2YSU: Vitamin B12 transporter btuB

Structure of the complex between BtuB and Colicin E2 receptor binding domain. Determined by X-ray diffraction at 3.5 Å resolution. Released 19 Jun 2007.

Method: X-ray diffraction
Resolution: 3.5 Å
Organism: Escherichia coli
Chains: 2
Atoms: 5,537
Mol. weight: 81.55 kDa
Released: 19 Jun 2007

Explore 2YSU in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2YSU contains 16 α-helices and 38 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 14 helices, 38 β-strands

Element	Residues	Length	Sheet
β-strand	8-9	2	1
β-strand	17-18	2	1
α-helix	19-21	3
β-strand	26-30	5	2
α-helix	31-36	6
α-helix	42-46	5
β-strand	52-56	5	3
β-strand	64-68	5	3
α-helix	73-75	3
β-strand	76-80	5	2
β-strand	83-84	2	2
α-helix	88-91	4
α-helix	96-98	3
α-helix	101-103	3
β-strand	106-111	6	2
α-helix	115-118	4
β-strand	125-130	6	2
β-strand	137-145	9	4
β-strand	150-159	10	4
β-strand	164-175	12	4
β-strand	197-208	12	4
β-strand	214-228	15	4
β-strand	242-257	16	4
β-strand	261-277	17	4
β-strand	289-304	16	4
β-strand	309-322	14	4
β-strand	325	1	5
β-strand	329	1	5
β-strand	334-346	13	4
β-strand	353-362	10	4
β-strand	366-380	15	4
β-strand	383-394	12	4
α-helix	395-397	3
α-helix	398-402	5
α-helix	410-412	3
β-strand	413-426	14	4
β-strand	429-447	19	4
β-strand	452-472	21	4
β-strand	475-488	14	4
α-helix	493	1
β-strand	494	1	4
α-helix	495	1
β-strand	501-508	8	4
β-strand	511	1	6
β-strand	514	1	6
β-strand	515-523	9	4
β-strand	527-529	3	7
β-strand	538-540	3	7
α-helix	541-543	3
β-strand	544-554	11	4
β-strand	559-566	8	4
β-strand	585-593	9	4

Chain B: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	325-375	51
α-helix	387-440	54

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Vitamin B12 transporter btuB	A	protein	594	Escherichia coli	P06129 (AlphaFold model)
Colicin-E2	B	protein	135	Escherichia coli	P04419 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>2YSU_1 Vitamin B12 transporter btuB (chains A)
QDTSPDTLVVTANRFEQPRSTVLAPTTVVTRQDIDRWQSTSVNDVLRRLPGVDITQNGGS
GQLSSIFIRGTNASHVLVLIDGVRLNLAGVSGSADLSQFPIALVQRVEYIRGPRSAVYGS
DAIGGVVNIITTRDEPGTEISAGWGSNSYQNYDVSTQQQLGDKTRVTLLGDYAHTHGYDV
VAYGNTGTQAQTDNDGFLSKTLYGALEHNFTDAWSGFVRGYGYDNRTNYDAYYSPGSPLL
DTRKLYSQSWDAGLRYNGELIKSQLITSYSHSKDYNYDPHYGRYDSSATLDEMKQYTVQW
ANNVIVGHGSIGAGVDWQKQTTTPGTGYVEDGYDQRNTGIYLTGLQQVGDFTFEGAARSD
DNSQFGRHGTWQTSAGWEFIEGYRFIASYGTSYKAPNLGQLYGFYGNPNLDPEKSKQWEG
AFEGLTAGVNWRISGYRNDVSDLIDYDDHTLKYYNEGKARIKGVEATANFDTGPLTHTVS
YDYVDARNAITDTPLLRRAKQQVKYQLDWQLYDFDWGITYQYLGTRYDKDYSSYPYQTVK
MGGVSLWDLAVAYPVTSHLTVRGKIANLFDKDYETVYGYQTAGREYTLSGSYTF

Sequence of entity 2 (B), FASTA

>2YSU_2 Colicin-E2 (chains B)
THPVEAAERNYERARAELNQANEDVARNQERQAKAVQVYNSRKSELDAANKTLADAIAEI
KQFNRFAHDPMAGGHRMWQMAGLKAQRAQTDVNNKQAAFDAAAKEKSDADAALSAAQERR
KQKENKEKDAKDKLD

Primary citation

Structure of the complex of the colicin E2 R-domain and its BtuB receptor. The outer membrane colicin translocon. Sharma, O., Yamashita, E., Zhalnina, M.V. et al. J Biol Chem (2007) 282:23163-23170. DOI 10.1074/jbc.M703004200 · PubMed

Other PDB entries of the same protein (UniProt P06129 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2GUF 1.95 Å, In meso crystal structure of the cobalamin transporter, BtuB
1NQE 2.0 Å, Outer membrane cobalamin transporter (BTUB) from E. Coli
2GSK 2.1 Å, Structure of the BtuB:TonB Complex
3RGN 2.3 Å, Crystal structure of spin-labeled BtuB W371R1
3M8B 2.44 Å, Crystal structure of spin-labeled BtuB V10R1 in the apo state
3M8D 2.44 Å, Crystal structure of spin-labeled BtuB V10R1 with bound calcium and cyanocobalamin
3RGM 2.6 Å, Crystal structure of spin-labeled BtuB T156R1
1NQF 2.7 Å, Outer membrane cobalamin transporter (BTUB) from E. Coli, methionine substiution…
1UJW 2.75 Å, Structure of the complex between BtuB and Colicin E3 Receptor binding domain
1NQH 3.1 Å, Outer membrane cobalamin transporter (BTUB) from E. Coli, with bound calcium and…
1NQG 3.31 Å, Outer membrane cobalamin transporter (BTUB) from E. Coli, with bound calcium
7NSU 4.7 Å, ColicinE9 intact translocation complex

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