Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	R	L	I	M	A	T	M	V	T	A	I	L	A	S	S	T	V	W	A	A	D	N	A	P	V	A	A	Q	Q	Q	T	Q	Q	V	Q	Q	T	Q	K	T	A	A	A	A	E	R	I	S	E	Q	G	L	Y	A	M	R	D	V
Secondary structure
SS confidence
Disorder		?	?	?															?	?			?	?	?	?	?	?	?	?	?	?	?	?	?	?	?			?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	V	A	R	L	A	L	F	H	G	D	P	E	K	A	K	E	L	T	N	E	A	S	A	L	L	S	D	D	S	T	E	W	A	K	F	A	K	P	G	K	K	T	N	L	N	D	D	Q	Y	I	V	I	N	A	S	V	G	I	S
Secondary structure
SS confidence
Disorder									?	?	?	?																		?	?		?					?	?	?	?	?	?	?	?	?	?	?										?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		E	S	Y	V	A	T	P	E	K	E	A	A	I	K	I	A	N	E	K	M	A	K	G	D	K	K	G	A	M	E	E	L	R	L	A	G	V	G	V	M	E	N	Q	Y	L	M	P	L	K	Q	T	R	N	A	L	A	D	A	Q	K
Secondary structure
SS confidence
Disorder			?	?	?	?	?																?	?	?										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.
Sequence		L	L	D	K	K	Q	Y	Y	E	A	N	L	A	L	K	G	A	E	D	G	I	I	V	D	S	E	A	L	F	V	N
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 3dza chain B Region: 27 - 208 Aligned: 179 Modelled: 180 Confidence: 100.0% Identity: 59% PDB header:unknown function Chain: B: PDB Molecule:uncharacterized putative membrane protein; PDBTitle: crystal structure of a putative membrane protein of unknown function2 (yfdx) from klebsiella pneumoniae subsp. at 1.65 a resolution Phyre2 PDB 2kc7 chain A Region: 133 - 199 Aligned: 60 Modelled: 67 Confidence: 73.7% Identity: 15% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:bfr218_protein; PDBTitle: solution nmr structure of bacteroides fragilis protein2 bf1650. northeast structural genomics consortium target3 bfr218 Phyre2 PDB 2gy9 chain T domain 1 Region: 60 - 91 Aligned: 32 Modelled: 32 Confidence: 63.3% Identity: 19% Fold: Spectrin repeat-like Superfamily: Ribosomal protein S20 Family: Ribosomal protein S20 Phyre2 PDB 2uub chain T domain 1 Region: 60 - 91 Aligned: 32 Modelled: 32 Confidence: 60.2% Identity: 19% Fold: Spectrin repeat-like Superfamily: Ribosomal protein S20 Family: Ribosomal protein S20 Phyre2 PDB 3ly8 chain A Region: 56 - 199 Aligned: 130 Modelled: 144 Confidence: 57.2% Identity: 17% PDB header:signaling protein Chain: A: PDB Molecule:transcriptional activator cadc; PDBTitle: crystal structure of mutant d471e of the periplasmic domain of cadc Phyre2 PDB 1qsa chain A domain 1 Region: 61 - 198 Aligned: 117 Modelled: 127 Confidence: 56.9% Identity: 14% Fold: alpha-alpha superhelix Superfamily: Bacterial muramidases Family: Bacterial muramidases Phyre2 PDB 3k1s chain E Region: 172 - 202 Aligned: 31 Modelled: 31 Confidence: 42.5% Identity: 23% PDB header:transferase Chain: E: PDB Molecule:pts system, cellobiose-specific iia component; PDBTitle: crystal structure of the pts cellobiose specific enzyme iia2 from bacillus anthracis Phyre2 PDB 1wao chain 4 Region: 124 - 199 Aligned: 68 Modelled: 76 Confidence: 41.3% Identity: 16% PDB header:hydrolase Chain: 4: PDB Molecule:serine/threonine protein phosphatase 5; PDBTitle: pp5 structure Phyre2 PDB 1wcr chain A Region: 172 - 202 Aligned: 31 Modelled: 31 Confidence: 40.9% Identity: 13% PDB header:transferase Chain: A: PDB Molecule:pts system, n, n'-diacetylchitobiose-specific PDBTitle: trimeric structure of the enzyme iia from escherichia coli2 phosphotransferase system specific for n,n'-3 diacetylchitobiose Phyre2 PDB 2crb chain A domain 1 Region: 164 - 202 Aligned: 39 Modelled: 39 Confidence: 40.9% Identity: 23% Fold: Spectrin repeat-like Superfamily: MIT domain-like Family: MIT domain Phyre2 PDB 3l8r chain A Region: 172 - 