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The map label for this gene is rpoD [H]

Identifier: 116328273

GI number: 116328273

Start: 1875873

End: 1877630

Strand: Direct

Name: rpoD [H]

Synonym: LBL_1601

Alternate gene names: 116328273

Gene position: 1875873-1877630 (Clockwise)

Preceding gene: 116328272

Following gene: 116328275

Centisome position: 51.9

GC content: 41.52

Gene sequence:

>1758_bases
ATGGAAAATCTGCAAAGCATGCCTGAGGTTCAGAAGATTATATCTCTTGGAAAGGCAAACGGAGAAGTTTCTTATGATGA
TATCAACGAGATACTTCCCGACAAAATTCTGAACTCAGAAAAGATAGACGATTTTTTTACCCTATTACACGAAATGGGGA
TCGAAATCGTGGAAGAATATACCAGAAATACTCTGGAACCCGCTTCCACTCTTGTTCCTAAAGACGATTCCAAACCGGCG
AGAAAGAAAAAAGAATCCTCCGCGTCCGCGAGCGGTTCCGAAGATCCGATCAAACTTTATTTAAGAGAAATCGGAAAGGT
AAGTCTGATCTCCGGTGAAACCGAGGTCTTTCTTGCAAAAAGAATAGAGAAGGGCGAGAAGATCATCGAAGAGACGATTC
TTAGTTCTTCTATTCTCAGAGCGAACTACATTAAACTTTTACCGAAGATCCGCAGCAAGAAGATCAAAGTTTACGATCTG
ATTCGTGTCGATAAAATGTATGCTTTAAATGCGGAAGAAGCCCATAAGCTTGAGGAATTATTTTTCAAAAATATTCTAGT
AATCCAAGAACAGGAAAAGGTTCTTCAGGAAGCCGTTTCCAAAATTCGAAAGTATTCTGAAACTTCCAAAAAATTCAAAG
AGTTTAAAGAGAAAATAGACGCTTCTACGGAAATCATTCATAACGCGATCCAAGAACTCGGAGTTTCCCAAAAAGAGATT
CAAAAAATTTCCCAAAAAATCAAGTCCATGGTTTTTAGAATCAAGGAAATCGATCGCCACTTTTTGAAAATCAAGGCTCA
GTATGGCCAGGACGTTCGGGATATCAAGGCGTTCAACAGATTTATCGAAAAGAACGAGAAGTTAGACGACATCGAAGTCA
AGATGGGAGTTAACATCGATGAAGTTCGAGAGGTCATCAAAGACATTCGAAACAACGAAAGAAAACTTCGTCGTATGGAA
CAGGAAGCGGGGTCCACAGTTCAAGAAATCAAGGATTGGGGCGAAAAGATTATTAAAGGTGAAAGGGAAATCTCCCAGGC
TAAAAAGGAACTCGTTAAGGCAAATCTCCGACTCGTAGTTTCCATAGCGAAACGTTATGCGAACCGTGGAATGCACTTCT
TTGATTTGATCCAGGAAGGAAACATTGGCCTTATTAAAGCGGTAGATAAGTTTGAGTATAAGAAAGGTTATAAGTTTTCC
ACATACGCAACTTGGTGGATCCGTCAAGCGATCACAAGAGCTATTTCCGATCAAGCTAGAACGATCCGCGTTCCAGTCCA
TATGATCGAACAAGTCAATAAGGTGATTCGTGAAACCAGATTATTCATTCAAGAGTTCGGACGCGATCCAAACAATGAAG
AAATTGCGGAAAGACTCGGTTGGCCGGTTCAAAAAGTAAAGATGGTCAAAAATGTTGCTAGAGAACCGATCTCTCTTGAA
ATTCCCGTCGGTTCGGAAGAGGATTCAGAACTCGGTGATTTTATTCCGGATACGGAAGTGGAAACTCCTGTGAATACCGC
CGCGTCTAGTATCCTTGCGGAGCAGATCCGTCAGGTACTTCATACTTTGCCCGCACGGGAACAAAAAGTGATCCGTATGC
GTTTCGGCTTAGACGACGGTTATCCTCAAACTCTGGAAGAAGTCGGTTATCAATTTAAAGTTACGAGAGAGAGAATCCGT
CAGATCGAAGCAAAAGCGCTTAGAAGACTCAGGCACCCATCTCGTTCTAAGAAGTTGAAGGATTATATCGACGGTTGA

Upstream 100 bases:

>100_bases
CGAAATCTTTACGGAACTGAGTTTCTATCGTAAAGAAAAAGAAAAGATCCTGGAGCATATCCGGAATCAATCGGCTACCA
CATAATTTAGAGGGAATGGA

Downstream 100 bases:

>100_bases
TTTTGATTTGAAAGAATTGAAGTTTTGTCGGAGTTTCTACGATTCTCGGAAGAGAGAATTTTACTTTCAAAAGTAAAAAC
ACAACCAGCGATAAGATGAC

Product: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 585; Mature: 585

Protein sequence:

>585_residues
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLVPKDDSKPA
RKKKESSASASGSEDPIKLYLREIGKVSLISGETEVFLAKRIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDL
IRVDKMYALNAEEAHKLEELFFKNILVIQEQEKVLQEAVSKIRKYSETSKKFKEFKEKIDASTEIIHNAIQELGVSQKEI
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNIDEVREVIKDIRNNERKLRRME
QEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFS
TYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
IPVGSEEDSELGDFIPDTEVETPVNTAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIR
QIEAKALRRLRHPSRSKKLKDYIDG

Sequences:

>Translated_585_residues
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLVPKDDSKPA
RKKKESSASASGSEDPIKLYLREIGKVSLISGETEVFLAKRIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDL
IRVDKMYALNAEEAHKLEELFFKNILVIQEQEKVLQEAVSKIRKYSETSKKFKEFKEKIDASTEIIHNAIQELGVSQKEI
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNIDEVREVIKDIRNNERKLRRME
QEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFS
TYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
IPVGSEEDSELGDFIPDTEVETPVNTAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIR
QIEAKALRRLRHPSRSKKLKDYIDG
>Mature_585_residues
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLVPKDDSKPA
RKKKESSASASGSEDPIKLYLREIGKVSLISGETEVFLAKRIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDL
IRVDKMYALNAEEAHKLEELFFKNILVIQEQEKVLQEAVSKIRKYSETSKKFKEFKEKIDASTEIIHNAIQELGVSQKEI
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNIDEVREVIKDIRNNERKLRRME
QEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFS
TYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
IPVGSEEDSELGDFIPDTEVETPVNTAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIR
QIEAKALRRLRHPSRSKKLKDYIDG

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium [H]

COG id: COG0568

COG function: function code K; DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the sigma-70 factor family [H]

Homologues:

Organism=Escherichia coli, GI1789448, Length=618, Percent_Identity=39.1585760517799, Blast_Score=397, Evalue=1e-111,
Organism=Escherichia coli, GI1789098, Length=233, Percent_Identity=41.6309012875536, Blast_Score=201, Evalue=1e-52,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=30.1652892561983, Blast_Score=91, Evalue=2e-19,
Organism=Escherichia coli, GI1788231, Length=236, Percent_Identity=26.6949152542373, Blast_Score=72, Evalue=9e-14,

Paralogues:

None

Copy number: 700 (log & stationary phase) [C]

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR014284
- InterPro:   IPR000943
- InterPro:   IPR009042
- InterPro:   IPR007627
- InterPro:   IPR007624
- InterPro:   IPR007630
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 67830; Mature: 67830

Theoretical pI: Translated: 9.64; Mature: 9.64

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
1.9 %Met     (Translated Protein)
1.9 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
1.9 %Met     (Mature Protein)
1.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEY
CCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHH
TRNTLEPASTLVPKDDSKPARKKKESSASASGSEDPIKLYLREIGKVSLISGETEVFLAK
HHCCCCHHHHCCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHCCEEEECCCHHHHHHH
RIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDLIRVDKMYALNAEEAHKLEEL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
FFKNILVIQEQEKVLQEAVSKIRKYSETSKKFKEFKEKIDASTEIIHNAIQELGVSQKEI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCCHHHH
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNID
HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCEEECCCHH
EVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVV
HHHHHHHHHHCCHHHHHHHHHHHCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH
SIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQAR
HHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCHH
TIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
EEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCEEE
IPVGSEEDSELGDFIPDTEVETPVNTAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDG
ECCCCCCCCHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCC
YPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYIDG
CHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCC
>Mature Secondary Structure
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEY
CCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHH
TRNTLEPASTLVPKDDSKPARKKKESSASASGSEDPIKLYLREIGKVSLISGETEVFLAK
HHCCCCHHHHCCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHCCEEEECCCHHHHHHH
RIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDLIRVDKMYALNAEEAHKLEEL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
FFKNILVIQEQEKVLQEAVSKIRKYSETSKKFKEFKEKIDASTEIIHNAIQELGVSQKEI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCCHHHH
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNID
HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCEEECCCHH
EVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVV
HHHHHHHHHHCCHHHHHHHHHHHCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH
SIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQAR
HHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCHH
TIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
EEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCEEE
IPVGSEEDSELGDFIPDTEVETPVNTAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDG
ECCCCCCCCHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCC
YPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYIDG
CHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: DNA [C]

Specific reaction: Protein + DNA = Protein-DNA [C]

General reaction: NA

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: NA