Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   HWI40_RS00175 Genome accession   NZ_CP064540
Coordinates   39501..41126 (-) Length   541 a.a.
NCBI ID   WP_235101719.1    Uniprot ID   -
Organism   Staphylococcus epidermidis strain UMCG367     
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 39974..74047 39501..41126 flank -1152


Gene organization within MGE regions


Location: 39501..74047
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HWI40_RS00175 (HWI40_00175) ccrB 39501..41126 (-) 1626 WP_235101719.1 cassette chromosome recombinase CcrB Machinery gene
  HWI40_RS00180 (HWI40_00180) ccrA 41160..42497 (-) 1338 WP_235101728.1 cassette chromosome recombinase CcrA Machinery gene
  HWI40_RS00185 (HWI40_00185) cch1 42684..44453 (-) 1770 WP_408021323.1 cassette chromosome replicative helicase -
  HWI40_RS00190 (HWI40_00190) ssb 44453..44743 (-) 291 WP_108703126.1 cassette chromosome ssDNA-binding protein -
  HWI40_RS00195 (HWI40_00195) - 44914..45987 (+) 1074 WP_023604763.1 hypothetical protein -
  HWI40_RS00200 (HWI40_00200) - 46081..48021 (+) 1941 WP_023604764.1 ATP-dependent DNA helicase -
  HWI40_RS00205 (HWI40_00205) - 48122..48586 (+) 465 WP_023604765.1 hypothetical protein -
  HWI40_RS00210 - 48696..48854 (+) 159 WP_023604766.1 hypothetical protein -
  HWI40_RS00215 (HWI40_00215) - 49172..49810 (+) 639 WP_408021324.1 FusC family fusidic acid resistance EF-G-binding protein -
  HWI40_RS00220 (HWI40_00220) - 50286..51427 (+) 1142 WP_145449897.1 IS3 family transposase -
  HWI40_RS00225 (HWI40_00225) - 51574..52002 (-) 429 WP_001011132.1 VOC family protein -
  HWI40_RS00230 (HWI40_00230) - 52082..53011 (+) 930 WP_000750310.1 YafY family protein -
  HWI40_RS00235 (HWI40_00235) - 53448..54703 (+) 1256 Protein_44 MrcB family domain-containing protein -
  HWI40_RS00240 (HWI40_00240) - 55118..55357 (+) 240 WP_001282728.1 hypothetical protein -
  HWI40_RS00245 (HWI40_00245) - 55389..56063 (-) 675 WP_001106057.1 IS6-like element IS257 family transposase -
  HWI40_RS00250 (HWI40_00250) - 56099..56488 (+) 390 WP_020444595.1 hydroxymethylglutaryl-CoA synthase -
  HWI40_RS00255 (HWI40_00255) - 57365..58108 (+) 744 WP_000958858.1 glycerophosphoryl diester phosphodiesterase -
  HWI40_RS00260 (HWI40_00260) - 58205..58633 (+) 429 WP_000872606.1 MaoC family dehydratase -
  HWI40_RS00265 (HWI40_00265) mecA 58679..60685 (-) 2007 WP_153153775.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -
  HWI40_RS00270 (HWI40_00270) - 60782..61768 (+) 987 WP_001549960.1 beta-lactam sensor/signal transducer MecR1 -
  HWI40_RS00275 (HWI40_00275) - 61758..62000 (+) 243 Protein_52 type I restriction enzyme endonuclease domain-containing protein -
  HWI40_RS00280 (HWI40_00280) - 61991..63601 (-) 1611 Protein_53 IS1182 family transposase -
  HWI40_RS00285 (HWI40_00285) - 63650..64156 (-) 507 WP_001092189.1 DUF1643 domain-containing protein -
  HWI40_RS00290 (HWI40_00290) - 64171..64482 (-) 312 WP_000700851.1 DUF960 family protein -
  HWI40_RS00295 (HWI40_00295) - 64569..64919 (-) 351 WP_000849672.1 SAUGI family uracil-DNA glycosylase inhibitor -
  HWI40_RS00300 (HWI40_00300) ccrB 65441..67069 (-) 1629 WP_001186604.1 cassette chromosome recombinase CcrB Machinery gene
  HWI40_RS00305 (HWI40_00305) ccrA 67091..68440 (-) 1350 WP_000815652.1 cassette chromosome recombinase CcrA Machinery gene
  HWI40_RS00310 (HWI40_00310) cch1 68674..70461 (-) 1788 WP_000122621.1 cassette chromosome replicative helicase -
  HWI40_RS00315 (HWI40_00315) ssb 70461..70751 (-) 291 WP_001036437.1 cassette chromosome ssDNA-binding protein -
  HWI40_RS00320 (HWI40_00320) - 70890..71939 (+) 1050 WP_000613248.1 hypothetical protein -
  HWI40_RS00325 (HWI40_00325) - 72557..74047 (+) 1491 WP_000554504.1 RNA-binding domain-containing protein -

Sequence

Protein


Download         Length: 541 a.a.        Molecular weight: 62359.40 Da        Isoelectric Point: 9.8654

