Secondary structure and disorder prediction

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Sequence		M	L	Q	R	T	L	G	S	G	W	G	V	L	L	P	G	L	L	I	A	G	L	M	Y	A	D	L	S	S	D	Q	W	R	I	V	I	L	M	G	L	V	L	T	P	M	M	L	Y	H	K	Q	L	R	H	Y	I	L	L	P	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.
Sequence		C	L	A	L	I	A	G	I	M	L	M	I	M	N	L	N	Q	G
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 2rdd chain B Region: 8 - 24 Aligned: 17 Modelled: 17 Confidence: 11.7% Identity: 18% PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. Phyre2 PDB 2ost chain C Region: 4 - 15 Aligned: 12 Modelled: 12 Confidence: 10.6% Identity: 67% PDB header:hydrolase/dna Chain: C: PDB Molecule:putative endonuclease; PDBTitle: the structure of a bacterial homing endonuclease : i-ssp6803i Phyre2 PDB 2al6 chain A domain 2 Region: 5 - 12 Aligned: 8 Modelled: 8 Confidence: 8.7% Identity: 50% Fold: PH domain-like barrel Superfamily: PH domain-like Family: Third domain of FERM Phyre2 PDB 1uer chain C domain 2 Region: 7 - 14 Aligned: 8 Modelled: 8 Confidence: 8.7% Identity: 63% Fold: Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily: Fe,Mn superoxide dismutase (SOD), C-terminal domain Family: Fe,Mn superoxide dismutase (SOD), C-terminal domain Phyre2 PDB 2bf9 chain A Region: 48 - 58 Aligned: 11 Modelled: 11 Confidence: 8.6% Identity: 18% PDB header:hormone Chain: A: PDB Molecule:pancreatic hormone; PDBTitle: anisotropic refinement of avian (turkey) pancreatic2 polypeptide at 0.99 angstroms resolution. Phyre2 PDB 2nr1 chain A Region: 10 - 14 Aligned: 5 Modelled: 5 Confidence: 7.7% Identity: 100% PDB header:receptor Chain: A: PDB Molecule:nr1 m2; PDBTitle: transmembrane segment 2 of nmda receptor nr1, nmr, 102 structures Phyre2 PDB 3gyc chain B Region: 48 - 57 Aligned: 10 Modelled: 10 Confidence: 7.5% Identity: 40% PDB header:hydrolase Chain: B: PDB Molecule:putative glycoside hydrolase; PDBTitle: crystal structure of putative glycoside hydrolase (yp_001304622.1)2 from parabacteroides distasonis atcc 8503 at 1.85 a resolution Phyre2 PDB 1wqs chain A Region: 5 - 11 Aligned: 7 Modelled: 7 Confidence: 7.1% Identity: 71% PDB header:hydrolase Chain: A: PDB Molecule:3c-like protease; PDBTitle: crystal structure of norovirus 3c-like protease Phyre2 PDB 3h1s chain B Region: 7 - 14 Aligned: 8 Modelled: 8 Confidence: 6.9% Identity: 63% PDB header:oxidoreductase Chain: B: PDB Molecule:superoxide dismutase; PDBTitle: crystal structure of superoxide dismutase from francisella tularensis2 subsp. tularensis schu s4 Phyre2 PDB 2dez chain A Region: 48 - 58 Aligned: 11 Modelled: 11 Confidence: 6.6% Identity: 55% PDB header:neuropeptide Chain: A: PDB Molecule:peptide yy; PDBTitle: structure of human pyy Phyre2 PDB 1dt0 chain A