Detailed information
Bioinformatically predicted
Overview
| Name | radA | Type | Machinery gene |
| Locus tag | HRJ99_RS06235 | Genome accession | NZ_CP054084 |
| Coordinates | 1266817..1268178 (+) | Length | 453 a.a. |
| NCBI ID | WP_010930258.1 | Uniprot ID | A0AAI9J212 |
| Organism | Bordetella pertussis strain NZ47 | ||
| 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) |
|---|---|---|---|---|
| Prophage | 1216227..1268178 | 1266817..1268178 | within | 0 |
Gene organization within MGE regions
Location: 1216227..1268178
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HRJ99_RS05955 (HRJ99_05910) | - | 1216227..1216580 (-) | 354 | WP_010930230.1 | NirD/YgiW/YdeI family stress tolerance protein | - |
| HRJ99_RS05960 (HRJ99_05915) | - | 1216664..1217653 (-) | 990 | WP_010930231.1 | M14 family metallopeptidase | - |
| HRJ99_RS05965 (HRJ99_05920) | - | 1217650..1217838 (-) | 189 | WP_023852977.1 | hypothetical protein | - |
| HRJ99_RS05970 (HRJ99_05925) | - | 1217856..1218806 (+) | 951 | WP_076879566.1 | IS481-like element IS481 family transposase | - |
| HRJ99_RS05975 (HRJ99_05930) | - | 1218905..1219855 (+) | 951 | WP_023995294.1 | IS481-like element IS481 family transposase | - |
| HRJ99_RS05980 (HRJ99_05935) | - | 1219921..1220784 (-) | 864 | WP_010930232.1 | DMT family transporter | - |
| HRJ99_RS05985 (HRJ99_05940) | - | 1220905..1221069 (-) | 165 | WP_019247643.1 | hypothetical protein | - |
| HRJ99_RS05990 (HRJ99_05945) | - | 1221130..1222065 (-) | 936 | WP_010930233.1 | LysR family transcriptional regulator | - |
| HRJ99_RS05995 (HRJ99_05950) | - | 1222178..1222915 (-) | 738 | WP_010930234.1 | amino acid ABC transporter ATP-binding protein | - |
| HRJ99_RS06000 (HRJ99_05955) | - | 1222935..1223624 (-) | 690 | WP_003810420.1 | amino acid ABC transporter permease | - |
| HRJ99_RS06005 (HRJ99_05960) | - | 1223617..1224306 (-) | 690 | WP_003810422.1 | amino acid ABC transporter permease | - |
| HRJ99_RS06010 (HRJ99_05965) | - | 1224410..1225126 (-) | 717 | WP_010928212.1 | ABC transporter substrate-binding protein | - |
| HRJ99_RS06015 (HRJ99_05970) | - | 1225289..1226491 (-) | 1203 | WP_010930235.1 | aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme | - |
| HRJ99_RS06020 (HRJ99_05975) | - | 1226488..1227168 (-) | 681 | WP_010930236.1 | RraA family protein | - |
| HRJ99_RS06025 (HRJ99_05980) | - | 1227454..1227648 (+) | 195 | WP_019247642.1 | hypothetical protein | - |
