Definition Sphingopyxis alaskensis RB2256, complete genome.
Accession NC_008048
Length 3,345,170

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The map label for this gene is pnp

Identifier: 103486036

GI number: 103486036

Start: 556093

End: 558408

Strand: Direct

Name: pnp

Synonym: Sala_0543

Alternate gene names: 103486036

Gene position: 556093-558408 (Clockwise)

Preceding gene: 103486035

Following gene: 103486037

Centisome position: 16.62

GC content: 64.51

Gene sequence:

>2316_bases
ATGTTTGACGTGAAAAAAGTATCGATCGAGTGGGGCGGCGAAACGCTGACGCTCGAAACGGGCAAGGTTGCCCGCCAGGC
CGATGGCGCCGTGATCGCGACGCTGGGCGAAACGGTCGTCCTGTGCGCCGTGACCGCCGCGAAGTCGGTGAAGGACGGGC
AGGACTTTTTCCCGCTGACCGTCCATTATCAGGAAAAATACTCGGCCGCGGGCCGCATCCCCGGCGGCTTTTTCAAGCGC
GAACGCGGCGCGACCGAAAAGGAAACCTTGGTCAGCCGTCTGATCGACCGTCCGATCCGCCCGCTGTTCCCCGAAGGTTT
CTATAATGAAATCAACGCAATCGCCCAGGTGCTGAGCTATGACGGCCACAATGAGCCCGACATCCTCGCTATGGTCGCCG
CGTCGGCCGCGCTCACCATTTCGGGCGTGCCCTTCATGGGCCCGATCGGCGCCGCGCGCGTCGGTTATCTGAACGGCGAA
TATATCCTCAACCCGACCGACGAACAGGTCGCCGAAGGTGACCTCGACCTCGTCGTCGCGGCAACGCACGACGCGGTGAT
GATGGTCGAATCCGAAGCGAACGAACTGTCGGAAGAGGTCATGCTCGGCGCGGTCCTGTTCGCGCACGACGCGTGCAAGG
AGGTCGTCAAGGCGATCATCAAGCTCGCCGAACAGGCCGCGAAGGAACCTTGGGAGATCGCTTCGTCGGACGACGATGCC
GCGCTCAAGGACAAGCTCAGGAAGCTGATCGGCAAGGACATTGCCGCCGCCTACAAGCTGACCGACAAGTCGGCGCGCTC
GAACGCGCTCAACGAAGCGCGCGCGAAGGCGAAGGAAAGCTTTATCGCCGACGGCCTCGACCCGCAGGCGGTGATGGCGG
GCATCAAGATCGTCAAGAAGCTCGAGGCCGAGATCGTCCGCACCGCGATCCTGAAGGAAGGCAAGCGCATCGACGGCCGC
ACGACGACGCAGATCCGCCCGATCGTCGCCGAAACGCACTTCCTGCCGCGCGCGCACGGCTCGGCGCTGTTCACCCGCGG
CGAGACGCAGACGATCGCGACCTGCACGCTTGGCACCAAGGATGCCGAACAGATGATCGACGGCCTCAACGGCCTGTCGT
ACCAGCATTTCATGCTGCACTATAACTTCCCGCCCTATTCGGTCGGCGAAGTCGGTCGCTTCGGCGCGCCGGGGCGCCGC
GAAGTCGGCCACGGCAAGCTCGCCTGGCGGGCGCTGCACCCTGTGCTGCCGTCCAAGGACGAGTTCCCCTATACGATCCG
CCTGACCAGCGACATCACCGAATCGAACGGTTCGTCGTCGATGGCGTCGGTGTGCGGCGGCAGCCTTGCGATGATGGACG
CCGGCGTGCCGATCAAGCGCCCGGTGTCGGGCATCGCGATGGGCCTGATCCTCGAAGGCAAGGATTATGCGATCCTGTCG
GACATCCTCGGCGACGAGGATCATCTCGGCGACATGGATTTCAAGGTCGCGGGCACGTCCGAAGGCATCACCACGATGCA
GATGGACATCAAGATCGCGGGCATCACGCGCGAAATCTTCGAAGCCGCGCTGGCGCAGGCCAAGGAAGGCCGCGCGCACA
TCCTTGGCGAAATGAACAAGGCGCTCGGCGAAGTCCGCACCGAACTCTCGGCGCATGCGCCGCGCATCGAGACGATGCAG
ATCGACAAGGCGAAGATTCGCGACGTCATCGGCACCGGCGGCAAGGTGATCCGTGAGATCGTCGCGACCACCGGCGCCAA
GGTCGACATCGACGACGAGGGCCTGATCAAGATCAGCTCGTCGGATCTCGATCAGATCGAAGCCGCGCGCAAGTGGATCG
CGGGCATTGTCGAGGAAGCCGAAGTCGGCAAAATCTATGACGGCAAGGTCGTCAACCTCGTCGATTTCGGGGCGTTCGTG
AACTTCATGGGCGGCAAGGACGGCCTCGTTCACGTGTCAGAAATCAGGAACGAGCGTGTCGAAAAGGTCGCCGACGTCCT
GTCCGAAGGGCAGGACGTCAAGGTCAAGGTGCTCGAGATCGATCCGCGCGGCAAGGTCCGCCTGTCGATGCGCGTCGTCG
ATCAGGAAACCGGCGCGGAACTCGAAGACACCCGCCCGGCGCGCGAACCGCGCGAGCGTGGCGACCGCGGCGACCGTGGT
GATCGCGGTCCCCGCCGCGACGGCGGCGACCGTAATCGCGGCGGCCGCGAACGCGGCCCGCGCCGCGACGGCGGCGGCGA
CCGCGGCCCCCGCCGCGAACGCAGCGAGGACGGCCCCGAAGATCAGGGCCATGTGCCCGACTTCCTGAAGGACTAA

