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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap tRNA-Asn-2 tRNA-Asn-1 IGR0010 IGR0007 IGR0009 IGR0008 IGR0006 ISPg5, - PG0008 ISPg5, - PG0007 PG0006 hisC, - PG0011 clpC, - PG0009 nagA,ybbD, - PG0010 ISPg5, - PG0008 ISPg5, - PG0007 PG0006 hisC, - PG0011 clpC, - PG0009 nagA,ybbD, - PG0010 Type: IS element, Name: ISPg5 - 8 ISPg5, - PG0008 ISPg5, - PG0007 PG0006 hisC, - PG0011 clpC, - PG0009 nagA,ybbD, - PG0010


LANL Gene ID: PG0009

GenBank Locus Tag: PG0010

DNA Molecule Name:
1  

Genomic Island ID:
1

GenBank ID:
34539890

 Gene Name:
clpC  

 Definition:
CLP protease ATP-binding subunit (CLPA/CLPB/CLPC)

 Cellular Location:
Cytoplasm [Evidence]

 Gene Start:
8915

Gene Stop:
11491

Gene Length:
2577

Molecular Weight*:
95422

pI*:
4.80

Net Charge*:
-31.30

EC:
3.4.21.92  

 Functional Class:
Cellular processes; Chaperones  

 Gene Ontology:
Biological process
  GO:0006289    nucleotide-excision repair
  GO:0019538    protein metabolic process

Molecular function
  GO:0000166    nucleotide binding
  GO:0003677    DNA binding
  GO:0004518    nuclease activity
  GO:0005515    protein binding
  GO:0005524    ATP binding
  GO:0017111    nucleoside-triphosphatase activity


 Pathway: pathway table

 Comment:
The proteolytic subunit of the CLP protease is PG0384.

TIGR ID: PG0010

 Proteomic Data: Proteomic Data Search
TIGR AnnotationATP-dependent Clp protease, ATP-binding subunit ClpC, GroupM (protein fate)
ORF #PG-PP/PG-PPC1PG-PP/PG-PPC2
Spectral CountPeptide IntensitySpectral CountPeptide Intensity
ProqValProqValProqValProqVal
TIGRPG00104.074.3e-058.4302.771.3e-058.430
LANLPG000916.80344.976.8317.89
ConsensusSP1IP1SP2IP2

Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
Numerous significant hits in gapped BLAST to ATP-dependent Clp
protease proteins; e.g. residues 5-859 are 44% similar to the protein in Bacillus subtilis (D26185), residues 15-854 are 44% similar to HEMOLYSIN B of Brachyspira hyodysenteriae (X73140), residues 5-855 are 43% similar to AtClpC of Arabidopsis thaliana (AB022324), residues 211-850 are 55% similar to ATP-dependent Clp protease of Aquifex aeolicus (AE000733).

This sequence is similar to BT0898.

 Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539890|ref|NP_904369.1|  ATP-dependent Clp protease, AT...  1536   0.0  
 gi|154492131|ref|ZP_02031757.1|  hypothetical protein PARMER...   914   0.0  
 gi|150007731|ref|YP_001302474.1|  negative regulator of gene...   913   0.0  
 gi|156111784|gb|EDO13529.1|  hypothetical protein BACOVA_007...   887   0.0  
 gi|53713701|ref|YP_099693.1|  ATP-dependent Clp protease [Ba...   884   0.0  
 gi|60681972|ref|YP_212116.1|  negative regulator of genetic ...   883   0.0  
 gi|153806300|ref|ZP_01958968.1|  hypothetical protein BACCAC...   882   0.0  
 gi|150005806|ref|YP_001300550.1|  negative regulator of gene...   870   0.0  
 gi|29346308|ref|NP_809811.1|  ATP-dependent Clp protease [Ba...   865   0.0  
 gi|120435856|ref|YP_861542.1|  ClpA/ClpB family chaperone [G...   855   0.0


