Detailed information
Bioinformatically predicted
Overview
| Name | sbcB | Type | Machinery gene |
| Locus tag | HPY12_RS08440 | Genome accession | NZ_CP053794 |
| Coordinates | 1846184..1847608 (+) | Length | 474 a.a. |
| NCBI ID | WP_057568755.1 | Uniprot ID | - |
| Organism | Vibrio cholerae strain W10G | ||
| Function | promote 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) |
|---|---|---|---|---|
| Prophage | 1809075..1850770 | 1846184..1847608 | within | 0 |
Gene organization within MGE regions
Location: 1809075..1850770
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HPY12_RS08195 (HPY12_08220) | - | 1809075..1810331 (-) | 1257 | WP_175234184.1 | Y-family DNA polymerase | - |
| HPY12_RS08200 (HPY12_08225) | - | 1810331..1810738 (-) | 408 | WP_175234239.1 | LexA family transcriptional regulator | - |
| HPY12_RS08205 (HPY12_08230) | - | 1810811..1811026 (-) | 216 | WP_002051960.1 | hypothetical protein | - |
| HPY12_RS08210 (HPY12_08235) | - | 1811217..1811543 (+) | 327 | WP_260608762.1 | helix-turn-helix domain-containing protein | - |
| HPY12_RS08215 (HPY12_08240) | - | 1811644..1812186 (+) | 543 | WP_148522416.1 | WYL domain-containing protein | - |
| HPY12_RS08220 (HPY12_08245) | - | 1812175..1813185 (-) | 1011 | WP_175234186.1 | contractile injection system protein, VgrG/Pvc8 family | - |
| HPY12_RS08225 (HPY12_08250) | - | 1813176..1813382 (-) | 207 | WP_113598373.1 | tail protein X | - |
| HPY12_RS08230 (HPY12_08255) | - | 1813366..1813761 (-) | 396 | WP_000179074.1 | phage tail protein | - |
| HPY12_RS08235 (HPY12_08260) | - | 1813761..1815542 (-) | 1782 | WP_175234188.1 | phage tail protein | - |
| HPY12_RS08240 (HPY12_08265) | - | 1815646..1815948 (-) | 303 | WP_114774472.1 | phage tail assembly protein | - |
| HPY12_RS08245 (HPY12_08270) | - | 1816000..1816515 (-) | 516 | WP_175234190.1 | phage major tail tube protein | - |
| HPY12_RS08250 (HPY12_08275) | - | 1816515..1817981 (-) | 1467 | WP_175234192.1 | phage tail sheath C-terminal domain-containing protein | - |
| HPY12_RS08255 (HPY12_08280) | - | 1818069..1818593 (-) | 525 | WP_175234194.1 | phage tail protein | - |
| HPY12_RS08260 (HPY12_08285) | - | 1818593..1819864 (-) | 1272 | WP_175234196.1 | hypothetical protein | - |
| HPY12_RS08265 (HPY12_08290) | - | 1819836..1820393 (-) | 558 | WP_175234197.1 | phage tail protein I | - |
| HPY12_RS08270 (HPY12_08295) | - | 1820393..1821271 (-) | 879 | WP_053033977.1 | baseplate J/gp47 family protein | - |
| HPY12_RS08275 (HPY12_08300) | - | 1821268..1821609 (-) | 342 | WP_175234199.1 | GPW/gp25 family protein | - |
| HPY12_RS08280 (HPY12_08305) | - | 1821611..1822258 (-) | 648 | WP_172781732.1 | phage baseplate assembly protein V | - |
| HPY12_RS08285 (HPY12_08310) | - | 1822255..1822779 (-) | 525 | WP_033935876.1 | hypothetical protein | - |
