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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap tRNA-Gln-1 IGR0022 IGR0027 IGR0025 IGR0021 IGR0023 IGR0026 IGR0024 PG0027 spoU, - PG0025 PG0028 PG0026.1 cdd, - PG0026 ispF, - PG0024 PG0023 PG0022 PG0027 spoU, - PG0025 PG0028 PG0026.1 cdd, - PG0026 ispF, - PG0024 PG0023 PG0022 PG0027 spoU, - PG0025 PG0028 cdd, - PG0026 ispF, - PG0024 PG0023 PG0022 PG0026.1


LANL Gene ID: PG0025

GenBank Locus Tag: PG0029

DNA Molecule Name:
1  

GenBank ID:


Gene Name:
spoU  

Definition:
RNA methylase SpoU family

Cellular Location:
Cytoplasm [Evidence]

Gene Start:
35295

Gene Stop:
34597

Gene Length:
699

Molecular Weight*:
26208

pI*:
7.10

Net Charge*:
0.31

EC:
2.1.1.-  

Functional Class:
Translation; tRNA and rRNA base modification  

Gene Ontology:
Biological process
  GO:0006396    RNA processing

Molecular function
  GO:0003723    RNA binding
  GO:0008173    RNA methyltransferase activity


Pathway: pathway table
Aminophosphonate metabolism
Androgen and estrogen metabolism
Histidine metabolism
Porphyrin and chlorophyll metabolism
Tryptophan metabolism
Tyrosine metabolism
Ubiquinone biosynthesis

Comment:
TIGR ID: PG0029

Human Oral Microbiome Database:
View in HOMD Genome Viewer

Blast Summary:  PSI-Blast Search
Numerous significant hits in gapped BLAST to methyltransferase proteins; e.g. residues 77-220 are 32% similar to the RNA methyltransferase, TrmH family in Neisseria meningitidis (AE002444); residues 52-221 are 27% similar to the spoU protein in Borrelia burgdorferi; residues 80-220 are 30% similar to the OBP33pep-like protein in Arabidopsis thaliana (Z97339).

Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|154493345|ref|ZP_02032665.1|  hypothetical protein PARMER...   234   3e-60
 gi|150009602|ref|YP_001304345.1|  tRNA/rRNA methyltransferas...   234   4e-60
 gi|53711292|ref|YP_097284.1|  tRNA/rRNA methyltransferase [B...   229   7e-59
 gi|29348574|ref|NP_812077.1|  tRNA/rRNA methyltransferase [B...   229   1e-58
 gi|153807072|ref|ZP_01959740.1|  hypothetical protein BACCAC...   226   6e-58
 gi|156109886|gb|EDO11631.1|  hypothetical protein BACOVA_028...   226   9e-58
 gi|156862376|gb|EDO55807.1|  hypothetical protein BACUNI_004...   224   2e-57
 gi|86131594|ref|ZP_01050192.1|  putative SpoU rRNA methylase...   215   1e-54
 gi|150003712|ref|YP_001298456.1|  tRNA/rRNA methyltransferas...   215   2e-54
 gi|88801799|ref|ZP_01117327.1|  putative SpoU rRNA methylase...   213   9e-54


InterPro Summary:  InterProScan

InterPro
IPR001537
Domain
tRNA/rRNA methyltransferase, SpoU
PD001243 [77-212]T 1e-45 PD001243 Q8A2Z0_BACTN_Q8A2Z0; Q8A2Z0_BACTN_Q8A2Z0;
PF00588 [77-221]T 3.6e-45 PF00588 SpoU_methylase SpoU_methylase
noIPR
unintegrated
unintegrated
G3DSA:3.40.1280.10 [56-227]T 6.2e-36 G3DSA:3.40.1280.10 no description no description
PTHR12029 [54-228]T 2.9e-82 PTHR12029 RNA METHYLTRANSFERASE RNA METHYLTRANSFERASE
PTHR12029:SF6 [54-228]T 2.9e-82 PTHR12029:SF6 gb def: TRNA/rRNA methyltransferase gb def: TRNA/rRNA methyltransferase


