Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	N	W	K	T	L	L	L	G	I	A	M	I	A	N	T	S	F	A	A	P	Q	V	V	D	K	V	A	A	V	V	N	N	G	V	V	L	E	S	D	V	D	G	L	M	Q	S	V	K	L	N	A	A	Q	A	R	Q	Q	L
Secondary structure
SS confidence
Disorder		?	?	?															?	?	?	?	?	?	?	?	?																											?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		P	D	D	A	T	L	R	H	Q	I	M	E	R	L	I	M	D	Q	I	I	L	Q	M	G	Q	K	M	G	V	K	I	S	D	E	Q	L	D	Q	A	I	A	N	I	A	K	Q	N	N	M	T	L	D	Q	M	R	S	R	L	A	Y
Secondary structure
SS confidence
Disorder		?	?																									?	?	?	?	?																?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	G	L	N	Y	N	T	Y	R	N	Q	I	R	K	E	M	I	I	S	E	V	R	N	N	E	V	R	R	R	I	T	I	L	P	Q	E	V	E	S	L	A	Q	Q	V	G	N	Q	N	D	A	S	T	E	L	N	L	S	H	I	L
Secondary structure
SS confidence
Disorder		?	?																								?	?	?	?		?	?															?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	P	L	P	E	N	P	T	S	D	Q	V	N	E	A	E	S	Q	A	R	A	I	V	D	Q	A	R	N	G	A	D	F	G	K	L	A	I	A	H	S	A	D	Q	Q	A	L	N	G	G	Q	M	G	W	G	R	I	Q	E	L	P
Secondary structure
SS confidence
Disorder						?	?	?	?																				?			?										?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	I	F	A	Q	A	L	S	T	A	K	K	G	D	I	V	G	P	I	R	S	G	V	G	F	H	I	L	K	V	N	D	L	R	G	E	S	K	N	I	S	V	T	E	V	H	A	R	H	I	L	L	K	P	S	P	I	M	T	D
Secondary structure
SS confidence
Disorder													?	?	?			?																?		?	?	?	?	?	?													?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		E	Q	A	R	V	K	L	E	Q	I	A	A	D	I	K	S	G	K	T	T	F	A	A	A	A	K	E	F	S	Q	D	P	G	S	A	N	Q	G	G	D	L	G	W	A	T	P	D	I	F	D	P	A	F	R	D	A	L	T	R	L
Secondary structure
SS confidence
Disorder																															?	?	?	?	?	?	?	?	?	?	?						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		N	K	G	Q	M	S	A	P	V	H	S	S	F	G	W	H	L	I	E	L	L	D	T	R	N	V	D	K	T	D	A	A	Q	K	D	R	A	Y	R	M	L	M	N	R	K	F	S	E	E	A	A	S	W	M	Q	E	Q	R	A	S
Secondary structure
SS confidence
Disorder			?																							?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.
Sequence		A	Y	V	K	I	L	S	N
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 1m5y chain B Region: 25 - 427 Aligned: 377 Modelled: 395 Confidence: 100.0% Identity: 97% PDB header:isomerase, cell cycle Chain: B: PDB Molecule:survival protein sura; PDBTitle: crystallographic structure of sura, a molecular chaperone2 that facilitates outer membrane porin folding Phyre2 PDB 2pv3 chain B Region: 25 - 427 Aligned: 284 Modelled: 292 Confidence: 100.0% Identity: 84% PDB header:isomerase Chain: B: PDB Molecule:chaperone sura; PDBTitle: crystallographic structure of sura fragment lacking the second2 peptidyl-prolyl isomerase domain complexed with peptide nftlkfwdifrk Phyre2 PDB 3nrk chain A Region: 25 - 428 Aligned: 290 Modelled: 293 Confidence: 100.0% Identity: 16% PDB header:unknown function Chain: A: PDB Molecule:lic12922; PDBTitle: the crystal structure of the leptospiral hypothetical protein lic12922 Phyre2 PDB 3rgc chain B Region: 26 - 426 Aligned: 248 Modelled: 247 Confidence: 100.0% Identity: 22% PDB header:chaperone Chain: B: PDB Molecule:possible periplasmic protein; PDBTitle: the virulence factor peb4 and the periplasmic protein cj1289 are two2 structurally related sura-like chaperones in the human pathogen3 campylobacter jejuni Phyre2 PDB 3rfw chain A Region: 28 - 425 Aligned: 248 Modelled: 248 Confidence: 100.0% Identity: 25% PDB header:chaperone Chain: A: PDB Molecule:cell-binding factor 2; PDBTitle: the virulence factor peb4 and the periplasmic protein cj1289 are two2 structurally-related sura-like chaperones in the human pathogen3 campylobacter jejuni Phyre2 PDB 1m5y chain A domain 1 Region: 25 - 196 Aligned: 166 Modelled: 172 Confidence: 99.9% Identity: 86% Fold: Triger factor/SurA peptide-binding domain-like