Click here to switch to the map view.

The map label for this gene is rpoN [H]

Identifier: 16766615

GI number: 16766615

Start: 3484410

End: 3485843

Strand: Direct

Name: rpoN [H]

Synonym: STM3320

Alternate gene names: 16766615

Gene position: 3484410-3485843 (Clockwise)

Preceding gene: 16766614

Following gene: 16766616

Centisome position: 71.73

GC content: 54.04

Gene sequence:

>1434_bases
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCAATGACGCCTCAGCTACAACAGGCCATCCGTCTGTTGCA
GTTGTCTACGCTGGAACTTCAGCAGGAACTCCAGCAAGCGCTGGAAAATAACCCGCTGCTTGAGCAAACCGATCTTCATG
ACGAAATCGACACCCAGCAACCTCAGGATAACGATCCTCTCGATACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTTGACGCCAGTTGGGATGAAATTTACACCGCCGGGACGCCGTCCGGCCCCAGCGGCGATTATATCGACGA
TGAGCTGCCCGTCTATCAGGGCGAAACGACGCAGTCGTTGCAGGATTATCTGATGTGGCAGGTTGAGCTAACGCCCTTCT
CGGATACCGATCGCGCTATTGCGACATCCATTGTCGACGCGGTAGATGATACCGGCTATCTCACCGTATCCCTGGACGAA
ATTCGCGAAAGCATGGGCGATGTAGAGGTGGATCTCGATGAGGTTGAAGCCGTTCTGAAGCGCATTCAGCGTTTTGATCC
GGTAGGCGTCGCGGCAAAAGATCTTCGCGACTGTCTGCTGATCCAGCTTTCACAATTCGACAAATCCACGCCGTGGCTGG
AAGAGGCGCGGCTCATTATCTGCGATCATCTTGATCTGCTGGCCAACCACGATTTCCGCACGTTGATGCGCGTTACCCGA
CTAAAAGAAGAGGTGCTGAAAGAGGCGGTAAACCTGATTCAGTCGCTCGATCCCAGACCCGGTCAATCGATCCAGACCGG
CGAGCCGGAGTACGTTATCCCGGATGTGCTGGTACGCAAGCATAACGGTCGCTGGACGGTGGAGCTTAATAGCGACAGTA
TTCCCCGTTTACAGATTAACCAGCACTATGCCGCCATGTGCAATAGCGCGCGCAACGATGCCGACAGCCAGTTCATCCGC
AGTAATTTACAGGATGCGAAATGGCTGATAAAAAGCCTTGAAAGCCGTAACGACACGCTGCTGCGCGTCAGTCGCTGCAT
CGTCGAGCAACAGCAAGCCTTTTTTGAACAGGGCGAAGAATATATGAAACCGATGGTACTGGCGGATATCGCCCAGGCCG
TCGAGATGCACGAATCCACCATATCCCGCGTGACCACGCAGAAGTATCTGCACAGCCCGCGCGGTATTTTTGAACTCAAA
TATTTCTTTTCCAGCCACGTCAATACCGAAGGCGGAGGCGAAGCCTCTTCCACCGCGATTCGCGCGCTGGTGAAGAAGTT
AATTGCGGCGGAAAACCCCGCGAAACCACTGAGCGACAGCAAGTTAACCTCTCTGCTGTCAGAACAAGGTATCATGGTGG
CGCGCCGCACTGTTGCGAAGTACCGAGAGTCTTTATCCATTCCGCCGTCAAACCAACGCAAACAGCTGGTTTGA

Upstream 100 bases:

>100_bases
TGCAAGACGAACACGTTAAGCGTGTATATCTTGGGGAAGACTTCAGACTCTGATAGGGTAGAGGGCTATGCTGCTCTAGC
GGGAGAAAACGACTCTGAAT

Downstream 100 bases:

>100_bases
CCCAACCGATAAGGAAGACACTATGCAGCTCAATATCACCGGACATAATGTCGAAATTACTGAAGCCCTGCGTGAATTTG
TGACGACAAAATTCGCCAAA

Product: RNA polymerase factor sigma-54

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 477; Mature: 477

Protein sequence:

