RegulonDB RegulonDB 11.2: Gene Form
   

carB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

carB carA caiF CRP FNR caiFp caiFp TSS_79 TSS_79 TSS_78 TSS_78 TSS_77 TSS_77 carBp carBp

Gene      
Name: carB    Texpresso search in the literature
Synonym(s): ECK0034, EG10135, b0033, pyrA
Genome position(nucleotides): 30817 --> 34038
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 56.27
External database links:  
ASAP:
 ABE-0000121
CGSC:
 935
ECHOBASE:
 EB0133
ECOLIHUB:
 carB
MIM:
 237300
MIM:
 608307
MIM:
 616457
MIM:
 615371
NCBI-GENE:
 944775
OU-MICROARRAY:
 b0033
STRING:
 511145.b0033
COLOMBOS: carB


Product      
Name: carbamoyl-phosphate synthetase large subunit
Synonym(s): CarB, PyrA, carbamoyl phosphate synthetase, beta; chain, carbamoyl-phosphate synthetase subunit beta;
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 117.842
Isoelectric point: 4.978
Motif(s):
 
Type Positions Sequence Comment
2 -> 1073 PKRTDIKSILILGAGPIVIGQACEFDYSGAQACKALREEGYRVILVNSNPATIMTDPEMADATYIEPIHWEVVRKIIEKERPDAVLPTMGGQTALNCALELERQGVLEEFGVTMIGATADAIDKAEDRRRFDVAMKKIGLETARSGIAHTMEEALAVAADVGFPCIIRPSFTMGGSGGGIAYNREEFEEICARGLDLSPTKELLIDESLIGWKEYEMEVVRDKNDNCIIVCSIENFDAMGIHTGDSITVAPAQTLTDKEYQIMRNASMAVLREIGVETGGSNVQFAVNPKNGRLIVIEMNPRVSRSSALASKATGFPIAKVAAKLAVGYTLDELMNDITGGRTPASFEPSIDYVVTKIPRFNFEKFAGANDRLTTQMKSVGEVMAIGRTQQESLQKALRGLEVGATGFDPKVSLDDPEALTKIRRELKDAGADRIWYIADAFRAGLSVDGVFNLTNIDRWFLVQIEELVRLEEKVAEVGITGLNADFLRQLKRKGFADARLAKLAGVREAEIRKLRDQYDLHPVYKRVDTCAAEFATDTAYMYSTYEEECEANPSTDREKIMVLGGGPNRIGQGIEFDYCCVHASLALREDGYETIMVNCNPETVSTDYDTSDRLYFEPVTLEDVLEIVRIEKPKGVIVQYGGQTPLKLARALEAAGVPVIGTSPDAIDRAEDRERFQHAVERLKLKQPANATVTAIEMAVEKAKEIGYPLVVRPSYVLGGRAMEIVYDEADLRRYFQTAVSVSNDAPVLLDHFLDDAVEVDVDAICDGEMVLIGGIMEHIEQAGVHSGDSACSLPAYTLSQEIQDVMRQQVQKLAFELQVRGLMNVQFAVKNNEVYLIEVNPRAARTVPFVSKATGVPLAKVAARVMAGKSLAEQGVTKEVIPPYYSVKEVVLPFNKFPGVDPLLGPEMRSTGEVMGVGRTFAEAFAKAQLGSNSTMKKHGRALLSVREGDKERVVDLAAKLLKQGFELDATHGTAIVLGEAGINPRLVNKVHEGRPHIQDRIKNGEYTYIINTTSGRRAIEDSRVIRRSALQYKVHYDTTLNGGFATAMALNADATEKVISVQEMHAQIK UniProt: Carbamoyl-phosphate synthase large chain.
128 -> 334 DRRRFDVAMKKIGLETARSGIAHTMEEALAVAADVGFPCIIRPSFTMGGSGGGIAYNREEFEEICARGLDLSPTKELLIDESLIGWKEYEMEVVRDKNDNCIIVCSIENFDAMGIHTGDSITVAPAQTLTDKEYQIMRNASMAVLREIGVETGGSNVQFAVNPKNGRLIVIEMNPRVSRSSALASKATGFPIAKVAAKLAVGYTLDE
133 -> 328 DVAMKKIGLETARSGIAHTMEEALAVAADVGFPCIIRPSFTMGGSGGGIAYNREEFEEICARGLDLSPTKELLIDESLIGWKEYEMEVVRDKNDNCIIVCSIENFDAMGIHTGDSITVAPAQTLTDKEYQIMRNASMAVLREIGVETGGSNVQFAVNPKNGRLIVIEMNPRVSRSSALASKATGFPIAKVAAKLAV UniProt: ATP-grasp 1.
159 -> 216 AADVGFPCIIRPSFTMGGSGGGIAYNREEFEEICARGLDLSPTKELLIDESLIGWKEY UniProt: ATP.
404 -> 553 VGATGFDPKVSLDDPEALTKIRRELKDAGADRIWYIADAFRAGLSVDGVFNLTNIDRWFLVQIEELVRLEEKVAEVGITGLNADFLRQLKRKGFADARLAKLAGVREAEIRKLRDQYDLHPVYKRVDTCAAEFATDTAYMYSTYEEECEA UniProt: Oligomerization domain; Sequence Annotation Type: region of interest.

