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4ESV
Biol. Unit 2
Info
Asym.Unit (1.7 MB)
Biol.Unit 1 (859 KB)
Biol.Unit 2 (853 KB)
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(1)
Title
:
A NEW TWIST ON THE TRANSLOCATION MECHANISM OF HELICASES FROM THE STRUCTURE OF DNAB WITH ITS SUBSTRATES
Authors
:
O. Itsathitphaisarn, R. A. Wing, W. K. Eliason, J. Wang, T. A. Steitz
Date
:
23 Apr 12 (Deposition) - 24 Oct 12 (Release) - 24 Oct 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,V,W
Biol. Unit 1: A,B,C,D,E,F,V (1x)
Biol. Unit 2: G,H,I,J,K,L,W (1x)
Keywords
:
Reca Fold, Helicase, Hydrolase-Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
O. Itsathitphaisarn, R. A. Wing, W. K. Eliason, J. Wang, T. A. Steitz
The Hexameric Helicase Dnab Adopts A Nonplanar Conformation During Translocation.
Cell(Cambridge, Mass. ) V. 151 267 2012
[
close entry info
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Hetero Components
(3, 12)
Info
All Hetero Components
1a: TETRAFLUOROALUMINATE ION (ALFa)
1b: TETRAFLUOROALUMINATE ION (ALFb)
1c: TETRAFLUOROALUMINATE ION (ALFc)
1d: TETRAFLUOROALUMINATE ION (ALFd)
1e: TETRAFLUOROALUMINATE ION (ALFe)
1f: TETRAFLUOROALUMINATE ION (ALFf)
1g: TETRAFLUOROALUMINATE ION (ALFg)
1h: TETRAFLUOROALUMINATE ION (ALFh)
1i: TETRAFLUOROALUMINATE ION (ALFi)
1j: TETRAFLUOROALUMINATE ION (ALFj)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
2g: CALCIUM ION (CAg)
2h: CALCIUM ION (CAh)
2i: CALCIUM ION (CAi)
2j: CALCIUM ION (CAj)
2k: CALCIUM ION (CAk)
2l: CALCIUM ION (CAl)
2m: CALCIUM ION (CAm)
2n: CALCIUM ION (CAn)
3a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
3b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
3c: GUANOSINE-5'-DIPHOSPHATE (GDPc)
3d: GUANOSINE-5'-DIPHOSPHATE (GDPd)
3e: GUANOSINE-5'-DIPHOSPHATE (GDPe)
3f: GUANOSINE-5'-DIPHOSPHATE (GDPf)
3g: GUANOSINE-5'-DIPHOSPHATE (GDPg)
3h: GUANOSINE-5'-DIPHOSPHATE (GDPh)
3i: GUANOSINE-5'-DIPHOSPHATE (GDPi)
3j: GUANOSINE-5'-DIPHOSPHATE (GDPj)
4a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
4b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
4c: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESc)
4d: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ALF
5
Ligand/Ion
TETRAFLUOROALUMINATE ION
2
CA
-1
Ligand/Ion
CALCIUM ION
3
GDP
5
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
4
MES
2
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
[
close Hetero Component info
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Sites
(15, 15)
Info
All Sites
01: AC1 (SOFTWARE)
02: BC7 (SOFTWARE)
03: CC5 (SOFTWARE)
04: CC6 (SOFTWARE)
05: CC7 (SOFTWARE)
06: CC8 (SOFTWARE)
07: CC9 (SOFTWARE)
08: DC1 (SOFTWARE)
09: DC2 (SOFTWARE)
10: DC3 (SOFTWARE)
11: DC4 (SOFTWARE)
12: DC5 (SOFTWARE)
13: DC6 (SOFTWARE)
14: DC7 (SOFTWARE)
15: DC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER H:364 , ARG I:365 , GLN I:369 , DT W:12
BINDING SITE FOR RESIDUE MES W 101
02
BC7
SOFTWARE
ASN D:285 , GLU G:135
