Details for 3dx9

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Structure information

Crystal Structure of the Dm1 TCR at 2.75a

Item	Info
PDB	3dx9
Organism	HOMO SAPIENS
Method	X-RAY DIFFRACTION
Resolution	2.75Å
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	TRBV7/TRBJ2
VA IMGT details	TRAV26/TRAJ13
Species	human

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B2	B3	B4	B5	B6	B7	B8	B9
T	G	V	S	Q	N	P	R
B10	B11	B12	B13	B14	B15	B16	B17
H	K	I	T	K	R	G	Q
B18	B19	B20	B21	B22	B23	B24	B25
N	V	T	F	R	C	D	P
B26	B27	B28	B29	B37	B38	B39	B40
I	S	E	H	N	R	L	Y
B41	B42	B43	B44	B45	B46	B47	B48
W	Y	R	Q	T	L	G	Q
B49	B50	B51	B52	B53	B54	B55	B56
G	P	E	F	L	T	Y	F
B57	B58	B63	B64	B65	B66	B67	B68
Q	N	E	A	Q	L	E	K
B69	B70	B71	B72	B73	B74	B75	B76
S	R	L	L	S	D	R	F
B77	B78	B79	B80	B81	B83	B84	B85
S	A	E	R	P	K	G	S
B86	B87	B88	B89	B90	B91	B92	B93
F	S	T	L	E	I	Q	R
B94	B95	B96	B97	B98	B99	B100	B101
T	E	Q	G	D	S	A	M
B102	B103	B104	B105	B106	B107	B108	B109
Y	L	C	A	S	R	Y	R
B110	B111	B112	B113	B114	B115	B116	B117
D	D	S	Y	N	E	Q	F
B118	B119	B120	B121	B122	B123	B124	B125
F	G	P	G	T	R	L	T
B126	B127
V	L

FASTA file

A2	A3	A4	A5	A6	A8	A9	A10
A	K	T	T	Q	P	T	S
A11	A12	A13	A14	A15	A16	A17	A18
M	D	C	A	E	G	R	A
A19	A20	A21	A22	A23	A24	A25	A26
A	N	L	P	C	N	H	S
A27	A28	A29	A30	A36	A37	A38	A39
T	I	S	G	N	E	Y	V
A40	A41	A42	A43	A44	A45	A46	A47
Y	W	Y	R	Q	I	H	S
A48	A49	A50	A51	A52	A53	A54	A55
Q	G	P	Q	Y	I	I	H
A56	A57	A58	A64	A65	A66	A67	A68
G	L	K	N	N	E	T	N
A74	A75	A76	A77	A78	A79	A80	A81
E	M	A	S	L	I	I	T
A82	A83	A84	A85	A86	A87	A88	A89
E	D	R	K	S	S	T	L
A90	A91	A92	A93	A94	A95	A96	A97
I	L	P	H	A	T	L	R
A98	A99	A100	A101	A102	A103	A104	A105
D	T	A	V	Y	Y	C	I
A106	A107	A108	A109	A113	A114	A115	A116
V	W	G	G	Y	Q	K	V
A117	A118	A119	A120	A121	A122	A123	A124
T	F	G	T	G	T	K	L
A125	A126	A127	A128
Q	V	I	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASRYRDDSYNEQF	None	13
CDRB2	FQNEAQ	None	6
CDRB1	SEHNR	None	5
CDRA3	IVWGGYQKVT	None	10
CDRA2	GLKNN	None	5
CDRA1	TISGNEY	None	7

Orientation and docking angles:

Angle	Value
BC2	104.77°
BC1	70.30°
BA	-51.98°
AC2	90.98°
AC1	128.49°
dc	17.31Å

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
7dzm_DE	104.92°	71.39°	-51.44°	93.90°	130.79°	17.55Å	3.9
6rsy_JI	103.21°	72.00°	-53.93°	91.18°	125.77°	16.66Å	4.1
4onh_BA	106.40°	71.96°	-51.81°	87.71°	127.93°	17.28Å	4.1
7dzn_DE	104.31°	71.30°	-51.03°	94.04°	131.03°	17.63Å	4.2
6rsy_ED	103.28°	72.38°	-53.55°	91.75°	125.59°	16.63Å	4.3

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
4ydl_HL	108.56°	70.76°	-54.72°	85.96°	123.49°	15.98Å	8.6

D / C

TCR Details:

Item	Info
VB chain	D
VA chain	C
VB IMGT details	TRBV7/TRBJ2
VA IMGT details	TRAV26/TRAJ13
Species	human