Upstream 100 bases:

>100_bases
CCGCCATGGGGCAGACAGACGCCCTGAACCGCCCCGGGCCGGATTGCCCGGACATGAGAGGCCCCGCCCGGCATAGGGCC
CGGCGGGCGAAGGAAACCAC

Downstream 100 bases:

>100_bases
GTCTTTCGATTAGCGAACCGCGAAGGGGCTGCCGAGAGGCGGCCCCTTTTTACTGGGACGGAATAGCGGTTTTTCGACAA
TAACCGCCTTCGCGGGAGCG

Product: polynucleotide phosphorylase/polyadenylase

Products: NA

Alternate protein names: Polynucleotide phosphorylase; PNPase

Number of amino acids: Translated: 771; Mature: 771

Protein sequence:

>771_residues
MFDVKKVSIEWGGETLTLETGKVARQADGAVIATLGETVVLCAVTAAKSVKDGQDFFPLTVHYQEKYSAAGRIPGGFFKR
ERGATEKETLVSRLIDRPIRPLFPEGFYNEINAIAQVLSYDGHNEPDILAMVAASAALTISGVPFMGPIGAARVGYLNGE
YILNPTDEQVAEGDLDLVVAATHDAVMMVESEANELSEEVMLGAVLFAHDACKEVVKAIIKLAEQAAKEPWEIASSDDDA
ALKDKLRKLIGKDIAAAYKLTDKSARSNALNEARAKAKESFIADGLDPQAVMAGIKIVKKLEAEIVRTAILKEGKRIDGR
TTTQIRPIVAETHFLPRAHGSALFTRGETQTIATCTLGTKDAEQMIDGLNGLSYQHFMLHYNFPPYSVGEVGRFGAPGRR
EVGHGKLAWRALHPVLPSKDEFPYTIRLTSDITESNGSSSMASVCGGSLAMMDAGVPIKRPVSGIAMGLILEGKDYAILS
DILGDEDHLGDMDFKVAGTSEGITTMQMDIKIAGITREIFEAALAQAKEGRAHILGEMNKALGEVRTELSAHAPRIETMQ
IDKAKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISSSDLDQIEAARKWIAGIVEEAEVGKIYDGKVVNLVDFGAFV
NFMGGKDGLVHVSEIRNERVEKVADVLSEGQDVKVKVLEIDPRGKVRLSMRVVDQETGAELEDTRPAREPRERGDRGDRG
DRGPRRDGGDRNRGGRERGPRRDGGGDRGPRRERSEDGPEDQGHVPDFLKD

