Secondary structure and disorder prediction

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Sequence		M	P	Q	I	S	R	Y	S	D	E	Q	V	E	Q	L	L	A	E	L	L	N	V	L	E	K	H	K	A	P	T	D	L	S	L	M	V	L	G	N	M	V	T	N	L	I	N	T	S	I	A	P	A	Q	R	Q	A	I	A	N	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																								?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.
Sequence		F	A	R	A	L	Q	S	S	I	N	E	D	K	A	H
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 2jrx chain A domain 1 Region: 1 - 75 Aligned: 75 Modelled: 75 Confidence: 100.0% Identity: 100% Fold: YejL-like Superfamily: YejL-like Family: YejL-like Phyre2 PDB 2jpq chain A domain 1 Region: 1 - 75 Aligned: 75 Modelled: 75 Confidence: 100.0% Identity: 52% Fold: YejL-like Superfamily: YejL-like Family: YejL-like Phyre2 PDB 2juw chain A domain 1 Region: 1 - 72 Aligned: 72 Modelled: 72 Confidence: 100.0% Identity: 56% Fold: YejL-like Superfamily: YejL-like Family: YejL-like Phyre2 PDB 2juz chain A domain 1 Region: 1 - 70 Aligned: 70 Modelled: 70 Confidence: 100.0% Identity: 46% Fold: YejL-like Superfamily: YejL-like Family: YejL-like Phyre2 PDB 2qti chain A domain 1 Region: 8 - 72 Aligned: 65 Modelled: 65 Confidence: 100.0% Identity: 55% Fold: YejL-like Superfamily: YejL-like Family: YejL-like Phyre2 PDB 2ota chain A domain 1 Region: 7 - 69 Aligned: 62 Modelled: 63 Confidence: 100.0% Identity: 42% Fold: YejL-like Superfamily: YejL-like Family: YejL-like Phyre2 PDB 2hjm chain B Region: 5 - 19 Aligned: 15 Modelled: 14 Confidence: 31.4% Identity: 47% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pf1176; PDBTitle: crystal structure of a singleton protein pf1176 from p. furiosus Phyre2 PDB 1gvn chain B Region: 7 - 31 Aligned: 25 Modelled: 25 Confidence: 19.3% Identity: 28% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit Phyre2 PDB 2yiu chain E Region: 28 - 38 Aligned: 11 Modelled: 11 Confidence: 18.4% Identity: 45% PDB header:oxidoreductase Chain: E: PDB Molecule:cytochrome c1, heme protein; PDBTitle: x-ray structure of the dimeric cytochrome bc1 complex from2 the soil bacterium paracoccus denitrificans at 2.73 angstrom resolution Phyre2 PDB 1s69 chain A Region: 8 - 47 Aligned: 40 Modelled: 40 Confidence: 16.5% Identity: 18% Fold: Globin-like Superfamily: Globin-like Family: Truncated hemoglobin Phyre2 PDB 3kin chain B Region: 33 - 48 Aligned: 16 Modelled: 16 Confidence: 16.2% Identity: 38% PDB header:motor protein Chain: B: PDB Molecule:kinesin heavy chain; PDBTitle: kinesin (dimeric) from rattus norvegicus Phyre2 PDB 1idr chain A Region: 8 - 40 Aligned: 33 Modelled: 33 Confidence: 16.1% Identity: 15% Fold: Globin-like Superfamily: Globin-like Family: Truncated hemoglobin Phyre2 PDB 3fxe chain A Region: 6 - 44 Aligned: 39 Modelled: 39 Confidence: 15.8% Identity: 31% PDB header:unknown function Chain: A: PDB Molecule:protein icmq; PDBTitle: crystal structure of interacting domains of icmr and icmq (seleno-2 derivative) Phyre2 PDB 2op8 chain A Region: 50 - 75 Aligned: 26 Modelled: 26 Confidence: 14.6% Identity: 8% PDB header:isomerase Chain: A: PDB Molecule:probable tautomerase ywhb; PDBTitle: crystal structure of ywhb- homologue of 4-oxalocrotonate tautomerase Phyre2 PDB 3cwb chain Q Region: 27 - 38 Aligned: 12 Modelled: 12 Confidence: 14.4% Identity: 42% PDB header:oxidoreductase Chain: Q: PDB Molecule:mitochondrial cytochrome c1, heme protein; PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d Phyre2 PDB 1ls1 chain A domain 1 Region: 4 - 67 Aligned: 64 Modelled: 64 Confidence: 13.2% Identity: 13% Fold: Four-helical up-and-down bundle Superfamily: Domain of the SRP/SRP receptor G-proteins Family: Domain of the SRP/SRP receptor G-proteins Phyre2 PDB 2b8k chain D Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 13.0% Identity: 40% PDB header:transferase Chain: D: PDB Molecule:dna-directed rna polymerase ii 32 kda