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SummaryGeometryRelated PDB entries

5D3

Bonds
First atomSecond atomBond order typeDistance
(experimental model)		Distance
(ideal model)		Properties
CAACABdoub1.38Å1.39ÅAromatic
CAACAFsing1.38Å1.39ÅAromatic
CAASAIsing1.76Å1.73Å
CABCACsing1.38Å1.39ÅAromatic
CACCADdoub1.38Å1.39ÅAromatic
CADCAEsing1.38Å1.39ÅAromatic
CADCAGsing1.51Å1.39Å
CAECAFdoub1.38Å1.39ÅAromatic
CAGCAHsing1.53Å1.53Å
CAKCAMdoub1.38Å1.31ÅAromatic
CAKNAPsing1.33Å1.32ÅAromatic
CAKSAIsing1.76Å1.74Å
CAMNANsing1.37Å1.32ÅAromatic
CAMNAQsing1.34Å1.33ÅAromatic
CARCASsing1.42Å1.33ÅAromatic
CARNAQdoub1.32Å1.34ÅAromatic
CARNAXsing1.38Å1.32Å
CASCATdoub1.38Å1.34ÅAromatic
CASSAUsing1.76Å1.62ÅAromatic
CATCAWsing1.39Å1.35ÅAromatic
CATNANsing1.39Å1.33ÅAromatic
CAVCAWdoub1.33Å1.34ÅAromatic
CAVSAUsing1.76Å1.64ÅAromatic
CAYCAZsing1.51Å1.52Å
CAYNAXsing1.46Å1.47Å
CAZCBAdoub1.33Å1.33ÅAromatic
CAZSBDsing1.76Å1.56ÅAromatic
CBACBBsing1.38Å1.34ÅAromatic
CBBCBCdoub1.33Å1.33ÅAromatic
CBCSBDsing1.76Å1.66ÅAromatic
NANNAOsing1.40Å1.25ÅAromatic
NAONAPdoub1.29Å1.26ÅAromatic
OAJSAIdoub1.42Å1.52Å
OALSAIdoub1.42Å1.52Å
CABH1sing1.08Å1.08Å
CACH2sing1.08Å1.08Å
CAEH3sing1.08Å1.08Å
CAFH4sing1.08Å1.08Å
CAVH11sing1.08Å1.08Å
CAWH13sing1.08Å1.08Å
CAYH14sing1.09Å1.10Å
CAYH15sing1.09Å1.10Å
CBAH17sing1.08Å1.08Å
CBBH18sing1.08Å1.08Å
CBCH20sing1.08Å1.08Å
NAXH22sing0.97Å1.00Å
CAGH5sing1.09Å1.10Å
CAGH6sing1.09Å1.10Å
CAHH7sing1.09Å1.10Å
CAHH8sing1.09Å1.10Å
CAHH9sing1.09Å1.10Å
Angles
First atomSecond atomThird atomAngle
(experimental model)		Angle
(ideal model)
CABCAACAF120.0°120.0°
CABCAASAI117.8°120.0°
CAACABCAC120.5°120.0°
CAACABH1119.8°120.0°
CAFCAASAI122.2°120.0°
CAACAFCAE119.5°120.0°
CAACAFH4120.3°120.0°
CAASAICAK112.0°107.2°
CAASAIOAJ108.8°106.4°
CAASAIOAL109.2°106.4°
CABCACCAD119.8°120.0°
CACCABH1119.7°120.0°
CABCACH2120.1°120.0°
CACCADCAE119.8°120.0°
CACCADCAG120.2°120.0°
CADCACH2120.1°120.0°
CAECADCAG120.0°120.0°
CADCAECAF120.5°120.0°
CADCAEH3119.8°120.0°
CADCAGCAH110.3°109.5°
CADCAGH5109.3°109.5°
CADCAGH6109.3°109.4°
CAFCAEH3119.8°120.0°
CAECAFH4120.3°120.0°
CAHCAGH5109.3°109.5°
CAHCAGH6109.3°109.4°
CAGCAHH7109.5°109.4°
CAGCAHH8109.4°109.4°
CAGCAHH9109.5°109.5°
CAMCAKNAP107.4°108.4°
CAMCAKSAI124.8°125.8°
CAKCAMNAN105.8°106.0°
CAKCAMNAQ134.6°133.0°
NAPCAKSAI127.6°125.8°
CAKNAPNAO107.1°110.5°
CAKSAIOAJ109.1°106.4°
CAKSAIOAL108.8°106.4°
NANCAMNAQ119.5°120.9°
CAMNANCAT123.4°120.5°
CAMNANNAO108.6°106.6°
CAMNAQCAR118.1°121.1°
