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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap IGR0014 IGR0017 IGR0019 IGR0020 IGR0015 IGR0016 IGR0018 PG0018 ychM, - PG0019 PG0019.1 PG0020 PG0021 PG0017 ISPg4, - PG0016 atoS,ntrB, - PG0014 PG0015 PG0022 PG0018 ychM, - PG0019 PG0019.1 PG0020 PG0021 PG0017 ISPg4, - PG0016 atoS,ntrB, - PG0014 PG0015 PG0022 Type: IS element, Name: ISPg4 - 7 PG0018 ychM, - PG0019 PG0019.1 PG0020 PG0017 ISPg4, - PG0016 atoS,ntrB, - PG0014 PG0015 PG0022 PG0021


LANL Gene ID: PG0018

GenBank Locus Tag: PG0021

DNA Molecule Name:
1  

GenBank ID:
34539899

Gene Name:


Definition:
conserved hypothetical protein (NIFR3-like protein)

Cellular Location:
Cytoplasm, Inner membrane [Evidence]

Gene Start:
25213

Gene Stop:
24215

Gene Length:
999

Molecular Weight*:
36928

pI*:
8.20

Net Charge*:
2.79

EC:
 

Functional Class:
Unknown; Conserved hypothetical  

Gene Ontology:
Biological process
  GO:0008033    tRNA processing
  GO:0008152    metabolic process

Molecular function
  GO:0003824    catalytic activity
  GO:0016491    oxidoreductase activity
  GO:0050660    FAD binding


Pathway: pathway table

Comment:
TIGR ID: PG0021

Proteomic Data: Proteomic Data Search
TIGR AnnotationTIM-barrel protein, putative, NifR3 family, GroupT (unknown function)
ORF #PG-PP/PG-PPC1PG-PP/PG-PPC2
Spectral CountPeptide IntensitySpectral CountPeptide Intensity
ProqValProqValProqValProqVal
TIGRPG0021-0.140.36
LANLPG00180.910.06
ConsensusSP1IP1SP2IP2

Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
Numerous significant hits in gapped BLAST to yhdG homologs; e.g. residues 1-287 are 40% similar to the yhdG homolog in Proteus vulgaris (AF040379), residues 12-286 are 40% similar to the nifR3 protein in Neisseria meningitidis (AE002491), and residues 1-287 are 40% similar to the yhdG homolog in Serratia marcescens (AF040378).

This sequence is similar to BT3073.

 Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539899|ref|NP_904378.1|  TIM-barrel protein, putative, ...   668   0.0  
 gi|150009773|ref|YP_001304516.1|  putative TIM-barrel enzyme...   494   e-138
 gi|154489885|ref|ZP_02030146.1|  hypothetical protein PARMER...   493   e-138
 gi|153807028|ref|ZP_01959696.1|  hypothetical protein BACCAC...   491   e-137
 gi|156109770|gb|EDO11515.1|  hypothetical protein BACOVA_027...   490   e-137
 gi|29348482|ref|NP_811985.1|  putative TIM-barrel enzyme, po...   489   e-136
 gi|156859107|gb|EDO52538.1|  hypothetical protein BACUNI_041...   486   e-135
 gi|150003654|ref|YP_001298398.1|  putative TIM-barrel enzyme...   484   e-135
 gi|53715845|ref|YP_101837.1|  putative TIM-barrel enzyme [Ba...   477   e-133
 gi|83856064|ref|ZP_00949593.1|  putative TIM-barrel enzyme, ...   358   3e-97


InterPro Summary:  InterProScan

InterPro
IPR001269
Family
Dihydrouridine synthase, DuS
PIRSF006621 [1-332]T 2.70000000000008E-127 PIRSF006621 Dus Dus
PF01207 [14-322]T 2.500009099162E-100 PF01207 Dus Dus
PS01136 [95-113]T 8.0E-5 PS01136 UPF0034 UPF0034
InterPro
IPR004652
Family
Dihydrouridine synthase TIM-barrel protein nifR3
TIGR00737 [3-326]T 6.824074497318159E-101 TIGR00737 nifR3_yhdG nifR3_yhdG
InterPro
IPR013785
Domain
Aldolase-type TIM barrel
G3DSA:3.20.20.70 [12-252]T 3.1000130737018897E-78 G3DSA:3.20.20.70 Aldolase_TIM Aldolase_TIM
noIPR
unintegrated
unintegrated
PTHR11082 [40-331]T 4.60000044330696E-102 PTHR11082 PTHR11082 PTHR11082
PTHR11082:SF9 [40-331]T 4.60000044330696E-102 PTHR11082:SF9 PTHR11082:SF9 PTHR11082:SF9
SSF51395 [11-326]T 1.1E-82 SSF51395 SSF51395 SSF51395


