Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	L	S	Q	D	G	I	K	L	H	R	G	N	F	T	A	I	G	R	Q	I	Q	P	Y	L	E	E	G	K	C	F	R	M	V	L	K	P	W	R	E	K	R	S	L	S	Q	N	A	L	S	H	M	W	Y	S	E	I	S	E
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																																		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Y	L	I	S	R	G	K	T	F	A	T	P	A	W	V	K	D	A	L	K	H	T	Y	L	G	Y	E	T	K	D	L	V	D	V	V	T	G	D	I	T	T	I	Q	S	L	R	H	T	S	D	L	D	T	G	E	M	Y	V	F	L
Secondary structure
SS confidence
Disorder																															?			?	?	?	?	?	?	?	?	?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.
Sequence		C	K	V	E	A	W	A	M	N	I	G	C	H	L	T	I	P	Q	S	C	E	F	Q	L	L	R	D	K	Q	E	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 1pc6 chain A Region: 16 - 147 Aligned: 125 Modelled: 132 Confidence: 100.0% Identity: 17% Fold: NinB Superfamily: NinB Family: NinB Phyre2 PDB 2kg4 chain A Region: 119 - 141 Aligned: 23 Modelled: 23 Confidence: 32.6% Identity: 4% PDB header:cell cycle Chain: A: PDB Molecule:growth arrest and dna-damage-inducible protein PDBTitle: three-dimensional structure of human gadd45alpha in2 solution by nmr Phyre2 PDB 2jxj chain A Region: 111 - 137 Aligned: 27 Modelled: 27 Confidence: 31.6% Identity: 26% PDB header:oxidoreductase Chain: A: PDB Molecule:histone demethylase jarid1a; PDBTitle: nmr structure of the arid domain from the histone h3k42 demethylase rbp2 Phyre2 PDB 2kng chain A Region: 123 - 136 Aligned: 14 Modelled: 14 Confidence: 23.4% Identity: 21% PDB header:dna binding protein Chain: A: PDB Molecule:protein lsr2; PDBTitle: solution structure of c-domain of lsr2 Phyre2 PDB 2lm1 chain A Region: 107 - 138 Aligned: 32 Modelled: 32 Confidence: 17.9% Identity: 22% PDB header:dna binding protein Chain: A: PDB Molecule:lysine-specific demethylase lid; PDBTitle: solution nmr structure of lysine-specific demethylase lid from2 drosophila melanogaster, northeast structural genomics consortium3 target fr824d Phyre2 PDB 2e1f chain A domain 1 Region: 49 - 134 Aligned: 73 Modelled: 86 Confidence: 16.7% Identity: 10% Fold: SAM domain-like Superfamily: HRDC-like Family: HRDC domain from helicases Phyre2 PDB 3cg6 chain A Region: 119 - 134 Aligned: 16 Modelled: 16 Confidence: 14.8% Identity: 6% PDB header:cell cycle Chain: A: PDB Molecule:growth arrest and dna-damage-inducible 45 gamma; PDBTitle: crystal structure of gadd45 gamma Phyre2 PDB 1oi1 chain A domain 2 Region: 126 - 140 Aligned: 15 Modelled: 15 Confidence: 13.8% Identity: 27% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 1wh7 chain A Region: 121 - 133 Aligned: 13 Modelled: 13 Confidence: 12.0% Identity: 23% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 1kkx chain A Region: 112 - 138 Aligned: 27 Modelled: 27 Confidence: 11.5% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: ARID-like Family: ARID domain Phyre2 PDB 1ax8 chain A Region: 113 - 139 Aligned: 27 Modelled: 27 Confidence: 11.4% Identity: 15% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Long-chain cytokines Phyre2 PDB 1oz3 chain C Region: 126 - 139 Aligned: 14 Modelled: 14 Confidence: 11.2% Identity: 43% PDB header:transcription Chain: C: PDB Molecule:lethal(3)malignant brain tumor-like protein; PDBTitle: crystal structure of 3-mbt repeats of lethal (3) malignant brain tumor2 (native-i) at 1.85 angstrom Phyre2 PDB 1eys chain C Region: 110 - 132 Aligned: 23 Modelled: 23 Confidence: 11.1% Identity: 35% Fold: Multiheme cytochromes Superfamily: Multiheme cytochromes Family: Photosynthetic reaction centre (cytochrome subunit) Phyre2 PDB 1eys chain C Region: 110 - 132 Aligned: 23 Modelled: 23 Confidence: 11.1% Identity: 35% PDB header:electron transport Chain: C: PDB Molecule:photosynthetic reaction center; PDBTitle: crystal structure of photosynthetic reaction center from a2 thermophilic bacterium, thermochromatium tepidum Phyre2 PDB 1j20 chain A domain 1 Region: 121 - 135 Aligned: 15 Modelled: 15 Confidence: 