Loading
PDBj
MenuPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help

P5P

Bonds
First atomSecond atomBond order typeDistance
(experimental model)
Distance
(ideal model)
Properties
N1C2sing1.32Å1.34ÅAromatic
N1C6doub1.32Å1.35ÅAromatic
C2N3doub1.32Å1.34ÅAromatic
C2H2sing1.08Å1.10Å
N3C4sing1.33Å1.36ÅAromatic
C4C5doub1.41Å1.37ÅAromatic
C4N9sing1.37Å1.31ÅAromatic
C5C6sing1.40Å1.40ÅAromatic
C5N7sing1.35Å1.41ÅAromatic
C6H6sing1.08Å1.10Å
N7C8doub1.30Å1.31ÅAromatic
C8N9sing1.36Å1.31ÅAromatic
C8H8sing1.08Å1.10Å
N9C1'sing1.46Å1.33Å
C1'C2'sing1.54Å1.55Å
C1'O4'sing1.44Å1.45Å
C1'H1'sing1.09Å1.11Å
C2'O2'sing1.43Å1.45Å
C2'C3'sing1.54Å1.53Å
C2'H2'sing1.09Å1.12Å
O2'HO2'sing0.97Å0.95Å
C3'O3'sing1.43Å1.44Å
C3'C4'sing1.54Å1.55Å
C3'H3'sing1.09Å1.11Å
O3'HO3'sing0.97Å0.95Å
C4'O4'sing1.45Å1.47Å
C4'C5'sing1.53Å1.56Å
C4'H4'sing1.09Å1.11Å
C5'O5'sing1.43Å1.47Å
C5'H5'1sing1.09Å1.12Å
C5'H5'2sing1.09Å1.12Å
O5'Psing1.61Å1.66Å
POP1doub1.48Å1.50Å
POP2sing1.61Å1.50Å
POP3sing1.61Å1.63Å
OP2HOP2sing0.97Å0.95Å
OP3HOP3sing0.97Å0.95Å
Angles
First atomSecond atomThird atomAngle
(experimental model)
Angle
(ideal model)
C2N1C6119.4°121.4°
N1C2N3128.8°122.4°
N1C2H2115.6°118.8°
N1C6C5118.0°118.6°
N1C6H6119.3°120.7°
N3C2H2115.6°118.8°
C2N3C4109.2°120.5°
N3C4C5128.9°119.0°
N3C4N9128.1°135.1°
C5C4N9103.0°105.9°
C4C5C6115.7°118.2°
C4C5N7111.2°107.0°
C4N9C8111.5°107.5°
C4N9C1'124.6°126.3°
C6C5N7133.1°134.8°
C5C6H6122.7°120.7°
C5N7C8101.9°109.5°
N7C8N9112.4°110.1°
N7C8H8123.5°125.0°
N9C8H8124.1°124.9°
C8N9C1'123.7°126.2°
N9C1'C2'119.2°110.4°
N9C1'O4'120.8°110.5°
N9C1'H1'89.9°110.2°
C2'C1'O4'103.2°104.8°
C2'C1'H1'112.6°110.4°
C1'C2'O2'114.5°110.7°
C1'C2'C3'98.6°104.1°
C1'C2'H2'113.7°110.5°
O4'C1'H1'110.7°110.4°
C1'O4'C4'103.9°105.4°
O2'C2'C3'110.4°110.5°
O2'C2'H2'102.6°110.5°
C2'O2'HO2'114.5°106.8°
C3'C2'H2'117.6°110.5°
C2'C3'O3'109.6°110.5°
C2'C3'C4'103.6°104.2°
C2'C3'H3'114.5°110.5°
O3'C3'C4'113.3°110.5°
O3'C3'H3'105.1°110.5°
C3'O3'HO3'109.5°106.7°
C4'C3'H3'111.0°110.5°
C3'C4'O4'106.9°104.7°
C3'C4'C5'110.1°110.7°
C3'C4'H4'113.3°110.2°
O4'C4'C5'115.8°110.4°
O4'C4'H4'107.1°110.4°
C5'C4'H4'103.8°110.3°
C4'C5'O5'115.5°109.5°
C4'C5'H5'1110.0°109.4°
C4'C5'H5'2110.0°109.4°
O5'C5'H5'1110.1°109.5°
O5'C5'H5'2110.1°109.5°
C5'O5'P123.0°106.8°
H5'1C5'H5'2100.1°109.5°
O5'POP1113.8°109.5°
O5'POP2106.7°109.5°
O5'POP3102.0°109.5°
OP1POP2115.5°109.4°
OP1POP3109.1°109.5°
OP2POP3108.8°109.5°
POP2HOP2106.7°106.9°
POP3HOP3102.0°106.8°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)
Torsion
(ideal model)
N1C2N3H2180.0°180.0°
N1C2N3C40.8°0.3°
C2N1C6C50.5°0.1°
C2N1C6H6179.5°180.0°
C6N1C2N30.3°0.1°
C6N1C2H2179.7°179.9°
N1C6C5C41.2°0.2°
N1C6C5H6180.0°179.9°
N1C6C5N7177.8°179.9°
C2N3C4C51.7°0.6°
