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Crystal structure of the anti-sigma factor RsiV bound to lysozyme


Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Dd5jend_ Alpha and beta proteins (a+b) Lysozyme-like Lysozyme-like automated matches automated matches (Gallus gallus ) [TaxId: 9031 ], SCOPe (2.08)
Bd5jenb_ Alpha and beta proteins (a+b) Lysozyme-like Lysozyme-like automated matches automated matches (Gallus gallus ) [TaxId: 9031 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
DSCOP2B SuperfamilyLysozyme-like 8037428 3001879 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyLysozyme-like 8037428 3001879 SCOP2B (2022-06-29)
CSCOP2 FamilyMPT64-like 8046917 4005367 SCOP2 (2022-06-29)
CSCOP2 SuperfamilyPeptidoglycan deacetylase N-terminal noncatalytic region 8092030 3000265 SCOP2 (2022-06-29)
ASCOP2B SuperfamilyPeptidoglycan deacetylase N-terminal noncatalytic region 8092030 3000265 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
DOxidored_q2e5jenD1 A: alpha arraysX: TcA alpha-helical shell domainH: TcA alpha-helical shell domainT: TcA alpha-helical shell domainF: Oxidored_q2ECOD (v295.2)
BOxidored_q2e5jenB1 A: alpha arraysX: TcA alpha-helical shell domainH: TcA alpha-helical shell domainT: TcA alpha-helical shell domainF: Oxidored_q2ECOD (v295.2)
COxidored_q2e5jenC1 A: alpha arraysX: TcA alpha-helical shell domainH: TcA alpha-helical shell domainT: TcA alpha-helical shell domainF: Oxidored_q2ECOD (v295.2)
AtRNA_anti-codone5jenA1 A: alpha arraysX: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4F: tRNA_anti-codonECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
D1.10.530.10 Mainly Alpha Orthogonal Bundle Lysozyme CATH (4.3.0)
B1.10.530.10 Mainly Alpha Orthogonal Bundle Lysozyme CATH (4.3.0)
C3.30.565.40 Alpha Beta 2-Layer Sandwich Heat Shock Protein 90 Fervidobacterium nodosum Rt17-B1 likeCATH (4.3.0)
C3.90.640.20 Alpha Beta Alpha-Beta Complex Actin Chain A, domain 4CATH (4.3.0)
A3.30.565.40 Alpha Beta 2-Layer Sandwich Heat Shock Protein 90 Fervidobacterium nodosum Rt17-B1 likeCATH (4.3.0)
A3.90.640.20 Alpha Beta Alpha-Beta Complex Actin Chain A, domain 4CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
B, D
PF00062C-type lysozyme/alpha-lactalbumin family (Lys)C-type lysozyme/alpha-lactalbumin familyAlpha-lactalbumin is the regulatory subunit of lactose synthase, changing the substrate specificity of galactosyltransferase from N-acetylglucosamine to glucose. C-type lysozymes are secreted bacteriolytic enzymes that cleave the peptidoglycan of bac ...Alpha-lactalbumin is the regulatory subunit of lactose synthase, changing the substrate specificity of galactosyltransferase from N-acetylglucosamine to glucose. C-type lysozymes are secreted bacteriolytic enzymes that cleave the peptidoglycan of bacterial cell walls. Structure is a multi-domain, mixed alpha and beta fold, containing four conserved disulfide bonds.
Domain
A, C
PF13739Deacetylase PdaC (PdaC)Deacetylase PdaCThis domain forms an alpha-beta-two layer sandwich. It is found in the Bacillus subtilis proteins anti-sigma-V factor RsiV, which downregulates SigV activity [1], and peptidoglycan-N-acetylmuramic acid deacetylase PdaC, which catalyzes the deacetylat ...This domain forms an alpha-beta-two layer sandwich. It is found in the Bacillus subtilis proteins anti-sigma-V factor RsiV, which downregulates SigV activity [1], and peptidoglycan-N-acetylmuramic acid deacetylase PdaC, which catalyzes the deacetylation of N-acetylmuramic acid which makes the peptidoglycan resistant to lysosyme [2]. It is found in association with Heat-shock cognate 70kd protein 44kd ATPase, Pfam:PF11738.
Domain
A, C
PF11738MPT64/RsiV-like C-terminal domain (MPT64_RsiV_C)MPT64/RsiV-like C-terminal domainThis entry represents a domain found in bacterial proteins, predominantly from Bacillota, Pseudomonadota and Bacteroidota. The domain is approximately 75-85 residues long and is usually located at the C-terminus. Structures of the MPT64 antigen from ...This entry represents a domain found in bacterial proteins, predominantly from Bacillota, Pseudomonadota and Bacteroidota. The domain is approximately 75-85 residues long and is usually located at the C-terminus. Structures of the MPT64 antigen from Mycobacterium tuberculosis and the anti-sigma-V factor RsiV show that this region adopts a beta-grasp fold [1]. This domain occurs in several secreted or membrane-associated proteins, including the exported esterase Rv3036c (Swiss:I6YF08), which hydrolyses CC ester substrates with carbon chain lengths ranging from C2 to CC C14 [2], anti-sigma-V factor RsiV (Swiss:O05403), and peptidoglycan-N-acetylmuramic acid deacetylase PdaC (Swiss:O34798) [3]. In Clostridium difficile, RsiV is associated with the sigmaV lysozyme-resistance system [4]. This domain, often found adjacent to the PdaC domain (Pfam:PF13739), is predicted to form a homodimer.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
B, D
Lysozyme C
A, C
Anti-sigma-V factor RsiV- -