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ZOD

Bonds
First atomSecond atomBond order typeDistance
(experimental model)
Distance
(ideal model)
Properties
O2BPBdoub1.48Å1.49Å
O1BPBsing1.61Å1.61Å
O1BC10sing1.43Å1.44Å
O3BPBsing1.61Å1.50Å
O3'C3'sing1.43Å1.39Å
PBO3Asing1.61Å1.57Å
C3'C4'sing1.54Å1.51Å
C3'C2'sing1.55Å1.49Å
C10C09sing1.53Å1.55Å
C5'O5'sing1.43Å1.41Å
C5'C4'sing1.53Å1.53Å
C09O08sing1.45Å1.46Å
C09C38sing1.55Å1.50Å
O1APAdoub1.48Å1.53Å
O3APAsing1.61Å1.63Å
O2'C2'sing1.43Å1.43Å
O5'PAsing1.61Å1.62Å
C4'O4'sing1.44Å1.45Å
O08C06sing1.44Å1.45Å
O39C38sing1.43Å1.42Å
C2'C1'sing1.55Å1.50Å
PAO2Asing1.61Å1.59Å
C38C05sing1.55Å1.49Å
C06C05sing1.54Å1.50Å
C06O07sing1.43Å1.42Å
O4'C1'sing1.44Å1.44Å
C1'N9sing1.46Å1.43Å
C05O04sing1.45Å1.41Å
C01C02sing1.51Å1.48Å
N9C8sing1.36Å1.35ÅAromatic
N9C4sing1.37Å1.39ÅAromatic
O04C02sing1.34Å1.39Å
C02O03doub1.21Å1.24Å
C8N7doub1.30Å1.36ÅAromatic
C4N3sing1.33Å1.39ÅAromatic
C4C5doub1.41Å1.38ÅAromatic
N3C2doub1.32Å1.37ÅAromatic
N7C5sing1.35Å1.40ÅAromatic
C5C6sing1.41Å1.45ÅAromatic
C2N1sing1.32Å1.34ÅAromatic
N1C6doub1.33Å1.36ÅAromatic
C6N6sing1.38Å1.47Å
C01H1sing1.09Å1.10Å
C01H10sing1.09Å1.10Å
C01H3sing1.09Å1.10Å
C05H4sing1.09Å1.10Å
C06H5sing1.09Å1.10Å
O07H6sing0.97Å0.95Å
C09H7sing1.09Å1.10Å
C10H11sing1.09Å1.10Å
C10H9sing1.09Å1.10Å
O3BHOB3sing0.97Å0.95Å
O2AHOA2sing0.97Å0.95Å
C5'H5'1sing1.09Å1.10Å
C5'H5'2sing1.09Å1.10Å
C4'H4'sing1.09Å1.10Å
C1'H1'sing1.09Å1.10Å
C8H8sing1.08Å1.08Å
N6HN61sing0.97Å1.00Å
N6HN62sing0.97Å1.00Å
C2H2sing1.08Å1.08Å
C2'H2'sing1.09Å1.10Å
O2'HO2'sing0.97Å0.95Å
C3'H3'sing1.09Å1.10Å
O3'HO3'sing0.97Å0.95Å
C38H24sing1.09Å1.10Å
O39H25sing0.97Å0.95Å
Angles
First atomSecond atomThird atomAngle
(experimental model)
Angle
(ideal model)
O2BPBO1B108.5°109.5°
O2BPBO3B108.6°109.4°
O2BPBO3A105.7°109.5°
PBO1BC10116.9°123.0°
O1BPBO3B113.5°109.5°
O1BPBO3A112.8°109.5°
O1BC10C09107.4°109.5°
O1BC10H11110.0°109.5°
O1BC10H9110.0°109.5°
O3BPBO3A107.4°109.5°
PBO3BHOB3109.5°114.0°
O3'C3'C4'107.6°110.5°
O3'C3'C2'114.1°110.5°
O3'C3'H3'110.5°110.5°
C3'O3'HO3'109.5°114.0°
PBO3APA133.7°134.0°
C4'C3'C2'106.6°104.2°
C3'C4'C5'105.5°109.9°
C3'C4'O4'107.2°107.3°
C3'C4'H4'109.9°110.0°
C4'C3'H3'108.7°110.5°
C3'C2'O2'109.7°110.9°
C3'C2'C1'103.1°102.1°
C3'C2'H2'110.5°110.9°
C2'C3'H3'109.1°110.5°
C10C09O08109.3°110.4°
C10C09C38109.7°110.3°
C10C09H7110.0°110.4°
C09C10H11110.0°109.4°
C09C10H9110.0°109.5°
O5'C5'C4'108.9°109.5°
C5'O5'PA116.3°123.0°
O5'C5'H5'1109.6°109.5°
