Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	K	S	S	G	E	L	V	T	L	T	P	N	N	N	N	T	V	Q	P	V	A	L	M	R	L	G	V	F	V	P	T	L	K	S	L	K	N	S	K	K	N	T	L	S	R	T	D	A	T	E	E	L	T	R	L	S	L	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?							?	?	?	?	?	?	?											?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?			?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	A	E	G	F	D	K	V	E	I	T	G	P	R	L	D	M	D	N	D	F	K	T	W	V	G	I	I	H	S	F	A	R	H	N	V	I	G	D	K	V	E	L	P	F	V	E	F	A	K	L	C	G	I	P	S	S	Q	S	S
Secondary structure
SS confidence
Disorder		?														?																		?																					?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	R	L	R	E	R	I	S	P	S	L	K	R	I	A	G	T	V	I	S	F	S	R	T	D	E	K	H	T	R	E	Y	I	T	H	L	V	Q	S	A	Y	Y	D	T	E	R	D	I	V	Q	L	Q	A	D	P	R	L	F	E	L
Secondary structure
SS confidence
Disorder																?	?	?	?						?	?	?	?	?	?	?	?	?	?					?	?	?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		Y	Q	F	D	R	K	V	L	L	Q	L	K	A	I	N	A	L	K	R	R	E	S	A	Q	A	L	Y	T	F	I	E	S	L	P	R	D	P	A	P	I	S	L	A	R	L	R	A	R	L	N	L	K	S	P	V	F	S	Q	N	Q
Secondary structure
SS confidence
Disorder																	?	?	?	?																														?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		T	V	R	R	A	M	E	Q	L	R	E	I	G	Y	L	D	Y	T	E	I	Q	R	G	R	T	K	F	F	C	I	H	Y	R	R	P	R	L	K	A	P	N	D	E	S	K	E	N	P	L	P	P	S	P	A	E	K	V	S	P	E
Secondary structure
SS confidence
Disorder																																				?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.
Sequence		M	A	E	K	L	A	L	L	E	K	L	G	I	T	L	D	D	L	E	K	L	F	K	S	R
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 2z9o chain B Region: 79 - 274 Aligned: 185 Modelled: 196 Confidence: 99.4% Identity: 15% PDB header:replication/dna Chain: B: PDB Molecule:replication initiation protein; PDBTitle: crystal structure of the dimeric form of repe in complex with the repe2 operator dna Phyre2 PDB 2nra chain C Region: 79 - 272 Aligned: 189 Modelled: 194 Confidence: 99.2% Identity: 14% PDB header:replication/dna Chain: C: PDB Molecule:pi protein; PDBTitle: crystal structure of pi initiator protein in complex with iteron dna Phyre2 PDB 1rep chain C domain 2 Region: 184 - 272 Aligned: 88 Modelled: 89 Confidence: 97.3% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Replication initiation protein Phyre2 PDB 1hkq chain A Region: 75 - 181 Aligned: 99 Modelled: 107 Confidence: 97.1% Identity: 12% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Replication initiation protein Phyre2 PDB 2nra chain C domain 2 Region: 184 - 276 Aligned: 92 Modelled: 93 Confidence: 96.9% Identity: 14% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Replication initiation protein Phyre2 PDB 2nra chain C domain 1 Region: 75 - 177 Aligned: 98 Modelled: 103 Confidence: 96.3% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Replication initiation protein Phyre2 PDB 1rep chain C domain 1 Region: 87 - 181 Aligned: 82 Modelled: 95 Confidence: 94.6% Identity: 20% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Replication initiation protein Phyre2 PDB 2v79 chain B Region: 173 - 275 Aligned: 96 Modelled: 103 Confidence: 93.5% Identity: 15% PDB header:dna-binding protein Chain: B: PDB Molecule:dna replication protein dnad; PDBTitle: crystal structure of the n-terminal domain of dnad from2 bacillus subtilis Phyre2 PDB 2v7f chain A domain 1 Region: 205 - 266 Aligned: 61 Modelled: 62 Confidence: 91.4% Identity: 23% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Rps19E-like Phyre2 PDB 1stz chain A domain 1 Region: 204 - 256 Aligned: 48 Modelled: 53 Confidence: 85.5% Identity: 29% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Heat-inducible transcription repressor HrcA, N-terminal domain Phyre2 PDB 2xzn chain T Region: 205 - 266 Aligned: 62 Modelled: 62 Confidence: 84.1% Identity: 13% PDB header:ribosome Chain: T: PDB Molecule:rps19e; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2 Phyre2 PDB 3ic7 chain A Region: 241 - 322 Aligned: 67 Modelled: 79 Confidence: 83.9% Identity: 25% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator of gntr family2 from bacteroides thetaiotaomicron Phyre2 PDB 3iz6 chain S Region: 205 - 266 Aligned: 61 Modelled: 62 Confidence: 83.0% Identity: 21% PDB header:ribosome Chain: S: PDB Molecule:40s ribosomal protein s19 (s19e); PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 1dpu