Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	G	Y	T	V	K	P	P	T	G	D	T	N	E	Q	T	Q	F	I	D	Y	F	N	L	F	Y	S	K	R	G	Q	E	Q	I	S	I	S	Q	Q	L	G	N	Y	G	T	T	F	F	S	A	S	R	Q	S	Y	W	N	T	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?				?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																							?		?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	S	D	Q	Q	I	S	F	G	L	N	V	P	F	G	D	I	T	T	S	L	N	Y	S	Y	S	N	N	I	W	Q	N	D	R	D	H	L	L	A	F	T	L	N	V	P	F	S	H	W	M	R	T	D	S	Q	S	A	F	R	N
Secondary structure
SS confidence
Disorder		?	?	?																								?	?	?	?	?	?	?	?	?													?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	N	A	S	Y	S	M	S	N	D	L	K	G	G	M	T	N	L	S	G	V	Y	G	T	L	L	P	D	N	N	L	N	Y	S	V	Q	V	G	N	T	H	G	G	N	T	S	S	G	T	S	G	Y	S	S	L	N	Y	R	G	A
Secondary structure
SS confidence
Disorder		?									?	?	?	?	?	?									?	?	?	?	?	?	?								?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		Y	G	N	T	N	V	G	Y	S	R	S	G	D	S	S	Q	I	Y	Y	G	M	S	G	G	I	I	A	H	A	D	G	I	T	F	G	Q	P	L	G	D	T	M	V	L	V	K	A	P	G	A	D	N	V	K	I	E	N	Q	T	G
Secondary structure
SS confidence
Disorder												?	?	?	?																																				?	?		?			?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		I	H	T	D	W	R	G	Y	A	I	L	P	F	A	T	E	Y	R	E	N	R	V	A	L	N	A	N	S	L	A	D	N	V	E	L	D	E	T	V	V	T	V	I	P	T	H	G	A	I	A	R	A	T	F	N	A	Q	I	G	G
Secondary structure
SS confidence
Disorder		?																		?										?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		K	V	L	M	T	L	K	Y	G	N	K	S	V	P	F	G	A	I	V	T	H	G	E	N	K	N	G	S	I	V	A	E	N	G	Q	V	Y	L	T	G	L	P	Q	S	G	Q	L	Q	V	S	W	G	K	D	K	N	S	N	C	I
Secondary structure
SS confidence
Disorder																						?			?																			?	?	?										?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.
Sequence		V	E	Y	K	L	P	E	V	S	P	G	T	L	L	N	Q	Q	T	A	I	C	R
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 3rfz chain B Region: 1 - 382 Aligned: 379 Modelled: 382 Confidence: 100.0% Identity: 56% PDB header:cell adhesion/transport/chaperone Chain: B: PDB Molecule:outer membrane usher protein, type 1 fimbrial synthesis; PDBTitle: crystal structure of the fimd usher bound to its cognate fimc:fimh2 substrate Phyre2 PDB 3ohn chain A Region: 2 - 205 Aligned: 188 Modelled: 190 Confidence: 99.9% Identity: 55% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane usher protein fimd; PDBTitle: crystal structure of the fimd translocation domain Phyre2 PDB 2xet chain B Region: 301 - 381 Aligned: 81 Modelled: 81 Confidence: 99.9% Identity: 40% PDB header:transport protein Chain: B: PDB Molecule:f1 capsule-anchoring protein; PDBTitle: conserved hydrophobic clusters on the surface of the caf1a usher2 c-terminal domain are important for f1 antigen assembly Phyre2 PDB 2vqi chain A Region: 1 - 209 Aligned: 192 Modelled: 195 Confidence: 99.8% Identity: 16% PDB header:transport Chain: A: PDB Molecule:outer membrane usher protein papc; PDBTitle: structure of the p pilus usher (papc) translocation pore Phyre2 PDB 3l48 chain B Region: 299 - 382 Aligned: 78 Modelled: 82 Confidence: 99.8% Identity: 29% PDB header:transport protein Chain: B: PDB Molecule:outer membrane usher protein papc; PDBTitle: crystal structure of the c-terminal domain of the papc usher Phyre2 PDB 2x5p chain A Region: 287 - 350 Aligned: 60 Modelled: 64 Confidence: 37.0% Identity: 18% PDB header:protein binding Chain: A: PDB Molecule:fibronectin binding protein; PDBTitle: crystal structure of the streptococcus pyogenes fibronectin binding2 protein fbab-b Phyre2 PDB 1aoz chain A domain 2 Region: 294 - 382 Aligned: 80 Modelled: 89 Confidence: 32.0% Identity: 9% Fold: Cupredoxin-like Superfamily: Cupredoxins Family: Multidomain cupredoxins Phyre2 PDB 1uwy chain A domain 1 Region: 302 - 380 Aligned: 78 Modelled: 79 Confidence: 30.9% Identity: 12% Fold: Prealbumin-like Superfamily: Carboxypeptidase regulatory domain-like Family: Carboxypeptidase regulatory domain Phyre2 PDB 2nsm chain A Region: 302 - 370 Aligned: 67 Modelled: 69 Confidence: 27.3% Identity: 13% PDB header:hydrolase Chain: A: PDB Molecule:carboxypeptidase n catalytic chain; PDBTitle: crystal structure of the human carboxypeptidase n (kininase i)2 catalytic domain Phyre2 PDB 3nad chain B Region: 332 - 368 Aligned: 36 Modelled: 37 Confidence: 24.4% Identity: 19% PDB header:lyase Chain: B: PDB Molecule:ferulate decarboxylase; PDBTitle: crystal structure of phenolic acid decarboxylase from bacillus pumilus2 ui-670 Phyre2 PDB 2kyw chain A Region: 261 - 309 Aligned: 48 Modelled: 49 Confidence: 21.9% Identity: 25% PDB header:cell adhesion Chain: A: PDB Molecule:adhesion exoprotein; PDBTitle: solution nmr structure of a domain of adhesion exoprotein from2 pediococcus pentosaceus, northeast structural genomics consortium3 target ptr41o Phyre2 PDB 1nkg chain A domain 1 Region: 301 - 369 Aligned: 68 Modelled: 69 Confidence: 21.5% Identity: 10% Fold: Prealbumin-like Superfamily: Starch-binding domain-like Family: Rhamnogalacturonase B, RhgB, middle domain Phyre2 PDB 2je6 chain I domain 3 Region: 329 - 340 Aligned: 12 Modelled: 12 Confidence: 18.8% Identity: 33% Fold: Eukaryotic type KH-domain (KH-domain type I) Superfamily: Eukaryotic type KH-domain (KH-domain type I) Family: Eukaryotic type KH-domain (KH-domain type I) Phyre2 PDB 2ww8 chain A Region: 243 - 350 Aligned: 107 Modelled: 108 Confidence: 18.8% Identity: 12% PDB header:cell adhesion Chain: A: PDB Molecule:cell wall surface anchor family protein; PDBTitle: structure of the pilus adhesin (rrga) from streptococcus2 pneumoniae Phyre2 PDB 2ey4 chain C domain 1 Region: 304 - 332 Aligned: 29 Modelled: 29 Confidence: 18.2% Identity: 14% Fold: Reductase/isomerase/elongation factor common domain Superfamily: Translation proteins Family: Gar1-like SnoRNP Phyre2 PDB 2hvy chain B Region: 304 - 332 Aligned: 29 Modelled: 29 Confidence: 17.6% Identity: 14% PDB header:isomerase/biosynthetic protein/rna Chain: B: PDB Molecule:small nucleolar rnp similar to gar1; PDBTitle: crystal structure of an h/aca box rnp from pyrococcus furiosus Phyre2 PDB 1ci3 chain M domain 2 Region: 317 - 353 Aligned: 37 Modelled: 37 Confidence: 17.5% Identity: 27% Fold: Barrel-sandwich hybrid Superfamily: Rudiment single hybrid motif Family: Cytochrome f, small domain Phyre2 PDB 2ja9 chain A domain 2 Region: 329 - 347 Aligned: 19 Modelled: 19 Confidence: 15.5% Identity: 21% Fold: Eukaryotic type KH-domain (KH-domain type I) Superfamily: Eukaryotic type KH-domain (KH-domain type I) Family: Eukaryotic type KH-domain (KH-domain type I) Phyre2 PDB 3ila chain G Region: 337 - 378 Aligned: 42 Modelled: 42 Confidence: 15.4% Identity: 21% PDB header:signaling protein Chain: G: PDB Molecule:ryanodine receptor 1; PDBTitle: crystal structure of rabbit ryanodine receptor 1 n-terminal domain (9-2 205) Phyre2 PDB 1h8l chain A Region: 300 - 369 Aligned: 68 Modelled: 70 Confidence: 13.3% Identity: 9% PDB header:carboxypeptidase Chain: A: PDB Molecule:carboxypeptidase gp180 residues 503-882; PDBTitle: duck carboxypeptidase d domain ii in complex with gemsa Phyre2 1 c3rfzB_ 2 c3ohnA_ 3 c2xetB_ 4 c2vqiA_ 5 c3l48B_ 6 c2x5pA_ 7 d1aoza2 8 d1uwya1 9 c2nsmA_ 10 c3nadB_ 11 c2kywA_ 12 d1nkga1 13 d2je6i3 14 c2ww8A_ 15 d2ey4c1 16 c2hvyB_ 17 d1ci3m2 18 d2ja9a2 19 c3ilaG_ 20 c1h8lA_ 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 c3rfzB_ 100.0 56 PDB header:cell adhesion/transport/chaperone Chain: B: PDB Molecule:outer membrane usher protein, type 1 fimbrial synthesis; PDBTitle: crystal structure of the fimd usher bound to its cognate fimc:fimh2 substrate 2 c3ohnA_ 99.9 55 