O5'C5'H5'2109.6°109.4°
C5'C4'O4'113.6°109.9°
C4'C5'H5'1109.6°109.5°
C4'C5'H5'2109.6°109.4°
C5'C4'H4'109.7°109.9°
O08C09C38105.7°104.8°
C09O08C06108.8°105.3°
O08C09H7111.3°110.4°
C09C38O39109.2°110.5°
C09C38C05100.3°103.9°
C38C09H7110.7°110.4°
C09C38H24109.7°110.5°
O1APAO3A111.2°109.5°
O1APAO5'107.9°109.5°
O1APAO2A111.4°109.5°
O3APAO5'106.5°109.5°
O3APAO2A108.6°109.5°
O2'C2'C1'111.7°110.9°
O2'C2'H2'111.3°110.8°
C2'O2'HO2'109.5°114.0°
O5'PAO2A111.1°109.5°
C4'O4'C1'104.0°107.0°
O4'C4'H4'110.8°109.9°
O08C06C05100.8°104.8°
O08C06O07108.5°110.3°
O08C06H5112.2°110.5°
O39C38C05116.3°110.5°
O39C38H24110.9°110.6°
C38O39H25109.5°114.0°
C2'C1'O4'107.7°103.5°
C2'C1'N9123.6°110.6°
C2'C1'H1'107.1°110.7°
C1'C2'H2'110.3°110.9°
PAO2AHOA2109.5°114.0°
C38C05C06102.9°104.2°
C38C05O04111.0°110.5°
C38C05H4107.9°110.5°
C05C38H24109.9°110.7°
C05C06O07110.5°110.3°
C06C05O04117.8°110.5°
C06C05H4107.8°110.6°
C05C06H5111.4°110.4°
O07C06H5112.7°110.4°
C06O07H6109.5°113.9°
O4'C1'N9101.6°110.6°
O4'C1'H1'107.8°110.6°
C1'N9C8131.5°126.3°
C1'N9C4119.4°126.3°
N9C1'H1'108.0°110.6°
C05O04C02116.3°117.0°
O04C05H4109.0°110.5°
C01C02O04113.9°120.0°
C01C02O03129.7°120.0°
C02C01H1109.5°109.4°
C02C01H10109.5°109.5°
C02C01H3109.5°109.5°
C8N9C4109.1°107.5°
N9C8N7108.7°109.9°
N9C8H8125.6°125.0°
N9C4N3131.5°134.9°
N9C4C5106.8°106.0°
O04C02O03116.2°120.0°
C8N7C5108.1°109.5°
N7C8H8125.6°125.0°
N3C4C5121.7°119.1°
C4N3C2117.8°120.7°
C4C5N7107.3°107.1°
C4C5C6117.3°118.2°
N3C2N1123.5°122.4°
N3C2H2118.3°118.8°
N7C5C6135.4°134.7°
C5C6N1119.7°118.4°
C5C6N6120.2°120.8°
C2N1C6120.1°121.2°
N1C2H2118.3°118.8°
N1C6N6120.1°120.8°
C6N6HN61109.5°120.0°
C6N6HN62109.5°120.0°
H1C01H10109.4°109.5°
H1C01H3109.5°109.5°
H10C01H3109.5°109.5°
H11C10H9109.5°109.5°
H5'1C5'H5'2109.5°109.5°
HN61N6HN62109.5°120.0°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)
Torsion
(ideal model)
O2BPBO1BO3B120.8°120.0°
O2BPBO1BO3A116.8°120.0°
O2BPBO1BC10170.6°55.0°
O2BPBO3BO3A113.9°120.0°
O2BPBO3APA52.6°45.0°
O2BPBO3BHOB30.0°180.0°
O1BPBO3BO3A125.4°120.0°
PBO1BC10C09145.7°180.0°
O1BPBO3APA65.8°165.0°
PBO1BC10H1126.0°60.0°
PBO1BC10H994.7°60.0°
O1BPBO3BHOB3120.7°60.0°
C10O1BPBO3B68.7°65.0°
C10O1BPBO3A53.8°175.0°
O1BC10C09H11119.6°120.0°
O1BC10C09H9119.7°120.0°
O1BC10C09O0873.6°66.5°
O1BC10C09C38170.9°178.2°
O1BC10C09H748.9°55.9°
O1BC10H11H9121.0°120.0°
O3BPBO3APA168.4°75.0°
O3'C3'C4'C2'122.8°118.7°
O3'C3'C4'H3'119.7°122.7°
O3'C3'C2'H3'124.1°122.6°
