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5J8

Bonds
First atomSecond atomBond order typeDistance
(experimental model)
Distance
(ideal model)
Properties
OP3P2'doub1.48Å1.56Å
OP2P2'sing1.61Å1.51Å
OP1P2'sing1.61Å1.54Å
P2'O2'sing1.61Å1.63Å
O2'C2'sing1.43Å1.42Å
C2'C3'sing1.55Å1.48Å
C2'C1'sing1.55Å1.49Å
OACPAAdoub1.48Å1.49Å
C2N1sing1.32Å1.32ÅAromatic
C2N3doub1.32Å1.34ÅAromatic
N1C6doub1.33Å1.36ÅAromatic
OAGPAEdoub1.48Å1.52Å
C3'O3'sing1.43Å1.43Å
C3'C4'sing1.54Å1.50Å
N3C4sing1.33Å1.34ÅAromatic
C6N6sing1.38Å1.44Å
C6C5sing1.41Å1.40ÅAromatic
OBVCBTdoub1.22Å1.23Å
CBSCBRsing1.50Å1.48Å
CBSCBNsing1.53Å1.49Å
CBRCBTsing1.41Å1.56Å
CBRCBQdoub1.34Å1.51Å
C4C5doub1.40Å1.42ÅAromatic
C4N9sing1.37Å1.38ÅAromatic
CBNCBOsing1.54Å1.51Å
C5N7sing1.35Å1.37ÅAromatic
CBTNBUsing1.35Å1.44Å
CBONBPsing1.47Å1.48Å
OBICBFsing1.43Å1.43Å
O5'PAEsing1.61Å1.59Å
O5'C5'sing1.43Å1.45Å
N9C1'sing1.47Å1.39Å
N9C8sing1.36Å1.35ÅAromatic
C1'O4'sing1.44Å1.44Å
N7C8doub1.30Å1.36ÅAromatic
NBPCBQsing1.37Å1.46Å
NBPCBMsing1.46Å1.41Å
PAEOADsing1.61Å1.61Å
PAEOAFsing1.61Å1.53Å
PAAOADsing1.61Å1.61Å
PAAOBLsing1.61Å1.59Å
PAAOABsing1.61Å1.48Å
CBFCBMsing1.54Å1.49Å
CBFCBEsing1.55Å1.46Å
C4'C5'sing1.53Å1.49Å
C4'O4'sing1.44Å1.46Å
OBLCBKsing1.43Å1.41Å
CBMOBGsing1.44Å1.46Å
CBEOBJsing1.43Å1.44Å
CBECBHsing1.54Å1.50Å
OBGCBHsing1.44Å1.42Å
CBKCBHsing1.53Å1.52Å
C8H1sing1.08Å1.08Å
NBUH2sing0.97Å1.00Å
NBUH3sing0.97Å1.00Å
CBQH5sing1.08Å1.08Å
CBSH7sing1.09Å1.10Å
CBSH8sing1.09Å1.10Å
CBNH9sing1.09Å1.10Å
CBOH10sing1.09Å1.10Å
CBMH11sing1.09Å1.10Å
CBFH12sing1.09Å1.10Å
OBIH13sing0.97Å0.95Å
CBEH14sing1.09Å1.10Å
OBJH15sing0.97Å0.95Å
CBHH16sing1.09Å1.10Å
CBKH17sing1.09Å1.10Å
CBKH18sing1.09Å1.10Å
OABH19sing0.97Å0.95Å
OAFH20sing0.97Å0.95Å
C5'H21sing1.09Å1.10Å
C5'H22sing1.09Å1.10Å
C4'H23sing1.09Å1.10Å
C3'H24sing1.09Å1.10Å
O3'H25sing0.97Å0.95Å
C2'H26sing1.09Å1.10Å
OP1H27sing0.97Å0.95Å
OP2H28sing0.97Å0.95Å
C1'H29sing1.09Å1.10Å
C2H30sing1.08Å1.08Å
N6H31sing0.97Å1.00Å
N6H32sing0.97Å1.00Å
CBNH4sing1.09Å1.10Å
CBOH6sing1.09Å1.10Å
Angles
First atomSecond atomThird atomAngle
(experimental model)
Angle
