Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	K	Q	A	E	L	Y	R	G	K	A	K	T	V	Y	S	T	E	N	P	D	L	L	V	L	E	F	R	N	D	T	S	A	G	D	G	A	R	I	E	Q	F	D	R	K	G	M	V	N	N	K	F	N	Y	F	I	M	S	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	A	E	A	G	I	P	T	Q	M	E	R	L	L	S	D	T	E	C	L	V	K	K	L	D	M	V	P	V	E	C	V	V	R	N	R	A	A	G	S	L	V	K	R	L	G	I	E	E	G	I	E	L	N	P	P	L	F	D	L
Secondary structure
SS confidence
Disorder																																																		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	L	K	N	D	A	M	H	D	P	M	V	N	E	S	Y	C	E	T	F	G	W	V	S	K	E	N	L	A	R	M	K	E	L	T	Y	K	A	N	D	V	L	K	K	L	F	D	D	A	G	L	I	L	V	D	F	K	L	E	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.
Sequence		G	L	Y	K	G	E	V	V	L	G	D	E	F	S	P	D	G	S	R	L	W	D	K	E	T	L	E	K	M	D	K	D	R	F	R	Q	S	L	G	G	L	I	E	A	Y	E	A	V	A	R	R	L	G	V	Q	L	D
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 2gqs chain A Region: 1 - 237 Aligned: 237 Modelled: 237 Confidence: 100.0% Identity: 100% PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: saicar synthetase complexed with cair-mg2+ and adp Phyre2 PDB 2z02 chain A Region: 1 - 235 Aligned: 234 Modelled: 235 Confidence: 100.0% Identity: 43% PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: crystal structure of2 phosphoribosylaminoimidazolesuccinocarboxamide synthase3 wit atp from methanocaldococcus jannaschii Phyre2 PDB 3kre chain A Region: 5 - 234 Aligned: 230 Modelled: 230 Confidence: 100.0% Identity: 41% PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from ehrlichia chaffeensis at 1.8a resolution Phyre2 PDB 3nua chain B Region: 1 - 233 Aligned: 233 Modelled: 233 Confidence: 100.0% Identity: 42% PDB header:ligase Chain: B: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from clostridium perfringens Phyre2 PDB 2ywv chain B Region: 2 - 233 Aligned: 232 Modelled: 232 Confidence: 100.0% Identity: 44% PDB header:ligase Chain: B: PDB Molecule:phosphoribosylaminoimidazole succinocarboxamide synthetase; PDBTitle: crystal structure of saicar synthetase from geobacillus kaustophilus Phyre2 PDB 2cnq chain A domain 1 Region: 4 - 232 Aligned: 223 Modelled: 229 Confidence: 100.0% Identity: 30% Fold: SAICAR synthase-like Superfamily: SAICAR synthase-like Family: SAICAR synthase Phyre2 PDB 3r9r chain A Region: 1 - 232 Aligned: 227 Modelled: 232 Confidence: 100.0% Identity: 30% PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: structure of a phosphoribosylaminoimidazole-succinocarboxamide2 synthase from mycobacterium abscessus atcc 19977 / dsm 44196 Phyre2 PDB 1kut chain A Region: 12 - 232 Aligned: 206 Modelled: 221 Confidence: 100.0% Identity: 39% Fold: SAICAR synthase-like Superfamily: SAICAR synthase-like Family: SAICAR synthase Phyre2 PDB 2h31 chain A Region: 1 - 232 Aligned: 208 Modelled: 232 Confidence: 100.0% Identity: 32% PDB header:ligase, lyase Chain: A: PDB Molecule:multifunctional protein ade2; PDBTitle: crystal structure of human paics, a bifunctional carboxylase and2 synthetase in purine biosynthesis Phyre2 PDB 1zp9 chain A Region: 151 - 226 Aligned: 69 Modelled: 76 Confidence: 57.1% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:rio1 kinase; PDBTitle: crystal structure of full-legnth a.fulgidus rio1 serine kinase bound2 to atp and mn2+ ions. Phyre2 PDB 2h3k chain A domain 1 Region: 69 - 122 Aligned: 50 Modelled: 54 Confidence: 36.5% Identity: 14% Fold: Immunoglobulin-like beta-sandwich Superfamily: NEAT domain-like Family: NEAT domain Phyre2 PDB 3nj2 chain B Region: 132 - 230 Aligned: 95 Modelled: 99 Confidence: 33.8% Identity: 16% PDB header:unknown function Chain: B: PDB Molecule:duf269-containing protein; PDBTitle: crystal structure of cce_0566 from the cyanobacterium cyanothece2 51142, a protein associated with nitrogen fixation from the duf2693 family Phyre2 PDB 1kjq chain A domain 3 Region: 143 - 195 Aligned: 44 Modelled: 53 Confidence: 19.8% Identity: 34% Fold: ATP-grasp