Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	V	K	S	Q	P	I	L	R	Y	I	L	R	G	I	P	A	I	A	V	A	V	L	L	S	A	C	S	A	N	N	T	A	K	N	M	H	P	E	T	R	A	V	G	S	E	T	S	S	L	Q	A	S	Q	D	E	F	E	N	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																				?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	R	N	V	D	V	K	S	R	I	M	D	Q	Y	A	D	W	K	G	V	R	Y	R	L	G	G	S	T	K	K	G	I	D	C	S	G	F	V	Q	R	T	F	R	E	Q	F	G	L	E	L	P	R	S	T	Y	E	Q	Q	E	M
Secondary structure
SS confidence
Disorder		?	?	?	?	?																																																							?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	K	S	V	S	R	S	N	L	R	T	G	D	L	V	L	F	R	A	G	S	T	G	R	H	V	G	I	Y	I	G	N	N	Q	F	V	H	A	S	T	S	S	G	V	I	I	S	S	M	N	E	P	Y	W	K	K	R	Y	N	E
Secondary structure
SS confidence
Disorder		?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.
Sequence		A	R	R	V	L	S	R	S
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 2k1g chain A Region: 63 - 188 Aligned: 126 Modelled: 126 Confidence: 100.0% Identity: 100% PDB header:lipoprotein Chain: A: PDB Molecule:lipoprotein spr; PDBTitle: solution nmr structure of lipoprotein spr from escherichia coli k12.2 northeast structural genomics target er541-37-162 Phyre2 PDB 2fg0 chain B Region: 39 - 185 Aligned: 146 Modelled: 147 Confidence: 100.0% Identity: 24% PDB header:hydrolase Chain: B: PDB Molecule:cog0791: cell wall-associated hydrolases (invasion- PDBTitle: crystal structure of a putative gamma-d-glutamyl-l-diamino acid2 endopeptidase (npun_r0659) from nostoc punctiforme pcc 73102 at 1.793 a resolution Phyre2 PDB 2evr chain A domain 2 Region: 64 - 185 Aligned: 121 Modelled: 122 Confidence: 100.0% Identity: 27% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: NlpC/P60 Phyre2 PDB 3h41 chain A Region: 57 - 186 Aligned: 128 Modelled: 130 Confidence: 100.0% Identity: 27% PDB header:hydrolase Chain: A: PDB Molecule:nlp/p60 family protein; PDBTitle: crystal structure of a nlpc/p60 family protein (bce_2878) from2 bacillus cereus atcc 10987 at 1.79 a resolution Phyre2 PDB 3npf chain B Region: 62 - 188 Aligned: 123 Modelled: 127 Confidence: 100.0% Identity: 33% PDB header:hydrolase Chain: B: PDB Molecule:putative dipeptidyl-peptidase vi; PDBTitle: crystal structure of a putative dipeptidyl-peptidase vi (bacova_00612)2 from bacteroides ovatus at 1.72 a resolution Phyre2 PDB 2xiv chain A Region: 37 - 186 Aligned: 145 Modelled: 142 Confidence: 100.0% Identity: 24% PDB header:structural protein Chain: A: PDB Molecule:hypothetical invasion protein; PDBTitle: structure of rv1477, hypothetical invasion protein of2 mycobacterium tuberculosis Phyre2 PDB 3pbi chain A Region: 45 - 179 Aligned: 133 Modelled: 135 Confidence: 100.0% Identity: 27% PDB header:hydrolase Chain: A: PDB Molecule:invasion protein; PDBTitle: structure of the peptidoglycan hydrolase ripb (rv1478) from2 mycobacterium tuberculosis at 1.6 resolution Phyre2 PDB 3i86 chain A Region: 64 - 185 Aligned: 117 Modelled: 122 Confidence: 100.0% Identity: 30% PDB header:hydrolase Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the p60 domain from m. avium subspecies2 paratuberculosis antigen map1204 Phyre2 PDB 3gt2 chain A Region: 64 - 185 Aligned: 115 Modelled: 122 Confidence: 100.0% Identity: 29% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the p60 domain from m. avium2 paratuberculosis antigen map1272c Phyre2 PDB 3m1u chain B Region: 67 - 187 Aligned: 114 Modelled: 121 Confidence: 99.9% Identity: 28% PDB header:hydrolase Chain: B: PDB Molecule:putative gamma-d-glutamyl-l-diamino acid endopeptidase; PDBTitle: crystal structure of a putative gamma-d-glutamyl-l-diamino acid2 endopeptidase (dvu_0896) from desulfovibrio vulgaris hildenborough at3 1.75 a resolution Phyre2 PDB 2p1g chain A Region: 70 - 185 Aligned: 115 Modelled: 116 Confidence: 99.6% Identity: 22% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative xylanase; PDBTitle: crystal structure of a putative xylanase from bacteroides fragilis Phyre2 PDB 2im9 chain A Region: 62 - 177 Aligned: 116 Modelled: 116 