DB code: T00257

CATH domain 3.40.50.10390 : Rossmann fold
3.40.50.1460 : Rossmann fold Catalytic domain
2.60.40.10 : Immunoglobulin-like
E.C. 3.4.22.37
CSA 1cvr
M-CSA 1cvr
MACiE

CATH domain Related DB codes (homologues)
2.60.40.10 : Immunoglobulin-like M00131 T00005 M00113 M00127 M00132 M00323 M00325 M00327 M00329 M00330 M00331 M00332 T00307 D00166 D00500 M00112 M00193 T00063 T00065 T00067 T00245
3.40.50.1460 : Rossmann fold D00522

Uniprot Enzyme Name
UniprotKB Protein name Synonyms RefSeq MEROPS Pfam
P95493 Gingipain R2
EC 3.4.22.37
Gingipain 2
Arg-gingipain
RGP-2
NP_904801.1 (Protein)
NC_002950.2 (DNA/RNA sequence)
C25.003 (Cysteine)
PF01364 (Peptidase_C25)
PF03785 (Peptidase_C25_C)
PF08126 (Propeptide_C25)
[Graphical View]

KEGG enzyme name
gingipain R
Arg-gingipain
gingipain-1
argingipain
Arg-gingivain-55 proteinase
Arg-gingivain-70 proteinase
Arg-gingivain-75 proteinase
arginine-specific cysteine protease
arginine-specific gingipain
arginine-specific gingivain
RGP-1
RGP

UniprotKB: Accession Number Entry name Activity Subunit Subcellular location Cofactor
P95493 CPG2_PORGI Hydrolysis of proteins and small molecule substrates, with a preference for Arg in P1.

KEGG Pathways
Map code Pathways E.C.

Compound table
Substrates Products Intermediates
KEGG-id C00017 C00012 C00001 C00017 C00012 I00153 I00154 I00155
E.C.
Compound Protein Peptide H2O Protein Peptide Peptidyl-Cys-tetrahedral-intermediate (with previous peptide) Acyl-enzyme(Peptidyl-Cys-acyl group) Peptidyl-Cys-tetrahedral-intermediate
Type peptide/protein peptide/protein H2O peptide/protein peptide/protein
ChEBI 15377
PubChem 22247451
962
1cvrA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound Unbound Unbound Unbound
1cvrA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound Unbound Intermediate-analogue:H37 Unbound
1cvrA03 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound Unbound Unbound Unbound

Reference for Active-site residues
resource references E.C.
Swiss-prot;P95493, literature [8]

Active-site residues
PDB Catalytic residues Cofactor-binding residues Modified residues Main-chain involved in catalysis Comment
1cvrA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1cvrA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain GLU 152;HIS 211;CYS 244 GLY 212;CYS 244
1cvrA03 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain

References for Catalytic Mechanism
References Sections No. of steps in catalysis
[8]
Fig.5, p.5457-5459

