Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	Q	L	W	F	A	M	S	L	V	T	G	S	L	L	F	S	A	N	A	S	A	T	P	A	S	G	A	L	L	Q	Q	M	N	L	A	S	Q	S	L	N	Y	E	L	S	F	I	S	I	N	K	Q	G	V	E	S	L	R	Y
Secondary structure
SS confidence
Disorder		?	?	?													?	?	?	?	?	?	?	?	?															?	?	?												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	H	A	R	L	D	N	R	P	L	A	Q	L	L	Q	M	D	G	P	R	R	E	V	V	Q	R	G	N	E	I	S	Y	F	E	P	G	L	E	P	F	T	L	N	G	D	Y	I	V	D	S	L	P	S	L	I	Y	T	D	F	K
Secondary structure
SS confidence
Disorder																?	?																						?					?	?	?	?	?	?	?	?	?		?	?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	L	S	P	Y	Y	D	F	I	S	V	G	R	T	R	I	A	D	R	L	C	E	V	I	R	V	V	A	R	D	G	T	R	Y	S	Y	I	V	W	M	D	T	E	S	K	L	P	M	R	V	D	L	L	D	R	D	G	E	T	L
Secondary structure
SS confidence
Disorder																																																					?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		E	Q	F	R	V	I	A	F	N	V	N	Q	D	I	S	S	S	M	Q	T	L	A	K	A	N	L	P	P	L	L	S	V	P	V	G	E	K	A	K	F	S	W	T	P	T	W	L	P	Q	G	F	S	E	V	S	S	S	R	R	P
Secondary structure
SS confidence
Disorder															?	?	?	?	?		?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?		?						?					?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	P	T	M	D	N	M	P	I	E	S	R	L	Y	S	D	G	L	F	S	F	S	V	N	V	N	R	A	T	P	S	S	T	D	Q	M	L	R	T	G	R	R	T	V	S	T	S	V	R	D	N	A	E	I	T	I	V	G	E	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																						?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.
Sequence		P	P	Q	T	A	K	R	I	A	E	N	I	K	F	G	A	A	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 2v43 chain A Region: 26 - 314 Aligned: 261 Modelled: 273 Confidence: 100.0% Identity: 100% PDB header:regulator Chain: A: PDB Molecule:sigma-e factor regulatory protein rseb; PDBTitle: crystal structure of rseb: a sensor for periplasmic stress2 response in e. coli Phyre2 PDB 3buu chain B Region: 24 - 189 Aligned: 166 Modelled: 166 Confidence: 99.9% Identity: 11% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized lola superfamily protein ne2245; PDBTitle: crystal structure of lola superfamily protein ne2245 from2 nitrosomonas europaea Phyre2 PDB 3bk5 chain A Region: 23 - 189 Aligned: 167 Modelled: 167 Confidence: 99.9% Identity: 13% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative outer membrane lipoprotein-sorting protein; PDBTitle: crystal structure of putative outer membrane lipoprotein-sorting2 protein domain from vibrio parahaemolyticus Phyre2 PDB 2w7q chain B Region: 29 - 212 Aligned: 172 Modelled: 179 Confidence: 99.7% Identity: 10% PDB header:protein transport Chain: B: PDB Molecule:outer-membrane lipoprotein carrier protein; PDBTitle: structure of pseudomonas aeruginosa lola Phyre2 PDB 1iwl chain A Region: 29 - 214 Aligned: 172 Modelled: 184 Confidence: 99.6% Identity: 10% Fold: LolA-like prokaryotic lipoproteins and lipoprotein localization factors Superfamily: Prokaryotic lipoproteins and lipoprotein localization factors Family: Outer-membrane lipoproteins carrier protein LolA Phyre2 PDB 2yzy chain A Region: 25 - 199 Aligned: 147 Modelled: 158 Confidence: 98.4% Identity: 16% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative uncharacterized protein ttha1012; PDBTitle: crystal structure of uncharacterized conserved protein from thermus2 thermophilus hb8 Phyre2 PDB 3mha chain B Region: 25 - 187 Aligned: 162 Modelled: 163 Confidence: 98.1% Identity: 14% PDB header:lipid binding protein Chain: B: PDB Molecule:lipoprotein lprg; PDBTitle: crystal structure of lprg from mycobacterium tuberculosis bound to pim