Confidence: 97.8% Identity: 33% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein lpg0564 from legionella pneumophila str.2 philadelphia 1, pfam duf1460 Phyre2 PDB 2im9 chain A domain 1 Region: 62 - 177 Aligned: 116 Modelled: 116 Confidence: 97.8% Identity: 33% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Lpg0564-like Phyre2 PDB 2kyt chain A Region: 123 - 179 Aligned: 56 Modelled: 57 Confidence: 97.8% Identity: 32% PDB header:hydrolase Chain: A: PDB Molecule:group xvi phospholipase a2; PDBTitle: solution struture of the h-rev107 n-terminal domain Phyre2 PDB 2if6 chain A domain 1 Region: 63 - 110 Aligned: 48 Modelled: 48 Confidence: 97.5% Identity: 17% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: YiiX-like Phyre2 PDB 3kw0 chain D Region: 126 - 169 Aligned: 44 Modelled: 44 Confidence: 97.4% Identity: 32% PDB header:hydrolase Chain: D: PDB Molecule:cysteine peptidase; PDBTitle: crystal structure of cysteine peptidase (np_982244.1) from bacillus2 cereus atcc 10987 at 2.50 a resolution Phyre2 PDB 2io8 chain A domain 2 Region: 94 - 151 Aligned: 58 Modelled: 58 Confidence: 88.2% Identity: 24% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: CHAP domain Phyre2 PDB 2k3a chain A Region: 94 - 188 Aligned: 81 Modelled: 95 Confidence: 59.7% Identity: 21% PDB header:hydrolase Chain: A: PDB Molecule:chap domain protein; PDBTitle: nmr solution structure of staphylococcus saprophyticus chap2 (cysteine, histidine-dependent amidohydrolases/peptidases)3 domain protein. northeast structural genomics consortium4 target syr11 Phyre2 PDB 3kop chain B Region: 129 - 169 Aligned: 41 Modelled: 41 Confidence: 24.5% Identity: 20% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of protein with a cyclophilin-like fold2 (yp_831253.1) from arthrobacter sp. fb24 at 1.90 a resolution Phyre2 PDB 2vpm chain B Region: 94 - 151 Aligned: 58 Modelled: 58 Confidence: 21.8% Identity: 21% PDB header:ligase Chain: B: PDB Molecule:trypanothione synthetase; PDBTitle: trypanothione synthetase Phyre2 1 c2k1gA_ 2 c2fg0B_ 3 d2evra2 4 c3h41A_ 5 c3npfB_ 6 c2xivA_ 7 c3pbiA_ 8 c3i86A_ 9 c3gt2A_ 10 c3m1uB_ 11 c2p1gA_ 12 c2im9A_ 13 d2im9a1 14 c2kytA_ 15 d2if6a1 16 c3kw0D_ 17 d2io8a2 18 c2k3aA_ 19 c3kopB_ 20 c2vpmB_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36

Detailed template information

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

1 c2k1gA_ 100.0 100 PDB header:lipoprotein Chain: A: PDB Molecule:lipoprotein spr; PDBTitle: solution nmr structure of lipoprotein spr from escherichia coli k12.2 northeast structural genomics target er541-37-162 2 c2fg0B_ 100.0 24 PDB header:hydrolase Chain: B: PDB Molecule:cog0791: cell wall-associated hydrolases (invasion- PDBTitle: crystal structure of a putative gamma-d-glutamyl-l-diamino acid2 endopeptidase (npun_r0659) from nostoc punctiforme pcc 73102 at 1.793 a resolution 3 d2evra2 100.0 27 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:NlpC/P60 4 c3h41A_ 100.0 27 PDB header:hydrolase Chain: A: PDB Molecule:nlp/p60 family protein; PDBTitle: crystal structure of a nlpc/p60 family protein (bce_2878) from2 bacillus cereus atcc 10987 at 1.79 a resolution 5 c3npfB_ 100.0 33 PDB header:hydrolase Chain: B: PDB Molecule:putative dipeptidyl-peptidase vi; PDBTitle: crystal structure of a putative dipeptidyl-peptidase vi (bacova_00612)2 from bacteroides ovatus at 1.72 a resolution 6 c2xivA_ 100.0 24 PDB header:structural protein Chain: A: PDB Molecule:hypothetical invasion protein; PDBTitle: structure of rv1477, hypothetical invasion protein of2 mycobacterium tuberculosis 7 c3pbiA_ 100.0 27 PDB header:hydrolase Chain: A: PDB Molecule:invasion protein; PDBTitle: structure of the peptidoglycan hydrolase ripb (rv1478) from2 mycobacterium tuberculosis at 1.6 resolution 8 c3i86A_ 100.0 30 PDB header:hydrolase Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the p60 domain from m. avium subspecies2 paratuberculosis antigen map1204 9 c3gt2A_ 100.0 29 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the