| HRJ99_RS06030 (HRJ99_05985) | - | 1227805..1228689 (+) | 885 | WP_010930237.1 | hypothetical protein | - |
| HRJ99_RS06035 (HRJ99_05990) | - | 1228701..1228919 (+) | 219 | WP_010930238.1 | oxidoreductase-like domain-containing protein | - |
| HRJ99_RS06040 (HRJ99_05995) | - | 1228927..1229355 (-) | 429 | WP_003818579.1 | copper resistance protein NlpE | - |
| HRJ99_RS06045 (HRJ99_06000) | - | 1229583..1230029 (+) | 447 | WP_003810437.1 | carboxymuconolactone decarboxylase family protein | - |
| HRJ99_RS06050 (HRJ99_06005) | - | 1230022..1230927 (+) | 906 | WP_003818580.1 | sigma-70 family RNA polymerase sigma factor | - |
| HRJ99_RS06055 (HRJ99_06010) | - | 1231072..1231398 (+) | 327 | WP_003818581.1 | hypothetical protein | - |
| HRJ99_RS06060 (HRJ99_06015) | - | 1231423..1231641 (+) | 219 | WP_003810443.1 | DUF3820 family protein | - |
| HRJ99_RS06065 (HRJ99_06020) | - | 1231691..1232308 (+) | 618 | WP_010930239.1 | NUDIX hydrolase | - |
| HRJ99_RS06070 (HRJ99_06025) | - | 1232305..1232646 (+) | 342 | WP_003818584.1 | 2Fe-2S iron-sulfur cluster-binding protein | - |
| HRJ99_RS06075 (HRJ99_06030) | - | 1232680..1233834 (-) | 1155 | WP_010930240.1 | hypothetical protein | - |
| HRJ99_RS06080 (HRJ99_06035) | btr | 1233831..1234559 (-) | 729 | WP_010930241.1 | oxygen-responsive transcriptional regulator Btr | - |
| HRJ99_RS06085 (HRJ99_06040) | clpB | 1234897..1237494 (+) | 2598 | WP_010930242.1 | ATP-dependent chaperone ClpB | - |
| HRJ99_RS06090 (HRJ99_06045) | - | 1237810..1238148 (+) | 339 | Protein_1199 | autotransporter outer membrane beta-barrel domain-containing protein | - |
| HRJ99_RS06095 (HRJ99_06050) | - | 1238251..1239201 (+) | 951 | WP_005012067.1 | IS481-like element IS481 family transposase | - |
| HRJ99_RS06100 (HRJ99_06055) | - | 1239240..1240688 (+) | 1449 | WP_024000529.1 | autotransporter outer membrane beta-barrel domain-containing protein | - |
| HRJ99_RS06105 (HRJ99_06060) | tcfA | 1241072..1243015 (+) | 1944 | WP_010930243.1 | autotransporter TcfA | - |
| HRJ99_RS06110 (HRJ99_06065) | - | 1243112..1243807 (-) | 696 | WP_010930244.1 | TetR family transcriptional regulator | - |
| HRJ99_RS06115 (HRJ99_06070) | - | 1243965..1245173 (+) | 1209 | WP_010930245.1 | Tm-1-like ATP-binding domain-containing protein | - |
| HRJ99_RS06120 (HRJ99_06075) | - | 1245183..1246013 (+) | 831 | WP_010930246.1 | phosphoenolpyruvate hydrolase family protein | - |
