Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	T	Q	L	D	P	T	Q	L	A	I	E	F	L	R	R	D	Q	S	N	L	S	P	A	Q	Y	L	K	R	L	K	Q	L	E	L	E	F	A	D	L	L	T	L	S	S	A	E	L	K	E	E	I	Y	F	A	W	R	L	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?											?		?		?	?	?																						?				?									?	?	?
Disorder confidence
		.	.
Sequence		V	H
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 2qx0 chain A Region: 19 - 38 Aligned: 20 Modelled: 20 Confidence: 28.5% Identity: 25% PDB header:transferase Chain: A: PDB Molecule:7,8-dihydro-6-hydroxymethylpterin- PDBTitle: crystal structure of yersinia pestis hppk (ternary complex) Phyre2 PDB 1f9y chain A Region: 19 - 38 Aligned: 20 Modelled: 20 Confidence: 28.1% Identity: 25% Fold: Ferredoxin-like Superfamily: 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK Family: 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK Phyre2 PDB 1cbk chain A Region: 19 - 38 Aligned: 20 Modelled: 20 Confidence: 24.3% Identity: 35% Fold: Ferredoxin-like Superfamily: 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK Family: 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK Phyre2 PDB 2qdm chain A Region: 7 - 41 Aligned: 35 Modelled: 35 Confidence: 18.7% Identity: 29% PDB header:hydrolase Chain: A: PDB Molecule:tyrosine-protein phosphatase non-receptor type 7; PDBTitle: crystal structure of the heptp catalytic domain c270s/d236a/q314a2 mutant Phyre2 PDB 3mcn chain A Region: 19 - 38 Aligned: 20 Modelled: 20 Confidence: 17.0% Identity: 40% PDB header:transferase Chain: A: PDB Molecule:2-amino-4-hydroxy-6-hydroxymethyldihydropteridine PDBTitle: crystal structure of the 6-hyroxymethyl-7,8-dihydropterin2 pyrophosphokinase dihydropteroate synthase bifunctional enzyme from3 francisella tularensis Phyre2 PDB 1onv chain B Region: 32 - 42 Aligned: 11 Modelled: 11 Confidence: 13.9% Identity: 55% PDB header:transcription Chain: B: PDB Molecule:serine phosphatase fcp1a; PDBTitle: nmr structure of a complex containing the tfiif subunit2 rap74 and the rnap ii ctd phosphatase fcp1 Phyre2 PDB 2cg8 chain B Region: 19 - 38 Aligned: 20 Modelled: 20 Confidence: 12.1% Identity: 25% PDB header:lyase/transferase Chain: B: PDB Molecule:dihydroneopterin aldolase 6-hydroxymethyl-7,8- PDBTitle: the bifunctional dihydroneopterin aldolase 6-hydroxymethyl-2 7,8-dihydropterin synthase from streptococcus pneumoniae Phyre2 PDB 1kdd chain C Region: 30 - 41 Aligned: 12 Modelled: 12 Confidence: 8.9% Identity: 50% PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l Phyre2 PDB 1kdd chain F Region: 30 - 41 Aligned: 12 Modelled: 12 Confidence: 8.7% Identity: 50% PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l Phyre2 PDB 1kdd chain A Region: 30 - 41 Aligned: 12 Modelled: 12 Confidence: 8.7% Identity: 50% PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l Phyre2 PDB 3igm chain A Region: 7 - 17 Aligned: 11 Modelled: 11 Confidence: 8.6% Identity: 27% PDB header:transcription/dna Chain: A: PDB Molecule:pf14_0633 protein; PDBTitle: a 2.2a crystal structure of the ap2 domain of pf14_0633 from p.2 falciparum, bound as a domain-swapped dimer to its cognate dna Phyre2 PDB 1kd9 chain F Region: 30 - 41 Aligned: 12 Modelled: 12 Confidence: 8.5% Identity: 50% PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l Phyre2 PDB 1kd9 chain A Region: 30 - 41 Aligned: 12 Modelled: 12 Confidence: 8.5% Identity: 50% PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l Phyre2 PDB 1kd9 chain C Region: 30 - 