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1BI7
Asym. Unit
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Asym.Unit (63 KB)
Biol.Unit 1 (113 KB)
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(1)
Title
:
MECHANISM OF G1 CYCLIN DEPENDENT KINASE INHIBITION FROM THE STRUCTURE OF THE CDK6-P16INK4A TUMOR SUPPRESSOR COMPLEX
Authors
:
A. A. Russo, L. Tong, J. O. Lee, P. D. Jeffrey, N. P. Pavletich
Date
:
22 Jun 98 (Deposition) - 13 Jan 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.40
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Cyclin Dependent Kinase, Cyclin Dependent Kinase Inhibitory Protein, Cdk, Ink4, Cell Cycle, Multiple Tumor Suppressor, Mts1, Complex (Kinase/Anti-Oncogene)
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. A. Russo, L. Tong, J. O. Lee, P. D. Jeffrey, N. P. Pavletich
Structural Basis For Inhibition Of The Cyclin-Dependent Kinase Cdk6 By The Tumour Suppressor P16Ink4A.
Nature V. 395 237 1998
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
close Site info
]
SAPs(SNPs)/Variants
(95, 95)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_001408 (D14E, chain B, )
02: VAR_001409 (L16P, chain B, )
03: VAR_001410 (A20P, chain B, )
04: VAR_001411 (A20S, chain B, )
05: VAR_001412 (G23D, chain B, )
06: VAR_001413 (R24C, chain B, )
07: VAR_001414 (R24P, chain B, )
08: VAR_058550 (R24Q, chain B, )
09: VAR_001415 (E26D, chain B, )
10: VAR_001416 (L32P, chain B, )
11: VAR_001417 (E33D, chain B, )
12: VAR_001418 (G35A, chain B, )
13: VAR_001419 (G35E, chain B, )
14: VAR_058551 (G35V, chain B, )
15: VAR_001420 (P48L, chain B, )
16: VAR_001421 (I49S, chain B, )
17: VAR_001422 (I49T, chain B, )
18: VAR_001423 (Q50R, chain B, )
19: VAR_001424 (M53I, chain B, )
20: VAR_001425 (S56I, chain B, )
21: VAR_001426 (A57V, chain B, )
22: VAR_053027 (R58Q, chain B, )
23: VAR_001427 (V59G, chain B, )
24: VAR_001428 (A60T, chain B, )
25: VAR_053028 (A60V, chain B, )
26: VAR_001430 (L62P, chain B, )
27: VAR_001431 (H66Y, chain B, )
28: VAR_058553 (G67R, chain B, )
29: VAR_001432 (A68L, chain B, )
30: VAR_001433 (A68T, chain B, )
31: VAR_001434 (A68V, chain B, )
32: VAR_058554 (E69G, chain B, )
33: VAR_001435 (E69K, chain B, )
34: VAR_001436 (E69V, chain B, )
35: VAR_001437 (N71K, chain B, )
36: VAR_001438 (N71S, chain B, )
37: VAR_001439 (C72G, chain B, )
38: VAR_001440 (D74N, chain B, )
39: VAR_001441 (D74V, chain B, )
40: VAR_058555 (D74Y, chain B, )
41: VAR_058556 (T77P, chain B, )
42: VAR_001442 (R80L, chain B, )
43: VAR_058557 (R80P, chain B, )
44: VAR_001443 (P81L, chain B, )
45: VAR_058558 (P81T, chain B, )
46: VAR_001445 (H83N, chain B, )
47: VAR_053029 (H83Q, chain B, )
48: VAR_001444 (H83Y, chain B, )
49: VAR_001446 (D84E, chain B, )
50: VAR_001447 (D84H, chain B, )
51: VAR_001448 (D84N, chain B, )
52: VAR_001449 (D84Y, chain B, )
