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2WL4
Asym. Unit
Info
Asym.Unit (506 KB)
Biol.Unit 1 (496 KB)
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(1)
Title
:
BIOSYNTHETIC THIOLASE FROM Z. RAMIGERA. COMPLEX OF THE H348A MUTANT WITH COENZYME A.
Authors
:
G. Merilainen, V. Poikela, P. Kursula, R. K. Wierenga
Date
:
22 Jun 09 (Deposition) - 03 Nov 09 (Release) - 05 Nov 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Acyltransferase, Cytoplasm, Phb Biosynthesis, Thiolase Fold, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. Merilainen, V. Poikela, P. Kursula, R. K. Wierenga
The Thiolase Reaction Mechanism: The Importance Of Asn316 And His348 For Stabilizing The Enolate Intermediate Of The Claisen Condensation.
Biochemistry V. 48 11011 2009
[
close entry info
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Hetero Components
(6, 37)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
2a: COENZYME A (COAa)
2b: COENZYME A (COAb)
3a: 3-SULFINOALANINE (CSDa)
3b: 3-SULFINOALANINE (CSDb)
4a: S-HYDROXYCYSTEINE (CSOa)
4b: S-HYDROXYCYSTEINE (CSOb)
5a: SODIUM ION (NAa)
5b: SODIUM ION (NAb)
5c: SODIUM ION (NAc)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
6d: SULFATE ION (SO4d)
6e: SULFATE ION (SO4e)
6f: SULFATE ION (SO4f)
6g: SULFATE ION (SO4g)
6h: SULFATE ION (SO4h)
6i: SULFATE ION (SO4i)
6j: SULFATE ION (SO4j)
6k: SULFATE ION (SO4k)
6l: SULFATE ION (SO4l)
6m: SULFATE ION (SO4m)
6n: SULFATE ION (SO4n)
6o: SULFATE ION (SO4o)
6p: SULFATE ION (SO4p)
6q: SULFATE ION (SO4q)
6r: SULFATE ION (SO4r)
6s: SULFATE ION (SO4s)
6t: SULFATE ION (SO4t)
6u: SULFATE ION (SO4u)
6v: SULFATE ION (SO4v)
6w: SULFATE ION (SO4w)
6x: SULFATE ION (SO4x)
6y: SULFATE ION (SO4y)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
3
Ligand/Ion
CHLORIDE ION
2
COA
2
Ligand/Ion
COENZYME A
3
CSD
2
Mod. Amino Acid
3-SULFINOALANINE
4
CSO
2
Mod. Amino Acid
S-HYDROXYCYSTEINE
5
NA
3
Ligand/Ion
SODIUM ION
6
SO4
25
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(32, 32)
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)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER B:260 , ALA B:262 , ARG B:266
BINDING SITE FOR RESIDUE SO4 B1395
02
AC2
SOFTWARE
SER A:260 , ALA A:262 , ARG A:266 , HOH A:2390
BINDING SITE FOR RESIDUE SO4 A1394
03
AC3
SOFTWARE
ARG B:302 , HOH B:2383 , HOH B:2384 , HOH B:2385 , HOH B:2386 , HOH B:2387
BINDING SITE FOR RESIDUE SO4 B1396
04
AC4
SOFTWARE
LYS A:298 , GLU A:301 , ARG A:302 , HOH A:2393 , HOH A:2394
BINDING SITE FOR RESIDUE SO4 A1395
05
AC5
SOFTWARE
ARG A:41 , HOH A:2049 , HOH A:2395 , HOH A:2396 , HOH A:2397 , HOH A:2398
BINDING SITE FOR RESIDUE SO4 A1396
06
AC6
SOFTWARE
VAL C:57 , ASN C:86 , ASP C:146 , PRO D:59 , GLY D:63 , ASN D:65 , PRO D:66 , HOH D:2187
BINDING SITE FOR RESIDUE SO4 D1394
07
AC7
SOFTWARE
SER B:4 , HOH B:2392 , HOH B:2394
BINDING SITE FOR RESIDUE SO4 B1397
08
AC8
SOFTWARE
THR A:33 , SER A:36 , HOH A:2046 , HOH A:2399 , HOH A:2400 , HOH A:2401 , HOH A:2402
BINDING SITE FOR RESIDUE SO4 A1397
09
AC9
SOFTWARE
TRP D:168 , HOH D:2188
BINDING SITE FOR RESIDUE SO4 D1395
10
BC1
