RegulonDB RegulonDB 10.10: Gene Form
   

btuB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

btuB rrsB trmA murI Lrp Lrp H-NS H-NS Lrp Fis H-NS Fis Fis GadX GadX GadX Fis DksA DksA-ppGpp DksA-ppGpp ppGpp Cis-reg; riboswitch TSS_4697 TSS_4697 rrsBp2 rrsBp2 rrsBp1 rrsBp1 TSS_4696 TSS_4696 TSS_4695 TSS_4695 btuBp btuBp trmAp trmAp TSS_4694 TSS_4694 TSS_4693 TSS_4693

Gene      
Name: btuB    Texpresso search in the literature
Synonym(s): ECK3958, EG10126, b3966, bfe, cer
Genome position(nucleotides): 4163639 --> 4165483 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 50.24
External database links:  
ASAP:
 ABE-0012987
CGSC:
 946
ECHOBASE:
 EB0124
ECOLIHUB:
 btuB
OU-MICROARRAY:
 b3966
STRING:
 511145.b3966
COLOMBOS: btuB


Product      
Name: cobalamin outer membrane transporter
Synonym(s): Bfe, BtuB, Cer, Vitamin B12 outer membrane transporter
Sequence: Get amino acid sequence Fasta Format
Cellular location: outer membrane
Molecular weight: 68.407
Isoelectric point: 5.118
Motif(s):
 
Type Positions Sequence
26 -> 33 DTLVVTAN
30 -> 30 V
232 -> 248 DAWSGFVRGYGYDNRTN
249 -> 251 YDA
377 -> 377 A

 
Classification:
Multifun Terms (GenProtEC)  
  4 - transport --> 4.1 - Channel-type Transporters --> 4.1.B - Beta barrel porins (The Outer Membrane Porin (OMP) Functional Superfamily)
  8 - extrachromosomal --> 8.1 - prophage genes and phage related functions
Gene Ontology Terms (GO)  
cellular_component GO:0009279 - cell outer membrane
GO:0016020 - membrane
GO:0016021 - integral component of membrane
GO:0031230 - intrinsic component of cell outer membrane
GO:0045203 - integral component of cell outer membrane
GO:0046930 - pore complex
molecular_function GO:0019904 - protein domain specific binding
GO:0005515 - protein binding
GO:0046872 - metal ion binding
GO:0015288 - porin activity
GO:0015420 - ABC-type vitamin B12 transporter activity
GO:0005509 - calcium ion binding
GO:0090482 - vitamin transmembrane transporter activity
biological_process GO:0006811 - ion transport
GO:0015889 - cobalamin transport
GO:0034220 - ion transmembrane transport
GO:0035461 - vitamin transmembrane transport
Note(s): Note(s): ...[more].
Reference(s): [1] Bassford PJ., et al., 1977
[2] Cadieux N., et al., 2007
[3] Cadieux N., et al., 2003
[4] Cavard D. 1994
[5] Chen XS., et al., 1998
[6] Di Girolamo PM., et al., 1971
[7] Duche D., et al., 2009
[8] Ellena JF., et al., 2011
[9] Fanucci GE., et al., 2003
[10] Freed DM., et al., 2010
[11] Gudmundsdottir A., et al., 1988
[12] Hunter MG., et al., 1982
[13] Kadner RJ., et al., 1980
[14] Kim M., et al., 2008
[15] Koster W., et al., 1991
[16] Lathrop JT., et al., 1995
[17] Law CJ., et al., 2003
[18] Likhacheva NA., et al., 1996
[19] Luan B., et al., 2010
[20] Lundrigan MD., et al., 1987
[21] Lundrigan MD., et al., 1989
[22] Masi M., et al., 2007
[23] Mohanty AK., et al., 2003
[24] Nahvi A., et al., 2004
[25] Nilaweera TD., et al., 2019
[26] Pan YH., et al., 2006
[27] Pienko T., et al., 2021
[28] Pienko T., et al., 2020
[29] Polaski JT., et al., 2017
[30] Sahu ID. 2020
[31] Samsonov VV., et al., 2002
[32] Schaffer MF., et al., 2014
[33] Shearer J., et al., 2019
[34] Shultis DD., et al., 2006
[35] Smarda J., et al., 2000
[36] Taylor R., et al., 1998
[37] Zakharov SD., et al., 2004
[38] Zakharov SD., et al., 2012
[39] Zakharov SD., et al., 2006
[40] Zhang Y., et al., 2008
External database links:  
DIP:
 DIP-9232N
ECOCYC:
 EG10126-MONOMER
ECOLIWIKI:
 b3966
INTERPRO:
 IPR010101
INTERPRO:
 IPR000531
INTERPRO:
 IPR039426
INTERPRO:
 IPR010916
INTERPRO:
 IPR010917
INTERPRO:
 IPR012910
INTERPRO:
 IPR036942
INTERPRO:
 IPR037066
MODBASE:
 P06129
PANTHER:
 PTHR30069
PDB:
 2GSK
PDB:
 3RGN
PDB:
 3RGM
PDB:
 3M8D
PDB:
 3M8B
PDB:
 1UJW
PDB:
 2GUF
PDB:
 1NQE
PDB:
 1NQF
PDB:
 1NQG
PDB:
 1NQH
PDB:
 2YSU
PFAM:
 PF00593
PFAM:
 PF07715
PRIDE:
 P06129
PRODB:
 PRO_000022234
PROSITE:
 PS01156
PROSITE:
 PS00430
REFSEQ:
 NP_418401
SMR:
 P06129
UNIPROT:
 P06129