| HRJ99_RS06125 (HRJ99_06080) | - | 1246081..1246533 (+) | 453 | WP_010930247.1 | SRPBCC family protein | - |
| HRJ99_RS06130 (HRJ99_06085) | - | 1246541..1247503 (-) | 963 | WP_010930248.1 | LysR family transcriptional regulator | - |
| HRJ99_RS06135 (HRJ99_06090) | - | 1247608..1249050 (+) | 1443 | WP_010930249.1 | N-acyl-D-glutamate deacylase | - |
| HRJ99_RS06140 (HRJ99_06095) | - | 1249101..1250057 (+) | 957 | WP_010930250.1 | tripartite tricarboxylate transporter substrate binding protein BugE | - |
| HRJ99_RS06145 (HRJ99_06100) | - | 1250073..1251452 (-) | 1380 | WP_010930251.1 | sulfite reductase subunit alpha | - |
| HRJ99_RS06150 (HRJ99_06105) | - | 1251452..1252468 (-) | 1017 | WP_010930252.1 | FAD:protein FMN transferase | - |
| HRJ99_RS06155 (HRJ99_06110) | - | 1252473..1253273 (-) | 801 | WP_014905623.1 | DUF4198 domain-containing protein | - |
| HRJ99_RS06160 (HRJ99_06115) | - | 1253303..1253818 (-) | 516 | WP_010930254.1 | DUF2271 domain-containing protein | - |
| HRJ99_RS06165 (HRJ99_06120) | - | 1253841..1254470 (-) | 630 | WP_003810476.1 | PepSY-associated TM helix domain-containing protein | - |
| HRJ99_RS06170 (HRJ99_06125) | - | 1254617..1255564 (+) | 948 | WP_004568579.1 | ATP-binding cassette domain-containing protein | - |
| HRJ99_RS06175 (HRJ99_06130) | - | 1255561..1256346 (+) | 786 | WP_003818606.1 | ABC transporter permease | - |
| HRJ99_RS06180 (HRJ99_06135) | - | 1256435..1256995 (+) | 561 | WP_003818608.1 | HdeD family acid-resistance protein | - |
| HRJ99_RS06185 (HRJ99_06140) | crcB | 1257005..1257391 (+) | 387 | WP_003818609.1 | fluoride efflux transporter CrcB | - |
| HRJ99_RS06190 (HRJ99_06145) | hpnE | 1257414..1258745 (-) | 1332 | WP_010930255.1 | hydroxysqualene dehydroxylase HpnE | - |
| HRJ99_RS06195 (HRJ99_06150) | hpnD | 1258742..1259605 (-) | 864 | WP_010930256.1 | presqualene diphosphate synthase HpnD | - |
| HRJ99_RS06200 (HRJ99_06155) | hpnC | 1259607..1260437 (-) | 831 | WP_003810490.1 | squalene synthase HpnC | - |
| HRJ99_RS06205 (HRJ99_06160) | alr | 1260566..1261693 (+) | 1128 | WP_003810492.1 | alanine racemase | - |
| HRJ99_RS06210 (HRJ99_06165) | - | 1261845..1262561 (+) | 717 | WP_003810494.1 | SDR family oxidoreductase | - |
| HRJ99_RS06215 (HRJ99_06170) | - | 1262575..1263267 (-) | 693 | WP_010930257.1 | membrane protein | - |
| HRJ99_RS06220 (HRJ99_06175) | - | 1263373..1264323 (+) | 951 | WP_005013747.1 | IS481-like element IS481 family transposase | - |
