Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	K	Q	P	E	D	W	L	D	D	V	P	G	D	D	I	E	D	E	D	D	E	I	I	W	V	S	K	S	E	I	K	R	D	A	E	E	L	K	R	L	G	A	E	I	V	D	L	G	K	N	A	L	D	K	I	P	L	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?		?	?	?	?																					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	D	L	R	A	A	I	E	L	A	Q	R	I	K	M	E	G	R	R	R	Q	L	Q	L	I	G	K	M	L	R	Q	R	D	V	E	P	I	R	Q	A	L	D	K	L	K	N	R	H	N	Q	Q	V	V	L	F	H	K	L	E	N
Secondary structure
SS confidence
Disorder														?																															?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	R	D	R	L	I	D	Q	G	D	D	A	I	A	E	V	L	N	L	W	P	D	A	D	R	Q	Q	L	R	T	L	I	R	N	A	K	K	E	K	E	G	N	K	P	P	K	S	A	R	Q	I	F	Q	Y	L	R	E	L	A	E
Secondary structure
SS confidence
Disorder																																									?	?	?	?	?	?														?	?
Disorder confidence
		.	.	.
Sequence		N	E	G
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 2p0t chain A domain 1 Region: 36 - 182 Aligned: 147 Modelled: 147 Confidence: 100.0% Identity: 41% Fold: PSPTO4464-like Superfamily: PSPTO4464-like Family: PSPTO4464-like Phyre2 PDB 2p0t chain A Region: 36 - 182 Aligned: 147 Modelled: 147 Confidence: 100.0% Identity: 41% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0307 protein pspto_4464; PDBTitle: structural genomics, the crystal structure of a conserved putative2 protein from pseudomonas syringae pv. tomato str. dc3000 Phyre2 PDB 1naf chain A Region: 85 - 183 Aligned: 90 Modelled: 99 Confidence: 60.9% Identity: 13% PDB header:signaling protein, membrane protein Chain: A: PDB Molecule:adp-ribosylation factor binding protein gga1; PDBTitle: crystal structure of the human gga1 gat domain Phyre2 PDB 2kpq chain A Region: 131 - 172 Aligned: 42 Modelled: 42 Confidence: 50.1% Identity: 19% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: nmr structure of agrobacterium tumefaciens protein atu1219:2 northeast structural genomics consortium target att14 Phyre2 PDB 2kp6 chain A Region: 116 - 158 Aligned: 43 Modelled: 43 Confidence: 42.9% Identity: 26% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of protein cv0237 from2 chromobacterium violaceum. northeast structural genomics3 consortium (nesg) target cvt1 Phyre2 PDB 1tp6 chain A Region: 109 - 155 Aligned: 45 Modelled: 47 Confidence: 40.8% Identity: 20% Fold: Cystatin-like Superfamily: NTF2-like Family: PA1314-like Phyre2 PDB 3opc chain B Region: 97 - 162 Aligned: 66 Modelled: 66 Confidence: 37.1% Identity: 18% PDB header:chaperone Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of flgn chaperone from bordetella pertussis Phyre2 PDB 3c1d chain A Region: 87 - 175 Aligned: 86 Modelled: 89 Confidence: 26.2% Identity: 13% PDB header:recombination, dna binding protein Chain: A: PDB Molecule:regulatory protein recx; PDBTitle: x-ray crystal structure of recx Phyre2 PDB 1oxz chain A Region: 85 - 183 Aligned: 90 Modelled: 99 Confidence: 25.9% Identity: 13% Fold: Spectrin repeat-like Superfamily: GAT-like domain Family: GAT domain Phyre2 PDB 1oxz chain A Region: 85 - 183 Aligned: 90 Modelled: 99 Confidence: 25.9% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:adp-ribosylation factor binding protein gga1; PDBTitle: crystal structure of the human gga1 gat domain Phyre2 PDB 2bcw chain C Region: 117 - 155 Aligned: 38 Modelled: 39 Confidence: 22.2% Identity: 