| HPY12_RS08290 (HPY12_08315) | - | 1822772..1823377 (-) | 606 | WP_053033973.1 | phage tail protein | - |
| HPY12_RS08295 (HPY12_08320) | - | 1823340..1823690 (-) | 351 | WP_088127476.1 | head-tail joining protein | - |
| HPY12_RS08300 (HPY12_08325) | - | 1823683..1823979 (-) | 297 | WP_175234201.1 | hypothetical protein | - |
| HPY12_RS08305 (HPY12_08330) | - | 1824032..1826011 (-) | 1980 | WP_002051907.1 | phage major capsid protein | - |
| HPY12_RS08310 (HPY12_08335) | - | 1825968..1827536 (-) | 1569 | WP_175234203.1 | phage portal protein | - |
| HPY12_RS08315 (HPY12_08340) | - | 1827536..1828063 (-) | 528 | WP_000236573.1 | hypothetical protein | - |
| HPY12_RS08320 (HPY12_08345) | - | 1828057..1830060 (-) | 2004 | WP_254701582.1 | terminase gpA endonuclease subunit | - |
| HPY12_RS08325 (HPY12_08350) | - | 1830014..1830583 (-) | 570 | WP_113609152.1 | terminase small subunit | - |
| HPY12_RS08330 (HPY12_08355) | - | 1831028..1832257 (-) | 1230 | WP_095467472.1 | tyrosine-type recombinase/integrase | - |
| HPY12_RS08335 (HPY12_08360) | - | 1832717..1832965 (-) | 249 | WP_175234204.1 | hypothetical protein | - |
| HPY12_RS08340 (HPY12_08365) | - | 1833071..1833385 (-) | 315 | WP_057568767.1 | hypothetical protein | - |
| HPY12_RS08345 (HPY12_08370) | - | 1833424..1833912 (-) | 489 | WP_175234206.1 | hypothetical protein | - |
| HPY12_RS08350 (HPY12_08375) | - | 1833890..1834180 (-) | 291 | WP_002051883.1 | hypothetical protein | - |
| HPY12_RS08355 (HPY12_08380) | - | 1834365..1834946 (-) | 582 | WP_053033962.1 | hypothetical protein | - |
| HPY12_RS08360 (HPY12_08385) | - | 1834948..1835580 (-) | 633 | WP_053033960.1 | DNA N-6-adenine-methyltransferase | - |
| HPY12_RS08365 (HPY12_08390) | - | 1835580..1836311 (-) | 732 | WP_254307591.1 | ATP-binding protein | - |
| HPY12_RS08370 (HPY12_08395) | - | 1836308..1837093 (-) | 786 | WP_254701583.1 | helix-turn-helix domain-containing protein | - |
| HPY12_RS08375 (HPY12_08400) | - | 1837282..1837827 (-) | 546 | WP_053033958.1 | hypothetical protein | - |
| HPY12_RS08380 (HPY12_08405) | - | 1837867..1838121 (-) | 255 | WP_032468855.1 | hypothetical protein | - |
| HPY12_RS08385 (HPY12_08410) | - | 1838223..1838921 (+) | 699 | WP_002051862.1 | LexA family transcriptional regulator | - |
| HPY12_RS08390 (HPY12_08415) | - | 1839311..1839559 (+) | 249 | WP_254701584.1 | hypothetical protein | - |
| HPY12_RS08395 (HPY12_08420) | - | 1839566..1839943 (+) | 378 | WP_053033957.1 | hypothetical protein | - |
| HPY12_RS08400 (HPY12_08425) | - | 1840007..1840240 (+) | 234 | WP_053033956.1 | hypothetical protein | - |
| HPY12_RS08405 (HPY12_08430) | - | 1840244..1840978 (+) | 735 | WP_175234208.1 | hypothetical protein | - |
| HPY12_RS08410 (HPY12_08435) | yejK | 1841016..1842017 (+) | 1002 | WP_175234210.1 | nucleoid-associated protein YejK | - |
