Detailed information    

insolico Bioinformatically predicted

Overview

Name   oppD   Type   Regulator
Locus tag   QYR59_RS08975 Genome accession   NZ_CP129326
Coordinates   1814547..1815593 (-) Length   348 a.a.
NCBI ID   WP_367561577.1    Uniprot ID   -
Organism   Streptococcus iniae strain P3SAB     
Function   internalize XIP (predicted from homology)   
Competence regulation

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 1799705..1847992 1814547..1815593 within 0


Gene organization within MGE regions


Location: 1799705..1847992
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QYR59_RS08900 (QYR59_08900) - 1799807..1800067 (+) 261 WP_003102169.1 DUF3173 family protein -
  QYR59_RS08905 (QYR59_08905) - 1800054..1801205 (+) 1152 WP_003102172.1 site-specific integrase -
  QYR59_RS08910 (QYR59_08910) - 1801283..1801582 (+) 300 WP_003102173.1 YbaB/EbfC family nucleoid-associated protein -
  QYR59_RS08915 (QYR59_08915) - 1801909..1804659 (+) 2751 WP_367562236.1 endo-beta-N-acetylglucosaminidase family protein -
  QYR59_RS08920 (QYR59_08920) - 1804745..1805467 (-) 723 WP_367561569.1 MerR family transcriptional regulator -
  QYR59_RS08925 (QYR59_08925) - 1805609..1806196 (-) 588 WP_016356171.1 3'-5' exonuclease -
  QYR59_RS08930 (QYR59_08930) - 1806240..1806749 (-) 510 WP_367561570.1 DUF536 domain-containing protein -
  QYR59_RS08935 (QYR59_08935) - 1807379..1808551 (+) 1173 WP_367561571.1 NAD(P)/FAD-dependent oxidoreductase -
  QYR59_RS08940 (QYR59_08940) rpsN 1808727..1808996 (+) 270 WP_367561572.1 30S ribosomal protein S14 -
  QYR59_RS08945 (QYR59_08945) tsaD 1809193..1810214 (-) 1022 Protein_1706 tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD -
  QYR59_RS08950 (QYR59_08950) rimI 1810204..1810629 (-) 426 WP_367562237.1 ribosomal protein S18-alanine N-acetyltransferase -
  QYR59_RS08955 (QYR59_08955) tsaB 1810631..1811323 (-) 693 WP_003102183.1 tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex dimerization subunit type 1 TsaB -
  QYR59_RS08960 (QYR59_08960) - 1811609..1811839 (+) 231 WP_003102185.1 DNA-dependent RNA polymerase subunit epsilon -
  QYR59_RS08965 (QYR59_08965) rnjA 1811841..1813523 (+) 1683 WP_367562238.1 ribonuclease J1 -
  QYR59_RS08970 (QYR59_08970) amiF 1813612..1814547 (-) 936 WP_367561576.1 ATP-binding cassette domain-containing protein Regulator
  QYR59_RS08975 (QYR59_08975) oppD 1814547..1815593 (-) 1047 WP_367561577.1 ABC transporter ATP-binding protein Regulator
  QYR59_RS08980 (QYR59_08980) - 1815606..1816637 (-) 1032 WP_003102195.1 ABC transporter permease -
  QYR59_RS08985 (QYR59_08985) - 1816647..1817561 (-) 915 WP_367561578.1 ABC transporter permease -
  QYR59_RS08990 (QYR59_08990) - 1817636..1819291 (-) 1656 WP_367562239.1 peptide ABC transporter substrate-binding protein -
  QYR59_RS08995 (QYR59_08995) glnA 1819534..1820880 (-) 1347 WP_367561580.1 type I glutamate--ammonia ligase -
