Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	K	H	L	V	A	P	L	V	F	T	S	L	I	L	T	G	C	Q	S	P	Q	G	K	F	T	P	E	Q	V	A	A	M	Q	S	Y	G	F	T	E	S	A	G	D	W	S	L	G	L	S	D	A	I	L	F	A	K	N	D
Secondary structure
SS confidence
Disorder		?	?	?												?	?	?	?		?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?				?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Y	K	L	L	P	E	S	Q	Q	Q	I	Q	T	M	A	A	K	L	A	S	T	G	L	T	H	A	R	M	D	G	H	T	D	N	Y	G	E	D	S	Y	N	E	G	L	S	L	K	R	A	N	V	V	A	D	A	W	A	M	G	G
Secondary structure
SS confidence
Disorder			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160
Sequence		Q	I	P	R	S	N	L	T	T	Q	G	L	G	K	K	Y	P	I	A	S	N	K	T	A	Q	G	R	A	E	N	R	R	V	A	V	V	I	T	T	P
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 2l26 chain A Region: 50 - 157 Aligned: 107 Modelled: 108 Confidence: 100.0% Identity: 36% PDB header:membrane protein Chain: A: PDB Molecule:uncharacterized protein rv0899/mt0922; PDBTitle: rv0899 from mycobacterium tuberculosis contains two separated domains Phyre2 PDB 2kgw chain A Region: 30 - 158 Aligned: 128 Modelled: 129 Confidence: 100.0% Identity: 31% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein a; PDBTitle: solution structure of the carboxy-terminal domain of ompatb, a pore2 forming protein from mycobacterium tuberculosis Phyre2 PDB 3td4 chain D Region: 41 - 158 Aligned: 118 Modelled: 118 Confidence: 100.0% Identity: 38% PDB header:membrane protein,peptide binding protein Chain: D: PDB Molecule:outer membrane protein omp38; PDBTitle: crystal structure of ompa-like domain from acinetobacter baumannii in2 complex with diaminopimelate Phyre2 PDB 2aiz chain P domain 1 Region: 19 - 156 Aligned: 133 Modelled: 138 Confidence: 100.0% Identity: 23% Fold: Bacillus chorismate mutase-like Superfamily: OmpA-like Family: OmpA-like Phyre2 PDB 2k1s chain A Region: 29 - 158 Aligned: 129 Modelled: 130 Confidence: 100.0% Identity: 32% PDB header:lipoprotein Chain: A: PDB Molecule:inner membrane lipoprotein yiad; PDBTitle: solution nmr structure of the folded c-terminal fragment of yiad from2 escherichia coli. northeast structural genomics consortium target3 er553. Phyre2 PDB 3khn chain B Region: 39 - 158 Aligned: 119 Modelled: 120 Confidence: 100.0% Identity: 26% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:motb protein, putative; PDBTitle: crystal structure of putative motb like protein dvu_22282 from desulfovibrio vulgaris. Phyre2 PDB 2hqs chain C domain 1 Region: 51 - 156 Aligned: 105 Modelled: 106 Confidence: 100.0% Identity: 24% Fold: Bacillus chorismate mutase-like Superfamily: OmpA-like Family: OmpA-like Phyre2 PDB 1r1m chain A Region: 45 - 159 Aligned: 114 Modelled: 115 Confidence: 100.0% Identity: 36% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein class 4; PDBTitle: structure of the ompa-like domain of rmpm from neisseria2 meningitidis Phyre2 PDB 1r1m chain A Region: 45 - 159 Aligned: 114 Modelled: 115 Confidence: 100.0% Identity: 36% Fold: Bacillus chorismate mutase-like Superfamily: OmpA-like Family: OmpA-like Phyre2 PDB 3cyq chain M Region: 52 - 160 Aligned: 108 Modelled: 109 Confidence: 100.0% Identity: 22% PDB header:membrane protein Chain: M: PDB Molecule:chemotaxis protein motb; PDBTitle: the crystal structure of the complex of the c-terminal domain of2 helicobacter pylori motb (residues 125-256) with n-acetylmuramic acid Phyre2 PDB 2zvy chain B Region: 39 - 158 Aligned: 117 Modelled: 120 Confidence: 100.0% Identity: 19% PDB header:membrane protein Chain: B: PDB Molecule:chemotaxis protein motb; PDBTitle: structure of the periplasmic domain of motb from salmonella2 (crystal form ii) Phyre2 PDB 3ldt chain A Region: 39 - 159 Aligned: 117 Modelled: 121 Confidence: 100.0% Identity: 21% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein, ompa family protein; PDBTitle: crystal structure of an outer membrane protein(ompa)from2 legionella pneumophila Phyre2 PDB 3oon chain A Region: 36 - 158 Aligned: 112 Modelled: 123 Confidence: 99.9% Identity: 25% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein (tpn50); PDBTitle: the structure of an outer membrance protein from borrelia burgdorferi2 b31 Phyre2 PDB 