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1AA1
Asym. Unit
Info
Asym.Unit (387 KB)
Biol.Unit 1 (754 KB)
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(1)
Title
:
ACTIVATED SPINACH RUBISCO IN COMPLEX WITH THE PRODUCT 3-PHOSPHOGLYCERATE
Authors
:
T. C. Taylor, I. Andersson
Date
:
20 Jan 97 (Deposition) - 07 Jul 97 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : B,C,E,F,H,I,L,S
Biol. Unit 1: B,C,E,F,H,I,L,S (2x)
Keywords
:
Oxidoreductase, Lyase (Carbon-Carbon)
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
T. C. Taylor, I. Andersson
Structure Of A Product Complex Of Spinach Ribulose-1, 5-Bisphosphate Carboxylase/Oxygenase.
Biochemistry V. 36 4041 1997
(for further references see the
PDB file header
)
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Hetero Components
(3, 16)
Info
All Hetero Components
1a: 3-PHOSPHOGLYCERIC ACID (3PGa)
1b: 3-PHOSPHOGLYCERIC ACID (3PGb)
1c: 3-PHOSPHOGLYCERIC ACID (3PGc)
1d: 3-PHOSPHOGLYCERIC ACID (3PGd)
1e: 3-PHOSPHOGLYCERIC ACID (3PGe)
1f: 3-PHOSPHOGLYCERIC ACID (3PGf)
1g: 3-PHOSPHOGLYCERIC ACID (3PGg)
1h: 3-PHOSPHOGLYCERIC ACID (3PGh)
2a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
2b: LYSINE NZ-CARBOXYLIC ACID (KCXb)
2c: LYSINE NZ-CARBOXYLIC ACID (KCXc)
2d: LYSINE NZ-CARBOXYLIC ACID (KCXd)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
3PG
8
Ligand/Ion
3-PHOSPHOGLYCERIC ACID
2
KCX
4
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
3
MG
4
Ligand/Ion
MAGNESIUM ION
[
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Sites
(16, 16)
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: ACB (UNKNOWN)
11: ACE (UNKNOWN)
12: ACH (UNKNOWN)
13: ACL (UNKNOWN)
14: BC1 (SOFTWARE)
15: BC2 (SOFTWARE)
16: BC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
KCX L:201 , ASP L:203 , GLU L:204 , 3PG L:477 , HOH L:614
BINDING SITE FOR RESIDUE MG L 476
02
AC2
SOFTWARE
KCX B:201 , ASP B:203 , GLU B:204 , 3PG B:477 , HOH B:623
BINDING SITE FOR RESIDUE MG B 476
03
AC3
SOFTWARE
KCX E:201 , ASP E:203 , GLU E:204 , 3PG E:477 , HOH E:622
BINDING SITE FOR RESIDUE MG E 476
04
AC4
SOFTWARE
KCX H:201 , ASP H:203 , GLU H:204 , 3PG H:477 , HOH H:625
BINDING SITE FOR RESIDUE MG H 476
05
AC5
SOFTWARE
TRP E:66 , ASN E:123 , THR L:173 , LYS L:175 , LYS L:177 , KCX L:201 , ASP L:203 , GLU L:204 , GLY L:380 , GLY L:381 , GLY L:403 , GLY L:404 , MG L:476 , HOH L:513 , HOH L:617 , HOH L:630 , HOH L:662
BINDING SITE FOR RESIDUE 3PG L 477
06
AC6
SOFTWARE
ARG L:295 , HIS L:298 , HOH L:596 , HOH L:619 , HOH L:628 , HOH L:666
BINDING SITE FOR RESIDUE 3PG L 478
07
AC7
SOFTWARE
TRP B:66 , ASN B:123 , THR B:173 , LYS B:175 , LYS B:177 , KCX B:201 , ASP B:203 , GLU B:204 , GLY B:380 , GLY B:381 , GLY B:403 , GLY B:404 , MG B:476 , HOH B:521 , HOH B:626 , HOH B:639 , HOH B:671
BINDING SITE FOR RESIDUE 3PG B 477
08
AC8
SOFTWARE
GLY B:126 , ARG B:295 , HIS B:298 , HOH B:604 , HOH B:628 , HOH B:637 , HOH B:675
BINDING SITE FOR RESIDUE 3PG B 478
09
AC9
SOFTWARE
THR E:173 , LYS E:175 , LYS E:177 , KCX E:201 , ASP E:203 , GLU E:204 , GLY E:380 , GLY E:381 , GLY E:403 , GLY E:404 , MG E:476 , HOH E:520 , HOH E:625 , HOH E:638 , HOH E:670 , TRP L:66 , ASN L:123
BINDING SITE FOR RESIDUE 3PG E 477
10
ACB
UNKNOWN
KCX B:201 , ASP B:203 , GLU B:204
ACTIVE SITE.
11
ACE
UNKNOWN
KCX E:201 , ASP E:203 , GLU E:204
ACTIVE SITE.
12
ACH
UNKNOWN
KCX H:201 , ASP H:203 , GLU H:204
ACTIVE SITE.
13
ACL
UNKNOWN
KCX L:201 , ASP L:203 , GLU L:204
ACTIVE SITE.