  QYR59_RS09000 (QYR59_09000) - 1820920..1821288 (-) 369 WP_003102205.1 MerR family transcriptional regulator -
  QYR59_RS09005 (QYR59_09005) - 1821367..1821885 (-) 519 WP_367562111.1 aromatic acid exporter family protein -
  QYR59_RS09010 (QYR59_09010) - 1822196..1823392 (-) 1197 WP_367562240.1 phosphoglycerate kinase -
  QYR59_RS09015 (QYR59_09015) - 1823565..1824419 (-) 855 WP_367561582.1 5'-nucleotidase, lipoprotein e(P4) family -
  QYR59_RS09020 (QYR59_09020) gap 1824705..1825717 (-) 1013 Protein_1721 type I glyceraldehyde-3-phosphate dehydrogenase -
  QYR59_RS09025 (QYR59_09025) fusA 1826011..1828090 (-) 2080 Protein_1722 elongation factor G -
  QYR59_RS09030 (QYR59_09030) rpsG 1828234..1828705 (-) 472 Protein_1723 30S ribosomal protein S7 -
  QYR59_RS09035 (QYR59_09035) rpsL 1828726..1829139 (-) 414 WP_003102221.1 30S ribosomal protein S12 -
  QYR59_RS09040 (QYR59_09040) - 1829319..1831379 (-) 2061 WP_367562241.1 SEC10/PgrA surface exclusion domain-containing protein -
  QYR59_RS09045 (QYR59_09045) - 1831629..1831952 (-) 324 WP_367562242.1 hypothetical protein -
  QYR59_RS09050 (QYR59_09050) purR 1831978..1832790 (-) 813 WP_367561586.1 pur operon repressor -
  QYR59_RS09055 (QYR59_09055) - 1832895..1833833 (-) 939 WP_003102227.1 3'-5' exoribonuclease YhaM family protein -
  QYR59_RS09060 (QYR59_09060) - 1833823..1835094 (-) 1272 WP_003102228.1 DNA recombination protein RmuC -
  QYR59_RS09065 (QYR59_09065) - 1835096..1835729 (-) 634 Protein_1730 thiamine diphosphokinase -
  QYR59_RS09070 (QYR59_09070) rpe 1835722..1836384 (-) 663 WP_367562243.1 ribulose-phosphate 3-epimerase -
  QYR59_RS09075 (QYR59_09075) rsgA 1836393..1837265 (-) 873 WP_367561589.1 ribosome small subunit-dependent GTPase A -
  QYR59_RS09080 (QYR59_09080) - 1837530..1839087 (-) 1558 Protein_1733 YfcC family protein -
  QYR59_RS09085 (QYR59_09085) arcC 1839180..1840112 (-) 933 WP_367561591.1 carbamate kinase -
  QYR59_RS09090 (QYR59_09090) argF 1840123..1841121 (-) 999 WP_003102242.1 ornithine carbamoyltransferase -
  QYR59_RS09095 (QYR59_09095) - 1841226..1842521 (+) 1296 WP_367562244.1 ATP-binding protein -
  QYR59_RS09100 (QYR59_09100) - 1842518..1843366 (+) 849 WP_003102246.1 DNA-binding domain-containing protein -
  QYR59_RS09105 (QYR59_09105) rsmA 1843409..1844281 (-) 873 WP_367562245.1 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase RsmA -
  QYR59_RS09110 (QYR59_09110) rnmV 1844318..1844908 (-) 591 WP_003102249.1 ribonuclease M5 -
  QYR59_RS09115 (QYR59_09115) - 1844880..1845654 (-) 775 Protein_1740 TatD family hydrolase -
  QYR59_RS09120 (QYR59_09120) - 1845809..1846621 (+) 813 WP_367561594.1 MurR/RpiR family transcriptional regulator -

Sequence

Protein


Download         Length: 348 a.a.        Molecular weight: 38569.21 Da        Isoelectric Point: 5.1457

