Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	V	R	P	Q	Q	H	W	L	R	R	I	F	V	W	H	G	S	V	L	S	K	I	S	S	R	L	L	L	N	F	L	F	S	I	A	V	I	F	M	L	P	W	Y	T	H	L	G	I	K	F	T	L	A	P	F	S	I	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																							?	?	?	?		?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	V	A	I	A	I	F	L	G	F	R	N	N	A	G	Y	A	R	Y	V	E	A	R	K	L	W	G	Q	L	M	I	A	S	R	S	L	L	R	E	V	K	T	T	L	P	D	S	A	S	V	R	E	F	A	R	L	Q	I	A	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	H	C	L	R	M	T	L	R	K	Q	P	Q	A	E	V	L	A	H	Y	L	K	T	E	D	L	Q	R	V	L	A	S	N	S	P	A	N	R	I	L	L	I	M	G	E	W	L	A	V	Q	R	R	N	G	Q	L	S	D	I	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	I	S	L	N	D	R	L	N	D	I	S	A	V	L	A	G	C	E	R	I	A	Y	T	P	I	P	F	A	Y	T	L	I	L	H	R	T	V	Y	L	F	C	I	M	L	P	F	A	L	V	V	D	L	H	Y	M	T	P	F	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		S	V	L	I	S	Y	T	F	I	S	L	D	C	L	A	E	E	L	E	D	P	F	G	T	E	N	N	D	L	P	L	D	A	I	C	N	A	I	E	I	D	L	L	Q	M	N	D	E	A	E	I	P	A	K	I	L	P	D	R	H
Secondary structure
SS confidence
Disorder																																																?			?	?	?	?					?	?	?
Disorder confidence
		.	.	.	.
Sequence		Y	Q	L	T
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 1kqf chain B domain 2 Region: 19 - 45 Aligned: 27 Modelled: 27 Confidence: 34.3% Identity: 7% Fold: Single transmembrane helix Superfamily: Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Family: Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Phyre2 PDB 1h9a chain A domain 1 Region: 258 - 265 Aligned: 8 Modelled: 8 Confidence: 17.9% Identity: 63% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain Phyre2 PDB 1qki chain A domain 1 Region: 258 - 265 Aligned: 8 Modelled: 8 Confidence: 17.9% Identity: 50% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain Phyre2 PDB 1u84 chain A Region: 260 - 295 Aligned: 30 Modelled: 36 Confidence: 12.5% Identity: 33% Fold: YugE-like Superfamily: YugE-like Family: YugE-like Phyre2 PDB 1y1l chain A Region: 258 - 288 Aligned: 29 Modelled: 31 Confidence: 12.3% Identity: 21% Fold: Phosphotyrosine protein phosphatases I-like Superfamily: Phosphotyrosine protein phosphatases I Family: Low-molecular-weight phosphotyrosine protein phosphatases Phyre2 PDB 3rh0 chain A Region: 258 - 286 Aligned: 27 Modelled: 29 Confidence: 11.3% Identity: 11% PDB header:oxidoreductase Chain: A: PDB Molecule:arsenate reductase; PDBTitle: corynebacterium glutamicum mycothiol/mycoredoxin1-dependent arsenate2 reductase cg_arsc2 Phyre2 PDB 2kx2 chain A Region: 261 - 283 Aligned: 23 Modelled: 23 Confidence: 11.1% Identity: 26% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: the solution structure of mth1821 Phyre2 PDB 1jf8 chain A Region: 258 - 285 Aligned: 26 Modelled: 28 Confidence: 10.9% Identity: 19% Fold: Phosphotyrosine protein phosphatases I-like Superfamily: Phosphotyrosine protein phosphatases I Family: Low-molecular-weight phosphotyrosine protein phosphatases Phyre2 PDB 1h9a chain A Region: 258 - 265 Aligned: 8 Modelled: 8 Confidence: 9.6% Identity: 63% PDB header:oxidoreductase (choh(d) - nad(p)) Chain: A: PDB Molecule:glucose 6-phosphate 1-dehydrogenase; PDBTitle: complex of active mutant (q365->c) of glucose 6-phosphate2 dehydrogenase from l. mesenteroides with coenzyme nadp Phyre2 PDB 1d1q chain A Region: 257 - 287 Aligned: 29 Modelled: 31 Confidence: 9.3% Identity: 21% Fold: Phosphotyrosine protein phosphatases I-like Superfamily: Phosphotyrosine protein phosphatases I Family: Low-molecular-weight phosphotyrosine protein phosphatases Phyre2 PDB 1xvi chain A Region: 262 - 271 