Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	Y	I	R	Q	L	C	C	V	S	L	L	C	L	S	G	S	A	V	A	A	N	V	R	L	Q	V	E	G	L	S	G	Q	L	E	K	N	V	R	A	Q	L	S	T	I	E	S	D	E	V	T	P	D	R	R	F	R	A	R
Secondary structure
SS confidence
Disorder		?	?	?													?		?	?	?	?	?												?												?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	D	D	A	I	R	E	G	L	K	A	L	G	Y	Y	Q	P	T	I	E	F	D	L	R	P	P	P	K	K	G	R	Q	V	L	I	A	K	V	T	P	G	V	P	V	L	I	G	G	T	D	V	V	L	R	G	G	A	R	T	D
Secondary structure
SS confidence
Disorder																											?	?	?																												?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		K	D	Y	L	K	L	L	D	T	R	P	A	I	G	T	V	L	N	Q	G	D	Y	E	N	F	K	K	S	L	T	S	I	A	L	R	K	G	Y	F	D	S	E	F	T	K	A	Q	L	G	I	A	L	G	L	H	K	A	F	W	D
Secondary structure
SS confidence
Disorder									?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	D	Y	N	S	G	E	R	Y	R	F	G	H	V	T	F	E	G	S	Q	I	R	D	E	Y	L	Q	N	L	V	P	F	K	E	G	D	E	Y	E	S	K	D	L	A	E	L	N	R	R	L	S	A	T	G	W	F	N	S	V	V
Secondary structure
SS confidence
Disorder																																																					?	?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	A	P	Q	F	D	K	A	R	E	T	K	V	L	P	L	T	G	V	V	S	P	R	T	E	N	T	I	E	T	G	V	G	Y	S	T	D	V	G	P	R	V	K	A	T	W	K	K	P	W	M	N	S	Y	G	H	S	L	T	T
Secondary structure
SS confidence
Disorder			?	?	?	?	?	?	?	?	?	?														?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		S	T	S	I	S	A	P	E	Q	T	L	D	F	S	Y	K	M	P	L	L	K	N	P	L	E	Q	Y	Y	L	V	Q	G	G	F	K	R	T	D	L	N	D	T	E	S	D	S	T	T	L	V	A	S	R	Y	W	D	L	S	S	G
Secondary structure
SS confidence
Disorder						?	?	?	?																	?	?													?	?	?																		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		W	Q	R	A	I	N	L	R	W	S	L	D	H	F	T	Q	G	E	I	T	N	T	T	M	L	F	Y	P	G	V	M	I	S	R	T	R	S	R	G	G	L	M	P	T	W	G	D	S	Q	R	Y	S	I	D	Y	S	N	T	A	W
Secondary structure
SS confidence
Disorder																																																										?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		G	S	D	V	D	F	S	V	F	Q	A	Q	N	V	W	I	R	T	L	Y	D	R	H	R	F	V	T	R	G	T	L	G	W	I	E	T	G	D	F	D	K	V	P	P	D	L	R	F	F	A	G	G	D	R	S	I	R	G	Y	K
Secondary structure
SS confidence
Disorder																																																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		Y	K	S	I	A	P	K	Y	A	N	G	D	L	K	G	A	S	K	L	I	T	G	S	L	E	Y	Q	Y	N	V	T	G	K	W	W	G	A	V	F	V	D	S	G	E	A	V	S	D	I	R	R	S	D	F	K	T	G	T	G	V
Secondary structure
SS confidence
Disorder		?			?		?			?			?																																							?
Disorder confidence
		.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.
