Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	I	R	E	R	I	E	E	K	L	R	A	A	F	Q	P	V	F	L	E	V	V	D	E	S	Y	R	H	N	V	P	A	G	S	E	S	H	F	K	V	V	L	V	S	D	R	F	T	G	E	R	F	L	N	R	H	R	M	I
Secondary structure
SS confidence
Disorder		?	?	?																												?	?	?	?	?	?													?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.
Sequence		Y	S	T	L	A	E	E	L	S	T	T	V	H	A	L	A	L	H	T	Y	T	I	K	E	W	E	G	L	Q	D	T	V	F	A	S	P	P	C	R	G	A	G	S	I	A
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 2dhm chain A Region: 1 - 100 Aligned: 100 Modelled: 100 Confidence: 100.0% Identity: 100% PDB header:protein binding Chain: A: PDB Molecule:protein bola; PDBTitle: solution structure of the bola protein from escherichia coli Phyre2 PDB 1v60 chain A Region: 3 - 100 Aligned: 97 Modelled: 98 Confidence: 100.0% Identity: 45% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:riken cdna 1810037g04; PDBTitle: solution structure of bola1 protein from mus musculus Phyre2 PDB 3o2e chain A Region: 1 - 90 Aligned: 83 Modelled: 90 Confidence: 100.0% Identity: 35% PDB header:unknown function Chain: A: PDB Molecule:bola-like protein; PDBTitle: crystal structure of a bol-like protein from babesia bovis Phyre2 PDB 2kdn chain A Region: 1 - 91 Aligned: 84 Modelled: 91 Confidence: 100.0% Identity: 39% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein pfe0790c; PDBTitle: solution structure of pfe0790c, a putative bola-like2 protein from the protozoan parasite plasmodium falciparum. Phyre2 PDB 1v9j chain A Region: 1 - 91 Aligned: 85 Modelled: 91 Confidence: 100.0% Identity: 32% Fold: Alpha-lytic protease prodomain-like Superfamily: BolA-like Family: BolA-like Phyre2 PDB 3tr3 chain A Region: 2 - 87 Aligned: 77 Modelled: 86 Confidence: 100.0% Identity: 30% PDB header:unknown function Chain: A: PDB Molecule:bola; PDBTitle: structure of a bola protein homologue from coxiella burnetii Phyre2 PDB 1ny8 chain A Region: 2 - 90 Aligned: 79 Modelled: 89 Confidence: 100.0% Identity: 29% Fold: Alpha-lytic protease prodomain-like Superfamily: BolA-like Family: BolA-like Phyre2 PDB 1xs3 chain A Region: 1 - 84 Aligned: 75 Modelled: 84 Confidence: 100.0% Identity: 35% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein xc975; PDBTitle: solution structure analysis of the xc975 protein Phyre2 PDB 2kz0 chain A Region: 2 - 81 Aligned: 70 Modelled: 80 Confidence: 99.9% Identity: 31% PDB header:transcription Chain: A: PDB Molecule:bola family protein; PDBTitle: solution structure of a bola protein (ech_0303) from ehrlichia2 chaffeensis. seattle structural genomics center for infectious3 disease target ehcha.10365.a Phyre2 PDB 1ylq chain A domain 1 Region: 5 - 90 Aligned: 80 Modelled: 86 Confidence: 96.8% Identity: 20% Fold: Nucleotidyltransferase Superfamily: Nucleotidyltransferase Family: Catalytic subunit of bi-partite nucleotidyltransferase Phyre2 PDB 2rff chain A Region: 1 - 92 Aligned: 84 Modelled: 92 Confidence: 44.5% Identity: 15% PDB header:transferase Chain: A: PDB Molecule:putative nucleotidyltransferase; PDBTitle: crystal structure of a putative nucleotidyltransferase2 (np_343093.1) from sulfolobus solfataricus at 1.40 a3 resolution Phyre2 PDB 2hjj chain A Region: 20 - 43 Aligned: 15 Modelled: 24 Confidence: 18.7% Identity: 33% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ykff; PDBTitle: solution nmr structure of protein ykff from escherichia coli.2 northeast structural genomics target er397. Phyre2 PDB 2hjj chain A domain 1 Region: 20 - 43 Aligned: 15 Modelled: 24 Confidence: 18.7% Identity: 33% Fold: dsRBD-like Superfamily: YcfA/nrd intein domain Family: YkfF-like Phyre2 PDB 1ubd chain C domain 2 Region: 47 - 61 Aligned: 15 Modelled: 15 Confidence: 16.3% Identity: 27% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 2hw4 chain A Region: 49 - 104 Aligned: 34 Modelled: 34 Confidence: 15.8% Identity: 29% PDB header:structural genomics, hydrolase Chain: A: PDB Molecule:14 kda phosphohistidine phosphatase; PDBTitle: crystal structure of human phosphohistidine phosphatase Phyre2 PDB 2hw4 chain A domain 1 Region: 49 - 104 Aligned: 34 Modelled: 34 Confidence: 13.0% Identity: 29% Fold: PHP14-like Superfamily: PHP14-like Family: Janus/Ocnus Phyre2 PDB 2wu8 chain A Region: 41 - 101 Aligned: 61 Modelled: 61 Confidence: 12.7% Identity: 15% PDB header:isomerase Chain: A: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: structural studies of phosphoglucose isomerase from2 mycobacterium tuberculosis h37rv Phyre2 PDB 1xhj chain A Region: 1 - 32 Aligned: 32 Modelled: 32 Confidence: 10.3% Identity: 19% Fold: Alpha-lytic protease prodomain-like Superfamily: Fe-S cluster assembly (FSCA) domain-like Family: NifU C-terminal domain-like Phyre2 PDB 1ug8 chain A Region: 58 - 73 Aligned: 16 Modelled: 16 Confidence: 9.7% Identity: 31% Fold: IF3-like Superfamily: R3H domain Family: R3H domain Phyre2 PDB 1x63 chain A domain 1 Region: 94 - 104 Aligned: 11 Modelled: 11 Confidence: 9.4% Identity: 36% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 1 c2dhmA_ 2 c1v60A_ 3 c3o2eA_ 4 c2kdnA_ 5 d1v9ja_ 6 c3tr3A_ 7 d1ny8a_ 8 c1xs3A_ 9 c2kz0A_ 10 d1ylqa1 11 c2rffA_ 12 c2hjjA_ 13 d2hjja1 14 d1ubdc2 15 c2hw4A_ 16 d2hw4a1 17 c2wu8A_ 18 d1xhja_ 19 d1ug8a_ 20 d1x63a1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36

Detailed template information

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

1 c2dhmA_ 100.0 100 PDB header:protein binding Chain: A: PDB Molecule:protein bola; PDBTitle: solution structure of the bola protein from escherichia coli 2 c1v60A_ 100.0 45 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:riken cdna 1810037g04; PDBTitle: solution structure of bola1 protein from mus musculus 3 c3o2eA_ 100.0 35 PDB header:unknown function Chain: A: PDB Molecule:bola-like protein; PDBTitle: crystal structure of a bol-like protein from babesia bovis 4 c2kdnA_ 100.0 39 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein pfe0790c; PDBTitle: solution structure of pfe0790c, a putative bola-like2 protein from the protozoan parasite plasmodium falciparum. 5 d1v9ja_ 100.0 32 Fold:Alpha-lytic protease prodomain-like Superfamily:BolA-like Family:BolA-like 6 c3tr3A_ 100.0 30 PDB header:unknown function Chain: A: PDB Molecule:bola; PDBTitle: structure of a bola protein homologue from coxiella burnetii 7 d1ny8a_ 100.0 29 Fold:Alpha-lytic protease prodomain-like Superfamily:BolA-like Family:BolA-like 8 c1xs3A_ 100.0 35 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein xc975; PDBTitle: solution structure analysis of the xc975 protein 9 c2kz0A_ 99.9 31 PDB header:transcription Chain: A: PDB Molecule:bola family protein; PDBTitle: solution structure of a bola protein (ech_0303) from ehrlichia2 chaffeensis. seattle structural genomics center for infectious3 disease target ehcha.10365.a 10 d1ylqa1 96.8 20 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Catalytic subunit of bi-partite nucleotidyltransferase 11 c2rffA_ 44.5 15 PDB header:transferase Chain: A: PDB Molecule:putative nucleotidyltransferase; PDBTitle: crystal structure of a putative nucleotidyltransferase2 (np_343093.1) from sulfolobus solfataricus at 1.40 a3 resolution 12 c2hjjA_ 18.7 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ykff; PDBTitle: solution nmr structure of protein ykff from escherichia coli.2 northeast structural genomics target er397. 