16% PDB header:ribosome Chain: C: PDB Molecule:elongation factor g; PDBTitle: coordinates of the n-terminal domain of ribosomal protein2 l11,c-terminal domain of ribosomal protein l7/l12 and a3 portion of the g' domain of elongation factor g, as fitted4 into cryo-em map of an escherichia coli 70s*ef-5 g*gdp*fusidic acid complex Phyre2 PDB 1yt3 chain A domain 2 Region: 118 - 142 Aligned: 22 Modelled: 25 Confidence: 20.2% Identity: 23% Fold: SAM domain-like Superfamily: HRDC-like Family: RNase D C-terminal domains Phyre2 PDB 2oc6 chain A domain 1 Region: 131 - 155 Aligned: 25 Modelled: 25 Confidence: 18.5% Identity: 36% Fold: Secretion chaperone-like Superfamily: YdhG-like Family: YdhG-like Phyre2 PDB 2dhy chain A Region: 128 - 154 Aligned: 27 Modelled: 27 Confidence: 14.2% Identity: 15% PDB header:immune system Chain: A: PDB Molecule:cue domain-containing protein 1; PDBTitle: solution structure of the cue domain in the human cue2 domain containing protein 1 (cuedc1) Phyre2 PDB 2i8d chain A domain 1 Region: 133 - 155 Aligned: 23 Modelled: 19 Confidence: 13.2% Identity: 26% Fold: Secretion chaperone-like Superfamily: YdhG-like Family: YdhG-like Phyre2 PDB 1fs2 chain B domain 1 Region: 120 - 172 Aligned: 53 Modelled: 53 Confidence: 12.9% Identity: 13% Fold: Skp1 dimerisation domain-like Superfamily: Skp1 dimerisation domain-like Family: Skp1 dimerisation domain-like Phyre2 PDB 1fs1 chain B domain 1 Region: 121 - 172 Aligned: 52 Modelled: 52 Confidence: 12.5% Identity: 13% Fold: Skp1 dimerisation domain-like Superfamily: Skp1 dimerisation domain-like Family: Skp1 dimerisation domain-like Phyre2 PDB 3k6q chain B Region: 61 - 101 Aligned: 41 Modelled: 41 Confidence: 10.5% Identity: 15% PDB header:ligand binding protein Chain: B: PDB Molecule:putative ligand binding protein; PDBTitle: crystal structure of an antitoxin part of a putative toxin/antitoxin2 system (swol_0700) from syntrophomonas wolfei subsp. wolfei at 1.80 a3 resolution Phyre2 PDB 1nex chain A domain 1 Region: 120 - 172 Aligned: 53 Modelled: 53 Confidence: 10.1% Identity: 11% Fold: Skp1 dimerisation domain-like Superfamily: Skp1 dimerisation domain-like Family: Skp1 dimerisation domain-like Phyre2 PDB 2ovr chain A domain 1 Region: 120 - 172 Aligned: 53 Modelled: 53 Confidence: 9.4% Identity: 13% Fold: Skp1 dimerisation domain-like Superfamily: Skp1 dimerisation domain-like Family: Skp1 dimerisation domain-like Phyre2 1 d2p0ta1 2 c2p0tA_ 3 c1nafA_ 4 c2kpqA_ 5 c2kp6A_ 6 d1tp6a_ 7 c3opcB_ 8 c3c1dA_ 9 d1oxza_ 10 c1oxzA_ 11 c2bcwC_ 12 d1yt3a2 13 d2oc6a1 14 c2dhyA_ 15 d2i8da1 16 d1fs2b1 17 d1fs1b1 18 c3k6qB_ 19 d1nexa1 20 d2ovra1 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

Detailed template information

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

1 d2p0ta1 100.0 41 Fold:PSPTO4464-like Superfamily:PSPTO4464-like Family:PSPTO4464-like 2 c2p0tA_ 100.0 41 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0307 protein pspto_4464; PDBTitle: structural genomics, the crystal structure of a conserved putative2 protein from pseudomonas syringae pv. tomato str. dc3000 3 c1nafA_ 60.9 13 PDB header:signaling protein, membrane protein Chain: A: PDB Molecule:adp-ribosylation factor binding protein gga1; PDBTitle: crystal structure of the human gga1 gat domain 4 c2kpqA_ 50.1 