Phyre2 PDB 2byo chain A domain 1 Region: 23 - 184 Aligned: 158 Modelled: 162 Confidence: 97.1% Identity: 16% Fold: LolA-like prokaryotic lipoproteins and lipoprotein localization factors Superfamily: Prokaryotic lipoproteins and lipoprotein localization factors Family: LppX-like Phyre2 PDB 3fzx chain A Region: 129 - 189 Aligned: 60 Modelled: 61 Confidence: 90.0% Identity: 13% PDB header:lipid binding protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of a putative exported protein with ymcc-like fold2 (bf2203) from bacteroides fragilis nctc 9343 at 2.22 a resolution Phyre2 PDB 3mx7 chain A Region: 90 - 165 Aligned: 76 Modelled: 76 Confidence: 77.1% Identity: 18% PDB header:apoptosis Chain: A: PDB Molecule:fas apoptotic inhibitory molecule 1; PDBTitle: crystal structure analysis of human faim-ntd Phyre2 PDB 2jna chain A domain 1 Region: 1 - 63 Aligned: 63 Modelled: 63 Confidence: 34.4% Identity: 21% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 PDB 3h4r chain A Region: 157 - 170 Aligned: 14 Modelled: 14 Confidence: 24.7% Identity: 36% PDB header:hydrolase Chain: A: PDB Molecule:exodeoxyribonuclease 8; PDBTitle: crystal structure of e. coli rece exonuclease Phyre2 PDB 1ei5 chain A domain 1 Region: 159 - 171 Aligned: 13 Modelled: 13 Confidence: 18.9% Identity: 31% Fold: Streptavidin-like Superfamily: D-aminopeptidase, middle and C-terminal domains Family: D-aminopeptidase, middle and C-terminal domains Phyre2 PDB 1khi chain A domain 1 Region: 127 - 187 Aligned: 48 Modelled: 50 Confidence: 18.6% Identity: 23% Fold: SH3-like barrel Superfamily: Translation proteins SH3-like domain Family: eIF5a N-terminal domain-like Phyre2 PDB 1f15 chain A Region: 183 - 264 Aligned: 82 Modelled: 82 Confidence: 18.4% Identity: 15% Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily: Positive stranded ssRNA viruses Family: Bromoviridae-like VP Phyre2 PDB 3m7a chain A Region: 156 - 181 Aligned: 25 Modelled: 24 Confidence: 17.3% Identity: 12% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of saro_0823 (yp_496102.1) a protein of2 unknown function from novosphingobium aromaticivorans dsm3 12444 at 1.22 a resolution Phyre2 PDB 2vy8 chain A Region: 74 - 113 Aligned: 40 Modelled: 40 Confidence: 12.7% Identity: 15% PDB header:transcription Chain: A: PDB Molecule:polymerase basic protein 2; PDBTitle: the 627-domain from influenza a virus polymerase pb22 subunit with glu-627 Phyre2 PDB 2jcm chain A Region: 158 - 180 Aligned: 20 Modelled: 23 Confidence: 12.4% Identity: 30% PDB header:hydrolase Chain: A: PDB Molecule:cytosolic purine 5'-nucleotidase; PDBTitle: crystal structure of human cytosolic 5'-nucleotidase ii in2 complex with beryllium trifluoride Phyre2 PDB 1fe0 chain A Region: 293 - 317 Aligned: 25 Modelled: 25 Confidence: 12.0% Identity: 12% Fold: Ferredoxin-like Superfamily: HMA, heavy metal-associated domain Family: HMA, heavy metal-associated domain Phyre2 PDB 1u5d chain A domain 1 Region: 20 - 42 Aligned: 23 Modelled: 23 Confidence: 11.3% Identity: 13% Fold: PH domain-like barrel Superfamily: PH domain-like Family: Pleckstrin-homology domain (PH domain) Phyre2 1 c2v43A_ 2 c3buuB_ 3 c3bk5A_ 4 c2w7qB_ 5 d1iwla_ 6 c2yzyA_ 7 c3mhaB_ 8 d2byoa1 9 c3fzxA_ 10 c3mx7A_ 11 d2jnaa1 12 c3h4rA_ 13 d1ei5a1 14 d1khia1 15 d1f15a_ 16 c3m7aA_ 17 c2vy8A_ 18 c2jcmA_ 19 d1fe0a_ 20 d1u5da1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43

Detailed template information

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