Superfamily: Triger factor/SurA peptide-binding domain-like Family: Porin chaperone SurA, peptide-binding domain Phyre2 PDB 1f8a chain B Region: 229 - 382 Aligned: 152 Modelled: 154 Confidence: 99.8% Identity: 23% PDB header:isomerase Chain: B: PDB Molecule:peptidyl-prolyl cis-trans isomerase nima- PDBTitle: structural basis for the phosphoserine-proline recognition2 by group iv ww domains Phyre2 PDB 1m5y chain A domain 3 Region: 284 - 385 Aligned: 102 Modelled: 102 Confidence: 99.8% Identity: 100% Fold: FKBP-like Superfamily: FKBP-like Family: FKBP immunophilin/proline isomerase Phyre2 PDB 1yw5 chain A Region: 281 - 382 Aligned: 101 Modelled: 102 Confidence: 99.8% Identity: 21% PDB header:isomerase Chain: A: PDB Molecule:peptidyl prolyl cis/trans isomerase; PDBTitle: peptidyl-prolyl isomerase ess1 from candida albicans Phyre2 PDB 2jzv chain A Region: 293 - 382 Aligned: 90 Modelled: 90 Confidence: 99.7% Identity: 33% PDB header:isomerase Chain: A: PDB Molecule:foldase protein prsa; PDBTitle: solution structure of s. aureus prsa-ppiase Phyre2 PDB 2pv2 chain A domain 1 Region: 173 - 274 Aligned: 102 Modelled: 102 Confidence: 99.7% Identity: 100% Fold: FKBP-like Superfamily: FKBP-like Family: FKBP immunophilin/proline isomerase Phyre2 PDB 1pin chain A domain 2 Region: 164 - 272 Aligned: 109 Modelled: 109 Confidence: 99.7% Identity: 21% Fold: FKBP-like Superfamily: FKBP-like Family: FKBP immunophilin/proline isomerase Phyre2 PDB 1j6y chain A Region: 168 - 270 Aligned: 103 Modelled: 103 Confidence: 99.6% Identity: 26% Fold: FKBP-like Superfamily: FKBP-like Family: FKBP immunophilin/proline isomerase Phyre2 PDB 3gpk chain A Region: 172 - 282 Aligned: 107 Modelled: 111 Confidence: 99.6% Identity: 27% PDB header:isomerase Chain: A: PDB Molecule:ppic-type peptidyl-prolyl cis-trans isomerase; PDBTitle: crystal structure of ppic-type peptidyl-prolyl cis-trans isomerase2 domain at 1.55a resolution. Phyre2 PDB 1jns chain A Region: 304 - 383 Aligned: 78 Modelled: 80 Confidence: 99.6% Identity: 31% Fold: FKBP-like Superfamily: FKBP-like Family: FKBP immunophilin/proline isomerase Phyre2 PDB 2rqs chain A Region: 304 - 382 Aligned: 78 Modelled: 79 Confidence: 99.6% Identity: 37% PDB header:isomerase Chain: A: PDB Molecule:parvulin-like peptidyl-prolyl isomerase; PDBTitle: 3d structure of pin from the psychrophilic archeon cenarcheaum2 symbiosum (cspin) Phyre2 PDB 1eq3 chain A Region: 307 - 384 Aligned: 75 Modelled: 78 Confidence: 99.5% Identity: 35% Fold: FKBP-like Superfamily: FKBP-like Family: FKBP immunophilin/proline isomerase Phyre2 PDB 2kgj chain A Region: 304 - 386 Aligned: 81 Modelled: 83 Confidence: 99.5% Identity: 32% PDB header:isomerase Chain: A: PDB Molecule:peptidyl-prolyl cis-trans isomerase d; PDBTitle: solution structure of parvulin domain of ppid from e.coli Phyre2 PDB 1zk6 chain A Region: 304 - 383 Aligned: 79 Modelled: 80 Confidence: 99.5% Identity: 28% PDB header:isomerase Chain: A: PDB Molecule:foldase protein prsa; PDBTitle: nmr solution structure of b. subtilis prsa ppiase Phyre2 PDB 2nsa chain A Region: 36 - 143 Aligned: 108 Modelled: 108 Confidence: 97.3% Identity: 15% PDB header:chaperone Chain: A: PDB Molecule:trigger factor; PDBTitle: structures of and interactions between domains of trigger factor from2 themotoga maritim Phyre2 1 c1m5yB_ 2 c2pv3B_ 3 c3nrkA_ 4 c3rgcB_ 5 c3rfwA_ 6 d1m5ya1 7 c1f8aB_ 8 d1m5ya3 9 c1yw5A_ 10 c2jzvA_ 11 d2pv2a1 12 d1pina2 13 d1j6ya_ 14 c3gpkA_ 15 d1jnsa_ 16 c2rqsA_ 17 d1eq3a_ 18 c2kgjA_ 19 c1zk6A_ 20 c2nsaA_ 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

Detailed template information

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

