Definition Hydrogenobaculum sp. Y04AAS1 chromosome, complete genome.
Accession NC_011126
Length 1,559,514

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The map label for this gene is pnp

Identifier: 195952523

GI number: 195952523

Start: 127391

End: 129502

Strand: Direct

Name: pnp

Synonym: HY04AAS1_0143

Alternate gene names: 195952523

Gene position: 127391-129502 (Clockwise)

Preceding gene: 195952522

Following gene: 195952524

Centisome position: 8.17

GC content: 38.49

Gene sequence:

>2112_bases
ATGATTGTAAAAGCTGAAATTGGAAATCAAGACCCTATATATATAGAAGCAAACAAGTATGCCCATCAAGCTGATAGCAG
CATTCTTATATCTCAAGGTGGTACAAAGGTATTGGTTACTGTATGTGTATCAGAAGAGCCTCTATGTGGCATAGATTTTG
CACCTTTATCAGTAGATTACAGAGAGCGCTCTTTTGCTTGGGGTAAAATACCAGGAGGGTTTATAAAAAGAGAGGGAAAA
CCTACAGATAGAGAAGTGCTTATCTCAAGGGTGATAGATAGACCTCTTAGACCTCTCATGCCCAAAGGATTTTTAAATGA
GGTGGTGGTTACTTGTCTAACGCTTTCAGCCGATGACAAATACGATCCTGACGTGTTAGCCATCACAGGTGCTTCTGCTG
CGCTCGTTTCTTCCTCTGTGCCTTTTGAAGGGCCTATAGCTGGCATGAGGGTTTGCAGAGTAAACGGAGAATTTATAATA
AACCCCACCTATGAACAGCGCAAAAACAGCGATATGGATATCGTTATGGCTCTTTCAAAAGATGCGATAGTGATGGTGGA
AGGCGGGGCAAAAGAAGTAGAAGAAAGTGTTCTTTTGGATGCTTTATTTTTTGGACTTGAAAAAGGACAAACCCTTATAA
AGGCCCAAGAAGAGCTTGTGGATTCTTTAAAACCAGAGAAAAAACCCATAGGTCACATCGGTTTATCAGATGATATGGCG
AATAAGCTAAAAGAAATTGCTTCTTCAAAGATTTTAGAAGCTTTTAGTATAGAAGATAAAAAAGAAAGATCTAAAGCTTT
AAAAGATGTTTATGCTCAAGCAATGCAAAAATTGGGGATATCAAAAGAACAAGAGTTTGACTTTTTAGTATCTTTTAAAG
ATTTAGAAAGCCAACTTATGAGGGAGCAAATCCTAAAATATAAAAAGCGCATAGATGGTAGAAAGGAAACAGATATAAGG
CCAATTACCATAGAAATGCATCCACTCGAAAGACCACATGGGTCTGCTGTTTTCACTAGAGGTCAAACTCAAGCTTTAGC
TACAGTGACTTTGGCACCAAAAGATGAAGCTCAGCTTGTGGAAACAATATTTGAAGGTGAGACTTTTAAAAGATTTATGC
TTCATTACAACTTCCCACCTTTTAGCACAGGTGAAGCGAGGCCTTGGGGTCCTCCAAGAAGAAGGGAGATAGGCCACGGT
GCTTTGGCGGAAAGAGCTTTAGAGCCTCTTTTAGCGAAAGAAGAGGATTTCCCTTACATTATAAGAGTAGTTTCAGATAT
TTTAGAATCAAACGGCTCAAGCTCTATGGCTACAGTGTGCGCAGGTTCTTTGGCACTTTTTGATGCTGGTGTACCCATGA
AAAAGCATGTAGCCGGCATAGCTATGGGTCTTATAAAAGATGGCGATAACTTTGTCATACTTACCGATATACTTGGAGAT
GAAGACCATCTTGGAGATATGGATTTCAAGGTAGCTGGTACAAGGGATGGAGTAACAAGCGTTCAAATGGATATAAAAAT
AAAAGGTCTTAGCAAAGATATAATGATAAAAGCTTTAAACCAAGCCAAAGAAGCAAGGATGTTTATATTGGATAAACTTT
ATGAAGCTATACCAGAACCAAACAAAGAAGTATCTAAATATGCTCCAAAAGCTCAAGTGATGAAAATTCCAGAGGACAAA
GTGGGTCTTGTAATAGGCCCTGCTGGAAAGAATATAAAGTATATAAAAGAGCAATTTGGTGCAAGTGTATGGATAGATGG
TGCTAACGCTTATATAAATGCACCTACTATAGAAGCCGTAAATAAGGCGGCAGATTTTATAAACTCTTTAATTCAAGAGG
TAGAGGTAGGTGGCGTATATGAAGGCAAAGTAATAAGGGTAGAAAACTATGGTTTGTTTGTAGAAGTACTACCTGGCAAA
GTAGGATTGCTACATGCGTCTGCTATGACTGAAAAGCCTACTATAAACGTTGGTGATACTATAAAAGTAAAAGTTATGGC
TATAGACGAACAAAATAGGTTAAACCTCTGTAGTCCAGACTATCAAAAGCCAGAAAACCAAGAAAGACCACGAAAAGAAC
AACTTAATAGGAAACCCCATCACAGAAAATAG

