Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	H	R	I	L	A	E	K	S	V	N	I	T	E	L	R	K	N	P	A	K	Y	F	I	D	Q	P	V	A	V	L	S	N	N	R	P	A	G	Y	L	L	S	A	S	A	F	E	A	L	M	D	M	L	A	E	Q	E	E	K	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.
Sequence		P	I	K	A	R	F	R	P	S	A	A	R	L	E	E	I	T	R	R	A	E	Q	Y	L	N	D	M	T	D	D	D	F	N	D	F	K	E
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 3g5o chain A Region: 9 - 96 Aligned: 76 Modelled: 88 Confidence: 97.9% Identity: 17% PDB header:toxin/antitoxin Chain: A: PDB Molecule:uncharacterized protein rv2865; PDBTitle: the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2 2866) from mycobacterium tuberculosis Phyre2 PDB 3hs2 chain H Region: 9 - 57 Aligned: 49 Modelled: 49 Confidence: 97.8% Identity: 22% PDB header:antitoxin Chain: H: PDB Molecule:prevent host death protein; PDBTitle: crystal structure of phd truncated to residue 57 in an orthorhombic2 space group Phyre2 PDB 2a6q chain A domain 1 Region: 9 - 54 Aligned: 46 Modelled: 46 Confidence: 97.4% Identity: 20% Fold: YefM-like Superfamily: YefM-like Family: YefM-like Phyre2 PDB 2odk chain D Region: 9 - 52 Aligned: 44 Modelled: 44 Confidence: 97.2% Identity: 11% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein; PDBTitle: putative prevent-host-death protein from nitrosomonas europaea Phyre2 PDB 2odk chain A domain 1 Region: 9 - 52 Aligned: 44 Modelled: 44 Confidence: 97.2% Identity: 11% Fold: YefM-like Superfamily: YefM-like Family: YefM-like Phyre2 PDB 2a6q chain B domain 1 Region: 9 - 53 Aligned: 45 Modelled: 45 Confidence: 97.2% Identity: 20% Fold: YefM-like Superfamily: YefM-like Family: YefM-like Phyre2 PDB 3hry chain A Region: 9 - 64 Aligned: 56 Modelled: 56 Confidence: 97.1% Identity: 20% PDB header:antitoxin Chain: A: PDB Molecule:prevent host death protein; PDBTitle: crystal structure of phd in a trigonal space group and partially2 disordered Phyre2 PDB 1f3m chain B Region: 2 - 23 Aligned: 22 Modelled: 22 Confidence: 22.2% Identity: 27% PDB header:transferase Chain: B: PDB Molecule:serine/threonine-protein kinase pak-alpha; PDBTitle: crystal structure of human serine/threonine kinase pak1 Phyre2 PDB 2k9i chain B Region: 25 - 54 Aligned: 29 Modelled: 30 Confidence: 17.2% Identity: 17% PDB header:dna binding protein Chain: B: PDB Molecule:plasmid prn1, complete sequence; PDBTitle: nmr structure of plasmid copy control protein orf56 from2 sulfolobus islandicus Phyre2 PDB 3nut chain C Region: 20 - 51 Aligned: 32 Modelled: 32 Confidence: 16.3% Identity: 25% PDB header:transferase Chain: C: PDB Molecule:precorrin-3 methylase; PDBTitle: crystal structure of the methyltransferase cobj Phyre2 PDB 1zce chain A domain 1 Region: 10 - 61 Aligned: 48 Modelled: 52 Confidence: 14.6% Identity: 15% Fold: PUA domain-like Superfamily: PUA domain-like Family: Atu2648/PH1033-like Phyre2 PDB 3owv chain A Region: 25 - 38 Aligned: 14 Modelled: 14 Confidence: 14.2% Identity: 7% PDB header:hydrolase Chain: A: PDB Molecule:dna-entry nuclease; PDBTitle: structural insights into catalytic and substrate binding mechanisms of2 the strategic enda nuclease from streptococcus pneumoniae Phyre2 PDB 3kvt chain A Region: 8 - 81 Aligned: 67 Modelled: 0 Confidence: 12.4% Identity: 10% Fold: POZ domain Superfamily: POZ domain Family: Tetramerization domain of potassium channels Phyre2 PDB 2gbs chain A domain 1 Region: 10 - 52 Aligned: 39 Modelled: 43 Confidence: 11.7% Identity: 18% Fold: PUA domain-like Superfamily: PUA domain-like Family: Atu2648/PH1033-like Phyre2 PDB 3trr chain A Region: 26 - 78 Aligned: 52 Modelled: 53 Confidence: 11.4% Identity: 13% PDB header:isomerase Chain: A: PDB Molecule:probable enoyl-coa hydratase/isomerase; PDBTitle: