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

VPD

Bonds
First atomSecond atomBond order typeDistance
(experimental model)
Distance
(ideal model)
Properties
O1P2doub1.48Å1.48Å
O3P2sing1.61Å1.60Å
P2O4sing1.61Å1.60Å
P2C5sing1.82Å1.82Å
C8C5sing1.53Å1.54Å
C8O9sing1.43Å1.42Å
C5C6sing1.53Å1.54Å
C5O11sing1.43Å1.43Å
C10O9sing1.43Å1.43Å
C28C27sing1.55Å1.54Å
C28C24sing1.54Å1.51Å
C27C26sing1.55Å1.55Å
C6O7sing1.43Å1.43Å
C26C25sing1.54Å1.55Å
C25C24sing1.54Å1.54Å
O11C12sing1.43Å1.43Å
C24N23sing1.47Å1.47Å
C12C13sing1.53Å1.51Å
C20N19doub1.30Å1.30ÅAromatic
C20C21sing1.41Å1.42ÅAromatic
N19N18sing1.40Å1.39ÅAromatic
O15C13sing1.44Å1.44Å
O15C16sing1.44Å1.44Å
N23C22sing1.38Å1.38Å
C13C37sing1.54Å1.53Å
C21C22doub1.41Å1.44ÅAromatic
C21C33sing1.41Å1.42ÅAromatic
C37O39sing1.43Å1.42Å
C37C34sing1.55Å1.52Å
N18C16sing1.47Å1.44Å
N18C33sing1.36Å1.35ÅAromatic
C22N29sing1.33Å1.34ÅAromatic
C16C34sing1.55Å1.55Å
C33N32doub1.33Å1.34ÅAromatic
C34O36sing1.43Å1.43Å
N29C30doub1.32Å1.33ÅAromatic
N32C30sing1.32Å1.32ÅAromatic
C30CL31sing1.74Å1.73Å
C6H1sing1.09Å1.10Å
C6H2sing1.09Å1.10Å
C8H3sing1.09Å1.10Å
C8H4sing1.09Å1.10Å
C12H5sing1.09Å1.10Å
C12H6sing1.09Å1.10Å
C16H7sing1.09Å1.10Å
C24H8sing1.09Å1.10Å
C27H9sing1.09Å1.10Å
C27H10sing1.09Å1.10Å
C34H11sing1.09Å1.10Å
C37H12sing1.09Å1.10Å
O3H13sing0.97Å0.95Å
O4H14sing0.97Å0.95Å
O7H15sing0.97Å0.95Å
C10H16sing1.09Å1.10Å
C10H17sing1.09Å1.10Å
C10H18sing1.09Å1.10Å
C13H19sing1.09Å1.10Å
C20H20sing1.08Å1.08Å
N23H21sing0.97Å1.00Å
C25H22sing1.09Å1.10Å
C25H23sing1.09Å1.10Å
C26H24sing1.09Å1.10Å
C26H25sing1.09Å1.10Å
C28H26sing1.09Å1.10Å
C28H27sing1.09Å1.10Å
O36H28sing0.97Å0.95Å
O39H29sing0.97Å0.95Å
Angles
First atomSecond atomThird atomAngle
(experimental model)
Angle
(ideal model)
O1P2O3109.6°109.5°
O1P2O4111.8°109.5°
O1P2C5105.7°109.5°
O3P2O4107.6°109.5°
O3P2C5111.1°109.5°
P2O3H13109.5°114.0°
O4P2C5111.1°109.4°
P2O4H14109.5°114.0°
P2C5C8107.9°109.5°
P2C5C6109.3°109.5°
P2C5O11108.2°109.5°
C5C8O9112.0°109.4°
C8C5C6110.1°109.5°
C8C5O11114.0°109.4°
C5C8H3108.8°109.5°
C5C8H4108.8°109.5°
C8O9C10112.7°113.9°
O9C8H3108.8°109.4°
O9C8H4108.9°109.5°
C6C5O11107.2°109.5°
C5C6O7111.3°109.5°
C5C6H1109.0°109.5°
C5C6H2109.0°109.4°
C5O11C12119.6°114.0°
O9C10H16109.5°109.5°
O9C10H17109.4°109.5°
O9C10H18109.5°109.4°
C27C28C24103.2°104.1°
C28C27C26103.0°102.8°
C28C27H9111.0°110.7°
C28C27H10111.0°110.9°
C27C28H26111.0°110.5°
C27C28H27111.0°110.5°
C28C24C25100.8°106.7°
C28C24N23106.9°110.0°
C28C24H8111.0°110.0°
C24C28H26111.0°110.4°
C24C28H27111.0°110.5°
C27C26C25105.2°104.2°
C26C27H9111.1°110.7°
C26C27H10111.1°110.8°
C27C26H24110.5°110.5°
