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2OV2
Asym. Unit
Info
Asym.Unit (302 KB)
Biol.Unit 1 (42 KB)
Biol.Unit 10 (79 KB)
Biol.Unit 11 (77 KB)
Biol.Unit 12 (77 KB)
Biol.Unit 2 (43 KB)
Biol.Unit 3 (42 KB)
Biol.Unit 4 (42 KB)
Biol.Unit 5 (41 KB)
Biol.Unit 6 (42 KB)
Biol.Unit 7 (42 KB)
Biol.Unit 8 (41 KB)
Biol.Unit 9 (76 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF THE HUMAN RAC3 IN COMPLEX WITH THE CRIB DOMAIN OF HUMAN P21-ACTIVATED KINASE 4 (PAK4)
Authors
:
E. Ugochukwu, X. Yang, J. M. Elkins, N. Burgess-Brown, G. Bunkoczi, J. E. D. Debreczeni, M. Sundstrom, C. H. Arrowsmith, J. Weigelt, A. Edw F. Von Delft, S. Knapp, D. A. Doyle, Structural Genomics Consortiu
Date
:
12 Feb 07 (Deposition) - 13 Mar 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,I (1x)
Biol. Unit 2: B,J (1x)
Biol. Unit 3: C,K (1x)
Biol. Unit 4: D,L (1x)
Biol. Unit 5: E,M (1x)
Biol. Unit 6: F,N (1x)
Biol. Unit 7: G,O (1x)
Biol. Unit 8: H,P (1x)
Biol. Unit 9: E,H,M,P (1x)
Biol. Unit 10: A,B,I,J (1x)
Biol. Unit 11: C,D,K,L (1x)
Biol. Unit 12: F,G,N,O (1x)
Keywords
:
Gtpase Rac3, Small Gtp Binding Protein, P21 Rac, Ras-Related C3 Botulinum Toxin Substrate 3, Signalling Protein, Crib, Kinase, Structural Genomics, Structural Genomics Consortium, Sgc, Protein Binding-Transferase Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Ugochukwu, X. Yang, J. M. Elkins, N. Burgess-Brown, S. Knapp, D. A. Doyle
The Crystal Structure Of The Human Rac3 In Complex With The Crib Domain Of Human P21-Activated Kinase 4 (Pak4)
To Be Published
[
close entry info
]
Hetero Components
(4, 27)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
3a: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPa)
3b: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPb)
3c: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPc)
3d: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPd)
3e: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPe)
3f: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPf)
3g: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPg)
3h: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPh)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
4d: MAGNESIUM ION (MGd)
4e: MAGNESIUM ION (MGe)
4f: MAGNESIUM ION (MGf)
4g: MAGNESIUM ION (MGg)
4h: MAGNESIUM ION (MGh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
8
Ligand/Ion
CHLORIDE ION
2
EDO
3
Ligand/Ion
1,2-ETHANEDIOL
3
GCP
8
Ligand/Ion
PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
4
MG
8
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(25, 25)
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)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:17 , THR A:35 , GCP A:200 , HOH A:1222 , HOH A:1250
