Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	R	A	R	G	R	G	R	R	D	L	K	S	E	I	N	I	V	P	L	L	D	V	L	L	V	L	L	L	I	F	M	A	T	A	P	I	I	T	Q	S	V	E	V	D	L	P	D	A	T	E	S	Q	A	V	S	S	N	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																							?	?	?	?			?	?	?	?		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	P	P	V	I	V	E	V	S	G	I	G	Q	Y	T	V	V	V	E	K	D	R	L	E	R	L	P	P	E	Q	V	V	A	E	V	S	S	R	F	K	A	N	P	K	T	V	F	L	I	G	G	A	K	D	V	P	Y	D	E	I
Secondary structure
SS confidence
Disorder		?																						?	?	?		?													?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.
Sequence		I	K	A	L	N	L	L	H	S	A	G	V	K	S	V	G	L	M	T	Q	P	I
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 2pfu chain A Region: 42 - 141 Aligned: 93 Modelled: 100 Confidence: 99.6% Identity: 22% PDB header:transport protein Chain: A: PDB Molecule:biopolymer transport exbd protein; PDBTitle: nmr strcuture determination of the periplasmic domain of exbd from2 e.coli Phyre2 PDB 2jwl chain B Region: 61 - 133 Aligned: 73 Modelled: 73 Confidence: 99.4% Identity: 51% PDB header:membrane protein Chain: B: PDB Molecule:protein tolr; PDBTitle: solution structure of periplasmic domain of tolr from h.2 influenzae with saxs data Phyre2 PDB 2e8a chain A domain 1 Region: 88 - 141 Aligned: 53 Modelled: 54 Confidence: 49.1% Identity: 9% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 2axt chain K domain 1 Region: 16 - 31 Aligned: 16 Modelled: 16 Confidence: 45.0% Identity: 25% Fold: Single transmembrane helix Superfamily: Photosystem II reaction center protein K, PsbK Family: PsbK-like Phyre2 PDB 1bup chain A domain 1 Region: 88 - 141 Aligned: 53 Modelled: 54 Confidence: 40.6% Identity: 8% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 3a0b chain K Region: 16 - 31 Aligned: 16 Modelled: 16 Confidence: 40.4% Identity: 25% PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 1jce chain A domain 1 Region: 88 - 141 Aligned: 54 Modelled: 54 Confidence: 38.0% Identity: 22% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 2jvf chain A Region: 61 - 140 Aligned: 80 Modelled: 80 Confidence: 34.0% Identity: 13% PDB header:de novo protein Chain: A: PDB Molecule:de novo protein m7; PDBTitle: solution structure of m7, a computationally-designed2 artificial protein Phyre2 PDB 1qys chain A Region: 63 - 140 Aligned: 77 Modelled: 78 Confidence: 33.1% Identity: 12% PDB header:de novo protein Chain: A: PDB Molecule:top7; PDBTitle: crystal structure of top7: a computationally designed2 protein with a novel fold Phyre2 PDB 3a0b chain K Region: 16 - 31 Aligned: 16 Modelled: 16 Confidence: 30.6% Identity: 25% PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 3a0h chain K Region: 16 - 31 Aligned: 16 Modelled: 16 Confidence: 24.1% Identity: 25% PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 3bma chain C Region: 112 - 142 Aligned: 30 Modelled: 31 Confidence: 22.5% Identity: 17% PDB header:ligase Chain: C: PDB Molecule:d-alanyl-lipoteichoic acid synthetase; PDBTitle: crystal structure of d-alanyl-lipoteichoic acid synthetase from2 streptococcus pneumoniae r6 Phyre2 PDB 1f75 chain A Region: 117 - 137 Aligned: 21 Modelled: 21 Confidence: 21.3% Identity: 24% Fold: Undecaprenyl diphosphate synthase Superfamily: Undecaprenyl diphosphate synthase Family: Undecaprenyl diphosphate synthase Phyre2 PDB 1dkg chain D domain 1 Region: 88 - 141 Aligned: 53 Modelled: 54 Confidence: 21.1% Identity: 9% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Actin/HSP70 Phyre2 PDB 1qyi chain A Region: 115 - 139 Aligned: 24 Modelled: 25 Confidence: 20.9% Identity: 42% Fold: HAD-like Superfamily: HAD-like Family: Hypothetical protein MW1667 (SA1546) Phyre2 PDB 2d0o chain A domain 1 Region: 97 - 140 Aligned: 44 Modelled: 44 Confidence: 19.9% Identity: 14% Fold: The "swivelling" beta/beta/alpha domain Superfamily: Swiveling domain of dehydratase reactivase alpha subunit Family: Swiveling domain of dehydratase reactivase alpha subunit Phyre2 PDB 2vfw chain B Region: 117 - 137 Aligned: 21 Modelled: 21 Confidence: 18.0% Identity: 24% PDB header:transferase Chain: B: PDB Molecule:short-chain z-isoprenyl diphosphate synthetase; PDBTitle: rv1086 native Phyre2 PDB 1jp3 chain A Region: 117 - 137 Aligned: 21 Modelled: 21 Confidence: 17.9% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:undecaprenyl pyrophosphate synthase; PDBTitle: structure of e.coli undecaprenyl pyrophosphate synthase Phyre2 PDB 1g8f chain A domain 3 Region: 100 - 132 Aligned: 33 Modelled: 33 Confidence: 17.8% Identity: 12% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: ATP sulfurylase C-terminal domain Phyre2 PDB 3qm3 chain C Region: 90 - 140 Aligned: 47 Modelled: 51 Confidence: 17.8% Identity: 19% PDB header:lyase Chain: C: PDB Molecule:fructose-bisphosphate aldolase; PDBTitle: 1.85 angstrom resolution crystal structure of fructose-bisphosphate2 aldolase (fba) from campylobacter jejuni Phyre2 1 c2pfuA_ 2 c2jwlB_ 3 d2e8aa1 4 d2axtk1 5 d1bupa1 6 c3a0bK_ 7 d1jcea1 8 c2jvfA_ 9 c1qysA_ 10 c3a0bk_ 11 c3a0hk_ 12 c3bmaC_ 13 d1f75a_ 14 d1dkgd1 15 d1qyia_ 16 d2d0oa1 17 c2vfwB_ 18 c1jp3A_ 19 d1g8fa3 20 c3qm3C_ 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

