Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   ACIVIR_RS02290 Genome accession   NZ_CP173225
Coordinates   416689..418050 (+) Length   453 a.a.
NCBI ID   WP_074017595.1    Uniprot ID   A0A237IXT5
Organism   Streptococcus pneumoniae strain 262     
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 367983..428796 416689..418050 within 0


Gene organization within MGE regions


Location: 367983..428796
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACIVIR_RS01995 ftsH 367983..369941 (+) 1959 WP_000744557.1 ATP-dependent zinc metalloprotease FtsH -
  ACIVIR_RS02000 - 370006..371253 (-) 1248 WP_114880800.1 ISL3 family transposase -
  ACIVIR_RS02005 comX/comX2 371477..371956 (+) 480 WP_000588874.1 sigma-70 family RNA polymerase sigma factor Regulator
  ACIVIR_RS02040 - 377383..378180 (-) 798 Protein_353 transposase -
  ACIVIR_RS02045 comW 378446..378682 (+) 237 WP_000939545.1 sigma(X)-activator ComW Regulator
  ACIVIR_RS02050 - 378913..380199 (+) 1287 WP_000205044.1 adenylosuccinate synthase -
  ACIVIR_RS02055 - 380441..381589 (-) 1149 WP_000876732.1 site-specific integrase -
  ACIVIR_RS02060 - 381775..382698 (-) 924 WP_000122591.1 exonuclease domain-containing protein -
  ACIVIR_RS02065 - 382711..383094 (-) 384 WP_001865140.1 ImmA/IrrE family metallo-endopeptidase -
  ACIVIR_RS02070 - 383107..383472 (-) 366 WP_000492031.1 helix-turn-helix domain-containing protein -
  ACIVIR_RS02075 - 383778..384260 (-) 483 WP_000842471.1 hypothetical protein -
  ACIVIR_RS02080 - 384315..384518 (+) 204 WP_000032096.1 hypothetical protein -
  ACIVIR_RS02085 - 384535..384732 (+) 198 WP_001057654.1 hypothetical protein -
  ACIVIR_RS02090 - 384848..385507 (-) 660 WP_001865135.1 hypothetical protein -
  ACIVIR_RS02095 - 385561..386277 (+) 717 WP_001865134.1 ORF6C domain-containing protein -
  ACIVIR_RS02100 - 386290..386547 (+) 258 WP_000370959.1 hypothetical protein -
  ACIVIR_RS02105 - 386633..386953 (+) 321 WP_000462826.1 hypothetical protein -
  ACIVIR_RS02110 - 386969..387265 (+) 297 WP_001865133.1 hypothetical protein -
  ACIVIR_RS02115 - 387258..388064 (+) 807 WP_054387342.1 phage replisome organizer N-terminal domain-containing protein -
  ACIVIR_RS02120 - 388204..388974 (+) 771 WP_000228214.1 ATP-binding protein -
  ACIVIR_RS02125 - 388989..389183 (+) 195 WP_000470305.1 hypothetical protein -
  ACIVIR_RS02130 - 389183..389410 (+) 228 WP_050267377.1 hypothetical protein -
  ACIVIR_RS02135 - 389537..389704 (+) 168 WP_000233203.1 hypothetical protein -
  ACIVIR_RS02140 - 390032..390385 (+) 354 WP_001177094.1 helix-turn-helix domain-containing protein -
  ACIVIR_RS02145 - 390367..390831 (+) 465 WP_000516820.1 hypothetical protein -
  ACIVIR_RS02150 - 390940..391482 (+) 543 WP_001028147.1 site-specific integrase -
  ACIVIR_RS02155 - 392023..392229 (+) 207 WP_223842409.1 HNH endonuclease -
  ACIVIR_RS02160 - 392366..392860 (+) 495 WP_054387340.1 hypothetical protein -
  ACIVIR_RS02165 - 392853..394565 (+) 1713 WP_000230006.1 terminase TerL endonuclease subunit -
