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3NYO
Asym. Unit
Info
Asym.Unit (392 KB)
Biol.Unit 1 (193 KB)
Biol.Unit 2 (196 KB)
Biol.Unit 3 (385 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF G PROTEIN-COUPLED RECEPTOR KINASE 6 IN COMPLEX WITH AMP
Authors
:
J. J. G. Tesmer, P. Singh
Date
:
15 Jul 10 (Deposition) - 22 Sep 10 (Release) - 19 Jan 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.92
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (1x)
Keywords
:
Kinase, Grk, Rgs Homology Domain, G Protein-Coupled Receptor Kinase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. A. Boguth, P. Singh, C. C. Huang, J. J. Tesmer
Molecular Basis For Activation Of G Protein-Coupled Recepto Kinases.
Embo J. V. 29 3249 2010
[
close entry info
]
Hetero Components
(4, 19)
Info
All Hetero Components
1a: ACETYL GROUP (ACEa)
1b: ACETYL GROUP (ACEb)
2a: ADENOSINE MONOPHOSPHATE (AMPa)
2b: ADENOSINE MONOPHOSPHATE (AMPb)
3a: (R,R)-2,3-BUTANEDIOL (BU3a)
3b: (R,R)-2,3-BUTANEDIOL (BU3b)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
4e: SULFATE ION (SO4e)
4f: SULFATE ION (SO4f)
4g: SULFATE ION (SO4g)
4h: SULFATE ION (SO4h)
4i: SULFATE ION (SO4i)
4j: SULFATE ION (SO4j)
4k: SULFATE ION (SO4k)
4l: SULFATE ION (SO4l)
4m: SULFATE ION (SO4m)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACE
2
Mod. Amino Acid
ACETYL GROUP
2
AMP
2
Ligand/Ion
ADENOSINE MONOPHOSPHATE
3
BU3
2
Ligand/Ion
(R,R)-2,3-BUTANEDIOL
4
SO4
13
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(17, 17)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:194 , GLY A:195 , VAL A:200 , ALA A:213 , LYS A:215 , THR A:264 , MET A:266 , ASP A:270 , GLU A:315 , ASN A:316 , LEU A:318 , ASP A:329 , HOH A:587
BINDING SITE FOR RESIDUE AMP A 577
02
AC2
SOFTWARE
SER A:27 , ARG A:187 , ARG A:206 , ACE B:1 , GLU B:2
BINDING SITE FOR RESIDUE SO4 A 578
03
AC3
SOFTWARE
ASP A:95 , ASN A:452 , ARG A:455
BINDING SITE FOR RESIDUE SO4 A 579
04
AC4
SOFTWARE
TRP A:30 , ARG A:31
BINDING SITE FOR RESIDUE SO4 A 580
05
AC5
SOFTWARE
LYS A:29 , ASN A:184 , ARG A:206
BINDING SITE FOR RESIDUE SO4 A 581
06
AC6
SOFTWARE
ARG A:59 , ASN A:242 , TRP B:539 , LYS B:540
BINDING SITE FOR RESIDUE SO4 A 582
07
AC7
SOFTWARE
TYR A:53 , CYS A:57 , ARG A:64
BINDING SITE FOR RESIDUE BU3 A 583
08
AC8
SOFTWARE
LYS A:272 , HIS A:277 , LYS A:475
BINDING SITE FOR RESIDUE SO4 A 584
09
AC9
SOFTWARE
LYS A:183 , THR A:255 , LYS A:256
BINDING SITE FOR RESIDUE SO4 A 585
