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1LI4
Asym. Unit
Info
Asym.Unit (79 KB)
Biol.Unit 1 (287 KB)
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(1)
Title
:
HUMAN S-ADENOSYLHOMOCYSTEINE HYDROLASE COMPLEXED WITH NEPLANOCIN
Authors
:
X. Yang, Y. Hu, D. H. Yin, M. A. Turner, M. Wang, R. T. Borchardt, P. L. Howe K. Kuczera, R. L. Schowen
Date
:
17 Apr 02 (Deposition) - 20 May 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.01
Chains
:
Asym. Unit : A
Biol. Unit 1: A (4x)
Keywords
:
Alpha-Beta Structure, Inhibitor Complex, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
X. Yang, Y. Hu, D. H. Yin, M. A. Turner, M. Wang, R. T. Borchardt, P. L. Howell, K. Kuczera, R. L. Schowen
Catalytic Strategy Of S-Adenosyl-L-Homocysteine Hydrolase: Transition-State Stabilization And The Avoidance Of Abortiv Reactions
Biochemistry V. 42 1900 2003
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Hetero Components
(3, 4)
Info
All Hetero Components
1a: ISOPROPYL ALCOHOL (IPAa)
1b: ISOPROPYL ALCOHOL (IPAb)
2a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3a: 3-(6-AMINO-PURIN-9-YL)-5-HYDROXYME... (NOCa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
IPA
2
Ligand/Ion
ISOPROPYL ALCOHOL
2
NAD
1
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
3
NOC
1
Ligand/Ion
3-(6-AMINO-PURIN-9-YL)-5-HYDROXYMETHYL-CYCLOPENTANE-1,2-DIOL
[
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
THR A:157 , THR A:158 , THR A:159 , ASP A:190 , ASN A:191 , GLY A:220 , GLY A:222 , ASP A:223 , VAL A:224 , THR A:242 , GLU A:243 , ILE A:244 , ASP A:245 , ASN A:248 , THR A:275 , THR A:276 , CYS A:278 , ILE A:281 , ILE A:299 , GLY A:300 , HIS A:301 , LEU A:344 , ASN A:346 , HIS A:353 , LYS A:426 , TYR A:430 , NOC A:434 , HOH A:903 , HOH A:929 , HOH A:930 , HOH A:938 , HOH A:998
BINDING SITE FOR RESIDUE NAD A 433
2
AC2
SOFTWARE
HIS A:55 , THR A:57 , GLU A:59 , THR A:60 , ASP A:131 , GLU A:156 , THR A:157 , LYS A:186 , ASP A:190 , HIS A:301 , MET A:351 , GLY A:352 , HIS A:353 , MET A:358 , PHE A:362 , NAD A:433
BINDING SITE FOR RESIDUE NOC A 434
3
AC3
SOFTWARE
ARG A:238 , ALA A:253 , TYR A:257 , VAL A:259 , LEU A:402 , HOH A:1039
BINDING SITE FOR RESIDUE IPA A 900
4
AC4
SOFTWARE
GLN A:85 , ASP A:86 , HIS A:87
BINDING SITE FOR RESIDUE IPA A 901
[
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SAPs(SNPs)/Variants
(6, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_052286 (R38W, chain A, )
2: VAR_058588 (R49C, chain A, )
3: VAR_058589 (D86G, chain A, )
4: VAR_006934 (D86N, chain A, )
5: VAR_058590 (A89V, chain A, )
6: VAR_058591 (Y143C, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_052286
R
38
W
SAHH_HUMAN
Polymorphism
13043752
A
R
38
W
2
UniProt
VAR_058588
R
49
C
SAHH_HUMAN
Disease (HMAHCHD)
---
A
R
49
C
3
UniProt
VAR_058589
D
86
G
SAHH_HUMAN
Disease (HMAHCHD)
---
A
D
86
G
4
UniProt
VAR_006934
D
86
N
SAHH_HUMAN
Polymorphism
---
A
D
86
N
5
UniProt
VAR_058590
A
89
V
SAHH_HUMAN
Disease (HMAHCHD)
---
A
A
89
V
6
UniProt
VAR_058591
Y
143
C
SAHH_HUMAN
Disease (HMAHCHD)
---
A
Y
143
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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]
PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: ADOHCYASE_1 (A:78-92)
2: ADOHCYASE_2 (A:213-229)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ADOHCYASE_1
PS00738
S-adenosyl-L-homocysteine hydrolase signature 1.
