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MGD

Bonds
First atomSecond atomBond order typeDistance
(experimental model)
Distance
(ideal model)
Properties
PBO1Bdoub1.48Å1.48Å
PBO2Bsing1.61Å1.50Å
PBO3Bsing1.61Å1.62Å
PBO5'sing1.61Å1.64Å
O2BHOB2sing0.97Å0.95Å
O3BPAsing1.61Å1.57Å
O3APAsing1.61Å1.63Å
O3AC10sing1.43Å1.42Å
PAO1Adoub1.48Å1.47Å
PAO2Asing1.61Å1.51Å
O2AHOA2sing0.97Å0.95Å
O5'C5'sing1.43Å1.43Å
C5'C4'sing1.53Å1.52Å
C5'H5'1sing1.09Å1.12Å
C5'H5'2sing1.09Å1.11Å
C4'O4'sing1.44Å1.41Å
C4'C3'sing1.54Å1.53Å
C4'H4'sing1.09Å1.11Å
O4'C1'sing1.44Å1.43Å
C3'O3'sing1.43Å1.44Å
C3'C2'sing1.55Å1.58Å
C3'H3'sing1.09Å1.12Å
O3'HO3'sing0.97Å0.95Å
C2'O2'sing1.43Å1.44Å
C2'C1'sing1.55Å1.52Å
C2'H2'sing1.09Å1.12Å
O2'HO2'sing0.97Å0.95Å
C1'N9sing1.46Å1.48Å
C1'H1'sing1.09Å1.11Å
N9C8sing1.36Å1.38ÅAromatic
N9C4sing1.37Å1.38ÅAromatic
C8N7doub1.30Å1.30ÅAromatic
C8H8sing1.08Å1.10Å
N7C5sing1.36Å1.39ÅAromatic
C5C6sing1.41Å1.41Å
C5C4doub1.40Å1.35ÅAromatic
C6O6doub1.22Å1.23Å
C6N1sing1.35Å1.38Å
N1C2sing1.36Å1.38Å
N1HN1sing0.97Å1.02Å
C2N2sing1.37Å1.31Å
C2N3doub1.31Å1.32Å
N2HN21sing0.97Å1.02Å
N2HN22sing0.97Å1.02Å
N3C4sing1.34Å1.35Å
C10C11sing1.53Å1.53Å
C10H101sing1.09Å1.12Å
C10H102sing1.09Å1.11Å
C11O11sing1.43Å1.41Å
C11C12sing1.50Å1.50Å
C11H11sing1.09Å1.11Å
O11C23sing1.43Å1.40Å
C12S12sing1.76Å1.77Å
C12C13doub1.34Å1.40Å
S12H12sing1.35Å0.95Å
C13S13sing1.76Å1.76Å
C13C14sing1.51Å1.51Å
S13H13sing1.34Å0.95Å
C14N15sing1.47Å1.45Å
C14C23sing1.53Å1.49Å
C14H14sing1.09Å1.12Å
N15C16sing1.41Å1.37Å
N15H15sing0.97Å1.02Å
C16C17sing1.40Å1.42Å
C16C21doub1.39Å1.40Å
C17O17doub1.22Å1.25Å
C17N18sing1.35Å1.38Å
N18C19sing1.36Å1.37Å
N18H18sing0.97Å1.02Å
C19N19sing1.37Å1.31Å
C19N20doub1.32Å1.31Å
N19H191sing0.97Å1.02Å
N19H192sing0.97Å1.02Å
N20C21sing1.34Å1.35Å
C21N22sing1.39Å1.36Å
N22C23sing1.47Å1.44Å
N22H22sing0.97Å1.02Å
C23H23sing1.09Å1.11Å
Angles
First atomSecond atomThird atomAngle
(experimental model)
Angle
(ideal model)
O1BPBO2B119.4°109.4°
O1BPBO3B115.4°109.5°
O1BPBO5'108.9°109.5°
O2BPBO3B103.8°109.5°
O2BPBO5'113.2°109.4°
PBO2BHOB2119.5°106.8°
O3BPBO5'92.9°109.4°
PBO3BPA137.1°106.8°
PBO5'C5'119.2°106.8°
O3BPAO3A95.1°109.5°
O3BPAO1A109.3°109.5°
O3BPAO2A111.5°109.5°
PAO3AC10127.1°106.9°
O3APAO1A111.0°109.4°
O3APAO2A108.1°109.5°
