Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	M	S	E	Y	F	R	I	L	Q	G	L	P	D	G	P	F	T	R	K	H	A	E	A	V	A	A	Q	Y	R	N	V	F	I	E	D	D	H	G	E	Q	F	R	L	V	V	R	N	N	G	A	M	V	W	R	T	W	N	F
Secondary structure
SS confidence
Disorder		?	?	?	?		?				?		?	?	?	?	?	?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.
Sequence		E	D	G	A	G	Y	W	M	N	H	V	I	R	D	F	G	I	L	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 2hjj chain A domain 1 Region: 16 - 78 Aligned: 63 Modelled: 63 Confidence: 100.0% Identity: 57% Fold: dsRBD-like Superfamily: YcfA/nrd intein domain Family: YkfF-like Phyre2 PDB 2hjj chain A Region: 16 - 78 Aligned: 63 Modelled: 63 Confidence: 100.0% Identity: 57% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ykff; PDBTitle: solution nmr structure of protein ykff from escherichia coli.2 northeast structural genomics target er397. Phyre2 PDB 1xs3 chain A Region: 33 - 50 Aligned: 18 Modelled: 18 Confidence: 13.4% Identity: 22% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein xc975; PDBTitle: solution structure analysis of the xc975 protein Phyre2 PDB 1iio chain A Region: 9 - 23 Aligned: 15 Modelled: 15 Confidence: 12.9% Identity: 33% Fold: EF Hand-like Superfamily: Hypothetical protein MTH865 Family: Hypothetical protein MTH865 Phyre2 PDB 3isy chain A Region: 40 - 56 Aligned: 17 Modelled: 17 Confidence: 11.7% Identity: 35% PDB header:protein binding Chain: A: PDB Molecule:intracellular proteinase inhibitor; PDBTitle: crystal structure of an intracellular proteinase inhibitor (ipi,2 bsu11130) from bacillus subtilis at 2.61 a resolution Phyre2 PDB 3tr3 chain A Region: 33 - 50 Aligned: 18 Modelled: 18 Confidence: 11.0% Identity: 28% PDB header:unknown function Chain: A: PDB Molecule:bola; PDBTitle: structure of a bola protein homologue from coxiella burnetii Phyre2 PDB 1yew chain F Region: 65 - 76 Aligned: 12 Modelled: 12 Confidence: 9.5% Identity: 33% PDB header:oxidoreductase, membrane protein Chain: F: PDB Molecule:particulate methane monooxygenase, a subunit; PDBTitle: crystal structure of particulate methane monooxygenase Phyre2 PDB 1r1q chain A Region: 1 - 71 Aligned: 70 Modelled: 71 Confidence: 9.1% Identity: 13% Fold: SH2-like Superfamily: SH2 domain Family: SH2 domain Phyre2 PDB 2dhm chain A Region: 21 - 47 Aligned: 27 Modelled: 27 Confidence: 9.0% Identity: 19% PDB header:protein binding Chain: A: PDB Molecule:protein bola; PDBTitle: solution structure of the bola protein from escherichia coli Phyre2 PDB 2zt9 chain F Region: 64 - 77 Aligned: 14 Modelled: 14 Confidence: 8.1% Identity: 29% PDB header:photosynthesis Chain: F: PDB Molecule:cytochrome b6-f complex subunit 7; PDBTitle: crystal structure of the cytochrome b6f complex from nostoc sp. pcc2 7120 Phyre2 PDB 3o2e chain A Region: 33 - 47 Aligned: 15 Modelled: 15 Confidence: 8.1% Identity: 20% PDB header:unknown function Chain: A: PDB Molecule:bola-like protein; PDBTitle: crystal structure of a bol-like protein from babesia bovis Phyre2 PDB 2kdn chain A Region: 33 - 47 Aligned: 15 Modelled: 15 Confidence: 7.6% Identity: 27% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein pfe0790c; PDBTitle: solution structure of pfe0790c, a putative bola-like2 protein from the protozoan parasite plasmodium falciparum. Phyre2 PDB 2q2e chain B Region: 32 - 51 Aligned: 20 Modelled: 20 Confidence: 7.6% Identity: 20% PDB header:isomerase Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b; PDBTitle: crystal structure of the topoisomerase vi holoenzyme from2 methanosarcina mazei Phyre2 PDB 1rwh chain A domain 3 Region: 44 - 78 Aligned: 35 Modelled: 35 Confidence: 7.2% Identity: 23% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: Hyaluronate lyase-like, central domain Phyre2 PDB 3chx chain F Region: 65 - 76 Aligned: 12 Modelled: 12 Confidence: 7.0% Identity: 33% PDB header:membrane protein Chain: F: PDB Molecule:pmoa; PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo) Phyre2 PDB 1k1s chain A domain 1 Region: 16 - 46 Aligned: 31 Modelled: 31 Confidence: 6.6% Identity: 16% Fold: Lesion bypass DNA polymerase (Y-family), little finger domain Superfamily: Lesion bypass DNA polymerase (Y-family), little finger domain Family: Lesion bypass DNA polymerase (Y-family), little finger domain Phyre2 PDB 1v9j chain A Region: 33 - 47 Aligned: 15 Modelled: 15 Confidence: 5.3% Identity: 40% Fold: Alpha-lytic protease prodomain-like Superfamily: BolA-like Family: BolA-like Phyre2 PDB 1f1s chain A domain 4 Region: 44 - 78 Aligned: 35 Modelled: 35 Confidence: 5.2% Identity: 20% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: Hyaluronate lyase-like, central domain Phyre2 PDB 2zgw chain A domain 1 Region: 44 - 54 Aligned: 11 Modelled: 11 Confidence: 5.2% Identity: 36% Fold: SH3-like barrel Superfamily: C-terminal domain of transcriptional repressors Family: Biotin repressor (BirA) Phyre2 1 d2hjja1 2 c2hjjA_ 3 c1xs3A_ 4 d1iioa_ 5 c3isyA_ 6 c3tr3A_ 7 c1yewF_ 8 d1r1qa_ 9 c2dhmA_ 10 c2zt9F_ 11 c3o2eA_ 12 c2kdnA_ 13 c2q2eB_ 14 d1rwha3 15 c3chxF_ 16 d1k1sa1 17 d1v9ja_ 18 d1f1sa4 19 d2zgwa1