InterPro Summary:  InterProScan

InterPro
IPR001270
Family
Chaperonin clpA/B
PR00300 [591-609]T 2.1999999999999997E-40 PR00300 CLPPROTEASEA[636-654]T 2.1999999999999997E-40 PR00300 CLPPROTEASEA[665-683]T 2.1999999999999997E-40 PR00300 CLPPROTEASEA[698-712]T 2.1999999999999997E-40 PR00300 CLPPROTEASEA CLPPROTEASEA
PS00871 [621-639]T 8.0E-5 PS00871 CLPAB_2 CLPAB_2
InterPro
IPR001943
Domain
UvrB/UvrC protein
PF02151 [467-502]T 0.3999999989312831 PF02151 UVR UVR
PS50151 [467-502]T 0.0 PS50151 UVR UVR
InterPro
IPR003593
Domain
AAA+ ATPase, core
SM00382 [250-390]T 7.20000000000003E-10 SM00382 AAA[587-767]T 8.3000000000005E-13 SM00382 AAA AAA
InterPro
IPR003959
Domain
AAA ATPase, core
PF00004 [253-407]T 5.09999882440013E-13 PF00004 AAA AAA
InterPro
IPR004176
Domain
Clp, N-terminal
PF02861 [16-68]T 14.000000733544 PF02861 Clp_N[93-146]T 31.9999986882983 PF02861 Clp_N Clp_N
InterPro
IPR013093
Domain
ATPase AAA-2
PF07724 [586-760]T 3.30001976117385E-100 PF07724 AAA_2 AAA_2
noIPR
unintegrated
unintegrated
G3DSA:1.10.1780.10 [4-149]T 1.6999992228406702E-11 G3DSA:1.10.1780.10 G3DSA:1.10.1780.10 G3DSA:1.10.1780.10
G3DSA:1.10.8.60 [766-855]T 5.599999894169871E-22 G3DSA:1.10.8.60 G3DSA:1.10.8.60 G3DSA:1.10.8.60
G3DSA:3.40.50.300 [209-402]T 1.30000495407324E-78 G3DSA:3.40.50.300 G3DSA:3.40.50.300[539-765]T 1.9000069431527E-83 G3DSA:3.40.50.300 G3DSA:3.40.50.300 G3DSA:3.40.50.300
PTHR11638 [1-151]T 0.0 PTHR11638 PTHR11638[196-688]T 0.0 PTHR11638 PTHR11638 PTHR11638
PTHR11638:SF19 [1-151]T 0.0 PTHR11638:SF19 PTHR11638:SF19[196-688]T 0.0 PTHR11638:SF19 PTHR11638:SF19 PTHR11638:SF19
SSF81923 [3-143]T 3.0E-19 SSF81923 SSF81923 SSF81923


COGS Summary:  COGS Search
BeTs to 14 clades of COG0542
COG name: ATPases with chaperone activity, ATP-binding domain
Functional Class: O
The phylogenetic pattern of COG0542 is --t-YQVCEBRhUJgpOLINx
Number of proteins in this genome belonging to this COG is 2
Blocks Summary:  Blocks Search
***** IPB001270 (Chaperonins clpA/B) with a combined E-value of 1.4e-222.
    IPB001270A    238-270
    IPB001270B    275-323
    IPB001270C    324-338
    IPB001270D    364-412
    IPB001270E    521-575
    IPB001270F    598-635
    IPB001270G    636-671
    IPB001270H    678-712
    IPB001270I    749-763
    IPB001270J    807-821
    IPB001270G    635-670
***** IPB001939 (AAA-protein (ATPases associated with various cellular activities)) with a combined E-value of 4.6e-06.
    IPB001939A    557-577
    IPB001939B    588-609


 ProDom Summary:  Protein Domain Search
Residues 440-518 are 43% similar to a (ATP-DEPENDENT CLP PROTEASE PROTEASE) protein domain (PD171497 which is seen in O67325_AQUAE.

Residues 361-404 are 65% similar to a (PROTEASE PROTEIN HEAT SHOCK ATP-BINDING CHAPERONE REPEAT) protein domain (PD001382 which is seen in O84288_CHLTR.

Residues 216-360 are 64% similar to a (PROTEASE ATP-DEPENDENT CLPC CLP SUBUNIT A CLPA ATPASE) protein domain (PD187342 which is seen in Q9Z8A6_BBBBB.

Residues 405-516 are 35% similar to a (PROTEIN COILED COIL REPEAT FILAMENT HEPTAD PATTERN CHAIN) protein domain (PD000002 which is seen in Q9ZEA9_RICPR.

Residues 440-503 are 43% similar to a (PROTEASE ATP-BINDING CHAPERONE REPEAT PROTEIN HEAT SHOCK) protein domain (PD005402 which is seen in MECB_BACSU.

Residues 521-843 are 71% similar to a (PROTEIN ATP-BINDING PROTEASE SUBUNIT REGULATORY HOMOLOG) protein domain (PD000092 which is seen in O67325_AQUAE.


Paralogs:  Local Blast Search
Residues 4-858 are 38% similar to PG1000.

