Detailed information
Bioinformatically predicted
Overview
| Name | ssb | Type | Machinery gene |
| Locus tag | CPU08_RS04025 | Genome accession | NZ_CP023655 |
| Coordinates | 791380..791862 (+) | Length | 160 a.a. |
| NCBI ID | WP_141822585.1 | Uniprot ID | - |
| Organism | Pediococcus pentosaceus strain JQI-7 | ||
| Function | ssDNA binding (predicted from homology) DNA processing |
||
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 | 780988..824959 | 791380..791862 | within | 0 |
Gene organization within MGE regions
Location: 780988..824959
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CPU08_RS03940 (CPU08_03930) | fabI | 780988..781746 (+) | 759 | WP_060743755.1 | enoyl-ACP reductase FabI | - |
| CPU08_RS03945 (CPU08_03935) | - | 781885..783057 (-) | 1173 | WP_141822563.1 | site-specific integrase | - |
| CPU08_RS03950 (CPU08_03940) | - | 783154..783456 (-) | 303 | WP_029257881.1 | hypothetical protein | - |
| CPU08_RS03955 (CPU08_03945) | - | 783545..784615 (-) | 1071 | WP_141822565.1 | DUF4236 domain-containing protein | - |
| CPU08_RS03960 (CPU08_03950) | - | 784727..785164 (-) | 438 | WP_141822567.1 | hypothetical protein | - |
| CPU08_RS03965 (CPU08_03955) | - | 785220..785618 (-) | 399 | WP_069825264.1 | hypothetical protein | - |
| CPU08_RS03970 (CPU08_03960) | - | 785622..785996 (-) | 375 | WP_081332163.1 | helix-turn-helix domain-containing protein | - |
| CPU08_RS03975 (CPU08_03965) | - | 786161..786394 (+) | 234 | WP_069825265.1 | XRE family transcriptional regulator | - |
| CPU08_RS03980 (CPU08_03970) | - | 786391..786633 (+) | 243 | WP_141822569.1 | hypothetical protein | - |
| CPU08_RS03985 (CPU08_03975) | - | 786707..787165 (+) | 459 | WP_260603364.1 | helix-turn-helix domain-containing protein | - |
| CPU08_RS03990 (CPU08_03980) | - | 787166..787441 (+) | 276 | WP_141822571.1 | hypothetical protein | - |
| CPU08_RS03995 (CPU08_03985) | - | 787675..787956 (+) | 282 | WP_141822573.1 | hypothetical protein | - |
| CPU08_RS04000 (CPU08_03990) | - | 787949..788800 (+) | 852 | WP_141822575.1 | recombinase RecT | - |
| CPU08_RS04005 (CPU08_03995) | - | 788760..789587 (+) | 828 | WP_141822577.1 | PD-(D/E)XK nuclease-like domain-containing protein | - |
| CPU08_RS04010 (CPU08_04000) | - | 789597..790427 (+) | 831 | WP_141822579.1 | helix-turn-helix domain-containing protein | - |
| CPU08_RS04015 (CPU08_04005) | - | 790430..791131 (+) | 702 | WP_141822581.1 | putative HNHc nuclease | - |
| CPU08_RS04020 (CPU08_04010) | - | 791100..791360 (+) | 261 | WP_141822583.1 | hypothetical protein | - |
| CPU08_RS04025 (CPU08_04015) | ssb | 791380..791862 (+) | 483 | WP_141822585.1 | single-stranded DNA-binding protein | Machinery gene |
| CPU08_RS08785 (CPU08_04020) | - | 791873..792190 (+) | 318 | WP_185831478.1 | DeoR family transcriptional regulator | - |
| CPU08_RS08790 | - | 792193..792366 (+) | 174 | WP_185831479.1 | hypothetical protein | - |
| CPU08_RS04035 (CPU08_04025) | - | 792356..792715 (+) | 360 | WP_141822589.1 | hypothetical protein | - |
| CPU08_RS04040 (CPU08_04030) | - | 792721..793107 (+) | 387 | WP_141822591.1 | hypothetical protein | - |