BINDING SITE FOR RESIDUE CA D 504
03
CC5
SOFTWARE
SER G:213 , VAL G:214 , GLY G:215 , LYS G:216 , THR G:217 , ALA G:218 , ARG G:250 , GLN G:261 , LYS G:433 , ASN G:436 , ALF G:502 , GLN L:419 , GLY L:422 , PRO L:423 , VAL L:424
BINDING SITE FOR RESIDUE GDP G 501
04
CC6
SOFTWARE
LYS G:216 , THR G:217 , GLU G:241 , GLN G:362 , GDP G:501 , GLN L:388 , LYS L:418 , ARG L:420
BINDING SITE FOR RESIDUE ALF G 502
05
CC7
SOFTWARE
GLN H:419 , ASN H:421 , GLY H:422 , PRO H:423 , VAL H:424 , SER I:213 , GLY I:215 , LYS I:216 , THR I:217 , ALA I:218 , ARG I:250 , ALA I:260 , GLN I:261 , LYS I:433 , CA I:502 , ALF I:503
BINDING SITE FOR RESIDUE GDP I 501
06
CC8
SOFTWARE
THR I:217 , GLU I:241 , MET I:242 , GDP I:501 , ALF I:503
BINDING SITE FOR RESIDUE CA I 502
07
CC9
SOFTWARE
GLN H:388 , LYS H:418 , ARG H:420 , LYS I:216 , GLU I:241 , GLN I:362 , GDP I:501 , CA I:502
BINDING SITE FOR RESIDUE ALF I 503
08
DC1
SOFTWARE
GLY I:129 , GLU I:133
BINDING SITE FOR RESIDUE MES I 504
09
DC2
SOFTWARE
GLN I:419 , ASN I:421 , GLY I:422 , VAL I:424 , SER J:213 , GLY J:215 , LYS J:216 , THR J:217 , ALA J:218 , ARG J:250 , ALA J:260 , GLN J:261 , LYS J:433 , ALF J:502
BINDING SITE FOR RESIDUE GDP J 501
10
DC3
SOFTWARE
LYS I:418 , ARG I:420 , LYS J:216 , THR J:217 , GLU J:241 , MET J:242 , GLN J:362 , GDP J:501
BINDING SITE FOR RESIDUE ALF J 502
11
DC4
SOFTWARE
GLN J:419 , ASN J:421 , GLY J:422 , VAL J:424 , SER K:213 , GLY K:215 , LYS K:216 , THR K:217 , ALA K:218 , ARG K:250 , ALA K:260 , LYS K:433 , GLU K:434 , ASN K:436 , ALF K:502
BINDING SITE FOR RESIDUE GDP K 501
12
DC5
SOFTWARE
GLN J:388 , LYS J:418 , ARG J:420 , PRO K:212 , SER K:213 , LYS K:216 , THR K:217 , GLU K:241 , GDP K:501
BINDING SITE FOR RESIDUE ALF K 502
13
DC6
SOFTWARE
GLN K:419 , GLY K:422 , PRO K:423 , VAL K:424 , SER L:213 , GLY L:215 , LYS L:216 , THR L:217 , ALA L:218 , ARG L:250 , GLN L:261 , LYS L:433 , ALF L:502 , CA L:503
BINDING SITE FOR RESIDUE GDP L 501
14
DC7
SOFTWARE
GLN K:388 , LYS K:418 , ARG K:420 , PRO L:212 , LYS L:216 , GLU L:241 , GLN L:362 , GDP L:501 , CA L:503
BINDING SITE FOR RESIDUE ALF L 502
15
DC8
SOFTWARE
THR L:217 , ASP L:320 , GDP L:501 , ALF L:502
BINDING SITE FOR RESIDUE CA L 503
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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
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
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CATH Domains
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Pfam Domains
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Chain W
Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
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show bonds with a radius of 100 units (=0.4Å)
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Show PDB file:
Asym.Unit (1.7 MB)
Header - Asym.Unit
Biol.Unit 1 (859 KB)
Header - Biol.Unit 1
Biol.Unit 2 (853 KB)
Header - Biol.Unit 2
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