202 Aligned: 31 Modelled: 31 Confidence: 40.7% Identity: 26% PDB header:transferase Chain: A: PDB Molecule:putative pts system, cellobiose-specific iia PDBTitle: the crystal structure of ptca from s. mutans Phyre2 PDB 2e2a chain A Region: 172 - 202 Aligned: 31 Modelled: 31 Confidence: 37.7% Identity: 23% Fold: Spectrin repeat-like Superfamily: Enzyme IIa from lactose specific PTS, IIa-lac Family: Enzyme IIa from lactose specific PTS, IIa-lac Phyre2 PDB 2ijq chain A domain 1 Region: 169 - 194 Aligned: 26 Modelled: 26 Confidence: 36.2% Identity: 15% Fold: Hyaluronidase domain-like Superfamily: TTHA0068-like Family: TTHA0068-like Phyre2 PDB 1hxi chain A Region: 60 - 198 Aligned: 92 Modelled: 99 Confidence: 33.7% Identity: 15% Fold: alpha-alpha superhelix Superfamily: TPR-like Family: Tetratricopeptide repeat (TPR) Phyre2 PDB 1hz4 chain A Region: 49 - 199 Aligned: 132 Modelled: 132 Confidence: 32.8% Identity: 18% Fold: alpha-alpha superhelix Superfamily: TPR-like Family: Transcription factor MalT domain III Phyre2 PDB 2l6j chain A Region: 127 - 199 Aligned: 65 Modelled: 73 Confidence: 32.1% Identity: 12% PDB header:protein binding Chain: A: PDB Molecule:tpr repeat-containing protein associated with hsp90; PDBTitle: tah1 complexed by meevd Phyre2 PDB 3k1i chain A Region: 56 - 87 Aligned: 32 Modelled: 32 Confidence: 29.3% Identity: 19% PDB header:chaperone Chain: A: PDB Molecule:flagellar protein; PDBTitle: crystal strcture of flis-hp1076 complex in h. pylori Phyre2 PDB 256b chain A Region: 130 - 200 Aligned: 71 Modelled: 71 Confidence: 24.8% Identity: 20% Fold: Four-helical up-and-down bundle Superfamily: Cytochromes Family: Cytochrome b562 Phyre2 PDB 2c2l chain D Region: 126 - 199 Aligned: 66 Modelled: 74 Confidence: 24.5% Identity: 17% PDB header:chaperone Chain: D: PDB Molecule:carboxy terminus of hsp70-interacting protein; PDBTitle: crystal structure of the chip u-box e3 ubiquitin ligase Phyre2 PDB 1vh6 chain A Region: 56 - 87 Aligned: 32 Modelled: 32 Confidence: 22.5% Identity: 19% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:flagellar protein flis; PDBTitle: crystal structure of a flagellar protein Phyre2 1 c3dzaB_ 2 c2kc7A_ 3 d2gy9t1 4 d2uubt1 5 c3ly8A_ 6 d1qsaa1 7 c3k1sE_ 8 c1wao4_ 9 c1wcrA_ 10 d2crba1 11 c3l8rA_ 12 d2e2aa_ 13 d2ijqa1 14 d1hxia_ 15 d1hz4a_ 16 c2l6jA_ 17 c3k1iA_ 18 d256ba_ 19 c2c2lD_ 20 c1vh6A_ 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

Detailed template information

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

1 c3dzaB_ 100.0 59 PDB header:unknown function Chain: B: PDB Molecule:uncharacterized putative membrane protein; PDBTitle: crystal structure of a putative membrane protein of unknown function2 (yfdx) from klebsiella pneumoniae subsp. at 1.65 a resolution 2 c2kc7A_ 73.7 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:bfr218_protein; PDBTitle: solution nmr structure of bacteroides fragilis protein2 bf1650. northeast structural genomics consortium target3 bfr218 3 d2gy9t1 63.3 19 Fold:Spectrin repeat-like Superfamily:Ribosomal protein S20 Family:Ribosomal protein S20 4 d2uubt1 60.2 19 Fold:Spectrin repeat-like Superfamily:Ribosomal protein S20 Family:Ribosomal protein S20 5 c3ly8A_ 57.2 17 PDB header:signaling protein Chain: A: PDB Molecule:transcriptional activator cadc; PDBTitle: crystal structure of mutant d471e of the periplasmic domain of cadc 6 d1qsaa1 56.9 14 Fold:alpha-alpha superhelix Superfamily:Bacterial muramidases Family:Bacterial muramidases 7 c3k1sE_ 42.5 23 PDB header:transferase Chain: E: PDB