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4MKV
Biol. Unit 1
Info
Asym.Unit (403 KB)
Biol.Unit 1 (787 KB)
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(1)
Title
:
STRUCTURE OF PISUM SATIVUM RUBISCO WITH ABA
Authors
:
M. C. Loewen, P. C. Loewen, J. Switala
Date
:
05 Sep 13 (Deposition) - 16 Oct 13 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B,C,D,S,T,U,V
Biol. Unit 1: A,B,C,D,S,T,U,V (2x)
Keywords
:
Rubisco, Ribulose-1, 5-Bisphosphate, Garden Pea, Abscisic Acid, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. C. Loewen, P. C. Loewen, J. Switala
Structure Of Pisum Sativum Rubisco With Aba
To Be Published
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Hetero Components
(3, 16)
Info
All Hetero Components
1a: (2Z,4E)-5-[(1S)-1-HYDROXY-2,6,6-TR... (A8Sa)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
3a: RIBULOSE-1,5-DIPHOSPHATE (RUBa)
3b: RIBULOSE-1,5-DIPHOSPHATE (RUBb)
3c: RIBULOSE-1,5-DIPHOSPHATE (RUBc)
3d: RIBULOSE-1,5-DIPHOSPHATE (RUBd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
A8S
2
Ligand/Ion
(2Z,4E)-5-[(1S)-1-HYDROXY-2,6,6-TRIMETHYL-4-OXOCYCLOHEX-2-EN-1-YL]-3-METHYLPENTA-2,4-DIENOIC ACID
2
PO4
6
Ligand/Ion
PHOSPHATE ION
3
RUB
8
Ligand/Ion
RIBULOSE-1,5-DIPHOSPHATE
[
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:175 , LYS A:177 , ASP A:203 , GLU A:204 , ARG A:295 , HIS A:327 , LYS A:334 , LEU A:335 , SER A:379 , GLY A:380 , GLY A:381 , GLY A:403 , GLY A:404 , HOH A:624 , HOH A:637 , HOH A:644 , HOH A:670 , HOH A:671 , HOH A:691 , THR B:65 , TRP B:66 , ASN B:123 , HOH B:727
BINDING SITE FOR RESIDUE RUB A 501
2
AC2
SOFTWARE
PHE A:364 , THR A:365 , HOH A:807
BINDING SITE FOR RESIDUE PO4 A 502
3
AC3
SOFTWARE
THR A:65 , TRP A:66 , ASN A:123 , LYS B:175 , ASP B:203 , GLU B:204 , HIS B:294 , ARG B:295 , HIS B:327 , LYS B:334 , LEU B:335 , SER B:379 , GLY B:380 , GLY B:381 , GLY B:403 , GLY B:404 , HOH B:611 , HOH B:637 , HOH B:648 , HOH B:689 , HOH B:691 , HOH B:700 , HOH B:716
BINDING SITE FOR RESIDUE RUB B 501
4
AC4
SOFTWARE
LEU B:37 , TYR B:85 , GLU B:86 , TYR B:100 , ARG B:139 , LYS B:356 , TYR B:363 , PHE B:364 , THR B:365 , HOH B:682 , HOH B:786
BINDING SITE FOR RESIDUE A8S B 502
5
AC5
SOFTWARE
LYS C:175 , ASP C:203 , GLU C:204 , HIS C:294 , ARG C:295 , HIS C:327 , LYS C:334 , LEU C:335 , SER C:379 , GLY C:380 , GLY C:381 , GLY C:403 , GLY C:404 , HOH C:616 , HOH C:654 , HOH C:655 , HOH C:656 , HOH C:657 , HOH C:683 , THR D:65 , TRP D:66 , ASN D:123
BINDING SITE FOR RESIDUE RUB C 501
6
AC6
SOFTWARE
TYR C:363 , PHE C:364 , THR C:365 , HOH C:666
BINDING SITE FOR RESIDUE PO4 C 502
7
AC7
SOFTWARE
THR C:65 , TRP C:66 , ASN C:123 , LYS D:175 , GLU D:204 , HIS D:294 , ARG D:295 , HIS D:327 , LYS D:334 , LEU D:335 , SER D:379 , GLY D:380 , GLY D:381 , GLY D:403 , GLY D:404 , HOH D:678 , HOH D:735 , HOH D:745 , HOH D:746 , HOH D:747 , HOH D:762
BINDING SITE FOR RESIDUE RUB D 501
8
AC8
SOFTWARE
PHE D:364 , THR D:365 , HOH D:719 , HOH D:780
BINDING SITE FOR RESIDUE PO4 D 502
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(3, 12)
Info
All SCOP Domains
1a: SCOP_d4mkva1 (A:12-147)
1b: SCOP_d4mkvb1 (B:12-147)
1c: SCOP_d4mkvc1 (C:12-147)
1d: SCOP_d4mkvd1 (D:12-147)
2a: SCOP_d4mkvs_ (S:)
2b: SCOP_d4mkvt_ (T:)
2c: SCOP_d4mkvu_ (U:)
2d: SCOP_d4mkvv_ (V:)
3a: SCOP_d4mkva2 (A:148-469)
3b: SCOP_d4mkvb2 (B:148-469)
3c: SCOP_d4mkvc2 (C:148-469)
3d: SCOP_d4mkvd2 (D:148-469)
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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
:
automated matches
(27)
Protein domain
:
automated matches
(27)
Pea (Pisum sativum) [TaxId: 3888]
(2)
1a
d4mkva1
A:12-147
1b
d4mkvb1
B:12-147
1c
d4mkvc1
C:12-147
1d
d4mkvd1
D:12-147
Fold
:
RuBisCO, small subunit
(44)
Superfamily
:
RuBisCO, small subunit
(44)
Family
:
RuBisCO, small subunit
(44)
Protein domain
:
automated matches
(16)
Pea (Pisum sativum) [TaxId: 3888]
(2)
2a
d4mkvs_
S:
2b
d4mkvt_
T:
2c
d4mkvu_
U:
2d
d4mkvv_
V:
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
:
automated matches
(16)
Pea (Pisum sativum) [TaxId: 3888]
(2)
3a
d4mkva2
A:148-469
3b
d4mkvb2
B:148-469
3c
d4mkvc2
C:148-469
3d
d4mkvd2
D:148-469
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(0, 0)
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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
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Asym.Unit (403 KB)
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Header - Biol.Unit 1
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