Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	V	T	P	V	S	I	S	N	Y	I	S	L	P	D	D	F	P	V	R	N	I	A	P	Q	V	K	E	V	L	K	D	F	I	D	A	L	S	T	I	I	C	N	E	E	W	R	T	S	L	N	I	N	S	A	T	K	K	I	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	N	L	D	N	L	S	Y	I	Q	R	T	S	F	R	G	N	D	T	L	Y	N	E	K	V	Q	F	K	L	T	Y	P	A	R	N	G	R	H	K	E	N	I	E	F	Q	V	V	I	N	L	S	P	I	Y	L	D	N	F	R	H
Secondary structure
SS confidence
Disorder																		?																?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	G	E	I	N	I	F	C	A	P	N	P	K	P	V	T	M	G	R	V	F	Q	T	G	V	E	R	V	L	F	L	F	L	N	D	F	I	E	Q	F	P	M	I	N	P	G	V	P	I	K	R	A	H	T	P	H	I	E	P	L
Secondary structure
SS confidence
Disorder																																																					?			?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	S	D	H	H	T	A	A	D	Y	L	R	Q	F	D	L	L	V	L	N	F	I	S	R	G	N	F	V	I	L	P	R	L	W	N	N	S	E	V	H	R	W	F	V	N	K	D	P	N	L	I	T	A	I	L	D	I	T	D	S
Secondary structure
SS confidence
Disorder			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		E	L	K	E	D	L	L	Q	S	L	M	D	S	L	G	S	N	K	H	V	L	P	E	V	C	I	C	F	L	S	L	L	A	E	Q	E	S	P	H	F	Q	N	L	F	L	F	F	A	N	M	L	L	H	Y	H	Q	F	M	N	P
Secondary structure
SS confidence
Disorder																																					?																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		N	E	S	D	L	N	D	V	L	M	P	A	S	L	S	D	D	K	I	I	K	H	M	A	R	R	T	L	K	L	F	V	K	N	E	T	P	P	K	V	T	H	E	D	L	V	K	N	R	P	R	S	P	V	R	P	P	I	P	A
Secondary structure
SS confidence
Disorder															?																										?							?		?							?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.
Sequence		T	A	K	T	P	D	L	P	E	R	H
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 2izp chain B Region: 7 - 51 Aligned: 45 Modelled: 45 Confidence: 20.1% Identity: 29% PDB header:toxin Chain: B: PDB Molecule:putative membrane antigen; PDBTitle: bipd - an invasion prtein associated with the type-iii2 secretion system of burkholderia pseudomallei. Phyre2 PDB 2izp chain A domain 1 Region: 7 - 51 Aligned: 45 Modelled: 45 Confidence: 17.2% Identity: 29% Fold: IpaD-like Superfamily: IpaD-like Family: IpaD-like Phyre2 PDB 3hc7 chain A Region: 145 - 193 Aligned: 49 Modelled: 49 Confidence: 16.6% Identity: 20% PDB header:cell adhesion Chain: A: PDB Molecule:gene 12 protein; PDBTitle: crystal structure of lysin b from mycobacteriophage d29 Phyre2 PDB 1oh4 chain A Region: 76 - 119 Aligned: 40 Modelled: 44 Confidence: 14.8% Identity: 28% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: Family 27 carbohydrate binding module, CBM27 Phyre2 PDB 1msv chain B Region: 2 - 33 Aligned: 32 Modelled: 32 Confidence: 13.5% Identity: 19% PDB header:lyase Chain: B: PDB Molecule:s-adenosylmethionine decarboxylase proenzyme; PDBTitle: the s68a s-adenosylmethionine decarboxylase proenzyme2 processing mutant. Phyre2 PDB 3ep3 chain A Region: 2 - 33 Aligned: 32 Modelled: 32 Confidence: 12.9% Identity: 19% PDB header:lyase Chain: A: PDB Molecule:s-adenosylmethionine decarboxylase alpha chain; PDBTitle: human adometdc d174n mutant with no putrescine bound Phyre2 PDB 1upk chain A Region: 301 - 349 Aligned: 49 Modelled: 49 Confidence: 10.8% Identity: 18% Fold: alpha-alpha superhelix Superfamily: ARM repeat Family: Mo25 protein Phyre2 PDB 1jl0 chain A Region: 2 - 33 Aligned: 32 Modelled: 32 Confidence: 10.8% Identity: 19% Fold: S-adenosylmethionine decarboxylase Superfamily: S-adenosylmethionine decarboxylase Family: S-adenosylmethionine decarboxylase Phyre2 PDB 1php chain A Region: 12 - 80 Aligned: 68 Modelled: 69 Confidence: 10.7% Identity: 21% Fold: Phosphoglycerate kinase Superfamily: Phosphoglycerate kinase Family: Phosphoglycerate kinase Phyre2 PDB 3q2t chain C Region: 328 - 347 Aligned: 19 Modelled: 20 Confidence: 9.5% Identity: 32% PDB