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3QMN
Biol. Unit 5
Info
Asym.Unit (1.1 MB)
Biol.Unit 1 (151 KB)
Biol.Unit 2 (150 KB)
Biol.Unit 3 (149 KB)
Biol.Unit 4 (150 KB)
Biol.Unit 5 (151 KB)
Biol.Unit 6 (150 KB)
Biol.Unit 7 (152 KB)
Biol.Unit 8 (148 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF 4'-PHOSPHOPANTETHEINYL TRANSFERASE ACPS FROM VIBRIO CHOLERAE O1 BIOVAR ELTOR
Authors
:
Y. Kim, A. S. Halavaty, M. Zhou, K. Kwon, W. F. Anderson, A. Joachimiak, C Structural Genomics Of Infectious Diseases (Csgid)
Date
:
04 Feb 11 (Deposition) - 02 Mar 11 (Release) - 05 Dec 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Biol. Unit 3: G,H,I (1x)
Biol. Unit 4: J,K,L (1x)
Biol. Unit 5: M,N,O (1x)
Biol. Unit 6: P,Q,R (1x)
Biol. Unit 7: S,T,U (1x)
Biol. Unit 8: V,W,X (1x)
Keywords
:
Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Alpha-Beta Sandwich, Transferase, Acyl Carrier Protein, Cytosol
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. S. Halavaty, Y. Kim, G. Minasov, L. Shuvalova, I. Dubrovska, J. Winsor, M. Zhou, O. Onopriyenko, T. Skarina, L. Papazisi, K. Kwon, S. N. Peterson, A. Joachimiak, A. Savchenko, W. F. Anderson
Structural Characterization And Comparison Of Three Acyl-Carrier-Protein Synthases From Pathogenic Bacteria.
Acta Crystallogr. , Sect. D V. 68 1359 2012
[
close entry info
]
Hetero Components
(5, 13)
Info
All Hetero Components
1a: ADENOSINE-3'-5'-DIPHOSPHATE (A3Pa)
2a: ACETATE ION (ACTa)
2b: ACETATE ION (ACTb)
2c: ACETATE ION (ACTc)
2d: ACETATE ION (ACTd)
2e: ACETATE ION (ACTe)
2f: ACETATE ION (ACTf)
2g: ACETATE ION (ACTg)
2h: ACETATE ION (ACTh)
3a: CALCIUM ION (CAa)
3aa: CALCIUM ION (CAaa)
3ab: CALCIUM ION (CAab)
3ac: CALCIUM ION (CAac)
3ad: CALCIUM ION (CAad)
3ae: CALCIUM ION (CAae)
3af: CALCIUM ION (CAaf)
3ag: CALCIUM ION (CAag)
3ah: CALCIUM ION (CAah)
3ai: CALCIUM ION (CAai)
3aj: CALCIUM ION (CAaj)
3ak: CALCIUM ION (CAak)
3al: CALCIUM ION (CAal)
3am: CALCIUM ION (CAam)
3an: CALCIUM ION (CAan)
3ao: CALCIUM ION (CAao)
3ap: CALCIUM ION (CAap)
3aq: CALCIUM ION (CAaq)
3ar: CALCIUM ION (CAar)
3as: CALCIUM ION (CAas)
3at: CALCIUM ION (CAat)
3b: CALCIUM ION (CAb)
3c: CALCIUM ION (CAc)
3d: CALCIUM ION (CAd)
3e: CALCIUM ION (CAe)
3f: CALCIUM ION (CAf)
3g: CALCIUM ION (CAg)
3h: CALCIUM ION (CAh)
3i: CALCIUM ION (CAi)
3j: CALCIUM ION (CAj)
3k: CALCIUM ION (CAk)
3l: CALCIUM ION (CAl)
3m: CALCIUM ION (CAm)
3n: CALCIUM ION (CAn)
3o: CALCIUM ION (CAo)
3p: CALCIUM ION (CAp)
3q: CALCIUM ION (CAq)
3r: CALCIUM ION (CAr)
3s: CALCIUM ION (CAs)
