Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   GWC80_RS00305 Genome accession   NZ_CP048007
Coordinates   66608..68236 (-) Length   542 a.a.
NCBI ID   WP_172412330.1    Uniprot ID   -
Organism   Staphylococcus lugdunensis strain CGMH-SL131     
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 38981..87192 66608..68236 within 0


Gene organization within MGE regions


Location: 38981..87192
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GWC80_RS00175 mecA 38981..40990 (-) 2010 WP_063852638.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -
  GWC80_RS00180 - 41087..41194 (+) 108 Protein_33 beta-lactam sensor/signal transducer MecR1 -
  GWC80_RS00185 - 41235..41909 (+) 675 Protein_34 IS6 family transposase -
  GWC80_RS00190 - 41969..42397 (-) 429 WP_000671997.1 VOC family protein -
  GWC80_RS00195 - 42478..43407 (+) 930 WP_000750311.1 HTH domain-containing protein -
  GWC80_RS00200 - 43569..45581 (+) 2013 WP_002437507.1 hypothetical protein -
  GWC80_RS00205 - 45751..46859 (+) 1109 Protein_38 DNA polymerase -
  GWC80_RS00210 - 46852..47223 (+) 372 WP_124726190.1 hypothetical protein -
  GWC80_RS00215 - 47220..48839 (+) 1620 WP_172412328.1 DUF5906 domain-containing protein -
  GWC80_RS00220 - 49065..50744 (+) 1680 WP_172412329.1 recombinase family protein -
  GWC80_RS00225 - 50833..51171 (+) 339 WP_031796882.1 SAUGI family uracil-DNA glycosylase inhibitor -
  GWC80_RS00230 - 51265..51576 (+) 312 WP_168754273.1 DUF960 family protein -
  GWC80_RS00235 - 51594..52097 (+) 504 WP_168754274.1 DUF1643 domain-containing protein -
  GWC80_RS00240 - 52111..52332 (+) 222 WP_168754275.1 hypothetical protein -
  GWC80_RS00245 - 52411..53505 (-) 1095 WP_249689287.1 CDP-glycerol glycerophosphotransferase family protein -
  GWC80_RS00250 - 53502..54731 (-) 1230 WP_249689288.1 glycosyltransferase family 2 protein -
  GWC80_RS00255 - 54934..55116 (+) 183 WP_031864945.1 hypothetical protein -
  GWC80_RS00260 - 56158..56458 (-) 301 Protein_49 type I restriction-modification system subunit M N-terminal domain-containing protein -
  GWC80_RS00265 - 56640..57509 (+) 870 WP_168754285.1 hypothetical protein -
  GWC80_RS00270 - 57912..58145 (-) 234 WP_002467980.1 hypothetical protein -
  GWC80_RS00275 - 58385..61729 (+) 3345 WP_058649859.1 SdrD B-like domain-containing protein -
  GWC80_RS00280 gtfA 61818..63326 (+) 1509 WP_001551920.1 accessory Sec system glycosyltransferase GtfA -
  GWC80_RS00285 gtfB 63319..64638 (+) 1320 WP_002468074.1 accessory Sec system glycosylation chaperone GtfB -
  GWC80_RS00290 - 64819..65322 (-) 504 WP_058649860.1 DUF1643 domain-containing protein -
  GWC80_RS00295 - 65337..65651 (-) 315 WP_058649861.1 DUF960 family protein -
  GWC80_RS00300 - 65744..66085 (-) 342 WP_058649862.1 SAUGI family uracil-DNA glycosylase inhibitor -
  GWC80_RS00305 ccrB 66608..68236 (-) 1629 WP_172412330.1 recombinase family protein Machinery gene
  GWC80_RS00310 ccrA 68258..69607 (-) 1350 WP_001573628.1 recombinase family protein Machinery gene
  GWC80_RS00315 - 69841..71628 (-) 1788 WP_058649864.1 DUF927 domain-containing protein -
  GWC80_RS00320 - 71628..71924 (-) 297 WP_002454339.1 single-stranded DNA-binding protein -
  GWC80_RS00325 - 72117..73163 (-) 1047 WP_001042023.1 hypothetical protein -
  GWC80_RS00330 - 73618..74772 (+) 1155 WP_000912116.1 ATP-binding protein -
  GWC80_RS00335 - 74802..75602 (+) 801 WP_058649865.1 abortive infection family protein -
  GWC80_RS00340 - 75758..76899 (+) 1142 WP_094449189.1 IS3 family transposase -
  GWC80_RS00345 - 77342..80371 (-) 3030 WP_058649866.1 type I restriction endonuclease -
  GWC80_RS00350 - 80384..81622 (-) 1239 WP_228279883.1 restriction endonuclease subunit S -
  GWC80_RS00355 - 81615..83402 (-) 1788 WP_058649867.1 class I SAM-dependent DNA methyltransferase -
  GWC80_RS00360 - 83545..83766 (-) 222 WP_058649868.1 hypothetical protein -
  GWC80_RS00365 - 83780..84283 (-) 504 WP_058649869.1 DUF1643 domain-containing protein -
  GWC80_RS00370 - 84298..84609 (-) 312 WP_058649870.1 DUF960 family protein -
  GWC80_RS00375 - 84696..85046 (-) 351 WP_058649871.1 SAUGI family uracil-DNA glycosylase inhibitor -
  GWC80_RS00380 ccrB 85567..87192 (-) 1626 WP_058649872.1 recombinase family protein Machinery gene