O3AC10C11104.5°109.5°
O3AC10H101114.1°109.5°
O3AC10H102114.1°109.5°
O1APAO2A119.2°109.5°
PAO2AHOA2111.5°106.8°
O5'C5'C4'115.3°109.5°
O5'C5'H5'1110.0°109.5°
O5'C5'H5'2110.1°109.5°
C4'C5'H5'1110.1°109.4°
C4'C5'H5'2110.1°109.4°
C5'C4'O4'111.1°109.9°
C5'C4'C3'113.6°109.9°
C5'C4'H4'104.3°109.9°
H5'1C5'H5'2100.2°109.5°
O4'C4'C3'105.9°107.5°
O4'C4'H4'112.3°109.9°
C4'O4'C1'107.4°106.9°
C3'C4'H4'109.8°109.8°
C4'C3'O3'106.2°110.8°
C4'C3'C2'104.4°104.0°
C4'C3'H3'115.5°110.4°
O4'C1'C2'103.5°103.5°
O4'C1'N9110.5°110.6°
O4'C1'H1'114.1°110.6°
O3'C3'C2'111.9°110.5°
O3'C3'H3'108.5°110.4°
C3'O3'HO3'106.2°106.8°
C2'C3'H3'110.2°110.5°
C3'C2'O2'111.6°110.9°
C3'C2'C1'100.4°102.1°
C3'C2'H2'113.6°111.0°
O2'C2'C1'108.4°110.9°
O2'C2'H2'106.2°110.8°
C2'O2'HO2'111.7°106.8°
C1'C2'H2'116.6°110.9°
C2'C1'N9113.4°110.8°
C2'C1'H1'111.2°110.6°
N9C1'H1'104.4°110.5°
C1'N9C8128.1°126.3°
C1'N9C4126.8°126.3°
C8N9C4105.0°107.4°
N9C8N7113.1°109.8°
N9C8H8125.8°125.1°
N9C4C5106.6°106.2°
N9C4N3127.5°134.2°
N7C8H8121.1°125.1°
C8N7C5104.5°109.3°
N7C5C6130.7°134.2°
N7C5C4110.7°107.2°
C6C5C4118.6°118.6°
C5C6O6121.6°120.8°
C5C6N1115.0°118.4°
C5C4N3125.9°119.6°
O6C6N1123.1°120.8°
C6N1C2122.3°120.3°
C6N1HN1119.1°119.9°
C2N1HN1118.6°119.8°
N1C2N2119.5°119.1°
N1C2N3122.3°121.9°
N2C2N3118.2°119.0°
C2N2HN21119.5°120.0°
C2N2HN22108.6°119.9°
C2N3C4115.9°121.1°
HN21N2HN22108.6°120.0°
C11C10H101114.1°109.4°
C11C10H102114.1°109.5°
C10C11O11111.8°109.0°
C10C11C12109.9°108.9°
C10C11H11108.4°109.0°
H101C10H10296.4°109.5°
O11C11C12111.7°111.8°
O11C11H11106.4°109.0°
C11O11C23113.0°106.8°
C12C11H11108.5°109.0°
C11C12S12117.9°119.1°
C11C12C13121.7°122.2°
O11C23C14112.4°107.9°
O11C23N22108.3°109.2°
O11C23H23108.7°110.4°
S12C12C13120.4°118.7°
C12S12H12117.8°100.0°
C12C13S13120.8°119.6°
C12C13C14119.8°119.5°
S13C13C14119.4°120.9°
C13S13H13120.8°100.1°
C13C14N15106.4°108.9°
C13C14C23108.7°108.9°
C13C14H14113.1°110.3°
N15C14C23112.8°107.9°
N15C14H14109.1°110.3°
C14N15C16115.3°119.0°
C14N15H15110.1°120.6°
C23C14H14106.8°110.4°
C14C23N22110.5°108.6°
C14C23H23106.4°110.4°
C16N15H15110.0°120.4°
N15C16C17118.9°121.0°
N15C16C21121.3°120.0°
C17C16C21119.8°119.0°
C16C17O17121.8°120.7°
C16C17N18116.1°118.6°
C16C21N20119.7°119.7°
C16C21N22122.0°119.6°