BINDING SITE FOR RESIDUE MG A 202
02
AC2
SOFTWARE
THR F:17 , THR F:35 , GCP F:200 , HOH F:1302 , HOH F:1334
BINDING SITE FOR RESIDUE MG F 202
03
AC3
SOFTWARE
THR B:17 , THR B:35 , GCP B:200 , HOH B:1220 , HOH B:1253
BINDING SITE FOR RESIDUE MG B 202
04
AC4
SOFTWARE
THR C:17 , THR C:35 , GCP C:200 , HOH C:1308 , HOH C:1360
BINDING SITE FOR RESIDUE MG C 202
05
AC5
SOFTWARE
THR G:17 , THR G:35 , GCP G:200 , HOH G:236 , HOH G:249
BINDING SITE FOR RESIDUE MG G 202
06
AC6
SOFTWARE
THR D:17 , THR D:35 , GCP D:200 , HOH D:1317 , HOH D:1328
BINDING SITE FOR RESIDUE MG D 202
07
AC7
SOFTWARE
THR E:17 , THR E:35 , GCP E:200 , HOH E:1242 , HOH E:1249
BINDING SITE FOR RESIDUE MG E 202
08
AC8
SOFTWARE
THR H:17 , THR H:35 , GCP H:200 , HOH H:217 , HOH H:263
BINDING SITE FOR RESIDUE MG H 202
09
AC9
SOFTWARE
SER A:151
BINDING SITE FOR RESIDUE CL A 1201
10
BC1
SOFTWARE
HOH B:1213 , ARG C:102
BINDING SITE FOR RESIDUE CL C 1203
11
BC2
SOFTWARE
SER B:22 , LEU B:160
BINDING SITE FOR RESIDUE CL B 1204
12
BC3
SOFTWARE
GLN P:27
BINDING SITE FOR RESIDUE CL P 1205
13
BC4
SOFTWARE
PRO N:14
BINDING SITE FOR RESIDUE CL N 1206
14
BC5
SOFTWARE
GLN O:27 , HOH O:759
BINDING SITE FOR RESIDUE CL O 1209
15
BC6
SOFTWARE
ALA A:13 , VAL A:14 , GLY A:15 , LYS A:16 , THR A:17 , CYS A:18 , PHE A:28 , TYR A:32 , PRO A:34 , THR A:35 , GLY A:60 , LYS A:116 , ASP A:118 , LEU A:119 , SER A:158 , ALA A:159 , LEU A:160 , MG A:202 , HOH A:1208 , HOH A:1209 , HOH A:1210 , HOH A:1221 , HOH A:1222 , HOH A:1227 , HOH A:1234 , HOH A:1250 , HOH A:1254 , HOH A:1283 , HOH A:1290 , GLN J:27
BINDING SITE FOR RESIDUE GCP A 200
16
BC7
SOFTWARE
ALA F:13 , VAL F:14 , GLY F:15 , LYS F:16 , THR F:17 , CYS F:18 , PHE F:28 , TYR F:32 , PRO F:34 , THR F:35 , GLY F:60 , LYS F:116 , ASP F:118 , LEU F:119 , SER F:158 , ALA F:159 , LEU F:160 , MG F:202 , EDO F:1301 , HOH F:1302 , HOH F:1303 , HOH F:1319 , HOH F:1332 , HOH F:1333 , HOH F:1334 , HOH F:1335 , HOH G:207 , GLN O:27 , HOH O:586
BINDING SITE FOR RESIDUE GCP F 200
17
BC8
SOFTWARE
HOH A:1241 , ALA B:13 , VAL B:14 , GLY B:15 , LYS B:16 , THR B:17 , CYS B:18 , PHE B:28 , TYR B:32 , PRO B:34 , THR B:35 , GLY B:60 , LYS B:116 , ASP B:118 , LEU B:119 , SER B:158 , ALA B:159 , LEU B:160 , MG B:202 , HOH B:1205 , HOH B:1209 , HOH B:1219 , HOH B:1220 , HOH B:1226 , HOH B:1228 , HOH B:1232 , HOH B:1253 , GLN I:27
BINDING SITE FOR RESIDUE GCP B 200
18
BC9
SOFTWARE
ALA C:13 , VAL C:14 , GLY C:15 , LYS C:16 , THR C:17 , CYS C:18 , PHE C:28 , TYR C:32 , PRO C:34 , THR C:35 , GLY C:60 , LYS C:116 , ASP C:118 , LEU C:119 , SER C:158 , ALA C:159 , LEU C:160 , MG C:202 , EDO C:1302 , HOH C:1303 , HOH C:1307 , HOH C:1308 , HOH C:1321 , HOH C:1330 , HOH C:1338 , HOH C:1339 , HOH C:1360 , GLN L:27
