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The map label for this gene is nifA [H]

Identifier: 39998122

GI number: 39998122

Start: 3337484

End: 3339019

Strand: Direct

Name: nifA [H]

Synonym: GSU3031

Alternate gene names: 39998122

Gene position: 3337484-3339019 (Clockwise)

Preceding gene: 39998119

Following gene: 39998130

Centisome position: 87.5

GC content: 61.85

Gene sequence:

>1536_bases
TTGACATTTAATGCATACATACTATACATAAAATGCATGACGCGTTTAACAGCCATCCTGCATTCCGAGCGTGAGTTTTT
CAGCCGGGTCGCCCGGGCCGCCTTTCTCAACCCCTTCAGCGAAAGCCGGGATGAGCTTGACCAGTCCCTGGCCGGAAACG
ATGTCGACCGCAAAGGCGCGCTGGATGCCGCCATAGCCCGCGTGGCGGACCGCTCCGCCGCCCTGCGGGAAGCCCTGAGC
GGCAGTCTGACCCGCGTCCCAGTCTCAGAGAGGGAAACGATACGAACGGTGCTCCTCTTTGATCTGTACCACCGTTTTCT
CGACGATTTCGACCGGCTGATCCGCGACCAGGCCGCGGCCGGCGACACGCCCTGCCCCGTCCCCTTTGCCGGGAAATTCC
AAGCCGCATTCGACGAGGCGGGATTCCCGGGTGGTGAAAGTCGCCGCTATCTTGCCCTCTTCTACCAGATTCGCCGGGCC
TTTTACTTCATCCGCGAGGGACTTGCCGGCTCCAGCGCTTCCCTGCGGCGGGTGCGCGAACATCTCTGGCAGACCCTTTT
CACCCACAACATCCGTTGGTTCGAGCAGCATCTCTGGGACCGCATGGAGGACTTTTCCGTTCTGATCCTCGGGGAGACCG
GCACCGGCAAGGGCACAGCTGCTGCGGCCATCGGCCGTTCGGGGTTCATCCCCTTTGACCCGGGAAGCGGCCGGTTCAGC
GAGAGTTTCACCCGCAACTTTCTGGCGGTGAACCTGTCCCAGTACCCGGAGGGAATTCTGGAGTCAGAGCTCTTCGGCCA
CCGGAAGGGAGCCTTTACCGGTGCCATTGACCACCACGAGGGTGTCTTCAGTCGTTGCACTCCCCACGGCGCCATATTCC
TGGACGAGATAGGCGAGGTTTCACTGCCGGTACAGGTAAAACTTCTACAAGTGGTGCAAGAGCGGATTTTCTCCCCCGTG
GGAAGTCACCAGCGGCTCCGCTTCAGCGGACGGCTCATCGCGGCCACCAATCGAGACCTGACCCGCCTGCGCCAAGAGGG
AGCGTTCAGGGATGACTTCTACTACCGTCTTTGTTCGGATGTCATCACCATTCCGCCTTTACGGCAGCGGGTACGGGAGC
GCCCCGAGGAACTGAACGAGCTCATCGCTGGCATCCTCCGCCGACTGGCGGGTGCTGCTCCGGACAAGGAGGTACAAGTG
CTGCGTCGGGCCATCGAGCGCGATGTGGGGAAAGAGTATCACTGGCCGGGGAATGTGCGGGAACTGGAGCAGGCGGTACG
GCGGGTGCTGGTGACGGGACACTACCGGGGTGAGGCGAAACCGGAACCGGCCGGTGACTTGCCGCGGTATCTCAAAGAGG
CGGCAGAGAGGGAGTGTGACGCTCAGGAACTGCTGGCAGGATATTGTCGCCTGCTCTATGAACGCCACGGGACTTTCGAG
GAGGTGGCGAGGCGGGCCAATCTCGACCGGAGAACCGTGAAAAAGTACCTGCAGCGGGAGCAGTGCGCCCGCGGCGATAA
TCGTGGCCGGCCCTAG

Upstream 100 bases:

>100_bases
GCCGGGAATGTGCCAAGCCCCCCATGCACTAGATTCTATCATCCTGTCAAGAGGTTAGCTCCTGCAGCTCCGAAGCCGGG
GCACTTTTCCACGAGCCATA

Downstream 100 bases:

>100_bases
ACCGGGCGCCCGAAAATCTCTGCAATCACCTTCTGCATCCGGTGCCCGTAGGTGTGCTCGCCAAGCACTCTGCACCGGGC
ACGTTCCGCGATCTCCCGTC

Product: sigma-54 dependent transcriptional regulator

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 511; Mature: 510

Protein sequence:

>511_residues
MTFNAYILYIKCMTRLTAILHSEREFFSRVARAAFLNPFSESRDELDQSLAGNDVDRKGALDAAIARVADRSAALREALS
GSLTRVPVSERETIRTVLLFDLYHRFLDDFDRLIRDQAAAGDTPCPVPFAGKFQAAFDEAGFPGGESRRYLALFYQIRRA
FYFIREGLAGSSASLRRVREHLWQTLFTHNIRWFEQHLWDRMEDFSVLILGETGTGKGTAAAAIGRSGFIPFDPGSGRFS
ESFTRNFLAVNLSQYPEGILESELFGHRKGAFTGAIDHHEGVFSRCTPHGAIFLDEIGEVSLPVQVKLLQVVQERIFSPV
GSHQRLRFSGRLIAATNRDLTRLRQEGAFRDDFYYRLCSDVITIPPLRQRVRERPEELNELIAGILRRLAGAAPDKEVQV
LRRAIERDVGKEYHWPGNVRELEQAVRRVLVTGHYRGEAKPEPAGDLPRYLKEAAERECDAQELLAGYCRLLYERHGTFE
EVARRANLDRRTVKKYLQREQCARGDNRGRP

Sequences:

>Translated_511_residues
MTFNAYILYIKCMTRLTAILHSEREFFSRVARAAFLNPFSESRDELDQSLAGNDVDRKGALDAAIARVADRSAALREALS
GSLTRVPVSERETIRTVLLFDLYHRFLDDFDRLIRDQAAAGDTPCPVPFAGKFQAAFDEAGFPGGESRRYLALFYQIRRA
FYFIREGLAGSSASLRRVREHLWQTLFTHNIRWFEQHLWDRMEDFSVLILGETGTGKGTAAAAIGRSGFIPFDPGSGRFS
ESFTRNFLAVNLSQYPEGILESELFGHRKGAFTGAIDHHEGVFSRCTPHGAIFLDEIGEVSLPVQVKLLQVVQERIFSPV
GSHQRLRFSGRLIAATNRDLTRLRQEGAFRDDFYYRLCSDVITIPPLRQRVRERPEELNELIAGILRRLAGAAPDKEVQV
LRRAIERDVGKEYHWPGNVRELEQAVRRVLVTGHYRGEAKPEPAGDLPRYLKEAAERECDAQELLAGYCRLLYERHGTFE
EVARRANLDRRTVKKYLQREQCARGDNRGRP
>Mature_510_residues
TFNAYILYIKCMTRLTAILHSEREFFSRVARAAFLNPFSESRDELDQSLAGNDVDRKGALDAAIARVADRSAALREALSG
SLTRVPVSERETIRTVLLFDLYHRFLDDFDRLIRDQAAAGDTPCPVPFAGKFQAAFDEAGFPGGESRRYLALFYQIRRAF
YFIREGLAGSSASLRRVREHLWQTLFTHNIRWFEQHLWDRMEDFSVLILGETGTGKGTAAAAIGRSGFIPFDPGSGRFSE
SFTRNFLAVNLSQYPEGILESELFGHRKGAFTGAIDHHEGVFSRCTPHGAIFLDEIGEVSLPVQVKLLQVVQERIFSPVG
SHQRLRFSGRLIAATNRDLTRLRQEGAFRDDFYYRLCSDVITIPPLRQRVRERPEELNELIAGILRRLAGAAPDKEVQVL
RRAIERDVGKEYHWPGNVRELEQAVRRVLVTGHYRGEAKPEPAGDLPRYLKEAAERECDAQELLAGYCRLLYERHGTFEE
VARRANLDRRTVKKYLQREQCARGDNRGRP

Specific function: Required for activation of most nif operons, which are directly involved in nitrogen fixation [H]

COG id: COG3604

COG function: function code KT; Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 sigma-54 factor interaction domain [H]

Homologues:

Organism=Escherichia coli, GI1788550, Length=270, Percent_Identity=37.4074074074074, Blast_Score=155, Evalue=5e-39,
Organism=Escherichia coli, GI1788905, Length=327, Percent_Identity=35.1681957186544, Blast_Score=155, Evalue=7e-39,
Organism=Escherichia coli, GI1790437, Length=323, Percent_Identity=37.4613003095975, Blast_Score=151, Evalue=9e-38,
Organism=Escherichia coli, GI1789087, Length=301, Percent_Identity=36.5448504983389, Blast_Score=148, Evalue=7e-37,
Organism=Escherichia coli, GI87082117, Length=230, Percent_Identity=40, Blast_Score=146, Evalue=4e-36,
Organism=Escherichia coli, GI1789233, Length=313, Percent_Identity=33.5463258785943, Blast_Score=142, Evalue=4e-35,
Organism=Escherichia coli, GI87082152, Length=232, Percent_Identity=40.5172413793103, Blast_Score=137, Evalue=1e-33,
Organism=Escherichia coli, GI1786524, Length=226, Percent_Identity=38.9380530973451, Blast_Score=136, Evalue=4e-33,
Organism=Escherichia coli, GI1790299, Length=274, Percent_Identity=35.036496350365, Blast_Score=133, Evalue=2e-32,
Organism=Escherichia coli, GI87081872, Length=231, Percent_Identity=35.9307359307359, Blast_Score=121, Evalue=1e-28,
Organism=Escherichia coli, GI1787583, Length=228, Percent_Identity=34.6491228070175, Blast_Score=115, Evalue=1e-26,
Organism=Escherichia coli, GI1789828, Length=223, Percent_Identity=34.5291479820628, Blast_Score=104, Evalue=2e-23,
Organism=Escherichia coli, GI87081858, Length=249, Percent_Identity=26.9076305220884, Blast_Score=75, Evalue=1e-14,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR003593
- InterPro:   IPR003018
- InterPro:   IPR020441
- InterPro:   IPR009057
- InterPro:   IPR002197
- InterPro:   IPR010113
- InterPro:   IPR002078 [H]