Sequence		G	V	R	W	E	S	P	V	G	P	I	K	L	D	F	A	V	P	V	A	D	K	D	E	H	G	L	Q	F	Y	I	G	L	G	P	E	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 2qdz chain A Region: 98 - 574 Aligned: 448 Modelled: 477 Confidence: 100.0% Identity: 15% PDB header:protein transport Chain: A: PDB Molecule:tpsb transporter fhac; PDBTitle: structure of the membrane protein fhac: a member of the2 omp85/tpsb transporter family Phyre2 PDB 3efc chain A Region: 25 - 268 Aligned: 243 Modelled: 244 Confidence: 100.0% Identity: 14% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein assembly factor yaet; PDBTitle: crystal structure of yaet periplasmic domain Phyre2 PDB 2x8x chain X Region: 25 - 265 Aligned: 225 Modelled: 241 Confidence: 100.0% Identity: 18% PDB header:chaperone Chain: X: PDB Molecule:tlr1789 protein; PDBTitle: structure of the n-terminal domain of omp85 from the2 thermophilic cyanobacterium thermosynechococcus elongatus Phyre2 PDB 3mc8 chain A Region: 25 - 264 Aligned: 229 Modelled: 240 Confidence: 100.0% Identity: 17% PDB header:membrane protein Chain: A: PDB Molecule:alr2269 protein; PDBTitle: potra1-3 of the periplasmic domain of omp85 from anabaena Phyre2 PDB 2qcz chain A Region: 25 - 269 Aligned: 229 Modelled: 245 Confidence: 100.0% Identity: 16% PDB header:membrane protein, protein transport Chain: A: PDB Molecule:outer membrane protein assembly factor yaet; PDBTitle: structure of n-terminal domain of e. coli yaet Phyre2 PDB 3og5 chain A Region: 100 - 263 Aligned: 159 Modelled: 164 Confidence: 99.9% Identity: 16% PDB header:protein binding Chain: A: PDB Molecule:outer membrane protein assembly complex, yaet protein; PDBTitle: crystal structure of bama potra45 tandem Phyre2 PDB 2v9h chain A Region: 25 - 187 Aligned: 146 Modelled: 163 Confidence: 99.4% Identity: 14% PDB header:protein-binding Chain: A: PDB Molecule:outer membrane protein assembly factor yaet; PDBTitle: solution structure of an escherichia coli yaet tandem potra2 domain Phyre2 PDB 2vh2 chain A Region: 191 - 279 Aligned: 82 Modelled: 89 Confidence: 90.6% Identity: 10% PDB header:cell cycle Chain: A: PDB Molecule:cell division protein ftsq; PDBTitle: crystal structure of cell divison protein ftsq from2 yersinia enterecolitica Phyre2 PDB 1vqz chain A domain 1 Region: 175 - 240 Aligned: 63 Modelled: 66 Confidence: 89.2% Identity: 14% Fold: SufE/NifU Superfamily: SufE/NifU Family: SP1160 C-terminal domain-like Phyre2 PDB 1vqz chain A Region: 137 - 240 Aligned: 101 Modelled: 104 Confidence: 87.4% Identity: 11% PDB header:ligase Chain: A: PDB Molecule:lipoate-protein ligase, putative; PDBTitle: crystal structure of a putative lipoate-protein ligase a (sp_1160)2 from streptococcus pneumoniae tigr4 at 1.99 a resolution Phyre2 PDB 2vh1 chain A Region: 193 - 279 Aligned: 80 Modelled: 87 Confidence: 78.6% Identity: 14% PDB header:cell cycle Chain: A: PDB Molecule:cell division protein ftsq; PDBTitle: crystal structure of bacterial cell division protein ftsq2 from e.coli Phyre2 PDB 1x2g chain A domain 1 Region: 175 - 231 Aligned: 54 Modelled: 57 Confidence: 72.6% Identity: 15% Fold: SufE/NifU Superfamily: SufE/NifU Family: SP1160 C-terminal domain-like Phyre2 PDB 1x2g chain B Region: 173 - 231 Aligned: 56 Modelled: 59 Confidence: 42.2% Identity: 14% PDB header:ligase Chain: B: PDB Molecule:lipoate-protein ligase a; PDBTitle: crystal structure of lipate-protein ligase a from2 escherichia coli Phyre2 PDB 2k4v chain A Region: 186 - 225 Aligned: 40 Modelled: 40 Confidence: 29.9% Identity: 13% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein pa1076; PDBTitle: solution structure of uncharacterized protein pa1076 from2 pseudomonas aeruginosa. northeast