Definition Novosphingobium aromaticivorans DSM 12444 chromosome, complete genome.
Accession NC_007794
Length 3,561,584

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The map label for this gene is pnp

Identifier: 87200495

GI number: 87200495

Start: 2683433

End: 2685751

Strand: Reverse

Name: pnp

Synonym: Saro_2482

Alternate gene names: 87200495

Gene position: 2685751-2683433 (Counterclockwise)

Preceding gene: 87200496

Following gene: 87200492

Centisome position: 75.41

GC content: 63.56

Gene sequence:

>2319_bases
ATGTTCGACGTCAAAACCGTATCGCTGGAGTGGGGCGGAAAGACCCTCACCCTCGAAACCGGCCGCATTGCCCGTCAGGC
TGACGGCGCGGTCCTCGCCACTTACGGCGAAACTGTGGTCCTTTGCGCGGTCACCGCGGCAAAGTCGGTCAAGGAAGGCC
AGGACTTCTTCCCGCTGACCGTCCACTACCAGGAAAAGTATTCGGCTGCCGGCCGCATTCCGGGCGGCTTCTTCAAGCGC
GAACGCGGCGCGACGGAAAAGGAAACGCTGGTTTCCCGTCTGATCGACCGTCCGGTCCGCCCGCTGTTCCCCGAAGGTTT
CTACAACGAAATCAACGTCATCGCCCAGGTCCTGAGCTATGACGGCGAGACCGAACCCGATATCGTCGCGATGATCGCCG
CCTCGGCCGCGCTGACCATCTCGGGCGTTCCGTTCATGGGCCCGATCGCGGCTGCCCGCGTCGGCTTCATCGAGGGCGAA
TATGTCCTCAACCCGAAGCAGGACGTGGCGCTGGCCGATGGCCGTCTCGACCTCGTGGTTGCTGCAACCGACACCGCCGT
GATGATGGTGGAATCGGAAGCCAAGGAGCTGAGCGAAGACGAAATGCTCGGCGCCGTGCTGTTCGCGCATGACGAGATCA
AGAAGGTCATCGGCGCGATCATCCAGCTTGCTGAAAAGGCTGCCAAGGACCCCTGGGACATCGACCTGTCGGACAACACC
GCCGACATCAAGAAGAAGCTCAAGGACCTGGTCGGCAAGGACGTTGCCGCTGCCTACAAGCTGACCGACAAGTCGGCCCG
CTCCAACGCCCTGAACGAAGCCCGCGCCAAGGCGAAGGCCGCGTTCGCGGAAGAAGGCGCGCAGACCCAGATGGTCGCGA
TGAAGACGATGAAGAAGGTGGAAGCCGACATCGTCCGTGGCGCGATCCTGAAGGACGGCCAGCGCATCGACGGTCGCACC
ACCACGCAGGTTCGCCCGATCGAAGCTATCGTAGGCTTCCTGCCGCGTACGCACGGTTCGTCGCTGTTCACACGCGGTGA
AACGCAGGCAATCTGCACGACCACGCTGGGCACCAAGGACGCCGAGCAGATGATCGACGGCCTCGAAGGCCTGCGCTACG
AAAACTTCATGCTCCACTACAACTTCCCGCCGTACTCGGTGGGCGAAGTTGGCCGTTTCGGCGCGCCGGGCCGTCGCGAA
GTGGGCCATGGCAAGCTGGCATGGCGCGCGCTGCACCCGGTGCTGCCGACCAAGGAAGAGTTCCCCTACACGATCCGCAT
CCTCTCGGACATCACCGAGTCGAACGGTTCGTCCTCGATGGCGACCGTCTGCGGCGGCTGCCTTTCGATGATGGACGCGG
GCGTTCCGGTGAAGCGTCCGGTTTCGGGCATTGCCATGGGCCTCATCCTTGAAGGCGACAAGTTCGCCGTCCTGTCCGAC
ATCCTCGGCGACGAGGACCACCTCGGCGACATGGACTTCAAGGTGGCCGGCACCTCCGAAGGCATCACCACGATGCAGAT
GGACATCAAGGTTGCGGGCATCACGCGCGAGATCTTCGAAGTCGCGCTGCGTCAGGCCTCGGAAGGCCGCGCGCACATCC
TTGGCGAAATGACCAAGGCTCTGGGCGAGGCACGTACCGAGCTTTCGGCACATGCTCCGCGCATCGAGACGCTGCAGATC
GACAAGTCGAAGATCCGCGACGTGATCGGCACCGGCGGCAAGGTGATCCGCGAGATCGTGGCGACCACTGGCGCCAAGGT
CGACATCGACGACGAAGGCCTGATCAAGATCTCGTCTTCGGACCTGACCCAGATCGAAGCGGCCAAGAACTGGATCCTCG
GCATCGTCGAGGAAGCGGAAGTCGGCAAGATCTACAAGGGCAAGGTCGTCAACATCGTCGACTTCGGCGCCTTCGTGAAC
TTCATGGGCGGCAAGGACGGTCTCGTCCACGTTTCCGAAATGAAGAACGAGCGCGTGGAAAAGCCGACCGATGTCGTGAA
GGAAGGCCAGGACGTCTACGTCAAGGTCCTCGAGATCGACCAGCGCGGCAAGGTCCGCCTGTCGATGCGCGTCGTCGATC
AGGAAACCGGTGCGGAACTGGAAGACACCCGCCCGCCGCGCGAACCGCGTGAACCGCGCGGTGATCGTGGTGACCGTGGG
GATCGCGGCGACCGCCGTGGCCCGCGCGGCGATCGTGGTCCGCGTCGCGAAGGCGGCGACCGTGGTCCGCGTCGTGAAGG
CGGTGACCGTCCGCGTCGCGACCGTGACGATGGTCCGGCTCCCGATCACATGCCGGCGTTCCTCAAGTCCGACGACTGA