53: VAR_001450 (A85T, chain B, )
54: VAR_001451 (R87P, chain B, )
55: VAR_012317 (R87W, chain B, )
56: VAR_001452 (E88D, chain B, )
57: VAR_001453 (G89D, chain B, )
58: VAR_001454 (G89S, chain B, )
59: VAR_001455 (T93A, chain B, )
60: VAR_023604 (L94Q, chain B, )
61: VAR_001456 (V95A, chain B, )
62: VAR_001457 (L97R, chain B, )
63: VAR_001458 (H98P, chain B, )
64: VAR_001459 (H98Q, chain B, )
65: VAR_001460 (R99P, chain B, )
66: VAR_001461 (R99Q, chain B, )
67: VAR_053030 (R99W, chain B, )
68: VAR_001462 (A100L, chain B, )
69: VAR_001463 (A100P, chain B, )
70: VAR_001464 (G101W, chain B, )
71: VAR_015818 (A102E, chain B, )
72: VAR_053031 (A102T, chain B, )
73: VAR_001466 (R107C, chain B, )
74: VAR_001467 (R107H, chain B, )
75: VAR_001469 (D108H, chain B, )
76: VAR_001468 (D108Y, chain B, )
77: VAR_041978 (D110N, chain A, )
78: VAR_001470 (P114L, chain B, )
79: VAR_058559 (P114S, chain B, )
80: VAR_001471 (L117M, chain B, )
81: VAR_001472 (A118T, chain B, )
82: VAR_001473 (E119Q, chain B, )
83: VAR_001474 (E120A, chain B, )
84: VAR_001475 (E120K, chain B, )
85: VAR_035069 (G122R, chain B, )
86: VAR_001476 (G122S, chain B, )
87: VAR_001477 (H123Q, chain B, )
88: VAR_053032 (R124C, chain B, )
89: VAR_001478 (R124H, chain B, )
90: VAR_001479 (V126D, chain B, )
91: VAR_001480 (A127S, chain B, )
92: VAR_001481 (A132P, chain B, )
93: VAR_001482 (A134V, chain B, )
94: VAR_072638 (A197T, chain A, )
95: VAR_041979 (P199L, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_001408
D
14
E
CDN2A_HUMAN
Unclassified
---
B
D
14
E
02
UniProt
VAR_001409
L
16
P
CDN2A_HUMAN
Unclassified
---
B
L
16
P
03
UniProt
VAR_001410
A
20
P
CDN2A_HUMAN
Unclassified
---
B
A
20
P
04
UniProt
VAR_001411
A
20
S
CDN2A_HUMAN
Unclassified
---
B
A
20
S
05
UniProt
VAR_001412
G
23
D
CDN2A_HUMAN
Unclassified
---
B
G
23
D
06
UniProt
VAR_001413
R
24
C
CDN2A_HUMAN
Disease (CMM2)
---
B
R
24
C
07
UniProt
VAR_001414
R
24
P
CDN2A_HUMAN
Disease (CMM2)
---
B
R
24
P
08
UniProt
VAR_058550
R
24
Q
CDN2A_HUMAN
Unclassified
---
B
R
24
Q
09
UniProt
VAR_001415
E
26
D
CDN2A_HUMAN
Unclassified
---
B
E
26
D
10
UniProt
VAR_001416
L
32
P
CDN2A_HUMAN
Disease (CMM2)
---
B
L
32
P
11
UniProt
VAR_001417
E
33
D
CDN2A_HUMAN
Unclassified
---
B
E
33
D
12
UniProt
VAR_001418
G
35
A
CDN2A_HUMAN
Disease (CMM2)
---
B
G
35
A
13
UniProt
VAR_001419
G
35
E
CDN2A_HUMAN
Disease (CMM2)
---
B
G
35
E
14
UniProt
VAR_058551
G
35
V
CDN2A_HUMAN
Disease (CMM2)
---
B
G
35
V
15
UniProt
VAR_001420
P
48
L
CDN2A_HUMAN
Disease (CMM2)
---
B
P
48
L
16
UniProt
VAR_001421
I
49
S
CDN2A_HUMAN
Unclassified
---
B
I
49
S
17
UniProt
VAR_001422
I
49
T
CDN2A_HUMAN
Polymorphism
---
B
I
49
T
18
UniProt
VAR_001423
Q
50
R
CDN2A_HUMAN
Disease (CMM2)
---
B
Q
50
R
19
UniProt
VAR_001424
M
53
I
CDN2A_HUMAN
Disease (CMM2)
---
B
M
53
I
20
UniProt
VAR_001425
S
56
I
CDN2A_HUMAN
Polymorphism
---
B
S
56
I
21
