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Home , Sigma factor

Email [email protected] Description P20265 Wed Jun 6 09:50:27 BST Date 2012 Unique Job 978490f3f372dd2c ID

Detailed template

information

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

PDB header: regulator/dna Chain: K: PDB Molecule:, class 6, 1 c3d1nK_ Alignment 100.0 44 1; PDBTitle: structure of human brn-5 transcription factor in complex2 with corticotrophin-releasing hormone

PDB header:transcription/dna Chain: A: PDB Molecule:pou domain, class 5, transcription factor 2 c3l1pA_ 100.0 63 Alignment 1; PDBTitle: pou protein:dna complex

PDB header:transcription factor Chain: A: PDB Molecule:octamer-binding transcription factor 1; 3 c1hf0A_ 100.0 72 Alignment PDBTitle: crystal structure of the dna-binding domain of oct-1 bound2 to dna as a dimer

PDB header:transcription/dna 4 c1au7B_ Alignment 100.0 64 Chain: B: PDB Molecule:protein pit-1; PDBTitle: pit-1 mutant/dna complex

PDB header:transcription/dna Chain: C: PDB Molecule:pou domain, class 3, transcription factor 5 c2xsdC_ Alignment 100.0 95 1; PDBTitle: crystal structure of the dimeric oct-6 () pou domain2 bound to palindromic more dna

PDB header:transcription/dna Chain: B: PDB Molecule:hepatocyte nuclear factor 1-alpha; 6 c1ic8B_ 99.9 22 Alignment PDBTitle: hepatocyte nuclear factor 1a bound to dna : mody3 gene2 product

Fold:lambda repressor-like DNA-binding domains 7 d1e3oc2 Alignment 99.9 75 Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain

PDB header:transcription 8 c1s7eA_ Alignment 99.9 22 Chain: A: PDB Molecule:hepatocyte nuclear factor 6; PDBTitle: solution structure of hnf-6

Fold:lambda repressor-like DNA-binding domains 9 d1au7a2 Alignment 99.9 68 Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain

PDB header:transcription activator/dna Chain: A: PDB Molecule:hepatocyte nuclear factor 1-beta; 10 c2h8rA_ 99.8 19 Alignment PDBTitle: hepatocyte nuclear factor 1b bound to dna: mody5 gene2 product

Fold:DNA/RNA-binding 3-helical bundle 11 d1vnda_ Alignment 99.8 29 Superfamily:Homeodomain-like Family:Homeodomain PDB header:dna binding protein Chain: A: PDB Molecule: protein barh-like 1; 12 c2dmtA_ 99.8 32 Alignment PDBTitle: solution structure of the homeobox domain of homeobox2 protein barh-like 1

PDB header:dna binding protein Chain: A: PDB Molecule:homeobox protein otx2; 13 c2dmsA_ 99.8 24 Alignment PDBTitle: solution structure of the homeobox domain of homeobox2 protein otx2

PDB header:transcription regulation Chain: A: PDB Molecule:; 14 c2kt0A_ 99.8 26 Alignment PDBTitle: solution structure of human stem cell transcription factor nanog2 homeodomain fragment

Fold:DNA/RNA-binding 3-helical bundle 15 d1ahdp_ Alignment 99.8 22 Superfamily:Homeodomain-like Family:Homeodomain

PDB header:transcription Chain: A: PDB Molecule:homeobox protein dlx-5; 16 c2djnA_ 99.8 34 Alignment PDBTitle: the solution structure of the homeobox domain of human2 homeobox protein dlx-5

Fold:DNA/RNA-binding 3-helical bundle 17 d1pufa_ Alignment 99.8 31 Superfamily:Homeodomain-like Family:Homeodomain

PDB header:dna binding protein Chain: A: PDB Molecule:homeobox protein goosecoid; 18 c2dmuA_ 99.8 34 Alignment PDBTitle: solution structure of the homeobox domain of homeobox2 protein goosecoid