Sequences:

>Translated_771_residues
MFDVKKVSIEWGGETLTLETGKVARQADGAVIATLGETVVLCAVTAAKSVKDGQDFFPLTVHYQEKYSAAGRIPGGFFKR
ERGATEKETLVSRLIDRPIRPLFPEGFYNEINAIAQVLSYDGHNEPDILAMVAASAALTISGVPFMGPIGAARVGYLNGE
YILNPTDEQVAEGDLDLVVAATHDAVMMVESEANELSEEVMLGAVLFAHDACKEVVKAIIKLAEQAAKEPWEIASSDDDA
ALKDKLRKLIGKDIAAAYKLTDKSARSNALNEARAKAKESFIADGLDPQAVMAGIKIVKKLEAEIVRTAILKEGKRIDGR
TTTQIRPIVAETHFLPRAHGSALFTRGETQTIATCTLGTKDAEQMIDGLNGLSYQHFMLHYNFPPYSVGEVGRFGAPGRR
EVGHGKLAWRALHPVLPSKDEFPYTIRLTSDITESNGSSSMASVCGGSLAMMDAGVPIKRPVSGIAMGLILEGKDYAILS
DILGDEDHLGDMDFKVAGTSEGITTMQMDIKIAGITREIFEAALAQAKEGRAHILGEMNKALGEVRTELSAHAPRIETMQ
IDKAKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISSSDLDQIEAARKWIAGIVEEAEVGKIYDGKVVNLVDFGAFV
NFMGGKDGLVHVSEIRNERVEKVADVLSEGQDVKVKVLEIDPRGKVRLSMRVVDQETGAELEDTRPAREPRERGDRGDRG
DRGPRRDGGDRNRGGRERGPRRDGGGDRGPRRERSEDGPEDQGHVPDFLKD
>Mature_771_residues
MFDVKKVSIEWGGETLTLETGKVARQADGAVIATLGETVVLCAVTAAKSVKDGQDFFPLTVHYQEKYSAAGRIPGGFFKR
ERGATEKETLVSRLIDRPIRPLFPEGFYNEINAIAQVLSYDGHNEPDILAMVAASAALTISGVPFMGPIGAARVGYLNGE
YILNPTDEQVAEGDLDLVVAATHDAVMMVESEANELSEEVMLGAVLFAHDACKEVVKAIIKLAEQAAKEPWEIASSDDDA
ALKDKLRKLIGKDIAAAYKLTDKSARSNALNEARAKAKESFIADGLDPQAVMAGIKIVKKLEAEIVRTAILKEGKRIDGR
TTTQIRPIVAETHFLPRAHGSALFTRGETQTIATCTLGTKDAEQMIDGLNGLSYQHFMLHYNFPPYSVGEVGRFGAPGRR
EVGHGKLAWRALHPVLPSKDEFPYTIRLTSDITESNGSSSMASVCGGSLAMMDAGVPIKRPVSGIAMGLILEGKDYAILS
DILGDEDHLGDMDFKVAGTSEGITTMQMDIKIAGITREIFEAALAQAKEGRAHILGEMNKALGEVRTELSAHAPRIETMQ
IDKAKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISSSDLDQIEAARKWIAGIVEEAEVGKIYDGKVVNLVDFGAFV
NFMGGKDGLVHVSEIRNERVEKVADVLSEGQDVKVKVLEIDPRGKVRLSMRVVDQETGAELEDTRPAREPRERGDRGDRG
DRGPRRDGGDRNRGGRERGPRRDGGGDRGPRRERSEDGPEDQGHVPDFLKD

