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Biol. Unit 1
Info
Asym.Unit (143 KB)
Biol.Unit 1 (71 KB)
Biol.Unit 2 (71 KB)
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(1)
Title
:
THE STRUCTURES OF AIF2GAMMA SUBUNIT FROM THE ARCHAEON SULFOLOBUS SOLFATARICUS IN THE GDP-BOUND FORM.
Authors
:
O. S. Nikonov, E. A. Stolboushkina, A. D. Nikulin, D. Hasenohrl, U. Blaesi, D. J. Manstein, R. V. Fedorov, M. B. Garber, S. V Nikonov
Date
:
21 Apr 07 (Deposition) - 06 Nov 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.65
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Aif2, Initiation Factor 2 Gamma Subunit, Initiation Of The Translation, Nucleotide Binding, Gdpnp, Gdp, Pyrophosphate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
O. Nikonov, E. Stolboushkina, A. Nikulin, D. Hasenohrl, U. Blasi, D. J. Manstein, R. Fedorov, M. Garber, S. Nikonov
New Insights Into The Interactions Of The Translation Initiation Factor 2 From Archaea With Guanine Nucleotides And Initiator Trna.
J. Mol. Biol. V. 373 328 2007
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 5)
Info
All Hetero Components
1a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
1b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
2a: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPa)
3a: PYROPHOSPHATE (PPVa)
3b: PYROPHOSPHATE (PPVb)
3c: PYROPHOSPHATE (PPVc)
3d: PYROPHOSPHATE (PPVd)
3e: PYROPHOSPHATE (PPVe)
3f: PYROPHOSPHATE (PPVf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GDP
1
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
2
GNP
1
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
3
PPV
3
Ligand/Ion
PYROPHOSPHATE
[
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC3 (SOFTWARE)
3: AC5 (SOFTWARE)
4: AC6 (SOFTWARE)
5: AC8 (SOFTWARE)
6: AC9 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:18 , ASP A:19 , GLY A:21 , LYS A:22 , THR A:23 , THR A:24 , GLY A:96 , ASN A:149 , LYS A:150 , ASP A:152 , VAL A:153 , SER A:184 , ALA A:185 , LEU A:186 , PPV A:419
BINDING SITE FOR RESIDUE GDP A 416
2
AC3
SOFTWARE
GLU A:40 , ARG A:43 , GLY A:44 , MET A:45 , ASP A:222 , VAL A:223 , ASN A:224 , LYS A:225 , SER A:278 , ILE A:279 , ARG A:280 , ALA A:296 , GLY A:298 , LYS A:307 , HOH A:421
BINDING SITE FOR RESIDUE GNP A 417
3
AC5
SOFTWARE
GLY A:258 , LEU A:259 , ARG A:260 , ASN A:310 , ARG A:384
BINDING SITE FOR RESIDUE PPV A 418
4
AC6
SOFTWARE
LEU A:186 , HIS A:187 , GDP A:416
BINDING SITE FOR RESIDUE PPV A 419
5
AC8
SOFTWARE
GLN A:229 , PHE A:230 , THR B:274 , LYS B:275 , TYR B:300 , HOH B:456
BINDING SITE FOR RESIDUE PPV B 419
6
AC9
SOFTWARE
THR A:274 , LYS A:275 , TYR A:300 , HOH A:459 , HOH A:468 , THR B:228 , GLN B:229 , PHE B:230 , HOH B:444
BINDING SITE FOR RESIDUE PPV A 420
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
Info
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Exons
(0, 0)
Info
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Note:
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, 6)
Info
All SCOP Domains
1a: SCOP_d2pmda2 (A:321-415)
1b: SCOP_d2pmdb2 (B:321-415)
2a: SCOP_d2pmda1 (A:207-320)
2b: SCOP_d2pmdb1 (B:207-320)
3a: SCOP_d2pmda3 (A:2-206)
3b: SCOP_d2pmdb3 (B:2-206)
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)
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)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Elongation factor/aminomethyltransferase common domain
(82)
Superfamily
:
EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
(67)
Family
:
EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
(48)
Protein domain
:
Initiation factor eIF2 gamma subunit
(16)
Sulfolobus solfataricus [TaxId: 2287]
(10)
1a
d2pmda2
A:321-415
1b
d2pmdb2
B:321-415
Fold
:
Reductase/isomerase/elongation factor common domain
(381)
Superfamily
:
Translation proteins
(218)
Family
:
Elongation factors
(77)
Protein domain
:
Initiation factor eIF2 gamma subunit, domain II
(16)
Sulfolobus solfataricus [TaxId: 2287]
(10)
2a
d2pmda1
A:207-320
2b
d2pmdb1
B:207-320
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
:
Initiation factor eIF2 gamma subunit, N-terminal (G) domain
(16)
Sulfolobus solfataricus [TaxId: 2287]
(10)
3a
d2pmda3
A:2-206
3b
d2pmdb3
B:2-206
[
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]
CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_2pmdA01 (A:2-207)
1b: CATH_2pmdB01 (B:2-207)
2a: CATH_2pmdA02 (A:208-322)
2b: CATH_2pmdB02 (B:208-322)
2c: CATH_2pmdA03 (A:323-415)
2d: CATH_2pmdB03 (B:323-415)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Sulfolobus solfataricus. Organism_taxid: 2287.
(12)
1a
2pmdA01
A:2-207
1b
2pmdB01
B:2-207
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Elongation Factor Tu (Ef-tu); domain 3
(323)
Homologous Superfamily
:
Translation factors
(223)
Sulfolobus solfataricus. Organism_taxid: 2287.
(3)
2a
2pmdA02
A:208-322
2b
2pmdB02
B:208-322
2c
2pmdA03
A:323-415
2d
2pmdB03
B:323-415
[
close CATH info
]
Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_GTP_EFTU_2pmdB01 (B:7-204)
1b: PFAM_GTP_EFTU_2pmdB02 (B:7-204)
2a: PFAM_GTP_EFTU_D2_2pmdB03 (B:235-308)
2b: PFAM_GTP_EFTU_D2_2pmdB04 (B:235-308)
3a: PFAM_eIF2_C_2pmdB05 (B:326-413)
3b: PFAM_eIF2_C_2pmdB06 (B:326-413)
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Clans
(
)
(
)
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(
)
(
)
Organisms
(
)
(
)
Clan
:
P-loop_NTPase
(1112)
Family
:
GTP_EFTU
(39)
Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
(6)
1a
GTP_EFTU-2pmdB01
B:7-204
1b
GTP_EFTU-2pmdB02
B:7-204
Clan
:
no clan defined [family: GTP_EFTU_D2]
(39)
Family
:
GTP_EFTU_D2
(39)
Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
(6)
2a
GTP_EFTU_D2-2pmdB03
B:235-308
2b
GTP_EFTU_D2-2pmdB04
B:235-308
Clan
:
no clan defined [family: eIF2_C]
(10)
Family
:
eIF2_C
(10)
Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
(4)
3a
eIF2_C-2pmdB05
B:326-413
3b
eIF2_C-2pmdB06
B:326-413
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Asym.Unit (143 KB)
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Header - Biol.Unit 1
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