Detailed template information

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

1 c2pfuA_ 99.6 22 PDB header:transport protein Chain: A: PDB Molecule:biopolymer transport exbd protein; PDBTitle: nmr strcuture determination of the periplasmic domain of exbd from2 e.coli 2 c2jwlB_ 99.4 51 PDB header:membrane protein Chain: B: PDB Molecule:protein tolr; PDBTitle: solution structure of periplasmic domain of tolr from h.2 influenzae with saxs data 3 d2e8aa1 49.1 9 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 4 d2axtk1 45.0 25 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein K, PsbK Family:PsbK-like 5 d1bupa1 40.6 8 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 6 c3a0bK_ 40.4 25 PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of br-substituted photosystem ii complex 7 d1jcea1 38.0 22 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 8 c2jvfA_ 34.0 13 PDB header:de novo protein Chain: A: PDB Molecule:de novo protein m7; PDBTitle: solution structure of m7, a computationally-designed2 artificial protein 9 c1qysA_ 33.1 12 PDB header:de novo protein Chain: A: PDB Molecule:top7; PDBTitle: crystal structure of top7: a computationally designed2 protein with a novel fold 10 c3a0bk_ 30.6 25 PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of br-substituted photosystem ii complex 11 c3a0hk_ 24.1 25 PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of i-substituted photosystem ii complex 12 c3bmaC_ 22.5 17 PDB header:ligase Chain: C: PDB Molecule:d-alanyl-lipoteichoic acid synthetase; PDBTitle: crystal structure of d-alanyl-lipoteichoic acid synthetase from2 streptococcus pneumoniae r6 13 d1f75a_ 21.3 24 Fold:Undecaprenyl diphosphate synthase Superfamily:Undecaprenyl diphosphate synthase Family:Undecaprenyl diphosphate synthase 14 d1dkgd1 21.1 9 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70 15 d1qyia_ 20.9 42 Fold:HAD-like Superfamily:HAD-like Family:Hypothetical protein MW1667 (SA1546) 16 d2d0oa1 19.9 14 Fold:The "swivelling" beta/beta/alpha domain Superfamily:Swiveling domain of dehydratase reactivase alpha subunit Family:Swiveling domain of dehydratase reactivase alpha subunit 17 c2vfwB_ 18.0 24 PDB header:transferase Chain: B: PDB Molecule:short-chain z-isoprenyl diphosphate synthetase; PDBTitle: rv1086 native 18 c1jp3A_ 17.9 14 PDB header:transferase Chain: A: PDB Molecule:undecaprenyl pyrophosphate synthase; PDBTitle: structure of e.coli undecaprenyl pyrophosphate synthase 19 d1g8fa3 17.8 12 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:ATP sulfurylase C-terminal domain 20 c3qm3C_ 17.8 19 PDB header:lyase Chain: C: PDB Molecule:fructose-bisphosphate aldolase; PDBTitle: 1.85 angstrom resolution crystal structure of fructose-bisphosphate2 aldolase (fba) from campylobacter jejuni 21 c3pm6B_ not modelled 17.5 13 PDB header:lyase Chain: B: PDB Molecule:putative fructose-bisphosphate aldolase; PDBTitle: crystal structure of a putative fructose-1,6-biphosphate aldolase from2 coccidioides immitis solved by combined sad mr 22 c3muxB_ not modelled 17.1 18 PDB header:lyase Chain: B: PDB Molecule:putative 4-hydroxy-2-oxoglutarate aldolase; PDBTitle: the crystal structure of a putative 4-hydroxy-2-oxoglutarate aldolase2 from bacillus anthracis to 1.45a 23 c3m6yA_ not modelled 15.9 16 PDB header:lyase Chain: A: PDB Molecule:4-hydroxy-2-oxoglutarate aldolase; PDBTitle: structure of 4-hydroxy-2-oxoglutarate aldolase from bacillus cereus at2 1.45 a resolution. 24 d1ueha_ not modelled 15.7 14 Fold:Undecaprenyl diphosphate synthase Superfamily:Undecaprenyl diphosphate synthase Family:Undecaprenyl diphosphate synthase 25 c2d2rA_ not modelled 15.3 5 PDB header:transferase Chain: A: PDB Molecule:undecaprenyl pyrophosphate synthase; PDBTitle: crystal structure of helicobacter pylori undecaprenyl pyrophosphate2 synthase 26 c3m0zD_ not modelled 14.0 20 PDB header:lyase Chain: D: PDB Molecule:putative aldolase; PDBTitle: crystal structure of putative aldolase from klebsiella2 pneumoniae. 