9TY2: Picomolar Nanobody

Crystal structure of a Picomolar Nanobody in complex with Maltose Binding Protein, MBP, and maltose. Determined by X-ray diffraction at 1.75 Å resolution. Released 5 Aug 2026.

Method: X-ray diffraction
Resolution: 1.75 Å
Organisms: Escherichia coli, Vicugna pacos
Chains: 2
Atoms: 4,197
Mol. weight: 56.89 kDa
Released: 5 Aug 2026

Explore 9TY2 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9TY2 contains 27 α-helices and 36 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: 24 helices, 25 β-strands

Element	Residues	Length	Sheet
α-helix	3-4	2
β-strand	7-11	5	1
α-helix	18-32	15
β-strand	35-39	5	1
α-helix	44-53	10
β-strand	60-64	5	1
α-helix	65-67	3
α-helix	68-73	6
β-strand	77	1	2
α-helix	84-87	4
β-strand	90	1	3
α-helix	92-97	6
β-strand	99-100	2	4
β-strand	103-104	2	4
β-strand	107-112	6	1
β-strand	115-119	5	5
β-strand	129	1	6
α-helix	133-141	9
β-strand	146	1	7
α-helix	155-157	3
α-helix	159-164	6
β-strand	168-173	6	8
β-strand	176-183	8	8
α-helix	187-201	15
α-helix	211-219	9
β-strand	223	1	7
β-strand	225-228	4	5
α-helix	230-232	3
α-helix	233-239	7
β-strand	243-246	4	5
α-helix	247-249	3
β-strand	250	1	6
β-strand	251	1	9
β-strand	254	1	9
α-helix	258	1
β-strand	259-260	2	10
β-strand	261-267	7	1
β-strand	268	1	2
α-helix	274-279	6
α-helix	280-285	6
α-helix	288-297	10
β-strand	302-303	2	1
β-strand	305	1	3
α-helix	306-312	7
α-helix	316-327	12
β-strand	329-330	2	10
α-helix	331-332	2
α-helix	337-353	17
α-helix	358-369	12

Chain B: 3 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	11
β-strand	10-12	3	12
β-strand	18-25	8	11
α-helix	29-31	3
β-strand	34-39	6	12
β-strand	46-51	6	12
β-strand	58-60	3	12
α-helix	62-64	3
β-strand	68-73	6	11
β-strand	78-83	6	11
α-helix	88-90	3
β-strand	92-98	7	12
β-strand	104-105	2	12
β-strand	109-113	5	12

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Maltose/maltodextrin-binding periplasmic protein	A	protein	387	Escherichia coli	P0AEY0 (AlphaFold model)
Nanobody, single fragment heavy chain antibody, NbCM1, sdAbCM1	B	protein	128	Vicugna pacos

Sequence of entity 1 (A), FASTA

>9TY2_1 Maltose/maltodextrin-binding periplasmic protein (chains A)
MKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDI
IFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNK
DLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIK
DVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSK
VNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPL
GAVALKSYEEELVKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDE
ALKDAQTNSSSNNNNNNNNNNLGIEGR

Sequence of entity 2 (B), FASTA

>9TY2_2 Nanobody, single fragment heavy chain antibody, NbCM1, sdAbCM1 (chains B)
MASAQVQLVESGGGLVQPGGSLRLSCAASGFTFSSYGMNWYRQAPGKERELVAGISSSGG
VTHYADSVKGRFTISRDNTRNTMFLQMNILKPEDTAVYYCMRRGLPAYWGQGTQVTVSSR
GSHHHHHH

Primary citation

A Picomolar MBP-Binding Nanobody for Target Enrichment and Modular Complex Engineering. Chinellato, M., Franzin, E., Vascon, F. et al. ACS Bio Med Chem Au (2026) 6:323-328. DOI 10.1021/acsbiomedchemau.6c00053 · PubMed

Other PDB entries of the same protein (UniProt P0AEY0 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9PQP 1.07 Å, Crystal structure of maltose binding protein (Apo), mutant Trp340 to 4-Fluorotryptophan
9PQL 1.37 Å, Crystal structure of maltose binding protein (Apo), mutant Trp62 to 4-Fluorotryptophan
9PQN 1.37 Å, Crystal structure of maltose binding protein (Apo), mutant Trp340 to 4-Cyanotryptophan
4WGI 1.85 Å, A Single Diastereomer of a Macrolactam Core Binds Specifically to Myeloid Cell Leukemia…
9PQK 1.87 Å, Crystal structure of maltose binding protein (Apo), mutant Trp10 to 4-Fluorotryptophan
4WVI 1.9 Å, Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB) in…
4WVJ 1.95 Å, Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB) in…
4YS9 2.0 Å, Ataxin-3 Carboxy-Terminal Region - Crystal C1 (tetragonal)
5II4 2.0 Å, Crystal structure of red abalone VERL repeat 1 with linker at 2.0 A resolution
5JON 2.04 Å, Crystal structure of the unliganded form of HCN2 CNBD
4WVG 2.05 Å, Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB).
3VD8 2.07 Å, Crystal structure of human AIM2 PYD domain with MBP fusion

Browse structure collections

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