Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	A	D	T	W	T	R	L	Q	A	F	R	H	A	L	E	L	T	S	C	E	A	S	L	T	A	G	Y	D	H	L	K	D	F	P	A	G	C	S	E	L	A	S	Q	T	L	T	D	Y	L	T	E	D	G	S	N	L	Y	S
Secondary structure
SS confidence
Disorder		?	?																?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		C	I	V	G	M	Q	W	D	N	G	P	G	R	Y	G	H	V	I	A	A	P	A	R	D	Y	I	D	L	T	L	D	Q	F	P	G	Y	H	N	R	I	V	A	E	P	V	E	S	G	G	Q	L	A	A	D	L	N	R	E	P	A
Secondary structure
SS confidence
Disorder										?	?	?	?																																				?		?						?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	S	T	A	D	G	I	V	A	S	A	S	D	K	V	N	Y	I	T	E	Q	K	N	R	Q	P	M	V	I	I	T	E	C	Y	K	L	I	R	M	T	A	R	F	I	P	M	C	Q	S	S	Q	L	F	Q	H	Q	I	F	P	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.
Sequence		L	F	I	I	S	D	V	G	S	C	S	L	S	R	N	T	L	D	R	L	A	T	D	W	K	V	T	L	S	V	L	S	L
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 3kd4 chain A Region: 38 - 91 Aligned: 54 Modelled: 54 Confidence: 79.8% Identity: 19% PDB header:hydrolase Chain: A: PDB Molecule:putative protease; PDBTitle: crystal structure of a putative protease (bdi_1141) from2 parabacteroides distasonis atcc 8503 at 2.00 a resolution Phyre2 PDB 2f4m chain A domain 1 Region: 37 - 81 Aligned: 36 Modelled: 45 Confidence: 38.4% Identity: 17% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Transglutaminase core Phyre2 PDB 3jub chain A Region: 55 - 106 Aligned: 49 Modelled: 52 Confidence: 37.9% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:aig2-like domain-containing protein 1; PDBTitle: human gamma-glutamylamine cyclotransferase Phyre2 PDB 1rq0 chain A Region: 39 - 113 Aligned: 75 Modelled: 75 Confidence: 34.5% Identity: 16% Fold: Release factor Superfamily: Release factor Family: Release factor Phyre2 PDB 1zbt chain A Region: 36 - 113 Aligned: 78 Modelled: 78 Confidence: 29.2% Identity: 19% PDB header:translation Chain: A: PDB Molecule:peptide chain release factor 1; PDBTitle: crystal structure of peptide chain release factor 1 (rf-1) (smu.1085)2 from streptococcus mutans at 2.34 a resolution Phyre2 PDB 1gqe chain A Region: 39 - 113 Aligned: 75 Modelled: 75 Confidence: 28.1% Identity: 20% Fold: Release factor Superfamily: Release factor Family: Release factor Phyre2 PDB 2b3t chain B domain 1 Region: 36 - 113 Aligned: 78 Modelled: 78 Confidence: 26.2% Identity: 17% Fold: Release factor Superfamily: Release factor Family: Release factor Phyre2 PDB 3u7j chain A Region: 86 - 146 Aligned: 49 Modelled: 61 Confidence: 22.1% Identity: 29% PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase a; PDBTitle: crystal structure of ribose-5-phosphate isomerase a from burkholderia2 thailandensis Phyre2 PDB 3nzl chain A Region: 24 - 33 Aligned: 10 Modelled: 10 Confidence: 20.4% Identity: 30% PDB header:transcription Chain: A: PDB Molecule:dna-binding protein satb1; PDBTitle: crystal structure of the n-terminal domain of dna-binding protein2 satb1 from homo sapiens, northeast structural genomics consortium3 target hr4435b Phyre2 PDB 3nec chain D Region: 29 - 56 Aligned: 28 Modelled: 28 Confidence: 19.8% Identity: 29% PDB header:actin-binding protein Chain: D: PDB Molecule:inflammatory profilin; PDBTitle: crystal structure of toxoplasma gondii profilin Phyre2 PDB 1vkb chain A Region: 55 - 106 Aligned: 49 Modelled: 52 Confidence: 17.7% Identity: 10% Fold: Gamma-glutamyl cyclotransferase-like Superfamily: Gamma-glutamyl cyclotransferase-like Family: Gamma-glutamyl cyclotransferase-like Phyre2 PDB 3h25 chain A Region: 138 - 153 Aligned: 16 Modelled: 16 Confidence: 17.5% Identity: 38% PDB header:replication/dna Chain: A: PDB Molecule:replication protein b; PDBTitle: crystal structure of the catalytic domain of primase repb' in complex2 with initiator dna Phyre2 PDB 2ihr chain 1 Region: 39 - 113 Aligned: 75 Modelled: 75 Confidence: 15.4% Identity: 12% PDB header:translation Chain: 1: PDB Molecule:peptide chain release factor 2; PDBTitle: rf2 of thermus thermophilus Phyre2 