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About

FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: 43N7N

Calculation Name: 5RUI-B-Xray89

Preferred Name:

Target Type:

Ligand Name: isoquinolin-1(2h)-one

ligand 3-letter code: 4YS

PDB ID: 5RUI

Chain ID: B

ChEMBL ID:

UniProt ID:

Base Structure: X-ray

Registration Date: 2021-09-27

Reference: T. Ohyama, K. Kamisaka, C. Watanabe, T. Honma et. al., FMO-based interaction energy analysis of SARS-Cov-2 related protein and ligand complexes, To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptHLSideSolv
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water Waters within average of the temperature factors of receptor.
Procedure Auto-FMO protocol ver. 1.20200406
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 203
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 16 beta / 20190613
Total energy (hartree)
FMO2-HF: Electronic energy -1777934.734913
FMO2-HF: Nuclear repulsion 1711780.58303
FMO2-HF: Total energy -66154.151883
FMO2-MP2: Total energy -66347.160574


3D Structure
Snapshot
 
Ligand structure

ligand structure
Ligand Interaction
ligand interaction
Ligand binding energy
"
IFIE [kcal/mol] PIEDA [kcal/mol] Charge transfer value [e]
IFIE SUMIFIE SUM at MP2 level. ESElectro static interaction energy. EXExchange-repulsion energy. CT+mixCharge transfer and mixing terms energy. DI(MP2)Dispersion energy. q(I=>J)Charge transfer value from I to J fragments.
N/AN/AN/AN/AN/AN/A


Interactive mode: IFIE and PIEDA for fragment #1(B:1:SER )


