Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	I	D	F	T	P	G	I	I	N	T	Y	H	G	D	I	Y	N	C	T	T	N	T	D	N	A	K	T	P	D	T	P	K	W	P	C	D	N	W	E	E	Q	Q	P	I	N	S	T	F	S	G	E	G	Y	I	S	D	Q	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																			?	?	?	?	?	?	?									?						?	?	?	?					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	L	A	Q	H	Q	L	Q	Q	I	N	A	C	H	T	N	T	T	Y	T	N	A	D	Y	S	K	V	V	A	Q	L	V	S	L	I	T	N	I	E	T	I	S	S	T	Q	L	T	Q	Q	T	Q	S	I	L	N	Q	I	N	N	I
Secondary structure
SS confidence
Disorder																																					?		?			?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	Y	E	K	N	K	S	A	E	C	R	I	I	V	I	A	N	P	K	P	D	K	A	I	I	T	K	I	S	V	E	E	G	I	P	I	T	F	S	V	Q	T	M	F	S	D	T	N	F	I	A	E	Q	R	A	D	L	P	T	N
Secondary structure
SS confidence
Disorder			?	?	?	?																																														?	?		?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	K	D	I	Q	S	L	Y	Q	K	M	T	K	L	Y	I	E	H	S	E	N	K	N	R	M	K	V	F	A	G	T	N	F	I	D	F	N	M	T	G	Q	N	L	S	G	F	V	L	T	L	S	R	F	Y	F	E	D	L	L	N
Secondary structure
SS confidence
Disorder																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260
Sequence		I	N	F	T	D	A	N	L	G	K	V	R	I	S	G	E	I	L	L	G
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 3nb2 chain B Region: 207 - 260 Aligned: 54 Modelled: 54 Confidence: 31.4% Identity: 17% PDB header:ligase Chain: B: PDB Molecule:secreted effector protein; PDBTitle: crystal structure of e. coli o157:h7 effector protein nlel Phyre2 PDB 2w7z chain B Region: 207 - 260 Aligned: 54 Modelled: 54 Confidence: 29.1% Identity: 15% PDB header:inhibitor Chain: B: PDB Molecule:pentapeptide repeat family protein; PDBTitle: structure of the pentapeptide repeat protein efsqnr, a dna2 gyrase inhibitor. free amines modified by cyclic3 pentylation with glutaraldehyde. Phyre2 PDB 2xt4 chain B Region: 208 - 260 Aligned: 53 Modelled: 53 Confidence: 28.4% Identity: 15% PDB header:cell cycle Chain: B: PDB Molecule:mcbg-like protein; PDBTitle: structure of the pentapeptide repeat protein albg, a2 resistance factor for the topoisomerase poison albicidin. Phyre2 PDB 2g0y chain A Region: 207 - 260 Aligned: 54 Modelled: 54 Confidence: 15.4% Identity: 26% PDB header:unknown function Chain: A: PDB Molecule:pentapeptide repeat protein; PDBTitle: crystal structure of a lumenal pentapeptide repeat protein from2 cyanothece sp 51142 at 2.3 angstrom resolution. tetragonal crystal3 form Phyre2 PDB 3sxu chain B Region: 127 - 143 Aligned: 17 Modelled: 17 Confidence: 14.3% Identity: 29% PDB header:transferase Chain: B: PDB Molecule:dna polymerase iii subunit psi; PDBTitle: structure of the e. coli ssb-dna polymerase iii interface Phyre2 PDB 3du1 chain X Region: 208 - 248 Aligned: 41 Modelled: 41 Confidence: 14.2% Identity: 20% PDB header:structural protein Chain: X: PDB Molecule:all3740 protein; PDBTitle: the 2.0 angstrom resolution crystal structure of hetl, a pentapeptide2 repeat protein involved in heterocyst differentiation regulation from3 the cyanobacterium nostoc sp. strain pcc 7120 Phyre2 PDB 1kz1 chain A Region: 145 - 176 Aligned: 30 Modelled: 32 Confidence: 13.3% Identity: 20% Fold: Lumazine synthase Superfamily: Lumazine synthase Family: Lumazine synthase Phyre2 PDB 2o6w chain A Region: 208 - 259 Aligned: 52 Modelled: 52 Confidence: 