C2N3C4N9179.8°179.6°
H2C2N3C4179.2°179.7°
N3C4C5N9178.5°179.3°
N3C4C5C61.9°0.5°
N3C4C5N7179.3°179.7°
N3C4N9C8179.4°179.5°
N3C4N9C1'5.4°0.8°
C4C5C6N7176.6°179.7°
C4C5C6H6178.8°179.7°
C4C5N7C81.5°0.3°
C5C4N9C82.1°0.4°
C5C4N9C1'173.2°179.9°
N9C4C5C6179.6°179.8°
N9C4C5N72.2°0.4°
C4N9C8N71.3°0.3°
C4N9C8C1'175.3°179.7°
C4N9C8H8178.7°179.8°
C4N9C1'C2'155.6°89.6°
C4N9C1'O4'25.9°154.9°
C4N9C1'H1'88.3°32.6°
C6C5N7C8178.2°180.0°
N7C5C6H62.2°0.0°
C5N7C8N90.2°0.0°
C5N7C8H8179.9°179.9°
N7C8N9H8179.9°179.9°
N7C8N9C1'174.0°179.9°
C8N9C1'C2'19.1°90.0°
C8N9C1'O4'148.8°25.5°
C8N9C1'H1'97.0°147.8°
H8C8N9C1'6.0°0.2°
N9C1'C2'O4'137.2°119.0°
N9C1'C2'H1'103.4°122.1°
N9C1'O4'H1'102.9°122.2°
N9C1'C2'O2'154.1°98.3°
N9C1'C2'C3'88.7°143.0°
N9C1'C2'H2'36.6°24.4°
N9C1'O4'C4'92.5°159.4°
C2'C1'O4'H1'120.7°118.9°
C1'C2'O2'C3'110.2°114.7°
C1'C2'O2'H2'123.7°122.6°
C1'C2'C3'H2'122.5°118.6°
C1'C2'O2'HO2'180.0°176.2°
C1'C2'C3'O3'154.7°118.7°
C1'C2'C3'C4'33.5°0.1°
C1'C2'C3'H3'87.5°118.7°
C2'C1'O4'C4'43.8°40.4°
O4'C1'C2'O2'68.7°142.7°
O4'C1'C2'C3'48.5°24.0°
O4'C1'C2'H2'173.8°94.7°
C1'O4'C4'C3'21.5°40.3°
C1'O4'C4'C5'101.6°159.5°
C1'O4'C4'H4'143.2°78.3°
H1'C1'C2'O2'50.6°23.8°
H1'C1'C2'C3'167.9°94.9°
H1'C1'C2'H2'66.9°146.5°
H1'C1'O4'C4'164.6°78.4°
O2'C2'C3'H2'117.2°122.6°
O2'C2'C3'O3'34.4°0.1°
O2'C2'C3'C4'86.8°118.9°
O2'C2'C3'H3'152.2°122.5°
C3'C2'O2'HO2'69.8°61.5°
C2'C3'O3'C4'115.1°114.8°
C2'C3'O3'H3'123.6°122.6°
C2'C3'C4'H3'123.4°118.7°
C2'C3'O3'HO3'180.0°63.3°
C2'C3'C4'O4'9.2°23.8°
C2'C3'C4'C5'135.8°142.7°
C2'C3'C4'H4'108.6°94.9°
H2'C2'O2'HO2'56.3°61.2°
H2'C2'C3'O3'82.8°122.7°
H2'C2'C3'C4'156.0°118.5°
H2'C2'C3'H3'35.0°0.1°
O3'C3'C4'H3'118.0°122.6°
O3'C3'C4'O4'127.8°142.6°
O3'C3'C4'C5'105.6°98.5°
O3'C3'C4'H4'10.1°23.8°
C4'C3'O3'HO3'64.9°178.2°
C3'C4'O4'C5'123.1°119.2°
C3'C4'O4'H4'121.7°118.6°
C3'C4'C5'H4'121.5°122.3°
C3'C4'C5'O5'72.5°176.9°
C3'C4'C5'H5'152.8°63.1°
C3'C4'C5'H5'2162.1°56.9°
H3'C3'O3'HO3'56.4°59.3°
H3'C3'C4'O4'114.2°94.9°
H3'C3'C4'C5'12.4°24.0°
H3'C3'C4'H4'128.1°146.4°
O4'C4'C5'H4'117.1°122.3°
O4'C4'C5'O5'166.1°61.5°
O4'C4'C5'H5'168.6°178.5°
O4'C4'C5'H5'240.7°58.5°
C4'C5'O5'H5'1125.3°120.0°
C4'C5'O5'H5'2125.3°120.0°
C4'C5'H5'1H5'2115.8°119.9°
C4'C5'O5'P84.2°180.0°
H4'C4'C5'O5'49.0°60.8°
H4'C4'C5'H5'1174.3°59.2°
H4'C4'C5'H5'276.3°179.2°
O5'C5'H5'1H5'2115.8°120.1°
C5'O5'POP1156.6°60.0°
C5'O5'POP228.0°180.0°
C5'O5'POP386.0°60.0°
H5'1C5'O5'P150.5°60.0°
H5'2C5'O5'P41.1°60.0°
O5'POP1OP2124.0°120.0°
O5'POP1OP3113.1°120.1°
O5'POP2OP3109.4°120.1°
O5'POP2HOP2180.0°180.0°
O5'POP3HOP3180.0°60.0°
OP1POP2OP3123.0°120.0°
OP1POP2HOP252.4°60.0°
OP1POP3HOP359.4°180.0°
OP2POP3HOP367.5°60.0°
OP3POP2HOP270.6°59.9°

224201

PDB entries from 2024-08-28

PDB statisticsPDBj update infoContact PDBjnumon