Detailed information
Bioinformatically predicted
Overview
| Name | ideA | Type | Regulator |
| Locus tag | LDO90_RS04035 | Genome accession | NZ_AP025147 |
| Coordinates | 845657..846340 (-) | Length | 227 a.a. |
| NCBI ID | WP_224067540.1 | Uniprot ID | - |
| Organism | Vibrio penaeicida strain IFO 15641 | ||
| Function | repress natural transformation (predicted from homology) Competence regulation |
||
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 | 774531..860773 | 845657..846340 | within | 0 |
Gene organization within MGE regions
Location: 774531..860773
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| LDO90_RS03730 | rimP | 774774..775229 (+) | 456 | WP_126607605.1 | ribosome maturation factor RimP | - |
| LDO90_RS03735 | nusA | 775248..776735 (+) | 1488 | WP_104401421.1 | transcription termination factor NusA | - |
| LDO90_RS03740 | infB | 776757..779462 (+) | 2706 | WP_126607604.1 | translation initiation factor IF-2 | - |
| LDO90_RS03745 | rbfA | 779561..779956 (+) | 396 | WP_101113242.1 | 30S ribosome-binding factor RbfA | - |
| LDO90_RS03750 | truB | 779956..780909 (+) | 954 | WP_126607603.1 | tRNA pseudouridine(55) synthase TruB | - |
| LDO90_RS03755 | rpsO | 781105..781374 (+) | 270 | WP_101113239.1 | 30S ribosomal protein S15 | - |
| LDO90_RS03760 | pnp | 781645..783768 (+) | 2124 | WP_101113238.1 | polyribonucleotide nucleotidyltransferase | - |
| LDO90_RS03765 | nlpI | 783963..784841 (+) | 879 | WP_126607610.1 | lipoprotein NlpI | - |
| LDO90_RS03770 | - | 784904..785782 (-) | 879 | WP_126607602.1 | U32 family peptidase | - |
| LDO90_RS03775 | - | 785799..786812 (-) | 1014 | WP_224067527.1 | peptidase U32 family protein | - |
| LDO90_RS03780 | - | 786956..788992 (-) | 2037 | WP_126607600.1 | bifunctional diguanylate cyclase/phosphodiesterase | - |
| LDO90_RS03785 | - | 789188..789715 (+) | 528 | WP_126607599.1 | SCP2 domain-containing protein | - |
| LDO90_RS03790 | - | 789699..790202 (+) | 504 | WP_126607598.1 | GNAT family N-acetyltransferase | - |
| LDO90_RS03795 | - | 790281..791399 (-) | 1119 | WP_126607597.1 | class II histone deacetylase | - |
| LDO90_RS03800 | - | 791392..792591 (-) | 1200 | WP_126607596.1 | MFS transporter | - |
| LDO90_RS03805 | - | 792705..793682 (-) | 978 | WP_126607595.1 | LuxR C-terminal-related transcriptional regulator | - |
| LDO90_RS03810 | - | 793991..794293 (+) | 303 | WP_101113229.1 | hypothetical protein | - |
| LDO90_RS03815 | - | 794452..794844 (+) | 393 | WP_126609489.1 | DNA polymerase III subunit psi | - |
| LDO90_RS03820 | rimI | 794837..795283 (+) | 447 | WP_126609490.1 | ribosomal protein S18-alanine N-acetyltransferase | - |
| LDO90_RS03825 | - | 795365..797800 (-) | 2436 | WP_126609491.1 | EAL domain-containing protein | - |
| LDO90_RS03830 | - | 797853..798560 (-) | 708 | WP_126609492.1 | ABC transporter substrate-binding protein | - |
| LDO90_RS03835 | - | 798991..799215 (-) | 225 | WP_126608357.1 | hypothetical protein | - |