>NTDB_id=852183 QYR59_RS08975 WP_367561577.1 1814547..1815593(-) (oppD) [Streptococcus iniae strain P3SAB]
MTTETILNVKNLHVDFKTYAGDVKAIRDINFELKKGETLAIVGESGSGKSVTTRTLMGLNASNARISGDIDFKGKKLNDL
KEEDWVKVRGKEIAMIFQDPMTSLDPTMKIGMQIAEAILIHEKISKQEALSRALELMHQVGIPNAEEHINDYPHQWSGGM
RQRAVIAIALVANPEILIADEPTTALDVTIQNQILKLMKELQSQISSSIIFITHDLGVVAGMADRVAVMYAGKIVEYGTV
DEVFYNPQHPYTWGLLNSMPTTDTEAGSLESIPGTPPDLLNPPKGDAFVARNEFALDIDHEQEPPMFKVSETHYATTWLL
DERAPEVTPPAPILKRWAKWKKKEGGQA

Nucleotide


Download         Length: 1047 bp        

>NTDB_id=852183 QYR59_RS08975 WP_367561577.1 1814547..1815593(-) (oppD) [Streptococcus iniae strain P3SAB]
ATGACAACTGAAACAATTTTAAATGTTAAAAACCTCCATGTTGATTTTAAAACCTATGCTGGAGATGTTAAAGCCATTCG
TGACATTAATTTTGAGCTTAAAAAAGGGGAGACTCTTGCTATTGTTGGGGAATCTGGTTCAGGTAAGTCTGTAACCACAC
GTACCCTAATGGGGCTAAATGCTTCAAATGCTAGAATCAGTGGTGACATTGATTTCAAAGGTAAAAAACTTAATGATTTA
AAAGAAGAAGACTGGGTTAAGGTTCGTGGTAAAGAAATTGCCATGATTTTCCAAGACCCAATGACCAGTCTTGACCCAAC
AATGAAGATTGGAATGCAAATTGCTGAAGCCATCTTAATTCATGAAAAAATTTCAAAACAAGAAGCTTTGTCTCGTGCTT
TAGAATTGATGCATCAAGTTGGTATTCCTAATGCAGAAGAACATATCAATGATTACCCACATCAATGGTCGGGTGGTATG
AGGCAACGGGCTGTTATTGCCATTGCCTTAGTCGCTAATCCGGAAATTCTAATTGCAGATGAACCAACCACAGCACTGGA
TGTGACAATACAGAACCAAATCTTGAAATTGATGAAAGAATTGCAATCGCAAATCTCATCATCTATCATCTTCATCACCC
ATGATTTAGGTGTGGTTGCTGGTATGGCTGACCGTGTTGCTGTTATGTATGCTGGTAAGATTGTTGAGTATGGTACTGTA
GATGAAGTCTTCTACAATCCACAACACCCTTACACTTGGGGTTTGTTGAATTCAATGCCAACCACTGATACAGAAGCAGG
CAGTTTGGAATCTATTCCAGGAACGCCACCTGATCTTTTGAACCCTCCTAAAGGTGATGCTTTTGTTGCTCGTAATGAGT
TTGCACTTGATATTGACCACGAACAAGAGCCTCCGATGTTTAAAGTAAGTGAAACGCACTATGCGACTACTTGGTTATTA
GATGAGCGTGCGCCAGAGGTGACGCCACCTGCACCAATTCTTAAACGCTGGGCGAAATGGAAGAAAAAAGAAGGGGGACA
AGCTTAA

Domains

Predicted by InterproScan.

ABC transporter (ABC_tran)

(27-183)

Oligopeptide/dipeptide transporter, C-terminal region (oligo_HPY)

(235-297)


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
  oppD Streptococcus mutans UA159

78.841

99.138

0.782
  amiE Streptococcus salivarius strain HSISS4

55.589

95.115

0.529
  amiE Streptococcus thermophilus LMG 18311

55.287

95.115

0.526
  amiE Streptococcus thermophilus LMD-9

55.287

95.115

0.526