Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	Y	I	I	F	L	F	R	A	I	W	L	A	L	S	L	L	I	L	F	F	S	M	H	R	L	S	L	L	D	S	T	R	D	V	S	E	L	I	S	L	M	S	Y	G	M	M	V	I	C	F	P	T	G	I	V	F	F	I
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.
Sequence		A	L	I	F	I	G	T	V	S	D	I	I	G	V	R	I	D	S	K	Y	I	M	A	I	I	I	W	L	Y	F	L	S	G	G	Y	I	Q	W	F	V	L	S	K	R	I	I	N	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 2hg5 chain D Region: 42 - 57 Aligned: 16 Modelled: 16 Confidence: 26.3% Identity: 19% PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter Phyre2 PDB 2krx chain A Region: 93 - 99 Aligned: 7 Modelled: 7 Confidence: 26.1% Identity: 57% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:asl3597 protein; PDBTitle: solution nmr structure of asl3597 from nostoc sp. pcc7120.2 northeast structural genomics consortium target id nsr244. Phyre2 PDB 1w8x chain P Region: 84 - 90 Aligned: 7 Modelled: 7 Confidence: 21.1% Identity: 71% PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 Phyre2 PDB 1rkc chain B Region: 29 - 41 Aligned: 13 Modelled: 13 Confidence: 17.7% Identity: 54% PDB header:cell adhesion, structural protein Chain: B: PDB Molecule:talin; PDBTitle: human vinculin head (1-258) in complex with talin's2 vinculin binding site 3 (residues 1944-1969) Phyre2 PDB 1xwj chain B Region: 29 - 41 Aligned: 13 Modelled: 13 Confidence: 17.4% Identity: 54% PDB header:cell adhesion/protein binding Chain: B: PDB Molecule:talin; PDBTitle: vinculin head (1-258) in complex with the talin vinculin2 binding site 3 (1945-1969) Phyre2 PDB 1xme chain B domain 2 Region: 5 - 21 Aligned: 17 Modelled: 17 Confidence: 15.7% Identity: 47% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 1smy chain E Region: 70 - 86 Aligned: 17 Modelled: 17 Confidence: 14.2% Identity: 29% Fold: RPB6/omega subunit-like Superfamily: RPB6/omega subunit-like Family: RNA polymerase omega subunit Phyre2 PDB 2gyc chain 3 domain 1 Region: 32 - 43 Aligned: 12 Modelled: 12 Confidence: 11.5% Identity: 67% Fold: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Phyre2 PDB 1ynj chain K domain 1 Region: 70 - 86 Aligned: 17 Modelled: 17 Confidence: 10.8% Identity: 29% Fold: RPB6/omega subunit-like Superfamily: RPB6/omega subunit-like Family: RNA polymerase omega subunit Phyre2 PDB 2a5y chain B domain 2 Region: 33 - 44 Aligned: 12 Modelled: 12 Confidence: 9.5% Identity: 75% Fold: DEATH domain Superfamily: DEATH domain Family: Caspase recruitment domain, CARD Phyre2 PDB 1vkn chain A domain 2 Region: 51 - 61 Aligned: 11 Modelled: 11 Confidence: 9.5% Identity: 36% Fold: FwdE/GAPDH domain-like Superfamily: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family: GAPDH-like Phyre2 PDB 1rqt chain A Region: 32 - 43 Aligned: 12 Modelled: 12 Confidence: 9.2% Identity: 67% PDB header:ribosome Chain: A: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: nmr structure of dimeric n-terminal domain of ribosomal2 protein l7 from e.coli Phyre2 PDB 1rqt chain A Region: 32 - 43 Aligned: 12 Modelled: 12 Confidence: 9.2% Identity: 67% Fold: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Phyre2 PDB 1rqt chain B Region: 32 - 43 Aligned: 12 Modelled: 12 Confidence: 9.2% Identity: 67% PDB header:ribosome Chain: B: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: nmr structure of dimeric n-terminal domain of ribosomal2 protein l7 from e.coli Phyre2 PDB 2e74 chain E domain 1 Region: 55 - 73 Aligned: 19 Modelled: 19 Confidence: 8.8% Identity: 47% Fold: Single transmembrane helix Superfamily: PetL subunit of the cytochrome b6f complex Family: PetL subunit of the cytochrome b6f complex Phyre2 PDB 2e74 chain E Region: 55 - 73 Aligned: 19 Modelled: 19 Confidence: 8.8% Identity: 47% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus Phyre2 PDB 2e75 chain E Region: 55 - 73 Aligned: 19 Modelled: 19 Confidence: 8.8% Identity: 47% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus Phyre2 PDB 1vf5 chain R Region: 55 - 73 Aligned: 19 Modelled: 19 Confidence: 8.8% Identity: 47% PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 1vf5 chain E Region: 55 - 73 Aligned: 19 Modelled: 19 Confidence: 8.8% Identity: 47% PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 2e76 chain E Region: 55 - 73 Aligned: 19 Modelled: 19 Confidence: 8.8% Identity: 47% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus Phyre2 1 c2hg5D_ 2 c2krxA_ 3 c1w8xP_ 4 c1rkcB_ 5 c1xwjB_ 6 d1xmeb2 7 d1smye_ 8 d2gyc31 9 d1ynjk1 10 d2a5yb2 11 d1vkna2 12 c1rqtA_ 13 d1rqta_ 14 c1rqtB_ 15 d2e74e1 16 c2e74E_ 17 c2e75E_ 18 c1vf5R_ 19 c1vf5E_ 20 c2e76E_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35

