Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		G	Q	I	D	K	S	L	D	E	A	S	L	S	L	R	A	G	S	L	R	T	I	T	H	I	L	L	P	L	L	R	P	A	I	L	S	A	L	I	Y	S	F	V	R	A	I	T	T	V	S	A	I	V	F	L	V	T	P	D	T
Secondary structure
SS confidence
Disorder		?	?	?	?																																																						?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.
Sequence		R	V	A	T	A	Y	I	L	N	R	V	E	D	G	E	Y	G	V	A	I	A	Y	G	S	I	L	I	V	V	M	L	A	I	I	F	I	F	D	W	L	I	G	E	S	R	T	S	R	S	K	A	K	N	Q	A
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 3fh6 chain F Region: 2 - 104 Aligned: 103 Modelled: 102 Confidence: 99.9% Identity: 29% PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli Phyre2 PDB 2r6g chain G domain 1 Region: 2 - 109 Aligned: 108 Modelled: 108 Confidence: 99.8% Identity: 21% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 2 - 96 Aligned: 95 Modelled: 95 Confidence: 99.8% Identity: 31% PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter Phyre2 PDB 2onk chain C domain 1 Region: 2 - 102 Aligned: 100 Modelled: 101 Confidence: 99.8% Identity: 25% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 2 - 102 Aligned: 100 Modelled: 101 Confidence: 99.8% Identity: 25% PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda Phyre2 PDB 2r6g chain F domain 2 Region: 2 - 96 Aligned: 95 Modelled: 94 Confidence: 99.8% Identity: 28% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 2 - 98 Aligned: 96 Modelled: 97 Confidence: 99.8% Identity: 25% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 3d31 chain C domain 1 Region: 2 - 98 Aligned: 96 Modelled: 97 Confidence: 99.8% Identity: 25% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3dhw chain A domain 1 Region: 2 - 96 Aligned: 92 Modelled: 95 Confidence: 99.5% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3qnq chain D Region: 26 - 115 Aligned: 88 Modelled: 90 Confidence: 17.7% Identity: 11% PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system Phyre2 PDB 2hx6 chain A Region: 2 - 19 Aligned: 18 Modelled: 18 Confidence: 11.9% Identity: 33% PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease; PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb Phyre2 PDB 2d7d chain B Region: 2 - 29 Aligned: 28 Modelled: 28 Confidence: 11.5% Identity: 25% PDB header:hydrolase/dna Chain: B: PDB Molecule:40-mer from uvrabc system protein b; PDBTitle: structural insights into the cryptic dna dependent atp-ase2 activity of uvrb Phyre2 PDB 2ns0 chain A domain 1 Region: 2 - 20 Aligned: 17 Modelled: 19 Confidence: 10.9% Identity: 18% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: RHA1 ro06458-like Phyre2 PDB 1umq chain A Region: 4 - 25 Aligned: 22 Modelled: 22 Confidence: 9.8% Identity: 14% PDB header:dna-binding protein Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein; PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity Phyre2 PDB 1umq chain A Region: 4 - 25 Aligned: 22 Modelled: 22 Confidence: 9.8% Identity: 14% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2dii chain A Region: 2 - 27 Aligned: 26 Modelled: 26 Confidence: 9.6% Identity: 15% PDB header:transcription Chain: A: PDB Molecule:tfiih basal transcription factor complex p62 PDBTitle: solution structure of the bsd domain of human tfiih basal2 transcription factor complex p62 subunit Phyre2 PDB 1ntc chain A Region: 9 - 25 Aligned: 17 Modelled: 17 Confidence: 7.5% Identity: 24% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2ka6 chain B Region: 4 - 19 Aligned: 16 Modelled: 16 Confidence: 7.5% Identity: 19% PDB header:transcription regulator Chain: B: PDB Molecule:signal transducer and activator of transcription PDBTitle: nmr structure of the cbp-taz2/stat1-tad complex Phyre2 PDB 3fap chain B Region: 5 - 29 Aligned: 25 Modelled: 25 Confidence: 7.3% Identity: 28% Fold: Four-helical up-and-down bundle Superfamily: FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) Family: FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) Phyre2 PDB 1g2h chain A Region: 6 - 25 Aligned: 20 Modelled: 20 Confidence: 7.3% Identity: 10% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 1 c3fh6F_ 2 d2r6gg1 3 c2r6gF_ 4 d2onkc1 5 c2onkC_ 6 d2r6gf2 7 c3d31D_ 8 d3d31c1 9 d3dhwa1 10 c3qnqD_ 11 c2hx6A_ 12 c2d7dB_ 13 d2ns0a1 14 c1umqA_ 15 d1umqa_ 16 c2diiA_ 17 d1ntca_ 18 c2ka6B_ 19 d3fapb_ 20 d1g2ha_ 21 22 23 24

Detailed template information

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

1 c3fh6F_ 99.9 29 PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli 2 d2r6gg1 99.8 21 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 3 c2r6gF_ 99.8 31 PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter 4 d2onkc1 99.8 25 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 c2onkC_ 99.8 25 PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda 6 d2r6gf2 99.8 28 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 7 c3d31D_ 99.8 25 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 8 d3d31c1 99.8 25 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 9 d3dhwa1 99.5 16 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c3qnqD_ 17.7 11 PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system 11 c2hx6A_ 11.9 33 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease; PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb 12 c2d7dB_ 11.5 25 PDB header:hydrolase/dna Chain: B: PDB Molecule:40-mer from uvrabc system protein b; PDBTitle: structural insights into the cryptic dna dependent atp-ase2 activity of uvrb 13 d2ns0a1 10.9 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RHA1 ro06458-like 14 c1umqA_ 9.8 14 PDB header:dna-binding protein Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein; PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity 15 d1umqa_ 9.8 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 16 c2diiA_ 9.6 15 PDB header:transcription Chain: A: PDB Molecule:tfiih basal transcription factor complex p62 PDBTitle: solution structure of the bsd domain of human tfiih basal2 transcription factor complex p62 subunit 17 d1ntca_ 7.5 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 18 c2ka6B_ 7.5 19 PDB header:transcription regulator Chain: B: PDB Molecule:signal transducer and activator of transcription PDBTitle: nmr structure of the cbp-taz2/stat1-tad complex 19 d3fapb_ 7.3 28 Fold:Four-helical up-and-down bundle Superfamily:FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) Family:FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) 20 d1g2ha_ 7.3 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 21 d2diia1 not modelled 7.0 24 Fold:BSD domain-like Superfamily:BSD domain-like Family:BSD domain 22 c1ql1A_ not modelled 6.7 30 PDB header:virus Chain: A: PDB Molecule:pf1 bacteriophage coat protein b; PDBTitle: inovirus (filamentous bacteriophage) strain pf1 major coat2 protein assembly 23 c2qksA_ not modelled 6.1 11 PDB header:metal transport Chain: A: PDB Molecule:kir3.1-prokaryotic kir channel chimera; PDBTitle: crystal structure of a kir3.1-prokaryotic kir channel chimera 24 d1v54g_ not modelled 5.6 21 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIa Family:Mitochondrial cytochrome c oxidase subunit VIa

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