Upstream 100 bases:

>100_bases
TAAACAAAAGAAAAGCGTTACTTGATTACCTCAAAAGAAAAAATTATCAGAAGTACCTTGAAGTATCCGAAAAGCTTAAC
TTGAGAGTGAAGAATTGAGT

Downstream 100 bases:

>100_bases
TTTATGAAGCTTTTAGTAAAAAAACTAAGAGAAGATGCTGCACTTCCTTTTTATGCTACCTCTGGTGCTTCTGGACTCGA
TCTTTTTTGCGTTGATGATG

Product: polynucleotide phosphorylase/polyadenylase

Products: NA

Alternate protein names: Polynucleotide phosphorylase; PNPase

Number of amino acids: Translated: 703; Mature: 703

Protein sequence:

>703_residues
MIVKAEIGNQDPIYIEANKYAHQADSSILISQGGTKVLVTVCVSEEPLCGIDFAPLSVDYRERSFAWGKIPGGFIKREGK
PTDREVLISRVIDRPLRPLMPKGFLNEVVVTCLTLSADDKYDPDVLAITGASAALVSSSVPFEGPIAGMRVCRVNGEFII
NPTYEQRKNSDMDIVMALSKDAIVMVEGGAKEVEESVLLDALFFGLEKGQTLIKAQEELVDSLKPEKKPIGHIGLSDDMA
NKLKEIASSKILEAFSIEDKKERSKALKDVYAQAMQKLGISKEQEFDFLVSFKDLESQLMREQILKYKKRIDGRKETDIR
PITIEMHPLERPHGSAVFTRGQTQALATVTLAPKDEAQLVETIFEGETFKRFMLHYNFPPFSTGEARPWGPPRRREIGHG
ALAERALEPLLAKEEDFPYIIRVVSDILESNGSSSMATVCAGSLALFDAGVPMKKHVAGIAMGLIKDGDNFVILTDILGD
EDHLGDMDFKVAGTRDGVTSVQMDIKIKGLSKDIMIKALNQAKEARMFILDKLYEAIPEPNKEVSKYAPKAQVMKIPEDK
VGLVIGPAGKNIKYIKEQFGASVWIDGANAYINAPTIEAVNKAADFINSLIQEVEVGGVYEGKVIRVENYGLFVEVLPGK
VGLLHASAMTEKPTINVGDTIKVKVMAIDEQNRLNLCSPDYQKPENQERPRKEQLNRKPHHRK

Sequences:

>Translated_703_residues
MIVKAEIGNQDPIYIEANKYAHQADSSILISQGGTKVLVTVCVSEEPLCGIDFAPLSVDYRERSFAWGKIPGGFIKREGK
PTDREVLISRVIDRPLRPLMPKGFLNEVVVTCLTLSADDKYDPDVLAITGASAALVSSSVPFEGPIAGMRVCRVNGEFII
NPTYEQRKNSDMDIVMALSKDAIVMVEGGAKEVEESVLLDALFFGLEKGQTLIKAQEELVDSLKPEKKPIGHIGLSDDMA
NKLKEIASSKILEAFSIEDKKERSKALKDVYAQAMQKLGISKEQEFDFLVSFKDLESQLMREQILKYKKRIDGRKETDIR
PITIEMHPLERPHGSAVFTRGQTQALATVTLAPKDEAQLVETIFEGETFKRFMLHYNFPPFSTGEARPWGPPRRREIGHG
ALAERALEPLLAKEEDFPYIIRVVSDILESNGSSSMATVCAGSLALFDAGVPMKKHVAGIAMGLIKDGDNFVILTDILGD
EDHLGDMDFKVAGTRDGVTSVQMDIKIKGLSKDIMIKALNQAKEARMFILDKLYEAIPEPNKEVSKYAPKAQVMKIPEDK
VGLVIGPAGKNIKYIKEQFGASVWIDGANAYINAPTIEAVNKAADFINSLIQEVEVGGVYEGKVIRVENYGLFVEVLPGK
VGLLHASAMTEKPTINVGDTIKVKVMAIDEQNRLNLCSPDYQKPENQERPRKEQLNRKPHHRK
>Mature_703_residues
MIVKAEIGNQDPIYIEANKYAHQADSSILISQGGTKVLVTVCVSEEPLCGIDFAPLSVDYRERSFAWGKIPGGFIKREGK
PTDREVLISRVIDRPLRPLMPKGFLNEVVVTCLTLSADDKYDPDVLAITGASAALVSSSVPFEGPIAGMRVCRVNGEFII
NPTYEQRKNSDMDIVMALSKDAIVMVEGGAKEVEESVLLDALFFGLEKGQTLIKAQEELVDSLKPEKKPIGHIGLSDDMA
NKLKEIASSKILEAFSIEDKKERSKALKDVYAQAMQKLGISKEQEFDFLVSFKDLESQLMREQILKYKKRIDGRKETDIR
PITIEMHPLERPHGSAVFTRGQTQALATVTLAPKDEAQLVETIFEGETFKRFMLHYNFPPFSTGEARPWGPPRRREIGHG
ALAERALEPLLAKEEDFPYIIRVVSDILESNGSSSMATVCAGSLALFDAGVPMKKHVAGIAMGLIKDGDNFVILTDILGD
EDHLGDMDFKVAGTRDGVTSVQMDIKIKGLSKDIMIKALNQAKEARMFILDKLYEAIPEPNKEVSKYAPKAQVMKIPEDK
VGLVIGPAGKNIKYIKEQFGASVWIDGANAYINAPTIEAVNKAADFINSLIQEVEVGGVYEGKVIRVENYGLFVEVLPGK
VGLLHASAMTEKPTINVGDTIKVKVMAIDEQNRLNLCSPDYQKPENQERPRKEQLNRKPHHRK

