Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	P	A	V	K	L	L	E	K	N	K	I	S	F	Q	I	H	T	Y	E	H	D	P	A	E	T	N	F	G	D	E	V	V	K	K	L	G	L	N	P	D	Q	V	Y	K	T	L	L	V	A	V	N	G	D	M	K	H	L	A
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	A	V	T	P	V	A	G	Q	L	D	L	K	K	V	A	K	A	L	G	A	K	K	V	E	M	A	D	P	M	V	A	Q	R	S	T	G	Y	L	V	G	G	I	S	P	L	G	Q	K	K	R	L	P	T	I	I	D	A	P	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.
Sequence		Q	E	F	A	T	I	Y	V	S	G	G	K	R	G	L	D	I	E	L	A	A	G	D	L	A	K	I	L	D	A	K	F	A	D	I	A	R	R	D
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 2dxa chain A Region: 1 - 158 Aligned: 158 Modelled: 157 Confidence: 100.0% Identity: 97% PDB header:translation Chain: A: PDB Molecule:protein ybak; PDBTitle: crystal structure of trans editing enzyme prox from e.coli Phyre2 PDB 1dbx chain A Region: 2 - 158 Aligned: 152 Modelled: 157 Confidence: 100.0% Identity: 62% Fold: YbaK/ProRS associated domain Superfamily: YbaK/ProRS associated domain Family: YbaK/ProRS associated domain Phyre2 PDB 1vjf chain A Region: 2 - 159 Aligned: 152 Modelled: 156 Confidence: 100.0% Identity: 14% Fold: YbaK/ProRS associated domain Superfamily: YbaK/ProRS associated domain Family: YbaK/ProRS associated domain Phyre2 PDB 1wdv chain A Region: 3 - 157 Aligned: 149 Modelled: 155 Confidence: 100.0% Identity: 21% Fold: YbaK/ProRS associated domain Superfamily: YbaK/ProRS associated domain Family: YbaK/ProRS associated domain Phyre2 PDB 1vki chain A Region: 2 - 157 Aligned: 150 Modelled: 156 Confidence: 100.0% Identity: 21% Fold: YbaK/ProRS associated domain Superfamily: YbaK/ProRS associated domain Family: YbaK/ProRS associated domain Phyre2 PDB 2cx5 chain B Region: 3 - 158 Aligned: 149 Modelled: 156 Confidence: 100.0% Identity: 23% PDB header:translation Chain: B: PDB Molecule:a putative trans-editing enzyme; PDBTitle: crystal structure of a putative trans-editing enzyme for2 prolyl trna synthetase Phyre2 PDB 3op6 chain B Region: 1 - 155 Aligned: 138 Modelled: 155 Confidence: 100.0% Identity: 18% PDB header:unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an oligo-nucleotide binding protein (lpg1207)2 from legionella pneumophila subsp. pneumophila str. philadelphia 1 at3 2.00 a resolution Phyre2 PDB 3mem chain A Region: 29 - 156 Aligned: 125 Modelled: 128 Confidence: 100.0% Identity: 18% PDB header:signaling protein Chain: A: PDB Molecule:putative signal transduction protein; PDBTitle: crystal structure of a putative signal transduction protein2 (maqu_0641) from marinobacter aquaeolei vt8 at 2.25 a resolution Phyre2 PDB 2j3m chain A Region: 4 - 138 Aligned: 132 Modelled: 135 Confidence: 98.5% Identity: 23% PDB header:ligase Chain: A: PDB Molecule:prolyl-trna synthetase; PDBTitle: prolyl-trna synthetase from enterococcus faecalis complexed2 with atp, manganese and prolinol Phyre2 PDB 1j9b chain A Region: 3 - 47 Aligned: 45 Modelled: 45 Confidence: 86.2% Identity: 9% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: ArsC-like Phyre2 PDB 3gkx chain B Region: 4 - 45 Aligned: 42 Modelled: 42 Confidence: 83.9% Identity: 19% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative arsc family related protein; PDBTitle: crystal structure of putative arsc family related protein from2 bacteroides fragilis Phyre2 PDB 1z3e chain A domain 1 Region: 4 - 45 Aligned: 42 Modelled: 42 Confidence: 82.2% Identity: 17% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: ArsC-like Phyre2 PDB 3fz4 chain A Region: 4 - 45 Aligned: 42 Modelled: 42 Confidence: 81.5% Identity: 12% PDB header:oxidoreductase Chain: A: PDB Molecule:putative arsenate reductase; PDBTitle: the crystal structure of a possible arsenate reductase from2 streptococcus mutans ua159 Phyre2 PDB 3l78 chain A Region: 4 - 45 Aligned: 42 Modelled: 42 Confidence: 81.3% Identity: 14% PDB header:transcription Chain: A: PDB Molecule:regulatory protein spx; PDBTitle: the crystal structure of smu.1142c from streptococcus mutans ua159 Phyre2 PDB 3rdw chain B Region: 3 - 41 Aligned: 39 Modelled: 39 Confidence: 69.1% Identity: 23% PDB header:oxidoreductase Chain: B: PDB Molecule:putative arsenate reductase; PDBTitle: putative arsenate reductase from yersinia pestis Phyre2 PDB 2kok chain A Region: 4 - 39 Aligned: 36 Modelled: 36 Confidence: 66.6% Identity: 22% PDB header:oxidoreductase Chain: A: PDB Molecule:arsenate reductase; PDBTitle: solution structure of an arsenate reductase (arsc) related protein2 from brucella melitensis. seattle structural genomics center for3 infectious disease target braba.00007.a. Phyre2 PDB 3f0i chain A Region: 4 - 41 Aligned: 38 Modelled: 38 Confidence: 64.0% Identity: 26% PDB header:oxidoreductase Chain: A: PDB Molecule:arsenate reductase; PDBTitle: arsenate reductase from vibrio cholerae. Phyre2 PDB 1rw1 chain A Region: 4 - 38 Aligned: 35 Modelled: 35 Confidence: 60.5% Identity: 17% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: ArsC-like Phyre2 PDB 3lgc chain A Region: 4 - 37 Aligned: 34 Modelled: 34 Confidence: 46.9% Identity: 24% PDB header:unknown function Chain: A: PDB Molecule:glutaredoxin 1; PDBTitle: crystal structure of glutaredoxin 1 from francisella2 tularensis Phyre2 PDB 1fov chain A Region: 4 - 40 Aligned: 37 Modelled: 37 Confidence: 41.8% Identity: 19% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: Thioltransferase Phyre2 1 c2dxaA_ 2 d1dbxa_ 3 d1vjfa_ 4 d1wdva_ 5 d1vkia_ 6 c2cx5B_ 7 c3op6B_ 8 c3memA_ 9 c2j3mA_ 10 d1j9ba_ 11 c3gkxB_ 12 d1z3ea1 13 c3fz4A_ 14 c3l78A_ 15 c3rdwB_ 16 c2kokA_ 17 c3f0iA_ 18 d1rw1a_ 19 c3lgcA_ 20 d1fova_ 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 c2dxaA_ 100.0 97 PDB header:translation Chain: A: PDB Molecule:protein ybak; PDBTitle: crystal structure of trans editing enzyme prox from e.coli 2 d1dbxa_ 100.0 62 Fold:YbaK/ProRS associated domain Superfamily:YbaK/ProRS associated domain Family:YbaK/ProRS associated domain 3 d1vjfa_ 100.0 14 Fold:YbaK/ProRS associated domain Superfamily:YbaK/ProRS associated domain Family:YbaK/ProRS associated domain 4 d1wdva_ 100.0 21 Fold:YbaK/ProRS associated domain Superfamily:YbaK/ProRS associated domain Family:YbaK/ProRS associated domain 5 d1vkia_ 100.0 21 Fold:YbaK/ProRS associated domain Superfamily:YbaK/ProRS associated domain Family:YbaK/ProRS associated domain 6 c2cx5B_ 100.0 23 PDB header:translation Chain: B: PDB Molecule:a putative trans-editing enzyme; PDBTitle: crystal structure of a putative trans-editing enzyme for2 prolyl trna synthetase 7 c3op6B_ 100.0 18 PDB header:unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an oligo-nucleotide binding protein (lpg1207)2 from legionella pneumophila subsp. pneumophila str. philadelphia 1 at3 2.00 a resolution 8 c3memA_ 100.0 18 PDB header:signaling