Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	G	L	N	K	I	T	C	C	L	L	A	A	L	L	M	P	C	A	G	H	A	E	N	E	Q	Y	G	A	N	F	N	N	A	D	I	R	Q	F	V	E	I	V	G	Q	H	L	G	K	T	I	L	I	D	P	S	V	Q	G
Secondary structure
SS confidence
Disorder		?	?	?													?	?	?	?	?	?	?	?	?	?	?																							?									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	I	S	V	R	S	N	D	T	F	S	Q	Q	E	Y	Y	Q	F	F	L	S	I	L	D	L	Y	G	Y	S	V	I	T	L	D	N	G	F	L	K	V	V	R	S	A	N	V	K	T	S	P	G	M	I	A	D	S	S	R	P	G
Secondary structure
SS confidence
Disorder								?	?	?	?																																	?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	G	D	E	L	V	T	R	I	V	P	L	E	N	V	P	A	R	D	L	A	P	L	L	R	Q	M	M	D	A	G	S	V	G	N	V	V	H	Y	E	P	S	N	V	L	I	L	T	G	R	A	S	T	I	N	K	L	I	E	V
Secondary structure
SS confidence
Disorder		?	?	?		?																						?	?	?	?	?	?	?	?							?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	K	R	V	D	V	I	G	T	E	K	Q	Q	I	I	H	L	E	Y	A	S	A	E	D	L	A	E	I	L	N	Q	L	I	S	E	S	H	G	K	S	Q	M	P	A	L	L	S	A	K	I	V	A	D	K	R	T	N	S	L	I
Secondary structure
SS confidence
Disorder					?		?	?	?	?	?											?	?		?									?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		I	S	G	P	E	K	A	R	Q	R	I	T	S	L	L	K	S	L	D	V	E	E	S	E	E	G	N	T	R	V	Y	Y	L	K	Y	A	K	A	T	N	L	V	E	V	L	T	G	V	S	E	K	L	K	D	E	K	G	N	A	R
Secondary structure
SS confidence
Disorder			?	?	?	?													?	?	?	?	?	?	?	?	?	?																					?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		K	P	S	S	S	G	A	M	D	N	V	A	I	T	A	D	E	Q	T	N	S	L	V	I	T	A	D	Q	S	V	Q	E	K	L	A	T	V	I	A	R	L	D	I	R	R	A	Q	V	L	V	E	A	I	I	V	E	V	Q	D	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?																																		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		N	G	L	N	L	G	V	Q	W	A	N	K	N	V	G	A	Q	Q	F	T	N	T	G	L	P	I	F	N	A	A	Q	G	V	A	D	Y	K	K	N	G	G	I	T	S	A	N	P	A	W	D	M	F	S	A	Y	N	G	M	A	A
Secondary structure
SS confidence
Disorder													?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		G	F	F	N	G	D	W	G	V	L	L	T	A	L	A	S	N	N	K	N	D	I	L	A	T	P	S	I	V	T	L	D	N	K	L	A	S	F	N	V	G	Q	D	V	P	V	L	S	G	S	Q	T	T	S	G	D	N	V	F	N
Secondary structure
SS confidence
Disorder		?	?	?			?	?											?	?	?																													?	?		?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		T	V	E	R	K	T	V	G	T	K	L	K	V	T	P	Q	V	N	E	G	D	A	V	L	L	E	I	E	Q	E	V	S	S	V	D	S	S	S	N	S	T	L	G	P	T	F	N	T	R	T	I	Q	N	A	V	L	V	K	T	G
Secondary structure
SS confidence
Disorder																						?											?	?	?	?	?	?	?	?	?	?	?	?	?	?													?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.	.	.	.	.	.	.	.	590	.	.	.	.	.	.	.	.	.	600
Sequence		E	T	V	V	L	G	G	L	L	D	D	F	S	K	E	Q	V	S	K	V	P	L	L	G	D	I	P	L	V	G	Q	L	F	R	Y	T	S	T	E	R	A	K	R	N	L	M	V	F	I	R	P	T	I	I	R	D	D	D	V	Y
Secondary structure
SS confidence
Disorder												?	?	?	?	?	?	?	?	?	?														?	?	?	?	?	?	?	?	?																?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	610	.	.	.	.	.	.	.	.	.	620	.	.	.	.	.	.	.	.	.	630	.	.	.	.	.	.	.	.	.	640	.	.	.	.	.	.	.	.	.	650