Superfamily: Glutathione synthetase ATP-binding domain-like Family: BC ATP-binding domain-like Phyre2 PDB 2a5z chain A domain 1 Region: 89 - 130 Aligned: 42 Modelled: 42 Confidence: 18.7% Identity: 12% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: SO2946-like Phyre2 PDB 1i4y chain A Region: 110 - 168 Aligned: 57 Modelled: 59 Confidence: 18.4% Identity: 9% Fold: Four-helical up-and-down bundle Superfamily: Hemerythrin-like Family: Hemerythrin-like Phyre2 PDB 3g7p chain A Region: 132 - 230 Aligned: 95 Modelled: 99 Confidence: 17.5% Identity: 18% PDB header:unknown function Chain: A: PDB Molecule:nitrogen fixation protein; PDBTitle: crystal structure of a nifx-associated protein of unknown function2 (afe_1514) from acidithiobacillus ferrooxidans atcc at 2.00 a3 resolution Phyre2 PDB 2pvp chain B Region: 143 - 195 Aligned: 44 Modelled: 53 Confidence: 16.8% Identity: 34% PDB header:ligase Chain: B: PDB Molecule:d-alanine-d-alanine ligase; PDBTitle: crystal structure of d-alanine-d-alanine ligase from helicobacter2 pylori Phyre2 PDB 1pmi chain A Region: 85 - 104 Aligned: 20 Modelled: 20 Confidence: 15.3% Identity: 15% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: Type I phosphomannose isomerase Phyre2 PDB 3lzc chain A Region: 37 - 121 Aligned: 75 Modelled: 85 Confidence: 14.1% Identity: 15% PDB header:biosynthetic protein Chain: A: PDB Molecule:dph2; PDBTitle: crystal structure of dph2 from pyrococcus horikoshii Phyre2 PDB 2auw chain B Region: 191 - 234 Aligned: 44 Modelled: 44 Confidence: 12.7% Identity: 23% PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 Phyre2 1 c2gqsA_ 2 c2z02A_ 3 c3kreA_ 4 c3nuaB_ 5 c2ywvB_ 6 d2cnqa1 7 c3r9rA_ 8 d1kuta_ 9 c2h31A_ 10 c1zp9A_ 11 d2h3ka1 12 c3nj2B_ 13 d1kjqa3 14 d2a5za1 15 d1i4ya_ 16 c3g7pA_ 17 c2pvpB_ 18 d1pmia_ 19 c3lzcA_ 20 c2auwB_ 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

Detailed template information

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

1 c2gqsA_ 100.0 100 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: saicar synthetase complexed with cair-mg2+ and adp 2 c2z02A_ 100.0 43 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: crystal structure of2 phosphoribosylaminoimidazolesuccinocarboxamide synthase3 wit atp from methanocaldococcus jannaschii 3 c3kreA_ 100.0 41 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from ehrlichia chaffeensis at 1.8a resolution 4 c3nuaB_ 100.0 42 PDB header:ligase Chain: B: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from clostridium perfringens 5 c2ywvB_ 100.0 44 PDB header:ligase Chain: B: PDB Molecule:phosphoribosylaminoimidazole succinocarboxamide synthetase; PDBTitle: crystal structure of saicar synthetase from geobacillus kaustophilus 6 d2cnqa1 100.0 30 Fold:SAICAR synthase-like Superfamily:SAICAR synthase-like Family:SAICAR synthase 7 c3r9rA_ 100.0 30 PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: structure of a phosphoribosylaminoimidazole-succinocarboxamide2 synthase from mycobacterium abscessus atcc 19977 / dsm 44196 8 d1kuta_ 100.0 39 Fold:SAICAR synthase-like Superfamily:SAICAR synthase-like Family:SAICAR synthase 9 c2h31A_ 100.0 32 PDB header:ligase, lyase Chain: A: PDB Molecule:multifunctional protein ade2; PDBTitle: crystal structure of human paics, a bifunctional carboxylase and2 synthetase in purine biosynthesis 10 c1zp9A_ 57.1 14 PDB header:transferase Chain: A: PDB Molecule:rio1 kinase; PDBTitle: crystal structure of full-legnth a.fulgidus rio1 serine kinase bound2 to atp and mn2+ ions. 11 d2h3ka1 36.5 14 Fold:Immunoglobulin-like beta-sandwich Superfamily:NEAT domain-like Family:NEAT domain 12 c3nj2B_ 33.8 16 PDB header:unknown function Chain: B: PDB Molecule:duf269-containing protein; PDBTitle: crystal structure of cce_0566 from the cyanobacterium cyanothece2 51142, a protein associated with nitrogen fixation from the