Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	R	F	I	Y	H	D	E	K	S	N	K	F	W	W	I	D	Y	E	G	D	S	L	A	V	N	Y	G	K	V	G	S	I	G	K	F	Q	T	K	E	F	D	N	E	E	Q	C	L	K	E	A	S	K	L	I	A	A	K
Secondary structure
SS confidence
Disorder		?	?	?																																?	?	?	?		?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	K	K	G	Y	Q	E	D	P	K	F	N	F	M	D	R	Y	Y	F	D	D	E	E	I	G	L	H	V	K	T	S	H	P	N	F	Q	C	H	F	T	D	P	L	Y	M	C	C	W	D	E	E	S	P	F	G	S	D	E	G	A
Secondary structure
SS confidence
Disorder			?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	A	L	N	V	L	E	N	S	L	R	K	E	P	D	L	D	C	A	D	F	P	Q	M	L	I	E	T	M	W	G	M	K	Y	I	A	M	D	S	I	L	E	E	D	V	R	A	Q	L	L	V	D	E	M	S	T	I	Q	S	N
Secondary structure
SS confidence
Disorder																																									?								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		M	I	T	Y	A	T	A	F	G	Q	I	K	V	M	G	K	I	S	H	K	L	K	K	M	G	L	N	A	L	A	R	H	Q	L	T	A	K	I	L	Q	W	G	D	G	Q	D	S	P	I	L	Q	K	M	I	D	D	L	T	A	F
Secondary structure
SS confidence
Disorder									?						?		?																												?		?	?
Disorder confidence
		.	.	.	.
Sequence		P	H	E	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 2ra8 chain A Region: 1 - 73 Aligned: 73 Modelled: 72 Confidence: 99.7% Identity: 45% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein q64v53_bacfr; PDBTitle: crystal structure of the q64v53_bacfr protein from bacteroides2 fragilis. northeast structural genomics consortium target bfr43 Phyre2 PDB 2eoc chain A Region: 11 - 82 Aligned: 72 Modelled: 72 Confidence: 99.6% Identity: 25% PDB header:transferase Chain: A: PDB Molecule:poly [adp-ribose] polymerase 3; PDBTitle: solution structure of the wgr domain from human poly [adp-2 ribose] polymerase-3 Phyre2 PDB 2cr9 chain A domain 1 Region: 11 - 82 Aligned: 71 Modelled: 72 Confidence: 99.4% Identity: 17% Fold: WGR domain-like Superfamily: WGR domain-like Family: WGR domain Phyre2 PDB 1efy chain A domain 1 Region: 100 - 227 Aligned: 120 Modelled: 128 Confidence: 99.4% Identity: 13% Fold: Domain of poly(ADP-ribose) polymerase Superfamily: Domain of poly(ADP-ribose) polymerase Family: Domain of poly(ADP-ribose) polymerase Phyre2 PDB 2rd6 chain A domain 1 Region: 100 - 237 Aligned: 130 Modelled: 138 Confidence: 99.3% Identity: 15% Fold: Domain of poly(ADP-ribose) polymerase Superfamily: Domain of poly(ADP-ribose) polymerase Family: Domain of poly(ADP-ribose) polymerase Phyre2 PDB 1gs0 chain A domain 1 Region: 100 - 220 Aligned: 113 Modelled: 121 Confidence: 99.2% Identity: 12% Fold: Domain of poly(ADP-ribose) polymerase Superfamily: Domain of poly(ADP-ribose) polymerase Family: Domain of poly(ADP-ribose) polymerase Phyre2 PDB 3c4h chain A Region: 100 - 222 Aligned: 115 Modelled: 122 Confidence: 99.1% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:poly(adp-ribose) polymerase 3; PDBTitle: human poly(adp-ribose) polymerase 3, catalytic fragment in complex2 with an inhibitor dr2313 Phyre2 PDB 1gs0 chain B Region: 103 - 219 Aligned: 109 Modelled: 117 Confidence: 99.0% Identity: 13% PDB header:transferase Chain: B: PDB Molecule:poly (adp-ribose) polymerase-2; PDBTitle: crystal structure of the catalytic fragment of murine poly2 (adp-ribose) polymerase-2 Phyre2 PDB 2pax chain A Region: 100 - 235 Aligned: 128 Modelled: 136 Confidence: 99.0% Identity: 15% PDB header:transferase Chain: A: PDB Molecule:poly(adp-ribose) polymerase; PDBTitle: the catalytic fragment of poly(adp-ribose) polymerase2 complexed with 4-amino-1,8-naphthalimide