Sequence		R	S	L	S	K	E	K	Y	T	R	Y	R	Q	E	Q	Q	Q	R	I	D	G	K	S	K	A	L	V	G	S	E	D	L	P	V	L	D	E	N	T	F	N	S	H	A	P	A	P	S	S	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 3ezj chain A Region: 27 - 259 Aligned: 197 Modelled: 200 Confidence: 100.0% Identity: 51% PDB header:protein transport Chain: A: PDB Molecule:general secretion pathway protein gspd; PDBTitle: crystal structure of the n-terminal domain of the secretin gspd from2 etec determined with the assistance of a nanobody Phyre2 PDB 3oss chain D Region: 27 - 187 Aligned: 156 Modelled: 161 Confidence: 100.0% Identity: 43% PDB header:protein transport Chain: D: PDB Molecule:type 2 secretion system, secretin gspd; PDBTitle: the crystal structure of enterotoxigenic escherichia coli gspc-gspd2 complex from the type ii secretion system Phyre2 PDB 3gr5 chain A Region: 22 - 190 Aligned: 145 Modelled: 149 Confidence: 99.9% Identity: 14% PDB header:membrane protein Chain: A: PDB Molecule:escc; PDBTitle: periplasmic domain of the outer membrane secretin escc from2 enteropathogenic e.coli (epec) Phyre2 PDB 2y9k chain G Region: 30 - 186 Aligned: 133 Modelled: 137 Confidence: 99.9% Identity: 11% PDB header:protein transport Chain: G: PDB Molecule:protein invg; PDBTitle: three-dimensional model of salmonella's needle complex at2 subnanometer resolution Phyre2 PDB 2y3m chain A Region: 24 - 186 Aligned: 133 Modelled: 142 Confidence: 99.8% Identity: 14% PDB header:transport protein Chain: A: PDB Molecule:protein transport protein hofq; PDBTitle: structure of the extra-membranous domain of the secretin2 hofq from actinobacillus actinomycetemcomitans Phyre2 PDB 2a02 chain A Region: 25 - 106 Aligned: 79 Modelled: 82 Confidence: 98.0% Identity: 11% PDB header:membrane protein, metal transport Chain: A: PDB Molecule:ferric-pseudobactin 358 receptor; PDBTitle: solution nmr structure of the periplasmic signaling domain2 of the outer membrane iron transporter pupa from3 pseudomonas putida. Phyre2 PDB 1zzv chain A Region: 30 - 109 Aligned: 77 Modelled: 80 Confidence: 97.0% Identity: 21% PDB header:membrane protein, metal transport Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca; PDBTitle: solution nmr structure of the periplasmic signaling domain2 of the outer membrane iron transporter feca from3 escherichia coli. Phyre2 PDB 2d1u chain A Region: 29 - 124 Aligned: 93 Modelled: 96 Confidence: 96.7% Identity: 17% PDB header:metal transport Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca; PDBTitle: solution strcuture of the periplasmic signaling domain of2 feca from escherichia coli Phyre2 PDB 2iah chain A Region: 26 - 142 Aligned: 114 Modelled: 117 Confidence: 96.5% Identity: 11% PDB header:membrane protein Chain: A: PDB Molecule:ferripyoverdine receptor; PDBTitle: crystal structure of the ferripyoverdine receptor of the outer2 membrane of pseudomonas aeruginosa bound to ferripyoverdine. Phyre2 PDB 3cdd chain D Region: 31 - 108 Aligned: 76 Modelled: 78 Confidence: 94.2% Identity: 17% PDB header:structural protein Chain: D: PDB Molecule:prophage muso2, 43 kda tail protein; PDBTitle: crystal structure of prophage muso2, 43 kda tail protein from2 shewanella oneidensis Phyre2 PDB 3cdd chain A domain 2 Region: 31 - 102 Aligned: 70 Modelled: 72 Confidence: 94.1% Identity: 17% Fold: Phage tail proteins Superfamily: Phage tail proteins Family: Baseplate protein-like Phyre2 PDB 3d37 chain A Region: 32 - 123 Aligned: 92 Modelled: 92 Confidence: 86.1% Identity: 9% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tail protein, 43 kda; PDBTitle: the crystal structure of the tail protein from neisseria meningitidis2 mc58 Phyre2 PDB 1wru chain A Region: 31 - 108 Aligned: 78 Modelled: 78 Confidence: 84.7% Identity: 14% PDB header:structural protein Chain: A: PDB Molecule:43 kda tail protein; PDBTitle: structure of central hub elucidated by x-ray analysis of