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=713, Percent_Identity=35.4838709677419, Blast_Score=416, Evalue=1e-116,
Organism=Escherichia coli, GI145693187, Length=682, Percent_Identity=42.9618768328446, Blast_Score=557, Evalue=1e-159,
Organism=Caenorhabditis elegans, GI115534063, Length=658, Percent_Identity=34.8024316109423, Blast_Score=353, Evalue=2e-97,
Organism=Drosophila melanogaster, GI281362905, Length=699, Percent_Identity=35.7653791130186, Blast_Score=415, Evalue=1e-116,
Organism=Drosophila melanogaster, GI24651641, Length=699, Percent_Identity=35.7653791130186, Blast_Score=415, Evalue=1e-116,
Organism=Drosophila melanogaster, GI24651643, Length=699, Percent_Identity=35.7653791130186, Blast_Score=415, Evalue=1e-116,
Organism=Drosophila melanogaster, GI161079377, Length=669, Percent_Identity=35.575485799701, Blast_Score=393, Evalue=1e-109,

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_HYDS0 (B4U6R7)

Other databases:

- EMBL:   CP001130
- RefSeq:   YP_002120813.1
- ProteinModelPortal:   B4U6R7
- SMR:   B4U6R7
- GeneID:   6742930
- GenomeReviews:   CP001130_GR
- KEGG:   hya:HY04AAS1_0143
- HOGENOM:   HBG382411
- OMA:   YGETVVL
- ProtClustDB:   PRK11824
- 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: 77810; Mature: 77810

Theoretical pI: Translated: 5.92; Mature: 5.92

Prosite motif: PS50084 KH_TYPE_1; PS50126 S1

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.9 %Cys     (Translated Protein)
3.0 %Met     (Translated Protein)
3.8 %Cys+Met (Translated Protein)
0.9 %Cys     (Mature Protein)
3.0 %Met     (Mature Protein)
3.8 %Cys+Met (Mature Protein)

Secondary structure: 