UniProt
VAR_001426
A
57
V
CDN2A_HUMAN
Unclassified
---
B
A
57
V
22
UniProt
VAR_053027
R
58
Q
CDN2A_HUMAN
Polymorphism
36204273
B
R
58
Q
23
UniProt
VAR_001427
V
59
G
CDN2A_HUMAN
Disease (CMM2)
---
B
V
59
G
24
UniProt
VAR_001428
A
60
T
CDN2A_HUMAN
Polymorphism
---
B
A
60
T
25
UniProt
VAR_053028
A
60
V
CDN2A_HUMAN
Unclassified
36204594
B
A
60
V
26
UniProt
VAR_001430
L
62
P
CDN2A_HUMAN
Disease (CMM2)
---
B
L
62
P
27
UniProt
VAR_001431
H
66
Y
CDN2A_HUMAN
Unclassified
---
B
H
66
Y
28
UniProt
VAR_058553
G
67
R
CDN2A_HUMAN
Disease (CMM2)
---
B
G
67
R
29
UniProt
VAR_001432
A
68
L
CDN2A_HUMAN
Disease (CMM2)
---
B
A
68
L
30
UniProt
VAR_001433
A
68
T
CDN2A_HUMAN
Unclassified
---
B
A
68
T
31
UniProt
VAR_001434
A
68
V
CDN2A_HUMAN
Polymorphism
---
B
A
68
V
32
UniProt
VAR_058554
E
69
G
CDN2A_HUMAN
Unclassified
---
B
E
69
G
33
UniProt
VAR_001435
E
69
K
CDN2A_HUMAN
Unclassified
---
B
E
69
K
34
UniProt
VAR_001436
E
69
V
CDN2A_HUMAN
Unclassified
---
B
E
69
V
35
UniProt
VAR_001437
N
71
K
CDN2A_HUMAN
Disease (CMM2)
---
B
N
71
K
36
UniProt
VAR_001438
N
71
S
CDN2A_HUMAN
Polymorphism
---
B
N
71
S
37
UniProt
VAR_001439
C
72
G
CDN2A_HUMAN
Unclassified
---
B
C
72
G
38
UniProt
VAR_001440
D
74
N
CDN2A_HUMAN
Unclassified
---
B
D
74
N
39
UniProt
VAR_001441
D
74
V
CDN2A_HUMAN
Unclassified
---
B
D
74
V
40
UniProt
VAR_058555
D
74
Y
CDN2A_HUMAN
Disease (CMM2)
---
B
D
74
Y
41
UniProt
VAR_058556
T
77
P
CDN2A_HUMAN
Disease (CMM2)
---
B
T
77
P
42
UniProt
VAR_001442
R
80
L
CDN2A_HUMAN
Unclassified
---
B
R
80
L
43
UniProt
VAR_058557
R
80
P
CDN2A_HUMAN
Disease (CMM2)
---
B
R
80
P
44
UniProt
VAR_001443
P
81
L
CDN2A_HUMAN
Unclassified
11552823
B
P
81
L
45
UniProt
VAR_058558
P
81
T
CDN2A_HUMAN
Disease (CMM2)
---
B
P
81
T
46
UniProt
VAR_001445
H
83
N
CDN2A_HUMAN
Unclassified
---
B
H
83
N
47
UniProt
VAR_053029
H
83
Q
CDN2A_HUMAN
Polymorphism
34968276
B
H
83
Q
48
UniProt
VAR_001444
H
83
Y
CDN2A_HUMAN
Unclassified
---
B
H
83
Y
49
UniProt
VAR_001446
D
84
E
CDN2A_HUMAN
Unclassified
---
B
D
84
E
50
UniProt
VAR_001447
D
84
H
CDN2A_HUMAN
Unclassified
---
B
D
84
H
51
UniProt
VAR_001448
D
84
N
CDN2A_HUMAN
Unclassified
---
B
D
84
N
52
UniProt
VAR_001449
D
84
Y
CDN2A_HUMAN
Disease (CMM2)
11552822
B
D
84
Y
53
UniProt
VAR_001450
A
85
T
CDN2A_HUMAN
Polymorphism
---
B
A
85
T
54
UniProt
VAR_001451
R
87
P
CDN2A_HUMAN
Disease (CMM2)
---
B
R
87
P
55
UniProt
VAR_012317
R
87
W
CDN2A_HUMAN
Disease (CMM2)
---
B
R
87
W
56
UniProt
VAR_001452
E
88
D
CDN2A_HUMAN
Unclassified
---
B
E
88
D
57
UniProt
VAR_001453
G
89
D
CDN2A_HUMAN
Disease (CMM2)
---
B
G
89
D
58
UniProt
VAR_001454
G
89
S
CDN2A_HUMAN
Disease (CMM2)
---
B
G
89
S
59
UniProt
VAR_001455
T
93
A
CDN2A_HUMAN
Unclassified
---
B
T
93
A
60
UniProt
VAR_023604
L
94
Q
CDN2A_HUMAN
Disease (CMM2)
---
B
L
94
Q
61
UniProt
VAR_001456
V
95
A
CDN2A_HUMAN
Unclassified
---
B
V
95
A
62
UniProt
VAR_001457
L
97
R
