Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   NZD48_RS00265 Genome accession   NZ_CP103964
Coordinates   50051..51676 (-) Length   541 a.a.
NCBI ID   WP_234770377.1    Uniprot ID   -
Organism   Staphylococcus hyicus strain MM2101     
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)
ICE 41177..88132 50051..51676 within 0
SCCmec 50525..60276 50051..51676 flank -1151


Gene organization within MGE regions


Location: 41177..88132
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NZD48_RS00225 (NZD48_00225) - 41734..44526 (+) 2793 WP_257238254.1 type I restriction endonuclease subunit R -
  NZD48_RS00230 (NZD48_00230) - 44616..45197 (+) 582 WP_070657162.1 restriction endonuclease subunit S -
  NZD48_RS00235 (NZD48_00235) - 45198..46754 (+) 1557 WP_257238253.1 type I restriction-modification system subunit M -
  NZD48_RS00240 (NZD48_00240) - 46747..47979 (+) 1233 WP_257238252.1 restriction endonuclease subunit S -
  NZD48_RS00245 (NZD48_00245) - 48085..48306 (-) 222 WP_204182300.1 hypothetical protein -
  NZD48_RS00250 (NZD48_00250) - 48321..48824 (-) 504 WP_076689891.1 DUF1643 domain-containing protein -
  NZD48_RS00255 (NZD48_00255) - 48839..49150 (-) 312 WP_000700850.1 DUF960 family protein -
  NZD48_RS00260 (NZD48_00260) - 49243..49584 (-) 342 WP_000859158.1 SAUGI family uracil-DNA glycosylase inhibitor -
  NZD48_RS00265 (NZD48_00265) ccrB 50051..51676 (-) 1626 WP_234770377.1 cassette chromosome recombinase CcrB Machinery gene
  NZD48_RS00270 (NZD48_00270) ccrA 51698..53047 (-) 1350 WP_216347504.1 cassette chromosome recombinase CcrA Machinery gene
  NZD48_RS00275 (NZD48_00275) - 53239..53514 (-) 276 WP_044466491.1 hypothetical protein -
  NZD48_RS00280 (NZD48_00280) cch1 53583..55370 (-) 1788 WP_044466492.1 cassette chromosome replicative helicase -
  NZD48_RS00285 (NZD48_00285) - 55496..56923 (-) 1428 WP_259489399.1 DUF6038 family protein -
  NZD48_RS00290 (NZD48_00290) - 57348..58022 (-) 675 WP_001105987.1 IS6-like element IS257 family transposase -
  NZD48_RS00295 (NZD48_00295) - 58063..58170 (-) 108 Protein_56 beta-lactam sensor/signal transducer MecR1 -
  NZD48_RS00300 (NZD48_00300) mecA 58267..60276 (+) 2010 WP_001801873.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -
  NZD48_RS00305 (NZD48_00305) - 60322..60750 (-) 429 WP_000872606.1 MaoC family dehydratase -
  NZD48_RS00310 (NZD48_00310) - 60847..61590 (-) 744 WP_000958858.1 glycerophosphoryl diester phosphodiesterase -
  NZD48_RS00315 (NZD48_00315) - 62507..62896 (-) 390 WP_020444595.1 hydroxymethylglutaryl-CoA synthase -
  NZD48_RS00320 (NZD48_00320) - 62932..63606 (+) 675 WP_001105987.1 IS6-like element IS257 family transposase -
  NZD48_RS00325 (NZD48_00325) - 63666..64142 (-) 477 Protein_62 integrase DNA-binding domain-containing protein -
  NZD48_RS00330 (NZD48_00330) - 64224..64427 (-) 204 WP_000814511.1 excisionase -
  NZD48_RS00335 (NZD48_00335) - 64411..64662 (+) 252 WP_001845478.1 hypothetical protein -
  NZD48_RS00340 (NZD48_00340) - 64888..65118 (-) 231 WP_000857133.1 helix-turn-helix domain-containing protein -
  NZD48_RS00345 (NZD48_00345) - 65115..65537 (-) 423 WP_000804885.1 sigma-70 family RNA polymerase sigma factor -
  NZD48_RS00350 (NZD48_00350) - 66042..66395 (+) 354 WP_001227347.1 helix-turn-helix transcriptional regulator -
  NZD48_RS00355 (NZD48_00355) - 66455..66622 (-) 168 WP_000336323.1 cysteine-rich KTR domain-containing protein -
  NZD48_RS00360 (NZD48_00360) tet(M) 66741..68660 (-) 1920 WP_000691736.1 tetracycline resistance ribosomal protection protein Tet(M) -
  NZD48_RS00365 (NZD48_00365) - 68676..68792 (-) 117 WP_001791010.1 tetracycline resistance determinant leader peptide -
  NZD48_RS00370 (NZD48_00370) - 69037..69972 (-) 936 WP_001224320.1 conjugal transfer protein -
  NZD48_RS00375 (NZD48_00375) - 69969..70970 (-) 1002 WP_000769868.1 lysozyme family protein -
  NZD48_RS00380 (NZD48_00380) - 70967..73144 (-) 2178 WP_000804748.1 CD3337/EF1877 family mobilome membrane protein -
  NZD48_RS00385 (NZD48_00385) - 73147..75594 (-) 2448 WP_000331160.1 ATP-binding protein -
  NZD48_RS00390 (NZD48_00390) - 75578..75970 (-) 393 WP_000723888.1 conjugal transfer protein -
  NZD48_RS00395 (NZD48_00395) - 76059..76556 (-) 498 WP_000342539.1 antirestriction protein ArdA -
  NZD48_RS00400 (NZD48_00400) - 76673..76894 (-) 222 WP_001009056.1 hypothetical protein -
  NZD48_RS00405 (NZD48_00405) mobT 76937..78142 (-) 1206 WP_000398284.1 MobT family relaxase -
  NZD48_RS00410 (NZD48_00410) - 78165..78317 (-) 153 WP_000879507.1 hypothetical protein -
  NZD48_RS00415 (NZD48_00415) - 78320..79705 (-) 1386 WP_000813488.1 FtsK/SpoIIIE domain-containing protein -
  NZD48_RS00420 (NZD48_00420) - 79734..80120 (-) 387 WP_000985015.1 YdcP family protein -
  NZD48_RS00425 (NZD48_00425) - 80136..80450 (-) 315 WP_000420682.1 YdcP family protein -
  NZD48_RS00430 (NZD48_00430) - 80781..81353 (+) 573 WP_151362627.1 ADP-ribosyltransferase -
  NZD48_RS00435 (NZD48_00435) - 81624..82241 (+) 618 WP_069826417.1 CadD family cadmium resistance transporter -
  NZD48_RS00440 (NZD48_00440) - 82260..82601 (+) 342 WP_151362628.1 helix-turn-helix transcriptional regulator -
  NZD48_RS00445 (NZD48_00445) arsC 82621..83022 (-) 402 WP_151362629.1 arsenate reductase (thioredoxin) -
  NZD48_RS00450 (NZD48_00450) arsB 83040..84332 (-) 1293 WP_204172539.1 arsenite efflux transporter membrane subunit ArsB -
  NZD48_RS00455 (NZD48_00455) - 84329..84646 (-) 318 WP_011274435.1 metalloregulator ArsR/SmtB family transcription factor -
  NZD48_RS00460 (NZD48_00460) - 84915..86975 (+) 2061 WP_025905371.1 heavy metal translocating P-type ATPase -
  NZD48_RS00465 (NZD48_00465) - 86993..87538 (+) 546 WP_037537668.1 YdhK family protein -

