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The map label for this gene is rpoD

Identifier: 45657567

GI number: 45657567

Start: 2067509

End: 2069266

Strand: Reverse

Name: rpoD

Synonym: LIC11701

Alternate gene names: 45657567

Gene position: 2069266-2067509 (Counterclockwise)

Preceding gene: 45657568

Following gene: 45657564

Centisome position: 48.38

GC content: 38.28

Gene sequence:

>1758_bases
ATGGAAAATCTACAAAGTATGCCCGAGGTTCAAAAAATTATTTCCCTCGGAAAAGCAAACGGTGAAGTTTCTTACGATGA
TATTAACGAAATACTTCCCGATAAAATTCTGAACTCGGAAAAGATAGACGATTTTTTTACACTACTGCACGAGATGGGAA
TCGAAATCGTAGAAGAATATACCAGAAACACTCTGGAACCTGCTTCTACTCTCGTTCCTAAAGACGATTCTAAACCAGCT
AGAAAGAAAAAAGAATCCTCCGCTTCTACAAGCGGTTCCGAAGATCCCATCAAACTTTACTTAAGAGAAATCGGTAAGGT
AAGTTTGATTTCCGGTGAAACAGAGGTTTTTTTAGCAAAAAGAATTGAAAAGGGAGAAAAGATTATCGAAGAGACAATCT
TAAGTTCCTCCATTCTCAGAGCGAATTATATTAAACTTTTACCTAAAATTCGAAGTAAGAAGATCAAGGTTTATGATCTG
ATTCGAGTTGATAAAATGTATGCTCTCAACGCAGAAGAGGCTCATAAACTAGAAGAATTATTTTTTAAAAACATTTTAGT
GATTCAAGAACAAGAGAAAGTTCTTCAAGAAGCAGTTTCTAAAATTAGAAAGTATTCTGAAACTTCTAAAAAGTACAAGG
AATTTAAAGAGAAGATAGACGCTTCTACAGAAATCATACACAACGCGATTAGAGAACTTGGAGTTTCCCAAAAAGAAATT
CAAAAAATTTCTCAAAAGATCAAGTCCATGGTTTTTAGAATCAAGGAAATAGATCGTCATTTTTTAAAGATCAAAGCACA
ATATGGTCAAGACGTCCGAGACATCAAAGCGTTTAATCGTTTTATCGAAAAGAATGAAAAGTTAGACGACATCGAAGTCA
AGATGGGAGTCAACATAGACGAGGTTCGAGAAGTTATCAAGGACATCCGAAACAACGAAAGAAAACTTCGTCGTATGGAA
CAAGAAGCTGGCTCCACAGTCCAAGAAATCAAAGACTGGGGCGAAAAAATCATCAAAGGGGAAAGGGAAATTTCCCAAGC
AAAAAAAGAGCTCGTTAAAGCAAATCTTAGACTCGTGGTTTCCATCGCAAAACGTTATGCGAATCGTGGTATGCACTTCT
TCGATTTAATTCAAGAAGGAAACATTGGACTTATCAAAGCGGTAGATAAATTCGAATATAAAAAAGGTTATAAATTTTCC
ACATACGCTACTTGGTGGATTCGCCAGGCAATTACACGTGCAATTTCCGATCAAGCAAGAACGATTCGAGTTCCAGTTCA
CATGATCGAACAAGTCAATAAGGTCATTCGTGAAACCAGATTGTTTATCCAAGAATTTGGACGCGATCCAAATAACGAAG
AGATTGCAGAAAGACTTGGTTGGCCGGTTCAAAAAGTGAAAATGGTTAAGAACGTTGCGAGGGAACCAATTTCTTTGGAA
ATTCCTGTGGGCTCCGAAGAAGATTCGGAATTGGGAGATTTTATTCCAGATACTGAAGTGGAAACTCCTGTAAATGCAGC
GGCGTCCAGTATTTTAGCGGAACAAATTCGCCAAGTGTTACATACTCTTCCCGCGCGCGAACAAAAGGTAATTCGGATGC
GTTTCGGTTTGGACGACGGTTATCCTCAAACGTTGGAAGAAGTAGGCTATCAATTCAAAGTGACAAGAGAGAGGATTCGT
CAGATCGAAGCGAAGGCTCTTCGAAGACTCAGACATCCGTCTCGTTCTAAGAAGCTGAAGGATTATATCGACGGTTGA

Upstream 100 bases:

>100_bases
CCCGAAATTTTTACGGAACTGAGTTTTTACCGTAAAGAAAAAGAAAAGATTCTGGAACATATCCGGAGTCAATCAACCAC
ATAAATTTAGAGGGGTTCGA

Downstream 100 bases:

