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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap IGR0038 IGR0037 IGR0039 IGR0042 IGR0041 IGR0040 IGR0043 cdsA, - PG0040 ychF, - PG0042 ftsH, - PG0041 ISPg1, - PG0044 ISPg4,tnp, - PG0043 PG0045 htpG, - PG0038 cdsA, - PG0040 ychF, - PG0042 ftsH, - PG0041 ISPg1, - PG0044 ISPg4,tnp, - PG0043 PG0045 htpG, - PG0038 Type: IS element, Name: ISPg1 fragment - 3 Type: IS element, Name: ISPg4 - 7 cdsA, - PG0040 ychF, - PG0042 ftsH, - PG0041 ISPg1, - PG0044 ISPg4,tnp, - PG0043 PG0045 htpG, - PG0038


LANL Gene ID: PG0042

GenBank Locus Tag: PG0048

DNA Molecule Name:
1  

Genomic Island ID:
20

GenBank ID:
34539921

 Gene Name:
ychF  

 Definition:
conserved GTP-binding protein

 Cellular Location:
Cytoplasm [Evidence]

 Gene Start:
60647

Gene Stop:
59547

Gene Length:
1101

Molecular Weight*:
40615

pI*:
4.90

Net Charge*:
-13.09

EC:
 

 Functional Class:
Uncategorized  

 Gene Ontology:
Biological process
  GO:0008152    metabolic process

Cellular component
  GO:0005622    intracellular

Molecular function
  GO:0005525    GTP binding


 Pathway: pathway table

 Comment:
TIGR ID: PG0048

 Proteomic Data: Proteomic Data Search
TIGR Annotationconserved hypothetical protein TIGR00092, GroupJ (hypothetical proteins-Conserved)
ORF #PG-PP/PG-PPC1PG-PP/PG-PPC2
Spectral CountPeptide IntensitySpectral CountPeptide Intensity
ProqValProqValProqValProqVal
TIGRPG00482.490.000933.820.00612.771.3e-053.820.0061
LANLPG00425.6014.146.8344.22
ConsensusSP1IP1SP2IP2

Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
Numerous significant hits in gapped BLAST to conserved GTP-binding protein; e.g. residues 1-367 are 59% similar to (AE002533) GTP-binding protein, putative of Neisseria meningitidis, residues 1-367 are 57% similar to U32723) conserved hypothetical GTP-binding protein of Haemophilus influenzae Rd, residues 1-367 are 56% similar to (AE000219) putative GTP-binding protein of Escherichia coli.

This sequence is similar to CT092 and BT3116.

 Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539921|ref|NP_904400.1|  conserved hypothetical protein...   718   0.0  
 gi|154494280|ref|ZP_02033600.1|  hypothetical protein PARMER...   634   e-180
 gi|150009574|ref|YP_001304317.1|  GTP-binding protein [Parab...   633   e-180
 gi|156109866|gb|EDO11611.1|  hypothetical protein BACOVA_028...   621   e-176
 gi|153807041|ref|ZP_01959709.1|  hypothetical protein BACCAC...   620   e-176
 gi|29348525|ref|NP_812028.1|  GTP-binding protein [Bacteroid...   618   e-175
 gi|60683776|ref|YP_213920.1|  putative ATP/GTP-binding prote...   618   e-175
 gi|53715858|ref|YP_101850.1|  GTP-binding protein [Bacteroid...   618   e-175
 gi|150003773|ref|YP_001298517.1|  GTP-binding protein [Bacte...   615   e-174
 gi|156862747|gb|EDO56178.1|  hypothetical protein BACUNI_002...   540   e-152


InterPro Summary:  InterProScan

InterPro
IPR000583
Domain
Glutamine amidotransferase, class-II
PS00443 [1-9]? 0.0 PS00443 GATASE_TYPE_II GATASE_TYPE_II
InterPro
IPR002917
Domain
GTP-binding protein, HSR1-related
PF01926 [3-138]T 7.49999605851358E-32 PF01926 MMR_HSR1 MMR_HSR1
InterPro
IPR004396
Family
Conserved hypothetical protein 92
TIGR00092 [1-367]T 0.0 TIGR00092 CHP92 CHP92
InterPro
IPR006073
Domain
GTP1/OBG
PR00326 [5-25]T 2.3000000000000003E-36 PR00326 GTP1OBG[26-44]T 2.3000000000000003E-36 PR00326 GTP1OBG[70-85]T 2.3000000000000003E-36 PR00326 GTP1OBG[87-105]T 2.3000000000000003E-36 PR00326 GTP1OBG GTP1OBG
InterPro
IPR012675
Domain
Beta-grasp fold, ferredoxin-type
G3DSA:3.10.20.30 [283-367]T 6.70002630158945E-38 G3DSA:3.10.20.30 Ferredoxin_fold Ferredoxin_fold
InterPro
IPR012676
Domain
TGS-like
SSF81271 [283-367]T 5.9E-40 SSF81271 TGS-like TGS-like
InterPro
IPR013029
Domain
Protein of unknown function DUF933
PF06071 [283-366]T 3.800006970935451E-58 PF06071 DUF933 DUF933
noIPR
unintegrated
unintegrated
G3DSA:3.40.50.300 [1-282]T 5.60004908290974E-91 G3DSA:3.40.50.300 G3DSA:3.40.50.300 G3DSA:3.40.50.300
PTHR23305 [1-367]T 0.0 PTHR23305 PTHR23305 PTHR23305
PTHR23305:SF4 [1-367]T 0.0 PTHR23305:SF4 PTHR23305:SF4 PTHR23305:SF4
SSF52540 [1-282]T 4.9E-75 SSF52540 SSF52540 SSF52540


COGS Summary:  COGS Search
BeTs to 17 clades of COG0012
COG name: Predicted GTPase
Functional Class: R
The phylogenetic pattern of COG0012 is amtkYqvcebrhujgpolinx
Number of proteins in this genome belonging to this COG is 1
Blocks Summary:  Blocks Search
***** IPB000765 (GTP1/OBG family) with a combined E-value of 1.6e-15.
    IPB000765C    74-95


 ProDom Summary:  Protein Domain Search
Residues 180-367 are 61% similar to a (PROTEIN GTP-BINDING PROBABLE INTERGENIC REGION PUTATIVE) protein domain (PD004355 which is seen in YYAF_BACSU.

