Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   CGZ53_RS00785 Genome accession   NZ_CP022435
Coordinates   130569..131603 (+) Length   344 a.a.
NCBI ID   WP_398583501.1    Uniprot ID   -
Organism   Streptococcus uberis strain NZ01     
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 94713..135909 130569..131603 within 0


Gene organization within MGE regions


Location: 94713..135909
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CGZ53_RS00635 (CGZ53_00635) - 94713..95849 (-) 1137 WP_100911831.1 tyrosine-type recombinase/integrase -
  CGZ53_RS00640 (CGZ53_00640) - 95854..96048 (-) 195 WP_000562208.1 DUF3173 family protein -
  CGZ53_RS00645 (CGZ53_00645) - 96117..97463 (-) 1347 WP_046387789.1 Rep family protein -
  CGZ53_RS00650 (CGZ53_00650) - 97813..98172 (-) 360 WP_046387860.1 hypothetical protein -
  CGZ53_RS00655 (CGZ53_00655) - 98187..98654 (-) 468 WP_233845126.1 hypothetical protein -
  CGZ53_RS00660 (CGZ53_00660) - 98802..99410 (+) 609 WP_100911832.1 helix-turn-helix domain-containing protein -
  CGZ53_RS00665 (CGZ53_00665) - 99632..100015 (+) 384 WP_046387791.1 hypothetical protein -
  CGZ53_RS00670 (CGZ53_00670) - 100046..100702 (+) 657 WP_046387792.1 thioredoxin family protein -
  CGZ53_RS09525 (CGZ53_00675) - 101351..101726 (+) 376 Protein_98 helix-turn-helix domain-containing protein -
  CGZ53_RS00680 (CGZ53_00680) - 101925..102446 (-) 522 WP_003105760.1 PepSY domain-containing protein -
  CGZ53_RS00685 (CGZ53_00685) - 103096..103545 (+) 450 WP_037593009.1 pyridoxamine 5'-phosphate oxidase family protein -
  CGZ53_RS00690 (CGZ53_00690) - 103880..104197 (+) 318 WP_012657655.1 hypothetical protein -
  CGZ53_RS00695 (CGZ53_00695) - 104371..105417 (+) 1047 WP_012657656.1 zinc-binding dehydrogenase -
  CGZ53_RS00700 (CGZ53_00700) - 105628..106527 (+) 900 WP_012657657.1 prenyltransferase -
  CGZ53_RS00705 (CGZ53_00705) - 106560..107771 (+) 1212 WP_100911833.1 NAD(P)/FAD-dependent oxidoreductase -
  CGZ53_RS00710 (CGZ53_00710) - 107853..109280 (+) 1428 WP_012657659.1 cytochrome ubiquinol oxidase subunit I -
  CGZ53_RS00715 (CGZ53_00715) cydB 109280..110299 (+) 1020 WP_012657660.1 cytochrome d ubiquinol oxidase subunit II -
  CGZ53_RS00720 (CGZ53_00720) cydD 110299..112017 (+) 1719 WP_012657661.1 thiol reductant ABC exporter subunit CydD -
  CGZ53_RS00725 (CGZ53_00725) cydC 112010..113755 (+) 1746 WP_100911834.1 thiol reductant ABC exporter subunit CydC -
  CGZ53_RS00730 (CGZ53_00730) - 113787..114767 (-) 981 WP_012657663.1 polyprenyl synthetase family protein -
  CGZ53_RS00735 (CGZ53_00735) ispE 114974..115825 (+) 852 WP_012657664.1 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase -
  CGZ53_RS00740 (CGZ53_00740) - 115886..116329 (+) 444 WP_012657665.1 zinc-dependent MarR family transcriptional regulator -
  CGZ53_RS00745 (CGZ53_00745) - 116334..117035 (+) 702 WP_012657666.1 metal ABC transporter ATP-binding protein -
  CGZ53_RS00750 (CGZ53_00750) - 117035..117850 (+) 816 WP_012657667.1 metal ABC transporter permease -
  CGZ53_RS00755 (CGZ53_00755) tyrS 117910..119166 (-) 1257 WP_100911835.1 tyrosine--tRNA ligase -
  CGZ53_RS00760 (CGZ53_00760) pbp1b 119258..121576 (+) 2319 WP_100911836.1 penicillin-binding protein PBP1B -
  CGZ53_RS00765 (CGZ53_00765) rpoB 121840..125406 (+) 3567 WP_046389806.1 DNA-directed RNA polymerase subunit beta -
  CGZ53_RS00770 (CGZ53_00770) rpoC 125498..129136 (+) 3639 WP_012657671.1 DNA-directed RNA polymerase subunit beta' -
  CGZ53_RS00775 (CGZ53_00775) - 129257..129622 (+) 366 WP_100911837.1 DUF1033 family protein -
  CGZ53_RS00780 (CGZ53_00780) comGA/cglA 129695..130636 (+) 942 WP_012657673.1 competence type IV pilus ATPase ComGA Machinery gene
  CGZ53_RS00785 (CGZ53_00785) comYB 130569..131603 (+) 1035 WP_398583501.1 competence type IV pilus assembly protein ComGB Machinery gene
  CGZ53_RS00790 (CGZ53_00790) comGC/cglC 131604..131927 (+) 324 WP_012657675.1 competence type IV pilus major pilin ComGC Machinery gene
  CGZ53_RS00795 (CGZ53_00795) comGD 131881..132318 (+) 438 WP_012657676.1 competence type IV pilus minor pilin ComGD -
  CGZ53_RS00800 (CGZ53_00800) comGE 132359..132589 (+) 231 WP_230081134.1 competence type IV pilus minor pilin ComGE -
  CGZ53_RS00805 (CGZ53_00805) comGF 132549..133004 (+) 456 WP_012657678.1 competence type IV pilus minor pilin ComGF -
  CGZ53_RS00810 (CGZ53_00810) comGG 132982..133341 (+) 360 WP_037592916.1 competence type IV pilus minor pilin ComGG -
  CGZ53_RS00815 (CGZ53_00815) comYH 133386..134342 (+) 957 WP_046389809.1 class I SAM-dependent methyltransferase Machinery gene
  CGZ53_RS00820 (CGZ53_00820) - 134398..135588 (+) 1191 WP_012657681.1 acetate kinase -
  CGZ53_RS00825 (CGZ53_00825) - 135706..135909 (+) 204 WP_012657682.1 helix-turn-helix transcriptional regulator -

