Detailed information    

insolico Bioinformatically predicted

Overview

Name   comFA   Type   Machinery gene
Locus tag   LBS_RS00435 Genome accession   NZ_CP022709
Coordinates   61250..62587 (+) Length   445 a.a.
NCBI ID   WP_052039239.1    Uniprot ID   A0AAE8J6D0
Organism   Latilactobacillus sakei strain WiKim0063     
Function   ssDNA transport into the cell (predicted from homology)   
DNA binding and uptake

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 39383..90716 61250..62587 within 0


Gene organization within MGE regions


Location: 39383..90716
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LBS_RS00340 (LBS_00340) - 40798..41823 (-) 1026 WP_025016338.1 lactonase family protein -
  LBS_RS00345 (LBS_00345) - 41972..42361 (+) 390 WP_049762106.1 PTS glucitol/sorbitol transporter subunit IIA -
  LBS_RS00350 (LBS_00350) - 42377..43516 (+) 1140 WP_025016337.1 AI-2E family transporter -
  LBS_RS00355 (LBS_00355) - 43649..44086 (-) 438 WP_025016336.1 GNAT family N-acetyltransferase -
  LBS_RS00360 (LBS_00360) - 44250..45227 (-) 978 WP_011374185.1 GMP reductase -
  LBS_RS00365 (LBS_00365) - 45374..46327 (-) 954 WP_011374186.1 magnesium transporter CorA family protein -
  LBS_RS00370 (LBS_00370) - 46416..47252 (+) 837 WP_016264719.1 methyltransferase domain-containing protein -
  LBS_RS00375 (LBS_00375) trmL 47505..48014 (+) 510 WP_011374188.1 tRNA (uridine(34)/cytosine(34)/5- carboxymethylaminomethyluridine(34)-2'-O)- methyltransferase TrmL -
  LBS_RS00380 (LBS_00380) - 48026..48433 (+) 408 WP_025016334.1 DUF1149 family protein -
  LBS_RS00385 (LBS_00385) - 48572..50941 (+) 2370 WP_094365641.1 DNA translocase FtsK -
  LBS_RS00390 (LBS_00390) - 51139..52410 (+) 1272 WP_011374191.1 pitrilysin family protein -
  LBS_RS00395 (LBS_00395) - 52400..53704 (+) 1305 WP_025016333.1 pitrilysin family protein -
  LBS_RS00400 (LBS_00400) - 53704..54435 (+) 732 WP_025016332.1 SDR family oxidoreductase -
  LBS_RS00405 (LBS_00405) - 54517..55440 (+) 924 WP_011374194.1 RodZ domain-containing protein -
  LBS_RS00410 (LBS_00410) pgsA 55466..56050 (+) 585 WP_011374195.1 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase -
  LBS_RS00415 (LBS_00415) recA 56233..57300 (+) 1068 WP_011374196.1 recombinase RecA Machinery gene
  LBS_RS00420 (LBS_00420) rny 57687..59252 (+) 1566 WP_011374197.1 ribonuclease Y -
  LBS_RS00425 (LBS_00425) - 59408..60496 (+) 1089 WP_035144637.1 MraY family glycosyltransferase -
  LBS_RS00430 (LBS_00430) - 60523..61188 (-) 666 WP_025016329.1 YigZ family protein -
  LBS_RS00435 (LBS_00435) comFA 61250..62587 (+) 1338 WP_052039239.1 DEAD/DEAH box helicase Machinery gene
  LBS_RS10375 comFC 62830..63258 (+) 429 WP_154255254.1 ComF family protein Machinery gene
  LBS_RS00445 (LBS_00445) raiA 63385..63930 (+) 546 WP_011374202.1 ribosome-associated translation inhibitor RaiA -
  LBS_RS00450 (LBS_00450) secA 64179..66542 (+) 2364 WP_011374203.1 preprotein translocase subunit SecA -
  LBS_RS00455 (LBS_00455) prfB 66612..67728 (+) 1117 WP_099049013.1 peptide chain release factor 2 -
  LBS_RS00460 (LBS_00460) ftsE 67859..68545 (+) 687 WP_011374205.1 cell division ATP-binding protein FtsE -
  LBS_RS00465 (LBS_00465) ftsX 68535..69422 (+) 888 WP_016264727.1 permease-like cell division protein FtsX -
  LBS_RS00470 (LBS_00470) - 69616..70749 (+) 1134 WP_094365643.1 PDZ domain-containing protein -
  LBS_RS00475 (LBS_00475) - 70769..71482 (+) 714 WP_094365644.1 response regulator transcription factor -
  LBS_RS00480 (LBS_00480) pnpS 71469..73130 (+) 1662 WP_094365645.1 two-component system histidine kinase PnpS -
  LBS_RS00485 (LBS_00485) - 73223..74083 (+) 861 WP_011374210.1 phosphate ABC transporter substrate-binding protein PstS family protein -
  LBS_RS00490 (LBS_00490) pstC 74093..75016 (+) 924 WP_011374211.1 phosphate ABC transporter permease subunit PstC -
  LBS_RS00495 (LBS_00495) pstA 75016..75900 (+) 885 WP_016264731.1 phosphate ABC transporter permease PstA -
  LBS_RS00500 (LBS_00500) pstB 75910..76719 (+) 810 WP_011374213.1 phosphate ABC transporter ATP-binding protein PstB -
  LBS_RS00505 (LBS_00505) pstB 76740..77498 (+) 759 WP_011374214.1 phosphate ABC transporter ATP-binding protein PstB -
  LBS_RS00510 (LBS_00510) phoU 77515..78192 (+) 678 WP_011374215.1 phosphate signaling complex protein PhoU -
  LBS_RS00520 (LBS_00520) - 78411..79340 (+) 930 WP_094365647.1 IS30-like element ISLpl1 family transposase -
  LBS_RS00525 (LBS_00525) - 79453..79923 (+) 471 WP_094365648.1 nucleoside 2-deoxyribosyltransferase -
  LBS_RS00530 (LBS_00530) - 80113..81300 (+) 1188 WP_094365649.1 glycine C-acetyltransferase -
  LBS_RS00535 (LBS_00535) - 81320..82267 (+) 948 WP_094365650.1 L-threonine 3-dehydrogenase -
  LBS_RS00540 (LBS_00540) liaX 82454..83935 (+) 1482 WP_094365651.1 daptomycin-sensing surface protein LiaX -
  LBS_RS00545 (LBS_00545) - 83963..84199 (+) 237 WP_016264736.1 PspC domain-containing protein -
  LBS_RS00550 (LBS_00550) - 84199..84474 (+) 276 WP_094365652.1 hypothetical protein -
  LBS_RS00555 (LBS_00555) - 84474..84848 (+) 375 WP_025016320.1 phage holin family protein -
  LBS_RS00560 (LBS_00560) hprK 84986..85927 (+) 942 WP_016264738.1 HPr(Ser) kinase/phosphatase -
  LBS_RS00565 (LBS_00565) lgt 86055..86882 (+) 828 WP_025016319.1 prolipoprotein diacylglyceryl transferase -
  LBS_RS00570 (LBS_00570) - 86900..87922 (+) 1023 WP_016264740.1 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase -
  LBS_RS00575 (LBS_00575) - 88138..88440 (+) 303 WP_226474476.1 hypothetical protein -
  LBS_RS00580 (LBS_00580) trxB 88557..89477 (+) 921 WP_016264742.1 thioredoxin-disulfide reductase -

