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2C6Q
Asym. Unit
Info
Asym.Unit (470 KB)
Biol.Unit 1 (233 KB)
Biol.Unit 2 (234 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN GUANOSINE MONOPHOSPHATE REDUCTASE 2 GMPR2 IN COMPLEX WITH IMP AND NADPH
Authors
:
P. Kursula, P. Stenmark, C. Arrowsmith, H. Berglund, A. Edwards, M. Ehn S. Graslund, M. Hammarstrom, B. M. Hallberg, T. Kotenyova, P. Nilsson D. Ogg, C. Persson, J. Sagemark, H. Schuler, M. Sundstrom, A. Thorsell J. Weigelt, P. Nordlund
Date
:
11 Nov 05 (Deposition) - 30 Nov 05 (Release) - 30 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Tim Barrel, Metal-Binding, Nadp, Oxidoreductase, Potassium
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. C. Patton, P. Stenmark, D. R. Gollapalli, R. Sevastik, P. Kursula, S. Flodin, H. Schuler, C. T. Swales, H. Eklund, F. Himo, P. Nordlund, L. Hedstrom
Cofactor Mobility Determines Reaction Outcome In The Impdh And Gmpr (Beta-Alpha)(8) Barrel Enzymes.
Nat. Chem. Biol. V. 7 950 2011
[
close entry info
]
Hetero Components
(2, 15)
Info
All Hetero Components
1a: INOSINIC ACID (IMPa)
1b: INOSINIC ACID (IMPb)
1c: INOSINIC ACID (IMPc)
1d: INOSINIC ACID (IMPd)
1e: INOSINIC ACID (IMPe)
1f: INOSINIC ACID (IMPf)
1g: INOSINIC ACID (IMPg)
1h: INOSINIC ACID (IMPh)
2a: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPa)
2b: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPb)
2c: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPc)
2d: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPd)
2e: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPe)
2f: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPf)
2g: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPg)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
IMP
8
Ligand/Ion
INOSINIC ACID
2
NDP
7
Ligand/Ion
NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
[
close Hetero Component info
]
Sites
(15, 15)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ALA A:53 , MET A:55 , GLY A:183 , SER A:184 , CYS A:186 , ASP A:219 , GLY A:220 , GLY A:221 , MET A:240 , GLY A:242 , GLY A:243 , GLY A:268 , MET A:269 , SER A:270 , GLU A:289 , GLY A:290 , NDP A:1338 , HOH A:2050 , HOH A:2195 , HOH A:2209 , HOH A:2293 , HOH A:2294 , HOH A:2295 , HOH A:2297
BINDING SITE FOR RESIDUE IMP A1337
02
AC2
SOFTWARE
LYS A:78 , GLY A:104 , THR A:105 , VAL A:130 , MET A:269 , SER A:270 , MET A:275 , TYR A:285 , ARG A:286 , IMP A:1337 , HOH A:2139 , HOH A:2254 , HOH A:2296 , HOH A:2297 , HOH A:2298 , HOH A:2299 , HOH A:2301 , HOH A:2302 , LYS B:25 , SER B:26 , ARG B:27 , SER B:314 , THR B:317 , TYR B:318
BINDING SITE FOR RESIDUE NDP A1338
03
AC3
SOFTWARE
ALA B:53 , MET B:55 , GLY B:183 , SER B:184 , CYS B:186 , ASP B:219 , GLY B:220 , GLY B:221 , MET B:240 , GLY B:242 , GLY B:243 , GLY B:268 , MET B:269 , SER B:270 , GLU B:289 , GLY B:290 , NDP B:1340 , HOH B:2047 , HOH B:2179 , HOH B:2273 , HOH B:2274 , HOH B:2275 , HOH B:2276
