Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	K	T	I	S	P	L	I	S	P	E	L	L	K	V	L	A	E	M	G	H	G	D	E	I	I	F	S	D	A	H	F	P	A	H	S	M	G	P	Q	V	I	R	A	D	G	L	L	V	S	D	L	L	Q	A	I	I	P	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	E	L	D	S	Y	A	P	P	L	V	M	M	A	A	V	E	G	D	T	L	D	P	E	V	E	R	R	Y	R	N	A	L	S	L	Q	A	P	C	P	D	I	I	R	I	N	R	F	A	F	Y	E	R	A	Q	K	A	F	A	I
Secondary structure
SS confidence
Disorder																		?																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140
Sequence		V	I	T	G	E	R	A	K	Y	G	N	I	L	L	K	K	G	V	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 2wcv chain I Region: 1 - 140 Aligned: 140 Modelled: 140 Confidence: 100.0% Identity: 100% PDB header:isomerase Chain: I: PDB Molecule:l-fucose mutarotase; PDBTitle: crystal structure of bacterial fucu Phyre2 PDB 2ob5 chain A domain 1 Region: 1 - 140 Aligned: 140 Modelled: 139 Confidence: 100.0% Identity: 33% Fold: RbsD-like Superfamily: RbsD-like Family: RbsD-like Phyre2 PDB 2wcu chain B Region: 2 - 139 Aligned: 138 Modelled: 138 Confidence: 100.0% Identity: 47% PDB header:isomerase Chain: B: PDB Molecule:protein fucu homolog; PDBTitle: crystal structure of mammalian fucu Phyre2 PDB 3mvk chain A Region: 5 - 139 Aligned: 135 Modelled: 134 Confidence: 100.0% Identity: 41% PDB header:isomerase Chain: A: PDB Molecule:protein fucu; PDBTitle: the crystal structure of fucu from bifidobacterium longum to 1.65a Phyre2 PDB 3e7n chain B Region: 2 - 139 Aligned: 135 Modelled: 138 Confidence: 100.0% Identity: 18% PDB header:transport protein Chain: B: PDB Molecule:d-ribose high-affinity transport system; PDBTitle: crystal structure of d-ribose high-affinity transport system from2 salmonella typhimurium lt2 Phyre2 PDB 1ogd chain A Region: 1 - 139 Aligned: 130 Modelled: 139 Confidence: 100.0% Identity: 21% Fold: RbsD-like Superfamily: RbsD-like Family: RbsD-like Phyre2 PDB 3p13 chain B Region: 7 - 139 Aligned: 129 Modelled: 133 Confidence: 100.0% Identity: 16% PDB header:isomerase Chain: B: PDB Molecule:d-ribose pyranase; PDBTitle: complex structure of d-ribose pyranase sa240 with d-ribose Phyre2 PDB 1qki chain A domain 1 Region: 51 - 119 Aligned: 65 Modelled: 69 Confidence: 26.7% Identity: 15% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain Phyre2 PDB 1e1c chain A Region: 11 - 64 Aligned: 54 Modelled: 54 Confidence: 22.2% Identity: 20% PDB header:isomerase Chain: A: PDB Molecule:methylmalonyl-coa mutase alpha chain; PDBTitle: methylmalonyl-coa mutase h244a mutant Phyre2 PDB 1e3d chain A Region: 108 - 132 Aligned: 25 Modelled: 25 Confidence: 18.9% Identity: 36% Fold: HydA/Nqo6-like Superfamily: HydA/Nqo6-like Family: Nickel-iron hydrogenase, small subunit Phyre2 PDB 2dgb chain A Region: 1 - 23 Aligned: 21 Modelled: 23 Confidence: 17.6% Identity: 33% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein purs; PDBTitle: structure of thermus thermophilus purs in the p21 form Phyre2 PDB 1t4a chain A Region: 1 - 24 Aligned: 22 Modelled: 24 Confidence: 16.3% Identity: 18% Fold: PurS-like Superfamily: PurS-like Family: PurS subunit of FGAM synthetase Phyre2 PDB 1frf chain S Region: 108 - 132 Aligned: 25 Modelled: 25 Confidence: 15.4% Identity: 28% Fold: HydA/Nqo6-like Superfamily: HydA/Nqo6-like Family: Nickel-iron hydrogenase, small subunit Phyre2 PDB 1cc1 chain S Region: 108 - 132 Aligned: 25 Modelled: 25 Confidence: 15.1% Identity: 32% Fold: HydA/Nqo6-like Superfamily: HydA/Nqo6-like Family: Nickel-iron hydrogenase, small subunit Phyre2 PDB 2yx5 chain A Region: 1 - 24 Aligned: 22 Modelled: 24 Confidence: 14.4% Identity: 27% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0062 protein mj1593; PDBTitle: crystal structure of methanocaldococcus jannaschii purs, one of the2 subunits of formylglycinamide ribonucleotide amidotransferase in the3 purine biosynthetic pathway Phyre2 PDB 3myr chain E Region: 108 - 132 Aligned: 25 Modelled: 25 Confidence: 14.0% Identity: 24% PDB header:oxidoreductase Chain: E: PDB Molecule:hydrogenase (nife) small subunit hyda; PDBTitle: crystal structure of [nife] hydrogenase from allochromatium vinosum in2 its ni-a state Phyre2 PDB 1wui