ID A0A923N3J0_9BACT Unreviewed; 584 AA.
AC A0A923N3J0;
DT 22-FEB-2023, integrated into UniProtKB/TrEMBL.
DT 22-FEB-2023, sequence version 1.
DT 28-JAN-2026, entry version 12.
DE SubName: Full=L,D-transpeptidase family protein {ECO:0000313|EMBL:MBC5991581.1};
GN ORFNames=H8S84_01885 {ECO:0000313|EMBL:MBC5991581.1};
OS Pontibacter cellulosilyticus.
OC Bacteria; Pseudomonadati; Bacteroidota; Cytophagia; Cytophagales;
OC Hymenobacteraceae; Pontibacter.
OX NCBI_TaxID=1720253 {ECO:0000313|EMBL:MBC5991581.1, ECO:0000313|Proteomes:UP000603640};
RN [1] {ECO:0000313|EMBL:MBC5991581.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=SD6 {ECO:0000313|EMBL:MBC5991581.1};
RA Kang M.;
RT "Pontibacter sp. SD6 16S ribosomal RNA gene Genome sequencing and
RT assembly.";
RL Submitted (AUG-2020) 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:MBC5991581.1}.
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DR EMBL; JACRVF010000001; MBC5991581.1; -; Genomic_DNA.
DR RefSeq; WP_187065582.1; NZ_JACRVF010000001.1.
DR AlphaFoldDB; A0A923N3J0; -.
DR Proteomes; UP000603640; 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-KW.
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.
DR PROSITE; PS51257; PROKAR_LIPOPROTEIN; 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:UP000603640};
KW Signal {ECO:0000256|SAM:SignalP};
KW Transferase {ECO:0000256|ARBA:ARBA00022679}.
FT SIGNAL 1..24
FT /evidence="ECO:0000256|SAM:SignalP"
FT CHAIN 25..584
FT /evidence="ECO:0000256|SAM:SignalP"
FT /id="PRO_5037643956"
FT DOMAIN 342..533
FT /note="L,D-TPase catalytic"
FT /evidence="ECO:0000259|PROSITE:PS52029"
FT ACT_SITE 486
FT /note="Proton donor/acceptor"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01373"
FT ACT_SITE 505
FT /note="Nucleophile"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01373"
SQ SEQUENCE 584 AA; 68090 MW; D1B7D7531E06F3F3 CRC64;
MNPYKDYKYL LFTLILGVSS LLVGCNNSDG EATTAKNGIE KVGEIFSQKE LPQANTDSSD
IVNFLKEQPK MKKHDELMFL FYGDRDYKLA WFRDNEIVPE AQKFLSVINQ SSKEGLQPSN
YRVMDFEKLF KQYEQMDGQD SARLELQRKI DLGLTASYFN YASDFYRGRV DPRTDNNVSW
NVKKNKIKLH KALQTILKER ESTYPYYEFE ALHKGYANLR SALSKYREIE EKGGWPKVEL
GKKKSLAKGD TAAAVISLRK RLNYGQPINE ADKNMRLFDA ELEKQVKKFQ MLHGLAEDGK
VGGNTLKQLN IPVGERIEQI MINMERWRWI PKRMVPKSLD QKYIWVNIPE YKLYIYEDPD
NDPEAEREYQ EVMNMRVIVG KTMNSTPIFS DKLEFVVMAP YWNVPNSIVE KEIKPAILKN
SGYLASQNME VVTKEKNPKQ IDPYSIDWAS VTEKNFPYMV RQRPGPKNSL GSIKFLFPNE
YNVYLHDTPA DALFSQNQRN FSHGCVRVEK PIELGKYLLQ DMPEWDESRI RSTINGGEET
WVTLPKNVQV YIVYFTSWAD EQGNVHFRED LYGHDKKLEQ EYFG
//
