6KXK

BON1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.227 
  • R-Value Observed: 0.229 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Crystal Structure of an Arabidopsis Copine providing insights into this protein family

Wang, Q.C.Jiang, M.Q.Isupov, M.N.Sun, L.F.Wu, Y.K.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein BONZAI 1
A, C, D, F
553Arabidopsis thalianaMutation(s): 0 
Gene Names: BON1CPN1At5g61900K22G18.2
UniProt
Find proteins for Q941L3 (Arabidopsis thaliana)
Explore Q941L3 
Go to UniProtKB:  Q941L3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ941L3
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Protein BONZAI 1528Arabidopsis thalianaMutation(s): 0 
Gene Names: BON1CPN1At5g61900K22G18.2
UniProt
Find proteins for Q941L3 (Arabidopsis thaliana)
Explore Q941L3 
Go to UniProtKB:  Q941L3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ941L3
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Protein BONZAI 1550Arabidopsis thalianaMutation(s): 0 
Gene Names: BON1CPN1At5g61900K22G18.2
UniProt
Find proteins for Q941L3 (Arabidopsis thaliana)
Explore Q941L3 
Go to UniProtKB:  Q941L3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ941L3
Sequence Annotations
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Protein BONZAI 1527Arabidopsis thalianaMutation(s): 0 
Gene Names: BON1CPN1At5g61900K22G18.2
UniProt
Find proteins for Q941L3 (Arabidopsis thaliana)
Explore Q941L3 
Go to UniProtKB:  Q941L3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ941L3
Sequence Annotations
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Protein BONZAI 1553Arabidopsis thalianaMutation(s): 0 
Gene Names: BON1CPN1At5g61900K22G18.2
UniProt
Find proteins for Q941L3 (Arabidopsis thaliana)
Explore Q941L3 
Go to UniProtKB:  Q941L3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ941L3
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 7 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PG4
Query on PG4

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DC [auth D],
QA [auth B]
TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
PGE
Query on PGE

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FA [auth A],
OB [auth C],
SA [auth B],
UD [auth F],
V [auth A]
TRIETHYLENE GLYCOL
C6 H14 O4
ZIBGPFATKBEMQZ-UHFFFAOYSA-N
PEG
Query on PEG

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AB [auth C]
BC [auth D]
CB [auth C]
DB [auth C]
EC [auth D]
AB [auth C],
BC [auth D],
CB [auth C],
DB [auth C],
EC [auth D],
GA [auth A],
HC [auth D],
I [auth A],
J [auth A],
KC [auth D],
O [auth A],
OD [auth F],
RA [auth B],
RB [auth D],
RC [auth E],
S [auth A],
XC [auth E]
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL
Query on GOL

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AC [auth D]
BA [auth A]
CA [auth A]
CD [auth E]
DA [auth A]
AC [auth D],
BA [auth A],
CA [auth A],
CD [auth E],
DA [auth A],
EB [auth C],
FE [auth G],
GE [auth H],
JB [auth C],
KD [auth F],
LE [auth H],
NA [auth B],
PB [auth C],
QD [auth F],
R [auth A],
SB [auth D],
SD [auth F],
UB [auth D],
UC [auth E],
VC [auth E],
W [auth A],
WC [auth E],
YC [auth E],
YD [auth F],
Z [auth A],
ZA [auth C],
ZB [auth D]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO
Query on EDO

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AA [auth A]
AD [auth E]
BB [auth C]
BD [auth E]
BE [auth G]
AA [auth A],
AD [auth E],
BB [auth C],
BD [auth E],
BE [auth G],
CC [auth D],
CE [auth G],
DD [auth F],
DE [auth G],
EA [auth A],
ED [auth F],
EE [auth G],
FB [auth C],
FC [auth D],
FD [auth F],
GB [auth C],
GC [auth D],
GD [auth F],
HA [auth B],
HB [auth C],
HD [auth F],
HE [auth H],
IA [auth B],
IB [auth C],
IC [auth D],
ID [auth F],
IE [auth H],
JA [auth B],
JC [auth D],
JD [auth F],
JE [auth H],
K [auth A],
KA [auth B],
KB [auth C],
KE [auth H],
L [auth A],
LA [auth B],
LB [auth C],
LC [auth D],
LD [auth F],
M [auth A],
MA [auth B],
MB [auth C],
MC [auth D],
MD [auth F],
ME [auth H],
N [auth A],
NB [auth C],
NC [auth D],
ND [auth F],
NE [auth H],
OA [auth B],
OC [auth D],
P [auth A],
PA [auth B],
PD [auth F],
Q [auth A],
RD [auth F],
SC [auth E],
T [auth A],
TA [auth B],
TB [auth D],
TC [auth E],
TD [auth F],
U [auth A],
UA [auth B],
VA [auth B],
VB [auth D],
VD [auth F],
WA [auth B],
WB [auth D],
WD [auth F],
X [auth A],
XA [auth B],
XB [auth D],
XD [auth F],
Y [auth A],
YA [auth C],
YB [auth D],
ZC [auth E],
ZD [auth F]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
CA (Subject of Investigation/LOI)
Query on CA

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AE [auth F],
QC [auth D]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL
Query on CL

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PC [auth D],
QB [auth C]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.227 
  • R-Value Observed: 0.229 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 122.284α = 90
b = 118.716β = 90.2
c = 222.253γ = 90
Software Package:
Software NamePurpose
Aimlessdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-16
    Type: Initial release
  • Version 1.1: 2024-03-27
    Changes: Data collection, Database references, Refinement description