References
[1]
Resource
Comments
Medline ID
PubMed ID 7864651
Journal Arch Biochem Biophys
Year 1995
Volume 316
Pages 917-25
Authors Okamoto K, Misumi Y, Kadowaki T, Yoneda M, Yamamoto K, Ikehara Y
Title Structural characterization of argingipain, a novel arginine-specific cysteine proteinase as a major periodontal pathogenic factor from Porphyromonas gingivalis.
Related PDB
Related UniProtKB
[2]
Resource
Comments
Medline ID
PubMed ID 7890369
Journal Infect Immun
Year 1995
Volume 63
Pages 1176-82
Authors Potempa J, Pike R, Travis J
Title The multiple forms of trypsin-like activity present in various strains of Porphyromonas gingivalis are due to the presence of either Arg-gingipain or Lys-gingipain.
Related PDB
Related UniProtKB
[3]
Resource
Comments
Medline ID
PubMed ID 9467383
Journal Oral Microbiol Immunol
Year 1997
Volume 12
Pages 298-302
Authors Allaker RP, Aduse-Opoku J, Batten JE, Curtis MA
Title Natural variation within the principal arginine-specific protease gene, prpR1, of Porphyromonas gingivalis.
Related PDB
Related UniProtKB
[4]
Resource
Comments
Medline ID
PubMed ID 9529086
Journal Infect Immun
Year 1998
Volume 66
Pages 1594-600
Authors Aduse-Opoku J, Rangarajan M, Young KA, Curtis MA
Title Maturation of the arginine-specific proteases of Porphyromonas gingivalis W50 is dependent on a functional prR2 protease gene.
Related PDB
Related UniProtKB
[5]
Resource
Comments
Medline ID
PubMed ID 9605333
Journal Protein Sci
Year 1998
Volume 7
Pages 1259-61
Authors Banbula A, Potempa J, Travis J, Bode W, Medrano FJ
Title Crystallization and preliminary X-ray diffraction analysis of gingipain R2 from Porphyromonas gingivalis in complex with H-D-Phe-Phe-Arg-chloromethylketone.
Related PDB
Related UniProtKB
[6]
Resource
Comments
Medline ID
PubMed ID 9705298
Journal J Biol Chem
Year 1998
Volume 273
Pages 21648-57
Authors Potempa J, Mikolajczyk-Pawlinska J, Brassell D, Nelson D, Thogersen IB, Enghild JJ, Travis J
Title Comparative properties of two cysteine proteinases (gingipains R), the products of two related but individual genes of Porphyromonas gingivalis.
Related PDB
Related UniProtKB
[7]
Resource
Comments
Medline ID
PubMed ID 10417143
Journal Infect Immun
Year 1999
Volume 67
Pages 3816-23
Authors Curtis MA, Thickett A, Slaney JM, Rangarajan M, Aduse-Opoku J, Shepherd P, Paramonov N, Hounsell EF
Title Variable carbohydrate modifications to the catalytic chains of the RgpA and RgpB proteases of Porphyromonas gingivalis W50.
Related PDB
Related UniProtKB
[8]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS).
Medline ID
PubMed ID 10523290
Journal EMBO J
Year 1999
Volume 18
Pages 5453-62
Authors Eichinger A, Beisel HG, Jacob U, Huber R, Medrano FJ, Banbula A, Potempa J, Travis J, Bode W
Title Crystal structure of gingipain R: an Arg-specific bacterial cysteine proteinase with a caspase-like fold.
Related PDB 1cvr
Related UniProtKB P95493
[9]
Resource
Comments
Medline ID
PubMed ID 10931897
Journal Microbiology
Year 2000
Volume 146
Pages 1933-40
Authors Aduse-Opoku J, Davies NN, Gallagher A, Hashim A, Evans HE, Rangarajan M, Slaney JM, Curtis MA
Title Generation of lys-gingipain protease activity in Porphyromonas gingivalis W50 is independent of Arg-gingipain protease activities.
Related PDB
Related UniProtKB
[10]
Resource
Comments
Medline ID
PubMed ID 11278315
Journal J Biol Chem
Year 2001
Volume 276
Pages 18984-91
Authors Imamura T, Banbula A, Pereira PJ, Travis J, Potempa J
Title Activation of human prothrombin by arginine-specific cysteine proteinases (Gingipains R) from porphyromonas gingivalis.
Related PDB
Related UniProtKB
[11]
Resource
Comments
Medline ID
PubMed ID 11557483
Journal Antimicrob Agents Chemother
Year 2001
Volume 45
Pages 2871-6
Authors Imamura T, Matsushita K, Travis J, Potempa J
Title Inhibition of trypsin-like cysteine proteinases (gingipains) from Porphyromonas gingivalis by tetracycline and its analogues.
Related PDB
Related UniProtKB
[12]
Resource
Comments
Medline ID
PubMed ID 11139397
Journal Biochem J
Year 2001
Volume 353
Pages 325-31
Authors Imamura T, Tanase S, Hamamoto T, Potempa J, Travis J
Title Activation of blood coagulation factor IX by gingipains R, arginine-specific cysteine proteinases from Porphyromonas gingivalis.
Related PDB
Related UniProtKB
[13]
Resource
Comments
Medline ID
PubMed ID 11160022
Journal Infect Immun
Year 2001
Volume 69
Pages 1199-201
Authors Rubinstein I, Potempa J, Travis J, Gao XP
Title Mechanisms mediating Porphyromonas gingivalis gingipain RgpA-induced oral mucosa inflammation in vivo.
Related PDB
Related UniProtKB
[14]
Resource
Comments
Medline ID
PubMed ID 14683426
Journal Curr Protein Pept Sci
Year 2003
Volume 4
Pages 397-407
Authors Potempa J, Sroka A, Imamura T, Travis J
Title Gingipains, the major cysteine proteinases and virulence factors of Porphyromonas gingivalis: structure, function and assembly of multidomain protein complexes.
Related PDB
Related UniProtKB
[15]
Resource
Comments
Medline ID
PubMed ID 14529279
Journal Biochemistry
Year 2003
Volume 42
Pages 11693-700
Authors Ally N, Whisstock JC, Sieprawska-Lupa M, Potempa J, Le Bonniec BF, Travis J, Pike RN
Title Characterization of the specificity of arginine-specific gingipains from Porphyromonas gingivalis reveals active site differences between different forms of the enzymes.
Related PDB
Related UniProtKB

Comments
This enzyme has got a catalytic domain, which is homologous to that of caspase-1 (D00522 in EzCatDB), with conserved catalytic residues.

Created Updated
2004-03-25 2012-10-23