Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	D	S	N	S	R	L	V	Y	S	T	E	T	G	R	I	D	E	P	K	A	A	P	V	R	P	K	G	D	G	V	V	R	I	Q	R	Q	T	S	G	R	K	G	K	G	V	C	L	I	T	G	V	D	L	D	D	A	E	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?								?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?										?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.
Sequence		T	K	L	A	A	E	L	K	K	K	C	G	C	G	G	A	V	K	D	G	V	I	E	I	Q	G	D	K	R	D	L	L	K	S	L	L	E	A	K	G	M	K	V	K	L	A	G	G
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 1d1r chain A Region: 28 - 108 Aligned: 81 Modelled: 81 Confidence: 99.9% Identity: 100% Fold: eIF1-like Superfamily: eIF1-like Family: eIF1-like Phyre2 PDB 1d1r chain A Region: 28 - 108 Aligned: 81 Modelled: 81 Confidence: 99.9% Identity: 100% PDB header:structural genomics Chain: A: PDB Molecule:hypothetical 11.4 kd protein ycih in pyrf-osmb PDBTitle: nmr solution structure of the product of the e. coli ycih2 gene. Phyre2 PDB 2xzn chain F Region: 30 - 104 Aligned: 73 Modelled: 75 Confidence: 99.9% Identity: 22% PDB header:ribosome Chain: F: PDB Molecule:eif1; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2 Phyre2 PDB 2if1 chain A Region: 2 - 104 Aligned: 101 Modelled: 103 Confidence: 99.9% Identity: 26% Fold: eIF1-like Superfamily: eIF1-like Family: eIF1-like Phyre2 PDB 2ogh chain A Region: 18 - 104 Aligned: 85 Modelled: 87 Confidence: 99.8% Identity: 21% PDB header:translation Chain: A: PDB Molecule:eukaryotic translation initiation factor eif-1; PDBTitle: solution structure of yeast eif1 Phyre2 PDB 2e9h chain A Region: 33 - 99 Aligned: 67 Modelled: 67 Confidence: 86.2% Identity: 12% PDB header:translation Chain: A: PDB Molecule:eukaryotic translation initiation factor 5; PDBTitle: solution structure of the eif-5_eif-2b domain from human2 eukaryotic translation initiation factor 5 Phyre2 PDB 2dcu chain B Region: 34 - 99 Aligned: 62 Modelled: 66 Confidence: 81.9% Identity: 18% PDB header:translation Chain: B: PDB Molecule:translation initiation factor 2 beta subunit; PDBTitle: crystal structure of translation initiation factor aif2betagamma2 heterodimer with gdp Phyre2 PDB 1nee chain A domain 1 Region: 48 - 99 Aligned: 52 Modelled: 52 Confidence: 75.1% Identity: 19% Fold: Ribosome binding domain-like Superfamily: Translation initiation factor 2 beta, aIF2beta, N-terminal domain Family: Translation initiation factor 2 beta, aIF2beta, N-terminal domain Phyre2 PDB 1nee chain A Region: 48 - 99 Aligned: 52 Modelled: 52 Confidence: 69.8% Identity: 21% PDB header:translation Chain: A: PDB Molecule:probable translation initiation factor 2 beta PDBTitle: structure of archaeal translation factor aif2beta from2 methanobacterium thermoautrophicum Phyre2 PDB 1k8b chain A Region: 48 - 86 Aligned: 39 Modelled: 39 Confidence: 65.3% Identity: 21% Fold: Ribosome binding domain-like Superfamily: Translation initiation factor 2 beta, aIF2beta, N-terminal domain Family: Translation initiation factor 2 beta, aIF2beta, N-terminal domain Phyre2 PDB 1qba chain A domain 1 Region: 1 - 49 Aligned: 49 Modelled: 49 Confidence: 57.2% Identity: 20% Fold: Immunoglobulin-like beta-sandwich Superfamily: E set domains Family: E-set domains of sugar-utilizing enzymes Phyre2 PDB 1gxu chain A Region: 49 - 100 Aligned: 50 Modelled: 52 Confidence: 56.2% Identity: 18% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 3br8 chain A Region: 49 - 98 Aligned: 48 Modelled: 50 Confidence: 43.3% Identity: 25% PDB header:hydrolase Chain: A: PDB Molecule:probable acylphosphatase; PDBTitle: crystal structure of acylphosphatase from bacillus subtilis Phyre2 PDB 2gv1 chain A Region: 49 - 98 Aligned: 48 Modelled: 50 Confidence: 39.0% Identity: 17% PDB header:hydrolase Chain: A: PDB Molecule:probable acylphosphatase; PDBTitle: nmr solution structure of the acylphosphatase from2 eschaerichia coli Phyre2 PDB 1ulr chain A Region: 45 - 98 Aligned: 52 Modelled: 54 Confidence: 37.9% Identity: 19% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 2bje chain