Operon      
Name: btuB-murI         
Operon arrangement:
Transcription unit        Promoter
btuB-murI


Transcriptional Regulation      
Display Regulation             
Repressed by: GadX


RNA cis-regulatory element    
   
Cis-reg; riboswitch Cobalamin riboswitch
   
   


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_4693 4162891 reverse nd [RS-EPT-CBR] [41]
  promoter TSS_4694 4162924 reverse nd [RS-EPT-CBR] [41]
  promoter TSS_4695 4163652 forward nd [RS-EPT-CBR] [41]
  promoter TSS_4696 4166020 forward nd [RS-EPT-CBR] [41]
  promoter TSS_4697 4166544 forward nd [RS-EPT-CBR] [41]


Evidence    

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


Reference(s)    

 [1] Bassford PJ., Kadner RJ., Schnaitman CA., 1977, Biosynthesis of the outer membrane receptor for vitamin B12, E colicins, and bacteriophage BF23 by Escherichia coli: kinetics of phenotypic expression after the introduction of bfe+ and bfe alleles., J Bacteriol 129(1):265-75

 [2] Cadieux N., Barekzi N., Bradbeer C., 2007, Observations on the calcium dependence and reversibility of cobalamin transport across the outer membrane of Escherichia coli., J Biol Chem 282(48):34921-8

 [3] Cadieux N., Phan PG., Cafiso DS., Kadner RJ., 2003, Differential substrate-induced signaling through the TonB-dependent transporter BtuB., Proc Natl Acad Sci U S A 100(19):10688-93

 [4] Cavard D., 1994, Rescue by vitamin B12 of Escherichia coli cells treated with colicins A and E allows measurement of the kinetics of colicin binding on BtuB., FEMS Microbiol Lett 116(1):37-42

 [5] Chen XS., Zhang YY., Funk CD., 1998, Determinants of 5-lipoxygenase nuclear localization using green fluorescent protein/5-lipoxygenase fusion proteins., J Biol Chem 273(47):31237-44

 [6] Di Girolamo PM., Bradbeer C., 1971, Transport of vitamin B 12 in Escherichia coli., J Bacteriol 106(3):745-50

 [7] Duche D., Issouf M., Lloubes R., 2009, Immunity Protein Protects Colicin E2 from OmpT Protease., J Biochem 145(1):95-101

