Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	P	S	F	D	I	V	S	E	V	D	L	Q	E	A	R	N	A	V	D	N	A	S	R	E	V	E	S	R	F	D	F	R	N	V	E	A	S	F	E	L	N	D	A	S	K	T	I	K	V	L	S	E	S	D	F	Q	V	N	Q
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																																							?								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	L	D	I	L	R	A	K	L	L	K	R	G	I	E	G	S	S	L	D	V	P	E	N	I	V	H	S	G	K	T	W	F	V	E	A	K	L	K	Q	G	I	E	S	A	T	Q	K	K	I	V	K	M	I	K	D	S	K	L	K
Secondary structure
SS confidence
Disorder													?				?		?		?	?	?	?	?	?	?	?	?	?										?	?	?	?														?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.
Sequence		V	Q	A	Q	I	Q	G	D	E	I	R	V	T	G	K	S	R	D	D	L	Q	A	V	M	A	M	V	R	G	G	D	L	G	Q	P	F	Q	F	K	N	F	R	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 1in0 chain B Region: 2 - 163 Aligned: 162 Modelled: 162 Confidence: 100.0% Identity: 62% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:yajq protein; PDBTitle: yajq protein (hi1034) Phyre2 PDB 1in0 chain A domain 1 Region: 2 - 89 Aligned: 88 Modelled: 88 Confidence: 100.0% Identity: 58% Fold: Ferredoxin-like Superfamily: YajQ-like Family: YajQ-like Phyre2 PDB 1in0 chain A domain 2 Region: 90 - 163 Aligned: 74 Modelled: 74 Confidence: 100.0% Identity: 66% Fold: Ferredoxin-like Superfamily: YajQ-like Family: YajQ-like Phyre2 PDB 1wih chain A Region: 94 - 133 Aligned: 40 Modelled: 40 Confidence: 75.1% Identity: 18% Fold: RRF/tRNA synthetase additional domain-like Superfamily: Ribosome recycling factor, RRF Family: Ribosome recycling factor, RRF Phyre2 PDB 1eh1 chain A Region: 103 - 133 Aligned: 31 Modelled: 31 Confidence: 61.0% Identity: 29% Fold: RRF/tRNA synthetase additional domain-like Superfamily: Ribosome recycling factor, RRF Family: Ribosome recycling factor, RRF Phyre2 PDB 2jpi chain A Region: 29 - 73 Aligned: 45 Modelled: 45 Confidence: 60.9% Identity: 9% PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein; PDBTitle: chemical shift assignments of pa4090 from pseudomonas2 aeruginosa Phyre2 PDB 1ek8 chain A Region: 103 - 133 Aligned: 31 Modelled: 31 Confidence: 56.5% Identity: 26% Fold: RRF/tRNA synthetase additional domain-like Superfamily: Ribosome recycling factor, RRF Family: Ribosome recycling factor, RRF Phyre2 PDB 3aqo chain D Region: 121 - 162 Aligned: 42 Modelled: 42 Confidence: 54.2% Identity: 21% PDB header:membrane protein Chain: D: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: structure and function of a membrane component secdf that enhances2 protein export Phyre2 PDB 1is1 chain A Region: 103 - 133 Aligned: 31 Modelled: 31 Confidence: 53.9% Identity: 29% Fold: RRF/tRNA synthetase additional domain-like Superfamily: Ribosome recycling factor, RRF Family: Ribosome recycling factor, RRF Phyre2 PDB 1dd5 chain A Region: 103 - 133 Aligned: 31 Modelled: 31 Confidence: 46.6% Identity: 26% Fold: RRF/tRNA synthetase additional domain-like Superfamily: Ribosome recycling factor, RRF Family: Ribosome recycling factor, RRF Phyre2 PDB 1vqo chain E domain 2 Region: 121 - 150 Aligned: 30 Modelled: 30 Confidence: 39.1% Identity: 20% Fold: Ribosomal protein L6 Superfamily: Ribosomal protein L6 Family: Ribosomal protein L6 Phyre2 PDB 1pvg chain A domain 2 Region: 15 - 51 Aligned: 31 Modelled: 37 Confidence: 34.5% Identity: 32% Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Family: DNA gyrase/MutL, N-terminal domain Phyre2 PDB 1ge9 chain A Region: 103 - 133 Aligned: 30 Modelled: 31 Confidence: 28.3% Identity: 33% Fold: RRF/tRNA synthetase additional domain-like Superfamily: Ribosome recycling factor, RRF Family: Ribosome recycling factor, RRF Phyre2 PDB 3ci9 chain B Region: 12 - 31 Aligned: 20 Modelled: 20 Confidence: 25.7% Identity: 15% PDB header:transcription Chain: B: PDB Molecule:heat shock factor-binding protein 1; PDBTitle: crystal structure of the human hsbp1 Phyre2 PDB 1jjc chain B domain 4 Region: 3 - 82 Aligned: 75 Modelled: 80 Confidence: 24.3% Identity: 16% Fold: Ferredoxin-like Superfamily: Anticodon-binding domain of PheRS Family: Anticodon-binding domain of PheRS Phyre2 PDB 2kyz chain A Region: 107 - 154 Aligned: 45 Modelled: 48 