PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1ZMD
Asym. Unit
Info
Asym.Unit (637 KB)
Biol.Unit 1 (163 KB)
Biol.Unit 2 (163 KB)
Biol.Unit 3 (167 KB)
Biol.Unit 4 (168 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN DIHYDROLIPOAMIDE DEHYDROGENASE COMPLEXED TO NADH
Authors
:
C. A. Brautigam, J. L. Chuang, D. R. Tomchick, M. Machius, D. T. Chuang
Date
:
10 May 05 (Deposition) - 28 Jun 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.08
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Keywords
:
E3, Lipoamide Dehydrogenase, Pyruvate Dehydrogenase, Alpha- Ketoglutarate Dehydrogenase, Branched-Chain Alpha-Ketoacid Dehydrogenase, Glycine Decarboxylase, Glycine Cleavage, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. A. Brautigam, J. L. Chuang, D. R. Tomchick, M. Machius, D. T. Chuang
Crystal Structure Of Human Dihydrolipoamide Dehydrogenase: Nad+/Nadh Binding And The Structural Basis Of Disease-Causing Mutations
J. Mol. Biol. V. 350 543 2005
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 47)
Info
All Hetero Components
1a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
1b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
1c: FLAVIN-ADENINE DINUCLEOTIDE (FADc)
1d: FLAVIN-ADENINE DINUCLEOTIDE (FADd)
1e: FLAVIN-ADENINE DINUCLEOTIDE (FADe)
1f: FLAVIN-ADENINE DINUCLEOTIDE (FADf)
1g: FLAVIN-ADENINE DINUCLEOTIDE (FADg)
1h: FLAVIN-ADENINE DINUCLEOTIDE (FADh)
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)
2e: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIe)
2f: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIf)
2g: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIg)
2h: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIh)
3a: SULFATE ION (SO4a)
3aa: SULFATE ION (SO4aa)
3ab: SULFATE ION (SO4ab)
3ac: SULFATE ION (SO4ac)
3ad: SULFATE ION (SO4ad)
3ae: SULFATE ION (SO4ae)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
3q: SULFATE ION (SO4q)
3r: SULFATE ION (SO4r)
3s: SULFATE ION (SO4s)
3t: SULFATE ION (SO4t)
3u: SULFATE ION (SO4u)
3v: SULFATE ION (SO4v)
3w: SULFATE ION (SO4w)
3x: SULFATE ION (SO4x)
3y: SULFATE ION (SO4y)
3z: SULFATE ION (SO4z)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FAD
8
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
2
NAI
8
Ligand/Ion
1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
3
SO4
31
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(47, 47)