Summations of interaction energy for fragment #1(B:1:SER )
IFIE [kcal/mol] PIEDA [kcal/mol] Charge transfer value [e]
IFIE SUMIFIE SUM at MP2 level. ESElectro static interaction energy. EXExchange-repulsion energy. CT+mixCharge transfer and mixing terms energy. DI(MP2)Dispersion energy. q(I=>J)Charge transfer value from I to J fragments.
-1.9630.647-0.005-1.178-1.4270.006
Interaction energy analysis for fragmet #1(B:1:SER )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.003 / q_NPA : 0.004
Distance from base fragment(s) [Å]
Dist
Interaction energy by IFIE and PIEDA
[kcal/mol]
| Total | > | ES | > | EX | >
| CT+mix | > | DI(MP2) | >
Fragment charge [e]
FCHARGE q_Mulliken
q_NPA q(I=>J)
Residue
Res #    RES   
Sort
Graph Options
X Axis Label
Y Axis Max Y Axis Min
Display   
frag_NumFragment number. ChainChain species. Res #Residue number. RES3-letter code of amino acid residue, ligand and solvent molecule. FCHARGEFormal charge [e]. q_MullikenFragment charge evaluated by Mulliken charge [e]. q_NPAFragment charge evaluated by natural population analysis(NPA) charge [e]. DISTDistance from Ligand [Å]. TotalIFIE at MP2 level [kcal/mol]. ESElectro static interaction energy by PIEDA [kcal/mol]. EXExchange-repulsion energy by PIEDA [kcal/mol]. CT+mixCharge transfer and mixing terms energy by PIEDA [kcal/mol]. DI(MP2)Dispersion energy by PIEDA [kcal/mol]. q(I=>J)Charge transfer value from I to J fragmens [e].
3B3VAL 00.0340.0123.604-0.7281.882-0.005-1.178-1.4270.006
4B4ASN 0-0.001-0.0105.987-0.614-0.6140.0000.0000.0000.000
5B5SER 00.0220.0218.130-0.254-0.2540.0000.0000.0000.000
6B6PHE 0-0.016-0.01410.1040.1250.1250.0000.0000.0000.000
7B7SER 00.018-0.00113.891-0.053-0.0530.0000.0000.0000.000
8B8GLY 00.0230.00915.7860.0500.0500.0000.0000.0000.000
9B9TYR 0-0.082-0.06016.5790.0300.0300.0000.0000.0000.000
10B10LEU 00.0190.02320.889-0.022-0.0220.0000.0000.0000.000
11B11LYS 10.8520.92022.9210.1940.1940.0000.0000.0000.000
12B12LEU 0-0.044-0.00824.9040.0060.0060.0000.0000.0000.000
13B13THR 00.038-0.00526.4830.0010.0010.0000.0000.0000.000
14B14ASP -1-0.867-0.94225.371-0.162-0.1620.0000.0000.0000.000
15B15ASN 0-0.047-0.02222.403-0.021-0.0210.0000.0000.0000.000
16B16VAL 00.0200.02322.2350.0100.0100.0000.0000.0000.000
17B17TYR 00.0010.00320.615-0.022-0.0220.0000.0000.0000.000
18B18ILE 00.0090.00922.6860.0210.0210.0000.0000.0000.000
19B19LYS 10.8420.90117.7970.0770.0770.0000.0000.0000.000
20B20ASN 0-0.043-0.01122.7950.0120.0120.0000.0000.0000.000
21B21ALA 00.007-0.01319.910-0.007-0.0070.0000.0000.0000.000
22B22ASP -1-0.816-0.89120.9620.1020.1020.0000.0000.0000.000
23B23ILE 00.0390.00518.6780.0040.0040.0000.0000.0000.000
24B24VAL 00.0200.01917.3980.0280.0280.0000.0000.0000.000
25B25GLU -1-0.818-0.89816.1010.2020.2020.0000.0000.0000.000
26B26GLU -1-0.772-0.85515.079-0.057-0.0570.0000.0000.0000.000
27B27ALA 00.0000.00013.349-0.006-0.0060.0000.0000.0000.000
28B28LYS 10.8430.90911.389-0.149-0.1490.0000.0000.0000.000
29B29LYS 10.7750.88510.3530.1250.1250.0000.0000.0000.000
30B30VAL 0-0.073-0.0329.515-0.062-0.0620.0000.0000.0000.000
