Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	N	Q	L	D	N	L	T	E	R	V	R	G	S	N	K	L	V	D	R	W	L	H	V	R	K	H	L	L	V	A	Y	Y	N	L	V	G	I	K	P	G	K	E	S	Y	M	R	L	N	E	K	A	L	D	D	F	C	Q	S
Secondary structure
SS confidence
Disorder		?	?	?										?																											?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	V	D	Y	L	S	A	G	H	F	S	I	Y	E	R	I	L	H	K	L	E	G	N	G	Q	L	A	R	A	A	K	I	W	P	Q	L	E	A	N	T	Q	Q	I	M	D	Y	Y	D	S	S	L	E	T	A	I	D	H	D	N	Y
Secondary structure
SS confidence
Disorder																									?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.
Sequence		L	E	F	Q	Q	V	L	S	D	I	G	E	A	L	E	A	R	F	V	L	E	D	K	L	I	L	L	V	L	D	A	A	R	V	K	H	P	A
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 2p7v chain A Region: 1 - 158 Aligned: 151 Modelled: 158 Confidence: 100.0% Identity: 100% PDB header:transcription Chain: A: PDB Molecule:regulator of sigma d; PDBTitle: crystal structure of the escherichia coli regulator of sigma 70, rsd,2 in complex with sigma 70 domain 4 Phyre2 PDB 2wvm chain A Region: 10 - 25 Aligned: 16 Modelled: 16 Confidence: 44.1% Identity: 19% PDB header:transferase Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase; PDBTitle: h309a mutant of mannosyl-3-phosphoglycerate synthase from2 thermus thermophilus hb27 in complex with3 gdp-alpha-d-mannose and mg(ii) Phyre2 PDB 1p94 chain A Region: 15 - 25 Aligned: 11 Modelled: 11 Confidence: 39.8% Identity: 55% Fold: Ribbon-helix-helix Superfamily: Ribbon-helix-helix Family: CopG-like Phyre2 PDB 2ply chain B Region: 24 - 109 Aligned: 86 Modelled: 86 Confidence: 30.5% Identity: 19% PDB header:translation/rna Chain: B: PDB Molecule:selenocysteine-specific elongation factor; PDBTitle: structure of the mrna binding fragment of elongation factor2 selb in complex with secis rna. Phyre2 PDB 2zu8 chain A Region: 12 - 24 Aligned: 13 Modelled: 13 Confidence: 28.9% Identity: 8% PDB header:transferase Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase; PDBTitle: crystal structure of mannosyl-3-phosphoglycerate synthase2 from pyrococcus horikoshii Phyre2 PDB 1tlh chain A Region: 27 - 77 Aligned: 51 Modelled: 51 Confidence: 28.4% Identity: 16% Fold: Anti-sigma factor AsiA Superfamily: Anti-sigma factor AsiA Family: Anti-sigma factor AsiA Phyre2 PDB 3k1t chain A Region: 69 - 80 Aligned: 12 Modelled: 12 Confidence: 28.1% Identity: 33% PDB header:ligase Chain: A: PDB Molecule:glutamate--cysteine ligase gsha; PDBTitle: crystal structure of putative gamma-glutamylcysteine synthetase2 (yp_546622.1) from methylobacillus flagellatus kt at 1.90 a3 resolution Phyre2 PDB 1wsu chain A Region: 24 - 109 Aligned: 86 Modelled: 86 Confidence: 27.8% Identity: 19% PDB header:translation/rna Chain: A: PDB Molecule:selenocysteine-specific elongation factor; PDBTitle: c-terminal domain of elongation factor selb complexed with2 secis rna Phyre2 PDB 3hos chain A Region: 15 - 112 Aligned: 87 Modelled: 98 Confidence: 25.1% Identity: 14% PDB header:transferase, dna binding protein/dna Chain: A: PDB Molecule:transposable element mariner, complete cds; PDBTitle: crystal structure of the mariner mos1 paired end complex with mg Phyre2 PDB 1avo chain D Region: 2 - 63 Aligned: 62 Modelled: 62 Confidence: 21.9% Identity: 10% PDB header:proteasome activator Chain: D: PDB Molecule:11s regulator; PDBTitle: proteasome activator reg(alpha) Phyre2 PDB 