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2HBK
Asym. Unit
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Asym.Unit (76 KB)
Biol.Unit 1 (72 KB)
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(1)
Title
:
STRUCTURE OF THE YEAST NUCLEAR EXOSOME COMPONENT, RRP6P, REVEALS AN INTERPLAY BETWEEN THE ACTIVE SITE AND THE HRDC DOMAIN; PROTEIN IN COMPLEX WITH MN
Authors
:
S. F. Midtgaard, J. Assenholt, A. T. Jonstrup, L. B. Van, T. H. Jensen, D. E. Brodersen
Date
:
14 Jun 06 (Deposition) - 25 Jul 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Exosome, Rna Metabolism, Rna Surveillance, Rna Processing, Hydrolase, Gene Regulation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. F. Midtgaard, J. Assenholt, A. T. Jonstrup, L. B. Van, T. H. Jensen, D. E. Brodersen
Structure Of The Nuclear Exosome Component Rrp6P Reveals An Interplay Between The Active Site And The Hrdc Domain.
Proc. Natl. Acad. Sci. Usa V. 103 11898 2006
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1b: MANGANESE (II) ION (MNb)
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No.
Name
Count
Type
Full Name
1
MN
2
Ligand/Ion
MANGANESE (II) ION
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Sites
(2, 2)
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1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLU A:240 , ASP A:365 , HOH A:1003 , HOH A:1004 , HOH A:1005 , HOH A:1006
BINDING SITE FOR RESIDUE MN A 1001
2
AC2
SOFTWARE
ASP A:238 , ASP A:296 , HOH A:1007 , HOH A:1008 , HOH A:1009 , HOH A:1010
BINDING SITE FOR RESIDUE MN A 1002
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PROSITE Patterns/Profiles
(1, 1)
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1: HRDC (A:435-515)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HRDC
PS50967
HRDC domain profile.
RRP6_YEAST
435-515
1
A:435-515
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Exons
(1, 1)
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Exon 1.1 (A:127-516)
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1: Boundary -/1.1
2: Boundary 1.1/-
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ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
YOR001W
1
YOR001W.1
XV:326833-329034
2202
RRP6_YEAST
1-733
733
1
A:127-516
390
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SCOP Domains
(2, 2)
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All SCOP Domains
1a: SCOP_d2hbka1 (A:421-516)
2a: SCOP_d2hbka2 (A:127-420)
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Class
:
All alpha proteins
(14657)
Fold
:
SAM domain-like
(639)
Superfamily
:
HRDC-like
(16)
Family
:
EXOSC10 HRDC domain-like
(5)
Protein domain
:
Exosome complex exonuclease RRP6 domain
(4)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(4)
1a
d2hbka1
A:421-516
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Ribonuclease H-like
(775)
Family
:
DnaQ-like 3'-5' exonuclease
(253)
Protein domain
:
Exosome complex exonuclease RRP6
(4)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(4)
2a
d2hbka2
A:127-420
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CATH Domains
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Chain A
Asymmetric Unit 1
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Asym.Unit (76 KB)
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