31B31LYS 10.9560.9955.122-0.553-0.5530.0000.0000.0000.000
32B32PRO 00.0210.0297.9470.1530.1530.0000.0000.0000.000
33B33THR 00.0110.00210.1740.2420.2420.0000.0000.0000.000
34B34VAL 0-0.012-0.01110.8910.0290.0290.0000.0000.0000.000
35B35VAL 0-0.0070.00614.584-0.049-0.0490.0000.0000.0000.000
36B36VAL 0-0.014-0.00716.6110.0100.0100.0000.0000.0000.000
37B37ASN 00.008-0.02620.387-0.013-0.0130.0000.0000.0000.000
38B38ALA 0-0.0110.01922.799-0.010-0.0100.0000.0000.0000.000
39B39ALA 00.0290.03126.0550.0000.0000.0000.0000.0000.000
40B40ASN 00.021-0.00227.816-0.010-0.0100.0000.0000.0000.000
41B41VAL 00.0240.00730.5250.0080.0080.0000.0000.0000.000
42B42TYR 00.0310.01232.4680.0020.0020.0000.0000.0000.000
43B43LEU 0-0.031-0.00326.4280.0060.0060.0000.0000.0000.000
44B44LYS 10.8650.94028.953-0.104-0.1040.0000.0000.0000.000
45B45HIS 0-0.001-0.00325.616-0.019-0.0190.0000.0000.0000.000
46B46GLY 00.0320.02328.3620.0030.0030.0000.0000.0000.000
47B47GLY 00.0230.00330.3220.0010.0010.0000.0000.0000.000
48B48GLY 00.0070.00028.9370.0050.0050.0000.0000.0000.000
49B49VAL 00.0640.02722.9850.0080.0080.0000.0000.0000.000
50B50ALA 00.0150.02024.1200.0150.0150.0000.0000.0000.000
51B51GLY 0-0.0120.00724.9500.0150.0150.0000.0000.0000.000
52B52ALA 0-0.038-0.03123.4680.0100.0100.0000.0000.0000.000
53B53LEU 00.0140.00018.7400.0160.0160.0000.0000.0000.000
54B54ASN 00.0600.01720.7210.0380.0380.0000.0000.0000.000
55B55LYS 10.9290.97122.737-0.113-0.1130.0000.0000.0000.000
56B56ALA 00.0150.02318.4340.0070.0070.0000.0000.0000.000
57B57THR 0-0.038-0.01217.8300.0260.0260.0000.0000.0000.000
58B58ASN 0-0.025-0.01719.647-0.009-0.0090.0000.0000.0000.000
59B59ASN 0-0.020-0.01122.729-0.012-0.0120.0000.0000.0000.000
60B60ALA 00.0410.03020.390-0.010-0.0100.0000.0000.0000.000
61B61MET 00.0190.02319.661-0.013-0.0130.0000.0000.0000.000
62B62GLN 0-0.047-0.03822.356-0.015-0.0150.0000.0000.0000.000
63B63VAL 0-0.0080.00125.300-0.010-0.0100.0000.0000.0000.000
64B64GLU -1-0.715-0.83420.5160.2860.2860.0000.0000.0000.000
65B65SER 0-0.021-0.02124.698-0.011-0.0110.0000.0000.0000.000
66B66ASP -1-0.820-0.89426.5340.1130.1130.0000.0000.0000.000
67B67ASP -1-0.915-0.94527.3540.1500.1500.0000.0000.0000.000
68B68TYR 00.0490.01026.040-0.008-0.0080.0000.0000.0000.000
69B69ILE 0-0.036-0.01728.302-0.012-0.0120.0000.0000.0000.000
70B70ALA 0-0.0260.00131.631-0.009-0.0090.0000.0000.0000.000
71B71THR 0-0.042-0.01030.131-0.008-0.0080.0000.0000.0000.000
72B72ASN 0-0.091-0.05728.626-0.009-0.0090.0000.0000.0000.000
73B73GLY 0-0.0190.00532.381-0.008-0.0080.0000.0000.0000.000
74B74PRO 0-0.055-0.03332.5840.0060.0060.0000.0000.0000.000
75B75LEU 0-0.029-0.01427.641-0.003-0.0030.0000.0000.0000.000
76B76LYS 10.9970.99232.178-0.052-0.0520.0000.0000.0000.000
77B77VAL 00.0260.00132.6060.0040.0040.0000.0000.0000.000
78B78GLY 00.0000.00932.043-0.005-0.0050.0000.0000.0000.000
79B79GLY 00.0050.02229.953-0.003-0.0030.0000.0000.0000.000
80B80SER 0-0.048-0.05224.7690.0060.0060.0000.0000.0000.000
81B81CYS 0-0.0140.02424.686-0.004-0.0040.0000.0000.0000.000
82B82VAL 00.0150.01418.2270.0040.0040.0000.0000.0000.000