3t: CALCIUM ION (CAt)
3u: CALCIUM ION (CAu)
3v: CALCIUM ION (CAv)
3w: CALCIUM ION (CAw)
3x: CALCIUM ION (CAx)
3y: CALCIUM ION (CAy)
3z: CALCIUM ION (CAz)
4a: CHLORIDE ION (CLa)
4b: CHLORIDE ION (CLb)
4c: CHLORIDE ION (CLc)
4d: CHLORIDE ION (CLd)
4e: CHLORIDE ION (CLe)
4f: CHLORIDE ION (CLf)
4g: CHLORIDE ION (CLg)
4h: CHLORIDE ION (CLh)
4i: CHLORIDE ION (CLi)
5a: COENZYME A (COAa)
5b: COENZYME A (COAb)
5c: COENZYME A (COAc)
5d: COENZYME A (COAd)
5e: COENZYME A (COAe)
5f: COENZYME A (COAf)
5g: COENZYME A (COAg)
5h: COENZYME A (COAh)
5i: COENZYME A (COAi)
5j: COENZYME A (COAj)
5k: COENZYME A (COAk)
5l: COENZYME A (COAl)
5m: COENZYME A (COAm)
5n: COENZYME A (COAn)
5o: COENZYME A (COAo)
5p: COENZYME A (COAp)
5q: COENZYME A (COAq)
5r: COENZYME A (COAr)
5s: COENZYME A (COAs)
5t: COENZYME A (COAt)
5u: COENZYME A (COAu)
5v: COENZYME A (COAv)
5w: COENZYME A (COAw)
5x: COENZYME A (COAx)
6a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
6b: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDb)
6c: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDc)
6d: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDd)
6e: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDe)
6f: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDf)
6g: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDg)
6h: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDh)
6i: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDi)
6j: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDj)
6k: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDk)
6l: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDl)
6m: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDm)
6n: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDn)
6o: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDo)
6p: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDp)
7a: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDa)
7b: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDb)
7c: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDc)
7d: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDd)
7e: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDe)
7f: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDf)
8a: SELENOMETHIONINE (MSEa)
8aa: SELENOMETHIONINE (MSEaa)
8ab: SELENOMETHIONINE (MSEab)
8ac: SELENOMETHIONINE (MSEac)
8ad: SELENOMETHIONINE (MSEad)
8ae: SELENOMETHIONINE (MSEae)
8af: SELENOMETHIONINE (MSEaf)
8ag: SELENOMETHIONINE (MSEag)
8ah: SELENOMETHIONINE (MSEah)
8ai: SELENOMETHIONINE (MSEai)