crystal structure of a probable enoyl-coa hydratase/isomerase from2 mycobacterium abscessus Phyre2 PDB 3swx chain B Region: 26 - 82 Aligned: 56 Modelled: 57 Confidence: 11.2% Identity: 23% PDB header:isomerase Chain: B: PDB Molecule:probable enoyl-coa hydratase/isomerase; PDBTitle: crystal structure of a probable enoyl-coa hydratase/isomerase from2 mycobacterium abscessus Phyre2 PDB 3he2 chain C Region: 26 - 87 Aligned: 61 Modelled: 62 Confidence: 11.1% Identity: 16% PDB header:lyase Chain: C: PDB Molecule:enoyl-coa hydratase echa6; PDBTitle: crystal structure of enoyl-coa hydratase from mycobacterium2 tuberculosis Phyre2 PDB 3gqc chain B Region: 10 - 34 Aligned: 22 Modelled: 25 Confidence: 9.8% Identity: 41% PDB header:transferase/dna Chain: B: PDB Molecule:dna repair protein rev1; PDBTitle: structure of human rev1-dna-dntp ternary complex Phyre2 PDB 2o18 chain A Region: 2 - 73 Aligned: 69 Modelled: 72 Confidence: 9.4% Identity: 7% PDB header:lipid binding protein Chain: A: PDB Molecule:thiamine biosynthesis lipoprotein apbe; PDBTitle: crystal structure of a thiamine biosynthesis lipoprotein2 apbe, northeast strcutural genomics target er559 Phyre2 PDB 3a5z chain F Region: 9 - 36 Aligned: 28 Modelled: 28 Confidence: 9.4% Identity: 18% PDB header:ligase Chain: F: PDB Molecule:elongation factor p; PDBTitle: crystal structure of escherichia coli genx in complex with elongation2 factor p Phyre2 1 c3g5oA_ 2 c3hs2H_ 3 d2a6qa1 4 c2odkD_ 5 d2odka1 6 d2a6qb1 7 c3hryA_ 8 c1f3mB_ 9 c2k9iB_ 10 c3nutC_ 11 d1zcea1 12 c3owvA_ 13 d3kvta_ 14 d2gbsa1 15 c3trrA_ 16 c3swxB_ 17 c3he2C_ 18 c3gqcB_ 19 c2o18A_ 20 c3a5zF_ 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 52 53 54 55 56 57 58

Detailed template information

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

1 c3g5oA_ 97.9 17 PDB header:toxin/antitoxin Chain: A: PDB Molecule:uncharacterized protein rv2865; PDBTitle: the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2 2866) from mycobacterium tuberculosis 2 c3hs2H_ 97.8 22 PDB header:antitoxin Chain: H: PDB Molecule:prevent host death protein; PDBTitle: crystal structure of phd truncated to residue 57 in an orthorhombic2 space group 3 d2a6qa1 97.4 20 Fold:YefM-like Superfamily:YefM-like Family:YefM-like 4 c2odkD_ 97.2 11 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein; PDBTitle: putative prevent-host-death protein from nitrosomonas europaea 5 d2odka1 97.2 11 Fold:YefM-like Superfamily:YefM-like Family:YefM-like 6 d2a6qb1 97.2 20 Fold:YefM-like Superfamily:YefM-like Family:YefM-like 7 c3hryA_ 97.1 20 PDB header:antitoxin Chain: A: PDB Molecule:prevent host death protein; PDBTitle: crystal structure of phd in a trigonal space group and partially2 disordered 8 c1f3mB_ 22.2 27 PDB header:transferase Chain: B: PDB Molecule:serine/threonine-protein kinase pak-alpha; PDBTitle: crystal structure of human serine/threonine kinase pak1 9 c2k9iB_ 17.2 17 PDB header:dna binding protein Chain: B: PDB Molecule:plasmid prn1, complete sequence; PDBTitle: nmr structure of plasmid copy control protein orf56 from2 sulfolobus islandicus 10 c3nutC_ 16.3 25 PDB header:transferase Chain: C: PDB Molecule:precorrin-3 methylase; PDBTitle: crystal structure of the methyltransferase cobj 11 d1zcea1 14.6 15 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 12 c3owvA_ 14.2 7 PDB header:hydrolase Chain: A: PDB Molecule:dna-entry nuclease; PDBTitle: structural insights into catalytic and substrate binding mechanisms of2 the strategic enda nuclease from streptococcus pneumoniae 13 d3kvta_ 12.4 10 Fold:POZ domain Superfamily:POZ domain Family:Tetramerization domain of potassium channels 