1 c2v43A_ 100.0 100 PDB header:regulator Chain: A: PDB Molecule:sigma-e factor regulatory protein rseb; PDBTitle: crystal structure of rseb: a sensor for periplasmic stress2 response in e. coli 2 c3buuB_ 99.9 11 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized lola superfamily protein ne2245; PDBTitle: crystal structure of lola superfamily protein ne2245 from2 nitrosomonas europaea 3 c3bk5A_ 99.9 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative outer membrane lipoprotein-sorting protein; PDBTitle: crystal structure of putative outer membrane lipoprotein-sorting2 protein domain from vibrio parahaemolyticus 4 c2w7qB_ 99.7 10 PDB header:protein transport Chain: B: PDB Molecule:outer-membrane lipoprotein carrier protein; PDBTitle: structure of pseudomonas aeruginosa lola 5 d1iwla_ 99.6 10 Fold:LolA-like prokaryotic lipoproteins and lipoprotein localization factors Superfamily:Prokaryotic lipoproteins and lipoprotein localization factors Family:Outer-membrane lipoproteins carrier protein LolA 6 c2yzyA_ 98.4 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative uncharacterized protein ttha1012; PDBTitle: crystal structure of uncharacterized conserved protein from thermus2 thermophilus hb8 7 c3mhaB_ 98.1 14 PDB header:lipid binding protein Chain: B: PDB Molecule:lipoprotein lprg; PDBTitle: crystal structure of lprg from mycobacterium tuberculosis bound to pim 8 d2byoa1 97.1 16 Fold:LolA-like prokaryotic lipoproteins and lipoprotein localization factors Superfamily:Prokaryotic lipoproteins and lipoprotein localization factors Family:LppX-like 9 c3fzxA_ 90.0 13 PDB header:lipid binding protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of a putative exported protein with ymcc-like fold2 (bf2203) from bacteroides fragilis nctc 9343 at 2.22 a resolution 10 c3mx7A_ 77.1 18 PDB header:apoptosis Chain: A: PDB Molecule:fas apoptotic inhibitory molecule 1; PDBTitle: crystal structure analysis of human faim-ntd 11 d2jnaa1 34.4 21 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 12 c3h4rA_ 24.7 36 PDB header:hydrolase Chain: A: PDB Molecule:exodeoxyribonuclease 8; PDBTitle: crystal structure of e. coli rece exonuclease 13 d1ei5a1 18.9 31 Fold:Streptavidin-like Superfamily:D-aminopeptidase, middle and C-terminal domains Family:D-aminopeptidase, middle and C-terminal domains 14 d1khia1 18.6 23 Fold:SH3-like barrel Superfamily:Translation proteins SH3-like domain Family:eIF5a N-terminal domain-like 15 d1f15a_ 18.4 15 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Positive stranded ssRNA viruses Family:Bromoviridae-like VP 16 c3m7aA_ 17.3 12 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of saro_0823 (yp_496102.1) a protein of2 unknown function from novosphingobium aromaticivorans dsm3 12444 at 1.22 a resolution 17 c2vy8A_ 12.7 15 PDB header:transcription Chain: A: PDB Molecule:polymerase basic protein 2; PDBTitle: the 627-domain from influenza a virus polymerase pb22 subunit with glu-627 18 c2jcmA_ 12.4 30 PDB header:hydrolase Chain: A: PDB Molecule:cytosolic purine 5'-nucleotidase; PDBTitle: crystal structure of human cytosolic 5'-nucleotidase ii in2 complex with beryllium trifluoride 19 d1fe0a_ 12.0 12 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 20 d1u5da1 11.3 13 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Pleckstrin-homology domain (PH domain) 21 d1bcca1 not modelled 11.3 14 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:MPP-like 22 d2bdea1 not modelled 10.8 7 Fold:HAD-like Superfamily:HAD-like Family:5' nucleotidase-like 23 d3cx5a1 not