ID   R9KRP4_9FIRM            Unreviewed;       498 AA.
AC   R9KRP4;
DT   24-JUL-2013, integrated into UniProtKB/TrEMBL.
DT   24-JUL-2013, sequence version 1.
DT   27-MAR-2024, entry version 35.
DE   RecName: Full=YkuD domain-containing protein {ECO:0008006|Google:ProtNLM};
GN   ORFNames=C810_00343 {ECO:0000313|EMBL:EOS48841.1};
OS   Lachnospiraceae bacterium A2.
OC   Bacteria; Bacillota; Clostridia; Eubacteriales; Lachnospiraceae.
OX   NCBI_TaxID=397290 {ECO:0000313|EMBL:EOS48841.1, ECO:0000313|Proteomes:UP000014150};
RN   [1] {ECO:0000313|EMBL:EOS48841.1, ECO:0000313|Proteomes:UP000014150}
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=A2 {ECO:0000313|EMBL:EOS48841.1,
RC   ECO:0000313|Proteomes:UP000014150};
RG   The Broad Institute Genomics Platform;
RG   The Broad Institute Genome Sequencing Center for Infectious Disease;
RA   Earl A., Xavier R., Elson C., Duck W., Walker B., Young S., Zeng Q.,
RA   Gargeya S., Fitzgerald M., Haas B., Abouelleil A., Allen A.W., Alvarado L.,
RA   Arachchi H.M., Berlin A.M., Chapman S.B., Gainer-Dewar J., Goldberg J.,
RA   Griggs A., Gujja S., Hansen M., Howarth C., Imamovic A., Ireland A.,
RA   Larimer J., McCowan C., Murphy C., Pearson M., Poon T.W., Priest M.,
RA   Roberts A., Saif S., Shea T., Sisk P., Sykes S., Wortman J., Nusbaum C.,
RA   Birren B.;
RT   "The Genome Sequence of Lachnospiraceae bacterium A2.";
RL   Submitted (APR-2013) to the EMBL/GenBank/DDBJ databases.
CC   -!- PATHWAY: Cell wall biogenesis; peptidoglycan biosynthesis.
CC       {ECO:0000256|ARBA:ARBA00004752}.
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:EOS48841.1}.
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DR   EMBL; ASSX01000003; EOS48841.1; -; Genomic_DNA.
DR   AlphaFoldDB; R9KRP4; -.
DR   STRING; 397290.C810_00343; -.
DR   PATRIC; fig|397290.3.peg.381; -.
DR   eggNOG; COG1376; Bacteria.
DR   HOGENOM; CLU_022707_2_1_9; -.
DR   OrthoDB; 3176960at2; -.
DR   UniPathway; UPA00219; -.
DR   Proteomes; UP000014150; Unassembled WGS sequence.
DR   GO; GO:0016020; C:membrane; IEA:UniProtKB-KW.
DR   GO; GO:0016740; F:transferase activity; IEA:UniProtKB-KW.
DR   GO; GO:0009252; P:peptidoglycan biosynthetic process; IEA:UniProtKB-UniPathway.
DR   CDD; cd16913; YkuD_like; 1.
DR   Gene3D; 3.10.20.800; -; 1.
DR   Gene3D; 2.40.440.10; L,D-transpeptidase catalytic domain-like; 1.
DR   InterPro; IPR038054; LD_TPept-like_central_sf.
DR   InterPro; IPR005490; LD_TPept_cat_dom.
DR   InterPro; IPR038063; Transpep_catalytic_dom.
DR   InterPro; IPR022029; YoaR-like_PG-bd.
DR   PANTHER; PTHR30582; L,D-TRANSPEPTIDASE; 1.
DR   PANTHER; PTHR30582:SF2; SLL0670 PROTEIN; 1.
DR   Pfam; PF12229; PG_binding_4; 1.
DR   Pfam; PF03734; YkuD; 1.
DR   SUPFAM; SSF141523; L,D-transpeptidase catalytic domain-like; 1.
DR   SUPFAM; SSF143985; L,D-transpeptidase pre-catalytic domain-like; 1.
PE   4: Predicted;
KW   Membrane {ECO:0000256|SAM:Phobius};
KW   Reference proteome {ECO:0000313|Proteomes:UP000014150};
KW   Transferase {ECO:0000256|ARBA:ARBA00022679};
KW   Transmembrane {ECO:0000256|SAM:Phobius};
KW   Transmembrane helix {ECO:0000256|SAM:Phobius}.
FT   TRANSMEM        12..35
FT                   /note="Helical"
FT                   /evidence="ECO:0000256|SAM:Phobius"
FT   DOMAIN          220..319
FT                   /note="YoaR-like putative peptidoglycan binding"
FT                   /evidence="ECO:0000259|Pfam:PF12229"
FT   DOMAIN          342..460
FT                   /note="L,D-transpeptidase catalytic"
FT                   /evidence="ECO:0000259|Pfam:PF03734"
SQ   SEQUENCE   498 AA;  55620 MW;  2E33112C33D00259 CRC64;
     MRDRERRRKR RIIIGSAAGA ILLLAAVYFG MALYFSSHFF FRTKINGWKV GGMDLKSAEE
     KVGDGVEDYL LTVFDRNGEK HHIYGQDIDC AYVPDGSVEK LLEGQKPFQW IAAIFQPKSG
     EVPITMDYQE SLISDAVAGM DCFQEGNIIE PENAEIKLGD DGYYVEPEEP GTRMVFENVL
     AKVKQAVSAG DSEVSLTDED YVNPEITKES PVITDAMERI QSYENAEITY EIKDYDEKLT
     SEKIRGFIQL GEGYSVSLKE DEIEKYVQAL ASTYNTYADV RSFKTSSGDT VEIGGGDYGW
     IVNKPGEAEQ LKADLEAGQP VSREPVYSQR PFAEGKDDIG NTYIEIDYTK QHLWYYENGS
     LVTETDVVTG NISRDNGSPD GVFKIVYKES PAVLKGEDYE SDVTYFMPFA YNVGIHDASW
     RNGRFGGDIY KSSGSHGCIN APLEIATILY ERVKVGTPVI AFYREPVELT AENAKISNAF
     SYVDPEAEQD KEDVGATE
//