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YMP

Bonds
First atomSecond atomBond order typeDistance
(experimental model)
Distance
(ideal model)
Properties
NCAsing1.47Å1.49Å
NHN1sing1.01Å1.00Å
NHN2sing1.01Å1.00Å
CACBsing1.53Å1.53Å
CACsing1.51Å1.51Å
CAHAsing1.09Å1.10Å
CBCGsing1.51Å1.51Å
CBHB1sing1.09Å1.10Å
CBHB2sing1.09Å1.10Å
CGCD1doub1.38Å1.40ÅAromatic
CGCD2sing1.38Å1.40ÅAromatic
CD1CE1sing1.38Å1.39ÅAromatic
CD1HD1sing1.08Å1.08Å
CE1CZdoub1.39Å1.40ÅAromatic
CE1HE1sing1.08Å1.08Å
CZOHsing1.36Å1.33Å
CZCE2sing1.39Å1.40ÅAromatic
OHHOHsing0.97Å0.95Å
CE2CD2doub1.38Å1.40ÅAromatic
CE2HE2sing1.08Å1.08Å
CD2HD2sing1.08Å1.08Å
COdoub1.21Å1.22Å
CN3Psing1.35Å1.34Å
N3PPsing1.64Å1.68Å
N3PH3Psing0.97Å1.00Å
PO1Pdoub1.48Å1.50Å
PO2Psing1.61Å1.50Å
PO5'sing1.61Å1.61Å
O2PH2Psing0.97Å0.95Å
O5'C5'sing1.43Å1.43Å
C5'C4'sing1.53Å1.52Å
C5'H5'1sing1.09Å1.10Å
C5'H5'2sing1.09Å1.10Å
C4'O4'sing1.44Å1.44Å
C4'C3'sing1.54Å1.52Å
C4'H4'sing1.09Å1.10Å
O4'C1'sing1.44Å1.43Å
C1'C2'sing1.55Å1.53Å
C1'N9sing1.46Å1.47Å
C1'H1'sing1.09Å1.10Å
C2'C3'sing1.55Å1.51Å
C2'O2'sing1.43Å1.42Å
C2'H2'sing1.09Å1.10Å
C3'O3'sing1.43Å1.42Å
C3'H3'sing1.09Å1.10Å
O3'H2sing0.97Å0.95Å
O2'H1sing0.97Å0.95Å
N9C4sing1.37Å1.32ÅAromatic
N9C8sing1.36Å1.35ÅAromatic
C4N3sing1.33Å1.36ÅAromatic
C4C5doub1.41Å1.36ÅAromatic
N3C2doub1.32Å1.45ÅAromatic
C5N7sing1.35Å1.35ÅAromatic
C5C6sing1.41Å1.47ÅAromatic
N7C8doub1.30Å1.36ÅAromatic
C8H8sing1.08Å1.08Å
C6N6sing1.39Å1.33Å
C6N1doub1.33Å1.33ÅAromatic
N6HN61sing0.97Å1.00Å
N6HN62sing0.97Å1.00Å
N1C2sing1.32Å1.46ÅAromatic
C2H3sing1.08Å1.08Å
Angles
First atomSecond atomThird atomAngle
(experimental model)
Angle
(ideal model)
CANHN1109.5°106.7°
CANHN2109.5°106.7°
NCACB109.9°109.5°
NCAC110.7°109.5°
NCAHA108.7°109.4°
HN1NHN2109.4°106.7°
CBCAC110.7°109.5°
CBCAHA108.8°109.5°
CACBCG112.3°109.5°
CACBHB1107.9°109.5°
CACBHB2108.5°109.5°
CCAHA108.0°109.5°
CACO120.2°120.0°
CACN3P115.8°120.0°
CGCBHB1107.9°109.4°
CGCBHB2108.5°109.5°
CBCGCD1120.5°120.0°
CBCGCD2119.8°119.9°
HB1CBHB2111.7°109.5°
CD1CGCD2119.7°120.1°
CGCD1CE1120.1°120.1°
CGCD1HD1120.0°120.0°
CGCD2CE2120.4°120.1°
CGCD2HD2119.8°119.9°
CE1CD1HD1119.9°119.9°
