Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   SCIM_RS08240 Genome accession   NC_018073
Coordinates   1700813..1701835 (-) Length   340 a.a.
NCBI ID   WP_172634362.1    Uniprot ID   -
Organism   Streptococcus intermedius JTH08     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1695813..1706835
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SCIM_RS08205 (SCIM_1488) - 1696828..1698027 (-) 1200 WP_003076127.1 acetate kinase -
  SCIM_RS08210 (SCIM_1489) comYH 1698074..1699027 (-) 954 WP_003075742.1 class I SAM-dependent methyltransferase Machinery gene
  SCIM_RS08215 (SCIM_1490) comGG 1699118..1699444 (-) 327 WP_014829817.1 competence type IV pilus minor pilin ComGG -
  SCIM_RS08220 (SCIM_1491) comGF/cglF 1699425..1699862 (-) 438 WP_003073990.1 competence type IV pilus minor pilin ComGF Machinery gene
  SCIM_RS08225 (SCIM_1492) comGE/cglE 1699846..1700139 (-) 294 WP_003073987.1 competence type IV pilus minor pilin ComGE Machinery gene
  SCIM_RS08230 (SCIM_1493) comYD 1700111..1700539 (-) 429 WP_014829819.1 competence type IV pilus minor pilin ComGD Machinery gene
  SCIM_RS08235 (SCIM_1494) comYC 1700499..1700816 (-) 318 WP_003075998.1 competence type IV pilus major pilin ComGC Machinery gene
  SCIM_RS08240 (SCIM_1495) comYB 1700813..1701835 (-) 1023 WP_172634362.1 competence type IV pilus assembly protein ComGB Machinery gene
  SCIM_RS08245 (SCIM_1497) comYA 1701777..1702718 (-) 942 WP_003073980.1 competence type IV pilus ATPase ComGA Machinery gene
  SCIM_RS08250 (SCIM_1498) - 1702787..1703152 (-) 366 WP_003075933.1 DUF1033 family protein -
  SCIM_RS08255 (SCIM_1499) glnA 1703374..1704720 (-) 1347 WP_003076201.1 type I glutamate--ammonia ligase -
  SCIM_RS08260 (SCIM_1500) - 1704759..1705118 (-) 360 WP_003073972.1 MerR family transcriptional regulator -
  SCIM_RS08265 (SCIM_1501) - 1705195..1705725 (-) 531 WP_003073971.1 FUSC family protein -
  SCIM_RS08270 (SCIM_1502) - 1705900..1706580 (-) 681 WP_003075761.1 COG3942 and LysM peptidoglycan-binding domain-containing protein -

Sequence

Protein


Download         Length: 340 a.a.        Molecular weight: 39213.42 Da        Isoelectric Point: 9.8352

>NTDB_id=51900 SCIM_RS08240 WP_172634362.1 1700813..1701835(-) (comYB) [Streptococcus intermedius JTH08]
MQQDISILNRQKRKKLSTVKQKKVVELLNNLFSSGFHLAEIIDFLKRSALLEKAYVEKMKEGLATGKPFSDIMASLGFSD
NVVTQLSLAELHGNLSLSLSKIEEYLENISKVKKKLIEVATYPFILFIFLVFIMLGLRNYLLPQLESQNIATQLISRLPQ
IFLGSVGVVFVLFAIGFYWFRKSSQIRVFSLLSRLPFWGTFVQTYLTAYYAREWGNMIGQGLELSQIFRMMQGQRSAMFQ
EIGKDLEVALQNGQEFSQVVKHYPFFKKELGLMIEYGEVKSKLGCELEVYAQKTWEVFFKRVHQAMNIIQPLVFVFVALM
IVLLYAAMLLPIYQNMEVQL

Nucleotide


Download         Length: 1023 bp        

>NTDB_id=51900 SCIM_RS08240 WP_172634362.1 1700813..1701835(-) (comYB) [Streptococcus intermedius JTH08]
ATGCAGCAGGACATATCAATCTTGAACAGGCAAAAGCGGAAAAAATTATCCACAGTTAAGCAGAAAAAAGTCGTAGAGTT
ACTAAATAATCTTTTTTCTAGTGGTTTTCACTTGGCAGAAATTATTGATTTTTTGAAACGGAGTGCTTTGTTAGAAAAAG
CCTATGTGGAAAAGATGAAAGAGGGGTTGGCAACCGGAAAGCCTTTTTCAGACATCATGGCAAGTTTAGGTTTTTCGGAT
AATGTAGTAACACAGCTTTCATTGGCAGAATTGCATGGAAATTTATCGCTCAGTTTGAGTAAAATTGAAGAGTATTTGGA
AAATATCTCAAAAGTCAAGAAAAAGTTAATTGAAGTGGCGACTTATCCATTTATTTTATTCATTTTTCTAGTGTTTATTA
TGTTAGGGCTGCGCAATTATTTGTTACCGCAGTTGGAGAGTCAGAATATTGCAACACAACTGATTAGTCGTTTACCACAA
ATTTTTCTGGGTTCAGTAGGAGTTGTTTTTGTTTTGTTTGCGATAGGTTTTTATTGGTTTAGAAAAAGCTCACAAATAAG
AGTATTTAGTTTGTTGTCTCGACTTCCTTTTTGGGGCACTTTTGTTCAAACCTATTTGACAGCTTATTATGCGAGAGAAT
GGGGGAATATGATTGGTCAAGGCTTAGAACTCAGTCAGATTTTCCGGATGATGCAAGGACAGCGCTCTGCTATGTTTCAA
GAAATTGGAAAAGATTTAGAAGTAGCACTGCAAAATGGTCAGGAATTTTCACAAGTAGTTAAACATTATCCATTTTTTAA
AAAAGAATTGGGCTTGATGATCGAATATGGGGAAGTGAAATCCAAATTGGGGTGCGAATTAGAAGTTTATGCTCAAAAAA
CGTGGGAGGTGTTTTTTAAACGTGTTCATCAAGCGATGAATATCATTCAGCCATTAGTATTTGTCTTTGTGGCGTTGATG
ATTGTATTGTTGTATGCAGCCATGTTGCTGCCAATTTATCAAAATATGGAGGTTCAATTGTGA

Domains

Predicted by InterproScan.

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

(26-143)

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

(211-331)


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 gordonii str. Challis substr. CH1

73.235

100

0.732
  comGB/cglB Streptococcus mitis NCTC 12261

69.254

98.529

0.682
  comGB/cglB Streptococcus mitis SK321

68.955

98.529

0.679
  comGB/cglB Streptococcus pneumoniae TIGR4

68.358

98.529

0.674
  comGB/cglB Streptococcus pneumoniae R6

68.358

98.529

0.674
  comGB/cglB Streptococcus pneumoniae Rx1

68.358

98.529

0.674
  comGB/cglB Streptococcus pneumoniae D39

68.358

98.529

0.674
  comYB Streptococcus mutans UA140

61.111

100

0.615
  comYB Streptococcus mutans UA159

61.111

100

0.615
  comGB Lactococcus lactis subsp. cremoris KW2

51.929

99.118

0.515

Multiple sequence alignment