Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	T	L	P	V	L	P	G	Q	A	A	S	S	R	P	S	P	V	E	I	W	Q	I	L	L	S	R	L	L	D	Q	H	Y	G	L	T	L	N	D	T	P	F	A	D	E	R	V	I	E	Q	H	I	E	A	G	I	S	L	C
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	A	V	N	F	L	V	E	K	Y	A	L	V	R	T	D	Q	P	G	F	S	A	C	T	R	S	Q	L	I	N	S	I	D	I	L	R	A	R	R	A	T	G	L	M	T	R	D	N	Y	R	T	V	N	N	I	T	L	G	K	Y
Secondary structure
SS confidence
Disorder																						?	?	?	?	?	?	?	?	?	?											?	?	?	?	?	?	?	?								?	?	?	?	?
Disorder confidence
		.	.	.	.
Sequence		P	E	A	K
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 2jvw chain A Region: 55 - 92 Aligned: 35 Modelled: 38 Confidence: 66.9% Identity: 29% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of uncharacterized protein q5e7h1 from vibrio2 fischeri. northeast structural genomics target vfr117 Phyre2 PDB 2fwt chain A Region: 14 - 56 Aligned: 41 Modelled: 43 Confidence: 47.4% Identity: 24% PDB header:electron transport Chain: A: PDB Molecule:dhc, diheme cytochrome c; PDBTitle: crystal structure of dhc purified from rhodobacter2 sphaeroides Phyre2 PDB 1zee chain A domain 1 Region: 22 - 110 Aligned: 54 Modelled: 62 Confidence: 40.5% Identity: 33% Fold: Indolic compounds 2,3-dioxygenase-like Superfamily: Indolic compounds 2,3-dioxygenase-like Family: Indoleamine 2,3-dioxygenase-like Phyre2 PDB 1vng chain A Region: 17 - 72 Aligned: 56 Modelled: 56 Confidence: 22.1% Identity: 13% PDB header:haloperoxidase Chain: A: PDB Molecule:vanadium chloroperoxidase; PDBTitle: chloroperoxidase from the fungus curvularia inaequalis:2 mutant h404a Phyre2 PDB 1wr1 chain B Region: 12 - 68 Aligned: 48 Modelled: 57 Confidence: 20.4% Identity: 29% PDB header:signaling protein Chain: B: PDB Molecule:ubiquitin-like protein dsk2; PDBTitle: the complex sturcture of dsk2p uba with ubiquitin Phyre2 PDB 2hl7 chain A Region: 46 - 70 Aligned: 25 Modelled: 25 Confidence: 19.9% Identity: 24% PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c-type biogenesis protein ccmh; PDBTitle: crystal structure of the periplasmic domain of ccmh from pseudomonas2 aeruginosa Phyre2 PDB 1yx3 chain A Region: 22 - 68 Aligned: 45 Modelled: 47 Confidence: 18.4% Identity: 18% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein dsrc; PDBTitle: nmr structure of allochromatium vinosum dsrc: northeast2 structural genomics consortium target op4 Phyre2 PDB 2dnw chain A Region: 26 - 73 Aligned: 38 Modelled: 48 Confidence: 18.1% Identity: 16% PDB header:transport protein Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: solution structure of rsgi ruh-059, an acp domain of acyl2 carrier protein, mitochondrial [precursor] from human cdna Phyre2 PDB 3g2b chain A Region: 36 - 74 Aligned: 35 Modelled: 39 Confidence: 17.1% Identity: 23% PDB header:biosynthetic protein Chain: A: PDB Molecule:coenzyme pqq synthesis protein d; PDBTitle: crystal structure of pqqd from xanthomonas campestris Phyre2 PDB 2kw0 chain A Region: 46 - 70 Aligned: 25 Modelled: 25 Confidence: 16.6% Identity: 20% PDB header:oxidoreductase Chain: A: PDB Molecule:ccmh protein; PDBTitle: solution structure of n-terminal domain of ccmh from escherichia.coli Phyre2 PDB 1wj7 chain A domain 1 Region: 41 - 68 Aligned: 28 Modelled: 28 Confidence: 16.1% Identity: 18% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 3hie chain A Region: 64 - 81 Aligned: 18 Modelled: 18 Confidence: 15.9% Identity: 44% PDB header:exocytosis Chain: A: PDB Molecule:exocyst complex component sec3; PDBTitle: structure of the membrane-binding domain of the sec3 subunit2 of the exocyst complex Phyre2 PDB 2bh7 chain A Region: 5 - 70 Aligned: 61 Modelled: 66 Confidence: 