PDBTitle: 12-subunit rna polymerase ii Phyre2 PDB 1dlw chain A Region: 8 - 42 Aligned: 35 Modelled: 35 Confidence: 12.3% Identity: 17% Fold: Globin-like Superfamily: Globin-like Family: Truncated hemoglobin Phyre2 PDB 2xyk chain B Region: 8 - 48 Aligned: 41 Modelled: 41 Confidence: 11.9% Identity: 7% PDB header:oxygen storage/transport Chain: B: PDB Molecule:2-on-2 hemoglobin; PDBTitle: group ii 2-on-2 hemoglobin from the plant pathogen2 agrobacterium tumefaciens Phyre2 PDB 2bmm chain A Region: 8 - 32 Aligned: 25 Modelled: 25 Confidence: 11.1% Identity: 16% PDB header:oxygen storage/transport Chain: A: PDB Molecule:thermostable hemoglobin from thermobifida fusca; PDBTitle: x-ray structure of a novel thermostable hemoglobin from the2 actinobacterium thermobifida fusca Phyre2 1 d2jrxa1 2 d2jpqa1 3 d2juwa1 4 d2juza1 5 d2qtia1 6 d2otaa1 7 c2hjmB_ 8 d1gvnb_ 9 c2yiuE_ 10 d1s69a_ 11 c3kinB_ 12 d1idra_ 13 c3fxeA_ 14 c2op8A_ 15 c3cwbQ_ 16 d1ls1a1 17 c2b8kD_ 18 d1dlwa_ 19 c2xykB_ 20 c2bmmA_ 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 59 60 61 62 63 64 65 66 67 68

Detailed template information

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

1 d2jrxa1 100.0 100 Fold:YejL-like Superfamily:YejL-like Family:YejL-like 2 d2jpqa1 100.0 52 Fold:YejL-like Superfamily:YejL-like Family:YejL-like 3 d2juwa1 100.0 56 Fold:YejL-like Superfamily:YejL-like Family:YejL-like 4 d2juza1 100.0 46 Fold:YejL-like Superfamily:YejL-like Family:YejL-like 5 d2qtia1 100.0 55 Fold:YejL-like Superfamily:YejL-like Family:YejL-like 6 d2otaa1 100.0 42 Fold:YejL-like Superfamily:YejL-like Family:YejL-like 7 c2hjmB_ 31.4 47 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pf1176; PDBTitle: crystal structure of a singleton protein pf1176 from p. furiosus 8 d1gvnb_ 19.3 28 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Plasmid maintenance system epsilon/zeta, toxin zeta subunit 9 c2yiuE_ 18.4 45 PDB header:oxidoreductase Chain: E: PDB Molecule:cytochrome c1, heme protein; PDBTitle: x-ray structure of the dimeric cytochrome bc1 complex from2 the soil bacterium paracoccus denitrificans at 2.73 angstrom resolution 10 d1s69a_ 16.5 18 Fold:Globin-like Superfamily:Globin-like Family:Truncated hemoglobin 11 c3kinB_ 16.2 38 PDB header:motor protein Chain: B: PDB Molecule:kinesin heavy chain; PDBTitle: kinesin (dimeric) from rattus norvegicus 12 d1idra_ 16.1 15 Fold:Globin-like Superfamily:Globin-like Family:Truncated hemoglobin 13 c3fxeA_ 15.8 31 PDB header:unknown function Chain: A: PDB Molecule:protein icmq; PDBTitle: crystal structure of interacting domains of icmr and icmq (seleno-2 derivative) 14 c2op8A_ 14.6 8 PDB header:isomerase Chain: A: PDB Molecule:probable tautomerase ywhb; PDBTitle: crystal structure of ywhb- homologue of 4-oxalocrotonate tautomerase 15 c3cwbQ_ 14.4 42 PDB header:oxidoreductase Chain: Q: PDB Molecule:mitochondrial cytochrome c1, heme protein; PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d 16 d1ls1a1 13.2 13 Fold:Four-helical up-and-down bundle Superfamily:Domain of the SRP/SRP receptor G-proteins Family:Domain of the SRP/SRP receptor G-proteins 17 c2b8kD_ 13.0 40 PDB header:transferase Chain: D: PDB Molecule:dna-directed rna polymerase ii 32 kda PDBTitle: 12-subunit rna polymerase ii 18 d1dlwa_ 12.3 17 Fold:Globin-like Superfamily:Globin-like Family:Truncated hemoglobin 19 c2xykB_ 11.9 7 PDB header:oxygen storage/transport Chain: B: PDB Molecule:2-on-2 hemoglobin; PDBTitle: group ii 2-on-2 hemoglobin from the plant pathogen2 agrobacterium tumefaciens 20 c2bmmA_ 11.1 16 PDB header:oxygen storage/transport Chain: A: PDB Molecule:thermostable hemoglobin from thermobifida fusca; PDBTitle: x-ray structure of a novel thermostable hemoglobin from the2 actinobacterium thermobifida fusca 21 d1otfa_ not modelled 10.5 13 Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:4-oxalocrotonate