protein Chain: A: PDB Molecule:putative signal transduction protein; PDBTitle: crystal structure of a putative signal transduction protein2 (maqu_0641) from marinobacter aquaeolei vt8 at 2.25 a resolution 9 c2j3mA_ 98.5 23 PDB header:ligase Chain: A: PDB Molecule:prolyl-trna synthetase; PDBTitle: prolyl-trna synthetase from enterococcus faecalis complexed2 with atp, manganese and prolinol 10 d1j9ba_ 86.2 9 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:ArsC-like 11 c3gkxB_ 83.9 19 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative arsc family related protein; PDBTitle: crystal structure of putative arsc family related protein from2 bacteroides fragilis 12 d1z3ea1 82.2 17 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:ArsC-like 13 c3fz4A_ 81.5 12 PDB header:oxidoreductase Chain: A: PDB Molecule:putative arsenate reductase; PDBTitle: the crystal structure of a possible arsenate reductase from2 streptococcus mutans ua159 14 c3l78A_ 81.3 14 PDB header:transcription Chain: A: PDB Molecule:regulatory protein spx; PDBTitle: the crystal structure of smu.1142c from streptococcus mutans ua159 15 c3rdwB_ 69.1 23 PDB header:oxidoreductase Chain: B: PDB Molecule:putative arsenate reductase; PDBTitle: putative arsenate reductase from yersinia pestis 16 c2kokA_ 66.6 22 PDB header:oxidoreductase Chain: A: PDB Molecule:arsenate reductase; PDBTitle: solution structure of an arsenate reductase (arsc) related protein2 from brucella melitensis. seattle structural genomics center for3 infectious disease target braba.00007.a. 17 c3f0iA_ 64.0 26 PDB header:oxidoreductase Chain: A: PDB Molecule:arsenate reductase; PDBTitle: arsenate reductase from vibrio cholerae. 18 d1rw1a_ 60.5 17 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:ArsC-like 19 c3lgcA_ 46.9 24 PDB header:unknown function Chain: A: PDB Molecule:glutaredoxin 1; PDBTitle: crystal structure of glutaredoxin 1 from francisella2 tularensis 20 d1fova_ 41.8 19 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 21 c3nznA_ not modelled 34.5 20 PDB header:oxidoreductase Chain: A: PDB Molecule:glutaredoxin; PDBTitle: the crystal structure of the glutaredoxin from methanosarcina mazei2 go1 22 d1t1va_ not modelled 34.3 17 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:SH3BGR (SH3-binding, glutamic acid-rich protein-like) 23 c2khpA_ not modelled 29.7 16 PDB header:electron transport Chain: A: PDB Molecule:glutaredoxin; PDBTitle: solution structure of glutaredoxin from brucella melitensis 24 c3ic4A_ not modelled 24.8 10 PDB header:oxidoreductase Chain: A: PDB Molecule:glutaredoxin (grx-1); PDBTitle: the crystal structure of the glutaredoxin(grx-1) from archaeoglobus2 fulgidus 25 d1nm3a1 not modelled 23.1 30 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 26 d1h75a_ not modelled 23.1 15 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 27 c3h8qB_ not modelled 22.5 3 PDB header:oxidoreductase Chain: B: PDB Molecule:thioredoxin reductase 3; PDBTitle: crystal structure of glutaredoxin domain of human thioredoxin2 reductase 3 28 c2ct6A_ not modelled 21.5 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:sh3 domain-binding glutamic acid-rich-like PDBTitle: solution structure of the sh3 domain-binding glutamic acid-2 rich-like protein 2 29 c2e7pC_ not modelled 21.2 11 PDB header:electron