BINDING SITE FOR RESIDUE IMP B1339
04
AC4
SOFTWARE
ASP B:129 , VAL B:130 , ALA B:131 , ASN B:132 , ASN B:158 , GLY B:179 , ILE B:180 , GLY B:181 , THR B:188 , MET B:269 , SER B:270 , TYR B:285 , ARG B:286 , IMP B:1339 , HOH B:2130 , HOH B:2131 , HOH B:2132 , HOH B:2223 , HOH B:2243 , HOH B:2277 , HOH B:2278 , HOH B:2279 , HOH B:2280 , HOH B:2281 , HOH B:2283 , HOH B:2284 , HOH B:2285 , LYS D:25 , SER D:26 , ARG D:27 , SER D:314 , THR D:317 , TYR D:318
BINDING SITE FOR RESIDUE NDP B1340
05
AC5
SOFTWARE
ALA C:53 , MET C:55 , GLY C:183 , SER C:184 , CYS C:186 , ASP C:219 , GLY C:220 , GLY C:221 , MET C:240 , GLY C:242 , GLY C:243 , GLY C:268 , MET C:269 , SER C:270 , GLU C:289 , GLY C:290 , NDP C:1338 , HOH C:2061 , HOH C:2223 , HOH C:2324 , HOH C:2325 , HOH C:2326 , HOH C:2327
BINDING SITE FOR RESIDUE IMP C1337
06
AC6
SOFTWARE
LYS A:25 , SER A:26 , ARG A:27 , SER A:314 , THR A:317 , TYR A:318 , THR C:105 , ASP C:129 , VAL C:130 , ALA C:131 , ASN C:158 , GLY C:179 , ILE C:180 , GLY C:181 , THR C:188 , MET C:269 , SER C:270 , TYR C:285 , ARG C:286 , IMP C:1337 , HOH C:2168 , HOH C:2278 , HOH C:2328 , HOH C:2330 , HOH C:2331 , HOH C:2333 , HOH C:2334 , HOH C:2335
BINDING SITE FOR RESIDUE NDP C1338
07
AC7
SOFTWARE
ALA D:53 , GLY D:183 , SER D:184 , CYS D:186 , ASP D:219 , GLY D:220 , GLY D:221 , MET D:240 , GLY D:242 , GLY D:243 , GLY D:268 , MET D:269 , SER D:270 , GLU D:289 , GLY D:290 , NDP D:1338 , HOH D:2162 , HOH D:2190 , HOH D:2295 , HOH D:2296 , HOH D:2297 , HOH D:2298 , HOH D:2299 , HOH D:2302
BINDING SITE FOR RESIDUE IMP D1337
08
AC8
SOFTWARE
LYS C:25 , SER C:26 , ARG C:27 , SER C:314 , THR C:317 , TYR C:318 , LYS D:78 , GLY D:104 , THR D:105 , VAL D:130 , ALA D:131 , MET D:269 , SER D:270 , MET D:275 , TYR D:285 , ARG D:286 , IMP D:1337 , HOH D:2135 , HOH D:2137 , HOH D:2252 , HOH D:2253 , HOH D:2300 , HOH D:2301 , HOH D:2302 , HOH D:2303 , HOH D:2304
BINDING SITE FOR RESIDUE NDP D1338
09
AC9
SOFTWARE
ALA E:53 , MET E:55 , GLY E:183 , SER E:184 , CYS E:186 , ASP E:219 , GLY E:220 , GLY E:221 , MET E:240 , GLY E:242 , GLY E:243 , GLY E:268 , MET E:269 , SER E:270 , GLU E:289 , GLY E:290 , NDP E:1338 , HOH E:2059 , HOH E:2229 , HOH E:2339 , HOH E:2340 , HOH E:2341 , HOH E:2342 , HOH E:2346
BINDING SITE FOR RESIDUE IMP E1337
10
BC1
SOFTWARE
LYS E:78 , GLY E:104 , THR E:105 , VAL E:130 , ALA E:131 , ASN E:132 , MET E:269 , SER E:270 , MET E:275 , TYR E:285 , ARG E:286 , IMP E:1337 , HOH E:2167 , HOH E:2290 , HOH E:2291 , HOH E:2343 , HOH E:2344 , HOH E:2345 , HOH E:2346 , HOH E:2347 , HOH E:2348 , HOH E:2349 , HOH E:2350 , HOH E:2352 , LYS F:25 , SER F:26 , ARG F:27 , SER F:314 , THR F:317 , TYR F:318
BINDING SITE FOR RESIDUE NDP E1338
11
BC2
SOFTWARE