tautomerase-like 22 c2qguA_ not modelled 10.5 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:probable signal peptide protein; PDBTitle: three-dimensional structure of the phospholipid-binding protein from2 ralstonia solanacearum q8xv73_ralsq in complex with a phospholipid at3 the resolution 1.53 a. northeast structural genomics consortium4 target rsr89 23 d1ppjd1 not modelled 10.4 56 Fold:Cytochrome c Superfamily:Cytochrome c Family:Cytochrome bc1 domain 24 c2kjwA_ not modelled 10.4 17 PDB header:ribosomal protein Chain: A: PDB Molecule:30s ribosomal protein s6; PDBTitle: solution structure and backbone dynamics of the permutant2 p54-55 25 d1ooha_ not modelled 10.3 25 Fold:EF Hand-like Superfamily:Insect pheromone/odorant-binding proteins Family:Insect pheromone/odorant-binding proteins 26 d1bjpa_ not modelled 10.0 12 Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:4-oxalocrotonate tautomerase-like 27 c2kinB_ not modelled 9.8 38 PDB header:motor protein Chain: B: PDB Molecule:kinesin; PDBTitle: kinesin (monomeric) from rattus norvegicus 28 d1jjcb4 not modelled 9.6 24 Fold:Ferredoxin-like Superfamily:Anticodon-binding domain of PheRS Family:Anticodon-binding domain of PheRS 29 c3abfB_ not modelled 9.6 8 PDB header:isomerase Chain: B: PDB Molecule:4-oxalocrotonate tautomerase; PDBTitle: crystal structure of a 4-oxalocrotonate tautomerase homologue2 (tthb242) 30 d3cx5d1 not modelled 9.4 67 Fold:Cytochrome c Superfamily:Cytochrome c Family:Cytochrome bc1 domain 31 d1sb0a_ not modelled 9.4 11 Fold:Kix domain of CBP (creb binding protein) Superfamily:Kix domain of CBP (creb binding protein) Family:Kix domain of CBP (creb binding protein) 32 c3ry0A_ not modelled 9.4 12 PDB header:isomerase Chain: A: PDB Molecule:putative tautomerase; PDBTitle: crystal structure of tomn, a 4-oxalocrotonate tautomerase homologue in2 tomaymycin biosynthetic pathway 33 d1wgwa_ not modelled 9.3 17 Fold:Four-helical up-and-down bundle Superfamily:Domain of the SRP/SRP receptor G-proteins Family:Domain of the SRP/SRP receptor G-proteins 34 c3eujB_ not modelled 9.3 15 PDB header:cell cycle Chain: B: PDB Molecule:chromosome partition protein mukf; PDBTitle: crystal structure of muke-mukf(residues 292-443)-mukb(head2 domain)-atpgammas complex, symmetric dimer 35 d1j8yf1 not modelled 9.3 19 Fold:Four-helical up-and-down bundle Superfamily:Domain of the SRP/SRP receptor G-proteins Family:Domain of the SRP/SRP receptor G-proteins 36 c2f59B_ not modelled 9.1 24 PDB header:transferase Chain: B: PDB Molecule:6,7-dimethyl-8-ribityllumazine synthase 1; PDBTitle: lumazine synthase ribh1 from brucella abortus (gene bruab1_0785,2 swiss-prot entry q57dy1) complexed with inhibitor 5-nitro-6-(d-3 ribitylamino)-2,4(1h,3h) pyrimidinedione 37 d1nqua_ not modelled 8.8 17 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 38 c2x4kB_ not modelled 8.7 8 PDB header:isomerase Chain: B: PDB Molecule:4-oxalocrotonate tautomerase; PDBTitle: crystal structure of sar1376, a putative 4-oxalocrotonate2 tautomerase from the methicillin-resistant staphylococcus3 aureus (mrsa) 39 c1dlyA_ not modelled 8.7 14 PDB header:oxygen storage/transport Chain: A: PDB Molecule:hemoglobin; PDBTitle: x-ray crystal structure of hemoglobin from the green2 unicellular alga chlamydomonas eugametos 40 d1dlya_ not modelled 8.7 14 Fold:Globin-like Superfamily:Globin-like Family:Truncated hemoglobin 41 d1ux8a_ not modelled 8.6 9 Fold:Globin-like Superfamily:Globin-like Family:Truncated hemoglobin 42 c3m20A_ not modelled 8.3 4 PDB header:isomerase Chain: A: PDB Molecule:4-oxalocrotonate tautomerase, putative; PDBTitle: crystal structure of dmpi from archaeoglobus fulgidus determined to2 2.37 angstroms resolution 43 c1p84D_ not modelled 8.1 60 PDB header:oxidoreductase Chain: D: PDB Molecule:cytochrome c1, heme protein; PDBTitle: hdbt inhibited