Click here to switch to the map view.

The map label for this gene is rpoD4 [H]

Identifier: 126697226

GI number: 126697226

Start: 1616615

End: 1617634

Strand: Direct

Name: rpoD4 [H]

Synonym: P9301_18881

Alternate gene names: 126697226

Gene position: 1616615-1617634 (Clockwise)

Preceding gene: 126697225

Following gene: 126697227

Centisome position: 98.46

GC content: 38.73

Gene sequence:

>1020_bases
ATGGGGATCCCTCTGGAATCTGCAAAAAGCTCTTCAGATAATAATTTTGATGAGCCAAGATTACCAAACACTGCGGGCAA
GTCTCGCAAATCGAAATCCAGTCTTACGGCAAAACAAAGCCAAAAAAAATCTGGCAGACTCGCTTCAGATTCTATTGGCT
ATTACTTAAGTAGCATTGGAAGAGTACCTCTTTTGACTCCAGCAGAGGAAATAGAGTTAGCTCATCATGTTCAGAACATG
AAAAAGTTGCTACAGATTCCTGAAACTGATAGAACCCAACGAAATCTTTATCAAATTAAGATTGGCAAAAGAGCAAGAGA
TAGAATGATGGCAGCTAATCTAAGACTCGTTGTCTCGGTTGCAAAAAAATACCAAAACCAAGGGCTTGAATTATTAGATC
TTGTCCAGGAAGGAGCTATTGGCCTTGAAAGAGCTGTAGATAAATTTGATCCTGCTATGGGATATAAATTCTCAACTTAT
GCTTACTGGTGGATTAGACAAGGAATGACGAGGGCAATTGATAATAGTGCTAGAACGATCCGTTTGCCTATTCACATAAG
TGAAAAACTGTCCAAAATGAGAAGAGTCTCTAGAGAATTATCACATAAATTTGGCAGACAACCTACAAGATTGGAAATGG
CAACTGAGATGGGAATTGATCAAAAAGATTTAGAAGATTTAATTTCTCAAAGTGCTCCATGCGCCTCCCTAGATGCACAT
GCAAGAGGGGAAGAAGACAGAAGTACTCTTGGTGAACTCATACCTGATCCAAACTGTGAAGAGCCTATGGAGGGTATGGA
TAGAACTATTCAAAAGGAGCATTTAGGAACTTGGCTTTCTCAATTAAATGAAAGAGAGCAAAAAATCATGAAGCTAAGGT
TTGGGCTAGATGGTGAAGAACCATTAACACTCGCAGAAATAGGAAGACAAATTAATGTTTCACGAGAAAGAGTAAGGCAA
CTAGAAGCTAAAGCAATATTAAAGCTTCGAGTAATGACGACTCATCAAAAAGCAGCTTAA

Upstream 100 bases:

>100_bases
AAAAAAAATTTTTGTCTTTAAAATTTCAACGCAAAAGTAGTTTTTATTCCAATTTCAGTGCTAGCTTTTTAAAAAATCCA
TTATTTAGGAGGCCAGGGTG

Downstream 100 bases:

>100_bases
TCAAATTGATAAAATTTACTGTAATCTTATTATATTTATTTTCAATTTTTTTAATATCAATAGTTTTTAAAAAATATAAT
GAAGGTAGCAGAGAAATCGT

Product: type II alternative sigma-70 family RNA polymerase sigma factor

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 339; Mature: 338

Protein sequence:

>339_residues
MGIPLESAKSSSDNNFDEPRLPNTAGKSRKSKSSLTAKQSQKKSGRLASDSIGYYLSSIGRVPLLTPAEEIELAHHVQNM
KKLLQIPETDRTQRNLYQIKIGKRARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTY
AYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDLEDLISQSAPCASLDAH
ARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNEREQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQ
LEAKAILKLRVMTTHQKAA

Sequences:

>Translated_339_residues
MGIPLESAKSSSDNNFDEPRLPNTAGKSRKSKSSLTAKQSQKKSGRLASDSIGYYLSSIGRVPLLTPAEEIELAHHVQNM
KKLLQIPETDRTQRNLYQIKIGKRARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTY
AYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDLEDLISQSAPCASLDAH
ARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNEREQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQ
LEAKAILKLRVMTTHQKAA
>Mature_338_residues
GIPLESAKSSSDNNFDEPRLPNTAGKSRKSKSSLTAKQSQKKSGRLASDSIGYYLSSIGRVPLLTPAEEIELAHHVQNMK
KLLQIPETDRTQRNLYQIKIGKRARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYA
YWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDLEDLISQSAPCASLDAHA
RGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNEREQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQL
EAKAILKLRVMTTHQKAA

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released [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=229, Percent_Identity=44.9781659388646, Blast_Score=209, Evalue=3e-55,
Organism=Escherichia coli, GI1789098, Length=287, Percent_Identity=37.6306620209059, Blast_Score=197, Evalue=8e-52,
Organism=Escherichia coli, GI1789871, Length=238, Percent_Identity=28.5714285714286, Blast_Score=86, Evalue=3e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.2178217821782, Blast_Score=74, Evalue=2e-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:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR017848
- InterPro:   IPR011991 [H]

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

EC number: NA

Molecular weight: Translated: 38450; Mature: 38319

Theoretical pI: Translated: 10.04; Mature: 10.04

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.6 %Cys     (Translated Protein)
3.8 %Met     (Translated Protein)
4.4 %Cys+Met (Translated Protein)
0.6 %Cys     (Mature Protein)
3.6 %Met     (Mature Protein)
4.1 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MGIPLESAKSSSDNNFDEPRLPNTAGKSRKSKSSLTAKQSQKKSGRLASDSIGYYLSSIG
CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCC
RVPLLTPAEEIELAHHVQNMKKLLQIPETDRTQRNLYQIKIGKRARDRMMAANLRLVVSV
CCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHCEEEEEECHHHHHHHHHHHHHHHHHH
AKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTI
HHHHHHCCHHHHHHHHHCCHHHHHHHHHHCHHCCCCHHHHHHHHHHHHHHHHHCCCCCEE
RLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDLEDLISQSAPCASLDAH
EEEEEHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCCCCHH
ARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNEREQKIMKLRFGLDGEE
CCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
PLTLAEIGRQINVSRERVRQLEAKAILKLRVMTTHQKAA
CEEHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCC
>Mature Secondary Structure 
GIPLESAKSSSDNNFDEPRLPNTAGKSRKSKSSLTAKQSQKKSGRLASDSIGYYLSSIG
CCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCC
RVPLLTPAEEIELAHHVQNMKKLLQIPETDRTQRNLYQIKIGKRARDRMMAANLRLVVSV
CCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHCEEEEEECHHHHHHHHHHHHHHHHHH
AKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTI
HHHHHHCCHHHHHHHHHCCHHHHHHHHHHCHHCCCCHHHHHHHHHHHHHHHHHCCCCCEE
RLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDLEDLISQSAPCASLDAH
EEEEEHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCCCCHH
ARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNEREQKIMKLRFGLDGEE
CCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
PLTLAEIGRQINVSRERVRQLEAKAILKLRVMTTHQKAA
CEEHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCC

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: 10.0

TargetDB status: NA

Availability: NA

References: NA