmembrane peptide of the2 influenza a virus in dmpc lipid bilayers bound to deuterated3 amantadine 26 c2kqtB_ not modelled 12.4 50 PDB header:transport protein Chain: B: PDB Molecule:m2 protein; PDBTitle: solid-state nmr structure of the m2 transmembrane peptide of the2 influenza a virus in dmpc lipid bilayers bound to deuterated3 amantadine 27 c2kqtA_ not modelled 12.4 50 PDB header:transport protein Chain: A: PDB Molecule:m2 protein; PDBTitle: solid-state nmr structure of the m2 transmembrane peptide of the2 influenza a virus in dmpc lipid bilayers bound to deuterated3 amantadine 28 c2kqtC_ not modelled 12.4 50 PDB header:transport protein Chain: C: PDB Molecule:m2 protein; PDBTitle: solid-state nmr structure of the m2 transmembrane peptide of the2 influenza a virus in dmpc lipid bilayers bound to deuterated3 amantadine 29 d1wfza_ not modelled 12.4 16 Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain 30 c1mp6A_ not modelled 11.8 50 PDB header:membrane protein Chain: A: PDB Molecule:matrix protein m2; PDBTitle: structure of the transmembrane region of the m2 protein h+2 channel by solid state nmr spectroscopy 31 c1nyjC_ not modelled 11.8 50 PDB header:viral protein Chain: C: PDB Molecule:matrix protein m2; PDBTitle: the closed state structure of m2 protein h+ channel by2 solid state nmr spectroscopy 32 c1nyjB_ not modelled 11.8 50 PDB header:viral protein Chain: B: PDB Molecule:matrix protein m2; PDBTitle: the closed state structure of m2 protein h+ channel by2 solid state nmr spectroscopy 33 c1nyjA_ not modelled 11.8 50 PDB header:viral protein Chain: A: PDB Molecule:matrix protein m2; PDBTitle: the closed state structure of m2 protein h+ channel by2 solid state nmr spectroscopy 34 c1nyjD_ not modelled 11.8 50 PDB header:viral protein Chain: D: PDB Molecule:matrix protein m2; PDBTitle: the closed state structure of m2 protein h+ channel by2 solid state nmr spectroscopy 35 c2z7eB_ not modelled 10.1 13 PDB header:biosynthetic protein Chain: B: PDB Molecule:nifu-like protein; PDBTitle: crystal structure of aquifex aeolicus iscu with bound [2fe-2 2s] cluster 36 d1jhda2 not modelled 9.7 39 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:ATP sulfurylase catalytic domain 37 c2qq4A_ not modelled 9.5 14 PDB header:metal binding protein Chain: A: PDB Molecule:iron-sulfur cluster biosynthesis protein iscu; PDBTitle: crystal structure of iron-sulfur cluster biosynthesis2 protein iscu (ttha1736) from thermus thermophilus hb8 38 d1v47a2 not modelled 8.8 28 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:ATP sulfurylase catalytic domain 39 d1sddb1 not modelled 8.3 25 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins 40 d1sisa_ not modelled 8.2 25 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Short-chain scorpion toxins 41 c2d7cD_ not modelled 7.6 31 PDB header:protein transport Chain: D: PDB Molecule:rab11 family-interacting protein 3; PDBTitle: crystal structure of human rab11 in complex with fip3 rab-2 binding domain 42 c3k2gA_ not modelled 7.5 22 PDB header:resiniferatoxin binding protein Chain: A: PDB Molecule:resiniferatoxin-binding, phosphotriesterase- PDBTitle: crystal structure of a resiniferatoxin-binding protein from2 rhodobacter sphaeroides 43 d1qqga2 not modelled 7.2 50 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Phosphotyrosine-binding domain (PTB) 44 d1chla_ not modelled 7.1 33 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Short-chain scorpion toxins 45 c2ljcA_ not modelled 7.0 50 PDB header:transport protein/inhibitor Chain: A: PDB Molecule:m2 protein, bm2 protein chimera; PDBTitle: structure of the influenza am2-bm2 chimeric channel bound to2 rimantadine 46 c2kadC_ not modelled 7.0 50 PDB header:membrane protein Chain: C: PDB Molecule:transmembrane peptide of matrix protein 2; PDBTitle: magic-angle-spinning solid-state nmr structure of influenza2 a m2 transmembrane domain 47 c2kadB_ not modelled 7.0 50 PDB header:membrane protein Chain: B: PDB Molecule:transmembrane peptide of matrix protein 2; PDBTitle: magic-angle-spinning solid-state nmr structure of influenza2 a m2 transmembrane domain 48 c2kadA_ not modelled 7.0 50 PDB header:membrane protein Chain: A: PDB Molecule:transmembrane peptide of matrix protein 2; PDBTitle: magic-angle-spinning solid-state nmr structure of influenza2 a m2 transmembrane domain 49 c2kadD_ not modelled 7.0 50 PDB header:membrane protein Chain: D: PDB Molecule:transmembrane peptide of matrix protein 2; PDBTitle: magic-angle-spinning solid-state nmr structure of influenza2 a m2 transmembrane domain 50 d1xx6a1 not modelled 7.0 29 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Type II thymidine kinase 51 c2jnhA_ not modelled 7.0 54 PDB header:ligase Chain: A: PDB Molecule:e3 ubiquitin-protein ligase cbl-b; PDBTitle: solution structure of the uba domain from cbl-b 52 d1p5ta_ not modelled 6.7 40 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Phosphotyrosine-binding domain (PTB) 53 c2vefB_ not modelled 6.5 31 PDB header:transferase Chain: B: PDB Molecule:dihydropteroate synthase; PDBTitle: dihydropteroate synthase from streptococcus pneumoniae 54 c1jhdA_ not modelled 6.4 39 PDB header:transferase Chain: A: PDB Molecule:sulfate adenylyltransferase; PDBTitle: crystal structure of bacterial atp sulfurylase from the2 riftia pachyptila symbiont 55 d2arha1 not modelled 6.4 40 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:Aq 1966-like 56 d1bm9a_ not modelled 6.2 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Replication terminator protein (RTP) 57 c2p2uA_ not modelled 5.9 27 PDB header:dna binding protein Chain: A: PDB Molecule:host-nuclease inhibitor protein gam, putative; PDBTitle: crystal structure of putative host-nuclease inhibitor2 protein gam from desulfovibrio vulgaris 58 c2d9sA_ not modelled 5.7 31 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 59 d1gota2 not modelled 5.5 40 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:G proteins 60 c2dzaA_ not modelled 5.4 17 PDB header:transferase Chain: A: PDB Molecule:dihydropteroate synthase; PDBTitle: crystal structure of dihydropteroate synthase from thermus2 thermophilus hb8 in complex with 4-aminobenzoate 61 c2jayA_ not modelled 5.3 25 PDB header:hydrolase Chain: A: PDB Molecule:proteasome; PDBTitle: proteasome beta subunit prcb from mycobacterium2 tuberculosis 62 c2do6A_ not modelled 5.2 54 PDB header:ligase Chain: A: PDB Molecule:e3 ubiquitin-protein ligase cbl-b; PDBTitle: solution structure of rsgi ruh-065, a uba domain from human2 cdna 63 c1ewrA_ not modelled 5.2 43 PDB header:hydrolase Chain: A: PDB Molecule:dna mismatch repair protein muts; PDBTitle: crystal structure of taq muts

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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