| CPU08_RS04045 (CPU08_04035) | - | 793195..793611 (+) | 417 | WP_185831480.1 | ArpU family phage packaging/lysis transcriptional regulator | - |
| CPU08_RS04055 (CPU08_04045) | - | 793959..794483 (+) | 525 | WP_141822593.1 | hypothetical protein | - |
| CPU08_RS04060 | - | 794721..794918 (+) | 198 | WP_141822595.1 | hypothetical protein | - |
| CPU08_RS04065 (CPU08_04050) | - | 794981..795796 (+) | 816 | WP_141822597.1 | hypothetical protein | - |
| CPU08_RS04070 (CPU08_04055) | - | 795866..796471 (+) | 606 | WP_141822599.1 | terminase small subunit | - |
| CPU08_RS04075 (CPU08_04060) | - | 796455..797726 (+) | 1272 | WP_141822601.1 | PBSX family phage terminase large subunit | - |
| CPU08_RS04080 (CPU08_04065) | - | 797734..799131 (+) | 1398 | WP_141822603.1 | phage portal protein | - |
| CPU08_RS04085 (CPU08_04070) | - | 799115..800077 (+) | 963 | WP_141822605.1 | minor capsid protein | - |
| CPU08_RS04090 (CPU08_04075) | - | 800080..800478 (+) | 399 | WP_141822607.1 | hypothetical protein | - |
| CPU08_RS08795 | - | 800704..800865 (+) | 162 | WP_185831481.1 | hypothetical protein | - |
| CPU08_RS04095 (CPU08_04080) | - | 800983..801594 (+) | 612 | WP_185831482.1 | DUF4355 domain-containing protein | - |
| CPU08_RS04100 (CPU08_04085) | - | 801609..802523 (+) | 915 | WP_011673260.1 | hypothetical protein | - |
| CPU08_RS04105 (CPU08_04090) | - | 802562..802807 (+) | 246 | WP_260603365.1 | Ig-like domain-containing protein | - |
| CPU08_RS04110 (CPU08_04095) | - | 802819..803190 (+) | 372 | WP_141822613.1 | phage head-tail connector protein | - |
| CPU08_RS04115 (CPU08_04100) | - | 803195..803497 (+) | 303 | WP_141822615.1 | hypothetical protein | - |
| CPU08_RS04120 (CPU08_04105) | - | 803490..803861 (+) | 372 | WP_141822617.1 | HK97-gp10 family putative phage morphogenesis protein | - |
| CPU08_RS04125 (CPU08_04110) | - | 803862..804269 (+) | 408 | WP_141822619.1 | hypothetical protein | - |
| CPU08_RS04130 (CPU08_04115) | - | 804287..804883 (+) | 597 | WP_141822621.1 | phage major tail protein, TP901-1 family | - |
| CPU08_RS04135 (CPU08_04120) | - | 804961..805239 (+) | 279 | WP_141822623.1 | hypothetical protein | - |
| CPU08_RS04140 (CPU08_04125) | - | 805319..805657 (+) | 339 | WP_141822625.1 | tail assembly chaperone | - |
| CPU08_RS04145 (CPU08_04130) | - | 805759..806091 (+) | 333 | WP_229572677.1 | hypothetical protein | - |
| CPU08_RS04150 (CPU08_04135) | - | 806084..809434 (+) | 3351 | WP_141822629.1 | phage tail tape measure protein | - |
| CPU08_RS04155 (CPU08_04140) | - | 809434..810198 (+) | 765 | WP_141822631.1 | phage tail protein | - |
| CPU08_RS04160 (CPU08_04145) | - | 810198..813182 (+) | 2985 | WP_141822633.1 | peptidoglycan amidohydrolase family protein | - |
| CPU08_RS04165 (CPU08_04150) | - | 813166..813612 (+) | 447 | WP_141822635.1 | hypothetical protein | - |
| CPU08_RS04170 (CPU08_04155) | - | 813616..815472 (+) | 1857 | WP_141822637.1 | BppU family phage baseplate upper protein | - |
| CPU08_RS04175 (CPU08_04160) | - | 815481..816233 (+) | 753 | WP_141822639.1 | hypothetical protein | - |
| CPU08_RS04180 (CPU08_04165) | - | 816233..816583 (+) | 351 | WP_141822641.1 | DUF2977 domain-containing protein | - |
