ID A0A643FJ14_IDEDE Unreviewed; 527 AA.
AC A0A643FJ14;
DT 22-APR-2020, integrated into UniProtKB/TrEMBL.
DT 22-APR-2020, sequence version 1.
DT 02-APR-2025, entry version 18.
DE SubName: Full=L,D-transpeptidase family protein {ECO:0000313|EMBL:KAB0584737.1};
GN ORFNames=F7Q92_02590 {ECO:0000313|EMBL:KAB0584737.1};
OS Ideonella dechloratans.
OC Bacteria; Pseudomonadati; Pseudomonadota; Betaproteobacteria;
OC Burkholderiales; Sphaerotilaceae; Ideonella.
OX NCBI_TaxID=36863 {ECO:0000313|EMBL:KAB0584737.1, ECO:0000313|Proteomes:UP000430120};
RN [1] {ECO:0000313|EMBL:KAB0584737.1, ECO:0000313|Proteomes:UP000430120}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=CCUG 30977 {ECO:0000313|EMBL:KAB0584737.1,
RC ECO:0000313|Proteomes:UP000430120};
RA Tunovic T., Pineiro-Iglesias B., Unosson C., Inganas E., Ohlen M.,
RA Cardew S., Jensie-Markopoulos S., Salva-Serra F., Jaen-Luchoro D.,
RA Karlsson R., Svensson-Stadler L., Chun J., Moore E.;
RT "Draft genome sequences of 48 bacterial type strains from the CCUG.";
RL Submitted (SEP-2019) to the EMBL/GenBank/DDBJ databases.
CC -!- PATHWAY: Cell wall biogenesis; peptidoglycan biosynthesis.
CC {ECO:0000256|ARBA:ARBA00004752, ECO:0000256|PROSITE-ProRule:PRU01373}.
CC -!- SIMILARITY: Belongs to the YkuD family.
CC {ECO:0000256|ARBA:ARBA00005992}.
CC -!- CAUTION: The sequence shown here is derived from an EMBL/GenBank/DDBJ
CC whole genome shotgun (WGS) entry which is preliminary data.
CC {ECO:0000313|EMBL:KAB0584737.1}.
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DR EMBL; VZPB01000004; KAB0584737.1; -; Genomic_DNA.
DR RefSeq; WP_151122382.1; NZ_CP088082.1.
DR AlphaFoldDB; A0A643FJ14; -.
DR OrthoDB; 9778545at2; -.
DR UniPathway; UPA00219; -.
DR Proteomes; UP000430120; Unassembled WGS sequence.
DR GO; GO:0004180; F:carboxypeptidase activity; IEA:UniProtKB-ARBA.
DR GO; GO:0016740; F:transferase activity; IEA:UniProtKB-KW.
DR GO; GO:0071555; P:cell wall organization; IEA:UniProtKB-UniRule.
DR GO; GO:0009252; P:peptidoglycan biosynthetic process; IEA:UniProtKB-UniPathway.
DR GO; GO:0008360; P:regulation of cell shape; IEA:UniProtKB-UniRule.
DR CDD; cd16913; YkuD_like; 1.
DR Gene3D; 2.40.440.10; L,D-transpeptidase catalytic domain-like; 1.
DR Gene3D; 1.10.101.10; PGBD-like superfamily/PGBD; 1.
DR InterPro; IPR052905; LD-transpeptidase_YkuD-like.
DR InterPro; IPR005490; LD_TPept_cat_dom.
DR InterPro; IPR045380; LD_TPept_scaffold_dom.
DR InterPro; IPR002477; Peptidoglycan-bd-like.
DR InterPro; IPR036365; PGBD-like_sf.
DR InterPro; IPR036366; PGBDSf.
DR InterPro; IPR038063; Transpep_catalytic_dom.
DR PANTHER; PTHR41533:SF2; BLR7131 PROTEIN; 1.
DR PANTHER; PTHR41533; L,D-TRANSPEPTIDASE HI_1667-RELATED; 1.
DR Pfam; PF01471; PG_binding_1; 1.
DR Pfam; PF20142; Scaffold; 1.
DR Pfam; PF03734; YkuD; 1.
DR SUPFAM; SSF141523; L,D-transpeptidase catalytic domain-like; 1.
DR SUPFAM; SSF47090; PGBD-like; 1.
DR PROSITE; PS52029; LD_TPASE; 1.
PE 3: Inferred from homology;
KW Cell shape {ECO:0000256|ARBA:ARBA00022960, ECO:0000256|PROSITE-
KW ProRule:PRU01373};
KW Cell wall biogenesis/degradation {ECO:0000256|ARBA:ARBA00023316,
KW ECO:0000256|PROSITE-ProRule:PRU01373};
KW Peptidoglycan synthesis {ECO:0000256|ARBA:ARBA00022984,
KW ECO:0000256|PROSITE-ProRule:PRU01373};
KW Reference proteome {ECO:0000313|Proteomes:UP000430120};
KW Transferase {ECO:0000256|ARBA:ARBA00022679}.
FT DOMAIN 290..471
FT /note="L,D-TPase catalytic"
FT /evidence="ECO:0000259|PROSITE:PS52029"
FT ACT_SITE 426
FT /note="Proton donor/acceptor"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01373"
FT ACT_SITE 445
FT /note="Nucleophile"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01373"
SQ SEQUENCE 527 AA; 57809 MW; 82156B9F20F05E8F CRC64;
MKRRDLIVRT LAGGLLGANL GRPTLSWAAD APAPAALDWL PGGRPGALAR QAVALLADAA
SQGLNPQDYQ AQPLVQAVAQ AAQGQPLQAE AAALLSQRLS TQILRYLREL HWGRISPRQL
QQNYDGLRGG SFDAAVVLQQ AFATGRLAEA AQAAAPRTAL YGALKETLAA YRAMGAPAAW
QQPLPPLPAS RPKGRPPKLE AGQAWPGLDL LRQRLQLLGD LDPQAATPAL YQSPLVEAVQ
TFQQRHGLND DGVIGAGTLA ALNVSPAERV RQIELTMERL RWTPIAQGPR MIAINLPEFV
LRGYEVHGDE ITVKTEMKVI VGKALNTRTP IFDEDMRFIE FSPYWNIPPS IARKETVPKL
RKDPGYLDRE GMEFVAGDGR VLRAVSSANL DAVLAGQMRI RQRPGPENAL GDIKFVFPNN
DNIYLHHTPA TQLFEKERRD FSHGCIRVEK PVELARFVLQ DMPEWTEERI VAAMTKGESS
TLKLAHPIPV LIAYGTALVK HGRPYFFADL YGQDKLLDAA LRARKVS
//
