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1XG4
Biol. Unit 1
Info
Asym.Unit (199 KB)
Biol.Unit 1 (194 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE C123S 2-METHYLISOCITRATE LYASE MUTANT FROM ESCHERICHIA COLI IN COMPLEX WITH THE INHIBITOR ISOCITRATE
Authors
:
S. Liu, Z. Lu, Y. Han, E. Melamud, D. Dunaway-Mariano, O. Herzberg
Date
:
16 Sep 04 (Deposition) - 01 Mar 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
2-Methylisocitrate Lyase/Inhibitor Complex, Isocitrate, Isocitrate Lyase Superfamily
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Liu, Z. Lu, Y. Han, E. Melamud, D. Dunaway-Mariano, O. Herzberg
Crystal Structures Of 2-Methylisocitrate Lyase In Complex With Product And With Isocitrate Inhibitor Provide Insight Into Lyase Substrate Specificity, Catalysis And Evolution
Biochemistry V. 44 2949 2005
(for further references see the
PDB file header
)
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: ISOCITRIC ACID (ICTa)
1b: ISOCITRIC ACID (ICTb)
1c: ISOCITRIC ACID (ICTc)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ICT
3
Ligand/Ion
ISOCITRIC ACID
2
MG
-1
Ligand/Ion
MAGNESIUM ION
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:85 , ICT A:1105 , HOH A:1360 , HOH A:1361 , HOH A:1362
BINDING SITE FOR RESIDUE MG A 1101
2
AC2
SOFTWARE
ASP B:85 , ICT B:1205 , HOH B:1465 , HOH B:1466 , HOH B:1467
BINDING SITE FOR RESIDUE MG B 1201
3
AC3
SOFTWARE
ASP D:85 , ICT D:1405 , HOH D:1633 , HOH D:1634 , HOH D:1635
BINDING SITE FOR RESIDUE MG D 1401
4
AC4
SOFTWARE
SER A:45 , GLY A:46 , GLY A:47 , ASP A:85 , SER A:123 , GLY A:124 , HIS A:125 , ARG A:158 , GLU A:188 , ASN A:210 , THR A:212 , PRO A:236 , ARG A:241 , MG A:1101 , HOH A:1360 , ARG B:270
BINDING SITE FOR RESIDUE ICT A 1105
5
AC5
SOFTWARE
ARG A:270 , SER B:45 , GLY B:46 , GLY B:47 , ASP B:85 , SER B:123 , GLY B:124 , HIS B:125 , ARG B:158 , GLU B:188 , ASN B:210 , THR B:212 , PRO B:236 , ARG B:241 , MG B:1201 , HOH B:1230 , HOH B:1465
BINDING SITE FOR RESIDUE ICT B 1205
6
AC6
SOFTWARE
ARG C:270 , SER D:45 , GLY D:46 , GLY D:47 , ASP D:85 , SER D:123 , GLY D:124 , HIS D:125 , ARG D:158 , GLU D:188 , ASN D:210 , THR D:212 , PRO D:236 , ARG D:241 , MG D:1401 , HOH D:1436 , HOH D:1633
BINDING SITE FOR RESIDUE ICT D 1405
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SAPs(SNPs)/Variants
(0, 0)
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: ISOCITRATE_LYASE (A:121-126,B:121-126,C:121-126,D:12...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ISOCITRATE_LYASE
PS00161
Isocitrate lyase signature.
PRPB_ECOLI
121-126
4
A:121-126
B:121-126
C:121-126
D:121-126
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Exons
(0, 0)
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1xg4a_ (A:)
1b: SCOP_d1xg4b_ (B:)
1c: SCOP_d1xg4c_ (C:)
1d: SCOP_d1xg4d_ (D:)
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Protein Domains
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Organisms
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(
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Phosphoenolpyruvate/pyruvate domain
(92)
Family
:
Phosphoenolpyruvate mutase/Isocitrate lyase-like
(20)
Protein domain
:
2-methylisocitrate lyase
(6)
Escherichia coli [TaxId: 562]
(4)
1a
d1xg4a_
A:
1b
d1xg4b_
B:
1c
d1xg4c_
C:
1d
d1xg4d_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1xg4D00 (D:3-285)
1b: CATH_1xg4B00 (B:3-288)
1c: CATH_1xg4A00 (A:2-288)
1d: CATH_1xg4C00 (C:3-289)
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Organisms
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)
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Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Phosphoenolpyruvate-binding domains
(67)
Escherichia coli. Organism_taxid: 562.
(5)
1a
1xg4D00
D:3-285
1b
1xg4B00
B:3-288
1c
1xg4A00
A:2-288
1d
1xg4C00
C:3-289
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_PEP_mutase_1xg4D01 (D:10-255)
1b: PFAM_PEP_mutase_1xg4D02 (D:10-255)
1c: PFAM_PEP_mutase_1xg4D03 (D:10-255)
1d: PFAM_PEP_mutase_1xg4D04 (D:10-255)
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Clan
:
PK_TIM
(63)
Family
:
PEP_mutase
(13)
Escherichia coli (strain K12)
(4)
1a
PEP_mutase-1xg4D01
D:10-255
1b
PEP_mutase-1xg4D02
D:10-255
1c
PEP_mutase-1xg4D03
D:10-255
1d
PEP_mutase-1xg4D04
D:10-255
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Asymmetric Unit 1
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Asym.Unit (199 KB)
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Header - Biol.Unit 1
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