CDN2A_HUMAN
Disease (CMM2)
---
B
L
97
R
63
UniProt
VAR_001458
H
98
P
CDN2A_HUMAN
Disease (CMM2)
---
B
H
98
P
64
UniProt
VAR_001459
H
98
Q
CDN2A_HUMAN
Disease (CMM2)
---
B
H
98
Q
65
UniProt
VAR_001460
R
99
P
CDN2A_HUMAN
Disease (CMM2)
---
B
R
99
P
66
UniProt
VAR_001461
R
99
Q
CDN2A_HUMAN
Unclassified
---
B
R
99
Q
67
UniProt
VAR_053030
R
99
W
CDN2A_HUMAN
Polymorphism
34886500
B
R
99
W
68
UniProt
VAR_001462
A
100
L
CDN2A_HUMAN
Disease (CMM2)
---
B
A
100
L
69
UniProt
VAR_001463
A
100
P
CDN2A_HUMAN
Polymorphism
---
B
A
100
P
70
UniProt
VAR_001464
G
101
W
CDN2A_HUMAN
Disease (CMM2)
---
B
G
101
W
71
UniProt
VAR_015818
A
102
E
CDN2A_HUMAN
Disease (LFS)
---
B
A
102
E
72
UniProt
VAR_053031
A
102
T
CDN2A_HUMAN
Polymorphism
35741010
B
A
102
T
73
UniProt
VAR_001466
R
107
C
CDN2A_HUMAN
Disease (CMM2)
---
B
R
107
C
74
UniProt
VAR_001467
R
107
H
CDN2A_HUMAN
Polymorphism
---
B
R
107
H
75
UniProt
VAR_001469
D
108
H
CDN2A_HUMAN
Unclassified
---
B
D
108
H
76
UniProt
VAR_001468
D
108
Y
CDN2A_HUMAN
Unclassified
---
B
D
108
Y
77
UniProt
VAR_041978
D
110
N
CDK6_HUMAN
Polymorphism
35654944
A
D
110
N
78
UniProt
VAR_001470
P
114
L
CDN2A_HUMAN
Unclassified
---
B
P
114
L
79
UniProt
VAR_058559
P
114
S
CDN2A_HUMAN
Unclassified
---
B
P
114
S
80
UniProt
VAR_001471
L
117
M
CDN2A_HUMAN
Disease (CMM2)
---
B
L
117
M
81
UniProt
VAR_001472
A
118
T
CDN2A_HUMAN
Disease (CMM2)
---
B
A
118
T
82
UniProt
VAR_001473
E
119
Q
CDN2A_HUMAN
Unclassified
---
B
E
119
Q
83
UniProt
VAR_001474
E
120
A
CDN2A_HUMAN
Unclassified
---
B
E
120
A
84
UniProt
VAR_001475
E
120
K
CDN2A_HUMAN
Unclassified
---
B
E
120
K
85
UniProt
VAR_035069
G
122
R
CDN2A_HUMAN
Disease (CMM2)
---
B
G
122
R
86
UniProt
VAR_001476
G
122
S
CDN2A_HUMAN
Unclassified
---
B
G
122
S
87
UniProt
VAR_001477
H
123
Q
CDN2A_HUMAN
Unclassified
6413463
B
H
123
Q
88
UniProt
VAR_053032
R
124
C
CDN2A_HUMAN
Polymorphism
34170727
B
R
124
C
89
UniProt
VAR_001478
R
124
H
CDN2A_HUMAN
Unclassified
---
B
R
124
H
90
UniProt
VAR_001479
V
126
D
CDN2A_HUMAN
Disease (CMM2)
---
B
V
126
D
91
UniProt
VAR_001480
A
127
S
CDN2A_HUMAN
Unclassified
6413464
B
A
127
S
92
UniProt
VAR_001481
A
132
P
CDN2A_HUMAN
Unclassified
---
B
A
132
P
93
UniProt
VAR_001482
A
134
V
CDN2A_HUMAN
Unclassified
---
B
A
134
V
94
UniProt
VAR_072638
A
197
T
CDK6_HUMAN
Disease (MCPH12)
---
A
A
197
T
95
UniProt
VAR_041979
P
199
L
CDK6_HUMAN
Unclassified
---
A
P
199
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: ANK_REP_REGION (B:16-130)
2: PROTEIN_KINASE_ATP (A:19-43)
3: PROTEIN_KINASE_ST (A:141-153)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ANK_REP_REGION
PS50297
Ankyrin repeat region circular profile.
CDN2A_HUMAN
16-130
1
B:16-130
2
PROTEIN_KINASE_ATP
PS00107
Protein kinases ATP-binding region signature.
CDK6_HUMAN
19-43
1
A:19-43
3
PROTEIN_KINASE_ST
PS00108
Serine/Threonine protein kinases active-site signature.
