Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   HWI39_RS00275 Genome accession   NZ_CP064543
Coordinates   58169..59797 (-) Length   542 a.a.
NCBI ID   WP_001186596.1    Uniprot ID   -
Organism   Staphylococcus epidermidis strain UMCG366     
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 40005..87354 58169..59797 within 0


Gene organization within MGE regions


Location: 40005..87354
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HWI39_RS00180 (HWI39_00175) mecA 40005..42014 (-) 2010 WP_001801873.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -
  HWI39_RS00185 (HWI39_00180) mecR1 42111..43868 (+) 1758 WP_000952923.1 beta-lactam sensor/signal transducer MecR1 -
  HWI39_RS00190 (HWI39_00185) mecI 43868..44239 (+) 372 WP_000369214.1 mecA-type methicillin resistance repressor MecI -
  HWI39_RS00195 (HWI39_00190) psm-mec 44324..44392 (-) 69 WP_014532405.1 phenol-soluble modulin PSM-mec -
  HWI39_RS00200 (HWI39_00195) - 44726..45856 (+) 1131 WP_010922808.1 ROK family transcriptional regulator -
  HWI39_RS00205 (HWI39_00200) cstB 45970..47304 (-) 1335 Protein_38 persulfide dioxygenase-sulfurtransferase CstB -
  HWI39_RS00210 (HWI39_00205) - 47337..48401 (-) 1065 WP_000438836.1 DsrE/DsrF/DrsH-like family protein -
  HWI39_RS00215 (HWI39_00210) cstR 48537..48797 (+) 261 WP_000220507.1 persulfide-sensing transcriptional repressor CstR -
  HWI39_RS00220 (HWI39_00215) - 48797..49435 (+) 639 Protein_41 sulfite exporter TauE/SafE family protein -
  HWI39_RS00225 (HWI39_00225) - 49709..50326 (-) 618 WP_000562107.1 CadD family cadmium resistance transporter -
  HWI39_RS00230 (HWI39_00230) - 50407..52821 (-) 2415 WP_000378485.1 cadmium-translocating P-type ATPase CadA -
  HWI39_RS00235 (HWI39_00235) - 52814..53179 (-) 366 WP_346415976.1 metalloregulator ArsR/SmtB family transcription factor -
  HWI39_RS00240 (HWI39_00240) - 53417..53794 (-) 378 WP_064587220.1 DUF6262 family protein -
  HWI39_RS00245 (HWI39_00245) - 53801..55693 (-) 1893 WP_002485298.1 site-specific integrase -
  HWI39_RS00250 (HWI39_00250) - 55888..56211 (-) 324 WP_000088091.1 JAB domain-containing protein -
  HWI39_RS00255 (HWI39_00255) - 56204..56410 (-) 207 WP_001077283.1 hypothetical protein -
  HWI39_RS00260 (HWI39_00260) - 56412..56933 (-) 522 WP_101030025.1 DUF1643 domain-containing protein -
  HWI39_RS00265 (HWI39_00265) - 56952..57263 (-) 312 WP_000833212.1 DUF960 family protein -
  HWI39_RS00270 (HWI39_00270) - 57348..57698 (-) 351 WP_000171449.1 SAUGI family uracil-DNA glycosylase inhibitor -
  HWI39_RS00275 (HWI39_00275) ccrB 58169..59797 (-) 1629 WP_001186596.1 cassette chromosome recombinase CcrB Machinery gene
  HWI39_RS00280 (HWI39_00280) ccrA 59818..61164 (-) 1347 WP_000816499.1 cassette chromosome recombinase CcrA Machinery gene
  HWI39_RS00285 (HWI39_00285) - 61357..61632 (-) 276 WP_001791132.1 hypothetical protein -
  HWI39_RS00290 (HWI39_00290) cch1 61722..63509 (-) 1788 WP_000181743.1 cassette chromosome replicative helicase -
  HWI39_RS00295 (HWI39_00295) ssb 63509..63793 (-) 285 WP_000659554.1 cassette chromosome ssDNA-binding protein -
  HWI39_RS00300 (HWI39_00300) - 63930..64979 (+) 1050 WP_000613217.1 hypothetical protein -
  HWI39_RS00305 (HWI39_00305) - 65040..65603 (+) 564 WP_141228212.1 ADP-ribosyltransferase -
  HWI39_RS00310 (HWI39_00310) - 65828..66350 (-) 523 Protein_59 transposase -
  HWI39_RS00315 - 66374..66496 (-) 123 WP_369963372.1 hypothetical protein -
  HWI39_RS00320 (HWI39_00315) - 66540..67214 (+) 675 Protein_61 IS6 family transposase -
  HWI39_RS00325 (HWI39_00320) lspA 67242..67694 (-) 453 WP_161799966.1 signal peptidase II -
  HWI39_RS00330 (HWI39_00325) - 67854..68255 (+) 402 WP_002454665.1 metalloregulator ArsR/SmtB family transcription factor -
  HWI39_RS00335 (HWI39_00330) - 68509..69276 (+) 768 WP_002454666.1 ZIP family metal transporter -
  HWI39_RS00340 (HWI39_00335) - 69535..71943 (+) 2409 WP_002504087.1 heavy metal translocating P-type ATPase -
  HWI39_RS00345 (HWI39_00340) lpdA 72125..73546 (+) 1422 WP_002504088.1 dihydrolipoyl dehydrogenase -
  HWI39_RS00350 (HWI39_00345) - 73763..74437 (-) 675 Protein_67 IS6 family transposase -
  HWI39_RS00355 (HWI39_00350) - 74648..75217 (-) 570 WP_002504079.1 TetR/AcrR family transcriptional regulator -
  HWI39_RS00360 (HWI39_00355) - 75567..76511 (-) 945 WP_002484621.1 glycine betaine ABC transporter substrate-binding protein -
  HWI39_RS00365 (HWI39_00360) - 76535..79216 (-) 2682 WP_002484615.1 MMPL family transporter -
  HWI39_RS00370 (HWI39_00365) - 79831..81693 (+) 1863 WP_002504078.1 DUF6038 family protein -
  HWI39_RS00375 (HWI39_00370) - 81900..82253 (+) 354 WP_002504077.1 hypothetical protein -
  HWI39_RS00380 (HWI39_00375) - 82342..83478 (+) 1137 WP_002504271.1 DNA polymerase -
  HWI39_RS00385 (HWI39_00380) - 83468..83842 (+) 375 WP_002504272.1 hypothetical protein -
  HWI39_RS00390 (HWI39_00385) - 83835..85415 (+) 1581 WP_346416048.1 DUF5906 domain-containing protein -
  HWI39_RS00395 (HWI39_00390) ccrC 85669..87354 (+) 1686 WP_032603677.1 cassette chromosome recombinase CcrC -