Sequence

Protein


Download         Length: 541 a.a.        Molecular weight: 62379.34 Da        Isoelectric Point: 9.8266

>NTDB_id=726633 NZD48_RS00265 WP_234770377.1 50051..51676(-) (ccrB) [Staphylococcus hyicus strain MM2101]
MSEMKKKRIGGYIRVSTEKQVMGYSIEGQITQIEQYCQFNGYKLVDIYADRGISGKSMNRPELQRMLNDAKNGKLDCVMV
YKTNRLARNTSDLLTIVEELHRQNVEFFSLSERMEVKNSTGKLMLQILASFSEFERNTILENIYTGQRQRALEGYYQGNL
PLGYNNIPDNKKELMINQHEANIVKYIFESYAKGHGYRKIANALNHKGYVTKKGNPFSISAVTYILSNPFYIGKIQFAKY
KDWNDKRRKGLNDKPVIAEGKHTPIISQSLWDKVQARKKQVSEKPQVHGKGTNILTGLISCPQCSAPMAASNTTNTLKDG
TKKRIRYYSCSNFRNKGSKVCSANSVRADVIEKYVMDQILEIVKSDKVLKQVVERVNQENQVDVSALNHDIAYKQQQFDE
INTKLKNLVQTIEDNPDLTSALKPTIHQYETQLNDITNQMNQLKHQQNQEKPSYDTKQIAALLQRIFQNIESMDKSQIKA
LYLTVIDRIDIRKDENHKKQFYVTLKLNNEIIKQLFNNNNLDEVLLSTSSLFLPQTLYFQI

