Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	A	L	S	P	I	A	V	L	I	S	A	L	L	L	Q	G	C	V	A	A	A	V	V	G	T	A	A	V	G	T	K	A	A	T	D	P	R	S	V	G	T	Q	V	D	D	G	T	L	E	V	R	V	N	S	A	L	S	K
Secondary structure
SS confidence
Disorder		?	?	?																					?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	E	Q	I	K	K	E	A	R	I	N	V	T	A	Y	Q	G	K	V	L	L	V	G	Q	S	P	N	A	E	L	S	A	R	A	K	Q	I	A	M	G	V	D	G	A	N	E	V	Y	N	E	I	R	Q	G	Q	P	I	G	L	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																																													?		?	?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		E	A	S	N	D	T	W	I	T	T	K	V	R	S	Q	L	L	T	S	D	L	V	K	S	S	N	V	K	V	T	T	E	N	G	E	V	F	L	M	G	L	V	T	E	R	E	A	K	A	A	A	D	I	A	S	R	V	S	G	V
Secondary structure
SS confidence
Disorder		?																			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.
Sequence		K	R	V	T	T	A	F	T	F	I	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 2kgs chain A Region: 70 - 189 Aligned: 110 Modelled: 120 Confidence: 96.7% Identity: 16% PDB header:membrane protein Chain: A: PDB Molecule:uncharacterized protein rv0899/mt0922; PDBTitle: solution structure of the amino-terminal domain of ompatb, a pore2 forming protein from mycobacterium tuberculosis Phyre2 PDB 2crl chain A Region: 51 - 96 Aligned: 43 Modelled: 46 Confidence: 51.4% Identity: 19% PDB header:chaperone Chain: A: PDB Molecule:copper chaperone for superoxide dismutase; PDBTitle: the apo form of hma domain of copper chaperone for2 superoxide dismutase Phyre2 PDB 1fe0 chain A Region: 129 - 172 Aligned: 41 Modelled: 44 Confidence: 47.2% Identity: 15% Fold: Ferredoxin-like Superfamily: HMA, heavy metal-associated domain Family: HMA, heavy metal-associated domain Phyre2 PDB 2qfi chain B Region: 81 - 150 Aligned: 69 Modelled: 70 Confidence: 46.0% Identity: 13% PDB header:transport protein Chain: B: PDB Molecule:ferrous-iron efflux pump fief; PDBTitle: structure of the zinc transporter yiip Phyre2 PDB 1qup chain A domain 2 Region: 51 - 96 Aligned: 43 Modelled: 46 Confidence: 38.2% Identity: 9% Fold: Ferredoxin-like Superfamily: HMA, heavy metal-associated domain Family: HMA, heavy metal-associated domain Phyre2 PDB 1gpm chain A domain 3 Region: 84 - 119 Aligned: 36 Modelled: 36 Confidence: 36.3% Identity: 22% Fold: Alpha-lytic protease prodomain-like Superfamily: GMP synthetase C-terminal dimerisation domain Family: GMP synthetase C-terminal dimerisation domain Phyre2 PDB 3rv2 chain B Region: 49 - 101 Aligned: 52 Modelled: 53 Confidence: 34.5% Identity: 23% PDB header:transferase Chain: B: PDB Molecule:s-adenosylmethionine synthase; PDBTitle: crystal structure of s-adenosylmethionine synthetase from2 mycobacterium marinum Phyre2 PDB 2rog chain A Region: 51 - 97 Aligned: 44 Modelled: 47 Confidence: 32.6% Identity: 23% PDB header:metal binding protein Chain: A: PDB Molecule:heavy metal binding protein; PDBTitle: solution structure of thermus thermophilus hb8 ttha17182 protein in living e. coli cells Phyre2 PDB 1qm4 chain A domain 1 Region: 49 - 87 Aligned: 38 Modelled: 39 Confidence: 28.4% Identity: 26% Fold: S-adenosylmethionine synthetase Superfamily: S-adenosylmethionine synthetase Family: S-adenosylmethionine synthetase Phyre2 PDB 1mxa chain A domain 1 Region: 49 - 87 Aligned: 38 Modelled: 39 Confidence: 27.4% Identity: 18% Fold: S-adenosylmethionine synthetase Superfamily: S-adenosylmethionine synthetase Family: S-adenosylmethionine synthetase Phyre2 PDB 1qup chain A Region: 129 - 174 Aligned: 44 Modelled: 46 Confidence: 25.2% Identity: 7% PDB header:chaperone Chain: A: PDB Molecule:superoxide dismutase 1 copper chaperone; PDBTitle: crystal structure of the copper chaperone for superoxide2 dismutase Phyre2 PDB 2p02 chain A domain 1 Region: 49 - 87 Aligned: 38 Modelled: 39 Confidence: 23.6% Identity: 24% Fold: S-adenosylmethionine synthetase Superfamily: S-adenosylmethionine synthetase Family: S-adenosylmethionine synthetase Phyre2 PDB 1cc8 chain A Region: 51 - 96 Aligned: 43 Modelled: 46 Confidence: 22.9% Identity: 21% Fold: Ferredoxin-like Superfamily: HMA, heavy metal-associated domain Family: HMA, heavy metal-associated