Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	H	Y	K	T	G	H	K	Q	P	R	F	R	Y	S	V	L	A	R	C	V	A	W	A	N	I	S	V	Q	V	L	F	P	L	A	V	T	F	T	P	V	M	A	A	R	A	Q	H	A	V	Q	P	R	L	S	M	G	N	T
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?			?	?														?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	V	T	A	D	N	N	V	E	K	N	V	A	S	F	A	A	N	A	G	T	F	L	S	S	Q	P	D	S	D	A	T	R	N	F	I	T	G	M	A	T	A	K	A	N	Q	E	I	Q	E	W	L	G	K	Y	G	T	A	R	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		K	L	N	V	D	K	D	F	S	L	K	D	S	S	L	E	M	L	Y	P	I	Y	D	T	P	T	N	M	L	F	T	Q	G	A	I	H	R	T	D	D	R	T	Q	S	N	I	G	F	G	W	R	H	F	S	G	N	D	W	M	A
Secondary structure
SS confidence
Disorder					?	?	?	?	?	?	?	?	?	?																									?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	V	N	T	F	I	D	H	D	L	S	R	S	H	T	R	I	G	V	G	A	E	Y	W	R	D	Y	L	K	L	S	A	N	G	Y	I	R	A	S	G	W	K	K	S	P	D	I	E	D	Y	Q	E	R	P	A	N	G	W	D	I
Secondary structure
SS confidence
Disorder																																													?		?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.
Sequence		R	A	E	G	Y	L	P	A	W	P	Q	L	G	A	S	L	M	Y	E	Q	Y	Y	G	D	E	V	G	L	F	G	K	D	K	R	Q	K	D	P	H	A	I	S	A	E	V	T	Y	T	P	V	P	L	T	Q	Q
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 1t16 chain A Region: 166 - 288 Aligned: 121 Modelled: 123 Confidence: 94.7% Identity: 10% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Outer membrane protein transport protein Phyre2 PDB 3dwo chain X Region: 165 - 288 Aligned: 124 Modelled: 124 Confidence: 90.1% Identity: 18% PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue Phyre2 PDB 2x4m chain D Region: 158 - 276 Aligned: 112 Modelled: 119 Confidence: 88.9% Identity: 15% PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla Phyre2 PDB 1i78 chain A Region: 158 - 288 Aligned: 126 Modelled: 131 Confidence: 88.6% Identity: 17% Fold: Transmembrane beta-barrels Superfamily: OMPT-like Family: Outer membrane protease OMPT Phyre2 PDB 1qj8 chain A Region: 159 - 288 Aligned: 119 Modelled: 130 Confidence: 87.1% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1g90 chain A Region: 158 - 288 Aligned: 125 Modelled: 131 Confidence: 85.4% Identity: 10% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2f1t chain B Region: 159 - 288 Aligned: 130 Modelled: 130 Confidence: 81.7% Identity: 12% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 1qjp chain A Region: 151 - 288 Aligned: 120 Modelled: 122 Confidence: 72.9% Identity: 11% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2x27 chain X Region: 159 - 288 Aligned: 128 Modelled: 130 Confidence: 70.8% Identity: 14% PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein oprg; PDBTitle: crystal structure of the outer membrane protein oprg from2 pseudomonas aeruginosa Phyre2 PDB 2k0l chain A Region: 158 - 288 Aligned: 125 Modelled: 131 Confidence: 67.5% Identity: 12% 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. Phyre2 PDB 1p4t chain A Region: 158 - 288 Aligned: 126 Modelled: 131 Confidence: 60.5% Identity: 12% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2iwv chain D Region: 157 - 288 Aligned: 125 Modelled: 129 Confidence: 50.6% Identity: 14% PDB header:ion channel Chain: D: PDB Molecule:outer membrane protein g; PDBTitle: structure of the monomeric outer membrane porin ompg in the2 open and closed conformation Phyre2 PDB 1pam chain A domain 3 Region: 256 - 282 Aligned: 27 Modelled: 27 Confidence: 50.0% Identity: 22% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 PDB 1qho chain A domain 3 Region: 256 - 282 Aligned: 27 Modelled: 27 Confidence: 43.2% Identity: 22% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 PDB 3bmv chain A domain 3 Region: 256 - 291 Aligned: 34 Modelled: 36 Confidence: 42.0% Identity: 24% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 PDB 1cyg chain A domain 3 Region: 256 - 282 Aligned: 27 Modelled: 27 Confidence: 39.8% Identity: 22% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 PDB 1cxl chain A domain 3 Region: 256 - 282 Aligned: 27 Modelled: 27 Confidence: 38.7% Identity: 30% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 PDB 3aeh chain B Region: 153 - 288 Aligned: 124 Modelled: 136 Confidence: 37.4% Identity: 11% PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp Phyre2 PDB 3nb3 chain C Region: 145 - 288 Aligned: 128 Modelled: 128 Confidence: 37.1% Identity: 12% PDB header:virus Chain: C: PDB Molecule:outer membrane protein a; PDBTitle: the host outer membrane proteins ompa and ompc are packed at specific2 sites in the shigella phage sf6 virion as structural components Phyre2 PDB 1cgt chain A domain 3 Region: 256 - 282 Aligned: 27 Modelled: 27 Confidence: 34.8% Identity: 19% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 1 d1t16a_ 2 c3dwoX_ 3 c2x4mD_ 4 d1i78a_ 5 d1qj8a_ 6 d1g90a_ 7 c2f1tB_ 8 d1qjpa_ 9 c2x27X_ 10 c2k0lA_ 11 d1p4ta_ 12 c2iwvD_ 13 d1pama3 14 d1qhoa3 15 d3bmva3 16 d1cyga3 17 d1cxla3 18 c3aehB_ 19 c3nb3C_ 20 d1cgta3 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42

