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

YDZ

Bonds
First atomSecond atomBond order typeDistance
(experimental model)
Distance
(ideal model)
Properties
O11P3doub1.48Å1.51Å
O12P3sing1.61Å1.61Å
O12C16sing1.43Å1.43Å
P3O9sing1.61Å1.61Å
P3O10sing1.61Å1.51Å
O9P2sing1.61Å1.61Å
C16C17sing1.53Å1.53Å
C22N7sing1.46Å1.49Å
C18O14sing1.43Å1.43Å
C18C19sing1.55Å1.52Å
C18C17sing1.54Å1.53Å
O5P1doub1.48Å1.51Å
O7P2sing1.61Å1.61Å
O7P1sing1.61Å1.61Å
C20O15sing1.43Å1.43Å
C19O15sing1.43Å1.43Å
C19C21sing1.55Å1.53Å
C2N7doub1.30Å1.34ÅAromatic
C2N6sing1.36Å1.34ÅAromatic
C17O13sing1.44Å1.43Å
N7C4sing1.36Å1.34ÅAromatic
P2S1sing2.12Å2.07Å
P2O8doub1.48Å1.48Å
P1O6sing1.61Å1.51Å
P1O4sing1.61Å1.61Å
N3C7doub1.32Å1.35ÅAromatic
N3C8sing1.33Å1.36ÅAromatic
O1C11sing1.44Å1.43Å
O1C14sing1.44Å1.43Å
C7N2sing1.32Å1.35ÅAromatic
C11N5sing1.47Å1.49Å
C11C12sing1.55Å1.53Å
O2C12sing1.43Å1.43Å
N6C21sing1.46Å1.49Å
N6C3sing1.37Å1.34ÅAromatic
O16C5sing1.35Å1.36Å
C4C5doub1.40Å1.40ÅAromatic
C4C3sing1.41Å1.38ÅAromatic
O13C21sing1.44Å1.43Å
C14C13sing1.54Å1.53Å
C14C15sing1.53Å1.53Å
C8N5sing1.37Å1.34ÅAromatic
C8C9doub1.40Å1.39ÅAromatic
N5C10sing1.36Å1.34ÅAromatic
N2C6doub1.33Å1.36ÅAromatic
O3C13sing1.43Å1.43Å
C5N10sing1.33Å1.36ÅAromatic
C3N8doub1.33Å1.36ÅAromatic
C12C13sing1.55Å1.52Å
O4C15sing1.43Å1.43Å
C9C6sing1.41Å1.39ÅAromatic
C9N4sing1.35Å1.35ÅAromatic
C6N1sing1.38Å1.49Å
C10N4doub1.30Å1.35ÅAromatic
N10C1doub1.33Å1.36ÅAromatic
N8C1sing1.32Å1.36ÅAromatic
C1N9sing1.39Å1.36Å
C2H1sing1.08Å1.08Å
N1H2sing0.97Å1.00Å
N1H3sing0.97Å1.00Å
C7H4sing1.08Å1.08Å
C10H5sing1.08Å1.08Å
C11H6sing1.09Å1.10Å
C12H7sing1.09Å1.10Å
O2H8sing0.97Å0.95Å
C13H9sing1.09Å1.10Å
O3H10sing0.97Å0.95Å
C14H11sing1.09Å1.10Å
C15H12sing1.09Å1.10Å
C15H13sing1.09Å1.10Å
O6H14sing0.97Å0.95Å
S1H15sing1.34Å1.30Å
O10H16sing0.97Å0.95Å
C16H17sing1.09Å1.10Å
C16H18sing1.09Å1.10Å
C17H19sing1.09Å1.10Å
C18H20sing1.09Å1.10Å
O14H21sing0.97Å0.95Å
C19H22sing1.09Å1.10Å
C20H23sing1.09Å1.10Å
C20H24sing1.09Å1.10Å
C20H25sing1.09Å1.10Å
C21H26sing1.09Å1.10Å
C22H27sing1.09Å1.10Å
C22H28sing1.09Å1.10Å
C22H29sing1.09Å1.10Å
N9H30sing0.97Å1.00Å
N9H31sing0.97Å1.00Å
O16H32sing0.97Å0.95Å
Angles
First atomSecond atomThird atomAngle
(experimental model)
Angle
(ideal model)
O11P3O12108.9°109.5°
O11P3O9109.0°109.5°
O11P3O10110.2°109.5°
P3O12C16122.5°123.0°
O12P3O9108.1°109.5°
O12P3O10109.5°109.5°
O12C16C17111.8°109.5°
O12C16H17108.9°109.5°
O12C16H18108.9°109.4°
O9P3O10111.0°109.5°
