Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	P	S	T	P	E	E	K	K	K	V	L	T	R	V	R	R	I	R	G	Q	I	D	A	L	E	R	S	L	E	G	D	A	E	C	R	A	I	L	Q	Q	I	A	A	V	R	G	A	A	N	G	L	M	A	E	V	L	E	S	H
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.
Sequence		I	R	E	T	F	D	R	N	D	C	Y	S	R	E	V	S	Q	S	V	D	D	T	I	E	L	V	R	A	Y	L	K
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 2hh7 chain A Region: 6 - 87 Aligned: 81 Modelled: 82 Confidence: 99.9% Identity: 26% PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein csor; PDBTitle: crystal structure of cu(i) bound csor from mycobacterium tuberculosis. Phyre2 PDB 3aai chain B Region: 1 - 74 Aligned: 74 Modelled: 71 Confidence: 99.9% Identity: 22% PDB header:transcription Chain: B: PDB Molecule:copper homeostasis operon regulatory protein; PDBTitle: x-ray crystal structure of csor from thermus thermophilus hb8 Phyre2 PDB 1paq chain A Region: 22 - 91 Aligned: 70 Modelled: 70 Confidence: 41.5% Identity: 14% PDB header:translation Chain: A: PDB Molecule:translation initiation factor eif-2b epsilon PDBTitle: crystal structure of the catalytic fragment of eukaryotic2 initiation factor 2b epsilon Phyre2 PDB 1paq chain A Region: 22 - 91 Aligned: 70 Modelled: 70 Confidence: 41.5% Identity: 14% Fold: alpha-alpha superhelix Superfamily: ARM repeat Family: MIF4G domain-like Phyre2 PDB 2p5t chain A Region: 15 - 30 Aligned: 16 Modelled: 16 Confidence: 32.3% Identity: 44% PDB header:transcription regulator Chain: A: PDB Molecule:putative transcriptional regulator peza; PDBTitle: molecular and structural characterization of the pezat chromosomal2 toxin-antitoxin system of the human pathogen streptococcus pneumoniae Phyre2 PDB 3jui chain A Region: 22 - 89 Aligned: 68 Modelled: 68 Confidence: 28.5% Identity: 19% PDB header:translation Chain: A: PDB Molecule:translation initiation factor eif-2b subunit epsilon; PDBTitle: crystal structure of the c-terminal domain of human translation2 initiation factor eif2b epsilon subunit Phyre2 PDB 1obb chain A domain 2 Region: 38 - 91 Aligned: 51 Modelled: 54 Confidence: 22.7% Identity: 20% Fold: LDH C-terminal domain-like Superfamily: LDH C-terminal domain-like Family: AglA-like glucosidase Phyre2 PDB 1ivs chain A domain 1 Region: 5 - 36 Aligned: 32 Modelled: 32 Confidence: 19.9% Identity: 13% Fold: Long alpha-hairpin Superfamily: tRNA-binding arm Family: Valyl-tRNA synthetase (ValRS) C-terminal domain Phyre2 PDB 3nep chain X Region: 1 - 33 Aligned: 33 Modelled: 33 Confidence: 19.4% Identity: 18% PDB header:oxidoreductase Chain: X: PDB Molecule:malate dehydrogenase; PDBTitle: 1.55a resolution structure of malate dehydrogenase from salinibacter2 ruber Phyre2 PDB 3frw chain F Region: 4 - 56 Aligned: 45 Modelled: 45 Confidence: 19.4% Identity: 13% PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum Phyre2 PDB 2nv2 chain U Region: 10 - 43 Aligned: 34 Modelled: 34 Confidence: 19.1% Identity: 18% PDB header:lyase/transferase Chain: U: PDB Molecule:pyridoxal biosynthesis lyase pdxs; PDBTitle: structure of the plp synthase complex pdx1/2 (yaad/e) from bacillus2 subtilis Phyre2 PDB 3zs9 chain D Region: 4 - 21 Aligned: 18 Modelled: 18 Confidence: 17.6% Identity: 44% PDB header:hydrolase/transport protein Chain: D: PDB Molecule:golgi to er traffic protein 2; PDBTitle: s. cerevisiae get3-adp-alf4- complex with a cytosolic get2 fragment Phyre2 PDB 1up7 chain A domain 2 Region: 38 - 91 Aligned: 51 Modelled: 54 Confidence: 17.6% Identity: 10% Fold: LDH C-terminal domain-like Superfamily: LDH C-terminal domain-like Family: AglA-like glucosidase Phyre2 PDB 2qyc chain A Region: 4 - 25 Aligned: 22 Modelled: 22 Confidence: 16.5% Identity: 23% PDB header:unknown function Chain: A: PDB Molecule:ferredoxin-like protein; PDBTitle: crystal structure of a dimeric ferredoxin-like protein (bb1511) from2 bordetella bronchiseptica rb50 at 1.90 a resolution Phyre2 PDB 1ev0 chain A Region: 80 - 91 Aligned: 12 Modelled: 12 Confidence: 14.1% Identity: 25% Fold: Cell division protein MinE topological specificity domain Superfamily: Cell division protein MinE topological specificity domain Family: Cell division protein MinE topological specificity domain Phyre2 PDB 3cve chain C Region: 4 - 31 Aligned: 28 Modelled: 28 Confidence: 11.8% Identity: 25% PDB header:signaling protein Chain: C: PDB Molecule:homer protein homolog 1; PDBTitle: crystal structure of the carboxy terminus of homer1 Phyre2 PDB 3kor chain D Region: 4 - 56 Aligned: 45 Modelled: 53 Confidence: 11.1% Identity: 16% PDB header:transcription Chain: D: PDB Molecule:possible trp repressor; PDBTitle: crystal structure of a putative trp repressor from staphylococcus2 aureus Phyre2 PDB 2gtl chain O Region: 10 - 52 Aligned: 42 Modelled: 43 Confidence: 10.2% Identity: 19% PDB header:oxygen storage/transport Chain: O: PDB Molecule:extracellular hemoglobin linker l3 subunit; PDBTitle: lumbricus erythrocruorin at 3.5a resolution Phyre2 PDB 4a1q chain B Region: 36 - 84 Aligned: 49 Modelled: 49 Confidence: 9.8% Identity: 16% PDB header:viral protein Chain: B: PDB Molecule:orf e73; PDBTitle: solution structure of e73 protein from sulfolobus spindle-2 shaped virus ragged hills, a hyperthermophilic3 crenarchaeal virus from yellowstone national park Phyre2 PDB 3fem chain B Region: 10 - 43 Aligned: 34 Modelled: 34 Confidence: 9.0% Identity: 24% PDB header:biosynthetic protein, transferase Chain: B: PDB Molecule:pyridoxine biosynthesis protein snz1; PDBTitle: structure of the synthase subunit pdx1.1 (snz1) of plp synthase from2 saccharomyces cerevisiae Phyre2 1 c2hh7A_ 2 c3aaiB_ 3 c1paqA_ 4 d1paqa_ 5 c2p5tA_ 6 c3juiA_ 7 d1obba2 8 d1ivsa1 9 c3nepX_ 10 c3frwF_ 11 c2nv2U_ 12 c3zs9D_ 13 d1up7a2 14 c2qycA_ 15 d1ev0a_ 16 c3cveC_ 17 c3korD_ 18 c2gtlO_ 19 c4a1qB_ 20 c3femB_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38

