Detailed information
Bioinformatically predicted
Overview
| Name | sbcB | Type | Machinery gene |
| Locus tag | I3X05_RS06585 | Genome accession | NZ_CP065217 |
| Coordinates | 1470023..1471444 (-) | Length | 473 a.a. |
| NCBI ID | WP_337971031.1 | Uniprot ID | A0AAJ4ID57 |
| Organism | Vibrio navarrensis strain 20-VB00237 | ||
| 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) |
|---|---|---|---|---|
| ICE | 1471400..1510283 | 1470023..1471444 | flank | -44 |
Gene organization within MGE regions
Location: 1470023..1510283
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| I3X05_RS06585 (I3X05_06565) | sbcB | 1470023..1471444 (-) | 1422 | WP_337971031.1 | exodeoxyribonuclease I | Machinery gene |
| I3X05_RS06590 (I3X05_06570) | - | 1471627..1472820 (+) | 1194 | WP_039437010.1 | integrase arm-type DNA-binding domain-containing protein | - |
| I3X05_RS06595 (I3X05_06575) | - | 1472817..1473110 (-) | 294 | WP_337971032.1 | hypothetical protein | - |
| I3X05_RS06600 (I3X05_06580) | - | 1473163..1473735 (-) | 573 | WP_337971033.1 | 3'-5' exoribonuclease | - |
| I3X05_RS06605 (I3X05_06585) | - | 1473787..1474119 (-) | 333 | WP_337971034.1 | hypothetical protein | - |
| I3X05_RS06610 (I3X05_06590) | - | 1474119..1475123 (-) | 1005 | WP_337971035.1 | nucleoid-associated protein | - |
| I3X05_RS06615 (I3X05_06595) | - | 1475161..1475709 (-) | 549 | WP_337971036.1 | hypothetical protein | - |
| I3X05_RS06620 (I3X05_06600) | - | 1475697..1475882 (-) | 186 | WP_337971037.1 | hypothetical protein | - |
| I3X05_RS06625 (I3X05_06605) | - | 1475885..1476259 (-) | 375 | WP_039437021.1 | hypothetical protein | - |
| I3X05_RS06630 (I3X05_06610) | - | 1476266..1476520 (-) | 255 | WP_337971038.1 | hypothetical protein | - |
| I3X05_RS06635 (I3X05_06615) | - | 1476670..1476981 (-) | 312 | WP_039437026.1 | hypothetical protein | - |
| I3X05_RS06640 (I3X05_06620) | - | 1477245..1477826 (+) | 582 | WP_337971039.1 | hypothetical protein | - |
| I3X05_RS06645 (I3X05_06625) | - | 1477830..1478333 (+) | 504 | WP_039437031.1 | hypothetical protein | - |
| I3X05_RS06650 (I3X05_06630) | - | 1478312..1479010 (-) | 699 | WP_337971040.1 | S24 family peptidase | - |
| I3X05_RS06655 (I3X05_06635) | - | 1479111..1479362 (+) | 252 | WP_039437034.1 | hypothetical protein | - |
| I3X05_RS06660 (I3X05_06640) | - | 1479402..1479947 (+) | 546 | WP_332205466.1 | hypothetical protein | - |
| I3X05_RS06665 (I3X05_06645) | - | 1480136..1480936 (+) | 801 | WP_337971041.1 | helix-turn-helix domain-containing protein | - |
| I3X05_RS06670 (I3X05_06650) | - | 1480933..1481664 (+) | 732 | WP_337971042.1 | ATP-binding protein | - |