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=719, Percent_Identity=36.7176634214186, Blast_Score=460, Evalue=1e-129,
Organism=Homo sapiens, GI4826690, Length=92, Percent_Identity=52.1739130434783, Blast_Score=83, Evalue=1e-15,
Organism=Escherichia coli, GI145693187, Length=685, Percent_Identity=53.2846715328467, Blast_Score=726, Evalue=0.0,
Organism=Escherichia coli, GI87082262, Length=101, Percent_Identity=42.5742574257426, Blast_Score=69, Evalue=1e-12,
Organism=Caenorhabditis elegans, GI115534063, Length=660, Percent_Identity=33.9393939393939, Blast_Score=349, Evalue=3e-96,
Organism=Caenorhabditis elegans, GI17535281, Length=87, Percent_Identity=55.1724137931034, Blast_Score=93, Evalue=6e-19,
Organism=Saccharomyces cerevisiae, GI6320850, Length=130, Percent_Identity=33.8461538461538, Blast_Score=73, Evalue=2e-13,
Organism=Drosophila melanogaster, GI281362905, Length=707, Percent_Identity=36.7751060820368, Blast_Score=451, Evalue=1e-126,
Organism=Drosophila melanogaster, GI24651641, Length=707, Percent_Identity=36.7751060820368, Blast_Score=451, Evalue=1e-126,
Organism=Drosophila melanogaster, GI24651643, Length=707, Percent_Identity=36.7751060820368, Blast_Score=451, Evalue=1e-126,
Organism=Drosophila melanogaster, GI161079377, Length=650, Percent_Identity=36.9230769230769, Blast_Score=410, Evalue=1e-114,
Organism=Drosophila melanogaster, GI20129977, Length=115, Percent_Identity=42.6086956521739, Blast_Score=80, Evalue=4e-15,

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_SPHAL (Q1GVQ8)

Other databases:

- EMBL:   CP000356
- RefSeq:   YP_615597.1
- ProteinModelPortal:   Q1GVQ8
- SMR:   Q1GVQ8
- GeneID:   4081433
- GenomeReviews:   CP000356_GR
- KEGG:   sal:Sala_0543
- NMPDR:   fig|317655.9.peg.501
- HOGENOM:   HBG382411
- OMA:   YGETVVL
- ProtClustDB:   PRK11824
- BioCyc:   SALA317655:SALA_0543-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: 83527; Mature: 83527

Theoretical pI: Translated: 5.19; Mature: 5.19

Prosite motif: PS50084 KH_TYPE_1; PS50126 S1

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
2.6 %Met     (Translated Protein)
3.1 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
2.6 %Met     (Mature Protein)
3.1 %Cys+Met (Mature Protein)

Secondary structure: 