Pfam Summary:  Pfam Search
Residues 253 to 450 (E-value = 1e-11) place PG0009 in the AAA family which is described as ATPase family associated with various cellular activities (AAA) (PF00004)
Residues 590 to 806 (E-value = 9.4e-05) place PG0009 in the AAA family which is described as ATPase family associated with various cellular activities (AAA) (PF00004)

 Structural Feature(s):
Feature Type  Start  Stop
transmembrane  
22  
38
non-globular  
127  
231
coil-coil  
463  
520

Top PDB Hits:
-67% similar to PDB:1QVR Crystal Structure Analysis of ClpB (E_value = 1.2E_176);
-61% similar to PDB:1KSF Crystal Structure of ClpA, an HSP100 chaperone and regulator of ClpAP protease: Structural basis of differences in Function of the Two AAA+ ATPase domains (E_value = 1.5E_131);
-61% similar to PDB:1R6B High resolution crystal structure of ClpA (E_value = 1.5E_131);
-80% similar to PDB:1JBK Crystal Structure of the First Nucelotide Binding Domain of ClpB (E_value = 1.6E_64);

Gene Protein Sequence:
MAYDFTQTFRNSLEYSYQEATRLGVVAVTQDMLVLGIIRDGDNGAIDIMR
HYGINLYELKRLIELEAIAESLPASPEGSPIFTPSAREAIDDATDICADM
EDEAVSPVHLLLSILNSTQESLVQKIFMKQGIKYDTILSDYFGQRNPSEG
KSPSEMEILDGYQDNDFDDEEDESSPPSGNSGTGGGSGDAPEQNTGGGDT
TTTTRSGGDTPALDTFGTDITAMAAAGKLDPVVGREQEIERVIQILSRRK
KNNPVLIGEPGVGKSAIVEGLAERIVNRKVSRILFDKRIISLDLAQMVAG
TKYRGQFEERLKAVLDELKKNPQIILFIDEIHTIVGAGSAAGSMDTANML
KPALARGQVQCIGATTLDEYRKNIEKDGALERRFQKVPIAPSTAEETLTI
LQNIKEKYEDYHGVRYTDEAIKAAVELTDRYVSDRFFPDKAIDAMDEAGA
SVHITNVVAPKEIEILEAELASVRENKLSAVKAQNYELAASFRDQERRTQ
QQIAEEKKKWEEQMSKHRETVDENVVAHVVALMTGVPAERLSTGEGERLR
TMADDLKTKVVGQDTAIEKMVHAIQRNRLGLRNEKKPIGSFLFLGPTGVG
KTYLAKKLAEYLFEDENAMIRVDMSEYMEKFSVSRLVGAPPGYVGYEEGG
QLTERVRRKPYSVVLLDEIEKAHADVFNLLLQVMDEGQLTDSLGRRVNFK
NTVIIITSNVGTRQLKDFGQGIGFRSEKDEEANKEHSRSVIQKALNKTFS
PEFLNRLDDIILFDQLGKTEIRRMVDIELKAVLARIHRAGYDLVLTDEAK
DVIATKGYDLQYGARPLKRTLQNEVEDRLTDLILSGQIEKGQTLTLSARD
GEIIVQEQA

