4Z7W: T316 complex

T316 complex. Determined by X-ray diffraction at 2.89 Å resolution. Released 3 Jun 2015.

Method: X-ray diffraction
Resolution: 2.89 Å
Organisms: Homo sapiens, Triticum aestivum
Chains: 10
Atoms: 12,983
Mol. weight: 199.55 kDa
Ligands: NAG
Released: 3 Jun 2015

Explore 4Z7W in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4Z7W contains 49 α-helices and 143 β-strands across 10 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.

Chains A and C: 3 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	5-14	11	1
β-strand	19-26	8	1
β-strand	29-35	7	1
β-strand	40-43	4	1
α-helix	46-51	6
β-strand	53	1	2
α-helix	57-77	21
α-helix	81-84	4
β-strand	88-93	6	3
β-strand	103-112	10	3
β-strand	118-123	6	4
β-strand	126-128	3	4
β-strand	132-134	3	3
β-strand	138-139	2	3
β-strand	145-153	9	3
β-strand	161-166	6	4
β-strand	174-178	5	4

Chain B: 5 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	8-18	11	1
β-strand	23-32	10	1
β-strand	35-41	7	1
β-strand	47-49	3	1
α-helix	55-63	9
α-helix	65-74	10
α-helix	75-79	5
α-helix	80-88	9
β-strand	95	1	5
β-strand	98-103	6	6
β-strand	114-122	9	6
β-strand	123	1	5
β-strand	128-133	6	7
β-strand	138	1	7
β-strand	142-144	3	6
α-helix	145-146	2
β-strand	148-149	2	6
β-strand	155-162	8	6
β-strand	171-176	6	7
β-strand	184-188	5	7

Chain D: 6 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	8-18	11	8
β-strand	23-32	10	8
β-strand	35-41	7	8
β-strand	47-49	3	8
α-helix	55-63	9
α-helix	65-72	8
α-helix	74	1
α-helix	75-79	5
α-helix	80-88	9
β-strand	95	1	12
β-strand	98-103	6	13
β-strand	114-122	9	13
β-strand	123	1	12
β-strand	128-133	6	14
β-strand	138	1	14
β-strand	142-144	3	13
α-helix	145-146	2
β-strand	148-149	2	13
β-strand	155-162	8	13
β-strand	171-176	6	14
β-strand	184-188	5	14

Chain E: 7 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	4-5	2	15
β-strand	10-14	5	16
β-strand	19-21	3	15
β-strand	24-25	2	15
β-strand	37-44	8	16
β-strand	50-56	7	16
β-strand	64-66	3	15
α-helix	68-75	3
β-strand	77-81	5	15
β-strand	86-91	6	15
α-helix	96-98	3
β-strand	101-108	8	16
β-strand	113-118	6	16
β-strand	122-127	6	16
α-helix	128-129	2
β-strand	136-139	4	17
α-helix	140	1
β-strand	141	1	18
α-helix	142-143	2
β-strand	151-154	4	17
α-helix	162-165	4
β-strand	171-173	3	17
β-strand	177-178	2	19
α-helix	179	1
β-strand	190-193	4	17
β-strand	214	1	17

Chain F: 8 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	20
β-strand	10-14	5	21
β-strand	19-25	7	20
β-strand	38-45	8	21
β-strand	49-56	8	21
β-strand	67-68	2	21
β-strand	77-79	3	20
β-strand	86-91	6	20
α-helix	96-98	3
β-strand	101-107	7	21
α-helix	116	1
β-strand	117-118	2	21
β-strand	122-127	6	21
β-strand	134	1	22
β-strand	137-141	5	19
β-strand	142	1	18
α-helix	143-144	2
α-helix	145-150	6
β-strand	153-163	11	19
β-strand	164	1	22
β-strand	168-174	7	23
β-strand	177-179	3	23
β-strand	183-185	3	19
α-helix	189	1
β-strand	190-191	2	19
α-helix	199-200	2
β-strand	201-210	10	19
α-helix	211-215	5
β-strand	220-227	8	23
β-strand	230	1	24
α-helix	241-242	2
β-strand	244	1	24
β-strand	247-253	7	23

Chain G: 4 helices, 16 β-strands

Element	Residues	Length	Sheet
β-strand	4-5	2	25
β-strand	10-14	5	26
β-strand	19-21	3	25
β-strand	24-25	2	25
β-strand	37-44	8	26
β-strand	50-56	7	26
β-strand	64-66	3	25
α-helix	68-75	3
β-strand	77-81	5	25
β-strand	86-91	6	25
α-helix	96-98	3
β-strand	101-108	8	26
β-strand	113-118	6	26
β-strand	122-127	6	26
α-helix	128-129	2
β-strand	136-139	4	27
β-strand	149-154	6	27
α-helix	162-165	4
β-strand	171-173	3	27
β-strand	189-194	6	27

