Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	A	Y	C	P	H	Y	Q	F	M	L	F	W	I	A	S	L	C	W	F	S	L	I	V	L	W	G	T	G	F	Y	S	L	L	F	Y	I	I	S	V	L	L	I	I	I	L	Y	T	L	Y	F	I	G	E	N	M	F	S	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?																																										?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	K	I	K	E	S	D	S	T	T	T	I	I	S	K	N	T	S	F	V	G	D	I	S	S	G	E	K	I	I	I	H	G	K	I	N	G	N	I	N	T	N	N	G	V	V	F	I	D	K	G	G	V	V	N	G	R	V	L	C
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?			?	?																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		E	K	M	I	L	N	G	E	L	Y	G	E	C	C	C	S	T	L	D	V	Y	E	N	G	F	L	Q	G	E	V	S	Y	R	F	L	E	I	R	N	G	G	C	I	T	G	I	V	N	K	V	T	D	E	V	Q	N	N	V	S	E
Secondary structure
SS confidence
Disorder																						?	?	?																											?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		L	V	K	A	R	E	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 2f9c chain A domain 1 Region: 71 - 160 Aligned: 89 Modelled: 89 Confidence: 68.3% Identity: 17% Fold: Single-stranded left-handed beta-helix Superfamily: Trimeric LpxA-like enzymes Family: YdcK-like Phyre2 PDB 1fwy chain A Region: 71 - 125 Aligned: 53 Modelled: 55 Confidence: 54.2% Identity: 19% PDB header:transferase Chain: A: PDB Molecule:udp-n-acetylglucosamine pyrophosphorylase; PDBTitle: crystal structure of n-acetylglucosamine 1-phosphate2 uridyltransferase bound to udp-glcnac Phyre2 PDB 1hf2 chain A Region: 81 - 101 Aligned: 21 Modelled: 21 Confidence: 46.1% Identity: 33% PDB header:cell division protein Chain: A: PDB Molecule:septum site-determining protein minc; PDBTitle: crystal structure of the bacterial cell-division inhibitor2 minc from t. maritima Phyre2 PDB 2i5k chain B Region: 77 - 125 Aligned: 48 Modelled: 49 Confidence: 43.3% Identity: 13% PDB header:transferase Chain: B: PDB Molecule:utp--glucose-1-phosphate uridylyltransferase; PDBTitle: crystal structure of ugp1p Phyre2 PDB 1hf2 chain A domain 1 Region: 81 - 101 Aligned: 21 Modelled: 21 Confidence: 41.7% Identity: 33% Fold: Single-stranded right-handed beta-helix Superfamily: Cell-division inhibitor MinC, C-terminal domain Family: Cell-division inhibitor MinC, C-terminal domain Phyre2 PDB 3mc4 chain A Region: 106 - 163 Aligned: 58 Modelled: 58 Confidence: 36.2% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:ww/rsp5/wwp domain:bacterial transferase PDBTitle: crystal structure of ww/rsp5/wwp domain: bacterial2 transferase hexapeptide repeat: serine o-acetyltransferase3 from brucella melitensis Phyre2 PDB 1hm8 chain A Region: 68 - 186 Aligned: 109 Modelled: 118 Confidence: 32.6% Identity: 15% PDB header:transferase Chain: A: PDB Molecule:udp-n-acetylglucosamine-1-phosphate uridyltransferase; PDBTitle: crystal structure of s.pneumoniae n-acetylglucosamine-1-phosphate2 uridyltransferase, glmu, bound to acetyl coenzyme a Phyre2 PDB 1o12 chain A domain 1 Region: 91 - 107 Aligned: 17 Modelled: 17 Confidence: 30.5% Identity: 24% Fold: Composite domain of metallo-dependent hydrolases Superfamily: Composite domain of metallo-dependent hydrolases Family: N-acetylglucosamine-6-phosphate deacetylase, NagA Phyre2 PDB 2icy chain A domain 1 Region: 77 - 118 Aligned: 41 Modelled: 42 Confidence: 30.0% Identity: 22% Fold: Single-stranded left-handed beta-helix Superfamily: Trimeric LpxA-like enzymes Family: GlmU C-terminal domain-like Phyre2 PDB 2qkx