Detailed template information

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

1 c2hh7A_ 99.9 26 PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein csor; PDBTitle: crystal structure of cu(i) bound csor from mycobacterium tuberculosis. 2 c3aaiB_ 99.9 22 PDB header:transcription Chain: B: PDB Molecule:copper homeostasis operon regulatory protein; PDBTitle: x-ray crystal structure of csor from thermus thermophilus hb8 3 c1paqA_ 41.5 14 PDB header:translation Chain: A: PDB Molecule:translation initiation factor eif-2b epsilon PDBTitle: crystal structure of the catalytic fragment of eukaryotic2 initiation factor 2b epsilon 4 d1paqa_ 41.5 14 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:MIF4G domain-like 5 c2p5tA_ 32.3 44 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcriptional regulator peza; PDBTitle: molecular and structural characterization of the pezat chromosomal2 toxin-antitoxin system of the human pathogen streptococcus pneumoniae 6 c3juiA_ 28.5 19 PDB header:translation Chain: A: PDB Molecule:translation initiation factor eif-2b subunit epsilon; PDBTitle: crystal structure of the c-terminal domain of human translation2 initiation factor eif2b epsilon subunit 7 d1obba2 22.7 20 Fold:LDH C-terminal domain-like Superfamily:LDH C-terminal domain-like Family:AglA-like glucosidase 8 d1ivsa1 19.9 13 Fold:Long alpha-hairpin Superfamily:tRNA-binding arm Family:Valyl-tRNA synthetase (ValRS) C-terminal domain 9 c3nepX_ 19.4 18 PDB header:oxidoreductase Chain: X: PDB Molecule:malate dehydrogenase; PDBTitle: 1.55a resolution structure of malate dehydrogenase from salinibacter2 ruber 10 c3frwF_ 19.4 13 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum 11 c2nv2U_ 19.1 18 PDB header:lyase/transferase Chain: U: PDB Molecule:pyridoxal biosynthesis lyase pdxs; PDBTitle: structure of the plp synthase complex pdx1/2 (yaad/e) from bacillus2 subtilis 12 c3zs9D_ 17.6 44 PDB header:hydrolase/transport protein Chain: D: PDB Molecule:golgi to er traffic protein 2; PDBTitle: s. cerevisiae get3-adp-alf4- complex with a cytosolic get2 fragment 13 d1up7a2 17.6 10 Fold:LDH C-terminal domain-like Superfamily:LDH C-terminal domain-like Family:AglA-like glucosidase 14 c2qycA_ 16.5 23 PDB header:unknown function Chain: A: PDB Molecule:ferredoxin-like protein; PDBTitle: crystal structure of a dimeric ferredoxin-like protein (bb1511) from2 bordetella bronchiseptica rb50 at 1.90 a resolution 15 d1ev0a_ 14.1 25 Fold:Cell division protein MinE topological specificity domain Superfamily:Cell division protein MinE topological specificity domain Family:Cell division protein MinE topological specificity domain 16 c3cveC_ 11.8 25 PDB header:signaling protein Chain: C: PDB Molecule:homer protein homolog 1; PDBTitle: crystal structure of the carboxy terminus of homer1 17 c3korD_ 11.1 16 PDB header:transcription Chain: D: PDB Molecule:possible trp repressor; PDBTitle: crystal structure of a putative trp repressor from staphylococcus2 aureus 18 c2gtlO_ 10.2 19 PDB header:oxygen storage/transport Chain: O: PDB Molecule:extracellular hemoglobin linker l3 subunit; PDBTitle: lumbricus erythrocruorin at 3.5a resolution 19 c4a1qB_ 9.8 16 PDB header:viral protein Chain: B: PDB Molecule:orf e73; PDBTitle: solution structure of e73 protein from sulfolobus spindle-2 shaped virus ragged hills, a hyperthermophilic3 crenarchaeal virus from yellowstone national park 20 c3femB_ 9.0 24 PDB header:biosynthetic