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4J6W
Asym. Unit
Info
Asym.Unit (90 KB)
Biol.Unit 1 (82 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HFQ FROM PSEUDOMONAS AERUGINOSA IN COMPLEX WITH CTP
Authors
:
A. D. Nikulin, V. Murina, N. Lekontseva
Date
:
12 Feb 13 (Deposition) - 31 Jul 13 (Release) - 21 Aug 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Lsm, Rna Binding Protein, Rna Chaperone, Srna, Mrna
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Murina, N. Lekontseva, A. Nikulin
Hfq Binds Ribonucleotides In Three Different Rna-Binding Sites.
Acta Crystallogr. , Sect. D V. 69 1504 2013
[
close entry info
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Hetero Components
(7, 25)
Info
All Hetero Components
2a: CYTIDINE-5'-DIPHOSPHATE (CDPa)
3a: CHLORIDE ION (CLa)
3b: CHLORIDE ION (CLb)
4a: CYTIDINE-5'-TRIPHOSPHATE (CTPa)
4b: CYTIDINE-5'-TRIPHOSPHATE (CTPb)
4c: CYTIDINE-5'-TRIPHOSPHATE (CTPc)
4d: CYTIDINE-5'-TRIPHOSPHATE (CTPd)
4e: CYTIDINE-5'-TRIPHOSPHATE (CTPe)
4f: CYTIDINE-5'-TRIPHOSPHATE (CTPf)
1a: CYTIDINE-5'-MONOPHOSPHATE (Ca)
1b: CYTIDINE-5'-MONOPHOSPHATE (Cb)
1c: CYTIDINE-5'-MONOPHOSPHATE (Cc)
1d: CYTIDINE-5'-MONOPHOSPHATE (Cd)
5a: MAGNESIUM ION (MGa)
5b: MAGNESIUM ION (MGb)
5c: MAGNESIUM ION (MGc)
5d: MAGNESIUM ION (MGd)
5e: MAGNESIUM ION (MGe)
5f: MAGNESIUM ION (MGf)
5g: MAGNESIUM ION (MGg)
5h: MAGNESIUM ION (MGh)
6a: SODIUM ION (NAa)
6b: SODIUM ION (NAb)
6c: SODIUM ION (NAc)
7a: HEXAETHYLENE GLYCOL (P6Ga)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
C
4
Ligand/Ion
CYTIDINE-5'-MONOPHOSPHATE
2
CDP
1
Ligand/Ion
CYTIDINE-5'-DIPHOSPHATE
3
CL
2
Ligand/Ion
CHLORIDE ION
4
CTP
6
Ligand/Ion
CYTIDINE-5'-TRIPHOSPHATE
5
MG
8
Ligand/Ion
MAGNESIUM ION
6
NA
3
Ligand/Ion
SODIUM ION
7
P6G
1
Ligand/Ion
HEXAETHYLENE GLYCOL
[
close Hetero Component info
]
Sites
(25, 25)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:25 , GLY A:29 , LYS A:31 , THR A:61 , HOH A:203 , HOH A:221 , HOH A:234 , HOH A:244 , HOH A:245 , ARG C:69 , ASN E:28 , ILE E:30
BINDING SITE FOR RESIDUE CTP A 101
02
AC2
SOFTWARE
HIS A:5 , GLN A:8 , GLN A:41 , PHE A:42 , LYS A:56 , HOH A:233 , HOH A:240 , HOH A:250 , HOH A:260 , CTP B:101 , HOH B:236 , PHE E:42 , HIS E:57 , C E:101 , MG E:104 , MG E:105 , HOH E:229
BINDING SITE FOR RESIDUE C A 102
03
AC3
SOFTWARE
ASP A:9 , PHE A:39 , ASP A:40 , LYS A:56
BINDING SITE FOR RESIDUE MG A 103
04
AC4
SOFTWARE
P6G D:103 , HOH D:227
BINDING SITE FOR RESIDUE NA A 104
05
AC5
SOFTWARE
PHE A:42 , TYR A:55 , HIS A:57 , C A:102 , HOH A:240 , HOH A:260 , HIS B:5 , GLN B:8 , GLN B:41 , PHE B:42 , LYS B:56 , HIS B:57 , MG B:102 , HOH B:206 , HOH B:220 , HOH B:221 , HOH B:222 , HOH B:236 , HOH B:237 , HOH B:238 , MG C:103 , MG C:104 , C D:101 , MG D:105 , HOH D:208 , C E:101 , MG E:105 , HOH E:229 , CDP F:101 , HOH F:228
BINDING SITE FOR RESIDUE CTP B 101
06
AC6
SOFTWARE
CTP B:101 , HOH B:222 , HOH B:236 , C D:101 , HOH D:226
BINDING SITE FOR RESIDUE MG B 102
07
AC7
SOFTWARE
TYR C:25 , GLY C:29 , LYS C:31 , SER C:60 , THR C:61 , HOH C:202 , HOH C:230 , HOH C:236 , HOH C:243 , ASN F:28 , ILE F:30 , HOH F:202
BINDING SITE FOR RESIDUE CTP C 101
08
AC8
SOFTWARE
HIS C:5 , GLN C:8 , GLN C:41 , PHE C:42 , LYS C:56 , MG C:103 , MG C:104 , HOH C:224 , C E:101 , PHE F:42 , TYR F:55 , HIS F:57 , CDP F:101 , NA F:105
BINDING SITE FOR RESIDUE C C 102
09
AC9
SOFTWARE
CTP B:101 , C C:102 , MG C:104 , C E:101 , CDP F:101
BINDING SITE FOR RESIDUE MG C 103
10
BC1
SOFTWARE
HOH A:260 , CTP B:101 , HOH B:237 , C C:102 , MG C:103 , C D:101 , CDP F:101 , NA F:105