modelled 10.7 18 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:MPP-like 24 c3rd4A_ not modelled 10.6 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of propen_03304 from proteus penneri atcc 351982 northeast structural genomics consortium target id pvr55 25 d1ufza_ not modelled 9.2 21 Fold:RuvA C-terminal domain-like Superfamily:HBS1-like domain Family:HBS1-like domain 26 c3pjyB_ not modelled 8.9 20 PDB header:transcription regulator Chain: B: PDB Molecule:hypothetical signal peptide protein; PDBTitle: crystal structure of a putative transcription regulator (r01717) from2 sinorhizobium meliloti 1021 at 1.55 a resolution 27 d1ci3m1 not modelled 8.3 42 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Cytochrome f, large domain Family:Cytochrome f, large domain 28 c1jmtB_ not modelled 8.3 27 PDB header:rna binding protein Chain: B: PDB Molecule:splicing factor u2af 65 kda subunit; PDBTitle: x-ray structure of a core u2af65/u2af35 heterodimer 29 c2crlA_ not modelled 8.2 21 PDB header:chaperone Chain: A: PDB Molecule:copper chaperone for superoxide dismutase; PDBTitle: the apo form of hma domain of copper chaperone for2 superoxide dismutase 30 d1e2wa1 not modelled 8.2 42 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Cytochrome f, large domain Family:Cytochrome f, large domain 31 c2opdA_ not modelled 8.0 20 PDB header:cell adhesion Chain: A: PDB Molecule:pilx; PDBTitle: structure of the neisseria meningitidis minor type iv pilin,2 pilx 32 d1tu2b1 not modelled 8.0 42 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Cytochrome f, large domain Family:Cytochrome f, large domain 33 d1hcza1 not modelled 7.9 42 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Cytochrome f, large domain Family:Cytochrome f, large domain 34 d1vf5c1 not modelled 7.8 42 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Cytochrome f, large domain Family:Cytochrome f, large domain 35 d1q2la1 not modelled 7.2 18 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:MPP-like 36 c2jxmB_ not modelled 7.1 42 PDB header:electron transport Chain: B: PDB Molecule:cytochrome f; PDBTitle: ensemble of twenty structures of the prochlorothrix2 hollandica plastocyanin- cytochrome f complex 37 c3nqyA_ not modelled 7.0 9 PDB header:hydrolase Chain: A: PDB Molecule:secreted metalloprotease mcp02; PDBTitle: crystal structure of the autoprocessed complex of vibriolysin mcp-022 with a single point mutation e346a 38 c1tu2B_ not modelled 7.0 42 PDB header:electron transport Chain: B: PDB Molecule:apocytochrome f; PDBTitle: the complex of nostoc cytochrome f and plastocyanin determin with2 paramagnetic nmr. based on the structures of cytochrome f and3 plastocyanin, 10 structures 39 c1ctmA_ not modelled 6.9 42 PDB header:electron transport(cytochrome) Chain: A: PDB Molecule:cytochrome f; PDBTitle: crystal structure of chloroplast cytochrome f reveals a2 novel cytochrome fold and unexpected heme ligation 40 c1e2vB_ not modelled 6.8 42 PDB header:electron transport proteins Chain: B: PDB Molecule:cytochrome f; PDBTitle: n153q mutant of cytochrome f from chlamydomonas reinhardtii 41 d1tafb_ not modelled 6.3 35 Fold:Histone-fold Superfamily:Histone-fold Family:TBP-associated factors, TAFs 42 d1hr6b1 not modelled 5.9 14 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:MPP-like 43 c1q90A_ not modelled 5.7 42 PDB header:photosynthesis Chain: A: PDB Molecule:apocytochrome f; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii

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