CASCARNAQ121.8°120.5°
CASCARNAX117.3°119.8°
CARCASCAT120.2°119.4°
CARCASSAU132.0°131.1°
NAQCARNAX120.7°119.8°
CARNAXCAY119.6°120.0°
CARNAXH22106.9°120.0°
CATCASSAU107.8°109.5°
CASCATCAW113.4°113.0°
CASCATNAN116.9°117.5°
CASSAUCAV97.3°91.3°
CAWCATNAN129.7°129.5°
CATCAWCAV115.1°115.8°
CATCAWH13122.4°122.1°
CATNANNAO128.0°132.8°
CAWCAVSAU106.4°110.3°
CAWCAVH11126.8°124.8°
CAVCAWH13122.5°122.1°
SAUCAVH11126.8°124.9°
CAZCAYNAX113.5°109.5°
CAYCAZCBA125.1°125.2°
CAYCAZSBD124.5°125.2°
CAZCAYH14108.5°109.4°
CAZCAYH15108.4°109.4°
NAXCAYH14108.4°109.5°
NAXCAYH15108.5°109.5°
CAYNAXH22106.9°120.0°
CBACAZSBD110.4°109.6°
CAZCBACBB113.1°114.9°
CAZCBAH17123.5°122.5°
CAZSBDCBC96.0°91.0°
CBACBBCBC113.4°114.9°
CBBCBAH17123.5°122.5°
CBACBBH18123.3°122.6°
CBBCBCSBD107.1°109.6°
CBCCBBH18123.3°122.5°
CBBCBCH20126.5°125.2°
SBDCBCH20126.5°125.2°
NANNAONAP110.9°108.4°
OAJSAIOAL108.9°123.2°
H14CAYH15109.5°109.5°
H5CAGH6109.4°109.5°
H7CAHH8109.5°109.5°
H7CAHH9109.5°109.5°
H8CAHH9109.5°109.5°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)		Torsion
(ideal model)
CABCAACAFSAI179.3°179.7°
CAACABCACH1180.0°179.9°
CAACABCACCAD0.4°0.0°
CABCAACAFCAE0.8°0.1°
CABCAASAICAK124.4°90.0°
CABCAASAIOAJ115.0°156.5°
CABCAASAIOAL3.8°23.5°
CAACABCACH2179.6°180.0°
CABCAACAFH4179.2°180.0°
CAFCAACABCAC0.7°0.0°
CAACAFCAECAD0.7°0.1°
CAACAFCAEH4180.0°180.0°
CAFCAASAICAK56.3°90.3°
CAFCAASAIOAJ64.3°23.2°
CAFCAASAIOAL176.9°156.2°
CAFCAACABH1179.3°180.0°
CAACAFCAEH3179.3°180.0°
SAICAACABCAC180.0°179.7°
SAICAACAFCAE179.9°179.7°
CAASAICAKCAM100.3°90.0°
CAASAICAKNAP75.1°90.3°
CAASAICAKOAJ120.5°113.5°
CAASAICAKOAL120.8°113.5°
CAASAIOAJOAL118.9°123.0°
SAICAACABH10.0°0.2°
SAICAACAFH40.1°0.3°
CABCACCADH2180.0°180.0°
CABCACCADCAE0.2°NaN°
CABCACCADCAG180.0°179.9°
CACCADCAECAG179.7°179.9°
CACCADCAECAF0.4°0.0°
CACCADCAGCAH19.3°90.0°
CADCACCABH1179.6°179.9°
CACCADCAEH3179.6°179.9°
CACCADCAGH5139.4°150.0°
CACCADCAGH6100.9°30.0°
CADCAECAFH3180.0°179.9°
CAECADCAGCAH161.0°90.1°
CAECADCACH2179.7°180.0°
CADCAECAFH4179.3°180.0°
CAECADCAGH540.9°30.0°
CAECADCAGH678.8°150.0°
CAGCADCAECAF179.9°179.9°
CADCAGCAHH5120.1°120.1°
CADCAGCAHH6120.2°119.9°
CAGCADCACH20.0°0.0°
CAGCADCAEH30.1°0.0°
CADCAGH5H6119.6°120.0°
CADCAGCAHH7180.0°60.0°
CADCAGCAHH860.0°180.0°
CADCAGCAHH960.0°59.9°
CAHCAGH5H6119.6°120.0°
CAGCAHH7H8120.0°119.9°
CAGCAHH7H9120.0°120.0°
CAGCAHH8H9120.0°120.1°
CAMCAKNAPSAI176.1°179.7°
CAKCAMNANNAQ179.9°180.0°
CAKCAMNAQCAR176.8°180.0°