Confidence: 22.5% Identity: 16% PDB header:metal binding protein Chain: A: PDB Molecule:heavy metal binding protein; PDBTitle: nmr structure of heavy metal binding protein tm0320 from thermotoga2 maritima Phyre2 PDB 1j2j chain B Region: 134 - 150 Aligned: 17 Modelled: 17 Confidence: 19.9% Identity: 18% Fold: Spectrin repeat-like Superfamily: GAT-like domain Family: GAT domain Phyre2 PDB 1vpk chain A domain 2 Region: 9 - 58 Aligned: 49 Modelled: 50 Confidence: 19.8% Identity: 12% Fold: DNA clamp Superfamily: DNA clamp Family: DNA polymerase III, beta subunit Phyre2 PDB 1wxm chain A domain 1 Region: 61 - 80 Aligned: 20 Modelled: 20 Confidence: 18.7% Identity: 25% Fold: beta-Grasp (ubiquitin-like) Superfamily: Ubiquitin-like Family: Ras-binding domain, RBD Phyre2 PDB 1jz8 chain A domain 2 Region: 25 - 36 Aligned: 12 Modelled: 12 Confidence: 18.0% Identity: 42% Fold: Immunoglobulin-like beta-sandwich Superfamily: beta-Galactosidase/glucuronidase domain Family: beta-Galactosidase/glucuronidase domain Phyre2 1 c1in0B_ 2 d1in0a1 3 d1in0a2 4 d1wiha_ 5 d1eh1a_ 6 c2jpiA_ 7 d1ek8a_ 8 c3aqoD_ 9 d1is1a_ 10 d1dd5a_ 11 d1vqoe2 12 d1pvga2 13 d1ge9a_ 14 c3ci9B_ 15 d1jjcb4 16 c2kyzA_ 17 d1j2jb_ 18 d1vpka2 19 d1wxma1 20 d1jz8a2 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 63 64 65 66 67 68 69 70 71

Detailed template information

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

1 c1in0B_ 100.0 62 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:yajq protein; PDBTitle: yajq protein (hi1034) 2 d1in0a1 100.0 58 Fold:Ferredoxin-like Superfamily:YajQ-like Family:YajQ-like 3 d1in0a2 100.0 66 Fold:Ferredoxin-like Superfamily:YajQ-like Family:YajQ-like 4 d1wiha_ 75.1 18 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Ribosome recycling factor, RRF Family:Ribosome recycling factor, RRF 5 d1eh1a_ 61.0 29 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Ribosome recycling factor, RRF Family:Ribosome recycling factor, RRF 6 c2jpiA_ 60.9 9 PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein; PDBTitle: chemical shift assignments of pa4090 from pseudomonas2 aeruginosa 7 d1ek8a_ 56.5 26 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Ribosome recycling factor, RRF Family:Ribosome recycling factor, RRF 8 c3aqoD_ 54.2 21 PDB header:membrane protein Chain: D: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: structure and function of a membrane component secdf that enhances2 protein export 9 d1is1a_ 53.9 29 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Ribosome recycling factor, RRF Family:Ribosome recycling factor, RRF 10 d1dd5a_ 46.6 26 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Ribosome recycling factor, RRF Family:Ribosome recycling factor, RRF 11 d1vqoe2 39.1 20 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 12 d1pvga2 34.5 32 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Family:DNA gyrase/MutL, N-terminal domain 13 d1ge9a_ 28.3 33 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Ribosome recycling factor, RRF Family:Ribosome recycling factor, RRF 14 c3ci9B_ 25.7 15 PDB header:transcription Chain: B: PDB Molecule:heat shock factor-binding protein 1; PDBTitle: crystal structure of the human hsbp1 15 d1jjcb4 24.3 16 Fold:Ferredoxin-like Superfamily:Anticodon-binding domain of PheRS Family:Anticodon-binding domain of PheRS 16 c2kyzA_ 22.5 16 PDB header:metal binding protein Chain: A: PDB Molecule:heavy metal binding protein; PDBTitle: nmr structure of heavy metal binding protein tm0320 from thermotoga2 maritima 17 d1j2jb_ 19.9 18 Fold:Spectrin repeat-like Superfamily:GAT-like domain Family:GAT domain 18 d1vpka2 19.8 12 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase III, beta subunit 19 d1wxma1 18.7 25 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:Ras-binding domain, RBD 20 d1jz8a2 18.0 42 Fold:Immunoglobulin-like beta-sandwich Superfamily:beta-Galactosidase/glucuronidase domain Family:beta-Galactosidase/glucuronidase domain 21 d1wqga1 not modelled 17.7 19 Fold:RRF/tRNA synthetase additional domain-like Superfamily:Ribosome recycling factor, RRF Family:Ribosome