Detailed information
Bioinformatically predicted
Overview
| Name | radA | Type | Machinery gene |
| Locus tag | HCR03_RS02625 | Genome accession | NZ_CP060286 |
| Coordinates | 540950..542323 (+) | Length | 457 a.a. |
| NCBI ID | WP_066644223.1 | Uniprot ID | A0A6N8I5A1 |
| Organism | Caproicibacter fermentans strain 7D4C2 | ||
| Function | homologous recombination (predicted from homology) Homologous recombination |
||
Related MGE
Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.
Gene-MGE association summary
| MGE type | MGE coordinates | Gene coordinates | Relative position | Distance (bp) |
|---|---|---|---|---|
| Genomic island | 505002..568168 | 540950..542323 | within | 0 |
Gene organization within MGE regions
Location: 505002..568168
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HCR03_RS20000 | - | 505826..506062 (-) | 237 | WP_267459208.1 | transposase | - |
| HCR03_RS02450 (HCR03_02450) | - | 506109..507026 (-) | 918 | WP_267459209.1 | ISL3 family transposase | - |
| HCR03_RS02455 (HCR03_02455) | - | 507168..507665 (-) | 498 | WP_187036523.1 | helix-turn-helix domain-containing protein | - |
| HCR03_RS02460 (HCR03_02460) | - | 507963..508175 (+) | 213 | WP_228725070.1 | DNA-binding protein | - |
| HCR03_RS02465 (HCR03_02465) | - | 508162..509265 (+) | 1104 | WP_187036525.1 | site-specific integrase | - |
| HCR03_RS02470 (HCR03_02470) | - | 509246..509566 (+) | 321 | WP_187036527.1 | plasmid mobilization protein | - |
| HCR03_RS02475 (HCR03_02475) | - | 509568..510717 (+) | 1150 | Protein_498 | helicase RepA family protein | - |
| HCR03_RS02480 (HCR03_02480) | - | 511099..511428 (+) | 330 | WP_187036529.1 | plasmid mobilization protein | - |
| HCR03_RS02485 (HCR03_02485) | ccpM | 511727..513175 (+) | 1449 | WP_187036531.1 | Cys-rich peptide radical SAM maturase CcpM | - |
| HCR03_RS02490 (HCR03_02490) | - | 513172..514278 (+) | 1107 | WP_187036534.1 | hypothetical protein | - |
| HCR03_RS02495 (HCR03_02495) | - | 514303..514569 (+) | 267 | WP_187036536.1 | hypothetical protein | - |
| HCR03_RS02500 (HCR03_02500) | - | 515016..516845 (+) | 1830 | WP_187036538.1 | ABC transporter permease | - |
| HCR03_RS02505 (HCR03_02505) | - | 516870..517538 (+) | 669 | WP_187036540.1 | ABC transporter ATP-binding protein | - |
| HCR03_RS02510 (HCR03_02510) | - | 517535..519361 (+) | 1827 | WP_187036543.1 | ABC transporter ATP-binding protein | - |
| HCR03_RS02515 (HCR03_02515) | - | 519375..520817 (+) | 1443 | WP_187036545.1 | S8 family serine peptidase | - |
| HCR03_RS02520 (HCR03_02520) | - | 520852..522150 (+) | 1299 | WP_187036547.1 | hypothetical protein | - |