chain S domain 1 Region: 108 - 132 Aligned: 25 Modelled: 25 Confidence: 13.8% Identity: 24% Fold: HydA/Nqo6-like Superfamily: HydA/Nqo6-like Family: Nickel-iron hydrogenase, small subunit Phyre2 PDB 1h2a chain S Region: 108 - 132 Aligned: 25 Modelled: 25 Confidence: 13.7% Identity: 24% PDB header:oxidoreductase Chain: S: PDB Molecule:hydrogenase; PDBTitle: single crystals of hydrogenase from desulfovibrio vulgaris Phyre2 PDB 3iym chain A Region: 60 - 110 Aligned: 50 Modelled: 51 Confidence: 13.0% Identity: 24% PDB header:virus Chain: A: PDB Molecule:capsid protein; PDBTitle: backbone trace of the capsid protein dimer of a fungal partitivirus2 from electron cryomicroscopy and homology modeling Phyre2 PDB 1guz chain A domain 1 Region: 13 - 32 Aligned: 20 Modelled: 20 Confidence: 11.4% Identity: 25% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: LDH N-terminal domain-like Phyre2 1 c2wcvI_ 2 d2ob5a1 3 c2wcuB_ 4 c3mvkA_ 5 c3e7nB_ 6 d1ogda_ 7 c3p13B_ 8 d1qkia1 9 c1e1cA_ 10 d1e3da_ 11 c2dgbA_ 12 d1t4aa_ 13 d1frfs_ 14 d1cc1s_ 15 c2yx5A_ 16 c3myrE_ 17 d1wuis1 18 c1h2aS_ 19 c3iymA_ 20 d1guza1 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

Detailed template information

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

1 c2wcvI_ 100.0 100 PDB header:isomerase Chain: I: PDB Molecule:l-fucose mutarotase; PDBTitle: crystal structure of bacterial fucu 2 d2ob5a1 100.0 33 Fold:RbsD-like Superfamily:RbsD-like Family:RbsD-like 3 c2wcuB_ 100.0 47 PDB header:isomerase Chain: B: PDB Molecule:protein fucu homolog; PDBTitle: crystal structure of mammalian fucu 4 c3mvkA_ 100.0 41 PDB header:isomerase Chain: A: PDB Molecule:protein fucu; PDBTitle: the crystal structure of fucu from bifidobacterium longum to 1.65a 5 c3e7nB_ 100.0 18 PDB header:transport protein Chain: B: PDB Molecule:d-ribose high-affinity transport system; PDBTitle: crystal structure of d-ribose high-affinity transport system from2 salmonella typhimurium lt2 6 d1ogda_ 100.0 21 Fold:RbsD-like Superfamily:RbsD-like Family:RbsD-like 7 c3p13B_ 100.0 16 PDB header:isomerase Chain: B: PDB Molecule:d-ribose pyranase; PDBTitle: complex structure of d-ribose pyranase sa240 with d-ribose 8 d1qkia1 26.7 15 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 9 c1e1cA_ 22.2 20 PDB header:isomerase Chain: A: PDB Molecule:methylmalonyl-coa mutase alpha chain; PDBTitle: methylmalonyl-coa mutase h244a mutant 10 d1e3da_ 18.9 36 Fold:HydA/Nqo6-like Superfamily:HydA/Nqo6-like Family:Nickel-iron hydrogenase, small subunit 11 c2dgbA_ 17.6 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein purs; PDBTitle: structure of thermus thermophilus purs in the p21 form 12 d1t4aa_ 16.3 18 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 13 d1frfs_ 15.4 28 Fold:HydA/Nqo6-like Superfamily:HydA/Nqo6-like Family:Nickel-iron hydrogenase, small subunit 14 d1cc1s_ 15.1 32 Fold:HydA/Nqo6-like Superfamily:HydA/Nqo6-like Family:Nickel-iron hydrogenase, small subunit 15 c2yx5A_ 14.4 27 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0062 protein mj1593; PDBTitle: crystal structure of methanocaldococcus jannaschii purs, one of the2 subunits of formylglycinamide ribonucleotide amidotransferase in the3 purine biosynthetic pathway 16 c3myrE_ 14.0 24 PDB header:oxidoreductase Chain: E: PDB Molecule:hydrogenase (nife) small subunit hyda; PDBTitle: crystal structure of [nife] hydrogenase from allochromatium vinosum in2 its ni-a state 17 d1wuis1 13.8 24 Fold:HydA/Nqo6-like Superfamily:HydA/Nqo6-like Family:Nickel-iron hydrogenase, small subunit 18 c1h2aS_ 13.7 24 PDB header:oxidoreductase Chain: S: PDB Molecule:hydrogenase; PDBTitle: single crystals of hydrogenase from desulfovibrio vulgaris 19 c3iymA_ 13.0 24 PDB header:virus Chain: A: PDB Molecule:capsid protein; PDBTitle: backbone trace of the capsid protein dimer of a fungal partitivirus2 from electron cryomicroscopy and homology modeling 20 d1guza1 11.4 25 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like 21 d1gtda_ not modelled 10.8 35 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 22 d176la_ not modelled 10.7 27 