Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	N	N	E	I	Q	S	V	L	M	N	A	L	S	L	Q	E	V	H	V	S	G	D	G	S	H	F	Q	V	I	A	V	G	E	L	F	D	G	M	S	R	V	K	K	Q	Q	T	V	Y	G	P	L	M	E	Y	I	A	D	N
Secondary structure
SS confidence
Disorder		?	?																				?		?														?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.
Sequence		R	I	H	A	V	S	I	K	A	Y	T	P	A	E	W	A	R	D	R	K	L	N	G	F
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 1ny8 chain A Region: 1 - 84 Aligned: 84 Modelled: 84 Confidence: 100.0% Identity: 100% Fold: Alpha-lytic protease prodomain-like Superfamily: BolA-like Family: BolA-like Phyre2 PDB 3tr3 chain A Region: 1 - 77 Aligned: 76 Modelled: 77 Confidence: 100.0% Identity: 32% PDB header:unknown function Chain: A: PDB Molecule:bola; PDBTitle: structure of a bola protein homologue from coxiella burnetii Phyre2 PDB 3o2e chain A Region: 1 - 80 Aligned: 78 Modelled: 80 Confidence: 100.0% Identity: 28% PDB header:unknown function Chain: A: PDB Molecule:bola-like protein; PDBTitle: crystal structure of a bol-like protein from babesia bovis Phyre2 PDB 1v9j chain A Region: 1 - 80 Aligned: 78 Modelled: 80 Confidence: 100.0% Identity: 27% Fold: Alpha-lytic protease prodomain-like Superfamily: BolA-like Family: BolA-like Phyre2 PDB 2dhm chain A Region: 1 - 80 Aligned: 79 Modelled: 80 Confidence: 100.0% Identity: 30% 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 - 82 Aligned: 79 Modelled: 80 Confidence: 100.0% Identity: 35% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:riken cdna 1810037g04; PDBTitle: solution structure of bola1 protein from mus musculus Phyre2 PDB 2kdn chain A Region: 3 - 80 Aligned: 76 Modelled: 78 Confidence: 100.0% Identity: 28% 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 1xs3 chain A Region: 1 - 74 Aligned: 73 Modelled: 74 Confidence: 100.0% Identity: 30% 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: 1 - 71 Aligned: 67 Modelled: 71 Confidence: 99.9% Identity: 25% 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: 4 - 81 Aligned: 72 Modelled: 78 Confidence: 97.4% Identity: 21% Fold: Nucleotidyltransferase Superfamily: Nucleotidyltransferase Family: Catalytic subunit of bi-partite nucleotidyltransferase Phyre2 PDB 2rff chain A Region: 3 - 79 Aligned: 69 Modelled: 77 Confidence: 58.6% Identity: 20% 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 2jso chain A Region: 61 - 83 Aligned: 23 Modelled: 23 Confidence: 30.2% Identity: 35% PDB header:signaling protein Chain: A: PDB Molecule:polymyxin resistance protein pmrd; PDBTitle: antimicrobial resistance protein Phyre2 PDB 1dpu chain A Region: 1 - 31 Aligned: 31 Modelled: 31 Confidence: 19.0% Identity: 16% PDB header:dna binding protein Chain: A: PDB Molecule:replication protein a (rpa32) c-terminal domain; PDBTitle: solution structure of the c-terminal domain of human rpa322 complexed with ung2(73-88) Phyre2 PDB 1dpu chain A Region: 1 - 31 Aligned: 31 Modelled: 31 Confidence: 19.0% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal domain of RPA32 Phyre2 PDB 1ubd chain C domain 2 Region: 36 - 49 Aligned: 14 Modelled: 14 Confidence: 17.8% Identity: 36% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 2hjj chain A domain 1 Region: 19 - 32 Aligned: 14 Modelled: 14 Confidence: 15.2% Identity: 36% Fold: dsRBD-like Superfamily: YcfA/nrd intein domain Family: YkfF-like Phyre2 PDB 2hjj chain A Region: 19 - 32 Aligned: 14 Modelled: 14 Confidence: 15.2% Identity: 36% 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 2pzz chain A domain 1 Region: 2 - 60 Aligned: 59 Modelled: 59 Confidence: 12.9% Identity: 5% Fold: RL5-like Superfamily: RL5-like Family: SSO1042-like Phyre2 PDB 1znf chain A Region: 36 - 49 Aligned: 14 Modelled: 14 Confidence: 12.0% Identity: 29% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1znf chain A Region: 36 - 49 Aligned: 14 Modelled: 14 Confidence: 12.0% Identity: 29% 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 Phyre2 1 d1ny8a_ 2 c3tr3A_ 3 c3o2eA_ 4 d1v9ja_ 5 c2dhmA_ 6 c1v60A_ 7 c2kdnA_ 8 c1xs3A_ 9 c2kz0A_ 10 d1ylqa1 11 c2rffA_ 12 c2jsoA_ 13 c1dpuA_ 14 d1dpua_ 15 d1ubdc2 16 d2hjja1 17 c2hjjA_ 18 d2pzza1 19 d1znfa_ 20 c1znfA_ 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 d1ny8a_ 100.0 100 Fold:Alpha-lytic protease prodomain-like Superfamily:BolA-like Family:BolA-like 2 c3tr3A_ 100.0 32 PDB header:unknown function Chain: A: PDB Molecule:bola; PDBTitle: structure of a bola protein homologue from coxiella burnetii 3 c3o2eA_ 100.0 28 PDB header:unknown function Chain: A: PDB Molecule:bola-like protein; PDBTitle: crystal structure of a bol-like protein from babesia bovis 4 d1v9ja_ 100.0 27 Fold:Alpha-lytic protease prodomain-like Superfamily:BolA-like Family:BolA-like 5 c2dhmA_ 100.0 30 PDB header:protein binding Chain: A: PDB Molecule:protein bola; PDBTitle: solution structure of the bola protein from escherichia coli 6 c1v60A_ 100.0 35 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:riken cdna 1810037g04; PDBTitle: solution structure of bola1 protein from mus musculus 7 c2kdnA_ 100.0 28 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. 