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3GVI
Asym. Unit
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, 6)
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
6
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
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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)
View:
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Label:
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
5
AC5
SOFTWARE
GLY E:12 , MET E:13 , ILE E:14 , PHE E:33 , ASP E:34 , ILE E:35 , ALA E:79 , GLY E:80 , VAL E:99 , GLN E:102 , HOH E:341 , HOH E:445 , HOH E:523 , HOH E:600 , HOH E:670 , HOH E:1108 , HOH E:1298 , HOH E:1299
BINDING SITE FOR RESIDUE ADP E 401
6
AC6
SOFTWARE
GLY F:12 , MET F:13 , ILE F:14 , ASP F:34 , ILE F:35 , ALA F:79 , GLY F:80 , VAL F:99 , GLN F:102 , HOH F:324 , HOH F:345 , HOH F:363 , HOH F:414 , HOH F:645 , HOH F:730 , HOH F:959 , HOH F:1031
BINDING SITE FOR RESIDUE ADP F 401
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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End label:
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Exons
(0, 0)
Info
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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.
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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Classes
(
)
(
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Folds
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(
)
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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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Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
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)
Info
all PFAM domains
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Asymmetric Unit 1
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Asym.Unit (310 KB)
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