>Translated Secondary Structure
MIVKAEIGNQDPIYIEANKYAHQADSSILISQGGTKVLVTVCVSEEPLCGIDFAPLSVDY
CEEEEECCCCCCEEEECCCHHCCCCCEEEEECCCCEEEEEEEECCCCCCCCCCCCCEECC
RERSFAWGKIPGGFIKREGKPTDREVLISRVIDRPLRPLMPKGFLNEVVVTCLTLSADDK
CCCCEECCCCCCHHHCCCCCCCHHHHHHHHHHHCCCHHCCCCHHHHHHHHHHHEECCCCC
YDPDVLAITGASAALVSSSVPFEGPIAGMRVCRVNGEFIINPTYEQRKNSDMDIVMALSK
CCCCEEEEECCCHHHHCCCCCCCCCCCCEEEEEECCCEEECCCHHHHCCCCCEEEEEECC
DAIVMVEGGAKEVEESVLLDALFFGLEKGQTLIKAQEELVDSLKPEKKPIGHIGLSDDMA
CEEEEEECCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHH
NKLKEIASSKILEAFSIEDKKERSKALKDVYAQAMQKLGISKEQEFDFLVSFKDLESQLM
HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHEEEHHHHHHHHH
REQILKYKKRIDGRKETDIRPITIEMHPLERPHGSAVFTRGQTQALATVTLAPKDEAQLV
HHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCCCCEEEECCCCCEEEEEEECCCCHHHHH
ETIFEGETFKRFMLHYNFPPFSTGEARPWGPPRRREIGHGALAERALEPLLAKEEDFPYI
HHHHCCHHHEEHHEEECCCCCCCCCCCCCCCCHHHHCCCHHHHHHHHHHHHCCCCCCHHH
IRVVSDILESNGSSSMATVCAGSLALFDAGVPMKKHVAGIAMGLIKDGDNFVILTDILGD
HHHHHHHHHCCCCCCHHHHHHCCHHEEECCCCHHHHHHHHHHHEEECCCCEEEEEECCCC
EDHLGDMDFKVAGTRDGVTSVQMDIKIKGLSKDIMIKALNQAKEARMFILDKLYEAIPEP
CCCCCCCCEEEECCCCCCEEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
NKEVSKYAPKAQVMKIPEDKVGLVIGPAGKNIKYIKEQFGASVWIDGANAYINAPTIEAV
CHHHHHHCCCCEEEECCCCCCCEEECCCCCCHHHHHHHCCCEEEEECCCCEECCCHHHHH
NKAADFINSLIQEVEVGGVYEGKVIRVENYGLFVEVLPGKVGLLHASAMTEKPTINVGDT
HHHHHHHHHHHHHHHCCCEECCEEEEEECCCEEEEECCCCEEEEEHHHCCCCCCCCCCCE
IKVKVMAIDEQNRLNLCSPDYQKPENQERPRKEQLNRKPHHRK
EEEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCC
>Mature Secondary Structure
MIVKAEIGNQDPIYIEANKYAHQADSSILISQGGTKVLVTVCVSEEPLCGIDFAPLSVDY
CEEEEECCCCCCEEEECCCHHCCCCCEEEEECCCCEEEEEEEECCCCCCCCCCCCCEECC
RERSFAWGKIPGGFIKREGKPTDREVLISRVIDRPLRPLMPKGFLNEVVVTCLTLSADDK
CCCCEECCCCCCHHHCCCCCCCHHHHHHHHHHHCCCHHCCCCHHHHHHHHHHHEECCCCC
YDPDVLAITGASAALVSSSVPFEGPIAGMRVCRVNGEFIINPTYEQRKNSDMDIVMALSK
CCCCEEEEECCCHHHHCCCCCCCCCCCCEEEEEECCCEEECCCHHHHCCCCCEEEEEECC
DAIVMVEGGAKEVEESVLLDALFFGLEKGQTLIKAQEELVDSLKPEKKPIGHIGLSDDMA
CEEEEEECCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHH
NKLKEIASSKILEAFSIEDKKERSKALKDVYAQAMQKLGISKEQEFDFLVSFKDLESQLM
HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHEEEHHHHHHHHH
REQILKYKKRIDGRKETDIRPITIEMHPLERPHGSAVFTRGQTQALATVTLAPKDEAQLV
HHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCCCCEEEECCCCCEEEEEEECCCCHHHHH
ETIFEGETFKRFMLHYNFPPFSTGEARPWGPPRRREIGHGALAERALEPLLAKEEDFPYI
HHHHCCHHHEEHHEEECCCCCCCCCCCCCCCCHHHHCCCHHHHHHHHHHHHCCCCCCHHH
IRVVSDILESNGSSSMATVCAGSLALFDAGVPMKKHVAGIAMGLIKDGDNFVILTDILGD
HHHHHHHHHCCCCCCHHHHHHCCHHEEECCCCHHHHHHHHHHHEEECCCCEEEEEECCCC
EDHLGDMDFKVAGTRDGVTSVQMDIKIKGLSKDIMIKALNQAKEARMFILDKLYEAIPEP
CCCCCCCCEEEECCCCCCEEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
NKEVSKYAPKAQVMKIPEDKVGLVIGPAGKNIKYIKEQFGASVWIDGANAYINAPTIEAV
CHHHHHHCCCCEEEECCCCCCCEEECCCCCCHHHHHHHCCCEEEEECCCCEECCCHHHHH
NKAADFINSLIQEVEVGGVYEGKVIRVENYGLFVEVLPGKVGLLHASAMTEKPTINVGDT
HHHHHHHHHHHHHHHCCCEECCEEEEEECCCEEEEECCCCEEEEEHHHCCCCCCCCCCCE
IKVKVMAIDEQNRLNLCSPDYQKPENQERPRKEQLNRKPHHRK
EEEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCC

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