Fold:Lysozyme-like Superfamily:Lysozyme-like Family:Phage lysozyme 23 c3rgwS_ not modelled 10.3 28 PDB header:oxidoreductase/oxidoreductase Chain: S: PDB Molecule:membrane-bound hydrogenase (nife) small subunit hoxk; PDBTitle: crystal structure at 1.5 a resolution of an h2-reduced, o2-tolerant2 hydrogenase from ralstonia eutropha unmasks a novel iron-sulfur3 cluster 24 c2wpnA_ not modelled 10.1 36 PDB header:oxidoreductase Chain: A: PDB Molecule:periplasmic [nifese] hydrogenase, small subunit; PDBTitle: structure of the oxidised, as-isolated nifese hydrogenase2 from d. vulgaris hildenborough 25 d5ldha1 not modelled 9.6 14 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like 26 d1yq9a1 not modelled 8.8 35 Fold:HydA/Nqo6-like Superfamily:HydA/Nqo6-like Family:Nickel-iron hydrogenase, small subunit 27 d1vs6z1 not modelled 8.0 36 Fold:L28p-like Superfamily:L28p-like Family:Ribosomal protein L31p 28 d1llda1 not modelled 8.0 30 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like 29 c1w1wF_ not modelled 7.7 20 PDB header:cell adhesion Chain: F: PDB Molecule:sister chromatid cohesion protein 1; PDBTitle: sc smc1hd:scc1-c complex, atpgs 30 d1w1we_ not modelled 7.7 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Rad21/Rec8-like 31 d1vpka2 not modelled 7.7 9 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase III, beta subunit 32 d189la_ not modelled 7.6 27 Fold:Lysozyme-like Superfamily:Lysozyme-like Family:Phage lysozyme 33 d1ldna1 not modelled 6.9 35 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like 34 d1p37a_ not modelled 6.9 27 Fold:Lysozyme-like Superfamily:Lysozyme-like Family:Phage lysozyme 35 d2ldxa1 not modelled 6.7 25 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like 36 d1swya_ not modelled 6.4 27 Fold:Lysozyme-like Superfamily:Lysozyme-like Family:Phage lysozyme 37 d1yjma1 not modelled 6.2 23 Fold:SMAD/FHA domain Superfamily:SMAD/FHA domain Family:FHA domain 38 d1gpma3 not modelled 5.9 30 Fold:Alpha-lytic protease prodomain-like Superfamily:GMP synthetase C-terminal dimerisation domain Family:GMP synthetase C-terminal dimerisation domain 39 d1hyha1 not modelled 5.9 30 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like 40 d1vq3a_ not modelled 5.8 27 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 41 d1cp2a_ not modelled 5.8 26 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 42 c2b664_ not modelled 5.6 36 PDB header:ribosome Chain: 4: PDB Molecule:50s ribosomal protein l31; PDBTitle: 50s ribosomal subunit from a crystal structure of release factor rf1,2 trnas and mrna bound to the ribosome. this file contains the 50s3 subunit from a crystal structure of release factor rf1, trnas and4 mrna bound to the ribosome and is described in remark 400 43 c2xd4A_ not modelled 5.6 9 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase; PDBTitle: nucleotide-bound structures of bacillus subtilis glycinamide2 ribonucleotide synthetase 44 d1jkea_ not modelled 5.5 25 Fold:DTD-like Superfamily:DTD-like Family:DTD-like 45 c1yj5C_ not modelled 5.5 23 PDB header:transferase Chain: C: PDB Molecule:5' polynucleotide kinase-3' phosphatase fha domain; PDBTitle: molecular architecture of mammalian polynucleotide kinase, a dna2 repair enzyme 46 d1llca1 not modelled 5.5 20 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like 47 c2zw2B_ not modelled 5.4 18 PDB header:ligase Chain: B: PDB Molecule:putative uncharacterized protein sts178; PDBTitle: crystal structure of formylglycinamide ribonucleotide amidotransferase2 iii from sulfolobus tokodaii (stpurs) 48 c3hl4B_ not modelled 5.2 10 PDB header:transferase Chain: B: PDB Molecule:choline-phosphate cytidylyltransferase a; PDBTitle: crystal structure of a mammalian ctp:phosphocholine2 cytidylyltransferase with cdp-choline 49 c2j034_ not modelled 5.1 36 PDB header:ribosome Chain: 4: PDB Molecule:50s ribosomal protein l31; PDBTitle: structure of the thermus thermophilus 70s ribosome2 complexed with mrna, trna and paromomycin (part 4 of 4).3 this file contains the 50s subunit from molecule ii.

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