COGS Summary:  COGS Search
BeTs to 12 clades of COG0042
COG name: Predicted TIM-barrel enzymes, possibly dehydrogenases, nifR3 family
Functional Class: R
The phylogenetic pattern of COG0042 is amt-YqvCEBrHuj--Olinx
Number of proteins in this genome belonging to this COG is 1
Blocks Summary:  Blocks Search
***** IPB001269 (Uncharacterized protein family UPF0034) with a combined E-value of 9.6e-69.
    IPB001269A    16-29
    IPB001269B    35-45
    IPB001269C    84-116
    IPB001269D    136-146
    IPB001269E    163-187
    IPB001269F    198-237


 ProDom Summary:  Protein Domain Search
Residues 145-235 are 52% similar to a (PROTEIN OXIDOREDUCTASE FLAVOPROTEIN INTERGENIC REGION) protein domain (PD002067 which is seen in YACF_BACSU.

Residues 135-237 are 31% similar to a (HYPOTHETICAL 48.1 KD PROTEIN) protein domain (PD113056 which is seen in YMI0_YEAST.

Residues 135-263 are 31% similar to a (HYPOTHETICAL 69.8 KD PROTEIN) protein domain (PD100826 which is seen in YL01_YEAST.

Residues 12-133 are 44% similar to a (PROTEIN INTERGENIC REGION PUTATIVE) protein domain (PD002197 which is seen in NIR3_AZOBR.


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

Pfam Summary:  Pfam Search
Residues 14 to 322 (E-value = 1e-102) place PG0018 in the Dus family which is described as Dihydrouridine synthase (Dus) (PF01207)

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

Top PDB Hits:
-56% similar to PDB:1VHN Crystal structure of a putative flavin oxidoreductase with flavin (E_value = 7.1E_41);

Gene Protein Sequence:
MKIGAIDLGVEPLLLAPMEDVTDVAFRIMCKQFGADLVYSEFLSADALIR
QVAGTFRKMAIDESERPMAVQIYGRDVASMVEAARLCESAGPNLIDLNFG
CPVKRVAGKGAGSGMLRNIPLMIEITREVVKAVKLPVTVKTRLGWDNDSK
IIVDLAEQLQDCGIAALTIHGRTRAQMYTGTADWTLIGEVKNNPRMQIPI
IGNGDVTTPQEARRAFDVYGVDAVMVGRASIGQPWIFEDMKHFLRTGETL
PSRPFSYYMDILRRQTLNNIRKLDERRGILHTRRHIAASPIFKGIPNFKP
MRVAMLRATTQEELFALMDEVEKMIGSADSAAV

Gene Nucleotide Sequence:  Sequence Viewer
ATGAAAATAGGTGCCATAGACCTCGGGGTAGAGCCTTTGCTACTCGCTCC
GATGGAGGATGTGACGGATGTAGCCTTCCGGATCATGTGCAAGCAGTTCG
GTGCCGATCTGGTTTATTCCGAATTTCTCAGTGCCGATGCCCTGATTCGT
CAAGTAGCCGGCACATTCCGAAAAATGGCCATAGATGAATCGGAACGCCC
GATGGCTGTACAGATATACGGACGGGATGTGGCTTCGATGGTAGAGGCTG
CCCGACTATGCGAATCGGCCGGTCCGAATCTGATCGATCTGAACTTCGGA
TGTCCGGTCAAACGGGTAGCAGGGAAAGGTGCCGGCAGCGGAATGCTCCG
CAATATCCCACTTATGATAGAGATAACGCGTGAGGTAGTCAAGGCGGTGA
AGTTGCCGGTAACGGTGAAAACGCGGCTTGGCTGGGACAATGACAGCAAG
ATCATAGTAGACCTGGCCGAACAGCTCCAAGACTGTGGCATTGCAGCCCT
GACCATACATGGTCGTACACGCGCCCAAATGTACACGGGGACGGCTGACT
GGACGCTGATCGGAGAAGTGAAGAACAATCCGAGAATGCAAATCCCCATT
ATCGGAAACGGAGACGTGACCACTCCGCAAGAAGCCCGACGAGCCTTTGA
CGTATATGGCGTGGATGCCGTAATGGTAGGCAGGGCTTCTATCGGACAAC
CATGGATATTCGAGGATATGAAGCATTTCCTTCGTACGGGAGAAACGTTG
CCTTCGCGTCCGTTTTCCTATTATATGGACATACTCCGCCGTCAGACGTT
GAACAACATCCGAAAACTGGACGAACGGCGAGGTATCCTCCATACACGCA
GACATATTGCAGCCAGCCCCATATTCAAAGGGATTCCAAACTTCAAACCC
ATGCGCGTGGCCATGCTTCGTGCCACGACACAGGAGGAGCTTTTCGCTCT
TATGGACGAGGTGGAGAAGATGATAGGATCGGCTGATTCAGCGGCGGTA

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