14
BC1
SOFTWARE
ARG E:295 , HIS E:298 , HOH E:604 , HOH E:627 , HOH E:636 , HOH E:674
BINDING SITE FOR RESIDUE 3PG E 478
15
BC2
SOFTWARE
TRP H:66 , ASN H:123 , THR H:173 , LYS H:175 , LYS H:177 , KCX H:201 , ASP H:203 , GLU H:204 , GLY H:380 , GLY H:381 , GLY H:403 , GLY H:404 , MG H:476 , HOH H:524 , HOH H:628 , HOH H:641 , HOH H:673
BINDING SITE FOR RESIDUE 3PG H 477
16
BC3
SOFTWARE
ARG H:295 , HIS H:298 , HOH H:607 , HOH H:630 , HOH H:639 , HOH H:677
BINDING SITE FOR RESIDUE 3PG H 478
[
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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
(1, 4)
Info
All PROSITE Patterns/Profiles
1: RUBISCO_LARGE (B:196-204,E:196-204,H:196-204,L:19...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RUBISCO_LARGE
PS00157
Ribulose bisphosphate carboxylase large chain active site.
RBL_SPIOL
196-204
4
B:196-204
E:196-204
H:196-204
L:196-204
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Exons
(0, 0)
Info
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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
(3, 12)
Info
All SCOP Domains
1a: SCOP_d1aa1b2 (B:21-147)
1b: SCOP_d1aa1e2 (E:21-147)
1c: SCOP_d1aa1h2 (H:21-147)
1d: SCOP_d1aa1l2 (L:21-147)
2a: SCOP_d1aa1c_ (C:)
2b: SCOP_d1aa1f_ (F:)
2c: SCOP_d1aa1i_ (I:)
2d: SCOP_d1aa1s_ (S:)
3a: SCOP_d1aa1b1 (B:148-463)
3b: SCOP_d1aa1e1 (E:148-463)
3c: SCOP_d1aa1h1 (H:148-463)
3d: SCOP_d1aa1l1 (L:148-463)
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)
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)
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(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ferredoxin-like
(1795)
Superfamily
:
RuBisCO, large subunit, small (N-terminal) domain
(66)
Family
:
Ribulose 1,5-bisphosphate carboxylase-oxygenase
(39)
Protein domain
:
Ribulose 1,5-bisphosphate carboxylase-oxygenase
(39)
Spinach (Spinacia oleracea) [TaxId: 3562]
(10)
1a
d1aa1b2
B:21-147
1b
d1aa1e2
E:21-147
1c
d1aa1h2
H:21-147
1d
d1aa1l2
L:21-147
Fold
:
RuBisCO, small subunit
(44)
Superfamily
:
RuBisCO, small subunit
(44)
Family
:
RuBisCO, small subunit
(44)
Protein domain
:
Ribulose 1,5-bisphosphate carboxylase-oxygenase
(28)
Spinach (Spinacia oleracea) [TaxId: 3562]
(10)
2a
d1aa1c_
C:
2b
d1aa1f_
F:
2c
d1aa1i_
I:
2d
d1aa1s_
S:
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
RuBisCo, C-terminal domain
(66)
Family
:
RuBisCo, large subunit, C-terminal domain
(56)
Protein domain
:
Ribulose 1,5-bisphosphate carboxylase-oxygenase
(40)
Spinach (Spinacia oleracea) [TaxId: 3562]
(10)
3a
d1aa1b1
B:148-463
3b
d1aa1e1
E:148-463
3c
d1aa1h1
H:148-463
3d
d1aa1l1
L:148-463
[
close SCOP info
]
CATH Domains
(3, 12)
Info
all CATH domains
1a: CATH_1aa1B01 (B:22-148)
1b: CATH_1aa1H01 (H:22-148)
1c: CATH_1aa1L01 (L:22-148)
1d: CATH_1aa1E01 (E:22-148)
2a: CATH_1aa1C00 (C:1-123)
2b: CATH_1aa1F00 (F:1-123)
2c: CATH_1aa1I00 (I:1-123)
2d: CATH_1aa1S00 (S:1-123)
3a: CATH_1aa1B02 (B:149-461)
3b: CATH_1aa1E02 (E:149-461)
3c: CATH_1aa1H02 (H:149-461)
3d: CATH_1aa1L02 (L:149-461)
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Topologies
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)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Alpha-Beta Plaits
(1688)
Homologous Superfamily
:
[code=3.30.70.150, no name defined]
(49)
Spinach (Spinacia oleracea)
(10)
1a
1aa1B01
B:22-148
1b
1aa1H01
H:22-148
1c
1aa1L01
L:22-148
1d
1aa1E01
E:22-148
Topology
:
Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase
(42)
Homologous Superfamily
:
[code=3.30.190.10, no name defined]
(35)
Spinach (Spinacia oleracea)
(10)
2a
1aa1C00
C:1-123
2b
1aa1F00
F:1-123
2c
1aa1I00
I:1-123
2d
1aa1S00
S:1-123
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Rubisco
(49)
Spinach (Spinacia oleracea)
(10)
3a
1aa1B02
B:149-461
3b
1aa1E02
E:149-461
3c
1aa1H02
H:149-461
3d
1aa1L02
L:149-461
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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