ALA F:53 , MET F:55 , GLY F:183 , SER F:184 , CYS F:186 , ASP F:219 , GLY F:220 , GLY F:221 , MET F:240 , GLY F:242 , GLY F:243 , GLY F:268 , MET F:269 , SER F:270 , GLU F:289 , GLY F:290 , NDP F:1338 , HOH F:2062 , HOH F:2222 , HOH F:2225 , HOH F:2335 , HOH F:2336 , HOH F:2337
BINDING SITE FOR RESIDUE IMP F1337
12
BC3
SOFTWARE
ASP F:129 , VAL F:130 , ALA F:131 , ASN F:132 , ASN F:158 , GLY F:179 , ILE F:180 , GLY F:181 , THR F:188 , MET F:269 , SER F:270 , TYR F:285 , ARG F:286 , IMP F:1337 , HOH F:2164 , HOH F:2165 , HOH F:2166 , HOH F:2195 , HOH F:2288 , HOH F:2339 , HOH F:2340 , HOH F:2341 , HOH F:2343 , HOH F:2344 , HOH F:2345 , LYS H:25 , SER H:26 , ARG H:27 , SER H:314 , THR H:317 , TYR H:318
BINDING SITE FOR RESIDUE NDP F1338
13
BC4
SOFTWARE
ALA G:53 , MET G:55 , GLY G:183 , SER G:184 , CYS G:186 , ASP G:219 , GLY G:220 , GLY G:221 , MET G:240 , GLY G:242 , GLY G:243 , GLY G:268 , MET G:269 , SER G:270 , GLU G:289 , GLY G:290 , HOH G:2058 , HOH G:2190 , HOH G:2211 , HOH G:2300 , HOH G:2301 , HOH G:2303 , HOH G:2304
BINDING SITE FOR RESIDUE IMP G1338
14
BC5
SOFTWARE
ALA H:53 , MET H:55 , GLY H:183 , SER H:184 , CYS H:186 , ASP H:219 , GLY H:220 , GLY H:221 , MET H:240 , GLY H:242 , GLY H:243 , GLY H:268 , MET H:269 , SER H:270 , GLU H:289 , GLY H:290 , NDP H:1338 , HOH H:2067 , HOH H:2201 , HOH H:2228 , HOH H:2329 , HOH H:2330 , HOH H:2331 , HOH H:2332 , HOH H:2339
BINDING SITE FOR RESIDUE IMP H1337
15
BC6
SOFTWARE
LYS G:25 , SER G:26 , ARG G:27 , SER G:314 , THR G:317 , TYR G:318 , LYS H:78 , GLY H:104 , THR H:105 , VAL H:130 , ALA H:131 , MET H:269 , SER H:270 , MET H:275 , TYR H:285 , ARG H:286 , IMP H:1337 , HOH H:2165 , HOH H:2290 , HOH H:2291 , HOH H:2333 , HOH H:2334 , HOH H:2335 , HOH H:2336 , HOH H:2337 , HOH H:2338 , HOH H:2339 , HOH H:2340
BINDING SITE FOR RESIDUE NDP H1338
[
close Site info
]
SAPs(SNPs)/Variants
(1, 8)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_049602 (G242D, chain A/B/C/D/E/F/G/H, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_049602
G
242
D
GMPR2_HUMAN
Polymorphism
34354104
A/B/C/D/E/F/G/H
G
242
D
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 8)
Info
All PROSITE Patterns/Profiles
1: IMP_DH_GMP_RED (A:176-188,B:176-188,C:176-188,D:17...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IMP_DH_GMP_RED
PS00487
IMP dehydrogenase / GMP reductase signature.
GMPR2_HUMAN
176-188
8
A:176-188
B:176-188
C:176-188
D:176-188
E:176-188
F:176-188
G:176-188
H:176-188
[
close PROSITE info
]
Exons
(9, 72)
Info
All Exons
Exon 1.2d (A:9-29 | B:9-29 | C:9-29 | D:9-29 ...)
Exon 1.3 (A:30-69 | B:30-69 | C:30-69 | D:30...)
Exon 1.4 (A:70-97 | B:70-97 | C:70-97 | D:70...)
Exon 1.5 (A:98-155 | B:98-155 | C:98-155 | D...)
Exon 1.6 (A:156-183 | B:156-183 | C:156-183 ...)
Exon 1.7 (A:183-218 | B:183-218 | C:183-218 ...)
Exon 1.8 (A:219-233 | B:219-233 | C:219-233 ...)
Exon 1.9a (A:233-286 | B:233-286 | C:233-286 ...)
