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2QF7
Asym. Unit
Info
Asym.Unit (367 KB)
Biol.Unit 1 (701 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A COMPLETE MULTIFUNCTIONAL PYRUVATE CARBOXYLASE FROM RHIZOBIUM ETLI
Authors
:
M. St Maurice, K. H. Surinya, I. Rayment
Date
:
27 Jun 07 (Deposition) - 04 Sep 07 (Release) - 15 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Multi-Domain, Multi-Functional, Biotin-Dependent, Ligase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. St Maurice, L. Reinhardt, K. H. Surinya, P. V. Attwood, J. C. Wallace, W. W. Cleland, I. Rayment
Domain Architecture Of Pyruvate Carboxylase, A Biotin-Dependent Multifunctional Enzyme
Science V. 317 1076 2007
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Hetero Components
(8, 20)
Info
All Hetero Components
1a: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLA... (AGSa)
1b: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLA... (AGSb)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
3a: COENZYME A (COAa)
4a: FORMIC ACID (FMTa)
4b: FORMIC ACID (FMTb)
5a: GLYCEROL (GOLa)
6a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
6b: LYSINE NZ-CARBOXYLIC ACID (KCXb)
7a: MAGNESIUM ION (MGa)
7b: MAGNESIUM ION (MGb)
7c: MAGNESIUM ION (MGc)
7d: MAGNESIUM ION (MGd)
7e: MAGNESIUM ION (MGe)
7f: MAGNESIUM ION (MGf)
8a: ZINC ION (ZNa)
8b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AGS
2
Ligand/Ion
PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2
CL
4
Ligand/Ion
CHLORIDE ION
3
COA
1
Ligand/Ion
COENZYME A
4
FMT
2
Ligand/Ion
FORMIC ACID
5
GOL
1
Ligand/Ion
GLYCEROL
6
KCX
2
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
7
MG
6
Ligand/Ion
MAGNESIUM ION
8
ZN
2
Ligand/Ion
ZINC ION
[
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Sites
(18, 18)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP B:549 , KCX B:718 , HIS B:747 , HIS B:749 , HOH B:1335
BINDING SITE FOR RESIDUE ZN B 1155
02
AC2
SOFTWARE
GLU B:283 , GLU B:297 , AGS B:1161
BINDING SITE FOR RESIDUE MG B 1156
03
AC3
SOFTWARE
GLU B:297 , AGS B:1161 , HOH B:1673
BINDING SITE FOR RESIDUE MG B 1157
04
AC4
SOFTWARE
MET B:534 , ARG B:535 , GLU B:537 , ASP B:768 , HOH B:1359 , HOH B:1430
BINDING SITE FOR RESIDUE MG B 1158
05
AC5
SOFTWARE
GLU A:283 , GLU A:297 , AGS A:1162
BINDING SITE FOR RESIDUE MG A 1155
06
AC6
SOFTWARE
GLU A:297 , ASN A:299 , AGS A:1162
BINDING SITE FOR RESIDUE MG A 1156
07
AC7
SOFTWARE
ASP A:549 , KCX A:718 , HIS A:747 , HIS A:749 , HOH A:1476
BINDING SITE FOR RESIDUE ZN A 1157
08
AC8
SOFTWARE
MET A:534 , ARG A:535 , GLU A:537 , ASP A:768 , HOH A:1203 , HOH A:1375
BINDING SITE FOR RESIDUE MG A 1158
09
AC9
SOFTWARE
TYR B:987 , PRO B:988 , LYS B:989 , VAL B:990 , HOH B:1270
BINDING SITE FOR RESIDUE CL B 1159
10
BC1
SOFTWARE
TYR A:987 , PRO A:988 , LYS A:989 , VAL A:990
BINDING SITE FOR RESIDUE CL A 1159
11
BC2
SOFTWARE
ILE B:65 , GLU B:66
BINDING SITE FOR RESIDUE CL B 1160
12
BC3
SOFTWARE
GLY A:63 , PRO A:64 , ILE A:65 , GLU A:66
BINDING SITE FOR RESIDUE CL A 1160
13
BC4
SOFTWARE
ARG A:427 , ARG A:469 , GLN A:470 , ASP A:471 , ARG A:472 , ALA A:473 , ILE A:1026 , LYS A:1030 , THR A:1031 , LEU A:1032 , LEU A:1054 , ASN A:1055 , HOH A:1764 , PHE B:44 , HOH B:1624
BINDING SITE FOR RESIDUE COA A 1161
14
BC5
SOFTWARE
LYS B:166 , MET B:176 , GLU B:208 , LYS B:209 , VAL B:211 , HIS B:216 , GLN B:240 , ASN B:243 , LYS B:245 , GLU B:283 , LEU B:285 , ILE B:296 , GLU B:297 , ASN B:299 , THR B:454 , MG B:1156 , MG B:1157 , HOH B:1638 , HOH B:1775
BINDING SITE FOR RESIDUE AGS B 1161
15
BC6
SOFTWARE
HIS A:216 , GLN A:240 , ASN A:243 , LYS A:245 , GLU A:283 , LEU A:285 , ILE A:296 , GLU A:297 , ASN A:299 , THR A:454 , MG A:1155 , MG A:1156 , HOH A:1709 , HOH A:1760 , HOH A:1774
BINDING SITE FOR RESIDUE AGS A 1162
16
BC7
SOFTWARE
HOH A:1778 , LEU B:25 , HIS B:323 , PRO B:333 , GLY B:336 , HOH B:1317 , HOH B:1406 , HOH B:1408 , HOH B:1747
BINDING SITE FOR RESIDUE GOL B 1162
17
BC8
SOFTWARE
ALA A:376 , SER A:377 , ARG B:20 , LEU B:383 , GLY B:385 , GLY B:386 , HOH B:1263
BINDING SITE FOR RESIDUE FMT B 1163
18
BC9
SOFTWARE
ARG A:20 , LEU A:383 , GLY A:385 , GLY A:386 , SER B:375 , ALA B:376 , SER B:377 , HOH B:1276
BINDING SITE FOR RESIDUE FMT A 1163
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
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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
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(5, 9)
Info
all CATH domains
1a: CATH_2qf7B03 (B:211-467)
1b: CATH_2qf7A02 (A:209-468)
2a: CATH_2qf7B01 (B:1-139)
2b: CATH_2qf7A01 (A:1-139)
3a: CATH_2qf7A04 (A:517-826)
3b: CATH_2qf7B05 (B:517-826)
4a: CATH_2qf7A03 (A:469-487,A:1004-1074)
4b: CATH_2qf7B04 (B:469-487,B:1004-1068)
5a: CATH_2qf7A07 (A:1075-1152)
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Classes
(
)
(
)
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(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
D-amino Acid Aminotransferase; Chain A, domain 1
(175)
Homologous Superfamily
:
ATP-grasp fold, B domain
(118)
Rhizobium etli cfn 42. Organism_taxid: 347834. Strain: cfn 42.