(ideal model)
OP3P2'OP2111.5°109.4°
OP3P2'OP1110.9°109.5°
OP3P2'O2'106.9°109.5°
OP2P2'OP1109.5°109.5°
OP2P2'O2'109.2°109.4°
P2'OP2H28109.5°114.0°
OP1P2'O2'108.7°109.5°
P2'OP1H27109.5°113.9°
P2'O2'C2'121.1°123.0°
O2'C2'C3'112.9°110.9°
O2'C2'C1'109.8°110.9°
O2'C2'H26112.3°110.8°
C3'C2'C1'98.3°102.1°
C2'C3'O3'108.3°110.5°
C2'C3'C4'103.8°104.2°
C2'C3'H24111.7°110.6°
C3'C2'H26111.4°110.9°
C2'C1'N9114.6°110.6°
C2'C1'O4'103.0°103.5°
C1'C2'H26111.3°110.9°
C2'C1'H29108.7°110.6°
OACPAAOAD111.3°109.5°
OACPAAOBL110.0°109.5°
OACPAAOAB111.2°109.5°
N1C2N3120.8°122.4°
C2N1C6122.5°121.2°
N1C2H30119.6°118.7°
C2N3C4121.2°120.7°
N3C2H30119.6°118.8°
N1C6N6121.2°120.8°
N1C6C5118.6°118.4°
OAGPAEO5'108.5°109.5°
OAGPAEOAD111.6°109.4°
OAGPAEOAF112.9°109.5°
O3'C3'C4'108.8°110.5°
O3'C3'H24112.5°110.4°
C3'O3'H25109.5°114.0°
C3'C4'C5'112.4°109.9°
C3'C4'O4'105.8°107.3°
C3'C4'H23109.7°110.0°
C4'C3'H24111.4°110.5°
N3C4C5119.7°119.1°
N3C4N9134.3°134.9°
N6C6C5120.2°120.8°
C6N6H31109.5°119.9°
C6N6H32109.4°120.0°
C6C5C4117.3°118.2°
C6C5N7135.0°134.7°
OBVCBTCBR123.0°120.0°
OBVCBTNBU121.4°119.9°
CBRCBSCBN113.1°110.1°
CBSCBRCBT112.4°118.8°
CBSCBRCBQ112.7°122.5°
CBRCBSH7108.5°109.3°
CBRCBSH8108.5°109.3°
CBSCBNCBO119.8°108.6°
CBNCBSH7108.5°109.4°
CBNCBSH8108.6°109.4°
CBSCBNH9106.8°109.6°
CBSCBNH4106.8°109.6°
CBTCBRCBQ109.1°118.7°
CBRCBTNBU115.5°120.0°
CBRCBQNBP109.1°121.7°
CBRCBQH5125.5°119.1°
C5C4N9106.0°106.0°
C4C5N7107.7°107.1°
C4N9C1'124.0°126.3°
C4N9C8108.7°107.4°
CBNCBONBP119.1°108.0°
CBOCBNH9106.8°109.7°
CBNCBOH10107.0°109.7°
CBOCBNH4106.8°109.6°
CBNCBOH6107.0°109.8°
C5N7C8107.5°109.5°
CBTNBUH2120.0°120.0°
CBTNBUH3120.0°119.9°
CBONBPCBQ113.0°119.1°
CBONBPCBM113.7°120.4°
NBPCBOH10107.0°109.6°
NBPCBOH6107.0°109.9°
OBICBFCBM113.4°110.6°
OBICBFCBE110.5°110.5°
OBICBFH12110.0°110.6°
CBFOBIH13109.5°114.0°
PAEO5'C5'118.2°123.0°
O5'PAEOAD105.8°109.5°
O5'PAEOAF109.0°109.5°
O5'C5'C4'108.0°109.4°
O5'C5'H21109.8°109.5°
O5'C5'H22109.8°109.4°
C1'N9C8127.3°126.2°
N9C1'O4'110.7°110.6°
N9C1'H29110.1°110.6°
N9C8N7110.1°109.9°
N9C8H1125.0°125.1°
C1'O4'C4'104.4°107.0°
