Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   NYR13_RS00580 Genome accession   NZ_CP103860
Coordinates   122822..124450 (+) Length   542 a.a.
NCBI ID   WP_001186608.1    Uniprot ID   -
Organism   Staphylococcus aureus strain R3-8     
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 115734..131215 122822..124450 within 0


Gene organization within MGE regions


Location: 115734..131215
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NYR13_RS00555 (NYR13_00555) - 115734..117224 (-) 1491 WP_000554504.1 RNA-binding domain-containing protein -
  NYR13_RS00560 (NYR13_00560) - 117952..119001 (-) 1050 WP_000613248.1 hypothetical protein -
  NYR13_RS00565 (NYR13_00565) ssb 119140..119430 (+) 291 WP_001036438.1 cassette chromosome ssDNA-binding protein -
  NYR13_RS00570 (NYR13_00570) cch1 119430..121217 (+) 1788 WP_000122620.1 cassette chromosome replicative helicase -
  NYR13_RS00575 (NYR13_00575) ccrA 121451..122800 (+) 1350 WP_000815640.1 cassette chromosome recombinase CcrA Machinery gene
  NYR13_RS00580 (NYR13_00580) ccrB 122822..124450 (+) 1629 WP_001186608.1 cassette chromosome recombinase CcrB Machinery gene
  NYR13_RS00585 (NYR13_00585) - 124972..125322 (+) 351 WP_000849672.1 SAUGI family uracil-DNA glycosylase inhibitor -
  NYR13_RS00590 (NYR13_00590) - 125409..125720 (+) 312 WP_000700851.1 DUF960 family protein -
  NYR13_RS00595 (NYR13_00595) - 125735..126241 (+) 507 WP_001092189.1 DUF1643 domain-containing protein -
  NYR13_RS00600 (NYR13_00600) - 126290..127900 (+) 1611 Protein_119 IS1182 family transposase -
  NYR13_RS00605 (NYR13_00605) - 127891..128136 (-) 246 Protein_120 type I restriction enzyme endonuclease domain-containing protein -
  NYR13_RS00610 (NYR13_00610) - 128123..129109 (-) 987 WP_001549960.1 beta-lactam sensor/signal transducer MecR1 -
  NYR13_RS00615 (NYR13_00615) mecA 129206..131215 (+) 2010 WP_001801873.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -

Sequence

Protein


Download         Length: 542 a.a.        Molecular weight: 62654.83 Da        Isoelectric Point: 9.7970

>NTDB_id=726144 NYR13_RS00580 WP_001186608.1 122822..124450(+) (ccrB) [Staphylococcus aureus strain R3-8]
MQQLKTKRVGIYVRVSTEMQSTEGYSIDGQINQIKEYCDFHHFEVKDIYADRGISGKSMNRPELQRMLKDAKEGNIDCVM
VYKTNRLARNTSDLLKIVEDLHKQNVEFFSLSERMEVNTSSGKLMLQILASFSEFERNNIVENVFMGQTRRAQEGYYQGN
LPLGYDKIPDSKHELMINQHEANIVKYIFECYAKGHGYRKIANALNHKGYVTKKGKPFSISSITYILANPFYIGKIQFAK
YKDWSEKRRKGLNDKPVIAEGKHSPIINQDLWDKVQMRKKQVSQKPQVHGKGTNLLTGIIHCPQCGAPMAASNTTNTLKD
GTKKRIRYYSCSNFRNKGSKVCSANSVRADVIEDYVMKQILEIVKSDKVIQRVVTHVNQENQVDGAALHHDIAYKQQQYD
EVQIKINNLIKTIEDNPDLTSVIRPSIQKYEKQLNDITNQINQLKNQQNEDKTLFDAKEISKLLQHIFHDIKHIEKSRLK
ALYLSVIDRIDIKKDGNHKKQFYVTLKLNNEIIKQLFNNKQLDEVHLSTSSLFLPQTLYLTI

