Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	I	T	L	S	K	R	I	G	L	L	A	I	L	L	P	C	A	L	A	L	S	T	T	V	H	A	E	T	N	K	L	V	I	E	S	G	D	S	A	Q	S	R	Q	H	A	A	M	E	K	E	Q	W	N	D	T	R	N	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?																		?	?	?	?														?	?	?	?													?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.
Sequence		R	Q	K	V	N	K	R	T	E	K	E	W	D	K	A	D	A	A	F	D	N	R	D	K	C	E	Q	S	A	N	I	N	A	Y	W	E	P	N	T	L	R	C	L	D	R	R	T	G	R	V	I	T	P
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 2kmf chain A Region: 57 - 80 Aligned: 24 Modelled: 24 Confidence: 30.8% Identity: 25% PDB header:photosynthesis Chain: A: PDB Molecule:photosystem ii 11 kda protein; PDBTitle: solution structure of psb27 from cyanobacterial photosystem2 ii Phyre2 PDB 2vda chain B Region: 1 - 28 Aligned: 28 Modelled: 28 Confidence: 27.7% Identity: 36% PDB header:protein transport Chain: B: PDB Molecule:maltoporin; PDBTitle: solution structure of the seca-signal peptide complex Phyre2 PDB 1w6u chain A Region: 7 - 60 Aligned: 54 Modelled: 54 Confidence: 21.8% Identity: 22% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Tyrosine-dependent oxidoreductases Phyre2 PDB 1p5l chain A Region: 63 - 75 Aligned: 13 Modelled: 13 Confidence: 21.4% Identity: 54% PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution phe5 to ser modification in sds-d252 micelles Phyre2 PDB 1p5k chain A Region: 63 - 75 Aligned: 13 Modelled: 13 Confidence: 20.0% Identity: 54% PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution ser to leu11 modification in sds-d252 micelles Phyre2 PDB 1txk chain A domain 2 Region: 86 - 99 Aligned: 14 Modelled: 14 Confidence: 14.3% Identity: 50% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: MdoG-like Phyre2 PDB 1txk chain A Region: 86 - 99 Aligned: 14 Modelled: 14 Confidence: 13.2% Identity: 50% PDB header:biosynthetic protein Chain: A: PDB Molecule:glucans biosynthesis protein g; PDBTitle: crystal structure of escherichia coli opgg Phyre2 PDB 1p0o chain A Region: 63 - 75 Aligned: 13 Modelled: 13 Confidence: 13.0% Identity: 54% PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution of trp for gln and asp at position2 17 and 19 modification in sds-d25 micelles Phyre2 PDB 1p0j chain A Region: 63 - 75 Aligned: 13 Modelled: 13 Confidence: 12.9% Identity: 54% PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution asp to trp modification in sds-d252 micelles Phyre2 PDB 1ot0 chain A Region: 63 - 75 Aligned: 13 Modelled: 13 Confidence: 12.9% Identity: 54% PDB header:antibiotic Chain: A: PDB Molecule:50s ribosomal protein l1; PDBTitle: structure of antimicrobial peptide, hp (2-20) and its2 analogues derived from helicobacter pylori, as determined3 by 1h nmr spectroscopy Phyre2 PDB 1p0l chain A Region: 63 - 75 Aligned: 13 Modelled: 13 Confidence: 12.7% Identity: 54% PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution gln to trp modification in sds-d252 micelles Phyre2 PDB 1p0g chain A Region: 63 - 75 Aligned: 13 Modelled: 13 Confidence: 12.6% Identity: 54% PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: structure of antimicrobial peptide, hp (2-20) and its2 analogues derived from helicobacter pylori, as determined3 by 1h nmr spectroscopy Phyre2 PDB 3gwn chain A Region: 59 - 82 Aligned: 24 Modelled: 24 Confidence: 12.6% Identity: 17% PDB header:oxidoreductase Chain: A: PDB Molecule:probable fad-linked sulfhydryl oxidase r596; PDBTitle: crystal structure of the fad binding domain from mimivirus sulfhydryl2 oxidase r596 Phyre2 PDB 2yyt chain A Region: 28 - 55 Aligned: 28 Modelled: 28 Confidence: 12.0% Identity: 21% PDB header:lyase Chain: A: PDB Molecule:orotidine 5'-phosphate decarboxylase; PDBTitle: crystal structure of uncharacterized conserved protein from2 geobacillus kaustophilus Phyre2 PDB 1t95 chain A domain 1 Region: 99 - 113 Aligned: 15 Modelled: 15 Confidence: 10.2% Identity: 27% Fold: RuvA C-terminal domain-like Superfamily: Hypothetical protein AF0491, middle domain Family: Hypothetical protein AF0491, middle domain Phyre2 PDB 1fcq chain A Region: 42 - 95 Aligned: 49 Modelled: 54 Confidence: 9.4% Identity: 22% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Bee venom hyaluronidase Phyre2 PDB 1fcu chain A Region: 42 - 95 Aligned: 49 Modelled: 54 Confidence: 9.3% Identity: 22% PDB header:hydrolase Chain: A: PDB Molecule:hyaluronoglucosaminidase; PDBTitle: crystal structure (trigonal) of bee venom hyaluronidase Phyre2 PDB 3eab chain D Region: 52 - 64 Aligned: 13 Modelled: 13 Confidence: 8.6% Identity: 38% PDB header:cell cycle Chain: D: PDB Molecule:spastin; PDBTitle: crystal structure of spastin mit in complex with escrt iii Phyre2 PDB 2z02 chain A Region: 36 - 76 Aligned: 41 Modelled: 41 Confidence: 7.8% Identity: 29% PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: crystal structure of2 phosphoribosylaminoimidazolesuccinocarboxamide synthase3 wit atp from methanocaldococcus jannaschii Phyre2 PDB 1bh9 chain B Region: 45 - 63 Aligned: 19 Modelled: 19 Confidence: 7.5% Identity: 26% Fold: Histone-fold Superfamily: Histone-fold Family: TBP-associated factors, TAFs Phyre2 1 c2kmfA_ 2 c2vdaB_ 3 d1w6ua_ 4 c1p5lA_ 5 c1p5kA_ 6 d1txka2 7 c1txkA_ 8 c1p0oA_ 9 c1p0jA_ 10 c1ot0A_ 11 c1p0lA_ 12 c1p0gA_ 13 c3gwnA_ 14 c2yytA_ 15 d1t95a1 16 d1fcqa_ 17 c1fcuA_ 18 c3eabD_ 19 c2z02A_ 20 d1bh9b_ 21 22 23 24 25 26