Aligned: 10 Modelled: 10 Confidence: 9.0% Identity: 50% PDB header:hydrolase Chain: A: PDB Molecule:putative mannosyl-3-phosphoglycerate phosphatase; PDBTitle: crystal structure of yedp, phosphatase-like domain protein2 from escherichia coli k12 Phyre2 PDB 1xvi chain A Region: 262 - 271 Aligned: 10 Modelled: 10 Confidence: 9.0% Identity: 50% Fold: HAD-like Superfamily: HAD-like Family: Predicted hydrolases Cof Phyre2 PDB 1qki chain E Region: 258 - 291 Aligned: 28 Modelled: 34 Confidence: 8.7% Identity: 21% PDB header:oxidoreductase Chain: E: PDB Molecule:glucose-6-phosphate 1-dehydrogenase; PDBTitle: x-ray structure of human glucose 6-phosphate dehydrogenase2 (variant canton r459l) complexed with structural nadp+ Phyre2 PDB 2bhl chain B Region: 258 - 265 Aligned: 8 Modelled: 8 Confidence: 8.7% Identity: 50% PDB header:oxidoreductase (choh(d)-nadp) Chain: B: PDB Molecule:glucose-6-phosphate 1-dehydrogenase; PDBTitle: x-ray structure of human glucose-6-phosphate dehydrogenase2 (deletion variant) complexed with glucose-6-phosphate Phyre2 PDB 1wzc chain A domain 1 Region: 262 - 271 Aligned: 10 Modelled: 10 Confidence: 8.2% Identity: 40% Fold: HAD-like Superfamily: HAD-like Family: Predicted hydrolases Cof Phyre2 PDB 1p8a chain A Region: 258 - 291 Aligned: 31 Modelled: 34 Confidence: 8.1% Identity: 13% Fold: Phosphotyrosine protein phosphatases I-like Superfamily: Phosphotyrosine protein phosphatases I Family: Low-molecular-weight phosphotyrosine protein phosphatases Phyre2 PDB 3ns4 chain A Region: 4 - 27 Aligned: 24 Modelled: 23 Confidence: 7.5% Identity: 17% PDB header:protein binding Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 53; PDBTitle: structure of a c-terminal fragment of its vps53 subunit suggests2 similarity of garp to a family of tethering complexes Phyre2 PDB 1gnt chain A Region: 249 - 271 Aligned: 23 Modelled: 23 Confidence: 7.5% Identity: 43% Fold: Prismane protein-like Superfamily: Prismane protein-like Family: Hybrid cluster protein (prismane protein) Phyre2 PDB 1s2o chain A domain 1 Region: 262 - 271 Aligned: 10 Modelled: 10 Confidence: 6.9% Identity: 40% Fold: HAD-like Superfamily: HAD-like Family: Predicted hydrolases Cof Phyre2 PDB 2f76 chain X domain 1 Region: 251 - 284 Aligned: 34 Modelled: 34 Confidence: 6.7% Identity: 15% Fold: Retroviral matrix proteins Superfamily: Retroviral matrix proteins Family: Mason-Pfizer monkey virus matrix protein Phyre2 1 d1kqfb2 2 d1h9aa1 3 d1qkia1 4 d1u84a_ 5 d1y1la_ 6 c3rh0A_ 7 c2kx2A_ 8 d1jf8a_ 9 c1h9aA_ 10 d1d1qa_ 11 c1xviA_ 12 d1xvia_ 13 c1qkiE_ 14 c2bhlB_ 15 d1wzca1 16 d1p8aa_ 17 c3ns4A_ 18 d1gnta_ 19 d1s2oa1 20 d2f76x1 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

Detailed template information

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

1 d1kqfb2 34.3 7 Fold:Single transmembrane helix Superfamily:Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Family:Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor 2 d1h9aa1 17.9 63 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 3 d1qkia1 17.9 50 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 4 d1u84a_ 12.5 33 Fold:YugE-like Superfamily:YugE-like Family:YugE-like 5 d1y1la_ 12.3 21 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:Phosphotyrosine protein phosphatases I Family:Low-molecular-weight phosphotyrosine protein phosphatases 6 c3rh0A_ 11.3 11 PDB header:oxidoreductase Chain: A: PDB Molecule:arsenate reductase; PDBTitle: corynebacterium glutamicum mycothiol/mycoredoxin1-dependent arsenate2 