BINDING SITE FOR RESIDUE MG C 104
11
BC2
SOFTWARE
PHE B:42 , HIS B:57 , CTP B:101 , MG B:102 , HOH B:237 , MG C:104 , HIS D:5 , GLN D:8 , GLN D:41 , PHE D:42 , LYS D:56 , HIS D:57 , MG D:104 , MG D:105 , HOH D:226 , CDP F:101 , NA F:105
BINDING SITE FOR RESIDUE C D 101
12
BC3
SOFTWARE
LEU B:26 , ASN B:28 , ILE B:30 , HOH B:203 , GLN C:35 , ASN C:48 , TYR D:25 , GLY D:29 , LYS D:31 , SER D:60 , THR D:61 , HOH D:202 , HOH D:219 , HOH D:221
BINDING SITE FOR RESIDUE CTP D 102
13
BC4
SOFTWARE
NA A:104 , VAL B:27 , ARG C:66 , VAL D:27 , HOH D:227 , VAL F:27
BINDING SITE FOR RESIDUE P6G D 103
14
BC5
SOFTWARE
PHE D:42 , LYS D:56 , HIS D:57 , C D:101 , CDP F:101
BINDING SITE FOR RESIDUE MG D 104
15
BC6
SOFTWARE
CTP B:101 , HOH B:220 , C D:101 , CDP F:101
BINDING SITE FOR RESIDUE MG D 105
16
BC7
SOFTWARE
C A:102 , HOH A:233 , HOH A:260 , CTP B:101 , PHE C:42 , TYR C:55 , HIS C:57 , C C:102 , MG C:103 , HOH C:207 , GLY E:4 , GLN E:8 , GLN E:41 , PHE E:42 , LYS E:56 , HIS E:57 , MG E:104 , MG E:105 , HOH E:204 , HOH E:229
BINDING SITE FOR RESIDUE C E 101
17
BC8
SOFTWARE
ASN C:28 , ILE C:30 , HOH C:204 , TYR E:25 , GLY E:29 , LYS E:31 , SER E:60 , THR E:61 , HOH E:201 , HOH E:209 , HOH E:217 , HOH E:227 , HOH E:230 , HOH E:237
BINDING SITE FOR RESIDUE CTP E 102
18
BC9
SOFTWARE
LYS E:31 , HOH E:230
BINDING SITE FOR RESIDUE CL E 103
19
CC1
SOFTWARE
C A:102 , HOH A:233 , HOH A:260 , C E:101
BINDING SITE FOR RESIDUE MG E 104
20
CC2
SOFTWARE
C A:102 , HOH A:249 , CTP B:101 , HIS E:57 , C E:101 , HOH E:229
BINDING SITE FOR RESIDUE MG E 105
21
CC3
SOFTWARE
CTP B:101 , HOH B:238 , HIS C:57 , C C:102 , MG C:103 , MG C:104 , HOH C:224 , PHE D:42 , TYR D:55 , HIS D:57 , C D:101 , MG D:104 , MG D:105 , GLY F:4 , GLN F:8 , GLN F:41 , PHE F:42 , LYS F:56 , HIS F:57 , NA F:105 , HOH F:212 , HOH F:228 , HOH F:235
BINDING SITE FOR RESIDUE CDP F 101
22
CC4
SOFTWARE
ARG C:19 , ASN D:28 , ILE D:30 , TYR F:25 , GLY F:29 , THR F:61 , HOH F:204 , HOH F:213 , HOH F:233 , HOH F:241 , HOH F:249
BINDING SITE FOR RESIDUE CTP F 102
23
CC5
SOFTWARE
SER D:51 , HOH D:218 , PRO F:67 , VAL F:68
BINDING SITE FOR RESIDUE CL F 103
24
CC6
SOFTWARE
GLU E:18 , GLU F:18 , VAL F:68 , ARG F:69
BINDING SITE FOR RESIDUE NA F 104
25
CC7
SOFTWARE
HOH B:237 , C C:102 , MG C:104 , HOH C:224 , C D:101 , CDP F:101
BINDING SITE FOR RESIDUE NA F 105
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
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Exons
(0, 0)
Info
All Exons
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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.
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d4j6wa_ (A:)
1b: SCOP_d4j6wb_ (B:)
1c: SCOP_d4j6wc_ (C:)
1d: SCOP_d4j6wd_ (D:)
1e: SCOP_d4j6we_ (E:)
1f: SCOP_d4j6wf_ (F:)
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Protein Domains
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(
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Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Sm-like fold
(103)
Superfamily
:
Sm-like ribonucleoproteins
(95)
Family
:
Pleiotropic translational regulator Hfq
(28)
Protein domain
:
Pleiotropic translational regulator Hfq
(13)
Pseudomonas aeruginosa [TaxId: 287]
(9)
1a
d4j6wa_
A:
1b
d4j6wb_
B:
1c
d4j6wc_
C:
1d
d4j6wd_
D:
1e
d4j6we_
E:
1f
d4j6wf_
F:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
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Sorry, no Info available
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