>477_residues
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQPQDNDPLDTADALEQKEMPE
ELPLDASWDEIYTAGTPSGPSGDYIDDELPVYQGETTQSLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVSLDE
IRESMGDVEVDLDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKSTPWLEEARLIICDHLDLLANHDFRTLMRVTR
LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNSDSIPRLQINQHYAAMCNSARNDADSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Sequences:

>Translated_477_residues
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQPQDNDPLDTADALEQKEMPE
ELPLDASWDEIYTAGTPSGPSGDYIDDELPVYQGETTQSLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVSLDE
IRESMGDVEVDLDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKSTPWLEEARLIICDHLDLLANHDFRTLMRVTR
LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNSDSIPRLQINQHYAAMCNSARNDADSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV
>Mature_477_residues
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQPQDNDPLDTADALEQKEMPE
ELPLDASWDEIYTAGTPSGPSGDYIDDELPVYQGETTQSLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVSLDE
IRESMGDVEVDLDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKSTPWLEEARLIICDHLDLLANHDFRTLMRVTR
LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNSDSIPRLQINQHYAAMCNSARNDADSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is responsible for the expression of enzymes involved in arginine catabolism. The open complex (sigma-

COG id: COG1508

COG function: function code K; DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the sigma-54 factor family [H]

Homologues:

Organism=Escherichia coli, GI1789594, Length=477, Percent_Identity=93.9203354297694, Blast_Score=920, Evalue=0.0,

Paralogues:

None

Copy number: 70 (log & stationary phase) [C]

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR000394
- InterPro:   IPR007046
- InterPro:   IPR007634 [H]

Pfam domain/function: PF00309 Sigma54_AID; PF04963 Sigma54_CBD; PF04552 Sigma54_DBD [H]

EC number: NA

Molecular weight: Translated: 53989; Mature: 53989

Theoretical pI: Translated: 4.38; Mature: 4.38

Prosite motif: PS00717 SIGMA54_1 ; PS00718 SIGMA54_2 ; PS50044 SIGMA54_3

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
2.3 %Met     (Translated Protein)
3.1 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
2.3 %Met     (Mature Protein)
3.1 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQ
CCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCC
PQDNDPLDTADALEQKEMPEELPLDASWDEIYTAGTPSGPSGDYIDDELPVYQGETTQSL
CCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHEECCCCCCCCCCCCCCCCCCCCCCHHHHH
QDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVSLDEIRESMGDVEVDLDEVEAVLK
HHHHEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEHHHHHHHHCCCEECHHHHHHHHH
RIQRFDPVGVAAKDLRDCLLIQLSQFDKSTPWLEEARLIICDHLDLLANHDFRTLMRVTR
HHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHCHHHHHHHHHHHHCCCHHHHHHHHH
LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNSDSIPRLQIN
HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEECCHHHHEECCCEEEEEECCCCCCEEEEC
QHYAAMCNSARNDADSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE
HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCHHHHHH
RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV
HHHHHHHHHCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCCCCCCC
>Mature Secondary Structure
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQ
CCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCC
PQDNDPLDTADALEQKEMPEELPLDASWDEIYTAGTPSGPSGDYIDDELPVYQGETTQSL
CCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHEECCCCCCCCCCCCCCCCCCCCCCHHHHH
QDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVSLDEIRESMGDVEVDLDEVEAVLK
HHHHEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEHHHHHHHHCCCEECHHHHHHHHH
RIQRFDPVGVAAKDLRDCLLIQLSQFDKSTPWLEEARLIICDHLDLLANHDFRTLMRVTR
HHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHCHHHHHHHHHHHHCCCHHHHHHHHH
LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNSDSIPRLQIN
HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEECCHHHHEECCCEEEEEECCCCCCEEEEC
QHYAAMCNSARNDADSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE
HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCHHHHHH
RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV
HHHHHHHHHCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCCCCCCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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: 2203540; 8444818; 8025669; 7876255; 9278503 [H]