27 d1gvfa_ not modelled 13.6 28 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class II FBP aldolase 28 d1olta_ not modelled 13.2 13 Fold:TIM beta/alpha-barrel Superfamily:Radical SAM enzymes Family:Oxygen-independent coproporphyrinogen III oxidase HemN 29 c3bz1y_ not modelled 12.5 0 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii protein y; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer 30 c3a0hy_ not modelled 12.5 0 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of i-substituted photosystem ii complex 31 c3a0hY_ not modelled 12.5 0 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of i-substituted photosystem ii complex 32 c3arcy_ not modelled 12.1 0 PDB header:electron transport, photosynthesis Chain: Y: PDB Molecule:protein ycf12; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 33 c3arcY_ not modelled 12.1 0 PDB header:electron transport, photosynthesis Chain: Y: PDB Molecule:protein ycf12; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 34 c3a0by_ not modelled 11.8 0 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of br-substituted photosystem ii complex 35 c3gmgB_ not modelled 11.1 22 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein rv1825/mt1873; PDBTitle: crystal structure of an uncharacterized conserved protein2 from mycobacterium tuberculosis 36 d1xr4a1 not modelled 10.8 13 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:CoA transferase alpha subunit-like 37 d2ohwa1 not modelled 9.6 15 Fold:Bacillus chorismate mutase-like Superfamily:YueI-like Family:YueI-like 38 c3gk0H_ not modelled 9.5 14 PDB header:transferase Chain: H: PDB Molecule:pyridoxine 5'-phosphate synthase; PDBTitle: crystal structure of pyridoxal phosphate biosynthetic2 protein from burkholderia pseudomallei 39 c3a0bY_ not modelled 9.4 0 PDB header:electron transport Chain: Y: PDB Molecule:photosystem ii reaction center protein ycf12; PDBTitle: crystal structure of br-substituted photosystem ii complex 40 c3ivuB_ not modelled 9.0 10 PDB header:transferase Chain: B: PDB Molecule:homocitrate synthase, mitochondrial; PDBTitle: homocitrate synthase lys4 bound to 2-og 41 d1a9xa4 not modelled 8.8 15 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like 42 d1rvga_ not modelled 8.2 23 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class II FBP aldolase 43 c3iprC_ not modelled 8.1 13 PDB header:transferase Chain: C: PDB Molecule:pts system, iia component; PDBTitle: crystal structure of the enterococcus faecalis gluconate2 specific eiia phosphotransferase system component 44 d1b0aa2 not modelled 8.1 11 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Tetrahydrofolate dehydrogenase/cyclohydrolase 45 d2gycm1 not modelled 8.0 12 Fold:Ribonuclease H-like motif Superfamily:Translational machinery components Family:Ribosomal protein L18 and S11 46 d1nvma2 not modelled 7.8 11 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:HMGL-like 47 d1zhva2 not modelled 7.6 32 Fold:Ferredoxin-like Superfamily:ACT-like Family:Atu0741-like 48 c3q94B_ not modelled 7.6 19 PDB header:lyase Chain: B: PDB Molecule:fructose-bisphosphate aldolase, class ii; PDBTitle: the crystal structure of fructose 1,6-bisphosphate aldolase from2 bacillus anthracis str. 'ames ancestor' 49 d1edza2 not modelled 7.6 15 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Tetrahydrofolate dehydrogenase/cyclohydrolase 50 c2vg2C_ not modelled 6.9 19 PDB header:transferase Chain: C: PDB Molecule:undecaprenyl pyrophosphate synthetase; PDBTitle: rv2361 with ipp 51 d1ovya_ not modelled 6.5 11 Fold:Ribonuclease H-like motif Superfamily:Translational machinery components Family:Ribosomal protein L18 and S11 52 c2bdqA_ not modelled 6.5 15 PDB header:metal transport Chain: A: PDB Molecule:copper homeostasis protein cutc; PDBTitle: crystal structure of the putative copper homeostasis2 protein cutc from streptococcus agalactiae, northeast3 strucural genomics target sar15. 53 d1a4ia2 not modelled 6.3 20 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Tetrahydrofolate dehydrogenase/cyclohydrolase 54 d1ujpa_ not modelled 5.7 30 Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes 55 d1m5wa_ not modelled 5.1 13 Fold:TIM beta/alpha-barrel Superfamily:Pyridoxine 5'-phosphate synthase Family:Pyridoxine 5'-phosphate synthase

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