Fold:DNA/RNA-binding 3-helical bundle 19 d1ftza_ Alignment 99.8 20 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 20 d1ftta_ Alignment 99.8 30 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 21 d2lfba_ Alignment not modelled 99.8 27 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 22 d1nk3p_ Alignment not modelled 99.8 36 Superfamily:Homeodomain-like Family:Homeodomain PDB header:gene regulation/dna Chain: A: PDB Molecule:homeodomain-containing protein; 23 c3a01A_ not modelled 99.8 32 Alignment PDBTitle: crystal structure of aristaless and clawless homeodomains bound to dna Fold:DNA/RNA-binding 3-helical bundle 24 d1b72a_ Alignment not modelled 99.8 28 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 25 d1ig7a_ Alignment not modelled 99.8 38 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 26 d1octc1 Alignment not modelled 99.8 65 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 27 d2craa1 Alignment not modelled 99.8 26 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 28 d1hdpa_ Alignment not modelled 99.8 62 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:homeobox protein nkx-3.1; 29 c2l9rA_ Alignment not modelled 99.8 33 PDBTitle: solution nmr structure of homeobox domain of homeobox protein nkx-3.12 from homo sapiens, northeast structural genomics consortium target3 hr6470a Fold:DNA/RNA-binding 3-helical bundle 30 d2e1oa1 Alignment not modelled 99.8 32 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 31 d1zq3p1 Alignment not modelled 99.8 30 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:alpha-fetoprotein enhancer binding 32 c2da2A_ Alignment not modelled 99.8 29 protein; PDBTitle: solution structure of the second homeobox domain of at- 2 binding transcription factor 1 () Fold:DNA/RNA-binding 3-helical bundle 33 d1b8ia_ Alignment not modelled 99.8 23 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:alpha-fetoprotein enhancer binding 34 c2da1A_ Alignment not modelled 99.8 27 protein; PDBTitle: solution structure of the first homeobox domain of at-2 binding transcription factor 1 (atbf1) Fold:DNA/RNA-binding 3-helical bundle 35 d1ocpa_ Alignment not modelled 99.8 61 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 36 d1ztra1 Alignment not modelled 99.8 20 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 37 d1fjlb_ Alignment not modelled 99.8 29 Superfamily:Homeodomain-like Family:Homeodomain PDB header:dna binding protein Chain: A: PDB Molecule:lim/homeobox protein lhx9; 38 c2dmqA_ not modelled 99.8 25 Alignment PDBTitle: solution structure of the homeobox domain of lim/homeobox2 protein lhx9 Fold:DNA/RNA-binding 3-helical bundle 39 d1jgga_ Alignment not modelled 99.8 37 Superfamily:Homeodomain-like Family:Homeodomain PDB header:dna binding protein Chain: A: PDB Molecule:homeobox expressed in es cells 1; 40 c2k40A_ not modelled 99.7 32 Alignment PDBTitle: nmr structure of hesx-1 homeodomain double mutant r31l/e42l Fold:DNA/RNA-binding 3-helical bundle 41 d1fjla_ Alignment not modelled 99.7 29 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 42 d1uhsa_ Alignment not modelled 99.7 19 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 43 d2cuea1 Alignment not modelled 99.7 33 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 44 d1gt0c1 Alignment not modelled 99.7 61 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:alpha-fetoprotein enhancer binding 45 c2da3A_ Alignment not modelled 99.7 29 protein; PDBTitle: solution structure of the third homeobox domain of at-2 binding transcription factor 1 (atbf1) Fold:DNA/RNA-binding 3-helical bundle 46 d2hddb_ Alignment not modelled 99.7 23 Superfamily:Homeodomain-like Family:Homeodomain

PDB header:transcription 47 c2vi6F_ Alignment not modelled 99.7 33 Chain: F: PDB Molecule:homeobox protein nanog; PDBTitle: crystal structure of the nanog homeodomain

Fold:DNA/RNA-binding 3-helical bundle 48 d9anta_ Alignment not modelled 99.7 25 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:zinc fingers and protein 3; 49 c2dn0A_ not modelled 99.7 18 Alignment PDBTitle: solution structure of the second homeobox domain of human2 zinc fingers and homeoboxes protein 3 Fold:DNA/RNA-binding 3-helical bundle 50 d1bw5a_ Alignment not modelled 99.7 28 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 51 d2cufa1 Alignment not modelled 99.7 28 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 52 d1e3oc1 Alignment not modelled 99.7 56 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 53 d1wh5a_ Alignment not modelled 99.7 15 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 54 d1sana_ Alignment not modelled 99.7 23 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 55 d1yz8p1 Alignment not modelled 99.7 31 Superfamily:Homeodomain-like Alignment Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 56 d1au7a1 Alignment not modelled 99.7 63 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 57 d1mh3a1 Alignment not modelled 99.7 26 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 58 d1du0a_ Alignment not modelled 99.7 21 Superfamily:Homeodomain-like Family:Homeodomain PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein dkfzp686k21156; 59 c2da4A_ not modelled 99.7 21 Alignment PDBTitle: solution structure of the homeobox domain of the2 hypothetical protein, dkfzp686k21156 Fold:DNA/RNA-binding 3-helical bundle 60 d1o4xa1 Alignment not modelled 99.7 61 Superfamily:Homeodomain-like Family:Homeodomain

PDB header:gene regulation 61 c3a03A_ Alignment not modelled 99.7 34 Chain: A: PDB Molecule:t-cell leukemia homeobox protein 2; PDBTitle: crystal structure of hox11l1 homeodomain