Phyre2 PDB 2l9v chain A Region: 43 - 60 Aligned: 18 Modelled: 18 Confidence: 22.1% Identity: 11% PDB header:rna binding protein Chain: A: PDB Molecule:pre-mrna-processing factor 40 homolog a; PDBTitle: nmr structure of the ff domain l24a mutant's folding transition state Phyre2 PDB 1noh chain B Region: 210 - 243 Aligned: 34 Modelled: 34 Confidence: 19.4% Identity: 18% PDB header:viral protein Chain: B: PDB Molecule:head morphogenesis protein; PDBTitle: the structure of bacteriophage phi29 scaffolding protein2 gp7 after prohead assembly Phyre2 PDB 1zp9 chain A Region: 82 - 127 Aligned: 45 Modelled: 45 Confidence: 14.0% Identity: 16% PDB header:transferase Chain: A: PDB Molecule:rio1 kinase; PDBTitle: crystal structure of full-legnth a.fulgidus rio1 serine kinase bound2 to atp and mn2+ ions. Phyre2 PDB 1oxz chain A Region: 210 - 239 Aligned: 30 Modelled: 30 Confidence: 13.7% Identity: 10% PDB header:membrane protein Chain: A: PDB Molecule:adp-ribosylation factor binding protein gga1; PDBTitle: crystal structure of the human gga1 gat domain Phyre2 PDB 1oxz chain A Region: 210 - 239 Aligned: 30 Modelled: 30 Confidence: 13.7% Identity: 10% Fold: Spectrin repeat-like Superfamily: GAT-like domain Family: GAT domain Phyre2 PDB 1naf chain A Region: 210 - 239 Aligned: 30 Modelled: 30 Confidence: 12.7% Identity: 10% PDB header:signaling protein, membrane protein Chain: A: PDB Molecule:adp-ribosylation factor binding protein gga1; PDBTitle: crystal structure of the human gga1 gat domain Phyre2 PDB 3mtu chain E Region: 210 - 243 Aligned: 30 Modelled: 34 Confidence: 11.5% Identity: 27% PDB header:contractile protein Chain: E: PDB Molecule:head morphogenesis protein, tropomyosin alpha-1 chain; PDBTitle: structure of the tropomyosin overlap complex from chicken smooth2 muscle Phyre2 PDB 1vdl chain A Region: 188 - 228 Aligned: 41 Modelled: 41 Confidence: 11.2% Identity: 15% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 3bsu chain F Region: 12 - 55 Aligned: 44 Modelled: 44 Confidence: 10.3% Identity: 14% PDB header:hydrolase/rna/dna Chain: F: PDB Molecule:ribonuclease h1; PDBTitle: hybrid-binding domain of human rnase h1 in complex with 12-2 mer rna/dna Phyre2 PDB 1dp7 chain P Region: 31 - 39 Aligned: 9 Modelled: 9 Confidence: 10.0% Identity: 22% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: P4 origin-binding domain-like Phyre2 PDB 1vbk chain A domain 2 Region: 23 - 43 Aligned: 21 Modelled: 21 Confidence: 9.0% Identity: 24% Fold: THUMP domain Superfamily: THUMP domain-like Family: THUMP domain Phyre2 1 c2ra8A_ 2 c2eocA_ 3 d2cr9a1 4 d1efya1 5 d2rd6a1 6 d1gs0a1 7 c3c4hA_ 8 c1gs0B_ 9 c2paxA_ 10 c2l9vA_ 11 c1nohB_ 12 c1zp9A_ 13 c1oxzA_ 14 d1oxza_ 15 c1nafA_ 16 c3mtuE_ 17 d1vdla_ 18 c3bsuF_ 19 d1dp7p_ 20 d1vbka2 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 49

Detailed template information

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

1 c2ra8A_ 99.7 45 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein q64v53_bacfr; PDBTitle: crystal structure of the q64v53_bacfr protein from bacteroides2 fragilis. northeast structural genomics consortium target bfr43 2 c2eocA_ 99.6 25 PDB header:transferase Chain: A: PDB Molecule:poly [adp-ribose] polymerase 3; PDBTitle: solution structure of the wgr domain from human poly [adp-2 ribose] polymerase-3 3 d2cr9a1 99.4 17 Fold:WGR domain-like Superfamily:WGR domain-like Family:WGR domain 4 d1efya1 99.4 13 Fold:Domain of