P3O9P2123.8°134.0°
P3O10H16109.5°114.0°
O9P2O7109.2°109.4°
O9P2S1108.3°109.5°
O9P2O8110.7°109.5°
C16C17C18113.1°109.9°
C16C17O13109.3°109.9°
C17C16H17108.9°109.5°
C17C16H18108.9°109.5°
C16C17H19108.5°109.9°
C22N7C2125.3°125.2°
C22N7C4128.2°125.3°
N7C22H27109.5°109.5°
N7C22H28109.5°109.5°
N7C22H29109.5°109.5°
O14C18C19112.4°110.4°
O14C18C17110.3°110.5°
O14C18H20110.0°110.4°
C18O14H21109.5°114.0°
C19C18C17106.3°104.2°
C18C19O15112.6°110.9°
C18C19C21106.0°102.1°
C19C18H20108.9°110.5°
C18C19H22108.9°110.9°
C18C17O13107.6°107.3°
C18C17H19108.5°110.0°
C17C18H20108.8°110.7°
O5P1O7108.7°109.5°
O5P1O6110.2°109.4°
O5P1O4109.5°109.5°
P2O7P1121.7°134.0°
O7P2S1109.7°109.4°
O7P2O8109.9°109.5°
O7P1O6109.0°109.5°
O7P1O4110.4°109.5°
C20O15C19113.2°114.0°
O15C20H23109.5°109.5°
O15C20H24109.5°109.5°
O15C20H25109.4°109.5°
O15C19C21110.2°110.9°
O15C19H22110.1°110.8°
C19C21N6110.8°110.6°
C19C21O13107.8°103.5°
C21C19H22108.8°110.9°
C19C21H26108.7°110.6°
N7C2N6109.8°110.0°
C2N7C4106.5°109.5°
N7C2H1125.1°125.0°
C2N6C21126.2°126.3°
C2N6C3108.2°107.4°
N6C2H1125.1°125.0°
C17O13C21111.9°107.0°
O13C17H19109.8°109.9°
N7C4C5129.8°134.6°
N7C4C3109.2°107.1°
S1P2O8109.0°109.5°
P2S1H15102.0°103.0°
O6P1O4109.0°109.4°
P1O6H14109.5°113.9°
P1O4C15121.7°123.0°
C7N3C8120.6°120.6°
N3C7N2120.9°122.5°
N3C7H4119.5°118.8°
N3C8N5132.9°134.9°
N3C8C9119.4°119.1°
C11O1C14111.8°107.0°
O1C11N5111.1°110.6°
O1C11C12107.5°103.5°
O1C11H6109.8°110.8°
O1C14C13107.3°107.3°
O1C14C15109.7°109.9°
O1C14H11109.3°109.9°
C7N2C6120.8°121.2°
N2C7H4119.6°118.7°
N5C11C12110.7°110.6°
C11N5C8124.9°126.3°
C11N5C10126.9°126.3°
N5C11H6109.1°110.6°
C11C12O2110.5°110.9°
C11C12C13106.1°102.1°
C12C11H6108.6°110.6°
C11C12H7108.8°110.9°
O2C12C13112.3°110.9°
O2C12H7110.1°110.8°
C12O2H8109.5°114.0°
C21N6C3125.5°126.3°
N6C21O13110.2°110.6°
N6C21H26109.2°110.7°
N6C3C4106.3°106.0°
N6C3N8134.6°134.8°
O16C5C4122.4°120.6°
O16C5N10119.8°120.7°
C5O16H32109.5°114.0°
C5C4C3121.1°118.3°
C4C5N10117.8°118.6°
C4C3N8119.1°119.2°
O13C21H26110.0°110.6°
C13C14C15114.4°109.8°
C14C13O3110.3°110.6°
C14C13C12106.1°104.2°
C14C13H9108.9°110.5°
C13C14H11108.0°109.9°
C14C15O4110.0°109.4°
C15C14H11108.0°110.0°
C14C15H12109.3°109.5°
C14C15H13109.3°109.5°
N5C8C9107.6°106.0°
C8N5C10108.2°107.4°
C8C9C6119.1°118.1°
C8C9N4107.4°107.2°
N5C10N4109.1°110.0°
N5C10H5125.5°125.0°
N2C6C9119.2°118.5°
N2C6N1120.5°120.8°
O3C13C12112.3°110.5°
O3C13H9110.2°110.4°
C13O3H10109.5°113.9°