structural genomics3 consortium (nesg) target pat3, ontario center for4 structural proteomics target pa1076 . Phyre2 PDB 2h7a chain A domain 1 Region: 52 - 75 Aligned: 24 Modelled: 24 Confidence: 17.8% Identity: 17% Fold: YcgL-like Superfamily: YcgL-like Family: YcgL-like Phyre2 PDB 3e19 chain D Region: 209 - 256 Aligned: 48 Modelled: 48 Confidence: 14.6% Identity: 10% PDB header:transcription regulator, metal binding p Chain: D: PDB Molecule:feoa; PDBTitle: crystal structure of iron uptake regulatory protein (feoa) solved by2 sulfur sad in a monoclinic space group Phyre2 PDB 1p4t chain A Region: 252 - 394 Aligned: 142 Modelled: 143 Confidence: 13.6% Identity: 6% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1m6y chain A domain 1 Region: 477 - 496 Aligned: 20 Modelled: 20 Confidence: 13.3% Identity: 25% Fold: SAM domain-like Superfamily: Putative methyltransferase TM0872, insert domain Family: Putative methyltransferase TM0872, insert domain Phyre2 PDB 2fna chain A domain 1 Region: 206 - 237 Aligned: 32 Modelled: 32 Confidence: 9.4% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Helicase DNA-binding domain Phyre2 PDB 1nij chain A domain 2 Region: 135 - 211 Aligned: 77 Modelled: 77 Confidence: 9.1% Identity: 14% Fold: Hypothetical protein YjiA, C-terminal domain Superfamily: Hypothetical protein YjiA, C-terminal domain Family: Hypothetical protein YjiA, C-terminal domain Phyre2 1 c2qdzA_ 2 c3efcA_ 3 c2x8xX_ 4 c3mc8A_ 5 c2qczA_ 6 c3og5A_ 7 c2v9hA_ 8 c2vh2A_ 9 d1vqza1 10 c1vqzA_ 11 c2vh1A_ 12 d1x2ga1 13 c1x2gB_ 14 c2k4vA_ 15 d2h7aa1 16 c3e19D_ 17 d1p4ta_ 18 d1m6ya1 19 d2fnaa1 20 d1nija2 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35

Detailed template information

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

1 c2qdzA_ 100.0 15 PDB header:protein transport Chain: A: PDB Molecule:tpsb transporter fhac; PDBTitle: structure of the membrane protein fhac: a member of the2 omp85/tpsb transporter family 2 c3efcA_ 100.0 14 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein assembly factor yaet; PDBTitle: crystal structure of yaet periplasmic domain 3 c2x8xX_ 100.0 18 PDB header:chaperone Chain: X: PDB Molecule:tlr1789 protein; PDBTitle: structure of the n-terminal domain of omp85 from the2 thermophilic cyanobacterium thermosynechococcus elongatus 4 c3mc8A_ 100.0 17 PDB header:membrane protein Chain: A: PDB Molecule:alr2269 protein; PDBTitle: potra1-3 of the periplasmic domain of omp85 from anabaena 5 c2qczA_ 100.0 16 PDB header:membrane protein, protein transport Chain: A: PDB Molecule:outer membrane protein assembly factor yaet; PDBTitle: structure of n-terminal domain of e. coli yaet 6 c3og5A_ 99.9 16 PDB header:protein binding Chain: A: PDB Molecule:outer membrane protein assembly complex, yaet protein; PDBTitle: crystal structure of bama potra45 tandem 7 c2v9hA_ 99.4 14 PDB header:protein-binding Chain: A: PDB Molecule:outer membrane protein assembly factor yaet; PDBTitle: solution structure of an escherichia coli yaet tandem potra2 domain 8 c2vh2A_ 90.6 10 PDB header:cell cycle Chain: A: PDB Molecule:cell division protein ftsq; PDBTitle: crystal structure of cell divison protein ftsq from2 yersinia enterecolitica 9 d1vqza1 89.2 14 Fold:SufE/NifU Superfamily:SufE/NifU Family:SP1160 C-terminal domain-like 10 c1vqzA_ 87.4 11 PDB header:ligase Chain: A: PDB Molecule:lipoate-protein ligase, putative; PDBTitle: crystal structure of a putative lipoate-protein ligase a (sp_1160)2 from streptococcus pneumoniae tigr4 at 1.99 a resolution 11 c2vh1A_ 78.6 14 PDB header:cell cycle Chain: A: PDB Molecule:cell division protein ftsq; PDBTitle: crystal structure of bacterial