BINDING SITE FOR RESIDUE GCP C 200
19
CC1
SOFTWARE
HOH F:1304 , ALA G:13 , VAL G:14 , GLY G:15 , LYS G:16 , THR G:17 , CYS G:18 , PHE G:28 , TYR G:32 , PRO G:34 , THR G:35 , GLY G:60 , LYS G:116 , ASP G:118 , LEU G:119 , SER G:158 , ALA G:159 , LEU G:160 , MG G:202 , HOH G:203 , HOH G:204 , HOH G:213 , HOH G:221 , HOH G:225 , HOH G:236 , HOH G:237 , HOH G:249 , GLN N:27 , HOH N:530
BINDING SITE FOR RESIDUE GCP G 200
20
CC2
SOFTWARE
ALA D:13 , VAL D:14 , GLY D:15 , LYS D:16 , THR D:17 , CYS D:18 , PHE D:28 , TYR D:32 , PRO D:34 , THR D:35 , GLY D:60 , LYS D:116 , ASP D:118 , SER D:158 , ALA D:159 , LEU D:160 , MG D:202 , EDO D:1303 , HOH D:1305 , HOH D:1317 , HOH D:1328 , HOH D:1330 , HOH D:1333 , HOH D:1334 , HOH D:1339 , HOH D:1340 , GLN K:27
BINDING SITE FOR RESIDUE GCP D 200
21
CC3
SOFTWARE
ALA E:13 , VAL E:14 , GLY E:15 , LYS E:16 , THR E:17 , CYS E:18 , PHE E:28 , TYR E:32 , PRO E:34 , THR E:35 , GLY E:60 , LYS E:116 , ASP E:118 , LEU E:119 , SER E:158 , ALA E:159 , LEU E:160 , MG E:202 , HOH E:1209 , HOH E:1213 , HOH E:1215 , HOH E:1216 , HOH E:1240 , HOH E:1242 , HOH E:1249 , HOH E:1259 , HOH H:208 , GLN P:27
BINDING SITE FOR RESIDUE GCP E 200
22
CC4
SOFTWARE
HOH E:1225 , ALA H:13 , VAL H:14 , GLY H:15 , LYS H:16 , THR H:17 , CYS H:18 , PHE H:28 , TYR H:32 , PRO H:34 , THR H:35 , GLY H:60 , LYS H:116 , ASP H:118 , LEU H:119 , SER H:158 , ALA H:159 , LEU H:160 , MG H:202 , HOH H:207 , HOH H:215 , HOH H:217 , HOH H:219 , HOH H:225 , HOH H:239 , HOH H:247 , HOH H:263 , HOH H:306 , GLN M:27 , HOH M:595
BINDING SITE FOR RESIDUE GCP H 200
23
CC5
SOFTWARE
PRO F:29 , GLU F:31 , TYR F:32 , ILE F:33 , GCP F:200 , HOH F:1373
BINDING SITE FOR RESIDUE EDO F 1301
24
CC6
SOFTWARE
THR C:17 , GLU C:31 , TYR C:32 , ILE C:33 , GCP C:200 , HOH C:1407
BINDING SITE FOR RESIDUE EDO C 1302
25
CC7
SOFTWARE
THR D:17 , GLU D:31 , TYR D:32 , ILE D:33 , GCP D:200 , HOH D:1364
BINDING SITE FOR RESIDUE EDO D 1303
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 15)
Info
All PROSITE Patterns/Profiles
1: RHO (A:1-176,B:1-176,C:1-176,D:1-176,F:...)
2: CRIB (I:11-24,J:11-24,K:11-24,L:11-24,M:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RHO
PS51420
small GTPase Rho family profile.
RAC3_HUMAN
1-176
7
A:1-176
B:1-176
C:1-176
D:1-176
F:1-176
G:1-176
H:1-176
2
CRIB
PS50108
CRIB domain profile.
PAK4_HUMAN
11-24
8
I:11-24
J:11-24
K:11-24
L:11-24
M:11-24
N:11-24
O:11-24
P:11-24
[
close PROSITE info
]
Exons
(7, 56)
Info
All Exons
Exon 1.1 (A:1-12 | B:1-12 | C:1-12 | D:1-12 ...)