14 d2gbsa1 11.7 18 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 15 c3trrA_ 11.4 13 PDB header:isomerase Chain: A: PDB Molecule:probable enoyl-coa hydratase/isomerase; PDBTitle: crystal structure of a probable enoyl-coa hydratase/isomerase from2 mycobacterium abscessus 16 c3swxB_ 11.2 23 PDB header:isomerase Chain: B: PDB Molecule:probable enoyl-coa hydratase/isomerase; PDBTitle: crystal structure of a probable enoyl-coa hydratase/isomerase from2 mycobacterium abscessus 17 c3he2C_ 11.1 16 PDB header:lyase Chain: C: PDB Molecule:enoyl-coa hydratase echa6; PDBTitle: crystal structure of enoyl-coa hydratase from mycobacterium2 tuberculosis 18 c3gqcB_ 9.8 41 PDB header:transferase/dna Chain: B: PDB Molecule:dna repair protein rev1; PDBTitle: structure of human rev1-dna-dntp ternary complex 19 c2o18A_ 9.4 7 PDB header:lipid binding protein Chain: A: PDB Molecule:thiamine biosynthesis lipoprotein apbe; PDBTitle: crystal structure of a thiamine biosynthesis lipoprotein2 apbe, northeast strcutural genomics target er559 20 c3a5zF_ 9.4 18 PDB header:ligase Chain: F: PDB Molecule:elongation factor p; PDBTitle: crystal structure of escherichia coli genx in complex with elongation2 factor p 21 c1vdbA_ not modelled 9.3 41 PDB header:transcription Chain: A: PDB Molecule:fibroin-modulator-binding-protein-1; PDBTitle: nmr structure of fmbp-1 tandem repeat 1 in 30%(v/v) tfe2 solution 22 c3eopB_ not modelled 9.1 16 PDB header:unknown function Chain: B: PDB Molecule:thymocyte nuclear protein 1; PDBTitle: crystal structure of the duf55 domain of human thymocyte nuclear2 protein 1 23 d2ar1a1 not modelled 8.7 25 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 24 c2e0kA_ not modelled 8.7 19 PDB header:transferase Chain: A: PDB Molecule:precorrin-2 c20-methyltransferase; PDBTitle: crystal structure of cbil, a methyltransferase involved in anaerobic2 vitamin b12 biosynthesis 25 c2wjeA_ not modelled 8.4 11 PDB header:hydrolase Chain: A: PDB Molecule:tyrosine-protein phosphatase cpsb; PDBTitle: crystal structure of the tyrosine phosphatase cps4b from2 steptococcus pneumoniae tigr4. 26 c3d89A_ not modelled 8.2 13 PDB header:electron transport Chain: A: PDB Molecule:rieske domain-containing protein; PDBTitle: crystal structure of a soluble rieske ferredoxin from mus musculus 27 c2x5fB_ not modelled 8.1 17 PDB header:transferase Chain: B: PDB Molecule:aspartate_tyrosine_phenylalanine pyridoxal-5' PDBTitle: crystal structure of the methicillin-resistant2 staphylococcus aureus sar2028, an3 aspartate_tyrosine_phenylalanine pyridoxal-5'-phosphate4 dependent aminotransferase 28 d2evea1 not modelled 8.0 10 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 29 c2fllA_ not modelled 7.6 26 PDB header:replication/dna Chain: A: PDB Molecule:dna polymerase iota; PDBTitle: ternary complex of human dna polymerase iota with dna and dttp 30 d2o16a3 not modelled 7.2 19 Fold:CBS-domain pair Superfamily:CBS-domain pair Family:CBS-domain pair 31 d1uiya_ not modelled 7.2 25 Fold:ClpP/crotonase Superfamily:ClpP/crotonase Family:Crotonase-like 32 c2ngrB_ not modelled 7.2 15 PDB header:hydrolase Chain: B: PDB Molecule:protein (gtpase activating protein (rhg)); PDBTitle: transition state complex for gtp hydrolysis by cdc42:2 comparisons of the high resolution structures for cdc423 bound to the active and catalytically compromised forms of4 the cdc42-gap. 33 c2kc8B_ not modelled 7.0 29 PDB header:toxin/toxin repressor Chain: B: PDB Molecule:antitoxin relb; PDBTitle: structure of e. coli toxin rele (r81a/r83a) mutant in2 complex with antitoxin relbc (k47-l79) peptide 34 c1t3nB_ not modelled 7.0 26 PDB header:replication/dna