Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   HWI58_RS00475 Genome accession   NZ_CP064473
Coordinates   102856..104484 (-) Length   542 a.a.
NCBI ID   WP_001186596.1    Uniprot ID   -
Organism   Staphylococcus epidermidis strain UMCG386     
Function   promote SCCmec transfer (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)
SCCmec 65521..105851 102856..104484 within 0


Gene organization within MGE regions


Location: 65521..105851
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HWI58_RS00290 (HWI58_00285) ccrB 65521..67149 (-) 1629 WP_001631035.1 cassette chromosome recombinase CcrB Machinery gene
  HWI58_RS00295 (HWI58_00290) ccrA 67146..68507 (-) 1362 WP_001631036.1 cassette chromosome recombinase CcrA Machinery gene
  HWI58_RS00300 (HWI58_00295) - 68694..69323 (-) 630 Protein_57 hypothetical protein -
  HWI58_RS00305 (HWI58_00300) - 69332..69670 (+) 339 Protein_58 recombinase family protein -
  HWI58_RS00310 (HWI58_00305) - 69782..70141 (-) 360 WP_001631039.1 hypothetical protein -
  HWI58_RS00315 (HWI58_00310) - 70348..70674 (+) 327 WP_000391495.1 metalloregulator ArsR/SmtB family transcription factor -
  HWI58_RS00320 (HWI58_00315) - 71004..72929 (+) 1926 WP_002485723.1 heavy metal translocating P-type ATPase -
  HWI58_RS00325 (HWI58_00320) - 74155..75411 (+) 1257 WP_000566670.1 MrcB family domain-containing protein -
  HWI58_RS00330 (HWI58_00325) - 75826..76065 (+) 240 WP_001282728.1 hypothetical protein -
  HWI58_RS00335 (HWI58_00330) - 76097..76771 (-) 675 WP_001106057.1 IS6-like element IS257 family transposase -
  HWI58_RS00340 (HWI58_00335) - 76862..77845 (-) 984 Protein_65 protein rep -
  HWI58_RS00345 (HWI58_00340) mobV 78090..79352 (-) 1263 WP_000119405.1 MobV family relaxase -
  HWI58_RS00350 (HWI58_00345) bleO 79859..80263 (-) 405 WP_001242578.1 bleomycin binding protein -
  HWI58_RS00355 (HWI58_00350) aadD1 80480..81250 (-) 771 WP_001795128.1 aminoglycoside O-nucleotidyltransferase ANT(4')-Ia -
  HWI58_RS00360 (HWI58_00355) - 81443..82117 (-) 675 WP_001106057.1 IS6-like element IS257 family transposase -
  HWI58_RS00365 (HWI58_00360) - 82153..82542 (+) 390 WP_020444595.1 hydroxymethylglutaryl-CoA synthase -
  HWI58_RS00370 (HWI58_00365) - 83379..84122 (+) 744 WP_000958858.1 glycerophosphoryl diester phosphodiesterase -
  HWI58_RS00375 (HWI58_00370) - 84219..84647 (+) 429 WP_000872606.1 MaoC family dehydratase -
  HWI58_RS00380 (HWI58_00375) mecA 84693..86702 (-) 2010 WP_001801873.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -
  HWI58_RS00385 (HWI58_00380) mecR1 86799..88556 (+) 1758 WP_000952923.1 beta-lactam sensor/signal transducer MecR1 -
  HWI58_RS00390 (HWI58_00385) mecI 88556..88927 (+) 372 WP_000369214.1 mecA-type methicillin resistance repressor MecI -
  HWI58_RS00395 (HWI58_00390) psm-mec 89012..89080 (-) 69 WP_014532405.1 phenol-soluble modulin PSM-mec -
  HWI58_RS00400 (HWI58_00395) - 89414..90544 (+) 1131 WP_010922808.1 ROK family transcriptional regulator -
  HWI58_RS00405 (HWI58_00400) cstB 90658..91992 (-) 1335 Protein_78 persulfide dioxygenase-sulfurtransferase CstB -
  HWI58_RS00410 (HWI58_00405) - 92025..93089 (-) 1065 WP_000438836.1 DsrE/DsrF/DrsH-like family protein -
  HWI58_RS00415 (HWI58_00410) cstR 93225..93485 (+) 261 WP_000220507.1 persulfide-sensing transcriptional repressor CstR -
  HWI58_RS00420 (HWI58_00415) - 93485..94123 (+) 639 Protein_81 sulfite exporter TauE/SafE family protein -
  HWI58_RS00425 (HWI58_00425) - 94397..95013 (-) 617 Protein_82 CadD family cadmium resistance transporter -
  HWI58_RS00430 (HWI58_00430) - 95094..97508 (-) 2415 WP_000378485.1 cadmium-translocating P-type ATPase CadA -
  HWI58_RS00435 (HWI58_00435) - 97501..97866 (-) 366 WP_000159127.1 metalloregulator ArsR/SmtB family transcription factor -
  HWI58_RS00440 (HWI58_00440) - 98104..98481 (-) 378 WP_001041908.1 DUF6262 family protein -
  HWI58_RS00445 (HWI58_00445) - 98488..100380 (-) 1893 WP_002485298.1 site-specific integrase -
  HWI58_RS00450 (HWI58_00450) - 100575..100898 (-) 324 WP_000088091.1 JAB domain-containing protein -
  HWI58_RS00455 (HWI58_00455) - 100891..101097 (-) 207 WP_001077283.1 hypothetical protein -
  HWI58_RS00460 (HWI58_00460) - 101099..101620 (-) 522 WP_000836008.1 DUF1643 domain-containing protein -
  HWI58_RS00465 (HWI58_00465) - 101639..101950 (-) 312 WP_000833212.1 DUF960 family protein -
  HWI58_RS00470 (HWI58_00470) - 102035..102385 (-) 351 WP_000171449.1 SAUGI family uracil-DNA glycosylase inhibitor -
  HWI58_RS00475 (HWI58_00475) ccrB 102856..104484 (-) 1629 WP_001186596.1 cassette chromosome recombinase CcrB Machinery gene
  HWI58_RS00480 (HWI58_00480) ccrA 104505..105851 (-) 1347 WP_000816499.1 cassette chromosome recombinase CcrA Machinery gene

