Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   F1613_RS03005 Genome accession   NZ_CP043845
Coordinates   635313..636941 (-) Length   542 a.a.
NCBI ID   WP_011082534.1    Uniprot ID   Q8CQJ7
Organism   Staphylococcus epidermidis strain ATCC 12228     
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 635334..670262 635313..636941 flank -1607


Gene organization within MGE regions


Location: 635313..670262
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  F1613_RS03005 (F1613_03005) ccrB 635313..636941 (-) 1629 WP_011082534.1 cassette chromosome recombinase CcrB Machinery gene
  F1613_RS03010 (F1613_03010) ccrA 636963..638312 (-) 1350 WP_011082535.1 cassette chromosome recombinase CcrA Machinery gene
  F1613_RS03015 (F1613_03015) cch1 638546..640339 (-) 1794 WP_011082536.1 cassette chromosome replicative helicase -
  F1613_RS03020 (F1613_03020) ssb 640339..640635 (-) 297 WP_011082537.1 cassette chromosome ssDNA-binding protein -
  F1613_RS03025 (F1613_03025) - 640828..641874 (-) 1047 WP_001042023.1 hypothetical protein -
  F1613_RS03030 (F1613_03030) - 642329..643483 (+) 1155 WP_011082538.1 ATP-binding protein -
  F1613_RS03035 (F1613_03035) - 643513..644313 (+) 801 WP_000749912.1 abortive infection family protein -
  F1613_RS03040 (F1613_03040) - 644498..644641 (+) 144 WP_001631028.1 restriction endonuclease subunit R -
  F1613_RS03045 (F1613_03045) - 644634..645836 (+) 1203 WP_001631029.1 restriction endonuclease subunit S -
  F1613_RS03050 (F1613_03050) - 645840..646100 (-) 261 Protein_562 IS5/IS1182 family transposase -
  F1613_RS03055 (F1613_03055) - 646159..646656 (-) 498 WP_001631030.1 GNAT family N-acetyltransferase -
  F1613_RS03065 (F1613_03065) - 647328..647738 (-) 411 WP_001631031.1 DUF2871 domain-containing protein -
  F1613_RS12505 - 647901..648121 (-) 221 Protein_565 hypothetical protein -
  F1613_RS03075 (F1613_03075) - 648136..648378 (-) 243 Protein_566 DUF1643 domain-containing protein -
  F1613_RS03080 (F1613_03080) - 648483..649682 (-) 1200 WP_071813246.1 IS110-like element ISSep2 family transposase -
  F1613_RS03085 (F1613_03085) - 649903..650199 (-) 297 Protein_568 DUF1643 domain-containing protein -
  F1613_RS03090 (F1613_03090) - 650215..650526 (-) 312 WP_002501910.1 DUF960 family protein -
  F1613_RS03100 (F1613_03100) - 650613..650963 (-) 351 WP_002485722.1 SAUGI family uracil-DNA glycosylase inhibitor -
  F1613_RS03105 (F1613_03105) ccrB 651464..653092 (-) 1629 WP_011082541.1 cassette chromosome recombinase CcrB Machinery gene
  F1613_RS03110 (F1613_03110) ccrA 653089..654450 (-) 1362 WP_001631036.1 cassette chromosome recombinase CcrA Machinery gene
  F1613_RS03115 (F1613_03115) - 654637..655266 (-) 630 Protein_573 hypothetical protein -
  F1613_RS12510 - 655275..655613 (+) 339 Protein_574 recombinase family protein -
  F1613_RS03125 (F1613_03125) - 655725..656084 (-) 360 WP_001631039.1 hypothetical protein -
  F1613_RS03130 (F1613_03130) - 656291..656617 (+) 327 WP_000391495.1 ArsR/SmtB family transcription factor -
  F1613_RS03140 (F1613_03140) - 656947..658872 (+) 1926 WP_002485723.1 heavy metal translocating P-type ATPase -
  F1613_RS03145 (F1613_03145) - 660040..660945 (-) 906 Protein_578 transposase -
  F1613_RS03150 (F1613_03150) - 661066..661635 (+) 570 WP_002470562.1 hypothetical protein -
  F1613_RS03155 (F1613_03155) - 661680..662837 (+) 1158 WP_002485721.1 hypothetical protein -
  F1613_RS03160 (F1613_03160) - 663020..663244 (+) 225 WP_070866987.1 hypothetical protein -
  F1613_RS03165 (F1613_03165) - 663269..663943 (+) 675 WP_011082546.1 IS6-like element IS257 family transposase -
  F1613_RS03170 (F1613_03170) lspA 663971..664348 (-) 378 WP_011082547.1 signal peptidase II -
  F1613_RS03175 (F1613_03175) - 664583..664984 (+) 402 WP_002485756.1 ArsR/SmtB family transcription factor -
  F1613_RS03180 (F1613_03180) - 665310..666005 (+) 696 WP_225793074.1 ZIP family metal transporter -
  F1613_RS03185 (F1613_03185) - 666262..668670 (+) 2409 WP_002485759.1 heavy metal translocating P-type ATPase -

Sequence

Protein


Download         Length: 542 a.a.        Molecular weight: 62726.19 Da        Isoelectric Point: 9.9816

