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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap IGR0011 IGR0010 IGR0007 IGR0009 IGR0008 IGR0012 ISPg5, - PG0008 PG0012 hisC, - PG0011 ntrC, - PG0013 clpC, - PG0009 nagA,ybbD, - PG0010 ISPg5, - PG0008 PG0012 hisC, - PG0011 ntrC, - PG0013 clpC, - PG0009 nagA,ybbD, - PG0010 Type: IS element, Name: ISPg5 - 8 ISPg5, - PG0008 PG0012 hisC, - PG0011 ntrC, - PG0013 clpC, - PG0009 nagA,ybbD, - PG0010


LANL Gene ID: PG0010

GenBank Locus Tag: PG0011

DNA Molecule Name:
1  

Genomic Island ID:
1

GenBank ID:
34539891

 Gene Name:
nagA  ybbD  

 Definition:
beta-N-acetylglucosaminidase; beta lactamase

 Cellular Location:
Cytoplasm, Periplasm [Evidence]

 Gene Start:
11634

Gene Stop:
14642

Gene Length:
3009

Molecular Weight*:
110824

pI*:
9.70

Net Charge*:
21.62

EC:
3.2.1.21  3.5.2.6  

 Functional Class:
Energy metabolism; Biosynthesis and degradation of polysaccharides  

 Gene Ontology:
Biological process
  GO:0005975    carbohydrate metabolic process
  GO:0030655    beta-lactam antibiotic catabolic process
  GO:0046677    response to antibiotic

Molecular function
  GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds
  GO:0008800    beta-lactamase activity


 Pathway: pathway table
Cyanoamino acid metabolism
Flavonoids, stilbene and lignin biosynthesis
Starch and sucrose metabolism

 Comment:
PG0010 may be regarded as a fused protein: the N-terminal half is similar to beta-hexosamidase A precursors, the C-terminal half to beta-lactamases. Have a stopped and start codon been missed or is this truly a fused protein?

TIGR ID: PG0011

 Proteomic Data: Proteomic Data Search
TIGR Annotationglycosyl hydrolase, family 3, GroupC (cell envelope)
ORF #PG-PP/PG-PPC1PG-PP/PG-PPC2
Spectral CountPeptide IntensitySpectral CountPeptide Intensity
ProqValProqValProqValProqVal
TIGRPG00110.700.0170.050.241.145.4e-050.050.24
LANLPG00101.621.032.201.45
ConsensusSP1IP1SP2IP2

Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
Numerous significant hits in gapped BLAST to beta-glucosidase proteins; e.g. residues 57-583 are 32% similar to beta-N-Acetylglucosaminidase of Streptomyces thermoviolaceus (AB008771), residues 45-583 are 31% similar to beta-N-acetylglucosaminidase of Streptomyces coelicolor(AL136519), residues 67-384 are 36% similar to beta-glucosidase of Synechocystis sp(D90914).

The C-terminal half has the following similarity: residues 577-973 are 27% similar to residues 52-426 of the E.coli beta-lactamase precursor (D90873).

This sequence is similar to BT2439.

 Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539891|ref|NP_904370.1|  glycosyl hydrolase, family 3 [...  2065   0.0  
 gi|153806098|ref|ZP_01958766.1|  hypothetical protein BACCAC...   736   0.0  
 gi|156111018|gb|EDO12763.1|  hypothetical protein BACOVA_015...   733   0.0  
 gi|154494473|ref|ZP_02033793.1|  hypothetical protein PARMER...   728   0.0  
 gi|150008942|ref|YP_001303685.1|  glycoside hydrolase family...   722   0.0  
 gi|29347849|ref|NP_811352.1|  beta-N-acetylglucosaminidase [...   703   0.0  
 gi|156862487|gb|EDO55918.1|  hypothetical protein BACUNI_003...   690   0.0  
 gi|53711858|ref|YP_097850.1|  beta-N-acetylglucosaminidase [...   681   0.0  
 gi|60680086|ref|YP_210230.1|  putative hydrolase/beta lactam...   679   0.0  
 gi|156862488|gb|EDO55919.1|  hypothetical protein BACUNI_003...   669   0.0