Upstream 100 bases:

>100_bases
GCCTTCGGGGCACGACAAAACGGCCCCACACCGGACCGGGACGGTATCCCCCGGCAGCAAACCCCGTTCGCAATAGGGCG
CGCGGGCTGAAGGAAACGAG

Downstream 100 bases:

>100_bases
GGTTCGGTCCGACCGACACAAGAACGAGGCTCCACCGCAAGGTGGGGCCTTTTTCTTTGCCTTCTGCTGTCCTTGTCGTC
GGCATTGCGGTCCCGCGTCC

Product: polynucleotide phosphorylase/polyadenylase

Products: NA

Alternate protein names: Polynucleotide phosphorylase; PNPase

Number of amino acids: Translated: 772; Mature: 772

Protein sequence:

>772_residues
MFDVKTVSLEWGGKTLTLETGRIARQADGAVLATYGETVVLCAVTAAKSVKEGQDFFPLTVHYQEKYSAAGRIPGGFFKR
ERGATEKETLVSRLIDRPVRPLFPEGFYNEINVIAQVLSYDGETEPDIVAMIAASAALTISGVPFMGPIAAARVGFIEGE
YVLNPKQDVALADGRLDLVVAATDTAVMMVESEAKELSEDEMLGAVLFAHDEIKKVIGAIIQLAEKAAKDPWDIDLSDNT
ADIKKKLKDLVGKDVAAAYKLTDKSARSNALNEARAKAKAAFAEEGAQTQMVAMKTMKKVEADIVRGAILKDGQRIDGRT
TTQVRPIEAIVGFLPRTHGSSLFTRGETQAICTTTLGTKDAEQMIDGLEGLRYENFMLHYNFPPYSVGEVGRFGAPGRRE
VGHGKLAWRALHPVLPTKEEFPYTIRILSDITESNGSSSMATVCGGCLSMMDAGVPVKRPVSGIAMGLILEGDKFAVLSD
ILGDEDHLGDMDFKVAGTSEGITTMQMDIKVAGITREIFEVALRQASEGRAHILGEMTKALGEARTELSAHAPRIETLQI
DKSKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISSSDLTQIEAAKNWILGIVEEAEVGKIYKGKVVNIVDFGAFVN
FMGGKDGLVHVSEMKNERVEKPTDVVKEGQDVYVKVLEIDQRGKVRLSMRVVDQETGAELEDTRPPREPREPRGDRGDRG
DRGDRRGPRGDRGPRREGGDRGPRREGGDRPRRDRDDGPAPDHMPAFLKSDD

Sequences:

>Translated_772_residues
MFDVKTVSLEWGGKTLTLETGRIARQADGAVLATYGETVVLCAVTAAKSVKEGQDFFPLTVHYQEKYSAAGRIPGGFFKR
ERGATEKETLVSRLIDRPVRPLFPEGFYNEINVIAQVLSYDGETEPDIVAMIAASAALTISGVPFMGPIAAARVGFIEGE
YVLNPKQDVALADGRLDLVVAATDTAVMMVESEAKELSEDEMLGAVLFAHDEIKKVIGAIIQLAEKAAKDPWDIDLSDNT
ADIKKKLKDLVGKDVAAAYKLTDKSARSNALNEARAKAKAAFAEEGAQTQMVAMKTMKKVEADIVRGAILKDGQRIDGRT
TTQVRPIEAIVGFLPRTHGSSLFTRGETQAICTTTLGTKDAEQMIDGLEGLRYENFMLHYNFPPYSVGEVGRFGAPGRRE
VGHGKLAWRALHPVLPTKEEFPYTIRILSDITESNGSSSMATVCGGCLSMMDAGVPVKRPVSGIAMGLILEGDKFAVLSD
ILGDEDHLGDMDFKVAGTSEGITTMQMDIKVAGITREIFEVALRQASEGRAHILGEMTKALGEARTELSAHAPRIETLQI
DKSKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISSSDLTQIEAAKNWILGIVEEAEVGKIYKGKVVNIVDFGAFVN
FMGGKDGLVHVSEMKNERVEKPTDVVKEGQDVYVKVLEIDQRGKVRLSMRVVDQETGAELEDTRPPREPREPRGDRGDRG
DRGDRRGPRGDRGPRREGGDRGPRREGGDRPRRDRDDGPAPDHMPAFLKSDD
>Mature_772_residues
MFDVKTVSLEWGGKTLTLETGRIARQADGAVLATYGETVVLCAVTAAKSVKEGQDFFPLTVHYQEKYSAAGRIPGGFFKR
ERGATEKETLVSRLIDRPVRPLFPEGFYNEINVIAQVLSYDGETEPDIVAMIAASAALTISGVPFMGPIAAARVGFIEGE
YVLNPKQDVALADGRLDLVVAATDTAVMMVESEAKELSEDEMLGAVLFAHDEIKKVIGAIIQLAEKAAKDPWDIDLSDNT
ADIKKKLKDLVGKDVAAAYKLTDKSARSNALNEARAKAKAAFAEEGAQTQMVAMKTMKKVEADIVRGAILKDGQRIDGRT
TTQVRPIEAIVGFLPRTHGSSLFTRGETQAICTTTLGTKDAEQMIDGLEGLRYENFMLHYNFPPYSVGEVGRFGAPGRRE
VGHGKLAWRALHPVLPTKEEFPYTIRILSDITESNGSSSMATVCGGCLSMMDAGVPVKRPVSGIAMGLILEGDKFAVLSD
ILGDEDHLGDMDFKVAGTSEGITTMQMDIKVAGITREIFEVALRQASEGRAHILGEMTKALGEARTELSAHAPRIETLQI
DKSKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISSSDLTQIEAAKNWILGIVEEAEVGKIYKGKVVNIVDFGAFVN
FMGGKDGLVHVSEMKNERVEKPTDVVKEGQDVYVKVLEIDQRGKVRLSMRVVDQETGAELEDTRPPREPREPRGDRGDRG
DRGDRRGPRGDRGPRREGGDRGPRREGGDRPRRDRDDGPAPDHMPAFLKSDD

Specific function: Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3'- to 5'-direction

COG id: COG1185

COG function: function code J; Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase)

Gene ontology:

Cell location: Cytoplasm

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 S1 motif domain

Homologues:

Organism=Homo sapiens, GI188528628, Length=715, Percent_Identity=35.1048951048951, Blast_Score=437, Evalue=1e-122,
Organism=Homo sapiens, GI4826690, Length=92, Percent_Identity=48.9130434782609, Blast_Score=74, Evalue=5e-13,
Organism=Escherichia coli, GI145693187, Length=683, Percent_Identity=53.0014641288433, Blast_Score=726, Evalue=0.0,
Organism=Escherichia coli, GI87082262, Length=99, Percent_Identity=44.4444444444444, Blast_Score=74, Evalue=2e-14,
Organism=Caenorhabditis elegans, GI115534063, Length=659, Percent_Identity=33.2321699544765, Blast_Score=342, Evalue=3e-94,
Organism=Caenorhabditis elegans, GI17535281, Length=95, Percent_Identity=48.4210526315789, Blast_Score=84, Evalue=4e-16,
Organism=Saccharomyces cerevisiae, GI6320850, Length=81, Percent_Identity=46.9135802469136, Blast_Score=85, Evalue=5e-17,
Organism=Drosophila melanogaster, GI281362905, Length=707, Percent_Identity=35.9264497878359, Blast_Score=431, Evalue=1e-121,
Organism=Drosophila melanogaster, GI24651641, Length=707, Percent_Identity=35.9264497878359, Blast_Score=431, Evalue=1e-121,
Organism=Drosophila melanogaster, GI24651643, Length=707, Percent_Identity=35.9264497878359, Blast_Score=431, Evalue=1e-121,
Organism=Drosophila melanogaster, GI161079377, Length=650, Percent_Identity=35.8461538461538, Blast_Score=391, Evalue=1e-108,
Organism=Drosophila melanogaster, GI20129977, Length=111, Percent_Identity=42.3423423423423, Blast_Score=74, Evalue=3e-13,