Sequence

Protein


Download         Length: 344 a.a.        Molecular weight: 39847.51 Da        Isoelectric Point: 9.5535

>NTDB_id=239363 CGZ53_RS00785 WP_398583501.1 130569..131603(+) (comYB) [Streptococcus uberis strain NZ01]
MSNFLNKDISITKKPSWKKLKAKQQYQLIKLLHNLSLSGFNLNEMVSFLEKAHLLEDHFVQRMKVDLMNGRDISEMMAHL
GFSDALVTQLSLAEVHGNTTNCLAKIEDYMAQSNRIRQKTIEVITYPMVLMTFLIVILMGLRHYLLPQIGEENQLTHFLN
LFPTVLLLTFFAMIAVVIFLRLCWRKKSQLKQLLVYSKIPLLSAVLQLYLTAYYAREWGNLIAQGVELATILQLMQKEKS
VLMREMGSTMEKALLEGKSFDQSVGIFPFFKRELSLMIEYGEIKGKLGQELDIYAQVSWENYFRKLRQMTQWLQPLIFIL
VAIIIVMIYAAMLLPMYQTIGGEI

Nucleotide


Download         Length: 1035 bp        

>NTDB_id=239363 CGZ53_RS00785 WP_398583501.1 130569..131603(+) (comYB) [Streptococcus uberis strain NZ01]
TTGAGCAACTTCTTAAACAAGGATATATCGATAACGAAAAAGCCAAGTTGGAAAAAATTAAAGGCTAAACAACAATACCA
GCTGATCAAATTATTACATAATCTTAGTCTAAGTGGGTTTAACTTGAACGAAATGGTATCTTTTCTTGAGAAGGCACATC
TCTTGGAGGATCATTTTGTTCAAAGAATGAAAGTAGATTTAATGAATGGACGAGATATTTCGGAAATGATGGCCCATCTT
GGATTCTCAGATGCATTGGTAACACAGCTAAGTTTAGCTGAAGTCCATGGGAACACCACCAACTGTTTAGCAAAGATAGA
AGATTATATGGCTCAATCCAATCGGATTAGACAAAAAACCATTGAAGTCATTACTTATCCTATGGTCTTGATGACCTTCT
TAATCGTGATTTTGATGGGCTTACGCCATTATTTACTTCCGCAAATAGGAGAGGAAAACCAGCTAACACATTTTCTAAAT
TTATTTCCAACAGTATTGCTTTTGACTTTCTTTGCTATGATTGCGGTAGTAATCTTCCTCAGACTCTGCTGGCGAAAAAA
ATCCCAGTTAAAACAATTATTAGTGTATAGTAAAATCCCTCTTTTATCAGCTGTTTTACAATTGTATCTAACTGCCTATT
ATGCGAGAGAGTGGGGCAATCTTATTGCACAAGGTGTTGAACTAGCAACTATTTTGCAACTGATGCAAAAGGAAAAATCC
GTATTGATGCGGGAAATGGGTTCAACAATGGAAAAAGCTTTGTTGGAAGGGAAATCTTTTGACCAGTCTGTGGGCATCTT
CCCATTTTTTAAAAGGGAATTGAGCTTAATGATTGAATATGGAGAAATCAAAGGAAAACTCGGTCAAGAGTTAGACATTT
ATGCACAAGTCAGTTGGGAAAACTATTTTAGAAAGTTACGACAGATGACTCAATGGTTACAACCCCTCATTTTCATACTT
GTAGCCATTATAATCGTTATGATTTATGCGGCAATGTTATTGCCAATGTATCAAACCATCGGAGGTGAAATATAA

Domains

Predicted by InterproScan.

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

(215-335)

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

(31-147)


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

53.254

98.256

0.523
  comYB Streptococcus mutans UA140

53.254

98.256

0.523
  comYB Streptococcus gordonii str. Challis substr. CH1

47.353

98.837

0.468
  comGB/cglB Streptococcus mitis NCTC 12261

47.305

97.093

0.459
  comGB Lactococcus lactis subsp. cremoris KW2

45.161

99.128

0.448
  comGB/cglB Streptococcus mitis SK321

45.946

96.802

0.445
  comGB/cglB Streptococcus pneumoniae Rx1

45.045

96.802

0.436
  comGB/cglB Streptococcus pneumoniae D39

45.045

96.802

0.436
  comGB/cglB Streptococcus pneumoniae R6

45.045

96.802

0.436
  comGB/cglB Streptococcus pneumoniae TIGR4

45.045

96.802

0.436

Multiple sequence alignment