CAKCAMNANCAT179.0°180.0°
CAKCAMNANNAO1.0°0.0°
CAMCAKNAPNAO2.8°0.0°
CAMCAKSAIOAJ139.2°23.5°
CAMCAKSAIOAL20.5°156.4°
NAPCAKCAMNAN2.3°0.0°
NAPCAKCAMNAQ177.9°180.0°
CAKNAPNAONAN2.3°0.0°
NAPCAKSAIOAJ45.4°156.2°
NAPCAKSAIOAL164.1°23.2°
SAICAKCAMNAN178.5°179.8°
SAICAKCAMNAQ1.6°0.2°
SAICAKNAPNAO178.9°179.8°
CAKSAIOAJOAL118.6°122.9°
NANCAMNAQCAR3.0°0.0°
CAMNANCATCAS0.1°0.0°
CAMNANCATCAW180.0°180.0°
CAMNANCATNAO180.0°179.9°
CAMNANNAONAP0.8°0.0°
CAMNAQCARCAS4.6°0.0°
CAMNAQCARNAX178.2°180.0°
NAQCAMNANCAT0.8°0.0°
NAQCAMNANNAO179.1°180.0°
CASCARNAQNAX173.5°179.9°
CARCASCATSAU178.4°180.0°
CARCASCATCAW178.4°180.0°
CARCASCATNAN1.6°0.0°
CARCASSAUCAV178.2°180.0°
CASCARNAXCAY173.8°180.0°
CASCARNAXH2252.3°0.0°
NAQCARCASCAT4.0°0.1°
NAQCARCASSAU178.1°179.9°
NAQCARNAXCAY0.0°0.0°
NAQCARNAXH22121.5°179.9°
NAXCARCASCAT177.7°180.0°
NAXCARCASSAU4.4°0.0°
CARNAXCAYCAZ101.1°180.0°
CARNAXCAYH22121.4°180.0°
CARNAXCAYH14138.3°60.0°
CARNAXCAYH1519.5°60.1°
CASCATCAWNAN179.9°180.0°
CASCATCAWCAV0.1°0.1°
CATCASSAUCAV0.1°0.0°
CASCATNANNAO179.9°180.0°
CASCATCAWH13179.9°180.0°
SAUCASCATCAW0.1°0.0°
SAUCASCATNAN180.0°180.0°
CASSAUCAVCAW0.0°0.0°
CASSAUCAVH11180.0°180.0°
CATCAWCAVH13180.0°179.9°
CATCAWCAVSAU0.0°0.0°
CAWCATNANNAO0.0°0.0°
CATCAWCAVH11180.0°180.0°
NANCATCAWCAV180.0°179.9°
CATNANNAONAP179.2°179.9°
NANCATCAWH130.0°0.0°
CAWCAVSAUH11180.0°180.0°
SAUCAVCAWH13180.0°180.0°
CAZCAYNAXH14120.6°120.0°
CAZCAYNAXH15120.6°119.9°
CAYCAZCBASBD179.2°179.8°
CAYCAZCBACBB179.3°180.0°
CAYCAZSBDCBC179.2°179.9°
CAZCAYH14H15118.2°119.9°
CAYCAZCBAH170.7°0.0°
CAZCAYNAXH22137.5°0.0°
NAXCAYCAZCBA128.4°90.0°
NAXCAYCAZSBD52.5°90.3°
NAXCAYH14H15118.2°120.1°
CAZCBACBBH17180.0°180.0°
CAZCBACBBCBC0.2°0.1°
CBACAZSBDCBC0.0°0.3°
CBACAZCAYH147.9°150.0°
CBACAZCAYH15111.0°30.0°
CAZCBACBBH18179.8°180.0°
SBDCAZCBACBB0.1°0.2°
CAZSBDCBCCBB0.1°0.2°
SBDCAZCAYH14173.1°29.8°
SBDCAZCAYH1568.1°149.7°
SBDCAZCBAH17179.9°179.8°
CAZSBDCBCH20179.9°179.8°
CBACBBCBCH18180.0°179.9°
CBACBBCBCSBD0.2°0.1°
CBACBBCBCH20179.8°179.9°
CBBCBCSBDH20180.0°179.9°
CBCCBBCBAH17179.8°180.0°
SBDCBCCBBH18179.8°179.8°
H1CABCACH20.4°0.1°
H3CAECAFH40.7°0.1°
H11CAVCAWH130.0°0.0°
H14CAYNAXH2216.9°120.0°
H15CAYNAXH22102.0°120.0°
H17CBACBBH180.2°0.0°
H18CBBCBCH200.2°0.2°
H5CAGCAHH759.9°60.0°
H5CAGCAHH8179.9°59.9°
H5CAGCAHH960.1°180.0°
H6CAGCAHH759.8°180.0°
H6CAGCAHH860.2°60.1°
H6CAGCAHH9179.8°60.0°
H7CAHH8H9120.0°120.0°

246704

PDB entries from 2025-12-24

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