Residues 3-43 are 80% similar to a (PROTEIN GTP-BINDING INTERGENIC REGION HOMOLOG ERA IRON) protein domain (PD000414 which is seen in P73886_SYNY3.

Residues 66-168 are 66% similar to a (PROTEIN GTP-BINDING INTERGENIC REGION) protein domain (PD001145 which is seen in YCHF_ECOLI.


Paralogs:  Local Blast Search
Residues 1-143 are 35% similar to PG0711, GTP-binding protein.

Pfam Summary:  Pfam Search
Residues 124 to 367 (E-value = 5.6e-148) place PG0042 in the DUF933 family which is described as Protein of unknown function (DUF933) (PF06071)

 Structural Feature(s):
Feature Type  Start  Stop
coil-coil  
123  
179
coil-coil  
222  
263

Top PDB Hits:
-74% similar to PDB:1JAL YCHF PROTEIN (HI0393) (E_value = 2.8E_118);
-67% similar to PDB:2DBY Crystal structure of the GTP-binding protein YchF in complexed with GDP (E_value = 3.1E_93);
-67% similar to PDB:2DWQ Thermus thermophilus YchF GTP-binding protein (E_value = 3.1E_93);
-59% similar to PDB:1NI3 Structure of the Schizosaccharomyces pombe YchF GTPase (E_value = 2.7E_73);
-56% similar to PDB:1WXQ Crystal Structure of GTP binding protein from Pyrococcus horikoshii OT3 (E_value = 1.1E_18);

Gene Protein Sequence:
MSLQCGIVGLPNVGKSTLFNCLSNAKAQSANFPFCTIDPNVGVITVPDER
LNILADLCKPQRLIPTTVEIVDIAGLVKGASKGEGLGNKFLANIRETDAI
LHVLRCFDDDNITHVDGSVDPVRDKEIIDTELQLKDLETIESRIQKVQKQ
AQTGGDKQAKLAYQVLSKFKEALDEGRNARSVSFDTKDEQQIARELFLLT
AKPVMYVCNVDEASALSGNKYVEAVREAVKNEDAEILVVAAKIESEIAEL
ETYEERQMFLEEIGLKESGVSRLIKAAYHLLNLQTYFTAGSDEVRAWTFL
RGSKAPQCAGIIHTDFEKGFIRAEVIKYNDFVSLGSEQAVKEAGKMSVEG
KEYVVQDGDIMHFRFNV

Gene Nucleotide Sequence:  Sequence Viewer
ATGAGTTTGCAATGCGGTATCGTCGGCCTGCCCAATGTGGGGAAATCGAC
TCTTTTTAATTGTTTGTCCAATGCCAAGGCACAGTCTGCCAATTTCCCCT
TCTGTACCATTGATCCGAACGTCGGTGTAATCACAGTGCCTGATGAGCGA
CTGAATATCCTGGCCGATCTGTGCAAACCCCAACGGCTGATCCCAACCAC
GGTAGAGATCGTAGATATTGCCGGTCTTGTCAAAGGCGCCAGCAAGGGCG
AAGGGTTAGGGAATAAATTCCTGGCCAATATCCGTGAAACGGATGCGATA
CTCCACGTGCTCCGATGCTTCGATGATGACAATATCACACACGTGGACGG
ATCCGTAGATCCTGTACGCGACAAAGAAATCATCGACACCGAGCTACAAC
TGAAAGACCTTGAAACGATAGAGAGTCGCATACAGAAAGTCCAAAAGCAG
GCACAAACAGGGGGCGACAAACAAGCCAAGCTGGCTTATCAAGTGCTCTC
GAAATTCAAAGAAGCTCTTGACGAAGGCAGGAATGCTCGCAGCGTCAGTT
TCGACACCAAAGACGAACAGCAAATAGCACGCGAACTCTTTCTCCTGACG
GCCAAACCGGTCATGTACGTTTGCAATGTGGACGAAGCTTCTGCTCTTAG
TGGCAACAAATATGTGGAAGCCGTTCGCGAAGCAGTCAAAAACGAAGATG
CAGAAATCCTCGTCGTAGCAGCCAAGATAGAGAGCGAGATCGCCGAACTG
GAGACATACGAAGAGCGGCAAATGTTCCTCGAAGAGATCGGTCTGAAAGA
ATCCGGCGTGAGCCGTCTGATCAAAGCCGCTTATCACTTGCTGAATCTTC
AAACCTACTTTACGGCCGGGAGCGATGAGGTAAGGGCTTGGACATTCCTC
CGCGGAAGCAAAGCACCTCAGTGTGCCGGTATCATCCACACCGATTTTGA
AAAAGGGTTTATCCGTGCCGAGGTCATCAAGTACAATGACTTTGTCAGTC
TTGGCAGCGAACAAGCCGTGAAAGAAGCCGGTAAGATGAGTGTTGAGGGA
AAAGAATATGTTGTGCAGGATGGCGACATCATGCATTTCCGCTTCAATGT
C

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