10
BC1
SOFTWARE
LYS B:194 , GLY B:195 , VAL B:200 , ALA B:213 , LYS B:215 , THR B:264 , MET B:266 , ASP B:270 , GLU B:315 , ASN B:316 , LEU B:318 , ASP B:329
BINDING SITE FOR RESIDUE AMP B 577
11
BC2
SOFTWARE
ACE A:1 , GLU A:2 , SER B:27 , ARG B:187 , ARG B:206
BINDING SITE FOR RESIDUE SO4 B 578
12
BC3
SOFTWARE
PRO B:94 , ASP B:95 , ARG B:98 , ASN B:452 , ARG B:455
BINDING SITE FOR RESIDUE SO4 B 579
13
BC4
SOFTWARE
TRP B:30 , ARG B:31
BINDING SITE FOR RESIDUE SO4 B 580
14
BC5
SOFTWARE
LYS B:29 , ARG B:206
BINDING SITE FOR RESIDUE SO4 B 581
15
BC6
SOFTWARE
TRP A:539 , LYS A:540 , ARG B:59 , ASN B:242
BINDING SITE FOR RESIDUE SO4 A 586
16
BC7
SOFTWARE
TYR B:53 , CYS B:57 , ARG B:64 , ARG B:68
BINDING SITE FOR RESIDUE BU3 B 583
17
BC8
SOFTWARE
LYS B:272 , HIS B:277 , LYS B:475
BINDING SITE FOR RESIDUE SO4 B 584
[
close Site info
]
SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_040524 (R31Q, chain A/B, )
2: VAR_040525 (T73M, chain A/B, )
3: VAR_040526 (I275M, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_040524
R
31
Q
GRK6_HUMAN
Unclassified
---
A/B
R
31
Q
2
UniProt
VAR_040525
T
73
M
GRK6_HUMAN
Polymorphism
56382815
A/B
T
73
M
3
UniProt
VAR_040526
I
275
M
GRK6_HUMAN
Unclassified
---
A/B
I
275
M
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 8)
Info
All PROSITE Patterns/Profiles
1: RGS (A:59-171,B:59-171)
2: PROTEIN_KINASE_ATP (A:192-224,B:192-224)
3: PROTEIN_KINASE_ST (A:307-319,B:307-319)
4: AGC_KINASE_CTER (A:449-514,B:449-514)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RGS
PS50132
RGS domain profile.
GRK6_HUMAN
59-171
2
A:59-171
B:59-171
2
PROTEIN_KINASE_ATP
PS00107
Protein kinases ATP-binding region signature.
GRK6_HUMAN
192-224
2
A:192-224
B:192-224
3
PROTEIN_KINASE_ST
PS00108
Serine/Threonine protein kinases active-site signature.
GRK6_HUMAN
307-319
2
A:307-319
B:307-319
4
AGC_KINASE_CTER
PS51285
AGC-kinase C-terminal domain profile.
GRK6_HUMAN
449-514
2
A:449-514
B:449-514
[
close PROSITE info
]
Exons
(15, 30)
Info
All Exons
Exon 1.4a (A:1-18 | B:1-18)
Exon 1.5b (A:18-50 | B:18-50)
Exon 1.6b (A:50-87 | B:50-87)
Exon 1.7b (A:88-113 | B:88-113)
Exon 1.8 (A:114-147 | B:114-147)
Exon 1.9b (A:147-178 | B:147-178)
Exon 1.10 (A:178-199 | B:178-199)
Exon 1.11 (A:200-246 | B:200-246)
Exon 1.12b (A:247-310 | B:247-310)
Exon 1.13 (A:310-323 | B:310-323)
Exon 1.14 (A:323-353 | B:323-353)
Exon 1.15b (A:353-422 (gaps) | B:353-422 (gaps...)
