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1N4M
Asym. Unit
Info
Asym.Unit (130 KB)
Biol.Unit 1 (64 KB)
Biol.Unit 2 (65 KB)
Biol.Unit 3 (66 KB)
Biol.Unit 4 (63 KB)
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(1)
Title
:
STRUCTURE OF RB TUMOR SUPPRESSOR BOUND TO THE TRANSACTIVATION DOMAIN OF E2F-2
Authors
:
C. Lee, J. H. Chang, H. S. Lee, Y. Cho
Date
:
31 Oct 02 (Deposition) - 07 Jan 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D,E (1x)
Biol. Unit 3: A,C,E (1x)
Biol. Unit 4: B,D (1x)
Keywords
:
Protein-Peptide Complex, Cell Cycle
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Lee, J. H. Chang, H. S. Lee, Y. Cho
Structural Basis For The Recognition Of The E2F Transactivation Domain By The Retinoblastoma Tumor Suppressor
Genes Dev. V. 16 3199 2002
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
Info
All Hetero Components
View:
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Label:
Sorry, no Info available
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Sites
(0, 0)
Info
All Sites
View:
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Label:
Sorry, no Info available
[
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]
SAPs(SNPs)/Variants
(19, 38)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_019379 (A436K, chain A/B, )
02: VAR_010048 (K447Q, chain A/B, )
03: VAR_005576 (M457R, chain A/B, )
04: VAR_011580 (R500G, chain A/B, )
05: VAR_019380 (A525G, chain A/B, )
06: VAR_010049 (K530R, chain A/B, )
07: VAR_005578 (H549Y, chain A/B, )
08: VAR_005579 (S567L, chain A/B, )
09: VAR_051910 (L569F, chain A/B, )
10: VAR_005581 (V654E, chain A/B, )
11: VAR_010050 (L657P, chain A/B, )
12: VAR_005582 (R661W, chain A/B, )
13: VAR_005583 (L662P, chain A/B, )
14: VAR_005584 (H673P, chain A/B, )
15: VAR_005585 (Q685P, chain A/B, )
16: VAR_051911 (D697E, chain A/B, )
17: VAR_005586 (C706Y, chain A/B, )
18: VAR_005587 (C712R, chain A/B, )
19: VAR_034442 (E746G, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_019379
Q
436
K
RB_HUMAN
Polymorphism
4151534
A/B
A
436
K
02
UniProt
VAR_010048
K
447
Q
RB_HUMAN
Disease (RB)
---
A/B
K
447
Q
03
UniProt
VAR_005576
M
457
R
RB_HUMAN
Disease (RB)
---
A/B
M
457
R
04
UniProt
VAR_011580
R
500
G
RB_HUMAN
Disease (RB)
---
A/B
R
500
G
05
UniProt
VAR_019380
A
525
G
RB_HUMAN
Polymorphism
4151539
A/B
A
525
G
06
UniProt
VAR_010049
K
530
R
RB_HUMAN
Disease (RB)
---
A/B
K
530
R
07
UniProt
VAR_005578
H
549
Y
RB_HUMAN
Disease (RB)
---
A/B
H
549
Y
08
UniProt
VAR_005579
S
567
L
RB_HUMAN
Disease (RB)
---
A/B
S
567
L
09
UniProt
VAR_051910
L
569
F
RB_HUMAN
Polymorphism
3092895
A/B
L
569
F
10
UniProt
VAR_005581
V
654
E
RB_HUMAN
Disease (RB)
---
A/B
V
654
E
11
UniProt
VAR_010050
L
657
P
RB_HUMAN
Disease (RB)
---
A/B
L
657
P
12
UniProt
VAR_005582
R
661
W
RB_HUMAN
Disease (RB)
---
A/B
R
661
W
13
UniProt
VAR_005583
L
662
P
RB_HUMAN
Disease (RB)
---
A/B
L
662
P
14
UniProt
VAR_005584
H
673
P
RB_HUMAN
Disease (RB)
---
A/B
H
673
P
15
UniProt
VAR_005585
Q
685
P
RB_HUMAN
Disease (RB)
---
A/B
Q
685
P
16
UniProt
VAR_051911
D
697
E
RB_HUMAN
Polymorphism
3092903
A/B
D
697
E
17
UniProt
VAR_005586
C
706
Y
RB_HUMAN
Disease (RB)
---
A/B
C
706
Y
18
UniProt
VAR_005587
C
712
R
RB_HUMAN
Disease (RB)
---
A/B
C
712
R
19
UniProt
VAR_034442