O4'C1'H29109.5°110.6°
N7C8H1124.9°125.0°
CBQNBPCBM110.8°120.4°
NBPCBQH5125.5°119.1°
NBPCBMCBF113.4°110.4°
NBPCBMOBG111.3°110.4°
NBPCBMH11109.4°110.4°
OADPAEOAF108.8°109.5°
PAEOADPAA127.9°134.0°
PAEOAFH20109.5°114.0°
OADPAAOBL108.1°109.4°
OADPAAOAB105.4°109.5°
OBLPAAOAB110.7°109.5°
PAAOBLCBK121.6°123.0°
PAAOABH19109.5°114.0°
CBMCBFCBE104.0°104.0°
CBFCBMOBG105.4°104.8°
CBFCBMH11108.4°110.4°
CBMCBFH12109.2°110.5°
CBFCBEOBJ111.2°110.5°
CBFCBECBH104.8°104.1°
CBECBFH12109.6°110.5°
CBFCBEH14110.3°110.5°
C5'C4'O4'108.8°109.9°
C4'C5'H21109.8°109.5°
C4'C5'H22109.8°109.5°
C5'C4'H23109.8°109.9°
O4'C4'H23110.3°109.9°
OBLCBKCBH109.7°109.5°
OBLCBKH17109.4°109.5°
OBLCBKH18109.4°109.4°
CBMOBGCBH108.5°105.3°
OBGCBMH11108.7°110.4°
OBJCBECBH110.0°110.5°
OBJCBEH14110.5°110.5°
CBEOBJH15109.5°114.0°
CBECBHOBG107.0°104.8°
CBECBHCBK110.8°110.4°
CBHCBEH14109.8°110.7°
CBECBHH16108.8°110.4°
OBGCBHCBK111.6°110.4°
OBGCBHH16110.0°110.4°
CBKCBHH16108.6°110.4°
CBHCBKH17109.4°109.5°
CBHCBKH18109.4°109.5°
H2NBUH3120.0°120.1°
H7CBSH8109.5°109.3°
H9CBNH4109.5°109.8°
H10CBOH6109.5°109.9°
H17CBKH18109.5°109.5°
H21C5'H22109.5°109.5°
H31N6H32109.5°120.1°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)
Torsion
(ideal model)
OP3P2'OP2OP1123.1°120.0°
OP3P2'OP2O2'117.9°120.0°
OP3P2'OP1O2'117.3°120.1°
OP3P2'O2'C2'163.9°55.1°
OP3P2'OP1H270.0°180.0°
OP3P2'OP2H280.0°60.0°
OP2P2'OP1O2'119.3°120.0°
OP2P2'O2'C2'75.4°175.0°
OP2P2'OP1H27123.4°60.0°
OP1P2'O2'C2'44.1°65.0°
OP1P2'OP2H28123.1°60.0°
P2'O2'C2'C3'93.2°121.5°
P2'O2'C2'C1'158.2°125.8°
P2'O2'C2'H2633.8°2.2°
O2'P2'OP1H27117.3°60.0°
O2'P2'OP2H28117.9°180.0°
O2'C2'C3'C1'115.7°118.2°
O2'C2'C3'H26127.5°123.6°
O2'C2'C1'H26125.0°123.6°
O2'C2'C3'O3'40.3°20.4°
O2'C2'C3'C4'155.8°139.1°
O2'C2'C1'N972.0°86.3°
O2'C2'C1'O4'167.7°155.2°
O2'C2'C3'H2484.1°102.2°
O2'C2'C1'H2951.7°36.7°
C3'C2'C1'H26116.9°118.2°
C2'C3'O3'C4'112.2°114.8°
C2'C3'O3'H24123.9°122.7°
C2'C3'C4'H24120.3°118.8°
C3'C2'C1'N9169.9°155.6°
C3'C2'C1'O4'49.7°37.0°
C2'C3'C4'C5'101.0°121.4°
C2'C3'C4'O4'17.6°2.0°
C2'C3'C4'H23136.6°117.5°
