Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	V	E	R	T	A	V	F	P	A	G	R	H	S	L	Y	A	E	H	R	Y	S	A	A	I	R	S	G	D	L	L	F	V	S	G	Q	V	G	S	R	E	D	G	T	P	E	P	D	F	Q	Q	Q	V	R	L	A	F	D	N	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?		?		?	?	?	?	?	?																								?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		H	A	T	L	A	A	A	G	C	T	F	D	D	I	I	D	V	T	S	F	H	T	D	P	E	N	Q	F	E	D	I	M	T	V	K	N	E	I	F	S	A	P	P	Y	P	N	W	T	A	V	G	V	T	W	L	A	G	F	D	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.
Sequence		E	I	K	V	I	A	R	I	P	E	Q
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 1pf5 chain A Region: 2 - 131 Aligned: 130 Modelled: 130 Confidence: 100.0% Identity: 100% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 1oni chain A Region: 1 - 131 Aligned: 126 Modelled: 131 Confidence: 100.0% Identity: 23% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 3k0t chain A Region: 4 - 128 Aligned: 121 Modelled: 125 Confidence: 100.0% Identity: 30% PDB header:sugar binding protein Chain: A: PDB Molecule:endoribonuclease l-psp, putative; PDBTitle: crystal structure of pspto -psp protein in complex with d-beta-glucose2 from pseudomonas syringae pv. tomato str. dc3000 Phyre2 PDB 2b33 chain A domain 1 Region: 4 - 129 Aligned: 122 Modelled: 126 Confidence: 100.0% Identity: 26% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 1nq3 chain A Region: 1 - 131 Aligned: 126 Modelled: 131 Confidence: 100.0% Identity: 25% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 3lme chain E Region: 5 - 129 Aligned: 124 Modelled: 125 Confidence: 100.0% Identity: 28% PDB header:translation Chain: E: PDB Molecule:possible translation initiation inhibitor; PDBTitle: structure of probable translation initiation inhibitor from2 (rpa2473) from rhodopseudomonas palustris Phyre2 PDB 3r0p chain B Region: 4 - 128 Aligned: 121 Modelled: 123 Confidence: 100.0% Identity: 29% PDB header:hydrolase Chain: B: PDB Molecule:l-psp putative endoribonuclease; PDBTitle: crystal structure of l-psp putative endoribonuclease from uncultured2 organism Phyre2 PDB 1qah chain A Region: 1 - 129 Aligned: 124 Modelled: 129 Confidence: 100.0% Identity: 25% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 3v4d chain C Region: 2 - 130 Aligned: 121 Modelled: 127 Confidence: 100.0% Identity: 21% PDB header:oxidoreductase Chain: C: PDB Molecule:aminoacrylate peracid reductase rutc; PDBTitle: crystal structure of rutc protein a member of the yjgf family from2 e.coli Phyre2 PDB 2cvl chain A domain 1 Region: 4 - 128 Aligned: 121 Modelled: 122 Confidence: 100.0% Identity: 32% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 2ig8 chain C Region: 1 - 130 Aligned: 128 Modelled: 130 Confidence: 100.0% Identity: 23% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein pa3499; PDBTitle: crystal structure of a protein of unknown function pa3499 from2 pseudomonas aeruginosa Phyre2 PDB 3l7q chain D Region: 5 - 128 Aligned: 120 Modelled: 124 Confidence: 100.0% Identity: 28% PDB header:translation Chain: D: PDB Molecule:putative translation initiation inhibitor, aldr regulator- PDBTitle: crystal structure of aldr from streptococcus mutans Phyre2 PDB 1j7h chain A Region: 1 - 128 Aligned: 124 Modelled: 126 Confidence: 100.0% Identity: 26% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 1xrg chain B Region: 1 - 128 Aligned: 124 Modelled: 126 Confidence: 100.0% Identity: 27% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative translation initiation inhibitor, yjgf PDBTitle: conserved hypothetical protein from clostridium2 thermocellum cth-2968 Phyre2 PDB 2dyy chain G Region: 4 - 128 Aligned: 121 Modelled: 