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1P1R
Biol. Unit 2
Info
Asym.Unit (489 KB)
Biol.Unit 1 (244 KB)
Biol.Unit 2 (245 KB)
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(1)
Title
:
HORSE LIVER ALCOHOL DEHYDROGENASE COMPLEXED WITH NADH AND R-N-1-METHYLHEXYLFORMAMIDE
Authors
:
T. H. Venkataramaiah, B. V. Plapp
Date
:
13 Apr 03 (Deposition) - 15 Jul 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.57
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Puckered Reduced Nicotinamide Ring, Michaelis Complex Analogue, Formamide, Oxidoreductase
(Keyword Search:
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Reference
:
T. H. Venkataramaiah, B. V. Plapp
Formamides Mimic Aldehydes And Inhibit Liver Alcohol Dehydrogenases And Ethanol Metabolism
J. Biol. Chem. V. 278 36699 2003
(for further references see the
PDB file header
)
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
2a: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIa)
2b: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIb)
2c: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIc)
2d: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAId)
3a: (R)-N-(1-METHYL-HEXYL)-FORMAMIDE (NMHa)
3b: (R)-N-(1-METHYL-HEXYL)-FORMAMIDE (NMHb)
3c: (R)-N-(1-METHYL-HEXYL)-FORMAMIDE (NMHc)
3d: (R)-N-(1-METHYL-HEXYL)-FORMAMIDE (NMHd)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
4e: ZINC ION (ZNe)
4f: ZINC ION (ZNf)
4g: ZINC ION (ZNg)
4h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MPD
-1
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
2
NAI
2
Ligand/Ion
1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
3
NMH
2
Ligand/Ion
(R)-N-(1-METHYL-HEXYL)-FORMAMIDE
4
ZN
-1
Ligand/Ion
ZINC ION
[
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Sites
(9, 9)
Info
All Sites
1: AC5 (SOFTWARE)
2: AC6 (SOFTWARE)
3: AC7 (SOFTWARE)
4: AC8 (SOFTWARE)
5: BC4 (SOFTWARE)
6: BC5 (SOFTWARE)
7: BC6 (SOFTWARE)
8: BC7 (SOFTWARE)
9: BC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC5
SOFTWARE
CYS C:46 , HIS C:67 , CYS C:174 , NAI C:377 , NMH C:378
BINDING SITE FOR RESIDUE ZN C 375
2
AC6
SOFTWARE
CYS C:97 , CYS C:100 , CYS C:103 , CYS C:111
BINDING SITE FOR RESIDUE ZN C 376
3
AC7
SOFTWARE
CYS D:46 , HIS D:67 , CYS D:174 , NAI D:377 , NMH D:378
BINDING SITE FOR RESIDUE ZN D 375
4
AC8
SOFTWARE
CYS D:97 , CYS D:100 , CYS D:103 , CYS D:111
BINDING SITE FOR RESIDUE ZN D 376
5
BC4
SOFTWARE
ARG C:47 , SER C:48 , HIS C:51 , CYS C:174 , THR C:178 , GLY C:199 , GLY C:201 , GLY C:202 , VAL C:203 , ASP C:223 , ILE C:224 , VAL C:268 , ILE C:269 , ARG C:271 , VAL C:292 , GLY C:293 , VAL C:294 , ALA C:317 , ILE C:318 , PHE C:319 , ARG C:369 , ZN C:375 , NMH C:378 , HOH C:7256 , HOH C:7260 , HOH C:7277 , HOH C:7278 , HOH C:7391 , HOH C:7462 , HOH C:8104
BINDING SITE FOR RESIDUE NAI C 377
6
BC5
SOFTWARE
CYS C:46 , SER C:48 , HIS C:67 , PHE C:93 , LEU C:116 , CYS C:174 , VAL C:294 , ILE C:318 , ZN C:375 , NAI C:377 , LEU D:309
BINDING SITE FOR RESIDUE NMH C 378
7
BC6
SOFTWARE
ARG D:47 , SER D:48 , HIS D:51 , CYS D:174 , THR D:178 , GLY D:199 , GLY D:201 , GLY D:202 , VAL D:203 , ASP D:223 , ILE D:224 , LYS D:228 , VAL D:268 , ILE D:269 , ARG D:271 , VAL D:292 , GLY D:293 , VAL D:294 , ALA D:317 , ILE D:318 , PHE D:319 , ARG D:369 , ZN D:375 , NMH D:378 , HOH D:7501 , HOH D:7521 , HOH D:7522 , HOH D:7645 , HOH D:7660 , HOH D:7664 , HOH D:7683 , HOH D:7687
BINDING SITE FOR RESIDUE NAI D 377
8
BC7
SOFTWARE
MET C:306 , LEU C:309 , CYS D:46 , SER D:48 , HIS D:67 , PHE D:93 , LEU D:116 , CYS D:174 , VAL D:294 , ZN D:375 , NAI D:377
BINDING SITE FOR RESIDUE NMH D 378
9
BC8
SOFTWARE
ARG B:218 , GLU B:239 , ARG C:218 , THR C:238 , GLU C:239
BINDING SITE FOR RESIDUE MPD B 2001
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ADH_ZINC (C:66-80,D:66-80)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ADH_ZINC
PS00059
Zinc-containing alcohol dehydrogenases signature.