| HCR03_RS02525 (HCR03_02525) | istA | 522374..523589 (+) | 1216 | Protein_508 | IS21 family transposase | - |
| HCR03_RS02530 (HCR03_02530) | istB | 523591..524364 (+) | 774 | WP_407926851.1 | IS21-like element helper ATPase IstB | - |
| HCR03_RS02535 (HCR03_02535) | - | 525026..526459 (-) | 1434 | WP_066650441.1 | YfcC family protein | - |
| HCR03_RS02540 (HCR03_02540) | - | 526608..526934 (-) | 327 | WP_187036549.1 | hypothetical protein | - |
| HCR03_RS02545 (HCR03_02545) | - | 527284..528018 (+) | 735 | WP_187036551.1 | GntR family transcriptional regulator | - |
| HCR03_RS02550 (HCR03_02550) | - | 528181..529734 (+) | 1554 | WP_207708888.1 | amidohydrolase | - |
| HCR03_RS02555 (HCR03_02555) | - | 529794..530630 (+) | 837 | WP_066650437.1 | sugar phosphate isomerase/epimerase | - |
| HCR03_RS02560 (HCR03_02560) | - | 530646..531488 (+) | 843 | WP_187036554.1 | sugar phosphate isomerase/epimerase | - |
| HCR03_RS02565 (HCR03_02565) | - | 531521..532489 (+) | 969 | WP_187036555.1 | SIS domain-containing protein | - |
| HCR03_RS02570 (HCR03_02570) | - | 532517..533383 (+) | 867 | WP_187036557.1 | PfkB family carbohydrate kinase | - |
| HCR03_RS02575 (HCR03_02575) | frlD | 533403..534203 (+) | 801 | WP_187036559.1 | fructoselysine 6-kinase | - |
| HCR03_RS02580 (HCR03_02580) | - | 534240..535133 (+) | 894 | WP_187036561.1 | amidohydrolase family protein | - |
| HCR03_RS02585 (HCR03_02585) | - | 535099..535527 (+) | 429 | WP_187036563.1 | secondary thiamine-phosphate synthase enzyme YjbQ | - |
| HCR03_RS02590 (HCR03_02590) | eda | 535637..536272 (-) | 636 | WP_187036566.1 | bifunctional 4-hydroxy-2-oxoglutarate aldolase/2-dehydro-3-deoxy-phosphogluconate aldolase | - |
| HCR03_RS02595 (HCR03_02595) | - | 536290..537243 (-) | 954 | WP_187036567.1 | sugar kinase | - |
| HCR03_RS02600 (HCR03_02600) | - | 537270..538070 (-) | 801 | WP_187036569.1 | gluconate 5-dehydrogenase | - |
| HCR03_RS02605 (HCR03_02605) | kduI | 538107..538950 (-) | 844 | Protein_524 | 5-dehydro-4-deoxy-D-glucuronate isomerase | - |
| HCR03_RS02610 (HCR03_02610) | - | 538987..539355 (-) | 369 | WP_066650415.1 | hypothetical protein | - |
| HCR03_RS20445 (HCR03_02615) | - | 539370..539630 (-) | 261 | WP_407926829.1 | TRAP transporter large permease subunit | - |
| HCR03_RS02620 (HCR03_02620) | - | 540134..540889 (+) | 756 | WP_066644224.1 | N-acetylmuramoyl-L-alanine amidase | - |
| HCR03_RS02625 (HCR03_02625) | radA | 540950..542323 (+) | 1374 | WP_066644223.1 | DNA repair protein RadA | Machinery gene |
| HCR03_RS02630 (HCR03_02630) | - | 542586..543539 (+) | 954 | WP_187036570.1 | efflux RND transporter periplasmic adaptor subunit | - |