(1)
1a
2qf7B03
B:211-467
1b
2qf7A02
A:209-468
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.20, no name defined]
(85)
Rhizobium etli cfn 42. Organism_taxid: 347834. Strain: cfn 42.
(1)
2a
2qf7B01
B:1-139
2b
2qf7A01
A:1-139
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Rhizobium etli cfn 42. Organism_taxid: 347834. Strain: cfn 42.
(1)
3a
2qf7A04
A:517-826
3b
2qf7B05
B:517-826
Architecture
:
Roll
(3276)
Topology
:
pyruvate carboxylase f1077a mutant fold
(3)
Homologous Superfamily
:
pyruvate carboxylase f1077a mutant domain
(3)
Rhizobium etli cfn 42. Organism_taxid: 347834. Strain: cfn 42.
(1)
4a
2qf7A03
A:469-487,A:1004-1074
4b
2qf7B04
B:469-487,B:1004-1068
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
[code=2.40.50.100, no name defined]
(113)
Rhizobium etli cfn 42. Organism_taxid: 347834. Strain: cfn 42.
(1)
5a
2qf7A07
A:1075-1152
[
close CATH info
]
Pfam Domains
(6, 11)
Info
all PFAM domains
1a: PFAM_CPSase_L_D2_2qf7B01 (B:123-332)
1b: PFAM_CPSase_L_D2_2qf7B02 (B:123-332)
2a: PFAM_Biotin_lipoyl_2qf7A01 (A:1085-1152)
3a: PFAM_HMGL_like_2qf7B03 (B:548-797)
3b: PFAM_HMGL_like_2qf7B04 (B:548-797)
4a: PFAM_Biotin_carb_C_2qf7B05 (B:351-458)
4b: PFAM_Biotin_carb_C_2qf7B06 (B:351-458)
5a: PFAM_CPSase_L_chain_2qf7B07 (B:2-118)
5b: PFAM_CPSase_L_chain_2qf7B08 (B:2-118)
6a: PFAM_PYC_OADA_2qf7B09 (B:835-1036)
6b: PFAM_PYC_OADA_2qf7B10 (B:835-1036)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
ATP-grasp
(83)
Family
:
CPSase_L_D2
(25)
Rhizobium etli (strain CFN 42 / ATCC 51251)
(1)
1a
CPSase_L_D2-2qf7B01
B:123-332
1b
CPSase_L_D2-2qf7B02
B:123-332
Clan
:
Hybrid
(58)
Family
:
Biotin_lipoyl
(16)
Rhizobium etli (strain CFN 42 / ATCC 51251)
(1)
2a
Biotin_lipoyl-2qf7A01
A:1085-1152
Clan
:
TIM_barrel
(694)
Family
:
HMGL-like
(13)
Rhizobium etli (strain CFN 42 / ATCC 51251)
(1)
3a
HMGL-like-2qf7B03
B:548-797
3b
HMGL-like-2qf7B04
B:548-797
Clan
:
no clan defined [family: Biotin_carb_C]
(23)
Family
:
Biotin_carb_C
(23)
Rhizobium etli (strain CFN 42 / ATCC 51251)
(1)
4a
Biotin_carb_C-2qf7B05
B:351-458
4b
Biotin_carb_C-2qf7B06
B:351-458
Clan
:
no clan defined [family: CPSase_L_chain]
(25)
Family
:
CPSase_L_chain
(25)
Rhizobium etli (strain CFN 42 / ATCC 51251)
(1)
5a
CPSase_L_chain-2qf7B07
B:2-118
5b
CPSase_L_chain-2qf7B08
B:2-118
Clan
:
no clan defined [family: PYC_OADA]
(4)
Family
:
PYC_OADA
(4)
Rhizobium etli (strain CFN 42 / ATCC 51251)
(1)
6a
PYC_OADA-2qf7B09
B:835-1036
6b
PYC_OADA-2qf7B10
B:835-1036
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