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Asym. Unit
Info
Asym.Unit (142 KB)
Biol.Unit 1 (136 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN CK2A
Authors
:
T. Kinoshita, T. Nakaniwa, Y. Sekiguchi, Y. Sogabe, A. Sakurai, S. Naka I. Nakanishi
Date
:
07 May 13 (Deposition) - 30 Oct 13 (Release) - 30 Oct 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.04
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Protein Kinase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Kinoshita, T. Nakaniwa, Y. Sekiguchi, Y. Sogabe, A. Sakurai, S. Nakamura, I. Nakanishi
Crystal Structure Of Human Ck2 Alpha At 1. 06 Angstrom Resolution
J. Synchrotron Radiat. V. 20 974 2013
[
close entry info
]
Hetero Components
(2, 20)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
1o: 1,2-ETHANEDIOL (EDOo)
1p: 1,2-ETHANEDIOL (EDOp)
1q: 1,2-ETHANEDIOL (EDOq)
1r: 1,2-ETHANEDIOL (EDOr)
1s: 1,2-ETHANEDIOL (EDOs)
2a: NICOTINIC ACID (NIOa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
19
Ligand/Ion
1,2-ETHANEDIOL
2
NIO
1
Ligand/Ion
NICOTINIC ACID
[
close Hetero Component info
]
Sites
(20, 20)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
VAL A:66 , LYS A:68 , PHE A:113 , MET A:163 , ASP A:175 , HOH A:510 , HOH A:657
BINDING SITE FOR RESIDUE NIO A 401
02
AC2
SOFTWARE
LEU A:41 , VAL A:42 , PHE A:54 , GLU A:296 , PRO A:322
BINDING SITE FOR RESIDUE EDO A 402
03
AC3
SOFTWARE
ASN A:117 , ASN A:118 , THR A:119 , ILE A:164 , ASP A:165 , HIS A:166 , GLU A:167
BINDING SITE FOR RESIDUE EDO A 403
04
AC4
SOFTWARE
ASN A:118 , THR A:119 , ASP A:120 , PHE A:121 , PRO A:159 , VAL A:162 , MET A:163 , ILE A:164
BINDING SITE FOR RESIDUE EDO A 404
05
AC5
SOFTWARE
PHE A:232 , PHE A:284 , HOH A:539 , HOH A:558 , HOH A:783
BINDING SITE FOR RESIDUE EDO A 405
06
AC6
SOFTWARE
VAL A:248 , LEU A:249 , ARG A:278 , LYS A:279 , TRP A:281 , ASP A:302 , HOH A:582 , HOH A:758
BINDING SITE FOR RESIDUE EDO A 406
07
AC7
SOFTWARE
THR A:17 , HIS A:168 , HIS A:183 , PRO A:184 , HOH A:645
BINDING SITE FOR RESIDUE EDO A 407
08
AC8
SOFTWARE
ARG A:8 , HIS A:168 , LYS A:170 , PRO A:184 , HOH A:612 , HOH A:793
BINDING SITE FOR RESIDUE EDO A 408
09
AC9
SOFTWARE
GLN A:36 , TYR A:39 , VAL A:101 , ASP A:103
BINDING SITE FOR RESIDUE EDO A 409
10
BC1
SOFTWARE
THR A:127 , ASP A:132 , HIS A:166 , HOH A:712 , HOH A:773
BINDING SITE FOR RESIDUE EDO A 410
11
BC2
SOFTWARE
TYR A:131 , ASP A:132 , PHE A:135 , TYR A:136 , HIS A:166 , ARG A:169
BINDING SITE FOR RESIDUE EDO A 411
12
BC3
SOFTWARE
ARG A:191 , VAL A:192 , ALA A:193 , LYS A:198 , HOH A:652
BINDING SITE FOR RESIDUE EDO A 412
13
BC4
SOFTWARE
ARG A:80 , LEU A:178 , MET A:334
BINDING SITE FOR RESIDUE EDO A 413
14
BC5
SOFTWARE
LEU A:41 , ILE A:69 , ASP A:103 , PRO A:104 , VAL A:105 , GLU A:320 , EDO A:415 , HOH A:755
BINDING SITE FOR RESIDUE EDO A 414
15
BC6
SOFTWARE
GLN A:36 , TYR A:39 , GLN A:40 , GLU A:320 , TYR A:325 , EDO A:414
BINDING SITE FOR RESIDUE EDO A 415
16
BC7
SOFTWARE
ASP A:130 , TYR A:131 , ARG A:134 , THR A:326 , HOH A:564
BINDING SITE FOR RESIDUE EDO A 416
17
BC8
SOFTWARE
HIS A:236 , ASP A:237 , ASP A:259 , HOH A:771
BINDING SITE FOR RESIDUE EDO A 417
18
BC9
SOFTWARE
VAL A:11 , HIS A:148 , TYR A:211 , SER A:212 , MET A:215 , ALA A:315 , HOH A:507 , HOH A:515 , HOH A:524
BINDING SITE FOR RESIDUE EDO A 418
19
CC1
SOFTWARE
ARG A:280 , GLU A:282 , HOH A:681 , HOH A:714 , HOH A:731
BINDING SITE FOR RESIDUE EDO A 419
20
CC2
SOFTWARE
ARG A:280 , TRP A:281 , GLU A:282 , LEU A:298 , ASP A:302 , HOH A:758
BINDING SITE FOR RESIDUE EDO A 420
[
close Site info
]
SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_077045 (R47Q, chain A, )
2: VAR_077046 (Y50S, chain A, )
3: VAR_077047 (D175G, chain A, )
4: VAR_077048 (K198R, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_077045
R
47
Q
CSK21_HUMAN
Disease (OCNDS)
869312845
A
R
47
Q
2
UniProt
VAR_077046
Y
50
S
CSK21_HUMAN
Disease (OCNDS)
869312849
A
Y
50
S
3
UniProt
VAR_077047
D
175
G
CSK21_HUMAN
Disease (OCNDS)
869312848
A
D
175
G
4
UniProt
VAR_077048
K
198
R
CSK21_HUMAN
Disease (OCNDS)
869312840
A
K
198
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: PROTEIN_KINASE_ATP (A:45-68)
2: PROTEIN_KINASE_ST (A:152-164)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PROTEIN_KINASE_ATP
PS00107
Protein kinases ATP-binding region signature.
