Secondary structure and disorder prediction

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Sequence		M	S	N	K	Y	C	Q	A	L	V	E	L	R	N	K	P	A	H	E	L	K	E	V	G	D	Q	W	R	T	P	D	N	I	F	W	G	I	N	T	L	F	G	P	F	V	L	D	L	F	T	D	G	D	N	A	K	C	A	A	Y
Secondary structure
SS confidence
Disorder		?	?	?									?	?	?	?	?	?	?	?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.
Sequence		Y	T	A	E	D	N	A	L	A	H	D	W	S	E	R	L	A	E	L	K	G	A	A	F	G	N	P	P	Y	P	W
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 1aqj chain B Region: 41 - 89 Aligned: 41 Modelled: 49 Confidence: 48.6% Identity: 24% PDB header:methyltransferase Chain: B: PDB Molecule:adenine-n6-dna-methyltransferase taqi; PDBTitle: structure of adenine-n6-dna-methyltransferase taqi Phyre2 PDB 1g38 chain A Region: 41 - 89 Aligned: 41 Modelled: 49 Confidence: 40.8% Identity: 24% PDB header:transferase/dna Chain: A: PDB Molecule:modification methylase taqi; PDBTitle: adenine-specific methyltransferase m. taq i/dna complex Phyre2 PDB 3dcz chain A Region: 9 - 44 Aligned: 30 Modelled: 36 Confidence: 21.5% Identity: 20% PDB header:oxidoreductase Chain: A: PDB Molecule:putative rnfg subunit of electron transport complex; PDBTitle: crystal structure of a putative rnfg subunit of electron transport2 complex (tm0246) from thermotoga maritima at 1.65 a resolution Phyre2 PDB 3uzu chain A Region: 66 - 89 Aligned: 24 Modelled: 24 Confidence: 20.4% Identity: 29% PDB header:transferase Chain: A: PDB Molecule:ribosomal rna small subunit methyltransferase a; PDBTitle: the structure of the ribosomal rna small subunit methyltransferase a2 from burkholderia pseudomallei Phyre2 PDB 2nn6 chain H Region: 77 - 88 Aligned: 12 Modelled: 12 Confidence: 20.3% Identity: 17% PDB header:hydrolase/transferase Chain: H: PDB Molecule:exosome complex exonuclease rrp4; PDBTitle: structure of the human rna exosome composed of rrp41, rrp45,2 rrp46, rrp43, mtr3, rrp42, csl4, rrp4, and rrp40 Phyre2 PDB 2hl7 chain A Region: 28 - 46 Aligned: 19 Modelled: 19 Confidence: 17.3% Identity: 21% PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c-type biogenesis protein ccmh; PDBTitle: crystal structure of the periplasmic domain of ccmh from pseudomonas2 aeruginosa Phyre2 PDB 1nv8 chain A Region: 82 - 89 Aligned: 8 Modelled: 8 Confidence: 15.4% Identity: 50% Fold: S-adenosyl-L-methionine-dependent methyltransferases Superfamily: S-adenosyl-L-methionine-dependent methyltransferases Family: N5-glutamine methyltransferase, HemK Phyre2 PDB 3lkd chain B Region: 66 - 89 Aligned: 24 Modelled: 24 Confidence: 14.3% Identity: 29% PDB header:transferase Chain: B: PDB Molecule:type i restriction-modification system PDBTitle: crystal structure of the type i restriction-modification2 system methyltransferase subunit from streptococcus3 thermophilus, northeast structural genomics consortium4 target sur80 Phyre2 PDB 2adv chain B Region: 73 - 91 Aligned: 19 Modelled: 19 Confidence: 12.9% Identity: 21% PDB header:hydrolase Chain: B: PDB Molecule:glutaryl 7- aminocephalosporanic acid acylase; PDBTitle: crystal structures of glutaryl 7-aminocephalosporanic acid acylase:2 