Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HV311_RS10385 Genome accession   NZ_CP056269
Coordinates   2181762..2182223 (-) Length   153 a.a.
NCBI ID   WP_191221050.1    Uniprot ID   -
Organism   Citrobacter sp. RHBSTW-00881     
Function   ssDNA binding (predicted from homology)   
DNA processing

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)
Prophage 2175677..2201569 2181762..2182223 within 0


Gene organization within MGE regions


Location: 2175677..2201569
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HV311_RS10335 (HV311_10335) - 2175677..2176594 (+) 918 WP_016153377.1 LysR family transcriptional regulator -
  HV311_RS10340 (HV311_10340) minE 2176680..2176946 (-) 267 WP_001185666.1 cell division topological specificity factor MinE -
  HV311_RS10345 (HV311_10345) minD 2176950..2177762 (-) 813 WP_003020956.1 septum site-determining protein MinD -
  HV311_RS10350 (HV311_10350) minC 2177786..2178493 (-) 708 WP_191221047.1 septum site-determining protein MinC -
  HV311_RS10355 (HV311_10355) - 2178620..2178913 (+) 294 WP_016153375.1 YcgL domain-containing protein -
  HV311_RS10360 (HV311_10360) - 2178983..2179642 (+) 660 WP_016156786.1 fumarylacetoacetate hydrolase family protein -
  HV311_RS10365 (HV311_10365) - 2179735..2180181 (+) 447 WP_016153373.1 YcgN family cysteine cluster protein -
  HV311_RS27985 - 2180208..2180523 (-) 316 Protein_2040 tyrosine-type recombinase/integrase -
  HV311_RS27990 - 2180504..2180626 (-) 123 WP_326928900.1 hypothetical protein -
  HV311_RS10370 (HV311_10370) - 2180671..2181263 (-) 593 Protein_2042 MT-A70 family methyltransferase -
  HV311_RS10375 (HV311_10375) - 2181263..2181547 (-) 285 WP_191221048.1 hypothetical protein -
  HV311_RS10380 (HV311_10380) - 2181564..2181752 (-) 189 WP_191221049.1 hypothetical protein -
  HV311_RS10385 (HV311_10385) ssb 2181762..2182223 (-) 462 WP_191221050.1 single-stranded DNA-binding protein Machinery gene
  HV311_RS10390 (HV311_10390) - 2182220..2182687 (-) 468 WP_191221051.1 HNH endonuclease signature motif containing protein -
  HV311_RS10395 (HV311_10395) - 2182688..2183011 (-) 324 Protein_2047 ERF family protein -
  HV311_RS10400 (HV311_10400) - 2183009..2183374 (+) 366 Protein_2048 scaffolding protein -
  HV311_RS10405 (HV311_10405) - 2183371..2184132 (+) 762 Protein_2049 P22 phage major capsid protein family protein -
  HV311_RS10410 (HV311_10410) - 2184130..2184798 (+) 669 Protein_2050 lytic transglycosylase domain-containing protein -
  HV311_RS10415 (HV311_10415) - 2184787..2185152 (-) 366 WP_191221053.1 hypothetical protein -
  HV311_RS10420 (HV311_10420) - 2185249..2187240 (+) 1992 WP_191221054.1 phage tailspike protein -
  HV311_RS10425 (HV311_10425) - 2187288..2188271 (-) 984 WP_326928889.1 acyltransferase -
  HV311_RS10430 (HV311_10430) - 2188448..2189428 (+) 981 WP_064349473.1 IS5-like element IS5 family transposase -
  HV311_RS10435 (HV311_10435) - 2190064..2190405 (-) 342 WP_016153372.1 DUF1971 domain-containing protein -
  HV311_RS10440 (HV311_10440) dsbB 2190516..2191046 (-) 531 WP_003844060.1 disulfide bond formation protein DsbB -
  HV311_RS10445 (HV311_10445) nhaB 2191188..2192732 (-) 1545 WP_016156785.1 Na(+)/H(+) antiporter NhaB -
  HV311_RS10450 (HV311_10450) fadR 2192969..2193688 (+) 720 WP_016153370.1 fatty acid metabolism transcriptional regulator FadR -
  HV311_RS10455 (HV311_10455) - 2193764..2195296 (-) 1533 WP_191221056.1 SpoVR family protein -
  HV311_RS10460 (HV311_10460) - 2195619..2196917 (+) 1299 WP_046275019.1 D-amino acid dehydrogenase -
  HV311_RS10465 (HV311_10465) dadX 2196930..2198000 (+) 1071 WP_191221057.1 catabolic alanine racemase DadX -
  HV311_RS10470 (HV311_10470) - 2198108..2199847 (-) 1740 WP_016153367.1 potassium/proton antiporter -
  HV311_RS10475 (HV311_10475) ldcA 2199945..2200859 (-) 915 WP_191221058.1 muramoyltetrapeptide carboxypeptidase -
  HV311_RS10480 (HV311_10480) emtA 2200958..2201569 (+) 612 WP_016153365.1 membrane-bound lytic murein transglycosylase EmtA -

Sequence

Protein


Download         Length: 153 a.a.        Molecular weight: 16981.04 Da        Isoelectric Point: 7.0177

>NTDB_id=459015 HV311_RS10385 WP_191221050.1 2181762..2182223(-) (ssb) [Citrobacter sp. RHBSTW-00881]
MSSRGVNKVILVGNLGQDPEVRYLPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGVEKYTTEVLVNVGGTMQMLGGKQAEGKPAGNSQNQQRVQQQPANKNNEPPMNFDDEIPF

Nucleotide


Download         Length: 462 bp        

>NTDB_id=459015 HV311_RS10385 WP_191221050.1 2181762..2182223(-) (ssb) [Citrobacter sp. RHBSTW-00881]
ATGAGTTCTCGCGGAGTAAACAAAGTAATCCTCGTTGGCAACCTTGGGCAAGATCCTGAGGTTCGCTATCTACCAAATGG
TGGCGCGGTAGCCAATATCACACTGGCAACTTCGGAATCATGGCGGGACAAAGCAACCGGCGAGATGAAAGAGCAGACCG
AATGGCACCGGGTGGTTCTGTTTGGCAAGTTGGCTGAAGTAGCAAGCGAGTATCTTCGGAAAGGTTCGCAGGTTTACATC
GAAGGCCAGCTACGTACACGTAAATGGACTGATCAGTCCGGCGTTGAAAAGTACACCACGGAAGTTCTGGTTAACGTCGG
CGGAACCATGCAGATGCTTGGCGGGAAACAGGCAGAAGGAAAACCGGCAGGAAATAGCCAAAATCAGCAACGAGTGCAAC
AACAACCGGCAAATAAGAACAATGAGCCCCCGATGAACTTCGACGATGAGATCCCATTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-112)


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
  ssb Vibrio cholerae strain A1552

64.407

100

0.745
  ssb Glaesserella parasuis strain SC1401

50.276

100

0.595
  ssb Neisseria gonorrhoeae MS11

44.681

92.157

0.412
  ssb Neisseria meningitidis MC58

44.681

92.157

0.412
  ssbA Bacillus subtilis subsp. subtilis str. 168

31.638

100

0.366