A Region: 45 - 98 Aligned: 52 Modelled: 54 Confidence: 32.6% Identity: 21% PDB header:hydrolase Chain: A: PDB Molecule:acylphosphatase; PDBTitle: acylphosphatase from sulfolobus solfataricus. monclinic p212 space group Phyre2 PDB 3hyj chain D Region: 2 - 106 Aligned: 105 Modelled: 105 Confidence: 29.4% Identity: 13% PDB header:transcription regulator Chain: D: PDB Molecule:protein duf199/whia; PDBTitle: crystal structure of the n-terminal laglidadg domain of duf199/whia Phyre2 PDB 1aps chain A Region: 49 - 97 Aligned: 47 Modelled: 49 Confidence: 29.0% Identity: 23% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 1w2i chain A Region: 49 - 98 Aligned: 48 Modelled: 50 Confidence: 26.4% Identity: 21% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 1urr chain A Region: 49 - 98 Aligned: 48 Modelled: 50 Confidence: 19.8% Identity: 17% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 1 d1d1ra_ 2 c1d1rA_ 3 c2xznF_ 4 d2if1a_ 5 c2oghA_ 6 c2e9hA_ 7 c2dcuB_ 8 d1neea1 9 c1neeA_ 10 d1k8ba_ 11 d1qbaa1 12 d1gxua_ 13 c3br8A_ 14 c2gv1A_ 15 d1ulra_ 16 c2bjeA_ 17 c3hyjD_ 18 d1apsa_ 19 d1w2ia_ 20 d1urra_ 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 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68

Detailed template information

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

1 d1d1ra_ 99.9 100 Fold:eIF1-like Superfamily:eIF1-like Family:eIF1-like 2 c1d1rA_ 99.9 100 PDB header:structural genomics Chain: A: PDB Molecule:hypothetical 11.4 kd protein ycih in pyrf-osmb PDBTitle: nmr solution structure of the product of the e. coli ycih2 gene. 3 c2xznF_ 99.9 22 PDB header:ribosome Chain: F: PDB Molecule:eif1; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2 4 d2if1a_ 99.9 26 Fold:eIF1-like Superfamily:eIF1-like Family:eIF1-like 5 c2oghA_ 99.8 21 PDB header:translation Chain: A: PDB Molecule:eukaryotic translation initiation factor eif-1; PDBTitle: solution structure of yeast eif1 6 c2e9hA_ 86.2 12 PDB header:translation Chain: A: PDB Molecule:eukaryotic translation initiation factor 5; PDBTitle: solution structure of the eif-5_eif-2b domain from human2 eukaryotic translation initiation factor 5 7 c2dcuB_ 81.9 18 PDB header:translation Chain: B: PDB Molecule:translation initiation factor 2 beta subunit; PDBTitle: crystal structure of translation initiation factor aif2betagamma2 heterodimer with gdp 8 d1neea1 75.1 19 Fold:Ribosome binding domain-like Superfamily:Translation initiation factor 2 beta, aIF2beta, N-terminal domain Family:Translation initiation factor 2 beta, aIF2beta, N-terminal domain 9 c1neeA_ 69.8 21 PDB header:translation Chain: A: PDB Molecule:probable translation initiation factor 2 beta PDBTitle: structure of archaeal translation factor aif2beta from2 methanobacterium thermoautrophicum 10 d1k8ba_ 65.3 21 Fold:Ribosome binding domain-like Superfamily:Translation initiation factor 2 beta, aIF2beta, N-terminal domain Family:Translation initiation factor 2 beta, aIF2beta, N-terminal domain 11 d1qbaa1 57.2 20 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:E-set domains of sugar-utilizing enzymes 12 d1gxua_ 56.2 18 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 13 c3br8A_ 43.3 25 PDB header:hydrolase Chain: A: PDB Molecule:probable acylphosphatase; PDBTitle: crystal structure of acylphosphatase from bacillus subtilis 14 c2gv1A_ 39.0 17 PDB header:hydrolase Chain: A: PDB Molecule:probable acylphosphatase; PDBTitle: nmr solution structure of the acylphosphatase from2 eschaerichia coli 15 d1ulra_ 37.9 19 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 16 c2bjeA_ 32.6 21 PDB header:hydrolase Chain: A: PDB Molecule:acylphosphatase; PDBTitle: acylphosphatase from sulfolobus solfataricus. monclinic p212 space group 17 c3hyjD_ 29.4 13 PDB header:transcription regulator Chain: D: PDB Molecule:protein duf199/whia; PDBTitle: crystal structure of the n-terminal laglidadg domain of duf199/whia 18 d1apsa_ 29.0 23 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 19 d1w2ia_ 