Detailed template information

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

1 d2hjja1 100.0 57 Fold:dsRBD-like Superfamily:YcfA/nrd intein domain Family:YkfF-like 2 c2hjjA_ 100.0 57 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ykff; PDBTitle: solution nmr structure of protein ykff from escherichia coli.2 northeast structural genomics target er397. 3 c1xs3A_ 13.4 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein xc975; PDBTitle: solution structure analysis of the xc975 protein 4 d1iioa_ 12.9 33 Fold:EF Hand-like Superfamily:Hypothetical protein MTH865 Family:Hypothetical protein MTH865 5 c3isyA_ 11.7 35 PDB header:protein binding Chain: A: PDB Molecule:intracellular proteinase inhibitor; PDBTitle: crystal structure of an intracellular proteinase inhibitor (ipi,2 bsu11130) from bacillus subtilis at 2.61 a resolution 6 c3tr3A_ 11.0 28 PDB header:unknown function Chain: A: PDB Molecule:bola; PDBTitle: structure of a bola protein homologue from coxiella burnetii 7 c1yewF_ 9.5 33 PDB header:oxidoreductase, membrane protein Chain: F: PDB Molecule:particulate methane monooxygenase, a subunit; PDBTitle: crystal structure of particulate methane monooxygenase 8 d1r1qa_ 9.1 13 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 9 c2dhmA_ 9.0 19 PDB header:protein binding Chain: A: PDB Molecule:protein bola; PDBTitle: solution structure of the bola protein from escherichia coli 10 c2zt9F_ 8.1 29 PDB header:photosynthesis Chain: F: PDB Molecule:cytochrome b6-f complex subunit 7; PDBTitle: crystal structure of the cytochrome b6f complex from nostoc sp. pcc2 7120 11 c3o2eA_ 8.1 20 PDB header:unknown function Chain: A: PDB Molecule:bola-like protein; PDBTitle: crystal structure of a bol-like protein from babesia bovis 12 c2kdnA_ 7.6 27 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein pfe0790c; PDBTitle: solution structure of pfe0790c, a putative bola-like2 protein from the protozoan parasite plasmodium falciparum. 13 c2q2eB_ 7.6 20 PDB header:isomerase Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b; PDBTitle: crystal structure of the topoisomerase vi holoenzyme from2 methanosarcina mazei 14 d1rwha3 7.2 23 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:Hyaluronate lyase-like, central domain 15 c3chxF_ 7.0 33 PDB header:membrane protein Chain: F: PDB Molecule:pmoa; PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo) 16 d1k1sa1 6.6 16 Fold:Lesion bypass DNA polymerase (Y-family), little finger domain Superfamily:Lesion bypass DNA polymerase (Y-family), little finger domain Family:Lesion bypass DNA polymerase (Y-family), little finger domain 17 d1v9ja_ 5.3 40 Fold:Alpha-lytic protease prodomain-like Superfamily:BolA-like Family:BolA-like 18 d1f1sa4 5.2 20 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:Hyaluronate lyase-like, central domain 19 d2zgwa1 5.2 36 Fold:SH3-like barrel Superfamily:C-terminal domain of transcriptional repressors Family:Biotin repressor (BirA)

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