DODEC_MYCTU
ID DODEC_MYCTU Reviewed; 71 AA.
AC Q6MX43; F2GN66; I6X919;
DT 14-MAY-2014, integrated into UniProtKB/Swiss-Prot.
DT 05-JUL-2004, sequence version 1.
DT 03-AUG-2022, entry version 93.
DE RecName: Full=Calcium dodecin;
GN Name=secE2; OrderedLocusNames=Rv0379, RVBD_0379;
OS Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv).
OC Bacteria; Actinobacteria; Corynebacteriales; Mycobacteriaceae;
OC Mycobacterium; Mycobacterium tuberculosis complex.
OX NCBI_TaxID=83332;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 25618 / H37Rv;
RX PubMed=9634230; DOI=10.1038/31159;
RA Cole S.T., Brosch R., Parkhill J., Garnier T., Churcher C.M., Harris D.E.,
RA Gordon S.V., Eiglmeier K., Gas S., Barry C.E. III, Tekaia F., Badcock K.,
RA Basham D., Brown D., Chillingworth T., Connor R., Davies R.M., Devlin K.,
RA Feltwell T., Gentles S., Hamlin N., Holroyd S., Hornsby T., Jagels K.,
RA Krogh A., McLean J., Moule S., Murphy L.D., Oliver S., Osborne J.,
RA Quail M.A., Rajandream M.A., Rogers J., Rutter S., Seeger K., Skelton S.,
RA Squares S., Squares R., Sulston J.E., Taylor K., Whitehead S.,
RA Barrell B.G.;
RT "Deciphering the biology of Mycobacterium tuberculosis from the complete
RT genome sequence.";
RL Nature 393:537-544(1998).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 25618 / H37Rv;
RG The Broad Institute Genome Sequencing Platform;
RA Galagan J., Kreiswirth B., Dobos K., Fortune S., Fitzgerald M., Young S.K.,
RA Zeng Q., Gargeya S., Abouelleil A., Alvarado L., Berlin A.M., Chapman S.B.,
RA Gainer-Dewar J., Goldberg J., Gnerre S., Griggs A., Gujja S., Hansen M.,
RA Howarth C., Imamovic A., Larimer J., McCowan C., Murphy C., Pearson M.,
RA Poon T., Priest M., Roberts A., Saif S., Shea T., Sykes S., Wortman J.,
RA Nusbaum C., Birren B.;
RT "The genome sequence of Mycobacterium tuberculosis H37Rv.";
RL Submitted (NOV-2013) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC STRAIN=ATCC 25618 / H37Rv;
RX PubMed=21969609; DOI=10.1074/mcp.m111.011627;
RA Kelkar D.S., Kumar D., Kumar P., Balakrishnan L., Muthusamy B., Yadav A.K.,
RA Shrivastava P., Marimuthu A., Anand S., Sundaram H., Kingsbury R.,
RA Harsha H.C., Nair B., Prasad T.S., Chauhan D.S., Katoch K., Katoch V.M.,
RA Kumar P., Chaerkady R., Ramachandran S., Dash D., Pandey A.;
RT "Proteogenomic analysis of Mycobacterium tuberculosis by high resolution
RT mass spectrometry.";
RL Mol. Cell. Proteomics 10:M111.011627-M111.011627(2011).
RN [4]
RP X-RAY CRYSTALLOGRAPHY (1.80 ANGSTROMS) IN COMPLEX WITH CALCIUM IONS,
RP FUNCTION, SUBUNIT, AND ELECTRON MICROSCOPY.
RC STRAIN=ATCC 25618 / H37Rv;
RX PubMed=21370306; DOI=10.1002/pro.607;
RA Arockiasamy A., Aggarwal A., Savva C.G., Holzenburg A., Sacchettini J.C.;
RT "Crystal structure of calcium dodecin (Rv0379), from Mycobacterium
RT tuberculosis with a unique calcium-binding site.";
RL Protein Sci. 20:827-833(2011).
CC -!- FUNCTION: Binds calcium ions. May play a role in sequestering
CC additional small ligands. {ECO:0000269|PubMed:21370306}.
CC -!- SUBUNIT: Homododecamer; 12 subunits assemble to form a hollow sphere
CC with a diameter of about 75 Angstroms. Calcium ions are bound at the
CC interface between three subunits. {ECO:0000269|PubMed:21370306}.
CC -!- SIMILARITY: Belongs to the dodecin family. {ECO:0000305}.
CC -!- CAUTION: Dodecin family members from different organisms have non-
CC identical ligand binding specificity. {ECO:0000305}.
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DR EMBL; AL123456; CCP43109.1; -; Genomic_DNA.
DR EMBL; CP003248; AFN48234.1; -; Genomic_DNA.
DR RefSeq; WP_003401885.1; NZ_NVQJ01000002.1.
DR RefSeq; YP_177722.1; NC_000962.3.
DR PDB; 3ONR; X-ray; 1.80 A; A/B/C/D/E/F/G/H/I/J/K/L=1-71.
DR PDBsum; 3ONR; -.
DR AlphaFoldDB; Q6MX43; -.
DR SMR; Q6MX43; -.
DR STRING; 83332.Rv0379; -.
DR PaxDb; Q6MX43; -.
DR DNASU; 886449; -.
DR GeneID; 45424345; -.
DR GeneID; 886449; -.
DR KEGG; mtu:Rv0379; -.
DR KEGG; mtv:RVBD_0379; -.
DR TubercuList; Rv0379; -.
DR eggNOG; COG3360; Bacteria.
DR OMA; MSESVYK; -.
DR EvolutionaryTrace; Q6MX43; -.
DR Proteomes; UP000001584; Chromosome.
DR GO; GO:0009274; C:peptidoglycan-based cell wall; HDA:MTBBASE.
DR GO; GO:0005886; C:plasma membrane; HDA:MTBBASE.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR Gene3D; 3.30.1660.10; -; 1.
DR InterPro; IPR009923; Dodecin.
DR InterPro; IPR025543; Dodecin-like.
DR InterPro; IPR036694; Dodecin-like_sf.
DR PANTHER; PTHR39324; PTHR39324; 1.
DR Pfam; PF07311; Dodecin; 1.
DR SUPFAM; SSF89807; SSF89807; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Calcium; Metal-binding; Reference proteome.
FT CHAIN 1..71
FT /note="Calcium dodecin"
FT /id="PRO_0000429121"
FT BINDING 18
FT /ligand="Ca(2+)"
FT /ligand_id="ChEBI:CHEBI:29108"
FT /ligand_note="ligand shared between two neighboring
FT subunits"
FT STRAND 3..15
FT /evidence="ECO:0007829|PDB:3ONR"
FT HELIX 17..31
FT /evidence="ECO:0007829|PDB:3ONR"
FT STRAND 37..47
FT /evidence="ECO:0007829|PDB:3ONR"
FT STRAND 53..64
FT /evidence="ECO:0007829|PDB:3ONR"
SQ SEQUENCE 71 AA; 7966 MW; 49526FDBCA9C3826 CRC64;
MSVYKVIDII GTSPTSWEQA AAEAVQRARD SVDDIRVARV IEQDMAVDSA GKITYRIKLE
VSFKMRPAQP R