recycling factor, RRF 22 c1bo1A_ not modelled 16.6 17 PDB header:transferase Chain: A: PDB Molecule:protein (phosphatidylinositol phosphate kinase PDBTitle: phosphatidylinositol phosphate kinase type ii beta 23 d1bo1a_ not modelled 16.6 17 Fold:SAICAR synthase-like Superfamily:SAICAR synthase-like Family:Phosphatidylinositol phosphate kinase IIbeta, PIPK IIbeta 24 d1yq2a1 not modelled 16.5 9 Fold:Immunoglobulin-like beta-sandwich Superfamily:beta-Galactosidase/glucuronidase domain Family:beta-Galactosidase/glucuronidase domain 25 d1e32a1 not modelled 16.3 42 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Cdc48 N-terminal domain-like 26 d1x7fa2 not modelled 15.7 13 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Outer surface protein, N-terminal domain 27 c3ijmA_ not modelled 14.3 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized restriction endonuclease-like fold PDBTitle: the structure of a restriction endonuclease-like fold superfamily2 protein from spirosoma linguale. 28 d1hywa_ not modelled 14.3 24 Fold:gpW/XkdW-like Superfamily:Head-to-tail joining protein W, gpW Family:Head-to-tail joining protein W, gpW 29 d1qnaa1 not modelled 14.1 13 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 30 c2ftcF_ not modelled 13.9 20 PDB header:ribosome Chain: F: PDB Molecule:39s ribosomal protein l12, mitochondrial; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome 31 c3fblA_ not modelled 13.8 38 PDB header:structural protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of orf132 of the archaeal virus acidianus2 filamentous virus 1 (afv1) 32 c2gk9D_ not modelled 13.2 18 PDB header:transferase Chain: D: PDB Molecule:phosphatidylinositol-4-phosphate 5-kinase, type PDBTitle: human phosphatidylinositol-4-phosphate 5-kinase, type ii,2 gamma 33 d1ok7a2 not modelled 11.8 4 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase III, beta subunit 34 c1x7fA_ not modelled 11.5 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:outer surface protein; PDBTitle: crystal structure of an uncharacterized b. cereus protein 35 d1vjea_ not modelled 11.0 30 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 36 d1nh2a1 not modelled 10.9 13 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 37 c1qzrA_ not modelled 9.8 32 PDB header:isomerase Chain: A: PDB Molecule:dna topoisomerase ii; PDBTitle: crystal structure of the atpase region of saccharomyces cerevisiae2 topoisomerase ii bound to icrf-187 (dexrazoxane) 38 c1giyJ_ not modelled 9.6 19 PDB header:ribosome Chain: J: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of the ribosome at 5.5 a resolution. this2 file, 1giy, contains the 50s ribosome subunit. the 30s3 ribosome subunit, three trna, and mrna molecules are in the4 file 1gix 39 d1dd3a2 not modelled 9.6 19 Fold:ClpS-like Superfamily:ClpS-like Family:Ribosomal protein L7/12, C-terminal domain 40 c2gya3_ not modelled 9.4 20 PDB header:ribosome Chain: 3: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: structure of the 50s subunit of a pre-translocational e.2 coli ribosome obtained by fitting atomic models for rna and3 protein components into cryo-em map emd-1056 41 d1cdwa1 not modelled 9.2 14 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 42 d1ctfa_ not modelled 9.1 19 Fold:ClpS-like Superfamily:ClpS-like Family:Ribosomal protein L7/12, C-terminal domain 43 c2e70A_ not modelled 8.6 29 PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor spt5; PDBTitle: solution structure of the fifth kow motif of human2 transcription elongation factor spt5 44 c1xyr6_ not modelled 8.6 36 PDB header:virus Chain: 6: PDB Molecule:genome polyprotein, coat protein vp3; PDB Fragment:residues 620-630 PDBTitle: poliovirus 135s cell entry intermediate 45 c1vpkA_ not modelled 8.4 17 PDB header:transferase Chain: A: PDB Molecule:dna polymerase iii, beta subunit; PDBTitle: crystal structure of dna polymerase iii, beta subunit (tm0262) from2 thermotoga maritima at 2.00 a resolution 46 d1vpra1 not modelled 8.3 28 Fold:Lipocalins Superfamily:Lipocalins Family:Dinoflagellate luciferase repeat 47 c3k1tA_ not modelled 