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SummaryGeometryRelated PDB entries

M5O

Bonds
First atomSecond atomBond order typeDistance
(experimental model)		Distance
(ideal model)		Properties
OAGCAYsing1.36Å1.36Å
CAYCAKdoub1.38Å1.36ÅAromatic
CAYCBDsing1.39Å1.40ÅAromatic
CAKCATsing1.39Å1.38ÅAromatic
CAPCBDsing1.51Å1.50Å
CAPCBEsing1.53Å1.52Å
CBDCBCdoub1.38Å1.38ÅAromatic
CATOABsing1.36Å1.37Å
CATCANdoub1.39Å1.38ÅAromatic
OAQCBEsing1.43Å1.41Å
CBECBFsing1.53Å1.54Å
CBCCANsing1.39Å1.39ÅAromatic
CBCOARsing1.36Å1.38Å
CBFOARsing1.43Å1.48Å
CBFCBAsing1.51Å1.51Å
CBACAJdoub1.38Å1.37ÅAromatic
CBACAOsing1.38Å1.38ÅAromatic
CAJCAIsing1.38Å1.39ÅAromatic
CAOCAVdoub1.39Å1.38ÅAromatic
CAICAUdoub1.39Å1.37ÅAromatic
CAVCAUsing1.39Å1.39ÅAromatic
CAVOADsing1.36Å1.37Å
CAUOACsing1.36Å1.37Å
OABH1sing0.97Å0.95Å
CAKH2sing1.08Å1.08Å
OAGH3sing0.97Å0.95Å
CAPH4sing1.09Å1.10Å
CAPH5sing1.09Å1.10Å
CANH6sing1.08Å1.08Å
CBFH7sing1.09Å1.10Å
CBEH8sing1.09Å1.10Å
OAQH9sing0.97Å0.95Å
CAOH10sing1.08Å1.08Å
OADH11sing0.97Å0.95Å
OACH12sing0.97Å0.95Å
CAIH13sing1.08Å1.08Å
CAJH14sing1.08Å1.08Å
Angles
First atomSecond atomThird atomAngle
(experimental model)		Angle
(ideal model)
OAGCAYCAK120.9°119.9°
OAGCAYCBD116.9°119.9°
CAYOAGH3109.5°114.0°
CAKCAYCBD122.1°120.3°
CAYCAKCAT118.9°119.9°
CAYCAKH2120.5°120.1°
CAYCBDCAP121.2°118.7°
CAYCBDCBC117.6°119.8°
CAKCATOAB119.0°120.1°
CAKCATCAN121.0°119.9°
CATCAKH2120.5°120.0°
CBDCAPCBE112.6°109.7°
CAPCBDCBC121.0°121.4°
CBDCAPH4108.7°109.5°
CBDCAPH5108.7°109.4°
CAPCBEOAQ111.1°109.7°
CAPCBECBF108.7°108.4°
CBECAPH4108.7°109.5°
CBECAPH5108.7°109.4°
CAPCBEH8108.4°109.7°
CBDCBCCAN121.4°119.8°
CBDCBCOAR122.6°121.7°
OABCATCAN119.9°120.1°
CATOABH1109.5°113.9°
CATCANCBC119.0°120.3°
CATCANH6120.5°119.8°
OAQCBECBF110.6°109.7°
OAQCBEH8109.9°109.7°
CBEOAQH9109.5°114.0°
CBECBFOAR107.7°108.4°
CBECBFCBA118.5°109.7°
CBECBFH7107.0°109.7°
CBFCBEH8108.2°109.7°
CANCBCOAR116.0°118.4°
CBCCANH6120.5°119.9°
CBCOARCBF115.0°117.9°
OARCBFCBA108.2°109.7°
OARCBFH7107.8°109.7°
CBFCBACAJ119.7°119.9°
CBFCBACAO120.3°119.9°
CBACBFH7107.3°109.7°
CAJCBACAO120.1°120.1°
CBACAJCAI120.3°120.2°
CBACAJH14119.8°119.9°
CBACAOCAV120.0°120.0°
CBACAOH10120.0°120.0°
CAJCAICAU120.1°120.0°
CAJCAIH13120.0°120.0°
CAICAJH14119.9°119.9°
CAOCAVCAU119.6°119.9°
CAOCAVOAD123.5°120.1°
CAVCAOH10120.0°120.0°
CAICAUCAV119.7°119.9°
CAICAUOAC118.8°120.1°
CAUCAIH13119.9°120.0°
CAUCAVOAD116.8°120.1°
CAVCAUOAC121.4°120.0°
CAVOADH11109.5°114.1°
CAUOACH12109.5°114.0°
H4CAPH5109.5°109.4°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)		Torsion
(ideal model)
OAGCAYCAKCBD176.1°180.0°
OAGCAYCAKCAT177.6°180.0°
OAGCAYCBDCAP7.0°0.4°
OAGCAYCBDCBC177.5°179.8°
OAGCAYCAKH22.4°0.0°
CAYCAKCATH2180.0°180.0°
