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1YL6
Asym. Unit
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Asym.Unit (79 KB)
Biol.Unit 1 (145 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS DIHYDRODIPICOLINATE REDUCTASE (RV2773C) (CRYSTAL FORM B)
Authors
:
R. Janowski, G. Kefala, M. S. Weiss, Tb Structural Genomics Consort (Tbsgc)
Date
:
19 Jan 05 (Deposition) - 17 Jan 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Lysine Biosynthesis, Dihydrodipicolinate, Reductase, Nadh, Structural Genomics, Psi, Protein Structure Initiative, Tb Structural Genomics Consortium, Tbsgc, Oxidoreductase
(Keyword Search:
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Reference
:
R. Janowski, G. Kefala, M. S. Weiss
The Structure Of Dihydrodipicolinate Reductase (Dapb) From Mycobacterium Tuberculosis In Three Crystal Forms.
Acta Crystallogr. , Sect. D V. 66 61 2010
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
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No.
Name
Count
Type
Full Name
1
MG
2
Ligand/Ion
MAGNESIUM ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:20 , ALA A:21 , ALA A:23 , LEU A:26
BINDING SITE FOR RESIDUE MG A 246
2
AC2
SOFTWARE
VAL B:20 , ALA B:21 , ALA B:23 , LEU B:26
BINDING SITE FOR RESIDUE MG B 246
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SAPs(SNPs)/Variants
(0, 0)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: DAPB (A:127-144,B:127-144,A:127-144,B:12...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DAPB
PS01298
Dihydrodipicolinate reductase signature.
DAPB_MYCTO
127-144
2
A:127-144
B:127-144
DAPB_MYCTU
127-144
2
A:127-144
B:127-144
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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.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1yl6a2 (A:106-214)
1b: SCOP_d1yl6b2 (B:106-214)
2a: SCOP_d1yl6a1 (A:2-105,A:215-245)
2b: SCOP_d1yl6b1 (B:2-105,B:215-245)
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Protein Domains
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Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FwdE/GAPDH domain-like
(188)
Superfamily
:
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
(179)
Family
:
Dihydrodipicolinate reductase-like
(45)
Protein domain
:
Dihydrodipicolinate reductase
(11)
Mycobacterium tuberculosis [TaxId: 1773]
(5)
1a
d1yl6a2
A:106-214
1b
d1yl6b2
B:106-214
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
:
Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
(179)
Protein domain
:
Dihydrodipicolinate reductase
(11)
Mycobacterium tuberculosis [TaxId: 1773]
(5)
2a
d1yl6a1
A:2-105,A:215-245
2b
d1yl6b1
B:2-105,B:215-245
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1yl6A02 (A:106-212)
1b: CATH_1yl6B02 (B:106-212)
2a: CATH_1yl6A01 (A:1-105,A:213-245)
2b: CATH_1yl6B01 (B:1-105,B:213-245)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dihydrodipicolinate Reductase; domain 2
(182)
Homologous Superfamily
:
Dihydrodipicolinate Reductase; domain 2
(178)
Mycobacterium tuberculosis. Organism_taxid: 1773.
(5)
1a
1yl6A02
A:106-212
1b
1yl6B02
B:106-212
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Mycobacterium tuberculosis. Organism_taxid: 1773.
(22)
2a
1yl6A01
A:1-105,A:213-245
2b
1yl6B01
B:1-105,B:213-245
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_DapB_N_1yl6B01 (B:2-105)
1b: PFAM_DapB_N_1yl6B02 (B:2-105)
2a: PFAM_DapB_C_1yl6B03 (B:108-242)
2b: PFAM_DapB_C_1yl6B04 (B:108-242)
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Clans
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Organisms
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)
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)
Clan
:
NADP_Rossmann
(1239)
Family
:
DapB_N
(5)
Mycobacterium tuberculosis
(4)
1a
DapB_N-1yl6B01
B:2-105
1b
DapB_N-1yl6B02
B:2-105
Clan
:
no clan defined [family: DapB_C]
(5)
Family
:
DapB_C
(5)
Mycobacterium tuberculosis
(4)
2a
DapB_C-1yl6B03
B:108-242
2b
DapB_C-1yl6B04
B:108-242
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