poly(ADP-ribose) polymerase Superfamily:Domain of poly(ADP-ribose) polymerase Family:Domain of poly(ADP-ribose) polymerase 5 d2rd6a1 99.3 15 Fold:Domain of poly(ADP-ribose) polymerase Superfamily:Domain of poly(ADP-ribose) polymerase Family:Domain of poly(ADP-ribose) polymerase 6 d1gs0a1 99.2 12 Fold:Domain of poly(ADP-ribose) polymerase Superfamily:Domain of poly(ADP-ribose) polymerase Family:Domain of poly(ADP-ribose) polymerase 7 c3c4hA_ 99.1 14 PDB header:transferase Chain: A: PDB Molecule:poly(adp-ribose) polymerase 3; PDBTitle: human poly(adp-ribose) polymerase 3, catalytic fragment in complex2 with an inhibitor dr2313 8 c1gs0B_ 99.0 13 PDB header:transferase Chain: B: PDB Molecule:poly (adp-ribose) polymerase-2; PDBTitle: crystal structure of the catalytic fragment of murine poly2 (adp-ribose) polymerase-2 9 c2paxA_ 99.0 15 PDB header:transferase Chain: A: PDB Molecule:poly(adp-ribose) polymerase; PDBTitle: the catalytic fragment of poly(adp-ribose) polymerase2 complexed with 4-amino-1,8-naphthalimide 10 c2l9vA_ 22.1 11 PDB header:rna binding protein Chain: A: PDB Molecule:pre-mrna-processing factor 40 homolog a; PDBTitle: nmr structure of the ff domain l24a mutant's folding transition state 11 c1nohB_ 19.4 18 PDB header:viral protein Chain: B: PDB Molecule:head morphogenesis protein; PDBTitle: the structure of bacteriophage phi29 scaffolding protein2 gp7 after prohead assembly 12 c1zp9A_ 14.0 16 PDB header:transferase Chain: A: PDB Molecule:rio1 kinase; PDBTitle: crystal structure of full-legnth a.fulgidus rio1 serine kinase bound2 to atp and mn2+ ions. 13 c1oxzA_ 13.7 10 PDB header:membrane protein Chain: A: PDB Molecule:adp-ribosylation factor binding protein gga1; PDBTitle: crystal structure of the human gga1 gat domain 14 d1oxza_ 13.7 10 Fold:Spectrin repeat-like Superfamily:GAT-like domain Family:GAT domain 15 c1nafA_ 12.7 10 PDB header:signaling protein, membrane protein Chain: A: PDB Molecule:adp-ribosylation factor binding protein gga1; PDBTitle: crystal structure of the human gga1 gat domain 16 c3mtuE_ 11.5 27 PDB header:contractile protein Chain: E: PDB Molecule:head morphogenesis protein, tropomyosin alpha-1 chain; PDBTitle: structure of the tropomyosin overlap complex from chicken smooth2 muscle 17 d1vdla_ 11.2 15 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 18 c3bsuF_ 10.3 14 PDB header:hydrolase/rna/dna Chain: F: PDB Molecule:ribonuclease h1; PDBTitle: hybrid-binding domain of human rnase h1 in complex with 12-2 mer rna/dna 19 d1dp7p_ 10.0 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:P4 origin-binding domain-like 20 d1vbka2 9.0 24 Fold:THUMP domain Superfamily:THUMP domain-like Family:THUMP domain 21 c2zfhA_ not modelled 8.9 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:cuta; PDBTitle: crystal structure of putative cuta1 from homo sapiens at 2.05a2 resolution 22 d1kr4a_ not modelled 8.9 35 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 23 c3godA_ not modelled 8.7 12 PDB header:immune system Chain: A: PDB Molecule:cas1; PDBTitle: structural basis for dnase activity of a conserved protein2 implicated in crispr-mediated antiviral defense 24 d1p1la_ not modelled 8.5 20 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 25 d1uzca_ not modelled 8.2 14 Fold:Another 3-helical bundle Superfamily:FF domain Family:FF domain 26 d1naqa_ not modelled 8.1 25 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 27 d1qkia1 not modelled 