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2J7P
Biol. Unit 1
Info
Asym.Unit (197 KB)
Biol.Unit 1 (98 KB)
Biol.Unit 2 (97 KB)
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(1)
Title
:
GMPPNP-STABILIZED NG DOMAIN COMPLEX OF THE SRP GTPASES FFH AND FTSY
Authors
:
D. M. Freymann
Date
:
14 Oct 06 (Deposition) - 11 Dec 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.97
Chains
:
Asym. Unit : A,B,D,E
Biol. Unit 1: A,D (1x)
Biol. Unit 2: B,E (1x)
Keywords
:
Inner Membrane, Membrane Targeting, Nucleotide-Binding, Gmppnp, Gdp-Pnp, Signal Recognition Particle, Rna-Binding, Gtp-Binding, Cell Division, Signal Sequence Recognition, Srp, Ffh, Ftsy, Gtpase, Membrane, Cell Cycle, Cell Division/Complex, Signal Recognition
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Gawronski-Salerno, D. M. Freymann
Structure Of The Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh And Ftsy.
J. Struct. Biol. V. 158 122 2007
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Hetero Components
(3, 14)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
2a: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPa)
2b: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPb)
2c: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPc)
2d: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPd)
3a: IODIDE ION (IODa)
3b: IODIDE ION (IODb)
3c: IODIDE ION (IODc)
3d: IODIDE ION (IODd)
3e: IODIDE ION (IODe)
3f: IODIDE ION (IODf)
3g: IODIDE ION (IODg)
3h: IODIDE ION (IODh)
3i: IODIDE ION (IODi)
3j: IODIDE ION (IODj)
3k: IODIDE ION (IODk)
3l: IODIDE ION (IODl)
3m: IODIDE ION (IODm)
3n: IODIDE ION (IODn)
3o: IODIDE ION (IODo)
3p: IODIDE ION (IODp)
4a: POTASSIUM ION (Ka)
4b: POTASSIUM ION (Kb)
5a: MAGNESIUM ION (MGa)
5b: MAGNESIUM ION (MGb)
5c: MAGNESIUM ION (MGc)
5d: MAGNESIUM ION (MGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
4
Ligand/Ion
1,2-ETHANEDIOL
2
GNP
2
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
3
IOD
8
Ligand/Ion
IODIDE ION
4
K
-1
Ligand/Ion
POTASSIUM ION
5
MG
-1
Ligand/Ion
MAGNESIUM ION
[
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Sites
(16, 16)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: BC2 (SOFTWARE)
07: BC3 (SOFTWARE)
08: BC4 (SOFTWARE)
09: BC5 (SOFTWARE)
10: BC6 (SOFTWARE)
11: CC1 (SOFTWARE)
12: CC2 (SOFTWARE)
13: CC3 (SOFTWARE)
14: CC5 (SOFTWARE)
15: CC6 (SOFTWARE)
16: CC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:181
BINDING SITE FOR RESIDUE IOD A1299
02
AC2
SOFTWARE
ARG A:286 , HOH A:2147 , HOH A:2151
BINDING SITE FOR RESIDUE IOD A1300
03
AC3
SOFTWARE
HOH A:2103 , HOH A:2107
BINDING SITE FOR RESIDUE IOD A1302
04
AC4
SOFTWARE
THR A:112 , GNP A:1400 , HOH A:2073 , HOH A:2084 , HOH A:2100
BINDING SITE FOR RESIDUE MG A1401
05
AC5
SOFTWARE
HOH A:2016
BINDING SITE FOR RESIDUE IOD B1298
06
BC2
SOFTWARE
SER D:47 , ARG D:271
BINDING SITE FOR RESIDUE IOD D1308
07
BC3
SOFTWARE
GLY D:25 , HOH D:2017
BINDING SITE FOR RESIDUE IOD D1309
08
BC4
SOFTWARE
GLU D:66 , LYS D:69
BINDING SITE FOR RESIDUE IOD D1310
09
BC5
SOFTWARE
THR D:116 , GNP D:1400 , HOH D:2047 , HOH D:2054 , HOH D:2072
BINDING SITE FOR RESIDUE MG D1401
10
BC6
SOFTWARE
LEU D:257 , GLY D:259 , ALA D:261 , HOH D:2027 , HOH D:2106 , HOH D:2111
BINDING SITE FOR RESIDUE K D1402
11
CC1
SOFTWARE
ARG A:128 , ARG A:181