SOFTWARE
THR A:224 , ASP A:226 , HOH A:2404
BINDING SITE FOR RESIDUE SO4 A1398
11
BC2
SOFTWARE
HOH C:3004
BINDING SITE FOR RESIDUE SO4 C1397
12
BC3
SOFTWARE
ASP A:311 , ARG A:368 , ALA A:370 , HOH A:2334 , HOH A:2405 , HOH A:2406 , HOH A:2407 , HOH A:2408
BINDING SITE FOR RESIDUE SO4 A1399
13
BC4
SOFTWARE
GLU D:174 , ALA D:177 , PHE D:178 , CYS D:324
BINDING SITE FOR RESIDUE SO4 D1396
14
BC5
SOFTWARE
HOH C:3006
BINDING SITE FOR RESIDUE SO4 C1398
15
BC6
SOFTWARE
HOH A:3007
BINDING SITE FOR RESIDUE SO4 A1403
16
BC7
SOFTWARE
ALA C:243 , HOH C:3008 , HOH C:3009 , HOH C:3010
BINDING SITE FOR RESIDUE SO4 C1399
17
BC8
SOFTWARE
LEU C:148 , HIS C:156 , SER C:247 , GLY C:248 , LEU C:249
BINDING SITE FOR RESIDUE SO4 C1393
18
BC9
SOFTWARE
MET B:100 , ILE B:275 , VAL B:276 , SER B:277 , HOH B:2393 , HOH B:2394
BINDING SITE FOR RESIDUE SO4 B1398
19
CC1
SOFTWARE
ILE D:35 , SER D:36 , LEU D:39 , ALA D:46 , VAL D:49 , ALA D:71 , ALA D:74 , GLY D:75 , VAL D:76
BINDING SITE FOR RESIDUE SO4 D1397
20
CC2
SOFTWARE
HOH B:3011
BINDING SITE FOR RESIDUE SO4 B1402
21
CC3
SOFTWARE
HOH B:3012
BINDING SITE FOR RESIDUE SO4 B1403
22
CC4
SOFTWARE
ASP B:226 , HOH B:2395
BINDING SITE FOR RESIDUE SO4 B1399
23
CC5
SOFTWARE
GLY A:282 , VAL A:283 , ASP A:284 , HOH A:2409 , HOH A:2410 , HOH A:2411 , HOH A:2412 , GLN B:78 , GLU B:79
BINDING SITE FOR RESIDUE SO4 A1400
24
CC6
SOFTWARE
TRP A:278 , ALA A:279 , THR A:280 , LYS A:298 , ARG A:302 , HOH A:2415 , ASP B:107
BINDING SITE FOR RESIDUE SO4 A1401
25
CC7
SOFTWARE
GLY D:289 , ILE D:293 , GLN D:322 , ALA D:325 , VAL D:326
BINDING SITE FOR RESIDUE NA D1398
26
CC8
SOFTWARE
LYS B:185 , ARG B:194 , VAL B:339 , ASN B:340
BINDING SITE FOR RESIDUE CL B1400
27
CC9
SOFTWARE
GLN C:56 , LEU C:58 , GLU C:117 , SER C:118 , HOH C:2027
BINDING SITE FOR RESIDUE NA C1394
28
DC1
SOFTWARE
VAL C:34 , ILE C:35 , VAL C:38 , VAL C:112 , ALA C:255
BINDING SITE FOR RESIDUE NA C1395
29
DC2
SOFTWARE
ASN C:65 , ARG C:68 , HOH C:2032 , HOH C:2033 , GLY D:380 , MET D:383
BINDING SITE FOR RESIDUE CL C1396
30
DC3
SOFTWARE
CYS C:125 , PRO D:123 , HIS D:124 , CYS D:125 , THR D:142
BINDING SITE FOR RESIDUE CL D1399
31
DC4
SOFTWARE
CYS A:89 , LEU A:148 , HIS A:156 , MET A:157 , ARG A:220 , SER A:227 , MET A:228 , LEU A:231 , ALA A:243 , GLY A:244 , SER A:247 , LEU A:249 , MET A:288 , PHE A:319 , CSD A:378 , HOH A:2216 , HOH A:2268 , HOH A:2289 , HOH A:2416 , HOH A:2417 , HOH A:2418 , HOH A:2419 , HOH A:2420 , HOH A:2421 , HOH A:2422 , HOH A:2423 , MET D:134
BINDING SITE FOR RESIDUE COA A1402
32
DC5
SOFTWARE
CSO B:89 , HIS B:156 , MET B:157 , ARG B:220 , SER B:227 , MET B:228 , LEU B:231 , ALA B:243 , GLY B:244 , SER B:247 , LEU B:249 , MET B:288 , ALA B:318 , PHE B:319 , CSD B:378 , HOH B:2172 , HOH B:2290 , HOH B:2291 , HOH B:2376 , HOH B:2396 , HOH B:2397 , HOH B:2398 , HOH B:2399 , HOH B:2400 , HOH B:2401 , HOH B:2402 , HOH B:2403 , HOH B:2404 , HOH B:2405 , MET C:134
BINDING SITE FOR RESIDUE COA B1401
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(3, 12)
Info
All PROSITE Patterns/Profiles
1: THIOLASE_1 (A:85-103,B:85-103,C:85-103,D:85-10...)
