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Streptococcus mutans Search Results

Record: 1 of 1  
MiniMap IGR122 IGR127 IGR128 IGR123 IGR124 IGR121 IGR125 IGR126 SMu0136 nlmA, - SMu0133 nlmB, - SMu0134 rpsO, - SMu0137 SMu0135 cysE, - SMu0140 SMu0143 cysS, - SMu0141 pnpA,comR, - SMu0138 SMu0136 nlmA, - SMu0133 nlmB, - SMu0134 rpsO, - SMu0137 SMu0135 cysE, - SMu0140 SMu0143 cysS, - SMu0141 pnpA,comR, - SMu0138 SMu0136 nlmA, - SMu0133 rpsO, - SMu0137 SMu0135 cysE, - SMu0140 cysS, - SMu0141 pnpA,comR, - SMu0138 SMu0142 SMu0139 SMu0139 SMu0143 nlmB, - SMu0134 SMu0142


LANL Gene ID: SMu0138

GenBank Locus Tag: SMU.155

DNA Molecule Name:
1  

GenBank ID:
24378670

Gene Name:
pnpA  comR  

Definition:
polyribonucleotide nucleotidyltransferase alpha subunit (PNPase)

Cellular Location:
Cytoplasm [Evidence]

Gene Start:
157228

Gene Stop:
159420

Gene Length:
2193

Molecular Weight*:
80049

pI*:
5.00

Net Charge*:
-25.31

EC:
2.7.7.8  

Functional Class:
Transcription; Degradation of RNA  

Gene Ontology:
Biological process
  GO:0006396    RNA processing
  GO:0006402    mRNA catabolic process

Molecular function
  GO:0000175    3'-5'-exoribonuclease activity
  GO:0003723    RNA binding
  GO:0004654    polyribonucleotide nucleotidyltransferase activity


Pathway: pathway table
Purine metabolism
Pyrimidine metabolism

Secondary Evidence:
Jarrige AC, Mathy N, Portier C.
PNPase autocontrols its expression by degrading a double-stranded structure in the pnp mRNA leader.
EMBO J. 2001 Dec 3;20(23):6845-55.
PMID: 11726520

Symmons MF, Jones GH, Luisi BF.
A duplicated fold is the structural basis for polynucleotide phosphorylase catalytic activity, processivity, and regulation.
Structure Fold Des. 2000 Nov 15;8(11):1215-26.
PMID: 11080643

Comment:
For other 'com' genes see SMu0567 (comEA); SMu0568 (comEC); SMu1814 (comX1);SMu0258 (comA); SMu0259 (comB);SMu1804 (comYA);SMu1803 (comYB); SMu1802 (comYC);SMu1801 (comYD); SMu0451 (comF); SMu0452 (comFC); SMu0490 (comC); SMu1782 (comA);SMu1684 (comEB);SMu1710 (comA); SMu1739 (comC) and SMu1740 (comD).



View in HOMD Genome Viewer

Blast Summary:  PSI-Blast Search
Numerous similarities in gapped BLAST to PNPase sequences. Residues 1-708 are 81% similar to the protein from S.pyogenes (gi15675748). Residues 1-728 are 78% similar to gi15902560 from S.pneumoniae.





The best hit to the Streptococcus agalactiae 2603 V/R genome is to SAG0203 (0.0).


Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|24378670|ref|NP_720625.1|  polyribonucleotide nucleotidyl...  1316   0.0  
 gi|149002268|ref|ZP_01827210.1|  polyribonucleotide nucleoti...  1164   0.0  
 gi|149005700|ref|ZP_01829439.1|  polyribonucleotide nucleoti...  1164   0.0  
 gi|76788173|ref|YP_328934.1|  polyribonucleotide nucleotidyl...  1163   0.0  
 gi|157075735|gb|ABV10418.1|  polyribonucleotide nucleotidylt...  1163   0.0  
 gi|148992301|ref|ZP_01822024.1|  polyribonucleotide nucleoti...  1162   0.0  
 gi|148983970|ref|ZP_01817289.1|  polyribonucleotide nucleoti...  1162   0.0  
 gi|25010273|ref|NP_734668.1|  polynucleotide phosphorylase, ...  1161   0.0  
 gi|22536387|ref|NP_687238.1|  polyribonucleotide nucleotidyl...  1161   0.0  
 gi|15902560|ref|NP_358110.1|  Polyribonucleotide nucleotidyl...  1159   0.0