1uou chain A domain 1 Region: 87 - 146 Aligned: 60 Modelled: 60 Confidence: 20.7% Identity: 12% Fold: Methionine synthase domain-like Superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Phyre2 PDB 2o3a chain A domain 1 Region: 1 - 14 Aligned: 14 Modelled: 14 Confidence: 19.0% Identity: 21% Fold: alpha/beta knot Superfamily: alpha/beta knot Family: AF0751-like Phyre2 PDB 2yy8 chain B Region: 1 - 14 Aligned: 14 Modelled: 14 Confidence: 17.3% Identity: 14% PDB header:transferase Chain: B: PDB Molecule:upf0106 protein ph0461; PDBTitle: crystal structure of archaeal trna-methylase for position2 56 (atrm56) from pyrococcus horikoshii, complexed with s-3 adenosyl-l-methionine Phyre2 PDB 1tjl chain A domain 1 Region: 36 - 61 Aligned: 26 Modelled: 26 Confidence: 17.0% Identity: 31% Fold: Long alpha-hairpin Superfamily: DnaK suppressor protein DksA, alpha-hairpin domain Family: DnaK suppressor protein DksA, alpha-hairpin domain Phyre2 PDB 2tpt chain A domain 1 Region: 87 - 146 Aligned: 60 Modelled: 60 Confidence: 15.1% Identity: 8% Fold: Methionine synthase domain-like Superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Phyre2 PDB 1v92 chain A Region: 24 - 41 Aligned: 18 Modelled: 18 Confidence: 11.4% Identity: 17% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: TAP-C domain-like Phyre2 PDB 2nrj chain A Region: 90 - 150 Aligned: 61 Modelled: 61 Confidence: 11.1% Identity: 16% PDB header:toxin Chain: A: PDB Molecule:hbl b protein; PDBTitle: crystal structure of hemolysin binding component from2 bacillus cereus Phyre2 PDB 1y2o chain A domain 1 Region: 72 - 151 Aligned: 80 Modelled: 80 Confidence: 10.8% Identity: 16% Fold: BAR/IMD domain-like Superfamily: BAR/IMD domain-like Family: IMD domain Phyre2 PDB 2g8y chain B Region: 49 - 61 Aligned: 13 Modelled: 12 Confidence: 9.8% Identity: 46% PDB header:oxidoreductase Chain: B: PDB Molecule:malate/l-lactate dehydrogenases; PDBTitle: the structure of a putative malate/lactate dehydrogenase from e. coli. Phyre2 PDB 2e9x chain A domain 1 Region: 22 - 69 Aligned: 48 Modelled: 48 Confidence: 8.9% Identity: 17% Fold: GINS helical bundle-like Superfamily: GINS helical bundle-like Family: PSF1 N-terminal domain-like Phyre2 1 c2p7vA_ 2 c2wvmA_ 3 d1p94a_ 4 c2plyB_ 5 c2zu8A_ 6 d1tlha_ 7 c3k1tA_ 8 c1wsuA_ 9 c3hosA_ 10 c1avoD_ 11 d1uoua1 12 d2o3aa1 13 c2yy8B_ 14 d1tjla1 15 d2tpta1 16 d1v92a_ 17 c2nrjA_ 18 d1y2oa1 19 c2g8yB_ 20 d2e9xa1 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

Detailed template information

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

1 c2p7vA_ 100.0 100 PDB header:transcription Chain: A: PDB Molecule:regulator of sigma d; PDBTitle: crystal structure of the escherichia coli regulator of sigma 70, rsd,2 in complex with sigma 70 domain 4 2 c2wvmA_ 44.1 19 PDB header:transferase Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase; PDBTitle: h309a mutant of mannosyl-3-phosphoglycerate synthase from2 thermus thermophilus hb27 in complex with3 gdp-alpha-d-mannose and mg(ii) 3 d1p94a_ 39.8 55 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:CopG-like 4 c2plyB_ 30.5 19 PDB header:translation/rna Chain: B: PDB Molecule:selenocysteine-specific elongation factor; PDBTitle: structure of the mrna binding fragment of elongation factor2 selb in complex with secis rna. 5 c2zu8A_ 28.9 8 PDB