8aj: SELENOMETHIONINE (MSEaj)
8ak: SELENOMETHIONINE (MSEak)
8al: SELENOMETHIONINE (MSEal)
8am: SELENOMETHIONINE (MSEam)
8an: SELENOMETHIONINE (MSEan)
8ao: SELENOMETHIONINE (MSEao)
8ap: SELENOMETHIONINE (MSEap)
8aq: SELENOMETHIONINE (MSEaq)
8ar: SELENOMETHIONINE (MSEar)
8as: SELENOMETHIONINE (MSEas)
8at: SELENOMETHIONINE (MSEat)
8au: SELENOMETHIONINE (MSEau)
8av: SELENOMETHIONINE (MSEav)
8b: SELENOMETHIONINE (MSEb)
8c: SELENOMETHIONINE (MSEc)
8d: SELENOMETHIONINE (MSEd)
8e: SELENOMETHIONINE (MSEe)
8f: SELENOMETHIONINE (MSEf)
8g: SELENOMETHIONINE (MSEg)
8h: SELENOMETHIONINE (MSEh)
8i: SELENOMETHIONINE (MSEi)
8j: SELENOMETHIONINE (MSEj)
8k: SELENOMETHIONINE (MSEk)
8l: SELENOMETHIONINE (MSEl)
8m: SELENOMETHIONINE (MSEm)
8n: SELENOMETHIONINE (MSEn)
8o: SELENOMETHIONINE (MSEo)
8p: SELENOMETHIONINE (MSEp)
8q: SELENOMETHIONINE (MSEq)
8r: SELENOMETHIONINE (MSEr)
8s: SELENOMETHIONINE (MSEs)
8t: SELENOMETHIONINE (MSEt)
8u: SELENOMETHIONINE (MSEu)
8v: SELENOMETHIONINE (MSEv)
8w: SELENOMETHIONINE (MSEw)
8x: SELENOMETHIONINE (MSEx)
8y: SELENOMETHIONINE (MSEy)
8z: SELENOMETHIONINE (MSEz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
A3P
1
Ligand/Ion
ADENOSINE-3'-5'-DIPHOSPHATE
2
ACT
-1
Ligand/Ion
ACETATE ION
3
CA
-1
Ligand/Ion
CALCIUM ION
4
CL
-1
Ligand/Ion
CHLORIDE ION
5
COA
3
Ligand/Ion
COENZYME A
6
MPD
2
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
7
MRD
1
Ligand/Ion
(4R)-2-METHYLPENTANE-2,4-DIOL
8
MSE
6
Mod. Amino Acid
SELENOMETHIONINE
[
close Hetero Component info
]
Sites
(12, 12)
Info
All Sites
01: GC5 (SOFTWARE)
02: GC6 (SOFTWARE)
03: GC7 (SOFTWARE)
04: GC8 (SOFTWARE)
05: GC9 (SOFTWARE)
06: HC1 (SOFTWARE)
07: HC2 (SOFTWARE)
08: HC3 (SOFTWARE)
09: HC4 (SOFTWARE)
10: HC5 (SOFTWARE)
11: HC6 (SOFTWARE)
12: HC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
GC5
SOFTWARE
ASP M:112 , HOH M:2391 , COA O:1127 , HOH O:1343
BINDING SITE FOR RESIDUE CA M 2530
02
GC6
SOFTWARE
ASP M:8 , GLU M:57 , HOH M:1154 , COA N:1221 , HOH N:1288
BINDING SITE FOR RESIDUE CA M 2533
03
GC7
SOFTWARE
GLN M:44 , PHE M:48 , LYS M:51 , HOH O:2407
BINDING SITE FOR RESIDUE CL M 2555
04
GC8
SOFTWARE
ARG M:14 , VAL M:15 , PHE M:53 , COA N:1221
BINDING SITE FOR RESIDUE MPD M 2572
05
GC9
SOFTWARE
GLN G:102 , ASP M:8 , GLU M:57 , SER M:60 , LYS M:61 , GLY M:64 , THR M:65 , GLY M:66 , ILE M:67 , HOH M:1159 , CA M:2533 , MPD M:2572 , LYS N:51 , HIS N:80 , LEU N:83 , GLY N:84 , LYS N:85 , PRO N:86 , ILE N:110 , SER N:111 , ASP N:112 , HOH N:1222 , HOH N:1223 , HOH N:1259 , HOH N:1270 , HOH N:1289 , HOH N:1292 , HOH N:1296 , HOH N:1301 , HOH N:1329 , HOH N:1331 , CA N:2532