125 Confidence: 100.0% Identity: 31% PDB header:structural genomics, unknown function Chain: G: PDB Molecule:upf0076 protein ph0854; PDBTitle: crystal structure of putative translation initiation2 inhibitor ph0854 from pyrococcus horikoshii Phyre2 PDB 3quw chain A Region: 5 - 128 Aligned: 120 Modelled: 124 Confidence: 100.0% Identity: 29% PDB header:protein binding Chain: A: PDB Molecule:protein mmf1; PDBTitle: crystal structure of yeast mmf1 Phyre2 PDB 1qd9 chain A Region: 5 - 128 Aligned: 120 Modelled: 124 Confidence: 100.0% Identity: 30% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 1jd1 chain A Region: 2 - 128 Aligned: 123 Modelled: 127 Confidence: 100.0% Identity: 26% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 PDB 3m4s chain C Region: 3 - 128 Aligned: 122 Modelled: 126 Confidence: 100.0% Identity: 23% PDB header:unknown function Chain: C: PDB Molecule:putative endoribonuclease l-psp; PDBTitle: crystal structure of a putative endoribonuclease l-psp from entamoeba2 histolytica, orthorhombic form Phyre2 PDB 2ewc chain A domain 1 Region: 12 - 128 Aligned: 110 Modelled: 117 Confidence: 100.0% Identity: 22% Fold: Bacillus chorismate mutase-like Superfamily: YjgF-like Family: YjgF/L-PSP Phyre2 1 d1pf5a_ 2 d1onia_ 3 c3k0tA_ 4 d2b33a1 5 d1nq3a_ 6 c3lmeE_ 7 c3r0pB_ 8 d1qaha_ 9 c3v4dC_ 10 d2cvla1 11 c2ig8C_ 12 c3l7qD_ 13 d1j7ha_ 14 c1xrgB_ 15 c2dyyG_ 16 c3quwA_ 17 d1qd9a_ 18 d1jd1a_ 19 c3m4sC_ 20 d2ewca1 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 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65

Detailed template information

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

1 d1pf5a_ 100.0 100 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 2 d1onia_ 100.0 23 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 3 c3k0tA_ 100.0 30 PDB header:sugar binding protein Chain: A: PDB Molecule:endoribonuclease l-psp, putative; PDBTitle: crystal structure of pspto -psp protein in complex with d-beta-glucose2 from pseudomonas syringae pv. tomato str. dc3000 4 d2b33a1 100.0 26 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 5 d1nq3a_ 100.0 25 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 6 c3lmeE_ 100.0 28 PDB header:translation Chain: E: PDB Molecule:possible translation initiation inhibitor; PDBTitle: structure of probable translation initiation inhibitor from2 (rpa2473) from rhodopseudomonas palustris 7 c3r0pB_ 100.0 29 PDB header:hydrolase Chain: B: PDB Molecule:l-psp putative endoribonuclease; PDBTitle: crystal structure of l-psp putative endoribonuclease from uncultured2 organism 8 d1qaha_ 100.0 25 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 9 c3v4dC_ 100.0 21 PDB header:oxidoreductase Chain: C: PDB Molecule:aminoacrylate peracid reductase rutc; PDBTitle: crystal structure of rutc protein a member of the yjgf family from2 e.coli 10 d2cvla1 100.0 32 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 11 c2ig8C_ 100.0 23 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein pa3499; PDBTitle: crystal structure of a protein of unknown function pa3499 from2 pseudomonas aeruginosa 12 c3l7qD_ 100.0 28 PDB header:translation Chain: D: PDB Molecule:putative translation initiation inhibitor, aldr regulator- PDBTitle: crystal structure of aldr from streptococcus mutans 13 d1j7ha_ 100.0 26 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 14 c1xrgB_ 100.0 27 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative translation initiation inhibitor, yjgf PDBTitle: conserved hypothetical protein from clostridium2 thermocellum cth-2968 15 c2dyyG_ 100.0 31 PDB header:structural genomics, unknown