domain Phyre2 PDB 2zzt chain A Region: 87 - 109 Aligned: 23 Modelled: 23 Confidence: 20.9% Identity: 0% PDB header:transport protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the cytosolic domain of the cation2 diffusion facilitator family protein Phyre2 PDB 2qfi chain A domain 1 Region: 87 - 109 Aligned: 23 Modelled: 23 Confidence: 18.5% Identity: 13% Fold: Alpha-lytic protease prodomain-like Superfamily: Cation efflux protein cytoplasmic domain-like Family: Cation efflux protein cytoplasmic domain-like Phyre2 PDB 2wj7 chain D Region: 140 - 161 Aligned: 22 Modelled: 22 Confidence: 15.9% Identity: 14% PDB header:chaperone Chain: D: PDB Molecule:alpha-crystallin b chain; PDBTitle: human alphab crystallin Phyre2 PDB 2klr chain A Region: 140 - 161 Aligned: 22 Modelled: 22 Confidence: 15.0% Identity: 14% PDB header:chaperone Chain: A: PDB Molecule:alpha-crystallin b chain; PDBTitle: solid-state nmr structure of the alpha-crystallin domain in alphab-2 crystallin oligomers Phyre2 PDB 1jk9 chain D Region: 129 - 174 Aligned: 44 Modelled: 46 Confidence: 14.8% Identity: 7% PDB header:oxidoreductase Chain: D: PDB Molecule:copper chaperone for superoxide dismutase; PDBTitle: heterodimer between h48f-ysod1 and yccs Phyre2 PDB 3q9q chain B Region: 140 - 161 Aligned: 22 Modelled: 22 Confidence: 13.3% Identity: 23% PDB header:chaperone Chain: B: PDB Molecule:heat shock protein beta-1; PDBTitle: hspb1 fragment second crystal form Phyre2 PDB 3ibw chain A Region: 52 - 108 Aligned: 55 Modelled: 57 Confidence: 12.7% Identity: 16% PDB header:transferase Chain: A: PDB Molecule:gtp pyrophosphokinase; PDBTitle: crystal structure of the act domain from gtp2 pyrophosphokinase of chlorobium tepidum. northeast3 structural genomics consortium target ctr148a Phyre2 1 c2kgsA_ 2 c2crlA_ 3 d1fe0a_ 4 c2qfiB_ 5 d1qupa2 6 d1gpma3 7 c3rv2B_ 8 c2rogA_ 9 d1qm4a1 10 d1mxaa1 11 c1qupA_ 12 d2p02a1 13 d1cc8a_ 14 c2zztA_ 15 d2qfia1 16 c2wj7D_ 17 c2klrA_ 18 c1jk9D_ 19 c3q9qB_ 20 c3ibwA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38

Detailed template information

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

1 c2kgsA_ 96.7 16 PDB header:membrane protein Chain: A: PDB Molecule:uncharacterized protein rv0899/mt0922; PDBTitle: solution structure of the amino-terminal domain of ompatb, a pore2 forming protein from mycobacterium tuberculosis 2 c2crlA_ 51.4 19 PDB header:chaperone Chain: A: PDB Molecule:copper chaperone for superoxide dismutase; PDBTitle: the apo form of hma domain of copper chaperone for2 superoxide dismutase 3 d1fe0a_ 47.2 15 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 4 c2qfiB_ 46.0 13 PDB header:transport protein Chain: B: PDB Molecule:ferrous-iron efflux pump fief; PDBTitle: structure of the zinc transporter yiip 5 d1qupa2 38.2 9 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 6 d1gpma3 36.3 22 Fold:Alpha-lytic protease prodomain-like Superfamily:GMP synthetase C-terminal dimerisation domain Family:GMP synthetase C-terminal dimerisation domain 7 c3rv2B_ 34.5 23 PDB header:transferase Chain: B: PDB Molecule:s-adenosylmethionine synthase; PDBTitle: crystal structure of s-adenosylmethionine synthetase from2 mycobacterium marinum 8 c2rogA_ 32.6 23 PDB header:metal binding protein Chain: A: PDB Molecule:heavy metal binding protein; PDBTitle: solution structure of thermus thermophilus hb8 ttha17182 protein in living e. coli cells 9 d1qm4a1 28.4 26 Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase 10 d1mxaa1 27.4 18 Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase 11 c1qupA_ 25.2 7 PDB header:chaperone Chain: A: PDB Molecule:superoxide dismutase 1 copper chaperone; PDBTitle: crystal structure of the copper chaperone for superoxide2 dismutase 12 d2p02a1 23.6 24 Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase 13 d1cc8a_ 22.9 21 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 14 c2zztA_ 20.9 0 PDB header:transport protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the cytosolic domain of the cation2 diffusion facilitator family protein 15 d2qfia1 18.5 13 Fold:Alpha-lytic