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: nmr structure of agrobacterium tumefaciens protein atu1219:2 northeast structural genomics consortium target att14 5 c2kp6A_ 42.9 26 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of protein cv0237 from2 chromobacterium violaceum. northeast structural genomics3 consortium (nesg) target cvt1 6 d1tp6a_ 40.8 20 Fold:Cystatin-like Superfamily:NTF2-like Family:PA1314-like 7 c3opcB_ 37.1 18 PDB header:chaperone Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of flgn chaperone from bordetella pertussis 8 c3c1dA_ 26.2 13 PDB header:recombination, dna binding protein Chain: A: PDB Molecule:regulatory protein recx; PDBTitle: x-ray crystal structure of recx 9 d1oxza_ 25.9 13 Fold:Spectrin repeat-like Superfamily:GAT-like domain Family:GAT domain 10 c1oxzA_ 25.9 13 PDB header:membrane protein Chain: A: PDB Molecule:adp-ribosylation factor binding protein gga1; PDBTitle: crystal structure of the human gga1 gat domain 11 c2bcwC_ 22.2 16 PDB header:ribosome Chain: C: PDB Molecule:elongation factor g; PDBTitle: coordinates of the n-terminal domain of ribosomal protein2 l11,c-terminal domain of ribosomal protein l7/l12 and a3 portion of the g' domain of elongation factor g, as fitted4 into cryo-em map of an escherichia coli 70s*ef-5 g*gdp*fusidic acid complex 12 d1yt3a2 20.2 23 Fold:SAM domain-like Superfamily:HRDC-like Family:RNase D C-terminal domains 13 d2oc6a1 18.5 36 Fold:Secretion chaperone-like Superfamily:YdhG-like Family:YdhG-like 14 c2dhyA_ 14.2 15 PDB header:immune system Chain: A: PDB Molecule:cue domain-containing protein 1; PDBTitle: solution structure of the cue domain in the human cue2 domain containing protein 1 (cuedc1) 15 d2i8da1 13.2 26 Fold:Secretion chaperone-like Superfamily:YdhG-like Family:YdhG-like 16 d1fs2b1 12.9 13 Fold:Skp1 dimerisation domain-like Superfamily:Skp1 dimerisation domain-like Family:Skp1 dimerisation domain-like 17 d1fs1b1 12.5 13 Fold:Skp1 dimerisation domain-like Superfamily:Skp1 dimerisation domain-like Family:Skp1 dimerisation domain-like 18 c3k6qB_ 10.5 15 PDB header:ligand binding protein Chain: B: PDB Molecule:putative ligand binding protein; PDBTitle: crystal structure of an antitoxin part of a putative toxin/antitoxin2 system (swol_0700) from syntrophomonas wolfei subsp. wolfei at 1.80 a3 resolution 19 d1nexa1 10.1 11 Fold:Skp1 dimerisation domain-like Superfamily:Skp1 dimerisation domain-like Family:Skp1 dimerisation domain-like 20 d2ovra1 9.4 13 Fold:Skp1 dimerisation domain-like Superfamily:Skp1 dimerisation domain-like Family:Skp1 dimerisation domain-like 21 d2izva1 not modelled 9.4 12 Fold:SOCS box-like Superfamily:SOCS box-like Family:SOCS box-like 22 c3oq9C_ not modelled 9.2 9 PDB header:apoptosis Chain: C: PDB Molecule:tumor necrosis factor receptor superfamily member 6; PDBTitle: structure of the fas/fadd death domain assembly 23 c2kl4A_ not modelled 9.1 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:bh2032 protein; PDBTitle: nmr structure of the protein nb7804a 24 d1fkma2 not modelled 8.2 17 Fold:Left-handed superhelix Superfamily:Ypt/Rab-GAP domain of gyp1p Family:Ypt/Rab-GAP domain of gyp1p 25 c3tj3C_ not modelled 7.9 15 PDB header:protein transport Chain: C: PDB Molecule:nuclear pore complex protein nup50; PDBTitle: structure of