Exon 1.9c (A:286-336 | B:286-337 | C:286-336 ...)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.2a/1.2d
02: Boundary 1.2d/1.3
03: Boundary 1.3/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6
06: Boundary 1.6/1.7
07: Boundary 1.7/1.8
08: Boundary 1.8/1.9a
09: Boundary 1.9a/1.9c
10: Boundary 1.9c/-
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
1.2a
ENST00000399440
2a
ENSE00001538316
chr14:
24702103-24702183
81
GMPR2_HUMAN
-
0
0
-
-
1.2d
ENST00000399440
2d
ENSE00001336873
chr14:
24702425-24702546
122
GMPR2_HUMAN
1-29
29
8
A:9-29
B:9-29
C:9-29
D:9-29
E:9-29
F:9-29
G:9-29
H:9-29
21
21
21
21
21
21
21
21
1.3
ENST00000399440
3
ENSE00000654361
chr14:
24702685-24702804
120
GMPR2_HUMAN
30-69
40
8
A:30-69
B:30-69
C:30-69
D:30-69
E:30-69
F:30-69
G:30-69
H:30-69
40
40
40
40
40
40
40
40
1.4
ENST00000399440
4
ENSE00000654362
chr14:
24704943-24705026
84
GMPR2_HUMAN
70-97
28
8
A:70-97
B:70-97
C:70-97
D:70-97
E:70-97
F:70-97
G:70-97
H:70-97
28
28
28
28
28
28
28
28
1.5
ENST00000399440
5
ENSE00001383245
chr14:
24705173-24705346
174
GMPR2_HUMAN
98-155
58
8
A:98-155
B:98-155
C:98-155
D:98-155
E:98-155
F:98-155
G:98-155
H:98-155
58
58
58
58
58
58
58
58
1.6
ENST00000399440
6
ENSE00001652114
chr14:
24706277-24706358
82
GMPR2_HUMAN
156-183
28
8
A:156-183
B:156-183
C:156-183
D:156-183
E:156-183
F:156-183
G:156-183
H:156-183
28
28
28
28
28
28
28
28
1.7
ENST00000399440
7
ENSE00000654366
chr14:
24706451-24706557
107
GMPR2_HUMAN
183-218
36
8
A:183-218
B:183-218
C:183-218
D:183-218
E:183-218
F:183-218
G:183-218
H:183-218
36
36
36
36
36
36
36
36
1.8
ENST00000399440
8
ENSE00000654367
chr14:
24706726-24706768
43
GMPR2_HUMAN
219-233
15
8
A:219-233
B:219-233
C:219-233
D:219-233
E:219-233
F:219-233
G:219-233
H:219-233
15
15
15
15
15
15
15
15
1.9a
ENST00000399440
9a
ENSE00000654368
chr14:
24707452-24707611
160
GMPR2_HUMAN
233-286
54
8
A:233-286
B:233-286
C:233-286
D:233-286
E:233-286
F:233-286
G:233-278
H:233-286
54
54
54
54
54
54
46
54
1.9c
ENST00000399440
9c
ENSE00000889423
chr14:
24707795-24708445
651
GMPR2_HUMAN
286-348
63
8
A:286-336
B:286-337
C:286-336
D:286-336
E:286-336
F:286-336
G:287-337
H:286-336
51
52
51
51
51
51
51
51
[
close EXON info
]
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d2c6qa_ (A:)
1b: SCOP_d2c6qb_ (B:)
1c: SCOP_d2c6qc_ (C:)
1d: SCOP_d2c6qd_ (D:)
1e: SCOP_d2c6qe_ (E:)
1f: SCOP_d2c6qf_ (F:)
1g: SCOP_d2c6qg_ (G:)
1h: SCOP_d2c6qh_ (H:)
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Protein Domains
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(
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Inosine monophosphate dehydrogenase (IMPDH)
(29)
Family
:
automated matches
(11)
Protein domain
:
automated matches
(11)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2c6qa_
A:
1b
d2c6qb_
B:
1c
d2c6qc_
C:
1d
d2c6qd_
D:
1e
d2c6qe_
E:
1f
d2c6qf_
F:
1g
d2c6qg_
G:
1h
d2c6qh_
H:
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asym.Unit (470 KB)
Header - Asym.Unit
Biol.Unit 1 (233 KB)
Header - Biol.Unit 1
Biol.Unit 2 (234 KB)
Header - Biol.Unit 2
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