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5ACN
Asym. Unit
Info
Asym.Unit (132 KB)
Biol.Unit 1 (127 KB)
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(1)
Title
:
STRUCTURE OF ACTIVATED ACONITASE. FORMATION OF THE (4FE-4S) CLUSTER IN THE CRYSTAL
Authors
:
A. H. Robbins, C. D. Stout
Date
:
16 Jan 90 (Deposition) - 15 Jul 90 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Lyase(Carbon-Oxygen)
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Reference
:
A. H. Robbins, C. D. Stout
Structure Of Activated Aconitase: Formation Of The [4Fe-4S] Cluster In The Crystal.
Proc. Natl. Acad. Sci. Usa V. 86 3639 1989
(for further references see the
PDB file header
)
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Hetero Components
(4, 4)
Info
All Hetero Components
1a: FE3-S4 CLUSTER (F3Sa)
2a: PYROGLUTAMIC ACID (PCAa)
3a: SULFATE ION (SO4a)
4a: TRICARBALLYLIC ACID (TRCa)
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No.
Name
Count
Type
Full Name
1
F3S
1
Ligand/Ion
FE3-S4 CLUSTER
2
PCA
1
Mod. Amino Acid
PYROGLUTAMIC ACID
3
SO4
1
Ligand/Ion
SULFATE ION
4
TRC
1
Ligand/Ion
TRICARBALLYLIC ACID
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: ACT (AUTHOR)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:72 , ARG A:580 , SER A:642 , SER A:643 , ARG A:644 , HOH A:807
BINDING SITE FOR RESIDUE SO4 A 998
2
AC2
SOFTWARE
ILE A:145 , HIS A:147 , HIS A:167 , SER A:357 , CYS A:358 , CYS A:421 , CYS A:424 , ILE A:425 , ASN A:446 , HOH A:963
BINDING SITE FOR RESIDUE F3S A 999
3
AC3
SOFTWARE
LYS A:198 , GLY A:235 , ARG A:666 , THR A:730 , HOH A:824 , HOH A:849 , HOH A:978 , HOH A:979 , HOH A:1029
BINDING SITE FOR RESIDUE TRC A 899
4
ACT
AUTHOR
F3S A:999 , SO4 A:998 , GLN A:72 , ASP A:100 , HIS A:101 , HIS A:147 , ASP A:165 , SER A:166 , HIS A:167 , ASN A:170 , ASN A:258 , GLU A:262 , ASN A:446 , ARG A:447 , ARG A:452 , ARG A:580 , SER A:642 , SER A:643 , ARG A:644
THE ACTIVE SITE HAS BEEN SHOWN, BY MOSSBAUER AND ENDOR SPECTROSCOPY, TO BE AT FE4 OF THE IRON-SULFUR CLUSTER. RESIDUES LINING THE ACTIVE SITE ARE LISTED IN HERE. THE ACTIVE SITE IS OCCUPIED BY A TIGHTLY BOUND SULFATE ION AND SOLVENT MOLECULES. THE DENSITY THAT HAS BEEN MODELLED AS TRICARBALLYLATE INHIBITOR LIES AT THE ENTRANCE TO THE CLEFT, WITH ITS CENTRAL CARBOXYL POINTING OUT INTO BULK SOLVENT. LYSINES 198 AND 673 AND ARG 666 ARE POTENTIAL CHARGE BALANCING SIDE CHAINS NEARBY. THIS INHIBITOR LOCATION IS APPROXIMATELY 20 ANGSTROMS FROM THE LOCATION OF ATOM FE4 OF FS4 999 IN PROTEIN DATA BANK ENTRY 6ACN.
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SAPs(SNPs)/Variants
(0, 0)
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PROSITE Patterns/Profiles
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d5acna2 (A:1-528)
2a: SCOP_d5acna1 (A:529-754)
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)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Aconitase iron-sulfur domain
(20)
Superfamily
:
Aconitase iron-sulfur domain
(20)
Family
:
Aconitase iron-sulfur domain
(20)
Protein domain
:
Aconitase A, N-terminal domain
(15)
Pig (Sus scrofa) [TaxId: 9823]
(6)
1a
d5acna2
A:1-528
Fold
:
The swivelling beta/beta/alpha domain
(136)
Superfamily
:
LeuD/IlvD-like
(25)
Family
:
LeuD-like
(19)
Protein domain
:
Aconitase A, C-terminal domain
(15)
Pig (Sus scrofa) [TaxId: 9823]
(6)
2a
d5acna1
A:529-754
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CATH Domains
(3, 4)
Info
all CATH domains
1a: CATH_5acnA03 (A:316-490)
1b: CATH_5acnA01 (A:2-202)
2a: CATH_5acnA02 (A:203-315)
3a: CATH_5acnA04 (A:534-754)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Aconitase; domain 3
(16)
Homologous Superfamily
:
Aconitase, domain 3
(16)
Pig (Sus scrofa)
(6)
1a
5acnA03
A:316-490
1b
5acnA01
A:2-202
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aconitase; Domain 2
(16)
Homologous Superfamily
:
Aconitase, Domain 2
(16)
Pig (Sus scrofa)
(6)
2a
5acnA02
A:203-315
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
Aconitase; domain 4
(16)
Homologous Superfamily
:
Aconitase, domain 4
(16)
Pig (Sus scrofa)
(6)
3a
5acnA04
A:534-754
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (132 KB)
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