Numbered sequence

Chain type

Chain ID

FASTA/Annotation file

IMGT numbered sequence (Framework/CDR)

FASTA file

B2	B3	B4	B5	B6	B7	B8	B9
T	G	V	S	Q	N	P	R
B10	B11	B12	B13	B14	B15	B16	B17
H	K	I	T	K	R	G	Q
B18	B19	B20	B21	B22	B23	B24	B25
N	V	T	F	R	C	D	P
B26	B27	B28	B29	B37	B38	B39	B40
I	S	E	H	N	R	L	Y
B41	B42	B43	B44	B45	B46	B47	B48
W	Y	R	Q	T	L	G	Q
B49	B50	B51	B52	B53	B54	B55	B56
G	P	E	F	L	T	Y	F
B57	B58	B63	B64	B65	B66	B67	B68
Q	N	E	A	Q	L	E	K
B69	B70	B71	B72	B73	B74	B75	B76
S	R	L	L	S	D	R	F
B77	B78	B79	B80	B81	B83	B84	B85
S	A	E	R	P	K	G	S
B86	B87	B88	B89	B90	B91	B92	B93
F	S	T	L	E	I	Q	R
B94	B95	B96	B97	B98	B99	B100	B101
T	E	Q	G	D	S	A	M
B102	B103	B104	B105	B106	B107	B108	B109
Y	L	C	A	S	R	Y	R
B110	B111	B112	B113	B114	B115	B116	B117
D	D	S	Y	N	E	Q	F
B118	B119	B120	B121	B122	B123	B124	B125
F	G	P	G	T	R	L	T
B126	B127
V	L

FASTA file

A2	A3	A4	A5	A6	A8	A9	A10
A	K	T	T	Q	P	T	S
A11	A12	A13	A14	A15	A16	A17	A18
M	D	C	A	E	G	R	A
A19	A20	A21	A22	A23	A24	A25	A26
A	N	L	P	C	N	H	S
A27	A28	A29	A30	A36	A37	A38	A39
T	I	S	G	N	E	Y	V
A40	A41	A42	A43	A44	A45	A46	A47
Y	W	Y	R	Q	I	H	S
A48	A49	A50	A51	A52	A53	A54	A55
Q	G	P	Q	Y	I	I	H
A56	A57	A58	A64	A65	A66	A67	A68
G	L	K	N	N	E	T	N
A74	A75	A76	A77	A78	A79	A80	A81
E	M	A	S	L	I	I	T
A82	A83	A84	A85	A86	A87	A88	A89
E	D	R	K	S	S	T	L
A90	A91	A92	A93	A94	A95	A96	A97
I	L	P	H	A	T	L	R
A98	A99	A100	A101	A102	A103	A104	A105
D	T	A	V	Y	Y	C	I
A106	A107	A108	A109	A113	A114	A115	A116
V	W	G	G	Y	Q	K	V
A117	A118	A119	A120	A121	A122	A123	A124
T	F	G	T	G	T	K	L
A125	A126	A127	A128
Q	V	I	P

CDR Sequences:

Loop	Sequence	Predicted canonical form	CDR Length
CDRB3	ASRYRDDSYNEQF	None	13
CDRB2	FQNEAQ	None	6
CDRB1	SEHNR	None	5
CDRA3	IVWGGYQKVT	None	10
CDRA2	GLKNN	None	5
CDRA1	TISGNEY	None	7

Orientation and docking angles:

Angle	Value
BC2	103.97°
BC1	70.05°
BA	-51.49°
AC2	90.65°
AC1	128.47°
dc	17.29Å

TCRs with similar orientations:

TCR PDB	BC2	BC1	BA	AC2	AC1	dc	TRangle Distance
7dzm_DE	104.92°	71.39°	-51.44°	93.90°	130.79°	17.55Å	4.3
6rsy_JI	103.21°	72.00°	-53.93°	91.18°	125.77°	16.66Å	4.3
4onh_BA	106.40°	71.96°	-51.81°	87.71°	127.93°	17.28Å	4.3
7dzn_DE	104.31°	71.30°	-51.03°	94.04°	131.03°	17.63Å	4.5
6rsy_ED	103.28°	72.38°	-53.55°	91.75°	125.59°	16.63Å	4.5

Antibodies with similar orientations:

Antibody PDB	HC2	HC1	HL	LC2	LC1	dc	ABangle Distance
4ydl_HL	108.56°	70.76°	-54.72°	85.96°	123.49°	15.98Å	9.0

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