mutational study of activation mechanism Phyre2 PDB 1g2q chain A Region: 1 - 40 Aligned: 40 Modelled: 40 Confidence: 12.6% Identity: 18% Fold: PRTase-like Superfamily: PRTase-like Family: Phosphoribosyltransferases (PRTases) Phyre2 PDB 3tqs chain B Region: 66 - 89 Aligned: 24 Modelled: 24 Confidence: 12.2% Identity: 33% PDB header:transferase Chain: B: PDB Molecule:ribosomal rna small subunit methyltransferase a; PDBTitle: structure of the dimethyladenosine transferase (ksga) from coxiella2 burnetii Phyre2 PDB 2nn6 chain H domain 3 Region: 78 - 88 Aligned: 11 Modelled: 11 Confidence: 12.0% Identity: 18% Fold: Eukaryotic type KH-domain (KH-domain type I) Superfamily: Eukaryotic type KH-domain (KH-domain type I) Family: Eukaryotic type KH-domain (KH-domain type I) Phyre2 PDB 1wy7 chain A domain 1 Region: 82 - 89 Aligned: 8 Modelled: 8 Confidence: 11.1% Identity: 38% Fold: S-adenosyl-L-methionine-dependent methyltransferases Superfamily: S-adenosyl-L-methionine-dependent methyltransferases Family: Ta1320-like Phyre2 PDB 1zq9 chain A domain 1 Region: 52 - 89 Aligned: 33 Modelled: 38 Confidence: 11.0% Identity: 15% Fold: S-adenosyl-L-methionine-dependent methyltransferases Superfamily: S-adenosyl-L-methionine-dependent methyltransferases Family: rRNA adenine dimethylase-like Phyre2 PDB 3q87 chain B Region: 83 - 89 Aligned: 7 Modelled: 7 Confidence: 11.0% Identity: 57% PDB header:transferase activator/transferase Chain: B: PDB Molecule:n6 adenine specific dna methylase; PDBTitle: structure of eukaryotic translation termination complex2 methyltransferase mtq2-trm112 Phyre2 PDB 2h00 chain A domain 1 Region: 82 - 89 Aligned: 8 Modelled: 8 Confidence: 10.6% Identity: 38% Fold: S-adenosyl-L-methionine-dependent methyltransferases Superfamily: S-adenosyl-L-methionine-dependent methyltransferases Family: Methyltransferase 10 domain Phyre2 PDB 2kw0 chain A Region: 28 - 46 Aligned: 19 Modelled: 19 Confidence: 10.5% Identity: 21% PDB header:oxidoreductase Chain: A: PDB Molecule:ccmh protein; PDBTitle: solution structure of n-terminal domain of ccmh from escherichia.coli Phyre2 PDB 3k0b chain A Region: 81 - 89 Aligned: 9 Modelled: 9 Confidence: 10.0% Identity: 56% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:predicted n6-adenine-specific dna methylase; PDBTitle: crystal structure of a predicted n6-adenine-specific dna methylase2 from listeria monocytogenes str. 4b f2365 Phyre2 PDB 1fex chain A Region: 61 - 86 Aligned: 26 Modelled: 26 Confidence: 9.9% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Myb/SANT domain Phyre2 PDB 1o9g chain A Region: 81 - 89 Aligned: 9 Modelled: 9 Confidence: 9.4% Identity: 22% Fold: S-adenosyl-L-methionine-dependent methyltransferases Superfamily: S-adenosyl-L-methionine-dependent methyltransferases Family: rRNA methyltransferase AviRa Phyre2 1 c1aqjB_ 2 c1g38A_ 3 c3dczA_ 4 c3uzuA_ 5 c2nn6H_ 6 c2hl7A_ 7 d1nv8a_ 8 c3lkdB_ 9 c2advB_ 10 d1g2qa_ 11 c3tqsB_ 12 d2nn6h3 13 d1wy7a1 14 d1zq9a1 15 c3q87B_ 16 d2h00a1 17 c2kw0A_ 18 c3k0bA_ 19 d1fexa_ 20 d1o9ga_ 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