InterPro Summary:  InterProScan

InterPro
IPR001466
Family
Beta-lactamase
PF00144 [597-990]T 6.70002630158945E-39 PF00144 Beta-lactamase Beta-lactamase
InterPro
IPR001764
Domain
Glycoside hydrolase, family 3, N-terminal
PR00133 [121-137]T 3.2E-10 PR00133 GLHYDRLASE3[146-165]T 3.2E-10 PR00133 GLHYDRLASE3[224-240]T 3.2E-10 PR00133 GLHYDRLASE3[302-320]T 3.2E-10 PR00133 GLHYDRLASE3 GLHYDRLASE3
PF00933 [121-345]T 6.499979505417749E-49 PF00933 Glyco_hydro_3 Glyco_hydro_3
PS00775 [302-319]T 8.0E-5 PS00775 GLYCOSYL_HYDROL_F3 GLYCOSYL_HYDROL_F3
InterPro
IPR012338
Domain
Penicillin-binding protein, transpeptidase fold
SSF56601 [595-998]T 5.9E-72 SSF56601 PBP_transp_fold PBP_transp_fold
noIPR
unintegrated
unintegrated
G3DSA:3.20.20.300 [51-384]T 1.9000069431527005E-84 G3DSA:3.20.20.300 G3DSA:3.20.20.300 G3DSA:3.20.20.300
G3DSA:3.40.710.10 [596-978]T 1.79999754022378E-67 G3DSA:3.40.710.10 G3DSA:3.40.710.10 G3DSA:3.40.710.10
PTHR22935 [597-720]T 5.20000089003276E-54 PTHR22935 PTHR22935[782-909]T 5.20000089003276E-54 PTHR22935 PTHR22935 PTHR22935
PTHR22935:SF10 [597-720]T 5.20000089003276E-54 PTHR22935:SF10 PTHR22935:SF10[782-909]T 5.20000089003276E-54 PTHR22935:SF10 PTHR22935:SF10 PTHR22935:SF10
SSF51445 [49-419]T 1.4999999999999997E-95 SSF51445 SSF51445 SSF51445
SSF52279 [420-564]T 0.015 SSF52279 SSF52279 SSF52279


COGS Summary:  COGS Search
BeTs to 6 clades of COG1472
COG name: Beta-glucosidase-related glycosidases
Functional Class: G
The phylogenetic pattern of COG1472 is ------VcEbRh----O---x
Number of proteins in this genome belonging to this COG is 1
Blocks Summary:  Blocks Search
***** IPB001764 (Glycosyl hydrolase family 3) with a combined E-value of 2.9e-12.
    IPB001764A    223-237
    IPB001764B    302-317
    IPB001764C    408-431


 ProDom Summary:  Protein Domain Search
Residues 311-444 are 33% similar to a (HYDROLASE GLYCOSIDASE BETA-GLUCOSIDASE PRECURSOR) protein domain (PD001660 which is seen in O82840_STRTL.

Residues 63-309 are 38% similar to a (HYDROLASE GLYCOSIDASE BETA-GLUCOSIDASE CELLOBIASE) protein domain (PD001132 which is seen in O82840_STRTL.

Residues 812-910 are 28% similar to a (YBBE PROTEIN YBZA UCPA-AMIA INTERGENIC REGION PRECURSOR) protein domain (PD022660 which is seen in O05213_BACSU.


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

Pfam Summary:  Pfam Search
Residues 121 to 345 (E-value = 1.4e-52) place PG0010 in the Glyco_hydro_3 family which is described as Glycosyl hydrolase family 3 N terminal domain (PF00933)
Residues 597 to 989 (E-value = 6.7e-40) place PG0010 in the Beta-lactamase family which is described as Beta-lactamase (PF00144)

 Structural Feature(s):
Feature Type  Start  Stop
cleavable signal  
1  
21
non-globular  
512  
569
transmembrane  
650  
666

Top PDB Hits:
-53% similar to PDB:1TR9 Structure of beta-hexosaminidase from Vibrio cholerae (E_value = 4.8E_23);
-53% similar to PDB:1Y65 Crystal structure of beta-hexosaminidase from Vibrio cholerae in complex with N-acetyl-D-glucosamine to a resolution of 1.85 (E_value = 4.8E_23);
-43% similar to PDB:1EX1 BETA-D-GLUCAN EXOHYDROLASE FROM BARLEY (E_value = 2.3E_17);
-43% similar to PDB:1IEQ CRYSTAL STRUCTURE OF BARLEY BETA-D-GLUCAN GLUCOHYDROLASE ISOENZYME EXO1 (E_value = 2.3E_17);
-43% similar to PDB:1IEV CRYSTAL STRUCTURE OF BARLEY BETA-D-GLUCAN GLUCOHYDROLASE ISOENZYME EXO1 IN COMPLEX WITH CYCLOHEXITOL (E_value = 2.3E_17);

