Secondary structure and disorder prediction

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Sequence		M	S	E	K	P	L	T	K	T	D	Y	L	M	R	L	R	R	C	Q	T	I	D	T	L	E	R	V	I	E	K	N	K	Y	E	L	S	D	N	E	L	A	V	F	Y	S	A	A	D	H	R	L	A	E	L	T	M	N	K	L	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.
Sequence		D	K	I	P	S	S	V	W	K	F	I	R
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 1jw2 chain A Region: 1 - 72 Aligned: 72 Modelled: 72 Confidence: 100.0% Identity: 100% Fold: Open three-helical up-and-down bundle Superfamily: Hemolysin expression modulating protein HHA Family: Hemolysin expression modulating protein HHA Phyre2 PDB 2jqt chain A Region: 6 - 60 Aligned: 55 Modelled: 55 Confidence: 99.6% Identity: 40% PDB header:protein binding Chain: A: PDB Molecule:h-ns/stpa-binding protein 2; PDBTitle: structure of the bacterial replication origin-associated2 protein cnu Phyre2 PDB 1t1u chain A domain 1 Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 25.8% Identity: 7% Fold: CoA-dependent acyltransferases Superfamily: CoA-dependent acyltransferases Family: Choline/Carnitine O-acyltransferase Phyre2 PDB 1xl7 chain A domain 1 Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 25.3% Identity: 14% Fold: CoA-dependent acyltransferases Superfamily: CoA-dependent acyltransferases Family: Choline/Carnitine O-acyltransferase Phyre2 PDB 2jpn chain A Region: 10 - 54 Aligned: 45 Modelled: 45 Confidence: 25.0% Identity: 27% PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent dna helicase uvsw; PDBTitle: solution structure of t4 bacteriophage helicase uvsw.1 Phyre2 PDB 1trr chain A Region: 9 - 63 Aligned: 55 Modelled: 55 Confidence: 22.8% Identity: 7% Fold: DNA/RNA-binding 3-helical bundle Superfamily: TrpR-like Family: Trp repressor, TrpR Phyre2 PDB 1nm8 chain A domain 1 Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 21.7% Identity: 18% Fold: CoA-dependent acyltransferases Superfamily: CoA-dependent acyltransferases Family: Choline/Carnitine O-acyltransferase Phyre2 PDB 2fyo chain A Region: 21 - 48 Aligned: 28 Modelled: 25 Confidence: 20.8% Identity: 21% PDB header:transferase Chain: A: PDB Molecule:carnitine o-palmitoyltransferase ii, PDBTitle: crystal structure of rat carnitine palmitoyltransferase 22 in space group p43212 Phyre2 PDB 1ndb chain A domain 1 Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 18.3% Identity: 18% Fold: CoA-dependent acyltransferases Superfamily: CoA-dependent acyltransferases Family: Choline/Carnitine O-acyltransferase Phyre2 PDB 1q6x chain A Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 17.9% Identity: 7% PDB header:transferase Chain: A: PDB Molecule:choline o-acetyltransferase; PDBTitle: crystal structure of rat choline acetyltransferase Phyre2 PDB 1jhg chain A Region: 5 - 63 Aligned: 59 Modelled: 59 Confidence: 17.9% Identity: 7% Fold: DNA/RNA-binding 3-helical bundle Superfamily: TrpR-like Family: Trp repressor, TrpR Phyre2 PDB 2h4t chain B Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 16.6% Identity: 21% PDB header:transferase Chain: B: PDB Molecule:carnitine o-palmitoyltransferase ii, PDBTitle: crystal structure of rat carnitine palmitoyltransferase ii Phyre2 PDB 3cm8 chain A Region: 8 - 30 Aligned: 23 Modelled: 23 Confidence: 15.4% Identity: 39% PDB header:rna binding protein/transferase Chain: A: PDB Molecule:polymerase acidic protein; PDBTitle: a rna polymerase subunit structure from virus Phyre2 PDB 1xl8 chain B Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 15.4% Identity: 14% PDB header:transferase Chain: B: PDB Molecule:peroxisomal carnitine o-octanoyltransferase; PDBTitle: crystal structure of mouse carnitine octanoyltransferase in2 complex with octanoylcarnitine Phyre2 PDB 1i27 chain A Region: 4 - 31 Aligned: 28 Modelled: 28 Confidence: 14.0% Identity: 25% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal domain of the rap74 subunit of TFIIF Phyre2 PDB 1ej2 chain A Region: 45 - 72 Aligned: 28 Modelled: 28 Confidence: 13.7% Identity: 25% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Nucleotidylyl transferase Family: Adenylyltransferase Phyre2 PDB 1t7q chain A Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 13.6% Identity: 18% PDB header:transferase Chain: A: PDB Molecule:carnitine acetyltransferase; PDBTitle: crystal structure of the f565a mutant of murine carnitine2 acetyltransferase in complex with carnitine and coa Phyre2 PDB 2bsz chain A domain 1 Region: 5 - 63 Aligned: 55 Modelled: 59 Confidence: 13.2% Identity: 27% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Arylamine N-acetyltransferase Phyre2 PDB 2fy2 chain A Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 12.8% Identity: 11% PDB header:transferase Chain: A: PDB Molecule:choline o-acetyltransferase; PDBTitle: structures of ligand bound human choline acetyltransferase2 provide insight into regulation of acetylcholine synthesis Phyre2 PDB 3s6n chain 2 Region: 5 - 17 Aligned: 13 Modelled: 13 Confidence: 12.3% Identity: 31% PDB header:splicing Chain: 2: PDB Molecule:survival of motor neuron protein-interacting protein 1; PDB Fragment:gemin2-binding domain; PDBTitle: crystal structure of the gemin2-binding domain of smn, gemin2 in2 complex with smd1/d2/f/e/g from human Phyre2 1 d1jw2a_ 2 c2jqtA_ 3 d1t1ua1 4 d1xl7a1 5 c2jpnA_ 6 d1trra_ 7 d1nm8a1 8 c2fyoA_ 9 d1ndba1 10 c1q6xA_ 11 d1jhga_ 12 c2h4tB_ 13 c3cm8A_ 14 c1xl8B_ 15 d1i27a_ 16 d1ej2a_ 17 c1t7qA_ 18 d2bsza1 19 c2fy2A_ 20 c3s6n2_ 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 56 57 58 59 60 61 62

Detailed template information

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

1 d1jw2a_ 100.0 100 Fold:Open three-helical up-and-down bundle Superfamily:Hemolysin expression modulating protein HHA Family:Hemolysin expression modulating protein HHA 2 c2jqtA_ 99.6 40 PDB header:protein binding Chain: A: PDB Molecule:h-ns/stpa-binding protein 2; PDBTitle: structure of the bacterial replication origin-associated2 protein cnu 3 d1t1ua1 25.8 7 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:Choline/Carnitine O-acyltransferase 4 d1xl7a1 25.3 14 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:Choline/Carnitine O-acyltransferase 5 c2jpnA_ 25.0 27 PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent dna helicase uvsw; PDBTitle: solution structure of t4 bacteriophage helicase uvsw.1 6 d1trra_ 22.8 7 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 7 d1nm8a1 21.7 18 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:Choline/Carnitine O-acyltransferase 8 c2fyoA_ 20.8 21 PDB header:transferase Chain: A: PDB Molecule:carnitine o-palmitoyltransferase ii, PDBTitle: crystal structure of rat carnitine palmitoyltransferase 22 in space group p43212 9 d1ndba1 18.3 18 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:Choline/Carnitine O-acyltransferase 10 c1q6xA_ 17.9 7 PDB header:transferase Chain: A: PDB Molecule:choline o-acetyltransferase; PDBTitle: crystal structure of rat choline acetyltransferase 11 d1jhga_ 17.9 7 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 12 c2h4tB_ 16.6 21 PDB header:transferase Chain: B: PDB Molecule:carnitine o-palmitoyltransferase ii, PDBTitle: crystal structure of rat carnitine palmitoyltransferase ii 13 c3cm8A_ 15.4 39 PDB header:rna binding protein/transferase Chain: A: PDB Molecule:polymerase acidic protein; PDBTitle: a rna polymerase subunit structure from virus 14 c1xl8B_ 15.4 14 PDB header:transferase Chain: B: PDB Molecule:peroxisomal carnitine o-octanoyltransferase; PDBTitle: crystal structure of mouse carnitine octanoyltransferase in2 complex with