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2RFK
Asym. Unit
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Asym.Unit (106 KB)
Biol.Unit 1 (101 KB)
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(1)
Title
:
SUBSTRATE RNA POSITIONING IN THE ARCHAEAL H/ACA RIBONUCLEOPROTEIN COMPLEX
Authors
:
B. Liang, S. Xue, R. M. Terns, M. P. Terns, H. Li, Southeast Collaboratory For Structural Genomics (Secsg)
Date
:
30 Sep 07 (Deposition) - 05 Feb 08 (Release) - 20 Oct 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.87
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Protein-Rna Complex, Archaeal H/Aca Ribonucleoprotein Complex, Isomerase, Trna Processing, Ribosome Biogenesis, Rrna Processing, Isomerase/Rna Complex, Structural Genomics, Southeast Collaboratory For Structural Genomics, Secsg
(Keyword Search:
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Reference
:
B. Liang, S. Xue, R. M. Terns, M. P. Terns, H. Li
Substrate Rna Positioning In The Archaeal H/Aca Ribonucleoprotein Complex.
Nat. Struct. Mol. Biol. V. 14 1189 2007
(for further references see the
PDB file header
)
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: ZINC ION (ZNa)
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No.
Name
Count
Type
Full Name
1
ZN
1
Ligand/Ion
ZINC ION
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Sites
(1, 1)
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All Sites
1: AC1 (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
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
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1: PUA (A:253-328)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
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.
SCOP Domains
(4, 4)
Info
All SCOP Domains
1a: SCOP_d2rfka1 (A:253-341)
2a: SCOP_d2rfkc_ (C:)
3a: SCOP_d2rfka2 (A:8-252)
4a: SCOP_d2rfkb_ (B:)
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Protein Domains
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(
)
Organisms
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)
(
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Class
:
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
d2rfka1
A:253-341
Fold
:
Reductase/isomerase/elongation factor common domain
(381)
Superfamily
:
Translation proteins
(218)
Family
:
Gar1-like SnoRNP
(5)
Protein domain
:
Gar1 homolog PF1791
(4)
Pyrococcus furiosus [TaxId: 2261]
(4)
2a
d2rfkc_
C:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Pseudouridine synthase
(30)
Superfamily
:
Pseudouridine synthase
(30)
Family
:
Pseudouridine synthase II TruB
(12)
Protein domain
:
automated matches
(1)
Pyrococcus furiosus [TaxId: 2261]
(1)
3a
d2rfka2
A:8-252
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)
4a
d2rfkb_
B:
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_2rfkC00 (C:1-74)
2a: CATH_2rfkB00 (B:3-55)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Thrombin, subunit H
(1535)
Homologous Superfamily
:
Probable tRNA pseudouridine synthase domain
(3)
Pyrococcus furiosus. Organism_taxid: 2261.
(1)
1a
2rfkC00
C:1-74
Architecture
:
Single Sheet
(341)
Topology
:
Rubrerythrin, domain 2
(145)
Homologous Superfamily
:
Nop10-like SnoRNP
(3)
Pyrococcus furiosus. Organism_taxid: 2261.
(1)
2a
2rfkB00
B:3-55
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Pfam Domains
(5, 6)
Info
all PFAM domains
1a: PFAM_PUA_2rfkA01 (A:254-327)
2a: PFAM_DKCLD_2rfkA02 (A:9-66)
3a: PFAM_Gar1_2rfkC01 (C:1-74)
4a: PFAM_Nop10p_2rfkB01 (B:3-53)
5a: PFAM_TruB_N_2rfkA03 (A:120-183)
5b: PFAM_TruB_N_2rfkA04 (A:120-183)
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Clans
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Organisms
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)
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Clan
:
PUA
(42)
Family
:
PUA
(12)
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
(7)
1a
PUA-2rfkA01
A:254-327
Clan
:
no clan defined [family: DKCLD]
(7)
Family
:
DKCLD
(7)
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
(7)
2a
DKCLD-2rfkA02
A:9-66
Clan
:
no clan defined [family: Gar1]
(3)
Family
:
Gar1
(3)
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
(2)
3a
Gar1-2rfkC01
C:1-74
Clan
:
no clan defined [family: Nop10p]
(8)
Family
:
Nop10p
(8)
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
(7)
4a
Nop10p-2rfkB01
B:3-53
Clan
:
no clan defined [family: TruB_N]
(12)
Family
:
TruB_N
(12)
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
(7)
5a
TruB_N-2rfkA03
A:120-183
5b
TruB_N-2rfkA04
A:120-183
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Asym.Unit (106 KB)
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