  ACIVIR_RS02170 - 394574..395716 (+) 1143 WP_001812652.1 phage portal protein -
  ACIVIR_RS02175 - 395763..396305 (+) 543 WP_000413203.1 HK97 family phage prohead protease -
  ACIVIR_RS02180 - 396320..397573 (+) 1254 WP_000855224.1 phage major capsid protein -
  ACIVIR_RS02185 - 397599..397934 (+) 336 WP_000154006.1 hypothetical protein -
  ACIVIR_RS02190 - 397931..398236 (+) 306 WP_000842790.1 head-tail adaptor protein -
  ACIVIR_RS02195 - 398236..398583 (+) 348 WP_001074487.1 hypothetical protein -
  ACIVIR_RS02200 - 398570..398914 (+) 345 WP_000534621.1 hypothetical protein -
  ACIVIR_RS02205 - 398928..399596 (+) 669 WP_000221469.1 hypothetical protein -
  ACIVIR_RS02210 - 399598..400074 (+) 477 WP_000591561.1 hypothetical protein -
  ACIVIR_RS02215 - 400261..402999 (+) 2739 WP_000852167.1 phage tail tape measure protein -
  ACIVIR_RS02220 - 402996..403718 (+) 723 WP_050199190.1 phage tail protein -
  ACIVIR_RS02225 - 403719..411680 (+) 7962 WP_114880801.1 phage tail spike protein -
  ACIVIR_RS02230 - 411677..411793 (+) 117 WP_001063633.1 hypothetical protein -
  ACIVIR_RS02235 - 411774..411977 (+) 204 WP_001091109.1 hypothetical protein -
  ACIVIR_RS02240 - 411980..412330 (+) 351 WP_000852248.1 hypothetical protein -
  ACIVIR_RS02245 - 412340..412756 (+) 417 WP_001165341.1 phage holin family protein -
  ACIVIR_RS02250 - 412760..413092 (+) 333 WP_001186207.1 phage holin -
  ACIVIR_RS02255 lytA 413096..414052 (+) 957 WP_000350489.1 N-acetylmuramoyl-L-alanine amidase LytA -
  ACIVIR_RS02260 - 414321..414500 (-) 180 WP_001233269.1 hypothetical protein -
  ACIVIR_RS02265 - 414642..414791 (-) 150 WP_162489709.1 hypothetical protein -
  ACIVIR_RS02270 tadA 415061..415528 (+) 468 WP_000291874.1 tRNA adenosine(34) deaminase TadA -
  ACIVIR_RS02280 - 415715..416158 (+) 444 WP_000701992.1 dUTP diphosphatase -
  ACIVIR_RS02285 - 416160..416675 (+) 516 WP_000691236.1 histidine phosphatase family protein -
  ACIVIR_RS02290 radA 416689..418050 (+) 1362 WP_074017595.1 DNA repair protein RadA Machinery gene
  ACIVIR_RS02295 - 418123..418620 (+) 498 WP_001809263.1 carbonic anhydrase -
  ACIVIR_RS02300 - 418645..419459 (+) 815 Protein_404 PrsW family intramembrane metalloprotease -
  ACIVIR_RS02305 - 419604..420572 (+) 969 WP_000010163.1 ribose-phosphate diphosphokinase -
  ACIVIR_RS02310 - 420690..421635 (+) 946 Protein_406 Rpn family recombination-promoting nuclease/putative transposase -
  ACIVIR_RS02315 polA 422138..424771 (+) 2634 WP_050279195.1 DNA polymerase I -
  ACIVIR_RS02320 - 424856..425293 (+) 438 WP_000076479.1 CoA-binding protein -
  ACIVIR_RS02325 - 425334..425672 (+) 339 WP_061849647.1 hypothetical protein -
  ACIVIR_RS02330 - 425701..426711 (-) 1011 WP_000009175.1 YeiH family protein -
  ACIVIR_RS02335 - 426860..428029 (+) 1170 WP_000366348.1 pyridoxal phosphate-dependent aminotransferase -
  ACIVIR_RS02340 recO 428026..428796 (+) 771 WP_050220959.1 DNA repair protein RecO -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49432.95 Da        Isoelectric Point: 6.5137