yeast cytochrome bc1 complex 44 d1ul7a_ not modelled 7.9 20 Fold:TBP-like Superfamily:KA1-like Family:Kinase associated domain 1, KA1 45 d2vy4a1 not modelled 7.9 46 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:CHHC finger 46 d1c41a_ not modelled 7.8 21 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 47 d1ejba_ not modelled 7.8 7 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 48 c3b64A_ not modelled 7.7 11 PDB header:cytokine Chain: A: PDB Molecule:macrophage migration inhibitory factor-like PDBTitle: macrophage migration inhibitory factor (mif) from2 /leishmania major 49 c3h0gP_ not modelled 7.3 22 PDB header:transcription Chain: P: PDB Molecule:dna-directed rna polymerase ii subunit rpb4; PDBTitle: rna polymerase ii from schizosaccharomyces pombe 50 c2erbA_ not modelled 7.2 19 PDB header:transport protein Chain: A: PDB Molecule:odorant binding protein; PDBTitle: agamobp1, and odorant binding protein from anopheles2 gambiae complexed with peg 51 c3mb2G_ not modelled 7.1 15 PDB header:isomerase Chain: G: PDB Molecule:4-oxalocrotonate tautomerase family enzyme - alpha subunit; PDBTitle: kinetic and structural characterization of a heterohexamer 4-2 oxalocrotonate tautomerase from chloroflexus aurantiacus j-10-fl:3 implications for functional and structural diversity in the4 tautomerase superfamily 52 c3mlcC_ not modelled 7.0 23 PDB header:isomerase Chain: C: PDB Molecule:fg41 malonate semialdehyde decarboxylase; PDBTitle: crystal structure of fg41msad inactivated by 3-chloropropiolate 53 d1qzxa1 not modelled 6.9 13 Fold:Four-helical up-and-down bundle Superfamily:Domain of the SRP/SRP receptor G-proteins Family:Domain of the SRP/SRP receptor G-proteins 54 c3aq8A_ not modelled 6.9 6 PDB header:oxygen binding Chain: A: PDB Molecule:group 1 truncated hemoglobin; PDBTitle: crystal structure of truncated hemoglobin from tetrahymena pyriformis,2 q46e mutant, fe(iii) form 55 c2kscA_ not modelled 6.9 19 PDB header:unknown function Chain: A: PDB Molecule:cyanoglobin; PDBTitle: solution structure of synechococcus sp. pcc 7002 hemoglobin 56 d1y14a_ not modelled 6.8 40 Fold:SAM domain-like Superfamily:HRDC-like Family:RNA polymerase II subunit RBP4 (RpoF) 57 c3mk9A_ not modelled 6.3 20 PDB header:hydrolase Chain: A: PDB Molecule:ricin; PDBTitle: stabilized ricin immunogen 1-33/44-198 58 d2aala1 not modelled 6.3 10 Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:MSAD-like 59 d1m47a_ not modelled 6.2 27 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Short-chain cytokines 60 d1di0a_ not modelled 6.2 10 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 61 d2c35a1 not modelled 6.1 28 Fold:SAM domain-like Superfamily:HRDC-like Family:RNA polymerase II subunit RBP4 (RpoF) 62 c2p5tD_ not modelled 6.1 27 PDB header:transcription regulator Chain: D: PDB Molecule:pezt; PDBTitle: molecular and structural characterization of the pezat chromosomal2 toxin-antitoxin system of the human pathogen streptococcus pneumoniae 63 d1gyxa_ not modelled 5.9 16 Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:4-oxalocrotonate tautomerase-like 64 d1rvv1_ not modelled 5.5 24 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 65 c3n4dF_ not modelled 5.3 4 PDB header:hydrolase Chain: F: PDB Molecule:putative tautomerase; PDBTitle: crystal structure of cg10062 inactivated by(r)-oxirane-2-carboxylate 66 c2vxgB_ not modelled 5.2 33 PDB header:gene regulation Chain: B: PDB Molecule:cg6181-pa, isoform a; PDBTitle: crystal structure of the conserved c-terminal region of ge-2 1 67 c2j37W_ not modelled 5.2 13 PDB header:ribosome Chain: W: PDB Molecule:signal recognition particle 54 kda protein PDBTitle: model of mammalian srp bound to 80s rncs 68 d1c2ya_ not modelled 5.2 17 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase

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