header:transferase Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase; PDBTitle: crystal structure of mannosyl-3-phosphoglycerate synthase2 from pyrococcus horikoshii 6 d1tlha_ 28.4 16 Fold:Anti-sigma factor AsiA Superfamily:Anti-sigma factor AsiA Family:Anti-sigma factor AsiA 7 c3k1tA_ 28.1 33 PDB header:ligase Chain: A: PDB Molecule:glutamate--cysteine ligase gsha; PDBTitle: crystal structure of putative gamma-glutamylcysteine synthetase2 (yp_546622.1) from methylobacillus flagellatus kt at 1.90 a3 resolution 8 c1wsuA_ 27.8 19 PDB header:translation/rna Chain: A: PDB Molecule:selenocysteine-specific elongation factor; PDBTitle: c-terminal domain of elongation factor selb complexed with2 secis rna 9 c3hosA_ 25.1 14 PDB header:transferase, dna binding protein/dna Chain: A: PDB Molecule:transposable element mariner, complete cds; PDBTitle: crystal structure of the mariner mos1 paired end complex with mg 10 c1avoD_ 21.9 10 PDB header:proteasome activator Chain: D: PDB Molecule:11s regulator; PDBTitle: proteasome activator reg(alpha) 11 d1uoua1 20.7 12 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 12 d2o3aa1 19.0 21 Fold:alpha/beta knot Superfamily:alpha/beta knot Family:AF0751-like 13 c2yy8B_ 17.3 14 PDB header:transferase Chain: B: PDB Molecule:upf0106 protein ph0461; PDBTitle: crystal structure of archaeal trna-methylase for position2 56 (atrm56) from pyrococcus horikoshii, complexed with s-3 adenosyl-l-methionine 14 d1tjla1 17.0 31 Fold:Long alpha-hairpin Superfamily:DnaK suppressor protein DksA, alpha-hairpin domain Family:DnaK suppressor protein DksA, alpha-hairpin domain 15 d2tpta1 15.1 8 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 16 d1v92a_ 11.4 17 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TAP-C domain-like 17 c2nrjA_ 11.1 16 PDB header:toxin Chain: A: PDB Molecule:hbl b protein; PDBTitle: crystal structure of hemolysin binding component from2 bacillus cereus 18 d1y2oa1 10.8 16 Fold:BAR/IMD domain-like Superfamily:BAR/IMD domain-like Family:IMD domain 19 c2g8yB_ 9.8 46 PDB header:oxidoreductase Chain: B: PDB Molecule:malate/l-lactate dehydrogenases; PDBTitle: the structure of a putative malate/lactate dehydrogenase from e. coli. 20 d2e9xa1 8.9 17 Fold:GINS helical bundle-like Superfamily:GINS helical bundle-like Family:PSF1 N-terminal domain-like 21 d1d4ua1 not modelled 8.8 12 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA repair factor XPA DNA- and RPA-binding domain, C-terminal subdomain 22 c3pcsB_ not modelled 8.4 29 PDB header:protein transport/transferase Chain: B: PDB Molecule:espg; PDBTitle: structure of espg-pak2 autoinhibitory ialpha3 helix complex 23 d2fbqa2 not modelled 8.0 20 Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal domain 24 c1z56B_ not modelled 7.8 30 PDB header:ligase Chain: B: PDB Molecule:ligase interacting factor 1; PDBTitle: co-crystal structure of lif1p-lig4p 25 c3oqlB_ not modelled 7.5 9 PDB header:transcription Chain: B: PDB Molecule:tena homolog; PDBTitle: crystal structure of a tena homolog (pspto1738) from pseudomonas2 syringae pv. tomato str. dc3000 at 2.54 a resolution 26 d2nvna1 not modelled 7.4 29 Fold:ssDNA-binding transcriptional regulator domain Superfamily:ssDNA-binding transcriptional regulator domain Family:PMN2A0962/syc2379c-like 27 d1x2ma1 not modelled 7.3 