Sequence

Protein


Download         Length: 445 a.a.        Molecular weight: 50353.78 Da        Isoelectric Point: 9.7862

>NTDB_id=241780 LBS_RS00435 WP_052039239.1 61250..62587(+) (comFA) [Latilactobacillus sakei strain WiKim0063]
MGQQVIACGRQFTAAQLADTQNNNYSLPQIKRRPAFLRVKHRLVCQRCQQVVPPQTCLPDGRHYCAQCLLFGRLVEGDWL
YTVPECHLFENNIPKLTWEGQLTPHQEQAAQAVVEVVQTQKRHVLTAVTGAGKTEMLFQGILVALQKGQRVCLAAPRVAV
CLELYPRLQAAFATASIMLMHGEQTEPYRYTQLVICTTHQLLKFYHAFDTVIVDEVDAFPFVDNPVLVTAVEQACKPQCA
LLYLTATPTPAIKRAIAAKQMTVSELPLRFHGHLLPEPHRHVAFNWRAQLKKGRLPKRLERDCQTCLKTQQILLFVPQVR
LLQPVANRLSTLLPAVRIETLHANDPDQIKKITAFRAQQIQLMVTTTILERGVTFKNVAVLVLGAEHMVFNEAVLVQIAG
RAGRHKDYAQNPVHFYYQDYTRAIKGACRQIKAQNQRGRRLQSTV