InterPro Summary:  InterProScan

InterPro
IPR001247
Domain
Exoribonuclease
PF01138 [11-142]T 2.30000440726539E-28 PF01138 RNase_PH[326-459]T 3.1000130737018897E-38 PF01138 RNase_PH RNase_PH
PF03725 [145-209]T 1.0E-13 PF03725 RNase_PH_C[462-532]T 7.600000111157909E-23 PF03725 RNase_PH_C RNase_PH_C
PF03726 [240-323]T 0.00640000038788492 PF03726 PNPase PNPase
SSF46915 [236-324]T 3.9E-16 SSF46915 3_ExoRNase 3_ExoRNase
SSF55666 [143-236]T 3.2999999999999996E-33 SSF55666 3_ExoRNase[462-553]T 5.999999999999999E-37 SSF55666 3_ExoRNase 3_ExoRNase
InterPro
IPR003029
Domain
RNA binding S1
PF00575 [621-693]T 3.0000006799286197E-20 PF00575 S1 S1
SM00316 [623-693]T 7.600000000000149E-25 SM00316 S1 S1
PS50126 [625-693]T 0.0 PS50126 S1 S1
InterPro
IPR004087
Domain
KH
SM00322 [555-620]T 1.5999999999999098E-11 SM00322 KH KH
InterPro
IPR004088
Domain
KH, type 1
PF00013 [558-615]T 1.39999892049877E-10 PF00013 KH_1 KH_1
PS50084 [556-615]T 0.0 PS50084 KH_TYPE_1 KH_TYPE_1
InterPro
IPR012162
Family
Polyribonucleotide nucleotidyltransferase
PIRSF005499 [2-718]T 0.0 PIRSF005499 PNPase PNPase
PTHR11252 [143-709]T 0.0 PTHR11252 PNPase PNPase
InterPro
IPR012340
Domain
Nucleic acid-binding, OB-fold
G3DSA:2.40.50.140 [620-695]T 5.59999989416987E-20 G3DSA:2.40.50.140 OB_NA_bd_sub OB_NA_bd_sub
noIPR
unintegrated
unintegrated
G3DSA:1.10.10.400 [235-322]T 2.9000003626991002E-8 G3DSA:1.10.10.400 G3DSA:1.10.10.400 G3DSA:1.10.10.400
G3DSA:3.30.1370.10 [557-619]T 1.99999965421631E-4 G3DSA:3.30.1370.10 G3DSA:3.30.1370.10 G3DSA:3.30.1370.10
SSF50249 [612-699]T 6.0E-24 SSF50249 Nucleic_acid_OB Nucleic_acid_OB
SSF54211 [1-142]T 8.4E-42 SSF54211 SSF54211[325-461]T 1.1000000000000001E-41 SSF54211 SSF54211 SSF54211
SSF54791 [555-628]T 4.4999999999999995E-20 SSF54791 SSF54791 SSF54791


COGS Summary:  COGS Search
BeTs to 11 clades of COG1185
COG name: Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase)
Functional Class: J
The phylogenetic pattern of COG1185 is -----qvcebrhuj--olinx
Number of proteins in this genome belonging to this COG is 1
Blocks Summary:  Blocks Search
No significant hits to the Blocks database.

 ProDom Summary:  Protein Domain Search
Residues 10-81 are 79% similar to a (NUCLEOTIDYLTRANSFERASE POLYRIBONUCLEOTIDE) protein domain (PD005304 which is seen in Q9CEI6_LACLA.

Residues 220-300 are 59% similar to a (NUCLEOTIDYLTRANSFERASE COMPLETE PROTEOME) protein domain (PD407002 which is seen in Q9CEI6_LACLA.

Residues 396-442 are 95% similar to a (NUCLEOTIDYLTRANSFERASE POLYRIBONUCLEOTIDE) protein domain (PD111902 which is seen in Q9CEI6_LACLA.

Residues 444-541 are 74% similar to a (NUCLEOTIDYLTRANSFERASE COMPLETE PROTEOME) protein domain (PD002075 which is seen in Q9CEI6_LACLA.

Residues 631-698 are 51% similar to a (RIBOSOMAL COMPLETE PROTEOME RNA-BINDING 30S REPEAT) protein domain (PD000709 which is seen in Q9CEI6_LACLA.

Residues 548-628 are 58% similar to a (NUCLEOTIDYLTRANSFERASE POLYRIBONUCLEOTIDE) protein domain (PD023173 which is seen in Q9CEI6_LACLA.

Residues 307-440 are 74% similar to a (NUCLEOTIDYLTRANSFERASE COMPLETE PROTEOME) protein domain (PD333034 which is seen in PNP_BACSU.

Residues 87-117 are identical to a (NUCLEOTIDYLTRANSFERASE POLYRIBONUCLEOTIDE) protein domain (PD005803 which is seen in Q9CEI6_LACLA.

