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 //