 [8] Ellena JF., Lackowicz P., Mongomery H., Cafiso DS., 2011, Membrane thickness varies around the circumference of the transmembrane protein BtuB., Biophys J 100(5):1280-7

 [9] Fanucci GE., Lee JY., Cafiso DS., 2003, Membrane mimetic environments alter the conformation of the outer membrane protein BtuB., J Am Chem Soc 125(46):13932-3

 [10] Freed DM., Horanyi PS., Wiener MC., Cafiso DS., 2010, Conformational exchange in a membrane transport protein is altered in protein crystals., Biophys J 99(5):1604-10

 [11] Gudmundsdottir A., Bradbeer C., Kadner RJ., 1988, Altered binding and transport of vitamin B12 resulting from insertion mutations in the Escherichia coli btuB gene., J Biol Chem 263(28):14224-30

 [12] Hunter MG., Glass RE., 1982, Analysis of btuB receptor function by use of nonsense suppression., J Bacteriol 151(3):1591-4

 [13] Kadner RJ., McElhaney G., 1980, Outer membrane-dependent transport systems in Escherichia coli: effect of repression or cessation of colicin receptor synthesis on colicin receptor activities., J Bacteriol 143(1):135-41

 [14] Kim M., Xu Q., Murray D., Cafiso DS., 2008, Solutes alter the conformation of the ligand binding loops in outer membrane transporters., Biochemistry 47(2):670-9

 [15] Koster W., Gudmundsdottir A., Lundrigan MD., Seiffert A., Kadner RJ., 1991, Deletions or duplications in the BtuB protein affect its level in the outer membrane of Escherichia coli., J Bacteriol 173(18):5639-47

 [16] Lathrop JT., Wei BY., Touchie GA., Kadner RJ., 1995, Sequences of the Escherichia coli BtuB protein essential for its insertion and function in the outer membrane., J Bacteriol 177(23):6810-9

 [17] Law CJ., Penfold CN., Walker DC., Moore GR., James R., Kleanthous C., 2003, OmpF enhances the ability of BtuB to protect susceptible Escherichia coli cells from colicin E9 cytotoxicity., FEBS Lett 545(2-3):127-32

 [18] Likhacheva NA., Samsonov VV., Samsonov VV., Sineoky SP., 1996, Genetic control of the resistance to phage C1 of Escherichia coli K-12., J Bacteriol 178(17):5309-15

 [19] Luan B., Carr R., Caffrey M., Aksimentiev A., 2010, The effect of calcium on the conformation of cobalamin transporter BtuB., Proteins 78(5):1153-62

 [20] Lundrigan MD., De Veaux LC., Mann BJ., Kadner RJ., 1987, Separate regulatory systems for the repression of metE and btuB by vitamin B12 in Escherichia coli., Mol Gen Genet 206(3):401-7

 [21] Lundrigan MD., Kadner RJ., 1989, Altered cobalamin metabolism in Escherichia coli btuR mutants affects btuB gene regulation., J Bacteriol 171(1):154-61

 [22] Masi M., Vuong P., Humbard M., Malone K., Misra R., 2007, Initial steps of colicin E1 import across the outer membrane of Escherichia coli., J Bacteriol 189(7):2667-76

 [23] Mohanty AK., Bishop CM., Bishop TC., Wimley WC., Wiener MC., 2003, Enzymatic E-colicins bind to their target receptor BtuB by presentation of a small binding epitope on a coiled-coil scaffold., J Biol Chem 278(42):40953-8

 [24] Nahvi A., Barrick JE., Breaker RR., 2004, Coenzyme B12 riboswitches are widespread genetic control elements in prokaryotes., Nucleic Acids Res 32(1):143-50

 [25] Nilaweera TD., Nyenhuis DA., Nakamoto RK., Cafiso DS., 2019, Disulfide Chaperone Knockouts Enable In Vivo Double Spin Labeling of an Outer Membrane Transporter., Biophys J 117(8):1476-1484