Paralogues:

None

Copy number: 200 Molecules/Cell In: Growth Phase, Minimal Media (Based on E. coli). 1000 Molecules/Cell In: Growth-Phase, Minimal-Media (Based on E. coli). 3328 Molecules/Cell In: Growth Phase, Glucose-minimal MOPS Media. 3,000 Molecules/Cell In: Glucose minimal media

Swissprot (AC and ID): PNP_NOVAD (Q2G5F5)

Other databases:

- EMBL:   CP000248
- RefSeq:   YP_497752.1
- ProteinModelPortal:   Q2G5F5
- SMR:   Q2G5F5
- STRING:   Q2G5F5
- GeneID:   3916802
- GenomeReviews:   CP000248_GR
- KEGG:   nar:Saro_2482
- NMPDR:   fig|48935.1.peg.1945
- eggNOG:   COG1185
- HOGENOM:   HBG382411
- OMA:   YGETVVL
- PhylomeDB:   Q2G5F5
- ProtClustDB:   PRK11824
- BioCyc:   NARO279238:SARO_2482-MONOMER
- GO:   GO:0005739
- HAMAP:   MF_01595
- InterPro:   IPR001247
- InterPro:   IPR015847
- InterPro:   IPR004087
- InterPro:   IPR004088
- InterPro:   IPR018111
- InterPro:   IPR012340
- InterPro:   IPR016027
- InterPro:   IPR012162
- InterPro:   IPR015848
- InterPro:   IPR003029
- InterPro:   IPR020568
- InterPro:   IPR022967
- Gene3D:   G3DSA:2.40.50.140
- Gene3D:   G3DSA:1.10.10.400
- PANTHER:   PTHR11252
- PIRSF:   PIRSF005499
- SMART:   SM00322
- SMART:   SM00316
- TIGRFAMs:   TIGR03591

Pfam domain/function: PF00013 KH_1; PF03726 PNPase; PF01138 RNase_PH; PF03725 RNase_PH_C; PF00575 S1; SSF46915 3_ExoRNase; SSF55666 3_ExoRNase; SSF50249 Nucleic_acid_OB; SSF54211 Ribosomal_S5_D2-typ_fold

EC number: =2.7.7.8

Molecular weight: Translated: 83937; Mature: 83937

Theoretical pI: Translated: 5.26; Mature: 5.26

Prosite motif: PS50084 KH_TYPE_1; PS50126 S1

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
3.0 %Met     (Translated Protein)
3.5 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
3.0 %Met     (Mature Protein)
3.5 %Cys+Met (Mature Protein)

Secondary structure: 