O3'C3'C4'C5'108.1°119.9°
O3'C3'C2'O2'13.1°20.4°
O3'C3'C4'O4'130.5°120.7°
O3'C3'C2'C1'105.9°97.8°
O3'C3'C4'H4'10.1°1.3°
O3'C3'C2'H2'136.2°144.0°
PBO3APAO1A17.0°45.0°
PBO3APAO5'100.3°165.0°
PBO3APAO2A140.0°75.0°
O3APBO3BHOB3113.9°60.0°
C4'C3'C2'H3'117.3°118.7°
C3'C4'C5'O5'67.1°175.7°
C3'C4'C5'O4'117.1°117.8°
C3'C4'C5'H4'118.3°121.2°
C4'C3'C2'O2'131.7°139.1°
C3'C4'O4'H4'119.9°119.5°
C4'C3'C2'C1'12.6°20.9°
C3'C4'O4'C1'25.8°26.5°
C3'C4'C5'H5'152.8°64.3°
C3'C4'C5'H5'2172.9°55.8°
C4'C3'C2'H2'105.2°97.3°
C4'C3'O3'HO3'180.0°180.0°
C2'C3'C4'C5'129.1°121.4°
C3'C2'O2'C1'113.7°112.8°
C3'C2'O2'H2'122.6°123.7°
C2'C3'C4'O4'7.7°2.0°
C3'C2'C1'H2'118.0°118.2°
C3'C2'C1'O4'29.6°37.0°
C3'C2'C1'N9147.4°155.5°
C2'C3'C4'H4'112.7°117.4°
C3'C2'C1'H1'86.2°81.5°
C3'C2'O2'HO2'180.0°67.3°
C2'C3'O3'HO3'62.0°65.2°
C10C09O08C38118.1°118.8°
C10C09O08H7121.7°122.4°
C10C09C38H7121.6°122.4°
C10C09O08C06117.9°159.4°
C10C09C38O39146.8°98.6°
C10C09C38C0590.6°142.9°
C09C10H11H9121.0°120.0°
C10C09C38H2425.0°24.1°
O5'C5'C4'H5'1119.9°120.0°
O5'C5'C4'H5'2119.9°119.9°
C5'O5'PAO1A129.9°55.1°
C5'O5'PAO3A10.5°175.0°
O5'C5'C4'O4'50.0°66.5°
C5'O5'PAO2A107.6°65.0°
O5'C5'H5'1H5'2120.3°120.0°
O5'C5'C4'H4'174.6°54.5°
C4'C5'O5'PA150.2°180.0°
C5'C4'O4'H4'124.0°121.1°
C5'C4'O4'C1'141.9°145.9°
C4'C5'H5'1H5'2120.3°120.0°
C5'C4'C3'H3'11.6°2.8°
O08C09C38H7120.7°118.8°
O08C09C38O3995.5°142.6°
O08C09C38C0527.2°24.1°
C09O08C06C0526.8°40.5°
C09O08C06O07142.9°159.3°
C09O08C06H591.9°78.4°
O08C09C10H1146.0°173.6°
O08C09C10H9166.7°53.6°
O08C09C38H24142.8°94.7°
C38C09O08C060.2°40.6°
C09C38O39C05112.5°114.5°
C09C38O39H24121.0°122.6°
C09C38C05H24115.5°118.6°
C09C38C05C0643.9°0.1°
C09C38C05O04170.9°118.6°
C09C38C05H469.8°118.8°
C38C09C10H1169.5°58.2°
C38C09C10H951.2°61.8°
C09C38O39H25180.0°180.0°
O1APAO3AO5'117.3°120.0°
O1APAO3AO2A122.9°120.0°
O1APAO5'O2A122.5°120.0°
O1APAO2AHOA20.0°180.0°
O3APAO5'O2A118.1°120.0°
O3APAO2AHOA2122.8°60.0°
O2'C2'C1'H2'124.3°123.5°
O2'C2'C1'O4'147.3°155.2°
O2'C2'C1'N994.9°86.2°
O2'C2'C1'H1'31.5°36.7°
O2'C2'C3'H3'111.0°102.2°
O5'PAO2AHOA2120.4°60.0°
PAO5'C5'H5'189.9°59.9°
PAO5'C5'H5'230.3°60.1°
C4'O4'C1'C2'34.7°40.0°
C4'O4'C1'N9166.0°158.5°
O4'C4'C5'H5'1169.9°53.5°
O4'C4'C5'H5'270.0°173.6°
C4'O4'C1'H1'80.6°78.6°
O4'C4'C3'H3'109.8°116.6°
O08C06C05C3844.2°24.0°
O08C06C05O07114.6°118.8°
O08C06C05H5119.3°119.0°
O08C06O07H5124.9°122.4°
O08C06C05O04166.6°142.6°
O08C06C05H469.7°94.7°
O08C06O07H6180.0°64.7°