BINDING SITE FOR RESIDUE EDO A1297
12
CC2
SOFTWARE
GLN A:137 , GLU D:284 , HOH D:2117
BINDING SITE FOR RESIDUE EDO A1298
13
CC3
SOFTWARE
GLN A:107 , GLY A:108 , SER A:109 , GLY A:110 , LYS A:111 , THR A:112 , THR A:113 , LYS A:117 , ASP A:135 , ARG A:138 , GLN A:144 , GLY A:190 , LYS A:246 , ASP A:248 , GLY A:271 , VAL A:272 , SER A:273 , GLU A:274 , MG A:1401 , HOH A:2069 , HOH A:2073 , HOH A:2075 , HOH A:2084 , HOH A:2100 , HOH A:2152 , ASN D:111 , ARG D:142 , LEU D:196 , GNP D:1400 , HOH D:2124
BINDING SITE FOR RESIDUE GNP A1400
14
CC5
SOFTWARE
PRO D:291 , PHE D:292 , ASP D:293 , PHE D:297 , HOH D:2123
BINDING SITE FOR RESIDUE EDO D1306
15
CC6
SOFTWARE
GLN A:193 , GLY D:259 , THR D:260 , ALA D:261 , HOH D:2105
BINDING SITE FOR RESIDUE EDO D1307
16
CC7
SOFTWARE
GLN A:107 , ARG A:138 , GNP A:1400 , ASN D:111 , GLY D:112 , VAL D:113 , GLY D:114 , LYS D:115 , THR D:116 , THR D:117 , LYS D:121 , ARG D:142 , GLN D:148 , GLY D:194 , LYS D:256 , ASP D:258 , GLY D:281 , VAL D:282 , GLY D:283 , GLU D:284 , MG D:1401 , HOH D:2038 , HOH D:2047 , HOH D:2049 , HOH D:2054 , HOH D:2072 , HOH D:2124 , HOH D:2125
BINDING SITE FOR RESIDUE GNP D1400
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: SRP54 (A:266-279)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SRP54
PS00300
SRP54-type proteins GTP-binding domain signature.
SRP54_THEAQ
266-279
1
A:266-279
-
FTSY_THEAQ
276-289
1
D:276-289
-
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Exons
(0, 0)
Info
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All Exon Boundaries
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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
(4, 8)
Info
All SCOP Domains
1a: SCOP_d2j7pd1 (D:22-78)
1b: SCOP_d2j7pe1 (E:27-78)
2a: SCOP_d2j7pa1 (A:3-88)
2b: SCOP_d2j7pb1 (B:4-88)
3a: SCOP_d2j7pd2 (D:97-303)
3b: SCOP_d2j7pe2 (E:97-303)
4a: SCOP_d2j7pa2 (A:89-294)
4b: SCOP_d2j7pb2 (B:89-294)
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Four-helical up-and-down bundle
(308)
Superfamily
:
Domain of the SRP/SRP receptor G-proteins
(34)
Family
:
automated matches
(5)
Protein domain
:
automated matches
(5)
Thermus aquaticus [TaxId: 271]
(3)
1a
d2j7pd1
D:22-78
1b
d2j7pe1
E:27-78
Family
:
Domain of the SRP/SRP receptor G-proteins
(29)
Protein domain
:
Signal sequence recognition protein Ffh
(21)
Thermus aquaticus [TaxId: 271]
(17)
2a
d2j7pa1
A:3-88
2b
d2j7pb1
B:4-88
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
:
Nitrogenase iron protein-like
(152)
Protein domain
:
automated matches
(19)
Thermus aquaticus [TaxId: 271]
(3)
3a
d2j7pd2
D:97-303
3b
d2j7pe2
E:97-303
Protein domain
:
GTPase domain of the signal sequence recognition protein Ffh
(21)
Thermus aquaticus [TaxId: 271]
(17)
4a
d2j7pa2
A:89-294
4b
d2j7pb2
B:89-294
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2j7pA02 (A:91-281)
1b: CATH_2j7pB02 (B:91-281)
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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)
Thermus aquaticus. Organism_taxid: 271.
(14)
1a
2j7pA02
A:91-281
1b
2j7pB02
B:91-281
[
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Pfam Domains
(0, 0)
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all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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