>NTDB_id=502841 HWI40_RS00175 WP_235101719.1 39501..41126(-) (ccrB) [Staphylococcus epidermidis strain UMCG367]
MDKMKKKLVGGYIRVSTERQVEGYSIEGQITQIEQYCRFNGYELVDIYADRGISGKSMNRPELQRMLNDAKNGKLDCVMV
YKTNRLARNTSDLLTIVEELHRQNVEFFSLSERMEVKNSTGKLMLQILASFSEFERNTILENIYTGQRQRALEGYYQGNL
PLGYNNIPDNKKELMINQHEANIVKYIFESYAKGHGYRKIANALNHKGYVTKKGNPFSISAVTYILSNPFYIGKIQFAKY
KDWNDKRRKGLNDKPVIAEGKHTPIISQDLWDKAQARKKQVSKKPQVHGKGTNLLTGIIACPQCSASMSASITVNTLKDG
TKKRIRYYSCSNFRNKGSKVCSANSVRADVIEKYVMDQILEIVKSDKVLKQVVERVNQENQVDVAALNHDIAYKQQQFDE
INAKLKNLIQTIEDNPDLTSALKPTIHQYETQLNDITNQINQLKQQQNQEKPSYDTKQISIILRRIFQNIESMDKSQLKA
LYLTVIDRIEIRKDGNHKKQFYVTLKLNNEIIKQLFNNNNLDEVLLSTSSLFLPQTLYFQI

Nucleotide


Download         Length: 1626 bp        

>NTDB_id=502841 HWI40_RS00175 WP_235101719.1 39501..41126(-) (ccrB) [Staphylococcus epidermidis strain UMCG367]
ATGGATAAAATGAAGAAAAAGCTTGTAGGAGGCTACATTCGCGTATCCACAGAGAGACAAGTAGAGGGTTATAGCATCGA
GGGACAAATTACACAAATAGAGCAATATTGCCGTTTTAATGGTTATGAACTCGTTGATATATATGCAGATAGAGGTATTT
CAGGAAAATCTATGAATCGTCCTGAATTACAGCGTATGTTAAATGATGCTAAAAATGGAAAATTAGACTGTGTTATGGTT
TATAAAACAAATCGTTTGGCACGTAATACTTCAGATTTACTTACAATCGTCGAAGAACTTCATCGCCAAAATGTTGAATT
TTTTAGCTTGTCTGAACGCATGGAAGTCAAAAATTCAACAGGTAAGTTAATGCTCCAGATACTTGCAAGTTTTTCCGAAT
TTGAAAGAAATACAATTTTAGAGAACATTTACACCGGACAACGTCAAAGAGCTTTAGAGGGCTATTATCAAGGCAATCTT
CCATTAGGATATAATAACATACCTGATAATAAAAAAGAATTAATGATTAATCAACATGAAGCTAACATCGTTAAATATAT
CTTTGAATCTTATGCCAAAGGTCATGGTTATCGTAAAATAGCCAATGCACTCAATCATAAAGGTTATGTCACTAAGAAAG
GTAATCCATTTAGTATTTCAGCTGTTACTTATATTCTCTCAAACCCATTCTATATTGGTAAAATTCAATTCGCAAAATAC
AAAGATTGGAATGATAAACGACGTAAAGGATTAAACGATAAGCCAGTAATCGCTGAAGGTAAACACACGCCTATTATTAG
TCAAGATTTATGGGATAAAGCGCAAGCACGTAAGAAGCAAGTAAGCAAAAAGCCACAGGTACATGGTAAAGGAACAAATC
TGTTAACTGGCATAATCGCGTGTCCACAATGTTCTGCTTCAATGTCTGCGAGCATAACAGTTAATACACTTAAAGATGGT
ACTAAAAAACGCATCCGCTACTATTCGTGTAGTAACTTTCGAAACAAAGGTTCAAAAGTCTGTTCTGCTAATAGCGTGAG
AGCCGATGTCATTGAGAAATACGTTATGGATCAAATACTTGAAATTGTCAAAAGCGATAAAGTTCTCAAACAAGTTGTCG
AACGTGTTAATCAAGAAAATCAAGTCGATGTAGCTGCACTCAATCATGATATTGCTTATAAACAACAACAATTTGATGAA
ATAAACGCTAAACTAAAAAATCTAATTCAAACCATCGAAGACAATCCAGACTTAACATCTGCACTCAAACCAACCATTCA
TCAATATGAAACACAACTCAATGACATTACAAACCAAATTAATCAACTCAAGCAACAACAAAACCAAGAAAAACCCTCTT
ACGATACGAAACAAATATCCATTATCTTACGTCGTATATTTCAAAACATAGAATCCATGGATAAATCACAACTCAAGGCA
TTATACCTTACGGTCATTGATCGTATCGAAATTCGTAAAGACGGTAATCATAAAAAACAATTCTATGTCACTCTCAAGCT
CAATAATGAAATTATTAAACAACTTTTTAATAATAACAATCTAGACGAAGTGCTCCTCAGCACTTCGTCTTTGTTTTTGC
CTCAAACACTCTACTTTCAAATATAA

Domains

Predicted by InterproScan.

Resolvase, N terminal domain (Resolvase)

(11-154)

Recombinase (Recombinase)

(179-279)

Ogr/Delta-like zinc finger (Ogr_Delta)

(301-355)


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

79.889

100

0.8