Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	K	R	S	F	K	E	K	L	E	I	I	R	N	I	I	R	E	S	L	L	G	N	A	A	I	I	A	L	I	Y	A	A	S	H	S	L	P	V	N	A	F	P	D	Y	L	V	I	S	L	L	S	I	A	A	G	I	V	V
Secondary structure
SS confidence
Disorder		?	?	?																															?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.
Sequence		L	W	L	F	S	I	I	Y	I	Y	F	C	E	L	F	R	S	H	W	I	A	V	W	F	I	I	W	S	S	V	I	N	L	I	I	L	Y	G	F	Y	D	R	F	I
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 1fqj chain C Region: 34 - 43 Aligned: 10 Modelled: 10 Confidence: 30.4% Identity: 30% PDB header:signaling protein Chain: C: PDB Molecule:retinal rod rhodopsin-sensitive cgmp 3',5'- PDBTitle: crystal structure of the heterotrimeric complex of the rgs2 domain of rgs9, the gamma subunit of phosphodiesterase and3 the gt/i1 chimera alpha subunit [(rgs9)-(pdegamma)-4 (gt/i1alpha)-(gdp)-(alf4-)-(mg2+)] Phyre2 PDB 1u3f chain A Region: 98 - 104 Aligned: 7 Modelled: 7 Confidence: 25.4% Identity: 57% PDB header:ligase Chain: A: PDB Molecule:5,10-methenyltetrahydrofolate synthetase; PDBTitle: structural and functional characterization of a 5,10-2 methenyltetrahydrofolate synthetase from mycoplasma3 pneumoniae (gi: 13508087) Phyre2 PDB 1sbq chain A Region: 98 - 104 Aligned: 7 Modelled: 7 Confidence: 25.4% Identity: 57% Fold: NagB/RpiA/CoA transferase-like Superfamily: NagB/RpiA/CoA transferase-like Family: Methenyltetrahydrofolate synthetase Phyre2 PDB 2jzi chain B Region: 11 - 18 Aligned: 8 Modelled: 8 Confidence: 23.6% Identity: 75% PDB header:metal binding protein Chain: B: PDB Molecule:serine/threonine-protein phosphatase 2b PDBTitle: structure of calmodulin complexed with the calmodulin2 binding domain of calcineurin Phyre2 PDB 2jcb chain A Region: 98 - 104 Aligned: 7 Modelled: 7 Confidence: 20.0% Identity: 57% PDB header:ligase Chain: A: PDB Molecule:5-formyltetrahydrofolate cyclo-ligase family protein; PDBTitle: the crystal structure of 5-formyl-tetrahydrofolate2 cycloligase from bacillus anthracis (ba4489) Phyre2 PDB 3hy4 chain A Region: 98 - 104 Aligned: 7 Modelled: 7 Confidence: 19.8% Identity: 43% PDB header:ligase Chain: A: PDB Molecule:5-formyltetrahydrofolate cyclo-ligase; PDBTitle: structure of human mthfs with n5-iminium phosphate Phyre2 PDB 2hza chain B domain 1 Region: 11 - 21 Aligned: 11 Modelled: 11 Confidence: 18.2% Identity: 55% Fold: Ribbon-helix-helix Superfamily: Ribbon-helix-helix Family: CopG-like Phyre2 PDB 2r2v chain B Region: 1 - 11 Aligned: 11 Modelled: 11 Confidence: 18.0% Identity: 36% PDB header:de novo protein Chain: B: PDB Molecule:gcn4 leucine zipper; PDBTitle: sequence determinants of the topology of the lac repressor2 tetrameric coiled coil Phyre2 PDB 2hza chain A domain 1 Region: 11 - 26 Aligned: 16 Modelled: 16 Confidence: 17.3% Identity: 44% Fold: Ribbon-helix-helix Superfamily: Ribbon-helix-helix Family: CopG-like Phyre2 PDB 1wkc chain A Region: 98 - 103 Aligned: 6 Modelled: 6 Confidence: 16.5% Identity: 100% Fold: NagB/RpiA/CoA transferase-like Superfamily: NagB/RpiA/CoA transferase-like Family: Methenyltetrahydrofolate synthetase Phyre2 PDB 1ydm chain C Region: 98 - 103 Aligned: 6 Modelled: 6 Confidence: 13.7% Identity: 67% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein yqgn; PDBTitle: x-ray structure of northeast structural genomics target sr44 Phyre2 PDB 2r28 chain D Region: 11 - 18 Aligned: 8 Modelled: 8 Confidence: 12.5% Identity: 75% PDB header:metal binding protein/hydrolase Chain: D: PDB Molecule:serine/threonine-protein phosphatase 2b PDBTitle: the complex structure of calmodulin bound to a calcineurin2 peptide Phyre2 PDB 2kzu chain A