Detailed information    

experimental Experimentally validated

Overview

Name   ccrA   Type   Machinery gene
Locus tag   SA_RS00435 Genome accession   NC_002745
Coordinates   65047..66396 (-) Length   449 a.a.
NCBI ID   WP_000815646.1    Uniprot ID   Q9XB96
Organism   Staphylococcus aureus N315     
Function   promote SCCmec transfer   
Homologous recombination

Function

SCCmec carries the ccr genes which encode recombinases that allow its excision and integration at the attB attachment site in the recipient's chromosome.


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 58176..101901 65047..66396 within 0
SCCmec 45031..66396 65047..66396 within 0


Gene organization within MGE regions


Location: 45031..101901
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SA_RS00335 (SA0038) mecA 45031..47040 (-) 2010 WP_001801873.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -
  SA_RS00340 (SA0039) mecR1 47137..48894 (+) 1758 WP_000952923.1 beta-lactam sensor/signal transducer MecR1 -
  SA_RS00345 (SA0040) mecI 48894..49265 (+) 372 WP_000369214.1 mecA-type methicillin resistance repressor MecI -
  SA_RS15045 psm-mec 49350..49418 (-) 69 WP_014532405.1 phenol-soluble modulin PSM-mec -
  SA_RS00350 (SA0041) - 49752..50882 (+) 1131 WP_010922808.1 ROK family transcriptional regulator -
  SA_RS00360 (SA0043) cstB 50996..52330 (-) 1335 Protein_40 persulfide dioxygenase-sulfurtransferase CstB -
  SA_RS00365 (SA0044) - 52363..53427 (-) 1065 WP_000438836.1 DsrE/DsrF/DrsH-like family protein -
  SA_RS00370 (SA0045) cstR 53563..53823 (+) 261 WP_000220507.1 persulfide-sensing transcriptional repressor CstR -
  SA_RS00375 (SA0046) - 53823..54461 (+) 639 Protein_43 sulfite exporter TauE/SafE family protein -
  SA_RS15505 - 54515..54574 (-) 60 Protein_44 DNA repair protein RadC -
  SA_RS00380 (SA0047) - 54806..55468 (-) 663 WP_001092058.1 class I SAM-dependent methyltransferase -
  SA_RS15510 - 55860..55919 (+) 60 WP_010959190.1 erythromycin resistance leader peptide -
  SA_RS00385 (SA0048) erm(A) 56002..56733 (+) 732 WP_001072201.1 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(A) -
  SA_RS00390 (SA0049) - 56859..57641 (-) 783 WP_000067268.1 aminoglycoside nucleotidyltransferase ANT(9)-Ia -
  SA_RS00395 (SA0050) - 57792..58169 (-) 378 WP_000361059.1 DUF6262 family protein -
  SA_RS00400 (SA0051) - 58176..60068 (-) 1893 WP_001557544.1 site-specific integrase -
  SA_RS00405 (SA0052) - 60065..61150 (-) 1086 WP_000868132.1 tyrosine-type recombinase/integrase -
  SA_RS00410 (SA0053) - 61269..61586 (-) 318 WP_000659050.1 JAB domain-containing protein -
  SA_RS00415 (SA0054) - 61607..62113 (-) 507 WP_001092169.1 DUF1643 domain-containing protein -
  SA_RS00420 (SA0055) - 62131..62442 (-) 312 WP_000700853.1 DUF960 family protein -
  SA_RS00425 (SA0056) - 62529..62879 (-) 351 WP_000859155.1 SAUGI family uracil-DNA glycosylase inhibitor -
  SA_RS00430 (SA0057) ccrB 63397..65025 (-) 1629 WP_001186602.1 cassette chromosome recombinase CcrB Machinery gene
  SA_RS00435 (SA0058) ccrA 65047..66396 (-) 1350 WP_000815646.1 cassette chromosome recombinase CcrA Machinery gene
  SA_RS00440 (SA0059) cch1 66630..68423 (-) 1794 WP_000195100.1 cassette chromosome replicative helicase -
  SA_RS00445 (SA0060) ssb 68423..68719 (-) 297 WP_000273824.1 cassette chromosome ssDNA-binding protein -
  SA_RS00450 (SA0061) - 68912..69958 (-) 1047 WP_001060127.1 hypothetical protein -
  SA_RS14420 - 70209..71350 (-) 1142 Protein_61 IS3-like element ISSau4 family transposase -
  SA_RS00470 - 71861..72796 (-) 936 Protein_62 YfcC family protein -
  SA_RS00475 (SA0066) - 73509..74204 (-) 696 WP_000858967.1 response regulator transcription factor -
  SA_RS00480 (SA0067) - 74179..76833 (-) 2655 Protein_64 ATP-binding protein -
  SA_RS00485 kdpF 77015..77095 (+) 81 WP_000631574.1 K(+)-transporting ATPase subunit F -
  SA_RS00490 (SA0068) kdpA 77116..78792 (+) 1677 WP_000029430.1 potassium-transporting ATPase subunit KdpA -
  SA_RS00495 (SA0070) - 78811..80832 (+) 2022 WP_000852430.1 K(+)-transporting ATPase subunit B -
  SA_RS00500 - 80848..81406 (+) 559 Protein_68 K(+)-transporting ATPase subunit C -
  SA_RS00505 (SA0072) - 81950..82819 (-) 870 WP_000626133.1 hypothetical protein -
  SA_RS00510 (SA0073) - 82829..83725 (-) 897 WP_000411461.1 DUF927 domain-containing protein -
  SA_RS00520 (SA0076) - 84844..85470 (-) 627 WP_001176969.1 hypothetical protein -
  SA_RS00525 (SA0077) - 85585..87093 (+) 1509 WP_001001347.1 protein kinase domain-containing protein -
  SA_RS00530 - 87343..87477 (-) 135 WP_001790628.1 hypothetical protein -
  SA_RS00535 - 87441..87533 (+) 93 WP_001790000.1 hypothetical protein -
  SA_RS00540 (SA0078) - 87680..89425 (+) 1746 WP_000700190.1 DUF6119 family protein -
  SA_RS00545 (SA0079) - 89523..89878 (-) 356 Protein_76 tRNA-dihydrouridine synthase -
  SA_RS00550 - 90183..90271 (-) 89 Protein_77 hypothetical protein -
  SA_RS00555 (SA0080) - 90369..91124 (-) 756 WP_000355845.1 sulfite exporter TauE/SafE family protein -
  SA_RS00560 (SA0081) cstR 91124..91384 (-) 261 WP_001105088.1 persulfide-sensing transcriptional repressor CstR -
  SA_RS00565 (SA0082) cstA 91521..92585 (+) 1065 WP_000816133.1 persulfide response sulfurtransferase CstA -
  SA_RS00570 (SA0083) cstB 92616..93950 (+) 1335 WP_000465472.1 persulfide dioxygenase-sulfurtransferase CstB -
  SA_RS00575 (SA0084) sqr 93969..95162 (+) 1194 WP_001033018.1 type II sulfide:quinone oxidoreductase Sqr -
  SA_RS15490 - 95429..95643 (-) 215 Protein_83 universal stress protein -
  SA_RS00585 (SA0085) - 95829..96815 (-) 987 WP_000662022.1 tRNA dihydrouridine synthase -
  SA_RS00590 (SA0086) - 97124..97327 (+) 204 WP_000389759.1 DUF6007 family protein -
  SA_RS00595 (SA0087) - 97376..97672 (+) 297 WP_000201644.1 TfoX/Sxy family protein -
  SA_RS00600 (SA0088) - 97880..98482 (+) 603 WP_000908956.1 hypothetical protein -
  SA_RS00605 (SA0089) - 98749..101901 (+) 3153 WP_000080564.1 DEAD/DEAH box helicase -