12.5% Identity: 19% PDB header:unknown function Chain: A: PDB Molecule:repeat five residue (rfr) protein or PDBTitle: crystal structure of a pentapeptide repeat protein (rfr23)2 from the cyanobacterium cyanothece 51142 Phyre2 PDB 3r2c chain J Region: 130 - 160 Aligned: 31 Modelled: 31 Confidence: 12.4% Identity: 23% PDB header:transcription/rna Chain: J: PDB Molecule:30s ribosomal protein s10; PDBTitle: crystal structure of antitermination factors nusb and nuse in complex2 with boxa rna Phyre2 PDB 1nbw chain B Region: 151 - 175 Aligned: 25 Modelled: 25 Confidence: 9.6% Identity: 20% Fold: Anticodon-binding domain-like Superfamily: B12-dependent dehydatase associated subunit Family: Dehydratase-reactivating factor beta subunit Phyre2 PDB 2f3l chain A domain 1 Region: 207 - 260 Aligned: 54 Modelled: 54 Confidence: 9.6% Identity: 26% Fold: Single-stranded right-handed beta-helix Superfamily: Pentapeptide repeat-like Family: Pentapeptide repeats Phyre2 PDB 2xt4 chain A Region: 208 - 260 Aligned: 53 Modelled: 53 Confidence: 9.2% Identity: 15% PDB header:cell cycle Chain: A: PDB Molecule:mcbg-like protein; PDBTitle: structure of the pentapeptide repeat protein albg, a2 resistance factor for the topoisomerase poison albicidin. Phyre2 PDB 3n90 chain A Region: 209 - 260 Aligned: 52 Modelled: 52 Confidence: 9.2% Identity: 19% PDB header:unknown function Chain: A: PDB Molecule:thylakoid lumenal 15 kda protein 1, chloroplastic; PDBTitle: the 1.7 angstrom resolution crystal structure of at2g44920, a2 pentapeptide repeat protein from arabidopsis thaliana thylakoid3 lumen. Phyre2 PDB 1w19 chain E Region: 145 - 175 Aligned: 29 Modelled: 31 Confidence: 9.0% Identity: 34% PDB header:transferase Chain: E: PDB Molecule:6,7-dimethyl-8-ribityllumazine synthase; PDBTitle: lumazine synthase from mycobacterium tuberculosis bound to2 3-(1,3,7-trihydro-9-d-ribityl-2,6,8-purinetrione-7-yl)3 propane 1-phosphate Phyre2 PDB 1ejb chain A Region: 145 - 176 Aligned: 30 Modelled: 32 Confidence: 8.9% Identity: 23% Fold: Lumazine synthase Superfamily: Lumazine synthase Family: Lumazine synthase Phyre2 PDB 2x0d chain A Region: 153 - 215 Aligned: 60 Modelled: 63 Confidence: 8.7% Identity: 10% PDB header:transferase Chain: A: PDB Molecule:wsaf; PDBTitle: apo structure of wsaf Phyre2 PDB 1r0v chain A domain 1 Region: 250 - 260 Aligned: 11 Modelled: 11 Confidence: 8.5% Identity: 64% Fold: Restriction endonuclease-like Superfamily: tRNA-intron endonuclease catalytic domain-like Family: tRNA-intron endonuclease catalytic domain-like Phyre2 PDB 3be3 chain A Region: 4 - 18 Aligned: 15 Modelled: 15 Confidence: 8.4% Identity: 53% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a protein belonging to pfam duf16532 from bordetella bronchiseptica Phyre2 PDB 3pss chain B Region: 208 - 260 Aligned: 53 Modelled: 53 Confidence: 7.9% Identity: 19% PDB header:cell cycle Chain: B: PDB Molecule:qnr; PDBTitle: crystal structure of ahqnr, the qnr protein from aeromonas hydrophila2 (p21 crystal form) Phyre2 PDB 1h9e chain A Region: 193 - 211 Aligned: 19 Modelled: 19 Confidence: 7.9% Identity: 42% Fold: LEM/SAP HeH motif Superfamily: LEM domain Family: LEM domain Phyre2 1 c3nb2B_ 2 c2w7zB_ 3 c2xt4B_ 4 c2g0yA_ 5 c3sxuB_ 6 c3du1X_ 7 d1kz1a_ 8 c2o6wA_ 9 c3r2cJ_ 10 d1nbwb_ 11 d2f3la1 12 c2xt4A_ 13 c3n90A_ 14 c1w19E_ 15 d1ejba_ 16 c2x0dA_ 17 d1r0va1 18 c3be3A_ 19 c3pssB_ 20 d1h9ea_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38