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)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:64 , GLY A:68 , THR A:69
BINDING SITE FOR RESIDUE SO4 A 2000
02
AC2
SOFTWARE
THR A:284 , ASN A:286 , LEU A:287 , GLY A:288 , LEU A:289 , GLU A:290 , GLU A:291 , HOH A:2055
BINDING SITE FOR RESIDUE SO4 A 2001
03
AC3
SOFTWARE
ARG A:299 , ARG A:301 , GLY A:324 , HOH A:2114
BINDING SITE FOR RESIDUE SO4 A 2002
04
AC4
SOFTWARE
HIS B:64 , GLY B:68 , THR B:69
BINDING SITE FOR RESIDUE SO4 B 2003
05
AC5
SOFTWARE
ASN B:286 , LEU B:287 , GLY B:288 , LEU B:289 , GLU B:290 , HOH B:2100
BINDING SITE FOR RESIDUE SO4 B 2004
06
AC6
SOFTWARE
LYS A:111 , ILE B:379 , GLU B:380 , GLN B:409 , HOH B:2036
BINDING SITE FOR RESIDUE SO4 B 2005
07
AC7
SOFTWARE
ARG B:299 , ARG B:301 , ALA B:323 , GLY B:324
BINDING SITE FOR RESIDUE SO4 B 2006
08
AC8
SOFTWARE
HIS C:64 , GLY C:68 , THR C:69
BINDING SITE FOR RESIDUE SO4 C 2007
09
AC9
SOFTWARE
ASN C:286 , LEU C:287 , GLY C:288 , LEU C:289 , GLU C:290
BINDING SITE FOR RESIDUE SO4 C 2008
10
BC1
SOFTWARE
ILE C:379 , GLU C:380 , GLN C:409 , HOH C:2044 , LYS D:111
BINDING SITE FOR RESIDUE SO4 C 2009
11
BC2
SOFTWARE
ARG C:299 , ARG C:301 , ALA C:323 , GLY C:324
BINDING SITE FOR RESIDUE SO4 C 2010
12
BC3
SOFTWARE
HIS D:64 , GLY D:68 , THR D:69 , HOH D:2037
BINDING SITE FOR RESIDUE SO4 D 2011
13
BC4
SOFTWARE
THR D:284 , ASN D:286 , LEU D:287 , GLY D:288 , LEU D:289 , GLU D:290 , GLU D:291 , HOH D:2174 , HOH D:2205
BINDING SITE FOR RESIDUE SO4 D 2012
14
BC5
SOFTWARE
GLY D:378 , ILE D:379 , GLU D:380 , GLN D:409
BINDING SITE FOR RESIDUE SO4 D 2013
15
BC6
SOFTWARE
ARG D:299 , ARG D:301 , ALA D:323 , GLY D:324
BINDING SITE FOR RESIDUE SO4 D 2014
16
BC7
SOFTWARE
HIS E:64 , GLY E:68 , THR E:69 , HOH E:2052
BINDING SITE FOR RESIDUE SO4 E 2015
17
BC8
SOFTWARE
THR E:284 , ASN E:286 , LEU E:287 , GLY E:288 , LEU E:289 , GLU E:290
BINDING SITE FOR RESIDUE SO4 E 2016
18
BC9
SOFTWARE
GLY E:378 , ILE E:379 , GLU E:380 , GLN E:409 , HOH E:2057 , HOH E:2121 , HOH E:2122 , LYS F:111
BINDING SITE FOR RESIDUE SO4 E 2017
19
CC1
SOFTWARE
ARG E:299 , ARG E:301 , ALA E:323 , GLY E:324 , HOH E:2063
BINDING SITE FOR RESIDUE SO4 E 2018
20
CC2
SOFTWARE
HIS F:64 , GLY F:68 , THR F:69 , HOH F:2079
BINDING SITE FOR RESIDUE SO4 F 2019
21
CC3
SOFTWARE
THR F:284 , LEU F:287 , GLY F:288 , LEU F:289 , GLU F:290 , GLU F:291 , HOH F:2291 , HOH F:2304
BINDING SITE FOR RESIDUE SO4 F 2020
22
CC4
SOFTWARE
GLY F:378 , ILE F:379 , GLU F:380 , GLN F:409
BINDING SITE FOR RESIDUE SO4 F 2021