1 c1m5yB_ 100.0 97 PDB header:isomerase, cell cycle Chain: B: PDB Molecule:survival protein sura; PDBTitle: crystallographic structure of sura, a molecular chaperone2 that facilitates outer membrane porin folding 2 c2pv3B_ 100.0 84 PDB header:isomerase Chain: B: PDB Molecule:chaperone sura; PDBTitle: crystallographic structure of sura fragment lacking the second2 peptidyl-prolyl isomerase domain complexed with peptide nftlkfwdifrk 3 c3nrkA_ 100.0 16 PDB header:unknown function Chain: A: PDB Molecule:lic12922; PDBTitle: the crystal structure of the leptospiral hypothetical protein lic12922 4 c3rgcB_ 100.0 22 PDB header:chaperone Chain: B: PDB Molecule:possible periplasmic protein; PDBTitle: the virulence factor peb4 and the periplasmic protein cj1289 are two2 structurally related sura-like chaperones in the human pathogen3 campylobacter jejuni 5 c3rfwA_ 100.0 25 PDB header:chaperone Chain: A: PDB Molecule:cell-binding factor 2; PDBTitle: the virulence factor peb4 and the periplasmic protein cj1289 are two2 structurally-related sura-like chaperones in the human pathogen3 campylobacter jejuni 6 d1m5ya1 99.9 86 Fold:Triger factor/SurA peptide-binding domain-like Superfamily:Triger factor/SurA peptide-binding domain-like Family:Porin chaperone SurA, peptide-binding domain 7 c1f8aB_ 99.8 23 PDB header:isomerase Chain: B: PDB Molecule:peptidyl-prolyl cis-trans isomerase nima- PDBTitle: structural basis for the phosphoserine-proline recognition2 by group iv ww domains 8 d1m5ya3 99.8 100 Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase 9 c1yw5A_ 99.8 21 PDB header:isomerase Chain: A: PDB Molecule:peptidyl prolyl cis/trans isomerase; PDBTitle: peptidyl-prolyl isomerase ess1 from candida albicans 10 c2jzvA_ 99.7 33 PDB header:isomerase Chain: A: PDB Molecule:foldase protein prsa; PDBTitle: solution structure of s. aureus prsa-ppiase 11 d2pv2a1 99.7 100 Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase 12 d1pina2 99.7 21 Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase 13 d1j6ya_ 99.6 26 Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase 14 c3gpkA_ 99.6 27 PDB header:isomerase Chain: A: PDB Molecule:ppic-type peptidyl-prolyl cis-trans isomerase; PDBTitle: crystal structure of ppic-type peptidyl-prolyl cis-trans isomerase2 domain at 1.55a resolution. 15 d1jnsa_ 99.6 31 Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase 16 c2rqsA_ 99.6 37 PDB header:isomerase Chain: A: PDB Molecule:parvulin-like peptidyl-prolyl isomerase; PDBTitle: 3d structure of pin from the psychrophilic archeon cenarcheaum2 symbiosum (cspin) 17 d1eq3a_ 99.5 35 Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase 18 c2kgjA_ 99.5 32 PDB header:isomerase Chain: A: PDB Molecule:peptidyl-prolyl cis-trans isomerase d; PDBTitle: solution structure of parvulin domain of ppid from e.coli 19 c1zk6A_ 99.5 28 PDB header:isomerase Chain: A: PDB Molecule:foldase protein prsa; PDBTitle: nmr solution structure of b. subtilis prsa ppiase 20 c2nsaA_ 97.3 15 PDB header:chaperone Chain: A: PDB Molecule:trigger factor; PDBTitle: structures of and interactions between domains of trigger factor from2 themotoga maritim 21 c3gtyX_ not modelled 97.0 13 PDB header:chaperone/ribosomal protein Chain: X: PDB Molecule:trigger factor; PDBTitle: promiscuous substrate recognition in folding and assembly activities2 of the trigger factor chaperone 22 d1w26a1 not modelled 96.8 15 Fold:Triger factor/SurA peptide-binding domain-like Superfamily:Triger factor/SurA peptide-binding domain-like Family:TF C-terminus 23 c1w26B_ not modelled 96.2 12 PDB header:chaperone Chain: B: PDB Molecule:trigger factor; PDBTitle: trigger factor in complex with the ribosome forms a2 molecular cradle for nascent proteins 24 d1t11a1 not