Sequence

Protein


Download         Length: 542 a.a.        Molecular weight: 62274.15 Da        Isoelectric Point: 9.7334

>NTDB_id=502184 HWI58_RS00475 WP_001186596.1 102856..104484(-) (ccrB) [Staphylococcus epidermidis strain UMCG386]
MQQLKQKRVGIYVRVSTEIQSTEGYSIDGQINQIREYCDFNNFVVVDVYADRGISGKSMNRPELQRLLKDANEGQIDSVM
VYKTNRLARNTSDLLKIVEDLHRQNVEFFSLSERMEVNTSSGKLMLQILASFSEFERNNIVENVFMGQTRRAQEGYYQGN
LPLGYDKIPDSKHELMINQHEANIVKYIFESYAKGHGYRKIANALNHKGYVTKKGKPFSIGSVTYILSNPFYVGKIQFAK
YKDWNEKRRKGLNDKPIIAEGKHSPIIIQDLWDKVQLRKKQVSQKPQVHGKGTNLLTGIVHCPQCGAPMAASNTTNTLKD
GTKKRIRYYSCSNFRNKGSKVCSANSVRADVIEKYVMDQILEIVKSDKVINQVLERVNQENKVDIGALNHDIAYKQQQYD
EVSGKLHNLVKTIEDNPDLTSALKATIHQYETQLNDITNQMNQLKQQQNQEKLSYDTKQIAALLQRIFQNIESMDKAQLK
ALYLTVIDRIDIRKDGNHKKQFYVTLKLNNEIIKQLFNNTPLDEVLLSTSSLFLPQTLFLQI