41 Aligned: 12 Modelled: 12 Confidence: 8.5% Identity: 50% PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l Phyre2 PDB 3kf8 chain D Region: 5 - 22 Aligned: 18 Modelled: 18 Confidence: 8.2% Identity: 33% PDB header:structural protein Chain: D: PDB Molecule:protein ten1; PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex Phyre2 PDB 2bmb chain A Region: 19 - 38 Aligned: 20 Modelled: 20 Confidence: 7.7% Identity: 35% PDB header:transferase Chain: A: PDB Molecule:folic acid synthesis protein fol1; PDBTitle: x-ray structure of the bifunctional 6-hydroxymethyl-7,8-2 dihydroxypterin pyrophosphokinase dihydropteroate synthase3 from saccharomyces cerevisiae Phyre2 PDB 2v4x chain A Region: 22 - 29 Aligned: 8 Modelled: 8 Confidence: 6.8% Identity: 50% PDB header:viral protein Chain: A: PDB Molecule:capsid protein p27; PDBTitle: crystal structure of jaagsiekte sheep retrovirus capsid n-2 terminal domain Phyre2 PDB 2pa2 chain A domain 1 Region: 1 - 26 Aligned: 26 Modelled: 26 Confidence: 6.7% Identity: 31% Fold: alpha/beta-Hammerhead Superfamily: Ribosomal protein L16p/L10e Family: Ribosomal protein L10e Phyre2 PDB 1b8i chain A Region: 14 - 57 Aligned: 40 Modelled: 44 Confidence: 6.6% Identity: 25% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 3pn1 chain A Region: 8 - 46 Aligned: 39 Modelled: 39 Confidence: 5.9% Identity: 33% PDB header:ligase/ligase inhibitor Chain: A: PDB Molecule:dna ligase; PDBTitle: novel bacterial nad+-dependent dna ligase inhibitors with broad2 spectrum potency and antibacterial efficacy in vivo Phyre2 1 c2qx0A_ 2 d1f9ya_ 3 d1cbka_ 4 c2qdmA_ 5 c3mcnA_ 6 c1onvB_ 7 c2cg8B_ 8 c1kddC_ 9 c1kddF_ 10 c1kddA_ 11 c3igmA_ 12 c1kd9F_ 13 c1kd9A_ 14 c1kd9C_ 15 c3kf8D_ 16 c2bmbA_ 17 c2v4xA_ 18 d2pa2a1 19 d1b8ia_ 20 c3pn1A_ 21 22 23 24 25 26 27 28 29 30

Detailed template information

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

1 c2qx0A_ 28.5 25 PDB header:transferase Chain: A: PDB Molecule:7,8-dihydro-6-hydroxymethylpterin- PDBTitle: crystal structure of yersinia pestis hppk (ternary complex) 2 d1f9ya_ 28.1 25 Fold:Ferredoxin-like Superfamily:6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK Family:6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK 3 d1cbka_ 24.3 35 Fold:Ferredoxin-like Superfamily:6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK Family:6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK 4 c2qdmA_ 18.7 29 PDB header:hydrolase Chain: A: PDB Molecule:tyrosine-protein phosphatase non-receptor type 7; PDBTitle: crystal structure of the heptp catalytic domain c270s/d236a/q314a2 mutant 5 c3mcnA_ 17.0 40 PDB header:transferase Chain: A: PDB Molecule:2-amino-4-hydroxy-6-hydroxymethyldihydropteridine PDBTitle: crystal structure of the 6-hyroxymethyl-7,8-dihydropterin2 pyrophosphokinase dihydropteroate synthase bifunctional enzyme from3 francisella tularensis 6 c1onvB_ 13.9 55 PDB header:transcription Chain: B: PDB Molecule:serine phosphatase fcp1a; PDBTitle: nmr structure of a complex containing the tfiif subunit2 rap74 and the rnap ii ctd phosphatase fcp1 7 c2cg8B_ 12.1 25 PDB header:lyase/transferase Chain: B: PDB Molecule:dihydroneopterin aldolase 6-hydroxymethyl-7,8- PDBTitle: the bifunctional dihydroneopterin aldolase 6-hydroxymethyl-2 7,8-dihydropterin synthase from streptococcus pneumoniae 8 c1kddC_ 8.9 50 PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l 9 c1kddF_ 8.7 50 PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l 