Secondary structure and disorder prediction

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Sequence		M	K	D	V	V	D	K	C	S	T	K	G	C	A	I	D	I	G	T	V	I	D	N	D	N	C	T	S	K	F	S	R	F	F	A	T	R	E	E	A	E	S	F	M	T	K	L	K	E	L	A	A	A	T	S	S	A	D	E	G
Secondary structure
SS confidence
Disorder		?	?																																	?																		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.
Sequence		A	S	V	A	Y	K	I	K	D	L	E	G	Q	V	E	L	D	A	A	F	T	F	S	C	Q	A	E	M	I	I	F	E	L	S	L	R	S	L	A
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 2k3i chain A Region: 1 - 99 Aligned: 99 Modelled: 99 Confidence: 100.0% Identity: 99% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yiis; PDBTitle: solution nmr structure of protein yiis from shigella2 flexneri. northeast structural genomics consortium target3 sfr90 Phyre2 PDB 2khd chain A Region: 2 - 99 Aligned: 93 Modelled: 98 Confidence: 100.0% Identity: 32% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein vc_a0919; PDBTitle: solution nmr structure of vc_a0919 from vibrio cholerae.2 northeast structural genomics consortium target vcr52 Phyre2 PDB 2jz5 chain A Region: 14 - 99 Aligned: 82 Modelled: 86 Confidence: 100.0% Identity: 35% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein vpa0419; PDBTitle: nmr solution structure of protein vpa0419 from vibrio2 parahaemolyticus. northeast structural genomics target3 vpr68 Phyre2 PDB 2c60 chain A Region: 77 - 94 Aligned: 18 Modelled: 18 Confidence: 22.8% Identity: 28% PDB header:transferase Chain: A: PDB Molecule:human mitogen-activated protein kinase kinase PDBTitle: crystal structure of human mitogen-activated protein kinase2 kinase kinase 3 isoform 2 phox domain at 1.25 a resolution Phyre2 PDB 2czr chain A domain 1 Region: 7 - 20 Aligned: 14 Modelled: 14 Confidence: 20.8% Identity: 36% Fold: Restriction endonuclease-like Superfamily: TBP-interacting protein-like Family: TBP-interacting protein-like Phyre2 PDB 3git chain A Region: 8 - 36 Aligned: 29 Modelled: 29 Confidence: 14.6% Identity: 21% PDB header:transferase Chain: A: PDB Molecule:carbon monoxide dehydrogenase/acetyl-coa synthase subunit PDBTitle: crystal structure of a truncated acetyl-coa synthase Phyre2 PDB 1oao chain C Region: 8 - 36 Aligned: 29 Modelled: 29 Confidence: 13.3% Identity: 21% Fold: Prismane protein-like Superfamily: Prismane protein-like Family: Acetyl-CoA synthase Phyre2 PDB 3s2x chain B Region: 10 - 36 Aligned: 27 Modelled: 27 Confidence: 12.6% Identity: 22% PDB header:transferase Chain: B: PDB Molecule:acetyl-coa synthase subunit alpha; PDBTitle: structure of acetyl-coenzyme a synthase alpha subunit c-terminal2 domain Phyre2 PDB 2v4j chain A domain 1 Region: 2 - 27 Aligned: 26 Modelled: 26 Confidence: 12.2% Identity: 35% Fold: Ferredoxin-like Superfamily: 4Fe-4S ferredoxins Family: Ferredoxin domains from multidomain proteins Phyre2 PDB 1ru3 chain A Region: 8 - 36 Aligned: 29 Modelled: 29 Confidence: 11.5% Identity: 17% Fold: Prismane protein-like Superfamily: Prismane protein-like Family: Acetyl-CoA synthase Phyre2 PDB 1k81 chain A Region: 7 - 20 Aligned: 14 Modelled: 14 Confidence: 9.9% Identity: 29% Fold: Zinc-binding domain of translation initiation factor 2 beta Superfamily: Zinc-binding domain of translation initiation factor 2 beta Family: Zinc-binding domain of translation initiation factor 2 beta Phyre2 PDB 2d8x chain A domain 2 Region: 8 - 22 Aligned: 14 Modelled: 15 Confidence: 9.6% Identity: 50% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 PDB 2fiy chain A domain 1 Region: 