CDK6_HUMAN
141-153
1
A:141-153
[
close PROSITE info
]
Exons
(9, 9)
Info
All Exons
Exon 1.4b (A:10-78 (gaps))
Exon 1.5 (A:78-123)
Exon 1.6a (A:124-179)
Exon 1.7a (A:180-216)
Exon 1.8 (A:216-233)
Exon 1.9b (A:233-278)
Exon 1.10c (A:279-301)
Exon 2.5a (B:10-50)
Exon 2.6c (B:51-134)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.3/1.4b
02: Boundary 1.4b/1.5
03: Boundary 1.5/1.6a
04: Boundary 1.6a/1.7a
05: Boundary 1.7a/1.8
06: Boundary 1.8/1.9b
07: Boundary 1.9b/1.10c
08: Boundary 1.10c/-
09: Boundary -/2.5a
10: Boundary 2.5a/2.6c
11: Boundary 2.6c/2.10e
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.3
ENST00000265734
3
ENSE00001337042
chr7:
92463231-92463187
45
CDK6_HUMAN
-
0
0
-
-
1.4b
ENST00000265734
4b
ENSE00001132651
chr7:
92463004-92462405
600
CDK6_HUMAN
1-78
78
1
A:10-78 (gaps)
69
1.5
ENST00000265734
5
ENSE00000877375
chr7:
92404145-92404010
136
CDK6_HUMAN
78-123
46
1
A:78-123
46
1.6a
ENST00000265734
6a
ENSE00000877376
chr7:
92355107-92354940
168
CDK6_HUMAN
124-179
56
1
A:124-179
56
1.7a
ENST00000265734
7a
ENSE00001764561
chr7:
92300849-92300740
110
CDK6_HUMAN
180-216
37
1
A:180-216
37
1.8
ENST00000265734
8
ENSE00000705202
chr7:
92252400-92252350
51
CDK6_HUMAN
216-233
18
1
A:216-233
18
1.9b
ENST00000265734
9b
ENSE00000705199
chr7:
92247521-92247386
136
CDK6_HUMAN
233-278
46
1
A:233-278
46
1.10c
ENST00000265734
10c
ENSE00001132644
chr7:
92244600-92234235
10366
CDK6_HUMAN
279-326
48
1
A:279-301
23
2.5a
ENST00000304494
5a
ENSE00001833804
chr9:
21975097-21974677
421
CDN2A_HUMAN
1-50
50
1
B:10-50
41
2.6c
ENST00000304494
6c
ENSE00001801793
chr9:
21971207-21970901
307
CDN2A_HUMAN
51-153
103
1
B:51-134
84
2.10e
ENST00000304494
10e
ENSE00001936961
chr9:
21968241-21967752
490
CDN2A_HUMAN
153-156
4
0
-
-
[
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SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1bi7b_ (B:)
2a: SCOP_d1bi7a_ (A:)
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Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-hairpin-alpha-hairpin repeat
(81)
Superfamily
:
Ankyrin repeat
(79)
Family
:
Ankyrin repeat
(60)
Protein domain
:
Cell cycle inhibitor p16ink4A
(5)
Human (Homo sapiens) [TaxId: 9606]
(4)
1a
d1bi7b_
B:
Fold
:
Protein kinase-like (PK-like)
(2589)
Superfamily
:
Protein kinase-like (PK-like)
(2589)
Family
:
Protein kinases, catalytic subunit
(1977)
Protein domain
:
Cyclin-dependent PK, CDK6
(11)
Human (Homo sapiens) [TaxId: 9606]
(11)
2a
d1bi7a_
A:
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CATH Domains
(3, 3)
Info
all CATH domains
1a: CATH_1bi7A01 (A:11-102)
2a: CATH_1bi7B00 (B:10-134)
3a: CATH_1bi7A02 (A:103-299)
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)
Organisms
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)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Phosphorylase Kinase; domain 1
(1392)
Homologous Superfamily
:
Phosphorylase Kinase; domain 1
(1392)
Human (Homo sapiens)
(1036)
1a
1bi7A01
A:11-102
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha Horseshoe
(399)
Topology
:
Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
(320)
Homologous Superfamily
:
[code=1.25.40.20, no name defined]
(65)
Human (Homo sapiens)
(31)
2a
1bi7B00
B:10-134
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Transferase(Phosphotransferase); domain 1
(1379)
Homologous Superfamily
:
Transferase(Phosphotransferase) domain 1
(1379)
Human (Homo sapiens)
(1049)
3a
1bi7A02
A:103-299
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Pfam Domains
(0, 0)
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