CAKCAYCBDCAP176.7°179.5°
CAKCAYCBDCBC1.2°0.3°
CAYCAKCATOAB179.3°179.9°
CAYCAKCATCAN0.5°0.1°
CAKCAYOAGH3180.0°90.0°
CBDCAYCAKCAT1.4°0.0°
CAYCBDCAPCBC175.3°179.8°
CAYCBDCAPCBE170.1°162.3°
CAYCBDCBCCAN0.1°0.5°
CAYCBDCBCOAR175.9°179.4°
CBDCAYCAKH2178.5°180.0°
CBDCAYOAGH33.7°90.0°
CAYCBDCAPH449.7°42.2°
CAYCBDCAPH569.4°77.7°
CAKCATOABCAN179.8°179.8°
CAKCATCANCBC0.5°0.4°
CAKCATOABH1180.0°89.8°
CAKCATCANH6179.5°179.7°
CBDCAPCBEH4120.5°120.1°
CBDCAPCBEH5120.5°120.0°
CBDCAPCBEOAQ162.4°167.9°
CBDCAPCBECBF40.5°48.2°
CAPCBDCBCCAN175.6°179.3°
CAPCBDCBCOAR8.7°0.8°
CBDCAPH4H5118.6°119.9°
CBDCAPCBEH876.8°71.6°
CBECAPCBDCBC5.1°17.9°
CAPCBEOAQCBF120.7°118.9°
CAPCBEOAQH8119.9°120.5°
CAPCBECBFH8117.5°119.8°
CAPCBECBFOAR64.3°64.7°
CAPCBECBFCBA172.6°175.6°
CBECAPH4H5118.6°119.9°
CAPCBECBFH751.3°55.1°
CAPCBEOAQH9180.0°60.0°
CBDCBCCANCAT0.7°0.6°
CBDCBCCANOAR176.0°179.9°
CBDCBCOARCBF16.8°17.6°
CBCCBDCAPH4125.6°138.0°
CBCCBDCAPH5115.4°102.0°
CBDCBCCANH6179.3°179.5°
OABCATCANCBC179.7°179.8°
OABCATCAKH20.8°0.1°
OABCATCANH60.3°0.1°
CATCANCBCH6180.0°179.9°
CATCANCBCOAR175.3°179.3°
CANCATOABH10.2°90.0°
CANCATCAKH2179.4°179.9°
OAQCBECBFH8120.4°120.5°
OAQCBECBFOAR173.5°175.6°
OAQCBECBFCBA50.5°55.9°
OAQCBECAPH477.1°72.0°
OAQCBECAPH541.9°47.9°
OAQCBECBFH770.9°64.6°
CBECBFOARCBC52.9°49.3°
CBECBFOARCBA129.2°119.7°
CBECBFOARH7115.1°119.7°
CBECBFCBAH7121.1°120.6°
CBECBFCBACAJ112.5°78.9°
CBECBFCBACAO67.3°101.4°
CBFCBECAPH4161.0°168.3°
CBFCBECAPH579.9°71.8°
CBFCBEOAQH959.2°178.9°
CANCBCOARCBF159.1°162.5°
CBCOARCBFCBA177.9°169.1°
OARCBCCANH64.7°0.6°
CBCOARCBFH762.2°70.4°
OARCBFCBAH7116.0°120.5°
OARCBFCBACAJ124.7°40.0°
OARCBFCBACAO55.6°139.7°
OARCBFCBEH853.1°55.1°
CBFCBACAJCAO179.8°179.7°
CBFCBACAJCAI179.7°179.7°
CBFCBACAOCAV176.8°180.0°
CBACBFCBEH869.9°64.6°
CBFCBACAOH103.2°0.0°
CBFCBACAJH140.3°0.0°
CBACAJCAIH14180.0°179.7°
CAJCBACAOCAV3.5°0.3°
CBACAJCAICAU1.0°0.5°
CAJCBACBFH78.6°160.5°
CAJCBACAOH10176.6°179.7°
CBACAJCAIH13179.0°179.7°
CAOCBACAJCAI0.5°0.5°
CBACAOCAVH10180.0°180.0°
CBACAOCAVCAU4.8°0.0°
CBACAOCAVOAD177.2°179.9°
CAOCBACBFH7171.6°19.2°
CAOCBACAJH14179.5°179.8°
CAJCAICAUH13180.0°179.8°
CAJCAICAUCAV0.3°0.2°
CAJCAICAUOAC178.1°179.7°
CAOCAVCAUCAI3.2°0.0°
CAOCAVCAUOAD178.1°179.9°
CAOCAVCAUOAC179.1°179.9°
CAOCAVOADH11180.0°90.0°
CAICAUCAVOAC177.7°179.9°
CAICAUCAVOAD178.7°179.9°
CAICAUOACH12180.0°89.9°
CAUCAICAJH14178.9°179.8°
CAUCAVCAOH10175.2°180.0°
CAUCAVOADH112.0°89.9°
CAVCAUOACH122.2°90.0°
CAVCAUCAIH13179.7°179.9°
OADCAVCAUOAC1.0°0.0°
OADCAVCAOH102.7°0.1°
OACCAUCAIH131.9°0.1°
H4CAPCBEH843.7°48.5°
H5CAPCBEH8162.7°168.4°
H7CBFCBEH8168.8°174.8°
H8CBEOAQH960.1°60.5°
H13CAICAJH141.0°0.0°

255239

PDB entries from 2026-06-17

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