5 - 17 Aligned: 13 Modelled: 13 Confidence: 9.2% Identity: 8% Fold: FdhE-like Superfamily: FdhE-like Family: FdhE-like Phyre2 PDB 2k8e chain A Region: 20 - 78 Aligned: 51 Modelled: 59 Confidence: 9.0% Identity: 18% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0339 protein yegp; PDBTitle: solution nmr structure of protein of unknown function yegp from e.2 coli. ontario center for structural proteomics target ec0640_1_1233 northeast structural genomics consortium target et102. Phyre2 PDB 3cng chain C Region: 8 - 32 Aligned: 25 Modelled: 25 Confidence: 8.8% Identity: 16% PDB header:hydrolase Chain: C: PDB Molecule:nudix hydrolase; PDBTitle: crystal structure of nudix hydrolase from nitrosomonas europaea Phyre2 PDB 2o6n chain A Region: 38 - 54 Aligned: 17 Modelled: 17 Confidence: 7.8% Identity: 24% PDB header:de novo protein Chain: A: PDB Molecule:rh4b designed peptide; PDBTitle: rh4b: designed right-handed coiled coil tetramer with all biological2 amino acids Phyre2 PDB 1r3n chain A domain 2 Region: 23 - 70 Aligned: 48 Modelled: 48 Confidence: 7.8% Identity: 6% Fold: Ferredoxin-like Superfamily: Bacterial exopeptidase dimerisation domain Family: Bacterial exopeptidase dimerisation domain Phyre2 PDB 2ctk chain A domain 1 Region: 3 - 59 Aligned: 53 Modelled: 57 Confidence: 7.6% Identity: 11% 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) Phyre2 PDB 1xxa chain A Region: 17 - 50 Aligned: 33 Modelled: 32 Confidence: 7.0% Identity: 15% Fold: DCoH-like Superfamily: C-terminal domain of arginine repressor Family: C-terminal domain of arginine repressor Phyre2 PDB 1dl6 chain A Region: 8 - 16 Aligned: 9 Modelled: 9 Confidence: 6.9% Identity: 22% Fold: Rubredoxin-like Superfamily: Zinc beta-ribbon Family: Transcriptional factor domain Phyre2 1 c2k3iA_ 2 c2khdA_ 3 c2jz5A_ 4 c2c60A_ 5 d2czra1 6 c3gitA_ 7 d1oaoc_ 8 c3s2xB_ 9 d2v4ja1 10 d1ru3a_ 11 d1k81a_ 12 d2d8xa2 13 d2fiya1 14 c2k8eA_ 15 c3cngC_ 16 c2o6nA_ 17 d1r3na2 18 d2ctka1 19 d1xxaa_ 20 d1dl6a_ 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 c2k3iA_ 100.0 99 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yiis; PDBTitle: solution nmr structure of protein yiis from shigella2 flexneri. northeast structural genomics consortium target3 sfr90 2 c2khdA_ 100.0 32 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein vc_a0919; PDBTitle: solution nmr structure of vc_a0919 from vibrio cholerae.2 northeast structural genomics consortium target vcr52 3 c2jz5A_ 100.0 35 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein vpa0419; PDBTitle: nmr solution structure of protein vpa0419 from vibrio2 parahaemolyticus. northeast structural genomics target3 vpr68 4 c2c60A_ 22.8 28 PDB header:transferase Chain: A: PDB Molecule:human mitogen-activated protein kinase kinase PDBTitle: crystal structure of human mitogen-activated protein kinase2 kinase kinase 3 isoform 2 phox domain at 1.25 a resolution 5 d2czra1 20.8 36 Fold:Restriction endonuclease-like Superfamily:TBP-interacting protein-like Family:TBP-interacting protein-like 6 c3gitA_ 14.6 21 PDB header:transferase Chain: A: PDB Molecule:carbon monoxide dehydrogenase/acetyl-coa synthase subunit PDBTitle: crystal structure of a truncated acetyl-coa synthase 7 d1oaoc_ 13.3 21 Fold:Prismane protein-like Superfamily:Prismane protein-like Family:Acetyl-CoA synthase 8 c3s2xB_ 12.6 22 PDB header:transferase Chain: B: PDB Molecule:acetyl-coa synthase subunit alpha; PDBTitle: structure of acetyl-coenzyme a synthase alpha subunit c-terminal2 domain 9 d2v4ja1 