2zov chain A Region: 39 - 160 Aligned: 110 Modelled: 121 Confidence: 99.9% Identity: 23% PDB header:membrane protein Chain: A: PDB Molecule:chemotaxis protein motb; PDBTitle: structure of the periplasmic domain of motb from salmonella2 (crystal form i) Phyre2 PDB 2zf8 chain A Region: 53 - 134 Aligned: 74 Modelled: 81 Confidence: 99.8% Identity: 18% PDB header:structural protein Chain: A: PDB Molecule:component of sodium-driven polar flagellar motor; PDBTitle: crystal structure of moty Phyre2 PDB 1tib chain A Region: 68 - 134 Aligned: 52 Modelled: 67 Confidence: 56.0% Identity: 17% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Fungal lipases Phyre2 PDB 1tia chain A Region: 67 - 134 Aligned: 54 Modelled: 68 Confidence: 49.5% Identity: 19% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Fungal lipases Phyre2 PDB 3ngm chain B Region: 67 - 134 Aligned: 53 Modelled: 68 Confidence: 45.5% Identity: 23% PDB header:hydrolase Chain: B: PDB Molecule:extracellular lipase; PDBTitle: crystal structure of lipase from gibberella zeae Phyre2 PDB 3o0d chain F Region: 67 - 134 Aligned: 53 Modelled: 68 Confidence: 41.7% Identity: 17% PDB header:hydrolase Chain: F: PDB Molecule:triacylglycerol lipase; PDBTitle: crystal structure of lip2 lipase from yarrowia lipolytica at 1.7 a2 resolution Phyre2 PDB 1uwc chain A Region: 68 - 134 Aligned: 52 Modelled: 67 Confidence: 31.8% Identity: 17% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Fungal lipases Phyre2 1 c2l26A_ 2 c2kgwA_ 3 c3td4D_ 4 d2aizp1 5 c2k1sA_ 6 c3khnB_ 7 d2hqsc1 8 c1r1mA_ 9 d1r1ma_ 10 c3cyqM_ 11 c2zvyB_ 12 c3ldtA_ 13 c3oonA_ 14 c2zovA_ 15 c2zf8A_ 16 d1tiba_ 17 d1tiaa_ 18 c3ngmB_ 19 c3o0dF_ 20 d1uwca_ 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 64 65 66 67

Detailed template information

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

1 c2l26A_ 100.0 36 PDB header:membrane protein Chain: A: PDB Molecule:uncharacterized protein rv0899/mt0922; PDBTitle: rv0899 from mycobacterium tuberculosis contains two separated domains 2 c2kgwA_ 100.0 31 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein a; PDBTitle: solution structure of the carboxy-terminal domain of ompatb, a pore2 forming protein from mycobacterium tuberculosis 3 c3td4D_ 100.0 38 PDB header:membrane protein,peptide binding protein Chain: D: PDB Molecule:outer membrane protein omp38; PDBTitle: crystal structure of ompa-like domain from acinetobacter baumannii in2 complex with diaminopimelate 4 d2aizp1 100.0 23 Fold:Bacillus chorismate mutase-like Superfamily:OmpA-like Family:OmpA-like 5 c2k1sA_ 100.0 32 PDB header:lipoprotein Chain: A: PDB Molecule:inner membrane lipoprotein yiad; PDBTitle: solution nmr structure of the folded c-terminal fragment of yiad from2 escherichia coli. northeast structural genomics consortium target3 er553. 6 c3khnB_ 100.0 26 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:motb protein, putative; PDBTitle: crystal structure of putative motb like protein dvu_22282 from desulfovibrio vulgaris. 7 d2hqsc1 100.0 24 Fold:Bacillus chorismate mutase-like Superfamily:OmpA-like Family:OmpA-like 8 c1r1mA_ 100.0 36 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein class 4; PDBTitle: structure of the ompa-like domain of rmpm from neisseria2 meningitidis 9 d1r1ma_ 100.0 36 Fold:Bacillus chorismate mutase-like Superfamily:OmpA-like Family:OmpA-like 10 c3cyqM_ 100.0 22 PDB header:membrane protein Chain: M: PDB Molecule:chemotaxis protein motb; PDBTitle: the crystal structure of the complex of the c-terminal domain of2 helicobacter pylori motb (residues 125-256) with n-acetylmuramic acid 11 c2zvyB_ 100.0 19 PDB header:membrane protein Chain: B: PDB Molecule:chemotaxis protein motb; PDBTitle: structure of the periplasmic domain of motb from salmonella2 (crystal form ii) 12 c3ldtA_ 100.0 21 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein, ompa family protein; PDBTitle: crystal structure of an outer membrane protein(ompa)from2 legionella pneumophila 13 c3oonA_ 99.9 25 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein (tpn50); PDBTitle: the structure of an outer membrance protein