Detailed information    

insolico Bioinformatically predicted

Overview

Name   ccrB   Type   Machinery gene
Locus tag   HWI35_RS13485 Genome accession   NZ_CP064557
Coordinates   2730237..2731865 (+) Length   542 a.a.
NCBI ID   WP_001186596.1    Uniprot ID   -
Organism   Staphylococcus epidermidis strain UMCG362     
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 2695064..2750028 2730237..2731865 within 0


Gene organization within MGE regions


Location: 2695064..2750028
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HWI35_RS13300 (HWI35_13180) - 2695064..2695876 (-) 813 WP_002504699.1 abortive infection system antitoxin AbiGi family protein -
  HWI35_RS13305 (HWI35_13185) - 2696067..2697581 (+) 1515 WP_002504700.1 class I SAM-dependent DNA methyltransferase -
  HWI35_RS13310 (HWI35_13190) - 2697571..2698845 (+) 1275 WP_002504701.1 restriction endonuclease subunit S -
  HWI35_RS13315 (HWI35_13195) - 2698829..2701948 (+) 3120 WP_002504702.1 type I restriction endonuclease subunit R -
  HWI35_RS13320 (HWI35_13200) - 2702026..2702349 (-) 324 WP_001176049.1 PepSY domain-containing protein -
  HWI35_RS13325 (HWI35_13205) - 2702743..2702964 (-) 222 WP_002504703.1 hypothetical protein -
  HWI35_RS13330 (HWI35_13210) - 2702913..2703356 (-) 444 WP_000941333.1 hypothetical protein -
  HWI35_RS13335 (HWI35_13215) - 2703418..2703945 (-) 528 WP_002504704.1 hypothetical protein -
  HWI35_RS13340 (HWI35_13220) - 2704080..2704568 (-) 489 WP_000393586.1 hypothetical protein -
  HWI35_RS13345 (HWI35_13225) - 2704584..2704874 (-) 291 WP_000065261.1 hypothetical protein -
  HWI35_RS13350 (HWI35_13230) - 2704931..2705803 (-) 873 WP_000373149.1 HTH domain-containing protein -
  HWI35_RS13355 (HWI35_13235) - 2705973..2706419 (-) 447 WP_002504705.1 RadC family protein -
  HWI35_RS13360 (HWI35_13240) - 2706440..2706946 (-) 507 WP_000849085.1 DUF1643 domain-containing protein -
  HWI35_RS13365 (HWI35_13245) - 2706962..2707273 (-) 312 WP_001083108.1 DUF960 family protein -
  HWI35_RS13370 (HWI35_13250) - 2707369..2707707 (-) 339 WP_063964250.1 SAUGI family uracil-DNA glycosylase inhibitor -
  HWI35_RS13375 (HWI35_13255) ccrC 2707813..2709489 (-) 1677 WP_002504707.1 cassette chromosome recombinase CcrC -
  HWI35_RS13380 (HWI35_13260) - 2709714..2711357 (-) 1644 WP_002504708.1 DUF5906 domain-containing protein -
  HWI35_RS13385 (HWI35_13265) - 2711354..2711725 (-) 372 WP_002437511.1 hypothetical protein -
  HWI35_RS13390 (HWI35_13270) - 2711718..2712827 (-) 1110 WP_002437509.1 DNA polymerase -
  HWI35_RS13395 (HWI35_13275) - 2712997..2715009 (-) 2013 WP_012088687.1 hypothetical protein -
  HWI35_RS13400 (HWI35_13280) - 2715171..2716100 (-) 930 WP_002504713.1 YafY family protein -
  HWI35_RS13405 (HWI35_13285) - 2716181..2716609 (+) 429 WP_000671997.1 VOC family protein -
  HWI35_RS13410 (HWI35_13290) - 2716669..2717343 (-) 675 Protein_2600 IS6 family transposase -
  HWI35_RS13415 (HWI35_13295) - 2717554..2718744 (+) 1191 WP_000716034.1 YbfB/YjiJ family MFS transporter -
  HWI35_RS13420 (HWI35_13300) - 2718731..2719597 (+) 867 WP_002504710.1 LysR family transcriptional regulator -
  HWI35_RS13425 (HWI35_13305) - 2719610..2720680 (+) 1071 WP_001054882.1 nitronate monooxygenase family protein -
  HWI35_RS13430 (HWI35_13310) - 2720845..2721204 (+) 360 WP_000432280.1 DUF4870 domain-containing protein -
  HWI35_RS13435 (HWI35_13315) - 2721442..2722215 (-) 774 WP_000998885.1 hypothetical protein -
  HWI35_RS13440 (HWI35_13320) - 2722532..2722696 (-) 165 WP_001028954.1 hypothetical protein -
  HWI35_RS13445 (HWI35_13325) - 2722901..2723734 (-) 834 WP_000694291.1 CPBP family intramembrane glutamic endopeptidase -
  HWI35_RS13450 (HWI35_13330) - 2723771..2724097 (-) 327 WP_000624048.1 helix-turn-helix domain-containing protein -
  HWI35_RS13455 (HWI35_13335) - 2724429..2725001 (-) 573 WP_000489177.1 ADP-ribosyltransferase -
  HWI35_RS13460 (HWI35_13340) - 2725054..2726103 (-) 1050 WP_000613217.1 hypothetical protein -
  HWI35_RS13465 (HWI35_13345) ssb 2726241..2726525 (+) 285 WP_000659554.1 cassette chromosome ssDNA-binding protein -
  HWI35_RS13470 (HWI35_13350) cch1 2726525..2728312 (+) 1788 WP_000181743.1 cassette chromosome replicative helicase -
  HWI35_RS13475 (HWI35_13355) - 2728402..2728677 (+) 276 WP_001791132.1 hypothetical protein -
  HWI35_RS13480 (HWI35_13360) ccrA 2728870..2730216 (+) 1347 WP_000816499.1 cassette chromosome recombinase CcrA Machinery gene
  HWI35_RS13485 (HWI35_13365) ccrB 2730237..2731865 (+) 1629 WP_001186596.1 cassette chromosome recombinase CcrB Machinery gene
  HWI35_RS13490 (HWI35_13370) - 2732336..2732686 (+) 351 WP_000171449.1 SAUGI family uracil-DNA glycosylase inhibitor -
  HWI35_RS13495 (HWI35_13375) - 2732771..2733082 (+) 312 WP_000833212.1 DUF960 family protein -
  HWI35_RS13500 (HWI35_13380) - 2733101..2733622 (+) 522 WP_000836008.1 DUF1643 domain-containing protein -
  HWI35_RS13505 (HWI35_13385) - 2733624..2733830 (+) 207 WP_001077283.1 hypothetical protein -
  HWI35_RS13510 (HWI35_13390) - 2733823..2734146 (+) 324 WP_000088091.1 JAB domain-containing protein -
  HWI35_RS13515 (HWI35_13395) - 2734341..2736233 (+) 1893 WP_063964251.1 site-specific integrase -
  HWI35_RS13520 (HWI35_13400) - 2736240..2736617 (+) 378 WP_001041908.1 DUF6262 family protein -
  HWI35_RS13525 (HWI35_13405) - 2736855..2737220 (+) 366 WP_000159127.1 metalloregulator ArsR/SmtB family transcription factor -
  HWI35_RS13530 (HWI35_13410) - 2737213..2739627 (+) 2415 WP_408020818.1 heavy metal translocating P-type ATPase -
  HWI35_RS13535 (HWI35_13415) - 2739708..2740324 (+) 617 Protein_2625 CadD family cadmium resistance transporter -
  HWI35_RS13540 (HWI35_13425) - 2740598..2741236 (-) 639 Protein_2626 sulfite exporter TauE/SafE family protein -
  HWI35_RS13545 (HWI35_13430) cstR 2741236..2741496 (-) 261 WP_000220507.1 persulfide-sensing transcriptional repressor CstR -
  HWI35_RS13550 (HWI35_13435) - 2741632..2742696 (+) 1065 WP_000438836.1 DsrE/DsrF/DrsH-like family protein -
  HWI35_RS13555 (HWI35_13440) cstB 2742729..2744063 (+) 1335 Protein_2629 persulfide dioxygenase-sulfurtransferase CstB -
  HWI35_RS13560 (HWI35_13445) - 2744177..2745307 (-) 1131 WP_010922808.1 ROK family transcriptional regulator -
  HWI35_RS13565 (HWI35_13450) psm-mec 2745641..2745709 (+) 69 WP_014532405.1 phenol-soluble modulin PSM-mec -
  HWI35_RS13570 (HWI35_13455) mecI 2745794..2746165 (-) 372 WP_000369214.1 mecA-type methicillin resistance repressor MecI -
  HWI35_RS13575 (HWI35_13460) mecR1 2746165..2747922 (-) 1758 WP_002504642.1 beta-lactam sensor/signal transducer MecR1 -
  HWI35_RS13580 (HWI35_13465) mecA 2748019..2750028 (+) 2010 WP_001801873.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA -

Sequence

Protein


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

>NTDB_id=503062 HWI35_RS13485 WP_001186596.1 2730237..2731865(+) (ccrB) [Staphylococcus epidermidis strain UMCG362]
MQQLKQKRVGIYVRVSTEIQSTEGYSIDGQINQIREYCDFNNFVVVDVYADRGISGKSMNRPELQRLLKDANEGQIDSVM
VYKTNRLARNTSDLLKIVEDLHRQNVEFFSLSERMEVNTSSGKLMLQILASFSEFERNNIVENVFMGQTRRAQEGYYQGN
LPLGYDKIPDSKHELMINQHEANIVKYIFESYAKGHGYRKIANALNHKGYVTKKGKPFSIGSVTYILSNPFYVGKIQFAK
YKDWNEKRRKGLNDKPIIAEGKHSPIIIQDLWDKVQLRKKQVSQKPQVHGKGTNLLTGIVHCPQCGAPMAASNTTNTLKD
GTKKRIRYYSCSNFRNKGSKVCSANSVRADVIEKYVMDQILEIVKSDKVINQVLERVNQENKVDIGALNHDIAYKQQQYD
EVSGKLHNLVKTIEDNPDLTSALKATIHQYETQLNDITNQMNQLKQQQNQEKLSYDTKQIAALLQRIFQNIESMDKAQLK
ALYLTVIDRIDIRKDGNHKKQFYVTLKLNNEIIKQLFNNTPLDEVLLSTSSLFLPQTLFLQI

Nucleotide


Download         Length: 1629 bp        

>NTDB_id=503062 HWI35_RS13485 WP_001186596.1 2730237..2731865(+) (ccrB) [Staphylococcus epidermidis strain UMCG362]
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