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PDBsum entry 3k5k
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Top Page protein ligands metals Protein-protein interface(s) links
Transferase PDB id
3k5k
Contents
Protein chain
272 a.a.
Ligands
SAH ×2
DXQ ×2
UNX ×2
Metals
_ZN ×8
_CL ×4
Waters ×459
procheck   Generate full PROCHECK analyses

PROCHECK summary for 3k5k

Ramachandran plot

PROCHECK statistics

1. Ramachandran Plot statistics


                                         No. of
                                        residues     %-tage
                                         ------      ------
Most favoured regions      [A,B,L]          419       86.7%*  
Additional allowed regions [a,b,l,p]         59       12.2%          
Generously allowed regions [~a,~b,~l,~p]      3        0.6%          
Disallowed regions         [XX]               2        0.4%*  
                                           ----      ------
Non-glycine and non-proline residues        483      100.0%

End-residues (excl. Gly and Pro)              8

Glycine residues                             30
Proline residues                             20
                                           ----
Total number of residues                    541

Based on an analysis of 118 structures of resolution of at least 2.0 Angstroms and R-factor no greater than 20.0 a good quality model would be expected to have over 90% in the most favoured regions [A,B,L].

2. G-Factors

                                                Average
Parameter                            Score       Score
---------                            -----       -----
Dihedral angles:-
     Phi-psi distribution            -0.38      
     Chi1-chi2 distribution           0.09      
     Chi1 only                        0.16      
     Chi3 & chi4                      0.56      
     Omega                           -0.49      
                                                  -0.21      
                                                  =====
Main-chain covalent forces:-
     Main-chain bond lengths          0.56      
     Main-chain bond angles           0.47      
                                                   0.51      
                                                  =====

     OVERALL AVERAGE                               0.08      
                                                  =====

G-factors provide a measure of how unusual, or out-of-the-ordinary, a property is. 

Values below -0.5*  - unusual
Values below -1.0** - highly unusual
Important note: The main-chain bond-lengths and bond angles are compared with the Engh & Huber (1991) ideal values derived from small-molecule data. Therefore, structures refined using different restraints may show apparently large deviations from normality.

 

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