Detailed template information

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

1 d1t16a_ 94.7 10 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Outer membrane protein transport protein 2 c3dwoX_ 90.1 18 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 3 c2x4mD_ 88.9 15 PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla 4 d1i78a_ 88.6 17 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane protease OMPT 5 d1qj8a_ 87.1 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 6 d1g90a_ 85.4 10 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 7 c2f1tB_ 81.7 12 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 8 d1qjpa_ 72.9 11 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 9 c2x27X_ 70.8 14 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein oprg; PDBTitle: crystal structure of the outer membrane protein oprg from2 pseudomonas aeruginosa 10 c2k0lA_ 67.5 12 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. 11 d1p4ta_ 60.5 12 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 12 c2iwvD_ 50.6 14 PDB header:ion channel Chain: D: PDB Molecule:outer membrane protein g; PDBTitle: structure of the monomeric outer membrane porin ompg in the2 open and closed conformation 13 d1pama3 50.0 22 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 14 d1qhoa3 43.2 22 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 15 d3bmva3 42.0 24 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 16 d1cyga3 39.8 22 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 17 d1cxla3 38.7 30 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 18 c3aehB_ 37.4 11 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 19 c3nb3C_ 37.1 12 PDB header:virus Chain: C: PDB Molecule:outer membrane protein a; PDBTitle: the host outer membrane proteins ompa and ompc are packed at specific2 sites in the shigella phage sf6 virion as structural components 20 d1cgta3 34.8 19 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 21 c3qraA_ not modelled 34.5 15 PDB header:cell invasion Chain: A: PDB Molecule:attachment invasion locus protein; PDBTitle: the crystal structure of ail, the attachment invasion locus protein of2 yersinia pestis 22 c2hb0B_ not modelled 30.1 24 PDB header:cell adhesion Chain: B: PDB Molecule:cfa/i fimbrial subunit e; PDBTitle: crystal structure of cfae, the adhesive subunit of cfa/i2 fimbria of enterotoxigenic escherichia coli 23 c1o75A_ not modelled 20.3 25 PDB header:lipoproteinullntigen Chain: A: PDB Molecule:47 kda membrane antigen; PDBTitle: tp47, the 47-kilodalton lipoprotein of treponema pallidum 24 d1osma_ not modelled 18.3 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 25 c3bryB_ not modelled 17.7 15 PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux 26 d1o75a1 not modelled 15.4 32 Fold:Immunoglobulin-like beta-sandwich Superfamily:Tp47 lipoprotein, middle and C-terminal domains Family:Tp47 lipoprotein, middle and C-terminal domains 27 c1qd6C_ not modelled 14.0 18 PDB header:membrane protein Chain: C: PDB Molecule:protein (outer membrane phospholipase (ompla)); PDBTitle: outer membrane phospholipase a from escherichia coli 28 d2vdfa1 not modelled 13.7 16 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane adhesin/invasin OpcA 29 c2dgwA_ not modelled 13.5 7 PDB header:rna binding protein Chain: A: PDB Molecule:probable rna-binding protein 19; PDBTitle: solution structure of the second rna recognition motif in2 rna-binding protein 19 30 d1tlya_ not modelled 12.7 21 Fold:Transmembrane beta-barrels Superfamily:Tsx-like channel Family:Tsx-like channel 31 c3f83A_ not modelled 11.2 24 PDB header:cell adhesion Chain: A: PDB Molecule:fusion of the minor pilin cfae and major pilin cfab; PDBTitle: structure of fusion complex of the minor pilin cfae and major pilin2 cfab of cfa/i pili from etec e. coli 32 c2ostC_ not modelled 10.5 45 PDB header:hydrolase/dna Chain: C: PDB Molecule:putative endonuclease; PDBTitle: the structure of a bacterial homing endonuclease : i-ssp6803i 33 d1b24a2 not modelled 10.4 26 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease 34 c2e12B_ not modelled 8.8 25 PDB header:translation Chain: B: PDB Molecule:hypothetical protein xcc3642; PDBTitle: the crystal structure of xc5848 from xanthomonas campestris2 adopting a novel variant of sm-like motif 35 c2hyiJ_ not modelled 8.3 43 PDB header:hydrolase/rna binding protein/rna Chain: J: PDB Molecule:protein casc3; PDBTitle: structure of the human exon junction complex with a trapped2 dead-box helicase bound to rna 36 d2akja3 not modelled 8.2 22 Fold:Nitrite and sulphite reductase 4Fe-4S domain-like Superfamily:Nitrite and sulphite reductase 4Fe-4S domain-like Family:Nitrite and sulphite reductase 4Fe-4S domain-like 37 c1fw3A_ not modelled 6.2 17 PDB header:hydrolase, membrane protein Chain: A: PDB Molecule:outer membrane phospholipase a; PDBTitle: outer membrane phospholipase a from escherichia coli 38 d2icya1 not modelled 6.0 18 Fold:Single-stranded left-handed beta-helix Superfamily:Trimeric LpxA-like enzymes Family:GlmU C-terminal domain-like 39 d1weza_ not modelled 5.8 12 Fold:Ferredoxin-like Superfamily:RNA-binding domain, RBD Family:Canonical RBD 40 d1x40a1 not modelled 5.4 20 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 41 d2dcfa1 not modelled 5.3 27 Fold:beta-lactamase/transpeptidase-like Superfamily:beta-lactamase/transpeptidase-like Family:beta-Lactamase/D-ala carboxypeptidase 42 d3cdda2 not modelled 5.2 14 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like

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