chain A Region: 198 - 255 Aligned: 51 Modelled: 52 Confidence: 81.6% Identity: 20% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal domain of RPA32 Phyre2 PDB 1dpu chain A Region: 198 - 255 Aligned: 51 Modelled: 52 Confidence: 81.6% Identity: 20% PDB header:dna binding protein Chain: A: PDB Molecule:replication protein a (rpa32) c-terminal domain; PDBTitle: solution structure of the c-terminal domain of human rpa322 complexed with ung2(73-88) Phyre2 PDB 3neu chain A Region: 239 - 325 Aligned: 70 Modelled: 73 Confidence: 73.6% Identity: 24% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin1836 protein; PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262 Phyre2 PDB 2du9 chain A Region: 239 - 322 Aligned: 69 Modelled: 84 Confidence: 73.4% Identity: 23% PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulators; PDBTitle: crystal structure of the transcriptional factor from c.glutamicum Phyre2 PDB 3jyv chain T Region: 240 - 266 Aligned: 26 Modelled: 27 Confidence: 70.7% Identity: 23% PDB header:ribosome Chain: T: PDB Molecule:s19e protein; PDBTitle: structure of the 40s rrna and proteins and p/e trna for eukaryotic2 ribosome based on cryo-em map of thermomyces lanuginosus ribosome at3 8.9a resolution Phyre2 PDB 3by6 chain C Region: 239 - 324 Aligned: 69 Modelled: 72 Confidence: 69.9% Identity: 17% PDB header:transcription regulator Chain: C: PDB Molecule:predicted transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni Phyre2 PDB 3f8m chain A Region: 239 - 268 Aligned: 26 Modelled: 30 Confidence: 64.8% Identity: 42% PDB header:transcription Chain: A: PDB Molecule:gntr-family protein transcriptional regulator; PDBTitle: crystal structure of phnf from mycobacterium smegmatis Phyre2 1 c2z9oB_ 2 c2nraC_ 3 d1repc2 4 d1hkqa_ 5 d2nrac2 6 d2nrac1 7 d1repc1 8 c2v79B_ 9 d2v7fa1 10 d1stza1 11 c2xznT_ 12 c3ic7A_ 13 c3iz6S_ 14 d1dpua_ 15 c1dpuA_ 16 c3neuA_ 17 c2du9A_ 18 c3jyvT_ 19 c3by6C_ 20 c3f8mA_ 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 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99

Detailed template information

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

1 c2z9oB_ 99.4 15 PDB header:replication/dna Chain: B: PDB Molecule:replication initiation protein; PDBTitle: crystal structure of the dimeric form of repe in complex with the repe2 operator dna 2 c2nraC_ 99.2 14 PDB header:replication/dna Chain: C: PDB Molecule:pi protein; PDBTitle: crystal structure of pi initiator protein in complex with iteron dna 3 d1repc2 97.3 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Replication initiation protein 4 d1hkqa_ 97.1 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Replication initiation protein 5 d2nrac2 96.9 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Replication initiation protein 6 d2nrac1 96.3 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Replication initiation protein 7 d1repc1 94.6 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Replication initiation protein 8 c2v79B_ 93.5 15 PDB header:dna-binding protein Chain: B: PDB Molecule:dna replication protein dnad; PDBTitle: crystal structure of the n-terminal domain of dnad from2 bacillus subtilis 9 d2v7fa1 91.4 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Rps19E-like 10 d1stza1 85.5 29 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Heat-inducible transcription repressor HrcA, N-terminal domain 11 c2xznT_ 84.1 13 PDB header:ribosome Chain: T: PDB Molecule:rps19e; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2 12 c3ic7A_ 83.9 25 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator of gntr family2 from bacteroides thetaiotaomicron 13 c3iz6S_ 83.0 21 PDB header:ribosome Chain: S: PDB Molecule:40s ribosomal protein s19 (s19e); PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 14 d1dpua_ 81.6 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of RPA32 15 c1dpuA_ 81.6 20 PDB header:dna binding protein Chain: A: PDB Molecule:replication protein a (rpa32) c-terminal domain; PDBTitle: solution structure of the c-terminal domain of human rpa322 complexed with ung2(73-88) 16 c3neuA_ 73.6 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin1836 protein; PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262 17 c2du9A_ 73.4 23 PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulators; PDBTitle: crystal structure of the transcriptional factor from c.glutamicum 18 c3jyvT_ 70.7 23 PDB header:ribosome Chain: T: PDB Molecule:s19e protein; PDBTitle: structure of the 40s rrna and proteins and p/e trna for eukaryotic2 ribosome based on cryo-em map of thermomyces lanuginosus ribosome at3 8.9a resolution 19 c3by6C_ 69.9 17 PDB header:transcription regulator Chain: C: PDB Molecule:predicted transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni 20 c3f8mA_ 64.8 42 PDB header:transcription Chain: A: PDB Molecule:gntr-family protein transcriptional regulator; PDBTitle: crystal structure of phnf from mycobacterium smegmatis 21 c2vn2B_ not modelled 64.6 15 PDB header:replication Chain: B: PDB Molecule:chromosome replication initiation protein; PDBTitle: crystal structure of the n-terminal domain of dnad protein2 from geobacillus kaustophilus hta426 22 c1stzB_ not modelled 63.1 27 PDB header:transcription Chain: B: PDB Molecule:heat-inducible transcription repressor hrca homolog; PDBTitle: crystal structure of a hypothetical protein at 2.2 a resolution 23 c3bwgA_ not modelled 60.0 27 PDB header:transcription regulator Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk; PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168 24 d1p4xa1 not modelled 56.1 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 25 c3hrmA_ not modelled 54.7 12 PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional regulator sarz; PDBTitle: crystal structure of staphylococcus aureus protein sarz in sulfenic2 acid form 26 d1okra_ not modelled 53.3 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor 27 c3edpB_ not modelled 49.8 25 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:lin2111 protein; PDBTitle: the crystal structure of the protein lin2111 (functionally unknown)2 from listeria innocua clip11262 28 d1jhfa1 not modelled 48.7 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LexA repressor, N-terminal DNA-binding domain 29 c3ltiA_ not modelled 48.4 35 PDB header:transferase Chain: A: PDB Molecule:dna-directed rna polymerase subunit beta; PDBTitle: crystal structure of the escherichia coli rna polymerase beta subunit2 beta2-betai4 domains 30 d2g9wa1 not modelled 48.4 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor 31 d1sata2 not modelled 42.3 14 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Serralysin-like metalloprotease, catalytic (N-terminal) domain 32 c3kp3B_ not modelled 41.1 10 PDB header:transcription regulator/antibiotic Chain: B: PDB Molecule:transcriptional regulator tcar; PDBTitle: staphylococcus epidermidis in complex with ampicillin 33 c3eetA_ not modelled 38.5 18 PDB header:transcription regulator Chain: A: PDB Molecule:putative gntr-family transcriptional regulator; PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator 34 c2y75F_ not modelled 38.5 23 PDB header:transcription Chain: F: PDB Molecule:hth-type transcriptional regulator cymr; PDBTitle: the structure of cymr (yrzc) the global cysteine regulator2 of b. subtilis 35 c2i5gB_ not modelled 38.1 18 PDB header:hydrolase Chain: B: PDB Molecule:amidohydrolase; PDBTitle: crystal strcuture of amidohydrolase from pseudomonas2 aeruginosa 36 d1hw1a1 not modelled 38.1 35 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 37 c2jtvA_ not modelled 37.9 20 PDB header:structural genomics Chain: A: PDB Molecule:protein of unknown function; PDBTitle: solution structure of protein rpa3401, northeast structural genomics2 consortium target rpt7, ontario center for structural proteomics3 target rp3384 38 c3boqB_ not modelled 37.8 18 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of marr family transcriptional regulator from2 silicibacter pomeroyi 39 c3eqxB_ not modelled 36.3 27 PDB header:dna binding protein Chain: B: PDB Molecule:fic domain containing transcriptional regulator; PDBTitle: crystal structure of a fic family protein (so_4266) from shewanella2 oneidensis at 1.6 a resolution 40 c2k6xA_ not modelled 36.2 18 PDB header:transcription Chain: A: PDB Molecule:rna polymerase sigma factor rpod; PDBTitle: autoregulation of a group 1 bacterial sigma factor involves2 the formation of a region 1.1- induced compacted structure 41 d3bz6a1 not modelled 35.8 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PSPTO2686-like 