11.0% Identity: 20% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Adenine nucleotide alpha hydrolases-like Family: N-type ATP pyrophosphatases Phyre2 PDB 1bvp chain 1 domain 1 Region: 3 - 83 Aligned: 59 Modelled: 78 Confidence: 11.0% Identity: 19% Fold: A virus capsid protein alpha-helical domain Superfamily: A virus capsid protein alpha-helical domain Family: Orbivirus capsid Phyre2 PDB 3gwz chain B Region: 10 - 103 Aligned: 88 Modelled: 90 Confidence: 10.9% Identity: 7% PDB header:transferase Chain: B: PDB Molecule:mmcr; PDBTitle: structure of the mitomycin 7-o-methyltransferase mmcr Phyre2 PDB 1oi1 chain A domain 1 Region: 126 - 139 Aligned: 14 Modelled: 14 Confidence: 10.8% Identity: 21% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 1jhg chain A Region: 11 - 33 Aligned: 23 Modelled: 23 Confidence: 10.6% Identity: 22% Fold: DNA/RNA-binding 3-helical bundle Superfamily: TrpR-like Family: Trp repressor, TrpR Phyre2 PDB 2ztg chain A Region: 120 - 151 Aligned: 32 Modelled: 32 Confidence: 9.8% Identity: 16% PDB header:ligase Chain: A: PDB Molecule:alanyl-trna synthetase; PDBTitle: crystal structure of archaeoglobus fulgidus alanyl-trna2 synthetase lacking the c-terminal dimerization domain in3 complex with ala-sa Phyre2 1 d1pc6a_ 2 c2kg4A_ 3 c2jxjA_ 4 c2kngA_ 5 c2lm1A_ 6 d2e1fa1 7 c3cg6A_ 8 d1oi1a2 9 d1wh7a_ 10 d1kkxa_ 11 d1ax8a_ 12 c1oz3C_ 13 d1eysc_ 14 c1eysC_ 15 d1j20a1 16 d1bvp11 17 c3gwzB_ 18 d1oi1a1 19 d1jhga_ 20 c2ztgA_ 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

Detailed template information

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

1 d1pc6a_ 100.0 17 Fold:NinB Superfamily:NinB Family:NinB 2 c2kg4A_ 32.6 4 PDB header:cell cycle Chain: A: PDB Molecule:growth arrest and dna-damage-inducible protein PDBTitle: three-dimensional structure of human gadd45alpha in2 solution by nmr 3 c2jxjA_ 31.6 26 PDB header:oxidoreductase Chain: A: PDB Molecule:histone demethylase jarid1a; PDBTitle: nmr structure of the arid domain from the histone h3k42 demethylase rbp2 4 c2kngA_ 23.4 21 PDB header:dna binding protein Chain: A: PDB Molecule:protein lsr2; PDBTitle: solution structure of c-domain of lsr2 5 c2lm1A_ 17.9 22 PDB header:dna binding protein Chain: A: PDB Molecule:lysine-specific demethylase lid; PDBTitle: solution nmr structure of lysine-specific demethylase lid from2 drosophila melanogaster, northeast structural genomics consortium3 target fr824d 6 d2e1fa1 16.7 10 Fold:SAM domain-like Superfamily:HRDC-like Family:HRDC domain from helicases 7 c3cg6A_ 14.8 6 PDB header:cell cycle Chain: A: PDB Molecule:growth arrest and dna-damage-inducible 45 gamma; PDBTitle: crystal structure of gadd45 gamma 8 d1oi1a2 13.8 27 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 9 d1wh7a_ 12.0 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 10 d1kkxa_ 11.5 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:ARID-like Family:ARID domain 11 d1ax8a_ 11.4 15 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Long-chain cytokines 12 c1oz3C_ 11.2 43 PDB header:transcription Chain: C: PDB Molecule:lethal(3)malignant brain tumor-like protein; PDBTitle: crystal structure of 3-mbt repeats of lethal (3) malignant brain tumor2 (native-i) at 1.85 angstrom 13 d1eysc_ 11.1 35 Fold:Multiheme cytochromes Superfamily:Multiheme cytochromes Family:Photosynthetic reaction centre (cytochrome subunit) 14 c1eysC_ 11.1 35 PDB header:electron transport Chain: C: PDB Molecule:photosynthetic reaction center; PDBTitle: crystal structure of photosynthetic reaction center from a2 thermophilic bacterium, thermochromatium tepidum 15 d1j20a1 11.0 20 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases 16 d1bvp11 11.0 19 Fold:A virus capsid protein alpha-helical domain Superfamily:A virus capsid protein alpha-helical domain Family:Orbivirus capsid 17 c3gwzB_ 10.9 7 PDB header:transferase Chain: B: PDB Molecule:mmcr; PDBTitle: structure of the mitomycin 7-o-methyltransferase mmcr 18 d1oi1a1 10.8 21 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 19 d1jhga_ 10.6 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 20 c2ztgA_ 9.8 16 PDB header:ligase Chain: A: PDB Molecule:alanyl-trna synthetase; PDBTitle: crystal structure of archaeoglobus fulgidus alanyl-trna2 synthetase lacking the c-terminal dimerization domain in3 complex with ala-sa 21 c2eqyA_ not modelled 9.8 22 PDB header:dna binding protein Chain: A: PDB Molecule:jumonji, at rich interactive domain 1b; PDBTitle: solution structure of the arid domain of jarid1b protein 22 d1wjra_ not modelled 9.7 14 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 23 d1wjsa_ not modelled 9.3 23 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 24 c3ut1A_ not modelled 9.3 19 PDB header:transcription Chain: A: PDB Molecule:lethal(3)malignant brain tumor-like protein 3; PDBTitle: crystal structure of the 3-mbt repeat domain of l3mbtl3 25 c2yqeA_ not modelled 9.2 19 PDB header:dna binding protein Chain: A: PDB Molecule:jumonji/arid domain-containing protein 1d; PDBTitle: solution structure of the arid domain of jarid1d protein 26 d1oz2a2 not modelled 9.0 43 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 27 d2gtaa1 not modelled 8.4 8 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:MazG-like 28 c3frwF_ not modelled 8.2 5 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum 29 d2cb2a1 not modelled 7.8 21 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:SOR-like 30 d1miua4 not modelled 7.7 21 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 31 c2wvsD_ not modelled 7.6 15 PDB header:hydrolase Chain: D: PDB Molecule:alpha-l-fucosidase; PDBTitle: crystal structure of an alpha-l-fucosidase gh29 trapped2 covalent intermediate from bacteroides thetaiotaomicron in3 complex with 2-fluoro-fucosyl fluoride using an e288q4 mutant 32 c3lwzC_ not modelled 7.5 15 PDB header:lyase Chain: C: PDB Molecule:3-dehydroquinate dehydratase; PDBTitle: 1.65 angstrom resolution crystal structure of type ii 3-2 dehydroquinate dehydratase (aroq) from yersinia pestis 33 d2ahma1 not modelled 7.3 0 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Coronavirus NSP7-like Family:Coronavirus NSP7-like 34 d2gtad1 not modelled 7.0 8 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:MazG-like 35 d2aj6a1 not modelled 6.9 18 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:N-acetyl transferase, NAT 36 d1rfma_ not modelled 6.8 13 Fold:L-sulfolactate dehydrogenase-like Superfamily:L-sulfolactate dehydrogenase-like Family:L-sulfolactate dehydrogenase-like 37 d1oz2a1 not modelled 6.6 29 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 38 d1trra_ not modelled 6.4 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 39 d1oz2a3 not modelled 6.4 31 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 40 c1yycA_ not modelled 6.3 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative late embryogenesis abundant protein; PDBTitle: solution structure of a putative late embryogenesis2 abundant (lea) protein at2g46140.1 41 c3ebrA_ not modelled 5.8 10 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized rmlc-like cupin; PDBTitle: crystal structure of an rmlc-like cupin protein (reut_a0381) from2 ralstonia eutropha jmp134 at 2.60 a resolution 42 d1hl9a2 not modelled 5.8 9 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Putative alpha-L-fucosidase, catalytic domain 43 c1vl2C_ not modelled 5.6 15 PDB header:ligase Chain: C: PDB Molecule:argininosuccinate synthase; PDBTitle: crystal structure of argininosuccinate synthase (tm1780) from2 thermotoga maritima at 1.65 a resolution 44 d1wjqa_ not modelled 5.6 33 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 45 d2ezha_ not modelled 5.2 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding 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