octanoylcarnitine 15 d1i27a_ 14.0 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of the rap74 subunit of TFIIF 16 d1ej2a_ 13.7 25 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 17 c1t7qA_ 13.6 18 PDB header:transferase Chain: A: PDB Molecule:carnitine acetyltransferase; PDBTitle: crystal structure of the f565a mutant of murine carnitine2 acetyltransferase in complex with carnitine and coa 18 d2bsza1 13.2 27 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Arylamine N-acetyltransferase 19 c2fy2A_ 12.8 11 PDB header:transferase Chain: A: PDB Molecule:choline o-acetyltransferase; PDBTitle: structures of ligand bound human choline acetyltransferase2 provide insight into regulation of acetylcholine synthesis 20 c3s6n2_ 12.3 31 PDB header:splicing Chain: 2: PDB Molecule:survival of motor neuron protein-interacting protein 1; PDB Fragment:gemin2-binding domain; PDBTitle: crystal structure of the gemin2-binding domain of smn, gemin2 in2 complex with smd1/d2/f/e/g from human 21 c3nd5D_ not modelled 12.1 11 PDB header:transferase Chain: D: PDB Molecule:phosphopantetheine adenylyltransferase; PDBTitle: crystal structure of phosphopantetheine adenylyltransferase (ppat)2 from enterococcus faecalis 22 d2oa4a1 not modelled 11.6 41 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:SPO1678-like 23 c3htxA_ not modelled 11.4 22 PDB header:transferase/rna Chain: A: PDB Molecule:hen1; PDBTitle: crystal structure of small rna methyltransferase hen1 24 d1vlha_ not modelled 11.1 14 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 25 c3frwF_ not modelled 10.8 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 26 d1tfua_ not modelled 10.3 14 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 27 d1od6a_ not modelled 9.7 7 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 28 c3h0gP_ not modelled 9.7 14 PDB header:transcription Chain: P: PDB Molecule:dna-directed rna polymerase ii subunit rpb4; PDBTitle: rna polymerase ii from schizosaccharomyces pombe 29 c2rbgB_ not modelled 9.5 23 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative uncharacterized protein st0493; PDBTitle: crystal structure of hypothetical protein(st0493) from2 sulfolobus tokodaii 30 d1t07a_ not modelled 9.3 14 Fold:YggX-like Superfamily:YggX-like Family:YggX-like 31 d1ckma1 not modelled 9.3 16 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:DNA ligase/mRNA capping enzyme postcatalytic domain 32 c2l3lA_ not modelled 8.7 20 PDB header:chaperone Chain: A: PDB Molecule:tubulin-specific chaperone c; PDBTitle: the solution structure of the n-terminal domain of human tubulin2 binding cofactor c reveals a platform for the interaction with ab-3 tubulin 33 d1qjca_ not modelled 8.6 11 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 34 c2l5aA_ not modelled 8.2 40 PDB header:nuclear protein Chain: A: PDB Molecule:histone h3-like centromeric protein cse4, protein scm3, PDBTitle: structural basis for recognition of centromere specific histone h32 variant by nonhistone scm3 35 c3f3mA_ not modelled 8.1 14 PDB header:transferase Chain: A: PDB Molecule:phosphopantetheine adenylyltransferase; PDBTitle: six crystal structures of two phosphopantetheine2 adenylyltransferases reveal an alternative ligand binding3 mode and an associated structural change 36 d1kq8a_ not modelled 8.0 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Forkhead DNA-binding domain 37 c1kq8A_ not modelled 8.0 20 PDB header:transcription Chain: A: PDB Molecule:hepatocyte nuclear factor 3 forkhead homolog 1; PDBTitle: solution structure of winged helix protein hfh-1 38 d1kama_ not modelled 7.5 21 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 39 d1o6ba_ not modelled 7.5 11 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Adenylyltransferase 