Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	H	V	K	Y	L	A	G	I	V	G	A	A	L	L	M	A	G	C	S	S	S	N	E	L	S	A	A	G	Q	S	V	R	I	V	D	E	Q	P	G	A	E	C	Q	L	I	G	T	A	T	G	K	Q	S	N	W	L	S	G	Q
Secondary structure
SS confidence
Disorder		?	?	?		?	?	?													?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.
Sequence		H	G	E	E	G	G	S	M	R	G	A	A	N	D	L	R	N	Q	A	A	A	M	G	G	N	V	I	Y	G	I	S	S	P	S	Q	G	M	L	S	S	F	V	P	T	D	S	Q	I	I	G	Q	V	Y	K	C	P	N
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 2y1b chain A Region: 31 - 114 Aligned: 80 Modelled: 84 Confidence: 97.9% Identity: 21% PDB header:membrane protein Chain: A: PDB Molecule:putative outer membrane protein, signal; PDBTitle: crystal structure of the e. coli outer membrane lipoprotein2 rcsf Phyre2 PDB 1y2i chain C Region: 33 - 114 Aligned: 82 Modelled: 82 Confidence: 96.9% Identity: 21% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein s0862; PDBTitle: crystal structure of mcsg target apc27401 from shigella2 flexneri Phyre2 PDB 1y2i chain A Region: 33 - 114 Aligned: 82 Modelled: 82 Confidence: 96.9% Identity: 21% Fold: Dodecin subunit-like Superfamily: YbjQ-like Family: YbjQ-like Phyre2 PDB 1vr4 chain A domain 1 Region: 44 - 114 Aligned: 69 Modelled: 71 Confidence: 95.4% Identity: 13% Fold: Dodecin subunit-like Superfamily: YbjQ-like Family: YbjQ-like Phyre2 PDB 3qkb chain B Region: 34 - 112 Aligned: 78 Modelled: 79 Confidence: 95.3% Identity: 15% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a protein with unknown function which belongs to2 pfam duf74 family (pepe_0654) from pediococcus pentosaceus atcc 257453 at 2.73 a resolution Phyre2 PDB 2hl2 chain A Region: 63 - 91 Aligned: 29 Modelled: 29 Confidence: 34.6% Identity: 7% PDB header:ligase Chain: A: PDB Molecule:threonyl-trna synthetase; PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase from pyrococcus abyssi in complex with an3 analog of seryladenylate Phyre2 PDB 2noc chain A domain 1 Region: 39 - 114 Aligned: 57 Modelled: 76 Confidence: 21.0% Identity: 28% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 PDB 1m5w chain A Region: 30 - 91 Aligned: 51 Modelled: 62 Confidence: 20.9% Identity: 25% Fold: TIM beta/alpha-barrel Superfamily: Pyridoxine 5'-phosphate synthase Family: Pyridoxine 5'-phosphate synthase Phyre2 PDB 3cqr chain B Region: 45 - 83 Aligned: 39 Modelled: 39 Confidence: 17.9% Identity: 10% PDB header:oxidoreductase Chain: B: PDB Molecule:violaxanthin de-epoxidase, chloroplast; PDBTitle: crystal structure of the lipocalin domain of violaxanthin2 de-epoxidase (vde) at ph5 Phyre2 PDB 2opd chain A Region: 105 - 115 Aligned: 11 Modelled: 11 Confidence: 9.5% Identity: 36% PDB header:cell adhesion Chain: A: PDB Molecule:pilx; PDBTitle: structure of the neisseria meningitidis minor type iv pilin,2 pilx Phyre2 PDB 1xlm chain A Region: 52 - 89 Aligned: 38 Modelled: 38 Confidence: 9.4% Identity: 21% Fold: TIM beta/alpha-barrel Superfamily: Xylose isomerase-like Family: Xylose isomerase Phyre2 PDB 1fcq chain A Region: 56 - 89 Aligned: 34 Modelled: 34 Confidence: 9.3% Identity: 12% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Bee venom hyaluronidase Phyre2 PDB 1fcu chain A Region: 56 - 89 Aligned: 34 Modelled: 34 Confidence: 8.8% Identity: 12% PDB header:hydrolase Chain: A: PDB Molecule:hyaluronoglucosaminidase; PDBTitle: crystal structure (trigonal) of bee venom hyaluronidase Phyre2 PDB 2v7s chain A Region: 71 - 111 Aligned: 34 Modelled: 41 Confidence: 8.8% Identity: 29% PDB header:unknown function Chain: A: PDB Molecule:probable conserved lipoprotein lppa; PDBTitle: crystal structure of the putative lipoprotein lppa from2 mycobacterium tuberculosis Phyre2 PDB 2kxh chain B Region: 66 - 85 Aligned: 20 Modelled: 20 Confidence: 8.6% Identity: 30% PDB header:protein binding Chain: B: PDB Molecule:peptide of far upstream element-binding protein 1; PDBTitle: solution structure of the first two rrm domains of fir in the complex2 with fbp nbox peptide Phyre2 PDB 3e9v chain A domain 1 Region: 110 - 115 Aligned: 6 Modelled: 6 Confidence: 8.4% Identity: 50% Fold: BTG domain-like Superfamily: BTG domain-like Family: BTG domain-like Phyre2 PDB 2z15 chain A domain 1 Region: 110 - 115 Aligned: 6 Modelled: 6 Confidence: 7.9% Identity: 33% Fold: BTG domain-like Superfamily: BTG domain-like Family: BTG domain-like Phyre2 PDB 1nyt chain A domain 2 Region: 63 - 88 Aligned: 26 Modelled: 26 Confidence: 7.8% Identity: 23% Fold: Aminoacid dehydrogenase-like, N-terminal domain Superfamily: Aminoacid dehydrogenase-like, N-terminal domain Family: Shikimate dehydrogenase-like Phyre2 PDB 1zza chain A Region: 3 - 19 Aligned: 17 Modelled: 17 Confidence: 7.6% Identity: 29% PDB header:membrane protein Chain: A: PDB Molecule:stannin; PDBTitle: solution nmr structure of the membrane protein stannin Phyre2 PDB 2atm chain A Region: 56 - 95 Aligned: 40 Modelled: 40 Confidence: 7.5% Identity: 18% PDB header:hydrolase Chain: A: PDB Molecule:hyaluronoglucosaminidase; PDBTitle: crystal structure of the recombinant allergen ves v 2 Phyre2 1 c2y1bA_ 2 c1y2iC_ 3 d1y2ia_ 4 d1vr4a1 5 c3qkbB_ 6 c2hl2A_ 7 d2noca1 8 d1m5wa_ 9 c3cqrB_ 10 c2opdA_ 11 d1xlma_ 12 d1fcqa_ 13 c1fcuA_ 14 c2v7sA_ 15 c2kxhB_ 16 d3e9va1 17 d2z15a1 18 d1nyta2 19 c1zzaA_ 20 c2atmA_ 21 22 23 24 25 26 27 28 29 30 31 32

Detailed template information

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

1 c2y1bA_ 97.9 21 PDB header:membrane protein Chain: A: PDB Molecule:putative outer membrane protein, signal; PDBTitle: crystal structure of the e. coli outer membrane lipoprotein2 rcsf 2 c1y2iC_ 96.9 21 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein s0862; PDBTitle: crystal structure of mcsg target apc27401 from shigella2 flexneri 3 d1y2ia_ 96.9 21 Fold:Dodecin subunit-like Superfamily:YbjQ-like Family:YbjQ-like 4 d1vr4a1 95.4 13 Fold:Dodecin subunit-like Superfamily:YbjQ-like Family:YbjQ-like 5 c3qkbB_ 95.3 15 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a protein with unknown function which belongs to2 pfam duf74 family (pepe_0654) from pediococcus pentosaceus atcc 257453 at 2.73 a resolution 6 c2hl2A_ 34.6 7 PDB header:ligase Chain: A: PDB Molecule:threonyl-trna synthetase; PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase from pyrococcus abyssi in complex with an3 analog of seryladenylate 7 d2noca1 21.0 28 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 8 d1m5wa_ 20.9 25 Fold:TIM beta/alpha-barrel Superfamily:Pyridoxine 5'-phosphate synthase Family:Pyridoxine 5'-phosphate synthase 9 c3cqrB_ 17.9 10 PDB header:oxidoreductase Chain: B: PDB Molecule:violaxanthin de-epoxidase, chloroplast; PDBTitle: crystal structure of the lipocalin domain of violaxanthin2 de-epoxidase (vde) at ph5 10 c2opdA_ 9.5 36 PDB header:cell adhesion Chain: A: PDB Molecule:pilx; PDBTitle: structure of the neisseria meningitidis minor type iv pilin,2 pilx 11 d1xlma_ 9.4 21 Fold:TIM beta/alpha-barrel Superfamily:Xylose isomerase-like Family:Xylose isomerase 12 d1fcqa_ 9.3 12 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Bee venom hyaluronidase 13 c1fcuA_ 8.8 12 PDB header:hydrolase Chain: A: PDB Molecule:hyaluronoglucosaminidase; PDBTitle: crystal structure (trigonal) of bee venom hyaluronidase 14 c2v7sA_ 8.8 29 PDB header:unknown function Chain: A: PDB Molecule:probable conserved lipoprotein lppa; PDBTitle: crystal structure of the putative lipoprotein lppa from2 mycobacterium tuberculosis 15 c2kxhB_ 8.6 30 PDB header:protein binding Chain: B: PDB Molecule:peptide of far upstream element-binding protein 1; PDBTitle: solution structure of the first two rrm domains of fir in the complex2 with fbp nbox peptide 16 d3e9va1 8.4 50 Fold:BTG domain-like Superfamily:BTG domain-like Family:BTG domain-like 17 d2z15a1 7.9 33 Fold:BTG domain-like Superfamily:BTG domain-like Family:BTG domain-like 18 d1nyta2 7.8 23 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Shikimate dehydrogenase-like 19 c1zzaA_ 7.6 29 PDB header:membrane protein Chain: A: PDB Molecule:stannin; PDBTitle: solution nmr structure of the membrane protein stannin 20 c2atmA_ 7.5 18 PDB header:hydrolase Chain: A: PDB Molecule:hyaluronoglucosaminidase; PDBTitle: crystal structure of the recombinant allergen ves v 2 21 d1p77a2 not modelled 7.3 12 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Shikimate dehydrogenase-like 22 d2jnaa1 not modelled 6.9 26 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 23 c2im9A_ not modelled 6.8 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein lpg0564 from legionella pneumophila str.2 philadelphia 1, pfam duf1460 24 d2im9a1 not modelled 6.8 13 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Lpg0564-like 25 d1fcda2 not modelled 6.2 31 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:FAD/NAD-linked reductases, N-terminal and central domains 26 c3iclA_ not modelled 6.1 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:eal/ggdef domain protein; PDBTitle: x-ray structure of protein (eal/ggdef domain protein) from2 m.capsulatus, northeast structural genomics consortium3 target mcr174c 27 d1npya2 not modelled 6.0 11 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Shikimate dehydrogenase-like 28 d1gpua1 not modelled 5.8 13 Fold:Thiamin diphosphate-binding fold (THDP-binding) Superfamily:Thiamin diphosphate-binding fold (THDP-binding) Family:TK-like PP module 29 c2i56A_ not modelled 5.7 13 PDB header:isomerase, metal-binding protein Chain: A: PDB Molecule:l-rhamnose isomerase; PDBTitle: crystal structure of l-rhamnose isomerase from pseudomonas2 stutzeri with l-rhamnose 30 d1w25a3 not modelled 5.7 35 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:GGDEF domain 31 d2oufa1 not modelled 5.5 11 Fold:HP0242-like Superfamily:HP0242-like Family:HP0242-like 32 d1ryia1 not modelled 5.3 15 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:FAD-linked reductases, N-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