LOCUS       SIU02573.1               196 aa    PRT              BCT 25-MAY-2020
DEFINITION  Mycobacterium tuberculosis variant bovis AF2122/97 POSSIBLE
            ALTERNATIVE RNA POLYMERASE SIGMA FACTOR SIGMa [FIRST PART]
            protein.
ACCESSION   LT708304-3987
PROTEIN_ID  SIU02573.1
SOURCE      Mycobacterium tuberculosis variant bovis AF2122/97
  ORGANISM  Mycobacterium tuberculosis variant bovis AF2122/97
            Bacteria; Actinobacteria; Corynebacteriales; Mycobacteriaceae;
            Mycobacterium; Mycobacterium tuberculosis complex.
REFERENCE   1
  AUTHORS   Malone K.M.
  JOURNAL   Submitted (06-DEC-2016) to the INSDC. School of Veterinary
            Medicine, Tuberculosis Molecular Microbiology Research Group,
            University College Dublin, Tuberculosis Molecular Microbiology
            Research Group, School of Veterinary Medicine, University College
            Dublin, D4, Ireland
REFERENCE   2
  AUTHORS   Malone M K., Farrell D., Malone K.
  JOURNAL   Submitted (15-APR-2020) to the INSDC. School of Veterinary
            Medicine, Tuberculosis Molecular Microbiology Research Group,
            University College Dublin, Tuberculosis Molecular Microbiology
            Research Group, School of Veterinary Medicine,, University College
            Dublin, D4, Ireland
FEATURES             Qualifiers
     source          /organism="Mycobacterium tuberculosis variant bovis
                     AF2122/97"
                     /chromosome="Mycobacterium_bovis_AF212297"
                     /isolate="AF2122/97"
                     /mol_type="genomic DNA"
                     /isolation_source="Mycobacterium bovis subsp. bovis strain
                     AF2122/97. This strain is a fully virulent strain that was
                     isolated in 1997 in the UK from a cow suffering necrotic
                     lesions in lung and bronchomediastinal lymph nodes. The
                     strain was also reported to infect and persist in badgers
                     that are considered to be a significant source of bovine
                     infection."
                     /db_xref="taxon:233413"
     protein         /transl_table=11
                     /gene="sigMa"
                     /locus_tag="BQ2027_MB3941"
                     /note="Mb3941, sigMa, len: 196 aa. Similar to Rv3911, len:
                     222 aa, from Mycobacterium tuberculosis strain H37Rv,
                     (95.8% identity in 168 aa overlap). Possible sigM,
                     alternative RNA polymerase sigma factor (see citation
                     below), highly similar to others e.g. Q9S6U3|SCH24.14c
                     (alias O86856|SIGT) PUTATIVE RNA POLYMERASE SIGMA FACTOR
                     from Streptomyces coelicolor (236 aa), FASTA scores: opt:
                     336, E(): 2.8e-13, (41.5% identity in 212 aa overlap);
                     Q98KG8|MLR1481 PROBABLE RNA POLYMERASE SIGMA SUBUNIT from
                     Rhizobium loti (Mesorhizobium loti) (307 aa), FASTA
                     scores: opt: 221, E(): 2.9e-06, (32.95% identity in 179 aa
                     overlap); Q9A4S9|CC2751 PUTATIVE RNA POLYMERASE SIGMA
                     FACTOR from Caulobacter crescentus (186 aa), FASTA scores:
                     opt: 217, E(): 3.3e-06, (36.95% identity in 138 aa
                     overlap); etc. Also similarity with other mycobacterial
                     factors e.g. O06289|SIGE|Rv1221|MTCI61.04 PUTATIVE RNA
                     POLYMERASE SIGMA FACTOR from Mycobacterium tuberculosis
                     (257 aa), FASTA scores: opt: 193, E(): 0.00012, (33.15%
                     identity in 163 aa overlap); and O05735|SIGE PUTATIVE RNA
                     POLYMERASE SIGMA FACTOR from Mycobacterium avium (251 aa),
                     FASTA scores: opt: 192, E(): 0.00014, (33.15% identity in
                     163 aa overlap). Equivalent to AAK48395|MT4030 RNA
                     POLYMERASE SIGMA-70 FACTOR from Mycobacterium tuberculosis
                     strain CDC1551 (196 aa) but without similarity at the
                     C-terminal end. BELONGS TO THE SIGMA-70 FACTOR FAMILY, ECF
                     SUBFAMILY. REMARK-M.bovis-M.tuberculosis: In Mycobacterium
                     tuberculosis, sigM exists as a single gene. In
                     Mycobacterium bovis, a frameshift due to a 2bp to 1bp
                     substitution (cg-t) splits sigM into 2 parts, sigMa and
                     sigMb. Mb3941 found to be expressed during exponential
                     growth in Sauton's minimal media by RNA-sequencing (TPM >
                     20)."
                     /db_xref="GOA:A0A1R3Y5L7"
                     /db_xref="InterPro:IPR007627"
                     /db_xref="InterPro:IPR013249"
                     /db_xref="InterPro:IPR013324"
                     /db_xref="InterPro:IPR013325"
                     /db_xref="InterPro:IPR014284"
                     /db_xref="InterPro:IPR036388"
                     /db_xref="InterPro:IPR039425"
                     /db_xref="UniProtKB/TrEMBL:A0A1R3Y5L7"
BEGIN
        1 MPPPIGYCPA VGFGGRHERS DAELLAAHVA GDRYAFDQLF RRHHRQLHRL ARLTSRTSED
       61 ADDALQDAML SAHRGAGSFR YDAAVSSWLH RIVVNACLDR LRRAKAHPTA PLEDVYPVAD
      121 RTAQVETAIA VQRALMRLPV EQRAAVVAVD MQGYSIADTS RMLGVAEGTV KSRCARARAR
      181 LARLLGYLNT GVNIRR
//