>100_bases
TTTGTCGGAACTCCGACGGATTGATATTGAAATACAACACTTGTGGGGATTGGTTATGATAGAAAGCGAGATAGTTATGA
CTAACACCTAACGTTTTTTG

Product: RNA polymerase sigma-70 factor

Products: NA

Alternate protein names: NA

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

Protein sequence:

>585_residues
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLVPKDDSKPA
RKKKESSASTSGSEDPIKLYLREIGKVSLISGETEVFLAKRIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDL
IRVDKMYALNAEEAHKLEELFFKNILVIQEQEKVLQEAVSKIRKYSETSKKYKEFKEKIDASTEIIHNAIRELGVSQKEI
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNIDEVREVIKDIRNNERKLRRME
QEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFS
TYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
IPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIR
QIEAKALRRLRHPSRSKKLKDYIDG

Sequences:

>Translated_585_residues
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLVPKDDSKPA
RKKKESSASTSGSEDPIKLYLREIGKVSLISGETEVFLAKRIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDL
IRVDKMYALNAEEAHKLEELFFKNILVIQEQEKVLQEAVSKIRKYSETSKKYKEFKEKIDASTEIIHNAIRELGVSQKEI
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNIDEVREVIKDIRNNERKLRRME
QEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFS
TYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
IPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIR
QIEAKALRRLRHPSRSKKLKDYIDG
>Mature_585_residues
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLVPKDDSKPA
RKKKESSASTSGSEDPIKLYLREIGKVSLISGETEVFLAKRIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDL
IRVDKMYALNAEEAHKLEELFFKNILVIQEQEKVLQEAVSKIRKYSETSKKYKEFKEKIDASTEIIHNAIRELGVSQKEI
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNIDEVREVIKDIRNNERKLRRME
QEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFS
TYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
IPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIR
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

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

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=41.2017167381974, Blast_Score=199, Evalue=6e-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=8e-14,

Paralogues:

None

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

Swissprot (AC and ID): RPOD_LEPIC (P61540)

Other databases:

- EMBL:   AE016823
- RefSeq:   YP_001653.1
- ProteinModelPortal:   P61540
- SMR:   P61540
- GeneID:   2771702
- GenomeReviews:   AE016823_GR
- KEGG:   lic:LIC11701
- HOGENOM:   HBG745096
- OMA:   FRYSSKE
- ProtClustDB:   CLSK574294
- BioCyc:   LINT-130-01:LINT-130-01-001653-MONOMER
- BioCyc:   LINT267671:LIC_11701-MONOMER
- InterPro:   IPR014284
- InterPro:   IPR000943
- InterPro:   IPR009042
- InterPro:   IPR007627
- InterPro:   IPR007624
- InterPro:   IPR007630
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991
- Gene3D:   G3DSA:1.10.10.10
- PRINTS:   PR00046
- TIGRFAMs:   TIGR02393
- TIGRFAMs:   TIGR02937

Pfam domain/function: PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4; SSF88946 Sigma_r2; SSF88659 Sigma_r3_r4

EC number: NA

Molecular weight: Translated: 67874; Mature: 67874

Theoretical pI: Translated: 9.68; Mature: 9.68

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
TRNTLEPASTLVPKDDSKPARKKKESSASTSGSEDPIKLYLREIGKVSLISGETEVFLAK
HHCCCCHHHHCCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHCCEEEECCCHHHHHHH
RIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDLIRVDKMYALNAEEAHKLEEL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
FFKNILVIQEQEKVLQEAVSKIRKYSETSKKYKEFKEKIDASTEIIHNAIRELGVSQKEI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCCHHHH
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNID
HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCEEECCCHH
EVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVV
HHHHHHHHHHCCHHHHHHHHHHHCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH
SIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQAR
HHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCHH
TIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
EEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCEEE
IPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDG
ECCCCCCCCHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCC
YPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYIDG
CHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCC
>Mature Secondary Structure
MENLQSMPEVQKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEY
CCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHH
TRNTLEPASTLVPKDDSKPARKKKESSASTSGSEDPIKLYLREIGKVSLISGETEVFLAK
HHCCCCHHHHCCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHCCEEEECCCHHHHHHH
RIEKGEKIIEETILSSSILRANYIKLLPKIRSKKIKVYDLIRVDKMYALNAEEAHKLEEL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
FFKNILVIQEQEKVLQEAVSKIRKYSETSKKYKEFKEKIDASTEIIHNAIRELGVSQKEI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCCHHHH
QKISQKIKSMVFRIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNEKLDDIEVKMGVNID
HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCEEECCCHH
EVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVV
HHHHHHHHHHCCHHHHHHHHHHHCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH
SIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQAR
HHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCHH
TIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE
EEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCEEE
IPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDG
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