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. 2015 Jul 30;24(10):1600–1608. doi: 10.1002/pro.2743

Table 1.

Determination of the NMR Structure of Flavodoxin-4 in Aqueous Solution Containing 20 mM Sodium Phosphate and 50 mM NaCl at pH 6.0: Input for the Structure Calculations of the Apo-protein (Apo) and the FMN Complex (Holo) and Characterization of the Bundles of 20 Energy-minimized CYANA Conformers Representing These Structures

Quantity Valuea
Holo (298K) Apo (308K)
NOE upper distance limit 2471 2392
Intraresidual 646 630
Short range 709 646
Medium range 455 399
Long range 661 717
Dihedral angle constraints 798 795
Residual target function value (Å2) 2.04±0.26 1.95±0.21
Residual NOE violations
Number≥0.1 Å 22±4 16±4
Maximum (Å) 0.14±0.4 0.13±0.01
Residual dihedral angle violations
Number≥2.5° 1±1 2±1
Maximum (°) 3.0±1.1 3.5±1.0
RMSD from ideal geometry
Bond lengths (Å) 0.012 0.012
Bond angles (°) 2.2 2.2
AMBER energies [kcal mol−1]
Total −5351± 155 −4737±134
van der Waals −397±27 −328±17
Electrostatic −6071±174 −5723±132
RMSD to the mean coordinates (Å)b
Backbone (5−150) 0.66±0.09 1.67±0.48
Heavy atoms (5−150) 1.18±0.10 2.43±0.64
Backbone (5−10,16−37,68−150) 0.56±0.10 0.58±0.09
Heavy atoms (5−10,16−37,68−150) 1.11±0.17 1.05±0.14
Ramachandran plot statistics (%)c
Most favored regions 78.8 72.6
Additional allowed regions 20.8 26.3
Generously allowed regions 0.5 1.0
Disallowed regions 0.0 0.1
a

Except for the top six entries, which represent the input generated for the final cycle of structure calculation with UNIO-ATNOS/CANDID and CYANA 3.0, average values and standard deviations for the 20 energy-minimized conformers are given.

b

The numbers in parentheses indicate the residues for which the RMSD was calculated.

c

As determined by PROCHECK.18