Region: 67 - 74 Aligned: 8 Modelled: 8 Confidence: 11.6% Identity: 50% PDB header:apoptosis Chain: A: PDB Molecule:death-associated protein 6; PDBTitle: daxx helical bundle (dhb) domain / rassf1c complex Phyre2 PDB 2bj7 chain A domain 1 Region: 11 - 21 Aligned: 11 Modelled: 11 Confidence: 9.8% Identity: 45% Fold: Ribbon-helix-helix Superfamily: Ribbon-helix-helix Family: CopG-like Phyre2 PDB 1sou chain A Region: 98 - 103 Aligned: 6 Modelled: 6 Confidence: 9.6% Identity: 67% Fold: NagB/RpiA/CoA transferase-like Superfamily: NagB/RpiA/CoA transferase-like Family: Methenyltetrahydrofolate synthetase Phyre2 PDB 2i8d chain A domain 1 Region: 5 - 21 Aligned: 17 Modelled: 17 Confidence: 9.4% Identity: 6% Fold: Secretion chaperone-like Superfamily: YdhG-like Family: YdhG-like Phyre2 PDB 1wf3 chain A domain 2 Region: 11 - 22 Aligned: 12 Modelled: 12 Confidence: 9.1% Identity: 33% Fold: Alpha-lytic protease prodomain-like Superfamily: Prokaryotic type KH domain (KH-domain type II) Family: Prokaryotic type KH domain (KH-domain type II) Phyre2 PDB 3rko chain K Region: 12 - 70 Aligned: 57 Modelled: 59 Confidence: 8.4% Identity: 19% PDB header:oxidoreductase Chain: K: PDB Molecule:nadh-quinone oxidoreductase subunit k; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution Phyre2 PDB 2ovm chain B Region: 15 - 26 Aligned: 12 Modelled: 9 Confidence: 8.1% Identity: 42% PDB header:transcription Chain: B: PDB Molecule:ncor; PDBTitle: progesterone receptor with bound asoprisnil and a peptide2 from the co-repressor ncor Phyre2 PDB 1ega chain A domain 2 Region: 11 - 24 Aligned: 14 Modelled: 14 Confidence: 7.7% Identity: 36% Fold: Alpha-lytic protease prodomain-like Superfamily: Prokaryotic type KH domain (KH-domain type II) Family: Prokaryotic type KH domain (KH-domain type II) Phyre2 1 c1fqjC_ 2 c1u3fA_ 3 d1sbqa_ 4 c2jziB_ 5 c2jcbA_ 6 c3hy4A_ 7 d2hzab1 8 c2r2vB_ 9 d2hzaa1 10 d1wkca_ 11 c1ydmC_ 12 c2r28D_ 13 c2kzuA_ 14 d2bj7a1 15 d1soua_ 16 d2i8da1 17 d1wf3a2 18 c3rkoK_ 19 c2ovmB_ 20 d1egaa2 21 22 23 24 25 26 27 28 29 30

Detailed template information

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

1 c1fqjC_ 30.4 30 PDB header:signaling protein Chain: C: PDB Molecule:retinal rod rhodopsin-sensitive cgmp 3',5'- PDBTitle: crystal structure of the heterotrimeric complex of the rgs2 domain of rgs9, the gamma subunit of phosphodiesterase and3 the gt/i1 chimera alpha subunit [(rgs9)-(pdegamma)-4 (gt/i1alpha)-(gdp)-(alf4-)-(mg2+)] 2 c1u3fA_ 25.4 57 PDB header:ligase Chain: A: PDB Molecule:5,10-methenyltetrahydrofolate synthetase; PDBTitle: structural and functional characterization of a 5,10-2 methenyltetrahydrofolate synthetase from mycoplasma3 pneumoniae (gi: 13508087) 3 d1sbqa_ 25.4 57 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:Methenyltetrahydrofolate synthetase 4 c2jziB_ 23.6 75 PDB header:metal binding protein Chain: B: PDB Molecule:serine/threonine-protein phosphatase 2b PDBTitle: structure of calmodulin complexed with the calmodulin2 binding domain of calcineurin 5 c2jcbA_ 20.0 57 PDB header:ligase Chain: A: PDB Molecule:5-formyltetrahydrofolate cyclo-ligase family protein; PDBTitle: the crystal structure of 5-formyl-tetrahydrofolate2 cycloligase from bacillus anthracis (ba4489) 6 c3hy4A_ 19.8 43 PDB header:ligase Chain: A: PDB Molecule:5-formyltetrahydrofolate cyclo-ligase; PDBTitle: structure of human mthfs with n5-iminium phosphate 7 d2hzab1 18.2 55 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:CopG-like 8 c2r2vB_ 18.0 36 PDB header:de novo protein Chain: B: PDB Molecule:gcn4 leucine zipper; PDBTitle: sequence determinants of the