Nucleotide


Download         Length: 1626 bp        

>NTDB_id=726633 NZD48_RS00265 WP_234770377.1 50051..51676(-) (ccrB) [Staphylococcus hyicus strain MM2101]
ATGAGTGAAATGAAGAAGAAGAGAATCGGAGGGTACATCCGCGTATCCACGGAAAAACAGGTAATGGGCTATAGTATAGA
AGGACAAATTACACAAATAGAGCAATATTGCCAATTTAACGGCTATAAACTCGTTGATATATATGCAGATCGGGGCATAT
CAGGAAAATCTATGAACCGTCCTGAATTACAGCGCATGTTAAATGATGCTAAAAATGGAAAATTAGACTGTGTTATGGTT
TATAAAACAAATCGTTTGGCACGTAATACTTCCGATTTACTTACAATAGTCGAAGAACTTCATCGCCAAAATGTTGAATT
TTTTAGCTTATCTGAACGTATGGAAGTCAAAAATTCAACAGGCAAGTTAATGCTCCAGATACTTGCAAGTTTTTCCGAAT
TTGAAAGAAATACAATTTTAGAGAACATTTACACCGGACAACGTCAAAGAGCTTTAGAGGGCTATTATCAAGGCAATCTT
CCATTAGGATATAATAACATACCTGATAATAAAAAAGAATTAATGATTAATCAACATGAAGCTAACATCGTTAAATATAT
CTTTGAATCTTATGCCAAAGGTCATGGTTATCGTAAAATAGCCAATGCACTCAATCATAAAGGTTATGTCACTAAGAAAG
GTAATCCATTTAGTATTTCAGCTGTTACTTATATTCTCTCAAACCCATTCTATATTGGTAAAATTCAATTCGCGAAATAC
AAAGATTGGAATGATAAACGACGTAAAGGATTAAACGATAAGCCAGTAATCGCTGAAGGTAAACACACGCCTATTATTAG
TCAATCATTATGGGATAAAGTGCAAGCACGTAAGAAACAAGTAAGTGAAAAACCACAAGTCCATGGTAAAGGAACCAATA
TTTTAACTGGATTAATTTCGTGTCCCCAATGTTCTGCACCTATGGCTGCGAGTAACACCACAAACACACTTAAAGATGGC
ACTAAAAAACGTATTCGTTACTATTCGTGTAGTAATTTTCGAAATAAAGGCTCAAAGGTATGTTCTGCGAATAGTGTTAG
AGCCGATGTCATTGAAAAATATGTTATGGACCAAATACTTGAAATTGTCAAAAGTGATAAAGTTCTCAAACAAGTTGTCG
AACGTGTCAATCAAGAGAATCAAGTCGATGTATCTGCACTTAACCATGATATTGCTTATAAACAACAACAATTTGATGAA
ATTAACACTAAACTTAAAAATCTAGTTCAAACCATCGAAGACAATCCAGACTTAACATCTGCACTCAAACCAACCATTCA
TCAATATGAAACACAACTCAATGACATTACAAATCAAATGAATCAGCTCAAGCACCAACAAAATCAAGAGAAACCATCTT
ATGATACGAAACAAATCGCTGCCCTATTACAACGAATATTTCAAAATATAGAATCCATGGATAAATCACAGATCAAAGCT
TTGTACCTAACGGTTATTGACCGTATTGATATTCGTAAAGATGAGAATCATAAAAAACAATTCTATGTCACTCTCAAGCT
CAATAATGAAATTATTAAACAACTTTTTAATAATAACAATCTAGACGAAGTGCTCCTCAGCACTTCGTCTTTGTTTTTGC
CTCAAACACTCTACTTTCAAATATAA

Domains

Predicted by InterproScan.

Resolvase, N terminal domain (Resolvase)

(11-154)

Ogr/Delta-like zinc finger (Ogr_Delta)

(301-355)

Recombinase (Recombinase)

(179-279)


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

79.336

100

0.795