10 c1kddA_ 8.7 50 PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l 11 c3igmA_ 8.6 27 PDB header:transcription/dna Chain: A: PDB Molecule:pf14_0633 protein; PDBTitle: a 2.2a crystal structure of the ap2 domain of pf14_0633 from p.2 falciparum, bound as a domain-swapped dimer to its cognate dna 12 c1kd9F_ 8.5 50 PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l 13 c1kd9A_ 8.5 50 PDB header:de novo protein Chain: A: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l 14 c1kd9C_ 8.5 50 PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16l; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16l base-d12la16l 15 c3kf8D_ 8.2 33 PDB header:structural protein Chain: D: PDB Molecule:protein ten1; PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex 16 c2bmbA_ 7.7 35 PDB header:transferase Chain: A: PDB Molecule:folic acid synthesis protein fol1; PDBTitle: x-ray structure of the bifunctional 6-hydroxymethyl-7,8-2 dihydroxypterin pyrophosphokinase dihydropteroate synthase3 from saccharomyces cerevisiae 17 c2v4xA_ 6.8 50 PDB header:viral protein Chain: A: PDB Molecule:capsid protein p27; PDBTitle: crystal structure of jaagsiekte sheep retrovirus capsid n-2 terminal domain 18 d2pa2a1 6.7 31 Fold:alpha/beta-Hammerhead Superfamily:Ribosomal protein L16p/L10e Family:Ribosomal protein L10e 19 d1b8ia_ 6.6 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 20 c3pn1A_ 5.9 33 PDB header:ligase/ligase inhibitor Chain: A: PDB Molecule:dna ligase; PDBTitle: novel bacterial nad+-dependent dna ligase inhibitors with broad2 spectrum potency and antibacterial efficacy in vivo 21 c2kgfA_ not modelled 5.7 38 PDB header:viral protein Chain: A: PDB Molecule:capsid protein p27; PDBTitle: n-terminal domain of capsid protein from the mason-pfizer2 monkey virus 22 d1d1da2 not modelled 5.5 50 Fold:Retrovirus capsid protein, N-terminal core domain Superfamily:Retrovirus capsid protein, N-terminal core domain Family:Retrovirus capsid protein, N-terminal core domain 23 c1zuoA_ not modelled 5.5 17 PDB header:ligase Chain: A: PDB Molecule:hypothetical protein loc92912; PDBTitle: structure of human ubiquitin-conjugating enzyme (ubci)2 involved in embryo attachment and implantation 24 d1zuoa1 not modelled 5.5 17 Fold:UBC-like Superfamily:UBC-like Family:UBC-related 25 c2q97T_ not modelled 5.3 53 PDB header:structural protein/cell invasion Chain: T: PDB Molecule:toxofilin; PDBTitle: complex of mammalian actin with toxofilin from toxoplasma gondii 26 d1em9a_ not modelled 5.2 50 Fold:Retrovirus capsid protein, N-terminal core domain Superfamily:Retrovirus capsid protein, N-terminal core domain Family:Retrovirus capsid protein, N-terminal core domain 27 d1b04a_ not modelled 5.2 22 Fold:ATP-grasp Superfamily:DNA ligase/mRNA capping enzyme, catalytic domain Family:Adenylation domain of NAD+-dependent DNA ligase 28 c1xdtT_ not modelled 5.2 33 PDB header:complex (toxin/growth factor) Chain: T: PDB Molecule:diphtheria toxin; PDBTitle: complex of diphtheria toxin and heparin-binding epidermal growth2 factor 29 d1ta8a_ not modelled 5.1 36 Fold:ATP-grasp Superfamily:DNA ligase/mRNA capping enzyme, catalytic domain Family:Adenylation domain of NAD+-dependent DNA ligase 30 c1kd8F_ not modelled 5.0 42 PDB header:de novo protein Chain: F: PDB Molecule:gcn4 acid base heterodimer acid-d12ia16v; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12ia16v base-d12la16l

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