header:rna binding protein/rna Chain: C: PDB Molecule:cleavage and polyadenylation specificity factor subunit 6; PDBTitle: crystal structure of cfim68 rrm/cfim25/rna complex Phyre2 PDB 2hh9 chain A Region: 179 - 248 Aligned: 62 Modelled: 70 Confidence: 9.3% Identity: 26% PDB header:transferase Chain: A: PDB Molecule:thiamin pyrophosphokinase; PDBTitle: thiamin pyrophosphokinase from candida albicans Phyre2 PDB 1eji chain A Region: 155 - 169 Aligned: 13 Modelled: 15 Confidence: 9.2% Identity: 38% Fold: PLP-dependent transferase-like Superfamily: PLP-dependent transferases Family: GABA-aminotransferase-like Phyre2 PDB 1pmh chain X Region: 76 - 119 Aligned: 43 Modelled: 44 Confidence: 8.6% Identity: 26% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: Family 27 carbohydrate binding module, CBM27 Phyre2 PDB 2k6r chain A Region: 153 - 160 Aligned: 8 Modelled: 8 Confidence: 8.3% Identity: 75% PDB header:de novo protein Chain: A: PDB Molecule:full sequence design 1 synthetic superstable; PDBTitle: protein folding on a highly rugged landscape: experimental2 observation of glassy dynamics and structural frustration Phyre2 PDB 2hjq chain A Region: 137 - 155 Aligned: 19 Modelled: 19 Confidence: 8.2% Identity: 47% PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein yqbf; PDBTitle: nmr structure of bacillus subtilis protein yqbf, northeast2 structural genomics target sr449 Phyre2 PDB 1fme chain A Region: 153 - 160 Aligned: 8 Modelled: 8 Confidence: 8.1% Identity: 75% PDB header:de novo protein Chain: A: PDB Molecule:fsd-ey peptide; PDBTitle: solution structure of fsd-ey, a novel peptide assuming a2 beta-beta-alpha fold Phyre2 PDB 1fsv chain A Region: 153 - 160 Aligned: 8 Modelled: 8 Confidence: 7.9% Identity: 75% PDB header:beta beta alpha motif Chain: A: PDB Molecule:full sequence design 1 of beta beta alpha motif; PDBTitle: full sequence design 1 (fsd-1) of beta beta alpha motif,2 nmr, minimized average structure Phyre2 PDB 1fsd chain A Region: 153 - 160 Aligned: 8 Modelled: 8 Confidence: 7.9% Identity: 75% PDB header:novel sequence Chain: A: PDB Molecule:full sequence design 1 of beta beta alpha motif; PDBTitle: full sequence design 1 (fsd-1) of beta beta alpha motif,2 nmr, 41 structures Phyre2 PDB 3da7 chain G Region: 188 - 204 Aligned: 17 Modelled: 17 Confidence: 7.8% Identity: 41% PDB header:protein binding Chain: G: PDB Molecule:barnase circular permutant; PDBTitle: a conformationally strained, circular permutant of barnase Phyre2 PDB 2l5g chain B Region: 243 - 250 Aligned: 8 Modelled: 8 Confidence: 7.6% Identity: 50% PDB header:transcription regulator Chain: B: PDB Molecule:putative uncharacterized protein ncor2; PDBTitle: co-ordinates and 1h, 13c and 15n chemical shift assignments for the2 complex of gps2 53-90 and smrt 167-207 Phyre2 1 c2izpB_ 2 d2izpa1 3 c3hc7A_ 4 d1oh4a_ 5 c1msvB_ 6 c3ep3A_ 7 d1upka_ 8 d1jl0a_ 9 d1phpa_ 10 c3q2tC_ 11 c2hh9A_ 12 d1ejia_ 13 d1pmhx_ 14 c2k6rA_ 15 c2hjqA_ 16 c1fmeA_ 17 c1fsvA_ 18 c1fsdA_ 19 c3da7G_ 20 c2l5gB_ 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

Detailed template information

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