Exon 1.2 (A:12-36 | B:12-36 | C:12-36 | D:12...)
Exon 1.3 (A:36-75 | B:36-75 | C:36-75 | D:36...)
Exon 1.4 (A:76-96 | B:76-96 | C:76-96 | D:76...)
Exon 1.5 (A:97-150 | B:97-150 | C:97-150 | D...)
Exon 1.6 (A:150-178 | B:150-177 | C:150-178 ...)
Exon 2.3b (I:10-43 | J:10-44 | K:10-43 | L:10...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4
5: Boundary 1.4/1.5
6: Boundary 1.5/1.6
7: Boundary 1.6/-
8: Boundary 2.2/2.3b
9: Boundary 2.3b/2.4
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
ENST00000306897
1
ENSE00001289808
chr17:
79989532-79989672
141
RAC3_HUMAN
1-12
12
8
A:1-12
B:1-12
C:1-12
D:1-12
E:2-12
F:1-12
G:1-12
H:1-12
12
12
12
12
11
12
12
12
1.2
ENST00000306897
2
ENSE00001328203
chr17:
79990263-79990334
72
RAC3_HUMAN
12-36
25
8
A:12-36
B:12-36
C:12-36
D:12-36
E:12-36
F:12-36
G:12-36
H:12-36
25
25
25
25
25
25
25
25
1.3
ENST00000306897
3
ENSE00001164123
chr17:
79990587-79990704
118
RAC3_HUMAN
36-75
40
8
A:36-75
B:36-75
C:36-75
D:36-75
E:36-75
F:36-75
G:36-75
H:36-75
40
40
40
40
40
40
40
40
1.4
ENST00000306897
4
ENSE00001164119
chr17:
79990823-79990885
63
RAC3_HUMAN
76-96
21
8
A:76-96
B:76-96
C:76-96
D:76-96
E:76-96
F:76-96
G:76-96
H:76-96
21
21
21
21
21
21
21
21
1.5
ENST00000306897
5
ENSE00001779448
chr17:
79991316-79991475
160
RAC3_HUMAN
97-150
54
8
A:97-150
B:97-150
C:97-150
D:97-150
E:97-150
F:97-150
G:97-150
H:97-150 (gaps)
54
54
54
54
54
54
54
54
1.6
ENST00000306897
6
ENSE00001314642
chr17:
79991575-79992077
503
RAC3_HUMAN
150-192
43
8
A:150-178
B:150-177
C:150-178
D:150-178
E:150-178
F:150-178
G:150-178
H:150-178
29
28
29
29
29
29
29
29
2.2
ENST00000360442
2
ENSE00001510615
chr19:
39659251-39659480
230
PAK4_HUMAN
-
0
0
-
-
2.3b
ENST00000360442
3b
ENSE00000882572
chr19:
39660172-39660397
226
PAK4_HUMAN
1-68
68
8
I:10-43
J:10-44
K:10-43
L:10-44
M:10-43
N:10-44
O:10-43
P:10-42
34
35
34
35
34
35
34
33
2.4
ENST00000360442
4
ENSE00001242921
chr19:
39663558-39664016
459
PAK4_HUMAN
69-221
153
0
-
-
2.5
ENST00000360442
5
ENSE00000882573
chr19:
39664216-39664650
435
PAK4_HUMAN
222-366
145
0
-
-
2.6
ENST00000360442
6
ENSE00001777324
chr19:
39665571-39665704
134
PAK4_HUMAN
367-411
45
0
-
-
2.7
ENST00000360442
7
ENSE00000882575
chr19:
39665952-39666078
127
PAK4_HUMAN
411-453
43
0
-
-
2.8
ENST00000360442
8
ENSE00000704690
chr19:
39667230-39667355
126
PAK4_HUMAN
454-495
42
0
-
-
2.9
ENST00000360442
9
ENSE00000882577
chr19:
39668315-39668449
135
PAK4_HUMAN
496-540
45
0
-
-
2.10