C5N10C1121.0°121.2°
C3N8C1120.0°120.5°
C13C12H7108.8°110.9°
C12C13H9109.0°110.5°
O4C15H12109.3°109.4°
O4C15H13109.4°109.5°
C6C9N4133.6°134.7°
C9C6N1120.3°120.8°
C9N4C10107.7°109.4°
C6N1H2109.5°120.0°
C6N1H3109.4°120.0°
N4C10H5125.4°125.0°
N10C1N8121.0°122.2°
N10C1N9119.5°118.9°
N8C1N9119.5°118.9°
C1N9H30109.5°120.0°
C1N9H31109.5°119.9°
H2N1H3109.5°120.0°
H12C15H13109.5°109.5°
H17C16H18109.5°109.4°
H23C20H24109.5°109.4°
H23C20H25109.5°109.4°
H24C20H25109.4°109.4°
H27C22H28109.4°109.4°
H27C22H29109.5°109.5°
H28C22H29109.5°109.5°
H30N9H31109.5°120.1°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)
Torsion
(ideal model)
O11P3O12O9118.3°120.0°
O11P3O12O10120.6°120.0°
O11P3O12C16159.2°55.0°
O11P3O9O10121.6°120.0°
O11P3O9P297.1°45.0°
O11P3O10H160.0°180.0°
O12P3O9O10120.1°120.0°
O12P3O9P2144.6°165.0°
P3O12C16C1768.0°180.0°
O12P3O10H16119.8°60.0°
P3O12C16H1752.3°60.0°
P3O12C16H18171.6°60.0°
C16O12P3O982.4°175.0°
C16O12P3O1038.7°65.0°
O12C16C17H17120.4°120.0°
O12C16C17H18120.4°120.0°
O12C16C17C1857.0°175.7°
O12C16C17O13176.8°66.5°
O12C16H17H18118.9°120.0°
O12C16C17H1963.5°54.6°
P3O9P2O764.7°179.9°
P3O9P2S1175.8°60.0°
P3O9P2O856.5°60.1°
O9P3O10H16120.9°60.0°
O10P3O9P224.5°75.0°
O9P2O7S1118.6°120.0°
O9P2O7O8121.6°120.0°
O9P2O7P1176.6°179.9°
O9P2S1O8120.4°120.0°
O9P2S1H15120.4°60.0°
C16C17C18O14113.7°119.9°
C16C17C18C19124.2°121.5°
C16C17C18O13120.8°119.4°
C16C17C18H19120.4°121.1°
C16C17O13H19118.9°121.1°
C16C17O13C21129.1°145.9°
C17C16H17H18118.9°120.0°
C16C17C18H207.1°2.7°
C22N7C2C4179.8°179.8°
C22N7C2N6179.9°179.9°
C22N7C4C50.2°0.2°
C22N7C4C3180.0°179.9°
C22N7C2H10.1°0.1°
N7C22H27H28120.0°120.0°
N7C22H27H29120.0°120.0°
N7C22H28H29120.0°120.1°
O14C18C19C17120.8°118.7°
O14C18C19H20122.2°122.4°
O14C18C17H20120.8°122.6°
O14C18C19O150.1°20.4°
O14C18C19C21120.7°97.8°
O14C18C17O13125.4°120.7°
O14C18C17H196.7°1.2°
O14C18C19H22122.4°144.0°
C19C18C17H20117.1°118.8°
C18C19O15C2091.6°91.5°
C18C19O15C21118.2°112.7°
C18C19O15H22121.7°123.6°
C18C19C21H22117.0°118.2°
C19C18C17O133.4°2.1°
C18C19C21N6124.3°155.5°
C18C19C21O133.5°37.0°
C19C18C17H19115.4°117.4°
C19C18O14H21180.0°180.0°
C18C19C21H26115.7°81.5°
C17C18C19O15120.7°139.1°
C17C18C19C210.1°20.9°
C18C17O13H19117.9°119.5°
C18C17O13C215.9°26.5°
C18C17C16H17177.3°64.3°
C18C17C16H1863.4°55.7°
C17C18O14H2161.6°65.3°
C17C18C19H22116.9°97.3°
O5P1O7P2138.7°39.9°
O5P1O7O6120.2°120.0°
O5P1O7O4120.2°120.0°
O5P1O6O4120.2°120.0°
O5P1O4C1525.1°54.9°