C27C26H25110.5°110.5°
O7C6H1109.0°109.5°
O7C6H2109.0°109.5°
C6O7H15109.5°114.0°
C26C25C24105.7°106.6°
C26C25H22110.4°110.0°
C26C25H23110.4°110.0°
C25C26H24110.5°110.5°
C25C26H25110.5°110.5°
C25C24N23115.4°110.0°
C25C24H8110.6°110.0°
C24C25H22110.4°110.1°
C24C25H23110.4°110.1°
O11C12C13111.2°109.5°
O11C12H5109.0°109.5°
O11C12H6109.0°109.5°
C24N23C22123.5°120.0°
N23C24H8111.6°110.0°
C24N23H21105.8°119.9°
C12C13O15113.8°109.9°
C12C13C37106.4°109.9°
C13C12H5109.0°109.4°
C13C12H6109.1°109.5°
C12C13H19110.8°109.8°
N19C20C21109.7°108.5°
C20N19N18108.5°109.7°
N19C20H20125.1°125.8°
C20C21C22138.2°134.6°
C20C21C33105.5°107.1°
C21C20H20125.2°125.8°
N19N18C16127.1°125.9°
N19N18C33109.9°108.3°
C13O15C16104.7°106.9°
O15C13C37103.0°107.3°
O15C13H19111.9°110.0°
O15C16N18110.5°110.7°
O15C16C34108.0°103.5°
O15C16H7110.9°110.7°
N23C22C21126.1°120.8°
N23C22N29115.6°120.8°
C22N23H21105.9°120.0°
C13C37O39110.0°110.5°
C13C37C3499.2°104.2°
C13C37H12110.9°110.6°
C37C13H19110.5°109.9°
C22C21C33116.3°118.3°
C21C22N29118.3°118.4°
C21C33N18106.5°106.5°
C21C33N32120.8°118.9°
O39C37C34112.6°110.5°
O39C37H12112.4°110.4°
C37O39H29109.5°114.1°
C37C34C16101.4°102.0°
C37C34O36110.9°110.9°
C37C34H11110.8°110.9°
C34C37H12110.9°110.5°
C16N18C33122.9°125.8°
N18C16C34106.9°110.6°
N18C16H7110.9°110.6°
N18C33N32132.8°134.6°
C22N29C30122.5°121.2°
C16C34O36110.6°110.9°
C34C16H7109.4°110.7°
C16C34H11110.4°110.9°
C33N32C30120.3°120.7°
O36C34H11112.2°110.9°
C34O36H28109.5°114.0°
N29C30N32121.9°122.6°
N29C30CL31119.2°118.7°
N32C30CL31118.9°118.7°
H1C6H2109.4°109.5°
H3C8H4109.5°109.5°
H5C12H6109.5°109.5°
H9C27H10109.5°110.7°
H16C10H17109.5°109.5°
H16C10H18109.5°109.4°
H17C10H18109.5°109.5°
H22C25H23109.5°110.0°
H24C26H25109.5°110.5°
H26C28H27109.4°110.6°
Dihedrals
First atomSecond atomThird atomFourth atomTorsion
(experimental model)
Torsion
(ideal model)
O1P2O3O4121.7°120.0°
O1P2O3C5116.4°120.0°
O1P2O4C5117.8°120.0°
O1P2C5C864.5°168.0°
O1P2C5C655.2°72.0°
O1P2C5O11171.7°48.0°
O1P2O3H130.0°180.0°
O1P2O4H140.0°60.1°
O3P2O4C5121.8°120.0°
O3P2C5C854.3°72.1°
O3P2C5C6174.0°47.9°
O3P2C5O1169.5°168.0°
O3P2O4H14120.4°60.0°
O4P2C5C8174.1°47.9°
O4P2C5C666.2°167.9°
O4P2C5O1150.3°72.0°
O4P2O3H13121.7°59.9°
P2C5C8C6119.2°120.0°
P2C5C8O11120.2°120.0°
P2C5C8O9175.7°65.0°
P2C5C6O11117.1°120.1°
P2C5C6O755.2°175.0°
P2C5O11C1282.7°58.6°
P2C5C6H1175.4°55.0°
P2C5C6H265.1°65.0°
P2C5C8H364.0°175.0°
P2C5C8H455.2°55.0°
C5P2O3H13116.4°60.1°
C5P2O4H14117.9°179.9°
C5C8O9H3120.4°120.0°
C5C8O9H4120.4°120.0°
C8C5C6O11124.6°119.9°
C5C8O9C10178.7°180.0°
C8C5C6O7173.5°55.0°
C8C5O11C1237.3°61.4°
C8C5C6H166.2°65.0°