CD1CE1CZ120.1°120.0°
CD1CE1HE1119.9°120.0°
CZCE1HE1120.0°120.0°
CE1CZOH119.4°120.1°
CE1CZCE2120.1°119.9°
OHCZCE2120.5°120.1°
CZOHHOH109.5°106.8°
CZCE2CD2119.6°119.9°
CZCE2HE2120.2°120.0°
CD2CE2HE2120.2°120.1°
CE2CD2HD2119.8°120.0°
OCN3P124.0°120.0°
CN3PP127.6°120.0°
CN3PH3P116.2°120.0°
PN3PH3P116.2°120.1°
N3PPO1P113.8°109.4°
N3PPO2P107.1°109.5°
N3PPO5'105.6°109.5°
O1PPO2P117.1°109.5°
O1PPO5'104.8°109.5°
O2PPO5'107.7°109.5°
PO2PH2P109.5°106.8°
PO5'C5'121.2°106.8°
O5'C5'C4'109.8°109.4°
O5'C5'H5'1109.3°109.5°
O5'C5'H5'2109.4°109.5°
C4'C5'H5'1109.3°109.5°
C4'C5'H5'2109.3°109.5°
C5'C4'O4'110.6°109.9°
C5'C4'C3'111.4°109.8°
C5'C4'H4'107.2°109.9°
H5'1C5'H5'2109.8°109.5°
O4'C4'C3'109.1°107.4°
O4'C4'H4'109.6°109.9°
C4'O4'C1'109.8°106.9°
C3'C4'H4'108.8°109.9°
C4'C3'C2'105.8°104.0°
C4'C3'O3'104.9°110.7°
C4'C3'H3'114.3°110.5°
O4'C1'C2'109.0°103.5°
O4'C1'N9118.2°110.6°
O4'C1'H1'103.8°110.6°
C2'C1'N9109.9°110.8°
C2'C1'H1'113.1°110.6°
C1'C2'C3'105.7°102.1°
C1'C2'O2'114.8°110.9°
C1'C2'H2'111.2°110.9°
N9C1'H1'102.7°110.5°
C1'N9C4123.7°126.3°
C1'N9C8130.2°126.3°
C3'C2'O2'116.2°110.9°
C3'C2'H2'109.6°111.0°
C2'C3'O3'108.4°110.5°
C2'C3'H3'111.1°110.5°
O2'C2'H2'99.3°110.7°
C2'O2'H1109.5°106.8°
O3'C3'H3'111.9°110.4°
C3'O3'H2109.5°106.8°
C4N9C8106.1°107.4°
N9C4N3125.0°134.9°
N9C4C5111.2°106.0°
N9C8N7109.3°110.0°
N9C8H8125.4°125.0°
N3C4C5123.8°119.1°
C4N3C2122.0°120.6°
C4C5N7106.0°107.1°
C4C5C6118.4°118.2°
N3C2N1111.5°122.5°
N3C2H3124.2°118.8°
N7C5C6135.7°134.7°
C5N7C8107.5°109.4°
C5C6N6121.4°120.7°
C5C6N1116.7°118.5°
N7C8H8125.3°125.0°
N6C6N1121.9°120.8°
C6N6HN61125.5°120.0°
C6N6HN62109.1°119.9°
C6N1C2127.7°121.2°
HN61N6HN62125.4°120.0°
N1C2H3124.2°118.8°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)
Torsion
(ideal model)
CANHN1HN2120.0°113.8°
NCACBC122.6°120.0°
NCACBHA119.0°120.0°
NCACHA118.9°120.0°
NCACBCG65.8°65.0°
NCACBHB1175.4°55.0°
NCACBHB254.2°175.0°
NCACO5.7°20.0°
NCACN3P174.5°160.0°
HN1NCACB30.1°173.8°
HN1NCAC152.6°53.8°
HN1NCAHA88.9°66.2°
HN2NCACB89.9°60.0°
HN2NCAC32.7°60.1°
HN2NCAHA151.1°180.0°
CBCACHA119.0°120.0°
CACBCGHB1118.8°120.0°
CACBCGHB2120.0°120.0°
CACBHB1HB2119.2°120.1°
