Secondary structure and disorder prediction

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Sequence		M	T	V	K	Q	T	V	E	I	T	N	K	L	G	M	H	A	R	P	A	M	K	L	F	E	L	M	Q	G	F	D	A	E	V	L	L	R	N	D	E	G	T	E	A	E	A	N	S	V	I	A	L	L	M	L	D	S	A	K	G
Secondary structure
SS confidence
Disorder		?																																													?									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90
Sequence		R	Q	I	E	V	E	A	T	G	P	Q	E	E	E	A	L	A	A	V	I	A	L	F	N	S	G	F	D	E	D
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 1qr5 chain A Region: 2 - 89 Aligned: 87 Modelled: 88 Confidence: 100.0% Identity: 28% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 2hpr chain A Region: 4 - 89 Aligned: 85 Modelled: 86 Confidence: 100.0% Identity: 33% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 1ka5 chain A Region: 2 - 89 Aligned: 87 Modelled: 88 Confidence: 100.0% Identity: 25% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 1mo1 chain A Region: 2 - 89 Aligned: 87 Modelled: 88 Confidence: 100.0% Identity: 31% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 3le1 chain B Region: 2 - 87 Aligned: 85 Modelled: 86 Confidence: 100.0% Identity: 32% PDB header:transferase Chain: B: PDB Molecule:phosphotransferase system, hpr-related proteins; PDBTitle: crystal structure of apohpr monomer from thermoanaerobacter2 tengcongensis Phyre2 PDB 1pch chain A Region: 4 - 89 Aligned: 85 Modelled: 86 Confidence: 100.0% Identity: 24% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 3ihs chain B Region: 2 - 84 Aligned: 82 Modelled: 82 Confidence: 100.0% Identity: 29% PDB header:transport protein Chain: B: PDB Molecule:phosphocarrier protein hpr; PDBTitle: crystal structure of a phosphocarrier protein hpr from2 bacillus anthracis str. ames Phyre2 PDB 1cm3 chain A Region: 2 - 85 Aligned: 82 Modelled: 84 Confidence: 99.9% Identity: 27% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 1ptf chain A Region: 2 - 86 Aligned: 84 Modelled: 85 Confidence: 99.9% Identity: 24% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 2nzu chain L domain 1 Region: 4 - 89 Aligned: 84 Modelled: 86 Confidence: 99.9% Identity: 31% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 1zvv chain J domain 1 Region: 2 - 86 Aligned: 83 Modelled: 85 Confidence: 99.9% Identity: 31% Fold: HPr-like Superfamily: HPr-like Family: HPr-like Phyre2 PDB 2jpi chain A Region: 2 - 87 Aligned: 78 Modelled: 81 Confidence: 67.9% Identity: 13% PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein; PDBTitle: chemical shift assignments of pa4090 from pseudomonas2 aeruginosa Phyre2 PDB 1vq3 chain A Region: 56 - 87 Aligned: 32 Modelled: 32 Confidence: 42.5% Identity: 19% Fold: PurS-like Superfamily: PurS-like Family: PurS subunit of FGAM synthetase Phyre2 PDB 1gtd chain A Region: 56 - 82 Aligned: 27 Modelled: 26 Confidence: 40.7% Identity: 15% Fold: PurS-like Superfamily: PurS-like Family: PurS subunit of FGAM synthetase Phyre2 PDB 2dgb chain A Region: 29 - 82 Aligned: 54 Modelled: 53 Confidence: 37.5% Identity: 20% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein purs; PDBTitle: structure of thermus thermophilus purs in the p21 form Phyre2 PDB 2zw2 chain B Region: 56 - 82 Aligned: 27 Modelled: 27 Confidence: 35.4% Identity: 19% PDB header:ligase Chain: B: PDB Molecule:putative uncharacterized protein sts178; PDBTitle: crystal structure of formylglycinamide ribonucleotide amidotransferase2 iii from sulfolobus tokodaii (stpurs) Phyre2 PDB 3goe chain A Region: 6 - 67 Aligned: 59 Modelled: 62 Confidence: 20.3% Identity: 15% PDB header:recombination, replication Chain: A: PDB Molecule:dna repair protein rad60; PDBTitle: molecular mimicry of sumo promotes dna repair Phyre2 PDB 1iba chain A Region: 32 - 86 Aligned: 54 Modelled: 55 Confidence: 18.7% Identity: 6% PDB header:phoshphotransferase Chain: A: PDB Molecule:glucose permease; PDBTitle: glucose permease (domain iib), nmr, 11 structures Phyre2 PDB 2vbu chain A domain 1 