ISDA: 9LH2

Deposition Date 2025-01-11

Release Date 2026-01-14

Last Version Date 2026-01-14

Entry Detail

PDB ID:

9LH2

Keywords:

ANTIVIRAL PROTEIN

Title:

Crystal structure of SARS-CoV-2 spike receptor-binding domain (Delta) in complex with pH-dependent nanobody MNb-11.

Biological Source:

Source Organism(s):

Severe acute respiratory syndrome coronavirus 2 (Taxon ID: 2697049)
Vicugna pacos (Taxon ID: 30538)

Expression System(s):

Spodoptera frugiperda, Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.30 Å

R-Value Free:

0.23

R-Value Work:

0.20

Space Group:

P 41 21 2

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Spike protein S1
Gene (Uniprot):S
Chain IDs:A, D (auth: C)
Chain Length:218
Number of Molecules:2
Biological Source:Severe acute respiratory syndrome coronavirus 2

UniProt ID:P0DTC2 Pfam ID:PF09408

Polymer Type:polypeptide(L)
Molecule:MNb-11
Chain IDs:B, C (auth: D)
Chain Length:134
Number of Molecules:2
Biological Source:Vicugna pacos

Ligand Molecules

NAG

Primary Citation

Modification of a SARS-CoV-2 spike-RBD targeting nanobody for pH-dependent binding and its chromatographic engineering for purification of WT and variant S-RBDs with mild elution conditions

Zhang, X.D, Chen, Z.M, Lin, S, Yang, F.L, Guo, L.Y, Yang, J, Wang, L.L, Yuan, X, Xu, P.L, He, B, Cao, Y, Li, J, Zhao, Q, Li, J, Yang, L, Wang, W, Wang, Z.L, Yang, J.L, Yang, J.Y, Shen, G.B, Wei, X.W, Lu, G.W.Show

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Primary Citation of related structures

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