Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   DLJ51_RS00895 Genome accession   NZ_CP029560
Coordinates   153703..154746 (+) Length   347 a.a.
NCBI ID   WP_002959504.1    Uniprot ID   -
Organism   Streptococcus sobrinus strain NIDR 6715-7     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (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 125476..170655 153703..154746 within 0


Gene organization within MGE regions


Location: 125476..170655
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DLJ51_RS00780 (DLJ51_00780) rpoC 128733..132371 (+) 3639 WP_109982367.1 DNA-directed RNA polymerase subunit beta' -
  DLJ51_RS00785 (DLJ51_00785) - 132665..134329 (+) 1665 WP_021673621.1 peptide ABC transporter substrate-binding protein -
  DLJ51_RS00790 (DLJ51_00790) - 134434..135348 (+) 915 WP_019771159.1 ABC transporter permease -
  DLJ51_RS00795 (DLJ51_00795) - 135360..136391 (+) 1032 WP_109982368.1 ABC transporter permease -
  DLJ51_RS00800 (DLJ51_00800) oppD 136402..137451 (+) 1050 WP_019771160.1 ABC transporter ATP-binding protein Regulator
  DLJ51_RS00805 (DLJ51_00805) amiF 137448..138371 (+) 924 WP_002999065.1 ABC transporter ATP-binding protein Regulator
  DLJ51_RS00810 (DLJ51_00810) - 138608..140293 (-) 1686 WP_109982369.1 MFS transporter -
  DLJ51_RS00815 (DLJ51_00815) - 140425..140946 (+) 522 WP_019781803.1 PadR family transcriptional regulator -
  DLJ51_RS00820 (DLJ51_00820) - 140959..141267 (+) 309 WP_019777335.1 LlsX family protein -
  DLJ51_RS00830 (DLJ51_00830) - 141627..142193 (+) 567 WP_019781805.1 TMEM175 family protein -
  DLJ51_RS10445 - 142547..142690 (-) 144 WP_002959475.1 hypothetical protein -
  DLJ51_RS00835 (DLJ51_00835) - 142680..142970 (-) 291 WP_002997623.1 hypothetical protein -
  DLJ51_RS00840 (DLJ51_00840) - 143175..143897 (+) 723 WP_019776886.1 ABC transporter ATP-binding protein -
  DLJ51_RS00845 (DLJ51_00845) - 143902..145048 (+) 1147 Protein_127 ABC transporter permease -
  DLJ51_RS00850 (DLJ51_00850) - 145272..145892 (+) 621 WP_002959483.1 TetR/AcrR family transcriptional regulator -
  DLJ51_RS00855 (DLJ51_00855) - 146070..146332 (-) 263 Protein_129 type II toxin-antitoxin system YafQ family toxin -
  DLJ51_RS00860 (DLJ51_00860) - 146336..146617 (-) 282 WP_002959487.1 type II toxin-antitoxin system RelB/DinJ family antitoxin -
  DLJ51_RS00865 (DLJ51_00865) - 146774..147640 (-) 867 WP_002959489.1 LysR family transcriptional regulator -
  DLJ51_RS00870 (DLJ51_00870) - 147751..148611 (+) 861 WP_002959490.1 aldo/keto reductase -
  DLJ51_RS00875 (DLJ51_00875) - 148711..149073 (-) 363 WP_002959493.1 class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI -
  DLJ51_RS00880 (DLJ51_00880) - 149434..151818 (-) 2385 WP_019785320.1 HAD-IC family P-type ATPase -
  DLJ51_RS00885 (DLJ51_00885) - 152038..152406 (+) 369 WP_019781971.1 DUF1033 family protein -
  DLJ51_RS00890 (DLJ51_00890) comGA/cglA 152832..153779 (+) 948 WP_019777327.1 competence type IV pilus ATPase ComGA Machinery gene
  DLJ51_RS00895 (DLJ51_00895) comYB 153703..154746 (+) 1044 WP_002959504.1 competence type IV pilus assembly protein ComGB Machinery gene
  DLJ51_RS00900 (DLJ51_00900) comYC 154743..155069 (+) 327 WP_019770073.1 competence type IV pilus major pilin ComGC Machinery gene
  DLJ51_RS00905 (DLJ51_00905) comYD 155023..155457 (+) 435 WP_254051091.1 competence type IV pilus minor pilin ComGD Machinery gene
  DLJ51_RS00910 (DLJ51_00910) comYE 155429..155722 (+) 294 WP_002959510.1 competence type IV pilus minor pilin ComGE Machinery gene
  DLJ51_RS00915 (DLJ51_00915) comYF 155706..156143 (+) 438 WP_019781940.1 competence type IV pilus minor pilin ComGF Machinery gene
  DLJ51_RS00920 (DLJ51_00920) comGG 156121..156582 (+) 462 WP_019785527.1 competence type IV pilus minor pilin ComGG -
  DLJ51_RS00930 (DLJ51_00930) - 156784..157050 (+) 267 WP_002959516.1 type II toxin-antitoxin system RelE/ParE family toxin -
  DLJ51_RS00935 (DLJ51_00935) - 157037..157312 (+) 276 WP_109982370.1 helix-turn-helix transcriptional regulator -
  DLJ51_RS00940 (DLJ51_00940) comYH 157411..158364 (+) 954 WP_019771347.1 class I SAM-dependent methyltransferase Machinery gene
  DLJ51_RS00945 (DLJ51_00945) - 158427..159623 (+) 1197 WP_019771614.1 acetate kinase -
  DLJ51_RS00950 (DLJ51_00950) - 160101..161006 (+) 906 WP_019769860.1 LysR family transcriptional regulator -
  DLJ51_RS00955 (DLJ51_00955) - 161184..161450 (+) 267 WP_002959526.1 ACT domain-containing protein -
  DLJ51_RS00960 (DLJ51_00960) - 161462..162799 (+) 1338 WP_002959528.1 PFL family protein -
  DLJ51_RS00965 (DLJ51_00965) - 163038..163337 (-) 300 Protein_150 hypothetical protein -
  DLJ51_RS00970 (DLJ51_00970) - 163367..164302 (-) 936 WP_019773382.1 IS30 family transposase -
  DLJ51_RS00975 (DLJ51_00975) - 164493..164924 (-) 432 WP_002961167.1 MarR family transcriptional regulator -
  DLJ51_RS00980 (DLJ51_00980) - 165063..165764 (+) 702 WP_002961168.1 histidine phosphatase family protein -
  DLJ51_RS00985 (DLJ51_00985) - 165751..166518 (+) 768 WP_002961169.1 M15 family metallopeptidase -
  DLJ51_RS00990 (DLJ51_00990) - 166685..167269 (+) 585 WP_002961170.1 glycoside hydrolase family 73 protein -
  DLJ51_RS00995 (DLJ51_00995) hrcA 167436..168470 (+) 1035 WP_002961171.1 heat-inducible transcriptional repressor HrcA -
  DLJ51_RS01000 (DLJ51_01000) grpE 168490..169041 (+) 552 WP_019790544.1 nucleotide exchange factor GrpE -

