rocD

rocD
168

ornithine transaminase

locus
BSU_40340
Molecular weight
43.60 kDa
pI
4.89
Protein length
Gene length
function
arginine, ornithine and citrulline utilization
product
ornithine transaminase
essential
no
ec
2.6.1.13
synonyms
rocD

Genomic Context

Categories containing this gene/protein

List of homologs in different organisms, belongs to COG4992 (Galperin et al., 2021)

This gene is a member of the following regulons

Gene
Coordinates
4,144,301 → 4,145,506
Phenotypes of a mutant
unable to grow with arginine, ornithine, or citrulline as single source of nitrogen [pubmed|37343703]
Visit Sartorius.com Visit Sartorius.com
Advertisement
The protein
Catalyzed reaction/ biological activity
2-oxocarboxylate + L-ornithine --> L-α-amino acid + L-glutamate 5-semialdehyde (according to UniProt)
Protein family
[wiki|Class-III pyridoxal-phosphate-dependent aminotransferase family] (according to UniProt)
[wiki|Cofactors]
PLP (according to UniProt)
Structure
[PDB|3RUY] (from ''B. anthracis'', 76% identity, 93% similarity)
[AF|P38021]
Paralogous protein(s)
[protein|7FA5502FE82D55EC176F68B74B24293EC9B7D4D7|argD], [protein|E5F6DF14A4C01B2C90F70E37908D3697BC1B5FEF|yhxA], [protein|4E1FD02C6FE4103E3B4942BF5221C062CB8D0B9B|gabT]
[wiki|Localization]
cytoplasm (according to UniProt)
Expression and Regulation
Operons
genes
[gene|617FE9E40E8822D58B0446128585CB6CA05A50C6|rocD]-[gene|B46A8BCEC56E6252712E30F8BF8DA6B836FDE2F6|rocE]-[gene|CD121BBF1DC206D1189ECF8B32456641A55C41D4|rocF]
description
[Pubmed|7540694]
regulation
induced in the presence of arginine ([protein|62F8E0D6BC9DA6390256FA8FB684EA5C9C722AE4|ahrC]) [Pubmed|7565595]
induced in the presence of arginine, citrulline or ornithine (with ornithine as the molecular inducer) ([protein|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]) [pubmed|37343703]
regulatory mechanism
[protein|2C54FE2ADC82FF414D732018C90649D477A925AD|spo0A]: repression, [Pubmed|14651647], in [regulon|protein:2C54FE2ADC82FF414D732018C90649D477A925AD|spo0A regulon]
[protein|62F8E0D6BC9DA6390256FA8FB684EA5C9C722AE4|ahrC]: activation, [Pubmed|7540694], in [regulon|protein:62F8E0D6BC9DA6390256FA8FB684EA5C9C722AE4|ahrC regulon]
[protein|90ACE0DECA58D3C1A55E135120F7A0C1C920571C|codY]: repression, [Pubmed|12618455], in [regulon|protein:90ACE0DECA58D3C1A55E135120F7A0C1C920571C|codY regulon]
[protein|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]: activation, [Pubmed|7540694], in [regulon|protein:BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR regulon]
sigma factors
[protein|1118A21CC581B0470EC6E7C178F2523CDCA70F93|sigL]: sigma factor, [Pubmed|7540694], in [regulon|protein:1118A21CC581B0470EC6E7C178F2523CDCA70F93|sigL regulon]
additional information
expression of the [gene|617FE9E40E8822D58B0446128585CB6CA05A50C6|rocD]-[gene|B46A8BCEC56E6252712E30F8BF8DA6B836FDE2F6|rocE]-[gene|CD121BBF1DC206D1189ECF8B32456641A55C41D4|rocF] operon is increased upon depletion of [gene|8887ADC77C43F21CD375BDAA4D38E940786DAD4F|nusA] (resulting from increased [gene|62F8E0D6BC9DA6390256FA8FB684EA5C9C722AE4|ahrC] expression) [http://www.nature.com/articles/nmicrobiol20157 Reference]
Open in new tab

[gene|617FE9E40E8822D58B0446128585CB6CA05A50C6|rocD]→[gene|CD121BBF1DC206D1189ECF8B32456641A55C41D4|rocF]

2024-03-10 09:04:07

Jstuelk

88

2736177DCAE8E1DC5951F68E1BB418B48A3DD8A0

67A3AD2158130CCC732BB0A6D29A52A60C79A4AD

Biological materials
Mutant
GP4071 (Δ[gene|617FE9E40E8822D58B0446128585CB6CA05A50C6|rocD] trpC2), available in [wiki|Jörg Stülke]'s lab
GP656, aphA3, available in [wiki|Jörg Stülke]'s lab [pubmed|37343703]
BKE40340 (Δ[gene|617FE9E40E8822D58B0446128585CB6CA05A50C6|rocD]::erm  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE40340 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATATTTGAATTCCCCCTTG,  downstream forward: _UP4_TAAATCCGCACCATGGCGGG
BKK40340 (Δ[gene|617FE9E40E8822D58B0446128585CB6CA05A50C6|rocD]::kan  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK40340 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATATTTGAATTCCCCCTTG,  downstream forward: _UP4_TAAATCCGCACCATGGCGGG
Expression vectors
pGP3795: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [wiki|pGP172], available in [wiki|Jörg Stülke]'s lab
pGP3798: IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [wiki|pWH844], available in [wiki|Jörg Stülke]'s lab
pGP3789: expression of Strep-''rocD'' by [wiki|pGP380] in ''B. subtilis'' suitable for [wiki|SPINE], available in [wiki|Jörg Stülke]'s lab
pGP3795: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [wiki|pGP172], available in [wiki|Jörg Stülke]'s lab [pubmed|37343703]
pGP3860 (N-terminal GST-tag, purification from E. coli, in pGEX-6P-1), available in [wiki|Jörg Stülke]'s lab
lacZ fusion
GP4039, available in [wiki|Jörg Stülke]'s lab [pubmed|37343703]
References
12618455,23869754,14651647,12618455,7540694,35783388,37343703

617FE9E40E8822D58B0446128585CB6CA05A50C6

Page visits: 4458

Time of last update: 2024-03-29 02:50:22

Author of last update: Jstuelk