6NFP

1.7 Angstrom Resolution Crystal Structure of Arginase from Bacillus subtilis subsp. subtilis str. 168


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.166 
  • R-Value Work: 0.139 
  • R-Value Observed: 0.141 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

1.7 Angstrom Resolution Crystal Structure of Arginase from Bacillus subtilis subsp. subtilis str. 168

Minasov, G.Wawrzak, Z.Evdokimova, E.Grimshaw, S.Kwon, K.Savchenko, A.Satchell, K.J.F.Joachimiak, A.Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Arginase
A, B, C, D, E, F
A, B, C, D, E, F
299Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
Gene Names: rocFBSU40320argI
EC: 3.5.3.1
UniProt
Find proteins for P39138 (Bacillus subtilis (strain 168))
Explore P39138 
Go to UniProtKB:  P39138
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP39138
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 9 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PEG
Query on PEG

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PA [auth B],
QA [auth B]
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

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HB [auth C],
IB [auth C],
IC [auth E],
JB [auth C],
JC [auth E],
HB [auth C],
IB [auth C],
IC [auth E],
JB [auth C],
JC [auth E],
KC [auth E],
LA [auth B],
MA [auth B],
NA [auth B],
OA [auth B],
TB [auth D],
UB [auth D],
UC [auth F],
VB [auth D],
VC [auth F],
WB [auth D],
X [auth A],
Y [auth A]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOA
Query on GOA

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FB [auth C],
GB [auth C],
SB [auth D],
TC [auth F]
GLYCOLIC ACID
C2 H4 O3
AEMRFAOFKBGASW-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

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CB [auth C],
DB [auth C],
EB [auth C],
HC [auth E],
JA [auth B],
CB [auth C],
DB [auth C],
EB [auth C],
HC [auth E],
JA [auth B],
KA [auth B],
RB [auth D],
RC [auth F],
S [auth A],
SC [auth F],
T [auth A],
U [auth A],
V [auth A],
W [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
URE
Query on URE

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AB [auth C],
BB [auth C],
FC [auth E],
GA [auth B],
GC [auth E],
AB [auth C],
BB [auth C],
FC [auth E],
GA [auth B],
GC [auth E],
HA [auth B],
IA [auth B],
P [auth A],
PC [auth F],
Q [auth A],
QC [auth F],
R [auth A],
WA [auth C],
XA [auth C],
YA [auth C],
ZA [auth C]
UREA
C H4 N2 O
XSQUKJJJFZCRTK-UHFFFAOYSA-N
 Ligand Interaction
FMT
Query on FMT

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BC [auth E],
CC [auth E],
DA [auth B],
DC [auth E],
EA [auth B],
BC [auth E],
CC [auth E],
DA [auth B],
DC [auth E],
EA [auth B],
EC [auth E],
FA [auth B],
N [auth A],
NB [auth D],
NC [auth F],
O [auth A],
OB [auth D],
OC [auth F],
PB [auth D],
QB [auth D]
FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

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G [auth A],
H [auth A],
I [auth A],
J [auth A],
KB [auth D],
G [auth A],
H [auth A],
I [auth A],
J [auth A],
KB [auth D],
RA [auth C],
SA [auth C],
TA [auth C],
XB [auth E],
Z [auth B]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
MG
Query on MG

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AC [auth E],
BA [auth B],
CA [auth B],
L [auth A],
LB [auth D],
AC [auth E],
BA [auth B],
CA [auth B],
L [auth A],
LB [auth D],
LC [auth F],
M [auth A],
MB [auth D],
MC [auth F],
UA [auth C],
VA [auth C],
ZB [auth E]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
NA
Query on NA

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AA [auth B],
K [auth A],
YB [auth E]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 81.414α = 90
b = 143.989β = 109.35
c = 85.515γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
MoRDaphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-01-02
    Type: Initial release