Residues 295-356 are 46% similar to a (NUCLEOTIDYLTRANSFERASE PROTEOME COMPLETE) protein domain (PD406609 which is seen in Q9HV59_PSEAE.

Residues 301-354 are 82% similar to a (NUCLEOTIDYLTRANSFERASE POLYRIBONUCLEOTIDE) protein domain (PD379184 which is seen in Q9CEI6_LACLA.

Residues 359-394 are 83% similar to a (NUCLEOTIDYLTRANSFERASE POLYRIBONUCLEOTIDE) protein domain (PD416000 which is seen in Q9CEI6_LACLA.


Paralogs:  Local Blast Search
SMu0138 is paralogously related (blast p-value < 1e-3) to SMu1097, a predicted 30S ribosomal s1 protein, SMu0682, a conserved hypothetical, and SMu0443, a predicted polynucleotide nucleotidyltransferase.


Pfam Summary:  Pfam Search
Residues 11 to 142 (E-value = 2.1e-31) place SMu0138 in the RNase_PH family which is described as 3' exoribonuclease family, domain 1 (PF01138)
Residues 145 to 209 (E-value = 3e-16) place SMu0138 in the RNase_PH_C family which is described as 3' exoribonuclease family, domain 2 (PF03725)
Residues 240 to 323 (E-value = 5.7e-06) place SMu0138 in the PNPase family which is described as Polyribonucleotide nucleotidyltransferase, RNA binding domain (PF03726)
Residues 326 to 459 (E-value = 2.7e-41) place SMu0138 in the RNase_PH family which is described as 3' exoribonuclease family, domain 1 (PF01138)
Residues 462 to 532 (E-value = 6.7e-26) place SMu0138 in the RNase_PH_C family which is described as 3' exoribonuclease family, domain 2 (PF03725)
Residues 560 to 606 (E-value = 1.7e-10) place SMu0138 in the KH family which is described as KH domain (PF00013)
Residues 621 to 693 (E-value = 2.8e-23) place SMu0138 in the S1 family which is described as S1 RNA binding domain (PF00575)

 Structural Feature(s):
Feature Type  Start  Stop
transmembrane  
444  
460

Top PDB Hits:
pdb1E3PA Chain A, Tungstate Derivative Of Streptomyces Antibi... 475 9e-135
pdb1E3HA Chain A, Semet Derivative Of Streptomyces Antibiotic... 464 2e-131

Gene Protein Sequence:
MSKQVFETIFAGKKLAVEIGQVAKQANGAALVRYGDSTVLSAAVMSKKMS
TGDFFPLQINYEEKRYAAGKFPGGFNKREGRPSTDATLTARLIDRPIRPM
FAEGFRNEVQVINTVLSYDADASAPMAAMFGSSLALSISDIPFNGPIAGV
QVAYLDGQYVINPTAEEKKASLLELTVAGTKEAINMVESGAKELSEDIML
EALLKGHEAVRELIAFQEEIIAAVGKEKAEVELLQVDADLQAEIVGKYNA
DLQKAVQIEEKKAREIATEAVKEHVTAEYEERYAEHEEHDRIMRDVAEIL
EQMEHAEVRRLITEDKVRPDGRRVDEIRPLDAEIDFLPKVHGSGLFTRGQ
TQALSVLTLAPMGDTQIVDGLDEEYKKRFMHHYNFPQYSVGETGRYGAPG
RREIGHGALGERALAQVLPSLEAFPYAIRLVAEVLESNGSSSQASICAGT
LALMAGGVPIKAPVAGIAMGLISDGTNYTVLTDIQGLEDHFGDMDFKVAG
TREGITALQMDIKIEGITPQILEEALAQAKKARFEILDVIEKVIPAPRLE
LAPTAPKIDTIKVDVDKIKIVIGKGGETIDKIIEETGVKIDIDEDGNIAI
YSSDQEAINRTKEIIASLVREAKVGEIYEAEVVRIEKFGAFVHLFDKTDA
LVHISEIAWTRTNKVEDVLAVGDKVTVKVVKVDDKGRIDASMKALLPRPP
RSEKSNKEDHQSVRHHGSPKDDKGKEKYDK