O5P1O6H140.0°180.0°
O7P2S1O8120.4°120.0°
P2O7P1O6101.1°80.1°
P2O7P1O418.6°160.0°
O7P2S1H15120.4°60.0°
P1O7P2S158.0°60.1°
P1O7P2O861.8°60.0°
O7P1O6O4120.5°120.0°
O7P1O4C15144.8°175.0°
O7P1O6H14119.3°60.0°
C20O15C19C21150.2°155.8°
C20O15C19H2230.2°32.2°
O15C20H23H24120.0°120.0°
O15C20H23H25120.0°120.1°
O15C20H24H25119.9°120.1°
O15C19C21H22120.9°123.6°
O15C19C21N6113.6°86.3°
O15C19C21O13125.7°155.2°
O15C19C18H20122.2°102.0°
C19O15C20H23180.0°60.0°
C19O15C20H2460.0°60.0°
C19O15C20H2560.0°180.0°
O15C19C21H266.5°36.8°
C19C21N6C285.2°90.5°
C19C21O13C175.9°40.1°
C19C21N6O13119.3°114.0°
C19C21N6H26119.7°123.0°
C19C21N6C394.7°89.6°
C19C21O13H26118.4°118.5°
C21C19C18H20117.1°139.7°
N7C2N6H1180.0°180.0°
N7C2N6C21179.9°180.0°
N7C2N6C30.0°0.1°
C2N7C4C5180.0°179.6°
C2N7C4C30.1°0.1°
C2N7C22H27180.0°90.0°
C2N7C22H2860.0°150.0°
C2N7C22H2960.0°30.0°
N6C2N7C40.1°0.1°
C2N6C21C3179.9°179.9°
C2N6C3C40.1°0.0°
C2N6C21O1334.1°23.6°
C2N6C3N8179.9°180.0°
C2N6C21H26155.1°146.5°
C17O13C21N6127.1°158.5°
O13C17C16H1762.8°53.5°
O13C17C16H1856.5°173.5°
O13C17C18H20113.8°116.7°
C17O13C21H26112.5°78.4°
N7C4C3N60.1°0.1°
N7C4C5O160.1°0.3°
N7C4C5C3179.8°179.7°
N7C4C5N10179.9°180.0°
N7C4C3N8180.0°179.9°
C4N7C2H1179.9°179.9°
C4N7C22H270.1°90.2°
C4N7C22H28119.8°29.8°
C4N7C22H29120.2°149.8°
O8P2S1H150.0°180.0°
O6P1O4C1595.5°65.0°
P1O4C15C1486.6°180.0°
P1O4C15H12153.3°60.0°
P1O4C15H1333.5°60.0°
O4P1O6H14120.2°60.0°
N3C7N2H4180.0°180.0°
C7N3C8N5180.0°180.0°
C7N3C8C90.0°0.2°
N3C7N2C60.0°0.0°
C8N3C7N20.0°0.0°
N3C8N5C110.0°0.0°
N3C8N5C9180.0°179.8°
N3C8N5C10180.0°179.9°
N3C8C9C60.0°0.5°
N3C8C9N4180.0°180.0°
C8N3C7H4180.0°180.0°
O1C11N5C12119.4°114.0°
O1C11N5H6121.2°123.1°
O1C11C12H6118.8°118.7°
O1C11C12O2126.3°155.3°
C11O1C14C1311.5°26.6°
C11O1C14C15136.4°145.9°
O1C11N5C8165.0°161.0°
O1C11N5C1015.0°19.0°
O1C11C12C134.3°37.0°
O1C11C12H7112.7°81.1°
C11O1C14H11105.4°92.9°
C14O1C11N5131.3°158.6°
C14O1C11C1210.0°40.1°
O1C14C13C15122.0°119.4°
O1C14C13H11117.7°119.5°
O1C14C15H11119.0°121.2°
O1C14C13O3130.0°120.8°
O1C14C13C128.2°2.1°
O1C14C15O4126.2°66.5°
C14O1C11H6108.0°78.5°
O1C14C13H9108.9°116.6°
O1C14C15H12113.7°173.6°
O1C14C15H136.1°53.5°
C7N2C6C90.0°0.3°
C7N2C6N1180.0°180.0°
N5C11C12H6119.7°122.8°
N5C11C12O2112.1°86.3°
C11N5C8C10180.0°179.9°
C11N5C8C9180.0°179.8°
N5C11C12C13125.9°155.5°
C11N5C10N4180.0°179.8°
C11N5C10H50.0°0.0°
N5C11C12H78.8°37.3°
C11C12O2C13118.3°112.7°
C11C12O2H7120.2°123.7°
