Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	L	S	T	K	Q	K	Q	H	L	K	G	L	A	H	P	L	K	P	V	V	L	L	G	S	N	G	L	T	E	G	V	L	A	E	I	E	Q	A	L	E	H	H	E	L	I	K	V	K	I	A	T	E	D	R	E	T	K	T
Secondary structure
SS confidence
Disorder		?	?	?	?																																																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.
Sequence		L	I	V	E	A	I	V	R	E	T	G	A	C	N	V	Q	V	I	G	K	T	L	V	L	Y	R	P	T	K	E	R	K	I	S	L	P	R
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 1ln4 chain A Region: 1 - 97 Aligned: 97 Modelled: 97 Confidence: 100.0% Identity: 98% Fold: IF3-like Superfamily: YhbY-like Family: YhbY-like Phyre2 PDB 1jo0 chain A Region: 2 - 97 Aligned: 96 Modelled: 96 Confidence: 100.0% Identity: 75% Fold: IF3-like Superfamily: YhbY-like Family: YhbY-like Phyre2 PDB 1rq8 chain A Region: 3 - 96 Aligned: 94 Modelled: 94 Confidence: 100.0% Identity: 38% Fold: IF3-like Superfamily: YhbY-like Family: YhbY-like Phyre2 PDB 2e6x chain D Region: 64 - 80 Aligned: 17 Modelled: 16 Confidence: 27.4% Identity: 18% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein ttha1281; PDBTitle: x-ray structure of tt1592 from thermus thermophilus hb8 Phyre2 PDB 2pc6 chain A domain 1 Region: 44 - 84 Aligned: 39 Modelled: 41 Confidence: 25.8% Identity: 13% Fold: Ferredoxin-like Superfamily: ACT-like Family: IlvH-like Phyre2 PDB 1stz chain A domain 1 Region: 2 - 48 Aligned: 47 Modelled: 47 Confidence: 16.7% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Heat-inducible transcription repressor HrcA, N-terminal domain Phyre2 PDB 1iuf chain A domain 1 Region: 2 - 20 Aligned: 19 Modelled: 19 Confidence: 15.7% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Centromere-binding Phyre2 PDB 2pc6 chain C Region: 30 - 84 Aligned: 53 Modelled: 55 Confidence: 15.6% Identity: 17% PDB header:lyase Chain: C: PDB Molecule:probable acetolactate synthase isozyme iii (small subunit); PDBTitle: crystal structure of putative acetolactate synthase- small subunit2 from nitrosomonas europaea Phyre2 PDB 1nvp chain B Region: 27 - 43 Aligned: 17 Modelled: 17 Confidence: 13.9% Identity: 35% Fold: Transcription factor IIA (TFIIA), alpha-helical domain Superfamily: Transcription factor IIA (TFIIA), alpha-helical domain Family: Transcription factor IIA (TFIIA), alpha-helical domain Phyre2 PDB 1nvp chain B Region: 27 - 43 Aligned: 17 Modelled: 17 Confidence: 13.9% Identity: 35% PDB header:transcription/dna Chain: B: PDB Molecule:transcription initiation factor iia alpha chain; PDBTitle: human tfiia/tbp/dna complex Phyre2 PDB 1wmu chain B Region: 1 - 13 Aligned: 13 Modelled: 13 Confidence: 13.1% Identity: 15% Fold: Globin-like Superfamily: Globin-like Family: Globins Phyre2 PDB 1lc3 chain A Region: 1 - 49 Aligned: 49 Modelled: 49 Confidence: 13.1% Identity: 24% PDB header:oxidoreductase Chain: A: PDB Molecule:biliverdin reductase a; PDBTitle: crystal structure of a biliverdin reductase enzyme-cofactor2 complex Phyre2 PDB 1nh2 chain B Region: 27 - 43 Aligned: 17 Modelled: 17 Confidence: 12.3% Identity: 18% Fold: Transcription factor IIA (TFIIA), alpha-helical domain Superfamily: Transcription factor IIA (TFIIA), alpha-helical domain Family: Transcription factor IIA (TFIIA), alpha-helical domain Phyre2 PDB 1s16 chain A domain 2 Region: 14 - 54 Aligned: 41 