23
CC5
SOFTWARE
ARG F:299 , ARG F:301 , LYS G:265
BINDING SITE FOR RESIDUE SO4 F 2022
24
CC6
SOFTWARE
HIS G:64 , GLY G:68 , THR G:69 , HOH G:2080
BINDING SITE FOR RESIDUE SO4 G 2023
25
CC7
SOFTWARE
THR G:284 , ASN G:286 , LEU G:287 , GLY G:288 , LEU G:289 , GLU G:290 , GLU G:291 , HOH G:2220
BINDING SITE FOR RESIDUE SO4 G 2024
26
CC8
SOFTWARE
ILE G:379 , GLU G:380 , GLN G:409
BINDING SITE FOR RESIDUE SO4 G 2025
27
CC9
SOFTWARE
LYS F:265 , ARG G:299
BINDING SITE FOR RESIDUE SO4 G 2026
28
DC1
SOFTWARE
HIS H:64 , GLY H:68 , THR H:69 , HOH H:2069 , HOH H:2190
BINDING SITE FOR RESIDUE SO4 H 2027
29
DC2
SOFTWARE
ASN H:286 , LEU H:287 , GLY H:288 , LEU H:289 , GLU H:290 , GLU H:291 , HOH H:2281
BINDING SITE FOR RESIDUE SO4 H 2028
30
DC3
SOFTWARE
LYS G:111 , ILE H:379 , GLU H:380 , GLN H:409 , HOH H:2071
BINDING SITE FOR RESIDUE SO4 H 2029
31
DC4
SOFTWARE
ARG H:299 , ARG H:301 , ALA H:323 , GLY H:324
BINDING SITE FOR RESIDUE SO4 H 2030
32
DC5
SOFTWARE
ILE A:12 , GLY A:13 , SER A:14 , GLY A:15 , PRO A:16 , GLY A:17 , GLU A:36 , LYS A:37 , ASN A:38 , GLY A:43 , THR A:44 , CYS A:45 , GLY A:49 , CYS A:50 , LYS A:54 , GLY A:117 , TYR A:118 , GLY A:119 , ALA A:147 , THR A:148 , GLY A:149 , SER A:150 , SER A:168 , ARG A:280 , PHE A:283 , GLY A:319 , ASP A:320 , MET A:326 , LEU A:327 , ALA A:328 , HIS A:329 , TYR A:359 , NAI A:481 , HOH A:2003 , HOH A:2005 , HOH A:2012 , HOH A:2016 , HIS B:452
BINDING SITE FOR RESIDUE FAD A 480
33
DC6
SOFTWARE
PHE A:155 , ILE A:184 , GLY A:185 , GLY A:187 , VAL A:188 , ILE A:189 , GLU A:192 , VAL A:207 , GLU A:208 , PHE A:209 , LEU A:210 , CYS A:277 , ILE A:278 , GLY A:279 , ARG A:280 , MET A:326 , LEU A:327 , VAL A:357 , TYR A:359 , FAD A:480 , HOH A:2042 , HOH A:2045 , HOH A:2097
BINDING SITE FOR RESIDUE NAI A 481
34
DC7
SOFTWARE
HIS A:452 , PRO A:453 , ILE B:12 , GLY B:13 , GLY B:15 , PRO B:16 , GLY B:17 , ILE B:35 , GLU B:36 , LYS B:37 , ASN B:38 , GLY B:43 , THR B:44 , CYS B:45 , VAL B:48 , GLY B:49 , CYS B:50 , SER B:53 , LYS B:54 , GLY B:117 , TYR B:118 , GLY B:119 , ALA B:147 , THR B:148 , GLY B:149 , SER B:150 , SER B:168 , GLY B:319 , ASP B:320 , MET B:326 , LEU B:327 , ALA B:328 , HIS B:329 , TYR B:359 , NAI B:481 , HOH B:2021 , HOH B:2045 , HOH B:2123
BINDING SITE FOR RESIDUE FAD B 480
35
DC8
SOFTWARE
GLY B:185 , GLY B:187 , VAL B:188 , ILE B:189 , GLU B:192 , GLU B:208 , PHE B:209 , LEU B:210 , CYS B:277 , ILE B:278 , GLY B:279 , MET B:326 , LEU B:327 , VAL B:357 , TYR B:359 , FAD B:480 , HOH B:2022 , HOH B:2056 , HOH B:2057 , HOH B:2063 , HOH B:2064 , HOH B:2094 , HOH B:2108