SAHH_HUMAN
78-92
1
A:78-92
2
ADOHCYASE_2
PS00739
S-adenosyl-L-homocysteine hydrolase signature 2.
SAHH_HUMAN
213-229
1
A:213-229
[
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Exons
(10, 10)
Info
All Exons
Exon 1.1a (A:3-10)
Exon 1.4b (A:10-73)
Exon 1.5 (A:74-99)
Exon 1.6 (A:99-149)
Exon 1.7b (A:149-186)
Exon 1.8 (A:187-256)
Exon 1.9a (A:256-285)
Exon 1.9c (A:285-324)
Exon 1.10 (A:325-389)
Exon 1.11b (A:390-432)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1a
02: Boundary 1.1a/1.4b
03: Boundary 1.4b/1.5
04: Boundary 1.5/1.6
05: Boundary 1.6/1.7b
06: Boundary 1.7b/1.8
07: Boundary 1.8/1.9a
08: Boundary 1.9a/1.9c
09: Boundary 1.9c/1.10
10: Boundary 1.10/1.11b
11: Boundary 1.11b/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1a
ENST00000217426
1a
ENSE00001152081
chr20:
32891154-32891049
106
SAHH_HUMAN
1-10
10
1
A:3-10
8
1.4b
ENST00000217426
4b
ENSE00000860101
chr20:
32883391-32883201
191
SAHH_HUMAN
10-73
64
1
A:10-73
64
1.5
ENST00000217426
5
ENSE00000661390
chr20:
32881962-32881887
76
SAHH_HUMAN
74-99
26
1
A:74-99
26
1.6
ENST00000217426
6
ENSE00000661389
chr20:
32880313-32880164
150
SAHH_HUMAN
99-149
51
1
A:99-149
51
1.7b
ENST00000217426
7b
ENSE00000661388
chr20:
32879337-32879225
113
SAHH_HUMAN
149-186
38
1
A:149-186
38
1.8
ENST00000217426
8
ENSE00000661387
chr20:
32878744-32878537
208
SAHH_HUMAN
187-256
70
1
A:187-256
70
1.9a
ENST00000217426
9a
ENSE00000661386
chr20:
32878444-32878357
88
SAHH_HUMAN
256-285
30
1
A:256-285
30
1.9c
ENST00000217426
9c
ENSE00001048932
chr20:
32878255-32878138
118
SAHH_HUMAN
285-324
40
1
A:285-324
40
1.10
ENST00000217426
10
ENSE00000661384
chr20:
32873440-32873246
195
SAHH_HUMAN
325-389
65
1
A:325-389
65
1.11b
ENST00000217426
11b
ENSE00001820276
chr20:
32868971-32868074
898
SAHH_HUMAN
390-432
43
1
A:390-432
43
[
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]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1li4a2 (A:3-189,A:353-432)
2a: SCOP_d1li4a1 (A:190-352)
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Flavodoxin-like
(1057)
Superfamily
:
Formate/glycerate dehydrogenase catalytic domain-like
(49)
Family
:
S-adenosylhomocystein hydrolase
(10)
Protein domain
:
S-adenosylhomocystein hydrolase
(10)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1li4a2
A:3-189,A:353-432
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Formate/glycerate dehydrogenases, NAD-domain
(49)
Protein domain
:
S-adenosylhomocystein hydrolase
(10)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d1li4a1
A:190-352
[
close SCOP info
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1li4A01 (A:3-192,A:353-404)
2a: CATH_1li4A02 (A:193-352)
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Topologies
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1480, no name defined]
(11)
Human (Homo sapiens)
(2)
1a
1li4A01
A:3-192,A:353-404
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Human (Homo sapiens)
(188)
2a
1li4A02
A:193-352
[
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_AdoHcyase_1li4A01 (A:5-431)
2a: PFAM_AdoHcyase_NAD_1li4A02 (A:191-352)
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Clans
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(
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)
Clan
:
Form_Glyc_dh
(56)
Family
:
AdoHcyase
(11)
Homo sapiens (Human)
(3)
1a
AdoHcyase-1li4A01
A:5-431
Clan
:
NADP_Rossmann
(1239)
Family
:
AdoHcyase_NAD
(11)
Homo sapiens (Human)
(3)
2a
AdoHcyase_NAD-1li4A02
A:191-352
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