Detailed template information

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

1 c3nb2B_ 31.4 17 PDB header:ligase Chain: B: PDB Molecule:secreted effector protein; PDBTitle: crystal structure of e. coli o157:h7 effector protein nlel 2 c2w7zB_ 29.1 15 PDB header:inhibitor Chain: B: PDB Molecule:pentapeptide repeat family protein; PDBTitle: structure of the pentapeptide repeat protein efsqnr, a dna2 gyrase inhibitor. free amines modified by cyclic3 pentylation with glutaraldehyde. 3 c2xt4B_ 28.4 15 PDB header:cell cycle Chain: B: PDB Molecule:mcbg-like protein; PDBTitle: structure of the pentapeptide repeat protein albg, a2 resistance factor for the topoisomerase poison albicidin. 4 c2g0yA_ 15.4 26 PDB header:unknown function Chain: A: PDB Molecule:pentapeptide repeat protein; PDBTitle: crystal structure of a lumenal pentapeptide repeat protein from2 cyanothece sp 51142 at 2.3 angstrom resolution. tetragonal crystal3 form 5 c3sxuB_ 14.3 29 PDB header:transferase Chain: B: PDB Molecule:dna polymerase iii subunit psi; PDBTitle: structure of the e. coli ssb-dna polymerase iii interface 6 c3du1X_ 14.2 20 PDB header:structural protein Chain: X: PDB Molecule:all3740 protein; PDBTitle: the 2.0 angstrom resolution crystal structure of hetl, a pentapeptide2 repeat protein involved in heterocyst differentiation regulation from3 the cyanobacterium nostoc sp. strain pcc 7120 7 d1kz1a_ 13.3 20 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 8 c2o6wA_ 12.5 19 PDB header:unknown function Chain: A: PDB Molecule:repeat five residue (rfr) protein or PDBTitle: crystal structure of a pentapeptide repeat protein (rfr23)2 from the cyanobacterium cyanothece 51142 9 c3r2cJ_ 12.4 23 PDB header:transcription/rna Chain: J: PDB Molecule:30s ribosomal protein s10; PDBTitle: crystal structure of antitermination factors nusb and nuse in complex2 with boxa rna 10 d1nbwb_ 9.6 20 Fold:Anticodon-binding domain-like Superfamily:B12-dependent dehydatase associated subunit Family:Dehydratase-reactivating factor beta subunit 11 d2f3la1 9.6 26 Fold:Single-stranded right-handed beta-helix Superfamily:Pentapeptide repeat-like Family:Pentapeptide repeats 12 c2xt4A_ 9.2 15 PDB header:cell cycle Chain: A: PDB Molecule:mcbg-like protein; PDBTitle: structure of the pentapeptide repeat protein albg, a2 resistance factor for the topoisomerase poison albicidin. 13 c3n90A_ 9.2 19 PDB header:unknown function Chain: A: PDB Molecule:thylakoid lumenal 15 kda protein 1, chloroplastic; PDBTitle: the 1.7 angstrom resolution crystal structure of at2g44920, a2 pentapeptide repeat protein from arabidopsis thaliana thylakoid3 lumen. 