BINDING SITE FOR RESIDUE NAI B 481
36
DC9
SOFTWARE
ILE C:12 , GLY C:13 , GLY C:15 , PRO C:16 , GLY C:17 , ILE C:35 , GLU C:36 , LYS C:37 , ASN C:38 , GLY C:43 , THR C:44 , CYS C:45 , VAL C:48 , GLY C:49 , CYS C:50 , SER C:53 , LYS C:54 , GLY C:117 , TYR C:118 , GLY C:119 , ALA C:147 , THR C:148 , GLY C:149 , SER C:150 , SER C:168 , ILE C:189 , ARG C:280 , PHE C:283 , GLY C:319 , ASP C:320 , MET C:326 , LEU C:327 , ALA C:328 , HIS C:329 , TYR C:359 , NAI C:481 , HOH C:2020 , HOH C:2026 , HOH C:2054 , HIS D:452 , PRO D:453
BINDING SITE FOR RESIDUE FAD C 480
37
EC1
SOFTWARE
GLY C:185 , GLY C:187 , VAL C:188 , ILE C:189 , GLU C:192 , GLU C:208 , PHE C:209 , LEU C:210 , CYS C:277 , ILE C:278 , GLY C:279 , ARG C:280 , MET C:326 , VAL C:357 , TYR C:359 , FAD C:480 , HOH C:2050 , HOH C:2052 , HOH C:2058 , HOH C:2060 , HOH C:2077 , HOH C:2107 , HOH C:2109 , HOH C:2196
BINDING SITE FOR RESIDUE NAI C 481
38
EC2
SOFTWARE
HIS C:452 , ILE D:12 , GLY D:13 , SER D:14 , GLY D:15 , PRO D:16 , GLY D:17 , GLU D:36 , LYS D:37 , ASN D:38 , GLY D:43 , THR D:44 , CYS D:45 , VAL D:48 , GLY D:49 , CYS D:50 , SER D:53 , LYS D:54 , GLY D:117 , TYR D:118 , GLY D:119 , ALA D:147 , THR D:148 , GLY D:149 , SER D:150 , SER D:168 , ARG D:280 , PHE D:283 , GLY D:319 , ASP D:320 , MET D:326 , LEU D:327 , ALA D:328 , HIS D:329 , TYR D:359 , NAI D:481 , HOH D:2015 , HOH D:2018 , HOH D:2026 , HOH D:2080
BINDING SITE FOR RESIDUE FAD D 480
39
EC3
SOFTWARE
PHE D:155 , GLY D:185 , GLY D:187 , VAL D:188 , ILE D:189 , GLU D:192 , VAL D:207 , GLU D:208 , PHE D:209 , LEU D:210 , CYS D:277 , ILE D:278 , GLY D:279 , MET D:326 , VAL D:357 , TYR D:359 , FAD D:480 , HOH D:2085 , HOH D:2086 , HOH D:2096 , HOH D:2199 , HOH D:2200
BINDING SITE FOR RESIDUE NAI D 481
40
EC4
SOFTWARE
ILE E:12 , GLY E:13 , SER E:14 , GLY E:15 , PRO E:16 , GLY E:17 , GLU E:36 , LYS E:37 , ASN E:38 , GLY E:43 , THR E:44 , CYS E:45 , VAL E:48 , GLY E:49 , CYS E:50 , SER E:53 , LYS E:54 , TYR E:118 , GLY E:119 , ALA E:147 , THR E:148 , GLY E:149 , SER E:150 , SER E:168 , ILE E:189 , PHE E:283 , GLY E:319 , ASP E:320 , MET E:326 , LEU E:327 , ALA E:328 , HIS E:329 , TYR E:359 , NAI E:481 , HOH E:2021 , HOH E:2024 , HOH E:2243 , HOH E:2248 , HIS F:452 , PRO F:453
BINDING SITE FOR RESIDUE FAD E 480
41
EC5
SOFTWARE
