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1AA1
Biol. Unit 1
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:
[
Gene Ontology, PubMed, Web (Google)
]
)
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
(2, 24)
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
16
Ligand/Ion
3-PHOSPHOGLYCERIC ACID
2
KCX
8
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
3
MG
-1
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:
Select:
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 only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 8)
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
8
B:196-204
E:196-204
H:196-204
L:196-204
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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.
(no "Exon" information available for biological units yet)
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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(
)
(
)
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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Asym.Unit (387 KB)
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