Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	T	L	T	E	D	D	V	L	E	Q	L	D	A	Q	D	N	L	F	S	F	M	K	T	A	H	T	I	L	L	Q	G	I	R	Q	F	L	P	S	L	F	V	D	N	D	E	E	I	V	E	Y	A	V	K	P	L	L	A	Q
Secondary structure
SS confidence
Disorder		?	?	?	?	?																																																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	G	P	L	D	D	I	D	V	A	L	R	L	I	Y	A	L	G	K	M	D	K	W	L	Y	A	D	I	T	H	F	S	Q	F	W	H	Y	L	N	E	Q	D	E	T	P	G	F	A	D	D	M	T	W	D	F	I	S	N	V	N
Secondary structure
SS confidence
Disorder				?	?																																					?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.
Sequence		S	I	T	R	N	A	M	L	Y	D	A	L	K	A	M	K	F	A	D	F	S	V	W	S	E	A	R	F	S	G	M	V	K	T	A	L	T	L	A	V	T	T	T	L	K	E	L	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 3brj chain A domain 1 Region: 5 - 168 Aligned: 163 Modelled: 164 Confidence: 100.0% Identity: 24% Fold: MtlR-like Superfamily: MtlR-like Family: MtlR-like Phyre2 PDB 3c8g chain A domain 1 Region: 1 - 168 Aligned: 159 Modelled: 167 Confidence: 100.0% Identity: 91% Fold: MtlR-like Superfamily: MtlR-like Family: MtlR-like Phyre2 PDB 1ylm chain A Region: 7 - 118 Aligned: 99 Modelled: 112 Confidence: 62.7% Identity: 11% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein bsu32300; PDBTitle: structure of cytosolic protein of unknown function yute2 from bacillus subtilis Phyre2 PDB 1wwp chain A Region: 31 - 104 Aligned: 73 Modelled: 74 Confidence: 31.0% Identity: 7% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ttha0636; PDBTitle: crystal structure of ttk003001694 from thermus thermophilus2 hb8 Phyre2 PDB 2nn4 chain A domain 1 Region: 71 - 93 Aligned: 23 Modelled: 23 Confidence: 21.7% Identity: 17% Fold: YqgQ-like Superfamily: YqgQ-like Family: YqgQ-like Phyre2 PDB 1wty chain A Region: 31 - 101 Aligned: 68 Modelled: 71 Confidence: 21.3% Identity: 10% Fold: Four-helical up-and-down bundle Superfamily: Nucleotidyltransferase substrate binding subunit/domain Family: Family 1 bi-partite nucleotidyltransferase subunit Phyre2 PDB 1vkf chain A Region: 43 - 80 Aligned: 36 Modelled: 38 Confidence: 18.2% Identity: 14% Fold: TIM beta/alpha-barrel Superfamily: GlpP-like Family: GlpP-like Phyre2 PDB 3pr6 chain A Region: 109 - 157 Aligned: 49 Modelled: 49 Confidence: 13.1% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:trapp-associated protein tca17; PDBTitle: crystal structure analysis of yeast trapp associate protein tca17 Phyre2 PDB 2a45 chain J Region: 74 - 98 Aligned: 25 Modelled: 25 Confidence: 12.2% Identity: 12% PDB header:hydrolase/hydrolase inhibitor Chain: J: PDB Molecule:fibrinogen alpha chain; PDBTitle: crystal structure of the complex between thrombin and the central "e"2 region of fibrin Phyre2 PDB 1twf chain C domain 2 Region: 73 - 81 Aligned: 9 Modelled: 9 Confidence: 10.5% Identity: 22% Fold: Insert subdomain of RNA polymerase alpha subunit Superfamily: Insert subdomain of RNA polymerase alpha subunit Family: Insert subdomain of RNA polymerase alpha subunit Phyre2 PDB 1gxs chain C Region: 60 - 88 Aligned: 29 Modelled: 29 Confidence: 10.2% Identity: 14% PDB header:lyase Chain: C: PDB Molecule:p-(s)-hydroxymandelonitrile lyase chain a; PDBTitle: crystal structure of hydroxynitrile lyase from sorghum2 bicolor in complex with inhibitor benzoic acid: a novel3 cyanogenic enzyme Phyre2 PDB 3ulw chain A Region: 1 - 59 Aligned: 59 Modelled: 59 