PDB 3bg4 chain D Region: 53 - 63 Aligned: 10 Modelled: 11 Confidence: 13.7% Identity: 40% PDB header:hydrolase/hydrolase inhibitor Chain: D: PDB Molecule:guamerin; PDBTitle: the crystal structure of guamerin in complex with2 chymotrypsin and the development of an elastase-specific3 inhibitor Phyre2 PDB 3d5c chain X Region: 39 - 113 Aligned: 75 Modelled: 75 Confidence: 13.0% Identity: 15% PDB header:ribosome Chain: X: PDB Molecule:peptide chain release factor 1; PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 30s subunit, release factor 1 (rf1), two trna, and3 mrna molecules of the second 70s ribosome. the entire crystal4 structure contains two 70s ribosomes as described in remark 400. Phyre2 PDB 2z8t chain X Region: 21 - 78 Aligned: 58 Modelled: 58 Confidence: 12.8% Identity: 14% PDB header:hydrolase Chain: X: PDB Molecule:protein-glutaminase; PDBTitle: crystal structure of protein-glutaminase of c.proteolyticum2 strain 9670 Phyre2 PDB 3d9w chain A Region: 38 - 108 Aligned: 71 Modelled: 71 Confidence: 12.2% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:putative acetyltransferase; PDBTitle: crystal structure analysis of nocardia farcinica arylamine2 n-acetyltransferase Phyre2 PDB 3imk chain A Region: 95 - 114 Aligned: 20 Modelled: 20 Confidence: 12.1% Identity: 35% PDB header:metal binding protein Chain: A: PDB Molecule:putative molybdenum carrier protein; PDBTitle: crystal structure of putative molybdenum carrier protein (yp_461806.1)2 from syntrophus aciditrophicus sb at 1.45 a resolution Phyre2 PDB 1ozh chain A domain 2 Region: 44 - 151 Aligned: 89 Modelled: 90 Confidence: 11.9% Identity: 15% Fold: Thiamin diphosphate-binding fold (THDP-binding) Superfamily: Thiamin diphosphate-binding fold (THDP-binding) Family: Pyruvate oxidase and decarboxylase Pyr module Phyre2 PDB 2kp7 chain A Region: 8 - 55 Aligned: 48 Modelled: 48 Confidence: 11.2% Identity: 19% PDB header:hydrolase Chain: A: PDB Molecule:crossover junction endonuclease mus81; PDBTitle: solution nmr structure of the mus81 n-terminal hhh.2 northeast structural genomics consortium target mmt1a Phyre2 1 c3kd4A_ 2 d2f4ma1 3 c3jubA_ 4 d1rq0a_ 5 c1zbtA_ 6 d1gqea_ 7 d2b3tb1 8 c3u7jA_ 9 c3nzlA_ 10 c3necD_ 11 d1vkba_ 12 c3h25A_ 13 c2ihr1_ 14 c3bg4D_ 15 c3d5cX_ 16 c2z8tX_ 17 c3d9wA_ 18 c3imkA_ 19 d1ozha2 20 c2kp7A_ 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 c3kd4A_ 79.8 19 PDB header:hydrolase Chain: A: PDB Molecule:putative protease; PDBTitle: crystal structure of a putative protease (bdi_1141) from2 parabacteroides distasonis atcc 8503 at 2.00 a resolution 2 d2f4ma1 38.4 17 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Transglutaminase core 3 c3jubA_ 37.9 14 PDB header:transferase Chain: A: PDB Molecule:aig2-like domain-containing protein 1; PDBTitle: human gamma-glutamylamine cyclotransferase 4 d1rq0a_ 34.5 16 Fold:Release factor Superfamily:Release factor Family:Release factor 5 c1zbtA_ 29.2 19 PDB header:translation Chain: A: PDB Molecule:peptide chain release factor 1; PDBTitle: crystal structure of peptide chain release factor 1 (rf-1) (smu.1085)2 from streptococcus mutans at 2.34 a resolution 6 d1gqea_ 28.1 20 Fold:Release factor Superfamily:Release factor Family:Release factor 7 d2b3tb1 26.2 17 Fold:Release factor Superfamily:Release factor Family:Release factor 8 c3u7jA_ 22.1 29 PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase a; PDBTitle: crystal structure of ribose-5-phosphate isomerase a from burkholderia2 thailandensis 9 c3nzlA_ 20.4 30 PDB header:transcription Chain: A: PDB Molecule:dna-binding protein satb1; PDBTitle: crystal structure of the n-terminal domain of dna-binding protein2 satb1 from homo sapiens, northeast structural genomics consortium3 target hr4435b 10 c3necD_ 19.8 29 PDB header:actin-binding protein Chain: D: PDB Molecule:inflammatory profilin; PDBTitle: crystal structure of toxoplasma gondii profilin 11 d1vkba_ 17.7 10 Fold:Gamma-glutamyl