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Getting 'Exon' information from database.
3LQC
Asym. Unit
Info
Asym.Unit (66 KB)
Biol.Unit 1 (62 KB)
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(1)
Title
:
X-RAY CRYSTAL STRUCTURE OF OXIDIZED XRCC1 BOUND TO DNA POL BETA PALM THUMB DOMAIN
Authors
:
M. J. Cuneo, J. M. Krahn, R. E. London
Date
:
09 Feb 10 (Deposition) - 28 Apr 10 (Release) - 28 Apr 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Allosteric Disulfide, Scaffolding Protein, Dna Repair, Dna Damage, Nucleus, Phosphoprotein, Polymorphism, Dna Replication, Dna Synthesis, Dna-Binding, Dna-Directed Dna Polymerase, Lyase, Magnesium, Metal-Binding, Nucleotidyltransferase, Sodium, Transferase, Dna-Binding Protein
(Keyword Search:
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Reference
:
M. J. Cuneo, R. E. London
Oxidation State Of The Xrcc1 N-Terminal Domain Regulates Dna Polymerase Beta Binding Affinity.
Proc. Natl. Acad. Sci. Usa V. 107 6805 2010
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: CARBONATE ION (CO3a)
2a: SODIUM ION (NAa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CO3
1
Ligand/Ion
CARBONATE ION
2
NA
1
Ligand/Ion
SODIUM ION
[
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:74 , ALA A:76 , GLY A:78
BINDING SITE FOR RESIDUE NA A 278
2
AC2
SOFTWARE
PRO A:2 , GLU A:3 , ARG A:7 , SER A:44 , LYS A:129 , HOH A:193
BINDING SITE FOR RESIDUE CO3 A 190
[
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SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_014773 (R7L, chain A, )
2: VAR_014774 (V10M, chain A, )
3: VAR_016168 (V72A, chain A, )
4: VAR_029228 (R107H, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_014773
R
7
L
XRCC1_HUMAN
Polymorphism
2307186
A
R
7
L
2
UniProt
VAR_014774
V
10
M
XRCC1_HUMAN
Polymorphism
2307171
A
V
10
M
3
UniProt
VAR_016168
V
72
A
XRCC1_HUMAN
Polymorphism
25496
A
V
72
A
4
UniProt
VAR_029228
R
107
H
XRCC1_HUMAN
Polymorphism
2228487
A
R
107
H
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: DNA_POLYMERASE_X (B:179-198)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DNA_POLYMERASE_X
PS00522
DNA polymerase family X signature.
DPOLB_RAT
179-198
1
B:179-198
[
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Exons
(12, 12)
Info
All Exons
Exon 1.8 (B:142-159)
Exon 1.9 (B:160-184)
Exon 1.10 (B:184-207)
Exon 1.11 (B:208-236)
Exon 1.12 (B:237-258)
Exon 1.13 (B:258-305)
Exon 1.14 (B:305-335)
Exon 2.1 (A:2-17)
Exon 2.2 (A:18-48)
Exon 2.3 (A:49-85)
Exon 2.4 (A:86-138)
Exon 2.5 (A:139-152)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.7/1.8
02: Boundary 1.8/1.9
03: Boundary 1.9/1.10
04: Boundary 1.10/1.11
05: Boundary 1.11/1.12
06: Boundary 1.12/1.13
07: Boundary 1.13/1.14
08: Boundary 1.14/-
09: Boundary -/2.1
10: Boundary 2.1/2.2
11: Boundary 2.2/2.3
12: Boundary 2.3/2.4
13: Boundary 2.4/2.5
14: Boundary 2.5/2.6
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
1.1
ENSRNOT00000026039
1
ENSRNOE00000186777
chr16:
73864707-73864774
68
DPOLB_RAT
1-21
21
0
-
-
1.2
ENSRNOT00000026039
2
ENSRNOE00000185461
chr16:
73864965-73865022
58
DPOLB_RAT
21-40
20
0
-
-
1.3
ENSRNOT00000026039
3
ENSRNOE00000185504
chr16:
73867557-73867623
67
DPOLB_RAT
40-62
23
0
-
-
1.4
ENSRNOT00000026039
4
ENSRNOE00000185543
chr16:
73869319-73869393
75
DPOLB_RAT
63-87
25
0
-
-
1.5
ENSRNOT00000026039
5
ENSRNOE00000186057
chr16:
73870085-73870143
59
DPOLB_RAT
88-107
20
0
-
-
1.6
ENSRNOT00000026039
6
ENSRNOE00000185607
chr16:
73871161-73871210
50
DPOLB_RAT
107-124
18
0
-
-
1.7
ENSRNOT00000026039
7
ENSRNOE00000185647
chr16:
73873715-73873766
52
DPOLB_RAT
124-141
18
0
-
-
1.8
ENSRNOT00000026039
8
ENSRNOE00000186149