gene product2 44; baseplate component of bacteriophage mu Phyre2 PDB 3d37 chain A domain 1 Region: 32 - 100 Aligned: 69 Modelled: 69 Confidence: 80.9% Identity: 10% Fold: Phage tail proteins Superfamily: Phage tail proteins Family: Baseplate protein-like Phyre2 PDB 1wru chain A domain 2 Region: 31 - 102 Aligned: 72 Modelled: 72 Confidence: 74.9% Identity: 14% Fold: Phage tail proteins Superfamily: Phage tail proteins Family: Baseplate protein-like Phyre2 PDB 1b35 chain D Region: 557 - 575 Aligned: 19 Modelled: 19 Confidence: 45.9% Identity: 26% PDB header:virus Chain: D: PDB Molecule:protein (cricket paralysis virus, vp4); PDBTitle: cricket paralysis virus (crpv) Phyre2 PDB 3pro chain C domain 2 Region: 312 - 351 Aligned: 40 Modelled: 40 Confidence: 26.7% Identity: 23% Fold: Alpha-lytic protease prodomain-like Superfamily: Alpha-lytic protease prodomain Family: Alpha-lytic protease prodomain Phyre2 PDB 4pro chain D Region: 312 - 353 Aligned: 42 Modelled: 42 Confidence: 17.7% Identity: 21% PDB header:serine protease Chain: D: PDB Molecule:alpha-lytic protease; PDBTitle: alpha-lytic protease complexed with pro region Phyre2 PDB 3ady chain A Region: 14 - 101 Aligned: 85 Modelled: 88 Confidence: 13.2% Identity: 14% PDB header:proton transport Chain: A: PDB Molecule:dotd; PDBTitle: crystal structure of dotd from legionella Phyre2 PDB 3ec1 chain A Region: 534 - 550 Aligned: 17 Modelled: 17 Confidence: 12.6% Identity: 29% PDB header:hydrolase, signaling protein Chain: A: PDB Molecule:yqeh gtpase; PDBTitle: structure of yqeh gtpase from geobacillus stearothermophilus2 (an atnos1 / atnoa1 ortholog) Phyre2 1 c3ezjA_ 2 c3ossD_ 3 c3gr5A_ 4 c2y9kG_ 5 c2y3mA_ 6 c2a02A_ 7 c1zzvA_ 8 c2d1uA_ 9 c2iahA_ 10 c3cddD_ 11 d3cdda2 12 c3d37A_ 13 c1wruA_ 14 d3d37a1 15 d1wrua2 16 c1b35D_ 17 d3proc2 18 c4proD_ 19 c3adyA_ 20 c3ec1A_ 21 22 23 24 25 26 27 28

Detailed template information

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

1 c3ezjA_ 100.0 51 PDB header:protein transport Chain: A: PDB Molecule:general secretion pathway protein gspd; PDBTitle: crystal structure of the n-terminal domain of the secretin gspd from2 etec determined with the assistance of a nanobody 2 c3ossD_ 100.0 43 PDB header:protein transport Chain: D: PDB Molecule:type 2 secretion system, secretin gspd; PDBTitle: the crystal structure of enterotoxigenic escherichia coli gspc-gspd2 complex from the type ii secretion system 3 c3gr5A_ 99.9 14 PDB header:membrane protein Chain: A: PDB Molecule:escc; PDBTitle: periplasmic domain of the outer membrane secretin escc from2 enteropathogenic e.coli (epec) 4 c2y9kG_ 99.9 11 PDB header:protein transport Chain: G: PDB Molecule:protein invg; PDBTitle: three-dimensional model of salmonella's needle complex at2 subnanometer resolution 5 c2y3mA_ 99.8 14 PDB header:transport protein Chain: A: PDB Molecule:protein transport protein hofq; PDBTitle: structure of the extra-membranous domain of the secretin2 hofq from actinobacillus actinomycetemcomitans 6 c2a02A_ 98.0 11 PDB header:membrane protein, metal transport Chain: A: PDB Molecule:ferric-pseudobactin 358 receptor; PDBTitle: solution nmr structure of the periplasmic signaling domain2 of the outer membrane iron transporter pupa from3 pseudomonas putida. 