Region: 54 - 69 Aligned: 16 Modelled: 16 Confidence: 16.7% Identity: 19% Fold: Reductase/isomerase/elongation factor common domain Superfamily: Riboflavin kinase-like Family: CTP-dependent riboflavin kinase-like Phyre2 PDB 1r11 chain A domain 3 Region: 44 - 65 Aligned: 22 Modelled: 22 Confidence: 16.1% Identity: 14% Fold: MutS N-terminal domain-like Superfamily: tRNA-intron endonuclease N-terminal domain-like Family: tRNA-intron endonuclease N-terminal domain-like Phyre2 1 d1qr5a_ 2 d2hpra_ 3 d1ka5a_ 4 d1mo1a_ 5 c3le1B_ 6 d1pcha_ 7 c3ihsB_ 8 d1cm3a_ 9 d1ptfa_ 10 d2nzul1 11 d1zvvj1 12 c2jpiA_ 13 d1vq3a_ 14 d1gtda_ 15 c2dgbA_ 16 c2zw2B_ 17 c3goeA_ 18 c1ibaA_ 19 d2vbua1 20 d1r11a3 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 69 70 71 72 73 74 75 76

Detailed template information

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

1 d1qr5a_ 100.0 28 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 2 d2hpra_ 100.0 33 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 3 d1ka5a_ 100.0 25 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 4 d1mo1a_ 100.0 31 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 5 c3le1B_ 100.0 32 PDB header:transferase Chain: B: PDB Molecule:phosphotransferase system, hpr-related proteins; PDBTitle: crystal structure of apohpr monomer from thermoanaerobacter2 tengcongensis 6 d1pcha_ 100.0 24 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 7 c3ihsB_ 100.0 29 PDB header:transport protein Chain: B: PDB Molecule:phosphocarrier protein hpr; PDBTitle: crystal structure of a phosphocarrier protein hpr from2 bacillus anthracis str. ames 8 d1cm3a_ 99.9 27 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 9 d1ptfa_ 99.9 24 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 10 d2nzul1 99.9 31 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 11 d1zvvj1 99.9 31 Fold:HPr-like Superfamily:HPr-like Family:HPr-like 12 c2jpiA_ 67.9 13 PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein; PDBTitle: chemical shift assignments of pa4090 from pseudomonas2 aeruginosa 13 d1vq3a_ 42.5 19 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 14 d1gtda_ 40.7 15 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 15 c2dgbA_ 37.5 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein purs; PDBTitle: structure of thermus thermophilus purs in the p21 form 16 c2zw2B_ 35.4 19 PDB header:ligase Chain: B: PDB Molecule:putative uncharacterized protein sts178; PDBTitle: crystal structure of formylglycinamide ribonucleotide amidotransferase2 iii from sulfolobus tokodaii (stpurs) 17 c3goeA_ 20.3 15 PDB header:recombination, replication Chain: A: PDB Molecule:dna repair protein rad60; PDBTitle: molecular mimicry of sumo promotes dna repair 18 c1ibaA_ 18.7 6 PDB header:phoshphotransferase Chain: A: PDB Molecule:glucose permease; PDBTitle: glucose permease (domain iib), nmr, 11 structures 19 d2vbua1 16.7 19 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin kinase-like Family:CTP-dependent riboflavin kinase-like 20 d1r11a3 16.1 14 Fold:MutS N-terminal domain-like Superfamily:tRNA-intron endonuclease N-terminal domain-like Family:tRNA-intron endonuclease N-terminal domain-like 21 d2cdqa3 not modelled 15.8 24 Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like 22 c2yuiA_ not modelled 12.6 13 PDB header:apoptosis Chain: A: PDB Molecule:anamorsin; PDBTitle: solution structure of the n-terminal domain in human2 cytokine-induced apoptosis inhibitor anamorsin 23 d1umdb2 not modelled 12.0 22 Fold:TK C-terminal domain-like Superfamily:TK C-terminal domain-like Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain 24 c2etnA_ not modelled 11.5 11 PDB header:transcription Chain: A: PDB Molecule:anti-cleavage anti-grea transcription factor PDBTitle: crystal structure of thermus aquaticus gfh1 25 d1gtma1 not modelled 11.3 19 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Aminoacid dehydrogenase-like, C-terminal domain 26 d1aopa2 not modelled 11.1 15 Fold:Ferredoxin-like Superfamily:Nitrite/Sulfite reductase N-terminal domain-like Family:Duplicated SiR/NiR-like domains 1 and 3 27 d1oqya2 not modelled 10.8 56 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 28 d2etna2 not modelled 10.1 12 Fold:FKBP-like Superfamily:FKBP-like Family:GreA transcript cleavage factor, C-terminal domain 29 c2l66B_ not modelled 9.8 12 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, abrb family; PDBTitle: the dna-recognition fold of sso7c4 suggests a new member of spovt-abrb2 superfamily from archaea. 