chain A Region: 71 - 163 Aligned: 87 Modelled: 90 Confidence: 28.9% Identity: 8% PDB header:transferase Chain: A: PDB Molecule:bifunctional protein glmu; PDBTitle: n-acetyl glucosamine 1-phosphate uridyltransferase from mycobacterium2 tuberculosis complex with n-acetyl glucosamine 1-phosphate Phyre2 PDB 3b8e chain C Region: 4 - 135 Aligned: 131 Modelled: 131 Confidence: 28.7% Identity: 15% PDB header:hydrolase/transport protein Chain: C: PDB Molecule:sodium/potassium-transporting atpase subunit PDBTitle: crystal structure of the sodium-potassium pump Phyre2 PDB 2i5n chain H Region: 3 - 22 Aligned: 20 Modelled: 20 Confidence: 28.6% Identity: 15% PDB header:photosynthesis Chain: H: PDB Molecule:reaction center protein h chain; PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique Phyre2 PDB 3brk chain X Region: 110 - 167 Aligned: 58 Modelled: 58 Confidence: 27.8% Identity: 16% PDB header:transferase Chain: X: PDB Molecule:glucose-1-phosphate adenylyltransferase; PDBTitle: crystal structure of adp-glucose pyrophosphorylase from2 agrobacterium tumefaciens Phyre2 PDB 3d98 chain A Region: 71 - 163 Aligned: 87 Modelled: 90 Confidence: 26.5% Identity: 9% PDB header:transferase Chain: A: PDB Molecule:bifunctional protein glmu; PDBTitle: crystal structure of glmu from mycobacterium tuberculosis, ligand-free2 form Phyre2 PDB 2zxe chain A Region: 5 - 135 Aligned: 130 Modelled: 129 Confidence: 25.3% Identity: 13% PDB header:hydrolase/transport protein Chain: A: PDB Molecule:na, k-atpase alpha subunit; PDBTitle: crystal structure of the sodium - potassium pump in the e2.2k+.pi2 state Phyre2 PDB 3f1x chain A Region: 106 - 164 Aligned: 59 Modelled: 59 Confidence: 20.4% Identity: 19% PDB header:transferase Chain: A: PDB Molecule:serine acetyltransferase; PDBTitle: three dimensional structure of the serine acetyltransferase from2 bacteroides vulgatus, northeast structural genomics consortium target3 bvr62. Phyre2 PDB 1jk9 chain B domain 1 Region: 64 - 112 Aligned: 49 Modelled: 49 Confidence: 20.0% Identity: 27% Fold: Immunoglobulin-like beta-sandwich Superfamily: Cu,Zn superoxide dismutase-like Family: Cu,Zn superoxide dismutase-like Phyre2 PDB 2z8g chain B Region: 52 - 128 Aligned: 77 Modelled: 77 Confidence: 18.9% Identity: 14% PDB header:hydrolase Chain: B: PDB Molecule:isopullulanase; PDBTitle: aspergillus niger atcc9642 isopullulanase complexed with isopanose Phyre2 PDB 1ogm chain X domain 2 Region: 63 - 148 Aligned: 74 Modelled: 86 Confidence: 16.9% Identity: 18% Fold: Single-stranded right-handed beta-helix Superfamily: Pectin lyase-like Family: Dextranase, catalytic domain Phyre2 PDB 3mk7 chain F Region: 9 - 32 Aligned: 24 Modelled: 24 Confidence: 15.6% Identity: 25% PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase Phyre2 1 d2f9ca1 2 c1fwyA_ 3 c1hf2A_ 4 c2i5kB_ 5 d1hf2a1 6 c3mc4A_ 7 c1hm8A_ 8 d1o12a1 9 d2icya1 10 c2qkxA_ 11 c3b8eC_ 12 c2i5nH_ 13 c3brkX_ 14 c3d98A_ 15 c2zxeA_ 16 c3f1xA_ 17 d1jk9b1 18 c2z8gB_ 19 d1ogmx2 20 c3mk7F_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38

Detailed template information

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