GLY E:185 , GLY E:187 , VAL E:188 , ILE E:189 , GLU E:192 , GLU E:208 , PHE E:209 , LEU E:210 , CYS E:277 , ILE E:278 , GLY E:279 , ARG E:280 , MET E:326 , LEU E:327 , VAL E:357 , TYR E:359 , FAD E:480 , HOH E:2043 , HOH E:2048 , HOH E:2071 , HOH E:2075 , HOH E:2091 , HOH E:2129 , HOH E:2140 , HOH E:2241 , HOH E:2242
BINDING SITE FOR RESIDUE NAI E 481
42
EC6
SOFTWARE
HIS E:452 , PRO E:453 , ILE F:12 , GLY F:13 , SER F:14 , GLY F:15 , PRO F:16 , GLY F:17 , GLU F:36 , LYS F:37 , ASN F:38 , GLY F:43 , THR F:44 , CYS F:45 , VAL F:48 , GLY F:49 , CYS F:50 , SER F:53 , LYS F:54 , GLY F:117 , TYR F:118 , GLY F:119 , ALA F:147 , THR F:148 , GLY F:149 , SER F:150 , SER F:168 , ARG F:280 , PHE F:283 , GLY F:319 , ASP F:320 , MET F:326 , LEU F:327 , ALA F:328 , HIS F:329 , ALA F:331 , TYR F:359 , NAI F:481 , HOH F:2023 , HOH F:2024 , HOH F:2035 , HOH F:2218
BINDING SITE FOR RESIDUE FAD F 480
43
EC7
SOFTWARE
PHE F:155 , ILE F:184 , GLY F:185 , GLY F:187 , VAL F:188 , ILE F:189 , GLU F:192 , GLU F:208 , PHE F:209 , CYS F:277 , ILE F:278 , GLY F:279 , ARG F:280 , MET F:326 , LEU F:327 , VAL F:357 , TYR F:359 , FAD F:480 , HOH F:2095 , HOH F:2098 , HOH F:2147 , HOH F:2170 , HOH F:2172 , HOH F:2194 , HOH F:2196 , HOH F:2307 , SER G:262
BINDING SITE FOR RESIDUE NAI F 481
44
EC8
SOFTWARE
ILE G:12 , GLY G:13 , SER G:14 , GLY G:15 , PRO G:16 , GLY G:17 , GLU G:36 , LYS G:37 , ASN G:38 , GLY G:43 , THR G:44 , CYS G:45 , VAL G:48 , GLY G:49 , CYS G:50 , SER G:53 , LYS G:54 , GLY G:117 , TYR G:118 , GLY G:119 , ALA G:147 , THR G:148 , GLY G:149 , SER G:150 , SER G:168 , ARG G:280 , PHE G:283 , GLY G:319 , ASP G:320 , MET G:326 , LEU G:327 , ALA G:328 , HIS G:329 , TYR G:359 , NAI G:481 , HOH G:2027 , HOH G:2028 , HOH G:2055 , HOH G:2166 , HIS H:452
BINDING SITE FOR RESIDUE FAD G 480
45
EC9
SOFTWARE
PHE G:155 , GLY G:185 , GLY G:187 , VAL G:188 , ILE G:189 , GLU G:192 , VAL G:207 , GLU G:208 , PHE G:209 , LEU G:210 , THR G:241 , VAL G:243 , CYS G:277 , ILE G:278 , GLY G:279 , ARG G:280 , MET G:326 , LEU G:327 , VAL G:357 , TYR G:359 , FAD G:480 , HOH G:2089 , HOH G:2093 , HOH G:2162 , HOH G:2203 , HOH G:2336 , HOH G:2338 , HOH G:2341
BINDING SITE FOR RESIDUE NAI G 481
46
FC1
SOFTWARE
HIS G:452 , PRO G:453 , ILE H:12 , GLY H:13 , SER H:14 , GLY H:15 , PRO H:16 , GLY H:17 , GLU H:36 , LYS H:37 , ASN H:38 , GLY H:43 , THR H:44 , CYS H:45 , VAL H:48 , GLY H:49 , CYS H:50 , SER H:53 , LYS H:54 , GLY H:117 , TYR H:118 , GLY H:119 , ALA H:147 , THR H:148 , GLY H:149 , SER H:150 , SER H:168 , PHE H:283 , GLY H:319 , ASP H:320 , MET H:326 , LEU H:327 , ALA H:328 , HIS H:329 , TYR H:359 , NAI H:481 , HOH H:2031 , HOH H:2036 , HOH H:2095 , HOH H:2207