C8C5C6H253.2°175.0°
C5C8H3H4118.8°120.1°
O9C8C5C656.5°55.0°
O9C8C5O1164.1°175.0°
O9C8H3H4118.9°120.0°
C8O9C10H16180.0°60.1°
C8O9C10H1760.0°60.0°
C8O9C10H1860.0°180.0°
C5C6O7H1120.3°120.0°
C5C6O7H2120.3°120.0°
C6C5O11C12159.5°178.7°
C5C6H1H2119.2°120.0°
C6C5C8H3176.8°64.9°
C6C5C8H463.9°175.0°
C5C6O7H15180.0°180.0°
O11C5C6O761.9°64.9°
C5O11C12C13175.5°174.9°
O11C5C6H158.3°175.0°
O11C5C6H2177.8°55.0°
O11C5C8H356.3°55.0°
O11C5C8H4175.5°65.0°
C5O11C12H555.3°65.1°
C5O11C12H664.2°54.9°
C10O9C8H360.9°60.0°
C10O9C8H458.3°60.0°
O9C10H16H17120.0°120.1°
O9C10H16H18120.0°119.9°
O9C10H17H18120.0°120.0°
C27C28C24H26119.0°118.6°
C27C28C24H27119.0°118.7°
C28C27C26H9119.0°118.3°
C28C27C26H10119.0°118.5°
C28C27C26C2518.0°37.9°
C27C28C24C2547.1°23.5°
C27C28C24N2373.8°142.9°
C27C28C24H8164.3°95.8°
C28C27H9H10123.0°123.4°
C28C27C26H24137.3°80.8°
C28C27C26H25101.3°156.7°
C27C28H26H27122.9°122.7°
C24C28C27C2640.9°37.9°
C28C24C25C2635.4°0.0°
C28C24C25N23114.6°119.3°
C28C24C25H8117.4°119.3°
C28C24N23H8121.5°121.4°
C28C24N23C2298.5°87.1°
C24C28C27H978.1°80.5°
C24C28C27H10159.9°156.3°
C28C24N23H2123.4°92.9°
C28C24C25H22154.8°119.2°
C28C24C25H2384.1°119.3°
C24C28H26H27122.9°122.7°
C27C26C25H24119.3°118.7°
C27C26C25H25119.3°118.7°
C27C26C25C2410.6°23.6°
C26C27H9H10123.0°123.3°
C27C26C25H22130.0°95.7°
C27C26C25H23108.9°142.9°
C27C26H24H25122.0°122.6°
C26C27C28H2678.1°80.7°
C26C27C28H27159.9°156.6°
O7C6H1H2119.1°120.0°
C26C25C24H22119.4°119.3°
C26C25C24H23119.4°119.3°
C26C25C24N2379.3°119.3°
C26C25C24H8152.8°119.3°
C25C26C27H9100.9°80.4°
C25C26C27H10137.0°156.4°
C26C25H22H23121.8°121.4°
C25C26H24H25122.0°122.6°
C25C24N23H8127.4°121.4°
C25C24N23C22150.4°155.6°
C25C24N23H2187.7°24.3°
C24C25H22H23121.7°121.5°
C24C25C26H24108.8°95.1°
C24C25C26H25129.9°142.3°
C25C24C28H2671.9°95.1°
C25C24C28H27166.1°142.2°
O11C12C13H5120.3°120.0°
O11C12C13H6120.3°120.0°
O11C12C13O1566.7°67.1°
O11C12C13C37179.4°175.0°
O11C12H5H6119.2°120.1°
O11C12C13H1960.4°54.0°
C24N23C22H21121.9°180.0°
C24N23C22C2121.1°180.0°
C24N23C22N29157.3°0.1°
N23C24C25H2240.1°121.4°
N23C24C25H23161.3°0.0°
N23C24C28H26167.2°24.3°
N23C24C28H2745.2°98.5°
C12C13O15C37114.7°119.5°
C12C13O15H19126.5°121.0°
C12C13O15C16155.4°146.0°
C12C13C37H19120.4°121.0°
C12C13C37O3972.8°119.9°
C12C13C37C34168.9°121.5°
C13C12H5H6119.2°119.9°
C12C13C37H1252.2°2.7°
N19C20C21H20180.0°179.5°
N19C20C21C22179.8°180.0°
N19C20C21C330.2°0.4°
C20N19N18C16178.2°179.7°
C20N19N18C330.6°0.3°
C21C20N19N180.5°0.4°
C20C21C22N231.9°0.4°
C20C21C22C33179.6°179.6°
C20C21C33N180.1°0.2°
C20C21C22N29179.8°179.6°
C20C21C33N32179.9°179.8°
N19N18C16O1533.7°39.1°
