Details for 2ial

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Structure information

Structural Basis For Recognition of Mutant Self By a Tumor-Specific, MHC Class Ii-Restricted TCR

Item	Info
PDB	2ial
Organism	HOMO SAPIENS
Method	X-RAY DIFFRACTION
Resolution	1.92Å
Number of TCRs	2

Paired chains information

This PDB has 2 TCR(s).

B / A

TCR Details:

Item	Info
VB chain	B
VA chain	A
VB IMGT details	TRBV6/TRBJ1
VA IMGT details	TRAV22/TRAJ54
Species	human

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
N	A	G	V	T	Q	T	P
B9	B10	B11	B12	B13	B14	B15	B16
K	F	R	I	L	K	I	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	S	M	T	L	Q	C	T
B25	B26	B27	B28	B29	B37	B38	B39
Q	D	M	N	H	N	Y	M
B40	B41	B42	B43	B44	B45	B46	B47
Y	W	Y	R	Q	D	P	G
B48	B49	B50	B51	B52	B53	B54	B55
M	G	L	K	L	I	Y	Y
B56	B57	B58	B63	B64	B65	B66	B67
S	V	G	A	G	I	T	D
B68	B69	B70	B71	B72	B74	B75	B76
K	G	E	V	P	N	G	Y
B77	B78	B79	B80	B81	B83	B84	B85
N	V	S	R	S	T	T	E
B86	B87	B88	B89	B90	B91	B92	B93
D	F	P	L	R	L	E	L
B94	B95	B96	B97	B98	B99	B100	B101
A	A	P	S	Q	T	S	V
B102	B103	B104	B105	B106	B107	B108	B109
Y	F	C	A	S	T	Y	H
B114	B115	B116	B117	B118	B119	B120	B121
G	T	G	Y	F	G	E	G
B122	B123	B124	B125	B126	B127
S	W	L	T	V	V

FASTA file

A2	A3	A4	A5	A6	A7	A8	A9
I	Q	V	E	Q	S	P	P
A10	A11	A12	A13	A14	A15	A16	A17
D	L	I	L	Q	E	G	A
A18	A19	A20	A21	A22	A23	A24	A25
N	S	T	L	R	C	N	F
A26	A27	A28	A29	A37	A38	A39	A40
S	D	S	V	N	N	L	Q
A41	A42	A43	A44	A45	A46	A47	A48
W	F	H	Q	N	P	W	G
A49	A50	A51	A52	A53	A54	A55	A56
Q	L	I	N	L	F	Y	I
A57	A58	A64	A65	A66	A67	A68	A74
P	S	G	T	K	Q	N	G
A75	A76	A77	A78	A79	A80	A81	A82
R	L	S	A	T	T	V	A
A83	A84	A85	A86	A87	A88	A89	A90
T	E	R	Y	S	L	L	Y
A91	A92	A93	A94	A95	A96	A97	A98
I	S	S	S	Q	T	T	D
A99	A100	A101	A102	A103	A104	A105	A106
S	G	V	Y	F	C	A	A
A107	A108	A109	A110	A113	A114	A115	A116
L	I	Q	G	A	Q	K	L
A117	A118	A119	A120	A121	A122	A123	A124
V	F	G	Q	G	T	R	L
A125	A126	A127	A128
T	I	N	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASTYHGTGY	None	9
CDRB2	SVGAGI	None	6
CDRB1	MNHNY	None	5
CDRA3	AALIQGAQKLV	A3-11-B	11
CDRA2	IPSGT	None	5
CDRA1	DSVNN	A1-5-B	5

Orientation and docking angles:

Angle	Value
BC2	104.51°
BC1	67.15°
BA	-56.72°
AC2	80.26°
AC1	124.94°
dc	16.49Å

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
4c56_HG	103.95°	67.01°	-55.96°	83.39°	124.61°	16.20Å	3.3
6rpb_TS	103.90°	70.20°	-55.75°	81.00°	125.38°	17.10Å	3.4
6rpb_ON	103.91°	70.36°	-56.96°	80.73°	124.65°	17.02Å	3.4
7s8i_BA	105.41°	67.18°	-57.84°	77.35°	123.35°	16.85Å	3.6
5iw1_BA	104.32°	70.27°	-57.91°	80.58°	126.27°	17.21Å	3.7

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
1cfq_BA	106.86°	67.47°	-56.63°	80.83°	119.58°	16.37Å	5.9
3mnw_BA	107.15°	71.13°	-53.34°	82.80°	121.51°	16.47Å	7.2
3mnz_BA	108.41°	71.26°	-53.27°	82.05°	121.70°	16.38Å	7.6
1um6_HL	111.59°	67.20°	-56.52°	82.86°	123.75°	16.13Å	7.6
3bgf_BC	109.96°	71.90°	-55.10°	81.62°	123.51°	15.76Å	7.7

