Secondary structure and disorder prediction

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Sequence		M	T	V	Q	D	Y	L	L	K	F	R	K	I	S	S	L	E	S	L	E	K	L	Y	D	H	L	N	Y	T	L	T	D	D	Q	E	L	I	N	M	Y	R	A	A	D	H	R	R	A	E	L	V	S	G	G	R	L	F	D	L	G
Secondary structure
SS confidence
Disorder		?	?																										?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.
Sequence		Q	V	P	K	S	V	W	H	Y	V	Q
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 1jw2 chain A Region: 1 - 71 Aligned: 67 Modelled: 71 Confidence: 100.0% Identity: 40% Fold: Open three-helical up-and-down bundle Superfamily: Hemolysin expression modulating protein HHA Family: Hemolysin expression modulating protein HHA Phyre2 PDB 2jqt chain A Region: 1 - 57 Aligned: 57 Modelled: 57 Confidence: 99.9% Identity: 100% PDB header:protein binding Chain: A: PDB Molecule:h-ns/stpa-binding protein 2; PDBTitle: structure of the bacterial replication origin-associated2 protein cnu Phyre2 PDB 2jpn chain A Region: 5 - 50 Aligned: 45 Modelled: 46 Confidence: 36.6% Identity: 31% PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent dna helicase uvsw; PDBTitle: solution structure of t4 bacteriophage helicase uvsw.1 Phyre2 PDB 3jvo chain A Region: 18 - 70 Aligned: 53 Modelled: 53 Confidence: 31.9% Identity: 21% PDB header:viral protein Chain: A: PDB Molecule:gp6; PDBTitle: crystal structure of bacteriophage hk97 gp6 Phyre2 PDB 1lr1 chain A Region: 7 - 42 Aligned: 36 Modelled: 36 Confidence: 28.0% Identity: 25% Fold: H-NS histone-like proteins Superfamily: H-NS histone-like proteins Family: H-NS histone-like proteins Phyre2 PDB 3ke4 chain B Region: 16 - 70 Aligned: 54 Modelled: 55 Confidence: 25.2% Identity: 31% PDB header:transferase Chain: B: PDB Molecule:hypothetical cytosolic protein; PDBTitle: crystal structure of a pduo-type atp:cob(i)alamin adenosyltransferase2 from bacillus cereus Phyre2 PDB 2idx chain A Region: 16 - 70 Aligned: 54 Modelled: 55 Confidence: 23.6% Identity: 26% PDB header:transferase Chain: A: PDB Molecule:cob(i)yrinic acid a,c-diamide PDBTitle: structure of human atp:cobalamin adenosyltransferase bound2 to atp. Phyre2 PDB 1trr chain A Region: 4 - 62 Aligned: 54 Modelled: 59 Confidence: 23.5% Identity: 20% Fold: DNA/RNA-binding 3-helical bundle Superfamily: TrpR-like Family: Trp repressor, TrpR Phyre2 PDB 1ej2 chain A Region: 47 - 71 Aligned: 23 Modelled: 25 Confidence: 21.8% Identity: 22% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Nucleotidylyl transferase Family: Adenylyltransferase Phyre2 PDB 1jhg chain A Region: 4 - 62 Aligned: 54 Modelled: 59 Confidence: 12.8% Identity: 22% Fold: DNA/RNA-binding 3-helical bundle Superfamily: TrpR-like Family: Trp repressor, TrpR Phyre2 PDB 3cvf chain A Region: 18 - 59 Aligned: 41 Modelled: 42 Confidence: 11.8% Identity: 27% PDB header:signaling protein Chain: A: PDB Molecule:homer protein homolog 3; PDBTitle: crystal structure of the carboxy terminus of homer3 Phyre2 PDB 3d0j chain A Region: 54 - 70 Aligned: 14 Modelled: 17 Confidence: 10.6% Identity: 36% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein ca_c3497; PDBTitle: crystal structure of conserved protein of unknown function ca_c34972 from clostridium acetobutylicum atcc 824 Phyre2 PDB 2g2d chain A Region: 16 - 70 Aligned: 53 Modelled: 55 Confidence: 10.3% Identity: 28% PDB header:transferase Chain: A: PDB Molecule:atp:cobalamin adenosyltransferase; PDBTitle: crystal structure of a putative pduo-type atp:cobalamin2 adenosyltransferase from mycobacterium tuberculosis Phyre2 PDB 3cm8 chain A Region: 3 - 24 Aligned: 22 Modelled: 22 Confidence: 9.8% Identity: 18% PDB header:rna binding protein/transferase Chain: A: PDB Molecule:polymerase acidic protein; PDBTitle: a rna polymerase subunit structure from virus Phyre2 PDB 1t07 chain A Region: 49 - 68 Aligned: 16 Modelled: 20 Confidence: 9.7% Identity: 19% Fold: YggX-like Superfamily: YggX-like Family: YggX-like Phyre2 PDB 1xs8 chain A Region: 49 - 68 Aligned: 16 Modelled: 20 Confidence: 9.4% Identity: 38% Fold: YggX-like Superfamily: YggX-like Family: YggX-like Phyre2 PDB 3i5q chain A Region: 15 - 51 Aligned: 37 Modelled: 37 Confidence: 9.3% Identity: 24% PDB header:protein transport Chain: A: PDB Molecule:nucleoporin nup170; PDBTitle: nup170(aa1253-1502) at 2.2 a, s.cerevisiae Phyre2 PDB 2rbg chain B Region: 51 - 66 Aligned: 14 Modelled: 16 Confidence: 8.9% Identity: 21% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative uncharacterized protein st0493; PDBTitle: crystal structure of hypothetical protein(st0493) from2 sulfolobus tokodaii Phyre2 PDB 1nyb chain A Region: 41 - 52 Aligned: 12 Modelled: 12 Confidence: 8.5% Identity: 42% PDB header:transcription/rna Chain: A: PDB Molecule:probable regulatory protein n; PDBTitle: solution structure of the bacteriophage phi21 n peptide-boxb2 rna complex Phyre2 PDB 1dd4 chain C Region: 18 - 61 Aligned: 27 Modelled: 44 Confidence: 8.4% Identity: 26% Fold: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Phyre2 1 d1jw2a_ 2 c2jqtA_ 3 c2jpnA_ 4 c3jvoA_ 5 d1lr1a_ 6 c3ke4B_ 7 c2idxA_ 8 d1trra_ 9 d1ej2a_ 10 d1jhga_ 11 c3cvfA_ 12 c3d0jA_ 13 c2g2dA_ 14 c3cm8A_ 15 d1t07a_ 16 d1xs8a_ 17 c3i5qA_ 18 c2rbgB_ 19 c1nybA_ 20 d1dd4c_ 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 50 51