C11C12C13C142.3°20.9°
C12C11N5C875.6°85.0°
C12C11N5C10104.4°95.1°
C11C12C13O3122.9°97.9°
C11C12C13H7117.0°118.2°
C11C12O2H8180.0°180.0°
C11C12C13H9114.7°139.6°
O2C12C13C14118.5°139.1°
O2C12C13O32.0°20.3°
O2C12C13H7122.1°123.6°
O2C12C11H67.5°36.6°
O2C12C13H9124.4°102.2°
C21N6C3C4180.0°179.9°
N6C21O13H26120.5°123.0°
C21N6C3N80.1°0.1°
C21N6C2H10.1°0.1°
N6C21C19H227.3°37.3°
N6C3C4C5180.0°179.7°
N6C3C4N8179.9°180.0°
C3N6C21O13146.0°156.3°
N6C3N8C1179.9°179.9°
C3N6C2H1180.0°180.0°
C3N6C21H2625.0°33.3°
O16C5C4N10180.0°179.7°
O16C5C4C3179.9°180.0°
O16C5N10C1180.0°179.8°
C5C4C3N80.1°0.3°
C4C5N10C10.0°0.0°
C4C5O16H32180.0°90.0°
C3C4C5N100.1°0.3°
C4C3N8C10.1°0.0°
C21O13C17H19112.1°93.0°
O13C21C19H22113.5°81.2°
C13C14C15H11120.3°121.1°
C14C13O3C12118.1°114.8°
C14C13O3H9120.2°122.7°
C14C13C12H9117.1°118.7°
C13C14C15O4113.1°175.7°
C14C13C12H7119.3°97.3°
C14C13O3H10180.0°176.2°
C13C14C15H127.0°55.8°
C13C14C15H13126.8°64.3°
C15C14C13O3107.9°119.8°
C15C14C13C12130.2°121.5°
C14C15O4H12120.1°120.0°
C14C15O4H13120.1°120.0°
C15C14C13H913.1°2.8°
C14C15H12H13119.7°120.1°
N5C8C9C6180.0°179.6°
N5C8C9N40.0°0.2°
C8N5C10N40.0°0.3°
C8N5C10H5180.0°179.9°
C8N5C11H643.8°37.9°
C9C8N5C100.0°0.3°
C8C9C6N20.0°0.6°
C8C9C6N4180.0°179.3°
C8C9C6N1180.0°179.8°
C8C9N4C100.0°0.0°
N5C10N4C90.0°0.2°
N5C10N4H5180.0°179.8°
C10N5C11H6136.3°142.0°
N2C6C9N1180.0°179.7°
N2C6C9N4180.0°179.8°
N2C6N1H20.0°0.0°
N2C6N1H3120.0°180.0°
C6N2C7H4180.0°179.9°
O3C13C12H9122.4°122.5°
O3C13C12H7120.1°143.9°
O3C13C14H1112.3°1.3°
C5N10C1N80.0°0.2°
C5N10C1N9180.0°180.0°
N10C5O16H320.0°89.7°
C3N8C1N100.0°0.2°
C3N8C1N9180.0°180.0°
C13C12C11H6114.5°81.7°
C13C12O2H861.7°67.3°
C12C13O3H1062.0°61.4°
C12C13C14H11109.5°117.4°
O4C15C14H117.2°54.6°
O4C15H12H13119.8°120.0°
C6C9N4C10180.0°179.3°
C9C6N1H2180.0°179.7°
C9C6N1H360.0°0.3°
N4C9C6N10.0°0.5°
C9N4C10H5180.0°180.0°
C6N1H2H3120.0°180.0°
N10C1N8N9180.0°179.7°
N10C1N9H300.0°179.8°
N10C1N9H31120.0°0.3°
N8C1N9H30180.0°0.0°
N8C1N9H3160.0°180.0°
C1N9H30H31120.0°179.9°
H6C11C12H7128.5°160.2°
H7C12O2H859.8°56.3°
H7C12C13H92.3°21.4°
H9C13O3H1059.7°61.1°
H9C13C14H11133.3°123.9°
H11C14C15H12127.3°65.3°
H11C14C15H13112.9°174.6°
H17C16C17H1956.9°174.6°
H18C16C17H19176.2°65.4°
H19C17C18H20127.5°123.8°
H20C18O14H2158.5°57.5°
H20C18C19H220.2°21.6°
H22C19C21H26127.3°160.3°
H23C20H24H25120.0°119.9°
H27C22H28H29120.0°120.0°

222624

PDB entries from 2024-07-17

PDB statisticsPDBj update infoContact PDBjnumon