Sequence

Protein


Download         Length: 449 a.a.        Molecular weight: 52607.20 Da        Isoelectric Point: 9.9585

>NTDB_id=10 SA_RS00435 WP_000815646.1 65047..66396(-) (ccrA) [Staphylococcus aureus N315]
MKQVIGYLRQSTMKQQSLAAQKQAIEAIAEKHHIQHINFYSDKQSGRKDNRSGYRQMTQLIQQGQCDILCCYRLNRLHRN
LKNALKLIKLCQTYHVHILSVHDGYFDMDQAFDRFKLNIFISLAELESDNIGEQVRNGLQEKAKQGRLITTHAPFGYEYH
NGAFIINQNESPTVKAVFNYYIKGHGYKKIAQLLEEDNTYINRQPYQVRNIIINPNYCGRVNNQYGQFDNMFPSIVSTSI
YEQAQRLRSQKQIKQTSSDNQLKQKIKCPCCNTTLTNMTVRKKNHTLRYYVCPKNMNASRFVCDFKGINAQTLEDKVLEV
CKDFYQNQRIYTKIKGAIDKRIKRQRNIEKHHTLTQEQLIEKLAQGIIDAETFREQTQSLRQQPQRTTSINGHQIQHTIQ
NIIQKRFTLNILYPYIETIHITKDKNLIGIYFKNEPLNIVNQTMQSSIA

