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The map label for this gene is vacB [H]

Identifier: 161984790

GI number: 161984790

Start: 4325184

End: 4327625

Strand: Reverse

Name: vacB [H]

Synonym: SBO_4277

Alternate gene names: 161984790

Gene position: 4327625-4325184 (Counterclockwise)

Preceding gene: 82546581

Following gene: 82546579

Centisome position: 95.75

GC content: 54.5

Gene sequence:

>2442_bases
ATGTCACAAGATCCTTTCCAGGAACGCGAAGCTGAAAAATACGCGAATCCCATCCCTAGTCGGGAATTTATCCTCGAACA
TTTAACCAAACGTGAAAAACCGGCCAGCCGTGATGAGCTGGCGGTAGAACTGCACATTGAAGGCGAAGAGCAGCTTGAAG
GCCTGCGTCGCCGCCTGCGCGCGATGGAGCGCGATGGTCAACTGGTCTTCACTCGTCGTCAGTGCTATGCGCTGCCGGAA
CGCCTCGACCTGGTGAAAGGTACCGTTATTGGCCACCGTGATGGCTACGGCTTTCTGCGGGTTGAAGGGCGTAAAGATGA
TTTGTATCTCTCCAGCGAGCAGATGAAAACCTGCATTCATGGCGATCAGGTGCTGGCTCAGCCGCTGGGTGCTGACCGTA
AAGGTCGTCGTGAAGCGCGTATTGTCCGCGTACTGGTGCCAAAAACCAGCCAGATTGTTGGTCGCTACTTTACCGAAGCG
GGCGTCGGCTTTGTGGTTCCTGACGATAGCCGTCTGAGCTTCGATATCTTAATCCCGCCCGATCAGATCATGGGCGCGCG
GATGGGCTTTGTGGTGGTTGTTGAACTGACCCAACGCCCGACTCGCCGTACCAAAGCGGTGGGTAAAATCGTCGAAGTGC
TGGGCGACAATATGGGCACCGGCATGGCGGTTGATATCGCTTTGCGTACCCATGAAATTCCGTACATCTGGCCGCAGGCT
GTTGAGCAACAGGTTGCCGGGCTGAAAGAAGAAGTGCCGGAAGAAGCAAAAGCGGGCCGTGTCGATTTGCGCGATTTACC
GCTGGTCACCATTGATGGCGAAGACGCCCGTGACTTTGACGATGCGGTTTACTGCGAGAAAAAACGCGGCGGCGGCTGGC
GTTTATGGGTCGCGATTGCCGACGTCAGCTACTATGTGCGTCCGCCAACGCCGCTGGATAGAGAAGCGCGTAATCGTGGT
ACGTCGGTGTACTTCCCTTCGCAGGTTATCCCTATGCTGCCGGAAGTGCTCTCTAACGGTCTGTGCTCGCTCAATCCGCA
GGTAGACCGCCTGTGTATGGTGTGCGAGATGACGGTTTCGTCGAAAGGCCGCCTGACGGGCTACAAATTCTACGAAGCGG
TGATGAGCTCTCACGCGCGTCTGACCTACACCAAAGTCTGGCATATTCTGCAGGGCGATCAGGATCTGCGCGAGCAGTAC
GCTCCGCTGGTTAAGCATCTCGAAGAGTTGCATAACCTCTATAAAGTGCTGGATAAAGCCCGTGAAGAACGTGGCGGGAT
CTCATTTGAGAGCGAAGAAGCGAAGTTTATTTTCAACGCTGAATGCCGTATTGAGCGTATCGAACAGACTCAGCGTAACG
ACGCACACAAGTTAATTGAAGAGTGCATGATTCTGGCGAATATCTCGGCGGCGCGTTTCGTTGAGAAAGCCAAAGAACCA
GCATTGTTCCGTATTCACGACAAGCCGAGCACCGAAGCGATTACCTCTTTCCGTTCAGTACTGGCGGAGCTGGGGCTGGA
ACTGCCGGGCGGTAACAAGCCGGAACCGCGTGACTACGCGGAGCTGCTGGAGTCGGTTGCCGATCGTCCTGATGCAGAAA
TGCTGCAAACCATGCTGCTGCGCTCGATGAAACAGGCGATTTACGATCCAGAAAACCGTGGTCACTTTGGCCTGGCATTG
CAGTCCTATGCGCACTTTACTTCGCCGATTCGTCGTTATCCAGACCTGACGCTGCACCGCGCCATTAAATATCTGCTGGC
GAAAGAGCAGGGGCATCAGGGCAACACCACTGAAACCGGCGGCTACCATTATTCGATGGAAGAAATGCTGCAACTGGGTC
AGCACTGTTCGATGGCGGAACGTCGTGCCGACGAAGCAACGCGCGATGTGGCTGACTGGCTGAAGTGTGACTTCATGCTC
GACCAGGTAGGTAACGTCTTTAAAGGCGTAATTTCCAGCGTCACTGGCTTTGGATTCTTTGTCCGTCTGGACGACTTATT
CATTGATGGTCTGGTCCATGTCTCTTCGCTGGACAATGACTACTATCGCTTTGACCAGGTAGGGCAACGGCTGATGGGTG
AATCCAGCGGCCAGACTTATCGTCTGGGCGATCGCGTGGAAGTTCGCGTCGAAGCGGTTAATATGGACGAGCGCAAAATC
GACTTTAGCCTGATCTCCAGCGAACGCGCACCGCGCAACGTCGGTAAAACGGCGCGCGAGAAAGCGAAAAAAGGCGATGC
AGGTAAAAAAGGCGGCAAGCGTCGTCTGGTCGGTAAAAAGGTAAACTTTGAGCCAGACAGCGCCTTCCGCGGTGAGAAAA
AAACGAAGCCGAAAGCAGCGAAGAAAGACGCGAGAAAAGCGAAAAAGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCG
ACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGA

Upstream 100 bases:

>100_bases
ACACGCTTGCCGATTTGGTTGAAGAGAATCAACCGCTTTATAAATTATTGCTGGTGGAGTGACGAAAATCTTCATCAGAG
ATGACAACGGAGGAACCGAG

Downstream 100 bases:

>100_bases
TCATTACCCTCTTCAAACAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCT
TATCCGGCCTACATAATCAC

Product: exoribonuclease R

Products: NA

Alternate protein names: RNase R; Protein vacB [H]

Number of amino acids: Translated: 813; Mature: 812

Protein sequence:

>813_residues
MSQDPFQEREAEKYANPIPSREFILEHLTKREKPASRDELAVELHIEGEEQLEGLRRRLRAMERDGQLVFTRRQCYALPE
RLDLVKGTVIGHRDGYGFLRVEGRKDDLYLSSEQMKTCIHGDQVLAQPLGADRKGRREARIVRVLVPKTSQIVGRYFTEA
GVGFVVPDDSRLSFDILIPPDQIMGARMGFVVVVELTQRPTRRTKAVGKIVEVLGDNMGTGMAVDIALRTHEIPYIWPQA
VEQQVAGLKEEVPEEAKAGRVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRG
TSVYFPSQVIPMLPEVLSNGLCSLNPQVDRLCMVCEMTVSSKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDLREQY
APLVKHLEELHNLYKVLDKAREERGGISFESEEAKFIFNAECRIERIEQTQRNDAHKLIEECMILANISAARFVEKAKEP
ALFRIHDKPSTEAITSFRSVLAELGLELPGGNKPEPRDYAELLESVADRPDAEMLQTMLLRSMKQAIYDPENRGHFGLAL
QSYAHFTSPIRRYPDLTLHRAIKYLLAKEQGHQGNTTETGGYHYSMEEMLQLGQHCSMAERRADEATRDVADWLKCDFML
DQVGNVFKGVISSVTGFGFFVRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLMGESSGQTYRLGDRVEVRVEAVNMDERKI
DFSLISSERAPRNVGKTAREKAKKGDAGKKGGKRRLVGKKVNFEPDSAFRGEKKTKPKAAKKDARKAKKPSAKTQKIAAA
TKAKRAAKKKVAE

Sequences:

>Translated_813_residues
MSQDPFQEREAEKYANPIPSREFILEHLTKREKPASRDELAVELHIEGEEQLEGLRRRLRAMERDGQLVFTRRQCYALPE
RLDLVKGTVIGHRDGYGFLRVEGRKDDLYLSSEQMKTCIHGDQVLAQPLGADRKGRREARIVRVLVPKTSQIVGRYFTEA
GVGFVVPDDSRLSFDILIPPDQIMGARMGFVVVVELTQRPTRRTKAVGKIVEVLGDNMGTGMAVDIALRTHEIPYIWPQA
VEQQVAGLKEEVPEEAKAGRVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRG
TSVYFPSQVIPMLPEVLSNGLCSLNPQVDRLCMVCEMTVSSKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDLREQY
APLVKHLEELHNLYKVLDKAREERGGISFESEEAKFIFNAECRIERIEQTQRNDAHKLIEECMILANISAARFVEKAKEP
ALFRIHDKPSTEAITSFRSVLAELGLELPGGNKPEPRDYAELLESVADRPDAEMLQTMLLRSMKQAIYDPENRGHFGLAL
QSYAHFTSPIRRYPDLTLHRAIKYLLAKEQGHQGNTTETGGYHYSMEEMLQLGQHCSMAERRADEATRDVADWLKCDFML
DQVGNVFKGVISSVTGFGFFVRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLMGESSGQTYRLGDRVEVRVEAVNMDERKI
DFSLISSERAPRNVGKTAREKAKKGDAGKKGGKRRLVGKKVNFEPDSAFRGEKKTKPKAAKKDARKAKKPSAKTQKIAAA
TKAKRAAKKKVAE
>Mature_812_residues
SQDPFQEREAEKYANPIPSREFILEHLTKREKPASRDELAVELHIEGEEQLEGLRRRLRAMERDGQLVFTRRQCYALPER
LDLVKGTVIGHRDGYGFLRVEGRKDDLYLSSEQMKTCIHGDQVLAQPLGADRKGRREARIVRVLVPKTSQIVGRYFTEAG
VGFVVPDDSRLSFDILIPPDQIMGARMGFVVVVELTQRPTRRTKAVGKIVEVLGDNMGTGMAVDIALRTHEIPYIWPQAV
EQQVAGLKEEVPEEAKAGRVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGT
SVYFPSQVIPMLPEVLSNGLCSLNPQVDRLCMVCEMTVSSKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDLREQYA
PLVKHLEELHNLYKVLDKAREERGGISFESEEAKFIFNAECRIERIEQTQRNDAHKLIEECMILANISAARFVEKAKEPA
LFRIHDKPSTEAITSFRSVLAELGLELPGGNKPEPRDYAELLESVADRPDAEMLQTMLLRSMKQAIYDPENRGHFGLALQ
SYAHFTSPIRRYPDLTLHRAIKYLLAKEQGHQGNTTETGGYHYSMEEMLQLGQHCSMAERRADEATRDVADWLKCDFMLD
QVGNVFKGVISSVTGFGFFVRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLMGESSGQTYRLGDRVEVRVEAVNMDERKID
FSLISSERAPRNVGKTAREKAKKGDAGKKGGKRRLVGKKVNFEPDSAFRGEKKTKPKAAKKDARKAKKPSAKTQKIAAAT
KAKRAAKKKVAE

Specific function: 3'-5'exoribonuclease that participates in an essential cell function. Acts nonspecifically on poly(A), poly(U) and ribosomal RNAs. Required for the expression of virulence genes in enteroinvasive strains of E.coli [H]

COG id: COG0557

COG function: function code K; Exoribonuclease R

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Unknown [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 S1 motif domain [H]

Homologues:

Organism=Homo sapiens, GI190014623, Length=556, Percent_Identity=28.9568345323741, Blast_Score=186, Evalue=7e-47,
Organism=Homo sapiens, GI190014625, Length=556, Percent_Identity=28.9568345323741, Blast_Score=186, Evalue=8e-47,
Organism=Homo sapiens, GI134288890, Length=416, Percent_Identity=30.2884615384615, Blast_Score=168, Evalue=2e-41,
Organism=Homo sapiens, GI219521928, Length=575, Percent_Identity=25.9130434782609, Blast_Score=142, Evalue=1e-33,
Organism=Homo sapiens, GI19115966, Length=576, Percent_Identity=26.0416666666667, Blast_Score=142, Evalue=1e-33,
Organism=Escherichia coli, GI87082383, Length=813, Percent_Identity=99.6309963099631, Blast_Score=1666, Evalue=0.0,
Organism=Escherichia coli, GI1787542, Length=651, Percent_Identity=26.1136712749616, Blast_Score=168, Evalue=1e-42,
Organism=Caenorhabditis elegans, GI212645896, Length=419, Percent_Identity=31.2649164677804, Blast_Score=179, Evalue=4e-45,
Organism=Caenorhabditis elegans, GI17553506, Length=527, Percent_Identity=27.3244781783681, Blast_Score=164, Evalue=1e-40,
Organism=Saccharomyces cerevisiae, GI6324552, Length=564, Percent_Identity=27.4822695035461, Blast_Score=159, Evalue=2e-39,
Organism=Saccharomyces cerevisiae, GI6323943, Length=358, Percent_Identity=24.8603351955307, Blast_Score=73, Evalue=2e-13,
Organism=Drosophila melanogaster, GI24649634, Length=480, Percent_Identity=29.5833333333333, Blast_Score=180, Evalue=4e-45,
Organism=Drosophila melanogaster, GI19922976, Length=361, Percent_Identity=29.6398891966759, Blast_Score=144, Evalue=3e-34,
Organism=Drosophila melanogaster, GI24654597, Length=361, Percent_Identity=29.6398891966759, Blast_Score=144, Evalue=3e-34,
Organism=Drosophila melanogaster, GI24654592, Length=353, Percent_Identity=30.028328611898, Blast_Score=144, Evalue=4e-34,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR011129
- InterPro:   IPR012340
- InterPro:   IPR016027
- InterPro:   IPR003029
- InterPro:   IPR022967
- InterPro:   IPR013223
- InterPro:   IPR001900
- InterPro:   IPR022966
- InterPro:   IPR004476
- InterPro:   IPR011805
- InterPro:   IPR013668 [H]

Pfam domain/function: PF08461 HTH_12; PF08206 OB_RNB; PF00773 RNB; PF00575 S1 [H]

EC number: 3.1.-.- [C]