reductase cg_arsc2 7 c2kx2A_ 11.1 26 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: the solution structure of mth1821 8 d1jf8a_ 10.9 19 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:Phosphotyrosine protein phosphatases I Family:Low-molecular-weight phosphotyrosine protein phosphatases 9 c1h9aA_ 9.6 63 PDB header:oxidoreductase (choh(d) - nad(p)) Chain: A: PDB Molecule:glucose 6-phosphate 1-dehydrogenase; PDBTitle: complex of active mutant (q365->c) of glucose 6-phosphate2 dehydrogenase from l. mesenteroides with coenzyme nadp 10 d1d1qa_ 9.3 21 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:Phosphotyrosine protein phosphatases I Family:Low-molecular-weight phosphotyrosine protein phosphatases 11 c1xviA_ 9.0 50 PDB header:hydrolase Chain: A: PDB Molecule:putative mannosyl-3-phosphoglycerate phosphatase; PDBTitle: crystal structure of yedp, phosphatase-like domain protein2 from escherichia coli k12 12 d1xvia_ 9.0 50 Fold:HAD-like Superfamily:HAD-like Family:Predicted hydrolases Cof 13 c1qkiE_ 8.7 21 PDB header:oxidoreductase Chain: E: PDB Molecule:glucose-6-phosphate 1-dehydrogenase; PDBTitle: x-ray structure of human glucose 6-phosphate dehydrogenase2 (variant canton r459l) complexed with structural nadp+ 14 c2bhlB_ 8.7 50 PDB header:oxidoreductase (choh(d)-nadp) Chain: B: PDB Molecule:glucose-6-phosphate 1-dehydrogenase; PDBTitle: x-ray structure of human glucose-6-phosphate dehydrogenase2 (deletion variant) complexed with glucose-6-phosphate 15 d1wzca1 8.2 40 Fold:HAD-like Superfamily:HAD-like Family:Predicted hydrolases Cof 16 d1p8aa_ 8.1 13 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:Phosphotyrosine protein phosphatases I Family:Low-molecular-weight phosphotyrosine protein phosphatases 17 c3ns4A_ 7.5 17 PDB header:protein binding Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 53; PDBTitle: structure of a c-terminal fragment of its vps53 subunit suggests2 similarity of garp to a family of tethering complexes 18 d1gnta_ 7.5 43 Fold:Prismane protein-like Superfamily:Prismane protein-like Family:Hybrid cluster protein (prismane protein) 19 d1s2oa1 6.9 40 Fold:HAD-like Superfamily:HAD-like Family:Predicted hydrolases Cof 20 d2f76x1 6.7 15 Fold:Retroviral matrix proteins Superfamily:Retroviral matrix proteins Family:Mason-Pfizer monkey virus matrix protein 21 d1gs0a1 not modelled 6.5 12 Fold:Domain of poly(ADP-ribose) polymerase Superfamily:Domain of poly(ADP-ribose) polymerase Family:Domain of poly(ADP-ribose) polymerase 22 d1biaa1 not modelled 6.4 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 23 d2rbka1 not modelled 6.3 40 Fold:HAD-like Superfamily:HAD-like Family:Predicted hydrolases Cof 24 c2cwdA_ not modelled 6.2 23 PDB header:hydrolase Chain: A: PDB Molecule:low molecular weight phosphotyrosine protein phosphatase; PDBTitle: crystal structure of tt1001 protein from thermus thermophilus hb8 25 d2amya1 not modelled 6.1 40 Fold:HAD-like Superfamily:HAD-like Family:Predicted hydrolases Cof 26 c3g9hA_ not modelled 6.1 42 PDB header:endocytosis Chain: A: PDB Molecule:suppressor of yeast profilin deletion; PDBTitle: crystal structure of the c-terminal mu homology domain of2 syp1 27 c3fzqA_ not modelled 6.0 40 PDB header:hydrolase Chain: A: PDB Molecule:putative hydrolase; PDBTitle: crystal structure of putative haloacid dehalogenase-like hydrolase2 (yp_001086940.1) from clostridium difficile 630 at 2.10 a resolution 28 c3niwA_ not modelled 5.9 29 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:haloacid