30 c3k6qB_ not modelled 9.3 14 PDB header:ligand binding protein Chain: B: PDB Molecule:putative ligand binding protein; PDBTitle: crystal structure of an antitoxin part of a putative toxin/antitoxin2 system (swol_0700) from syntrophomonas wolfei subsp. wolfei at 1.80 a3 resolution 31 d1hmja_ not modelled 9.2 19 Fold:RPB5-like RNA polymerase subunit Superfamily:RPB5-like RNA polymerase subunit Family:RPB5 32 d1srva_ not modelled 9.0 12 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 33 d1eika_ not modelled 9.0 13 Fold:RPB5-like RNA polymerase subunit Superfamily:RPB5-like RNA polymerase subunit Family:RPB5 34 d2ayia1 not modelled 9.0 15 Fold:Thermophilic metalloprotease-like Superfamily:Thermophilic metalloprotease-like Family:Thermophilic metalloprotease (M29) 35 d1t4aa_ not modelled 8.8 15 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 36 d1zjca1 not modelled 8.7 9 Fold:Thermophilic metalloprotease-like Superfamily:Thermophilic metalloprotease-like Family:Thermophilic metalloprotease (M29) 37 d1m2ka_ not modelled 8.3 17 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Sir2 family of transcriptional regulators 38 c2pmzV_ not modelled 8.2 13 PDB header:translation, transferase Chain: V: PDB Molecule:dna-directed rna polymerase subunit h; PDBTitle: archaeal rna polymerase from sulfolobus solfataricus 39 d1kr4a_ not modelled 8.1 33 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 40 d2f23a2 not modelled 7.9 12 Fold:FKBP-like Superfamily:FKBP-like Family:GreA transcript cleavage factor, C-terminal domain 41 d1we3a2 not modelled 7.8 12 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 42 c2p73A_ not modelled 7.7 9 PDB header:transferase Chain: A: PDB Molecule:putative glycosyltransferase (mannosyltransferase) involved PDBTitle: crystal structure of a glycosyltransferase involved in the2 glycosylation of the major capsid of pbcv-1 43 c1ztgD_ not modelled 7.7 10 PDB header:dna, rna binding protein/dna Chain: D: PDB Molecule:poly(rc)-binding protein 1; PDBTitle: human alpha polyc binding protein kh1 44 d1o8bb1 not modelled 7.6 9 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:D-ribose-5-phosphate isomerase (RpiA), catalytic domain 45 d1sjpa2 not modelled 7.5 14 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 46 d1dzfa2 not modelled 7.5 13 Fold:RPB5-like RNA polymerase subunit Superfamily:RPB5-like RNA polymerase subunit Family:RPB5 47 d1udxa3 not modelled 7.2 20 Fold:Obg GTP-binding protein C-terminal domain Superfamily:Obg GTP-binding protein C-terminal domain Family:Obg GTP-binding protein C-terminal domain 48 d1dk7a_ not modelled 7.2 11 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 49 c2p4vA_ not modelled 7.1 19 PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor greb; PDBTitle: crystal structure of the transcript cleavage factor, greb2 at 2.6a resolution 50 d1w85b2 not modelled 6.9 28 Fold:TK C-terminal domain-like Superfamily:TK C-terminal domain-like Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain 51 c2pn0D_ not modelled 6.6 23 PDB header:transcription Chain: D: PDB Molecule:prokaryotic transcription elongation factor PDBTitle: prokaryotic transcription elongation factor grea/greb from2 nitrosomonas europaea 52 c3bmbB_ not modelled 6.6 20 PDB header:rna binding protein Chain: B: PDB Molecule:regulator of nucleoside diphosphate