| LDO90_RS03840 | - | 799338..799415 (+) | 78 | Protein_724 | peptide chain release factor 3 | - |
| LDO90_RS03845 | - | 800095..800931 (+) | 837 | WP_224067529.1 | type IV toxin-antitoxin system AbiEi family antitoxin | - |
| LDO90_RS03850 | - | 800940..801854 (+) | 915 | WP_224067530.1 | nucleotidyl transferase AbiEii/AbiGii toxin family protein | - |
| LDO90_RS03855 | - | 801976..802170 (+) | 195 | WP_000127614.1 | AlpA family transcriptional regulator | - |
| LDO90_RS03860 | - | 802182..803423 (-) | 1242 | WP_224067531.1 | integrase family protein | - |
| LDO90_RS03865 | - | 803425..803694 (-) | 270 | WP_094697232.1 | hypothetical protein | - |
| LDO90_RS03870 | - | 803697..804671 (-) | 975 | WP_094697233.1 | ParM/StbA family protein | - |
| LDO90_RS03875 | mobI | 805136..805579 (+) | 444 | WP_094697235.1 | conjugative transfer protein MobI(A/C) | - |
| LDO90_RS03880 | umuC | 805590..806858 (-) | 1269 | WP_224067532.1 | translesion error-prone DNA polymerase V subunit UmuC | - |
| LDO90_RS03885 | umuD | 806866..807315 (-) | 450 | WP_007105028.1 | translesion error-prone DNA polymerase V autoproteolytic subunit | - |
| LDO90_RS03890 | - | 807972..808892 (+) | 921 | WP_224067533.1 | 3'-5' exonuclease | - |
| LDO90_RS03895 | - | 808965..809264 (+) | 300 | WP_065767345.1 | hypothetical protein | - |
| LDO90_RS03900 | - | 809582..810517 (+) | 936 | WP_193284088.1 | WYL domain-containing protein | - |
| LDO90_RS03905 | - | 810555..813887 (+) | 3333 | WP_224067534.1 | helicase-related protein | - |
| LDO90_RS03910 | - | 813891..814577 (+) | 687 | WP_024024112.1 | DUF4391 domain-containing protein | - |
| LDO90_RS03915 | - | 814660..816606 (+) | 1947 | WP_023266697.1 | site-specific DNA-methyltransferase | - |
| LDO90_RS03920 | - | 816616..819693 (+) | 3078 | WP_065767339.1 | type III restriction-modification system endonuclease | - |
| LDO90_RS03925 | - | 819767..820621 (+) | 855 | WP_024024115.1 | restriction endonuclease | - |
| LDO90_RS03930 | mobH | 820716..822866 (+) | 2151 | WP_224067535.1 | MobH family relaxase | - |
| LDO90_RS03935 | traD | 822915..824735 (+) | 1821 | WP_065767335.1 | conjugative transfer system coupling protein TraD | - |
| LDO90_RS03940 | - | 824745..825305 (+) | 561 | WP_065767333.1 | conjugative transfer protein | - |
| LDO90_RS03945 | - | 825292..825927 (+) | 636 | WP_000033756.1 | DUF4400 domain-containing protein | - |
| LDO90_RS03950 | - | 826041..826637 (+) | 597 | WP_129980172.1 | hypothetical protein | - |
| LDO90_RS03955 | - | 826630..827736 (+) | 1107 | WP_031500457.1 | ImmA/IrrE family metallo-endopeptidase | - |
| LDO90_RS03960 | traL | 827873..828154 (+) | 282 | WP_000433891.1 | type IV conjugative transfer system protein TraL | - |
| LDO90_RS03965 | - | 828151..828777 (+) | 627 | WP_000667170.1 | TraE/TraK family type IV conjugative transfer system protein | - |