15.5% Identity: 28% PDB header:hydrolase Chain: A: PDB Molecule:n-acetylmuramoyl-l-alanine amidase; PDBTitle: crystal structure of a semet derivative of amid at 2.22 angstroms Phyre2 PDB 1vej chain A domain 1 Region: 2 - 67 Aligned: 57 Modelled: 66 Confidence: 11.7% Identity: 19% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 1zii chain B Region: 61 - 73 Aligned: 13 Modelled: 13 Confidence: 10.9% Identity: 46% PDB header:leucine zipper Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the dimeric2 state Phyre2 PDB 1zii chain A Region: 61 - 73 Aligned: 13 Modelled: 13 Confidence: 10.9% Identity: 46% PDB header:leucine zipper Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the dimeric2 state Phyre2 PDB 1zij chain A Region: 61 - 73 Aligned: 13 Modelled: 13 Confidence: 10.4% Identity: 46% PDB header:leucine zipper Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the trimeric2 state Phyre2 PDB 1zij chain C Region: 61 - 73 Aligned: 13 Modelled: 13 Confidence: 10.4% Identity: 46% PDB header:leucine zipper Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the trimeric2 state Phyre2 PDB 1zij chain B Region: 61 - 73 Aligned: 13 Modelled: 13 Confidence: 10.4% Identity: 46% PDB header:leucine zipper Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the trimeric2 state Phyre2 PDB 2pjw chain H Region: 39 - 71 Aligned: 33 Modelled: 33 Confidence: 10.2% Identity: 21% PDB header:endocytosis/exocytosis Chain: H: PDB Molecule:uncharacterized protein yhl002w; PDBTitle: the vps27/hse1 complex is a gat domain-based scaffold for2 ubiquitin-dependent sorting Phyre2 1 c2jvwA_ 2 c2fwtA_ 3 d1zeea1 4 c1vngA_ 5 c1wr1B_ 6 c2hl7A_ 7 c1yx3A_ 8 c2dnwA_ 9 c3g2bA_ 10 c2kw0A_ 11 d1wj7a1 12 c3hieA_ 13 c2bh7A_ 14 d1veja1 15 c1ziiB_ 16 c1ziiA_ 17 c1zijA_ 18 c1zijC_ 19 c1zijB_ 20 c2pjwH_ 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

Detailed template information

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

1 c2jvwA_ 66.9 29 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of uncharacterized protein q5e7h1 from vibrio2 fischeri. northeast structural genomics target vfr117 2 c2fwtA_ 47.4 24 PDB header:electron transport Chain: A: PDB Molecule:dhc, diheme cytochrome c; PDBTitle: crystal structure of dhc purified from rhodobacter2 sphaeroides 3 d1zeea1 40.5 33 Fold:Indolic compounds 2,3-dioxygenase-like Superfamily:Indolic compounds 2,3-dioxygenase-like Family:Indoleamine 2,3-dioxygenase-like 4 c1vngA_ 22.1 13 PDB header:haloperoxidase Chain: A: PDB Molecule:vanadium chloroperoxidase; PDBTitle: chloroperoxidase from the fungus curvularia inaequalis:2 mutant h404a 5 c1wr1B_ 20.4 29 PDB header:signaling protein Chain: B: PDB Molecule:ubiquitin-like protein dsk2; PDBTitle: the complex sturcture of dsk2p uba with ubiquitin 6 c2hl7A_ 19.9 24 PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c-type biogenesis protein ccmh; PDBTitle: crystal structure of the periplasmic domain of ccmh from pseudomonas2 aeruginosa 7 c1yx3A_ 18.4 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein dsrc; PDBTitle: nmr structure of allochromatium vinosum dsrc: northeast2 structural genomics consortium target op4 8 c2dnwA_ 18.1 16 PDB header:transport protein Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: solution structure of rsgi ruh-059, an acp domain of acyl2 carrier protein, mitochondrial [precursor] from human cdna 9 c3g2bA_ 17.1 23 PDB header:biosynthetic protein Chain: A: PDB Molecule:coenzyme pqq synthesis protein d; PDBTitle: crystal structure of pqqd from xanthomonas campestris 10 c2kw0A_ 16.6 20 PDB header:oxidoreductase Chain: A: PDB Molecule:ccmh