Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   ZMTM_RS06480 Genome accession   NZ_AP024110
Coordinates   1344097..1345455 (+) Length   452 a.a.
NCBI ID   WP_221765454.1    Uniprot ID   -
Organism   Methyloradius palustris strain Zm11     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1339097..1350455
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ZMTM_RS06450 (ZMTM_12350) rpsF 1340117..1340491 (+) 375 WP_221765450.1 30S ribosomal protein S6 -
  ZMTM_RS06455 (ZMTM_12360) priB 1340524..1340820 (+) 297 WP_318840546.1 primosomal replication protein N -
  ZMTM_RS06460 (ZMTM_12370) rpsR 1340833..1341060 (+) 228 WP_013442287.1 30S ribosomal protein S18 -
  ZMTM_RS06465 (ZMTM_12380) rplI 1341071..1341520 (+) 450 WP_221765451.1 50S ribosomal protein L9 -
  ZMTM_RS06470 (ZMTM_12390) dnaB 1341645..1343021 (+) 1377 WP_221765452.1 replicative DNA helicase -
  ZMTM_RS06475 (ZMTM_12400) alr 1343028..1344104 (+) 1077 WP_221765453.1 alanine racemase -
  ZMTM_RS06480 (ZMTM_12410) radA 1344097..1345455 (+) 1359 WP_221765454.1 DNA repair protein RadA Machinery gene
  ZMTM_RS06485 (ZMTM_12420) - 1345487..1346302 (-) 816 WP_221765455.1 SDR family NAD(P)-dependent oxidoreductase -
  ZMTM_RS06490 (ZMTM_12430) - 1346331..1346726 (-) 396 WP_221765456.1 phage holin family protein -
  ZMTM_RS06495 (ZMTM_12440) hpnE 1346723..1348036 (-) 1314 WP_221765457.1 hydroxysqualene dehydroxylase HpnE -
  ZMTM_RS06500 (ZMTM_12450) hpnD 1348021..1348857 (-) 837 WP_221765458.1 presqualene diphosphate synthase HpnD -
  ZMTM_RS06505 (ZMTM_12460) hpnC 1348876..1349739 (-) 864 WP_221765459.1 squalene synthase HpnC -

Sequence

Protein


Download         Length: 452 a.a.        Molecular weight: 48580.25 Da        Isoelectric Point: 7.4277

>NTDB_id=83487 ZMTM_RS06480 WP_221765454.1 1344097..1345455(+) (radA) [Methyloradius palustris strain Zm11]
MAKAKTIYTCTECGGQSPKWQGQCPSCMAWNTLVETIAEAPTVNRYASLAPTAGLQKLSEVEAAEILRQPTGISEFDRVL
GGGLVPGGVVLIGGDPGIGKSTLLLQTLCHVGKQRKALYVSGEESPQQIAMRARRLELDASPVELLAEIQLEKILTVLQT
HKPDIAVIDSIQTVYSELLQSAPGSVAQVRECSAQLTRAAKQLGITVILVGHVTKEGSLAGPRVLEHIVDTVLYFEGDQN
SSFRLIRAFKNRFGAVNELGVFAMTEKGLREVSNPSALFLSHHAEQVAGSCITVTQEGTRPLLIEIQALVDEAHAPNPKR
LCVGLEQNRLAMLLAVLHRHAGVACFDQDVFINAVGGVKIAEPAVDLAVLLSIVSSLKNKSLDNKLVVFGEVGLAGEVRP
VQRGQERLKEAAKLGFTKAIVPKANAPKQPIKGIEVIGVERLEEALNHLRNH

Nucleotide


Download         Length: 1359 bp        

>NTDB_id=83487 ZMTM_RS06480 WP_221765454.1 1344097..1345455(+) (radA) [Methyloradius palustris strain Zm11]
ATGGCTAAAGCAAAGACGATCTATACCTGCACCGAATGCGGCGGACAATCGCCCAAATGGCAAGGTCAATGCCCAAGTTG
CATGGCCTGGAATACCTTGGTGGAGACGATTGCAGAGGCGCCTACCGTTAATCGCTATGCCTCTTTAGCGCCCACCGCTG
GCTTACAGAAGCTATCAGAGGTTGAAGCTGCGGAAATTCTACGGCAACCTACAGGTATTAGTGAGTTTGATCGTGTGCTT
GGTGGTGGGCTTGTACCAGGCGGCGTTGTTTTAATTGGCGGTGATCCAGGAATTGGTAAGTCCACATTGCTGCTGCAAAC
GCTCTGCCATGTGGGCAAGCAACGCAAAGCCCTATATGTGAGTGGTGAAGAATCTCCACAACAGATTGCCATGCGTGCTA
GGCGGCTGGAGTTGGATGCAAGCCCAGTAGAATTGCTGGCCGAAATCCAGCTTGAAAAAATTCTGACCGTACTACAAACG
CATAAGCCTGATATTGCCGTGATTGATTCGATTCAAACGGTATATTCGGAGTTATTGCAGTCTGCGCCTGGCTCTGTGGC
ACAGGTGCGCGAGTGCTCGGCGCAGCTTACGCGTGCTGCCAAGCAGTTAGGGATTACGGTTATATTGGTTGGCCACGTTA
CCAAAGAAGGTTCGCTGGCTGGGCCACGTGTACTTGAGCATATCGTTGATACCGTCCTCTATTTCGAGGGTGATCAGAAC
TCCAGTTTTCGATTGATACGCGCTTTCAAGAATCGCTTTGGCGCAGTCAATGAACTGGGCGTGTTTGCCATGACAGAGAA
AGGTTTGCGCGAAGTCAGCAATCCATCAGCCTTATTTTTATCGCATCACGCGGAGCAGGTCGCTGGTTCTTGCATTACGG
TAACGCAAGAGGGTACCAGGCCGTTACTCATTGAGATTCAGGCGCTAGTGGACGAAGCCCATGCGCCTAATCCTAAACGC
TTGTGTGTAGGGCTTGAGCAAAACCGATTGGCCATGTTGTTGGCAGTGCTGCATCGCCATGCTGGCGTGGCCTGTTTCGA
TCAGGATGTATTTATTAACGCAGTTGGTGGGGTCAAGATAGCGGAGCCAGCAGTCGATTTGGCTGTGCTTTTATCTATCG
TTTCTTCTTTAAAAAACAAATCACTAGATAACAAACTTGTTGTATTTGGTGAGGTTGGATTGGCGGGGGAAGTACGCCCT
GTTCAACGTGGGCAAGAGCGCCTTAAAGAAGCCGCAAAACTGGGGTTTACCAAGGCTATTGTGCCTAAAGCCAATGCGCC
CAAGCAGCCTATCAAAGGGATCGAAGTGATTGGTGTAGAACGTCTGGAAGAAGCTTTAAACCACTTACGGAATCATTAA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(342-425)

AAA domain (AAA_25)

(75-217)


Secondary structure

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



3D structure

Source ID Structure

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 Bacillus subtilis subsp. subtilis str. 168

50.552

100

0.507
  radA Streptococcus mitis NCTC 12261

49.002

99.779

0.489
  radA Streptococcus pneumoniae Rx1

48.559

99.779

0.485
  radA Streptococcus pneumoniae D39

48.559

99.779

0.485
  radA Streptococcus pneumoniae R6

48.559

99.779

0.485
  radA Streptococcus pneumoniae TIGR4

48.559

99.779

0.485
  radA Streptococcus mitis SK321

48.559

99.779

0.485

Multiple sequence alignment