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The map label for this gene is rpoD [H]

Identifier: 93005952

GI number: 93005952

Start: 1353403

End: 1355349

Strand: Reverse

Name: rpoD [H]

Synonym: Pcryo_1124

Alternate gene names: 93005952

Gene position: 1355349-1353403 (Counterclockwise)

Preceding gene: 93005953

Following gene: 93005951

Centisome position: 44.29

GC content: 46.79

Gene sequence:

>1947_bases
ATGTCCGATGCAAGTAAGCGAGTATTTATGAACGATAAGTCAGTTTCTAAGTCCACATCTCAACTGGCCACCTTAATCCA
AATGGGTAAAGAGCAAGGGTATTTAACCTATGCTGAGGTGAATGACCAACTGCCCGACTCTATTACCGAAAGCGATCAGA
TCGAAGATATTGTACAAATGCTAACCGACGTTGGCATCAAAATCTTTGAATCTGCGCCTGATGCCGATGACATCTTGATG
AACGATGATTCAAGTGATGATGACATGGCAGCGGATGAGGCAGCAGCGGTACTAGCTTCTGTTGAGACCGAACCTGGTCG
CACCACTGACCCTGTGCGTATGTATATGCGTGAGATGGGTACGGTTGATCTATTAACGCGCGAAGGCGAGATTGCCATTG
CCAAGCGTATCGAAGAAGGCATTCGTGACGTACAGCATGCCATGTCTTACTGGCCGGGTACGGTACAATTCGTCCTTGAC
GAGTACCAAAAAGTCCAAGATGGCGAAAAAAAGCTTTCTGACGTTATCACTGGTTTCTTAGACCCTGAAACCGAAGAAGA
CAAAATCGCTGCTCAAGAAGCCAAAGAAGCGGCGAAGGAAGAACGCGAGCGCATCAAAGAAGAAAAAGAAAACCCGCCGA
TCATCAAAGAAAAAGCCAAAGTAAAATCTGGGCTTGATGATGACGAGGAGGACGACGAGGAAGTGGAAGAGGACGCTGAA
GAAGAAACCAGCGGTATCGATCCAGAAGAAGTGCGCTTGCGTCTAGAAGAGATCGAGCATCTATTTATTAAAGCCAAGCA
AGCCTTACTTGATTATGGTCGTGGTAGTGCACAAGCCAATGAAGCTTATGAGCAGCTGGCTAGCCGCTTTATGATGCTAA
AGCTGAATAACCGTCTATCTGATCAAGTCATGGCTATTATGCATGATGTCTATGATGACGTGCGTAAGCATGAGCGTCAA
ATCATGCGCTTGGTGATTCGCCGTGGTCGTATGCCGCGCGAAGAGTTCCGTAAGACTTTTCCAAGTAATGAAACCAACGT
TGATTGGTTGATTGAGCGTATTAAAGGTAAGCCTGCTTTTGCTGCCACGTTAGAGAAAGTCGCCGACGATGTTATCTTGT
TACAACGTGCTATCCGTGATTACGAGCATAAGCTCGAGATGGAAATCCACGACATGAAAGATGTGGCGCGCCGTATGGCT
ATTGGTGAAGCCAAAGCCCGCCGTGCCAAAAAAGAGATGGTCGAGGCTAACTTACGTCTCGTTATCTCAATTGCCAAAAA
ATATACAAACCGTGGTCTACAGTTCTTGGATCTGATCCAAGAAGGTAATATCGGTCTGATGAAAGCCGTCGATAAATTTG
AATATCGCCGTGGTTATAAGTTCTCGACTTATGCCACATGGTGGATTCGTCAGGCAATCACCCGCTCTATCGCTGACCAA
GCACGTACCATCCGTATCCCTGTGCATATGATTGAGACGATTAATAAGATCAATCGTGTCTCTCGTCAATTGCTACAAGA
AATGGGACGCGAGCCAACGCCTGAGGAATTAGGCGAACGCTTAGAGATGGACGAAGCCAAAGTCCGTAAAGTACTAAAAA
TCGCCAAAGAGCCTATCTCAATGGAAACCCCTATCGGTGATGATGAAGACTCACACCTAGGTGATTTTATCGAAGATGGT
ACGATCTCAAGCCCTGTTGACGATGCGACGGCTGCGGGTCTACGTGAAGCGACGCGTGATGTATTGGGCAACTTGACTGA
GCGTGAAGCACGCGTGCTCAAAATGCGTTTTGGTATCGATATGCCGACCGACCATACTTTGGAAGAAGTTGGTAAGCAGT
TTGATGTGACGCGTGAGCGTATTCGTCAGATTGAAGCAAAAGCCTTGCGTAAATTGCGTCATCCATCACGCTCTGAGCAT
CTGCGCTCTTTCCTTGAAAATGACTGA