Fold:DNA/RNA-binding 3-helical bundle 62 d1f43a_ Alignment not modelled 99.7 27 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 63 d1p7ia_ Alignment not modelled 99.7 23 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 64 d1le8a_ Alignment not modelled 99.7 28 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:homeobox protein tgif2lx; 65 c2dmnA_ not modelled 99.7 16 Alignment PDBTitle: the solution structure of the homeobox domain of human2 homeobox protein tgif2lx PDB header:dna binding protein Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 2; 66 c2dmpA_ not modelled 99.7 29 Alignment PDBTitle: solution structure of the third homeobox domain of zinc2 fingers and homeoboxes protein 2 PDB header:dna binding protein Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 3; 67 c2da5A_ Alignment not modelled 99.7 21 PDBTitle: solution structure of the second homeobox domain of zinc2 fingers and homeoboxes protein 3 (triple homeobox 13 protein) Fold:DNA/RNA-binding 3-helical bundle 68 d1p7jb_ Alignment not modelled 99.7 22 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 69 d2hi3a1 Alignment not modelled 99.7 21 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 70 d2ecba1 Alignment not modelled 99.7 13 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 71 d2ecca1 Alignment 99.7 17 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 72 d1lfup_ Alignment not modelled 99.6 28 Superfamily:Homeodomain-like Family:Homeodomain PDB header:dna binding protein Chain: A: PDB Molecule: homeobox protein 1b; 73 c2da7A_ not modelled 99.6 14 Alignment PDBTitle: solution structure of the homeobox domain of zinc finger2 homeobox protein 1b ( interacting protein 1) Fold:DNA/RNA-binding 3-helical bundle 74 d1mnmc_ Alignment not modelled 99.6 23 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 75 d1pufb_ Alignment not modelled 99.6 25 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 76 d1du6a_ Alignment not modelled 99.6 23 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 77 d1yrnb_ Alignment not modelled 99.6 28 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 78 d1x2na1 Alignment not modelled 99.6 23 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 1; 79 c3narA_ not modelled 99.6 25 Alignment PDBTitle: crystal structure of zhx1 hd4 (zinc-fingers and homeoboxes protein 1,2 homeodomain 4) PDB header:transcription Chain: A: PDB Molecule:transcription factor 8; 80 c2e19A_ not modelled 99.6 22 Alignment PDBTitle: solution structure of the homeobox domain from human nil-2-2 a zinc finger protein, transcription factor 8 Fold:DNA/RNA-binding 3-helical bundle Fold:DNA/RNA-binding 3-helical bundle 81 d1k61a_ Alignment not modelled 99.6 26 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 82 d1s7ea1 Alignment not modelled 99.6 24 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 83 d1lfba_ Alignment not modelled 99.6 30 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 2; 84 c3nauA_ not modelled 99.6 22 Alignment PDBTitle: crystal structure of zhx2 hd2 (zinc-fingers and homeoboxes protein 2,2 homeodomain 2) Fold:DNA/RNA-binding 3-helical bundle 85 d1le8b_ Alignment not modelled 99.6 26 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 86 d1akha_ Alignment not modelled 99.6 27 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 87 d2cqxa1 Alignment not modelled 99.6 23 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 88 d2r5yb1 Alignment not modelled 99.5 28 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 89 d1x2ma1 Alignment not modelled 99.5 24 Superfamily:Homeodomain-like Family:Homeodomain PDB header:transcription Chain: A: PDB Molecule:homeobox protein tgif1; 90 c2lk2A_ Alignment not modelled 99.5 20 PDBTitle: solution nmr structure of homeobox domain (171-248) of human homeobox2 protein tgif1, northeast structural genomics consortium target3 hr4411b Fold:DNA/RNA-binding 3-helical bundle 91 d2p81a1 Alignment not modelled 99.5 24 Superfamily:Homeodomain-like Family:Homeodomain PDB header:membrane protein Chain: A: PDB Molecule:penetratin conjugated gas (374-394) 92 c2nzzA_ Alignment not modelled 98.0 39 peptide; PDBTitle: nmr structure analysis of the penetratin conjugated gas2 (374-394) peptide PDB header:sugar binding, dna binding protein Chain: A: PDB Molecule:maltose binding-a1 homeodomain protein 93 c1mh3A_ Alignment not modelled 98.0 27 chimera; PDBTitle: maltose binding-a1 homeodomain protein chimera, crystal2 form i Fold:DNA/RNA-binding 3-helical bundle 94 d1wh7a_ Alignment not modelled 96.6 15 Superfamily:Homeodomain-like Family:Homeodomain

Fold:DNA/RNA-binding 3-helical bundle 95 d1wi3a_ Alignment not modelled 96.4 26 Superfamily:Homeodomain-like Family:Homeodomain