chr16:
73875864-73875918
55
DPOLB_RAT
141-159
19
1
B:142-159
18
1.9
ENSRNOT00000026039
9
ENSRNOE00000186214
chr16:
73876001-73876073
73
DPOLB_RAT
160-184
25
1
B:160-184
25
1.10
ENSRNOT00000026039
10
ENSRNOE00000185711
chr16:
73876683-73876753
71
DPOLB_RAT
184-207
24
1
B:184-207
24
1.11
ENSRNOT00000026039
11
ENSRNOE00000185748
chr16:
73878874-73878960
87
DPOLB_RAT
208-236
29
1
B:208-236
29
1.12
ENSRNOT00000026039
12
ENSRNOE00000185778
chr16:
73884550-73884614
65
DPOLB_RAT
237-258
22
1
B:237-258
22
1.13
ENSRNOT00000026039
13
ENSRNOE00000186274
chr16:
73885616-73885755
140
DPOLB_RAT
258-305
48
1
B:258-305
48
1.14
ENSRNOT00000026039
14
ENSRNOE00000235677
chr16:
73887775-73890113
2339
DPOLB_RAT
305-335
31
1
B:305-335
31
2.1
ENST00000262887
1
ENSE00001213791
chr19:
44079730-44079560
171
XRCC1_HUMAN
1-17
17
1
A:2-17
16
2.2
ENST00000262887
2
ENSE00000897653
chr19:
44079154-44079062
93
XRCC1_HUMAN
18-48
31
1
A:18-48
31
2.3
ENST00000262887
3
ENSE00000710723
chr19:
44065172-44065062
111
XRCC1_HUMAN
49-85
37
1
A:49-85
37
2.4
ENST00000262887
4
ENSE00000710692
chr19:
44058956-44058798
159
XRCC1_HUMAN
86-138
53
1
A:86-138
53
2.5
ENST00000262887
5
ENSE00000710666
chr19:
44057835-44057761
75
XRCC1_HUMAN
139-163
25
1
A:139-152
14
2.6
ENST00000262887
6
ENSE00000847423
chr19:
44057664-44057553
112
XRCC1_HUMAN
164-201
38
0
-
-
2.7
ENST00000262887
7
ENSE00000710635
chr19:
44057243-44057134
110
XRCC1_HUMAN
201-237
37
0
-
-
2.8
ENST00000262887
8
ENSE00000710618
chr19:
44057060-44056949
112
XRCC1_HUMAN
238-275
38
0
-
-
2.9
ENST00000262887
9
ENSE00000710592
chr19:
44056427-44056169
259
XRCC1_HUMAN
275-361
87
0
-
-
2.10b
ENST00000262887
10b
ENSE00000710568
chr19:
44055839-44055723
117
XRCC1_HUMAN
361-400
40
0
-
-
2.11a
ENST00000262887
11a
ENSE00000710543
chr19:
44051129-44051036
94
XRCC1_HUMAN
400-431
32
0
-
-
2.13
ENST00000262887
13
ENSE00001674062
chr19:
44050879-44050747
133
XRCC1_HUMAN
432-476
45
0
-
-
2.14
ENST00000262887
14
ENSE00001737651
chr19:
44050258-44050204
55
XRCC1_HUMAN
476-494
19
0
-
-
2.15
ENST00000262887
15
ENSE00001695855
chr19:
44050109-44049970
140
XRCC1_HUMAN
494-541
48
0
-
-
2.16
ENST00000262887
16
ENSE00001614503
chr19:
44048386-44048296
91
XRCC1_HUMAN
541-571
31
0
-
-
2.17
ENST00000262887
17
ENSE00001797037
chr19:
44047839-44047764
76
XRCC1_HUMAN
571-596
26
0
-
-
2.18
ENST00000262887
18
ENSE00001669136
chr19:
44047657-44047464
194
XRCC1_HUMAN
597-633
37
0
-
-
[
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3lqca_ (A:)
View:
Select:
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Classes
(
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(
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Folds
(
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(
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Superfamilies
(
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Galactose-binding domain-like
(314)
Superfamily
:
Galactose-binding domain-like
(314)
Family
:
N-terminal domain of xrcc1
(5)
Protein domain
:
N-terminal domain of xrcc1
(5)
Human (Homo sapiens) [TaxId: 9606]
(5)
1a
d3lqca_
A:
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_XRCC1_N_3lqcA01 (A:2-151)
2a: PFAM_DNA_pol_lambd_f_3lqcB01 (B:142-148)
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Clans
(
)
(
)
Families
(
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(
)
Organisms
(
)
(
)
Clan
:
GBD
(153)
Family
:
XRCC1_N
(4)
Homo sapiens (Human)
(4)
1a
XRCC1_N-3lqcA01
A:2-151
Clan
:
no clan defined [family: DNA_pol_lambd_f]
(69)
Family
:
DNA_pol_lambd_f
(69)
Rattus norvegicus (Rat)
(11)
2a
DNA_pol_lambd_f-3lqcB01
B:142-148
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