42 c3kfuJ_ not modelled 35.5 29 PDB header:ligase/rna Chain: J: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit c; PDBTitle: crystal structure of the transamidosome 43 d1o57a1 not modelled 34.3 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:N-terminal domain of Bacillus PurR 44 c3edhA_ not modelled 34.2 15 PDB header:hydrolase Chain: A: PDB Molecule:bone morphogenetic protein 1; PDBTitle: crystal structure of bone morphogenetic protein 1 protease2 domain in complex with partially bound dmso 45 d1k7ia2 not modelled 34.1 11 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Serralysin-like metalloprotease, catalytic (N-terminal) domain 46 c1e2xA_ not modelled 33.0 33 PDB header:transcriptional regulation Chain: A: PDB Molecule:fatty acid metabolism regulator protein; PDBTitle: fadr, fatty acid responsive transcription factor from e.2 coli 47 d2fbha1 not modelled 32.5 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 48 c2k4bA_ not modelled 32.4 20 PDB header:dna binding protein Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: copr repressor structure 49 d1m7va_ not modelled 31.9 18 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 50 c3ff5B_ not modelled 30.3 23 PDB header:protein transport Chain: B: PDB Molecule:peroxisomal biogenesis factor 14; PDBTitle: crystal structure of the conserved n-terminal domain of the2 peroxisomal matrix-protein-import receptor, pex14p 51 c3k2gA_ not modelled 30.1 26 PDB header:resiniferatoxin binding protein Chain: A: PDB Molecule:resiniferatoxin-binding, phosphotriesterase- PDBTitle: crystal structure of a resiniferatoxin-binding protein from2 rhodobacter sphaeroides 52 c2w85A_ not modelled 29.8 23 PDB header:protein transport Chain: A: PDB Molecule:peroxisomal membrane anchor protein pex14; PDBTitle: structure of pex14 in compex with pex19 53 d2d1ha1 not modelled 29.2 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like 54 d1m9ma_ not modelled 29.1 23 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 55 d1q2oa_ not modelled 28.8 23 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 56 c3r0aB_ not modelled 26.6 20 PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196) 57 c3ihuA_ not modelled 26.4 33 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of dna binding protein (yp_298823.1) from ralstonia2 eutropha jmp134 at 1.92 a resolution 58 d2hs5a1 not modelled 25.7 31 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 59 c3lu2B_ not modelled 25.6 23 PDB header:hydrolase Chain: B: PDB Molecule:lmo2462 protein; PDBTitle: structure of lmo2462, a listeria monocytogenes amidohydrolase family2 putative dipeptidase 60 d1ku9a_ not modelled 25.6 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DNA-binding protein Mj223 61 d2dk5a1 not modelled 24.6 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RPO3F domain-like 62 c3bz6A_ not modelled 24.6 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0502 protein pspto_2686; PDBTitle: crystal structure of a conserved protein of unknown function from2 pseudomonas syringae pv. tomato str. dc3000 63 d1p6ra_ not modelled 24.6 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor 64 c2krxA_ not modelled 24.3 26 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:asl3597 protein; PDBTitle: solution nmr structure of asl3597 from nostoc sp. pcc7120. northeast2 structural genomics consortium target id nsr244. 65 c3b40A_ not modelled 24.2 30 PDB header:hydrolase Chain: A: PDB Molecule:probable dipeptidase; PDBTitle: crystal structure of the probable dipeptidase pvdm from2 pseudomonas aeruginosa 66 c3itcA_ not modelled 24.0 30 PDB header:hydrolase Chain: A: PDB Molecule:renal dipeptidase; PDBTitle: crystal structure of sco3058 with bound citrate and glycerol 67 d1mzba_ not modelled 23.8 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:FUR-like 68 c3fdgA_ not modelled 23.5 17 PDB header:hydrolase Chain: A: PDB Molecule:dipeptidase ac. metallo peptidase. merops family m19; PDBTitle: the crystal structure of the dipeptidase ac, metallo peptidase. merops2 family m19 69 d1a9xa1 not modelled 23.2 22 Fold:Carbamoyl phosphate synthetase, large subunit connection domain Superfamily:Carbamoyl phosphate synthetase, large subunit connection domain Family:Carbamoyl phosphate