protease prodomain-like Superfamily:Cation efflux protein cytoplasmic domain-like Family:Cation efflux protein cytoplasmic domain-like 16 c2wj7D_ 15.9 14 PDB header:chaperone Chain: D: PDB Molecule:alpha-crystallin b chain; PDBTitle: human alphab crystallin 17 c2klrA_ 15.0 14 PDB header:chaperone Chain: A: PDB Molecule:alpha-crystallin b chain; PDBTitle: solid-state nmr structure of the alpha-crystallin domain in alphab-2 crystallin oligomers 18 c1jk9D_ 14.8 7 PDB header:oxidoreductase Chain: D: PDB Molecule:copper chaperone for superoxide dismutase; PDBTitle: heterodimer between h48f-ysod1 and yccs 19 c3q9qB_ 13.3 23 PDB header:chaperone Chain: B: PDB Molecule:heat shock protein beta-1; PDBTitle: hspb1 fragment second crystal form 20 c3ibwA_ 12.7 16 PDB header:transferase Chain: A: PDB Molecule:gtp pyrophosphokinase; PDBTitle: crystal structure of the act domain from gtp2 pyrophosphokinase of chlorobium tepidum. northeast3 structural genomics consortium target ctr148a 21 c3e6qL_ not modelled 10.5 12 PDB header:isomerase Chain: L: PDB Molecule:putative 5-carboxymethyl-2-hydroxymuconate isomerase; PDBTitle: putative 5-carboxymethyl-2-hydroxymuconate isomerase from pseudomonas2 aeruginosa. 22 c2k2pA_ not modelled 10.1 8 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1203; PDBTitle: solution nmr structure of protein atu1203 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att10, ontario center for structural proteomics target atc1183 23 c1rg9D_ not modelled 9.5 18 PDB header:transferase Chain: D: PDB Molecule:s-adenosylmethionine synthetase; PDBTitle: s-adenosylmethionine synthetase complexed with sam and ppnp 24 d1otga_ not modelled 9.5 10 Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) 25 c3glaA_ not modelled 9.5 18 PDB header:chaperone Chain: A: PDB Molecule:low molecular weight heat shock protein; PDBTitle: crystal structure of the hspa from xanthomonas axonopodis 26 d1sb6a_ not modelled 9.4 19 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 27 c3imlB_ not modelled 9.2 16 PDB header:transferase Chain: B: PDB Molecule:s-adenosylmethionine synthetase; PDBTitle: crystal structure of s-adenosylmethionine synthetase from burkholderia2 pseudomallei 28 c2wj5A_ not modelled 8.8 9 PDB header:chaperone Chain: A: PDB Molecule:heat shock protein beta-6; PDBTitle: rat alpha crystallin domain 29 c2bolA_ not modelled 8.7 22 PDB header:heat shock protein Chain: A: PDB Molecule:small heat shock protein; PDBTitle: crystal structure and assembly of tsp36, a metazoan small2 heat shock protein 30 c3so4C_ not modelled 8.6 13 PDB header:transferase Chain: C: PDB Molecule:methionine-adenosyltransferase; PDBTitle: methionine-adenosyltransferase from entamoeba histolytica 31 c1gpmD_ not modelled 8.5 24 PDB header:transferase (glutamine amidotransferase) Chain: D: PDB Molecule:gmp synthetase; PDBTitle: escherichia coli gmp synthetase complexed with amp and pyrophosphate 32 c3uowB_ not modelled 8.4 20 PDB header:ligase Chain: B: PDB Molecule:gmp synthetase; PDBTitle: crystal structure of pf10_0123, a gmp synthetase from plasmodium2 falciparum 33 c2obvA_ not modelled 8.4 26 PDB header:transferase Chain: A: PDB Molecule:s-adenosylmethionine synthetase isoform type-1; PDBTitle: crystal structure of the human s-adenosylmethionine synthetase 1 in2 complex with the product 34 d2fmra_ not modelled 8.0 31 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 35 d1vyia_ not modelled 7.1 15 Fold:Phosphoprotein M1, C-terminal domain Superfamily:Phosphoprotein M1, C-terminal domain Family:Phosphoprotein M1, C-terminal domain 36 d2c5sa2 not modelled 7.0 14 Fold:THUMP domain Superfamily:THUMP domain-like Family:THUMP domain 37 c2dplA_ not modelled 6.9 19 PDB header:ligase Chain: A: PDB Molecule:gmp synthase [glutamine-hydrolyzing] subunit b; PDBTitle: crystal structure of the gmp synthase from pyrococcus horikoshii ot3 38 c3l1eA_ not modelled 5.7 14 PDB header:chaperone Chain: A: PDB Molecule:alpha-crystallin a chain; PDBTitle: bovine alphaa crystallin zinc bound

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