8.1 28 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 28 d1ugja_ not modelled 7.9 21 Fold:PRC-barrel domain Superfamily:PRC-barrel domain Family:RIKEN cDNA 2310057j16 protein (KIAA1543) 29 d2f76x1 not modelled 7.5 12 Fold:Retroviral matrix proteins Superfamily:Retroviral matrix proteins Family:Mason-Pfizer monkey virus matrix protein 30 c1xk8A_ not modelled 7.5 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:divalent cation tolerant protein cuta; PDBTitle: divalent cation tolerant protein cuta from homo sapiens2 o60888 31 d2zfha1 not modelled 7.5 15 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 32 c3c4mC_ not modelled 7.5 40 PDB header:membrane protein Chain: C: PDB Molecule:parathyroid hormone; PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) 33 c3c4mD_ not modelled 7.5 40 PDB header:membrane protein Chain: D: PDB Molecule:parathyroid hormone; PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) 34 c1zwgA_ not modelled 7.0 40 PDB header:hormone Chain: A: PDB Molecule:parathyroid hormone; PDBTitle: succinyl human parathyroid hormone 4-37, nmr, 10 structures 35 c2zomC_ not modelled 7.0 25 PDB header:unknown function Chain: C: PDB Molecule:protein cuta, chloroplast, putative, expressed; PDBTitle: crystal structure of cuta1 from oryza sativa 36 d1ukua_ not modelled 6.9 20 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 37 c1vbkA_ not modelled 6.9 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ph1313; PDBTitle: crystal structure of ph1313 from pyrococcus horikoshii ot3 38 d1osce_ not modelled 6.8 15 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 39 c2nuhA_ not modelled 6.8 5 PDB header:unknown function Chain: A: PDB Molecule:periplasmic divalent cation tolerance protein; PDBTitle: crystal structure of cuta from the phytopathgen bacterium xylella2 fastidiosa 40 c2bnlE_ not modelled 6.5 18 PDB header:stress-response Chain: E: PDB Molecule:modulator protein rsbr; PDBTitle: the structure of the n-terminal domain of rsbr 41 c3ejbC_ not modelled 6.4 23 PDB header:oxidoreductase/lipid transport Chain: C: PDB Molecule:acyl carrier protein; PDBTitle: crystal structure of p450bioi in complex with tetradecanoic2 acid ligated acyl carrier protein 42 c3do6B_ not modelled 6.4 32 PDB header:ligase Chain: B: PDB Molecule:formate--tetrahydrofolate ligase; PDBTitle: crystal structure of putative formyltetrahydrofolate2 synthetase (tm1766) from thermotoga maritima at 1.85 a3 resolution 43 d1vhfa_ not modelled 6.3 35 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 44 d1nzaa_ not modelled 6.3 20 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 45 c3ahpA_ not modelled 6.2 20 PDB header:electron transport Chain: A: PDB Molecule:cuta1; PDBTitle: crystal structure of stable protein, cuta1, from a psychrotrophic2 bacterium shewanella sp. sib1 46 c2r0qF_ not modelled 5.7 28 PDB header:recombination/dna Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3; PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex 47 d1eg7a_ not modelled 5.6 32 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 48 c2diuA_ not modelled 5.4 26 PDB header:rna binding protein Chain: A: PDB Molecule:kiaa0430 protein; PDBTitle: solution structure of the rrm domain of kiaa0430 protein 49 c2xskA_ not modelled 5.3 55 PDB header:chaperone Chain: A: PDB Molecule:csgc; PDBTitle: e. coli curli protein csgc - secys

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