ADH1E_HORSE
67-81
2
-
-
C:66-80
D:66-80
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Exons
(0, 0)
Info
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1p1ra1 (A:1-163,A:340-374)
1b: SCOP_d1p1rb1 (B:1-163,B:340-374)
1c: SCOP_d1p1rc1 (C:1-163,C:340-374)
1d: SCOP_d1p1rd1 (D:1-163,D:340-374)
2a: SCOP_d1p1ra2 (A:164-339)
2b: SCOP_d1p1rb2 (B:164-339)
2c: SCOP_d1p1rc2 (C:164-339)
2d: SCOP_d1p1rd2 (D:164-339)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
GroES-like
(132)
Superfamily
:
GroES-like
(130)
Family
:
Alcohol dehydrogenase-like, N-terminal domain
(114)
Protein domain
:
Alcohol dehydrogenase
(77)
Horse (Equus caballus) [TaxId: 9796]
(40)
1a
d1p1ra1
A:1-163,A:340-374
1b
d1p1rb1
B:1-163,B:340-374
1c
d1p1rc1
C:1-163,C:340-374
1d
d1p1rd1
D:1-163,D:340-374
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
:
Alcohol dehydrogenase-like, C-terminal domain
(115)
Protein domain
:
Alcohol dehydrogenase
(77)
Horse (Equus caballus) [TaxId: 9796]
(40)
2a
d1p1ra2
A:164-339
2b
d1p1rb2
B:164-339
2c
d1p1rc2
C:164-339
2d
d1p1rd2
D:164-339
[
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1p1rA02 (A:179-317)
1b: CATH_1p1rC02 (C:179-317)
1c: CATH_1p1rD02 (D:179-317)
1d: CATH_1p1rB02 (B:179-317)
2a: CATH_1p1rA01 (A:1-178,A:318-374)
2b: CATH_1p1rC01 (C:1-178,C:318-374)
2c: CATH_1p1rD01 (D:1-178,D:318-374)
2d: CATH_1p1rB01 (B:1-178,B:318-374)
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)
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)
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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)
Horse (Equus caballus)
(33)
1a
1p1rA02
A:179-317
1b
1p1rC02
C:179-317
1c
1p1rD02
D:179-317
1d
1p1rB02
B:179-317
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Quinone Oxidoreductase; Chain A, domain 1
(131)
Homologous Superfamily
:
Medium-chain alcohol dehydrogenases, catalytic domain
(131)
Horse (Equus caballus)
(33)
2a
1p1rA01
A:1-178,A:318-374
2b
1p1rC01
C:1-178,C:318-374
2c
1p1rD01
D:1-178,D:318-374
2d
1p1rB01
B:1-178,B:318-374
[
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]
Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_ADH_N_1p1rD01 (D:33-160)
1b: PFAM_ADH_N_1p1rD02 (D:33-160)
1c: PFAM_ADH_N_1p1rD03 (D:33-160)
1d: PFAM_ADH_N_1p1rD04 (D:33-160)
2a: PFAM_ADH_zinc_N_1p1rD05 (D:202-337)
2b: PFAM_ADH_zinc_N_1p1rD06 (D:202-337)
2c: PFAM_ADH_zinc_N_1p1rD07 (D:202-337)
2d: PFAM_ADH_zinc_N_1p1rD08 (D:202-337)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
GroES
(70)
Family
:
ADH_N
(62)
Equus caballus (Horse)
(15)
1a
ADH_N-1p1rD01
D:33-160
1b
ADH_N-1p1rD02
D:33-160
1c
ADH_N-1p1rD03
D:33-160
1d
ADH_N-1p1rD04
D:33-160
Clan
:
NADP_Rossmann
(1239)
Family
:
ADH_zinc_N
(75)
Equus caballus (Horse)
(15)
2a
ADH_zinc_N-1p1rD05
D:202-337
2b
ADH_zinc_N-1p1rD06
D:202-337
2c
ADH_zinc_N-1p1rD07
D:202-337
2d
ADH_zinc_N-1p1rD08
D:202-337
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