Modelled: 41 Confidence: 11.7% Identity: 10% Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Family: DNA gyrase/MutL, N-terminal domain Phyre2 PDB 1nh9 chain A Region: 18 - 72 Aligned: 54 Modelled: 55 Confidence: 11.5% Identity: 17% Fold: IF3-like Superfamily: AlbA-like Family: DNA-binding protein AlbA Phyre2 PDB 1zzg chain B Region: 6 - 81 Aligned: 74 Modelled: 76 Confidence: 11.5% Identity: 18% PDB header:isomerase Chain: B: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: crystal structure of hypothetical protein tt0462 from thermus2 thermophilus hb8 Phyre2 PDB 2f1f chain A domain 2 Region: 44 - 84 Aligned: 39 Modelled: 39 Confidence: 11.3% Identity: 15% Fold: Ferredoxin-like Superfamily: ACT-like Family: IlvH-like Phyre2 PDB 1fhj chain B Region: 1 - 13 Aligned: 13 Modelled: 13 Confidence: 10.7% Identity: 23% Fold: Globin-like Superfamily: Globin-like Family: Globins Phyre2 PDB 2fgc chain A domain 1 Region: 44 - 84 Aligned: 38 Modelled: 41 Confidence: 10.6% Identity: 16% Fold: Ferredoxin-like Superfamily: ACT-like Family: IlvH-like Phyre2 PDB 1cg5 chain B Region: 1 - 13 Aligned: 13 Modelled: 13 Confidence: 10.6% Identity: 38% Fold: Globin-like Superfamily: Globin-like Family: Globins Phyre2 1 d1ln4a_ 2 d1jo0a_ 3 d1rq8a_ 4 c2e6xD_ 5 d2pc6a1 6 d1stza1 7 d1iufa1 8 c2pc6C_ 9 d1nvpb_ 10 c1nvpB_ 11 d1wmub_ 12 c1lc3A_ 13 d1nh2b_ 14 d1s16a2 15 d1nh9a_ 16 c1zzgB_ 17 d2f1fa2 18 d1fhjb_ 19 d2fgca1 20 d1cg5b_ 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

Detailed template information

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

1 d1ln4a_ 100.0 98 Fold:IF3-like Superfamily:YhbY-like Family:YhbY-like 2 d1jo0a_ 100.0 75 Fold:IF3-like Superfamily:YhbY-like Family:YhbY-like 3 d1rq8a_ 100.0 38 Fold:IF3-like Superfamily:YhbY-like Family:YhbY-like 4 c2e6xD_ 27.4 18 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein ttha1281; PDBTitle: x-ray structure of tt1592 from thermus thermophilus hb8 5 d2pc6a1 25.8 13 Fold:Ferredoxin-like Superfamily:ACT-like Family:IlvH-like 6 d1stza1 16.7 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Heat-inducible transcription repressor HrcA, N-terminal domain 7 d1iufa1 15.7 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 8 c2pc6C_ 15.6 17 PDB header:lyase Chain: C: PDB Molecule:probable acetolactate synthase isozyme iii (small subunit); PDBTitle: crystal structure of putative acetolactate synthase- small subunit2 from nitrosomonas europaea 9 d1nvpb_ 13.9 35 Fold:Transcription factor IIA (TFIIA), alpha-helical domain Superfamily:Transcription factor IIA (TFIIA), alpha-helical domain Family:Transcription factor IIA (TFIIA), alpha-helical domain 10 c1nvpB_ 13.9 35 PDB header:transcription/dna Chain: B: PDB Molecule:transcription initiation factor iia alpha chain; PDBTitle: human tfiia/tbp/dna complex 11 d1wmub_ 13.1 15 Fold:Globin-like Superfamily:Globin-like Family:Globins 12 c1lc3A_ 13.1 24 PDB header:oxidoreductase Chain: A: PDB Molecule:biliverdin reductase a; PDBTitle: crystal structure of a biliverdin reductase enzyme-cofactor2 complex 13 d1nh2b_ 12.3 18 Fold:Transcription factor IIA (TFIIA), alpha-helical domain Superfamily:Transcription factor IIA (TFIIA), alpha-helical domain Family:Transcription factor IIA (TFIIA), alpha-helical