6BJ2: TCR589

TCR589 in complex with HIV(Pol448-456)/HLA-B35. Determined by X-ray diffraction at 3.35 Å resolution. Released 25 Jul 2018.

Method: X-ray diffraction
Resolution: 3.35 Å
Organisms: Homo sapiens, Human immunodeficiency virus 1
Chains: 5
Atoms: 6,445
Mol. weight: 96.02 kDa
Ligands: NAG, ZN
Released: 25 Jul 2018

Explore 6BJ2 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6BJ2 contains 16 α-helices and 73 β-strands across 4 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: 6 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	5-12	8	10
β-strand	21-28	8	10
β-strand	31-37	7	10
β-strand	46-47	2	10
α-helix	57-84	28
β-strand	94-103	10	10
β-strand	109-118	10	10
β-strand	121-126	6	10
β-strand	133-135	3	10
α-helix	138-150	13
α-helix	152-160	9
α-helix	163-174	12
α-helix	176-179	4
β-strand	183	1	11
β-strand	186-193	8	12
β-strand	198-208	11	12
β-strand	209	1	11
β-strand	214-219	6	13
β-strand	222-223	2	13
β-strand	229	1	12
β-strand	234-235	2	12
β-strand	241-250	10	12
α-helix	254-256	3
β-strand	257-262	6	13
β-strand	270-272	3	13

Chain B: 3 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	14
α-helix	4-5	2
β-strand	6-11	6	15
β-strand	21-30	10	15
β-strand	31	1	14
β-strand	36-41	6	16
β-strand	44-45	2	16
α-helix	46	1
β-strand	50-51	2	15
β-strand	55-56	2	15
β-strand	62-70	9	15
β-strand	78-83	6	16
α-helix	90	1
β-strand	91-94	4	16

Chain D: 2 helices, 20 β-strands

Element	Residues	Length	Sheet
β-strand	2-4	3	1
β-strand	9-13	5	2
β-strand	18-20	3	3
β-strand	23-25	3	1
β-strand	32-38	7	2
β-strand	45-51	7	2
β-strand	56-58A	4	3
β-strand	61-64	4	3
β-strand	66	1	1
β-strand	71	1	1
β-strand	74-76	3	3
α-helix	81-83	3
β-strand	86-94	9	2
β-strand	100-102	3	2
β-strand	108-113	6	2
β-strand	122-128	7	4
β-strand	135-140	6	4
β-strand	157-158	2	4
β-strand	163-164	2	4
β-strand	175-179	5	4
α-helix	188-190	3
β-strand	201	1	4

Chain E: 5 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	5-7	3	5
β-strand	10-14	5	6
β-strand	19-24	6	5
β-strand	31-37	7	6
β-strand	43-50	8	6
β-strand	53-56	4	6
β-strand	64	1	5
β-strand	67-68	2	5
β-strand	73-78	6	5
α-helix	83-85	3
β-strand	88-94	7	6
β-strand	107-112	6	6
β-strand	119	1	7
β-strand	122-127	6	4
α-helix	128-129	2
α-helix	130-136	7
β-strand	138-148	11	4
β-strand	149	1	7
β-strand	153-159	7	8
β-strand	162-164	3	8
β-strand	168-170	3	4
β-strand	186-195	10	4
α-helix	196-199	4
β-strand	205-212	8	8
β-strand	215	1	9
α-helix	226-227	2
β-strand	229	1	9
β-strand	231-238	8	8

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
TCR 589 alpha chain	D	protein	206	Homo sapiens	Q6IRV4 (AlphaFold model)
TCR 589 beta chain	E	protein	241	Homo sapiens	K7N5M4 (AlphaFold model)
HLA class I histocompatibility antigen, B-35 alpha chain	A	protein	276	Homo sapiens	P01889 (AlphaFold model)
Beta-2-microglobulin	B	protein	99	Homo sapiens	P61769 (AlphaFold model)
HIV Pol B35 peptide	C	protein	9	Human immunodeficiency virus 1	P04585

Sequence of entity 1 (D), FASTA

>6BJ2_1 TCR 589 alpha chain (chains D)
QKVTQAQTEISVVEKEDVTLDCVYETRDTTYYLFWYKQPPSGELVFLIRRNSFDEQNEIS
GRYSWNFQKSTSSFNFTITASQVVDSAVYFCALSHNSGGSNYKLTFGKGTLLTVNPNIQN
PDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKTVLDMRSMDFKSNSAVA
WSNKSDFACANAFNNSIIPEDTFFPS

Sequence of entity 2 (E), FASTA

>6BJ2_2 TCR 589 beta chain (chains E)
AGVTQSPTHLIKTRGQQVTLRCSSQSGHNTVSWYQQALGQGPQFIFQYYREEENGRGNFP
PRFSGLQFPNYSSELNVNALELDDSALYLCASSFRGGKTQYFGPGTRLLVLEDLKNVFPP
EVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPAL
NDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRA
D

Sequence of entity 3 (A), FASTA

>6BJ2_3 HLA class I histocompatibility antigen, B-35 alpha chain (chains A)
GSHSMRYFYTAMSRPGRGEPRFIAVGYVDDTQFVRFDSDAASPRTEPRAPWIEQEGPEYW
DRNTQIFKTNTQTYRESLRNLRGYYNQSEAGSHIIQRMYGCDLGPDGRLLRGHDQSAYDG
KDYIALNEDLSSWTAADTAAQITQRKWEAARVAEQLRAYLEGLCVEWLRRYLENGKETLQ
RADPPKTHVTHHPVSDHEATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDRT
FQKWAAVVVPSGEEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 4 (B), FASTA

>6BJ2_4 Beta-2-microglobulin (chains B)
IQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDW
SFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 5 (C), FASTA

>6BJ2_5 HIV Pol B35 peptide (chains C)
IPLTEEAEL

Ligands and cofactors

ID	Name	Formula	Copies
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	C8 H15 N O6	1
ZN	Zinc ion	Zn	3

Primary citation

Isolation of a Structural Mechanism for Uncoupling T Cell Receptor Signaling from Peptide-MHC Binding. Sibener, L.V., Fernandes, R.A., Kolawole, E.M. et al. Cell (2018) 174:672-687.e27. DOI 10.1016/j.cell.2018.06.017 · PubMed

Other PDB entries of the same protein (UniProt Q6IRV4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6BJ8 1.75 Å, TCR55 in complex with Pep20/HLA-B35
6BJ3 1.9 Å, TCR55 in complex with HIV(Pol448-456)/HLA-B35

Browse structure collections

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