duf2693 family 13 d1kjqa3 19.8 34 Fold:ATP-grasp Superfamily:Glutathione synthetase ATP-binding domain-like Family:BC ATP-binding domain-like 14 d2a5za1 18.7 12 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:SO2946-like 15 d1i4ya_ 18.4 9 Fold:Four-helical up-and-down bundle Superfamily:Hemerythrin-like Family:Hemerythrin-like 16 c3g7pA_ 17.5 18 PDB header:unknown function Chain: A: PDB Molecule:nitrogen fixation protein; PDBTitle: crystal structure of a nifx-associated protein of unknown function2 (afe_1514) from acidithiobacillus ferrooxidans atcc at 2.00 a3 resolution 17 c2pvpB_ 16.8 34 PDB header:ligase Chain: B: PDB Molecule:d-alanine-d-alanine ligase; PDBTitle: crystal structure of d-alanine-d-alanine ligase from helicobacter2 pylori 18 d1pmia_ 15.3 15 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Type I phosphomannose isomerase 19 c3lzcA_ 14.1 15 PDB header:biosynthetic protein Chain: A: PDB Molecule:dph2; PDBTitle: crystal structure of dph2 from pyrococcus horikoshii 20 c2auwB_ 12.7 23 PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 21 c3h1yA_ not modelled 11.7 35 PDB header:isomerase Chain: A: PDB Molecule:mannose-6-phosphate isomerase; PDBTitle: crystal structure of mannose 6-phosphate isomerase from2 salmonella typhimurium bound to substrate (f6p)and metal3 atom (zn) 22 d1hrba_ not modelled 11.4 9 Fold:Four-helical up-and-down bundle Superfamily:Hemerythrin-like Family:Hemerythrin-like 23 c3cegA_ not modelled 11.0 13 PDB header:ligase Chain: A: PDB Molecule:baculoviral iap repeat-containing protein 6; PDBTitle: crystal structure of the ubc domain of baculoviral iap2 repeat-containing protein 6 24 c3eplA_ not modelled 10.6 24 PDB header:transferase/rna Chain: A: PDB Molecule:trna isopentenyltransferase; PDBTitle: crystallographic snapshots of eukaryotic2 dimethylallyltransferase acting on trna: insight into trna3 recognition and reaction mechanism 25 c3s6bA_ not modelled 10.5 7 PDB header:hydrolase Chain: A: PDB Molecule:methionine aminopeptidase; PDBTitle: crystal structure of methionine aminopeptidase 1b from plasmodium2 falciparum, pf10_0150 26 c1tqmA_ not modelled 10.3 13 PDB header:ribosome Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of a. fulgidus rio2 serine protein kinase bound to2 amppnp 27 c3exaD_ not modelled 9.6 18 PDB header:transferase Chain: D: PDB Molecule:trna delta(2)-isopentenylpyrophosphate PDBTitle: crystal structure of the full-length trna2 isopentenylpyrophosphate transferase (bh2366) from3 bacillus halodurans, northeast structural genomics4 consortium target bhr41. 28 c3r23B_ not modelled 9.5 20 PDB header:ligase Chain: B: PDB Molecule:d-alanine--d-alanine ligase; PDBTitle: crystal structure of d-alanine--d-alanine ligase from bacillus2 anthracis 29 d1zara2 not modelled 9.5 15 Fold:Protein kinase-like (PK-like) Superfamily:Protein kinase-like (PK-like) Family:RIO1-like kinases 30 c3idwA_ not modelled 9.4 6 PDB header:endocytosis Chain: A: PDB Molecule:actin cytoskeleton-regulatory complex protein sla1; PDBTitle: crystal structure of sla1 homology domain 2 31 c2vd2A_ not modelled 8.8 16 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: the crystal structure of hisg from b. subtilis 32 c2qeaB_ not modelled 8.3 24 PDB header:oxidoreductase Chain: B: PDB Molecule:putative general stress protein 26; PDBTitle: crystal structure of a putative general stress protein 26 (jann_0955)2 from jannaschia sp. ccs1 at 2.46 a resolution 33 c1ylaB_ not modelled 8.3 18 PDB header:ligase Chain: B: PDB Molecule:ubiquitin-conjugating enzyme e2-25 kda; PDBTitle: ubiquitin-conjugating enzyme e2-25 kda (huntington interacting protein2 2) 34 d2hq7a1 not modelled 8.3 7 Fold:Split barrel-like Superfamily:FMN-binding split barrel Family:PNP-oxidase like 35 d1a62a2 not modelled 8.2 18 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 36 c3a8tA_ not modelled 8.1 13 PDB header:transferase Chain: A: PDB Molecule:adenylate isopentenyltransferase; PDBTitle: plant adenylate isopentenyltransferase in complex with atp 37 c3d3qB_ not modelled 7.8 24 PDB header:transferase Chain: B: PDB Molecule:trna delta(2)-isopentenylpyrophosphate PDBTitle: crystal structure of trna delta(2)-isopentenylpyrophosphate2 transferase (se0981) from staphylococcus epidermidis.3 northeast structural genomics consortium target ser100 38 d2cdqa3 not modelled 7.6 11 Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like 39 c2dvzA_ not modelled 7.6 14 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter 40 c3dmbA_ not modelled 7.6 16 PDB header:oxidoreductase Chain: A: PDB Molecule:putative general stress protein 26 with a pnp-oxidase like PDBTitle: crystal structure of a putative general stress family protein2 (xcc2264) from xanthomonas campestris pv. campestris at 2.30 a3 resolution 41 d2hmfa2 not modelled 7.5 17 Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like 42 d1rz4a1 not modelled 7.5 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain 43 d2d6fa1 not modelled 7.5 30 Fold:Sm-like fold Superfamily:GatD N-terminal domain-like Family:GatD N-terminal domain-like 44 d1tf5a1 not modelled 6.9 42 Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA 45 d1nkta1 not modelled 6.9 50 Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA 46 d2r7ka2 not modelled 6.7 20 Fold:ATP-grasp Superfamily:Glutathione synthetase ATP-binding domain-like Family:PurP ATP-binding domain-like 47 c3dzoA_ not modelled 6.7 21 PDB header:transferase Chain: A: PDB Molecule:rhoptry kinase domain; PDBTitle: crystal structure of a rhoptry kinase from toxoplasma gondii 48 c3fozB_ not modelled 6.5 6 PDB header:transferase/rna Chain: B: PDB Molecule:trna delta(2)-isopentenylpyrophosphate transferase; PDBTitle: structure of e. coli isopentenyl-trna transferase in complex with e.2 coli trna(phe) 49 c2pr1B_ not modelled 6.5 16 PDB header:transferase Chain: B: PDB Molecule:uncharacterized n-acetyltransferase ylbp; PDBTitle: crystal structure of the bacillus subtilis n-acetyltransferase ylbp2 protein in complex with coenzyme-a 50 c3e46A_ not modelled 6.1 18 PDB header:ligase Chain: A: PDB Molecule:ubiquitin-conjugating enzyme e2-25 kda; PDBTitle: crystal structure of ubiquitin-conjugating enzyme e2-25kda2 (huntington interacting protein 2) m172a mutant 51 d1g57a_ not modelled 6.0 18 Fold:YrdC/RibB Superfamily:YrdC/RibB Family:3,4-dihydroxy-2-butanone 4-phosphate synthase, DHBP synthase, RibB 52 d1uj4a2 not modelled 5.9 71 Fold:Ferredoxin-like Superfamily:D-ribose-5-phosphate isomerase (RpiA), lid domain Family:D-ribose-5-phosphate isomerase (RpiA), lid domain 53 d2es9a1 not modelled 5.9 15 Fold:YoaC-like Superfamily:YoaC-like Family:YoaC-like 54 d2ozla1 not modelled 5.9 15 Fold:Thiamin diphosphate-binding fold (THDP-binding) Superfamily:Thiamin diphosphate-binding fold (THDP-binding) Family:Branched-chain alpha-keto acid dehydrogenase PP module 55 c3lwbA_ not modelled 5.7 30 PDB header:ligase Chain: A: PDB Molecule:d-alanine--d-alanine ligase; PDBTitle: crystal structure of apo d-alanine:d-alanine ligase (ddl) from2 mycobacterium tuberculosis 56 c1zdbA_ not modelled 5.7 50 PDB header:igg binding domain Chain: A: PDB Molecule:mini protein a domain, z38; PDBTitle: phage-selected mini protein a domain, z38, nmr, minimized2 mean structure 57 c3byvA_ not modelled 5.5 23 PDB header:transferase Chain: A: PDB Molecule:rhoptry kinase; PDBTitle: crystal structure of toxoplasma gondii specific rhoptry2 antigen kinase domain 58 d2cyya1 not modelled 5.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 59 d1q46a1 not modelled 5.4 18 Fold:SAM domain-like Superfamily:eIF2alpha middle domain-like Family:eIF2alpha middle domain-like

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