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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)
Bd5jenb_ Alpha and beta proteins (a+b) Lysozyme-like Lysozyme-like automated matches automated matches (Gallus gallus ) [TaxId: 9031 ], SCOPe (2.08)
Dd5jend_ 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)
ASCOP2B SuperfamilyPeptidoglycan deacetylase N-terminal noncatalytic region 8092030 3000265 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)
BSCOP2B SuperfamilyLysozyme-like 8037428 3001879 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyLysozyme-like 8037428 3001879 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
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)
COxidored_q2e5jenC1 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)
DOxidored_q2e5jenD1 A: alpha arraysX: TcA alpha-helical shell domainH: TcA alpha-helical shell domainT: TcA alpha-helical shell domainF: Oxidored_q2ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
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)
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)
B1.10.530.10 Mainly Alpha Orthogonal Bundle Lysozyme CATH (4.3.0)
D1.10.530.10 Mainly Alpha Orthogonal Bundle Lysozyme CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
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
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

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