C2'C3'O3'H25180.0°176.3°
C3'C2'C1'H2966.4°81.5°
C1'C2'C3'O3'75.4°97.8°
C1'C2'C3'C4'40.1°20.9°
C2'C1'N9C452.0°85.0°
C2'C1'N9O4'115.9°114.1°
C2'C1'N9H29122.9°123.0°
C2'C1'N9C8129.6°95.0°
C2'C1'O4'H29115.5°118.5°
C2'C1'O4'C4'39.7°40.0°
C1'C2'C3'H24160.2°139.6°
OACPAAOADPAE69.5°45.0°
OACPAAOADOBL120.9°120.0°
OACPAAOADOAB120.7°120.0°
OACPAAOBLOAB123.3°120.1°
OACPAAOBLCBK179.5°55.0°
OACPAAOABH190.0°180.0°
N1C2N3H30180.0°179.7°
N1C2N3C40.2°0.4°
C2N1C6N6180.0°180.0°
C2N1C6C50.1°0.0°
N3C2N1C60.1°0.3°
C2N3C4C50.2°0.3°
C2N3C4N9179.7°179.9°
N1C6N6C5180.0°180.0°
N1C6C5C40.1°0.0°
N1C6C5N7180.0°179.9°
C6N1C2H30179.9°180.0°
N1C6N6H310.0°180.0°
N1C6N6H32120.0°0.0°
OAGPAEO5'OAD119.9°120.0°
OAGPAEO5'OAF123.3°120.0°
OAGPAEO5'C5'178.1°55.0°
OAGPAEOADOAF125.2°120.0°
OAGPAEOADPAA24.8°45.0°
OAGPAEOAFH200.0°180.0°
O3'C3'C4'H24124.6°122.5°
O3'C3'C4'C5'143.9°119.9°
O3'C3'C4'O4'97.5°120.7°
O3'C3'C4'H2321.4°1.2°
O3'C3'C2'H26167.8°144.0°
C3'C4'C5'O5'54.5°175.7°
C3'C4'O4'C1'13.5°26.5°
C3'C4'C5'O4'116.8°117.8°
C3'C4'C5'H23122.4°121.1°
C3'C4'O4'H23118.6°119.6°
C3'C4'C5'H2165.2°64.3°
C3'C4'C5'H22174.3°55.8°
C4'C3'O3'H2567.8°61.5°
C4'C3'C2'H2676.7°97.3°
N3C4C5C60.1°0.1°
N3C4C5N9179.7°179.8°
N3C4C5N7180.0°179.8°
N3C4N9C1'1.3°0.2°
N3C4N9C8179.9°179.8°
C4N3C2H30179.8°179.9°
N6C6C5C4180.0°180.0°
N6C6C5N70.1°0.1°
C6N6H31H32120.0°180.0°
C6C5C4N7179.9°179.9°
C6C5C4N9179.8°180.0°
C6C5N7C8179.9°179.9°
C5C6N6H31180.0°0.1°
C5C6N6H3260.0°180.0°
OBVCBTCBRCBS28.7°179.7°
OBVCBTCBRNBU176.4°180.0°
OBVCBTCBRCBQ154.5°0.0°
OBVCBTNBUH20.0°0.0°
OBVCBTNBUH3180.0°180.0°
CBRCBSCBNH7120.5°120.2°
CBRCBSCBNH8120.6°120.2°
CBSCBRCBTCBQ125.8°179.7°
CBRCBSCBNCBO0.4°49.3°
CBSCBRCBTNBU154.9°0.3°
CBSCBRCBQNBP67.7°0.9°
CBSCBRCBQH5112.3°179.1°
CBRCBSH7H8118.3°119.6°
CBRCBSCBNH9121.0°169.1°
CBRCBSCBNH4121.9°70.4°
CBNCBSCBRCBT163.1°160.2°
CBNCBSCBRCBQ39.3°20.1°
CBSCBNCBOH9121.5°119.7°
CBSCBNCBOH4121.5°119.7°
CBSCBNCBONBP12.7°61.2°
CBNCBSH7H8118.3°119.7°
CBSCBNH9H4115.3°120.4°
CBSCBNCBOH10108.6°58.2°
CBSCBNCBOH6134.1°179.0°
CBTCBRCBQNBP166.7°179.4°
CBRCBTNBUH2176.5°180.0°
CBRCBTNBUH33.5°0.0°