1 c2izpB_ 20.1 29 PDB header:toxin Chain: B: PDB Molecule:putative membrane antigen; PDBTitle: bipd - an invasion prtein associated with the type-iii2 secretion system of burkholderia pseudomallei. 2 d2izpa1 17.2 29 Fold:IpaD-like Superfamily:IpaD-like Family:IpaD-like 3 c3hc7A_ 16.6 20 PDB header:cell adhesion Chain: A: PDB Molecule:gene 12 protein; PDBTitle: crystal structure of lysin b from mycobacteriophage d29 4 d1oh4a_ 14.8 28 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Family 27 carbohydrate binding module, CBM27 5 c1msvB_ 13.5 19 PDB header:lyase Chain: B: PDB Molecule:s-adenosylmethionine decarboxylase proenzyme; PDBTitle: the s68a s-adenosylmethionine decarboxylase proenzyme2 processing mutant. 6 c3ep3A_ 12.9 19 PDB header:lyase Chain: A: PDB Molecule:s-adenosylmethionine decarboxylase alpha chain; PDBTitle: human adometdc d174n mutant with no putrescine bound 7 d1upka_ 10.8 18 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:Mo25 protein 8 d1jl0a_ 10.8 19 Fold:S-adenosylmethionine decarboxylase Superfamily:S-adenosylmethionine decarboxylase Family:S-adenosylmethionine decarboxylase 9 d1phpa_ 10.7 21 Fold:Phosphoglycerate kinase Superfamily:Phosphoglycerate kinase Family:Phosphoglycerate kinase 10 c3q2tC_ 9.5 32 PDB header:rna binding protein/rna Chain: C: PDB Molecule:cleavage and polyadenylation specificity factor subunit 6; PDBTitle: crystal structure of cfim68 rrm/cfim25/rna complex 11 c2hh9A_ 9.3 26 PDB header:transferase Chain: A: PDB Molecule:thiamin pyrophosphokinase; PDBTitle: thiamin pyrophosphokinase from candida albicans 12 d1ejia_ 9.2 38 Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:GABA-aminotransferase-like 13 d1pmhx_ 8.6 26 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Family 27 carbohydrate binding module, CBM27 14 c2k6rA_ 8.3 75 PDB header:de novo protein Chain: A: PDB Molecule:full sequence design 1 synthetic superstable; PDBTitle: protein folding on a highly rugged landscape: experimental2 observation of glassy dynamics and structural frustration 15 c2hjqA_ 8.2 47 PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein yqbf; PDBTitle: nmr structure of bacillus subtilis protein yqbf, northeast2 structural genomics target sr449 16 c1fmeA_ 8.1 75 PDB header:de novo protein Chain: A: PDB Molecule:fsd-ey peptide; PDBTitle: solution structure of fsd-ey, a novel peptide assuming a2 beta-beta-alpha fold 17 c1fsvA_ 7.9 75 PDB header:beta beta alpha motif Chain: A: PDB Molecule:full sequence design 1 of beta beta alpha motif; PDBTitle: full sequence design 1 (fsd-1) of beta beta alpha motif,2 nmr, minimized average structure 18 c1fsdA_ 7.9 75 PDB header:novel sequence Chain: A: PDB Molecule:full sequence design 1 of beta beta alpha motif; PDBTitle: full sequence design 1 (fsd-1) of beta beta alpha motif,2 nmr, 41 structures 19 c3da7G_ 7.8 41 PDB header:protein binding Chain: G: PDB Molecule:barnase circular permutant; PDBTitle: a conformationally strained, circular permutant of barnase 20 c2l5gB_ 7.6 50 PDB header:transcription regulator Chain: B: PDB Molecule:putative uncharacterized protein ncor2; PDBTitle: co-ordinates and 1h, 13c and 15n chemical shift assignments for the2 complex of gps2 53-90 and smrt 167-207 21 c2hvzA_ not modelled 7.6 24 PDB header:rna binding protein Chain: A: PDB Molecule:splicing factor, arginine/serine-rich 7; PDBTitle: solution structure of the rrm domain of sr rich factor 9g8 22 c1zmrA_ not modelled 7.3 19 PDB header:transferase Chain: A: PDB Molecule:phosphoglycerate kinase; PDBTitle: crystal structure of the e. coli phosphoglycerate kinase 23 c3cvzA_ not modelled 7.3 25 PDB header:structural protein Chain: A: PDB Molecule:s-layer protein; PDBTitle: structural insights into the molecular organization of the2 s-layer from clostridium difficile 24 c2rhqA_ not modelled 7.1 21 PDB header:ligase Chain: A: PDB Molecule:phenylalanyl-trna synthetase alpha chain; PDBTitle: phers from staphylococcus haemolyticus- rational protein2 engineering and inhibitor studies 25 d2arha1 not modelled 7.0 35 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:Aq 1966-like 26 d1fiua_ not modelled 7.0 54 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Restriction