Detailed template information

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

1 c1aqjB_ 48.6 24 PDB header:methyltransferase Chain: B: PDB Molecule:adenine-n6-dna-methyltransferase taqi; PDBTitle: structure of adenine-n6-dna-methyltransferase taqi 2 c1g38A_ 40.8 24 PDB header:transferase/dna Chain: A: PDB Molecule:modification methylase taqi; PDBTitle: adenine-specific methyltransferase m. taq i/dna complex 3 c3dczA_ 21.5 20 PDB header:oxidoreductase Chain: A: PDB Molecule:putative rnfg subunit of electron transport complex; PDBTitle: crystal structure of a putative rnfg subunit of electron transport2 complex (tm0246) from thermotoga maritima at 1.65 a resolution 4 c3uzuA_ 20.4 29 PDB header:transferase Chain: A: PDB Molecule:ribosomal rna small subunit methyltransferase a; PDBTitle: the structure of the ribosomal rna small subunit methyltransferase a2 from burkholderia pseudomallei 5 c2nn6H_ 20.3 17 PDB header:hydrolase/transferase Chain: H: PDB Molecule:exosome complex exonuclease rrp4; PDBTitle: structure of the human rna exosome composed of rrp41, rrp45,2 rrp46, rrp43, mtr3, rrp42, csl4, rrp4, and rrp40 6 c2hl7A_ 17.3 21 PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c-type biogenesis protein ccmh; PDBTitle: crystal structure of the periplasmic domain of ccmh from pseudomonas2 aeruginosa 7 d1nv8a_ 15.4 50 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:N5-glutamine methyltransferase, HemK 8 c3lkdB_ 14.3 29 PDB header:transferase Chain: B: PDB Molecule:type i restriction-modification system PDBTitle: crystal structure of the type i restriction-modification2 system methyltransferase subunit from streptococcus3 thermophilus, northeast structural genomics consortium4 target sur80 9 c2advB_ 12.9 21 PDB header:hydrolase Chain: B: PDB Molecule:glutaryl 7- aminocephalosporanic acid acylase; PDBTitle: crystal structures of glutaryl 7-aminocephalosporanic acid acylase:2 mutational study of activation mechanism 10 d1g2qa_ 12.6 18 Fold:PRTase-like Superfamily:PRTase-like Family:Phosphoribosyltransferases (PRTases) 11 c3tqsB_ 12.2 33 PDB header:transferase Chain: B: PDB Molecule:ribosomal rna small subunit methyltransferase a; PDBTitle: structure of the dimethyladenosine transferase (ksga) from coxiella2 burnetii 12 d2nn6h3 12.0 18 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 13 d1wy7a1 11.1 38 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:Ta1320-like 14 d1zq9a1 11.0 15 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:rRNA adenine dimethylase-like 15 c3q87B_ 11.0 57 PDB header:transferase activator/transferase Chain: B: PDB Molecule:n6 adenine specific dna methylase; PDBTitle: structure of eukaryotic translation termination complex2 methyltransferase mtq2-trm112 16 d2h00a1 10.6 38 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:Methyltransferase 10 domain 17 c2kw0A_ 10.5 21 PDB header:oxidoreductase Chain: A: PDB Molecule:ccmh protein; PDBTitle: solution structure of n-terminal domain of ccmh from escherichia.coli 18 c3k0bA_ 10.0 56 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:predicted n6-adenine-specific dna methylase; PDBTitle: crystal structure of a predicted n6-adenine-specific dna methylase2 from listeria monocytogenes str. 4b f2365 19 d1fexa_ 9.9 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 20 d1o9ga_ 9.4 22 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:rRNA methyltransferase AviRa 21 d1m15a1 not modelled 8.9 10 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 22 c3egiA_ not modelled 8.9 43 PDB header:transferase Chain: A: PDB Molecule:trimethylguanosine synthase homolog; PDBTitle: methyltransferase domain of human trimethylguanosine2 synthase tgs1 bound to m7gpppa (inactive form) 23 d1ws6a1 not modelled 8.6 71 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:YhhF-like 24 c2zixB_ not modelled 8.5 8 PDB header:hydrolase Chain: B: PDB Molecule:crossover junction endonuclease eme1; PDBTitle: crystal structure of the mus81-eme1 complex 25 d2gtaa1 not modelled 8.1 6 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:MazG-like 26 d1pn0a3 not modelled 7.9 26 Fold:FAD-linked reductases, C-terminal domain Superfamily:FAD-linked reductases, C-terminal domain Family:PHBH-like 27 d2okca1 not modelled 7.4 24 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:N-6 DNA Methylase-like 28 c3fbnC_ not modelled 7.3 17 PDB header:transcription Chain: C: PDB Molecule:mediator of rna polymerase ii transcription subunit 7; PDBTitle: structure of the mediator submodule med7n/31 29 d1qyra_ not modelled 7.2 29 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:rRNA adenine dimethylase-like 30 c1oftC_ not modelled 6.9 22 PDB header:bacterial cell division inhibitor Chain: C: PDB Molecule:hypothetical protein pa3008; PDBTitle: crystal structure of sula from pseudomonas aeruginosa 31 d1yf3a1 not modelled 6.8 14 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:N6 adenine-specific DNA methylase, DAM 32 d2nn6g3 not modelled 6.6 10 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 33 c3ldgA_ not modelled 6.5 56 PDB header:transferase Chain: A: PDB Molecule:putative uncharacterized protein smu.472; PDBTitle: crystal structure of smu.472, a putative methyltransferase complexed2 with sah 34 d2gtad1 not modelled 6.5 6 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:MazG-like 35 d2ar0a1 not modelled 6.4 36 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:N-6 DNA Methylase-like 36 c3lduA_ not modelled 6.4 56 PDB header:transferase Chain: A: PDB Molecule:putative methylase; PDBTitle: the crystal structure of a possible methylase from2 clostridium difficile 630. 37 d1yuba_ not modelled 6.2 14 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:rRNA adenine dimethylase-like 38 c3evzA_ not modelled 6.0 57 PDB header:transferase Chain: A: PDB Molecule:methyltransferase; PDBTitle: crystal strucure of methyltransferase from pyrococcus furiosus 39 d1tz7a1 not modelled 5.8 55 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Amylase, catalytic domain 40 d1r5qa_ not modelled 5.8 15 Fold:KaiA/RbsU domain Superfamily:KaiA/RbsU domain Family:Circadian clock protein KaiA, C-terminal domain 41 c2zxkB_ not modelled 5.6 11 PDB header:oxidoreductase Chain: B: PDB Molecule:red chlorophyll catabolite reductase, PDBTitle: crystal structure of semet-red chlorophyll catabolite2 reductase 42 c3grrA_ not modelled 5.3 26 PDB header:transferase Chain: A: PDB Molecule:dimethyladenosine transferase; PDBTitle: crystal structure of the complex between s-adenosyl homocysteine and2 methanocaldococcus jannaschi dim1. 43 c3fydA_ not modelled 5.3 26 PDB header:transferase Chain: A: PDB Molecule:probable dimethyladenosine transferase; PDBTitle: crystal structure of dim1 from the thermophilic archeon,2 methanocaldococcus jannaschi 44 d1eswa_ not modelled 5.3 55 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Amylase, catalytic domain 45 d1sdda2 not modelled 5.2 30 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins

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