protein; PDBTitle: solution structure of n-terminal domain of ccmh from escherichia.coli 11 d1wj7a1 16.1 18 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 12 c3hieA_ 15.9 44 PDB header:exocytosis Chain: A: PDB Molecule:exocyst complex component sec3; PDBTitle: structure of the membrane-binding domain of the sec3 subunit2 of the exocyst complex 13 c2bh7A_ 15.5 28 PDB header:hydrolase Chain: A: PDB Molecule:n-acetylmuramoyl-l-alanine amidase; PDBTitle: crystal structure of a semet derivative of amid at 2.22 angstroms 14 d1veja1 11.7 19 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 15 c1ziiB_ 10.9 46 PDB header:leucine zipper Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the dimeric2 state 16 c1ziiA_ 10.9 46 PDB header:leucine zipper Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the dimeric2 state 17 c1zijA_ 10.4 46 PDB header:leucine zipper Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the trimeric2 state 18 c1zijC_ 10.4 46 PDB header:leucine zipper Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the trimeric2 state 19 c1zijB_ 10.4 46 PDB header:leucine zipper Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16aba in the trimeric2 state 20 c2pjwH_ 10.2 21 PDB header:endocytosis/exocytosis Chain: H: PDB Molecule:uncharacterized protein yhl002w; PDBTitle: the vps27/hse1 complex is a gat domain-based scaffold for2 ubiquitin-dependent sorting 21 c2l3gA_ not modelled 10.2 19 PDB header:signaling protein Chain: A: PDB Molecule:rho guanine nucleotide exchange factor 7; PDBTitle: solution nmr structure of ch domain of rho guanine nucleotide exchange2 factor 7 from homo sapiens, northeast structural genomics consortium3 target hr4495e 22 d1sr9a1 not modelled 10.1 25 Fold:RuvA C-terminal domain-like Superfamily:post-HMGL domain-like Family:DmpG/LeuA communication domain-like 23 d1whra_ not modelled 9.9 13 Fold:IF3-like Superfamily:R3H domain Family:R3H domain 24 d1nq4a_ not modelled 9.5 20 Fold:Acyl carrier protein-like Superfamily:ACP-like Family:Acyl-carrier protein (ACP) 25 d1t8ka_ not modelled 8.9 13 Fold:Acyl carrier protein-like Superfamily:ACP-like Family:Acyl-carrier protein (ACP) 26 c2cnrA_ not modelled 8.8 3 PDB header:lipid transport Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: structural studies on the interaction of scfas acp with2 acps 27 c2fq2A_ not modelled 8.2 16 PDB header:lipid transport Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: solution structure of minor conformation of holo-acyl2 carrier protein from malaria parasite plasmodium falciparum 28 c2d86A_ not modelled 8.0 28 PDB header:signaling protein, protein binding Chain: A: PDB Molecule:vav-3 protein; PDBTitle: solution structure of the ch domain from human vav-3 protein 29 c2yfvC_ not modelled 7.4 28 PDB header:cell cycle Chain: C: PDB Molecule:scm3; PDBTitle: the heterotrimeric complex of kluyveromyces lactis scm3, cse4 and h4 30 c2kwlA_ not modelled 7.4 10 PDB header:lipid binding protein Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: solution structure of acyl carrier protein from borrelia burgdorferi 31 c2lafA_ not modelled 7.3 25 PDB header:membrane protein Chain: A: PDB Molecule:lipoprotein 34; PDBTitle: nmr solution structure of the n-terminal domain of the e. coli2 lipoprotein bamc 32 c2ae8C_ not modelled 7.3 25 PDB header:lyase Chain: C: PDB Molecule:imidazoleglycerol-phosphate dehydratase; PDBTitle: crystal structure of imidazoleglycerol-phosphate dehydratase from2 staphylococcus aureus subsp. aureus n315 33 c2g2qB_ not modelled 7.2 38 PDB header:oxidoreductase Chain: B: PDB Molecule:glutaredoxin-2; PDBTitle: the