ENST00000360442
10
ENSE00001296813
chr19:
39669064-39670046
983
PAK4_HUMAN
541-591
51
0
-
-
[
close EXON info
]
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d2ov2a_ (A:)
1b: SCOP_d2ov2f_ (F:)
1c: SCOP_d2ov2g_ (G:)
1d: SCOP_d2ov2h_ (H:)
1e: SCOP_d2ov2b_ (B:)
1f: SCOP_d2ov2c_ (C:)
1g: SCOP_d2ov2d_ (D:)
1h: SCOP_d2ov2e_ (E:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
G proteins
(693)
Protein domain
:
automated matches
(173)
Human (Homo sapiens) [TaxId: 9606]
(112)
1a
d2ov2a_
A:
1b
d2ov2f_
F:
1c
d2ov2g_
G:
1d
d2ov2h_
H:
1e
d2ov2b_
B:
1f
d2ov2c_
C:
1g
d2ov2d_
D:
1h
d2ov2e_
E:
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2ov2D00 (D:0-178)
1b: CATH_2ov2F00 (F:0-178)
1c: CATH_2ov2A00 (A:1-178)
1d: CATH_2ov2B00 (B:0-177)
1e: CATH_2ov2C00 (C:1-178)
1f: CATH_2ov2G00 (G:1-178)
1g: CATH_2ov2H00 (H:0-178)
1h: CATH_2ov2E00 (E:2-178)
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Human (Homo sapiens)
(413)
1a
2ov2D00
D:0-178
1b
2ov2F00
F:0-178
1c
2ov2A00
A:1-178
1d
2ov2B00
B:0-177
1e
2ov2C00
C:1-178
1f
2ov2G00
G:1-178
1g
2ov2H00
H:0-178
1h
2ov2E00
E:2-178
[
close CATH info
]
Pfam Domains
(2, 16)
Info
all PFAM domains
1a: PFAM_Ras_2ov2H01 (H:5-177)
1b: PFAM_Ras_2ov2H02 (H:5-177)
1c: PFAM_Ras_2ov2H03 (H:5-177)
1d: PFAM_Ras_2ov2H04 (H:5-177)
1e: PFAM_Ras_2ov2H05 (H:5-177)
1f: PFAM_Ras_2ov2H06 (H:5-177)
1g: PFAM_Ras_2ov2H07 (H:5-177)
1h: PFAM_Ras_2ov2H08 (H:5-177)
2a: PFAM_PBD_2ov2P01 (P:10-42)
2b: PFAM_PBD_2ov2P02 (P:10-42)
2c: PFAM_PBD_2ov2P03 (P:10-42)
2d: PFAM_PBD_2ov2P04 (P:10-42)
2e: PFAM_PBD_2ov2P05 (P:10-42)
2f: PFAM_PBD_2ov2P06 (P:10-42)
2g: PFAM_PBD_2ov2P07 (P:10-42)
2h: PFAM_PBD_2ov2P08 (P:10-42)
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Clan
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P-loop_NTPase
(1112)
Family
:
Ras
(176)
Homo sapiens (Human)
(141)
1a
Ras-2ov2H01
H:5-177
1b
Ras-2ov2H02
H:5-177
1c
Ras-2ov2H03
H:5-177
1d
Ras-2ov2H04
H:5-177
1e
Ras-2ov2H05
H:5-177
1f
Ras-2ov2H06
H:5-177
1g
Ras-2ov2H07
H:5-177
1h
Ras-2ov2H08
H:5-177
Clan
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no clan defined [family: PBD]
(6)
Family
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PBD
(6)
Homo sapiens (Human)
(6)
2a
PBD-2ov2P01
P:10-42
2b
PBD-2ov2P02
P:10-42
2c
PBD-2ov2P03
P:10-42
2d
PBD-2ov2P04
P:10-42
2e
PBD-2ov2P05
P:10-42
2f
PBD-2ov2P06
P:10-42
2g
PBD-2ov2P07
P:10-42
2h
PBD-2ov2P08
P:10-42
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