8 c1xs3A_ 100.0 30 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 25 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 97.4 21 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Catalytic subunit of bi-partite nucleotidyltransferase 11 c2rffA_ 58.6 20 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 c2jsoA_ 30.2 35 PDB header:signaling protein Chain: A: PDB Molecule:polymyxin resistance protein pmrd; PDBTitle: antimicrobial resistance protein 13 c1dpuA_ 19.0 16 PDB header:dna binding protein Chain: A: PDB Molecule:replication protein a (rpa32) c-terminal domain; PDBTitle: solution structure of the c-terminal domain of human rpa322 complexed with ung2(73-88) 14 d1dpua_ 19.0 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of RPA32 15 d1ubdc2 17.8 36 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 16 d2hjja1 15.2 36 Fold:dsRBD-like Superfamily:YcfA/nrd intein domain Family:YkfF-like 17 c2hjjA_ 15.2 36 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. 18 d2pzza1 12.9 5 Fold:RL5-like Superfamily:RL5-like Family:SSO1042-like 19 d1znfa_ 12.0 29 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 20 c1znfA_ 12.0 29 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 21 c3c9gB_ not modelled 11.5 12 PDB header:nucleotide binding protein Chain: B: PDB Molecule:upf0200/upf0201 protein af_1395; PDBTitle: crystal structure of uncharacterized upf0201 protein af_135 22 d1flma_ not modelled 10.1 21 Fold:Split barrel-like Superfamily:FMN-binding split barrel Family:PNP-oxidase like 23 c1cirA_ not modelled 10.0 15 PDB header:serine protease inhibitor Chain: A: PDB Molecule:chymotrypsin inhibitor 2; PDBTitle: complex of two fragments of ci2 [(1-40)(dot)(41-64)] 24 c1xb4C_ not modelled 9.3 22 PDB header:unknown function Chain: C: PDB Molecule:hypothetical 23.6 kda protein in yuh1-ura8 PDBTitle: crystal structure of subunit vps25 of the endosomal2 trafficking complex escrt-ii 25 d1ijwc_ not modelled 8.8 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 26 d1x7fa2 not modelled 8.3 15 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Outer surface protein, N-terminal domain 27 c2kwhA_ not modelled 8.1 23 PDB header:transport protein Chain: A: PDB Molecule:rala-binding protein 1; PDBTitle: ral binding domain of rlip76 (ralbp1) 28 c2p0oA_ not modelled 7.8 23 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein duf871; PDBTitle: crystal structure of a conserved protein from locus ef_2437 in2 enterococcus faecalis with an unknown function 29 d1ccwb_ not modelled 7.5 27 Fold:TIM beta/alpha-barrel Superfamily:Cobalamin (vitamin B12)-dependent enzymes Family:Glutamate mutase, large subunit 30 d1hcra_ not modelled 7.3 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 31 d2g7oa1 not modelled 7.0 16 Fold:TraM-like Superfamily:TraM-like Family:TraM-like 32 d1hh2p3 not modelled 6.7 18 Fold:Alpha-lytic protease prodomain-like Superfamily:Prokaryotic type KH domain (KH-domain type II) Family:Prokaryotic type KH domain (KH-domain type II) 33 d1ur3m_ not modelled 6.6 17 Fold:TIM beta/alpha-barrel Superfamily:NAD(P)-linked oxidoreductase Family:Aldo-keto reductases (NADP) 34 c2kneB_ not modelled 6.6 28 PDB header:metal transport Chain: B: PDB Molecule:atpase, ca++ transporting, plasma membrane 4; PDBTitle: calmodulin wraps around its binding domain in the plasma2 membrane ca2+ pump anchored by a novel 18-1 motif 35 d1cf7b_ not modelled 6.2 38 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Cell cycle transcription factor e2f-dp 36 d1pbya2 not modelled 5.9 38 Fold:Cytochrome c Superfamily:Cytochrome c Family:Quinohemoprotein amine dehydrogenase A chain, domains 1 and 2 37 c1x7fA_ not modelled 5.8 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:outer surface protein; PDBTitle: crystal structure of an uncharacterized b. cereus protein 38 c3qfiA_ not modelled 5.6 17 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: x-ray crystal structure of transcriptional regulator (ef0465) from2 enterococcus faecalis, northeast structural genomics consortium3 target efr190

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