domain 14 d1s16a2 11.7 10 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Family:DNA gyrase/MutL, N-terminal domain 15 d1nh9a_ 11.5 17 Fold:IF3-like Superfamily:AlbA-like Family:DNA-binding protein AlbA 16 c1zzgB_ 11.5 18 PDB header:isomerase Chain: B: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: crystal structure of hypothetical protein tt0462 from thermus2 thermophilus hb8 17 d2f1fa2 11.3 15 Fold:Ferredoxin-like Superfamily:ACT-like Family:IlvH-like 18 d1fhjb_ 10.7 23 Fold:Globin-like Superfamily:Globin-like Family:Globins 19 d2fgca1 10.6 16 Fold:Ferredoxin-like Superfamily:ACT-like Family:IlvH-like 20 d1cg5b_ 10.6 38 Fold:Globin-like Superfamily:Globin-like Family:Globins 21 d1spgb_ not modelled 10.5 8 Fold:Globin-like Superfamily:Globin-like Family:Globins 22 c3ka5A_ not modelled 10.2 16 PDB header:chaperone Chain: A: PDB Molecule:ribosome-associated protein y (psrp-1); PDBTitle: crystal structure of ribosome-associated protein y (psrp-1)2 from clostridium acetobutylicum. northeast structural3 genomics consortium target id car123a 23 c3rbvA_ not modelled 9.2 10 PDB header:sugar binding protein Chain: A: PDB Molecule:sugar 3-ketoreductase; PDBTitle: crystal structure of kijd10, a 3-ketoreductase from actinomadura2 kijaniata incomplex with nadp 24 c3e9mC_ not modelled 8.6 8 PDB header:oxidoreductase Chain: C: PDB Molecule:oxidoreductase, gfo/idh/moca family; PDBTitle: crystal structure of an oxidoreductase from enterococcus2 faecalis 25 d1l3la1 not modelled 8.3 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 26 d1oela2 not modelled 8.0 15 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 27 d3bj1b1 not modelled 7.8 0 Fold:Globin-like Superfamily:Globin-like Family:Globins 28 c2yu3A_ not modelled 7.4 30 PDB header:transcription Chain: A: PDB Molecule:dna-directed rna polymerase iii 39 kda PDBTitle: solution structure of the domain swapped wingedhelix in dna-2 directed rna polymerase iii 39 kda polypeptide 29 d2d5xb1 not modelled 7.3 23 Fold:Globin-like Superfamily:Globin-like Family:Globins 30 d1srva_ not modelled 7.1 17 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 31 c2fgcA_ not modelled 7.1 16 PDB header:transferase Chain: A: PDB Molecule:acetolactate synthase, small subunit; PDBTitle: crystal structure of acetolactate synthase- small subunit from2 thermotoga maritima 32 d1lc0a1 not modelled 7.0 22 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 33 d1we3a2 not modelled 6.8 17 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 34 c2rrnA_ not modelled 6.8 16 PDB header:protein transport Chain: A: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: solution structure of secdf periplasmic domain p4 35 d1dk7a_ not modelled 6.5 15 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 36 c3k2tA_ not modelled 6.5 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lmo2511 protein; PDBTitle: crystal structure of lmo2511 protein from listeria2 monocytogenes, northeast structural genomics consortium3 target lkr84a 37 c3mvcB_ not modelled 6.5 15 PDB header:electron transport Chain: B: PDB Molecule:globin protein 6; PDBTitle: high resolution crystal structure of the heme domain of glb-6 from c.2 elegans 38 c1tltB_ not modelled 6.4 16 PDB header:oxidoreductase Chain: B: PDB Molecule:putative oxidoreductase (virulence factor mvim homolog); PDBTitle: crystal structure of a putative oxidoreductase (virulence factor mvim2 homolog) 39 c2nuhA_ not modelled 6.4 19 PDB header:unknown function Chain: A: PDB Molecule:periplasmic divalent cation tolerance protein; PDBTitle: crystal structure of cuta from the phytopathgen bacterium xylella2 fastidiosa 40 c2h9uA_ not modelled 6.4 17 PDB header:dna binding protein Chain: A: PDB Molecule:dna/rna-binding protein alba 2; PDBTitle: crystal structure of the archaea specific dna binding protein 41 d1kida_ not modelled 6.3 15 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 42 d2d0ob1 not modelled 6.2 13 Fold:Anticodon-binding domain-like Superfamily:B12-dependent dehydatase associated subunit Family:Dehydratase-reactivating factor beta subunit 43 d1nfja_ not modelled 6.1 19 Fold:IF3-like Superfamily:AlbA-like Family:DNA-binding protein AlbA 44 d1sjpa2 not modelled 6.0 12 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 45 d1fsla_ not modelled 6.0 15 Fold:Globin-like Superfamily:Globin-like Family:Globins 46 d1tw4a_ not modelled 5.8 32 Fold:Lipocalins Superfamily:Lipocalins Family:Fatty acid binding protein-like 47 c3em0A_ not modelled 5.8 21 PDB header:lipid binding protein Chain: A: PDB Molecule:ileal bile acid-binding protein; PDBTitle: crystal structure of zebrafish ileal bile acid-bindin protein2 complexed with cholic acid (crystal form b). 48 d1r6bx3 not modelled 5.7 23 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 49 d1ofha_ not modelled 5.6 17 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 50 d1ydha_ not modelled 5.6 21 Fold:MCP/YpsA-like Superfamily:MCP/YpsA-like Family:MoCo carrier protein-like 51 d2isba1 not modelled 5.5 13 Fold:The "swivelling" beta/beta/alpha domain Superfamily:FumA C-terminal domain-like Family:FumA C-terminal domain-like 52 d1bxni_ not modelled 5.4 27 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 53 d1jg5a_ not modelled 5.4 22 Fold:GTP cyclohydrolase I feedback regulatory protein, GFRP Superfamily:GTP cyclohydrolase I feedback regulatory protein, GFRP Family:GTP cyclohydrolase I feedback regulatory protein, GFRP 54 d2nrka1 not modelled 5.4 25 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:GrpB-like 55 d1owla2 not modelled 5.4 17 Fold:Cryptochrome/photolyase, N-terminal domain Superfamily:Cryptochrome/photolyase, N-terminal domain Family:Cryptochrome/photolyase, N-terminal domain 56 d1np7a2 not modelled 5.3 17 Fold:Cryptochrome/photolyase, N-terminal domain Superfamily:Cryptochrome/photolyase, N-terminal domain Family:Cryptochrome/photolyase, N-terminal domain 57 d1ub3a_ not modelled 5.3 22 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase 58 d2cvea1 not modelled 5.3 25 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:YigZ N-terminal domain-like 59 d2a4aa1 not modelled 5.3 17 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase 60 d1a04a1 not modelled 5.2 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 61 c1tezB_ not modelled 5.2 17 PDB header:lyase/dna Chain: B: PDB Molecule:deoxyribodipyrimidine photolyase; PDBTitle: complex between dna and the dna photolyase from anacystis nidulans

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