topology of the lac repressor2 tetrameric coiled coil 9 d2hzaa1 17.3 44 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:CopG-like 10 d1wkca_ 16.5 100 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:Methenyltetrahydrofolate synthetase 11 c1ydmC_ 13.7 67 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein yqgn; PDBTitle: x-ray structure of northeast structural genomics target sr44 12 c2r28D_ 12.5 75 PDB header:metal binding protein/hydrolase Chain: D: PDB Molecule:serine/threonine-protein phosphatase 2b PDBTitle: the complex structure of calmodulin bound to a calcineurin2 peptide 13 c2kzuA_ 11.6 50 PDB header:apoptosis Chain: A: PDB Molecule:death-associated protein 6; PDBTitle: daxx helical bundle (dhb) domain / rassf1c complex 14 d2bj7a1 9.8 45 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:CopG-like 15 d1soua_ 9.6 67 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:Methenyltetrahydrofolate synthetase 16 d2i8da1 9.4 6 Fold:Secretion chaperone-like Superfamily:YdhG-like Family:YdhG-like 17 d1wf3a2 9.1 33 Fold:Alpha-lytic protease prodomain-like Superfamily:Prokaryotic type KH domain (KH-domain type II) Family:Prokaryotic type KH domain (KH-domain type II) 18 c3rkoK_ 8.4 19 PDB header:oxidoreductase Chain: K: PDB Molecule:nadh-quinone oxidoreductase subunit k; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution 19 c2ovmB_ 8.1 42 PDB header:transcription Chain: B: PDB Molecule:ncor; PDBTitle: progesterone receptor with bound asoprisnil and a peptide2 from the co-repressor ncor 20 d1egaa2 7.7 36 Fold:Alpha-lytic protease prodomain-like Superfamily:Prokaryotic type KH domain (KH-domain type II) Family:Prokaryotic type KH domain (KH-domain type II) 21 d1aoya_ not modelled 7.5 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Arginine repressor (ArgR), N-terminal DNA-binding domain 22 c2ksdA_ not modelled 7.2 19 PDB header:transferase Chain: A: PDB Molecule:aerobic respiration control sensor protein arcb; PDBTitle: backbone structure of the membrane domain of e. coli2 histidine kinase receptor arcb, center for structures of3 membrane proteins (csmp) target 4310c 23 d1qlec_ not modelled 6.6 20 Fold:Cytochrome c oxidase subunit III-like Superfamily:Cytochrome c oxidase subunit III-like Family:Cytochrome c oxidase subunit III-like 24 c2yggA_ not modelled 6.4 44 PDB header:metal binding protein/transport protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: complex of cambr and cam 25 d1vp6a_ not modelled 6.1 6 Fold:Double-stranded beta-helix Superfamily:cAMP-binding domain-like Family:cAMP-binding domain 26 c2voiB_ not modelled 6.1 75 PDB header:apoptosis Chain: B: PDB Molecule:bh3-interacting domain death agonist p13; PDBTitle: structure of mouse a1 bound to the bid bh3-domain 27 c2kjrA_ not modelled 5.9 38 PDB header:chaperone Chain: A: PDB Molecule:cg11242; PDBTitle: solution nmr structure of the n-terminal ubiquitin-like2 domain from tubulin-binding cofactor b, cg11242, from3 drosophila melanogaster. northeast structural genomics4 consortium target fr629a (residues 8-92) 28 c1usdA_ not modelled 5.3 37 PDB header:signaling protein Chain: A: PDB Molecule:vasodilator-stimulated phosphoprotein; PDBTitle: human vasp tetramerisation domain l352m 29 c1lt1G_ not modelled 5.2 20 PDB header:de novo protein Chain: G: PDB Molecule:l13g-df1; PDBTitle: sliding helix induced change of coordination geometry in a2 model di-mn(ii) protein 30 c1q5vB_ not modelled 5.1 55 PDB header:transcription Chain: B: PDB Molecule:nickel responsive regulator; PDBTitle: apo-nikr

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