function Chain: G: PDB Molecule:upf0076 protein ph0854; PDBTitle: crystal structure of putative translation initiation2 inhibitor ph0854 from pyrococcus horikoshii 16 c3quwA_ 100.0 29 PDB header:protein binding Chain: A: PDB Molecule:protein mmf1; PDBTitle: crystal structure of yeast mmf1 17 d1qd9a_ 100.0 30 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 18 d1jd1a_ 100.0 26 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 19 c3m4sC_ 100.0 23 PDB header:unknown function Chain: C: PDB Molecule:putative endoribonuclease l-psp; PDBTitle: crystal structure of a putative endoribonuclease l-psp from entamoeba2 histolytica, orthorhombic form 20 d2ewca1 100.0 22 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 21 d1xrga_ not modelled 100.0 28 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 22 c3gtzA_ not modelled 100.0 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative translation initiation inhibitor; PDBTitle: crystal structure of a putative translation initiation inhibitor from2 salmonella typhimurium 23 c3i7tA_ not modelled 100.0 31 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of rv2704, a member of highly conserved2 yjgf/yer057c/uk114 family, from mycobacterium tuberculosis 24 d1x25a1 not modelled 100.0 30 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 25 c3kjjL_ not modelled 100.0 21 PDB header:unknown function Chain: L: PDB Molecule:nmb1025 protein; PDBTitle: crystal structure of nmb1025, a member of yjgf protein family, from2 neisseria meningitidis (hexagonal crystal form) 26 c3k12F_ not modelled 100.0 19 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:uncharacterized protein a6v7t0; PDBTitle: crystal structure of an uncharacterized protein a6v7t0 from2 pseudomonas aeruginosa 27 c3i3fB_ not modelled 100.0 18 PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein; PDBTitle: hypothetical protein from giardia lamblia gl50803_14299 28 d1qu9a_ not modelled 100.0 23 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 29 d2cwja1 not modelled 100.0 37 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 30 d2otma1 not modelled 100.0 17 Fold:Bacillus chorismate mutase-like Superfamily:YjgF-like Family:YjgF/L-PSP 31 c3d01G_ not modelled 99.9 23 PDB header:structural genomics, unknown function Chain: G: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the protein atu1372 with unknown function from2 agrobacterium tumefaciens 32 c3lybC_ not modelled 99.9 27 PDB header:hydrolase Chain: C: PDB Molecule:putative endoribonuclease; PDBTitle: structure of putative endoribonuclease(kp1_3112) from2 klebsiella pneumoniae 33 c2wknE_ not modelled 28.4 16 PDB header:hydrolase Chain: E: PDB Molecule:formamidase; PDBTitle: gamma lactamase from delftia acidovorans 34 d1aisa1 not modelled 15.8 26 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 35 d1qnaa1 not modelled 13.6 17 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 36 c2yh5A_ not modelled 12.1 21 PDB header:lipid binding protein Chain: A: PDB Molecule:dapx protein; PDBTitle: structure of the c-terminal domain of bamc 37 c3a1yF_ not modelled 11.8 44 PDB header:ribosomal protein Chain: F: PDB Molecule:50s ribosomal protein p1 (l12p); PDBTitle: the structure of protein complex 38 c3tixB_ not modelled 11.2 14 PDB header:gene regulation/protein binding Chain: B: PDB Molecule:chromo domain-containing protein 1; PDBTitle: crystal structure of the chp1-tas3 complex core 39 d1cdwa1 not modelled 9.8 22 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 40 d1nh2a1 not modelled 9.7 19 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 41 