 [26] Pan YH., Liao CC., Kuo CC., Duan KJ., Liang PH., Yuan HS., Hu ST., Chak KF., 2006, The critical roles of polyamines in regulating ColE7 production and restricting ColE7 uptake of the colicin-producing Escherichia coli., J Biol Chem 281(19):13083-91

 [27] Pienko T., Czarnecki J., Rownicki M., Wojciechowska M., Wierzba AJ., Gryko D., Bartosik D., Trylska J., 2021, Vitamin B12 -peptide nucleic acids use the BtuB receptor to pass through the Escherichia coli outer membrane., Biophys J 120(4):725-737

 [28] Pienko T., Trylska J., 2020, Extracellular loops of BtuB facilitate transport of vitamin B12 through the outer membrane of E. coli., PLoS Comput Biol 16(7):e1008024

 [29] Polaski JT., Webster SM., Johnson JE., Batey RT., 2017, Cobalamin riboswitches exhibit a broad range of ability to discriminate between methylcobalamin and adenosylcobalamin., J Biol Chem 292(28):11650-11658

 [30] Sahu ID., 2020, Conformational Dynamics of the Extracellular Loop of BtuB in Whole Cells., Biophys J 119(8):1470-1471

 [31] Samsonov VV., Samsonov VV., Sineoky SP., 2002, DcrA and dcrB Escherichia coli genes can control DNA injection by phages specific for BtuB and FhuA receptors., Res Microbiol 153(10):639-46

 [32] Schaffer MF., Choudhary PK., Sigel RK., 2014, The AdoCbl-riboswitch interaction investigated by in-line probing and surface plasmon resonance spectroscopy (SPR)., Methods Enzymol 549:467-88

 [33] Shearer J., Jefferies D., Khalid S., 2019, Outer Membrane Proteins OmpA, FhuA, OmpF, EstA, BtuB, and OmpX Have Unique Lipopolysaccharide Fingerprints., J Chem Theory Comput 15(4):2608-2619

 [34] Shultis DD., Purdy MD., Banchs CN., Wiener MC., 2006, Crystallization and preliminary X-ray crystallographic analysis of the Escherichia coli outer membrane cobalamin transporter BtuB in complex with the carboxy-terminal domain of TonB., Acta Crystallograph Sect F Struct Biol Cryst Commun 62(Pt 7):638-41

 [35] Smarda J., Macholan L., 2000, Binding domains of colicins E1, E2 and E3 in the receptor protein BtuB of Escherichia coli., Folia Microbiol (Praha) 45(5):379-85

 [36] Taylor R., Burgner JW., Clifton J., Cramer WA., 1998, Purification and characterization of monomeric Escherichia coli vitamin B12 receptor with high affinity for colicin E3., J Biol Chem 273(47):31113-8

 [37] Zakharov SD., Eroukova VY., Rokitskaya TI., Zhalnina MV., Sharma O., Loll PJ., Zgurskaya HI., Antonenko YN., Cramer WA., 2004, Colicin occlusion of OmpF and TolC channels: outer membrane translocons for colicin import., Biophys J 87(6):3901-11

 [38] Zakharov SD., Sharma O., Zhalnina M., Yamashita E., Cramer WA., 2012, Pathways of colicin import: utilization of BtuB, OmpF porin and the TolC drug-export protein., Biochem Soc Trans 40(6):1463-8

 [39] Zakharov SD., Zhalnina MV., Sharma O., Cramer WA., 2006, The colicin E3 outer membrane translocon: immunity protein release allows interaction of the cytotoxic domain with OmpF porin., Biochemistry 45(34):10199-207

 [40] Zhang Y., Vankemmelbeke MN., Holland LE., Walker DC., James R., Penfold CN., 2008, Investigating early events in receptor binding and translocation of colicin E9 using synchronized cell killing and proteolytic cleavage., J Bacteriol 190(12):4342-50

 [41] 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.

RegulonDB