O17C17N18122.1°120.7°
C17N18C19121.5°120.2°
C17N18H18119.7°120.0°
C19N18H18118.8°119.9°
N18C19N19119.7°119.2°
N18C19N20121.6°121.6°
N19C19N20118.7°119.2°
C19N19H191119.7°120.0°
C19N19H192108.5°120.0°
C19N20C21121.4°120.9°
H191N19H192108.5°120.0°
N20C21N22118.2°120.7°
C21N22C23115.6°119.5°
C21N22H22110.0°120.3°
C23N22H22110.0°120.2°
N22C23H23110.6°110.3°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)
Torsion
(ideal model)
O1BPBO2BO3B130.3°120.0°
O1BPBO2BO5'130.4°120.0°
O1BPBO3BO5'112.6°120.0°
O1BPBO2BHOB2180.0°180.0°
O1BPBO3BPA3.7°60.0°
O1BPBO5'C5'54.0°60.0°
O2BPBO3BO5'114.8°120.0°
O2BPBO3BPA136.4°60.0°
O2BPBO5'C5'170.5°60.0°
O3BPBO2BHOB249.7°59.9°
PBO3BPAO3A82.9°180.0°
PBO3BPAO1A162.8°60.0°
PBO3BPAO2A28.9°60.0°
O3BPBO5'C5'64.1°180.0°
O5'PBO2BHOB249.6°60.0°
O5'PBO3BPA108.9°180.0°
PBO5'C5'C4'137.2°180.0°
PBO5'C5'H5'111.9°60.0°
PBO5'C5'H5'297.5°60.0°
O3BPAO3AO1A112.9°120.0°
O3BPAO3AO2A114.6°120.0°
O3BPAO3AC1068.6°180.0°
O3BPAO1AO2A129.9°120.0°
O3BPAO2AHOA2180.0°60.0°
O3APAO1AO2A126.6°120.0°
O3APAO2AHOA276.7°60.0°
PAO3AC10C11131.8°180.0°
PAO3AC10H101103.0°60.0°
PAO3AC10H1026.5°60.0°
C10O3APAO1A44.3°60.0°
C10O3APAO2A176.8°60.0°
O3AC10C11H101125.2°120.0°
O3AC10C11H102125.3°120.1°
O3AC10H101H102120.0°120.0°
O3AC10C11O1155.3°60.0°
O3AC10C11C12180.0°177.7°
O3AC10C11H1161.6°58.9°
O1APAO2AHOA251.2°180.0°
O5'C5'C4'H5'1125.2°120.0°
O5'C5'C4'H5'2125.3°120.0°
O5'C5'H5'1H5'2115.9°120.0°
O5'C5'C4'O4'73.1°61.7°
O5'C5'C4'C3'46.1°179.7°
O5'C5'C4'H4'165.6°59.3°
C4'C5'H5'1H5'2115.9°120.0°
C5'C4'O4'C3'123.8°119.6°
C5'C4'O4'H4'116.5°121.0°
C5'C4'C3'H4'116.4°121.0°
C5'C4'O4'C1'155.0°146.0°
C5'C4'C3'O3'113.5°119.9°
C5'C4'C3'C2'128.1°121.4°
C5'C4'C3'H3'6.8°2.8°
H5'1C5'C4'O4'161.7°58.3°
H5'1C5'C4'C3'79.1°59.7°
H5'1C5'C4'H4'40.4°179.3°
H5'2C5'C4'O4'52.1°178.3°
H5'2C5'C4'C3'171.4°60.3°
H5'2C5'C4'H4'69.1°60.7°
O4'C4'C3'H4'121.5°119.5°
O4'C4'C3'O3'124.3°120.6°
O4'C4'C3'C2'5.9°1.9°
O4'C4'C3'H3'115.3°116.7°
C4'O4'C1'C2'44.6°40.0°
C4'O4'C1'N9166.3°158.7°
C4'O4'C1'H1'76.5°78.5°
C3'C4'O4'C1'31.2°26.4°
C4'C3'O3'C2'113.3°114.8°
C4'C3'O3'H3'124.8°122.7°
C4'C3'C2'H3'124.7°118.5°
C4'C3'O3'HO3'180.0°176.2°
C4'C3'C2'O2'133.8°139.2°
C4'C3'C2'C1'19.0°21.0°
C4'C3'C2'H2'106.2°97.2°
H4'C4'O4'C1'88.6°93.1°
H4'C4'C3'O3'2.8°1.1°