cyclotransferase-like Superfamily:Gamma-glutamyl cyclotransferase-like Family:Gamma-glutamyl cyclotransferase-like 12 c3h25A_ 17.5 38 PDB header:replication/dna Chain: A: PDB Molecule:replication protein b; PDBTitle: crystal structure of the catalytic domain of primase repb' in complex2 with initiator dna 13 c2ihr1_ 15.4 12 PDB header:translation Chain: 1: PDB Molecule:peptide chain release factor 2; PDBTitle: rf2 of thermus thermophilus 14 c3bg4D_ 13.7 40 PDB header:hydrolase/hydrolase inhibitor Chain: D: PDB Molecule:guamerin; PDBTitle: the crystal structure of guamerin in complex with2 chymotrypsin and the development of an elastase-specific3 inhibitor 15 c3d5cX_ 13.0 15 PDB header:ribosome Chain: X: PDB Molecule:peptide chain release factor 1; PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 30s subunit, release factor 1 (rf1), two trna, and3 mrna molecules of the second 70s ribosome. the entire crystal4 structure contains two 70s ribosomes as described in remark 400. 16 c2z8tX_ 12.8 14 PDB header:hydrolase Chain: X: PDB Molecule:protein-glutaminase; PDBTitle: crystal structure of protein-glutaminase of c.proteolyticum2 strain 9670 17 c3d9wA_ 12.2 14 PDB header:transferase Chain: A: PDB Molecule:putative acetyltransferase; PDBTitle: crystal structure analysis of nocardia farcinica arylamine2 n-acetyltransferase 18 c3imkA_ 12.1 35 PDB header:metal binding protein Chain: A: PDB Molecule:putative molybdenum carrier protein; PDBTitle: crystal structure of putative molybdenum carrier protein (yp_461806.1)2 from syntrophus aciditrophicus sb at 1.45 a resolution 19 d1ozha2 11.9 15 Fold:Thiamin diphosphate-binding fold (THDP-binding) Superfamily:Thiamin diphosphate-binding fold (THDP-binding) Family:Pyruvate oxidase and decarboxylase Pyr module 20 c2kp7A_ 11.2 19 PDB header:hydrolase Chain: A: PDB Molecule:crossover junction endonuclease mus81; PDBTitle: solution nmr structure of the mus81 n-terminal hhh.2 northeast structural genomics consortium target mmt1a 21 d1f2ka_ not modelled 10.7 26 Fold:Profilin-like Superfamily:Profilin (actin-binding protein) Family:Profilin (actin-binding protein) 22 d1x3za1 not modelled 10.5 20 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Transglutaminase core 23 d2r4qa1 not modelled 10.1 21 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Fructose specific IIB subunit-like 24 d1hn6a_ not modelled 9.7 54 Fold:Apical membrane antigen 1 Superfamily:Apical membrane antigen 1 Family:Apical membrane antigen 1 25 d1pnea_ not modelled 9.3 9 Fold:Profilin-like Superfamily:Profilin (actin-binding protein) Family:Profilin (actin-binding protein) 26 d1bx7a_ not modelled 9.0 40 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Leech antihemostatic proteins Family:Huristasin-like 27 c3rq4A_ not modelled 8.8 18 PDB header:transferase Chain: A: PDB Molecule:histone-lysine n-methyltransferase suv420h2; PDBTitle: crystal structure of suppressor of variegation 4-20 homolog 2 28 d2hlya1 not modelled 8.4 20 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Atu2299-like 29 d1acfa_ not modelled 8.2 26 Fold:Profilin-like Superfamily:Profilin (actin-binding protein) Family:Profilin (actin-binding protein) 30 c3pifD_ not modelled 8.1 14 PDB header:hydrolase Chain: D: PDB Molecule:5'->3' exoribonuclease (xrn1); PDBTitle: crystal structure of the 5'->3' exoribonuclease xrn1, e178q mutant in2 complex with manganese 31 d3nula_ not modelled 8.0 32 Fold:Profilin-like Superfamily:Profilin (actin-binding protein) Family:Profilin (actin-binding protein) 32 d1cqaa_ not modelled 8.0 27 Fold:Profilin-like Superfamily:Profilin (actin-binding protein) Family:Profilin (actin-binding protein) 33 d1brza_ not modelled 8.0 19 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Plant defensins 34 d1g71a_ not modelled 7.8 22 Fold:Prim-pol domain Superfamily:Prim-pol domain Family:PriA-like 35 d2pbdp1 not modelled 7.7 9 Fold:Profilin-like