| HRJ99_RS06225 (HRJ99_06180) | - | 1264320..1264898 (-) | 579 | WP_010926777.1 | RNA polymerase sigma factor | - |
| HRJ99_RS06230 (HRJ99_06185) | - | 1264976..1266781 (-) | 1806 | WP_224019273.1 | VWA domain-containing protein | - |
| HRJ99_RS06235 (HRJ99_06190) | radA | 1266817..1268178 (+) | 1362 | WP_010930258.1 | DNA repair protein RadA | Machinery gene |
Sequence
Protein
Download Length: 453 a.a. Molecular weight: 47935.07 Da Isoelectric Point: 7.1753
>NTDB_id=450666 HRJ99_RS06235 WP_010930258.1 1266817..1268178(+) (radA) [Bordetella pertussis strain NZ47]
MAKSRTIYVCAECGGTSLKWQGKCPHCSAWNTLEETVESAAPSAGGHRYAPLAAASPVRSLSEIEARETPRQPTGLDEFD
RVLGGGLVAGAVVLIGGDPGIGKSTLLLQALASLSATTKVLYVTGEESAEQVALRARRLGLQTGNVDLLAEIRLEAIQAA
VSEQKPTVAVIDSIQTLYSGELTAAPGSVSQVRECAAQLTRLAKQTGIAIVMIGHVTKDGALAGPRVLEHIVDTVLYFEG
DTHSSFRLVRAFKNRFGAVNELGVFAMTDRGLRGVANPSALFLSQHQQQVAGSCVLATQEGTRPLLVEVQALVDTSHAPN
PRRLTVGLEGNRLAMLLAVMHRHAGVSTYDQDVFVNAVGGVRITEPAADLPVLLAIMSSLRDKPLPAGLVAFGEIGLAGE
IRPAPRGQERLREAAKLGFSVALIPKANAPRQPIEGLEIWAVDRLDAALDKLR
MAKSRTIYVCAECGGTSLKWQGKCPHCSAWNTLEETVESAAPSAGGHRYAPLAAASPVRSLSEIEARETPRQPTGLDEFD
RVLGGGLVAGAVVLIGGDPGIGKSTLLLQALASLSATTKVLYVTGEESAEQVALRARRLGLQTGNVDLLAEIRLEAIQAA
VSEQKPTVAVIDSIQTLYSGELTAAPGSVSQVRECAAQLTRLAKQTGIAIVMIGHVTKDGALAGPRVLEHIVDTVLYFEG
DTHSSFRLVRAFKNRFGAVNELGVFAMTDRGLRGVANPSALFLSQHQQQVAGSCVLATQEGTRPLLVEVQALVDTSHAPN
PRRLTVGLEGNRLAMLLAVMHRHAGVSTYDQDVFVNAVGGVRITEPAADLPVLLAIMSSLRDKPLPAGLVAFGEIGLAGE
IRPAPRGQERLREAAKLGFSVALIPKANAPRQPIEGLEIWAVDRLDAALDKLR
Nucleotide
Download Length: 1362 bp
>NTDB_id=450666 HRJ99_RS06235 WP_010930258.1 1266817..1268178(+) (radA) [Bordetella pertussis strain NZ47]
ATGGCGAAATCCCGAACCATCTATGTCTGCGCCGAATGCGGCGGCACCAGCCTCAAGTGGCAAGGCAAGTGCCCGCACTG
CTCGGCCTGGAATACCCTGGAAGAAACCGTGGAGTCCGCCGCGCCCTCGGCCGGCGGGCATCGCTACGCGCCCCTGGCGG
CAGCCAGCCCGGTGCGCAGCTTGTCCGAAATCGAAGCGCGCGAGACGCCGCGCCAGCCCACCGGACTGGACGAGTTCGAC
CGCGTGCTGGGCGGCGGGCTGGTCGCCGGCGCGGTGGTGCTGATCGGCGGCGACCCCGGCATCGGCAAGTCCACGCTGCT
GCTGCAGGCGCTGGCCTCGCTGTCGGCCACGACCAAGGTGTTGTACGTCACCGGTGAAGAGTCGGCCGAACAGGTCGCGC
TGCGGGCGCGCCGGCTGGGCCTGCAGACCGGCAATGTCGACTTGCTGGCCGAGATCCGGCTCGAGGCGATCCAGGCGGCC
GTGTCCGAACAGAAGCCGACCGTGGCGGTGATCGATTCGATCCAGACGCTCTACAGCGGCGAGCTGACCGCCGCGCCGGG
CTCGGTGTCCCAGGTGCGCGAATGCGCGGCGCAGCTGACGCGGCTGGCCAAGCAGACCGGCATCGCCATCGTGATGATCG
GCCACGTCACCAAGGACGGCGCGCTGGCCGGACCGCGCGTGCTCGAACACATCGTCGACACGGTGCTGTACTTCGAGGGC
GACACGCATTCGTCGTTTCGCCTGGTGCGCGCGTTCAAGAACCGCTTCGGCGCCGTCAACGAGCTGGGCGTGTTCGCCAT