| HCR03_RS02635 (HCR03_02635) | - | 543536..544720 (+) | 1185 | WP_187036571.1 | ABC transporter permease | - |
| HCR03_RS02640 (HCR03_02640) | - | 544723..545469 (+) | 747 | WP_187036572.1 | DUF6873 family GME fold protein | - |
| HCR03_RS02645 (HCR03_02645) | - | 545600..546607 (+) | 1008 | WP_066644219.1 | tyrosine recombinase XerC | - |
| HCR03_RS02650 (HCR03_02650) | - | 546651..547277 (-) | 627 | WP_267459210.1 | DUF624 domain-containing protein | - |
| HCR03_RS02655 (HCR03_02655) | - | 547466..548359 (-) | 894 | WP_066644217.1 | tyrosine recombinase | - |
| HCR03_RS02660 (HCR03_02660) | - | 548383..549027 (-) | 645 | WP_228725072.1 | stage II sporulation protein M | - |
| HCR03_RS02665 (HCR03_02665) | proC | 549091..549900 (-) | 810 | WP_187036574.1 | pyrroline-5-carboxylate reductase | - |
| HCR03_RS02670 (HCR03_02670) | scfB | 550054..551424 (-) | 1371 | WP_066644215.1 | thioether cross-link-forming SCIFF peptide maturase | - |
| HCR03_RS02675 (HCR03_02675) | scfA | 551507..551653 (-) | 147 | WP_066644214.1 | six-cysteine ranthipeptide SCIFF | - |
| HCR03_RS02680 (HCR03_02680) | - | 551729..552130 (-) | 402 | WP_066644213.1 | TIGR04086 family membrane protein | - |
| HCR03_RS02685 (HCR03_02685) | yajC | 552221..552544 (-) | 324 | WP_066644212.1 | preprotein translocase subunit YajC | - |
| HCR03_RS02690 (HCR03_02690) | tgt | 552612..553742 (-) | 1131 | WP_156991423.1 | tRNA guanosine(34) transglycosylase Tgt | - |
| HCR03_RS02695 (HCR03_02695) | queA | 553766..554812 (-) | 1047 | WP_187036576.1 | tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA | - |
| HCR03_RS02700 (HCR03_02700) | asd | 555223..556302 (+) | 1080 | WP_066644210.1 | aspartate-semialdehyde dehydrogenase | - |
| HCR03_RS02705 (HCR03_02705) | dapA | 556332..557222 (+) | 891 | WP_066644257.1 | 4-hydroxy-tetrahydrodipicolinate synthase | - |
| HCR03_RS02710 (HCR03_02710) | dapB | 557261..558025 (+) | 765 | WP_066644209.1 | 4-hydroxy-tetrahydrodipicolinate reductase | - |
| HCR03_RS02715 (HCR03_02715) | - | 558028..558489 (+) | 462 | WP_066644208.1 | ACT domain-containing protein | - |
| HCR03_RS02720 (HCR03_02720) | rlmH | 558542..559006 (-) | 465 | WP_330601100.1 | 23S rRNA (pseudouridine(1915)-N(3))-methyltransferase RlmH | - |
| HCR03_RS02725 (HCR03_02725) | - | 559079..559816 (-) | 738 | WP_228725073.1 | MBL fold metallo-hydrolase | - |
| HCR03_RS02730 (HCR03_02730) | - | 559898..561181 (-) | 1284 | WP_066644205.1 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | - |
| HCR03_RS02735 (HCR03_02735) | - | 561441..562934 (-) | 1494 | WP_228725074.1 | peptidoglycan DD-metalloendopeptidase family protein | - |