protein, transferase Chain: B: PDB Molecule:pyridoxine biosynthesis protein snz1; PDBTitle: structure of the synthase subunit pdx1.1 (snz1) of plp synthase from2 saccharomyces cerevisiae 21 c3ku7B_ not modelled 8.3 25 PDB header:cell cycle Chain: B: PDB Molecule:cell division topological specificity factor; PDBTitle: crystal structure of helicobacter pylori mine, a cell division2 topological specificity factor 22 c1obbB_ not modelled 8.0 20 PDB header:hydrolase Chain: B: PDB Molecule:alpha-glucosidase; PDBTitle: alpha-glucosidase a, agla, from thermotoga maritima in2 complex with maltose and nad+ 23 d2hyec2 not modelled 7.8 15 Fold:alpha-alpha superhelix Superfamily:Cullin repeat-like Family:Cullin repeat 24 d1tr0a_ not modelled 7.8 13 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:Plant stress-induced protein 25 d1q4ra_ not modelled 7.8 14 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:Plant stress-induced protein 26 d1sxjd1 not modelled 7.6 5 Fold:post-AAA+ oligomerization domain-like Superfamily:post-AAA+ oligomerization domain-like Family:DNA polymerase III clamp loader subunits, C-terminal domain 27 d1qnaa2 not modelled 7.2 7 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 28 c1up6F_ not modelled 7.1 10 PDB header:hydrolase Chain: F: PDB Molecule:6-phospho-beta-glucosidase; PDBTitle: structure of the 6-phospho-beta glucosidase from thermotoga2 maritima at 2.55 angstrom resolution in the tetragonal form3 with manganese, nad+ and glucose-6-phosphate 29 d1cdwa2 not modelled 6.3 7 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 30 d1c2ya_ not modelled 6.2 14 Fold:Lumazine synthase Superfamily:Lumazine synthase Family:Lumazine synthase 31 c2ovcA_ not modelled 6.2 25 PDB header:transport protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily kqt member 4; PDBTitle: crystal structure of a coiled-coil tetramerization domain from kv7.42 channels 32 d1josa_ not modelled 5.8 5 Fold:Alpha-lytic protease prodomain-like Superfamily:Ribosome-binding factor A, RbfA Family:Ribosome-binding factor A, RbfA 33 d1kkga_ not modelled 5.6 13 Fold:Alpha-lytic protease prodomain-like Superfamily:Ribosome-binding factor A, RbfA Family:Ribosome-binding factor A, RbfA 34 c2xa0C_ not modelled 5.5 35 PDB header:apoptosis Chain: C: PDB Molecule:apoptosis regulator bax; PDBTitle: crystal structure of bcl-2 in complex with a bax bh32 peptide 35 c3bdeA_ not modelled 5.2 25 PDB header:unknown function Chain: A: PDB Molecule:mll5499 protein; PDBTitle: crystal structure of a dabb family protein with a ferredoxin-like fold2 (mll5499) from mesorhizobium loti maff303099 at 1.79 a resolution 36 c3fajA_ not modelled 5.2 5 PDB header:structural protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: structure of the structural protein p131 of the archaeal virus2 acidianus two-tailed virus (atv) 37 c3hugJ_ not modelled 5.1 23 PDB header:transcription/membrane protein Chain: J: PDB Molecule:probable conserved membrane protein; PDBTitle: crystal structure of mycobacterium tuberculosis anti-sigma factor rsla2 in complex with -35 promoter binding domain of sigl 38 c2kxoA_ not modelled 5.0 17 PDB header:cell cycle Chain: A: PDB Molecule:cell division topological specificity factor; PDBTitle: solution nmr structure of the cell division regulator mine protein2 from neisseria gonorrhoeae

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

---

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