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3MAR
Asym. Unit
Info
Asym.Unit (126 KB)
Biol.Unit 1 (120 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HOMODIMERIC R132H MUTANT OF HUMAN CYTOSOLIC NADP(+)-DEPENDENT ISOCITRATE DEHYDROGENASE IN COMPLEX WITH NADP
Authors
:
B. Yang, Y. Peng, J. Ding
Date
:
24 Mar 10 (Deposition) - 10 Nov 10 (Release) - 21 May 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.41
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Isocitrate Dehydrogenase, Nicotinamide Adenine Dinucleotide Phosphate, Rossmann Fold, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Yang, C. Zhong, Y. Peng, Z. Lai, J. Ding
Molecular Mechanisms Of "Off-On Switch" Of Activities Of Human Idh1 By Tumor-Associated Mutation R132H.
Cell Res. V. 20 1188 2010
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
1b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:72 , THR A:75 , ILE A:76 , THR A:77 , ARG A:82 , GLU A:306 , HIS A:309 , GLY A:310 , THR A:311 , VAL A:312 , THR A:313 , ARG A:314 , HIS A:315 , THR A:327 , ASN A:328 , ASP A:375
BINDING SITE FOR RESIDUE NAP A 1003
2
AC2
SOFTWARE
LYS B:72 , THR B:75 , ILE B:76 , THR B:77 , ARG B:82 , ASN B:96 , LEU B:288 , GLY B:289 , HIS B:309 , GLY B:310 , THR B:311 , VAL B:312 , THR B:313 , ARG B:314 , HIS B:315 , ASN B:328 , ASP B:375
BINDING SITE FOR RESIDUE NAP B 1003
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SAPs(SNPs)/Variants
(7, 14)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_036013 (H132C, chain A/B, )
2: VAR_IDHC_HUMAN_CCDS2381_1_01 (H132C, chain A/B, )
3: VAR_055454 (H132G, chain A/B, )
4: VAR_055455 (H132H, chain A/B, )
5: VAR_055456 (H132L, chain A/B, )
6: VAR_055457 (H132S, chain A/B, )
7: VAR_049780 (V178I, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_036013
R
132
C
IDHC_HUMAN
Unclassified
---
A/B
H
132
C
2
CancerSNP
VAR_IDHC_HUMAN_CCDS2381_1_01
*
R
132
C
IDHC_HUMAN
Disease (Colorectal cancer)
---
A/B
H
132
C
3
UniProt
VAR_055454
R
132
G
IDHC_HUMAN
Unclassified
---
A/B
H
132
G
4
UniProt
VAR_055455
R
132
H
IDHC_HUMAN
Unclassified
---
A/B
H
132
H
5
UniProt
VAR_055456
R
132
L
IDHC_HUMAN
Unclassified
---
A/B
H
132
L
6
UniProt
VAR_055457
R
132
S
IDHC_HUMAN
Unclassified
---
A/B
H
132
S
7
UniProt
VAR_049780
V
178
I
IDHC_HUMAN
Polymorphism
34218846
A/B
V
178
I
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: IDH_IMDH (A:271-290,B:271-290)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IDH_IMDH
PS00470
Isocitrate and isopropylmalate dehydrogenases signature.
IDHC_HUMAN
271-290
2
A:271-290
B:271-290
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Exons
(8, 16)
Info
All Exons
Exon 1.6a (A:2-41 | B:1-41)
Exon 1.7c (A:41-134 | B:41-134)
Exon 1.8b (A:141-174 | B:140-174)
Exon 1.9b (A:174-233 | B:174-233)
Exon 1.10 (A:233-284 (gaps) | B:233-271)
Exon 1.11b (A:284-331 | B:286-331)
Exon 1.12 (A:331-385 | B:331-385)
Exon 1.13f (A:385-414 | B:385-414)
View:
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All Exon Boundaries
1: Boundary 1.5d/1.6a
2: Boundary 1.6a/1.7c
3: Boundary 1.7c/1.8b
4: Boundary 1.8b/1.9b
5: Boundary 1.9b/1.10
6: Boundary 1.10/1.11b
7: Boundary 1.11b/1.12
8: Boundary 1.12/1.13f
9: Boundary 1.13f/-
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
1.3a
ENST00000345146
3a
ENSE00001908890
chr2:
209119857-209119663
195
IDHC_HUMAN
-
0
0
-
-
1.5d
ENST00000345146
5d
ENSE00001357891
chr2:
209118683-209118610
74
IDHC_HUMAN
-
0
0
-
-
1.6a
ENST00000345146
6a
ENSE00002149609
chr2:
209116291-209116154
138
IDHC_HUMAN
1-41
41
2
A:2-41
B:1-41
40
41
1.7c
ENST00000345146
7c
ENSE00000934687
chr2:
209113384-209113093
292
IDHC_HUMAN
41-138
98
2
A:41-134
B:41-134
94
94
1.8b
ENST00000345146
8b
ENSE00002162985
chr2:
209110148-209110043
106
IDHC_HUMAN
139-174
36
2
A:141-174
B:140-174
34
35
1.9b
ENST00000345146
9b
ENSE00001796387
chr2:
209108328-209108151
178
IDHC_HUMAN
174-233
60
2
A:174-233
B:174-233
60
60
1.10
ENST00000345146
10
ENSE00000934684
chr2:
209106869-209106718
152
IDHC_HUMAN
233-284
52
2
A:233-284 (gaps)
B:233-271
52
39
1.11b
ENST00000345146
11b
ENSE00000934683
chr2:
209104727-209104587
141
IDHC_HUMAN
284-331
48
2
A:284-331
B:286-331
48
46
1.12
ENST00000345146
12
ENSE00000934682
chr2:
209103957-209103795
163
IDHC_HUMAN
331-385
55
2
A:331-385
B:331-385
55
55
1.13f
ENST00000345146
13f
ENSE00000934681
chr2:
209101893-209100951
943
IDHC_HUMAN
385-414
30
2
A:385-414
B:385-414
30
30
[
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SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Iso_dh_3marB01 (B:9-401)
1b: PFAM_Iso_dh_3marB02 (B:9-401)
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Clan
:
Iso_DH
(49)
Family
:
Iso_dh
(38)
Homo sapiens (Human)
(5)
1a
Iso_dh-3marB01
B:9-401
1b
Iso_dh-3marB02
B:9-401
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