Superfamily:Profilin (actin-binding protein) Family:Profilin (actin-binding protein) 36 d2c1ha1 not modelled 7.3 21 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:5-aminolaevulinate dehydratase, ALAD (porphobilinogen synthase) 37 d1g5ua_ not modelled 7.3 27 Fold:Profilin-like Superfamily:Profilin (actin-binding protein) Family:Profilin (actin-binding protein) 38 d2r48a1 not modelled 7.3 26 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Fructose specific IIB subunit-like 39 c3davA_ not modelled 7.2 26 PDB header:protein binding Chain: A: PDB Molecule:profilin; PDBTitle: schizosaccharomyces pombe profilin crystallized from sodium2 formate 40 d1v30a_ not modelled 6.9 6 Fold:Gamma-glutamyl cyclotransferase-like Superfamily:Gamma-glutamyl cyclotransferase-like Family:Gamma-glutamyl cyclotransferase-like 41 c3enpA_ not modelled 6.8 24 PDB header:hydrolase Chain: A: PDB Molecule:tp53rk-binding protein; PDBTitle: crystal structure of human cgi121 42 d1ejab_ not modelled 6.8 40 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Leech antihemostatic proteins Family:Huristasin-like 43 d1s7ja_ not modelled 6.7 12 Fold:Diaminopimelate epimerase-like Superfamily:Diaminopimelate epimerase-like Family:PhzC/PhzF-like 44 d1ypra_ not modelled 6.6 26 Fold:Profilin-like Superfamily:Profilin (actin-binding protein) Family:Profilin (actin-binding protein) 45 d1l6sa_ not modelled 6.0 21 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:5-aminolaevulinate dehydratase, ALAD (porphobilinogen synthase) 46 d1umga_ not modelled 5.9 31 Fold:Sulfolobus fructose-1,6-bisphosphatase-like Superfamily:Sulfolobus fructose-1,6-bisphosphatase-like Family:Sulfolobus fructose-1,6-bisphosphatase-like 47 d1o8bb1 not modelled 5.6 25 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:D-ribose-5-phosphate isomerase (RpiA), catalytic domain 48 d2zgwa2 not modelled 5.6 14 Fold:Class II aaRS and biotin synthetases Superfamily:Class II aaRS and biotin synthetases Family:Biotin holoenzyme synthetase 49 d1gzga_ not modelled 5.6 25 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:5-aminolaevulinate dehydratase, ALAD (porphobilinogen synthase) 50 c2kl8A_ not modelled 5.5 50 PDB header:de novo protein Chain: A: PDB Molecule:or15; PDBTitle: solution nmr structure of de novo designed ferredoxin-like2 fold protein, northeast structural genomics consortium3 target or15 51 d1l0nk_ not modelled 5.5 50 Fold:Single transmembrane helix Superfamily:Subunit XI (6.4 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:Subunit XI (6.4 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 52 c3kewA_ not modelled 5.5 27 PDB header:transferase Chain: A: PDB Molecule:dhha1 domain protein; PDBTitle: crystal structure of probable alanyl-trna-synthase from clostridium2 perfringens 53 d2e1ba1 not modelled 5.4 47 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:AlaX-M N-terminal domain-like 54 d1qy9a1 not modelled 5.3 14 Fold:Diaminopimelate epimerase-like Superfamily:Diaminopimelate epimerase-like Family:PhzC/PhzF-like 55 c3kwmC_ not modelled 5.2 24 PDB header:isomerase Chain: C: PDB Molecule:ribose-5-phosphate isomerase a; PDBTitle: crystal structure of ribose-5-isomerase a 56 c2kyrA_ not modelled 5.2 19 PDB header:transferase Chain: A: PDB Molecule:fructose-like phosphotransferase enzyme iib component 1; PDBTitle: solution structure of enzyme iib subunit of pts system from2 escherichia coli k12. northeast structural genomics consortium target3 er315/ontario center for structural proteomics target ec0544 57 d2ifaa1 not modelled 5.1 10 Fold:FMN-dependent nitroreductase-like Superfamily:FMN-dependent nitroreductase-like Family:NADH oxidase/flavin reductase 58 c3mp2A_ not modelled 5.0 13 PDB header:hydrolase Chain: A: PDB Molecule:non-structural protein 3; PDBTitle: crystal structure of transmissible gastroenteritis virus papain-like2 protease 1

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