Detailed template information

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

1 c2kmfA_ 30.8 25 PDB header:photosynthesis Chain: A: PDB Molecule:photosystem ii 11 kda protein; PDBTitle: solution structure of psb27 from cyanobacterial photosystem2 ii 2 c2vdaB_ 27.7 36 PDB header:protein transport Chain: B: PDB Molecule:maltoporin; PDBTitle: solution structure of the seca-signal peptide complex 3 d1w6ua_ 21.8 22 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Tyrosine-dependent oxidoreductases 4 c1p5lA_ 21.4 54 PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution phe5 to ser modification in sds-d252 micelles 5 c1p5kA_ 20.0 54 PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution ser to leu11 modification in sds-d252 micelles 6 d1txka2 14.3 50 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:MdoG-like 7 c1txkA_ 13.2 50 PDB header:biosynthetic protein Chain: A: PDB Molecule:glucans biosynthesis protein g; PDBTitle: crystal structure of escherichia coli opgg 8 c1p0oA_ 13.0 54 PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution of trp for gln and asp at position2 17 and 19 modification in sds-d25 micelles 9 c1p0jA_ 12.9 54 PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution asp to trp modification in sds-d252 micelles 10 c1ot0A_ 12.9 54 PDB header:antibiotic Chain: A: PDB Molecule:50s ribosomal protein l1; PDBTitle: structure of antimicrobial peptide, hp (2-20) and its2 analogues derived from helicobacter pylori, as determined3 by 1h nmr spectroscopy 11 c1p0lA_ 12.7 54 PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: hp (2-20) substitution gln to trp modification in sds-d252 micelles 12 c1p0gA_ 12.6 54 PDB header:ribosome Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1; PDBTitle: structure of antimicrobial peptide, hp (2-20) and its2 analogues derived from helicobacter pylori, as determined3 by 1h nmr spectroscopy 13 c3gwnA_ 12.6 17 PDB header:oxidoreductase Chain: A: PDB Molecule:probable fad-linked sulfhydryl oxidase r596; PDBTitle: crystal structure of the fad binding domain from mimivirus sulfhydryl2 oxidase r596 14 c2yytA_ 12.0 21 PDB header:lyase Chain: A: PDB Molecule:orotidine 5'-phosphate decarboxylase; PDBTitle: crystal structure of uncharacterized conserved protein from2 geobacillus kaustophilus 15 d1t95a1 10.2 27 Fold:RuvA C-terminal domain-like Superfamily:Hypothetical protein AF0491, middle domain Family:Hypothetical protein AF0491, middle domain 16 d1fcqa_ 9.4 22 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Bee venom hyaluronidase 17 c1fcuA_ 9.3 22 PDB header:hydrolase Chain: A: PDB Molecule:hyaluronoglucosaminidase; PDBTitle: crystal structure (trigonal) of bee venom hyaluronidase 18 c3eabD_ 8.6 38 PDB header:cell cycle Chain: D: PDB Molecule:spastin; PDBTitle: crystal structure of spastin mit in complex with escrt iii 19 c2z02A_ 7.8 29 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: crystal structure of2 phosphoribosylaminoimidazolesuccinocarboxamide synthase3 wit atp from methanocaldococcus jannaschii 20 d1bh9b_ 7.5 26 Fold:Histone-fold Superfamily:Histone-fold Family:TBP-associated factors, TAFs 21 c2h31A_ not modelled 7.0 22 PDB header:ligase, lyase Chain: A: PDB Molecule:multifunctional protein ade2; PDBTitle: crystal structure of human paics, a bifunctional carboxylase and2 synthetase in purine biosynthesis 22 c2dl1A_ not modelled 6.3 22 PDB header:protein transport Chain: A: PDB Molecule:spartin; PDBTitle: solution structure of the mit domain from human spartin 23 d1cjca1 not modelled 5.9 12 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:C-terminal domain of adrenodoxin reductase-like 24 c3kreA_ not modelled 5.5 17 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from ehrlichia chaffeensis at 1.8a resolution 25 d1bf2a2 not modelled 5.4 14 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 26 c2x3bB_ not modelled 5.1 27 PDB header:hydrolase Chain: B: PDB Molecule:toxic extracellular endopeptidase; PDBTitle: asap1 inactive mutant e294a, an extracellular toxic zinc2 metalloendopeptidase

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