BINDING SITE FOR RESIDUE FAD H 480
47
FC2
SOFTWARE
GLY H:185 , GLY H:187 , VAL H:188 , ILE H:189 , GLU H:192 , GLU H:208 , PHE H:209 , LEU H:210 , CYS H:277 , ILE H:278 , GLY H:279 , MET H:326 , LEU H:327 , VAL H:357 , TYR H:359 , FAD H:480 , HOH H:2051 , HOH H:2067 , HOH H:2086 , HOH H:2096 , HOH H:2110 , HOH H:2127 , HOH H:2166
BINDING SITE FOR RESIDUE NAI H 481
[
close Site info
]
SAPs(SNPs)/Variants
(6, 48)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_006907 (K37E, chain A/B/C/D/E/F/G/H, )
2: VAR_031922 (T69T, chain A/B/C/D/E/F/G/H, )
3: VAR_015820 (G194C, chain A/B/C/D/E/F/G/H, )
4: VAR_014555 (L296V, chain A/B/C/D/E/F/G/H, )
5: VAR_006908 (P453L, chain A/B/C/D/E/F/G/H, )
6: VAR_015821 (R460G, 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_006907
K
72
E
DLDH_HUMAN
Disease (DLDD)
---
A/B/C/D/E/F/G/H
K
37
E
2
UniProt
VAR_031922
K
104
T
DLDH_HUMAN
Polymorphism
1130477
A/B/C/D/E/F/G/H
T
69
T
3
UniProt
VAR_015820
G
229
C
DLDH_HUMAN
Disease (DLDD)
---
A/B/C/D/E/F/G/H
G
194
C
4
UniProt
VAR_014555
L
331
V
DLDH_HUMAN
Polymorphism
17624
A/B/C/D/E/F/G/H
L
296
V
5
UniProt
VAR_006908
P
488
L
DLDH_HUMAN
Disease (DLDD)
---
A/B/C/D/E/F/G/H
P
453
L
6
UniProt
VAR_015821
R
495
G
DLDH_HUMAN
Disease (DLDD)
---
A/B/C/D/E/F/G/H
R
460
G
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 8)
Info
All PROSITE Patterns/Profiles
1: PYRIDINE_REDOX_1 (A:42-52,B:42-52,C:42-52,D:42-52,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PYRIDINE_REDOX_1
PS00076
Pyridine nucleotide-disulphide oxidoreductases class-I active site.
DLDH_HUMAN
77-87
8
A:42-52
B:42-52
C:42-52
D:42-52
E:42-52
F:42-52
G:42-52
H:42-52
[
close PROSITE info
]
Exons
(13, 104)
Info
All Exons
Exon 1.3a (A:3-5 | B:4-5 | C:4-5 | D:3-5 | E:...)
Exon 1.4 (A:5-31 | B:5-31 | C:5-31 | D:5-31 ...)
Exon 1.5 (A:32-54 | B:32-54 | C:32-54 | D:32...)
Exon 1.6a (A:55-78 | B:55-78 | C:55-78 | D:55...)
Exon 1.7e (A:78-111 | B:78-111 | C:78-111 | D...)
Exon 1.8b (A:112-159 | B:112-159 | C:112-159 ...)
Exon 1.9a (A:160-193 | B:160-193 | C:160-193 ...)
Exon 1.10b (A:194-257 | B:194-257 | C:194-257 ...)
Exon 1.11 (A:257-314 | B:257-314 | C:257-314 ...)
Exon 1.12 (A:314-377 | B:314-377 | C:314-377 ...)
Exon 1.13 (A:378-423 | B:378-423 | C:378-423 ...)
Exon 1.14 (A:424-453 | B:424-453 | C:424-453 ...)
