1ZGL: 3A6 TCR

Crystal structure of 3A6 TCR bound to MBP/HLA-DR2a. Determined by X-ray diffraction at 2.8 Å resolution. Released 18 Oct 2005.

Method: X-ray diffraction
Resolution: 2.8 Å
Organism: Homo sapiens
Chains: 20
Atoms: 23,456
Mol. weight: 383.73 kDa
Released: 18 Oct 2005

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

Secondary structure: helices and β-sheets

1ZGL contains 57 α-helices and 295 β-strands across 19 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: 3 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	5-15	11	1
β-strand	19-26	8	1
β-strand	29-35	7	1
β-strand	40-43	4	1
α-helix	48-50	3
β-strand	53-54	2	2
α-helix	59-76	18
α-helix	80-82	3
β-strand	85	1	3
β-strand	88-93	6	4
β-strand	103-112	10	4
β-strand	113	1	3
β-strand	118-122	5	5
β-strand	127-128	2	5
β-strand	133-134	2	4
β-strand	145-153	9	4
β-strand	161-166	6	5
β-strand	174-178	5	5

Chain B: 7 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	7-18	12	1
β-strand	23-32	10	1
β-strand	35-41	7	1
α-helix	42-44	3
β-strand	47-49	3	1
α-helix	52-54	3
α-helix	55-62	8
α-helix	67-72	6
α-helix	74	1
α-helix	75-80	6
α-helix	81-87	7
β-strand	95	1	6
β-strand	100-102	3	7
β-strand	116-120	5	7
β-strand	123	1	6
β-strand	128-130	3	8
β-strand	144	1	7
β-strand	148-149	2	7
β-strand	155-160	6	7
β-strand	172-176	5	8
β-strand	184-187	4	8

Chain C: 1 helix, 1 β-strand

Element	Residues	Length	Sheet
β-strand	3-4	2	2
α-helix	5	1

Chain D: 2 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	5-15	11	22
β-strand	19-26	8	22
β-strand	29-35	7	22
β-strand	40-43	4	22
α-helix	46-50	5
β-strand	53	1	23
α-helix	59-77	19
β-strand	85	1	24
β-strand	88-93	6	25
β-strand	103-112	10	25
β-strand	113	1	24
β-strand	118-123	6	26
β-strand	126-127	2	26
β-strand	133-139	7	25
β-strand	145-153	9	25
β-strand	161-166	6	26
β-strand	174-178	5	26

Chain E: 7 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	7-18	12	22
β-strand	23-32	10	22
β-strand	35-41	7	22
α-helix	42-44	3
β-strand	46-48	3	22
α-helix	55-61	7
α-helix	67-72	6
α-helix	74	1
α-helix	75-80	6
α-helix	81-87	7
β-strand	95	1	27
α-helix	96-97	2
β-strand	100-102	3	28
β-strand	115-122	8	28
β-strand	123	1	27
β-strand	129-130	2	29
β-strand	144	1	28
β-strand	148-149	2	28
β-strand	155-161	7	28
β-strand	171-172	2	30
β-strand	174-175	2	29
β-strand	184	1	29
β-strand	187-188	2	30

Chain F: 0 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	3	1	23

Chain G: 3 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	5-15	11	44
β-strand	19-26	8	44
β-strand	29-34	6	44
β-strand	41-43	3	44
α-helix	46-50	5
α-helix	59-76	18
β-strand	85	1	45
α-helix	86-87	2
β-strand	88-93	6	46
β-strand	103-112	10	46
β-strand	113	1	45
β-strand	118-123	6	47
β-strand	126-128	3	47
β-strand	133-134	2	46
β-strand	138-139	2	46
β-strand	145-153	9	46
β-strand	161-166	6	47
β-strand	174	1	47
β-strand	177-178	2	47

Chain H: 7 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	7-18	12	44
β-strand	23-32	10	44
β-strand	35-41	7	44
α-helix	42-44	3
β-strand	46-48	3	44
α-helix	52-54	3
α-helix	55-61	7
α-helix	66-72	7
α-helix	74	1
α-helix	75-80	6
α-helix	81-87	7
β-strand	95	1	48
β-strand	99-103	5	49
β-strand	115-122	8	49
β-strand	123	1	48
β-strand	128-131	4	50
β-strand	148-149	2	49
β-strand	155-161	7	49
β-strand	173-176	4	50
β-strand	184	1	50