synthetase, large subunit connection domain 70 d1v4ra1 not modelled 22.8 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 71 c2ragB_ not modelled 22.8 22 PDB header:hydrolase Chain: B: PDB Molecule:dipeptidase; PDBTitle: crystal structure of aminohydrolase from caulobacter crescentus 72 d1mjta_ not modelled 22.5 21 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 73 c3rhgA_ not modelled 22.5 21 PDB header:hydrolase Chain: A: PDB Molecule:putative phophotriesterase; PDBTitle: crystal structure of amidohydrolase pmi1525 (target efi-500319) from2 proteus mirabilis hi4320 74 c2wv0H_ not modelled 22.1 29 PDB header:transcription Chain: H: PDB Molecule:hth-type transcriptional repressor yvoa; PDBTitle: crystal structure of the gntr-hutc family member yvoa from2 bacillus subtilis 75 c1iojA_ not modelled 21.4 38 PDB header:apolipoprotein Chain: A: PDB Molecule:apoc-i; PDBTitle: human apolipoprotein c-i, nmr, 18 structures 76 c1om8A_ not modelled 21.1 13 PDB header:hydrolase Chain: A: PDB Molecule:serralysin; PDBTitle: crystal structure of a cold adapted alkaline protease from pseudomonas2 tac ii 18, co-crystallyzed with 10 mm edta 77 d1j6ra_ not modelled 20.8 7 Fold:Methionine synthase activation domain-like Superfamily:Methionine synthase activation domain-like Family:Hypothetical protein TM0269 78 d1kapp2 not modelled 20.8 6 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Serralysin-like metalloprotease, catalytic (N-terminal) domain 79 d2oz6a1 not modelled 20.8 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 80 c3o2pE_ not modelled 20.6 29 PDB header:ligase, cell cycle Chain: E: PDB Molecule:cell division control protein 53; PDBTitle: a dual e3 mechanism for rub1 ligation to cdc53: dcn1(p)-cdc53(whb) 81 c3bj6B_ not modelled 20.3 19 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of marr family transcription regulator sp03579 82 d2frha1 not modelled 20.1 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 83 d1ub9a_ not modelled 20.1 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 84 d1iuya_ not modelled 20.1 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:SCF ubiquitin ligase complex WHB domain 85 d1mkma1 not modelled 20.0 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator IclR, N-terminal domain 86 d1hova_ not modelled 19.7 10 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Matrix metalloproteases, catalytic domain 87 d3bwga1 not modelled 18.8 28 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 88 c3nqoB_ not modelled 18.7 20 PDB header:transcription Chain: B: PDB Molecule:marr-family transcriptional regulator; PDBTitle: crystal structure of a marr family transcriptional regulator (cd1569)2 from clostridium difficile 630 at 2.20 a resolution 89 c1j5yA_ not modelled 18.5 28 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, biotin repressor family; PDBTitle: crystal structure of transcriptional regulator (tm1602) from2 thermotoga maritima at 2.3 a resolution 90 d1lj9a_ not modelled 18.3 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 91 c3c7jA_ not modelled 18.1 22 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of transcriptional regulator (gntr family member)2 from pseudomonas syringae pv. tomato str. dc3000 92 d1i76a_ not modelled 17.6 16 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Matrix metalloproteases, catalytic domain 93 d3e7ga1 not modelled 17.5 19 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 94 c1fooA_ not modelled 17.4 23 PDB header:oxidoreductase Chain: A: PDB Molecule:nitric-oxide synthase; PDBTitle: bovine endothelial nitric oxide synthase heme domain complexed with l-2 arg and no(h4b-free) 95 d1itua_ not modelled 17.3 12 Fold:TIM beta/alpha-barrel Superfamily:Metallo-dependent hydrolases Family:Renal dipeptidase 96 d3e7ma1 not modelled 17.2 23 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 97 d2ev0a1 not modelled 17.1 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein 98 d1uxja1 not modelled 16.4 15 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like 99 c2l4aA_ not modelled 16.4 31 PDB header:dna binding protein Chain: A: PDB Molecule:leucine responsive regulatory protein; PDBTitle: nmr structure of the dna-binding domain of e.coli lrp

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