H4'C4'C3'C2'115.5°117.6°
H4'C4'C3'H3'123.2°123.8°
O4'C1'C2'C3'37.5°37.1°
O4'C1'C2'O2'154.7°155.3°
O4'C1'C2'N9119.8°118.6°
O4'C1'C2'H1'122.9°118.5°
O4'C1'C2'H2'85.6°81.2°
O4'C1'N9H1'123.1°122.8°
O4'C1'N9C891.7°28.6°
O4'C1'N9C484.7°151.8°
O3'C3'C2'H3'120.9°122.5°
O3'C3'C2'O2'19.3°20.2°
O3'C3'C2'C1'95.4°98.0°
O3'C3'C2'H2'139.4°143.8°
C2'C3'O3'HO3'66.7°61.4°
C3'C2'O2'C1'109.7°112.7°
C3'C2'O2'H2'124.3°123.8°
C3'C2'C1'H2'123.1°118.3°
C3'C2'O2'HO2'180.0°67.3°
C3'C2'C1'N9157.3°155.7°
C3'C2'C1'H1'85.4°81.4°
H3'C3'O3'HO3'55.2°61.1°
H3'C3'C2'O2'101.5°102.3°
H3'C3'C2'C1'143.7°139.6°
H3'C3'C2'H2'18.5°21.4°
O2'C2'C1'H2'119.7°123.5°
O2'C2'C1'N985.6°86.1°
O2'C2'C1'H1'31.7°36.8°
C1'C2'O2'HO2'70.4°180.0°
C2'C1'N9H1'121.2°123.0°
C2'C1'N9C824.0°85.6°
C2'C1'N9C4159.6°94.1°
H2'C2'O2'HO2'55.7°56.4°
H2'C2'C1'N934.2°37.4°
H2'C2'C1'H1'151.5°160.3°
C1'N9C8C4177.0°179.7°
C1'N9C8N7176.8°179.9°
C1'N9C8H83.2°0.0°
C1'N9C4C5177.4°179.9°
C1'N9C4N32.5°0.8°
H1'C1'N9C8145.2°151.4°
H1'C1'N9C438.4°28.9°
N9C8N7H8180.0°180.0°
N9C8N7C50.6°0.0°
C8N9C4C50.3°0.4°
C8N9C4N3179.6°179.5°
C4N9C8N70.2°0.3°
C4N9C8H8179.8°179.7°
N9C4C5N70.7°0.4°
N9C4C5C6179.3°179.8°
N9C4C5N3179.9°179.2°
N9C4N3C2179.9°179.6°
C8N7C5C6179.2°179.9°
C8N7C5C40.8°0.3°
H8C8N7C5179.4°180.0°
N7C5C6C4180.0°179.6°
N7C5C6O67.2°0.1°
N7C5C6N1179.0°180.0°
N7C5C4N3179.2°179.7°
C5C6O6N1173.2°179.9°
C5C6N1C20.5°0.1°
C5C6N1HN1179.5°179.9°
C6C5C4N30.8°0.6°
C4C5C6O6172.8°179.7°
C4C5C6N11.0°0.4°
C5C4N3C20.0°0.6°
O6C6N1C2173.2°180.0°
O6C6N1HN16.8°0.0°
C6N1C2HN1180.0°179.9°
C6N1C2N2179.8°180.0°
C6N1C2N30.3°0.1°
N1C2N2N3179.9°179.8°
N1C2N2HN21180.0°180.0°
N1C2N2HN2254.8°0.2°
N1C2N3C40.5°0.4°
HN1N1C2N20.2°0.1°
HN1N1C2N3179.7°179.9°
C2N2HN21HN22125.2°179.9°
N2C2N3C4179.6°179.8°
N3C2N2HN210.1°0.1°
N3C2N2HN22125.1°180.0°
C11C10H101H102120.0°119.9°
C10C11O11C12123.6°120.4°
C10C11O11H11118.1°118.9°
C10C11C12H11118.3°118.8°
C10C11O11C23170.1°175.0°
C10C11C12S1243.0°41.7°
C10C11C12C13138.0°138.5°
H101C10C11O1169.9°180.0°
H101C10C11C1254.7°57.8°
H101C10C11H11173.2°61.1°
H102C10C11O11179.3°60.0°
H102C10C11C1254.7°62.2°
H102C10C11H1163.7°178.9°
O11C11C12H11117.0°120.7°
O11C11C12S12167.7°162.2°
O11C11C12C1313.3°18.0°
C11O11C23C1469.0°75.2°
C11O11C23N22168.7°166.9°
C11O11C23H2348.5°45.5°
