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3GVI
Biol. Unit 1
Info
Asym.Unit (310 KB)
Biol.Unit 1 (205 KB)
Biol.Unit 2 (204 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF LACTATE/MALATE DEHYDROGENASE FROM BRUCELLA MELITENSIS IN COMPLEX WITH ADP
Authors
:
Seattle Structural Genomics Center For Infectious Disease (Ssgcid)
Date
:
31 Mar 09 (Deposition) - 14 Apr 09 (Release) - 14 Apr 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F (2x)
Keywords
:
Lactate/Malate Dehydrogenase, Brucella Melitensis, Nad, Oxidoreductase, Tricarboxylic Acid Cycle, Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Ssgcid
(Keyword Search:
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Reference
:
J. Abendroth, B. Staker
Crystal Structure Of Lactate/Malate Dehydrogenase From Brucella Melitensis In Complex With Adp
To Be Published
(for further references see the
PDB file header
)
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
1c: ADENOSINE-5'-DIPHOSPHATE (ADPc)
1d: ADENOSINE-5'-DIPHOSPHATE (ADPd)
1e: ADENOSINE-5'-DIPHOSPHATE (ADPe)
1f: ADENOSINE-5'-DIPHOSPHATE (ADPf)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ADP
4
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:12 , MET A:13 , ILE A:14 , ASP A:34 , ILE A:35 , ALA A:79 , GLY A:80 , GLN A:102 , HOH A:340 , HOH A:354 , HOH A:359 , HOH A:391 , HOH A:448 , HOH A:528 , HOH A:831 , HOH A:1210
BINDING SITE FOR RESIDUE ADP A 401
2
AC2
SOFTWARE
GLY B:12 , MET B:13 , ILE B:14 , PHE B:33 , ASP B:34 , ILE B:35 , ALA B:79 , GLY B:80 , GLN B:102 , HOH B:338 , HOH B:372 , HOH B:378 , HOH B:385 , HOH B:390 , HOH B:990 , HOH B:1076 , HOH B:1236
BINDING SITE FOR RESIDUE ADP B 401
3
AC3
SOFTWARE
GLY C:12 , MET C:13 , ILE C:14 , PHE C:33 , ASP C:34 , ILE C:35 , ALA C:79 , GLY C:80 , GLN C:102 , HOH C:323 , HOH C:350 , HOH C:360 , HOH C:366 , HOH C:727 , HOH C:1258
BINDING SITE FOR RESIDUE ADP C 401
4
AC4
SOFTWARE
GLY D:12 , MET D:13 , ILE D:14 , ASP D:34 , ILE D:35 , ALA D:79 , GLY D:80 , VAL D:99 , GLN D:102 , HOH D:332 , HOH D:336 , HOH D:338 , HOH D:586 , HOH D:635 , HOH D:841 , HOH D:1102
BINDING SITE FOR RESIDUE ADP D 401
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
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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, 12)
Info
All SCOP Domains
1a: SCOP_d3gvia2 (A:145-320)
1b: SCOP_d3gvib2 (B:145-320)
1c: SCOP_d3gvic2 (C:145-320)
1d: SCOP_d3gvid2 (D:145-319)
1e: SCOP_d3gvie2 (E:145-320)
1f: SCOP_d3gvif2 (F:145-320)
2a: SCOP_d3gvia1 (A:2-144)
2b: SCOP_d3gvib1 (B:2-144)
2c: SCOP_d3gvic1 (C:2-144)
2d: SCOP_d3gvid1 (D:2-144)
2e: SCOP_d3gvie1 (E:2-144)
2f: SCOP_d3gvif1 (F:2-144)
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)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
LDH C-terminal domain-like
(172)
Superfamily
:
LDH C-terminal domain-like
(172)
Family
:
automated matches
(38)
Protein domain
:
automated matches
(38)
Brucella melitensis [TaxId: 359391]
(2)
1a
d3gvia2
A:145-320
1b
d3gvib2
B:145-320
1c
d3gvic2
C:145-320
1d
d3gvid2
D:145-319
1e
d3gvie2
E:145-320
1f
d3gvif2
F:145-320
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
automated matches
(447)
Protein domain
:
automated matches
(447)
Brucella melitensis [TaxId: 359391]
(3)
2a
d3gvia1
A:2-144
2b
d3gvib1
B:2-144
2c
d3gvic1
C:2-144
2d
d3gvid1
D:2-144
2e
d3gvie1
E:2-144
2f
d3gvif1
F:2-144
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CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_3gviA01 (A:2-145)
1b: CATH_3gviB01 (B:2-145)
1c: CATH_3gviC01 (C:2-145)
1d: CATH_3gviD01 (D:2-145)
1e: CATH_3gviE01 (E:2-145)
1f: CATH_3gviF01 (F:2-145)
2a: CATH_3gviD02 (D:146-319)
2b: CATH_3gviA02 (A:146-320)
2c: CATH_3gviB02 (B:146-320)
2d: CATH_3gviC02 (C:146-320)
2e: CATH_3gviE02 (E:146-320)
2f: CATH_3gviF02 (F:146-320)
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Organisms
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)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Brucella melitensis biovar abortus 2308. Organism_taxid: 359391.
(2)
1a
3gviA01
A:2-145
1b
3gviB01
B:2-145
1c
3gviC01
C:2-145
1d
3gviD01
D:2-145
1e
3gviE01
E:2-145
1f
3gviF01
F:2-145
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2
(116)
Homologous Superfamily
:
L-2-Hydroxyisocaproate Dehydrogenase, subunit A, domain 2
(116)
Brucella melitensis biovar abortus 2308. Organism_taxid: 359391.
(2)
2a
3gviD02
D:146-319
2b
3gviA02
A:146-320
2c
3gviB02
B:146-320
2d
3gviC02
C:146-320
2e
3gviE02
E:146-320
2f
3gviF02
F:146-320
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Pfam Domains
(0, 0)
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