d1mp9a1 not modelled 9.7 23 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 42 d1xb2b1 not modelled 9.2 17 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TS-N domain 43 d1ox0a2 not modelled 8.9 10 Fold:Thiolase-like Superfamily:Thiolase-like Family:Thiolase-related 44 d1r5pa_ not modelled 8.9 29 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:KaiB-like 45 d1u0ua1 not modelled 8.4 13 Fold:Thiolase-like Superfamily:Thiolase-like Family:Chalcone synthase-like 46 c2d3mA_ not modelled 7.6 9 PDB header:transferase Chain: A: PDB Molecule:pentaketide chromone synthase; PDBTitle: pentaketide chromone synthase complexed with coenzyme a 47 c2wuaA_ not modelled 7.6 9 PDB header:transferase Chain: A: PDB Molecule:acetoacetyl coa thiolase; PDBTitle: structure of the peroxisomal 3-ketoacyl-coa thiolase from2 sunflower 48 c1tqyD_ not modelled 7.2 14 PDB header:transferase Chain: D: PDB Molecule:actinorhodin polyketide putative beta-ketoacyl synthase 2; PDBTitle: the actinorhodin ketosynthase/chain length factor 49 d1xhja_ not modelled 7.2 23 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 50 c3fqmA_ not modelled 7.0 33 PDB header:metal binding protein Chain: A: PDB Molecule:non-structural protein 5a; PDBTitle: crystal structure of a novel dimeric form of hcv ns5a domain i protein 51 d1mp9a2 not modelled 6.8 23 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 52 c3iz5a_ not modelled 6.6 19 PDB header:ribosome Chain: A: PDB Molecule:60s ribosomal protein l1 (l1p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 53 d2ns9a1 not modelled 6.6 14 Fold:TBP-like Superfamily:Bet v1-like Family:CoxG-like 54 c3cqrB_ not modelled 6.5 17 PDB header:oxidoreductase Chain: B: PDB Molecule:violaxanthin de-epoxidase, chloroplast; PDBTitle: crystal structure of the lipocalin domain of violaxanthin2 de-epoxidase (vde) at ph5 55 c2dvzA_ not modelled 5.9 17 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter 56 d1efub3 not modelled 5.9 8 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TS-N domain 57 c2gqdB_ not modelled 5.7 11 PDB header:transferase Chain: B: PDB Molecule:3-oxoacyl-[acyl-carrier-protein] synthase 2; PDBTitle: the crystal structure of b-ketoacyl-acp synthase ii (fabf)2 from staphylococcus aureus 58 c2kjwA_ not modelled 5.5 20 PDB header:ribosomal protein Chain: A: PDB Molecule:30s ribosomal protein s6; PDBTitle: solution structure and backbone dynamics of the permutant2 p54-55 59 d2d6fa1 not modelled 5.5 19 Fold:Sm-like fold Superfamily:GatD N-terminal domain-like Family:GatD N-terminal domain-like 60 d2cp9a1 not modelled 5.5 17 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TS-N domain 61 d1un7a2 not modelled 5.4 20 Fold:TIM beta/alpha-barrel Superfamily:Metallo-dependent hydrolases Family:N-acetylglucosamine-6-phosphate deacetylase, NagA, catalytic domain 62 d1nfpa_ not modelled 5.3 13 Fold:TIM beta/alpha-barrel Superfamily:Bacterial luciferase-like Family:Non-fluorescent flavoprotein (luxF, FP390) 63 c2qbbF_ not modelled 5.2 21 PDB header:ribosome Chain: F: PDB Molecule:30s ribosomal protein s6; PDBTitle: crystal structure of the bacterial ribosome from2 escherichia coli in complex with gentamicin. this file3 contains the 30s subunit of the second 70s ribosome, with4 gentamicin bound. the entire crystal structure contains5 two 70s ribosomes and is described in remark 400. 64 d2qalf1 not modelled 5.2 21 Fold:Ferredoxin-like Superfamily:Ribosomal protein S6 Family:Ribosomal protein S6 65 d2ofya1 not modelled 5.2 21 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-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