| I3X05_RS06675 (I3X05_06655) | - | 1481664..1482296 (+) | 633 | WP_337971043.1 | DNA N-6-adenine-methyltransferase | - |
| I3X05_RS06680 (I3X05_06660) | - | 1482298..1482879 (+) | 582 | WP_337971044.1 | hypothetical protein | - |
| I3X05_RS06685 (I3X05_06665) | - | 1483131..1484480 (+) | 1350 | WP_337971045.1 | putative phage abortive infection protein | - |
| I3X05_RS06690 (I3X05_06670) | - | 1484655..1484945 (+) | 291 | WP_263236438.1 | hypothetical protein | - |
| I3X05_RS06695 (I3X05_06675) | - | 1484923..1485411 (+) | 489 | WP_337971046.1 | hypothetical protein | - |
| I3X05_RS06700 (I3X05_06680) | - | 1485450..1485758 (+) | 309 | WP_337971047.1 | hypothetical protein | - |
| I3X05_RS06705 (I3X05_06685) | - | 1485755..1485970 (+) | 216 | WP_337971048.1 | hypothetical protein | - |
| I3X05_RS06710 | - | 1485984..1486112 (+) | 129 | WP_337971049.1 | hypothetical protein | - |
| I3X05_RS06715 (I3X05_06695) | - | 1486576..1487805 (+) | 1230 | WP_337971050.1 | tyrosine-type recombinase/integrase | - |
| I3X05_RS06720 (I3X05_06700) | - | 1488239..1488808 (+) | 570 | WP_337971051.1 | terminase small subunit | - |
| I3X05_RS06725 (I3X05_06705) | - | 1488762..1490765 (+) | 2004 | WP_337971052.1 | terminase gpA endonuclease subunit | - |
| I3X05_RS06730 (I3X05_06710) | - | 1490759..1491286 (+) | 528 | WP_337971053.1 | hypothetical protein | - |
| I3X05_RS06735 (I3X05_06715) | - | 1491286..1492854 (+) | 1569 | WP_337971054.1 | phage portal protein | - |
| I3X05_RS06740 (I3X05_06720) | - | 1492811..1494790 (+) | 1980 | WP_337971055.1 | phage major capsid protein | - |
| I3X05_RS06745 (I3X05_06725) | - | 1494843..1495031 (+) | 189 | WP_193246900.1 | hypothetical protein | - |
| I3X05_RS06750 (I3X05_06730) | - | 1495024..1495302 (+) | 279 | WP_337971056.1 | sugar transporter | - |
| I3X05_RS06755 (I3X05_06735) | - | 1495299..1495931 (+) | 633 | WP_337971057.1 | phage tail protein | - |
| I3X05_RS06760 (I3X05_06740) | gpU | 1495912..1496364 (+) | 453 | WP_337971058.1 | phage tail terminator protein | - |
| I3X05_RS06765 (I3X05_06745) | - | 1496364..1496852 (+) | 489 | WP_337971059.1 | phage tail tube protein | - |
| I3X05_RS06770 (I3X05_06750) | - | 1496857..1497303 (+) | 447 | WP_337971060.1 | hypothetical protein | - |
| I3X05_RS06775 (I3X05_06755) | - | 1497354..1497650 (+) | 297 | WP_229599916.1 | phage tail assembly protein T | - |
| I3X05_RS06780 (I3X05_06760) | - | 1497631..1499865 (+) | 2235 | WP_337971061.1 | hypothetical protein | - |
| I3X05_RS06785 (I3X05_06765) | - | 1499866..1500339 (+) | 474 | WP_337971062.1 | hypothetical protein | - |
| I3X05_RS06790 (I3X05_06770) | - | 1500336..1502360 (+) | 2025 | WP_337971063.1 | sialate O-acetylesterase | - |