from borrelia burgdorferi2 b31 14 c2zovA_ 99.9 23 PDB header:membrane protein Chain: A: PDB Molecule:chemotaxis protein motb; PDBTitle: structure of the periplasmic domain of motb from salmonella2 (crystal form i) 15 c2zf8A_ 99.8 18 PDB header:structural protein Chain: A: PDB Molecule:component of sodium-driven polar flagellar motor; PDBTitle: crystal structure of moty 16 d1tiba_ 56.0 17 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Fungal lipases 17 d1tiaa_ 49.5 19 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Fungal lipases 18 c3ngmB_ 45.5 23 PDB header:hydrolase Chain: B: PDB Molecule:extracellular lipase; PDBTitle: crystal structure of lipase from gibberella zeae 19 c3o0dF_ 41.7 17 PDB header:hydrolase Chain: F: PDB Molecule:triacylglycerol lipase; PDBTitle: crystal structure of lip2 lipase from yarrowia lipolytica at 1.7 a2 resolution 20 d1uwca_ 31.8 17 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Fungal lipases 21 c3g7nA_ not modelled 31.0 22 PDB header:hydrolase Chain: A: PDB Molecule:lipase; PDBTitle: crystal structure of a triacylglycerol lipase from2 penicillium expansum at 1.3 22 d1qy7a_ not modelled 29.3 11 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Prokaryotic signal transducing protein 23 c3ds8A_ not modelled 24.8 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin2722 protein; PDBTitle: the crysatl structure of the gene lin2722 products from listeria2 innocua 24 d1uzhc1 not modelled 24.2 12 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 25 d1rbli_ not modelled 23.9 19 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 26 c1ir6A_ not modelled 22.3 17 PDB header:hydrolase Chain: A: PDB Molecule:exonuclease recj; PDBTitle: crystal structure of exonuclease recj bound to manganese 27 d1ir6a_ not modelled 22.3 17 Fold:DHH phosphoesterases Superfamily:DHH phosphoesterases Family:Exonuclease RecJ 28 c2rd5D_ not modelled 22.2 17 PDB header:protein binding Chain: D: PDB Molecule:pii protein; PDBTitle: structural basis for the regulation of n-acetylglutamate kinase by pii2 in arabidopsis thaliana 29 d1svdm1 not modelled 22.0 4 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 30 c2r6hC_ not modelled 19.4 33 PDB header:oxidoreductase Chain: C: PDB Molecule:nadh:ubiquinone oxidoreductase, na translocating, f PDBTitle: crystal structure of the domain comprising the nad binding and the fad2 binding regions of the nadh:ubiquinone oxidoreductase, na3 translocating, f subunit from porphyromonas gingivalis 31 d8ruci_ not modelled 18.9 12 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 32 c2oghA_ not modelled 18.3 13 PDB header:translation Chain: A: PDB Molecule:eukaryotic translation initiation factor eif-1; PDBTitle: solution structure of yeast eif1 33 d1ej7s_ not modelled 18.3 12 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 34 d3tgla_ not modelled 17.7 18 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Fungal lipases 35 d1ir1s_ not modelled 17.1 12 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 36 d2if1a_ not modelled 17.0 13 Fold:eIF1-like Superfamily:eIF1-like Family:eIF1-like 37 d1wdds_ not modelled 16.8 12 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 38 d1bwvs_ not modelled 16.6 9 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 39 d1lgya_ not modelled 16.0 16 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Fungal lipases 40 d2v6ai1 not modelled 14.7 12 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 41 d1bxni_ not modelled 12.7 3 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 42 d1sxra_ not modelled 12.7 11 Fold:N-acetylmuramoyl-L-alanine amidase-like Superfamily:N-acetylmuramoyl-L-alanine amidase-like Family:N-acetylmuramoyl-L-alanine amidase-like 43 c1nauA_ not modelled 12.7 18 PDB header:hormone/growth factor Chain: A: PDB Molecule:glucagon; PDBTitle: nmr solution structure of the glucagon antagonist [deshis1,2 desphe6, glu9]glucagon amide in the presence of3 perdeuterated dodecylphosphocholine micelles 44 d2ckca1 not modelled 11.7 10 Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like 45 c2ckcA_ not modelled 11.7 10 PDB