Detailed template information

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

1 d1jw2a_ 100.0 40 Fold:Open three-helical up-and-down bundle Superfamily:Hemolysin expression modulating protein HHA Family:Hemolysin expression modulating protein HHA 2 c2jqtA_ 99.9 100 PDB header:protein binding Chain: A: PDB Molecule:h-ns/stpa-binding protein 2; PDBTitle: structure of the bacterial replication origin-associated2 protein cnu 3 c2jpnA_ 36.6 31 PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent dna helicase uvsw; PDBTitle: solution structure of t4 bacteriophage helicase uvsw.1 4 c3jvoA_ 31.9 21 PDB header:viral protein Chain: A: PDB Molecule:gp6; PDBTitle: crystal structure of bacteriophage hk97 gp6 5 d1lr1a_ 28.0 25 Fold:H-NS histone-like proteins Superfamily:H-NS histone-like proteins Family:H-NS histone-like proteins 6 c3ke4B_ 25.2 31 PDB header:transferase Chain: B: PDB Molecule:hypothetical cytosolic protein; PDBTitle: crystal structure of a pduo-type atp:cob(i)alamin adenosyltransferase2 from bacillus cereus 7 c2idxA_ 23.6 26 PDB header:transferase Chain: A: PDB Molecule:cob(i)yrinic acid a,c-diamide PDBTitle: structure of human atp:cobalamin adenosyltransferase bound2 to atp. 8 d1trra_ 23.5 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 9 d1ej2a_ 21.8 22 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 10 d1jhga_ 12.8 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 11 c3cvfA_ 11.8 27 PDB header:signaling protein Chain: A: PDB Molecule:homer protein homolog 3; PDBTitle: crystal structure of the carboxy terminus of homer3 12 c3d0jA_ 10.6 36 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein ca_c3497; PDBTitle: crystal structure of conserved protein of unknown function ca_c34972 from clostridium acetobutylicum atcc 824 13 c2g2dA_ 10.3 28 PDB header:transferase Chain: A: PDB Molecule:atp:cobalamin adenosyltransferase; PDBTitle: crystal structure of a putative pduo-type atp:cobalamin2 adenosyltransferase from mycobacterium tuberculosis 14 c3cm8A_ 9.8 18 PDB header:rna binding protein/transferase Chain: A: PDB Molecule:polymerase acidic protein; PDBTitle: a rna polymerase subunit structure from virus 15 d1t07a_ 9.7 19 Fold:YggX-like Superfamily:YggX-like Family:YggX-like 16 d1xs8a_ 9.4 38 Fold:YggX-like Superfamily:YggX-like Family:YggX-like 17 c3i5qA_ 9.3 24 PDB header:protein transport Chain: A: PDB Molecule:nucleoporin nup170; PDBTitle: nup170(aa1253-1502) at 2.2 a, s.cerevisiae 18 c2rbgB_ 8.9 21 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative uncharacterized protein st0493; PDBTitle: crystal structure of hypothetical protein(st0493) from2 sulfolobus tokodaii 19 c1nybA_ 8.5 42 PDB header:transcription/rna Chain: A: PDB Molecule:probable regulatory protein n; PDBTitle: solution structure of the bacteriophage phi21 n peptide-boxb2 rna complex 20 d1dd4c_ 8.4 26 Fold:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family:Ribosomal protein L7/12, oligomerisation (N-terminal) domain 21 d1od6a_ not modelled 8.2 14 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 22 c2nt8A_ not modelled 7.8 24 PDB header:transferase Chain: A: PDB Molecule:cobalamin adenosyltransferase; PDBTitle: atp bound at the active site of a pduo type atp:co(i)rrinoid2 adenosyltransferase from lactobacillus reuteri 23 c2zhzC_ not modelled 7.7 31 PDB header:transferase Chain: C: PDB Molecule:atp:cob(i)alamin adenosyltransferase, putative; PDBTitle: crystal structure of a pduo-type atp:cobalamin adenosyltransferase2 from burkholderia thailandensis 24 c3nd5D_ not modelled 7.5 18 PDB header:transferase Chain: D: PDB Molecule:phosphopantetheine adenylyltransferase; PDBTitle: crystal structure of phosphopantetheine adenylyltransferase (ppat)2 from enterococcus faecalis 25 d1vlha_ not modelled 7.5 21 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 26 d1ni8a_ not modelled 7.2 21 Fold:H-NS histone-like proteins Superfamily:H-NS histone-like proteins Family:H-NS histone-like proteins 27 d1uhra_ not modelled 7.1 21 Fold:SWIB/MDM2 domain Superfamily:SWIB/MDM2 domain Family:SWIB/MDM2 domain 28 c2h29A_ not modelled 7.0 60 PDB header:transferase Chain: A: PDB Molecule:probable nicotinate-nucleotide PDBTitle: crystal structure of nicotinic acid mononucleotide2 adenylyltransferase from staphylococcus aureus: product3 bound form 1 29 c3frwF_ not modelled 7.0 19 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum 30 d1f3ua_ not modelled 6.7 40 Fold:triple barrel Superfamily:Rap30/74 interaction domains Family:Rap30/74 interaction domains 31 d1tfua_ not modelled 6.4 14 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 32 d1i27a_ not modelled 6.1 38 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of the rap74 subunit of TFIIF 33 d1v31a_ not modelled 5.9 21 Fold:SWIB/MDM2 domain Superfamily:SWIB/MDM2 domain Family:SWIB/MDM2 domain 34 c1dd3D_ not modelled 5.9 26 PDB header:ribosome Chain: D: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima 35 c1dd3C_ not modelled 5.9 26 PDB header:ribosome Chain: C: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima 36 c3f3mA_ not modelled 5.7 11 PDB header:transferase Chain: A: PDB Molecule:phosphopantetheine adenylyltransferase; PDBTitle: six crystal structures of two phosphopantetheine2 adenylyltransferases reveal an alternative ligand binding3 mode and an associated structural change 37 d1o6ba_ not modelled 5.7 18 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 38 c2l3lA_ not modelled 5.6 20 PDB header:chaperone Chain: A: PDB Molecule:tubulin-specific chaperone c; PDBTitle: the solution structure of the n-terminal domain of human tubulin2 binding cofactor c reveals a platform for the interaction with ab-3 tubulin 39 c1zawV_ not modelled 5.5 26 PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 40 c2kngA_ not modelled 5.5 33 PDB header:dna binding protein Chain: A: PDB Molecule:protein lsr2; PDBTitle: solution structure of c-domain of lsr2 41 c3korD_ not modelled 5.4 18 PDB header:transcription Chain: D: PDB Molecule:possible trp repressor; PDBTitle: crystal structure of a putative trp repressor from staphylococcus2 aureus 42 d1qjca_ not modelled 5.3 11 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 43 c1zawW_ not modelled 5.3 26 PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 44 c1zawU_ not modelled 5.3 26 PDB header:structural protein Chain: U: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 45 c1xhmB_ not modelled 5.2 27 PDB header:signaling protein Chain: B: PDB Molecule:guanine nucleotide-binding protein g(i)/g(s) PDBTitle: the crystal structure of a biologically active peptide2 (sigk) bound to a g protein beta:gamma heterodimer 46 c1zaxV_ not modelled 5.1 26 PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 47 c1zavV_ not modelled 5.1 26 PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 48 c1zaxY_ not modelled 5.1 26 PDB header:structural protein Chain: Y: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 49 c1zavW_ not modelled 5.1 26 PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 50 c1zaxW_ not modelled 5.1 26 PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 51 c1zavX_ not modelled 5.1 26 PDB header:structural protein Chain: X: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21

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