Exon 1.15e (A:454-474 | B:454-474 | C:454-474 ...)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1a/1.3a
02: Boundary 1.3a/1.4
03: Boundary 1.4/1.5
04: Boundary 1.5/1.6a
05: Boundary 1.6a/1.7e
06: Boundary 1.7e/1.8b
07: Boundary 1.8b/1.9a
08: Boundary 1.9a/1.10b
09: Boundary 1.10b/1.11
10: Boundary 1.11/1.12
11: Boundary 1.12/1.13
12: Boundary 1.13/1.14
13: Boundary 1.14/1.15e
14: Boundary 1.15e/-
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
ENST00000205402
1a
ENSE00001876887
chr7:
107531415-107531734
320
DLDH_HUMAN
1-13
13
0
-
-
1.3a
ENST00000205402
3a
ENSE00000715773
chr7:
107533645-107533723
79
DLDH_HUMAN
14-40
27
8
A:3-5
B:4-5
C:4-5
D:3-5
E:2-5
F:4-5
G:3-5
H:4-5
3
2
2
3
4
2
3
2
1.4
ENST00000205402
4
ENSE00000715774
chr7:
107542183-107542262
80
DLDH_HUMAN
40-66
27
8
A:5-31
B:5-31
C:5-31
D:5-31
E:5-31
F:5-31
G:5-31
H:5-31
27
27
27
27
27
27
27
27
1.5
ENST00000205402
5
ENSE00000715776
chr7:
107542770-107542838
69
DLDH_HUMAN
67-89
23
8
A:32-54
B:32-54
C:32-54
D:32-54
E:32-54
F:32-54
G:32-54
H:32-54
23
23
23
23
23
23
23
23
1.6a
ENST00000205402
6a
ENSE00001665843
chr7:
107543923-107543992
70
DLDH_HUMAN
90-113
24
8
A:55-78
B:55-78
C:55-78
D:55-78
E:55-78
F:55-78
G:55-78
H:55-78
24
24
24
24
24
24
24
24
1.7e
ENST00000205402
7e
ENSE00001717474
chr7:
107545403-107545503
101
DLDH_HUMAN
113-146
34
8
A:78-111
B:78-111
C:78-111
D:78-111
E:78-111
F:78-111
G:78-111
H:78-111
34
34
34
34
34
34
34
34
1.8b
ENST00000205402
8b
ENSE00001761545
chr7:
107545806-107545949
144
DLDH_HUMAN
147-194
48
8
A:112-159
B:112-159
C:112-159
D:112-159
E:112-159
F:112-159
G:112-159
H:112-159
48
48
48
48
48
48
48
48
1.9a
ENST00000205402
9a
ENSE00001638968
chr7:
107546712-107546813
102
DLDH_HUMAN
195-228
34
8
A:160-193
B:160-193
C:160-193
D:160-193
E:160-193
F:160-193
G:160-193
H:160-193
34
34
34
34
34
34
34
34
1.10b
ENST00000205402
10b
ENSE00001672433
chr7:
107555951-107556141
191
DLDH_HUMAN
229-292
64
8
A:194-257
B:194-257
C:194-257
D:194-257
E:194-257
F:194-257
G:194-257
H:194-257
64
64
64
64
64
64
64
64
1.11
ENST00000205402
11
ENSE00001609201
chr7:
107557239-107557409
171
DLDH_HUMAN
292-349
58
8
A:257-314
B:257-314
C:257-314
D:257-314
E:257-314
F:257-314
G:257-314
H:257-314
58
58
58
58
58
58
58
58
1.12
ENST00000205402
12
ENSE00001752704
chr7:
107557718-107557907
190
DLDH_HUMAN
349-412
64
8
A:314-377
B:314-377
C:314-377
D:314-377
E:314-377
F:314-377
G:314-377
H:314-377
64
64
64
64
64
64
64
64
1.13
ENST00000205402
13
ENSE00001658920
chr7:
107558369-107558506
138
DLDH_HUMAN
413-458
46
8
A:378-423
B:378-423
C:378-423
D:378-423
E:378-423
F:378-423