transport Chain: C: PDB Molecule:glutaredoxin; PDBTitle: crystal structure of the holo form of glutaredoxin c1 from populus2 tremula x tremuloides 30 c1nm3B_ not modelled 20.9 22 PDB header:electron transport Chain: B: PDB Molecule:protein hi0572; PDBTitle: crystal structure of heamophilus influenza hybrid-prx5 31 c1u6tA_ not modelled 18.7 29 PDB header:protein binding, signaling protein Chain: A: PDB Molecule:sh3 domain-binding glutamic acid-rich-like PDBTitle: crystal structure of the human sh3 binding glutamic-rich2 protein like 32 d1wika_ not modelled 16.0 5 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 33 d1r7ha_ not modelled 15.8 15 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 34 d1abaa_ not modelled 14.1 15 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 35 c2ht9A_ not modelled 11.6 19 PDB header:oxidoreductase Chain: A: PDB Molecule:glutaredoxin-2; PDBTitle: the structure of dimeric human glutaredoxin 2 36 c1ykaA_ not modelled 11.4 13 PDB header:electron transport Chain: A: PDB Molecule:monothiol glutaredoxin ydhd; PDBTitle: solution structure of grx4, a monothiol glutaredoxin from2 e. coli. 37 d2obba1 not modelled 9.2 13 Fold:HAD-like Superfamily:HAD-like Family:BT0820-like 38 c3qmxA_ not modelled 8.9 29 PDB header:electron transport Chain: A: PDB Molecule:glutaredoxin a; PDBTitle: x-ray crystal structure of synechocystis sp. pcc 6803 glutaredoxin a 39 d1gmua2 not modelled 7.5 8 Fold:Ferredoxin-like Superfamily:Urease metallochaperone UreE, C-terminal domain Family:Urease metallochaperone UreE, C-terminal domain 40 d1jqga2 not modelled 7.0 5 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Pancreatic carboxypeptidase, activation domain 41 c3kc2A_ not modelled 6.9 30 PDB header:hydrolase Chain: A: PDB Molecule:uncharacterized protein ykr070w; PDBTitle: crystal structure of mitochondrial had-like phosphatase from2 saccharomyces cerevisiae 42 c2klxA_ not modelled 6.6 21 PDB header:oxidoreductase Chain: A: PDB Molecule:glutaredoxin; PDBTitle: solution structure of glutaredoxin from bartonella henselae str.2 houston 43 d2v94a1 not modelled 6.4 30 Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:Ribosomal protein S24e 44 d1pz4a_ not modelled 5.8 7 Fold:SCP-like Superfamily:SCP-like Family:Sterol carrier protein, SCP 45 d1ayea2 not modelled 5.5 22 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Pancreatic carboxypeptidase, activation domain 46 d2boaa2 not modelled 5.5 6 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Pancreatic carboxypeptidase, activation domain 47 d1pyta_ not modelled 5.4 22 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Pancreatic carboxypeptidase, activation domain 48 d1nsaa2 not modelled 5.4 17 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Pancreatic carboxypeptidase, activation domain 49 d1kwma2 not modelled 5.3 11 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Pancreatic carboxypeptidase, activation domain 50 c1yj7A_ not modelled 5.3 21 PDB header:protein transport Chain: A: PDB Molecule:escj; PDBTitle: crystal structure of enteropathogenic e.coli (epec) type iii secretion2 system protein escj 51 d1pcaa1 not modelled 5.1 22 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Pancreatic carboxypeptidase, activation domain

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