N19N18C33C210.4°0.0°
N19N18C16C33177.3°180.0°
N19N18C16C3483.6°75.0°
N19N18C33N32179.9°179.9°
N19N18C16H7157.2°162.1°
N18N19C20H20179.5°180.0°
O15C13C37H19119.7°119.6°
O15C13C37O39167.2°120.7°
O15C13C37C3449.0°2.0°
C13O15C16N18132.8°158.6°
C13O15C16C3416.2°40.1°
O15C13C12H553.6°52.9°
O15C13C12H6173.1°172.8°
C13O15C16H7103.7°78.4°
O15C13C37H1267.7°116.7°
C16O15C13C3740.7°26.6°
O15C16C34C3714.4°37.1°
O15C16N18C34117.3°114.1°
O15C16N18H7123.5°123.0°
O15C16N18C33149.0°140.9°
O15C16C34H7120.9°118.6°
O15C16C34O36103.3°155.2°
O15C16C34H11131.9°81.1°
C16O15C13H1978.1°93.0°
N23C22C21N29178.3°179.9°
N23C22C21C33178.5°180.0°
N23C22N29C30179.2°179.9°
C22N23C24H823.0°34.3°
C13C37O39C34109.7°114.8°
C13C37O39H12124.1°122.7°
C13C37C34H12116.7°118.8°
C13C37C34C1636.9°20.9°
C13C37C34O3680.5°139.0°
C37C13C12H559.1°65.0°
C37C13C12H660.3°54.9°
C13C37C34H11154.1°97.3°
C13C37O39H29180.0°176.2°
C22C21C33N18179.6°179.9°
C22C21C33N320.1°0.1°
C21C22N29C300.7°0.0°
C22C21C20H200.2°0.5°
C21C22N23H21100.9°0.0°
C21C33N18C16178.1°180.0°
C21C33N18N32179.7°180.0°
C33C21C22N290.2°0.1°
C21C33N32C300.6°0.1°
C33C21C20H20179.8°179.9°
O39C37C34H12127.0°122.5°
O39C37C34C16153.3°97.8°
O39C37C34O3635.8°20.3°
O39C37C34H1189.6°144.0°
O39C37C13H1947.5°1.1°
C37C34C16N18104.6°155.6°
C37C34C16O36117.7°118.1°
C37C34C16H11117.5°118.2°
C37C34O36H11124.6°123.7°
C37C34C16H7135.3°81.5°
C34C37C13H1970.7°117.6°
C37C34O36H28180.0°67.4°
C34C37O39H2970.3°61.4°
N18C16C34H7120.2°122.9°
C16N18C33N322.2°0.0°
N18C16C34O36137.7°86.2°
N18C16C34H1112.9°37.4°
C33N18C16C3493.7°105.0°
N18C33N32C30179.1°179.9°
C33N18C16H725.5°17.9°
C22N29C30N321.1°0.1°
C22N29C30CL31179.6°180.0°
N29C22N23H2180.8°179.9°
C16C34O36H11123.7°123.7°
C16C34C37H1279.7°139.7°
C16C34O36H2868.4°180.0°
C33N32C30N291.1°0.1°
C33N32C30CL31179.5°179.9°
O36C34C16H717.5°36.6°
O36C34C37H12162.8°102.1°
N29C30N32CL31178.5°180.0°
H1C6O7H1559.7°60.0°
H2C6O7H1559.7°60.1°
H5C12C13H19179.3°174.0°
H6C12C13H1959.9°66.1°
H7C16C34H11107.2°160.3°
H8C24N23H21144.9°145.7°
H8C24C25H2287.8°0.1°
H8C24C25H2333.4°121.4°
H8C24C28H2645.3°145.6°
H8C24C28H2776.7°22.9°
H9C27C26H2418.4°160.9°
H9C27C26H25139.8°38.4°
H9C27C28H26162.9°161.0°
H9C27C28H2740.9°38.2°
H10C27C26H24103.7°37.8°
H10C27C26H2517.7°84.8°
H10C27C28H2640.9°37.8°
H10C27C28H2781.1°85.0°
H11C34C37H1237.4°21.5°
H11C34O36H2855.4°56.3°
H12C37C13H19172.6°123.7°
H12C37O39H2955.9°61.1°
H16C10H17H18120.0°120.0°
H22C25C26H2410.6°145.6°
H22C25C26H25110.7°23.0°
H23C25C26H24131.8°24.2°
H23C25C26H2510.5°98.4°

226262

PDB entries from 2024-10-16

PDB statisticsPDBj update infoContact PDBjnumon