Pfam domain/function: PF01590 GAF; PF02954 HTH_8; PF00158 Sigma54_activat [H]

EC number: NA

Molecular weight: Translated: 58213; Mature: 58082

Theoretical pI: Translated: 8.79; Mature: 8.79

Prosite motif: PS50045 SIGMA54_INTERACT_4

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.4 %Cys     (Translated Protein)
0.6 %Met     (Translated Protein)
2.0 %Cys+Met (Translated Protein)
1.4 %Cys     (Mature Protein)
0.4 %Met     (Mature Protein)
1.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTFNAYILYIKCMTRLTAILHSEREFFSRVARAAFLNPFSESRDELDQSLAGNDVDRKGA
CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCHHHH
LDAAIARVADRSAALREALSGSLTRVPVSERETIRTVLLFDLYHRFLDDFDRLIRDQAAA
HHHHHHHHHHHHHHHHHHHCCCCEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
GDTPCPVPFAGKFQAAFDEAGFPGGESRRYLALFYQIRRAFYFIREGLAGSSASLRRVRE
CCCCCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
HLWQTLFTHNIRWFEQHLWDRMEDFSVLILGETGTGKGTAAAAIGRSGFIPFDPGSGRFS
HHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHCCCCCCCCCCCCCCHH
ESFTRNFLAVNLSQYPEGILESELFGHRKGAFTGAIDHHEGVFSRCTPHGAIFLDEIGEV
HHHHHHHHEEEHHHCCHHHHHHHHHHCCCCCCCCCCCHHCCHHHHCCCCCCCHHHHCCCC
SLPVQVKLLQVVQERIFSPVGSHQRLRFSGRLIAATNRDLTRLRQEGAFRDDFYYRLCSD
CCCHHHHHHHHHHHHHCCCCCCCCEEEECCEEEEECCHHHHHHHHCCCCHHHHHHHHHHH
VITIPPLRQRVRERPEELNELIAGILRRLAGAAPDKEVQVLRRAIERDVGKEYHWPGNVR
HHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCHH
ELEQAVRRVLVTGHYRGEAKPEPAGDLPRYLKEAAERECDAQELLAGYCRLLYERHGTFE
HHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHH
EVARRANLDRRTVKKYLQREQCARGDNRGRP
HHHHHCCCCHHHHHHHHHHHHHHCCCCCCCC
>Mature Secondary Structure 
TFNAYILYIKCMTRLTAILHSEREFFSRVARAAFLNPFSESRDELDQSLAGNDVDRKGA
CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCHHHH
LDAAIARVADRSAALREALSGSLTRVPVSERETIRTVLLFDLYHRFLDDFDRLIRDQAAA
HHHHHHHHHHHHHHHHHHHCCCCEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
GDTPCPVPFAGKFQAAFDEAGFPGGESRRYLALFYQIRRAFYFIREGLAGSSASLRRVRE
CCCCCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
HLWQTLFTHNIRWFEQHLWDRMEDFSVLILGETGTGKGTAAAAIGRSGFIPFDPGSGRFS
HHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHCCCCCCCCCCCCCCHH
ESFTRNFLAVNLSQYPEGILESELFGHRKGAFTGAIDHHEGVFSRCTPHGAIFLDEIGEV
HHHHHHHHEEEHHHCCHHHHHHHHHHCCCCCCCCCCCHHCCHHHHCCCCCCCHHHHCCCC
SLPVQVKLLQVVQERIFSPVGSHQRLRFSGRLIAATNRDLTRLRQEGAFRDDFYYRLCSD
CCCHHHHHHHHHHHHHCCCCCCCCEEEECCEEEEECCHHHHHHHHCCCCHHHHHHHHHHH
VITIPPLRQRVRERPEELNELIAGILRRLAGAAPDKEVQVLRRAIERDVGKEYHWPGNVR
HHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCHH
ELEQAVRRVLVTGHYRGEAKPEPAGDLPRYLKEAAERECDAQELLAGYCRLLYERHGTFE
HHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHH
EVARRANLDRRTVKKYLQREQCARGDNRGRP
HHHHHCCCCHHHHHHHHHHHHHHCCCCCCCC

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: 2840552; 2450865 [H]