11 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
HLA class II histocompatibility antigen, DR alpha chain	A, D, G, J	protein	181	Homo sapiens	P01903 (AlphaFold model)
major histocompatibility complex, class II, DR beta 5	B, E, H, K	protein	192	Homo sapiens	Q30154 (AlphaFold model)
Myelin basic protein	C, F, I, L	protein	15	Homo sapiens	P02686 (AlphaFold model)
T cell receptor alpha chain	M, Q, S, U	protein	209	Homo sapiens	P01848 (AlphaFold model)
T cell receptor beta chain	P, R, T, V	protein	249	Homo sapiens	P01850

Sequence of entity 1 (A, D, G, J), FASTA

>1ZGL_1 HLA class II histocompatibility antigen, DR alpha chain (chains A, D, G, J)
IKEEHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGAL
ANIAVDKANLEIMTKRSNYTPITNVPPEVTVLTNSPVELREPNVLICFIDKFTPPVVNVT
WLRNGKPVTTGVSETVFLPREDHLFRKFHYLPFLPSTEDVYDCRVEHWGLDEPLLKHWEF
D

Sequence of entity 2 (B, E, H, K), FASTA

>1ZGL_2 major histocompatibility complex, class II, DR beta 5 (chains B, E, H, K)
GDTRPRFLQQDKYECHFFNGTERVRFLHRDIYNQEEDLRFDSDVGEYRAVTELGRPDAEY
WNSQKDFLEDRRAAVDTYCRHNYGVGESFTVQRRVEPKVTVYPARTQTLQHHNLLVCSVN
GFYPGSIEVRWFRNSQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSV
TSPLTVEWRAQS

Sequence of entity 3 (C, F, I, L), FASTA

>1ZGL_3 Myelin basic protein (chains C, F, I, L)
VHFFKNIVTPRTPGG

Sequence of entity 4 (M, Q, S, U), FASTA

>1ZGL_4 T cell receptor alpha chain (chains M, Q, S, U)
GDSVTQMEGPVTLSEEAFLTINCTYTATGYPSLFWYVQYPGEGLQLLLKATKADDKGSNK
GFEATYRKETTSFHLEKGSVQVSDSAVYFCALSGGDSSYKLIFGSGTRLLVRPDIQNPDP
AVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKTVLDMRSMDFKSNSAVAWSN
KSDFACANAFNNSIIPEDTFFPSPESSCA

Sequence of entity 5 (P, R, T, V), FASTA

>1ZGL_5 T cell receptor beta chain (chains P, R, T, V)
GGGGGVTQTPRYLIKTRGQQVTLSCSPISGHRSVSWYQQTPGQGLQFLFEYFNETQRNKG
NFPGRFSGRQFSNSRSEMNVSTLELGDSALYLCASSLADRVNTEAFFGQGTRLTVVEDLK
NVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVSTDPQPLK
EQPALNDSRYSLSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAE
AWGRADCAA

Primary citation

Structure of a human autoimmune TCR bound to a myelin basic protein self-peptide and a multiple sclerosis-associated MHC class II molecule. Li, Y., Huang, Y., Lue, J. et al. EMBO J (2005) 24:2968-2979. DOI 10.1038/sj.emboj.7600771 · PubMed

Other PDB entries of the same protein (UniProt P01903 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5NI9 1.33 Å, Crystal structure of HLA-DRB1*04:01 with the alpha-enolase peptide 326-340
4X5W 1.34 Å, HLA-DR1 with CLIP102-120(M107W)
5NIG 1.35 Å, Crystal structure of HLA-DRB1*04:01 with modified alpha-enolase peptide 326-340…
8CMC 1.42 Å, Human Leukocyte Antigen class II allotype DR1 presenting SARS-CoV-2 Spike peptide S511-530
8PJF 1.48 Å, Human Leukocyte Antigen class II allotype DR1 presenting P11T->R modified influenza A…
6QZC 1.64 Å, HLA-DR1 with the QAR Peptide
8CMG 1.64 Å, Human Leukocyte Antigen class II allotype DR1 presenting SARS-CoV-2 nsp14 peptide…
8CMH 1.64 Å, Human Leukocyte Antigen class II allotype DR1 presenting SARS-CoV-2 Omicron (BA.1) Spike…
4MD5 1.65 Å, Immune Receptor
4MDJ 1.7 Å, Immune Receptor
8PJE 1.7 Å, Human Leukocyte Antigen class II allotype DR1 presenting influenza A virus…
7YX9 1.76 Å, MHC-II dynamics are maintained in HLA-DR allotypes to ensure catalyzed peptide exchange

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