Sequence

Protein


Download         Length: 347 a.a.        Molecular weight: 40128.76 Da        Isoelectric Point: 10.1589

>NTDB_id=293558 DLJ51_RS00895 WP_002959504.1 153703..154746(+) (comYB) [Streptococcus sobrinus strain NIDR 6715-7]
MKKLTNFLQQDISLRKRRPPKKLKTSRQRKVIQLFNNLLESGFTLTEIVDFLDRSSLLAPAYTKEMRASLLAGENLAAMM
GKLGFSDDVVTQLSLAELHGNTQGSLLKIEAYLAHLMTVKRKLWEVATYPIILLTFLILIMLGLRNYLLPQLERTNLATR
IINHFPLVFLIGVLVLALVILCLIWLQRRSRKITWYSRLARLPLLGRFVQLYLTAYYAREWGNLIGQGVEMSRIVQLMQE
QRSQLFQEIGREMEAALLAGQEFHHKVLDYPFFLRELSLIIEYGQVKSKLGSELEVYAQETWEAFFSRVNRATQLIQPLV
FILVALVIVMIYAAMLLPMYHNMEVPL

Nucleotide


Download         Length: 1044 bp        

>NTDB_id=293558 DLJ51_RS00895 WP_002959504.1 153703..154746(+) (comYB) [Streptococcus sobrinus strain NIDR 6715-7]
ATGAAAAAATTGACCAACTTCTTGCAGCAGGACATCTCACTGAGGAAGAGGCGGCCGCCGAAAAAATTAAAGACTAGCCG
GCAGCGTAAGGTCATCCAACTCTTCAATAATCTTCTGGAGTCGGGCTTTACCCTAACCGAGATTGTGGATTTTCTGGACC
GCAGTAGCCTTCTGGCTCCGGCCTATACCAAGGAGATGCGGGCCTCCCTCTTGGCGGGGGAAAATTTGGCAGCTATGATG
GGCAAGTTAGGCTTTTCCGATGATGTGGTCACTCAGCTTTCTCTGGCAGAACTGCATGGCAATACCCAAGGCAGTCTCCT
GAAAATCGAGGCTTATCTAGCCCACCTCATGACTGTCAAAAGGAAGCTTTGGGAGGTCGCTACCTATCCCATTATTCTTC
TAACCTTTTTGATTCTGATTATGCTGGGCCTGCGAAATTATCTCTTACCCCAGTTGGAAAGGACCAACCTGGCGACCAGG
ATAATCAATCATTTTCCTCTGGTCTTTCTAATTGGAGTACTGGTTTTGGCCTTAGTCATTCTTTGCTTGATCTGGTTACA
AAGACGGTCGCGAAAAATCACCTGGTACAGCCGCCTGGCTAGACTCCCTTTGCTGGGAAGATTTGTCCAACTCTACTTGA
CTGCCTATTATGCTAGGGAGTGGGGCAATTTGATTGGTCAGGGGGTAGAAATGAGCCGGATTGTCCAACTTATGCAAGAG
CAAAGATCCCAACTCTTCCAGGAGATTGGCCGAGAGATGGAGGCGGCTCTTCTAGCTGGTCAAGAATTCCACCACAAGGT
TTTGGACTATCCCTTCTTCCTTCGGGAATTGAGCCTGATTATTGAATATGGTCAGGTCAAATCTAAATTAGGTAGTGAGC
TGGAGGTCTATGCTCAGGAGACCTGGGAGGCCTTCTTTAGTCGGGTCAATCGAGCTACTCAGTTGATTCAGCCCTTAGTC
TTTATTCTGGTGGCCCTTGTTATCGTCATGATTTACGCAGCCATGTTGCTGCCCATGTATCACAATATGGAGGTACCTTT
ATGA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(32-150)

Type II secretion system (T2SS), protein F (T2SSF)

(218-338)


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
  comYB Streptococcus mutans UA159

66.082

98.559

0.651
  comYB Streptococcus mutans UA140

65.789

98.559

0.648
  comYB Streptococcus gordonii str. Challis substr. CH1

61.628

99.135

0.611
  comGB/cglB Streptococcus mitis NCTC 12261

60.597

96.542

0.585
  comGB/cglB Streptococcus mitis SK321

59.701

96.542

0.576
  comGB/cglB Streptococcus pneumoniae Rx1

59.104

96.542

0.571
  comGB/cglB Streptococcus pneumoniae D39

59.104

96.542

0.571
  comGB/cglB Streptococcus pneumoniae R6

59.104

96.542

0.571
  comGB/cglB Streptococcus pneumoniae TIGR4

59.104

96.542

0.571
  comGB Lactococcus lactis subsp. cremoris KW2

51.032

97.695

0.499

Multiple sequence alignment