7 c1zzvA_ 97.0 21 PDB header:membrane protein, metal transport Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca; PDBTitle: solution nmr structure of the periplasmic signaling domain2 of the outer membrane iron transporter feca from3 escherichia coli. 8 c2d1uA_ 96.7 17 PDB header:metal transport Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca; PDBTitle: solution strcuture of the periplasmic signaling domain of2 feca from escherichia coli 9 c2iahA_ 96.5 11 PDB header:membrane protein Chain: A: PDB Molecule:ferripyoverdine receptor; PDBTitle: crystal structure of the ferripyoverdine receptor of the outer2 membrane of pseudomonas aeruginosa bound to ferripyoverdine. 10 c3cddD_ 94.2 17 PDB header:structural protein Chain: D: PDB Molecule:prophage muso2, 43 kda tail protein; PDBTitle: crystal structure of prophage muso2, 43 kda tail protein from2 shewanella oneidensis 11 d3cdda2 94.1 17 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like 12 c3d37A_ 86.1 9 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tail protein, 43 kda; PDBTitle: the crystal structure of the tail protein from neisseria meningitidis2 mc58 13 c1wruA_ 84.7 14 PDB header:structural protein Chain: A: PDB Molecule:43 kda tail protein; PDBTitle: structure of central hub elucidated by x-ray analysis of gene product2 44; baseplate component of bacteriophage mu 14 d3d37a1 80.9 10 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like 15 d1wrua2 74.9 14 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like 16 c1b35D_ 45.9 26 PDB header:virus Chain: D: PDB Molecule:protein (cricket paralysis virus, vp4); PDBTitle: cricket paralysis virus (crpv) 17 d3proc2 26.7 23 Fold:Alpha-lytic protease prodomain-like Superfamily:Alpha-lytic protease prodomain Family:Alpha-lytic protease prodomain 18 c4proD_ 17.7 21 PDB header:serine protease Chain: D: PDB Molecule:alpha-lytic protease; PDBTitle: alpha-lytic protease complexed with pro region 19 c3adyA_ 13.2 14 PDB header:proton transport Chain: A: PDB Molecule:dotd; PDBTitle: crystal structure of dotd from legionella 20 c3ec1A_ 12.6 29 PDB header:hydrolase, signaling protein Chain: A: PDB Molecule:yqeh gtpase; PDBTitle: structure of yqeh gtpase from geobacillus stearothermophilus2 (an atnos1 / atnoa1 ortholog) 21 c3h2yA_ not modelled 12.0 18 PDB header:hydrolase Chain: A: PDB Molecule:gtpase family protein; PDBTitle: crystal structure of yqeh gtpase from bacillus anthracis with dgdp2 bound 22 d2ctfa1 not modelled 10.7 12 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) 23 d2dy1a4 not modelled 7.0 17 Fold:Ferredoxin-like Superfamily:EF-G C-terminal domain-like Family:EF-G/eEF-2 domains III and V 24 c2ehoL_ not modelled 6.7 23 PDB header:replication Chain: L: PDB Molecule:gins complex subunit 3; PDBTitle: crystal structure of human gins complex 25 d2jnaa1 not modelled 6.5 13 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 26 d2ahua2 not modelled 5.7 17 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:CoA transferase alpha subunit-like 27 d1mlaa2 not modelled 5.2 11 Fold:Ferredoxin-like Superfamily:Probable ACP-binding domain of malonyl-CoA ACP transacylase Family:Probable ACP-binding domain of malonyl-CoA ACP transacylase 28 c3rrlC_ not modelled 5.2 42 PDB header:transferase Chain: C: PDB Molecule:succinyl-coa:3-ketoacid-coenzyme a transferase subunit a; PDBTitle: complex structure of 3-oxoadipate coa-transferase subunit a and b from2 helicobacter pylori 26695

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