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane usher protein fimd; PDBTitle: crystal structure of the fimd translocation domain 3 c2xetB_ 99.9 40 PDB header:transport protein Chain: B: PDB Molecule:f1 capsule-anchoring protein; PDBTitle: conserved hydrophobic clusters on the surface of the caf1a usher2 c-terminal domain are important for f1 antigen assembly 4 c2vqiA_ 99.8 16 PDB header:transport Chain: A: PDB Molecule:outer membrane usher protein papc; PDBTitle: structure of the p pilus usher (papc) translocation pore 5 c3l48B_ 99.8 29 PDB header:transport protein Chain: B: PDB Molecule:outer membrane usher protein papc; PDBTitle: crystal structure of the c-terminal domain of the papc usher 6 c2x5pA_ 37.0 18 PDB header:protein binding Chain: A: PDB Molecule:fibronectin binding protein; PDBTitle: crystal structure of the streptococcus pyogenes fibronectin binding2 protein fbab-b 7 d1aoza2 32.0 9 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins 8 d1uwya1 30.9 12 Fold:Prealbumin-like Superfamily:Carboxypeptidase regulatory domain-like Family:Carboxypeptidase regulatory domain 9 c2nsmA_ 27.3 13 PDB header:hydrolase Chain: A: PDB Molecule:carboxypeptidase n catalytic chain; PDBTitle: crystal structure of the human carboxypeptidase n (kininase i)2 catalytic domain 10 c3nadB_ 24.4 19 PDB header:lyase Chain: B: PDB Molecule:ferulate decarboxylase; PDBTitle: crystal structure of phenolic acid decarboxylase from bacillus pumilus2 ui-670 11 c2kywA_ 21.9 25 PDB header:cell adhesion Chain: A: PDB Molecule:adhesion exoprotein; PDBTitle: solution nmr structure of a domain of adhesion exoprotein from2 pediococcus pentosaceus, northeast structural genomics consortium3 target ptr41o 12 d1nkga1 21.5 10 Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:Rhamnogalacturonase B, RhgB, middle domain 13 d2je6i3 18.8 33 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 14 c2ww8A_ 18.8 12 PDB header:cell adhesion Chain: A: PDB Molecule:cell wall surface anchor family protein; PDBTitle: structure of the pilus adhesin (rrga) from streptococcus2 pneumoniae 15 d2ey4c1 18.2 14 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:Gar1-like SnoRNP 16 c2hvyB_ 17.6 14 PDB header:isomerase/biosynthetic protein/rna Chain: B: PDB Molecule:small nucleolar rnp similar to gar1; PDBTitle: crystal structure of an h/aca box rnp from pyrococcus furiosus 17 d1ci3m2 17.5 27 Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain 18 d2ja9a2 15.5 21 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 19 c3ilaG_ 15.4 21 PDB header:signaling protein Chain: G: PDB Molecule:ryanodine receptor 1; PDBTitle: crystal structure of rabbit ryanodine receptor 1 n-terminal domain (9-2 205) 20 c1h8lA_ 13.3 9 PDB header:carboxypeptidase Chain: A: PDB Molecule:carboxypeptidase gp180 residues 503-882; PDBTitle: duck carboxypeptidase d domain ii in complex with gemsa 21 d1hfua2 not modelled 13.1 14 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins 22 d1e2wa2 not modelled 12.5 28 Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain 23 d1h8la1 not modelled 12.0 8 Fold:Prealbumin-like Superfamily:Carboxypeptidase regulatory domain-like Family:Carboxypeptidase regulatory domain 24 c1yukB_ not modelled 11.4 29 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-2 b chain; PDBTitle: the crystal structure of the psi/hybrid domain/ i-egf12 segment from the human integrin beta2 at 1.8 resolution 25 d2gc9a1 not modelled 11.0 14 Fold:Lipocalins Superfamily:Lipocalins Family:Phenolic acid decarboxylase (PAD) 26 d1gyca2 not modelled 10.4 9 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins 27 d1lnza1 not modelled 9.9 30 Fold:Obg-fold Superfamily:Obg GTP-binding protein N-terminal domain Family:Obg GTP-binding protein N-terminal