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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap IGR0055 IGR0057 IGR0058 IGR0056 IGR0059 lpxA, - PG0059 pyrF,ura3, - PG0062 prfA, - PG0063 PG0064 abiPg, - PG0067 fabZ, - PG0060 PG0058 lpxA, - PG0059 pyrF,ura3, - PG0062 prfA, - PG0063 PG0064 abiPg, - PG0067 fabZ, - PG0060 PG0058 lpxA, - PG0059 pyrF,ura3, - PG0062 prfA, - PG0063 PG0064 fabZ, - PG0060 PG0058 PG0066 PG0065 firA,lpxD, - PG0061 PG0065 firA,lpxD, - PG0061 abiPg, - PG0067 PG0066


LANL Gene ID: PG0062

GenBank Locus Tag: PG0073

DNA Molecule Name:
1  

GenBank ID:
34539944

Gene Name:
pyrF  ura3  

Definition:
orotidine 5' phosphate decarboxylase

Cellular Location:
Cytoplasm [Evidence]

Gene Start:
88160

Gene Stop:
87333

Gene Length:
828

Molecular Weight*:
30558

pI*:
4.90

Net Charge*:
-8.21

EC:
2.4.2.10  4.1.1.23  

Functional Class:
Purines, pyrimidines, nucleosides and nucleotides; Pyrimidine ribonucleotide biosynthesis  

Gene Ontology:
Biological process
  GO:0006207    'de novo' pyrimidine base biosynthetic process
  GO:0006221    pyrimidine nucleotide biosynthetic process
  GO:0008152    metabolic process

Molecular function
  GO:0003824    catalytic activity
  GO:0004590    orotidine-5'-phosphate decarboxylase activity


Pathway: pathway table
Pyrimidine metabolism

Comment:
TIGR ID: PG0073

Proteomic Data: Proteomic Data Search
TIGR Annotationorotidine 5'-monophosphate decarboxylase, GroupO (purines, pyrimidines, nucleosides and nucleotides)
ORF #PG-PP/PG-PPC1PG-PP/PG-PPC2
Spectral CountPeptide IntensitySpectral CountPeptide Intensity
ProqValProqValProqValProqVal
TIGRPG0073-1.404.6e-10-1.524.5e-06-1.077.5e-09-1.524.5e-06
LANLPG00620.380.350.480.44
ConsensusSP1IP1SP2IP2

Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
Several hits in gapped BLAST to orotidine 5' phosphate decarboxlase proteins, e.g. residues 13-245 are 56% similar to the enzyme from Leishmania mexicana (AB029444).

This sequence is similar to BT4209.

 Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539944|ref|NP_904423.1|  orotidine 5'-monophosphate dec...   541   e-152
 gi|150002703|ref|YP_001297447.1|  orotidine 5'-phosphate dec...   395   e-108
 gi|150008713|ref|YP_001303456.1|  orotidine 5'-phosphate dec...   392   e-107
 gi|29349617|ref|NP_813120.1|  orotidine 5'-phosphate decarbo...   390   e-107
 gi|53712202|ref|YP_098194.1|  orotidine 5'-phosphate decarbo...   387   e-106
 gi|60680382|ref|YP_210526.1|  putative orotidine 5'-phosphat...   387   e-106
 gi|154490828|ref|ZP_02030769.1|  hypothetical protein PARMER...   386   e-106
 gi|156859248|gb|EDO52679.1|  hypothetical protein BACUNI_034...   386   e-106
 gi|153807529|ref|ZP_01960197.1|  hypothetical protein BACCAC...   384   e-105
 gi|91217383|ref|ZP_01254343.1|  orotidine 5'-phosphate decar...   340   6e-92


InterPro Summary:  InterProScan

InterPro
IPR001754
Domain
Orotidine 5'-phosphate decarboxylase, core
PF00215 [15-255]T 9.900018047983379E-34 PF00215 OMPdecase OMPdecase
InterPro
IPR011060
Domain
Ribulose-phosphate binding barrel
SSF51366 [25-270]T 2.4000000000000003E-33 SSF51366 RibP_bind_barrel RibP_bind_barrel
InterPro
IPR011995
Domain
Orotidine 5'-phosphate decarboxylase, subfamily 2, core
TIGR02127 [3-256]T 1.22931593735993E-84 TIGR02127 pyrF_sub2 pyrF_sub2
InterPro
IPR013785
Domain
Aldolase-type TIM barrel
G3DSA:3.20.20.70 [45-259]T 5.299996575502401E-31 G3DSA:3.20.20.70 Aldolase_TIM Aldolase_TIM


COGS Summary:  COGS Search
BeTs to 4 clades of COG0284
COG name: Orotidine-5'-phosphate decarboxylase
Functional Class: F
The phylogenetic pattern of COG0284 is amtkyqvceb-huj-------
Number of proteins in this genome belonging to this COG is 1
Blocks Summary:  Blocks Search
No significant hit to the Blocks database.

