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2GC9
Asym. Unit
Info
Asym.Unit (75 KB)
Biol.Unit 1 (67 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF P-COUMARIC ACID DECARBOXYLASE (NP_786857.1) FROM LACTOBACILLUS PLANTARUM AT 1.70 A RESOLUTION
Authors
:
Joint Center For Structural Genomics (Jcsg)
Date
:
13 Mar 06 (Deposition) - 21 Mar 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Np_786857. 1, P-Coumaric Acid Decarboxylase, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of P-Coumaric Acid Decarboxylase (Np_786857. 1) From Lactobacillus Plantarum At 1. 70 A Resolution
To Be Published
[
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Hetero Components
(4, 49)
Info
All Hetero Components
1a: CITRIC ACID (CITa)
2a: 1,2-ETHANEDIOL (EDOa)
2aa: 1,2-ETHANEDIOL (EDOaa)
2ab: 1,2-ETHANEDIOL (EDOab)
2ac: 1,2-ETHANEDIOL (EDOac)
2ad: 1,2-ETHANEDIOL (EDOad)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
2s: 1,2-ETHANEDIOL (EDOs)
2t: 1,2-ETHANEDIOL (EDOt)
2u: 1,2-ETHANEDIOL (EDOu)
2v: 1,2-ETHANEDIOL (EDOv)
2w: 1,2-ETHANEDIOL (EDOw)
2x: 1,2-ETHANEDIOL (EDOx)
2y: 1,2-ETHANEDIOL (EDOy)
2z: 1,2-ETHANEDIOL (EDOz)
3a: SELENOMETHIONINE (MSEa)
3b: SELENOMETHIONINE (MSEb)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
3g: SELENOMETHIONINE (MSEg)
3h: SELENOMETHIONINE (MSEh)
3i: SELENOMETHIONINE (MSEi)
3j: SELENOMETHIONINE (MSEj)
3k: SELENOMETHIONINE (MSEk)
3l: SELENOMETHIONINE (MSEl)
3m: SELENOMETHIONINE (MSEm)
3n: SELENOMETHIONINE (MSEn)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CIT
1
Ligand/Ion
CITRIC ACID
2
EDO
30
Ligand/Ion
1,2-ETHANEDIOL
3
MSE
14
Mod. Amino Acid
SELENOMETHIONINE
4
SO4
4
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(34, 34)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:26 , TYR A:38 , ILE A:40 , VAL A:45 , ARG A:48 , GLU A:71 , THR A:75 , PHE A:94 , HOH A:224 , HOH A:317
BINDING SITE FOR RESIDUE SO4 A 179
02
AC2
SOFTWARE
TYR B:26 , TYR B:38 , ILE B:40 , VAL B:45 , ARG B:48 , GLU B:71 , THR B:75 , PHE B:94 , HOH B:198 , HOH B:250
BINDING SITE FOR RESIDUE SO4 B 179
03
AC3
SOFTWARE
VAL A:130 , ALA B:55 , ASP B:56 , SER B:68 , EDO B:181 , HOH B:194 , HOH B:255
BINDING SITE FOR RESIDUE SO4 B 180
04
AC4
SOFTWARE
ASP A:56 , EDO A:186 , HOH A:249 , THR B:107 , TYR B:108 , HIS B:112 , HOH B:303
BINDING SITE FOR RESIDUE SO4 A 180
05
AC5
SOFTWARE
ASP A:21 , TRP A:49 , THR A:107 , TYR A:108 , HIS A:112 , GLU A:133 , PHE A:134 , ALA A:154 , HOH A:217 , HOH A:252 , HOH A:256 , VAL B:58
BINDING SITE FOR RESIDUE CIT A 181
06
AC6
SOFTWARE
THR A:4 , LYS A:6 , ASP A:10 , HOH A:274
BINDING SITE FOR RESIDUE EDO A 182
07
AC7
SOFTWARE
ASN A:146 , ASN A:147 , GLU A:148 , ASP A:149 , HIS A:174 , EDO A:197 , HOH A:218 , HOH A:327
BINDING SITE FOR RESIDUE EDO A 183
08
AC8
SOFTWARE
THR A:2 , LYS A:3 , THR A:4 , PRO A:83 , ASN A:84 , LYS A:86 , MSE A:140
BINDING SITE FOR RESIDUE EDO A 184
09
AC9
SOFTWARE
MSE A:1 , THR A:2 , LYS A:86
BINDING SITE FOR RESIDUE EDO A 185
10
BC1
SOFTWARE
HIS B:34 , LYS B:54 , ALA B:55 , SO4 B:180 , HOH B:204 , HOH B:263
BINDING SITE FOR RESIDUE EDO B 181
11
BC2
SOFTWARE
ASP A:56 , SO4 A:180 , HOH A:212 , HOH A:301 , VAL B:130 , EDO B:190
BINDING SITE FOR RESIDUE EDO A 186
12
BC3
SOFTWARE
TYR A:108 , ASN A:136 , HOH A:319 , HOH A:323
BINDING SITE FOR RESIDUE EDO A 187
13
BC4
SOFTWARE