Region: 7 - 14 Aligned: 8 Modelled: 8 Confidence: 6.6% Identity: 75% PDB header:oxidoreductase Chain: A: PDB Molecule:superoxide dismutase; PDBTitle: cloning, sequence, and crystallographic structure of2 recombinant iron superoxide dismutase from pseudomonas3 ovalis Phyre2 PDB 1ron chain A Region: 48 - 58 Aligned: 11 Modelled: 11 Confidence: 6.6% Identity: 64% PDB header:neuropeptide Chain: A: PDB Molecule:neuropeptide y; PDBTitle: nmr solution structure of human neuropeptide y Phyre2 PDB 2vda chain B Region: 58 - 69 Aligned: 12 Modelled: 12 Confidence: 6.4% Identity: 50% PDB header:protein transport Chain: B: PDB Molecule:maltoporin; PDBTitle: solution structure of the seca-signal peptide complex Phyre2 PDB 2z0d chain A domain 1 Region: 5 - 14 Aligned: 10 Modelled: 10 Confidence: 6.2% Identity: 50% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Autophagin-like Phyre2 PDB 2hv8 chain D Region: 50 - 56 Aligned: 7 Modelled: 7 Confidence: 6.2% Identity: 43% PDB header:protein transport Chain: D: PDB Molecule:rab11 family-interacting protein 3; PDBTitle: crystal structure of gtp-bound rab11 in complex with fip3 Phyre2 PDB 1tz5 chain A Region: 48 - 58 Aligned: 11 Modelled: 11 Confidence: 6.1% Identity: 45% PDB header:hormone/growth factor Chain: A: PDB Molecule:chimera of pancreatic hormone and neuropeptide y; PDBTitle: [pnpy19-23]-hpp bound to dpc micelles Phyre2 PDB 1kkc chain A domain 2 Region: 7 - 14 Aligned: 8 Modelled: 8 Confidence: 5.7% Identity: 75% Fold: Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily: Fe,Mn superoxide dismutase (SOD), C-terminal domain Family: Fe,Mn superoxide dismutase (SOD), C-terminal domain Phyre2 PDB 2j01 chain P domain 1 Region: 4 - 11 Aligned: 8 Modelled: 8 Confidence: 5.5% Identity: 63% Fold: Ribosomal proteins L15p and L18e Superfamily: Ribosomal proteins L15p and L18e Family: Ribosomal proteins L15p and L18e Phyre2 PDB 1qnn chain D Region: 7 - 14 Aligned: 8 Modelled: 8 Confidence: 5.5% Identity: 63% PDB header:oxidoreductase Chain: D: PDB Molecule:superoxide dismutase; PDBTitle: cambialistic superoxide dismutase from porphyromonas2 gingivalis Phyre2 PDB 1my6 chain A Region: 7 - 14 Aligned: 8 Modelled: 8 Confidence: 5.4% Identity: 63% PDB header:oxidoreductase Chain: A: PDB Molecule:iron (iii) superoxide dismutase; PDBTitle: the 1.6 a structure of fe-superoxide dismutase from the2 thermophilic cyanobacterium thermosynechococcus elongatus3 : correlation of epr and structural characteristics Phyre2 1 c2rddB_ 2 c2ostC_ 3 d2al6a2 4 d1uerc2 5 c2bf9A_ 6 c2nr1A_ 7 c3gycB_ 8 c1wqsA_ 9 c3h1sB_ 10 c2dezA_ 11 c1dt0A_ 12 c1ronA_ 13 c2vdaB_ 14 d2z0da1 15 c2hv8D_ 16 c1tz5A_ 17 d1kkca2 18 d2j01p1 19 c1qnnD_ 20 c1my6A_ 21 22 23 24 25 26 27 28