| LDO90_RS03970 | - | 828761..829657 (+) | 897 | WP_224067580.1 | type-F conjugative transfer system secretin TraK | - |
| LDO90_RS03975 | - | 829660..830949 (+) | 1290 | WP_169650375.1 | TraB/VirB10 family protein | - |
| LDO90_RS03980 | traV | 831024..831596 (+) | 573 | WP_224067536.1 | type IV conjugative transfer system lipoprotein TraV | - |
| LDO90_RS03985 | traA | 831593..831967 (+) | 375 | WP_023266685.1 | TraA family conjugative transfer protein | - |
| LDO90_RS03990 | - | 832043..832771 (+) | 729 | WP_065767329.1 | hypothetical protein | - |
| LDO90_RS03995 | - | 832959..833651 (+) | 693 | WP_065767327.1 | DsbC family protein | - |
| LDO90_RS04000 | traC | 833651..836050 (+) | 2400 | WP_224067537.1 | type IV secretion system protein TraC | - |
| LDO90_RS04005 | - | 836043..836390 (+) | 348 | WP_024008830.1 | hypothetical protein | - |
| LDO90_RS04010 | - | 836374..836886 (+) | 513 | WP_180949878.1 | S26 family signal peptidase | - |
| LDO90_RS04015 | - | 836897..838021 (+) | 1125 | WP_224067581.1 | TrbC family F-type conjugative pilus assembly protein | - |
| LDO90_RS04020 | - | 838005..839033 (+) | 1029 | WP_224067538.1 | TraU family protein | - |
| LDO90_RS04025 | traN | 839036..842728 (+) | 3693 | WP_224067539.1 | conjugal transfer protein TraN | - |
| LDO90_RS29180 | - | 842819..844384 (-) | 1566 | WP_001918292.1 | hypothetical protein | - |
| LDO90_RS29185 | - | 844529..845485 (-) | 957 | Protein_763 | AAA family ATPase | - |
| LDO90_RS04035 | ideA | 845657..846340 (-) | 684 | WP_224067540.1 | endonuclease | Regulator |
| LDO90_RS04040 | - | 846449..847051 (-) | 603 | WP_224067541.1 | hypothetical protein | - |
| LDO90_RS04045 | - | 847419..847745 (+) | 327 | WP_156734069.1 | plasmid-related protein | - |
| LDO90_RS04050 | - | 847761..848180 (+) | 420 | WP_224067542.1 | single-stranded DNA-binding protein | - |
| LDO90_RS04055 | bet | 848260..849078 (+) | 819 | WP_000414662.1 | phage recombination protein Bet | - |
| LDO90_RS04060 | - | 849161..849304 (+) | 144 | WP_000167275.1 | hypothetical protein | - |
| LDO90_RS04065 | - | 849365..850381 (+) | 1017 | WP_067206279.1 | YqaJ viral recombinase family protein | - |
| LDO90_RS04070 | - | 850591..851550 (+) | 960 | WP_000139695.1 | AAA family ATPase | - |
| LDO90_RS04075 | - | 851550..852317 (+) | 768 | WP_224067543.1 | hypothetical protein | - |
| LDO90_RS04080 | - | 852416..853369 (+) | 954 | WP_224067544.1 | DUF3150 domain-containing protein | - |
| LDO90_RS04085 | - | 853431..853871 (+) | 441 | WP_224067545.1 | hypothetical protein | - |
| LDO90_RS04090 | - | 853941..855596 (+) | 1656 | WP_224067546.1 | VWA domain-containing protein | - |
| LDO90_RS04095 | radC | 855680..856177 (+) | 498 | WP_000797298.1 | DNA repair protein RadC | - |
| LDO90_RS04100 | - | 856177..856518 (+) | 342 | WP_224067547.1 | plasmid-related protein | - |
| LDO90_RS04105 | - | 856610..857683 (+) | 1074 | WP_224067548.1 | primase-helicase zinc-binding domain-containing protein | - |