Sequence

Protein


Download         Length: 542 a.a.        Molecular weight: 62660.88 Da        Isoelectric Point: 9.8616

>NTDB_id=419325 GWC80_RS00305 WP_172412330.1 66608..68236(-) (ccrB) [Staphylococcus lugdunensis strain CGMH-SL131]
MQQLKTKRVGIYVRVSTEMQSTEGYSIDGQINQIKEYCDFHHFEVKDIYADRGISGKSMNRPELQRILKDAKDGYIDCVM
VYKTNRLARNTSDLLKIVEDLHKQNVEFFSLSERMEVNTSSGKLMLQILASFSEFERNNIVENVFMGQTRRAQEGYYQGN
LPLGYDKIPNSKHELMINQHEANIVKYIFESYAKGHGYRKIANALNHKGYVTKKGKPFSISSITYILANPFYIGKIQFAK
YKDWSEKRRKGLNDKPVIAEGKHSPIINQDLWDKVQMRKKQVSQKPQVHGKGTNLLTGIIHCPQCGAPMAASNTTNTLKD
GTKKRIRYYSCSNFRNKGSKVCSANSVRADAIEDYVMKQILEIVKSDKVIQQVVARVNQENQVDCASLHHDIAYKQQQYD
EVQIKLNNLIKTIEDNPDLTSVIRPSIQKYEKKLNDITNQINQLKNQQNEDMTLFNAKEISKLLQHIFHDIKHIEKSRLK
ALYLSVIDRIDIKKDGNHKKHFYVTLKLNNEIIKQLFNNKQLDEVHLSTSSLFLPQTLYLTI

Nucleotide


Download         Length: 1629 bp        

>NTDB_id=419325 GWC80_RS00305 WP_172412330.1 66608..68236(-) (ccrB) [Staphylococcus lugdunensis strain CGMH-SL131]
ATGCAACAACTTAAAACAAAACGTGTCGGTATCTATGTACGTGTTTCAACAGAAATGCAAAGCACAGAAGGTTATAGTAT
CGACGGACAAATCAATCAAATCAAAGAATACTGTGACTTCCATCATTTTGAAGTTAAAGATATATACGCTGACCGTGGTA
TTTCAGGTAAATCTATGAATCGACCTGAGCTCCAACGTATATTGAAGGATGCGAAAGATGGCTATATCGACTGTGTTATG
GTCTACAAAACAAACCGATTAGCTCGTAATACATCTGATCTTCTCAAAATTGTCGAAGATTTACACAAACAAAATGTCGA
ATTTTTCAGTTTGTCAGAGCGTATGGAAGTCAATACTTCTTCTGGTAAACTCATGTTACAAATACTTGCGAGTTTCTCAG
AATTCGAACGTAATAACATTGTCGAGAATGTATTTATGGGTCAAACGAGACGTGCCCAAGAAGGCTATTATCAAGGTAAC
TTGCCGCTGGGCTATGACAAAATACCTAATAGTAAACACGAACTGATGATTAATCAACATGAAGCTAATATTGTGAAATA
TATATTCGAGTCCTATGCCAAAGGACATGGCTATCGTAAAATAGCCAATGCATTAAATCACAAAGGCTATGTCACTAAAA
AGGGTAAACCTTTTAGTATTAGTTCTATCACATATATATTAGCTAACCCATTCTATATCGGCAAAATTCAATTTGCGAAA
TACAAAGATTGGAGTGAAAAACGTCGTAAAGGGCTGAATGATAAACCAGTGATAGCTGAAGGTAAGCATTCCCCCATTAT
TAATCAAGATTTATGGGATAAAGTACAAATGCGTAAAAAACAAGTCAGTCAAAAACCCCAAGTCCATGGCAAAGGAACGA
ATCTGCTTACAGGCATTATTCACTGTCCTCAATGTGGCGCACCTATGGCAGCAAGCAATACCACGAATACACTTAAAGAC
GGGACCAAGAAACGTATTCGTTACTATTCATGTAGTAATTTTCGGAACAAGGGCTCCAAAGTATGTTCGGCAAACAGTGT
AAGAGCTGATGCGATTGAAGATTATGTGATGAAGCAAATACTCGAAATAGTCAAAAGTGATAAAGTCATTCAACAGGTTG
TAGCACGTGTTAATCAAGAAAATCAAGTTGATTGTGCGTCACTTCATCACGATATCGCTTATAAGCAACAACAATATGAT
GAAGTACAAATCAAACTAAATAACTTGATTAAAACCATCGAGGATAATCCGGACTTAACATCAGTAATCAGACCAAGTAT
TCAAAAATATGAAAAGAAACTCAATGACATTACGAATCAAATCAACCAACTCAAAAATCAACAAAATGAAGATATGACTT
TATTTAATGCCAAAGAAATTAGTAAACTATTACAACACATCTTTCATGATATTAAGCACATAGAAAAATCTCGACTCAAA
GCATTGTATCTATCAGTGATTGATCGCATTGATATTAAAAAAGATGGTAATCATAAAAAACATTTCTATGTCACACTCAA
ACTTAATAACGAAATCATTAAACAACTTTTCAATAATAAACAACTCGACGAAGTGCATCTCAGCACTTCGTCTTTGTTTT
TGCCCCAAACACTATATCTTACTATTTAG

Domains

Predicted by InterproScan.

Ogr/Delta-like zinc finger (Ogr_Delta)

(301-356)

Resolvase, N terminal domain (Resolvase)

(11-156)

Recombinase (Recombinase)

(180-280)


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

97.786

100

0.978

Multiple sequence alignment