Molecular weight: Translated: 92052; Mature: 91921

Theoretical pI: Translated: 8.70; Mature: 8.70

Prosite motif: PS50126 S1 ; PS01175 RIBONUCLEASE_II

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.2 %Cys     (Translated Protein)
2.6 %Met     (Translated Protein)
3.8 %Cys+Met (Translated Protein)
1.2 %Cys     (Mature Protein)
2.5 %Met     (Mature Protein)
3.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSQDPFQEREAEKYANPIPSREFILEHLTKREKPASRDELAVELHIEGEEQLEGLRRRLR
CCCCCCHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCCEEEEEEECCHHHHHHHHHHHH
AMERDGQLVFTRRQCYALPERLDLVKGTVIGHRDGYGFLRVEGRKDDLYLSSEQMKTCIH
HHCCCCCEEEEHHHHHHCHHHHHHHHCEEEECCCCCEEEEEECCCCCEEECHHHHHHHHC
GDQVLAQPLGADRKGRREARIVRVLVPKTSQIVGRYFTEAGVGFVVPDDSRLSFDILIPP
CHHHHHHCCCCCCCCCCHHEEEEEECCCHHHHHHHHHHHCCCEEEECCCCCEEEEEEECC
DQIMGARMGFVVVVELTQRPTRRTKAVGKIVEVLGDNMGTGMAVDIALRTHEIPYIWPQA
HHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCCHHH
VEQQVAGLKEEVPEEAKAGRVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIA
HHHHHHHHHHHCCHHHHCCCCCCCCCCEEEECCCCCCCCCHHHEEECCCCCCEEEEEEEE
DVSYYVRPPTPLDREARNRGTSVYFPSQVIPMLPEVLSNGLCSLNPQVDRLCMVCEMTVS
CCEEEECCCCCCCHHHHCCCCEEEECHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHC
SKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDLREQYAPLVKHLEELHNLYKVLDKA
CCCCCCHHHHHHHHHHCCCCEEHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
REERGGISFESEEAKFIFNAECRIERIEQTQRNDAHKLIEECMILANISAARFVEKAKEP
HHHHCCCCCCCCCCCEEEECHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHCCC
ALFRIHDKPSTEAITSFRSVLAELGLELPGGNKPEPRDYAELLESVADRPDAEMLQTMLL
CEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHH
RSMKQAIYDPENRGHFGLALQSYAHFTSPIRRYPDLTLHRAIKYLLAKEQGHQGNTTETG
HHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCC
GYHYSMEEMLQLGQHCSMAERRADEATRDVADWLKCDFMLDQVGNVFKGVISSVTGFGFF
CEEECHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCEEE
VRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLMGESSGQTYRLGDRVEVRVEAVNMDERKI
EEEHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCEEECCCEEEEEEEEECCCCHHH
DFSLISSERAPRNVGKTAREKAKKGDAGKKGGKRRLVGKKVNFEPDSAFRGEKKTKPKAA
HHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
KKDARKAKKPSAKTQKIAAATKAKRAAKKKVAE
HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC
>Mature Secondary Structure 
SQDPFQEREAEKYANPIPSREFILEHLTKREKPASRDELAVELHIEGEEQLEGLRRRLR
CCCCCHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCCEEEEEEECCHHHHHHHHHHHH
AMERDGQLVFTRRQCYALPERLDLVKGTVIGHRDGYGFLRVEGRKDDLYLSSEQMKTCIH
HHCCCCCEEEEHHHHHHCHHHHHHHHCEEEECCCCCEEEEEECCCCCEEECHHHHHHHHC
GDQVLAQPLGADRKGRREARIVRVLVPKTSQIVGRYFTEAGVGFVVPDDSRLSFDILIPP
CHHHHHHCCCCCCCCCCHHEEEEEECCCHHHHHHHHHHHCCCEEEECCCCCEEEEEEECC
DQIMGARMGFVVVVELTQRPTRRTKAVGKIVEVLGDNMGTGMAVDIALRTHEIPYIWPQA
HHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCCHHH
VEQQVAGLKEEVPEEAKAGRVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIA
HHHHHHHHHHHCCHHHHCCCCCCCCCCEEEECCCCCCCCCHHHEEECCCCCCEEEEEEEE
DVSYYVRPPTPLDREARNRGTSVYFPSQVIPMLPEVLSNGLCSLNPQVDRLCMVCEMTVS
CCEEEECCCCCCCHHHHCCCCEEEECHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHC
SKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDLREQYAPLVKHLEELHNLYKVLDKA
CCCCCCHHHHHHHHHHCCCCEEHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
REERGGISFESEEAKFIFNAECRIERIEQTQRNDAHKLIEECMILANISAARFVEKAKEP
HHHHCCCCCCCCCCCEEEECHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHCCC
ALFRIHDKPSTEAITSFRSVLAELGLELPGGNKPEPRDYAELLESVADRPDAEMLQTMLL
CEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHH
RSMKQAIYDPENRGHFGLALQSYAHFTSPIRRYPDLTLHRAIKYLLAKEQGHQGNTTETG
HHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCC
GYHYSMEEMLQLGQHCSMAERRADEATRDVADWLKCDFMLDQVGNVFKGVISSVTGFGFF
CEEECHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCEEE
VRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLMGESSGQTYRLGDRVEVRVEAVNMDERKI
EEEHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCEEECCCEEEEEEEEECCCCHHH
DFSLISSERAPRNVGKTAREKAKKGDAGKKGGKRRLVGKKVNFEPDSAFRGEKKTKPKAA
HHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
KKDARKAKKPSAKTQKIAAATKAKRAAKKKVAE
HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC

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: 7610040; 9278503; 3058695; 1400189; 9603904 [H]