>Translated Secondary Structure
MFDVKTVSLEWGGKTLTLETGRIARQADGAVLATYGETVVLCAVTAAKSVKEGQDFFPLT
CCCEEEEEEECCCEEEEEECCCHHHHCCCCEEEECCCEEEEEEHHHHHHHHCCCCCCEEE
VHYQEKYSAAGRIPGGFFKRERGATEKETLVSRLIDRPVRPLFPEGFYNEINVIAQVLSY
EEECHHHCCCCCCCCHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHC
DGETEPDIVAMIAASAALTISGVPFMGPIAAARVGFIEGEYVLNPKQDVALADGRLDLVV
CCCCCCHHHHHHHHHHHEEECCCCCCCHHHHHHHEEECCCEEECCCCCEEEECCCEEEEE
AATDTAVMMVESEAKELSEDEMLGAVLFAHDEIKKVIGAIIQLAEKAAKDPWDIDLSDNT
EECCEEEEEEEHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCH
ADIKKKLKDLVGKDVAAAYKLTDKSARSNALNEARAKAKAAFAEEGAQTQMVAMKTMKKV
HHHHHHHHHHHCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
EADIVRGAILKDGQRIDGRTTTQVRPIEAIVGFLPRTHGSSLFTRGETQAICTTTLGTKD
HHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEECCCCCEEEEEECCCCH
AEQMIDGLEGLRYENFMLHYNFPPYSVGEVGRFGAPGRREVGHGKLAWRALHPVLPTKEE
HHHHHHHHHCCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCC
FPYTIRILSDITESNGSSSMATVCGGCLSMMDAGVPVKRPVSGIAMGLILEGDKFAVLSD
CCEEEEEEHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEECCCCHHHHHH
ILGDEDHLGDMDFKVAGTSEGITTMQMDIKVAGITREIFEVALRQASEGRAHILGEMTKA
HCCCCCCCCCCCEEEECCCCCCEEEEEEEEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHH
LGEARTELSAHAPRIETLQIDKSKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISSS
HHHHHHHHHHCCCCCEEEECCHHHHHHHHCCCHHHHHHHHHHCCCEEEECCCCEEEECCC
DLTQIEAAKNWILGIVEEAEVGKIYKGKVVNIVDFGAFVNFMGGKDGLVHVSEMKNERVE
CHHHHHHHHHHHEEEECHHCCCCEECCCEEEEEEHHHHHHHCCCCCCEEEHHHHHHHHCC
KPTDVVKEGQDVYVKVLEIDQRGKVRLSMRVVDQETGAELEDTRPPREPREPRGDRGDRG
CCHHHHHCCCCEEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC
DRGDRRGPRGDRGPRREGGDRGPRREGGDRPRRDRDDGPAPDHMPAFLKSDD
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
>Mature Secondary Structure
MFDVKTVSLEWGGKTLTLETGRIARQADGAVLATYGETVVLCAVTAAKSVKEGQDFFPLT
CCCEEEEEEECCCEEEEEECCCHHHHCCCCEEEECCCEEEEEEHHHHHHHHCCCCCCEEE
VHYQEKYSAAGRIPGGFFKRERGATEKETLVSRLIDRPVRPLFPEGFYNEINVIAQVLSY
EEECHHHCCCCCCCCHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHC
DGETEPDIVAMIAASAALTISGVPFMGPIAAARVGFIEGEYVLNPKQDVALADGRLDLVV
CCCCCCHHHHHHHHHHHEEECCCCCCCHHHHHHHEEECCCEEECCCCCEEEECCCEEEEE
AATDTAVMMVESEAKELSEDEMLGAVLFAHDEIKKVIGAIIQLAEKAAKDPWDIDLSDNT
EECCEEEEEEEHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCH
ADIKKKLKDLVGKDVAAAYKLTDKSARSNALNEARAKAKAAFAEEGAQTQMVAMKTMKKV
HHHHHHHHHHHCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
EADIVRGAILKDGQRIDGRTTTQVRPIEAIVGFLPRTHGSSLFTRGETQAICTTTLGTKD
HHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEECCCCCEEEEEECCCCH
AEQMIDGLEGLRYENFMLHYNFPPYSVGEVGRFGAPGRREVGHGKLAWRALHPVLPTKEE
HHHHHHHHHCCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCC
FPYTIRILSDITESNGSSSMATVCGGCLSMMDAGVPVKRPVSGIAMGLILEGDKFAVLSD
CCEEEEEEHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEECCCCHHHHHH
ILGDEDHLGDMDFKVAGTSEGITTMQMDIKVAGITREIFEVALRQASEGRAHILGEMTKA
HCCCCCCCCCCCEEEECCCCCCEEEEEEEEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHH
LGEARTELSAHAPRIETLQIDKSKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISSS
HHHHHHHHHHCCCCCEEEECCHHHHHHHHCCCHHHHHHHHHHCCCEEEECCCCEEEECCC
DLTQIEAAKNWILGIVEEAEVGKIYKGKVVNIVDFGAFVNFMGGKDGLVHVSEMKNERVE
CHHHHHHHHHHHEEEECHHCCCCEECCCEEEEEEHHHHHHHCCCCCCEEEHHHHHHHHCC
KPTDVVKEGQDVYVKVLEIDQRGKVRLSMRVVDQETGAELEDTRPPREPREPRGDRGDRG
CCHHHHHCCCCEEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC
DRGDRRGPRGDRGPRREGGDRGPRREGGDRPRRDRDDGPAPDHMPAFLKSDD
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha Beta

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: NA

Specific reaction: NA

General reaction: NA

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: NA