 ProDom Summary:  Protein Domain Search
Residues 13-99 are 35% similar to a (OMPDCASE-OPRTASE) protein domain (PD204977 which is seen in O76139_TRYCR.

Residues 13-245 are 34% similar to a (DECARBOXYLASE OMP PYRIMIDINE BIOSYNTHESIS) protein domain (PD017607 which is seen in DCOP_MYCTU.

Residues 100-245 are 45% similar to a (DECARBOXYLASE OROTIDINE PYRIMIDINE BIOSYNTHESIS) protein domain (PD001042 which is seen in O76139_TRYCR.


Paralogs:  Local Blast Search
No paralogs found in P. gingivalis.

Pfam Summary:  Pfam Search
Residues 15 to 255 (E-value = 1.4e-36) place PG0062 in the OMPdecase family which is described as Orotidine 5'-phosphate decarboxylase / HUMPS family (PF00215)

 Structural Feature(s):
Feature Type  Start  Stop
No predicted structural features.  
  

Top PDB Hits:
-47% similar to PDB:2GUU crystal structure of Plasmodium vivax orotidine 5-monophosphate decarboxylase with 6-aza-UMP bound (E_value = 3.2E_20);
-47% similar to PDB:2FFC Crystal Structure of Plasmodium Vivax Orotidine-Monophosphate-Decarboxyl UMP Bound (E_value = 4.1E_20);
-48% similar to PDB:2AQW Structure of putative orotidine-monophosphate-decarboxylase from Plasmodium yoelii (PY01515) (E_value = 6.0E_19);
-47% similar to PDB:2FDS Crystal Structure of Plasmodium Berghei Orotidine 5'-monophosphate Decarboxylase (ortholog of Plasmodium falciparum PF10_0225) (E_value = 6.0E_19);
-47% similar to PDB:2F84 Crystal Structure of an orotidine-5'-monophosphate decarboxylase homolog from P.falciparum (E_value = 3.3E_17);

Gene Protein Sequence:
MTTKELFDRICRKRSFLCVGLDTDVKKIPPHLLNEDDPILAFNKAIIDAT
AEYCVAFKPNMAFYESMGSFGAHSFEKTIEYIRERYPDQFIIADAKRGDI
GNTSDMYARSFFEHLKVDALTVSPYMGEDSISPFLSYAGKFTVLLALTSN
KGSQDFQMMRDADGEYLFERVIRISQTWDNAGQLMYVVGATQASMLKDIR
EIVPDAFLLVPGVGAQGGSLEDVAEYGMNAHCGLLVNASRSIIYADNTEG
FAAKAAGEAAAMQRQMEIALRAKALI

Gene Nucleotide Sequence:  Sequence Viewer
ATGACAACGAAAGAACTTTTTGACCGGATTTGCCGGAAACGCTCGTTTCT
CTGTGTCGGGTTGGATACCGATGTGAAGAAAATACCGCCGCATTTACTGA
ATGAAGATGATCCTATTTTGGCTTTCAACAAAGCCATCATCGATGCTACG
GCAGAATACTGTGTGGCTTTCAAGCCCAACATGGCTTTCTATGAGAGCAT
GGGGAGCTTCGGAGCTCACTCTTTTGAAAAAACGATCGAATACATTCGAG
AGCGATACCCCGATCAATTTATCATAGCCGATGCCAAGCGTGGAGATATC
GGCAATACGAGTGATATGTATGCCCGTTCGTTCTTCGAGCATCTCAAGGT
GGATGCCCTCACCGTTTCTCCTTATATGGGAGAGGACAGCATCAGCCCTT
TCCTGAGTTATGCAGGCAAGTTCACGGTGCTTCTGGCACTGACCTCGAAC
AAAGGTTCGCAAGACTTTCAAATGATGCGCGATGCCGATGGAGAATACCT
TTTCGAACGCGTTATTCGTATCAGCCAGACGTGGGATAATGCCGGTCAAC
TGATGTATGTGGTGGGGGCTACGCAGGCCTCCATGCTGAAAGATATTCGC
GAGATCGTGCCGGACGCTTTCTTGCTTGTCCCCGGCGTAGGTGCTCAGGG
TGGAAGTCTGGAAGATGTGGCCGAGTACGGCATGAATGCTCATTGCGGTC
TGCTCGTCAATGCTTCGCGCAGTATCATCTATGCGGATAATACGGAGGGG
TTTGCTGCTAAAGCTGCCGGAGAAGCAGCCGCCATGCAGCGTCAGATGGA
AATTGCTCTTCGGGCAAAAGCCCTGATC

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