p60 domain from m. avium2 paratuberculosis antigen map1272c 10 c3m1uB_ 99.9 28 PDB header:hydrolase Chain: B: PDB Molecule:putative gamma-d-glutamyl-l-diamino acid endopeptidase; PDBTitle: crystal structure of a putative gamma-d-glutamyl-l-diamino acid2 endopeptidase (dvu_0896) from desulfovibrio vulgaris hildenborough at3 1.75 a resolution 11 c2p1gA_ 99.6 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative xylanase; PDBTitle: crystal structure of a putative xylanase from bacteroides fragilis 12 c2im9A_ 97.8 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein lpg0564 from legionella pneumophila str.2 philadelphia 1, pfam duf1460 13 d2im9a1 97.8 33 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Lpg0564-like 14 c2kytA_ 97.8 32 PDB header:hydrolase Chain: A: PDB Molecule:group xvi phospholipase a2; PDBTitle: solution struture of the h-rev107 n-terminal domain 15 d2if6a1 97.5 17 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:YiiX-like 16 c3kw0D_ 97.4 32 PDB header:hydrolase Chain: D: PDB Molecule:cysteine peptidase; PDBTitle: crystal structure of cysteine peptidase (np_982244.1) from bacillus2 cereus atcc 10987 at 2.50 a resolution 17 d2io8a2 88.2 24 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:CHAP domain 18 c2k3aA_ 59.7 21 PDB header:hydrolase Chain: A: PDB Molecule:chap domain protein; PDBTitle: nmr solution structure of staphylococcus saprophyticus chap2 (cysteine, histidine-dependent amidohydrolases/peptidases)3 domain protein. northeast structural genomics consortium4 target syr11 19 c3kopB_ 24.5 20 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of protein with a cyclophilin-like fold2 (yp_831253.1) from arthrobacter sp. fb24 at 1.90 a resolution 20 c2vpmB_ 21.8 21 PDB header:ligase Chain: B: PDB Molecule:trypanothione synthetase; PDBTitle: trypanothione synthetase 21 c2ioaA_ not modelled 18.0 24 PDB header:ligase, hydrolase Chain: A: PDB Molecule:bifunctional glutathionylspermidine PDBTitle: e. coli bifunctional glutathionylspermidine2 synthetase/amidase incomplex with mg2+ and adp and3 phosphinate inhibitor 22 d1bg6a1 not modelled 15.2 17 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:N-(1-D-carboxylethyl)-L-norvaline dehydrogenase 23 d2gbsa1 not modelled 14.0 25 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 24 c3eopB_ not modelled 13.0 14 PDB header:unknown function Chain: B: PDB Molecule:thymocyte nuclear protein 1; PDBTitle: crystal structure of the duf55 domain of human thymocyte nuclear2 protein 1 25 d2g2xa1 not modelled 12.5 27 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 26 d2ar1a1 not modelled 12.5 27 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 27 d1zcea1 not modelled 12.1 27 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 28 d1sr9a1 not modelled 10.2 40 Fold:RuvA C-terminal domain-like Superfamily:post-HMGL domain-like Family:DmpG/LeuA communication domain-like 29 d2evea1 not modelled 9.9 25 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 30 c1yy3A_ not modelled 9.2 19 PDB header:isomerase Chain: A: PDB Molecule:s-adenosylmethionine:trna ribosyltransferase- PDBTitle: structure of s-adenosylmethionine:trna ribosyltransferase-2 isomerase (quea) 31 d2ba0a2 not modelled 8.6 25 Fold:Barrel-sandwich hybrid Superfamily:Ribosomal L27 protein-like Family:ECR1 N-terminal domain-like 32 d1wi9a_ not modelled 7.0 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PCI domain (PINT motif) 33 d1aono_ not modelled 6.7 28 Fold:GroES-like Superfamily:GroES-like Family:GroES 34 c3iz5G_ not modelled 6.7 24 PDB header:ribosome Chain: G: PDB Molecule:60s ribosomal protein l6 (l6e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 35 d2hd9a1 not modelled 5.8 24 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 36 d1iyca_ not modelled 5.3 60 Fold:Invertebrate chitin-binding proteins Superfamily:Invertebrate chitin-binding proteins Family:Antifungal peptide scarabaecin

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