CSK21_HUMAN
45-68
1
A:45-68
2
PROTEIN_KINASE_ST
PS00108
Serine/Threonine protein kinases active-site signature.
CSK21_HUMAN
152-164
1
A:152-164
[
close PROSITE info
]
Exons
(11, 11)
Info
All Exons
Exon 1.3 (A:2-34)
Exon 1.4 (A:34-71)
Exon 1.5 (A:72-105)
Exon 1.6 (A:106-122)
Exon 1.7 (A:123-142)
Exon 1.8 (A:143-170)
Exon 1.9 (A:171-207)
Exon 1.10 (A:208-241)
Exon 1.11b (A:242-275)
Exon 1.12 (A:275-325)
Exon 1.13 (A:325-335)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1b/1.3
02: Boundary 1.3/1.4
03: Boundary 1.4/1.5
04: Boundary 1.5/1.6
05: Boundary 1.6/1.7
06: Boundary 1.7/1.8
07: Boundary 1.8/1.9
08: Boundary 1.9/1.10
09: Boundary 1.10/1.11b
10: Boundary 1.11b/1.12
11: Boundary 1.12/1.13
12: Boundary 1.13/1.14c
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
ENST00000349736
1b
ENSE00001937660
chr20:
524465-524316
150
CSK21_HUMAN
-
0
0
-
-
1.3
ENST00000349736
3
ENSE00001709328
chr20:
489304-489095
210
CSK21_HUMAN
1-34
34
1
A:2-34
33
1.4
ENST00000349736
4
ENSE00001688643
chr20:
485873-485762
112
CSK21_HUMAN
34-71
38
1
A:34-71
38
1.5
ENST00000349736
5
ENSE00001705871
chr20:
480578-480477
102
CSK21_HUMAN
72-105
34
1
A:72-105
34
1.6
ENST00000349736
6
ENSE00001598088
chr20:
479949-479899
51
CSK21_HUMAN
106-122
17
1
A:106-122
17
1.7
ENST00000349736
7
ENSE00001618963
chr20:
478424-478365
60
CSK21_HUMAN
123-142
20
1
A:123-142
20
1.8
ENST00000349736
8
ENSE00000655095
chr20:
476446-476363
84
CSK21_HUMAN
143-170
28
1
A:143-170
28
1.9
ENST00000349736
9
ENSE00000655092
chr20:
473008-472898
111
CSK21_HUMAN
171-207
37
1
A:171-207
37
1.10
ENST00000349736
10
ENSE00001666435
chr20:
470525-470424
102
CSK21_HUMAN
208-241
34
1
A:208-241
34
1.11b
ENST00000349736
11b
ENSE00000655089
chr20:
469422-469322
101
CSK21_HUMAN
242-275
34
1
A:242-275
34
1.12
ENST00000349736
12
ENSE00000655088
chr20:
468219-468071
149
CSK21_HUMAN
275-325
51
1
A:275-325
51
1.13
ENST00000349736
13
ENSE00000655087
chr20:
467106-467020
87
CSK21_HUMAN
325-354
30
1
A:325-335
11
1.14c
ENST00000349736
14c
ENSE00001891680
chr20:
464720-461741
2980
CSK21_HUMAN
354-391
38
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3wara_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Protein kinase-like (PK-like)
(2589)
Superfamily
:
Protein kinase-like (PK-like)
(2589)
Family
:
Protein kinases, catalytic subunit
(1977)
Protein domain
:
Protein kinase CK2, alpha subunit
(68)
Human (Homo sapiens) [TaxId: 9606]
(36)
1a
d3wara_
A:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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