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3OA0
Asym. Unit
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Asym.Unit (223 KB)
Biol.Unit 1 (215 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE WLBA (WBPB) DEHYDROGENASE FROM THERMUS THERMOPHILUS IN COMPLEX WITH NAD AND UDP-GLCNACA
Authors
:
H. M. Holden, J. B. Thoden
Date
:
04 Aug 10 (Deposition) - 18 Aug 10 (Release) - 22 Sep 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Oxidoreductase, Sugar Biosynthesis, Dehydrogenase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. B. Thoden, H. M. Holden
Structural And Functional Studies Of Wlba: A Dehydrogenase Involved In The Biosynthesis Of 2, 3-Diacetamido-2, 3-Dideoxy-D-Mannuronic Acid .
Biochemistry V. 49 7939 2010
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Hetero Components
(3, 12)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
2a: (2S,3S,4R,5R,6R)-5-ACETAMIDO-6-[[[... (HP7a)
2b: (2S,3S,4R,5R,6R)-5-ACETAMIDO-6-[[[... (HP7b)
2c: (2S,3S,4R,5R,6R)-5-ACETAMIDO-6-[[[... (HP7c)
2d: (2S,3S,4R,5R,6R)-5-ACETAMIDO-6-[[[... (HP7d)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
3c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
3d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
4
Ligand/Ion
CHLORIDE ION
2
HP7
4
Ligand/Ion
(2S,3S,4R,5R,6R)-5-ACETAMIDO-6-[[[(2R,3S,4R,5R)-5-(2,4-DIOXOPYRIMIDIN-1-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHOXY-HYDROXY-PHOSPHORYL]OXY-HYDROXY-PHOSPHORYL]OXY-3,4-DIHYDROXY-OXANE-2-CARBOXYLIC ACID
3
NAD
4
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
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Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:8 , ALA A:10 , GLY A:11 , TYR A:12 , ILE A:13 , ARG A:16 , LEU A:32 , ASP A:33 , PRO A:34 , ALA A:35 , ALA A:77 , SER A:78 , PRO A:79 , ASN A:80 , LEU A:82 , HIS A:83 , GLN A:86 , GLU A:100 , LYS A:101 , GLN A:129 , TRP A:168 , LYS A:169 , HIS A:264 , HP7 A:312 , HOH A:316 , HOH A:342 , HOH A:345 , HOH A:350 , HOH A:351 , HOH A:353 , ASN B:37 , HOH B:343 , GLU D:55
BINDING SITE FOR RESIDUE NAD A 311
02
AC2
SOFTWARE
TYR A:12 , ARG A:16 , LYS A:101 , TYR A:156 , THR A:158 , ARG A:160 , TRP A:163 , TYR A:164 , LYS A:169 , ASN A:181 , HIS A:185 , NAD A:311 , HOH A:445 , GLY B:39 , LEU B:40 , HOH B:344
BINDING SITE FOR RESIDUE HP7 A 312
03
AC3
SOFTWARE
THR A:52 , GLU A:53 , LYS B:166
BINDING SITE FOR RESIDUE CL A 313
04
AC4
SOFTWARE
ASN A:37 , HOH A:321 , GLY B:8 , ALA B:10 , GLY B:11 , TYR B:12 , ILE B:13 , LEU B:32 , ASP B:33 , PRO B:34 , ALA B:35 , ALA B:77 , SER B:78 , PRO B:79 , ASN B:80 , LEU B:82 , HIS B:83 , GLN B:86 , GLU B:100 , LYS B:101 , GLN B:129 , TRP B:168 , LYS B:169 , ASN B:181 , HIS B:185 , HP7 B:312 , HOH B:315 , HOH B:316 , HOH B:318 , HOH B:382 , GLU C:55 , HOH C:342
BINDING SITE FOR RESIDUE NAD B 311
05
AC5
SOFTWARE
GLY A:39 , LEU A:40 , ASP A:42 , HOH A:359 , TYR B:12 , ARG B:16 , LYS B:101 , TYR B:156 , ARG B:160 , TRP B:163 , TYR B:164 , LYS B:169 , ILE B:182 , HIS B:185 , THR B:243 , ARG B:245 , NAD B:311 , HOH B:367
