2Q20: Vk1 O18/O8 germline light chain variable domain

Structure of the germline Vk1 O18/O8 light chain variable domain homodimer. Determined by X-ray diffraction at 1.3 Å resolution. Released 8 Apr 2008.

Method: X-ray diffraction
Resolution: 1.3 Å
Organism: Homo sapiens
Chains: 2
Atoms: 2,424
Mol. weight: 23.94 kDa
Released: 8 Apr 2008

Explore 2Q20 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2Q20 contains 9 α-helices and 22 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: 5 helices, 11 β-strands

Element	Residues	Length	Sheet
α-helix	1-3	3
β-strand	4-7	4	1
β-strand	10-13	4	2
β-strand	19-25	7	1
β-strand	33-38	6	2
β-strand	44-49	6	2
β-strand	53-54	2	2
α-helix	55	1
β-strand	62-66	5	1
β-strand	70-75	6	1
α-helix	80-82	3
β-strand	84-90	7	2
α-helix	97	1
β-strand	98	1	2
α-helix	99	1
β-strand	102-106	5	2

Chain B: 4 helices, 11 β-strands

Element	Residues	Length	Sheet
α-helix	0-3	4
β-strand	4-7	4	3
β-strand	10-13	4	4
β-strand	19-25	7	3
β-strand	33-38	6	4
β-strand	45-49	5	4
β-strand	53-54	2	4
α-helix	55	1
β-strand	62-66	5	3
β-strand	70-75	6	3
α-helix	80-82	3
β-strand	84-90	7	4
α-helix	96	1
β-strand	97-98	2	4
β-strand	102-106	5	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Vk1 O18/O8 germline light chain variable domain	A, B	protein	109	Homo sapiens	P01594 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>2Q20_1 Vk1 O18/O8 germline light chain variable domain (chains A, B)
STDIQMTQSPSSLSASVGDRVTITCQASQDISNYLNWYQQKPGKAPKLLIYDASNLETGV
PSRFSGSGSGTDFTFTISSLQPEDIATYYCQQYDNLPYTFGQGTKLEIK

Primary citation

Altered dimer interface decreases stability in an amyloidogenic protein. Baden, E.M., Owen, B.A., Peterson, F.C. et al. J Biol Chem (2008) 283:15853-15860. DOI 10.1074/jbc.M705347200 · PubMed

Other PDB entries of the same protein (UniProt P01594 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3CDC 1.53 Å, kI O18/O8 N34I/Y87H immunoglobulin light chain variable domain
3CDF 1.53 Å, kI O18/O8 Y87H immunoglobulin light chain variable domain
1B0W 1.8 Å, Structural comparison of amyloidogenic light chain dimer in two crystal forms with…
1QP1 2.06 Å, Kappa variable light chain
1JV5 2.2 Å, Anti-blood group A Fv
3CDY 2.43 Å, AL-09 H87Y, immunoglobulin light chain variable domain
7CZQ 2.8 Å, S protein of SARS-CoV-2 in complex bound with P2B-1A10
4K07 2.83 Å, Crystal structure of the amyloid-forming immunoglobulin AL-103 cis-proline 95 mutant
7CZV 3.3 Å, S protein of SARS-CoV-2 in complex bound with P5A-1B6_3B
7CZU 3.4 Å, S protein of SARS-CoV-2 in complex bound with P5A-1B6_2B

Browse structure collections

About this viewer

MolViewer shows 2Q20 directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.