C06O08C09H7120.4°78.3°
O39C38C05H24127.1°122.8°
O39C38C05C0673.5°118.6°
O39C38C05O0453.4°0.0°
O39C38C05H4172.7°122.6°
O39C38C09H725.2°23.8°
C2'C1'O4'N9131.2°118.5°
C2'C1'O4'H1'115.3°118.6°
C2'C1'N9H1'126.0°123.0°
C2'C1'N9C837.0°90.5°
C2'C1'N9C4142.9°89.2°
C1'C2'O2'HO2'66.4°180.0°
C1'C2'C3'H3'129.9°139.5°
C38C05C06O04122.5°118.7°
C38C05C06H4113.8°118.7°
C38C05C06O07158.8°142.7°
C38C05O04H4118.6°122.6°
C38C05O04C0280.9°151.9°
C38C05C06H575.1°95.0°
C05C38C09H7147.9°94.8°
C05C38O39H2567.5°65.5°
C05C06O07H5125.4°122.2°
C06C05O04H4123.1°122.7°
C06C05O04C0237.4°93.3°
C05C06O07H670.3°180.0°
C06C05C38H24159.4°118.5°
O07C06C05O0478.8°98.6°
O07C06C05H444.9°24.0°
O4'C1'N9H1'113.3°122.9°
O4'C1'N9C883.7°23.5°
O4'C1'N9C496.4°156.8°
C1'O4'C4'H4'94.1°93.0°
O4'C1'C2'H2'88.4°81.2°
C1'N9C8C4179.9°179.7°
C1'N9C8N7179.8°180.0°
C1'N9C4N30.7°0.9°
C1'N9C4C5179.8°179.8°
C1'N9C8H80.1°0.0°
N9C1'C2'H2'29.4°37.3°
C05O04C02C01107.1°180.0°
C05O04C02O0376.7°0.0°
O04C05C06H547.4°23.6°
O04C05C38H2473.6°122.8°
C01C02O04O03176.2°180.0°
C02C01H1H10120.0°120.0°
C02C01H1H3120.0°120.0°
C02C01H10H3120.0°120.0°
N9C8N7H8180.0°180.0°
C8N9C4N3179.2°179.4°
C8N9C4C50.3°0.5°
N9C8N7C50.1°0.0°
C8N9C1'H1'163.0°146.5°
C4N9C8N70.3°0.3°
N9C4N3C5179.5°178.8°
N9C4N3C2179.4°179.5°
N9C4C5N70.3°0.5°
N9C4C5C6179.8°179.8°
C4N9C1'H1'16.9°33.9°
C4N9C8H8179.7°179.7°
O04C02C01H1175.5°180.0°
O04C02C01H1055.6°60.0°
O04C02C01H364.4°60.0°
C02O04C05H4160.5°29.3°
O03C02C01H10.0°0.0°
O03C02C01H10120.0°119.9°
O03C02C01H3120.0°120.0°
C8N7C5C40.1°0.3°
C8N7C5C6180.0°180.0°
N3C4C5N7179.3°179.6°
N3C4C5C60.6°0.7°
C4N3C2N10.1°0.3°
C4N3C2H2179.9°179.6°
C5C4N3C20.1°0.7°
C4C5N7C6179.9°179.7°
C4C5C6N11.3°0.3°
C4C5C6N6179.7°179.7°
N3C2N1H2180.0°180.0°
N3C2N1C60.7°0.0°
N7C5C6N1178.6°180.0°
N7C5C6N60.4°0.0°
C5N7C8H8179.9°180.0°
C5C6N1C21.3°0.0°
C5C6N1N6179.0°180.0°
C5C6N6HN61179.0°0.0°
C5C6N6HN6261.0°180.0°
C2N1C6N6179.7°180.0°
N1C6N6HN610.0°179.9°
N1C6N6HN62120.0°0.1°
C6N1C2H2179.3°180.0°
C6N6HN61HN62120.0°180.0°
H1C01H10H3120.0°120.0°
H4C05C06H5171.1°146.3°
H4C05C38H2445.7°0.2°
H5C06O07H655.1°57.7°
H7C09C10H11168.5°64.1°
H7C09C10H970.8°175.9°
H7C09C38H2496.5°146.5°
H5'1C5'C4'H4'65.5°174.5°
H5'2C5'C4'H4'54.6°65.4°
H4'C4'C3'H3'129.8°123.9°
H1'C1'C2'H2'155.8°160.2°
H2'C2'O2'HO2'57.4°56.4°
H2'C2'C3'H3'12.1°21.3°
H3'C3'O3'HO3'61.4°57.3°
H24C38O39H2559.0°57.3°

222415

PDB entries from 2024-07-10

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