| HCR03_RS02740 (HCR03_02740) | - | 563267..563725 (-) | 459 | WP_066644204.1 | S-ribosylhomocysteine lyase | - |
| HCR03_RS02745 (HCR03_02745) | - | 563737..564612 (-) | 876 | WP_187036582.1 | zinc dependent phospholipase C family protein | - |
| HCR03_RS02750 (HCR03_02750) | - | 564703..565437 (-) | 735 | WP_187036584.1 | amino acid ABC transporter ATP-binding protein | - |
| HCR03_RS02755 (HCR03_02755) | - | 565424..566122 (-) | 699 | WP_407926852.1 | amino acid ABC transporter permease | - |
| HCR03_RS02760 (HCR03_02760) | - | 566296..567156 (-) | 861 | WP_187036588.1 | transporter substrate-binding domain-containing protein | - |
| HCR03_RS02765 (HCR03_02765) | - | 567257..568168 (-) | 912 | WP_187036591.1 | RluA family pseudouridine synthase | - |
Sequence
Protein
Download Length: 457 a.a. Molecular weight: 49737.28 Da Isoelectric Point: 6.8035
>NTDB_id=475307 HCR03_RS02625 WP_066644223.1 540950..542323(+) (radA) [Caproicibacter fermentans strain 7D4C2]
MGGKIKSVYVCSECGLESPKWYGKCPGCGQWNTMTEEVVQPVTKKAVGQSGLRRSLPQAVALCALSASEEERYHTGMSEL
DRVLGGGIVKGSLILVGGEPGIGKSTILLQICQYLGQSLKILYVSGEESGRQIKLRAERLGVTCENLYILTETDIQAIIE
QVREQKPDLVMIDSIQTMNFTDLNSSPGSVTQVRECTNAIMRAAKTLEIPVIIVGHVNKDGAIAGPKVLEHIVDAVLYFE
GDRQMSYRMLRAIKNRYGSTNEIGVFEMEEDGLHPVDNPSKAMLSGRPSHVSGTCVTCVMEGSRPILAEIQGLATTSGYG
TPRRMATGFDYNRMSLLLAVLEKRAGYYFSNLDAYVNVVGGLRLDEPACDLAVALALVSSLKNKPLNDSAIVFGEIGLAG
ELRSVTHSDARISEAKRLGFESCILPYHSLNRIRNKWSGIQLIGVKNVREAFEAAIE
MGGKIKSVYVCSECGLESPKWYGKCPGCGQWNTMTEEVVQPVTKKAVGQSGLRRSLPQAVALCALSASEEERYHTGMSEL
DRVLGGGIVKGSLILVGGEPGIGKSTILLQICQYLGQSLKILYVSGEESGRQIKLRAERLGVTCENLYILTETDIQAIIE
QVREQKPDLVMIDSIQTMNFTDLNSSPGSVTQVRECTNAIMRAAKTLEIPVIIVGHVNKDGAIAGPKVLEHIVDAVLYFE
GDRQMSYRMLRAIKNRYGSTNEIGVFEMEEDGLHPVDNPSKAMLSGRPSHVSGTCVTCVMEGSRPILAEIQGLATTSGYG
TPRRMATGFDYNRMSLLLAVLEKRAGYYFSNLDAYVNVVGGLRLDEPACDLAVALALVSSLKNKPLNDSAIVFGEIGLAG
ELRSVTHSDARISEAKRLGFESCILPYHSLNRIRNKWSGIQLIGVKNVREAFEAAIE
Nucleotide
Download Length: 1374 bp
>NTDB_id=475307 HCR03_RS02625 WP_066644223.1 540950..542323(+) (radA) [Caproicibacter fermentans strain 7D4C2]
ATGGGCGGAAAAATCAAGAGTGTTTATGTTTGCTCGGAATGTGGTTTGGAATCTCCCAAATGGTACGGAAAATGTCCCGG
CTGCGGCCAATGGAATACAATGACCGAAGAGGTAGTGCAGCCCGTTACGAAAAAAGCGGTCGGTCAGAGCGGATTAAGGA
GATCCCTTCCTCAGGCAGTCGCTCTTTGCGCGCTTTCCGCATCCGAAGAAGAAAGGTATCATACGGGAATGAGTGAACTG
GACCGTGTGCTGGGGGGCGGAATCGTAAAGGGTTCGCTGATTCTAGTCGGCGGGGAACCGGGTATCGGGAAATCAACCAT
TCTTCTTCAAATTTGTCAGTATTTGGGGCAATCCCTGAAAATTCTTTATGTTTCAGGAGAAGAATCAGGGCGTCAGATCA
AACTCCGCGCGGAACGGCTTGGGGTTACCTGTGAAAATCTTTACATATTGACCGAAACGGACATTCAGGCGATTATAGAA
CAGGTCCGTGAACAAAAACCGGACCTTGTCATGATCGATTCGATTCAAACAATGAATTTTACGGATTTAAATTCTTCCCC
GGGAAGCGTAACACAGGTAAGAGAATGTACGAATGCAATTATGCGTGCGGCCAAAACACTGGAAATTCCGGTTATCATTG