Gene Protein Sequence:
MKRFLFSAITILSLSVLYTATAPARTNMGAMHAQQSKDYPFLLFGGVESK
DVKRWVDDRMKAMSTEEKVGQLLMPIVYPSLQEEKVKQAEQLVRTCHIGG
ILFQKGTLSEQYTMTRRLQEAAGTPLLIALDGEWGLHMRLKDAPRFPRNM
GLGHQKDNQLLYNYGREVARQCRLMGIHINFAPVLDVNNNPKNPVIGTRS
FGDNPRRVAERGIAYAQGLEDGGVMAVAKHFPGHGNTTEDSHKTLPTVFA
SREELENTELFPFKEFFRAGLSGVMTAHLNVPALEAKKNTPSSLSHAICT
DLLRQEMGFKGLIFTDGLAMQGVQTAGSQPISVRAILAGNDILLGPVDPV
KTFSEVLAAVEDRTISKELLDEKCRKILAFKYALIICKGISKELPAEEVV
RQVNSREAERMSEDLWQASITILKNKKHFLPLSEGNRIACVNLDGAASNT
FTQELGLTSKDCYSYAKGSNSTRTQELLSKLKGYDAVIVTVRHTQPDWAG
TFLHRLTEQNHTAIVFFTSPYVADRIPAAMDKARAIVVAYENVKEAARMA
AYKIRDRVVVSSGGGIPVVQEEEDTDPTANMMPPTELSSGLIPMPAVDRI
AKEALRQGAFPGCRILAVHRDKVVYDKSFGTLDGSARGGKVSSSTIYDLA
SVTKVVATTPAVMLLVQDGKLKLSDRLGTLLPRFARTDLKDITVQQLLLH
EAGLRPSINFYESLIDSSSLDGKLLSPRRSSGWVRVDTNMWGNPFFGFRS
DLVSGQFRPDYPFRFSSNLYLSKEVKEIVLNTIASTPRNGVGRYKYSDLG
FILLQQIVEKVSGKSLNVFVEERIFRPIGAGSLGYLPLDKYSVSRIAPAQ
NDKFLRKSIVRGTVDDEAAACLGGISGNAGVFGTAEDVARVLDMFIHEGT
YKGHRIIDQKIFRLFITTHGKGNRRCLGFDKGRASMAESASGSTYGHTGF
TGTCVWVDPENELIFVFLSNRTYPNRLNKTLMTASIRPRLHQAIYEALGI
AEQ