modelled 93.7 16 Fold:Triger factor/SurA peptide-binding domain-like Superfamily:Triger factor/SurA peptide-binding domain-like Family:TF C-terminus 25 c1t11A_ not modelled 91.6 16 PDB header:chaperone Chain: A: PDB Molecule:trigger factor; PDBTitle: trigger factor 26 d1sknp_ not modelled 20.8 18 Fold:A DNA-binding domain in eukaryotic transcription factors Superfamily:A DNA-binding domain in eukaryotic transcription factors Family:A DNA-binding domain in eukaryotic transcription factors 27 c2kz5A_ not modelled 17.8 16 PDB header:transcription Chain: A: PDB Molecule:transcription factor nf-e2 45 kda subunit; PDBTitle: solution nmr structure of transcription factor nf-e2 subunit's dna2 binding domain from homo sapiens, northeast structural genomics3 consortium target hr4653b 28 d1rwsa_ not modelled 17.7 44 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:ThiS 29 d1a75a_ not modelled 15.6 7 Fold:EF Hand-like Superfamily:EF-hand Family:Parvalbumin 30 d1etob_ not modelled 11.1 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 31 d1p5dx4 not modelled 10.7 14 Fold:TBP-like Superfamily:Phosphoglucomutase, C-terminal domain Family:Phosphoglucomutase, C-terminal domain 32 c2kycA_ not modelled 10.1 6 PDB header:calcium binding protein Chain: A: PDB Molecule:parvalbumin, thymic cpv3; PDBTitle: solution structure of ca-free chicken parvalbumin 3 (cpv3) 33 d1zata2 not modelled 8.8 15 Fold:L,D-transpeptidase pre-catalytic domain-like Superfamily:L,D-transpeptidase pre-catalytic domain-like Family:L,D-transpeptidase pre-catalytic domain-like 34 c1q6uA_ not modelled 7.5 19 PDB header:isomerase Chain: A: PDB Molecule:fkbp-type peptidyl-prolyl cis-trans isomerase fkpa; PDBTitle: crystal structure of fkpa from escherichia coli 35 c3fs7D_ not modelled 7.3 6 PDB header:metal binding protein Chain: D: PDB Molecule:parvalbumin, thymic; PDBTitle: crystal structure of gallus gallus beta-parvalbumin (avian2 thymic hormone) 36 d1dq3a2 not modelled 7.0 9 Fold:dsRBD-like Superfamily:YcfA/nrd intein domain Family:PI-Pfui intein middle domain 37 d1stza1 not modelled 6.9 5 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Heat-inducible transcription repressor HrcA, N-terminal domain 38 d1bu3a_ not modelled 6.7 4 Fold:EF Hand-like Superfamily:EF-hand Family:Parvalbumin 39 c3r9jD_ not modelled 6.6 17 PDB header:cell cycle,hydrolase/cell cycle Chain: D: PDB Molecule:cell division topological specificity factor; PDBTitle: 4.3a resolution structure of a mind-mine(i24n) protein complex 40 c3c04A_ not modelled 6.6 10 PDB header:isomerase Chain: A: PDB Molecule:phosphomannomutase/phosphoglucomutase; PDBTitle: structure of the p368g mutant of pmm/pgm from p. aeruginosa 41 d1wdcb_ not modelled 6.5 9 Fold:EF Hand-like Superfamily:EF-hand Family:Calmodulin-like 42 c3nr7A_ not modelled 6.3 23 PDB header:dna binding protein Chain: A: PDB Molecule:dna-binding protein h-ns; PDBTitle: crystal structure of s. typhimurium h-ns 1-83 43 d2jnaa1 not modelled 6.1 20 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 44 d1u2ma_ not modelled 6.0 18 Fold:OmpH-like Superfamily:OmpH-like Family:OmpH-like 45 d1rwya_ not modelled 5.9 9 Fold:EF Hand-like Superfamily:EF-hand Family:Parvalbumin 46 d2pvba_ not modelled 5.8 7 Fold:EF Hand-like Superfamily:EF-hand Family:Parvalbumin 47 d2jn6a1 not modelled 5.6 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Cgl2762-like 48 c3id5E_ not modelled 5.4 7 PDB header:transferase/ribosomal protein/rna Chain: E: PDB Molecule:pre mrna splicing protein; PDBTitle: crystal structure of sulfolobus solfataricus c/d rnp assembled with2 nop5, fibrillarin, l7ae and a split half c/d rna

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