BINDING SITE FOR RESIDUE HP7 B 312
06
AC6
SOFTWARE
LYS A:166 , PHE B:51 , THR B:52 , GLU B:53
BINDING SITE FOR RESIDUE CL B 313
07
AC7
SOFTWARE
GLU B:55 , HOH B:323 , GLY C:8 , ALA C:10 , GLY C:11 , TYR C:12 , ILE C:13 , LEU C:32 , ASP C:33 , PRO C:34 , ALA C:35 , ALA C:77 , SER C:78 , PRO C:79 , ASN C:80 , LEU C:82 , HIS C:83 , GLN C:86 , GLU C:100 , LYS C:101 , GLN C:129 , TRP C:168 , LYS C:169 , ASN C:181 , HIS C:185 , HIS C:264 , HP7 C:312 , HOH C:320 , HOH C:331 , HOH C:333 , HOH C:334 , HOH C:335 , HOH C:384
BINDING SITE FOR RESIDUE NAD C 311
08
AC8
SOFTWARE
TYR C:12 , ARG C:16 , LYS C:101 , TYR C:156 , ARG C:160 , TRP C:163 , TYR C:164 , LYS C:169 , ASN C:181 , HIS C:185 , THR C:243 , ARG C:245 , NAD C:311 , GLY D:39 , LEU D:40 , HOH D:368
BINDING SITE FOR RESIDUE HP7 C 312
09
AC9
SOFTWARE
PHE C:51 , THR C:52 , GLU C:53 , LYS D:166
BINDING SITE FOR RESIDUE CL C 313
10
BC1
SOFTWARE
GLU A:55 , HOH A:367 , ASN C:37 , HOH C:336 , GLY D:8 , ALA D:10 , GLY D:11 , TYR D:12 , ILE D:13 , LEU D:32 , ASP D:33 , PRO D:34 , ALA D:35 , ALA D:77 , SER D:78 , PRO D:79 , ASN D:80 , LEU D:82 , HIS D:83 , GLN D:86 , GLU D:100 , LYS D:101 , GLN D:129 , TRP D:168 , LYS D:169 , ASN D:181 , HIS D:185 , HP7 D:312 , HOH D:321 , HOH D:322 , HOH D:324 , HOH D:364 , HOH D:400 , HOH D:402
BINDING SITE FOR RESIDUE NAD D 311
11
BC2
SOFTWARE
GLY C:39 , LEU C:40 , HOH C:337 , TYR D:12 , ARG D:16 , LYS D:101 , TYR D:156 , THR D:158 , ARG D:160 , TRP D:163 , TYR D:164 , LYS D:169 , ASN D:181 , ILE D:182 , HIS D:185 , THR D:243 , ARG D:245 , NAD D:311 , HOH D:433
BINDING SITE FOR RESIDUE HP7 D 312
12
BC3
SOFTWARE
LYS C:166 , PHE D:51 , THR D:52 , GLU D:53
BINDING SITE FOR RESIDUE CL D 313
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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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
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CATH Domains
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_GFO_IDH_MocA_3oa0D01 (D:2-128)
1b: PFAM_GFO_IDH_MocA_3oa0D02 (D:2-128)
1c: PFAM_GFO_IDH_MocA_3oa0D03 (D:2-128)
1d: PFAM_GFO_IDH_MocA_3oa0D04 (D:2-128)
2a: PFAM_GFO_IDH_MocA_C_3oa0D05 (D:140-232)
2b: PFAM_GFO_IDH_MocA_C_3oa0D06 (D:140-232)
2c: PFAM_GFO_IDH_MocA_C_3oa0D07 (D:140-232)
2d: PFAM_GFO_IDH_MocA_C_3oa0D08 (D:140-232)
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Clans
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)
(
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Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
NADP_Rossmann
(1239)
Family
:
GFO_IDH_MocA
(25)
Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
(2)
1a
GFO_IDH_MocA-3oa0D01
D:2-128
1b
GFO_IDH_MocA-3oa0D02
D:2-128
1c
GFO_IDH_MocA-3oa0D03
D:2-128
1d
GFO_IDH_MocA-3oa0D04
D:2-128
Clan
:
ox_reductase_C
(19)
Family
:
GFO_IDH_MocA_C
(19)
Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
(2)
2a
GFO_IDH_MocA_C-3oa0D05
D:140-232
2b
GFO_IDH_MocA_C-3oa0D06
D:140-232
2c
GFO_IDH_MocA_C-3oa0D07
D:140-232
2d
GFO_IDH_MocA_C-3oa0D08
D:140-232
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