Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   EL299_RS00210 Genome accession   NZ_LR134536
Coordinates   33683..35311 (-) Length   542 a.a.
NCBI ID   WP_001186596.1    Uniprot ID   -
Organism   Staphylococcus epidermidis strain NCTC13924     
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 3344..36678 33683..35311 within 0


Gene organization within MGE regions


Location: 3344..36678
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EL299_RS00020 (NCTC13924_00005) ccrC 3344..5020 (+) 1677 WP_012086571.1 cassette chromosome recombinase CcrC -
  EL299_RS00025 (NCTC13924_00006) - 5126..5464 (+) 339 WP_012086569.1 SAUGI family uracil-DNA glycosylase inhibitor -
  EL299_RS00030 (NCTC13924_00007) - 5560..5871 (+) 312 WP_001083109.1 DUF960 family protein -
  EL299_RS00035 (NCTC13924_00008) - 5887..6393 (+) 507 WP_012086564.1 DUF1643 domain-containing protein -
  EL299_RS00040 (NCTC13924_00009) - 6421..6867 (+) 447 WP_012086562.1 JAB domain-containing protein -
  EL299_RS00045 (NCTC13924_00010) - 7037..7909 (+) 873 WP_012086560.1 HTH domain-containing protein -
  EL299_RS00050 (NCTC13924_00011) - 7961..8251 (+) 291 WP_012086558.1 hypothetical protein -
  EL299_RS14035 - 8474..8629 (+) 156 Protein_10 metal-sensing transcriptional repressor -
  EL299_RS00060 (NCTC13924_00013) - 8626..9384 (+) 759 WP_000623679.1 sulfite exporter TauE/SafE family protein -
  EL299_RS00065 (NCTC13924_00014) - 9554..9763 (+) 210 Protein_12 heavy metal translocating P-type ATPase -
  EL299_RS00070 (NCTC13924_00015) - 9781..10326 (+) 546 WP_031869236.1 YdhK family protein -
  EL299_RS00075 (NCTC13924_00016) - 10769..12025 (+) 1257 WP_000566670.1 MrcB family domain-containing protein -
  EL299_RS00080 (NCTC13924_00017) - 12470..13144 (-) 675 WP_001106057.1 IS6-like element IS257 family transposase -
  EL299_RS00085 - 13180..13569 (+) 390 WP_020444595.1 hydroxymethylglutaryl-CoA synthase -
  EL299_RS00095 (NCTC13924_00019) - 14206..14949 (+) 744 WP_000958858.1 glycerophosphoryl diester phosphodiesterase -
  EL299_RS00100 (NCTC13924_00020) - 15046..15474 (+) 429 WP_000872606.1 MaoC family dehydratase -
  EL299_RS00105 (NCTC13924_00021) mecA 15520..17529 (-) 2010 WP_001801873.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -
  EL299_RS00110 (NCTC13924_00022) mecR1 17626..19383 (+) 1758 WP_000952923.1 beta-lactam sensor/signal transducer MecR1 -
  EL299_RS00115 (NCTC13924_00023) mecI 19383..19754 (+) 372 WP_000369214.1 mecA-type methicillin resistance repressor MecI -
  EL299_RS00120 psm-mec 19839..19907 (-) 69 WP_014532405.1 phenol-soluble modulin PSM-mec -
  EL299_RS00125 (NCTC13924_00024) - 20241..21371 (+) 1131 WP_010922808.1 ROK family transcriptional regulator -
  EL299_RS00135 (NCTC13924_00026) cstB 21485..22819 (-) 1335 Protein_24 persulfide dioxygenase-sulfurtransferase CstB -
  EL299_RS00140 (NCTC13924_00027) - 22852..23916 (-) 1065 WP_000438836.1 DsrE/DsrF/DrsH-like family protein -
  EL299_RS00145 (NCTC13924_00028) cstR 24052..24312 (+) 261 WP_000220507.1 persulfide-sensing transcriptional repressor CstR -
  EL299_RS00150 (NCTC13924_00029) - 24312..24950 (+) 639 Protein_27 sulfite exporter TauE/SafE family protein -
  EL299_RS00160 (NCTC13924_00030) - 25224..25840 (-) 617 Protein_28 CadD family cadmium resistance transporter -
  EL299_RS00165 (NCTC13924_00031) - 25921..28335 (-) 2415 WP_000378485.1 cadmium-translocating P-type ATPase CadA -
  EL299_RS00170 (NCTC13924_00032) - 28328..28693 (-) 366 WP_000159127.1 ArsR/SmtB family transcription factor -
  EL299_RS00175 (NCTC13924_00033) - 28931..29308 (-) 378 WP_001041908.1 DUF6262 family protein -
  EL299_RS00180 (NCTC13924_00034) - 29315..31207 (-) 1893 WP_002485298.1 site-specific integrase -
  EL299_RS00185 (NCTC13924_00035) - 31402..31725 (-) 324 WP_000088091.1 JAB domain-containing protein -
  EL299_RS00190 (NCTC13924_00036) - 31718..31924 (-) 207 WP_001077283.1 hypothetical protein -
  EL299_RS00195 (NCTC13924_00037) - 31926..32447 (-) 522 WP_000836008.1 DUF1643 domain-containing protein -
  EL299_RS00200 (NCTC13924_00038) - 32466..32777 (-) 312 WP_000833212.1 DUF960 family protein -
  EL299_RS00205 (NCTC13924_00040) - 32862..33212 (-) 351 WP_000171449.1 SAUGI family uracil-DNA glycosylase inhibitor -
  EL299_RS00210 (NCTC13924_00041) ccrB 33683..35311 (-) 1629 WP_001186596.1 cassette chromosome recombinase CcrB Machinery gene
  EL299_RS00215 (NCTC13924_00042) ccrA 35332..36678 (-) 1347 WP_000816499.1 cassette chromosome recombinase CcrA Machinery gene

Sequence

Protein


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

>NTDB_id=1124162 EL299_RS00210 WP_001186596.1 33683..35311(-) (ccrB) [Staphylococcus epidermidis strain NCTC13924]
MQQLKQKRVGIYVRVSTEIQSTEGYSIDGQINQIREYCDFNNFVVVDVYADRGISGKSMNRPELQRLLKDANEGQIDSVM
VYKTNRLARNTSDLLKIVEDLHRQNVEFFSLSERMEVNTSSGKLMLQILASFSEFERNNIVENVFMGQTRRAQEGYYQGN
LPLGYDKIPDSKHELMINQHEANIVKYIFESYAKGHGYRKIANALNHKGYVTKKGKPFSIGSVTYILSNPFYVGKIQFAK
YKDWNEKRRKGLNDKPIIAEGKHSPIIIQDLWDKVQLRKKQVSQKPQVHGKGTNLLTGIVHCPQCGAPMAASNTTNTLKD
GTKKRIRYYSCSNFRNKGSKVCSANSVRADVIEKYVMDQILEIVKSDKVINQVLERVNQENKVDIGALNHDIAYKQQQYD
EVSGKLHNLVKTIEDNPDLTSALKATIHQYETQLNDITNQMNQLKQQQNQEKLSYDTKQIAALLQRIFQNIESMDKAQLK
ALYLTVIDRIDIRKDGNHKKQFYVTLKLNNEIIKQLFNNTPLDEVLLSTSSLFLPQTLFLQI

Nucleotide


Download         Length: 1629 bp        

>NTDB_id=1124162 EL299_RS00210 WP_001186596.1 33683..35311(-) (ccrB) [Staphylococcus epidermidis strain NCTC13924]
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

Multiple sequence alignment