Molecule:pts system, cellobiose-specific iia component; PDBTitle: crystal structure of the pts cellobiose specific enzyme iia2 from bacillus anthracis 8 c1wao4_ 41.3 16 PDB header:hydrolase Chain: 4: PDB Molecule:serine/threonine protein phosphatase 5; PDBTitle: pp5 structure 9 c1wcrA_ 40.9 13 PDB header:transferase Chain: A: PDB Molecule:pts system, n, n'-diacetylchitobiose-specific PDBTitle: trimeric structure of the enzyme iia from escherichia coli2 phosphotransferase system specific for n,n'-3 diacetylchitobiose 10 d2crba1 40.9 23 Fold:Spectrin repeat-like Superfamily:MIT domain-like Family:MIT domain 11 c3l8rA_ 40.7 26 PDB header:transferase Chain: A: PDB Molecule:putative pts system, cellobiose-specific iia PDBTitle: the crystal structure of ptca from s. mutans 12 d2e2aa_ 37.7 23 Fold:Spectrin repeat-like Superfamily:Enzyme IIa from lactose specific PTS, IIa-lac Family:Enzyme IIa from lactose specific PTS, IIa-lac 13 d2ijqa1 36.2 15 Fold:Hyaluronidase domain-like Superfamily:TTHA0068-like Family:TTHA0068-like 14 d1hxia_ 33.7 15 Fold:alpha-alpha superhelix Superfamily:TPR-like Family:Tetratricopeptide repeat (TPR) 15 d1hz4a_ 32.8 18 Fold:alpha-alpha superhelix Superfamily:TPR-like Family:Transcription factor MalT domain III 16 c2l6jA_ 32.1 12 PDB header:protein binding Chain: A: PDB Molecule:tpr repeat-containing protein associated with hsp90; PDBTitle: tah1 complexed by meevd 17 c3k1iA_ 29.3 19 PDB header:chaperone Chain: A: PDB Molecule:flagellar protein; PDBTitle: crystal strcture of flis-hp1076 complex in h. pylori 18 d256ba_ 24.8 20 Fold:Four-helical up-and-down bundle Superfamily:Cytochromes Family:Cytochrome b562 19 c2c2lD_ 24.5 17 PDB header:chaperone Chain: D: PDB Molecule:carboxy terminus of hsp70-interacting protein; PDBTitle: crystal structure of the chip u-box e3 ubiquitin ligase 20 c1vh6A_ 22.5 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:flagellar protein flis; PDBTitle: crystal structure of a flagellar protein 21 d1vh6a_ not modelled 22.5 19 Fold:Four-helical up-and-down bundle Superfamily:Flagellar export chaperone FliS Family:Flagellar export chaperone FliS 22 d1elra_ not modelled 21.4 17 Fold:alpha-alpha superhelix Superfamily:TPR-like Family:Tetratricopeptide repeat (TPR) 23 c2r5sB_ not modelled 15.9 20 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein vp0806; PDBTitle: the crystal structure of a domain of protein vp0806 (unknown function)2 from vibrio parahaemolyticus rimd 2210633 24 c3n71A_ not modelled 14.6 11 PDB header:transcription Chain: A: PDB Molecule:histone lysine methyltransferase smyd1; PDBTitle: crystal structure of cardiac specific histone methyltransferase smyd1 25 d2ccqa1 not modelled 14.1 24 Fold:PUG domain-like Superfamily:PUG domain-like Family:PUG domain 26 c3q49B_ not modelled 13.9 14 PDB header:ligase/chaperone Chain: B: PDB Molecule:stip1 homology and u box-containing protein 1; PDBTitle: crystal structure of the tpr domain of chip complexed with hsp70-c2 peptide 27 c2ksnA_ not modelled 13.7 19 PDB header:signaling protein Chain: A: PDB Molecule:ubiquitin domain-containing protein 2; PDBTitle: solution structure of the n-terminal domain of dc-ubp/ubtd2 28 c2y4tA_ not modelled 13.4 14 PDB header:chaperone Chain: A: PDB Molecule:dnaj homolog subfamily c member 3; PDBTitle: crystal structure of the human co-chaperone p58(ipk) 29 d1hh8a_ not modelled 11.9 15 Fold:alpha-alpha superhelix Superfamily:TPR-like Family:Tetratricopeptide repeat (TPR) 30 c2x0kB_ not modelled 11.9 18 PDB header:transferase Chain: B: PDB