26.4 21 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 20 d1urra_ 19.8 17 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 21 d2acya_ not modelled 16.5 25 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 22 c1qbaA_ not modelled 13.6 22 PDB header:glycosyl hydrolase Chain: A: PDB Molecule:chitobiase; PDBTitle: bacterial chitobiase, glycosyl hydrolase family 20 23 d1ka9f_ not modelled 12.9 22 Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Histidine biosynthesis enzymes 24 d1zhva2 not modelled 12.8 10 Fold:Ferredoxin-like Superfamily:ACT-like Family:Atu0741-like 25 c3eubJ_ not modelled 12.7 17 PDB header:oxidoreductase Chain: J: PDB Molecule:xanthine dehydrogenase/oxidase; PDBTitle: crystal structure of desulfo-xanthine oxidase with xanthine 26 d1thfd_ not modelled 12.6 21 Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Histidine biosynthesis enzymes 27 c2kyzA_ not modelled 12.4 18 PDB header:metal binding protein Chain: A: PDB Molecule:heavy metal binding protein; PDBTitle: nmr structure of heavy metal binding protein tm0320 from thermotoga2 maritima 28 d1in0a2 not modelled 11.7 18 Fold:Ferredoxin-like Superfamily:YajQ-like Family:YajQ-like 29 d2a2pa1 not modelled 11.6 24 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Selenoprotein W-related 30 c3ofgA_ not modelled 10.8 17 PDB header:chaperone Chain: A: PDB Molecule:boca/mesd chaperone for ywtd beta-propeller-egf protein 1; PDBTitle: structured domain of caenorhabditis elegans bmy-1 31 d2qswa1 not modelled 10.2 16 Fold:Ferredoxin-like Superfamily:ACT-like Family:NIL domain-like 32 c3b9jI_ not modelled 9.7 17 PDB header:oxidoreductase Chain: I: PDB Molecule:xanthine oxidase; PDBTitle: structure of xanthine oxidase with 2-hydroxy-6-methylpurine 33 c3h7hA_ not modelled 9.4 17 PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor spt4; PDBTitle: crystal structure of the human transcription elongation factor dsif,2 hspt4/hspt5 (176-273) 34 c2kgsA_ not modelled 9.3 32 PDB header:membrane protein Chain: A: PDB Molecule:uncharacterized protein rv0899/mt0922; PDBTitle: solution structure of the amino-terminal domain of ompatb, a pore2 forming protein from mycobacterium tuberculosis 35 d2f06a2 not modelled 9.0 17 Fold:Ferredoxin-like Superfamily:ACT-like Family:BT0572-like 36 c1rm6F_ not modelled 8.8 32 PDB header:oxidoreductase Chain: F: PDB Molecule:4-hydroxybenzoyl-coa reductase gamma subunit; PDBTitle: structure of 4-hydroxybenzoyl-coa reductase from thauera2 aromatica 37 d2aqea1 not modelled 8.6 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:SWIRM domain 38 d1oqya1 not modelled 8.4 12 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 39 c1n60D_ not modelled 8.1 24 PDB header:oxidoreductase Chain: D: PDB Molecule:carbon monoxide dehydrogenase small chain; PDBTitle: crystal structure of the cu,mo-co dehydrogenase (codh); cyanide-2 inactivated form 40 d1whza_ not modelled 8.1 20 Fold:dsRBD-like Superfamily:YcfA/nrd intein domain Family:YcfA-like 41 d1jrma_ not modelled 7.9 26 Fold:YggU-like Superfamily:YggU-like Family:YggU-like 42 c3cw2M_ not modelled 7.8 29 PDB header:translation Chain: M: PDB Molecule:translation initiation factor 2 subunit beta; PDBTitle: crystal structure of the intact archaeal translation2 initiation factor 2 from sulfolobus solfataricus . 43 c2eljA_ not modelled 7.5 11 PDB header:transcription Chain: A: PDB Molecule:transcriptional adapter 2; PDBTitle: solution structure of the swirm domain of baker's yeast2 transcriptional adapter 2 44 c1zhvA_ not modelled 7.2 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein atu0741; PDBTitle: x-ray crystal structure protein atu0741 from agobacterium tumefaciens.2 northeast structural genomics consortium target atr8. 