COGS Summary:  COGS Search
BeTs to 14 clades of COG0566
COG name: rRNA methylases
Functional Class: J
The phylogenetic pattern of COG0566 is a---YQvCEBRHujgpOLinx
Number of proteins in this genome belonging to this COG is 3
Blocks Summary:  Blocks Search
***** PF00588 (SpoU rRNA Methylase family) with a combined E-value of 1.4e-11.
    PF00588A    80-98
    PF00588B    201-226


 ProDom Summary:  Protein Domain Search
Residues 80-222 are 27% similar to a (PROTEIN METHYLTRANSFERASE TRANSFERASE TRNA/RRNA RRNA) protein domain (PD001243 which is seen in YACO_BACSU.


Paralogs:  Local Blast Search
Residues 44-225 are 28% similar to PG1610,rRNA/tRNA methyltransferase. Residues 78-219 are 25% similar to PG0672, rRNA methylase; RNA methyltransferase.

Pfam Summary:  Pfam Search
Residues 77 to 221 (E-value = 3e-18) place PG0025 in the SpoU_methylase family which is described as SpoU rRNA Methylase family (PF00588)

 Structural Feature(s):
Feature Type  Start  Stop
transmembrane  
212  
228

Top PDB Hits:
-50% similar to PDB:1V2X TrmH (E_value = 2.1E_11);
-52% similar to PDB:1ZJR Crystal Structure of A. aeolicus TrmH/SpoU tRNA modifying enzyme (E_value = 7.9E_11);
-59% similar to PDB:2HA8 Methyltransferase Domain of Human TAR (HIV-1) RNA binding protein 1 (E_value = 2.3E_10);

Gene Protein Sequence:
LLNLQLCCTYTWDLHSKKTELQNAIQGFHPIFRNSLHLIMECAPITQSDQ
TTDMRKKKTIEIQRLKTEEYHESPKLPIRIILDDIRSMNNVGSVFRTADA
FRLEGLCLCGITARPPHPDIHKTALGAEDSVKWEYFSSVVDAIEELKAKG
YSICAIEQAEGSLSLENFSPSKGTRYALIFGNEVKGVRQEAIDLCDLCLE
IPQFGTKHSLNVSVTAGIVIWQLVKPLLPLLKK

Gene Nucleotide Sequence:  Sequence Viewer
TTGCTAAATTTACAATTATGTTGCACTTATACATGGGATCTGCACTCGAA
AAAAACTGAACTTCAGAACGCCATTCAAGGTTTTCATCCTATATTTAGAA
ATTCGTTGCATTTGATAATGGAATGTGCACCGATCACTCAATCCGACCAG
ACAACAGACATGCGCAAAAAAAAGACTATCGAAATACAGCGACTCAAAAC
AGAAGAATATCACGAAAGCCCCAAGCTACCTATCAGGATCATACTGGATG
ATATACGTAGTATGAACAATGTCGGGTCAGTCTTTAGAACGGCCGATGCT
TTTCGGTTAGAAGGGCTATGCTTGTGCGGAATCACAGCTCGGCCACCTCA
TCCCGACATACACAAGACAGCTTTAGGAGCCGAGGACAGTGTGAAATGGG
AGTATTTCTCTTCGGTAGTGGATGCAATAGAAGAATTGAAAGCAAAAGGA
TATAGTATCTGTGCGATAGAACAGGCGGAAGGAAGCCTATCCTTGGAAAA
TTTCTCCCCCTCAAAAGGCACACGCTACGCCCTTATCTTTGGCAATGAAG
TAAAAGGAGTACGACAGGAAGCCATCGACCTCTGTGACCTCTGCTTAGAG
ATACCCCAGTTCGGCACGAAGCATTCGCTCAATGTAAGTGTCACAGCGGG
AATCGTCATCTGGCAACTGGTCAAGCCGCTACTTCCCCTCCTGAAAAAA

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