CACBCGCD153.4°90.0°
CACBCGCD2126.8°90.3°
CBCACO127.9°100.0°
CBCACN3P52.4°80.0°
CCACBCG171.6°175.0°
CCACBHB152.8°65.0°
CCACBHB268.4°55.0°
CACON3P179.8°179.9°
CACN3PP178.2°180.0°
CACN3PH3P1.9°0.1°
HACACBCG53.2°55.0°
HACACBHB165.6°174.9°
HACACBHB2173.1°65.0°
HACACO113.2°140.0°
HACACN3P66.6°40.1°
CGCBHB1HB2119.2°120.0°
CBCGCD1CD2179.9°179.7°
CBCGCD1CE1179.5°180.0°
CBCGCD1HD10.4°0.0°
CBCGCD2CE2179.5°179.7°
CBCGCD2HD20.6°0.3°
HB1CBCGCD165.4°29.9°
HB1CBCGCD2114.4°149.7°
HB2CBCGCD1173.3°150.0°
HB2CBCGCD26.8°29.7°
CGCD1CE1HD1180.0°179.9°
CGCD1CE1CZ0.2°0.1°
CGCD1CE1HE1179.8°180.0°
CD1CGCD2CE20.4°0.6°
CD1CGCD2HD2179.6°180.0°
CD2CGCD1CE10.3°0.4°
CD2CGCD1HD1179.7°179.7°
CGCD2CE2CZ0.4°0.6°
CGCD2CE2HD2180.0°179.4°
CGCD2CE2HE2179.6°179.7°
CD1CE1CZHE1180.0°180.0°
CD1CE1CZOH179.5°180.0°
CD1CE1CZCE20.2°0.0°
HD1CD1CE1CZ179.8°180.0°
HD1CD1CE1HE10.2°0.0°
CE1CZOHCE2179.7°180.0°
CE1CZOHHOH145.6°90.1°
CE1CZCE2CD20.3°0.3°
CE1CZCE2HE2179.7°180.0°
HE1CE1CZOH0.4°0.0°
HE1CE1CZCE2179.8°180.0°
OHCZCE2CD2179.5°179.7°
OHCZCE2HE20.6°0.0°
CE2CZOHHOH34.7°89.9°
CZCE2CD2HE2180.0°179.7°
CZCE2CD2HD2179.6°180.0°
HE2CE2CD2HD20.4°0.2°
OCN3PP2.1°0.1°
OCN3PH3P177.9°180.0°
CN3PPH3P180.0°179.9°
CN3PPO1P0.0°180.0°
CN3PPO2P131.0°60.0°
CN3PPO5'114.5°60.0°
N3PPO1PO2P125.9°120.0°
N3PPO1PO5'114.9°120.0°
N3PPO2PO5'113.1°120.0°
N3PPO2PH2P177.2°60.0°
N3PPO5'C5'55.9°70.0°
H3PN3PPO1P180.0°0.1°
H3PN3PPO2P49.0°120.0°
H3PN3PPO5'65.5°120.0°
O1PPO2PO5'117.7°120.0°
O1PPO2PH2P53.7°180.0°
O1PPO5'C5'176.4°50.0°
O2PPO5'C5'58.3°170.0°
O5'PO2PH2P64.0°60.0°
PO5'C5'C4'146.0°180.0°
PO5'C5'H5'194.1°60.0°
PO5'C5'H5'226.0°60.0°
O5'C5'C4'H5'1119.9°120.0°
O5'C5'C4'H5'2120.0°120.0°
O5'C5'H5'1H5'2119.9°120.1°
O5'C5'C4'O4'80.6°66.7°
O5'C5'C4'C3'41.0°175.3°
O5'C5'C4'H4'159.9°54.3°
C4'C5'H5'1H5'2119.9°120.0°
C5'C4'O4'C3'123.0°119.4°
C5'C4'O4'H4'118.0°121.0°
C5'C4'C3'H4'118.0°121.0°
C5'C4'O4'C1'124.2°145.9°
C5'C4'C3'C2'118.9°121.4°
C5'C4'C3'O3'126.6°119.9°
C5'C4'C3'H3'3.6°2.8°
H5'1C5'C4'O4'39.3°53.2°
H5'1C5'C4'C3'160.9°64.7°
H5'1C5'C4'H4'80.2°174.3°
H5'2C5'C4'O4'159.4°173.3°
H5'2C5'C4'C3'79.0°55.3°
H5'2C5'C4'H4'39.9°65.7°
O4'C4'C3'H4'119.6°119.6°
