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Biol. Unit 1
Info
Asym.Unit (496 KB)
Biol.Unit 1 (487 KB)
Biol.Unit 2 (245 KB)
Biol.Unit 3 (247 KB)
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(1)
Title
:
BIOSYNTHETIC THIOLASE FROM Z. RAMIGERA. COMPLEX OF THE N316A MUTANT WITH COENZYME A.
Authors
:
G. Merilainen, V. Poikela, P. Kursula, R. K. Wierenga
Date
:
18 Jun 09 (Deposition) - 03 Nov 09 (Release) - 02 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: A,B (1x)
Keywords
:
Acyltransferase, Phb Biosynthesis, Cytoplasm, Transferase, Thiolase Fold
(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
[
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Hetero Components
(3, 16)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: COENZYME A (COAa)
2b: COENZYME A (COAb)
2c: COENZYME A (COAc)
2d: COENZYME A (COAd)
3a: S-HYDROXYCYSTEINE (CSOa)
3b: S-HYDROXYCYSTEINE (CSOb)
3c: S-HYDROXYCYSTEINE (CSOc)
4a: POTASSIUM ION (Ka)
5a: SODIUM ION (NAa)
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)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
COA
4
Ligand/Ion
COENZYME A
3
CSO
3
Mod. Amino Acid
S-HYDROXYCYSTEINE
4
K
-1
Ligand/Ion
POTASSIUM ION
5
NA
-1
Ligand/Ion
SODIUM ION
6
SO4
9
Ligand/Ion
SULFATE ION
[
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]
Sites
(16, 16)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:260 , ALA A:262 , ARG A:266
BINDING SITE FOR RESIDUE SO4 A1393
02
AC2
SOFTWARE
SER B:260 , GLU B:263 , ARG B:266 , HOH B:2162 , HOH B:2412 , HOH B:2413 , HOH B:2414 , HOH B:2415
BINDING SITE FOR RESIDUE SO4 B1393
03
AC3
SOFTWARE
LYS B:298 , ARG B:302 , HOH B:2344 , HOH B:2416 , HOH B:2417 , HOH B:2418
BINDING SITE FOR RESIDUE SO4 B1394
04
AC4
SOFTWARE
LYS A:298 , GLU A:301 , ARG A:302 , HOH A:2432
BINDING SITE FOR RESIDUE SO4 A1394
05
AC5
SOFTWARE
LYS D:298 , ARG D:302
BINDING SITE FOR RESIDUE SO4 D1393
06
AC6
SOFTWARE
GLN B:167 , TRP B:168
BINDING SITE FOR RESIDUE SO4 B1395
07
AC7
SOFTWARE
ARG D:41 , ILE D:199 , VAL D:200 , PRO D:201
BINDING SITE FOR RESIDUE SO4 D1394
08
AC8
SOFTWARE
ARG B:41 , VAL B:200 , HOH B:2057 , HOH B:2251 , HOH B:2421 , HOH B:2422 , HOH B:2423
BINDING SITE FOR RESIDUE SO4 B1396
09
AC9
SOFTWARE
ARG B:368 , HOH B:2384
BINDING SITE FOR RESIDUE SO4 B1397
10
BC1
SOFTWARE
GLN A:56 , CL A:1396 , HOH B:2127
BINDING SITE FOR RESIDUE K A1395
11
BC2
SOFTWARE
VAL C:52 , ILE C:53 , LEU C:54 , ALA C:67 , TRP C:83
BINDING SITE FOR RESIDUE NA C1393
12
BC3
SOFTWARE
LEU A:54 , GLY A:55 , GLN A:56 , GLY A:84 , MET A:85 , K A:1395
BINDING SITE FOR RESIDUE CL A1396
13
BC4
SOFTWARE
CSO A:89 , LEU A:148 , HIS A:156 , MET A:157 , ARG A:220 , SER A:227 , MET A:228 , LEU A:231 , PHE A:235 , GLY A:244 , SER A:247 , MET A:288 , PHE A:319 , HIS A:348 , HOH A:2289 , HOH A:2300 , HOH A:2322 , HOH A:2324 , HOH A:2325 , HOH A:2434 , HOH A:2435 , HOH A:2436 , HOH A:2439 , HOH A:2440 , LYS C:208 , LYS D:133
BINDING SITE FOR RESIDUE COA A1397
14
BC5
SOFTWARE
CSO B:89 , LEU B:148 , HIS B:156 , MET B:157 , ARG B:220 , SER B:227 , MET B:228 , LEU B:231 , PHE B:235 , ALA B:243 , GLY B:244 , SER B:247 , LEU B:249 , MET B:288 , PHE B:319 , HOH B:2282 , HOH B:2284 , HOH B:2290 , HOH B:2306 , HOH B:2307 , HOH B:2309 , HOH B:2424 , HOH B:2425 , HOH B:2426 , HOH B:2427 , HOH B:2428 , HOH B:2429 , HOH B:2430 , MET C:134
BINDING SITE FOR RESIDUE COA B1398
15
BC6
SOFTWARE
