3TOS

Crystal Structure of CalS11, Calicheamicin Methyltransferase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.173 
  • R-Value Work: 0.146 
  • R-Value Observed: 0.147 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Crystal Structure of CalS11, Calicheamicin methyltransferase

Chang, A.Aceti, D.J.Beebe, E.T.Makino, S.-I.Wrobel, R.L.Bingman, C.A.Thorson, J.S.Phillips Jr., G.N.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CalS11
A, B, C, D, E, F, G, H, I, J
A, B, C, D, E, F, G, H, I, J
257Micromonospora echinosporaMutation(s): 0 
Gene Names: calS11
UniProt
Find proteins for Q8KNF1 (Micromonospora echinospora)
Explore Q8KNF1 
Go to UniProtKB:  Q8KNF1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8KNF1
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SAH
Query on SAH

Download Ideal Coordinates CCD File 
CA [auth E],
GA [auth F],
K [auth A],
LA [auth G],
O [auth B],
CA [auth E],
GA [auth F],
K [auth A],
LA [auth G],
O [auth B],
PA [auth H],
S [auth C],
WA [auth I],
X [auth D],
YA [auth J]
S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
 Ligand Interaction
GLU
Query on GLU

Download Ideal Coordinates CCD File 
DA [auth E],
HA [auth F],
L [auth A],
MA [auth G],
P [auth B],
DA [auth E],
HA [auth F],
L [auth A],
MA [auth G],
P [auth B],
QA [auth H],
T [auth C],
TA [auth I],
Y [auth D],
ZA [auth J]
GLUTAMIC ACID
C5 H9 N O4
WHUUTDBJXJRKMK-VKHMYHEASA-N
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
AA [auth D],
BA [auth D],
BB [auth J],
CB [auth J],
FA [auth E],
AA [auth D],
BA [auth D],
BB [auth J],
CB [auth J],
FA [auth E],
JA [auth F],
KA [auth F],
N [auth A],
OA [auth G],
R [auth B],
SA [auth H],
V [auth C],
VA [auth I],
W [auth C],
XA [auth I]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
NA
Query on NA

Download Ideal Coordinates CCD File 
AB [auth J],
EA [auth E],
IA [auth F],
M [auth A],
NA [auth G],
AB [auth J],
EA [auth E],
IA [auth F],
M [auth A],
NA [auth G],
Q [auth B],
RA [auth H],
U [auth C],
UA [auth I],
Z [auth D]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D, E, F, G, H, I, J
A, B, C, D, E, F, G, H, I, J
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.173 
  • R-Value Work: 0.146 
  • R-Value Observed: 0.147 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.321α = 68.69
b = 106.08β = 69.63
c = 106.33γ = 88.56
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2011-10-05
    Type: Initial release
  • Version 1.1: 2012-08-08
    Changes: Structure summary
  • Version 1.2: 2017-11-08
    Changes: Refinement description