40 c2gutA_ not modelled 7.5 33 PDB header:transcription Chain: A: PDB Molecule:arc/mediator, positive cofactor 2 glutamine/q- PDBTitle: solution structure of the trans-activation domain of the2 human co-activator arc105 41 c3kevA_ not modelled 7.4 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:galieria sulfuraria dcun1 domain-containing protein; PDBTitle: x-ray crystal structure of a dcun1 domain-containing protein from2 galdieria sulfuraria 42 c3ocfB_ not modelled 7.1 19 PDB header:lyase Chain: B: PDB Molecule:fumarate lyase:delta crystallin; PDBTitle: crystal structure of fumarate lyase:delta crystallin from brucella2 melitensis in native form 43 d1xs8a_ not modelled 7.0 21 Fold:YggX-like Superfamily:YggX-like Family:YggX-like 44 c3krbB_ not modelled 6.4 17 PDB header:oxidoreductase Chain: B: PDB Molecule:aldose reductase; PDBTitle: structure of aldose reductase from giardia lamblia at 1.75a resolution 45 d1xsza1 not modelled 6.4 19 Fold:alpha-alpha superhelix Superfamily:Sec7 domain Family:Sec7 domain 46 c2jrtA_ not modelled 6.2 41 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: nmr solution structure of the protein coded by gene2 rhos4_12090 of rhodobacter sphaeroides. northeast3 structural genomics target rhr5 47 d1re0b_ not modelled 6.0 28 Fold:alpha-alpha superhelix Superfamily:Sec7 domain Family:Sec7 domain 48 c1plpA_ not modelled 6.0 47 PDB header:membrane protein Chain: A: PDB Molecule:phospholamban; PDBTitle: solution structure of the cytoplasmic domain of2 phospholamban 49 d1ku1a_ not modelled 5.8 24 Fold:alpha-alpha superhelix Superfamily:Sec7 domain Family:Sec7 domain 50 c3lyvF_ not modelled 5.8 13 PDB header:chaperone Chain: F: PDB Molecule:ribosome-associated factor y; PDBTitle: crystal structure of a domain of ribosome-associated factor y from2 streptococcus pyogenes serotype m6. northeast structural genomics3 consortium target id dr64a 51 d1wpga4 not modelled 5.7 17 Fold:Calcium ATPase, transmembrane domain M Superfamily:Calcium ATPase, transmembrane domain M Family:Calcium ATPase, transmembrane domain M 52 c2jvnA_ not modelled 5.6 23 PDB header:transferase Chain: A: PDB Molecule:poly [adp-ribose] polymerase 1; PDBTitle: domain c of human parp-1 53 d1ppjj_ not modelled 5.5 26 Fold:Single transmembrane helix Superfamily:Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 54 d1rj9a1 not modelled 5.4 26 Fold:Four-helical up-and-down bundle Superfamily:Domain of the SRP/SRP receptor G-proteins Family:Domain of the SRP/SRP receptor G-proteins 55 c1wwuA_ not modelled 5.4 12 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein flj21935; PDBTitle: solution structure of the sam_pnt domain of human protein2 flj21935 56 d2r09a1 not modelled 5.4 19 Fold:alpha-alpha superhelix Superfamily:Sec7 domain Family:Sec7 domain 57 d1ud0a_ not modelled 5.3 18 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Heat shock protein 70kD (HSP70), C-terminal subdomain Family:Heat shock protein 70kD (HSP70), C-terminal subdomain 58 d1r8se_ not modelled 5.3 7 Fold:alpha-alpha superhelix Superfamily:Sec7 domain Family:Sec7 domain 59 c3d9wA_ not modelled 5.1 25 PDB header:transferase Chain: A: PDB Molecule:putative acetyltransferase; PDBTitle: crystal structure analysis of nocardia farcinica arylamine2 n-acetyltransferase 60 d1ppjw_ not modelled 5.1 26 Fold:Single transmembrane helix Superfamily:Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 61 d1jyoe_ not modelled 5.1 20 Fold:Non-globular alpha+beta subunits of globular proteins Superfamily:Non-globular alpha+beta subunits of globular proteins Family:Virulence effector SptP domain 62 d1uhra_ not modelled 5.0 27 Fold:SWIB/MDM2 domain Superfamily:SWIB/MDM2 domain Family:SWIB/MDM2 domain

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