endonuclease NgoIV 27 d2hjqa2 not modelled 6.9 27 Fold:GINS/PriA/YqbF domain Superfamily:PriA/YqbF domain Family:YqbF N-terminal domain-like 28 d1z1za1 not modelled 6.7 25 Fold:Phage tail protein-like Superfamily:Phage tail protein-like Family:Lambda phage gpU-like 29 d1pgsa1 not modelled 6.6 53 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:PHM/PNGase F Family:Glycosyl-asparaginase 30 c2o8kA_ not modelled 6.6 47 PDB header:transcription/dna Chain: A: PDB Molecule:rna polymerase sigma factor rpon; PDBTitle: nmr structure of the sigma-54 rpon domain bound to the-242 promoter element 31 c2ytuA_ not modelled 6.6 38 PDB header:signaling protein Chain: A: PDB Molecule:friend leukemia integration 1 transcription PDBTitle: solution structure of the sam_pnt-domain of the human2 friend leukemiaintegration 1 transcription factor 32 c3hlzA_ not modelled 6.6 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein bt_1490; PDBTitle: crystal structure of bt_1490 (np_810393.1) from bacteroides2 thetaiotaomicron vpi-5482 at 1.50 a resolution 33 d1hd0a_ not modelled 6.5 28 Fold:Ferredoxin-like Superfamily:RNA-binding domain, RBD Family:Canonical RBD 34 c1v0sA_ not modelled 6.3 31 PDB header:hydrolase Chain: A: PDB Molecule:phospholipase d; PDBTitle: uninhibited form of phospholipase d from streptomyces sp.2 strain pmf 35 d1z3xa1 not modelled 6.2 25 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:GUN4-associated domain 36 d1mn4a_ not modelled 6.2 23 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:p53-like transcription factors Family:DNA-binding domain from NDT80 37 d1k3ea_ not modelled 6.2 16 Fold:Secretion chaperone-like Superfamily:Type III secretory system chaperone-like Family:Type III secretory system chaperone 38 c2c4bB_ not modelled 6.2 41 PDB header:fusion protein Chain: B: PDB Molecule:barnase mcoeeti fusion; PDBTitle: inhibitor cystine knot protein mcoeeti fused to the2 catalytically inactive barnase mutant h102a 39 d2bida_ not modelled 5.9 21 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 40 c2e5iA_ not modelled 5.8 24 PDB header:gene regulation Chain: A: PDB Molecule:heterogeneous nuclear ribonucleoprotein l-like; PDBTitle: solution structure of rna binding domain 2 in heterogeneous2 nuclear ribonucleoprotein l-like 41 c2dkxA_ not modelled 5.7 38 PDB header:signaling protein Chain: A: PDB Molecule:sam pointed domain-containing ets transcription PDBTitle: solution structure of the sam_pnt-domain of ets2 transcription factor pdef (prostate ets) 42 d1jyoa_ not modelled 5.4 13 Fold:Secretion chaperone-like Superfamily:Type III secretory system chaperone-like Family:Type III secretory system chaperone 43 c3md1B_ not modelled 5.4 35 PDB header:rna binding protein Chain: B: PDB Molecule:nuclear and cytoplasmic polyadenylated rna-binding protein PDBTitle: crystal structure of the second rrm domain of yeast poly(u)-binding2 protein (pub1) 44 d1x9ba_ not modelled 5.4 44 Fold:Protozoan pheromone-like Superfamily:Hypothetical membrane protein Ta0354, soluble domain Family:Hypothetical membrane protein Ta0354, soluble domain 45 c3lgbB_ not modelled 5.4 36 PDB header:transferase Chain: B: PDB Molecule:dna primase large subunit; PDBTitle: crystal structure of the fe-s domain of the yeast dna primase 46 c3if8A_ not modelled 5.2 20 PDB header:cell cycle Chain: A: PDB Molecule:protein zwilch homolog; PDBTitle: crystal structure of zwilch, a member of the rzz kinetochore complex 47 d1erpa_ not modelled 5.0 47 Fold:Protozoan pheromone-like Superfamily:Protozoan pheromone proteins Family:Protozoan pheromone proteins

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