cell division protein ftsq2 from e.coli 12 d1x2ga1 72.6 15 Fold:SufE/NifU Superfamily:SufE/NifU Family:SP1160 C-terminal domain-like 13 c1x2gB_ 42.2 14 PDB header:ligase Chain: B: PDB Molecule:lipoate-protein ligase a; PDBTitle: crystal structure of lipate-protein ligase a from2 escherichia coli 14 c2k4vA_ 29.9 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein pa1076; PDBTitle: solution structure of uncharacterized protein pa1076 from2 pseudomonas aeruginosa. northeast structural genomics3 consortium (nesg) target pat3, ontario center for4 structural proteomics target pa1076 . 15 d2h7aa1 17.8 17 Fold:YcgL-like Superfamily:YcgL-like Family:YcgL-like 16 c3e19D_ 14.6 10 PDB header:transcription regulator, metal binding p Chain: D: PDB Molecule:feoa; PDBTitle: crystal structure of iron uptake regulatory protein (feoa) solved by2 sulfur sad in a monoclinic space group 17 d1p4ta_ 13.6 6 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 18 d1m6ya1 13.3 25 Fold:SAM domain-like Superfamily:Putative methyltransferase TM0872, insert domain Family:Putative methyltransferase TM0872, insert domain 19 d2fnaa1 9.4 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Helicase DNA-binding domain 20 d1nija2 9.1 14 Fold:Hypothetical protein YjiA, C-terminal domain Superfamily:Hypothetical protein YjiA, C-terminal domain Family:Hypothetical protein YjiA, C-terminal domain 21 d2gcxa1 not modelled 9.1 8 Fold:SH3-like barrel Superfamily:C-terminal domain of transcriptional repressors Family:FeoA-like 22 c2y50A_ not modelled 8.8 19 PDB header:hydrolase Chain: A: PDB Molecule:collagenase; PDBTitle: crystal structure of collagenase g from clostridium2 histolyticum at 2.80 angstrom resolution 23 d2fsqa1 not modelled 8.4 22 Fold:LigT-like Superfamily:LigT-like Family:Atu0111-like 24 d1vqqa1 not modelled 7.8 9 Fold:Cystatin-like Superfamily:NTF2-like Family:Penicillin binding protein 2a (PBP2A), N-terminal domain 25 c2k0lA_ not modelled 7.7 14 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein a; PDBTitle: nmr structure of the transmembrane domain of the outer2 membrane protein a from klebsiella pneumoniae in dhpc3 micelles. 26 c3hrlA_ not modelled 7.4 30 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:endonuclease-like protein; PDBTitle: crystal structure of a putative endonuclease-like protein (ngo0050)2 from neisseria gonorrhoeae 27 d1ssna_ not modelled 7.4 17 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 28 d1wg8a1 not modelled 7.4 32 Fold:SAM domain-like Superfamily:Putative methyltransferase TM0872, insert domain Family:Putative methyltransferase TM0872, insert domain 29 c3bd0D_ not modelled 7.3 17 PDB header:peptide binding protein Chain: D: PDB Molecule:protein memo1; PDBTitle: crystal structure of memo, form ii 30 c1bmlD_ not modelled 7.3 14 PDB header:blood clotting Chain: D: PDB Molecule:streptokinase; PDBTitle: complex of the catalytic domain of human plasmin and streptokinase 31 d1g90a_ not modelled 6.0 12 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 32 d1seia_ not modelled 6.0 23 Fold:Ribosomal protein S8 Superfamily:Ribosomal protein S8 Family:Ribosomal protein S8 33 c3kvnA_ not modelled 5.7 10 PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa 34 c3fpnB_ not modelled 5.6 16 PDB header:dna binding protein Chain: B: PDB Molecule:geobacillus stearothermophilus uvrb interaction PDBTitle: crystal structure of uvra-uvrb interaction domains 35 c1nijA_ not modelled 5.2 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein yjia; PDBTitle: yjia protein

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

---

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