12.2 35 Fold:Ferredoxin-like Superfamily:4Fe-4S ferredoxins Family:Ferredoxin domains from multidomain proteins 10 d1ru3a_ 11.5 17 Fold:Prismane protein-like Superfamily:Prismane protein-like Family:Acetyl-CoA synthase 11 d1k81a_ 9.9 29 Fold:Zinc-binding domain of translation initiation factor 2 beta Superfamily:Zinc-binding domain of translation initiation factor 2 beta Family:Zinc-binding domain of translation initiation factor 2 beta 12 d2d8xa2 9.6 50 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 13 d2fiya1 9.2 8 Fold:FdhE-like Superfamily:FdhE-like Family:FdhE-like 14 c2k8eA_ 9.0 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0339 protein yegp; PDBTitle: solution nmr structure of protein of unknown function yegp from e.2 coli. ontario center for structural proteomics target ec0640_1_1233 northeast structural genomics consortium target et102. 15 c3cngC_ 8.8 16 PDB header:hydrolase Chain: C: PDB Molecule:nudix hydrolase; PDBTitle: crystal structure of nudix hydrolase from nitrosomonas europaea 16 c2o6nA_ 7.8 24 PDB header:de novo protein Chain: A: PDB Molecule:rh4b designed peptide; PDBTitle: rh4b: designed right-handed coiled coil tetramer with all biological2 amino acids 17 d1r3na2 7.8 6 Fold:Ferredoxin-like Superfamily:Bacterial exopeptidase dimerisation domain Family:Bacterial exopeptidase dimerisation domain 18 d2ctka1 7.6 11 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) 19 d1xxaa_ 7.0 15 Fold:DCoH-like Superfamily:C-terminal domain of arginine repressor Family:C-terminal domain of arginine repressor 20 d1dl6a_ 6.9 22 Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Transcriptional factor domain 21 c3cagF_ not modelled 6.6 16 PDB header:dna binding protein Chain: F: PDB Molecule:arginine repressor; PDBTitle: crystal structure of the oligomerization domain hexamer of the2 arginine repressor protein from mycobacterium tuberculosis in complex3 with 9 arginines. 22 c3uajA_ not modelled 6.4 8 PDB header:viral protein/immune system Chain: A: PDB Molecule:envelope protein; PDBTitle: crystal structure of the envelope glycoprotein ectodomain from dengue2 virus serotype 4 in complex with the fab fragment of the chimpanzee3 monoclonal antibody 5h2 23 c3i08D_ not modelled 6.2 30 PDB header:signaling protein Chain: D: PDB Molecule:neurogenic locus notch homolog protein 1; PDBTitle: crystal structure of the s1-cleaved notch1 negative2 regulatory region (nrr) 24 c2jyaA_ not modelled 6.2 25 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1810; PDBTitle: nmr solution structure of protein atu1810 from agrobacterium2 tumefaciens. northeast structural genomics consortium target atr23,3 ontario centre for structural proteomics target atc1776 25 d3c7ba1 not modelled 6.2 35 Fold:Ferredoxin-like Superfamily:4Fe-4S ferredoxins Family:Ferredoxin domains from multidomain proteins 26 c2k2dA_ not modelled 6.1 25 PDB header:metal binding protein Chain: A: PDB Molecule:ring finger and chy zinc finger domain- PDBTitle: solution nmr structure of c-terminal domain of human pirh2.2 northeast structural genomics consortium (nesg) target ht2c 27 d1rutx2 not modelled 5.9 54 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 28 d3d3ra1 not modelled 5.8 15 Fold:OB-fold Superfamily:HupF/HypC-like Family:HupF/HypC-like 29 c3h0gL_ not modelled 5.5 25 PDB header:transcription Chain: L: PDB Molecule:dna-directed rna polymerases i, ii, and iii PDBTitle: rna polymerase ii from schizosaccharomyces pombe

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