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 28 d1brwa1 not modelled 7.2 11 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 29 c3r89A_ not modelled 7.1 15 PDB header:lyase Chain: A: PDB Molecule:orotidine 5'-phosphate decarboxylase; PDBTitle: crystal structure of orotidine 5-phosphate decarboxylase from2 anaerococcus prevotii dsm 20548 30 c3dkaA_ not modelled 6.8 12 PDB header:unknown function Chain: A: PDB Molecule:dinb-like protein; PDBTitle: crystal structure of a dinb-like protein (yjoa, bsu12410) from2 bacillus subtilis at 2.30 a resolution 31 d2it9a1 not modelled 6.8 11 Fold:ssDNA-binding transcriptional regulator domain Superfamily:ssDNA-binding transcriptional regulator domain Family:PMN2A0962/syc2379c-like 32 c2e19A_ not modelled 6.7 15 PDB header:transcription Chain: A: PDB Molecule:transcription factor 8; PDBTitle: solution structure of the homeobox domain from human nil-2-2 a zinc finger protein, transcription factor 8 33 c3m9hB_ not modelled 6.6 28 PDB header:chaperone Chain: B: PDB Molecule:proteasome-associated atpase; PDBTitle: crystal structure of the amino terminal coiled coil domain of the2 mycobacterium tuberculosis proteasomal atpase mpa 34 d1v8ga1 not modelled 6.0 10 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 35 c1xawA_ not modelled 6.0 16 PDB header:cell adhesion Chain: A: PDB Molecule:occludin; PDBTitle: crystal structure of the cytoplasmic distal c-terminal2 domain of occludin 36 c2q9qC_ not modelled 5.9 17 PDB header:replication Chain: C: PDB Molecule:dna replication complex gins protein psf1; PDBTitle: the crystal structure of full length human gins complex 37 c3e5aB_ not modelled 5.9 27 PDB header:transferase Chain: B: PDB Molecule:targeting protein for xklp2; PDBTitle: crystal structure of aurora a in complex with vx-680 and tpx2 38 d1z3xa2 not modelled 5.9 18 Fold:GUN4-like Superfamily:GUN4-like Family:GUN4-like 39 d1oaia_ not modelled 5.7 17 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TAP-C domain-like 40 c2da7A_ not modelled 5.7 23 PDB header:dna binding protein Chain: A: PDB Molecule:zinc finger homeobox protein 1b; PDBTitle: solution structure of the homeobox domain of zinc finger2 homeobox protein 1b (smad interacting protein 1) 41 c1a92B_ not modelled 5.5 31 PDB header:leucine zipper Chain: B: PDB Molecule:delta antigen; PDBTitle: oligomerization domain of hepatitis delta antigen 42 d2vo1a1 not modelled 5.5 22 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 43 d1u9pa1 not modelled 5.5 29 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:Arc/Mnt-like phage repressors 44 c2w45A_ not modelled 5.4 18 PDB header:hydrolase Chain: A: PDB Molecule:alkaline exonuclease; PDBTitle: epstein-barr virus alkaline nuclease 45 d2p0ma1 not modelled 5.4 12 Fold:Lipoxigenase Superfamily:Lipoxigenase Family:Animal lipoxigenases 46 c2dmpA_ not modelled 5.3 30 PDB header:dna binding protein Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 2; PDBTitle: solution structure of the third homeobox domain of zinc2 fingers and homeoboxes protein 2 47 d1ydha_ not modelled 5.1 10 Fold:MCP/YpsA-like Superfamily:MCP/YpsA-like Family:MoCo carrier protein-like 48 d1upka_ not modelled 5.1 14 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:Mo25 protein

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