Detailed template information

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

1 c2hg5D_ 26.3 19 PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter 2 c2krxA_ 26.1 57 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:asl3597 protein; PDBTitle: solution nmr structure of asl3597 from nostoc sp. pcc7120.2 northeast structural genomics consortium target id nsr244. 3 c1w8xP_ 21.1 71 PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 4 c1rkcB_ 17.7 54 PDB header:cell adhesion, structural protein Chain: B: PDB Molecule:talin; PDBTitle: human vinculin head (1-258) in complex with talin's2 vinculin binding site 3 (residues 1944-1969) 5 c1xwjB_ 17.4 54 PDB header:cell adhesion/protein binding Chain: B: PDB Molecule:talin; PDBTitle: vinculin head (1-258) in complex with the talin vinculin2 binding site 3 (1945-1969) 6 d1xmeb2 15.7 47 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 7 d1smye_ 14.2 29 Fold:RPB6/omega subunit-like Superfamily:RPB6/omega subunit-like Family:RNA polymerase omega subunit 8 d2gyc31 11.5 67 Fold:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family:Ribosomal protein L7/12, oligomerisation (N-terminal) domain 9 d1ynjk1 10.8 29 Fold:RPB6/omega subunit-like Superfamily:RPB6/omega subunit-like Family:RNA polymerase omega subunit 10 d2a5yb2 9.5 75 Fold:DEATH domain Superfamily:DEATH domain Family:Caspase recruitment domain, CARD 11 d1vkna2 9.5 36 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:GAPDH-like 12 c1rqtA_ 9.2 67 PDB header:ribosome Chain: A: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: nmr structure of dimeric n-terminal domain of ribosomal2 protein l7 from e.coli 13 d1rqta_ 9.2 67 Fold:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family:Ribosomal protein L7/12, oligomerisation (N-terminal) domain 14 c1rqtB_ 9.2 67 PDB header:ribosome Chain: B: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: nmr structure of dimeric n-terminal domain of ribosomal2 protein l7 from e.coli 15 d2e74e1 8.8 47 Fold:Single transmembrane helix Superfamily:PetL subunit of the cytochrome b6f complex Family:PetL subunit of the cytochrome b6f complex 16 c2e74E_ 8.8 47 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus 17 c2e75E_ 8.8 47 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus 18 c1vf5R_ 8.8 47 PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 19 c1vf5E_ 8.8 47 PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 20 c2e76E_ 8.8 47 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus 21 d2q49a2 not modelled 8.7 29 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:GAPDH-like 22 d2g17a2 not modelled 8.2 27 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:GAPDH-like 23 d1whba_ not modelled 7.8 50 Fold:Rhodanese/Cell cycle control phosphatase Superfamily:Rhodanese/Cell cycle control phosphatase Family:Ubiquitin carboxyl-terminal hydrolase 8, USP8 24 c3jycA_ not modelled 7.5 21 PDB header:metal transport Chain: A: PDB Molecule:inward-rectifier k+ channel kir2.2; PDBTitle: crystal structure of the eukaryotic strong inward-rectifier2 k+ channel kir2.2 at 3.1 angstrom resolution 25 c2kpeB_ not modelled 7.5 33 PDB header:membrane protein Chain: B: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles 26 c2kpeA_ not modelled 7.5 33 PDB header:membrane protein Chain: A: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles 27 d2gwfa1 not modelled 7.2 50 Fold:Rhodanese/Cell cycle control phosphatase Superfamily:Rhodanese/Cell cycle control phosphatase Family:Ubiquitin carboxyl-terminal hydrolase 8, USP8 28 d1ymka1 not modelled 6.6 55 Fold:Rhodanese/Cell cycle control phosphatase Superfamily:Rhodanese/Cell cycle control phosphatase Family:Cell cycle control phosphatase, catalytic domain 29 c2ojlB_ not modelled 6.6 50 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of q7waf1_borpa from bordetella parapertussis.2 northeast structural genomics target bpr68. 30 c2p0gB_ not modelled 6.5 38 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:selenoprotein w-related protein; PDBTitle: crystal structure of selenoprotein w-related protein from2 vibrio cholerae. northeast structural genomics target vcr75 31 d1pgya_ not modelled 6.4 47 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 32 d1pd0a4 not modelled 6.1 27 Fold:Gelsolin-like Superfamily:C-terminal, gelsolin-like domain of Sec23/24 Family:C-terminal, gelsolin-like domain of Sec23/24 33 c2l0oA_ not modelled 6.0 50 PDB header:membrane protein Chain: A: PDB Molecule:oxidoreductase that catalyzes reoxidation of dsba protein PDBTitle: dsbb3 peptide structure in 100% tfe 34 d2fa8a1 not modelled 5.8 44 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Selenoprotein W-related 35 c3dexA_ not modelled 5.5 56 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:sav_2001; PDBTitle: crystal structure of sav_2001 protein from streptomyces2 avermitilis, northeast structural genomics consortium3 target svr107.

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