kinase; PDBTitle: crystal structure of a new rna polymerase interacting2 protein 53 c2k4yA_ not modelled 6.4 21 PDB header:metal transport Chain: A: PDB Molecule:feoa-like protein; PDBTitle: nmr structure of feoa-like protein from clostridium2 acetobutylicum: northeast structural genomics consortium3 target car178 54 d1grja2 not modelled 6.4 17 Fold:FKBP-like Superfamily:FKBP-like Family:GreA transcript cleavage factor, C-terminal domain 55 c2ekeC_ not modelled 6.4 13 PDB header:ligase/protein binding Chain: C: PDB Molecule:ubiquitin-like protein smt3; PDBTitle: structure of a sumo-binding-motif mimic bound to smt3p-2 ubc9p: conservation of a noncovalent ubiquitin-like3 protein-e2 complex as a platform for selective4 interactions within a sumo pathway 56 d1p88a_ not modelled 6.4 17 Fold:IF3-like Superfamily:EPT/RTPC-like Family:Enolpyruvate transferase, EPT 57 d1xi3a_ not modelled 6.3 8 Fold:TIM beta/alpha-barrel Superfamily:Thiamin phosphate synthase Family:Thiamin phosphate synthase 58 c3e19D_ not modelled 6.2 26 PDB header:transcription regulator, metal binding p Chain: D: PDB Molecule:feoa; PDBTitle: crystal structure of iron uptake regulatory protein (feoa) solved by2 sulfur sad in a monoclinic space group 59 d2fy9a1 not modelled 6.2 35 Fold:Double-split beta-barrel Superfamily:AbrB/MazE/MraZ-like Family:AbrB N-terminal domain-like 60 d2bfdb2 not modelled 6.2 16 Fold:TK C-terminal domain-like Superfamily:TK C-terminal domain-like Family:Branched-chain alpha-keto acid dehydrogenase beta-subunit, C-terminal-domain 61 d2j0wa3 not modelled 6.1 9 Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like 62 c2ro5B_ not modelled 6.1 17 PDB header:transcription Chain: B: PDB Molecule:stage v sporulation protein t; PDBTitle: rdc-refined solution structure of the n-terminal dna2 recognition domain of the bacillus subtilis transition-3 state regulator spovt 63 d1bgva1 not modelled 6.0 11 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Aminoacid dehydrogenase-like, C-terminal domain 64 d2gcxa1 not modelled 5.9 32 Fold:SH3-like barrel Superfamily:C-terminal domain of transcriptional repressors Family:FeoA-like 65 d1o8ba1 not modelled 5.9 15 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:D-ribose-5-phosphate isomerase (RpiA), catalytic domain 66 d1yfba1 not modelled 5.8 18 Fold:Double-split beta-barrel Superfamily:AbrB/MazE/MraZ-like Family:AbrB N-terminal domain-like 67 d1b26a1 not modelled 5.6 14 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Aminoacid dehydrogenase-like, C-terminal domain 68 c2k5fA_ not modelled 5.6 26 PDB header:metal transport Chain: A: PDB Molecule:ferrous iron transport protein a; PDBTitle: solution nmr structure of feoa protein from chlorobium2 tepidum. northeast structural genomics consortium target3 ctr121 69 c2w1tB_ not modelled 5.5 18 PDB header:transcription Chain: B: PDB Molecule:stage v sporulation protein t; PDBTitle: crystal structure of b. subtilis spovt 70 d2hmfa2 not modelled 5.5 9 Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like 71 d1v77a_ not modelled 5.4 18 Fold:7-stranded beta/alpha barrel Superfamily:PHP domain-like Family:RNase P subunit p30 72 d1kida_ not modelled 5.2 11 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 73 d1efpa1 not modelled 5.2 16 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:ETFP subunits 74 c3lzkC_ not modelled 5.2 13 PDB header:hydrolase Chain: C: PDB Molecule:fumarylacetoacetate hydrolase family protein; PDBTitle: the crystal structure of a probably aromatic amino acid2 degradation protein from sinorhizobium meliloti 1021 75 c3u7jA_ not modelled 5.1 13 PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase a; PDBTitle: crystal structure of ribose-5-phosphate isomerase a from burkholderia2 thailandensis 76 d1yema_ not modelled 5.1 19 Fold:CYTH-like phosphatases Superfamily:CYTH-like phosphatases Family:CYTH 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