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1KPS
Biol. Unit 1
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Asym.Unit (118 KB)
Biol.Unit 1 (59 KB)
Biol.Unit 2 (58 KB)
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(1)
Title
:
STRUCTURAL BASIS FOR E2-MEDIATED SUMO CONJUGATION REVEALED BY A COMPLEX BETWEEN UBIQUITIN CONJUGATING ENZYME UBC9 AND RANGAP1
Authors
:
V. Bernier-Villamor, D. A. Sampson, M. J. Matunis, C. D. Lima
Date
:
02 Jan 02 (Deposition) - 13 Feb 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Sumo, Ubiquitin, E2, Conjugating Enzyme, Ligase, Thioester, Small Ubiquitin-Like Modifier, Ligase/Protein Transport Complex
(Keyword Search:
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Reference
:
V. Bernier-Villamor, D. A. Sampson, M. J. Matunis, C. D. Lima
Structural Basis For E2-Mediated Sumo Conjugation Revealed By A Complex Between Ubiquitin-Conjugating Enzyme Ubc9 And Rangap1.
Cell(Cambridge, Mass. ) V. 108 345 2002
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
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No.
Name
Count
Type
Full Name
1
SO4
2
Ligand/Ion
SULFATE ION
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Sites
(2, 2)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
SER B:536 , LEU B:537 , HIS B:538
BINDING SITE FOR RESIDUE SO4 B 603
2
AC4
SOFTWARE
LYS B:502 , HOH B:660 , HOH B:683 , LYS D:502
BINDING SITE FOR RESIDUE SO4 B 604
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: UBIQUITIN_CONJUGAT_2 (A:7-146)
2: UBIQUITIN_CONJUGAT_1 (A:82-97)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UBIQUITIN_CONJUGAT_2
PS50127
Ubiquitin-conjugating enzymes family profile.
UBC9_HUMAN
7-146
1
A:7-146
-
2
UBIQUITIN_CONJUGAT_1
PS00183
Ubiquitin-conjugating enzymes active site.
UBC9_HUMAN
82-97
1
A:82-97
-
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1kpsb_ (B:)
1b: SCOP_d1kpsd_ (D:)
2a: SCOP_d1kpsa_ (A:)
2b: SCOP_d1kpsc_ (C:)
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Class
:
All alpha proteins
(14657)
Fold
:
alpha-alpha superhelix
(690)
Superfamily
:
Ran-GTPase activating protein 1 (RanGAP1), C-terminal domain
(13)
Family
:
Ran-GTPase activating protein 1 (RanGAP1), C-terminal domain
(13)
Protein domain
:
Ran-GTPase activating protein 1 (RanGAP1), C-terminal domain
(10)
Mouse (Mus musculus) [TaxId: 10090]
(1)
1a
d1kpsb_
B:
1b
d1kpsd_
D:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
UBC-like
(176)
Superfamily
:
UBC-like
(176)
Family
:
UBC-related
(135)
Protein domain
:
Ubiquitin conjugating enzyme, UBC
(84)
Human (Homo sapiens), ubc9 [TaxId: 9606]
(20)
2a
d1kpsa_
A:
2b
d1kpsc_
C:
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1kpsC00 (C:3-158)
1b: CATH_1kpsA00 (A:0-158)
2a: CATH_1kpsB00 (B:434-589)
2b: CATH_1kpsD00 (D:435-589)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Ubiquitin Conjugating Enzyme
(83)
Homologous Superfamily
:
Ubiquitin Conjugating Enzyme
(83)
Human (Homo sapiens)
(49)
1a
1kpsC00
C:3-158
1b
1kpsA00
A:0-158
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha Horseshoe
(399)
Topology
:
Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
(320)
Homologous Superfamily
:
[code=1.25.40.200, no name defined]
(8)
Human (Homo sapiens)
(8)
2a
1kpsB00
B:434-589
2b
1kpsD00
D:435-589
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_UQ_con_1kpsC01 (C:8-152)
1b: PFAM_UQ_con_1kpsC02 (C:8-152)
2a: PFAM_RanGAP1_C_1kpsD01 (D:435-588)
2b: PFAM_RanGAP1_C_1kpsD02 (D:435-588)
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Clan
:
UBC
(69)
Family
:
UQ_con
(55)
Homo sapiens (Human)
(36)
1a
UQ_con-1kpsC01
C:8-152
1b
UQ_con-1kpsC02
C:8-152
Clan
:
no clan defined [family: RanGAP1_C]
(2)
Family
:
RanGAP1_C
(2)
Mus musculus (Mouse)
(1)
2a
RanGAP1_C-1kpsD01
D:435-588
2b
RanGAP1_C-1kpsD02
D:435-588
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Asymmetric Unit 1
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Asym.Unit (118 KB)
Header - Asym.Unit
Biol.Unit 1 (59 KB)
Header - Biol.Unit 1
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Header - Biol.Unit 2
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