1HEZ: P. magnus protein L

Name: PDB 1HEZ: Structure of P. magnus protein L bound to a human IgM Fab.
Published: 2001-08-10
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: antibody

Structure of P. magnus protein L bound to a human IgM Fab. Determined by X-ray diffraction at 2.7 Å resolution. Released 10 Aug 2001.

Method: X-ray diffraction
Resolution: 2.7 Å
Organisms: HOMO SAPIENS, FINEGOLDIA MAGNA
Chains: 5
Atoms: 7,058
Mol. weight: 102.22 kDa
Released: 10 Aug 2001

Explore 1HEZ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1HEZ contains 25 α-helices and 93 β-strands across 5 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: 8 helices, 21 β-strands

Element	Residues	Length	Sheet
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	45-49	5	2
β-strand	53-54	2	2
α-helix	55	1
β-strand	62-67	6	1
β-strand	70-75	6	1
α-helix	80-82	3
β-strand	84-90	7	2
α-helix	96	1
β-strand	97-98	2	2
β-strand	102-106	5	2
β-strand	111	1	3
α-helix	112-113	2
β-strand	114-118	5	4
α-helix	119-121	3
α-helix	122-125	4
β-strand	129-139	11	4
β-strand	140	1	3
β-strand	144-150	7	5
β-strand	153-154	2	5
β-strand	159-163	5	4
α-helix	164-167	4
β-strand	173-182	10	4
α-helix	183-186	4
β-strand	191-198	8	5
β-strand	205-210	6	5

Chain B: 5 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	6
β-strand	10-12	3	7
β-strand	17-25	9	6
α-helix	29-31	3
β-strand	34-39	6	7
β-strand	46-51	6	7
β-strand	58-60	3	7
β-strand	68-73	6	6
α-helix	74-76	3
β-strand	78-84	7	6
α-helix	88-90	3
β-strand	92-98	7	7
β-strand	111	1	7
β-strand	115-119	5	7
α-helix	123-124	2
β-strand	125	1	8
β-strand	128-132	5	9
β-strand	145-153	9	9
β-strand	154	1	8
β-strand	159-163	5	10
β-strand	169	1	10
β-strand	173-175	3	9
β-strand	179-181	3	9
β-strand	184-192	9	9
β-strand	206-211	6	10
β-strand	217-221	5	10
α-helix	222-223	2

Chain C: 6 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	11
β-strand	10-13	4	2
β-strand	19-25	7	11
β-strand	33-38	6	2
β-strand	45-49	5	2
β-strand	53-54	2	2
α-helix	55	1
β-strand	62-67	6	11
β-strand	70-75	6	11
α-helix	80-82	3
β-strand	85-90	6	2
β-strand	98	1	2
β-strand	102-106	5	2
β-strand	111	1	12
β-strand	114	1	13
β-strand	117-118	2	14
α-helix	119-121	3
α-helix	122-126	5
β-strand	129-139	11	14
β-strand	140	1	12
β-strand	145-150	6	15
β-strand	154	1	15
β-strand	159-160	2	14
β-strand	163	1	14
α-helix	165-167	3
β-strand	173-182	10	14
α-helix	183-186	4
β-strand	191-197	7	15
β-strand	205-210	6	15

Chain D: 4 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	16
β-strand	11-12	2	17
β-strand	18-25	8	16
α-helix	29-31	3
β-strand	34-39	6	18
β-strand	45-51	7	18
β-strand	58-60	3	18
β-strand	68-73	6	16
α-helix	74-76	3
β-strand	78-83	6	16
α-helix	88-90	3
β-strand	92-99	8	18
β-strand	108-111	4	18
β-strand	115-117	3	18
β-strand	118-119	2	17
β-strand	125	1	19
β-strand	128-132	5	20
β-strand	135	1	14
β-strand	145-153	9	20
β-strand	154	1	19
β-strand	159-163	5	21
β-strand	169	1	21
α-helix	176-178	3
β-strand	179-180	2	20
β-strand	185-192	8	20
β-strand	205-211	7	21
β-strand	217-222	6	21

Chain E: 2 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	821-828	8	2
β-strand	834-841	8	2
α-helix	843-861	19
β-strand	864-869	6	2
α-helix	870-872	3
β-strand	874-879	6	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Kappa light chain of ig	A, C	protein	214	HOMO SAPIENS	P01834 (AlphaFold model)
Heavy chain of ig	B, D	protein	224	HOMO SAPIENS	P01871 (AlphaFold model)
Protein L	E	protein	61	FINEGOLDIA MAGNA	Q51918 (AlphaFold model)

Sequence of entity 1 (A, C), FASTA

>1HEZ_1 KAPPA LIGHT CHAIN OF IG (chains A, C)
DIQMTQSPSSLSASVGDRVTITCRTSQSISSYLNWYQQKPGKAPKLLIYAASSLQSGVPS
RFSGSGSGTDFTLTISSLQPEDFATYYCQQSYSTPRTFGQGTKVEIKRTVAAPSVFIFPP
SDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLT
LSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Sequence of entity 2 (B, D), FASTA

>1HEZ_2 HEAVY CHAIN OF IG (chains B, D)
QVQLVESGGGVVQPGRSLRLSCAASGFTFSGYGMHWVRQAPGKGLEWVALISYDESNKYY
ADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKVKFYDPTAPNDYWGQGTLVTVS
SGSASAPTLFPLVSCENSNPSSTVAVGCLAQDFLPDSITFSWKYKNNSDISSTRGFPSVL
RGGKYAATSQVLLPSKDVAQGTNEHVVCKVQHPNGNKEKDVPLP

Sequence of entity 3 (E), FASTA

>1HEZ_3 PROTEIN L (chains E)
EVTIKVNLIFADGKIQTAEFKGTFEEATAEAYRYADLLAKVNGEYTADLEDGGNHMNIKF
A

Primary citation

Complex between Peptostreptococcus Magnus Protein L and a Human Antibody Reveals Structural Convergence in the Interaction Modes of Fab Binding Modes. Graille, M., Stura, E.A., Housden, N.G. et al. Structure (2001) 9:679. DOI 10.1016/S0969-2126(01)00630-X · PubMed

Other PDB entries of the same protein (UniProt P01834 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5EWI 1.6 Å, Crystal Structure of the Human Fab VRC38.01, an HIV-1 V1V2-Directed Neutralizing…
1NGZ 1.6 Å, Chimeric Germline Fab 7g12-apo
6N35 1.75 Å, Anti-HIV-1 Fab 2G12 + Man1-2 re-refinement
4XMP 1.78 Å, Crystal structure of broadly and potently neutralizing antibody VRC08 in complex with…
1N0X 1.8 Å, Crystal Structure of a Broadly Neutralizing Anti-HIV-1 Antibody in Complex with a…
3VH8 1.8 Å, KIR3DL1 in complex with HLA-B*5701
3X12 1.8 Å, Crystal structure of HLA-B*57:01.I80N
6B9Z 1.82 Å, Trastuzumab Fab v3
2VXQ 1.9 Å, Crystal structure of the major grass pollen allergen Phl p 2 in complex with its…
3D85 1.9 Å, Crystal structure of IL-23 in complex with neutralizing FAB
6BAH 1.9 Å, Trastuzumab Fab v3 with 5-diphenyl meditope variant
6DCV 1.9 Å, Crystal structure of human anti-tau antibody CBTAU-27.1

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