8.1 11 PDB header:ligase Chain: A: PDB Molecule:glutamate--cysteine ligase gsha; PDBTitle: crystal structure of putative gamma-glutamylcysteine synthetase2 (yp_546622.1) from methylobacillus flagellatus kt at 1.90 a3 resolution 48 c2h2mA_ not modelled 7.8 31 PDB header:metal transport Chain: A: PDB Molecule:comm domain-containing protein 1; PDBTitle: solution structure of the n-terminal domain of commd12 (murr1) 49 c1zxnB_ not modelled 7.7 26 PDB header:isomerase Chain: B: PDB Molecule:dna topoisomerase ii, alpha isozyme; PDBTitle: human dna topoisomerase iia atpase/adp 50 c3ke2A_ not modelled 7.7 27 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein yp_928783.1; PDBTitle: crystal structure of a duf2131 family protein (sama_2911) from2 shewanella amazonensis sb2b at 2.50 a resolution 51 d1xmta_ not modelled 7.6 8 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:N-acetyl transferase, NAT 52 c1mv4B_ not modelled 7.5 67 PDB header:de novo protein Chain: B: PDB Molecule:tropomyosin 1 alpha chain; PDBTitle: tm9a251-284: a peptide model of the c-terminus of a rat2 striated alpha tropomyosin 53 c2zjq5_ not modelled 7.3 20 PDB header:ribosome Chain: 5: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: interaction of l7 with l11 induced by microccocin binding2 to the deinococcus radiodurans 50s subunit 54 d2zjq51 not modelled 7.3 20 Fold:ClpS-like Superfamily:ClpS-like Family:Ribosomal protein L7/12, C-terminal domain 55 d1rfza_ not modelled 7.3 29 Fold:YutG-like Superfamily:YutG-like Family:YutG-like 56 c4a19Q_ not modelled 7.2 14 PDB header:ribosome Chain: Q: PDB Molecule:60s ribosomal protein l36; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2. 57 c2egcA_ not modelled 7.1 8 PDB header:signaling protein Chain: A: PDB Molecule:sh3 and px domain-containing protein 2a; PDBTitle: solution structure of the fifth sh3 domain from human2 kiaa0418 protein 58 c2joiA_ not modelled 6.8 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ta0095; PDBTitle: nmr solution structure of hypothetical protein ta0095 from2 thermoplasma acidophilum 59 c3izck_ not modelled 6.7 13 PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein rpl16 (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 60 d2a1jb1 not modelled 6.6 18 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 61 c3okqA_ not modelled 6.3 50 PDB header:protein binding Chain: A: PDB Molecule:bud site selection protein 6; PDBTitle: crystal structure of a core domain of yeast actin nucleation cofactor2 bud6 62 d1cz5a1 not modelled 6.2 17 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Cdc48 N-terminal domain-like 63 d1c52a_ not modelled 6.2 21 Fold:Cytochrome c Superfamily:Cytochrome c Family:monodomain cytochrome c 64 c3kowH_ not modelled 5.8 36 PDB header:metal binding protein Chain: H: PDB Molecule:d-ornithine aminomutase s component; PDBTitle: crystal structure of ornithine 4,5 aminomutase backsoaked complex 65 d1cc8a_ not modelled 5.7 7 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 66 c3fryB_ not modelled 5.6 10 PDB header:hydrolase Chain: B: PDB Molecule:probable copper-exporting p-type atpase a; PDBTitle: crystal structure of the copa c-terminal metal binding domain 67 c3ossD_ not modelled 5.5 13 PDB header:protein transport Chain: D: PDB Molecule:type 2 secretion system, secretin gspd; PDBTitle: the crystal structure of enterotoxigenic escherichia coli gspc-gspd2 complex from the type ii secretion system 68 d1fyja_ not modelled 5.5 27 Fold:S15/NS1 RNA-binding domain Superfamily:S15/NS1 RNA-binding domain Family:a tRNA synthase domain 69 d1uaea_ not modelled 5.4 28 Fold:IF3-like Superfamily:EPT/RTPC-like Family:Enolpyruvate transferase, EPT 70 c2d3o1_ not modelled 5.3 15 PDB header:ribosome Chain: 1: PDB Molecule:trigger factor; PDBTitle: structure of ribosome binding domain of the trigger factor2 on the 50s ribosomal subunit from d. radiodurans 71 d2dlxa1 not modelled 5.2 14 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:UAS 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

---

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