TCGGTCACGTCAACAAAGACGGAGCCATCGCGGGGCCTAAGGTTCTGGAGCATATTGTCGACGCGGTTCTTTACTTTGAG
GGTGATCGGCAAATGTCATACAGAATGCTTCGGGCGATTAAAAACCGTTACGGCTCCACAAATGAAATCGGTGTCTTCGA
GATGGAGGAAGACGGGCTCCACCCGGTGGACAACCCGTCAAAAGCAATGCTGTCAGGCCGGCCTAGTCATGTTTCCGGCA
CCTGTGTCACCTGCGTGATGGAAGGGTCGCGGCCGATCTTAGCTGAAATTCAGGGATTAGCGACAACTTCCGGTTATGGA
ACCCCCCGCCGTATGGCTACCGGCTTTGACTATAACCGAATGTCTCTCCTGCTTGCAGTCCTTGAAAAACGGGCCGGATA
CTATTTTTCGAATCTTGACGCTTATGTAAACGTCGTGGGAGGATTAAGATTGGATGAACCGGCCTGCGATCTTGCAGTCG
CGCTTGCTCTTGTTTCAAGCCTGAAAAATAAGCCGCTCAACGATTCCGCAATCGTATTCGGCGAAATTGGACTTGCGGGC
GAATTACGTTCCGTTACGCATAGCGACGCCCGCATCAGTGAAGCAAAACGCCTGGGATTTGAATCCTGCATTCTTCCATA
TCACAGTCTGAACAGAATCCGTAACAAATGGAGCGGAATCCAGCTGATTGGCGTCAAAAATGTGAGGGAGGCGTTTGAGG
CCGCGATTGAATGA
ATGGGCGGAAAAATCAAGAGTGTTTATGTTTGCTCGGAATGTGGTTTGGAATCTCCCAAATGGTACGGAAAATGTCCCGG
CTGCGGCCAATGGAATACAATGACCGAAGAGGTAGTGCAGCCCGTTACGAAAAAAGCGGTCGGTCAGAGCGGATTAAGGA
GATCCCTTCCTCAGGCAGTCGCTCTTTGCGCGCTTTCCGCATCCGAAGAAGAAAGGTATCATACGGGAATGAGTGAACTG
GACCGTGTGCTGGGGGGCGGAATCGTAAAGGGTTCGCTGATTCTAGTCGGCGGGGAACCGGGTATCGGGAAATCAACCAT
TCTTCTTCAAATTTGTCAGTATTTGGGGCAATCCCTGAAAATTCTTTATGTTTCAGGAGAAGAATCAGGGCGTCAGATCA
AACTCCGCGCGGAACGGCTTGGGGTTACCTGTGAAAATCTTTACATATTGACCGAAACGGACATTCAGGCGATTATAGAA
CAGGTCCGTGAACAAAAACCGGACCTTGTCATGATCGATTCGATTCAAACAATGAATTTTACGGATTTAAATTCTTCCCC
GGGAAGCGTAACACAGGTAAGAGAATGTACGAATGCAATTATGCGTGCGGCCAAAACACTGGAAATTCCGGTTATCATTG
TCGGTCACGTCAACAAAGACGGAGCCATCGCGGGGCCTAAGGTTCTGGAGCATATTGTCGACGCGGTTCTTTACTTTGAG
GGTGATCGGCAAATGTCATACAGAATGCTTCGGGCGATTAAAAACCGTTACGGCTCCACAAATGAAATCGGTGTCTTCGA
GATGGAGGAAGACGGGCTCCACCCGGTGGACAACCCGTCAAAAGCAATGCTGTCAGGCCGGCCTAGTCATGTTTCCGGCA
CCTGTGTCACCTGCGTGATGGAAGGGTCGCGGCCGATCTTAGCTGAAATTCAGGGATTAGCGACAACTTCCGGTTATGGA
ACCCCCCGCCGTATGGCTACCGGCTTTGACTATAACCGAATGTCTCTCCTGCTTGCAGTCCTTGAAAAACGGGCCGGATA
CTATTTTTCGAATCTTGACGCTTATGTAAACGTCGTGGGAGGATTAAGATTGGATGAACCGGCCTGCGATCTTGCAGTCG
CGCTTGCTCTTGTTTCAAGCCTGAAAAATAAGCCGCTCAACGATTCCGCAATCGTATTCGGCGAAATTGGACTTGCGGGC
GAATTACGTTCCGTTACGCATAGCGACGCCCGCATCAGTGAAGCAAAACGCCTGGGATTTGAATCCTGCATTCTTCCATA
TCACAGTCTGAACAGAATCCGTAACAAATGGAGCGGAATCCAGCTGATTGGCGTCAAAAATGTGAGGGAGGCGTTTGAGG
CCGCGATTGAATGA
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| radA | Bacillus subtilis subsp. subtilis str. 168 |
51.316 |
99.781 |
0.512 |
| radA | Streptococcus mitis SK321 |
48.78 |
98.687 |
0.481 |
| radA | Streptococcus mitis NCTC 12261 |
48.78 |
98.687 |
0.481 |
| radA | Streptococcus pneumoniae Rx1 |
48.78 |
98.687 |
0.481 |
| radA | Streptococcus pneumoniae D39 |
48.78 |
98.687 |
0.481 |
| radA | Streptococcus pneumoniae R6 |
48.78 |
98.687 |
0.481 |
| radA | Streptococcus pneumoniae TIGR4 |
48.78 |
98.687 |
0.481 |