GACCGACCGCGGCCTGCGCGGCGTGGCCAATCCGTCCGCGCTGTTTCTCTCGCAGCACCAGCAGCAGGTGGCCGGTTCCT
GCGTGCTGGCGACCCAGGAAGGGACGCGCCCGCTGCTGGTGGAAGTGCAGGCGCTCGTCGATACTTCGCATGCGCCCAAT
CCGCGCCGCCTGACGGTGGGGCTGGAGGGTAATCGCCTGGCCATGCTGCTGGCCGTCATGCACCGCCATGCGGGCGTCTC
GACCTACGACCAGGACGTATTCGTCAATGCCGTGGGCGGGGTGCGCATCACCGAGCCGGCGGCCGACCTGCCGGTACTGC
TGGCCATCATGTCATCGCTGCGCGACAAGCCGCTGCCCGCCGGCCTGGTGGCGTTCGGCGAGATCGGCCTGGCCGGCGAG
ATCCGGCCCGCGCCGCGCGGCCAGGAGCGCCTGCGCGAAGCGGCCAAGCTGGGGTTCAGCGTTGCGCTGATTCCCAAGGC
CAATGCGCCGCGCCAGCCTATCGAAGGGCTGGAGATATGGGCCGTGGATCGGCTGGACGCCGCCCTGGACAAATTGCGTT
GA
ATGGCGAAATCCCGAACCATCTATGTCTGCGCCGAATGCGGCGGCACCAGCCTCAAGTGGCAAGGCAAGTGCCCGCACTG
CTCGGCCTGGAATACCCTGGAAGAAACCGTGGAGTCCGCCGCGCCCTCGGCCGGCGGGCATCGCTACGCGCCCCTGGCGG
CAGCCAGCCCGGTGCGCAGCTTGTCCGAAATCGAAGCGCGCGAGACGCCGCGCCAGCCCACCGGACTGGACGAGTTCGAC
CGCGTGCTGGGCGGCGGGCTGGTCGCCGGCGCGGTGGTGCTGATCGGCGGCGACCCCGGCATCGGCAAGTCCACGCTGCT
GCTGCAGGCGCTGGCCTCGCTGTCGGCCACGACCAAGGTGTTGTACGTCACCGGTGAAGAGTCGGCCGAACAGGTCGCGC
TGCGGGCGCGCCGGCTGGGCCTGCAGACCGGCAATGTCGACTTGCTGGCCGAGATCCGGCTCGAGGCGATCCAGGCGGCC
GTGTCCGAACAGAAGCCGACCGTGGCGGTGATCGATTCGATCCAGACGCTCTACAGCGGCGAGCTGACCGCCGCGCCGGG
CTCGGTGTCCCAGGTGCGCGAATGCGCGGCGCAGCTGACGCGGCTGGCCAAGCAGACCGGCATCGCCATCGTGATGATCG
GCCACGTCACCAAGGACGGCGCGCTGGCCGGACCGCGCGTGCTCGAACACATCGTCGACACGGTGCTGTACTTCGAGGGC
GACACGCATTCGTCGTTTCGCCTGGTGCGCGCGTTCAAGAACCGCTTCGGCGCCGTCAACGAGCTGGGCGTGTTCGCCAT
GACCGACCGCGGCCTGCGCGGCGTGGCCAATCCGTCCGCGCTGTTTCTCTCGCAGCACCAGCAGCAGGTGGCCGGTTCCT
GCGTGCTGGCGACCCAGGAAGGGACGCGCCCGCTGCTGGTGGAAGTGCAGGCGCTCGTCGATACTTCGCATGCGCCCAAT
CCGCGCCGCCTGACGGTGGGGCTGGAGGGTAATCGCCTGGCCATGCTGCTGGCCGTCATGCACCGCCATGCGGGCGTCTC
GACCTACGACCAGGACGTATTCGTCAATGCCGTGGGCGGGGTGCGCATCACCGAGCCGGCGGCCGACCTGCCGGTACTGC
TGGCCATCATGTCATCGCTGCGCGACAAGCCGCTGCCCGCCGGCCTGGTGGCGTTCGGCGAGATCGGCCTGGCCGGCGAG
ATCCGGCCCGCGCCGCGCGGCCAGGAGCGCCTGCGCGAAGCGGCCAAGCTGGGGTTCAGCGTTGCGCTGATTCCCAAGGC
CAATGCGCCGCGCCAGCCTATCGAAGGGCTGGAGATATGGGCCGTGGATCGGCTGGACGCCGCCCTGGACAAATTGCGTT
GA
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| radA | Bacillus subtilis subsp. subtilis str. 168 |
48.904 |
100 |
0.492 |
| radA | Streptococcus mitis NCTC 12261 |
46.07 |
100 |
0.466 |
| radA | Streptococcus pneumoniae D39 |
48.26 |
95.143 |
0.459 |
| radA | Streptococcus pneumoniae TIGR4 |
48.26 |
95.143 |
0.459 |
| radA | Streptococcus mitis SK321 |
48.26 |
95.143 |
0.459 |
| radA | Streptococcus pneumoniae R6 |
48.26 |
95.143 |
0.459 |
| radA | Streptococcus pneumoniae Rx1 |
48.26 |
95.143 |
0.459 |