Sequence

Protein


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

>NTDB_id=502879 HWI39_RS00275 WP_001186596.1 58169..59797(-) (ccrB) [Staphylococcus epidermidis strain UMCG366]
MQQLKQKRVGIYVRVSTEIQSTEGYSIDGQINQIREYCDFNNFVVVDVYADRGISGKSMNRPELQRLLKDANEGQIDSVM
VYKTNRLARNTSDLLKIVEDLHRQNVEFFSLSERMEVNTSSGKLMLQILASFSEFERNNIVENVFMGQTRRAQEGYYQGN
LPLGYDKIPDSKHELMINQHEANIVKYIFESYAKGHGYRKIANALNHKGYVTKKGKPFSIGSVTYILSNPFYVGKIQFAK
YKDWNEKRRKGLNDKPIIAEGKHSPIIIQDLWDKVQLRKKQVSQKPQVHGKGTNLLTGIVHCPQCGAPMAASNTTNTLKD
GTKKRIRYYSCSNFRNKGSKVCSANSVRADVIEKYVMDQILEIVKSDKVINQVLERVNQENKVDIGALNHDIAYKQQQYD
EVSGKLHNLVKTIEDNPDLTSALKATIHQYETQLNDITNQMNQLKQQQNQEKLSYDTKQIAALLQRIFQNIESMDKAQLK
ALYLTVIDRIDIRKDGNHKKQFYVTLKLNNEIIKQLFNNTPLDEVLLSTSSLFLPQTLFLQI

Nucleotide


Download         Length: 1629 bp        

>NTDB_id=502879 HWI39_RS00275 WP_001186596.1 58169..59797(-) (ccrB) [Staphylococcus epidermidis strain UMCG366]
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