13 d2hjja1 18.7 33 Fold:dsRBD-like Superfamily:YcfA/nrd intein domain Family:YkfF-like 14 d1ubdc2 16.3 27 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 15 c2hw4A_ 15.8 29 PDB header:structural genomics, hydrolase Chain: A: PDB Molecule:14 kda phosphohistidine phosphatase; PDBTitle: crystal structure of human phosphohistidine phosphatase 16 d2hw4a1 13.0 29 Fold:PHP14-like Superfamily:PHP14-like Family:Janus/Ocnus 17 c2wu8A_ 12.7 15 PDB header:isomerase Chain: A: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: structural studies of phosphoglucose isomerase from2 mycobacterium tuberculosis h37rv 18 d1xhja_ 10.3 19 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 19 d1ug8a_ 9.7 31 Fold:IF3-like Superfamily:R3H domain Family:R3H domain 20 d1x63a1 9.4 36 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 21 d1znfa_ not modelled 9.0 25 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 22 c1znfA_ not modelled 9.0 25 PDB header:zinc finger dna binding domain Chain: A: PDB Molecule:31st zinc finger from xfin; PDBTitle: three-dimensional solution structure of a single zinc2 finger dna-binding domain 23 d1cf7b_ not modelled 8.1 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Cell cycle transcription factor e2f-dp 24 d1pvza_ not modelled 8.0 24 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Short-chain scorpion toxins 25 c2yv1A_ not modelled 7.5 9 PDB header:ligase Chain: A: PDB Molecule:succinyl-coa ligase [adp-forming] subunit alpha; PDBTitle: crystal structure of succinyl-coa synthetase alpha chain from2 methanocaldococcus jannaschii dsm 2661 26 c3hjbA_ not modelled 6.3 16 PDB header:isomerase Chain: A: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: 1.5 angstrom crystal structure of glucose-6-phosphate isomerase from2 vibrio cholerae. 27 c3htuE_ not modelled 6.2 25 PDB header:protein transport Chain: E: PDB Molecule:vacuolar protein-sorting-associated protein 25; PDBTitle: crystal structure of the human vps25-vps20 subcomplex 28 c3ljkA_ not modelled 6.1 18 PDB header:isomerase Chain: A: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: glucose-6-phosphate isomerase from francisella tularensis. 29 c3ujhB_ not modelled 6.1 20 PDB header:isomerase Chain: B: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: crystal structure of substrate-bound glucose-6-phosphate isomerase2 from toxoplasma gondii 30 d2g7oa1 not modelled 6.0 16 Fold:TraM-like Superfamily:TraM-like Family:TraM-like 31 d1iata_ not modelled 5.9 16 Fold:SIS domain Superfamily:SIS domain Family:Phosphoglucose isomerase, PGI 32 d1pbya2 not modelled 5.9 33 Fold:Cytochrome c Superfamily:Cytochrome c Family:Quinohemoprotein amine dehydrogenase A chain, domains 1 and 2 33 c2jsoA_ not modelled 5.6 32 PDB header:signaling protein Chain: A: PDB Molecule:polymyxin resistance protein pmrd; PDBTitle: antimicrobial resistance protein 34 d1u0fa_ not modelled 5.3 16 Fold:SIS domain Superfamily:SIS domain Family:Phosphoglucose isomerase, PGI 35 d1gzda_ not modelled 5.1 16 Fold:SIS domain Superfamily:SIS domain Family:Phosphoglucose isomerase, PGI 36 c2btwA_ not modelled 5.1 11 PDB header:transferase Chain: A: PDB Molecule:alr0975 protein; PDBTitle: crystal structure of alr0975

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