| CPU08_RS04185 (CPU08_04170) | - | 816583..816714 (+) | 132 | WP_141822643.1 | XkdX family protein | - |
| CPU08_RS04190 (CPU08_04175) | - | 816764..817048 (+) | 285 | WP_141822924.1 | hypothetical protein | - |
| CPU08_RS04195 (CPU08_04180) | - | 817048..817287 (+) | 240 | WP_141822645.1 | phage holin | - |
| CPU08_RS04200 (CPU08_04185) | - | 817271..818392 (+) | 1122 | WP_141822647.1 | peptidoglycan recognition family protein | - |
| CPU08_RS04205 (CPU08_04190) | - | 819580..820956 (+) | 1377 | WP_128886915.1 | amino acid permease | - |
| CPU08_RS04210 (CPU08_04195) | - | 821116..822282 (+) | 1167 | WP_128886914.1 | hydroxymethylglutaryl-CoA synthase | - |
| CPU08_RS04215 (CPU08_04200) | - | 822322..822921 (-) | 600 | WP_060743702.1 | hypothetical protein | - |
| CPU08_RS04220 (CPU08_04205) | lexA | 823000..823629 (-) | 630 | WP_002833597.1 | transcriptional repressor LexA | - |
| CPU08_RS04225 (CPU08_04210) | - | 823763..824011 (+) | 249 | WP_002833598.1 | DUF896 domain-containing protein | - |
| CPU08_RS04230 (CPU08_04215) | - | 824082..824303 (+) | 222 | WP_002833599.1 | YneF family protein | - |
| CPU08_RS04235 (CPU08_04220) | - | 824315..824959 (-) | 645 | WP_029257926.1 | 1-acyl-sn-glycerol-3-phosphate acyltransferase | - |
Sequence
Protein
Download Length: 160 a.a. Molecular weight: 18143.88 Da Isoelectric Point: 6.3630
>NTDB_id=248923 CPU08_RS04025 WP_141822585.1 791380..791862(+) (ssb) [Pediococcus pentosaceus strain JQI-7]
MINRTVLVGRLTRDPELKYTNSGRAVASFNIAVNRKFTNSQGEREADFINCVIWNKTAENFCNFIRKGSLVGIDGRIQTR
SYENQQGTRIYVTEVVAENFSLLESKNSSQNEQFEQNRPQSNGQNYQNKQNGQSSPSRNPNDPFTNGVQGIDINDDDLPF
MINRTVLVGRLTRDPELKYTNSGRAVASFNIAVNRKFTNSQGEREADFINCVIWNKTAENFCNFIRKGSLVGIDGRIQTR
SYENQQGTRIYVTEVVAENFSLLESKNSSQNEQFEQNRPQSNGQNYQNKQNGQSSPSRNPNDPFTNGVQGIDINDDDLPF
Nucleotide
Download Length: 483 bp
>NTDB_id=248923 CPU08_RS04025 WP_141822585.1 791380..791862(+) (ssb) [Pediococcus pentosaceus strain JQI-7]
ATGATTAATCGAACTGTTTTAGTTGGCCGGTTGACGCGTGATCCAGAATTGAAATACACCAACAGTGGAAGGGCGGTAGC
TAGCTTTAACATAGCCGTTAACCGTAAATTTACAAATTCACAGGGCGAGCGCGAAGCGGACTTTATTAACTGCGTTATTT
GGAATAAAACGGCGGAAAACTTCTGTAACTTCATTCGCAAAGGGTCACTGGTTGGAATTGATGGACGAATTCAAACTCGA
TCATACGAAAATCAACAAGGAACACGAATTTACGTTACTGAAGTTGTAGCCGAAAATTTTTCGCTGCTTGAGTCCAAAAA
CAGTAGTCAAAATGAACAATTTGAACAGAATAGACCTCAAAGCAATGGACAAAATTATCAGAATAAACAAAATGGTCAAT
CATCACCTAGTAGAAATCCTAACGACCCATTCACTAATGGCGTCCAAGGAATTGATATTAACGACGACGATTTACCGTTT
TAG
ATGATTAATCGAACTGTTTTAGTTGGCCGGTTGACGCGTGATCCAGAATTGAAATACACCAACAGTGGAAGGGCGGTAGC
TAGCTTTAACATAGCCGTTAACCGTAAATTTACAAATTCACAGGGCGAGCGCGAAGCGGACTTTATTAACTGCGTTATTT
GGAATAAAACGGCGGAAAACTTCTGTAACTTCATTCGCAAAGGGTCACTGGTTGGAATTGATGGACGAATTCAAACTCGA
TCATACGAAAATCAACAAGGAACACGAATTTACGTTACTGAAGTTGTAGCCGAAAATTTTTCGCTGCTTGAGTCCAAAAA
CAGTAGTCAAAATGAACAATTTGAACAGAATAGACCTCAAAGCAATGGACAAAATTATCAGAATAAACAAAATGGTCAAT
CATCACCTAGTAGAAATCCTAACGACCCATTCACTAATGGCGTCCAAGGAATTGATATTAACGACGACGATTTACCGTTT
TAG
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| ssb | Latilactobacillus sakei subsp. sakei 23K |
59.77 |
100 |
0.65 |
| ssbA | Bacillus subtilis subsp. subtilis str. 168 |
54.07 |
100 |
0.581 |
| ssbB | Bacillus subtilis subsp. subtilis str. 168 |
56.604 |
66.25 |
0.375 |