1 d2f9ca1 68.3 17 Fold:Single-stranded left-handed beta-helix Superfamily:Trimeric LpxA-like enzymes Family:YdcK-like 2 c1fwyA_ 54.2 19 PDB header:transferase Chain: A: PDB Molecule:udp-n-acetylglucosamine pyrophosphorylase; PDBTitle: crystal structure of n-acetylglucosamine 1-phosphate2 uridyltransferase bound to udp-glcnac 3 c1hf2A_ 46.1 33 PDB header:cell division protein Chain: A: PDB Molecule:septum site-determining protein minc; PDBTitle: crystal structure of the bacterial cell-division inhibitor2 minc from t. maritima 4 c2i5kB_ 43.3 13 PDB header:transferase Chain: B: PDB Molecule:utp--glucose-1-phosphate uridylyltransferase; PDBTitle: crystal structure of ugp1p 5 d1hf2a1 41.7 33 Fold:Single-stranded right-handed beta-helix Superfamily:Cell-division inhibitor MinC, C-terminal domain Family:Cell-division inhibitor MinC, C-terminal domain 6 c3mc4A_ 36.2 14 PDB header:transferase Chain: A: PDB Molecule:ww/rsp5/wwp domain:bacterial transferase PDBTitle: crystal structure of ww/rsp5/wwp domain: bacterial2 transferase hexapeptide repeat: serine o-acetyltransferase3 from brucella melitensis 7 c1hm8A_ 32.6 15 PDB header:transferase Chain: A: PDB Molecule:udp-n-acetylglucosamine-1-phosphate uridyltransferase; PDBTitle: crystal structure of s.pneumoniae n-acetylglucosamine-1-phosphate2 uridyltransferase, glmu, bound to acetyl coenzyme a 8 d1o12a1 30.5 24 Fold:Composite domain of metallo-dependent hydrolases Superfamily:Composite domain of metallo-dependent hydrolases Family:N-acetylglucosamine-6-phosphate deacetylase, NagA 9 d2icya1 30.0 22 Fold:Single-stranded left-handed beta-helix Superfamily:Trimeric LpxA-like enzymes Family:GlmU C-terminal domain-like 10 c2qkxA_ 28.9 8 PDB header:transferase Chain: A: PDB Molecule:bifunctional protein glmu; PDBTitle: n-acetyl glucosamine 1-phosphate uridyltransferase from mycobacterium2 tuberculosis complex with n-acetyl glucosamine 1-phosphate 11 c3b8eC_ 28.7 15 PDB header:hydrolase/transport protein Chain: C: PDB Molecule:sodium/potassium-transporting atpase subunit PDBTitle: crystal structure of the sodium-potassium pump 12 c2i5nH_ 28.6 15 PDB header:photosynthesis Chain: H: PDB Molecule:reaction center protein h chain; PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique 13 c3brkX_ 27.8 16 PDB header:transferase Chain: X: PDB Molecule:glucose-1-phosphate adenylyltransferase; PDBTitle: crystal structure of adp-glucose pyrophosphorylase from2 agrobacterium tumefaciens 14 c3d98A_ 26.5 9 PDB header:transferase Chain: A: PDB Molecule:bifunctional protein glmu; PDBTitle: crystal structure of glmu from mycobacterium tuberculosis, ligand-free2 form 15 c2zxeA_ 25.3 13 PDB header:hydrolase/transport protein Chain: A: PDB Molecule:na, k-atpase alpha subunit; PDBTitle: crystal structure of the sodium - potassium pump in the e2.2k+.pi2 state 16 c3f1xA_ 20.4 19 PDB header:transferase Chain: A: PDB Molecule:serine acetyltransferase; PDBTitle: three dimensional structure of the serine acetyltransferase from2 bacteroides vulgatus, northeast structural genomics consortium target3 bvr62. 17 d1jk9b1 20.0 27 Fold:Immunoglobulin-like beta-sandwich Superfamily:Cu,Zn superoxide dismutase-like Family:Cu,Zn superoxide dismutase-like 18 c2z8gB_ 18.9 14 PDB header:hydrolase Chain: B: PDB Molecule:isopullulanase; PDBTitle: aspergillus niger atcc9642 isopullulanase complexed with isopanose 19 d1ogmx2 16.9 18 Fold:Single-stranded right-handed beta-helix Superfamily:Pectin lyase-like Family:Dextranase, catalytic domain 20 c3mk7F_ 15.6 25 PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase 21 c3jx8B_ not