Chain H: 8 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	28
β-strand	10-14	5	29
β-strand	19-25	7	28
β-strand	38-45	8	29
β-strand	49-56	8	29
β-strand	67-68	2	29
β-strand	77-79	3	28
β-strand	86-91	6	28
α-helix	96-98	3
β-strand	101-107	7	29
α-helix	115-116	2
β-strand	117-118	2	29
β-strand	122-127	6	29
β-strand	134	1	30
α-helix	135-137	3
β-strand	139	1	31
α-helix	140-142	3
α-helix	145-150	6
β-strand	153-163	11	31
β-strand	164	1	30
β-strand	168-174	7	32
β-strand	177-179	3	32
β-strand	183-185	3	31
α-helix	199-200	2
β-strand	201-210	10	31
α-helix	211-215	5
β-strand	220-227	8	32
β-strand	230	1	33
α-helix	241-242	2
β-strand	244	1	33
β-strand	248-253	6	32

Chain I: 2 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	2	1	9
α-helix	3-4	2
α-helix	6-12	7

1 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
MHC class II HLA-DQ-alpha chain	A, C	protein	192	Homo sapiens	Q30069 (AlphaFold model)
MHC class II HLA-DQ-beta-1	B, D	protein	213	Homo sapiens	P01920 (AlphaFold model)
T-cell receptor, T316 alpha chain	E, G	protein	206	Homo sapiens	P01848 (AlphaFold model)
T-cell receptor, T316 beta chain	F, H	protein	241	Homo sapiens	P01850 (AlphaFold model)
DQ8-glia-alpha1	I, J	protein	18	Triticum aestivum	P18573

Sequence of entity 1 (A, C), FASTA

>4Z7W_1 MHC class II HLA-DQ-alpha chain (chains A, C)
EDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQ
FALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVV
NITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSADEIYDCKVEHWGLDEPLLKH
WEPETSGDDDDK

Sequence of entity 2 (B, D), FASTA

>4Z7W_2 MHC class II HLA-DQ-beta-1 (chains B, D)
GGSIEGRGGSGASRDSPEDFVYQFKGMCYFTNGTERVRLVTRYIYNREEYARFDSDVGVY
RAVTPLGPPAAEYWNSQKEVLERTRAELDTVCRHNYQLELRTTLQRRVEPTVTISPSRTE
ALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETTGVVSTPLIRNGDWTFQILVMLEMTPQR
GDVYTCHVEHPSLQNPIIVEWRAQSTGGDDDDK

Sequence of entity 3 (E, G), FASTA

>4Z7W_3 T-CELL RECEPTOR, T316 ALPHA CHAIN (chains E, G)
QSVTQPDIHITVSEGASLELRCNYSYGATPYLFWYVQSPGQGLQLLLKYFSGDTLVQGIK
GFEAEFKRSQSSFNLRKPSVHWSDAAEYFCAVGETGANNLFFGTGTRLTVIPYIQNPDPA
VYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNK
SDFACANAFNNSIIPEDTFFPSPESS

Sequence of entity 4 (F, H), FASTA

>4Z7W_4 T-CELL RECEPTOR, T316 BETA CHAIN (chains F, H)
GVTQTPKFQVLKTGQSMTLQCAQDMNHNSMYWYRQDPGMGLRLIYYSASEGTTDKGEVPN
GYNVSRLNKREFSLRLESAAPSQTSVYFCASSEARRYNEQFFGPGTRLTVLEDLKNVFPP
EVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPAL
NDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRA
D

Sequence of entity 5 (I, J), FASTA

>4Z7W_5 DQ8-glia-alpha1 (chains I, J)
APSGEGSFQPSQENPQGS

Ligands and cofactors

ID	Name	Formula	Copies
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	C8 H15 N O6	2

Water and common crystallization additives (SO4) are not listed.

Primary citation

Determinants of Gliadin-Specific T Cell Selection in Celiac Disease. Petersen, J., van Bergen, J., Loh, K.L. et al. J Immunol (2015) 194:6112-6122. DOI 10.4049/jimmunol.1500161 · PubMed

Other PDB entries of the same protein (UniProt Q30069 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6DFX 2.03 Å, human diabetogenic TCR T1D3 in complex with DQ8-p8E9E peptide
6XC9 2.4 Å, Immune receptor complex
8VD0 2.4 Å, Human TCR ET650-4 in complex with DQ8-InsC8-15-IAPP2
5KS9 2.55 Å, Bel502-DQ8-glia-alpha1 complex
8VCX 2.59 Å, Human TCR A2.13 in complex with DQ8-InsCpep
8VCY 2.6 Å, Human TCR A2.13 in complex with DQ8-InsC8-15NPY
8VDD 2.6 Å, Crystal structure of Proinsulin C-peptide bound to HLA-DQ8
4Z7V 2.65 Å, L3-12 complex
4Z7U 2.7 Å, S13 complex
6XCO 2.9 Å, Immune receptor complex
8VD2 2.9 Å, Human TCR ET650-4 in complex with DQ8-InsC8-15-IAPP1
6XCP 3.3 Å, Immune receptor complex

Browse structure collections

About this viewer

MolViewer shows 4Z7W 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.