| I3X05_RS06795 (I3X05_06775) | - | 1502360..1503148 (+) | 789 | WP_337971064.1 | hypothetical protein | - |
| I3X05_RS06800 (I3X05_06780) | - | 1503148..1503945 (+) | 798 | WP_337971065.1 | hypothetical protein | - |
| I3X05_RS06805 (I3X05_06785) | - | 1503945..1504805 (+) | 861 | WP_337971066.1 | hypothetical protein | - |
| I3X05_RS06810 (I3X05_06790) | - | 1504808..1505344 (+) | 537 | WP_337971067.1 | DUF1833 family protein | - |
| I3X05_RS06815 (I3X05_06795) | - | 1505344..1505778 (+) | 435 | WP_337971068.1 | phage tail protein | - |
| I3X05_RS06820 (I3X05_06800) | - | 1505729..1508536 (+) | 2808 | WP_337971069.1 | host specificity factor TipJ family phage tail protein | - |
| I3X05_RS06825 (I3X05_06805) | - | 1508574..1509188 (-) | 615 | WP_226980030.1 | hypothetical protein | - |
| I3X05_RS06830 (I3X05_06810) | - | 1509417..1509731 (-) | 315 | WP_337971070.1 | helix-turn-helix transcriptional regulator | - |
| I3X05_RS06835 (I3X05_06815) | - | 1509933..1510118 (+) | 186 | WP_039436254.1 | hypothetical protein | - |
Sequence
Protein
Download Length: 473 a.a. Molecular weight: 54678.97 Da Isoelectric Point: 5.0996
>NTDB_id=508196 I3X05_RS06585 WP_337971031.1 1470023..1471444(-) (sbcB) [Vibrio navarrensis strain 20-VB00237]
MKNNEQPTFFFFDYETWGISPAKDRPSQFAGVRTDENFNVIGEPLVIYCRLPSDYLPAPEAALITGITPQKAMQEGLSEP
EFISKIHAELSKPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVMRACHALRPEGITWPENDEGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIEMAKKLKAAQPKLFDYFFNMRHKRKLNALIDIVNMTPLMHVSGMLGRECQY
TSWVVPLAWHPTNNNAVIVIDLAKDPQPLFELSAEQLHERLYTKREDLDELLPVPVKLVHLNKCPILAPAKTLTAENAAS
IGIDREQCLANLAQIRQHPEVREKLVQLFSIEREFADSDDVDSKLYDGFFSPADRAAMEIIRQTEPNNLAALDITFNDKR
IDPLLFRYRARNYPWTLDESEQRRWANHCREYFESRIEEYMLNLENLVHEHESDEKKIAILKSVYRYTESLIS
MKNNEQPTFFFFDYETWGISPAKDRPSQFAGVRTDENFNVIGEPLVIYCRLPSDYLPAPEAALITGITPQKAMQEGLSEP
EFISKIHAELSKPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVMRACHALRPEGITWPENDEGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIEMAKKLKAAQPKLFDYFFNMRHKRKLNALIDIVNMTPLMHVSGMLGRECQY
TSWVVPLAWHPTNNNAVIVIDLAKDPQPLFELSAEQLHERLYTKREDLDELLPVPVKLVHLNKCPILAPAKTLTAENAAS
IGIDREQCLANLAQIRQHPEVREKLVQLFSIEREFADSDDVDSKLYDGFFSPADRAAMEIIRQTEPNNLAALDITFNDKR
IDPLLFRYRARNYPWTLDESEQRRWANHCREYFESRIEEYMLNLENLVHEHESDEKKIAILKSVYRYTESLIS
Nucleotide
Download Length: 1422 bp
>NTDB_id=508196 I3X05_RS06585 WP_337971031.1 1470023..1471444(-) (sbcB) [Vibrio navarrensis strain 20-VB00237]
ATGAAAAACAACGAACAGCCTACATTCTTCTTTTTTGATTATGAAACTTGGGGAATAAGCCCCGCTAAAGACCGCCCTTC
CCAGTTTGCGGGGGTACGCACCGACGAAAATTTCAATGTGATTGGCGAGCCGCTGGTTATCTACTGCCGATTGCCAAGCG
ACTATCTTCCTGCGCCAGAAGCGGCCTTGATTACCGGCATTACTCCGCAAAAAGCGATGCAAGAGGGGCTGTCTGAGCCC