E
746
G
RB_HUMAN
Polymorphism
3092905
A/B
E
746
G
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
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Exons
(13, 27)
Info
All Exons
Exon 1.12 (A:380-405 | B:380-405)
Exon 1.13 (A:406-444 | B:406-444)
Exon 1.14 (A:445-463 | B:445-463)
Exon 1.15 (A:464-474 | B:464-474)
Exon 1.16 (A:474-500 | B:474-500)
Exon 1.17 (A:500-565 | B:500-565 (gaps))
Exon 1.19 (A:566-581 | B:566-581)
Exon 1.20b (A:643-654 | B:643-654)
Exon 1.21 (A:654-702 | B:654-702)
Exon 1.22 (A:703-737 | B:703-737)
Exon 1.23 (A:738-775 | B:738-775)
Exon 1.24 (A:776-785 | B:776-785)
Exon 2.7 (C:410-427 | D:410-427 | E:410-421)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.11/1.12
02: Boundary 1.12/1.13
03: Boundary 1.13/1.14
04: Boundary 1.14/1.15
05: Boundary 1.15/1.16
06: Boundary 1.16/1.17
07: Boundary 1.17/1.19
08: Boundary 1.19/1.20b
09: Boundary 1.20b/1.21
10: Boundary 1.21/1.22
11: Boundary 1.22/1.23
12: Boundary 1.23/1.24
13: Boundary 1.24/1.25
14: Boundary 2.6b/2.7
15: Boundary 2.7/-
View:
Label:
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
1.1b
ENST00000267163
1b
ENSE00002199946
chr13:
48877911-48878185
275
RB_HUMAN
1-46
46
0
-
-
1.2
ENST00000267163
2
ENSE00000939664
chr13:
48881416-48881542
127
RB_HUMAN
46-88
43
0
-
-
1.3
ENST00000267163
3
ENSE00000939665
chr13:
48916735-48916850
116
RB_HUMAN
89-127
39
0
-
-
1.4
ENST00000267163
4
ENSE00000939666
chr13:
48919216-48919335
120
RB_HUMAN
127-167
41
0
-
-
1.5
ENST00000267163
5
ENSE00000939667
chr13:
48921961-48921999
39
RB_HUMAN
167-180
14
0
-
-
1.6
ENST00000267163
6
ENSE00000939668
chr13:
48923092-48923159
68
RB_HUMAN
180-203
24
0
-
-
1.7a
ENST00000267163
7a
ENSE00000939669
chr13:
48934153-48934263
111
RB_HUMAN
203-240
38
0
-
-
1.8b
ENST00000267163
8b
ENSE00000939670
chr13:
48936951-48937093
143
RB_HUMAN
240-287
48
0
-
-
1.9
ENST00000267163
9
ENSE00000939671
chr13:
48939030-48939107
78
RB_HUMAN
288-313
26
0
-
-
1.10
ENST00000267163
10
ENSE00000939672
chr13:
48941630-48941739
110
RB_HUMAN
314-350
37
0
-
-
1.11
ENST00000267163
11
ENSE00000939673
chr13:
48942663-48942740
78
RB_HUMAN
350-376
27
0
-
-
1.12
ENST00000267163
12
ENSE00000939674
chr13:
48947541-48947628
88
RB_HUMAN
376-405
30
2
A:380-405
B:380-405
26
26
1.13
ENST00000267163
13
ENSE00000939675
chr13:
48951054-48951170
117
RB_HUMAN
406-444
39
2
A:406-444
B:406-444
39
39
1.14
ENST00000267163
14
ENSE00000939676
chr13:
48953730-48953786
57
RB_HUMAN
445-463
19
2
A:445-463
B:445-463
19
19
1.15
ENST00000267163
15
ENSE00000939677
chr13:
48954189-48954220
32
RB_HUMAN
464-474
11
2
A:464-474
B:464-474
11
11
1.16
ENST00000267163
16
ENSE00000939678
chr13:
48954301-48954377
77
RB_HUMAN
474-500
27
2
A:474-500
B:474-500
27
27
1.17
ENST00000267163
17
ENSE00000939679
chr13:
48955383-48955579
197
RB_HUMAN
500-565
66
2
A:500-565
B:500-565 (gaps)
66
66
1.19
ENST00000267163
19
ENSE00000939680
chr13:
49027129-49027247
119
RB_HUMAN
566-605
40
2
A:566-581
B:566-581
16
16
1.20b
ENST00000267163
20b
ENSE00000939681
chr13:
49030340-49030485
146
RB_HUMAN
605-654
50
2
A:643-654
B:643-654
12
12
1.21
ENST00000267163
21
ENSE00000939682
chr13:
49033824-49033969
146
RB_HUMAN
654-702
49
2
A:654-702
B:654-702
49
49
1.22
ENST00000267163
22
ENSE00000939683
chr13:
49037867-49037971
105
RB_HUMAN
703-737
35
2
A:703-737
B:703-737
35
35
1.23
ENST00000267163
23
ENSE00000939684
chr13:
49039134-49039247
114
RB_HUMAN
738-775
38
2
A:738-775
B:738-775
38
38
1.24
ENST00000267163
24
ENSE00000939685
chr13:
49039341-49039504
164
RB_HUMAN
776-830
55
2
A:776-785
B:776-785
10
10
1.25
ENST00000267163
25
ENSE00001003962
chr13:
49047496-49047526
31
RB_HUMAN
830-840
11
0
-
-
1.26c
ENST00000267163
26c
ENSE00000939686
chr13:
49050837-49050979
143
RB_HUMAN
841-888
48
0
-
-
1.27
ENST00000267163
27
ENSE00000939687
chr13:
49051491-49051540
50
RB_HUMAN
888-905
18
0
-
-
1.28c
ENST00000267163
28c
ENSE00001241067
chr13:
49054134-49056122
1989
RB_HUMAN
905-928
24
0
-
-
2.1
ENST00000361729
1
ENSE00000859749
chr1:
23857712-23857034
679
E2F2_HUMAN
1-84
84
0
-
-
2.2
ENST00000361729
2
ENSE00000758550
chr1:
23850980-23850875
106
E2F2_HUMAN
85-120
36
0
-
-
2.3
ENST00000361729
3
ENSE00000758551
chr1:
23848548-23848329
220
E2F2_HUMAN
120-193
74
0
-
-
2.4
ENST00000361729
4
ENSE00001436167
chr1:
23847563-23847405
159
E2F2_HUMAN
193-246
54
0
-
-
2.5b
ENST00000361729
5b
ENSE00001435321
chr1:
23845622-23845508
115
E2F2_HUMAN
246-284
39
0
-
-
2.6b
ENST00000361729
6b
ENSE00000758555
chr1:
23843019-23842827
193
E2F2_HUMAN
285-349
65
0
-
-
2.7
ENST00000361729
7
ENSE00000859746
chr1:
23836640-23832922
3719
E2F2_HUMAN
349-437
89
3
C:410-427
D:410-427
E:410-421
18
18
12
[
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SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1n4ma1 (A:380-581)
1b: SCOP_d1n4ma2 (A:643-785)
1c: SCOP_d1n4mb1 (B:380-581)
1d: SCOP_d1n4mb2 (B:643-785)
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(
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Cyclin-like
(137)
Superfamily
:
Cyclin-like
(137)
Family
:
Retinoblastoma tumor suppressor domains
(7)
Protein domain
:
Retinoblastoma tumor suppressor domains
(7)
Human (Homo sapiens) [TaxId: 9606]
(7)
1a
d1n4ma1
A:380-581
1b
d1n4ma2
A:643-785
1c
d1n4mb1
B:380-581
1d
d1n4mb2
B:643-785
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1n4mA02 (A:564-785)
1b: CATH_1n4mB02 (B:564-785)
1c: CATH_1n4mB01 (B:380-563)
1d: CATH_1n4mA01 (A:380-563)
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cyclin A; domain 1
(136)
Homologous Superfamily
:
[code=1.10.472.10, no name defined]
(99)
Human (Homo sapiens)
(84)
1a
1n4mA02
A:564-785
1b
1n4mB02
B:564-785
1c
1n4mB01
B:380-563
1d
1n4mA01
A:380-563
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Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_RB_A_1n4mB01 (B:380-573)
1b: PFAM_RB_A_1n4mB02 (B:380-573)
2a: PFAM_RB_B_1n4mB03 (B:645-766)
2b: PFAM_RB_B_1n4mB04 (B:645-766)
3a: PFAM_Rb_C_1n4mB05 (B:768-785)
3b: PFAM_Rb_C_1n4mB06 (B:768-785)
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(
)
Clan
:
Cyclin
(63)
Family
:
RB_A
(4)
Homo sapiens (Human)
(4)
1a
RB_A-1n4mB01
B:380-573
1b
RB_A-1n4mB02
B:380-573
Family
:
RB_B
(4)
Homo sapiens (Human)
(4)
2a
RB_B-1n4mB03
B:645-766
2b
RB_B-1n4mB04
B:645-766
Clan
:
no clan defined [family: Rb_C]
(5)
Family
:
Rb_C
(5)
Homo sapiens (Human)
(5)
3a
Rb_C-1n4mB05
B:768-785
3b
Rb_C-1n4mB06
B:768-785
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Asym.Unit (130 KB)
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