BINDING SITE FOR RESIDUE COA N 1221
06
HC1
SOFTWARE
ASP N:8 , GLU N:57 , LYS N:61 , GLY N:64 , THR N:65 , GLY N:66 , ILE N:67 , HOH N:1232 , HOH N:1279 , HOH N:1354 , HOH N:1358 , HOH N:1384 , HOH N:1393 , HOH N:2227 , HOH N:2392 , HOH N:2393 , HOH N:2423 , HOH N:2424 , HOH N:2425 , HOH N:2428 , MRD N:2565 , LYS O:51 , HIS O:80 , LEU O:83 , GLY O:84 , LYS O:85 , PRO O:86 , ILE O:110 , SER O:111 , ASP O:112 , HOH O:1341 , HOH O:1381 , HOH O:2422 , HOH O:2426
BINDING SITE FOR RESIDUE COA N 1333
07
HC2
SOFTWARE
ASP N:112 , COA N:1221 , HOH N:1259 , HOH N:1330
BINDING SITE FOR RESIDUE CA N 2532
08
HC3
SOFTWARE
GLU N:11 , ARG N:14 , COA N:1333 , HOH N:2223
BINDING SITE FOR RESIDUE MRD N 2565
09
HC4
SOFTWARE
LYS M:51 , HIS M:80 , LEU M:83 , GLY M:84 , LYS M:85 , PRO M:86 , ILE M:110 , SER M:111 , ASP M:112 , HOH M:1128 , HOH M:1193 , CA M:2530 , ASP O:8 , GLU O:57 , SER O:60 , LYS O:61 , GLY O:64 , THR O:65 , GLY O:66 , ILE O:67 , MPD O:1334 , HOH O:1340 , HOH O:1343 , HOH O:1374 , HOH O:1391 , HOH O:1403 , HOH O:1421 , HOH O:2406 , HOH O:2407 , HOH O:2409 , CA O:2531
BINDING SITE FOR RESIDUE COA O 1127
10
HC5
SOFTWARE
ALA O:10 , ARG O:14 , PHE O:53 , COA O:1127 , HOH O:1339
BINDING SITE FOR RESIDUE MPD O 1334
11
HC6
SOFTWARE
HOH M:1363 , ASP O:8 , GLU O:57 , COA O:1127 , HOH O:1376
BINDING SITE FOR RESIDUE CA O 2531
12
HC7
SOFTWARE
LYS N:61 , GLY N:64 , THR N:65 , GLY N:66 , HOH N:1354 , HOH N:1358 , HOH N:1384 , HOH N:1393 , HOH N:2393 , HOH N:2423 , LYS O:51 , HIS O:80 , LEU O:83 , GLY O:84 , LYS O:85 , PRO O:86 , ILE O:110 , ASP O:112 , HOH O:1341 , HOH O:1372 , HOH O:1381 , HOH O:1388 , HOH O:2422 , HOH O:2426
BINDING SITE FOR RESIDUE A3P O 2575
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
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Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 24)
Info
All SCOP Domains
1a: SCOP_d3qmna_ (A:)
1b: SCOP_d3qmnb_ (B:)
1c: SCOP_d3qmnk_ (K:)
1d: SCOP_d3qmnl_ (L:)
1e: SCOP_d3qmnm_ (M:)
1f: SCOP_d3qmnn_ (N:)
1g: SCOP_d3qmno_ (O:)
1h: SCOP_d3qmnp_ (P:)
1i: SCOP_d3qmnq_ (Q:)
1j: SCOP_d3qmnr_ (R:)
1k: SCOP_d3qmns_ (S:)
1l: SCOP_d3qmnt_ (T:)
1m: SCOP_d3qmnc_ (C:)
1n: SCOP_d3qmnu_ (U:)
1o: SCOP_d3qmnv_ (V:)
1p: SCOP_d3qmnw_ (W:)
1q: SCOP_d3qmnx_ (X:)
1r: SCOP_d3qmnd_ (D:)
1s: SCOP_d3qmne_ (E:)
1t: SCOP_d3qmnf_ (F:)
1u: SCOP_d3qmng_ (G:)
1v: SCOP_d3qmnh_ (H:)
1w: SCOP_d3qmni_ (I:)
1x: SCOP_d3qmnj_ (J:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