| HPY12_RS08415 (HPY12_08440) | - | 1842027..1842413 (+) | 387 | WP_175234212.1 | hypothetical protein | - |
| HPY12_RS08420 (HPY12_08445) | - | 1842467..1844086 (+) | 1620 | WP_175234214.1 | DNA sulfur modification protein DndB | - |
| HPY12_RS08425 (HPY12_08450) | - | 1844121..1844381 (+) | 261 | WP_172896263.1 | hypothetical protein | - |
| HPY12_RS08430 (HPY12_08455) | - | 1844516..1844812 (+) | 297 | WP_002051850.1 | AlpA family transcriptional regulator | - |
| HPY12_RS08435 (HPY12_08460) | - | 1844809..1846002 (-) | 1194 | WP_175234216.1 | site-specific integrase | - |
| HPY12_RS08440 (HPY12_08465) | sbcB | 1846184..1847608 (+) | 1425 | WP_057568755.1 | exodeoxyribonuclease I | Machinery gene |
| HPY12_RS08445 (HPY12_08470) | - | 1847640..1848014 (+) | 375 | WP_001881007.1 | CidA/LrgA family protein | - |
| HPY12_RS08450 (HPY12_08475) | - | 1848005..1848679 (+) | 675 | WP_000266242.1 | LrgB family protein | - |
| HPY12_RS08455 (HPY12_08480) | cdd | 1848849..1849736 (+) | 888 | WP_001245905.1 | cytidine deaminase | - |
| HPY12_RS08460 (HPY12_08485) | - | 1849895..1850770 (+) | 876 | WP_000462871.1 | AEC family transporter | - |
Sequence
Protein
Download Length: 474 a.a. Molecular weight: 54466.79 Da Isoelectric Point: 5.9006
>NTDB_id=447324 HPY12_RS08440 WP_057568755.1 1846184..1847608(+) (sbcB) [Vibrio cholerae strain W10G]
MKNDEQPSFFFFDYETWGVNPAKDRPSQFAGVRTDMDFNIIGEPLVIYCQLPNDYLPAPEAALITGITPQKANSQGLAEP
EFIARIHAELSTPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQHGNSRWDLLDVLRACHALRPEGIEWPENDDGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIELAKKVKAAQPKLFDYFFTMRHKRKLTELIDIVNQTPLMHVSGMLGRERHY
TSWIVPIAWHPTNQNAVIVVDLGKDPQPLLELDAETLQARLYTRYEDLAPDELPVPVKLVHLNKCPILAPAKTLTSENAQ
KIGIDREQCLAHLNVIRQHPEIREKLVTVFSQEREFNQESDVDSQLYAGFFSPADRAAMEIIRTTAPENLGSLAIQVADK
RIEPLLFRYRARHYPHTLTDAEQRRWAAHCRDYFERNLEGYMLNLENLVHEHQADPKKMAILKSVYHYVEKLAC
MKNDEQPSFFFFDYETWGVNPAKDRPSQFAGVRTDMDFNIIGEPLVIYCQLPNDYLPAPEAALITGITPQKANSQGLAEP
EFIARIHAELSTPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQHGNSRWDLLDVLRACHALRPEGIEWPENDDGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIELAKKVKAAQPKLFDYFFTMRHKRKLTELIDIVNQTPLMHVSGMLGRERHY
TSWIVPIAWHPTNQNAVIVVDLGKDPQPLLELDAETLQARLYTRYEDLAPDELPVPVKLVHLNKCPILAPAKTLTSENAQ
KIGIDREQCLAHLNVIRQHPEIREKLVTVFSQEREFNQESDVDSQLYAGFFSPADRAAMEIIRTTAPENLGSLAIQVADK
RIEPLLFRYRARHYPHTLTDAEQRRWAAHCRDYFERNLEGYMLNLENLVHEHQADPKKMAILKSVYHYVEKLAC
Nucleotide
Download Length: 1425 bp
>NTDB_id=447324 HPY12_RS08440 WP_057568755.1 1846184..1847608(+) (sbcB) [Vibrio cholerae strain W10G]
ATGAAAAATGATGAACAGCCGTCATTCTTCTTTTTCGACTACGAGACTTGGGGGGTCAATCCCGCCAAAGATCGTCCTAG
TCAGTTTGCGGGTGTGCGTACCGATATGGACTTCAACATCATCGGCGAGCCTTTGGTAATTTACTGTCAGCTGCCCAACG
ACTATTTACCTGCTCCTGAAGCCGCATTGATCACAGGGATCACTCCTCAAAAAGCCAATAGCCAAGGTCTCGCGGAGCCC