Gene Nucleotide Sequence:  Sequence Viewer
ATGGCATACGACTTTACACAAACATTCCGCAACAGCCTGGAGTACAGCTA
TCAGGAAGCAACCCGTCTCGGCGTCGTAGCCGTGACGCAAGATATGCTCG
TACTCGGTATCATTCGCGACGGAGACAATGGCGCGATCGACATCATGCGG
CACTATGGGATCAACTTGTACGAACTCAAACGGTTGATCGAGTTGGAAGC
CATCGCCGAGAGTTTGCCTGCTTCGCCTGAGGGATCGCCCATCTTCACCC
CTTCGGCTCGGGAGGCTATCGATGATGCCACAGACATCTGTGCCGACATG
GAGGACGAGGCCGTCAGCCCGGTCCATCTGTTGCTGAGTATCCTCAACTC
GACACAGGAGAGCTTAGTACAAAAGATATTTATGAAACAAGGTATAAAAT
ACGACACCATCCTGTCGGATTACTTCGGACAGCGCAACCCCTCCGAAGGG
AAGTCTCCCTCCGAAATGGAGATCCTCGACGGGTACCAAGACAACGACTT
CGACGACGAAGAGGACGAATCCTCTCCGCCTTCCGGGAATAGCGGGACAG
GCGGAGGCTCCGGCGACGCCCCCGAACAGAATACCGGCGGAGGCGATACT
ACCACCACGACACGGAGTGGAGGCGACACGCCTGCACTGGACACCTTCGG
CACCGACATCACTGCCATGGCGGCAGCAGGCAAGCTCGACCCGGTAGTGG
GTCGGGAGCAGGAGATCGAAAGGGTGATACAGATACTCAGCCGGCGCAAA
AAGAACAATCCGGTGCTCATCGGCGAACCCGGTGTAGGCAAGAGTGCCAT
CGTGGAAGGACTGGCCGAACGCATCGTGAACAGGAAGGTGAGCCGTATTC
TTTTCGACAAGCGGATCATCAGCCTCGATTTGGCTCAGATGGTAGCCGGC
ACCAAATATCGCGGACAGTTCGAAGAGCGGTTGAAAGCCGTGCTCGATGA
GCTGAAGAAGAATCCGCAGATCATCCTCTTCATCGACGAGATACATACCA
TCGTGGGAGCAGGCTCTGCAGCCGGATCGATGGATACGGCCAATATGCTC
AAACCCGCTCTTGCCCGTGGACAGGTACAGTGCATCGGAGCCACTACGCT
GGATGAGTATCGTAAGAACATAGAAAAGGACGGAGCACTCGAACGCCGCT
TCCAGAAGGTGCCGATAGCCCCCTCGACTGCAGAAGAAACGCTGACCATC
CTGCAAAACATCAAAGAGAAATACGAGGACTATCACGGTGTACGCTATAC
GGACGAAGCGATCAAAGCGGCAGTGGAACTGACCGATCGCTATGTATCCG
ATCGTTTCTTCCCAGATAAGGCGATAGATGCCATGGACGAGGCCGGCGCG
AGCGTCCATATCACCAATGTGGTGGCTCCGAAAGAAATCGAGATACTGGA
GGCCGAATTGGCATCGGTGCGAGAGAACAAGCTCTCGGCCGTAAAGGCTC
AGAACTACGAACTGGCTGCCTCCTTCCGCGATCAGGAGCGGCGCACTCAG
CAGCAGATAGCGGAAGAGAAGAAAAAATGGGAAGAGCAGATGTCCAAGCA
CCGCGAGACGGTGGACGAGAATGTAGTGGCGCATGTAGTGGCGTTGATGA
CAGGCGTTCCGGCTGAGCGGCTGAGCACGGGCGAAGGCGAACGTCTGCGC
ACGATGGCAGATGATCTCAAGACCAAAGTAGTAGGTCAGGACACAGCCAT
CGAAAAGATGGTGCATGCCATCCAGCGCAATCGTCTGGGACTTCGCAATG
AAAAGAAACCGATCGGTTCTTTCCTTTTCCTCGGCCCCACGGGGGTAGGC
AAGACCTATTTGGCCAAGAAGCTCGCCGAATACCTGTTCGAGGATGAGAA
TGCCATGATCAGGGTGGATATGAGCGAGTATATGGAGAAGTTCTCCGTTT
CGCGTCTCGTGGGTGCCCCTCCGGGATATGTGGGCTATGAAGAAGGCGGC
CAACTGACGGAGCGCGTAAGACGCAAACCCTATTCCGTGGTTCTCTTGGA
TGAGATCGAAAAGGCGCATGCCGATGTCTTCAATCTGCTCTTACAGGTGA
TGGACGAAGGTCAGCTGACCGACAGTCTGGGACGGCGCGTGAATTTCAAG
AACACCGTGATCATCATCACCTCCAACGTGGGTACACGCCAGCTCAAAGA
CTTCGGGCAGGGTATCGGGTTCCGTTCGGAAAAAGACGAGGAAGCGAACA
AGGAGCATAGCCGTTCCGTGATCCAAAAAGCTCTGAACAAGACGTTCAGC
CCCGAATTTCTCAACCGTTTGGACGATATCATCCTCTTCGACCAACTGGG
CAAGACGGAGATTCGCCGGATGGTGGACATAGAGCTTAAAGCCGTCTTGG
CGCGCATCCATCGTGCCGGATACGACCTCGTCCTTACCGATGAAGCCAAG
GATGTGATAGCGACGAAGGGATACGACCTCCAATACGGAGCACGACCGCT
CAAGCGCACACTCCAGAACGAAGTGGAGGATCGCCTCACGGATCTTATCC
TCTCCGGACAGATCGAGAAAGGGCAGACGCTTACGCTCTCTGCTCGCGAT
GGCGAGATCATCGTACAAGAACAAGCA

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