C12C11O11C2346.5°54.6°
C11C12S12C13179.0°179.9°
C11C12S12H12180.0°174.8°
C11C12C13S13179.0°179.9°
C11C12C13C140.5°0.4°
H11C11O11C2371.7°66.1°
H11C11C12S1275.3°77.2°
H11C11C12C13103.6°102.7°
O11C23C14C1350.9°55.4°
O11C23C14N1566.9°62.7°
O11C23C14N22121.0°118.3°
O11C23C14H23118.8°120.7°
O11C23C14H14173.3°176.7°
O11C23N22C2180.2°71.8°
O11C23N22H23119.0°121.6°
O11C23N22H22154.6°108.1°
S12C12C13S130.0°0.1°
S12C12C13C14179.4°179.8°
C13C12S12H121.0°5.1°
C12C13S13C14179.5°179.7°
C12C13S13H13180.0°125.0°
C12C13C14N15103.7°99.1°
C12C13C14C2318.0°18.4°
C12C13C14H14136.5°139.7°
S13C13C14N1576.8°80.7°
S13C13C14C23161.5°161.9°
S13C13C14H1442.9°40.6°
C14C13S13H130.6°55.3°
C13C14N15C23119.1°118.1°
C13C14N15H14122.3°121.2°
C13C14C23H14122.4°121.3°
C13C14N15C16159.4°161.6°
C13C14N15H1575.4°18.5°
C13C14C23N22171.9°173.7°
C13C14C23H2368.0°65.3°
N15C14C23H14119.8°120.6°
C14N15C16H15125.3°179.9°
C14N15C16C17166.5°164.3°
C14N15C16C2115.3°15.9°
N15C14C23N2254.2°55.6°
N15C14C23H23174.3°176.6°
C23C14N15C1640.3°43.5°
C23C14N15H15165.5°136.6°
C14C23N22C2143.3°45.6°
C14C23N22H23117.5°121.0°
C14C23N22H2281.9°134.5°
H14C14N15C1678.2°77.2°
H14C14N15H1547.0°102.7°
H14C14C23N2265.7°65.1°
H14C14C23H2354.5°55.9°
N15C16C17C21178.2°179.9°
N15C16C17O171.1°0.2°
N15C16C17N18179.1°180.0°
N15C16C21N20178.6°179.7°
N15C16C21N224.3°0.6°
H15N15C16C1741.3°15.6°
H15N15C16C21140.6°164.2°
C16C17O17N18177.9°179.8°
C16C17N18C190.9°0.5°
C16C17N18H18179.1°179.9°
C17C16C21N200.4°0.2°
C17C16C21N22177.5°179.6°
C21C16C17O17177.1°179.9°
C21C16C17N180.9°0.1°
C16C21N20C190.2°0.1°
C16C21N20N22177.2°179.8°
C16C21N22C2319.5°17.5°
C16C21N22H22105.8°162.6°
O17C17N18C19177.1°179.7°
O17C17N18H182.9°0.1°
C17N18C19H18180.0°179.6°
C17N18C19N19179.4°179.6°
C17N18C19N200.4°0.6°
N18C19N19N20179.8°179.8°
N18C19N19H191180.0°179.8°
N18C19N19H19254.7°0.5°
N18C19N20C210.2°0.3°
H18N18C19N190.7°0.0°
H18N18C19N20179.6°179.8°
C19N19H191H192125.3°179.7°
N19C19N20C21179.9°180.0°
N20C19N19H1910.3°0.0°
N20C19N19H192125.5°179.7°
C19N20C21N22177.1°179.7°
N20C21N22C23163.4°162.7°
N20C21N22H2271.4°17.1°
C21N22C23H22125.2°179.8°
C21N22C23H23160.8°166.7°
H22N22C23H2335.6°13.5°

248942

PDB entries from 2026-02-11

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