Molecule:riboflavin biosynthesis protein ribf; PDBTitle: crystal structure of modular fad synthetase from2 corynebacterium ammoniagenes 31 c2noxP_ not modelled 11.5 12 PDB header:oxidoreductase Chain: P: PDB Molecule:tryptophan 2,3-dioxygenase; PDBTitle: crystal structure of tryptophan 2,3-dioxygenase from ralstonia2 metallidurans 32 c1ihgA_ not modelled 11.4 14 PDB header:isomerase Chain: A: PDB Molecule:cyclophilin 40; PDBTitle: bovine cyclophilin 40, monoclinic form 33 c2p58C_ not modelled 11.2 21 PDB header:transport protein/chaperone Chain: C: PDB Molecule:putative type iii secretion protein yscg; PDBTitle: structure of the yersinia pestis type iii secretion system2 needle protein yscf in complex with its chaperones3 ysce/yscg 34 c3iegB_ not modelled 9.0 14 PDB header:chaperone Chain: B: PDB Molecule:dnaj homolog subfamily c member 3; PDBTitle: crystal structure of p58(ipk) tpr domain at 2.5 a 35 d2fmra_ not modelled 9.0 13 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 36 d2nw8a1 not modelled 8.5 10 Fold:Indolic compounds 2,3-dioxygenase-like Superfamily:Indolic compounds 2,3-dioxygenase-like Family:Bacterial tryptophan 2,3-dioxygenase 37 c3bbnT_ not modelled 8.3 16 PDB header:ribosome Chain: T: PDB Molecule:ribosomal protein s20; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. 38 c3pe3D_ not modelled 8.0 15 PDB header:transferase Chain: D: PDB Molecule:udp-n-acetylglucosamine--peptide n- PDBTitle: structure of human o-glcnac transferase and its complex with a peptide2 substrate 39 c3mv3B_ not modelled 7.9 14 PDB header:protein transport Chain: B: PDB Molecule:coatomer subunit epsilon; PDBTitle: crystal structure of a-cop in complex with e-cop 40 d1orjb_ not modelled 7.6 8 Fold:Four-helical up-and-down bundle Superfamily:Flagellar export chaperone FliS Family:Flagellar export chaperone FliS 41 c3qdnA_ not modelled 7.5 24 PDB header:oxidoreductase Chain: A: PDB Molecule:putative thioredoxin protein; PDBTitle: putative thioredoxin protein from salmonella typhimurium 42 c2dzlA_ not modelled 6.5 18 PDB header:structural genomics unknown function Chain: A: PDB Molecule:protein fam100b; PDBTitle: solution structure of the uba domain in human protein2 fam100b 43 d2d5ua1 not modelled 6.3 25 Fold:PUG domain-like Superfamily:PUG domain-like Family:PUG domain 44 c2xcbA_ not modelled 6.0 15 PDB header:protein binding Chain: A: PDB Molecule:regulatory protein pcrh; PDBTitle: crystal structure of pcrh in complex with the chaperone2 binding region of popd 45 d1r0ka3 not modelled 5.9 0 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:Dihydrodipicolinate reductase-like 46 c2nw7C_ not modelled 5.7 10 PDB header:oxidoreductase Chain: C: PDB Molecule:tryptophan 2,3-dioxygenase; PDBTitle: crystal structure of tryptophan 2,3-dioxygenase (tdo) from2 xanthomonas campestris in complex with ferric heme.3 northeast structural genomics target xcr13 47 d1orja_ not modelled 5.6 8 Fold:Four-helical up-and-down bundle Superfamily:Flagellar export chaperone FliS Family:Flagellar export chaperone FliS 48 d1q0qa3 not modelled 5.4 13 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:Dihydrodipicolinate reductase-like 49 c3gp2B_ not modelled 5.3 24 PDB header:metal binding protein/transferase Chain: B: PDB Molecule:calcium/calmodulin-dependent protein kinase type PDBTitle: calmodulin bound to peptide from calmodulin kinase ii2 (camkii) 50 d1wfda_ not modelled 5.1 21 Fold:Spectrin repeat-like Superfamily:MIT domain Family:MIT 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