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3HJW
Biol. Unit 1
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Asym.Unit (119 KB)
Biol.Unit 1 (112 KB)
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(1)
Title
:
STRUCTURE OF A FUNCTIONAL RIBONUCLEOPROTEIN PSEUDOURIDINE SYNTHASE BOUND TO A SUBSTRATE RNA
Authors
:
B. Liang, J. Zhou, E. Kahen, R. M. Terns, M. P. Terns, H. Li
Date
:
22 May 09 (Deposition) - 23 Jun 09 (Release) - 12 Aug 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (1x)
Keywords
:
Protein-Rna Complex, Box H/Aca, Ribonucleoprotein Particles, Rnp, Pseudouridine Synthase, Pseudouridylase, Pseudouridylation, Rna Editing, Post-Transcriptional Modification, Isomerase, Trna Processing, Ribonucleoprotein, Ribosome Biogenesis, Rrna Processing, Ribosomal Protein, Rna-Binding, Isomerase-Rna Complex
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Liang, J. Zhou, E. Kahen, R. M. Terns, M. P. Terns, H. Li
Structure Of A Functional Ribonucleoprotein Pseudouridine Synthase Bound To A Substrate Rna
Nat. Struct. Mol. Biol. V. 16 740 2009
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: (5S,6R)-5-FLUORO-6-HYDROXY-PSEUDOU... (FHUa)
2a: POTASSIUM ION (Ka)
3a: ZINC ION (ZNa)
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No.
Name
Count
Type
Full Name
1
FHU
1
Mod. Nucleotide
(5S,6R)-5-FLUORO-6-HYDROXY-PSEUDOURIDINE-5'-MONOPHOSPHATE
2
K
-1
Ligand/Ion
POTASSIUM ION
3
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS B:8 , CYS B:11 , CYS B:20 , CYS B:23
BINDING SITE FOR RESIDUE ZN B 1
2
AC2
SOFTWARE
TYR A:113 , THR A:181 , FHU E:10 , HOH E:63 , HOH E:80
BINDING SITE FOR RESIDUE K E 2
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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: RIBOSOMAL_L7AE (C:71-88)
2: PUA (A:253-328)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RIBOSOMAL_L7AE
PS01082
Ribosomal protein L7Ae signature.
RL7A_PYRFU
70-87
1
C:71-88
2
PUA
PS50890
PUA domain profile.
TRUB_PYRFU
250-325
1
A:253-328
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d3hjwa2 (A:252-337)
2a: SCOP_d3hjwa1 (A:11-251)
3a: SCOP_d3hjwb_ (B:)
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Class
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All beta proteins
(24004)
Fold
:
PUA domain-like
(96)
Superfamily
:
PUA domain-like
(96)
Family
:
automated matches
(9)
Protein domain
:
automated matches
(9)
Pyrococcus furiosus [TaxId: 2261]
(3)
1a
d3hjwa2
A:252-337
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Pseudouridine synthase
(30)
Superfamily
:
Pseudouridine synthase
(30)
Family
:
automated matches
(3)
Protein domain
:
automated matches
(3)
Pyrococcus furiosus [TaxId: 2261]
(2)
2a
d3hjwa1
A:11-251
Class
:
Small proteins
(3458)
Fold
:
Rubredoxin-like
(572)
Superfamily
:
Nop10-like SnoRNP
(19)
Family
:
Nucleolar RNA-binding protein Nop10-like
(19)
Protein domain
:
Ribosome biogenesis protein Nop10
(12)
Pyrococcus furiosus [TaxId: 2261]
(10)
3a
d3hjwb_
B:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3hjwC00 (C:4-123)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
60s Ribosomal Protein L30; Chain: A;
(235)
Homologous Superfamily
:
[code=3.30.1330.30, no name defined]
(102)
Pyrococcus furiosus. Organism_taxid: 2261. Strain: dsm 3638.
(1)
1a
3hjwC00
C:4-123
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Pfam Domains
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Asym.Unit (119 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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