C4'O4'C1'C2'5.6°40.1°
C4'O4'C1'N9132.0°158.8°
C4'O4'C1'H1'115.2°78.4°
O4'C4'C3'C2'3.6°2.0°
O4'C4'C3'O3'110.9°120.7°
O4'C4'C3'H3'126.1°116.7°
C3'C4'O4'C1'1.3°26.5°
C4'C3'C2'C1'6.6°21.0°
C4'C3'C2'O3'112.1°118.9°
C4'C3'C2'H3'124.6°118.6°
C4'C3'C2'O2'135.2°139.2°
C4'C3'C2'H2'113.3°97.3°
C4'C3'O3'H3'124.5°122.7°
C4'C3'O3'H2160.9°176.2°
H4'C4'O4'C1'117.8°93.0°
H4'C4'C3'C2'123.1°117.6°
H4'C4'C3'O3'8.6°1.1°
H4'C4'C3'H3'114.3°123.8°
O4'C1'C2'N9131.0°118.5°
O4'C1'C2'H1'114.9°118.5°
O4'C1'N9H1'113.4°122.8°
O4'C1'C2'C3'7.6°37.1°
O4'C1'C2'O2'137.1°155.3°
O4'C1'C2'H2'111.2°81.2°
O4'C1'N9C4125.7°156.7°
O4'C1'N9C857.4°23.6°
C2'C1'N9H1'120.6°123.0°
C1'C2'C3'O2'128.6°118.2°
C1'C2'C3'H2'119.9°118.3°
C1'C2'O2'H2'118.6°123.6°
C1'C2'C3'O3'105.4°97.9°
C1'C2'C3'H3'131.2°139.6°
C1'C2'O2'H1130.5°180.0°
C2'C1'N9C4108.4°89.1°
C2'C1'N9C868.6°90.6°
N9C1'C2'C3'138.7°155.7°
N9C1'C2'O2'91.9°86.2°
N9C1'C2'H2'19.8°37.3°
C1'N9C4C8177.6°179.7°
C1'N9C4N32.1°0.7°
C1'N9C4C5178.0°179.9°
C1'N9C8N7178.0°180.0°
C1'N9C8H82.0°0.0°
H1'C1'C2'C3'107.2°81.4°
H1'C1'C2'O2'22.2°36.8°
H1'C1'C2'H2'133.9°160.3°
H1'C1'N9C412.3°33.9°
H1'C1'N9C8170.8°146.4°
C3'C2'O2'H2'117.4°123.7°
C2'C3'O3'H3'122.8°122.6°
C2'C3'O3'H286.4°61.5°
C3'C2'O2'H16.5°67.3°
O2'C2'C3'O3'23.1°20.3°
O2'C2'C3'H3'100.3°102.2°
H2'C2'C3'O3'134.7°143.8°
H2'C2'C3'H3'11.3°21.3°
H2'C2'O2'H1110.9°56.4°
H3'C3'O3'H236.4°61.1°
N9C4N3C5179.9°179.1°
N9C4N3C2179.8°179.6°
N9C4C5N70.1°0.4°
N9C4C5C6179.7°179.8°
C4N9C8N70.7°0.2°
C4N9C8H8179.3°179.8°
C8N9C4N3179.6°179.5°
C8N9C4C50.5°0.4°
N9C8N7C50.7°0.0°
N9C8N7H8180.0°180.0°
N3C4C5N7179.9°179.7°
N3C4C5C60.2°0.5°
C4N3C2N10.0°0.2°
C4N3C2H3180.0°179.8°
C5C4N3C20.1°0.5°
C4C5N7C6179.7°179.8°
C4C5N7C80.4°0.2°
C4C5C6N6179.5°179.7°
C4C5C6N10.3°0.2°
N3C2N1C60.2°0.1°
N3C2N1H3180.0°180.0°
C5N7C8H8179.3°180.0°
N7C5C6N60.2°0.0°
N7C5C6N1180.0°180.0°
C6C5N7C8179.9°180.0°
C5C6N6N1179.8°179.9°
C5C6N6HN610.0°0.0°
C5C6N6HN62180.0°180.0°
C5C6N1C20.3°0.0°
C6N6HN61HN62180.0°179.9°
N6C6N1C2179.5°180.0°
N1C6N6HN61179.8°180.0°
N1C6N6HN620.2°0.1°
C6N1C2H3179.9°180.0°

248636

PDB entries from 2026-02-04

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