Nucleotide


Download         Length: 1338 bp        

>NTDB_id=241780 LBS_RS00435 WP_052039239.1 61250..62587(+) (comFA) [Latilactobacillus sakei strain WiKim0063]
ATGGGACAACAAGTAATTGCCTGTGGTCGCCAGTTTACGGCGGCCCAGTTAGCCGATACGCAAAATAATAACTATAGTTT
ACCACAGATTAAGCGGCGACCTGCGTTTTTACGGGTCAAGCATCGCCTAGTCTGCCAACGTTGTCAGCAAGTGGTGCCGC
CGCAAACCTGCTTACCAGATGGGCGCCATTATTGCGCGCAATGTTTGTTATTTGGTCGTTTGGTAGAGGGCGATTGGTTA
TACACGGTACCGGAGTGTCATTTATTCGAAAATAACATACCAAAGTTGACGTGGGAGGGGCAATTAACACCGCATCAGGA
ACAAGCTGCCCAAGCGGTGGTTGAGGTGGTTCAAACACAAAAACGGCACGTATTAACGGCCGTGACCGGCGCAGGGAAGA
CCGAGATGCTTTTTCAAGGAATTTTAGTTGCGCTTCAAAAGGGTCAGCGGGTATGTCTGGCAGCGCCTAGAGTCGCCGTT
TGCTTGGAACTTTATCCGCGCCTGCAAGCTGCCTTTGCAACGGCTAGTATCATGTTGATGCACGGTGAGCAAACTGAGCC
CTATCGCTATACGCAGTTAGTGATTTGCACGACGCATCAGTTGCTGAAGTTTTATCACGCCTTTGACACTGTGATTGTCG
ATGAAGTCGATGCTTTTCCTTTTGTTGATAATCCCGTTTTAGTCACGGCAGTTGAACAAGCCTGCAAGCCCCAATGTGCT
TTATTATATTTAACGGCGACTCCGACCCCCGCTATTAAACGGGCAATTGCTGCTAAACAAATGACGGTTAGCGAATTACC
GCTCCGCTTTCATGGTCATCTATTACCAGAACCACATAGGCACGTCGCTTTTAATTGGCGGGCCCAATTAAAAAAAGGTC
GGTTACCTAAACGACTTGAGCGGGATTGCCAGACTTGTTTAAAAACACAACAGATTTTGTTATTCGTGCCGCAAGTGCGG
TTATTGCAACCAGTTGCCAATCGGTTATCAACCTTATTGCCGGCGGTCAGGATTGAAACATTGCATGCTAACGATCCGGA
TCAGATTAAAAAGATTACGGCGTTTAGAGCACAACAAATTCAGCTAATGGTGACGACCACCATTTTAGAACGGGGCGTTA
CGTTTAAAAACGTTGCAGTTTTGGTCTTAGGCGCGGAACACATGGTGTTTAACGAAGCCGTTTTGGTCCAGATTGCCGGG
CGAGCGGGACGGCATAAAGATTATGCCCAAAATCCGGTTCATTTTTATTATCAAGACTATACGCGGGCGATCAAAGGCGC
TTGTCGGCAAATTAAGGCCCAAAATCAGAGGGGACGGCGATTACAATCAACTGTTTAA

Domains

Predicted by InterproScan.

Helicase conserved C-terminal domain (Helicase_C)

(307-405)

Type III restriction enzyme, res subunit (ResIII)

(101-248)


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
  comFA Latilactobacillus sakei subsp. sakei 23K

98.652

100

0.987
  comFA/cflA Streptococcus pneumoniae TIGR4

38.979

96.854

0.378
  comFA/cflA Streptococcus pneumoniae D39

38.747

96.854

0.375
  comFA/cflA Streptococcus pneumoniae R6

38.747

96.854

0.375
  comFA/cflA Streptococcus pneumoniae Rx1

38.747

96.854

0.375
  comFA/cflA Streptococcus mitis SK321

38.515

96.854

0.373
  comFA/cflA Streptococcus mitis NCTC 12261

38.283

96.854

0.371
  comFA Bacillus subtilis subsp. subtilis str. 168

39.268

92.135

0.362

Multiple sequence alignment