EDO A:189 , MSE B:59 , HOH B:206 , HOH B:277
BINDING SITE FOR RESIDUE EDO A 188
14
BC5
SOFTWARE
LEU A:115 , GLN A:118 , EDO A:188 , THR B:7 , EDO B:186 , HOH B:271
BINDING SITE FOR RESIDUE EDO A 189
15
BC6
SOFTWARE
LYS A:3 , ASP A:9 , ASP A:10 , LEU A:12 , THR A:14 , ASP A:142 , HOH A:222 , HOH A:239 , HOH A:330
BINDING SITE FOR RESIDUE EDO A 190
16
BC7
SOFTWARE
GLN B:53 , THR B:70 , HOH B:194 , HOH B:201 , HOH B:265
BINDING SITE FOR RESIDUE EDO B 182
17
BC8
SOFTWARE
ALA A:124
BINDING SITE FOR RESIDUE EDO A 191
18
BC9
SOFTWARE
ASP B:142
BINDING SITE FOR RESIDUE EDO B 183
19
CC1
SOFTWARE
ASN B:136 , THR B:138
BINDING SITE FOR RESIDUE EDO B 184
20
CC2
SOFTWARE
EDO A:194 , THR B:4 , LYS B:6 , HOH B:331
BINDING SITE FOR RESIDUE EDO B 185
21
CC3
SOFTWARE
EDO A:189
BINDING SITE FOR RESIDUE EDO B 186
22
CC4
SOFTWARE
GLU A:25 , LYS A:178 , EDO A:197
BINDING SITE FOR RESIDUE EDO A 192
23
CC5
SOFTWARE
ASP B:21 , LYS B:87 , ASN B:136 , HOH B:304
BINDING SITE FOR RESIDUE EDO B 187
24
CC6
SOFTWARE
LYS A:6 , GLU A:62
BINDING SITE FOR RESIDUE EDO A 193
25
CC7
SOFTWARE
LYS A:6 , EDO B:185
BINDING SITE FOR RESIDUE EDO A 194
26
CC8
SOFTWARE
ILE B:17 , GLU B:25 , HIS B:41 , HOH B:316
BINDING SITE FOR RESIDUE EDO B 188
27
CC9
SOFTWARE
THR A:61 , HOH A:277 , HOH A:300 , HOH A:306 , GLU B:85
BINDING SITE FOR RESIDUE EDO A 195
28
DC1
SOFTWARE
ASN B:84 , GLU B:85 , HOH B:302 , HOH B:320
BINDING SITE FOR RESIDUE EDO B 189
29
DC2
SOFTWARE
GLY A:23 , GLU A:148 , SER A:152 , EDO A:197 , HOH A:244
BINDING SITE FOR RESIDUE EDO A 196
30
DC3
SOFTWARE
GLU A:148 , ASP A:149 , EDO A:183 , EDO A:192 , EDO A:196 , HOH A:293 , HOH A:331
BINDING SITE FOR RESIDUE EDO A 197
31
DC4
SOFTWARE
THR A:70 , EDO A:186 , LYS B:128 , VAL B:130 , HOH B:226 , HOH B:235
BINDING SITE FOR RESIDUE EDO B 190
32
DC5
SOFTWARE
GLU A:111 , HIS A:112 , PHE A:134 , MSE B:59
BINDING SITE FOR RESIDUE EDO A 198
33
DC6
SOFTWARE
GLY B:0 , MSE B:1 , THR B:2 , LYS B:86
BINDING SITE FOR RESIDUE EDO B 192
34
DC7
SOFTWARE
GLU A:121 , ALA B:124 , THR B:125 , TYR B:126 , HOH B:309 , HOH B:328
BINDING SITE FOR RESIDUE EDO B 193
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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[
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2gc9a1 (A:1-178)
1b: SCOP_d2gc9b_ (B:)
View:
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Classes
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Protein Domains
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(
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Organisms
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(
)
Class
:
All beta proteins
(24004)
Fold
:
Lipocalins
(514)
Superfamily
:
Lipocalins
(514)
Family
:
Phenolic acid decarboxylase (PAD)
(8)
Protein domain
:
P-coumaric acid decarboxylase, pdc
(2)
Lactobacillus plantarum [TaxId: 1590]
(2)
1a
d2gc9a1
A:1-178
1b
d2gc9b_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2gc9B00 (B:0-160)
1b: CATH_2gc9A00 (A:2-178)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Lipocalin
(526)
Homologous Superfamily
:
[code=2.40.128.20, no name defined]
(352)
Lactobacillus plantarum wcfs1. Organism_taxid: 220668. Strain: wcfs1.
(1)
1a
2gc9B00
B:0-160
1b
2gc9A00
A:2-178
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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