GAATTTATCGCGCGTATTCATGCTGAGCTATCCACACCAAACACCACTAGCCTTGGCTATAACAGCATACGTTTTGATGA
TGAAGTGACGCGCTACACCTGCTATCGCAACTTTATCGACCCCTATGCTTGGAGCTGGCAACACGGCAATTCCCGTTGGG
ATCTGCTGGATGTGCTTCGCGCGTGTCATGCTTTGCGTCCTGAAGGTATTGAGTGGCCGGAAAATGATGACGGCTTTACC
AGCTTTAAACTGGAACATCTTTCTGTTGCCAACGGCATTGAGCACAGCAACGCGCACGATGCGATGGCCGATGTGATTGC
CACCATTGAACTGGCGAAAAAAGTCAAAGCCGCGCAGCCGAAATTGTTCGACTACTTCTTCACTATGCGCCACAAACGCA
AACTGACAGAACTGATTGATATTGTGAACCAAACTCCGCTGATGCATGTTTCTGGCATGCTTGGGCGTGAGCGCCACTAC
ACCAGCTGGATTGTGCCGATTGCTTGGCATCCGACCAATCAAAATGCGGTGATTGTGGTGGATTTGGGTAAAGACCCTCA
GCCGCTGCTGGAGCTCGATGCCGAAACGCTGCAAGCGCGTCTCTATACGCGGTATGAAGACCTAGCGCCGGATGAGCTAC
CAGTTCCCGTGAAATTGGTGCATCTCAACAAATGCCCTATTCTGGCTCCGGCCAAAACCTTGACCTCAGAAAATGCACAA
AAGATTGGTATTGACCGCGAACAGTGTCTCGCGCACTTGAATGTGATTCGTCAACACCCCGAGATTCGTGAAAAACTGGT
GACGGTATTTAGCCAAGAGCGCGAGTTTAACCAAGAGAGTGATGTGGATAGCCAACTCTATGCCGGCTTTTTCTCCCCAG
CCGATCGCGCGGCGATGGAGATCATCCGCACCACTGCACCGGAGAATCTGGGCAGCTTAGCGATACAGGTGGCCGATAAG
CGCATTGAACCACTGCTGTTTCGTTATCGTGCGCGCCATTATCCCCATACCTTAACCGATGCCGAGCAACGCCGCTGGGC
AGCGCATTGTCGTGACTATTTCGAGCGCAATCTAGAAGGTTATATGTTGAATTTGGAAAATCTGGTGCATGAACATCAAG
CTGATCCAAAGAAAATGGCGATTTTAAAATCCGTCTACCATTACGTAGAAAAACTCGCTTGCTAA
ATGAAAAATGATGAACAGCCGTCATTCTTCTTTTTCGACTACGAGACTTGGGGGGTCAATCCCGCCAAAGATCGTCCTAG
TCAGTTTGCGGGTGTGCGTACCGATATGGACTTCAACATCATCGGCGAGCCTTTGGTAATTTACTGTCAGCTGCCCAACG
ACTATTTACCTGCTCCTGAAGCCGCATTGATCACAGGGATCACTCCTCAAAAAGCCAATAGCCAAGGTCTCGCGGAGCCC
GAATTTATCGCGCGTATTCATGCTGAGCTATCCACACCAAACACCACTAGCCTTGGCTATAACAGCATACGTTTTGATGA
TGAAGTGACGCGCTACACCTGCTATCGCAACTTTATCGACCCCTATGCTTGGAGCTGGCAACACGGCAATTCCCGTTGGG
ATCTGCTGGATGTGCTTCGCGCGTGTCATGCTTTGCGTCCTGAAGGTATTGAGTGGCCGGAAAATGATGACGGCTTTACC
AGCTTTAAACTGGAACATCTTTCTGTTGCCAACGGCATTGAGCACAGCAACGCGCACGATGCGATGGCCGATGTGATTGC
CACCATTGAACTGGCGAAAAAAGTCAAAGCCGCGCAGCCGAAATTGTTCGACTACTTCTTCACTATGCGCCACAAACGCA
AACTGACAGAACTGATTGATATTGTGAACCAAACTCCGCTGATGCATGTTTCTGGCATGCTTGGGCGTGAGCGCCACTAC
ACCAGCTGGATTGTGCCGATTGCTTGGCATCCGACCAATCAAAATGCGGTGATTGTGGTGGATTTGGGTAAAGACCCTCA
GCCGCTGCTGGAGCTCGATGCCGAAACGCTGCAAGCGCGTCTCTATACGCGGTATGAAGACCTAGCGCCGGATGAGCTAC
CAGTTCCCGTGAAATTGGTGCATCTCAACAAATGCCCTATTCTGGCTCCGGCCAAAACCTTGACCTCAGAAAATGCACAA
AAGATTGGTATTGACCGCGAACAGTGTCTCGCGCACTTGAATGTGATTCGTCAACACCCCGAGATTCGTGAAAAACTGGT
GACGGTATTTAGCCAAGAGCGCGAGTTTAACCAAGAGAGTGATGTGGATAGCCAACTCTATGCCGGCTTTTTCTCCCCAG
CCGATCGCGCGGCGATGGAGATCATCCGCACCACTGCACCGGAGAATCTGGGCAGCTTAGCGATACAGGTGGCCGATAAG
CGCATTGAACCACTGCTGTTTCGTTATCGTGCGCGCCATTATCCCCATACCTTAACCGATGCCGAGCAACGCCGCTGGGC
AGCGCATTGTCGTGACTATTTCGAGCGCAATCTAGAAGGTTATATGTTGAATTTGGAAAATCTGGTGCATGAACATCAAG
CTGATCCAAAGAAAATGGCGATTTTAAAATCCGTCTACCATTACGTAGAAAAACTCGCTTGCTAA
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| sbcB | Vibrio cholerae O1 biovar El Tor strain E7946 |
97.89 |
100 |
0.979 |