>NTDB_id=1070797 ACIVIR_RS02290 WP_074017595.1 416689..418050(+) (radA) [Streptococcus pneumoniae strain 262]
MAKKKATFVCQNCGYNSPKYLGRCPNCGSWSSFVEEVEVAEVKNARVSLTGEKTKPMKLAEVTSINVNRTKTEMEEFNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSVRAEVE
RIQPDFLIIDSIQTIMSPEISGVQGSVSQVREVTAELMQLAKTNNIAIFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVTPTMFGNAK
RTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIR
RVNRIEQRINEAAKLGFTKIYVPKNSLTGITLPKEIQVIGVTTIQEVLKKVFA

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=1070797 ACIVIR_RS02290 WP_074017595.1 416689..418050(+) (radA) [Streptococcus pneumoniae strain 262]
ATCGCAAAGAAAAAAGCGACATTTGTATGTCAAAATTGTGGGTATAATTCCCCTAAATATCTGGGACGTTGCCCCAACTG
TGGGTCTTGGTCTTCTTTTGTGGAAGAGGTTGAGGTTGCCGAAGTTAAGAATGCGCGTGTGTCCTTGACAGGTGAGAAAA
CCAAGCCCATGAAACTAGCTGAGGTGACTTCCATCAATGTCAATCGAACCAAGACGGAGATGGAGGAATTCAACCGTGTG
CTTGGAGGCGGAGTGGTACCAGGAAGTCTCGTCCTTATCGGTGGGGATCCTGGGATTGGGAAATCAACTCTTCTCCTACA
AGTCTCAACCCAGTTGTCCCAAGTGGGGACAGTTCTCTATGTCAGTGGGGAGGAGTCTGCCCAGCAGATTAAACTACGTG
CAGAGCGCTTAGGTGATATTGATAGTGAGTTTTATCTCTATGCAGAGACCAATATGCAGAGTGTTCGTGCAGAAGTGGAG
CGTATCCAGCCAGACTTTCTCATTATTGATTCCATCCAGACCATCATGTCTCCTGAGATTTCAGGGGTGCAGGGGTCTGT
TTCTCAGGTGCGTGAAGTGACCGCTGAACTCATGCAGTTGGCCAAGACCAATAACATTGCCATCTTTATCGTAGGTCATG
TGACCAAAGAAGGAACCTTGGCTGGGCCTCGTATGTTGGAGCATATGGTGGATACGGTGCTTTACTTTGAAGGGGAGCGT
CACCACACCTTTCGTATTTTGAGAGCGGTCAAAAATCGTTTTGGTTCCACTAATGAGATTGGGATTTTTGAGATGCAGTC
GGGCGGCTTGGTTGAGGTACTAAATCCGAGTCAAGTTTTCCTAGAAGAGCGTTTGGATGGGGCGACTGGTTCCTCCATCG
TTGTAACCATGGAAGGGACGCGTCCGATTTTGGCGGAGGTTCAGGCTTTGGTAACACCGACCATGTTTGGAAATGCCAAG
CGTACTACGACAGGACTTGATTTTAACCGTGCTAGCTTGATTATGGCTGTTTTGGAAAAACGGGCAGGGCTTCTCTTGCA
AAATCAGGATGCCTATCTCAAATCTGCTGGTGGTGTTAAATTGGATGAACCTGCGATTGACTTGGCTGTTGCAGTTGCTA
TTGCTTCGAGCTACAAAGACAAGCCAACTAATCCTCAGGAATGTTTTGTCGGAGAACTGGGCTTGACAGGAGAGATTCGG
CGCGTGAATCGTATTGAGCAACGCATCAACGAAGCTGCTAAACTGGGCTTTACTAAGATTTATGTACCTAAGAATTCCTT
GACAGGAATCACTCTGCCTAAGGAAATTCAGGTCATTGGCGTGACAACGATTCAGGAAGTTTTGAAAAAGGTCTTTGCAT
AA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(63-218)

Subunit ChlI of Mg-chelatase (ChlI)

(360-425)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  PDB 8RXC

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  radA Streptococcus pneumoniae Rx1

100

100

1
  radA Streptococcus pneumoniae D39

100

100

1
  radA Streptococcus pneumoniae R6

100

100

1
  radA Streptococcus pneumoniae TIGR4

100

100

1
  radA Streptococcus mitis NCTC 12261

99.558

100

0.996
  radA Streptococcus mitis SK321

99.558

100

0.996
  radA Bacillus subtilis subsp. subtilis str. 168

63.135

100

0.631

Multiple sequence alignment