Chain: B: PDB Molecule:polymerase (dna directed) iota; PDBTitle: structure of the catalytic core of dna polymerase iota in2 complex with dna and dttp 35 d1qkia1 not modelled 6.9 13 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 36 c2fwtA_ not modelled 6.7 41 PDB header:electron transport Chain: A: PDB Molecule:dhc, diheme cytochrome c; PDBTitle: crystal structure of dhc purified from rhodobacter2 sphaeroides 37 c2bb3B_ not modelled 6.7 31 PDB header:transferase Chain: B: PDB Molecule:cobalamin biosynthesis precorrin-6y methylase (cbie); PDBTitle: crystal structure of cobalamin biosynthesis precorrin-6y methylase2 (cbie) from archaeoglobus fulgidus 38 d1uxda_ not modelled 6.6 24 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 39 c3lkeA_ not modelled 6.5 25 PDB header:lyase Chain: A: PDB Molecule:enoyl-coa hydratase; PDBTitle: crystal structure of enoyl-coa hydratase from bacillus2 halodurans 40 d1t94a2 not modelled 6.3 30 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 41 c1s97D_ not modelled 6.3 15 PDB header:transferase/dna Chain: D: PDB Molecule:dna polymerase iv; PDBTitle: dpo4 with gt mismatch 42 c2i2rK_ not modelled 6.2 9 PDB header:transport protein Chain: K: PDB Molecule:potassium voltage-gated channel subfamily d member 3; PDBTitle: crystal structure of the kchip1/kv4.3 t1 complex 43 d1vrma1 not modelled 5.9 12 Fold:T-fold Superfamily:ApbE-like Family:ApbE-like 44 c2l7kA_ not modelled 5.9 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of protein cd1104.2 from clostridium difficile,2 northeast structural genomics consortium target cfr130 45 c2q35A_ not modelled 5.9 19 PDB header:lyase Chain: A: PDB Molecule:curf; PDBTitle: crystal structure of the y82f variant of ech2 decarboxylase domain of2 curf from lyngbya majuscula 46 c2ahpB_ not modelled 5.9 20 PDB header:de novo protein Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4 leucine zipper, mutation of lys15 to epsilon-azido-lys 47 d1exbe_ not modelled 5.8 9 Fold:POZ domain Superfamily:POZ domain Family:Tetramerization domain of potassium channels 48 c1untA_ not modelled 5.8 38 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 49 d1xn7a_ not modelled 5.7 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Hypothetical protein YhgG 50 c2ahpA_ not modelled 5.6 20 PDB header:de novo protein Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4 leucine zipper, mutation of lys15 to epsilon-azido-lys 51 c3eevC_ not modelled 5.6 23 PDB header:transferase Chain: C: PDB Molecule:chloramphenicol acetyltransferase; PDBTitle: crystal structure of chloramphenicol acetyltransferase vca0300 from2 vibrio cholerae o1 biovar eltor 52 c1ciyA_ not modelled 5.5 14 PDB header:toxin Chain: A: PDB Molecule:cryia(a); PDBTitle: insecticidal toxin: structure and channel formation 53 c2oh2B_ not modelled 5.4 39 PDB header:transferase/dna Chain: B: PDB Molecule:dna polymerase kappa; PDBTitle: ternary complex of human dna polymerase 54 d1t1da_ not modelled 5.4 9 Fold:POZ domain Superfamily:POZ domain Family:Tetramerization domain of potassium channels 55 c1untB_ not modelled 5.3 38 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 56 d1zeta2 not modelled 5.3 26 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 57 d1xata_ not modelled 5.3 13 Fold:Single-stranded left-handed beta-helix Superfamily:Trimeric LpxA-like enzymes Family:Galactoside acetyltransferase-like 58 c1t94B_ not modelled 5.3 39 PDB header:replication Chain: B: PDB Molecule:polymerase (dna directed) kappa; PDBTitle: crystal structure of the catalytic core of human dna2 polymerase kappa

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