Nucleotide


Download         Length: 1629 bp        

>NTDB_id=726144 NYR13_RS00580 WP_001186608.1 122822..124450(+) (ccrB) [Staphylococcus aureus strain R3-8]
ATGCAACAACTTAAAACAAAACGTGTCGGTATCTATGTACGTGTATCAACAGAAATGCAAAGCACAGAAGGTTATAGTAT
CGACGGACAAATCAATCAAATCAAAGAATACTGTGACTTCCATCATTTTGAAGTTAAAGATATATACGCTGACCGTGGTA
TTTCAGGTAAATCTATGAACAGACCTGAGCTCCAACGTATGTTGAAAGATGCAAAAGAAGGCAATATCGACTGTGTTATG
GTATACAAAACAAACCGATTAGCTCGTAATACATCTGATCTTCTCAAAATTGTCGAAGATTTACACAAACAAAATGTCGA
ATTTTTCAGTTTGTCAGAGCGTATGGAAGTCAATACTTCTTCTGGTAAACTCATGTTACAGATACTTGCGAGTTTCTCAG
AATTCGAACGTAATAACATTGTCGAGAACGTATTTATGGGTCAAACGAGACGTGCCCAAGAAGGCTATTATCAAGGCAAT
TTACCACTAGGTTATGACAAAATACCAGATAGTAAACACGAGCTAATGATTAACCAACATGAAGCTAATATTGTAAAATA
TATATTCGAGTGCTATGCCAAAGGACATGGCTATCGTAAAATTGCCAATGCATTGAATCACAAAGGATATGTCACTAAAA
AGGGGAAACCTTTCAGTATTAGTTCAATCACATACATCTTAGCTAACCCTTTCTATATCGGCAAAATTCAATTTGCGAAA
TACAAAGATTGGAGTGAAAAACGTCGTAAAGGGCTGAATGATAAACCAGTGATAGCTGAAGGTAAGCATTCCCCCATTAT
TAATCAAGATTTATGGGATAAAGTACAAATGCGTAAGAAACAAGTCAGTCAAAAACCCCAAGTCCATGGCAAAGGAACGA
ATCTGCTTACAGGCATTATTCACTGTCCCCAATGTGGCGCACCTATGGCAGCAAGCAATACCACGAATACTCTTAAAGAC
GGGACTAAGAAACGTATTCGTTACTATTCATGTAGTAATTTTCGGAACAAGGGTTCCAAAGTATGTTCGGCAAACAGTGT
AAGAGCTGATGTGATTGAAGATTATGTGATGAAGCAAATACTTGAAATAGTCAAAAGTGATAAAGTCATTCAACGCGTAG
TAACACACGTCAATCAAGAAAATCAAGTTGATGGCGCTGCACTTCATCACGATATTGCTTATAAGCAACAACAATATGAT
GAAGTACAAATCAAAATAAATAACTTGATTAAAACCATCGAGGATAATCCGGACTTAACATCAGTAATCAGACCAAGTAT
TCAAAAATATGAAAAGCAACTCAATGACATTACGAATCAAATCAACCAACTCAAAAATCAACAAAATGAAGATAAGACTT
TATTTGATGCCAAAGAAATCAGTAAACTATTACAACACATCTTTCATGATATTAAGCACATAGAAAAATCTCGACTCAAA
GCATTGTATCTATCAGTGATTGATCGCATTGATATTAAAAAAGATGGTAATCATAAAAAACAATTCTATGTCACACTCAA
ACTTAATAACGAAATCATTAAACAACTTTTCAATAATAAACAACTCGACGAAGTGCATCTCAGCACTTCGTCTTTATTTT
TGCCCCAAACACTATATCTTACTATTTAG

Domains

Predicted by InterproScan.

Recombinase (Recombinase)

(180-280)

Resolvase, N terminal domain (Resolvase)

(11-156)

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

98.893

100

0.989