Upstream 100 bases:

>100_bases
ACTCATTTTTGATATTATTGACTACCTTTACGCCATATTTTGATCAATCGATTGATAAGATCAACGCACCCAGCGAGCGA
TAGCCAGTCACAATATAAAA

Downstream 100 bases:

>100_bases
TAAGCCCCCTATAAAGACAGTAGCTTTTTAGCATACTGTCTTTATATATCGCAGAGTATATGAGCCTAAAAGCTGAGCGC
GTCTCAGCTTTTTTGTGGTT

Product: sigma 70 (RpoD)

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 648; Mature: 647

Protein sequence:

>648_residues
MSDASKRVFMNDKSVSKSTSQLATLIQMGKEQGYLTYAEVNDQLPDSITESDQIEDIVQMLTDVGIKIFESAPDADDILM
NDDSSDDDMAADEAAAVLASVETEPGRTTDPVRMYMREMGTVDLLTREGEIAIAKRIEEGIRDVQHAMSYWPGTVQFVLD
EYQKVQDGEKKLSDVITGFLDPETEEDKIAAQEAKEAAKEERERIKEEKENPPIIKEKAKVKSGLDDDEEDDEEVEEDAE
EETSGIDPEEVRLRLEEIEHLFIKAKQALLDYGRGSAQANEAYEQLASRFMMLKLNNRLSDQVMAIMHDVYDDVRKHERQ
IMRLVIRRGRMPREEFRKTFPSNETNVDWLIERIKGKPAFAATLEKVADDVILLQRAIRDYEHKLEMEIHDMKDVARRMA
IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ
ARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEAKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDG
TISSPVDDATAAGLREATRDVLGNLTEREARVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEH
LRSFLEND

Sequences:

>Translated_648_residues
MSDASKRVFMNDKSVSKSTSQLATLIQMGKEQGYLTYAEVNDQLPDSITESDQIEDIVQMLTDVGIKIFESAPDADDILM
NDDSSDDDMAADEAAAVLASVETEPGRTTDPVRMYMREMGTVDLLTREGEIAIAKRIEEGIRDVQHAMSYWPGTVQFVLD
EYQKVQDGEKKLSDVITGFLDPETEEDKIAAQEAKEAAKEERERIKEEKENPPIIKEKAKVKSGLDDDEEDDEEVEEDAE
EETSGIDPEEVRLRLEEIEHLFIKAKQALLDYGRGSAQANEAYEQLASRFMMLKLNNRLSDQVMAIMHDVYDDVRKHERQ
IMRLVIRRGRMPREEFRKTFPSNETNVDWLIERIKGKPAFAATLEKVADDVILLQRAIRDYEHKLEMEIHDMKDVARRMA
IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ
ARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEAKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDG
TISSPVDDATAAGLREATRDVLGNLTEREARVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEH
LRSFLEND
>Mature_647_residues
SDASKRVFMNDKSVSKSTSQLATLIQMGKEQGYLTYAEVNDQLPDSITESDQIEDIVQMLTDVGIKIFESAPDADDILMN
DDSSDDDMAADEAAAVLASVETEPGRTTDPVRMYMREMGTVDLLTREGEIAIAKRIEEGIRDVQHAMSYWPGTVQFVLDE
YQKVQDGEKKLSDVITGFLDPETEEDKIAAQEAKEAAKEERERIKEEKENPPIIKEKAKVKSGLDDDEEDDEEVEEDAEE
ETSGIDPEEVRLRLEEIEHLFIKAKQALLDYGRGSAQANEAYEQLASRFMMLKLNNRLSDQVMAIMHDVYDDVRKHERQI
MRLVIRRGRMPREEFRKTFPSNETNVDWLIERIKGKPAFAATLEKVADDVILLQRAIRDYEHKLEMEIHDMKDVARRMAI
GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA
RTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEAKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDGT
ISSPVDDATAAGLREATRDVLGNLTEREARVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHL
RSFLEND