LYS A:208 , CYS C:89 , LEU C:148 , HIS C:156 , MET C:157 , ARG C:220 , SER C:227 , MET C:228 , LEU C:231 , ALA C:243 , GLY C:244 , SER C:247 , MET C:288 , ALA C:318 , PHE C:319 , HOH C:2170 , HOH C:2182 , HOH C:2183 , HOH C:2254
BINDING SITE FOR RESIDUE COA C1394
16
BC7
SOFTWARE
MET A:134 , CSO D:89 , LEU D:148 , HIS D:156 , MET D:157 , ARG D:220 , SER D:227 , LEU D:231 , PHE D:235 , ALA D:243 , GLY D:244 , SER D:247 , GLY D:248 , LEU D:249 , MET D:288 , ALA D:318 , PHE D:319 , HIS D:348 , HOH D:2114 , HOH D:2164 , HOH D:2165 , HOH D:2196 , HOH D:2215 , HOH D:2216 , HOH D:2218
BINDING SITE FOR RESIDUE COA D1395
[
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]
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
(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
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d2wkta2 (A:269-392)
1b: SCOP_d2wktc2 (C:269-392)
1c: SCOP_d2wktd2 (D:269-392)
1d: SCOP_d2wktb2 (B:269-392)
2a: SCOP_d2wkta1 (A:3-268)
2b: SCOP_d2wktc1 (C:4-268)
2c: SCOP_d2wktd1 (D:4-268)
2d: SCOP_d2wktb1 (B:4-268)
View:
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Classes
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)
(
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Folds
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)
(
)
Superfamilies
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)
(
)
Families
(
)
(
)
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
d2wkta2
A:269-392
1b
d2wktc2
C:269-392
1c
d2wktd2
D:269-392
1d
d2wktb2
B:269-392
Family
:
Thiolase-related
(67)
Protein domain
:
automated matches
(12)
Zoogloea ramigera [TaxId: 350]
(6)
2a
d2wkta1
A:3-268
2b
d2wktc1
C:4-268
2c
d2wktd1
D:4-268
2d
d2wktb1
B:4-268
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2wktC01 (C:4-124,C:194-275)
1b: CATH_2wktA02 (A:152-193,A:276-389)
1c: CATH_2wktB02 (B:152-193,B:276-389)
1d: CATH_2wktC02 (C:152-193,C:276-389)
1e: CATH_2wktD02 (D:152-193,D:276-389)
1f: CATH_2wktB01 (B:4-124,B:194-275)
1g: CATH_2wktD01 (D:4-124,D:194-275)
1h: CATH_2wktA01 (A:3-124,A:194-275)
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Architectures
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)
(
)
Topologies
(
)
(
)
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
2wktC01
C:4-124,C:194-275
1b
2wktA02
A:152-193,A:276-389
1c
2wktB02
B:152-193,B:276-389
1d
2wktC02
C:152-193,C:276-389
1e
2wktD02
D:152-193,D:276-389
1f
2wktB01
B:4-124,B:194-275
1g
2wktD01
D:4-124,D:194-275
1h
2wktA01
A:3-124,A:194-275
[
close CATH info
]
Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Thiolase_C_2wktD01 (D:269-391)
1b: PFAM_Thiolase_C_2wktD02 (D:269-391)
1c: PFAM_Thiolase_C_2wktD03 (D:269-391)
1d: PFAM_Thiolase_C_2wktD04 (D:269-391)
2a: PFAM_Thiolase_N_2wktD05 (D:11-262)
2b: PFAM_Thiolase_N_2wktD06 (D:11-262)
2c: PFAM_Thiolase_N_2wktD07 (D:11-262)
2d: PFAM_Thiolase_N_2wktD08 (D:11-262)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Thiolase
(72)
Family
:
Thiolase_C
(23)
Zoogloea ramigera
(15)
1a
Thiolase_C-2wktD01
D:269-391
1b
Thiolase_C-2wktD02
D:269-391
1c
Thiolase_C-2wktD03
D:269-391
1d
Thiolase_C-2wktD04
D:269-391
Family
:
Thiolase_N
(23)
Zoogloea ramigera
(15)
2a
Thiolase_N-2wktD05
D:11-262
2b
Thiolase_N-2wktD06
D:11-262
2c
Thiolase_N-2wktD07
D:11-262
2d
Thiolase_N-2wktD08
D:11-262
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Asym.Unit (496 KB)
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Biol.Unit 3 (247 KB)
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