dehalogenase-like hydrolase; PDBTitle: crystal structure of a haloacid dehalogenase-like hydrolase from2 bacteroides thetaiotaomicron 29 d2izva1 not modelled 5.9 25 Fold:SOCS box-like Superfamily:SOCS box-like Family:SOCS box-like 30 d2rd6a1 not modelled 5.9 9 Fold:Domain of poly(ADP-ribose) polymerase Superfamily:Domain of poly(ADP-ribose) polymerase Family:Domain of poly(ADP-ribose) polymerase 31 c3gygA_ not modelled 5.9 40 PDB header:hydrolase Chain: A: PDB Molecule:ntd biosynthesis operon putative hydrolase ntdb; PDBTitle: crystal structure of yhjk (haloacid dehalogenase-like hydrolase2 protein) from bacillus subtilis 32 c3dnpA_ not modelled 5.8 29 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:stress response protein yhax; PDBTitle: crystal structure of stress response protein yhax from bacillus2 subtilis 33 d3blhb1 not modelled 5.8 13 Fold:Cyclin-like Superfamily:Cyclin-like Family:Cyclin 34 c3jvcA_ not modelled 5.7 30 PDB header:lipid binding protein Chain: A: PDB Molecule:conserved hypothetical membrane lipoprotein; PDBTitle: crystal structure of the lipoprotein_17 domain from2 q9pra0_urepa protein of ureaplasma parvum. northeast3 structural genomics consortium target uur17a. 35 d1z0kb1 not modelled 5.5 11 Fold:Long alpha-hairpin Superfamily:Rabenosyn-5 Rab-binding domain-like Family:Rabenosyn-5 Rab-binding domain-like 36 c3iynO_ not modelled 5.5 25 PDB header:virus Chain: O: PDB Molecule:hexon-associated protein; PDBTitle: 3.6-angstrom cryoem structure of human adenovirus type 5 37 d5pnta_ not modelled 5.5 14 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:Phosphotyrosine protein phosphatases I Family:Low-molecular-weight phosphotyrosine protein phosphatases 38 d1rlma_ not modelled 5.4 21 Fold:HAD-like Superfamily:HAD-like Family:Predicted hydrolases Cof 39 c2l18A_ not modelled 5.4 17 PDB header:oxidoreductase Chain: A: PDB Molecule:arsenate reductase; PDBTitle: an arsenate reductase in the phosphate binding state 40 c3jviA_ not modelled 5.3 19 PDB header:hydrolase Chain: A: PDB Molecule:protein tyrosine phosphatase; PDBTitle: product state mimic crystal structure of protein tyrosine phosphatase2 from entamoeba histolytica 41 c1s6cB_ not modelled 5.3 42 PDB header:transport protein Chain: B: PDB Molecule:potassium voltage-gated channel subfamily d member 2; PDBTitle: crystal structure of the complex between kchip1 and kv4.2 n1-30 42 d2aqea1 not modelled 5.3 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:SWIRM domain 43 d1aa7a_ not modelled 5.3 38 Fold:Influenza virus matrix protein M1 Superfamily:Influenza virus matrix protein M1 Family:Influenza virus matrix protein M1 44 d1qjta_ not modelled 5.2 17 Fold:EF Hand-like Superfamily:EF-hand Family:Eps15 homology domain (EH domain) 45 d1nrwa_ not modelled 5.2 21 Fold:HAD-like Superfamily:HAD-like Family:Predicted hydrolases Cof 46 d1dg9a_ not modelled 5.2 14 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:Phosphotyrosine protein phosphatases I Family:Low-molecular-weight phosphotyrosine protein phosphatases 47 c2jvwA_ not modelled 5.1 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of uncharacterized protein q5e7h1 from vibrio2 fischeri. northeast structural genomics target vfr117 48 d1efya1 not modelled 5.1 12 Fold:Domain of poly(ADP-ribose) polymerase Superfamily:Domain of poly(ADP-ribose) polymerase Family:Domain of poly(ADP-ribose) polymerase

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

---

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