D / C

TCR Details:

Item	Info
VB chain	D
VA chain	C
VB IMGT details	TRBV6/TRBJ1
VA IMGT details	TRAV22/TRAJ54
Species	human

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B1	B2	B3	B4	B5	B6	B7	B8
N	A	G	V	T	Q	T	P
B9	B10	B11	B12	B13	B14	B15	B16
K	F	R	I	L	K	I	G
B17	B18	B19	B20	B21	B22	B23	B24
Q	S	M	T	L	Q	C	T
B25	B26	B27	B28	B29	B37	B38	B39
Q	D	M	N	H	N	Y	M
B40	B41	B42	B43	B44	B45	B46	B47
Y	W	Y	R	Q	D	P	G
B48	B49	B50	B51	B52	B53	B54	B55
M	G	L	K	L	I	Y	Y
B56	B57	B58	B63	B64	B65	B66	B67
S	V	G	A	G	I	T	D
B68	B69	B70	B71	B72	B74	B75	B76
K	G	E	V	P	N	G	Y
B77	B78	B79	B80	B81	B83	B84	B85
N	V	S	R	S	T	T	E
B86	B87	B88	B89	B90	B91	B92	B93
D	F	P	L	R	L	E	L
B94	B95	B96	B97	B98	B99	B100	B101
A	A	P	S	Q	T	S	V
B102	B103	B104	B105	B106	B107	B108	B109
Y	F	C	A	S	T	Y	H
B114	B115	B116	B117	B118	B119	B120	B121
G	T	G	Y	F	G	E	G
B122	B123	B124	B125	B126	B127
S	W	L	T	V	V

FASTA file

A2	A3	A4	A5	A6	A7	A8	A9
I	Q	V	E	Q	S	P	P
A10	A11	A12	A13	A14	A15	A16	A17
D	L	I	L	Q	E	G	A
A18	A19	A20	A21	A22	A23	A24	A25
N	S	T	L	R	C	N	F
A26	A27	A28	A29	A37	A38	A39	A40
S	D	S	V	N	N	L	Q
A41	A42	A43	A44	A45	A46	A47	A48
W	F	H	Q	N	P	W	G
A49	A50	A51	A52	A53	A54	A55	A56
Q	L	I	N	L	F	Y	I
A57	A58	A64	A65	A66	A67	A68	A74
P	S	G	T	K	Q	N	G
A75	A76	A77	A78	A79	A80	A81	A82
R	L	S	A	T	T	V	A
A83	A84	A85	A86	A87	A88	A89	A90
T	E	R	Y	S	L	L	Y
A91	A92	A93	A94	A95	A96	A97	A98
I	S	S	S	Q	T	T	D
A99	A100	A101	A102	A103	A104	A105	A106
S	G	V	Y	F	C	A	A
A107	A108	A109	A110	A113	A114	A115	A116
L	I	Q	G	A	Q	K	L
A117	A118	A119	A120	A121	A122	A123	A124
V	F	G	Q	G	T	R	L
A125	A126	A127	A128
T	I	N	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASTYHGTGY	None	9
CDRB2	SVGAGI	None	6
CDRB1	MNHNY	None	5
CDRA3	AALIQGAQKLV	A3-11-B	11
CDRA2	IPSGT	None	5
CDRA1	DSVNN	A1-5-B	5

Orientation and docking angles:

Angle	Value
BC2	105.06°
BC1	67.49°
BA	-56.65°
AC2	76.31°
AC1	125.24°
dc	16.47Å

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
7s8i_BA	105.41°	67.18°	-57.84°	77.35°	123.35°	16.85Å	2.5
5isz_ED	103.79°	67.87°	-58.06°	77.25°	126.90°	17.65Å	3.0
6mtm_ED	103.55°	66.89°	-53.84°	76.88°	125.84°	16.36Å	3.4
6c09_DC	104.72°	69.41°	-59.07°	75.75°	126.51°	16.63Å	3.4
7q9b_ED	106.42°	70.13°	-55.86°	77.50°	122.50°	16.18Å	4.3

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
1cfq_BA	106.86°	67.47°	-56.63°	80.83°	119.58°	16.37Å	7.5
3bgf_BC	109.96°	71.90°	-55.10°	81.62°	123.51°	15.76Å	8.8
4yfl_HL	109.78°	73.75°	-56.79°	79.59°	122.71°	16.13Å	8.9
1fj1_DC	109.78°	71.11°	-51.69°	80.11°	123.02°	16.12Å	8.9
3mnz_BA	108.41°	71.26°	-53.27°	82.05°	121.70°	16.38Å	9.1

Available downloads

Additional links and files for download: see help for more details.

Item	Link
IMGT-numbered structure	Link
Non-annotated structure from the PDB	Link
Summary file for this TCR	Link
Link in the PDB	Link