crystal structure of g4, the poxviral disulfide oxidoreductase2 essential for cytoplasmic disulfide bond formation 34 d1gjja2 not modelled 7.1 18 Fold:LEM/SAP HeH motif Superfamily:LEM domain Family:LEM domain 35 c2kebA_ not modelled 7.0 22 PDB header:dna binding protein Chain: A: PDB Molecule:dna polymerase subunit alpha b; PDBTitle: nmr solution structure of the n-terminal domain of the dna polymerase2 alpha p68 subunit 36 d1q9ja1 not modelled 7.0 28 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:NRPS condensation domain (amide synthase) 37 c3ce7A_ not modelled 6.9 8 PDB header:biosynthetic protein Chain: A: PDB Molecule:specific mitochodrial acyl carrier protein; PDBTitle: crystal structure of toxoplasma specific mitochodrial acyl2 carrier protein, 59.m03510 38 d1whca_ not modelled 6.8 27 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 39 c3pcqX_ not modelled 6.7 58 PDB header:photosynthesis Chain: X: PDB Molecule:photosystem i 4.8k protein; PDBTitle: femtosecond x-ray protein nanocrystallography 40 d1jb0x_ not modelled 6.6 58 Fold:Single transmembrane helix Superfamily:Subunit PsaX of photosystem I reaction centre Family:Subunit PsaX of photosystem I reaction centre 41 c1jb0X_ not modelled 6.6 58 PDB header:photosynthesis Chain: X: PDB Molecule:photosystem i subunit psax; PDBTitle: crystal structure of photosystem i: a photosynthetic reaction center2 and core antenna system from cyanobacteria 42 d1rkta2 not modelled 6.5 19 Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal domain 43 d2hlya1 not modelled 6.4 36 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Atu2299-like 44 d1zcba1 not modelled 6.2 36 Fold:Transducin (alpha subunit), insertion domain Superfamily:Transducin (alpha subunit), insertion domain Family:Transducin (alpha subunit), insertion domain 45 c2fvfA_ not modelled 6.2 16 PDB header:biosynthetic protein Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: structure of 10:0-acp (protein with docked fatty acid) 46 d1n7va_ not modelled 6.2 60 Fold:Adsorption protein p2 Superfamily:Adsorption protein p2 Family:Adsorption protein p2 47 c2dakA_ not modelled 6.0 23 PDB header:hydrolase Chain: A: PDB Molecule:ubiquitin carboxyl-terminal hydrolase 5; PDBTitle: solution structure of the second uba domain in the human2 ubiquitin specific protease 5 (isopeptidase 5) 48 d1cipa1 not modelled 5.8 38 Fold:Transducin (alpha subunit), insertion domain Superfamily:Transducin (alpha subunit), insertion domain Family:Transducin (alpha subunit), insertion domain 49 d1tada1 not modelled 5.8 38 Fold:Transducin (alpha subunit), insertion domain Superfamily:Transducin (alpha subunit), insertion domain Family:Transducin (alpha subunit), insertion domain 50 c3ejbC_ not modelled 5.5 13 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 51 d2af8a_ not modelled 5.3 13 Fold:Acyl carrier protein-like Superfamily:ACP-like Family:Acyl-carrier protein (ACP) 52 d1vkua_ not modelled 5.3 19 Fold:Acyl carrier protein-like Superfamily:ACP-like Family:Acyl-carrier protein (ACP) 53 d1zcaa1 not modelled 5.2 36 Fold:Transducin (alpha subunit), insertion domain Superfamily:Transducin (alpha subunit), insertion domain Family:Transducin (alpha subunit), insertion domain 54 d2bcjq1 not modelled 5.1 38 Fold:Transducin (alpha subunit), insertion domain Superfamily:Transducin (alpha subunit), insertion domain Family:Transducin (alpha subunit), insertion domain 55 c3d87A_ not modelled 5.1 44 PDB header:cytokine Chain: A: PDB Molecule:interleukin-23 subunit p19; PDBTitle: crystal structure of interleukin-23

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