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2P8X
Asym. Unit
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Asym.Unit (125 KB)
Biol.Unit 1 (119 KB)
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(1)
Title
:
FITTED STRUCTURE OF ADPR-EEF2 IN THE 80S:ADPR-EEF2:GDPNP CRYO-EM RECONSTRUCTION
Authors
:
D. J. Taylor, J. Nilsson, A. R. Merrill, G. R. Andersen, P. Nissen, J. Frank
Date
:
23 Mar 07 (Deposition) - 08 May 07 (Release) - 24 Feb 09 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
9.70
Chains
:
Asym. Unit : S,T
Biol. Unit 1: S,T (1x)
Keywords
:
Elongation, Translocation, Gtpase, 80S Ribosome, Translation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. J. Taylor, J. Nilsson, A. R. Merrill, G. R. Andersen, P. Nissen, J. Frank
Structures Of Modified Eef2. 80S Ribosome Complexes Reveal The Role Of Gtp Hydrolysis In Translocation.
Embo J. V. 26 2421 2007
(for further references see the
PDB file header
)
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: ADENOSINE-5-DIPHOSPHORIBOSE (APRa)
2a: {3-[4-(2-AMINO-2-CARBOXY-ETHYL)-1H... (DDEa)
3a: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
APR
1
Ligand/Ion
ADENOSINE-5-DIPHOSPHORIBOSE
2
DDE
1
Mod. Amino Acid
{3-[4-(2-AMINO-2-CARBOXY-ETHYL)-1H-IMIDAZOL-2-YL]-1-CARBAMOYL-PROPYL}-TRIMETHYL-AMMONIUM
3
GNP
1
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS T:694 , ASP T:696 , ILE T:698 , DDE T:699
BINDING SITE FOR RESIDUE APR T 1699
2
AC2
SOFTWARE
TYR S:47 , ILE S:61 , THR S:62 , HIS T:27 , VAL T:28 , ASP T:29 , HIS T:30 , GLY T:31 , LYS T:32 , SER T:33 , THR T:34 , LYS T:159 , ASP T:161 , SER T:213 , GLY T:214 , LEU T:215 , HIS T:216
BINDING SITE FOR RESIDUE GNP T 843
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: G_TR_1 (S:51-66,T:67-73)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
G_TR_1
PS00301
Translational (tr)-type guanine nucleotide-binding (G) domain signature.
EFTU2_THET8
52-67
1
S:51-66
EF2_YEAST
58-73
1
T:67-73
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Exons
(1, 1)
Info
All Exons
Exon 1.2 (T:3-842 (gaps))
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All Exon Boundaries
1: Boundary -/1.2
2: Boundary 1.2/-
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.2
YOR133W
2
YOR133W.1
XV:575099-577627
2529
EF2_YEAST
1-842
842
1
T:3-842 (gaps)
840
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SCOP Domains
(4, 5)
Info
All SCOP Domains
1a: SCOP_d2p8xt1 (T:344-481)
2a: SCOP_d2p8xt4 (T:482-560)
2b: SCOP_d2p8xt5 (T:730-842)
3a: SCOP_d2p8xt3 (T:561-724)
4a: SCOP_d2p8xt2 (T:3-343)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Reductase/isomerase/elongation factor common domain
(381)
Superfamily
:
Translation proteins
(218)
Family
:
Elongation factors
(77)
Protein domain
:
Elongation factor 2 (eEF-2), domain II
(13)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(13)
1a
d2p8xt1
T:344-481
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ferredoxin-like
(1795)
Superfamily
:
EF-G C-terminal domain-like
(33)
Family
:
EF-G/eEF-2 domains III and V
(24)
Protein domain
:
Elongation factor 2 (eEF-2)
(13)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(13)
2a
d2p8xt4
T:482-560
2b
d2p8xt5
T:730-842
Fold
:
Ribosomal protein S5 domain 2-like
(306)
Superfamily
:
Ribosomal protein S5 domain 2-like
(306)
Family
:
Translational machinery components
(150)
Protein domain
:
Elongation factor 2 (eEF-2), domain IV
(13)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(13)
3a
d2p8xt3
T:561-724
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
G proteins
(693)
Protein domain
:
Elongation factor 2 (eEF-2), N-terminal (G) domain
(13)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(13)
4a
d2p8xt2
T:3-343
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(5, 5)
Info
all PFAM domains
1a: PFAM_EFG_C_2p8xT01 (T:723-811)
2a: PFAM_GTP_EFTU_2p8xT02 (T:17-344)
3a: PFAM_GTP_EFTU_2p8xS01 (S:35-69)
4a: PFAM_EFG_IV_2p8xT03 (T:604-721)
5a: PFAM_GTP_EFTU_D2_2p8xT04 (T:393-470)
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Clan
:
EF-G_C
(20)
Family
:
EFG_C
(14)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(9)
1a
EFG_C-2p8xT01
T:723-811
Clan
:
P-loop_NTPase
(1112)
Family
:
GTP_EFTU
(39)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(11)
2a
GTP_EFTU-2p8xT02
T:17-344
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(3)
3a
GTP_EFTU-2p8xS01
S:35-69
Clan
:
S5
(103)
Family
:
EFG_IV
(11)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(9)
4a
EFG_IV-2p8xT03
T:604-721
Clan
:
no clan defined [family: GTP_EFTU_D2]
(39)
Family
:
GTP_EFTU_D2
(39)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(11)
5a
GTP_EFTU_D2-2p8xT04
T:393-470
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Asym.Unit (125 KB)
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