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=628, Percent_Identity=59.0764331210191, Blast_Score=694, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=246, Percent_Identity=41.4634146341463, Blast_Score=202, Evalue=5e-53,
Organism=Escherichia coli, GI1789871, Length=240, Percent_Identity=28.3333333333333, Blast_Score=83, Evalue=5e-17,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=29.2079207920792, Blast_Score=72, Evalue=1e-13,

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:   IPR007631
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF04546 Sigma70_ner; PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 74339; Mature: 74208

Theoretical pI: Translated: 4.65; Mature: 4.65

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
4.2 %Met     (Translated Protein)
4.2 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
4.0 %Met     (Mature Protein)
4.0 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSDASKRVFMNDKSVSKSTSQLATLIQMGKEQGYLTYAEVNDQLPDSITESDQIEDIVQM
CCCCCCCEEECCCHHHHHHHHHHHHHHHHHCCCCEEEEHHCCCCCCCCCCHHHHHHHHHH
LTDVGIKIFESAPDADDILMNDDSSDDDMAADEAAAVLASVETEPGRTTDPVRMYMREMG
HHHCCHHHHCCCCCCCCEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCC
TVDLLTREGEIAIAKRIEEGIRDVQHAMSYWPGTVQFVLDEYQKVQDGEKKLSDVITGFL
CHHEEECCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC
DPETEEDKIAAQEAKEAAKEERERIKEEKENPPIIKEKAKVKSGLDDDEEDDEEVEEDAE
CCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHH
EETSGIDPEEVRLRLEEIEHLFIKAKQALLDYGRGSAQANEAYEQLASRFMMLKLNNRLS
HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCHHH
DQVMAIMHDVYDDVRKHERQIMRLVIRRGRMPREEFRKTFPSNETNVDWLIERIKGKPAF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHHHCCCCHH
AATLEKVADDVILLQRAIRDYEHKLEMEIHDMKDVARRMAIGEAKARRAKKEMVEANLRL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ
HHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
ARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEAKVRKVLKIAKEPIS
HHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCC
METPIGDDEDSHLGDFIEDGTISSPVDDATAAGLREATRDVLGNLTEREARVLKMRFGID
CCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCC
MPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEND
CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCC
>Mature Secondary Structure 
SDASKRVFMNDKSVSKSTSQLATLIQMGKEQGYLTYAEVNDQLPDSITESDQIEDIVQM
CCCCCCEEECCCHHHHHHHHHHHHHHHHHCCCCEEEEHHCCCCCCCCCCHHHHHHHHHH
LTDVGIKIFESAPDADDILMNDDSSDDDMAADEAAAVLASVETEPGRTTDPVRMYMREMG
HHHCCHHHHCCCCCCCCEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCC
TVDLLTREGEIAIAKRIEEGIRDVQHAMSYWPGTVQFVLDEYQKVQDGEKKLSDVITGFL
CHHEEECCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC
DPETEEDKIAAQEAKEAAKEERERIKEEKENPPIIKEKAKVKSGLDDDEEDDEEVEEDAE
CCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHH
EETSGIDPEEVRLRLEEIEHLFIKAKQALLDYGRGSAQANEAYEQLASRFMMLKLNNRLS
HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCHHH
DQVMAIMHDVYDDVRKHERQIMRLVIRRGRMPREEFRKTFPSNETNVDWLIERIKGKPAF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHHHCCCCHH
AATLEKVADDVILLQRAIRDYEHKLEMEIHDMKDVARRMAIGEAKARRAKKEMVEANLRL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ
HHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
ARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEAKVRKVLKIAKEPIS
HHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCC
METPIGDDEDSHLGDFIEDGTISSPVDDATAAGLREATRDVLGNLTEREARVLKMRFGID
CCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCC
MPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEND
CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCC

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: 11677608; 12644504 [H]