14 c1w19E_ 9.0 34 PDB header:transferase Chain: E: PDB Molecule:6,7-dimethyl-8-ribityllumazine synthase; PDBTitle: lumazine synthase from mycobacterium tuberculosis bound to2 3-(1,3,7-trihydro-9-d-ribityl-2,6,8-purinetrione-7-yl)3 propane 1-phosphate 15 d1ejba_ 8.9 23 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 16 c2x0dA_ 8.7 10 PDB header:transferase Chain: A: PDB Molecule:wsaf; PDBTitle: apo structure of wsaf 17 d1r0va1 8.5 64 Fold:Restriction endonuclease-like Superfamily:tRNA-intron endonuclease catalytic domain-like Family:tRNA-intron endonuclease catalytic domain-like 18 c3be3A_ 8.4 53 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a protein belonging to pfam duf16532 from bordetella bronchiseptica 19 c3pssB_ 7.9 19 PDB header:cell cycle Chain: B: PDB Molecule:qnr; PDBTitle: crystal structure of ahqnr, the qnr protein from aeromonas hydrophila2 (p21 crystal form) 20 d1h9ea_ 7.9 42 Fold:LEM/SAP HeH motif Superfamily:LEM domain Family:LEM domain 21 c2f59B_ not modelled 7.6 33 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 22 c1y7xA_ not modelled 7.5 41 PDB header:structural protein, protein binding Chain: A: PDB Molecule:major vault protein; PDBTitle: solution structure of a two-repeat fragment of major vault2 protein 23 d1nqua_ not modelled 7.4 43 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 24 d1em8b_ not modelled 7.4 33 Fold:DNA polymerase III psi subunit Superfamily:DNA polymerase III psi subunit Family:DNA polymerase III psi subunit 25 c3b1bA_ not modelled 6.8 29 PDB header:lyase Chain: A: PDB Molecule:carbonic anhydrase 1; PDBTitle: the unique structure of wild type carbonic anhydrase alpha-ca1 from2 chlamydomonas reinhardtii 26 c3etbJ_ not modelled 6.7 33 PDB header:immune system/toxin Chain: J: PDB Molecule:anthrax protective antigen; PDBTitle: crystal structure of the engineered neutralizing antibody2 m18 complexed with anthrax protective antigen domain 4 27 c3rkiB_ not modelled 6.6 45 PDB header:viral protein Chain: B: PDB Molecule:fusion glycoprotein f0; PDBTitle: structural basis for immunization with post-fusion rsv f to elicit2 high neutralizing antibody titers 28 d1u0la1 not modelled 6.3 18 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 29 c2j8iB_ not modelled 6.3 22 PDB header:toxin Chain: B: PDB Molecule:np275; PDBTitle: structure of np275, a pentapeptide repeat protein from2 nostoc punctiforme 30 d1di0a_ not modelled 6.3 17 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 31 d2igta1 not modelled 5.8 13 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:hypothetical RNA methyltransferase 32 d2j8ia1 not modelled 5.7 23 Fold:Single-stranded right-handed beta-helix Superfamily:Pentapeptide repeat-like Family:Pentapeptide repeats 33 d1zvpa2 not modelled 5.7 24 Fold:Ferredoxin-like Superfamily:ACT-like Family:VC0802-like 34 c2xtwB_ not modelled 5.4 22 PDB header:cell cycle Chain: B: PDB Molecule:qnrb1; PDBTitle: structure of qnrb1 (full length), a plasmid-mediated2 fluoroquinolone resistance protein 35 d1t6la2 not modelled 5.3 34 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase processivity factor 36 d1zhva2 not modelled 5.3 28 Fold:Ferredoxin-like Superfamily:ACT-like Family:Atu0741-like 37 c1y7wB_ not modelled 5.1 33 PDB header:lyase Chain: B: PDB Molecule:halotolerant alpha-type carbonic anhydrase (dca ii); PDBTitle: crystal structure of a halotolerant carbonic anhydrase from dunaliella2 salina 38 c2k0nA_ not modelled 5.1 21 PDB header:transcription Chain: A: PDB Molecule:mediator of rna polymerase ii transcription PDBTitle: solution structure of yeast gal11p kix 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