2: THIOLASE_2 (A:338-354,B:338-354,C:338-354,D:33...)
3: THIOLASE_3 (A:373-386,B:373-386,C:373-386,D:37...)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THIOLASE_1
PS00098
Thiolases acyl-enzyme intermediate signature.
THIL_ZOORA
85-103
4
A:85-103
B:85-103
C:85-103
D:85-103
2
THIOLASE_2
PS00737
Thiolases signature 2.
THIL_ZOORA
338-354
4
A:338-354
B:338-354
C:338-354
D:338-354
3
THIOLASE_3
PS00099
Thiolases active site.
THIL_ZOORA
373-386
4
A:373-386
B:373-386
C:373-386
D:373-386
[
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]
Exons
(0, 0)
Info
All Exons
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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.
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d2wl4a2 (A:269-392)
1b: SCOP_d2wl4b2 (B:269-392)
1c: SCOP_d2wl4c2 (C:269-392)
1d: SCOP_d2wl4d2 (D:269-392)
2a: SCOP_d2wl4a1 (A:4-268)
2b: SCOP_d2wl4b1 (B:4-268)
2c: SCOP_d2wl4c1 (C:4-268)
2d: SCOP_d2wl4d1 (D:4-268)
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Folds
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Superfamilies
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Thiolase-like
(231)
Superfamily
:
Thiolase-like
(231)
Family
:
automated matches
(108)
Protein domain
:
automated matches
(108)
Zoogloea ramigera [TaxId: 350]
(6)
1a
d2wl4a2
A:269-392
1b
d2wl4b2
B:269-392
1c
d2wl4c2
C:269-392
1d
d2wl4d2
D:269-392
Family
:
Thiolase-related
(67)
Protein domain
:
automated matches
(12)
Zoogloea ramigera [TaxId: 350]
(6)
2a
d2wl4a1
A:4-268
2b
d2wl4b1
B:4-268
2c
d2wl4c1
C:4-268
2d
d2wl4d1
D:4-268
[
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]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2wl4B01 (B:4-124,B:194-275)
1b: CATH_2wl4C02 (C:152-193,C:276-389)
1c: CATH_2wl4D02 (D:152-193,D:276-389)
1d: CATH_2wl4A02 (A:152-193,A:276-389)
1e: CATH_2wl4B02 (B:152-193,B:276-389)
1f: CATH_2wl4D01 (D:4-124,D:194-275)
1g: CATH_2wl4A01 (A:4-124,A:194-275)
1h: CATH_2wl4C01 (C:4-124,C:194-275)
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Topologies
(
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(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Peroxisomal Thiolase; Chain A, domain 1
(130)
Homologous Superfamily
:
[code=3.40.47.10, no name defined]
(130)
Zoogloea ramigera. Organism_taxid: 350.
(19)
1a
2wl4B01
B:4-124,B:194-275
1b
2wl4C02
C:152-193,C:276-389
1c
2wl4D02
D:152-193,D:276-389
1d
2wl4A02
A:152-193,A:276-389
1e
2wl4B02
B:152-193,B:276-389
1f
2wl4D01
D:4-124,D:194-275
1g
2wl4A01
A:4-124,A:194-275
1h
2wl4C01
C:4-124,C:194-275
[
close CATH info
]
Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Thiolase_C_2wl4D01 (D:269-391)
1b: PFAM_Thiolase_C_2wl4D02 (D:269-391)
1c: PFAM_Thiolase_C_2wl4D03 (D:269-391)
1d: PFAM_Thiolase_C_2wl4D04 (D:269-391)
2a: PFAM_Thiolase_N_2wl4D05 (D:11-262)
2b: PFAM_Thiolase_N_2wl4D06 (D:11-262)
2c: PFAM_Thiolase_N_2wl4D07 (D:11-262)
2d: PFAM_Thiolase_N_2wl4D08 (D:11-262)
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Clan
:
Thiolase
(72)
Family
:
Thiolase_C
(23)
Zoogloea ramigera
(15)
1a
Thiolase_C-2wl4D01
D:269-391
1b
Thiolase_C-2wl4D02
D:269-391
1c
Thiolase_C-2wl4D03
D:269-391
1d
Thiolase_C-2wl4D04
D:269-391
Family
:
Thiolase_N
(23)
Zoogloea ramigera
(15)
2a
Thiolase_N-2wl4D05
D:11-262
2b
Thiolase_N-2wl4D06
D:11-262
2c
Thiolase_N-2wl4D07
D:11-262
2d
Thiolase_N-2wl4D08
D:11-262
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