importin a5 bound to the n-terminus of nup50 26 d1k91a_ not modelled 7.7 43 Fold:P-domain of calnexin/calreticulin Superfamily:P-domain of calnexin/calreticulin Family:P-domain of calnexin/calreticulin 27 c2rqpA_ not modelled 7.2 22 PDB header:gene regulation Chain: A: PDB Molecule:heterochromatin protein 1-binding protein 3; PDBTitle: the solution structure of heterochromatin protein 1-binding2 protein 74 histone h1 like domain 28 d2igsa1 not modelled 6.6 20 Fold:Lysozyme-like Superfamily:Lysozyme-like Family:PA2222-like 29 d1in0a1 not modelled 6.6 18 Fold:Ferredoxin-like Superfamily:YajQ-like Family:YajQ-like 30 c3dhyC_ not modelled 6.4 18 PDB header:hydrolase Chain: C: PDB Molecule:adenosylhomocysteinase; PDBTitle: crystal structures of mycobacterium tuberculosis s-adenosyl-l-2 homocysteine hydrolase in ternary complex with substrate and3 inhibitors 31 d1g8eb_ not modelled 6.4 11 Fold:Flagellar transcriptional activator FlhD Superfamily:Flagellar transcriptional activator FlhD Family:Flagellar transcriptional activator FlhD 32 d2es9a1 not modelled 6.0 45 Fold:YoaC-like Superfamily:YoaC-like Family:YoaC-like 33 c3gehA_ not modelled 6.0 20 PDB header:hydrolase Chain: A: PDB Molecule:trna modification gtpase mnme; PDBTitle: crystal structure of mnme from nostoc in complex with gdp, folinic2 acid and zn 34 d2choa2 not modelled 5.9 27 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:alpha-D-glucuronidase/Hyaluronidase catalytic domain 35 c2kqrA_ not modelled 5.8 13 PDB header:ligase Chain: A: PDB Molecule:asparaginyl-trna synthetase, cytoplasmic; PDBTitle: solution structure of the n-terminal domain (residues 1-111) of brugia2 malayi asparaginyl-trna synthetase 36 d1sm2a_ not modelled 5.8 24 Fold:Protein kinase-like (PK-like) Superfamily:Protein kinase-like (PK-like) Family:Protein kinases, catalytic subunit 37 d2cbia2 not modelled 5.7 20 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:alpha-D-glucuronidase/Hyaluronidase catalytic domain 38 d1li4a2 not modelled 5.6 12 Fold:Flavodoxin-like Superfamily:Formate/glycerate dehydrogenase catalytic domain-like Family:S-adenosylhomocystein hydrolase 39 d1v8ba2 not modelled 5.4 23 Fold:Flavodoxin-like Superfamily:Formate/glycerate dehydrogenase catalytic domain-like Family:S-adenosylhomocystein hydrolase 40 c2j8pA_ not modelled 5.4 17 PDB header:nuclear protein Chain: A: PDB Molecule:cleavage stimulation factor 64 kda subunit; PDBTitle: nmr structure of c-terminal domain of human cstf-64 41 c1d4fD_ not modelled 5.4 12 PDB header:hydrolase Chain: D: PDB Molecule:s-adenosylhomocysteine hydrolase; PDBTitle: crystal structure of recombinant rat-liver d244e mutant s-2 adenosylhomocysteine hydrolase 42 c3d5lA_ not modelled 5.4 16 PDB header:signaling protein Chain: A: PDB Molecule:regulatory protein recx; PDBTitle: crystal structure of regulatory protein recx 43 d2edua1 not modelled 5.3 10 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:ComEA-like 44 d2esna1 not modelled 5.1 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LysR-like transcriptional regulators 45 d1g8ea_ not modelled 5.0 11 Fold:Flagellar transcriptional activator FlhD Superfamily:Flagellar transcriptional activator FlhD Family:Flagellar transcriptional activator FlhD

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