>Translated Secondary Structure
MFDVKKVSIEWGGETLTLETGKVARQADGAVIATLGETVVLCAVTAAKSVKDGQDFFPLT
CCCCEEEEEEECCEEEEEECCCHHHHCCCCEEEECCCCEEHHHHHHHHHCCCCCCCCEEE
VHYQEKYSAAGRIPGGFFKRERGATEKETLVSRLIDRPIRPLFPEGFYNEINAIAQVLSY
EEECHHHCCCCCCCCHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHC
DGHNEPDILAMVAASAALTISGVPFMGPIGAARVGYLNGEYILNPTDEQVAEGDLDLVVA
CCCCCCHHHHHHHHHHHEEECCCCCCCCCCCCEEEEECCCEEECCCHHHHHCCCCEEEEE
ATHDAVMMVESEANELSEEVMLGAVLFAHDACKEVVKAIIKLAEQAAKEPWEIASSDDDA
ECCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCH
ALKDKLRKLIGKDIAAAYKLTDKSARSNALNEARAKAKESFIADGLDPQAVMAGIKIVKK
HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
LEAEIVRTAILKEGKRIDGRTTTQIRPIVAETHFLPRAHGSALFTRGETQTIATCTLGTK
HHHHHHHHHHHHCCCCCCCCCCCEEEHHHHHHCCCCCCCCCEEEECCCCCEEEEEECCCC
DAEQMIDGLNGLSYQHFMLHYNFPPYSVGEVGRFGAPGRREVGHGKLAWRALHPVLPSKD
HHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCC
EFPYTIRLTSDITESNGSSSMASVCGGSLAMMDAGVPIKRPVSGIAMGLILEGKDYAILS
CCCEEEEEECCCCCCCCCCHHHHHCCCCEEEEECCCCCCCCHHHHEEEEEECCCCHHHHH
DILGDEDHLGDMDFKVAGTSEGITTMQMDIKIAGITREIFEAALAQAKEGRAHILGEMNK
HHCCCCCCCCCCCEEEECCCCCCEEEEEEEEEEHHHHHHHHHHHHHHHCCHHHHHHHHHH
ALGEVRTELSAHAPRIETMQIDKAKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISS
HHHHHHHHHHHCCCCCEEEECCHHHHHHHHCCCHHHHHHHHHHCCCEEEECCCCEEEECC
SDLDQIEAARKWIAGIVEEAEVGKIYDGKVVNLVDFGAFVNFMGGKDGLVHVSEIRNERV
CCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHHCCCCCCCEEHHHHHHHHH
EKVADVLSEGQDVKVKVLEIDPRGKVRLSMRVVDQETGAELEDTRPAREPRERGDRGDRG
HHHHHHHHCCCCEEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCCHHHHCCCCCCC
DRGPRRDGGDRNRGGRERGPRRDGGGDRGPRRERSEDGPEDQGHVPDFLKD
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCC
>Mature Secondary Structure
MFDVKKVSIEWGGETLTLETGKVARQADGAVIATLGETVVLCAVTAAKSVKDGQDFFPLT
CCCCEEEEEEECCEEEEEECCCHHHHCCCCEEEECCCCEEHHHHHHHHHCCCCCCCCEEE
VHYQEKYSAAGRIPGGFFKRERGATEKETLVSRLIDRPIRPLFPEGFYNEINAIAQVLSY
EEECHHHCCCCCCCCHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHC
DGHNEPDILAMVAASAALTISGVPFMGPIGAARVGYLNGEYILNPTDEQVAEGDLDLVVA
CCCCCCHHHHHHHHHHHEEECCCCCCCCCCCCEEEEECCCEEECCCHHHHHCCCCEEEEE
ATHDAVMMVESEANELSEEVMLGAVLFAHDACKEVVKAIIKLAEQAAKEPWEIASSDDDA
ECCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCH
ALKDKLRKLIGKDIAAAYKLTDKSARSNALNEARAKAKESFIADGLDPQAVMAGIKIVKK
HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
LEAEIVRTAILKEGKRIDGRTTTQIRPIVAETHFLPRAHGSALFTRGETQTIATCTLGTK
HHHHHHHHHHHHCCCCCCCCCCCEEEHHHHHHCCCCCCCCCEEEECCCCCEEEEEECCCC
DAEQMIDGLNGLSYQHFMLHYNFPPYSVGEVGRFGAPGRREVGHGKLAWRALHPVLPSKD
HHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCC
EFPYTIRLTSDITESNGSSSMASVCGGSLAMMDAGVPIKRPVSGIAMGLILEGKDYAILS
CCCEEEEEECCCCCCCCCCHHHHHCCCCEEEEECCCCCCCCHHHHEEEEEECCCCHHHHH
DILGDEDHLGDMDFKVAGTSEGITTMQMDIKIAGITREIFEAALAQAKEGRAHILGEMNK
HHCCCCCCCCCCCEEEECCCCCCEEEEEEEEEEHHHHHHHHHHHHHHHCCHHHHHHHHHH
ALGEVRTELSAHAPRIETMQIDKAKIRDVIGTGGKVIREIVATTGAKVDIDDEGLIKISS
HHHHHHHHHHHCCCCCEEEECCHHHHHHHHCCCHHHHHHHHHHCCCEEEECCCCEEEECC
SDLDQIEAARKWIAGIVEEAEVGKIYDGKVVNLVDFGAFVNFMGGKDGLVHVSEIRNERV
CCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHHCCCCCCCEEHHHHHHHHH
EKVADVLSEGQDVKVKVLEIDPRGKVRLSMRVVDQETGAELEDTRPAREPRERGDRGDRG
HHHHHHHHCCCCEEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCCHHHHCCCCCCC
DRGPRRDGGDRNRGGRERGPRRDGGGDRGPRRERSEDGPEDQGHVPDFLKD
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCC

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