Gene Nucleotide Sequence:  Sequence Viewer
ATGTCAAAACAAGTGTTTGAAACAATTTTTGCTGGCAAAAAGCTGGCTGT
AGAAATCGGTCAGGTTGCCAAACAAGCCAATGGTGCTGCTTTGGTTCGTT
ATGGTGATTCAACGGTCTTGAGTGCTGCAGTTATGTCTAAAAAAATGTCC
ACAGGCGATTTCTTCCCACTTCAGATTAATTATGAAGAAAAAAGATACGC
AGCTGGGAAATTCCCCGGTGGCTTTAACAAGCGTGAAGGCCGGCCATCAA
CCGATGCTACTTTAACGGCTCGCTTAATTGATCGTCCGATTCGTCCCATG
TTTGCGGAAGGTTTTCGCAATGAAGTCCAAGTCATTAATACAGTTCTGTC
TTATGATGCTGATGCGAGTGCTCCTATGGCGGCTATGTTTGGCAGTTCAC
TAGCACTTTCGATTTCAGATATTCCTTTTAATGGCCCGATTGCTGGGGTA
CAAGTTGCTTACCTTGATGGTCAATATGTTATTAATCCTACGGCTGAAGA
AAAGAAAGCTTCACTTTTAGAATTGACTGTCGCCGGAACCAAGGAAGCCA
TCAATATGGTTGAGTCTGGTGCTAAGGAATTGTCAGAAGATATCATGCTT
GAAGCCCTTCTCAAAGGACATGAAGCGGTACGTGAACTAATTGCTTTCCA
AGAGGAAATTATAGCAGCTGTTGGTAAAGAAAAAGCTGAAGTTGAATTGT
TACAGGTGGATGCTGATTTGCAGGCTGAAATTGTTGGAAAATACAATGCA
GACCTTCAAAAGGCTGTCCAAATTGAGGAAAAGAAAGCCCGCGAAATTGC
GACAGAAGCTGTCAAAGAGCACGTGACTGCTGAATATGAAGAACGCTATG
CTGAACACGAGGAACATGACCGTATCATGCGCGACGTAGCTGAAATCCTT
GAACAGATGGAACACGCAGAGGTTCGCCGTCTTATCACAGAAGACAAGGT
TCGTCCTGACGGTCGTCGTGTTGATGAAATCCGTCCGCTTGATGCAGAGA
TTGATTTCTTGCCAAAAGTACATGGTTCAGGTCTCTTTACTCGTGGACAA
ACCCAAGCCTTGTCAGTGTTAACATTGGCTCCAATGGGAGATACCCAAAT
TGTGGACGGGCTTGACGAAGAATATAAAAAACGCTTCATGCATCATTATA
ATTTCCCGCAATATTCGGTTGGGGAAACGGGACGGTATGGAGCGCCAGGA
CGCCGAGAAATCGGTCATGGAGCTCTTGGTGAACGTGCTTTGGCTCAAGT
TCTGCCAAGTTTGGAAGCATTTCCTTATGCCATTCGTTTGGTAGCTGAAG
TGTTAGAATCAAACGGTTCCTCATCACAGGCTTCAATTTGTGCGGGAACG
CTCGCTCTTATGGCTGGGGGTGTACCTATCAAAGCACCAGTTGCAGGTAT
TGCTATGGGACTTATCTCAGACGGCACTAACTATACCGTTTTGACCGATA
TCCAAGGACTAGAAGATCACTTCGGCGATATGGACTTTAAAGTTGCAGGT
ACCCGTGAAGGTATCACAGCTTTGCAAATGGATATTAAGATTGAGGGTAT
TACACCGCAGATTTTAGAAGAAGCTCTTGCCCAAGCTAAAAAAGCACGTT
TTGAAATTCTTGATGTGATCGAAAAAGTCATTCCTGCACCACGTCTAGAA
TTAGCACCGACAGCACCTAAAATTGACACAATTAAAGTTGATGTTGATAA
AATCAAGATTGTCATTGGCAAGGGCGGTGAAACCATTGATAAGATTATTG
AAGAAACTGGCGTTAAGATTGATATTGATGAAGACGGTAATATTGCTATC
TACTCTAGCGATCAAGAGGCTATCAATCGGACTAAGGAAATTATTGCAAG
TTTGGTACGTGAAGCTAAGGTTGGTGAGATCTATGAAGCTGAAGTTGTCC
GTATTGAGAAATTTGGTGCTTTTGTGCATCTTTTTGATAAGACAGATGCA
CTCGTTCACATCTCTGAAATAGCTTGGACCCGCACGAATAAAGTAGAAGA
TGTCTTGGCTGTTGGAGATAAGGTTACGGTCAAAGTTGTTAAGGTAGATG
ACAAAGGCCGTATTGATGCTTCCATGAAAGCTTTATTACCACGTCCGCCA
AGATCTGAAAAGTCAAATAAGGAGGACCATCAATCTGTCAGACATCACGG
TTCTCCTAAAGACGATAAAGGTAAAGAAAAATATGATAAATAA

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