Confidence: 9.9% Identity: 7% PDB header:ribosomal protein Chain: A: PDB Molecule:30s ribosomal protein s15; PDBTitle: 30s ribosomal protein s15 from campylobacter jejuni Phyre2 PDB 1vmd chain A Region: 61 - 152 Aligned: 80 Modelled: 92 Confidence: 9.7% Identity: 29% Fold: Methylglyoxal synthase-like Superfamily: Methylglyoxal synthase-like Family: Methylglyoxal synthase, MgsA Phyre2 PDB 2fex chain A domain 1 Region: 56 - 92 Aligned: 36 Modelled: 37 Confidence: 9.1% Identity: 17% Fold: Flavodoxin-like Superfamily: Class I glutamine amidotransferase-like Family: DJ-1/PfpI Phyre2 PDB 2rkh chain A Region: 52 - 87 Aligned: 34 Modelled: 36 Confidence: 8.5% Identity: 26% PDB header:transcription Chain: A: PDB Molecule:putative apha-like transcription factor; PDBTitle: crystal structure of a putative apha-like transcription factor2 (zp_00208345.1) from magnetospirillum magnetotacticum ms-1 at 2.00 a3 resolution Phyre2 PDB 3o2r chain D Region: 28 - 64 Aligned: 37 Modelled: 37 Confidence: 7.3% Identity: 14% PDB header:hydrolase Chain: D: PDB Molecule:ribonuclease iii; PDBTitle: structural flexibility in region involved in dimer formation of2 nuclease domain of ribonuclase iii (rnc) from campylobacter jejuni Phyre2 PDB 3dfg chain A Region: 4 - 63 Aligned: 53 Modelled: 60 Confidence: 7.0% Identity: 9% PDB header:recombination Chain: A: PDB Molecule:regulatory protein recx; PDBTitle: crystal structure of recx: a potent inhibitor protein of2 reca from xanthomonas campestris Phyre2 PDB 2gsc chain A domain 1 Region: 62 - 88 Aligned: 27 Modelled: 27 Confidence: 6.8% Identity: 19% Fold: Bromodomain-like Superfamily: IVS-encoded protein-like Family: IVS-encoded protein-like Phyre2 PDB 1i27 chain A Region: 153 - 169 Aligned: 17 Modelled: 17 Confidence: 6.7% Identity: 24% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal domain of the rap74 subunit of TFIIF Phyre2 PDB 1g1x chain B Region: 1 - 59 Aligned: 59 Modelled: 59 Confidence: 6.3% Identity: 8% Fold: S15/NS1 RNA-binding domain Superfamily: S15/NS1 RNA-binding domain Family: Ribosomal protein S15 Phyre2 1 d3brja1 2 d3c8ga1 3 c1ylmA_ 4 c1wwpA_ 5 d2nn4a1 6 d1wtya_ 7 d1vkfa_ 8 c3pr6A_ 9 c2a45J_ 10 d1twfc2 11 c1gxsC_ 12 c3ulwA_ 13 d1vmda_ 14 d2fexa1 15 c2rkhA_ 16 c3o2rD_ 17 c3dfgA_ 18 d2gsca1 19 d1i27a_ 20 d1g1xb_ 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 d3brja1 100.0 24 Fold:MtlR-like Superfamily:MtlR-like Family:MtlR-like 2 d3c8ga1 100.0 91 Fold:MtlR-like Superfamily:MtlR-like Family:MtlR-like 3 c1ylmA_ 62.7 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein bsu32300; PDBTitle: structure of cytosolic protein of unknown function yute2 from bacillus subtilis 4 c1wwpA_ 31.0 7 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ttha0636; PDBTitle: crystal structure of ttk003001694 from thermus thermophilus2 hb8 5 d2nn4a1 21.7 17 Fold:YqgQ-like Superfamily:YqgQ-like Family:YqgQ-like 6 d1wtya_ 21.3 10 Fold:Four-helical up-and-down bundle Superfamily:Nucleotidyltransferase substrate binding subunit/domain Family:Family 1 bi-partite nucleotidyltransferase subunit 7 d1vkfa_ 18.2 14 Fold:TIM beta/alpha-barrel Superfamily:GlpP-like Family:GlpP-like 8 c3pr6A_ 13.1 10 PDB header:transport protein Chain: A: PDB Molecule:trapp-associated protein tca17; PDBTitle: crystal structure analysis of yeast trapp associate protein tca17 9 c2a45J_ 12.2 12 