holB [2017-12-07 13:26:53]

DNA polymerase III (delta subunit), part of the clamp-loader complex and the replisome

locus: BSU00310

pI: 6.33

mw: 37.47 kDa

protein length: 329 aa

gene length: 987 bp

function: DNA replication

product: DNA polymerase III (delta subunit)

essential: yes

ec: 2.7.7.7

synonyms: yaaS

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.1|Genetics] → [category|SW 3.1.1|DNA replication]
• [category|SW 6|Groups of genes] → [category|SW 6.1|Essential genes]

Gene

Coordinates: 40,665 → 41,654

Phenotypes of a mutant

• essential [Pubmed|12682299]

The protein

Catalyzed reaction/ biological activity

• Deoxynucleoside triphosphate DNA(n) = diphosphate DNA(n 1) (according to Swiss-Prot)
• required for bacteriophage SPP1 replication [Pubmed|23268446]

Structure

• [PDB|1NJG] (from ''E. coli'', 36% identity) [Pubmed|12623013]

[SW|Localization]

• forms foci [Pubmed|21958350]
• cytoplasm (homogeneous) [Pubmed|16479537]

Expression and Regulation

Operons

• genes: [gene|08314FA6195D553B8522BCD3B45FEE0EAB51F64D|xpaC]-[gene|5231A0EE9C5A7556817B686D5B2B7B72B675BCAC|yaaN]-[gene|EEF3E572ED2F23581EB9B48D16B3112B886F7975|yaaO]-[gene|5B9984BBCEC1244628DC1467BE26976AD8E06286|tmk]-[gene|31C8DCB4E1E225AC92EC2E11835234C4668AB326|darA]-[gene|3422E4C34EAAF355A9767F1AD8DFAE9A6A756F0C|yaaR]-[gene|DC867376EF4F9CC7663A9B76AA260AC3CA11595A|holB]-[gene|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|yaaT]-[gene|A039228A3805F4E7C5C2AE31C7DB0808562E88E3|yabA]-[gene|55C4B4B7B46B6D04EF712BD79407C0B04DDC6A34|trmN6]-[gene|47859E62AABA5A57AC6F5F80CDE4ED52FC7F879F|yazA]-[gene|FB71FFDEABF17228CA2BD5F3DE0C8A9A2C22485D|yabC]
  description: [Pubmed|22383849]

• genes: [gene|31C8DCB4E1E225AC92EC2E11835234C4668AB326|darA]-[gene|3422E4C34EAAF355A9767F1AD8DFAE9A6A756F0C|yaaR]-[gene|DC867376EF4F9CC7663A9B76AA260AC3CA11595A|holB]-[gene|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|yaaT]-[gene|A039228A3805F4E7C5C2AE31C7DB0808562E88E3|yabA]-[gene|55C4B4B7B46B6D04EF712BD79407C0B04DDC6A34|trmN6]-[gene|47859E62AABA5A57AC6F5F80CDE4ED52FC7F879F|yazA]-[gene|FB71FFDEABF17228CA2BD5F3DE0C8A9A2C22485D|yabC]
  description: [Pubmed|22383849]

  regulation

  • expressed during growth and the transition phase, expression is erduced in stationary phase [Pubmed|23490197]

• genes: [gene|5B9984BBCEC1244628DC1467BE26976AD8E06286|tmk]-[gene|31C8DCB4E1E225AC92EC2E11835234C4668AB326|darA]-[gene|3422E4C34EAAF355A9767F1AD8DFAE9A6A756F0C|yaaR]-[gene|DC867376EF4F9CC7663A9B76AA260AC3CA11595A|holB]-[gene|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|yaaT]-[gene|A039228A3805F4E7C5C2AE31C7DB0808562E88E3|yabA]-[gene|55C4B4B7B46B6D04EF712BD79407C0B04DDC6A34|trmN6]-[gene|47859E62AABA5A57AC6F5F80CDE4ED52FC7F879F|yazA]-[gene|FB71FFDEABF17228CA2BD5F3DE0C8A9A2C22485D|yabC]
  description: [Pubmed|22383849]

Biological materials

Expression vector

• pGP1692: expression of Strep-''holB''-Strep in ''E. coli'', in [SW|pGP172], available in [SW|Jörg Stülke]'s lab
• pGP1698: expression of ''holB''-Strep in ''E. coli'', in [SW|pGP574], available in [SW|Jörg Stülke]'s lab
• pGP1699: expression of ''holB'' in ''E. coli'', in [SW|pGP574] (no tag due to a stop codon at the end of ''holB''), available in [SW|Jörg Stülke]'s lab
• pGP2672: expression of ''holB''-Strep in ''B. subtilis'', in [SW|pGP380], suitable for [SW|SPINE], available in [SW|Jörg Stülke]'s lab

two-hybrid system

• ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([SW|BACTH]), available in [SW|Jörg Stülke]'s lab

References

• 23268446,21958350,16479537,20122408,23525462,22383849,12623013