Nucleotide


Download         Length: 1350 bp        

>NTDB_id=10 SA_RS00435 WP_000815646.1 65047..66396(-) (ccrA) [Staphylococcus aureus N315]
ATGAAACAAGTCATAGGCTATTTACGTCAAAGTACGATGAAACAACAATCTCTTGCAGCACAGAAACAGGCTATCGAAGC
AATAGCCGAAAAACATCATATTCAACATATCAACTTTTATAGCGACAAACAATCAGGACGCAAAGATAATCGTAGTGGGT
ATCGACAAATGACGCAATTAATTCAACAAGGGCAATGTGACATATTATGTTGTTATCGTCTTAATAGATTACATCGTAAT
CTGAAAAATGCATTAAAACTCATCAAATTATGTCAAACATACCATGTTCATATCTTAAGCGTACACGATGGTTACTTTGA
TATGGATCAAGCTTTCGACCGATTCAAGCTTAATATTTTTATCAGCTTGGCCGAACTTGAATCAGATAACATTGGAGAAC
AAGTCAGAAATGGGCTTCAAGAAAAAGCAAAGCAAGGTCGATTGATTACAACCCATGCGCCCTTTGGTTACGAATATCAC
AACGGAGCATTCATCATCAATCAAAATGAGTCACCAACGGTAAAGGCTGTATTCAATTATTACATTAAAGGTCATGGTTA
TAAGAAAATTGCACAGTTATTAGAAGAAGATAACACGTATATCAATCGACAACCCTATCAAGTTCGTAACATTATCATCA
ATCCTAATTATTGTGGTCGTGTCAACAATCAATATGGCCAATTCGACAATATGTTTCCTTCTATTGTTTCCACAAGTATA
TATGAGCAAGCGCAGAGACTTCGATCGCAAAAACAAATCAAACAGACATCTTCGGATAACCAACTAAAACAAAAAATCAA
ATGCCCATGTTGTAATACAACACTTACGAATATGACCGTTAGAAAAAAGAATCATACATTACGTTACTACGTCTGTCCTA
AAAACATGAATGCTTCTCGCTTTGTCTGTGATTTTAAAGGCATCAATGCACAAACACTTGAAGATAAAGTATTAGAAGTG
TGCAAAGACTTTTATCAAAATCAACGCATCTACACAAAAATTAAAGGTGCGATTGACAAACGCATCAAAAGACAAAGAAA
CATAGAAAAACATCACACATTGACTCAAGAACAACTGATAGAAAAGTTGGCACAAGGCATCATCGATGCAGAAACGTTCA
GAGAACAAACGCAATCATTACGTCAACAACCGCAACGCACTACATCTATCAATGGACATCAAATACAACACACCATTCAA
AATATTATTCAAAAACGTTTCACGTTAAACATATTGTACCCCTATATTGAAACCATTCACATTACGAAAGATAAAAATCT
TATAGGAATCTATTTCAAAAATGAACCACTCAATATCGTCAATCAAACCATGCAATCATCGATTGCATAA

Domains

Predicted by InterproScan.

Recombinase (Recombinase)

(169-250)

Recombinase zinc beta ribbon domain (Zn_ribbon_recom)

(262-322)

Resolvase, N terminal domain (Resolvase)

(4-147)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q9XB96

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
  ccrA Staphylococcus aureus COL

74.833

100

0.748

Multiple sequence alignment    



References

[1] Mais Maree et al. (2024) SCCmec transformation requires living donor cells in mixed biofilms. Biofilm 7:100184. [PMID: 38440091]
[2] Mais Maree et al. (2022) Natural transformation allows transfer of SCCmec-mediated methicillin resistance in Staphylococcus aureus biofilms. Nature Communications 13(1):2477. [PMID: 35513365]