header:hydrolase Chain: A: PDB Molecule:chromodomain-helicase-dna-binding protein 7; PDBTitle: solution structures of the brk domains of the human chromo2 helicase domain 7 and 8, reveals structural similarity3 with gyf domain suggesting a role in protein interaction 46 d1gvha3 not modelled 11.1 15 Fold:Ferredoxin reductase-like, C-terminal NADP-linked domain Superfamily:Ferredoxin reductase-like, C-terminal NADP-linked domain Family:Flavohemoglobin, C-terminal domain 47 d1gk8i_ not modelled 11.0 10 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 48 d2piia_ not modelled 10.7 17 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Prokaryotic signal transducing protein 49 d1uzdc1 not modelled 10.3 10 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 50 c1s2jA_ not modelled 10.2 10 PDB header:hydrolase Chain: A: PDB Molecule:peptidoglycan recognition protein sa cg11709-pa; PDBTitle: crystal structure of the drosophila pattern-recognition2 receptor pgrp-sa 51 d1d4oa_ not modelled 9.8 19 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Transhydrogenase domain III (dIII) 52 d2v0ea1 not modelled 8.9 8 Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like 53 c1pt9B_ not modelled 8.9 19 PDB header:oxidoreductase Chain: B: PDB Molecule:nad(p) transhydrogenase, mitochondrial; PDBTitle: crystal structure analysis of the diii component of transhydrogenase2 with a thio-nicotinamide nucleotide analogue 54 d1tvca2 not modelled 8.3 11 Fold:Ferredoxin reductase-like, C-terminal NADP-linked domain Superfamily:Ferredoxin reductase-like, C-terminal NADP-linked domain Family:Aromatic dioxygenase reductase-like 55 c3b9eA_ not modelled 8.1 9 PDB header:hydrolase Chain: A: PDB Molecule:chitinase a; PDBTitle: crystal structure of inactive mutant e315m chitinase a from2 vibrio harveyi 56 c3bzqA_ not modelled 7.2 15 PDB header:signaling protein/transcription Chain: A: PDB Molecule:nitrogen regulatory protein p-ii; PDBTitle: high resolution crystal structure of nitrogen regulatory protein2 (rv2919c) of mycobacterium tuberculosis 57 c3rxyA_ not modelled 6.9 25 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:nif3 protein; PDBTitle: crystal structure of nif3 superfamily protein from sphaerobacter2 thermophilus 58 d2gova1 not modelled 6.6 10 Fold:Probable bacterial effector-binding domain Superfamily:Probable bacterial effector-binding domain Family:SOUL heme-binding protein 59 c1gvhA_ not modelled 6.6 14 PDB header:oxidoreductase Chain: A: PDB Molecule:flavohemoprotein; PDBTitle: the x-ray structure of ferric escherichia coli2 flavohemoglobin reveals an unespected geometry of the3 distal heme pocket 60 c3devB_ not modelled 6.5 4 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:sh1221; PDBTitle: crystal structure of sh1221 protein from staphylococcus haemolyticus,2 northeast structural genomics consortium target shr87 61 c3mhyC_ not modelled 6.2 13 PDB header:signaling protein Chain: C: PDB Molecule:pii-like protein pz; PDBTitle: a new pii protein structure 62 c2ckaA_ not modelled 6.0 8 PDB header:hydrolase Chain: A: PDB Molecule:chromodomain-helicase-dna-binding protein 8; PDBTitle: solution structures of the brk domains of the human chromo2 helicase domain 7 and 8, reveals structural similarity3 with gyf domain suggesting a role in protein interaction 63 d2ckaa1 not modelled 6.0 8 Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like 64 d1zpda1 not modelled 6.0 13 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 65 d1e32a3 not modelled 5.8 19 Fold:Cdc48 domain 2-like Superfamily:Cdc48 domain 2-like Family:Cdc48 domain 2-like 66 c3dmaA_ not modelled 5.7 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:exopolyphosphatase-related protein; PDBTitle: crystal structure of an exopolyphosphatase-related protein2 from bacteroides fragilis. northeast structural genomics3 target bfr192 67 d1cqxa3 not modelled 5.7 17 Fold:Ferredoxin reductase-like, C-terminal NADP-linked domain Superfamily:Ferredoxin reductase-like, C-terminal NADP-linked domain Family:Flavohemoglobin, C-terminal domain

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