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3PB2
Asym. Unit
Info
Asym.Unit (313 KB)
Biol.Unit 1 (208 KB)
Biol.Unit 2 (195 KB)
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(1)
Title
:
CHARACTERISATION OF THE FIRST MONOMERIC DIHYDRODIPICOLINATE SYNTHASE VARIANT REVEALS EVOLUTIONARY INSIGHTS
Authors
:
F. G. Pearce, R. C. J. Dobson, G. B. Jameson
Date
:
20 Oct 10 (Deposition) - 23 Nov 11 (Release) - 28 Aug 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,E (1x)
Biol. Unit 2: D,F (2x)
Keywords
:
Tim-Barrel, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
F. G. Pearce, R. C. Dobson, G. B. Jameson, M. A. Perugini, J. A. Gerrard
Characterization Of Monomeric Dihydrodipicolinate Synthase Variant Reveals The Importance Of Substrate Binding In Optimizing Oligomerization.
Biochim. Biophys. Acta V. 1814 1900 2011
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Hetero Components
(1, 15)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
1k: GLYCEROL (GOLk)
1l: GLYCEROL (GOLl)
1m: GLYCEROL (GOLm)
1n: GLYCEROL (GOLn)
1o: GLYCEROL (GOLo)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GOL
15
Ligand/Ion
GLYCEROL
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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:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:120 , HOH A:383 , GLU B:17 , LEU B:271 , HOH B:340 , HOH B:487
BINDING SITE FOR RESIDUE GOL A 295
02
AC2
SOFTWARE
LYS A:119 , TYR A:120 , GLU A:123 , ARG A:124 , HOH A:340 , HOH A:410 , LYS B:14 , HOH B:487
BINDING SITE FOR RESIDUE GOL A 296
03
AC3
SOFTWARE
VAL A:134 , ARG A:137 , GLY A:189 , PHE A:247 , ASN A:251 , HOH A:391 , HOH A:717
BINDING SITE FOR RESIDUE GOL A 297
04
AC4
SOFTWARE
TYR A:224 , GLY A:227 , ARG C:28 , GLU E:230
BINDING SITE FOR RESIDUE GOL A 298
05
AC5
SOFTWARE
PRO A:135 , VAL A:140 , ASN A:141 , HOH A:406 , HOH A:485 , HOH A:936
BINDING SITE FOR RESIDUE GOL A 299
06
AC6
SOFTWARE
ALA A:200 , HOH A:452 , HOH A:461 , HOH A:688 , HOH A:897 , HOH A:1012
BINDING SITE FOR RESIDUE GOL A 300
07
AC7
SOFTWARE
TYR B:132 , ARG B:137 , ALA B:163 , GLY B:189 , PHE B:247 , ASN B:251 , HOH B:787 , HOH B:1003 , HOH B:1063
BINDING SITE FOR RESIDUE GOL B 295
08
AC8
SOFTWARE
GLU B:32 , LYS B:215 , GLU B:223
BINDING SITE FOR RESIDUE GOL B 296
09
AC9
SOFTWARE
TYR A:106 , HOH A:368 , SER B:47 , PRO B:48 , GLY B:77 , HOH B:755 , HOH B:861
BINDING SITE FOR RESIDUE GOL B 297
10
BC1
SOFTWARE
TYR A:120 , ARG A:124 , HOH A:326 , HOH A:428 , HOH A:745 , GLU B:17 , LEU B:18 , LYS B:57 , HOH B:604
BINDING SITE FOR RESIDUE GOL B 298
11
BC2
SOFTWARE
TYR C:224 , GLY C:227 , LEU C:229
BINDING SITE FOR RESIDUE GOL C 295
12
BC3
SOFTWARE
TYR C:132 , ARG C:137 , LYS C:161 , GLY C:189 , PHE C:247 , ASN C:251 , HOH C:727
BINDING SITE FOR RESIDUE GOL C 296
13
BC4
SOFTWARE
GLY C:4 , VAL C:5 , ASN C:36 , VAL C:218 , CYS C:221 , ALA C:222 , PHE C:225 , HOH C:412 , HOH C:785
BINDING SITE FOR RESIDUE GOL C 297
14
BC5
SOFTWARE
TYR C:29 , ALA C:213 , PRO C:214 , LYS C:215 , GLN C:216 , LEU C:293 , HOH C:334 , HOH C:856 , HOH C:860
BINDING SITE FOR RESIDUE GOL C 298
15
BC6
SOFTWARE
LYS D:108 , PRO D:109 , THR D:110 , GLN D:111 , THR D:250
BINDING SITE FOR RESIDUE GOL D 295
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 12)
Info
All PROSITE Patterns/Profiles
1: DHDPS_1 (A:37-54,B:37-54,C:37-54,D:37-54,E:...)
2: DHDPS_2 (A:132-163,B:132-163,C:132-163,D:13...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DHDPS_1
PS00665
Dihydrodipicolinate synthase signature 1.
DAPA_THEMA
37-54
6
A:37-54
B:37-54
C:37-54
D:37-54
E:37-54
F:37-54
2
DHDPS_2
PS00666
Dihydrodipicolinate synthase signature 2.
DAPA_THEMA
132-163
6
A:132-163
B:132-163
C:132-163
D:132-163
E:132-163
F:132-163
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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, 6)
Info
All SCOP Domains
1a: SCOP_d3pb2a_ (A:)
1b: SCOP_d3pb2b_ (B:)
1c: SCOP_d3pb2c_ (C:)
1d: SCOP_d3pb2d_ (D:)
1e: SCOP_d3pb2e_ (E:)
1f: SCOP_d3pb2f_ (F:)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Aldolase
(457)
Family
:
Class I aldolase
(182)
Protein domain
:
automated matches
(54)
Thermotoga maritima [TaxId: 2336]
(3)
1a
d3pb2a_
A:
1b
d3pb2b_
B:
1c
d3pb2c_
C:
1d
d3pb2d_
D:
1e
d3pb2e_
E:
1f
d3pb2f_
F:
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CATH Domains
(0, 0)
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all CATH domains
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Sorry, no Info available
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Pfam Domains
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Chain D
Chain E
Chain F
Asymmetric Unit 1
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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
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select residue range 5 to 10 in chain 'A'
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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") .
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Show PDB file:
Asym.Unit (313 KB)
Header - Asym.Unit
Biol.Unit 1 (208 KB)
Header - Biol.Unit 1
Biol.Unit 2 (195 KB)
Header - Biol.Unit 2
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