modelled 15.1 20 PDB header:cell adhesion Chain: B: PDB Molecule:putative lipoprotein; PDBTitle: crystal structure of putative lipid binding protein (yp_001304415.1)2 from parabacteroides distasonis atcc 8503 at 2.16 a resolution 22 c1t5eB_ not modelled 14.8 22 PDB header:transport protein Chain: B: PDB Molecule:multidrug resistance protein mexa; PDBTitle: the structure of mexa 23 c3gueB_ not modelled 14.2 16 PDB header:transferase Chain: B: PDB Molecule:utp-glucose-1-phosphate uridylyltransferase 2; PDBTitle: crystal structure of udp-glucose phosphorylase from trypanosoma2 brucei, (tb10.389.0330) 24 d1eysh2 not modelled 14.1 26 Fold:Single transmembrane helix Superfamily:Photosystem II reaction centre subunit H, transmembrane region Family:Photosystem II reaction centre subunit H, transmembrane region 25 c2q4jB_ not modelled 14.0 22 PDB header:transferase Chain: B: PDB Molecule:probable utp-glucose-1-phosphate uridylyltransferase 2; PDBTitle: ensemble refinement of the protein crystal structure of gene product2 from arabidopsis thaliana at3g03250, a putative udp-glucose3 pyrophosphorylase 26 c1k6nH_ not modelled 12.1 32 PDB header:photosynthesis Chain: H: PDB Molecule:photosynthetic reaction center h subunit; PDBTitle: e(l212)a,d(l213)a double mutant structure of photosynthetic reaction2 center from rhodobacter sphaeroides 27 c1ogoX_ not modelled 11.3 17 PDB header:hydrolase Chain: X: PDB Molecule:dextranase; PDBTitle: dex49a from penicillium minioluteum complex with isomaltose 28 c3kdpD_ not modelled 9.1 12 PDB header:hydrolase Chain: D: PDB Molecule:sodium/potassium-transporting atpase subunit beta-1; PDBTitle: crystal structure of the sodium-potassium pump 29 c2v0hA_ not modelled 8.8 11 PDB header:transferase Chain: A: PDB Molecule:bifunctional protein glmu; PDBTitle: characterization of substrate binding and catalysis of the2 potential antibacterial target n-acetylglucosamine-1-3 phosphate uridyltransferase (glmu) 30 c1eysH_ not modelled 8.8 26 PDB header:electron transport Chain: H: PDB Molecule:photosynthetic reaction center; PDBTitle: crystal structure of photosynthetic reaction center from a2 thermophilic bacterium, thermochromatium tepidum 31 c3ixzA_ not modelled 8.3 17 PDB header:hydrolase Chain: A: PDB Molecule:potassium-transporting atpase alpha; PDBTitle: pig gastric h+/k+-atpase complexed with aluminium fluoride 32 c2f1mA_ not modelled 8.2 20 PDB header:transport protein Chain: A: PDB Molecule:acriflavine resistance protein a; PDBTitle: conformational flexibility in the multidrug efflux system protein acra 33 d1ua7a1 not modelled 7.2 14 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 34 c2aklA_ not modelled 6.6 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phna-like protein pa0128; PDBTitle: solution structure for phn-a like protein pa0128 from2 pseudomonas aeruginosa 35 d2axtm1 not modelled 6.1 32 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein M, PsbM Family:PsbM-like 36 d2vnud3 not modelled 5.7 21 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 37 d2akka1 not modelled 5.7 19 Fold:SH3-like barrel Superfamily:Prokaryotic SH3-related domain Family:PhnA-like 38 d1srda_ not modelled 5.5 9 Fold:Immunoglobulin-like beta-sandwich Superfamily:Cu,Zn superoxide dismutase-like Family:Cu,Zn superoxide dismutase-like

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