Detailed template information

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

1 c2rddB_ 11.7 18 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. 2 c2ostC_ 10.6 67 PDB header:hydrolase/dna Chain: C: PDB Molecule:putative endonuclease; PDBTitle: the structure of a bacterial homing endonuclease : i-ssp6803i 3 d2al6a2 8.7 50 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Third domain of FERM 4 d1uerc2 8.7 63 Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain 5 c2bf9A_ 8.6 18 PDB header:hormone Chain: A: PDB Molecule:pancreatic hormone; PDBTitle: anisotropic refinement of avian (turkey) pancreatic2 polypeptide at 0.99 angstroms resolution. 6 c2nr1A_ 7.7 100 PDB header:receptor Chain: A: PDB Molecule:nr1 m2; PDBTitle: transmembrane segment 2 of nmda receptor nr1, nmr, 102 structures 7 c3gycB_ 7.5 40 PDB header:hydrolase Chain: B: PDB Molecule:putative glycoside hydrolase; PDBTitle: crystal structure of putative glycoside hydrolase (yp_001304622.1)2 from parabacteroides distasonis atcc 8503 at 1.85 a resolution 8 c1wqsA_ 7.1 71 PDB header:hydrolase Chain: A: PDB Molecule:3c-like protease; PDBTitle: crystal structure of norovirus 3c-like protease 9 c3h1sB_ 6.9 63 PDB header:oxidoreductase Chain: B: PDB Molecule:superoxide dismutase; PDBTitle: crystal structure of superoxide dismutase from francisella tularensis2 subsp. tularensis schu s4 10 c2dezA_ 6.6 55 PDB header:neuropeptide Chain: A: PDB Molecule:peptide yy; PDBTitle: structure of human pyy 11 c1dt0A_ 6.6 75 PDB header:oxidoreductase Chain: A: PDB Molecule:superoxide dismutase; PDBTitle: cloning, sequence, and crystallographic structure of2 recombinant iron superoxide dismutase from pseudomonas3 ovalis 12 c1ronA_ 6.6 64 PDB header:neuropeptide Chain: A: PDB Molecule:neuropeptide y; PDBTitle: nmr solution structure of human neuropeptide y 13 c2vdaB_ 6.4 50 PDB header:protein transport Chain: B: PDB Molecule:maltoporin; PDBTitle: solution structure of the seca-signal peptide complex 14 d2z0da1 6.2 50 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Autophagin-like 15 c2hv8D_ 6.2 43 PDB header:protein transport Chain: D: PDB Molecule:rab11 family-interacting protein 3; PDBTitle: crystal structure of gtp-bound rab11 in complex with fip3 16 c1tz5A_ 6.1 45 PDB header:hormone/growth factor Chain: A: PDB Molecule:chimera of pancreatic hormone and neuropeptide y; PDBTitle: [pnpy19-23]-hpp bound to dpc micelles 17 d1kkca2 5.7 75 Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain 18 d2j01p1 5.5 63 Fold:Ribosomal proteins L15p and L18e Superfamily:Ribosomal proteins L15p and L18e Family:Ribosomal proteins L15p and L18e 19 c1qnnD_ 5.5 63 PDB header:oxidoreductase Chain: D: PDB Molecule:superoxide dismutase; PDBTitle: cambialistic superoxide dismutase from porphyromonas2 gingivalis 20 c1my6A_ 5.4 63 PDB header:oxidoreductase Chain: A: PDB Molecule:iron (iii) superoxide dismutase; PDBTitle: the 1.6 a structure of fe-superoxide dismutase from the2 thermophilic cyanobacterium thermosynechococcus elongatus3 : correlation of epr and structural characteristics 21 d3sdpa2 not modelled 5.3 63 Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain 22 c3ceiA_ not modelled 5.3 50 PDB header:oxidoreductase Chain: A: PDB Molecule:superoxide dismutase; PDBTitle: crystal structure of superoxide dismutase from helicobacter2 pylori 23 d1ix9a2 not modelled 5.3 63 Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain 24 c3js4C_ not modelled 5.2 63 PDB header:oxidoreductase Chain: C: PDB Molecule:superoxide dismutase; PDBTitle: crystal structure of iron superoxide dismutase from anaplasma2 phagocytophilum 25 d1y67a2 not modelled 5.2 63 Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain 26 c3tqjB_ not modelled 5.2 63 PDB header:oxidoreductase Chain: B: PDB Molecule:superoxide dismutase [fe]; PDBTitle: structure of the superoxide dismutase (fe) (sodb) from coxiella2 burnetii 27 c2nybC_ not modelled 5.1 63 PDB header:oxidoreductase Chain: C: PDB Molecule:superoxide dismutase [fe]; PDBTitle: crystal structure of e.coli iron superoxide dismutase q69e2 at 1.1 angstrom resolution 28 c2a03A_ not modelled 5.1 75 PDB header:oxidoreductase Chain: A: PDB Molecule:fe-superoxide dismutase homolog; PDBTitle: superoxide dismutase protein from plasmodium berghei

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