>NTDB_id=386194 F1613_RS03005 WP_011082534.1 635313..636941(-) (ccrB) [Staphylococcus epidermidis strain ATCC 12228]
MQQLKTKRVGIYVRVSTEMQSTEGYSIDGQINQIKEYCDFHHFEVKDIYADRGISGKFMNRPELQRMLKDAKEGNIDCVM
IYKTNRLARNTSDLLKIVEDLHKQNVEFFSLSERMEVNTSSGKLMLQILASFSEFERNNIVENVFMGQTRRAQEGYYQGN
LPLGYDKIPDSKHELMINQHEANIVKYIFESYAKGHGYRKIANALNHKGYVTKKGKPFSISSITYILANPFYIGKIQFAK
YKDWSEKRRKGLNDKPVIAEGKHSPIINQDLWNKVQIRKKQVSQKPQVHGKGTNLLTGIIHCPQCGAPMAASNTTNTLKD
GTKKRIRYYSCSNFRNKGSKVCSANSVRADVIEDYVMKQILEIVKSDKVIQRVVARVNQENQVDCASLHHDIAYKQQQYD
EVRIKLNNLIKTIEDNPDLTSVIRPSIQKYDKQLNDIMSQINQLKKQQNEDKPSYNAKKIGKILRYVFHNIEKMKKSQLK
ALYLAVIDRIDIRKDSNHKKQFYVTLKLDNEVIKQVFNDIPLDEVLLSTSSLFLPQPFYLTI

Nucleotide


Download         Length: 1629 bp        

>NTDB_id=386194 F1613_RS03005 WP_011082534.1 635313..636941(-) (ccrB) [Staphylococcus epidermidis strain ATCC 12228]
ATGCAACAACTTAAAACAAAACGTGTCGGTATCTATGTACGTGTTTCAACAGAAATGCAAAGCACAGAAGGTTATAGTAT
CGATGGACAAATCAATCAAATCAAAGAATACTGTGACTTCCATCATTTTGAGGTCAAAGATATATACGCTGATCGTGGTA
TTTCAGGTAAATTTATGAACAGACCTGAGCTCCAACGTATGTTGAAAGATGCAAAAGAAGGCAATATAGATTGTGTTATG
ATCTACAAAACAAACCGATTAGCTCGTAATACATCGGATCTTCTGAAAATCGTCGAAGATTTGCATAAACAAAATGTCGA
ATTTTTCAGTTTATCAGAGCGTATGGAAGTCAATACTTCTTCTGGTAAACTCATGTTACAAATACTTGCGAGTTTCTCAG
AATTCGAACGTAATAACATTGTCGAGAATGTATTTATGGGGCAAACGAGACGTGCCCAAGAAGGCTATTATCAAGGCAAT
TTACCACTAGGTTATGACAAAATACCAGATAGTAAACACGAGCTAATGATTAACCAACATGAAGCTAATATTGTAAAATA
TATATTCGAGTCCTATGCCAAAGGACATGGCTATCGTAAAATAGCCAATGCATTGAATCACAAAGGCTATGTCACTAAAA
AGGGTAAACCTTTTAGTATTAGTTCTATCACATATATATTAGCTAACCCATTCTATATCGGCAAAATTCAATTTGCGAAA
TACAAAGATTGGAGTGAAAAACGTCGTAAAGGGCTTAATGATAAACCAGTGATAGCTGAAGGGAAGCATTCCCCCATTAT
TAATCAAGATTTATGGAATAAAGTACAAATACGTAAAAAACAAGTCAGTCAAAAACCCCAAGTCCATGGCAAAGGAACAA
ATCTGCTTACAGGCATTATTCACTGTCCCCAATGTGGCGCACCTATGGCAGCAAGCAATACAACGAATACACTTAAAGAT
GGAACCAAGAAACGTATACGTTACTATTCATGTAGTAATTTTCGCAACAAGGGGTCCAAAGTATGTTCGGCAAACAGTGT
AAGAGCTGATGTGATTGAAGATTATGTGATGAAGCAAATACTCGAAATAGTCAAAAGTGATAAAGTCATTCAACGCGTTG
TAGCACGTGTTAATCAAGAAAATCAAGTTGATTGTGCGTCACTTCATCACGATATCGCTTATAAGCAACAACAATATGAT
GAAGTAAGAATCAAACTAAATAACTTGATTAAAACCATCGAGGATAATCCGGACTTAACATCAGTAATCAGGCCGTCGAT
TCAAAAATATGATAAGCAACTTAATGACATTATGAGTCAAATCAATCAACTCAAAAAACAACAAAATGAAGATAAACCCT
CATATAATGCCAAAAAAATTGGTAAAATATTGCGATACGTCTTTCATAATATTGAGAAAATGAAAAAATCTCAACTTAAA
GCACTGTACTTAGCAGTGATTGATCGCATAGATATTAGAAAAGACAGCAATCACAAAAAACAGTTTTATGTAACACTCAA
ACTTGATAATGAAGTAATTAAACAGGTTTTCAATGATATTCCTCTCGACGAAGTGCTCCTTAGCACTTCGTCTTTATTTT
TACCCCAACCTTTTTATTTAACAATATAA

Domains

Predicted by InterproScan.

Ogr/Delta-like zinc finger (Ogr_Delta)

(301-356)

Recombinase (Recombinase)

(180-279)

Resolvase, N terminal domain (Resolvase)

(11-156)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q8CQJ7

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

92.066

100

0.921

Multiple sequence alignment