G:378-423
H:378-423
46
46
46
46
46
46
46
46
1.14
ENST00000205402
14
ENSE00001606668
chr7:
107559455-107559544
90
DLDH_HUMAN
459-488
30
8
A:424-453
B:424-453
C:424-453
D:424-453
E:424-453
F:424-453
G:424-453
H:424-453
30
30
30
30
30
30
30
30
1.15e
ENST00000205402
15e
ENSE00000881778
chr7:
107559639-107560360
722
DLDH_HUMAN
489-509
21
8
A:454-474
B:454-474
C:454-474
D:454-474
E:454-474
F:454-474
G:454-474
H:454-474
21
21
21
21
21
21
21
21
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(2, 24)
Info
all CATH domains
1a: CATH_1zmdA03 (A:351-474)
1b: CATH_1zmdB03 (B:351-474)
1c: CATH_1zmdC03 (C:351-474)
1d: CATH_1zmdD03 (D:351-474)
1e: CATH_1zmdE03 (E:351-474)
1f: CATH_1zmdF03 (F:351-474)
1g: CATH_1zmdG03 (G:351-474)
1h: CATH_1zmdH03 (H:351-474)
2a: CATH_1zmdB01 (B:4-152,B:279-350)
2b: CATH_1zmdA02 (A:153-278)
2c: CATH_1zmdB02 (B:153-278)
2d: CATH_1zmdC02 (C:153-278)
2e: CATH_1zmdD02 (D:153-278)
2f: CATH_1zmdE02 (E:153-278)
2g: CATH_1zmdF02 (F:153-278)
2h: CATH_1zmdG02 (G:153-278)
2i: CATH_1zmdH02 (H:153-278)
2j: CATH_1zmdC01 (C:4-152,C:279-350)
2k: CATH_1zmdF01 (F:4-152,F:279-350)
2l: CATH_1zmdH01 (H:4-152,H:279-350)
2m: CATH_1zmdA01 (A:3-152,A:279-350)
2n: CATH_1zmdD01 (D:3-152,D:279-350)
2o: CATH_1zmdG01 (G:3-152,G:279-350)
2p: CATH_1zmdE01 (E:2-152,E:279-350)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Enolase-like; domain 1
(252)
Homologous Superfamily
:
[code=3.30.390.30, no name defined]
(99)
Human (Homo sapiens)
(26)
1a
1zmdA03
A:351-474
1b
1zmdB03
B:351-474
1c
1zmdC03
C:351-474
1d
1zmdD03
D:351-474
1e
1zmdE03
E:351-474
1f
1zmdF03
F:351-474
1g
1zmdG03
G:351-474
1h
1zmdH03
H:351-474
Architecture
:
3-Layer(bba) Sandwich
(528)
Topology
:
FAD/NAD(P)-binding domain
(373)
Homologous Superfamily
:
[code=3.50.50.60, no name defined]
(373)
Human (Homo sapiens)
(57)
2a
1zmdB01
B:4-152,B:279-350
2b
1zmdA02
A:153-278
2c
1zmdB02
B:153-278
2d
1zmdC02
C:153-278
2e
1zmdD02
D:153-278
2f
1zmdE02
E:153-278
2g
1zmdF02
F:153-278
2h
1zmdG02
G:153-278
2i
1zmdH02
H:153-278
2j
1zmdC01
C:4-152,C:279-350
2k
1zmdF01
F:4-152,F:279-350
2l
1zmdH01
H:4-152,H:279-350
2m
1zmdA01
A:3-152,A:279-350
2n
1zmdD01
D:3-152,D:279-350
2o
1zmdG01
G:3-152,G:279-350
2p
1zmdE01
E:2-152,E:279-350
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (637 KB)
Header - Asym.Unit
Biol.Unit 1 (163 KB)
Header - Biol.Unit 1
Biol.Unit 2 (163 KB)
Header - Biol.Unit 2
Biol.Unit 3 (167 KB)
Header - Biol.Unit 3
Biol.Unit 4 (168 KB)
Header - Biol.Unit 4
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1ZMD
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help