45 c3fd2A_ not modelled 7.2 19 PDB header:hydrolase/dna Chain: A: PDB Molecule:dna endonuclease i-msoi, linker, dna endonuclease i-msoi; PDBTitle: crystal structure of mmsoi/dna complex with calcium 46 c3fzyA_ not modelled 7.1 26 PDB header:toxin Chain: A: PDB Molecule:rtx toxin rtxa; PDBTitle: crystal structure of pre-cleavage form of cysteine protease domain2 from vibrio cholerae rtxa toxin 47 c2uwjE_ not modelled 7.0 22 PDB header:chaperone Chain: E: PDB Molecule:type iii export protein psce; PDBTitle: structure of the heterotrimeric complex which regulates2 type iii secretion needle formation 48 c1ffuA_ not modelled 7.0 21 PDB header:hydrolase Chain: A: PDB Molecule:cuts, iron-sulfur protein of carbon monoxide PDBTitle: carbon monoxide dehydrogenase from hydrogenophaga2 pseudoflava which lacks the mo-pyranopterin moiety of the3 molybdenum cofactor 49 c3hrdH_ not modelled 6.9 14 PDB header:oxidoreductase Chain: H: PDB Molecule:nicotinate dehydrogenase small fes subunit; PDBTitle: crystal structure of nicotinate dehydrogenase 50 c3aq3A_ not modelled 6.9 25 PDB header:toxin Chain: A: PDB Molecule:6b protein; PDBTitle: molecular insights into plant cell proliferation disturbance by2 agrobacterium protein 6b 51 c1in0B_ not modelled 6.5 18 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:yajq protein; PDBTitle: yajq protein (hi1034) 52 c1ou5A_ not modelled 6.3 23 PDB header:translation, transferase Chain: A: PDB Molecule:trna cca-adding enzyme; PDBTitle: crystal structure of human cca-adding enzyme 53 d1zata2 not modelled 6.3 19 Fold:L,D-transpeptidase pre-catalytic domain-like Superfamily:L,D-transpeptidase pre-catalytic domain-like Family:L,D-transpeptidase pre-catalytic domain-like 54 d1h5ya_ not modelled 6.2 14 Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Histidine biosynthesis enzymes 55 d1v93a_ not modelled 6.1 11 Fold:TIM beta/alpha-barrel Superfamily:FAD-linked oxidoreductase Family:Methylenetetrahydrofolate reductase 56 d1bgva1 not modelled 6.1 10 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Aminoacid dehydrogenase-like, C-terminal domain 57 d2cuja1 not modelled 5.9 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:SWIRM domain 58 d1dd4c_ not modelled 5.8 39 Fold:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family:Ribosomal protein L7/12, oligomerisation (N-terminal) domain 59 c3hrlA_ not modelled 5.8 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:endonuclease-like protein; PDBTitle: crystal structure of a putative endonuclease-like protein (ngo0050)2 from neisseria gonorrhoeae 60 c3ihtB_ not modelled 5.7 29 PDB header:transferase Chain: B: PDB Molecule:s-adenosyl-l-methionine methyl transferase; PDBTitle: crystal structure of s-adenosyl-l-methionine methyl transferase2 (yp_165822.1) from silicibacter pomeroyi dss-3 at 1.80 a resolution 61 c1t3qD_ not modelled 5.7 14 PDB header:oxidoreductase Chain: D: PDB Molecule:quinoline 2-oxidoreductase small subunit; PDBTitle: crystal structure of quinoline 2-oxidoreductase from pseudomonas2 putida 86 62 d3dhxa1 not modelled 5.5 24 Fold:Ferredoxin-like Superfamily:ACT-like Family:NIL domain-like 63 c3hluA_ not modelled 5.4 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein duf2179; PDBTitle: crystal structure of uncharacterized protein conserved in bacteria2 duf2179 from eubacterium ventriosum 64 d1zcha1 not modelled 5.4 28 Fold:FMN-dependent nitroreductase-like Superfamily:FMN-dependent nitroreductase-like Family:NADH oxidase/flavin reductase 65 d1b5ta_ not modelled 5.3 13 Fold:TIM beta/alpha-barrel Superfamily:FAD-linked oxidoreductase Family:Methylenetetrahydrofolate reductase 66 c3jsyA_ not modelled 5.3 21 PDB header:ribosomal protein Chain: A: PDB Molecule:acidic ribosomal protein p0 homolog; PDBTitle: n-terminal fragment of ribosomal protein l10 from methanococcus2 jannaschii 67 c2w3zA_ not modelled 5.2 6 PDB header:hydrolase Chain: A: PDB Molecule:putative deacetylase; PDBTitle: structure of a streptococcus mutans ce4 esterase 68 d1gmua2 not modelled 5.1 21 Fold:Ferredoxin-like Superfamily:Urease metallochaperone UreE, C-terminal domain Family:Urease metallochaperone UreE, C-terminal domain

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