4'-phosphopantetheinyl transferase
(26)
Superfamily
:
4'-phosphopantetheinyl transferase
(26)
Family
:
automated matches
(19)
Protein domain
:
automated matches
(19)
Vibrio cholerae [TaxId: 243277]
(1)
1a
d3qmna_
A:
1b
d3qmnb_
B:
1c
d3qmnk_
K:
1d
d3qmnl_
L:
1e
d3qmnm_
M:
1f
d3qmnn_
N:
1g
d3qmno_
O:
1h
d3qmnp_
P:
1i
d3qmnq_
Q:
1j
d3qmnr_
R:
1k
d3qmns_
S:
1l
d3qmnt_
T:
1m
d3qmnc_
C:
1n
d3qmnu_
U:
1o
d3qmnv_
V:
1p
d3qmnw_
W:
1q
d3qmnx_
X:
1r
d3qmnd_
D:
1s
d3qmne_
E:
1t
d3qmnf_
F:
1u
d3qmng_
G:
1v
d3qmnh_
H:
1w
d3qmni_
I:
1x
d3qmnj_
J:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 24)
Info
all PFAM domains
1a: PFAM_ACPS_3qmnX01 (X:4-121)
1b: PFAM_ACPS_3qmnX02 (X:4-121)
1c: PFAM_ACPS_3qmnX03 (X:4-121)
1d: PFAM_ACPS_3qmnX04 (X:4-121)
1e: PFAM_ACPS_3qmnX05 (X:4-121)
1f: PFAM_ACPS_3qmnX06 (X:4-121)
1g: PFAM_ACPS_3qmnX07 (X:4-121)
1h: PFAM_ACPS_3qmnX08 (X:4-121)
1i: PFAM_ACPS_3qmnX09 (X:4-121)
1j: PFAM_ACPS_3qmnX10 (X:4-121)
1k: PFAM_ACPS_3qmnX11 (X:4-121)
1l: PFAM_ACPS_3qmnX12 (X:4-121)
1m: PFAM_ACPS_3qmnX13 (X:4-121)
1n: PFAM_ACPS_3qmnX14 (X:4-121)
1o: PFAM_ACPS_3qmnX15 (X:4-121)
1p: PFAM_ACPS_3qmnX16 (X:4-121)
1q: PFAM_ACPS_3qmnX17 (X:4-121)
1r: PFAM_ACPS_3qmnX18 (X:4-121)
1s: PFAM_ACPS_3qmnX19 (X:4-121)
1t: PFAM_ACPS_3qmnX20 (X:4-121)
1u: PFAM_ACPS_3qmnX21 (X:4-121)
1v: PFAM_ACPS_3qmnX22 (X:4-121)
1w: PFAM_ACPS_3qmnX23 (X:4-121)
1x: PFAM_ACPS_3qmnX24 (X:4-121)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: ACPS]
(13)
Family
:
ACPS
(13)
Vibrio cholerae
(1)
1a
ACPS-3qmnX01
X:4-121
1b
ACPS-3qmnX02
X:4-121
1c
ACPS-3qmnX03
X:4-121
1d
ACPS-3qmnX04
X:4-121
1e
ACPS-3qmnX05
X:4-121
1f
ACPS-3qmnX06
X:4-121
1g
ACPS-3qmnX07
X:4-121
1h
ACPS-3qmnX08
X:4-121
1i
ACPS-3qmnX09
X:4-121
1j
ACPS-3qmnX10
X:4-121
1k
ACPS-3qmnX11
X:4-121
1l
ACPS-3qmnX12
X:4-121
1m
ACPS-3qmnX13
X:4-121
1n
ACPS-3qmnX14
X:4-121
1o
ACPS-3qmnX15
X:4-121
1p
ACPS-3qmnX16
X:4-121
1q
ACPS-3qmnX17
X:4-121
1r
ACPS-3qmnX18
X:4-121
1s
ACPS-3qmnX19
X:4-121
1t
ACPS-3qmnX20
X:4-121
1u
ACPS-3qmnX21
X:4-121
1v
ACPS-3qmnX22
X:4-121
1w
ACPS-3qmnX23
X:4-121
1x
ACPS-3qmnX24
X:4-121
[
close Pfam info
]
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 M
Chain N
Chain O
Asymmetric Unit 1
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Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
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Asym.Unit (1.1 MB)
Header - Asym.Unit
Biol.Unit 1 (151 KB)
Header - Biol.Unit 1
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