CBTCBRCBQH513.3°0.6°
CBTCBRCBSH776.3°79.6°
CBTCBRCBSH842.6°40.0°
CBQCBRCBTNBU29.1°180.0°
CBRCBQNBPCBO52.5°14.0°
CBRCBQNBPH5180.0°179.9°
CBRCBQNBPCBM178.5°165.8°
CBQCBRCBSH7159.9°100.1°
CBQCBRCBSH881.2°140.3°
C5C4N9C1'179.1°180.0°
C5C4N9C80.5°0.0°
C4C5N7C80.0°0.0°
N9C4C5N70.3°0.0°
C4N9C1'C8178.4°179.9°
C4N9C1'O4'63.9°160.9°
C4N9C8N70.4°0.0°
C4N9C8H1179.5°179.9°
C4N9C1'H29174.9°37.9°
CBNCBONBPH10121.3°119.5°
CBNCBONBPH6121.4°119.7°
CBNCBONBPCBQ14.7°44.2°
CBNCBONBPCBM142.2°135.5°
CBOCBNCBSH7121.0°70.9°
CBOCBNCBSH8120.1°169.5°
CBOCBNH9H4115.3°120.5°
CBNCBOH10H6115.6°120.8°
C5N7C8N90.3°0.0°
C5N7C8H1179.7°180.0°
CBTNBUH2H3180.0°180.0°
CBONBPCBQCBM128.9°179.8°
CBONBPCBMCBF73.6°118.1°
CBONBPCBMOBG45.1°126.4°
CBONBPCBQH5127.5°166.0°
NBPCBOCBNH9134.2°179.1°
NBPCBOH10H6115.7°120.8°
CBONBPCBMH11165.3°4.1°
NBPCBOCBNH4108.7°58.5°
OBICBFCBMNBP88.8°98.5°
OBICBFCBMCBE120.0°118.6°
OBICBFCBMH12123.1°122.8°
OBICBFCBEH12121.4°122.7°
OBICBFCBMOBG149.2°142.6°
OBICBFCBEOBJ34.9°0.0°
OBICBFCBECBH153.8°118.7°
OBICBFCBMH1132.9°23.7°
OBICBFCBEH1488.1°122.5°
O5'PAEOADOAF117.0°120.0°
O5'PAEOADPAA142.7°165.0°
PAEO5'C5'C4'146.1°180.0°
O5'PAEOAFH20120.7°60.0°
PAEO5'C5'H2194.1°60.0°
PAEO5'C5'H2226.3°60.1°
C5'O5'PAEOAD58.2°175.0°
C5'O5'PAEOAF58.6°65.0°
O5'C5'C4'H21119.8°120.0°
O5'C5'C4'H22119.8°119.9°
O5'C5'C4'O4'62.2°66.5°
O5'C5'H21H22120.7°120.0°
O5'C5'C4'H23176.9°54.6°
N9C1'O4'H29121.5°123.0°
C1'N9C8N7179.0°180.0°
N9C1'O4'C4'162.7°158.6°
C1'N9C8H10.9°0.0°
N9C1'C2'H2653.0°37.3°
C8N9C1'O4'114.5°19.1°
N9C8N7H1180.0°180.0°
C8N9C1'H296.7°142.0°
C1'O4'C4'C5'134.5°145.9°
C1'O4'C4'H23105.0°93.1°
O4'C1'C2'H2667.2°81.2°
CBQNBPCBMCBF157.9°61.6°
CBQNBPCBMOBG83.5°53.8°
CBQNBPCBOH10136.1°75.2°
CBQNBPCBMH1136.7°176.1°
CBQNBPCBOH6106.6°164.0°
NBPCBMCBFOBG122.0°118.9°
NBPCBMCBFH11121.7°122.3°
NBPCBMCBFCBE151.2°142.8°
NBPCBMOBGH11120.6°122.3°
NBPCBMOBGCBH138.5°159.3°
CBMNBPCBQH51.5°14.3°
CBMNBPCBOH1096.5°105.0°
NBPCBMCBFH1234.3°24.2°
CBMNBPCBOH620.8°15.8°
PAEOADPAAOBL51.5°165.0°
PAEOADPAAOAB169.8°75.0°
OADPAEOAFH20124.4°60.0°
OAFPAEOADPAA100.3°75.0°