PDB header:hydrolase/hydrolase inhibitor Chain: J: PDB Molecule:fibrinogen alpha chain; PDBTitle: crystal structure of the complex between thrombin and the central "e"2 region of fibrin 10 d1twfc2 10.5 22 Fold:Insert subdomain of RNA polymerase alpha subunit Superfamily:Insert subdomain of RNA polymerase alpha subunit Family:Insert subdomain of RNA polymerase alpha subunit 11 c1gxsC_ 10.2 14 PDB header:lyase Chain: C: PDB Molecule:p-(s)-hydroxymandelonitrile lyase chain a; PDBTitle: crystal structure of hydroxynitrile lyase from sorghum2 bicolor in complex with inhibitor benzoic acid: a novel3 cyanogenic enzyme 12 c3ulwA_ 9.9 7 PDB header:ribosomal protein Chain: A: PDB Molecule:30s ribosomal protein s15; PDBTitle: 30s ribosomal protein s15 from campylobacter jejuni 13 d1vmda_ 9.7 29 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Methylglyoxal synthase, MgsA 14 d2fexa1 9.1 17 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:DJ-1/PfpI 15 c2rkhA_ 8.5 26 PDB header:transcription Chain: A: PDB Molecule:putative apha-like transcription factor; PDBTitle: crystal structure of a putative apha-like transcription factor2 (zp_00208345.1) from magnetospirillum magnetotacticum ms-1 at 2.00 a3 resolution 16 c3o2rD_ 7.3 14 PDB header:hydrolase Chain: D: PDB Molecule:ribonuclease iii; PDBTitle: structural flexibility in region involved in dimer formation of2 nuclease domain of ribonuclase iii (rnc) from campylobacter jejuni 17 c3dfgA_ 7.0 9 PDB header:recombination Chain: A: PDB Molecule:regulatory protein recx; PDBTitle: crystal structure of recx: a potent inhibitor protein of2 reca from xanthomonas campestris 18 d2gsca1 6.8 19 Fold:Bromodomain-like Superfamily:IVS-encoded protein-like Family:IVS-encoded protein-like 19 d1i27a_ 6.7 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of the rap74 subunit of TFIIF 20 d1g1xb_ 6.3 8 Fold:S15/NS1 RNA-binding domain Superfamily:S15/NS1 RNA-binding domain Family:Ribosomal protein S15 21 d1zata2 not modelled 6.3 7 Fold:L,D-transpeptidase pre-catalytic domain-like Superfamily:L,D-transpeptidase pre-catalytic domain-like Family:L,D-transpeptidase pre-catalytic domain-like 22 d1k8ke_ not modelled 6.1 21 Fold:Arp2/3 complex 21 kDa subunit ARPC3 Superfamily:Arp2/3 complex 21 kDa subunit ARPC3 Family:Arp2/3 complex 21 kDa subunit ARPC3 23 d1irqa_ not modelled 5.8 27 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:Omega transcriptional repressor 24 c1irqB_ not modelled 5.7 27 PDB header:gene regulation Chain: B: PDB Molecule:omega transcriptional repressor; PDBTitle: crystal structure of omega transcriptional repressor at2 1.5a resolution 25 d2rlda1 not modelled 5.6 15 Fold:Bromodomain-like Superfamily:IVS-encoded protein-like Family:IVS-encoded protein-like 26 d1s5qb_ not modelled 5.5 9 Fold:PAH2 domain Superfamily:PAH2 domain Family:PAH2 domain 27 c2keyA_ not modelled 5.4 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative phage integrase; PDBTitle: solution nmr structure of a domain from a putative phage integrase2 protein bf2284 from bacteroides fragilis, northeast structural3 genomics consortium target bfr257c 28 d1qkia1 not modelled 5.2 14 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 29 c1p0oA_ not modelled 5.0 25 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

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