Gene Nucleotide Sequence:  Sequence Viewer
ATGAAACGATTTCTTTTCTCCGCCATCACAATACTCTCTCTCTCGGTGCT
GTACACAGCTACGGCACCGGCCCGCACGAACATGGGTGCCATGCATGCCC
AGCAGTCCAAAGACTATCCCTTTCTCCTCTTCGGGGGAGTCGAGAGCAAA
GATGTCAAACGCTGGGTTGACGACCGCATGAAGGCTATGAGCACGGAGGA
AAAAGTAGGCCAGCTGCTCATGCCGATCGTCTATCCCTCTTTACAGGAAG
AAAAAGTAAAGCAAGCCGAACAGCTGGTGCGCACCTGCCACATCGGGGGC
ATACTCTTCCAAAAGGGTACACTCTCGGAGCAATACACGATGACTCGCCG
CTTGCAGGAAGCAGCCGGCACCCCTCTCCTCATAGCACTGGACGGTGAGT
GGGGTTTGCACATGCGTCTGAAAGATGCCCCACGCTTCCCTCGCAATATG
GGCTTGGGACACCAAAAAGACAATCAGCTCCTCTACAACTATGGTCGGGA
GGTAGCGCGCCAATGCCGGCTGATGGGGATTCATATCAATTTTGCTCCGG
TGCTGGACGTGAACAACAATCCGAAGAACCCTGTTATCGGCACGCGCAGC
TTCGGCGACAACCCACGCCGAGTAGCAGAAAGAGGGATTGCCTATGCACA
AGGATTGGAGGACGGAGGAGTGATGGCCGTGGCCAAGCATTTCCCCGGAC
ACGGCAATACCACAGAGGACTCGCACAAGACCTTGCCCACGGTCTTTGCC
TCCCGAGAGGAATTGGAGAATACTGAATTGTTCCCCTTCAAGGAGTTTTT
CCGAGCCGGCCTCAGCGGAGTGATGACCGCTCACCTCAATGTTCCGGCTT
TGGAAGCAAAGAAAAATACGCCCTCCTCCCTCAGTCATGCCATCTGCACC
GATCTGCTTCGGCAGGAAATGGGTTTCAAGGGGCTGATCTTTACGGACGG
ACTGGCCATGCAGGGAGTACAGACAGCCGGTTCTCAACCGATCTCCGTCC
GTGCCATATTGGCCGGCAATGACATCCTCCTCGGTCCGGTGGACCCGGTC
AAGACTTTCTCCGAGGTGCTGGCCGCAGTGGAAGACAGAACGATAAGCAA
AGAATTGCTGGACGAGAAATGTCGCAAAATTCTGGCCTTCAAGTATGCGC
TCATCATTTGTAAGGGAATATCCAAGGAGCTACCGGCAGAGGAAGTGGTA
CGACAGGTAAACAGCCGTGAAGCGGAACGGATGTCGGAAGATCTTTGGCA
GGCATCCATTACGATTCTCAAAAACAAGAAGCACTTCCTCCCCCTCTCGG
AGGGAAACCGTATTGCATGCGTCAATCTAGATGGTGCAGCCTCCAATACT
TTTACACAAGAGCTGGGGCTTACGAGCAAGGACTGCTATTCCTATGCCAA
GGGCAGCAACAGTACACGTACACAAGAGTTGCTCTCCAAACTCAAGGGGT
ACGATGCTGTGATCGTCACAGTTCGACATACACAGCCGGACTGGGCAGGA
ACGTTTCTCCACCGGCTGACGGAACAAAACCACACTGCCATCGTCTTCTT
CACATCGCCCTATGTAGCCGATAGGATTCCGGCGGCTATGGACAAAGCTC
GGGCTATAGTCGTGGCATATGAAAACGTAAAGGAGGCTGCTCGAATGGCA
GCCTACAAGATTCGGGACAGAGTTGTGGTATCCTCGGGCGGTGGGATCCC
GGTCGTTCAGGAAGAGGAGGACACTGATCCGACAGCGAACATGATGCCGC
CGACCGAATTGTCGTCCGGCCTCATCCCGATGCCGGCGGTAGACCGCATA
GCGAAAGAAGCCCTAAGGCAAGGGGCTTTCCCCGGTTGTCGTATCCTCGC
TGTCCATCGAGACAAGGTGGTATATGACAAAAGCTTCGGCACTCTCGACG
GATCGGCACGTGGAGGCAAGGTGTCTTCTTCCACCATCTACGACTTGGCA
TCCGTCACCAAGGTCGTAGCCACTACTCCGGCTGTGATGCTATTGGTTCA
GGATGGAAAATTGAAGCTCTCCGACCGGCTCGGAACGCTATTGCCTCGTT
TTGCCCGAACAGACCTCAAAGACATCACCGTACAGCAGCTTCTACTTCAT
GAAGCAGGCCTTCGGCCATCGATCAATTTCTACGAATCTCTGATAGACAG
TAGCAGTTTGGACGGCAAGTTGCTCTCTCCCCGGCGGAGTTCGGGATGGG
TTCGAGTAGATACCAATATGTGGGGCAATCCATTCTTCGGATTTCGCTCC
GATTTGGTTTCCGGGCAATTTCGGCCGGACTATCCGTTTCGTTTTTCTTC
CAATCTGTATCTATCGAAAGAGGTCAAAGAAATTGTCCTCAATACCATCG
CTTCTACCCCTCGCAATGGAGTCGGACGCTACAAGTATTCGGATCTGGGG
TTTATCCTGCTACAGCAAATTGTGGAAAAAGTATCGGGCAAGAGCTTGAA
CGTCTTTGTCGAAGAACGTATATTCCGCCCCATCGGAGCCGGTTCGCTCG
GTTATCTTCCACTCGATAAATATTCCGTTTCGCGCATTGCACCGGCACAG
AACGACAAATTTCTACGTAAAAGCATCGTCCGCGGTACCGTGGACGACGA
AGCTGCTGCATGCCTCGGAGGTATATCGGGCAATGCAGGTGTTTTCGGCA
CTGCGGAGGACGTTGCCCGTGTACTGGACATGTTCATTCATGAAGGCACT
TACAAAGGCCACAGAATCATCGATCAAAAGATCTTCCGACTGTTCATAAC
GACTCATGGCAAGGGCAACAGGCGTTGTCTCGGATTTGACAAAGGCCGGG
CGAGTATGGCAGAATCGGCGTCAGGCTCCACCTACGGGCACACAGGGTTT
ACCGGCACATGCGTTTGGGTCGATCCCGAGAACGAACTTATCTTTGTATT
CCTTTCCAATCGGACTTACCCCAATCGGCTGAACAAGACACTGATGACGG
CAAGCATACGCCCCAGACTGCATCAAGCAATATACGAGGCTTTGGGAATA
GCGGAGCAA

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