OADPAAOBLOAB115.0°120.0°
OADPAAOBLCBK58.8°175.0°
OADPAAOABH19120.8°60.0°
PAAOBLCBKCBH166.4°179.9°
PAAOBLCBKH1746.4°60.0°
PAAOBLCBKH1873.6°60.0°
OBLPAAOABH19122.6°59.9°
OABPAAOBLCBK56.2°65.0°
CBMCBFCBEH12116.6°118.6°
CBFCBMOBGH11116.1°118.9°
CBMCBFCBEOBJ87.1°118.7°
CBMCBFCBECBH31.7°0.0°
CBFCBMOBGCBH15.2°40.5°
CBMCBFOBIH13180.0°179.9°
CBMCBFCBEH14149.8°118.8°
CBECBFCBMOBG29.2°23.9°
CBFCBEOBJCBH115.7°114.6°
CBFCBEOBJH14122.9°122.6°
CBFCBECBHH14118.5°118.7°
CBFCBECBHOBG23.0°24.0°
CBFCBECBHCBK98.8°142.8°
CBECBFCBMH1187.1°94.9°
CBECBFOBIH1363.7°65.3°
CBFCBEOBJH15180.0°61.5°
CBFCBECBHH16141.8°94.9°
C5'C4'O4'H23120.5°121.0°
C4'C5'H21H22120.7°120.0°
C5'C4'C3'H2419.3°2.6°
O4'C4'C5'H21178.0°53.5°
O4'C4'C5'H2257.5°173.6°
O4'C4'C3'H24137.9°116.8°
C4'O4'C1'H2975.8°78.5°
OBLCBKCBHCBE53.8°178.1°
OBLCBKCBHOBG65.3°66.4°
OBLCBKCBHH17120.0°120.0°
OBLCBKCBHH18120.0°120.0°
OBLCBKCBHH16173.3°55.9°
OBLCBKH17H18119.9°120.0°
CBMOBGCBHCBE4.6°40.5°
CBMOBGCBHCBK116.7°159.3°
OBGCBMCBFH1287.7°94.7°
CBMOBGCBHH16122.6°78.3°
OBJCBECBHH14121.9°122.7°
OBJCBECBHOBG96.6°142.6°
OBJCBECBHCBK141.6°98.5°
OBJCBECBFH12156.2°122.7°
OBJCBECBHH1622.2°23.8°
CBECBHOBGCBK121.3°118.9°
CBECBHOBGH16118.1°118.8°
CBECBHCBKH16119.5°122.3°
CBHCBECBFH1284.9°118.6°
CBHCBEOBJH1564.3°176.1°
CBECBHCBKH1766.2°58.1°
CBECBHCBKH18173.8°61.9°
OBGCBHCBKH16121.4°122.3°
CBHOBGCBMH11100.9°78.4°
OBGCBHCBEH14141.5°94.7°
OBGCBHCBKH17174.7°173.5°
OBGCBHCBKH1854.7°53.5°
CBKCBHCBEH1419.7°24.2°
CBHCBKH17H18119.9°120.0°
H7CBSCBNH90.5°48.9°
H7CBSCBNH4117.6°169.4°
H8CBSCBNH9118.4°70.7°
H8CBSCBNH41.4°49.8°
H9CBNCBOH1012.9°61.5°
H9CBNCBOH6104.4°59.3°
H10CBOCBNH4129.9°177.9°
H11CBMCBFH12156.0°146.5°
H12CBFOBIH1357.4°57.3°
H12CBFCBEH1433.2°0.1°
H14CBEOBJH1557.1°61.1°
H14CBECBHH1699.7°146.5°
H16CBHCBKH1753.3°64.2°
H16CBHCBKH1866.6°175.8°
H21C5'C4'H2357.2°174.5°
H22C5'C4'H2363.3°65.4°
H23C4'C3'H24103.1°123.7°
H24C3'O3'H2556.1°61.0°
H24C3'C2'H2643.4°21.4°
H26C2'C1'H29176.7°160.3°
H4CBNCBOH612.7°61.3°

250359

PDB entries from 2026-03-11

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