GAATTTATTAGCAAAATCCATGCAGAGCTGTCAAAACCCAACACCACCAGCCTTGGCTACAACAGCATTCGTTTTGACGA
CGAAGTCACTCGCTATACCTGTTATCGCAATTTCATCGATCCTTACGCGTGGAGCTGGCAAAACGGCAACTCGCGCTGGG
ATTTGCTGGATGTGATGCGCGCTTGCCACGCCCTTCGCCCAGAGGGCATTACTTGGCCGGAAAATGATGAGGGCTTTACC
AGCTTCAAACTGGAGCATCTGTCCGTCGCCAATGGCATCGAACACAGCAACGCGCACGACGCGATGGCCGATGTCATTGC
CACCATCGAAATGGCCAAAAAGCTCAAAGCGGCCCAGCCGAAACTGTTTGATTACTTTTTCAACATGCGCCACAAACGCA
AGCTGAATGCGCTGATTGATATCGTCAATATGACCCCCTTGATGCACGTATCCGGCATGCTTGGCCGTGAATGCCAGTAC
ACCAGTTGGGTGGTACCTTTGGCTTGGCATCCGACCAATAACAACGCAGTGATCGTGATCGATTTGGCGAAAGATCCACA
GCCACTGTTTGAGCTAAGCGCCGAGCAGTTACACGAGCGGCTCTATACCAAGCGAGAAGATCTTGACGAGCTGCTGCCAG
TGCCAGTGAAATTGGTACATCTCAATAAATGCCCCATTTTGGCCCCTGCAAAAACGCTGACGGCAGAAAATGCGGCGAGC
ATTGGCATCGACCGCGAGCAGTGTTTGGCCAACTTAGCACAGATCCGTCAACACCCAGAAGTGCGTGAAAAGTTGGTGCA
ACTTTTTTCCATTGAACGCGAGTTTGCCGATAGTGACGATGTCGACAGTAAATTGTACGACGGTTTCTTCTCACCAGCCG
ATCGCGCCGCGATGGAGATAATTCGTCAAACCGAGCCAAACAACCTCGCTGCGCTCGACATCACCTTTAACGACAAGCGT
ATTGATCCGCTGCTGTTTCGTTATCGTGCGCGTAACTATCCGTGGACATTGGATGAGAGCGAACAACGTCGCTGGGCCAA
CCATTGCCGAGAGTACTTCGAAAGTCGTATTGAAGAGTACATGCTCAATTTGGAAAACTTGGTGCATGAGCACGAAAGCG
ATGAAAAGAAAATAGCGATATTGAAATCGGTTTACCGCTATACTGAGAGCTTGATCTCATAA
ATGAAAAACAACGAACAGCCTACATTCTTCTTTTTTGATTATGAAACTTGGGGAATAAGCCCCGCTAAAGACCGCCCTTC
CCAGTTTGCGGGGGTACGCACCGACGAAAATTTCAATGTGATTGGCGAGCCGCTGGTTATCTACTGCCGATTGCCAAGCG
ACTATCTTCCTGCGCCAGAAGCGGCCTTGATTACCGGCATTACTCCGCAAAAAGCGATGCAAGAGGGGCTGTCTGAGCCC
GAATTTATTAGCAAAATCCATGCAGAGCTGTCAAAACCCAACACCACCAGCCTTGGCTACAACAGCATTCGTTTTGACGA
CGAAGTCACTCGCTATACCTGTTATCGCAATTTCATCGATCCTTACGCGTGGAGCTGGCAAAACGGCAACTCGCGCTGGG
ATTTGCTGGATGTGATGCGCGCTTGCCACGCCCTTCGCCCAGAGGGCATTACTTGGCCGGAAAATGATGAGGGCTTTACC
AGCTTCAAACTGGAGCATCTGTCCGTCGCCAATGGCATCGAACACAGCAACGCGCACGACGCGATGGCCGATGTCATTGC
CACCATCGAAATGGCCAAAAAGCTCAAAGCGGCCCAGCCGAAACTGTTTGATTACTTTTTCAACATGCGCCACAAACGCA
AGCTGAATGCGCTGATTGATATCGTCAATATGACCCCCTTGATGCACGTATCCGGCATGCTTGGCCGTGAATGCCAGTAC
ACCAGTTGGGTGGTACCTTTGGCTTGGCATCCGACCAATAACAACGCAGTGATCGTGATCGATTTGGCGAAAGATCCACA
GCCACTGTTTGAGCTAAGCGCCGAGCAGTTACACGAGCGGCTCTATACCAAGCGAGAAGATCTTGACGAGCTGCTGCCAG
TGCCAGTGAAATTGGTACATCTCAATAAATGCCCCATTTTGGCCCCTGCAAAAACGCTGACGGCAGAAAATGCGGCGAGC
ATTGGCATCGACCGCGAGCAGTGTTTGGCCAACTTAGCACAGATCCGTCAACACCCAGAAGTGCGTGAAAAGTTGGTGCA
ACTTTTTTCCATTGAACGCGAGTTTGCCGATAGTGACGATGTCGACAGTAAATTGTACGACGGTTTCTTCTCACCAGCCG
ATCGCGCCGCGATGGAGATAATTCGTCAAACCGAGCCAAACAACCTCGCTGCGCTCGACATCACCTTTAACGACAAGCGT
ATTGATCCGCTGCTGTTTCGTTATCGTGCGCGTAACTATCCGTGGACATTGGATGAGAGCGAACAACGTCGCTGGGCCAA
CCATTGCCGAGAGTACTTCGAAAGTCGTATTGAAGAGTACATGCTCAATTTGGAAAACTTGGTGCATGAGCACGAAAGCG
ATGAAAAGAAAATAGCGATATTGAAATCGGTTTACCGCTATACTGAGAGCTTGATCTCATAA
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 |
80.973 |
100 |
0.81 |