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. 2008 Feb 1;94(3):938–957. doi: 10.1529/biophysj.107.110833

Table 1.

Representative aluminum models

Ring Edge type Ext rot (E) Int rot (I)
halfE
halfI
Dist of E (α) DAD (D) Twist (T)
halfD
halfD/2
halfT
611
Pent Sym 0.00 0.00 −31.51 0.00 0.00 0.00 31.51 15.76 −15.76
Hex Green −16.34 12.03 52% 28.37 −2.16
Hex Twist −15.17 −12.03 48% 3.14 −13.60
Hex Sym 0.00 0.00 31.51 0.00 0.00 0.00 −31.51 −15.76 15.76
Hex Twist 15.17 12.03 −3.14 13.60
Hex Green 16.34 −12.03 −28.37 2.16
Sum 0.00 0.00 0.00 0.00 0.00 0.00 0.00
621
Pent Red −8.65 8.37 −48.45 −3.78 18% 17.02 −0.14 44.67 22.34 −26.12
Hex Green −21.98 3.76 45% 25.74 −9.11
Hex Twist −17.82 −15.91 37% 1.91 −16.87
Hex Twist 17.82 15.91 48.45 3.78 −1.91 16.87 −44.67 −22.34 26.12
Hex Green 21.98 −3.76 −25.74 9.11
Pent Red 8.65 −8.37 −17.02 0.14
Sum 0.00 0.00 0.00 0.00 0.00 0.00 0.00
623
Pent Sym 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00
Hex Green −12.90 14.55 27.45 0.83
Hex Green 12.90 −14.55 −27.45 −0.83
Pent Sym 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00
Hex Green −12.90 14.55 27.45 0.83
Hex Green 12.90 −14.55 −27.45 −0.83
Sum 0.00 0.00 0.00 0.00 0.00 0.00 0.00
631
Pent Sym 0.00 0.00 −42.82 0.00 0.00 0.00 42.82 21.41 −21.41
Pent Red −16.65 0.03 39% 16.68 −8.31
Hex Green −26.17 −0.03 61% 26.14 −13.10
Hex Sym 0.00 0.00 42.82 0.00 0.00 0.00 −42.82 −21.41 21.41
Hex Green 26.17 0.03 −26.14 13.10
Pent Red 16.65 −0.03 −16.68 8.31
Sum 0.00 0.00 0.00 0.00 0.00 0.00 0.00
632
Pent Red −14.94 3.57 −18.91 −0.11 18.51 −5.69 18.80 9.40 −9.51
Hex Green −29.50 2.13 31.63 −13.69
Hex Green 25.53 −5.81 −31.34 9.86
Pent Twist 3.89 3.85 19.00 0.16 −0.04 3.87 −18.84 −9.42 0.07
Hex Twist 2.81 1.84 −0.97 2.33
Pent Red 12.30 −5.53 −17.83 3.39
Sum 0.09 0.05 −0.04 0.07 −0.04 −0.02 −9.44
531
Pent Sym 0.00 0.00
Pent Blue −15.05 −1.24 −31.01 0.76 49% 13.81 −8.15 31.77 15.89 −15.13
Hex Red −15.96 2.00 51% 17.96 −6.98
Hex Red 15.96 −2.00 31.01 −0.76 −17.96 6.98 −31.77 −15.89 15.13
Pent Blue 15.05 1.24 −13.81 8.15
Sum 0.00 0.00 0.00 0.00 0.00 0.00 0.00
532
Hex Twist −5.99 −5.70 −11.20 3.52 53% 0.29 −5.85 14.72 7.36 −3.84
Pent Blue −5.21 9.22 47% 14.43 2.01
Pent Blue 5.21 −9.22 11.20 −3.52 −14.43 −2.01 −14.72 −7.36 3.84
Hex Twist 5.99 5.70 −0.29 5.85
Pent Sym 0.00 0.00 0.00 0.00
Sum 0.00 0.00 0.00 0.00 0.00 0.00 0.00

Angles of interest (in degrees) associated with all of the edges of representative hex-Rings and pent-Rings composed of aluminum atoms. Edge lengths were constrained to 2.5 Å, and internal angles were constrained to 108° in pentagonal faces and 120° in hexagonal faces. Electrostatic interactions were turned off. The equilibrium geometry of each Ring structure was determined by molecular mechanics calculations (MMFF94) (20–24) in Spartan ‘04. External rotation (E) and internal rotation (I) were measured. DAD (D) and twist (T) were calculated from E and I according to Eqs. 1 and 2.