Fold:lambda repressor-like DNA-binding domains 96 d1wh8a_ Alignment 95.8 17 Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain

Fold:lambda repressor-like DNA-binding domains 97 d1x2la1 Alignment not modelled 95.6 16 Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain

Fold:lambda repressor-like DNA-binding domains 98 d1wh6a_ Alignment not modelled 95.1 13 Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain

Fold:lambda repressor-like DNA-binding domains 99 d1s7ea2 Alignment not modelled 95.0 24 Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain

Fold:DNA/RNA-binding 3-helical bundle 100 d1hlva1 Alignment not modelled 94.7 13 Superfamily:Homeodomain-like Family:Centromere-binding PDB header:dna binding protein Chain: A: PDB Molecule:cg11849-pa; 101 c2elhA_ not modelled 94.5 14 Alignment PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa PDB header:dna binding protein 102 c1yseA_ Alignment not modelled 93.3 13 Chain: A: PDB Molecule:dna-binding protein satb1; PDBTitle: solution structure of the mar-binding domain of satb1

Fold:lambda repressor-like DNA-binding domains 103 d1wiza_ Alignment not modelled 93.1 13 Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain PDB header:dna binding protein/dna Chain: A: PDB Molecule:major centromere autoantigen b; 104 c1hlvA_ not modelled 92.3 13 Alignment PDBTitle: crystal structure of cenp-b(1-129) complexed with the cenp-2 b box dna Fold:lambda repressor-like DNA-binding domains 105 d2o4aa1 Alignment not modelled 91.5 13 Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain PDB header:transcription Chain: A: PDB Molecule: sigma-e factor; 106 c1or7A_ not modelled 91.3 16 Alignment PDBTitle: crystal structure of sigmae with the cytoplasmic2 domain of its anti-sigma rsea PDB header:dna binding protein Chain: A: PDB Molecule:centromere abp1 protein; 107 c1iufA_ not modelled 90.5 17 Alignment PDBTitle: low resolution solution structure of the two dna-binding2 domains in schizosaccharomyces pombe abp1 protein Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase 108 d1smyf2 not modelled 90.4 11 Alignment sigma factors Family:Sigma4 domain Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase 109 d1or7a1 not modelled 90.4 18 Alignment sigma factors Family:Sigma4 domain Fold:DNA/RNA-binding 3-helical bundle 110 d1bw6a_ Alignment not modelled 89.1 13 Superfamily:Homeodomain-like Family:Centromere-binding PDB header:signaling protein Chain: A: PDB Molecule:phyr sigma-like domain; 111 c2lfwA_ not modelled 88.3 9 Alignment PDBTitle: nmr structure of the phyrsl-nepr complex from sphingomonas sp. fr1 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase 112 d1rp3a2 not modelled 87.9 13 Alignment sigma factors Family:Sigma4 domain PDB header:ca-binding protein Chain: A: PDB Molecule:calmodulin, putative; 113 c2ktgA_ Alignment not modelled 86.6 15 PDBTitle: calmodulin like protein from entamoeba histolytica: solution structure2 and calcium binding properties of a partially folded protein PDB header:transcription Chain: A: PDB Molecule:homeobox and protein 114 c2ys9A_ Alignment not modelled 86.5 24 homez; PDBTitle: structure of the third homeodomain from the human homeobox2 and leucine zipper protein, homez PDB header:transcription Chain: G: PDB Molecule:rna polymerase sigma factor sigma-28 115 c1rp3G_ Alignment not modelled 84.0 13 (flia); PDBTitle: cocrystal structure of the flagellar sigma/anti-sigma2 complex, sigma-28/flgm PDB header:rna binding protein Chain: A: PDB Molecule:rna polymerase sigma-h factor; 116 c3mzyA_ not modelled 83.6 14 Alignment PDBTitle: the crystal structure of the rna polymerase sigma-h factor from2 fusobacterium nucleatum to 2.5a Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase 117 d1xsva_ not modelled 82.8 13 Alignment sigma factors Family:YlxM/p13-like Fold:lambda repressor-like DNA-binding domains 118 d2csfa1 Alignment not modelled 82.8 17 Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain PDB header:transcription/membrane protein Chain: A: PDB Molecule:rna polymerase sigma factor; 119 c3hugA_ Alignment not modelled 80.7 6 PDBTitle: crystal structure of mycobacterium tuberculosis anti- sigma factor rsla2 in complex with -35 promoter binding domain of sigl PDB header:unknown function Chain: A: PDB Molecule:is629 orfa; 120 c2rn7A_ not modelled 80.0 24 Alignment PDBTitle: nmr solution structure of tnpe protein from shigella2 flexneri. northeast structural genomics target sfr125