| LDO90_RS04110 | - | 857773..858471 (+) | 699 | WP_224067549.1 | hypothetical protein | - |
| LDO90_RS04115 | rsgA | 858562..859599 (-) | 1038 | WP_193021840.1 | ribosome small subunit-dependent GTPase A | - |
| LDO90_RS04120 | - | 859609..860151 (-) | 543 | WP_193021841.1 | GNAT family N-acetyltransferase | - |
Sequence
Protein
Download Length: 227 a.a. Molecular weight: 26391.52 Da Isoelectric Point: 7.5402
>NTDB_id=89986 LDO90_RS04035 WP_224067540.1 845657..846340(-) (ideA) [Vibrio penaeicida strain IFO 15641]
MNRTNFLVTFLIALFAIPAFAEHPTSFSQAKRFAREIYQDNQSTFYCGCSYNNDGAIDAASCGYEPRKQPKRGERLEWEH
VASAWEIGHQRQCWQNGGRRNCEKNDPEFSKMVSDLHNLVPSVGELNGDRSNFRFGMIPNEPRAYGLCDFEVDFKDRRAE
PPANRQGDIARIYFYMRDQYGLRLSRQQTQLFEAWSRMDPVDEWEKLRDLRIRGIQGKSNCYVSGSC
MNRTNFLVTFLIALFAIPAFAEHPTSFSQAKRFAREIYQDNQSTFYCGCSYNNDGAIDAASCGYEPRKQPKRGERLEWEH
VASAWEIGHQRQCWQNGGRRNCEKNDPEFSKMVSDLHNLVPSVGELNGDRSNFRFGMIPNEPRAYGLCDFEVDFKDRRAE
PPANRQGDIARIYFYMRDQYGLRLSRQQTQLFEAWSRMDPVDEWEKLRDLRIRGIQGKSNCYVSGSC
Nucleotide
Download Length: 684 bp
>NTDB_id=89986 LDO90_RS04035 WP_224067540.1 845657..846340(-) (ideA) [Vibrio penaeicida strain IFO 15641]
ATGAATAGAACTAATTTTCTCGTTACCTTCTTAATAGCGTTGTTCGCTATCCCTGCATTTGCAGAACACCCAACATCGTT
CAGCCAGGCAAAACGATTTGCCCGAGAAATTTACCAAGACAACCAGAGTACGTTTTACTGTGGATGTAGCTATAACAATG
ATGGTGCGATTGATGCTGCATCTTGCGGATATGAACCAAGGAAGCAACCGAAACGAGGAGAACGCTTAGAGTGGGAGCAC
GTTGCCTCAGCTTGGGAAATTGGCCATCAACGCCAATGCTGGCAAAATGGTGGTCGTCGGAACTGTGAAAAGAATGATCC
TGAGTTTTCTAAAATGGTGTCGGATCTCCATAACCTTGTACCATCTGTAGGAGAACTCAATGGGGATAGATCAAATTTTC
GATTTGGCATGATTCCGAATGAACCAAGAGCCTATGGTCTATGTGATTTCGAAGTTGATTTCAAAGACCGTCGAGCAGAA
CCACCAGCTAACCGTCAGGGTGATATTGCTAGAATTTATTTCTACATGCGAGATCAATACGGCCTAAGACTAAGCAGACA
ACAAACTCAGCTATTTGAAGCTTGGTCAAGAATGGACCCTGTTGATGAGTGGGAAAAATTACGTGATTTGAGGATTAGAG
GCATTCAAGGTAAGTCTAATTGCTATGTATCAGGCAGCTGCTAG
ATGAATAGAACTAATTTTCTCGTTACCTTCTTAATAGCGTTGTTCGCTATCCCTGCATTTGCAGAACACCCAACATCGTT
CAGCCAGGCAAAACGATTTGCCCGAGAAATTTACCAAGACAACCAGAGTACGTTTTACTGTGGATGTAGCTATAACAATG
ATGGTGCGATTGATGCTGCATCTTGCGGATATGAACCAAGGAAGCAACCGAAACGAGGAGAACGCTTAGAGTGGGAGCAC
GTTGCCTCAGCTTGGGAAATTGGCCATCAACGCCAATGCTGGCAAAATGGTGGTCGTCGGAACTGTGAAAAGAATGATCC
TGAGTTTTCTAAAATGGTGTCGGATCTCCATAACCTTGTACCATCTGTAGGAGAACTCAATGGGGATAGATCAAATTTTC
GATTTGGCATGATTCCGAATGAACCAAGAGCCTATGGTCTATGTGATTTCGAAGTTGATTTCAAAGACCGTCGAGCAGAA
CCACCAGCTAACCGTCAGGGTGATATTGCTAGAATTTATTTCTACATGCGAGATCAATACGGCCTAAGACTAAGCAGACA
ACAAACTCAGCTATTTGAAGCTTGGTCAAGAATGGACCCTGTTGATGAGTGGGAAAAATTACGTGATTTGAGGATTAGAG
GCATTCAAGGTAAGTCTAATTGCTATGTATCAGGCAGCTGCTAG
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| ideA | Vibrio cholerae O1 str. 2010EL-1786 |
98.678 |
100 |
0.987 |
| dns | Vibrio parahaemolyticus RIMD 2210633 |
51.965 |
100 |
0.524 |
| dns | Aliivibrio fischeri ES114 |
51.739 |
100 |
0.524 |
| dns | Vibrio cholerae strain A1552 |
50.667 |
99.119 |
0.502 |
| dns | Campylobacter jejuni RM1221 |
38.393 |
98.678 |
0.379 |