domain 28 d1zvca1 not modelled 8.5 18 Fold:AOC barrel-like Superfamily:Allene oxide cyclase-like Family:Allene oxide cyclase-like 29 c1wsrA_ not modelled 8.4 11 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of human t-protein of glycine cleavage2 system 30 d1v8ha1 not modelled 8.2 13 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:SoxZ-like 31 d1udxa1 not modelled 7.9 30 Fold:Obg-fold Superfamily:Obg GTP-binding protein N-terminal domain Family:Obg GTP-binding protein N-terminal domain 32 d1wkqa_ not modelled 7.6 20 Fold:Cytidine deaminase-like Superfamily:Cytidine deaminase-like Family:Deoxycytidylate deaminase-like 33 d1m1sa_ not modelled 7.5 11 Fold:Immunoglobulin-like beta-sandwich Superfamily:PapD-like Family:MSP-like 34 d1v76a_ not modelled 7.5 15 Fold:Rof/RNase P subunit-like Superfamily:Rof/RNase P subunit-like Family:RNase P subunit p29-like 35 c2zaeC_ not modelled 7.3 15 PDB header:hydrolase Chain: C: PDB Molecule:ribonuclease p protein component 1; PDBTitle: crystal structure of protein ph1601p in complex with protein ph1771p2 of archaeal ribonuclease p from pyrococcus horikoshii ot3 36 d2nn6g3 not modelled 7.3 16 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 37 d1fr5a_ not modelled 7.0 28 Fold:RNA bacteriophage capsid protein Superfamily:RNA bacteriophage capsid protein Family:RNA bacteriophage capsid protein 38 d1kyaa2 not modelled 6.9 9 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins 39 d2hqya1 not modelled 6.5 31 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:FemXAB nonribosomal peptidyltransferases 40 c1fw3A_ not modelled 6.0 31 PDB header:hydrolase, membrane protein Chain: A: PDB Molecule:outer membrane phospholipase a; PDBTitle: outer membrane phospholipase a from escherichia coli 41 c2eqnA_ not modelled 5.6 10 PDB header:transcription Chain: A: PDB Molecule:hypothetical protein loc92345; PDBTitle: solution structure of the naf1 domain of hypothetical2 protein bc008207 [homo sapiens] 42 c2jxmB_ not modelled 5.5 24 PDB header:electron transport Chain: B: PDB Molecule:cytochrome f; PDBTitle: ensemble of twenty structures of the prochlorothrix2 hollandica plastocyanin- cytochrome f complex 43 c2gw4C_ not modelled 5.4 17 PDB header:luminescent protein Chain: C: PDB Molecule:kaede; PDBTitle: crystal structure of stony coral fluorescent protein kaede, red form 44 d2q9oa2 not modelled 5.3 9 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins 45 c2ja9A_ not modelled 5.3 13 PDB header:rna-binding protein Chain: A: PDB Molecule:exosome complex exonuclease rrp40; PDBTitle: structure of the n-terminal deletion of yeast exosome2 component rrp40 46 d1rowa_ not modelled 5.3 9 Fold:Immunoglobulin-like beta-sandwich Superfamily:PapD-like Family:MSP-like 47 c3mn8A_ not modelled 5.2 13 PDB header:hydrolase Chain: A: PDB Molecule:lp15968p; PDBTitle: structure of drosophila melanogaster carboxypeptidase d isoform 1b2 short 48 c3nx2B_ not modelled 5.2 12 PDB header:lyase Chain: B: PDB Molecule:ferulic acid decarboxylase; PDBTitle: enterobacter sp. px6-4 ferulic acid decarboxylase in complex with2 substrate analogues 49 d1gyva_ not modelled 5.2 18 Fold:Immunoglobulin-like beta-sandwich Superfamily:Clathrin adaptor appendage domain Family:gamma-adaptin C-terminal appendage domain-like 50 c2brqA_ not modelled 5.1 7 PDB header:structural protein Chain: A: PDB Molecule:filamin a; PDBTitle: crystal structure of the filamin a repeat 21 complexed with2 the integrin beta7 cytoplasmic tail peptide 51 c3iswB_ not modelled 5.1 7 PDB header:structural protein Chain: B: PDB Molecule:filamin-a; PDBTitle: crystal structure of filamin-a immunoglobulin-like repeat 21 bound to2 an n-terminal peptide of cftr

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