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.1 - amino acids --> 1.5.1.3 - arginine
  1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.2 - nucleotides --> 1.5.2.2 - pyrimidine biosynthesis
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0005951 - carbamoyl-phosphate synthase complex
molecular_function GO:0005515 - protein binding
GO:0046872 - metal ion binding
GO:0016874 - ligase activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0016597 - amino acid binding
GO:0004088 - carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
GO:0004087 - carbamoyl-phosphate synthase (ammonia) activity
biological_process GO:0006221 - pyrimidine nucleotide biosynthetic process
GO:0006526 - arginine biosynthetic process
GO:0006541 - glutamine metabolic process
GO:0006807 - nitrogen compound metabolic process
GO:0008652 - cellular amino acid biosynthetic process
GO:0019856 - pyrimidine nucleobase biosynthetic process
GO:0044205 - 'de novo' UMP biosynthetic process
Note(s): Note(s): ...[more].
Reference(s): [1] Nyunoya H., et al., 1983
External database links:  
ALPHAFOLD:
 P00968
DIP:
 DIP-1025N
ECOCYC:
 CARBPSYN-LARGE
ECOLIWIKI:
 b0033
INTERPRO:
 IPR016185
INTERPRO:
 IPR036914
INTERPRO:
 IPR036897
INTERPRO:
 IPR033937
INTERPRO:
 IPR005479
INTERPRO:
 IPR011761
INTERPRO:
 IPR011607
INTERPRO:
 IPR006275
INTERPRO:
 IPR005483
INTERPRO:
 IPR005480
MODBASE:
 P00968
PDB:
 1T36
PDB:
 1M6V
PDB:
 1KEE
PDB:
 1JDB
PDB:
 1CS0
PDB:
 1CE8
PDB:
 1C3O
PDB:
 1C30
PDB:
 1A9X
PDB:
 1BXR
PFAM:
 PF02787
PFAM:
 PF02786
PFAM:
 PF02142
PRIDE:
 P00968
PRINTS:
 PR00098
PRODB:
 PRO_000022248
PROSITE:
 PS51855
PROSITE:
 PS50975
PROSITE:
 PS00867
PROSITE:
 PS00866
REFSEQ:
 NP_414574
SMART:
 SM00851
SMART:
 SM01096
SMR:
 P00968
UNIPROT:
 P00968


Operon      
Name: carAB         
Operon arrangement:
Transcription unit        Promoter
carAB
carAB
carB


Transcriptional Regulation      
Display Regulation             
Activated by: IHF, Fis, RutR
Repressed by: PurR, IHF, ArgR, PepA


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter TSS_77 31596 forward nd [RS-EPT-CBR] [2]
  promoter TSS_78 31603 forward nd [RS-EPT-CBR] [2]
  promoter TSS_79 34216 forward nd [RS-EPT-CBR] [2]


Evidence    

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates


Reference(s)    

 [1] Nyunoya H., Lusty CJ., 1983, The carB gene of Escherichia coli: a duplicated gene coding for the large subunit of carbamoyl-phosphate synthetase., Proc Natl Acad Sci U S A 80(15):4629-33

 [2] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

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