Nucleotide


Download         Length: 1629 bp        

>NTDB_id=502184 HWI58_RS00475 WP_001186596.1 102856..104484(-) (ccrB) [Staphylococcus epidermidis strain UMCG386]
ATGCAACAACTCAAACAAAAACGTGTCGGTATCTATGTTCGTGTATCAACGGAAATCCAAAGTACTGAAGGCTATAGTAT
CGATGGACAAATCAATCAAATTCGAGAATATTGTGATTTCAATAACTTTGTTGTTGTAGATGTATACGCGGATAGAGGTA
TCTCTGGAAAATCTATGAACCGACCAGAACTACAACGTTTGTTAAAAGATGCGAACGAAGGTCAGATTGATTCTGTTATG
GTCTACAAAACAAACCGACTAGCACGTAACACTTCTGACTTACTCAAAATTGTTGAAGACCTTCATCGTCAAAATGTCGA
ATTCTTCAGCTTATCTGAGCGTATGGAAGTCAATACAAGCAGTGGTAAATTGATGCTACAAATTCTAGCGAGTTTTTCAG
AATTTGAAAGAAATAATATTGTCGAAAATGTATTCATGGGTCAAACCCGACGCGCTCAAGAAGGCTATTATCAAGGCAAT
TTGCCGCTGGGCTATGACAAAATACCGGATAGCAAGCATGAACTCATGATAAACCAACATGAAGCGAATATTGTCAAATA
TATATTTGAGTCATATGCTAAAGGCCACGGATATCGTAAAATTGCGAATGCACTCAATCACAAAGGATACGTGACTAAAA
AAGGAAAGCCTTTCAGTATTGGTTCAGTGACCTATATCTTATCTAATCCATTCTATGTTGGTAAAATTCAATTCGCAAAG
TACAAAGATTGGAATGAAAAGCGTCGTAAAGGGCTGAATGATAAACCAATAATAGCTGAAGGTAAGCATTCCCCTATTAT
TATTCAAGACTTATGGGATAAAGTCCAATTACGTAAAAAACAAGTCAGTCAAAAACCTCAAGTCCACGGTAAAGGAACTA
ATCTATTAACAGGTATCGTTCATTGTCCACAATGTGGTGCACCAATGGCAGCTAGTAACACAACGAACACATTGAAAGAT
GGTACCAAGAAGCGAATACGTTATTATTCTTGCAGTAACTTCCGAAACAAAGGCTCAAAAGTATGTTCTGCGAATAGCGT
TAGAGCTGATGTGATTGAGAAATACGTCATGGATCAAATACTCGAAATTGTCAAAAGTGATAAAGTCATTAACCAAGTCT
TAGAACGTGTCAATCAAGAAAATAAAGTCGATATTGGTGCATTGAACCACGATATCGCTTATAAACAACAACAATACGAT
GAAGTCAGCGGGAAACTCCATAATTTAGTTAAAACCATTGAAGATAATCCGGACCTAACATCTGCATTGAAAGCAACTAT
TCATCAATATGAAACACAACTCAATGACATTACAAATCAAATGAATCAACTCAAACAGCAACAAAATCAAGAGAAACTAT
CTTATGATACGAAACAAATCGCTGCCCTATTACAACGAATATTTCAAAATATAGAATCAATGGATAAAGCACAACTCAAA
GCATTATATCTTACAGTCATTGACCGTATTGATATTCGTAAAGACGGTAATCATAAAAAACAGTTCTACGTTACACTAAA
ACTCAATAATGAAATTATTAAACAACTTTTCAATAATACCCCTCTCGACGAAGTGCTCCTCAGCACTTCGTCTTTATTTT
TGCCTCAAACGCTCTTTCTTCAAATCTAA

Domains

Predicted by InterproScan.

Resolvase, N terminal domain (Resolvase)

(11-156)

Recombinase (Recombinase)

(180-280)

Ogr/Delta-like zinc finger (Ogr_Delta)

(301-356)


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
  ccrB Staphylococcus aureus N315

86.531

100

0.865