Exon 1.16a (A:423-468 | B:423-468)
Exon 1.17 (A:469-514 | B:469-514)
Exon 1.18 (A:515-557 | B:515-557)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.4a
02: Boundary 1.4a/1.5b
03: Boundary 1.5b/1.6b
04: Boundary 1.6b/1.7b
05: Boundary 1.7b/1.8
06: Boundary 1.8/1.9b
07: Boundary 1.9b/1.10
08: Boundary 1.10/1.11
09: Boundary 1.11/1.12b
10: Boundary 1.12b/1.13
11: Boundary 1.13/1.14
12: Boundary 1.14/1.15b
13: Boundary 1.15b/1.16a
14: Boundary 1.16a/1.17
15: Boundary 1.17/1.18
16: Boundary 1.18/1.20c
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
1.4a
ENST00000355472
4a
ENSE00002047192
chr5:
176853679-176853898
220
GRK6_HUMAN
1-18
18
2
A:1-18
B:1-18
18
18
1.5b
ENST00000355472
5b
ENSE00000898139
chr5:
176857873-176857968
96
GRK6_HUMAN
18-50
33
2
A:18-50
B:18-50
33
33
1.6b
ENST00000355472
6b
ENSE00000898138
chr5:
176858996-176859108
113
GRK6_HUMAN
50-87
38
2
A:50-87
B:50-87
38
38
1.7b
ENST00000355472
7b
ENSE00001054992
chr5:
176859234-176859311
78
GRK6_HUMAN
88-113
26
2
A:88-113
B:88-113
26
26
1.8
ENST00000355472
8
ENSE00001054998
chr5:
176859707-176859807
101
GRK6_HUMAN
114-147
34
2
A:114-147
B:114-147
34
34
1.9b
ENST00000355472
9b
ENSE00000898134
chr5:
176860148-176860240
93
GRK6_HUMAN
147-178
32
2
A:147-178
B:147-178
32
32
1.10
ENST00000355472
10
ENSE00001721473
chr5:
176860348-176860411
64
GRK6_HUMAN
178-199
22
2
A:178-199
B:178-199
22
22
1.11
ENST00000355472
11
ENSE00001725586
chr5:
176860537-176860677
141
GRK6_HUMAN
200-246
47
2
A:200-246
B:200-246
47
47
1.12b
ENST00000355472
12b
ENSE00000898131
chr5:
176860915-176861105
191
GRK6_HUMAN
247-310
64
2
A:247-310
B:247-310
64
64
1.13
ENST00000355472
13
ENSE00000898130
chr5:
176861903-176861940
38
GRK6_HUMAN
310-323
14
2
A:310-323
B:310-323
14
14
1.14
ENST00000355472
14
ENSE00000898129
chr5:
176862033-176862122
90
GRK6_HUMAN
323-353
31
2
A:323-353
B:323-353
31
31
1.15b
ENST00000355472
15b
ENSE00001293713
chr5:
176863074-176863282
209
GRK6_HUMAN
353-422
70
2
A:353-422 (gaps)
B:353-422 (gaps)
70
70
1.16a
ENST00000355472
16a
ENSE00001310649
chr5:
176863394-176863531
138
GRK6_HUMAN
423-468
46
2
A:423-468
B:423-468
46
46
1.17
ENST00000355472
17
ENSE00000828943
chr5:
176867701-176867838
138
GRK6_HUMAN
469-514
46
2
A:469-514
B:469-514
46
46
1.18
ENST00000355472
18
ENSE00001054991
chr5:
176867920-176868054
135
GRK6_HUMAN
515-559
45
2
A:515-557
B:515-557
43
43
1.20c
ENST00000355472
20c
ENSE00001515898
chr5:
176868738-176869831
1094
GRK6_HUMAN
560-576
17
0
-
-
[
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]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
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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, 4)
Info
all PFAM domains
1a: PFAM_Pkinase_3nyoB01 (B:186-448)
1b: PFAM_Pkinase_3nyoB02 (B:186-448)
2a: PFAM_RGS_3nyoB03 (B:52-170)
2b: PFAM_RGS_3nyoB04 (B:52-170)
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Clans
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(
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Organisms
(
)
(
)
Clan
:
PKinase
(934)
Family
:
Pkinase
(680)
Homo sapiens (Human)
(521)
1a
Pkinase-3nyoB01
B:186-448
1b
Pkinase-3nyoB02
B:186-448
Clan
:
RGS
(17)
Family
:
RGS
(16)
Homo sapiens (Human)
(9)
2a
RGS-3nyoB03
B:52-170
2b
RGS-3nyoB04
B:52-170
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Asym.Unit (392 KB)
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