83B83LEU 0-0.0030.01019.982-0.005-0.0050.0000.0000.0000.000
84B84SER 00.0330.01316.3520.0580.0580.0000.0000.0000.000
85B85GLY 00.0080.01514.458-0.054-0.0540.0000.0000.0000.000
86B86HIS 0-0.043-0.03414.7530.0170.0170.0000.0000.0000.000
87B87ASN 0-0.053-0.03812.5280.0870.0870.0000.0000.0000.000
88B88LEU 0-0.030-0.01012.616-0.011-0.0110.0000.0000.0000.000
89B89ALA 00.0260.01510.927-0.025-0.0250.0000.0000.0000.000
90B90LYS 10.9040.9769.504-0.732-0.7320.0000.0000.0000.000
91B91HIS 00.010-0.00711.374-0.030-0.0300.0000.0000.0000.000
92B92CYS 0-0.025-0.01115.014-0.017-0.0170.0000.0000.0000.000
93B93LEU 0-0.0340.00218.039-0.012-0.0120.0000.0000.0000.000
94B94HIS 00.0520.00720.561-0.035-0.0350.0000.0000.0000.000
95B95VAL 00.008-0.00123.704-0.008-0.0080.0000.0000.0000.000
96B96VAL 0-0.0290.01226.2840.0000.0000.0000.0000.0000.000
97B97GLY 00.0280.01529.978-0.007-0.0070.0000.0000.0000.000
98B98PRO 00.0000.01431.7000.0050.0050.0000.0000.0000.000
99B99ASN 00.0070.00834.634-0.004-0.0040.0000.0000.0000.000
100B100VAL 00.0860.04136.469-0.001-0.0010.0000.0000.0000.000
101B101ASN 0-0.045-0.02037.389-0.005-0.0050.0000.0000.0000.000
102B102LYS 10.7640.87836.305-0.052-0.0520.0000.0000.0000.000
103B103GLY 00.0060.01241.0560.0000.0000.0000.0000.0000.000
104B104GLU -1-0.824-0.86736.8430.0470.0470.0000.0000.0000.000
105B105ASP -1-0.815-0.91440.5480.0130.0130.0000.0000.0000.000
106B106ILE 00.0300.00136.5090.0020.0020.0000.0000.0000.000
107B107GLN 0-0.030-0.01737.3460.0010.0010.0000.0000.0000.000
108B108LEU 00.0210.00435.687-0.001-0.0010.0000.0000.0000.000
109B109LEU 0-0.035-0.01931.3920.0040.0040.0000.0000.0000.000
110B110LYS 10.8780.93131.7900.0150.0150.0000.0000.0000.000
111B111SER 00.0250.01431.365-0.001-0.0010.0000.0000.0000.000
112B112ALA 00.0280.01029.7120.0040.0040.0000.0000.0000.000
113B113TYR 00.020-0.01626.2530.0080.0080.0000.0000.0000.000
114B114GLU -1-0.877-0.91926.5500.0030.0030.0000.0000.0000.000
115B115ASN 0-0.021-0.00424.9190.0050.0050.0000.0000.0000.000
116B116PHE 00.027-0.01022.2160.0120.0120.0000.0000.0000.000
117B117ASN 0-0.036-0.01621.598-0.014-0.0140.0000.0000.0000.000
118B118GLN 0-0.0370.00622.106-0.011-0.0110.0000.0000.0000.000
119B119HIS 00.0020.00217.1880.0300.0300.0000.0000.0000.000
120B120GLU -1-0.832-0.89915.553-0.120-0.1200.0000.0000.0000.000
121B121VAL 0-0.017-0.01212.728-0.041-0.0410.0000.0000.0000.000
122B122LEU 0-0.0070.02715.1630.0720.0720.0000.0000.0000.000
123B123LEU 0-0.0090.01214.749-0.044-0.0440.0000.0000.0000.000
124B124ALA 00.007-0.00817.1180.0340.0340.0000.0000.0000.000
125B125PRO 00.0020.01720.720-0.018-0.0180.0000.0000.0000.000
126B126LEU 00.0090.00323.862-0.002-0.0020.0000.0000.0000.000
127B127LEU 00.0140.01825.8800.0070.0070.0000.0000.0000.000
128B128SER 00.013-0.02428.769-0.008-0.0080.0000.0000.0000.000
129B129ALA 00.0170.02629.949-0.004-0.0040.0000.0000.0000.000
130B130GLY 00.0350.01531.7140.0070.0070.0000.0000.0000.000
131B131ILE 0-0.002-0.00531.344-0.003-0.0030.0000.0000.0000.000
132B132PHE 0-0.069-0.02130.6850.0000.0000.0000.0000.0000.000
133B133GLY 00.0300.01134.527-0.002-0.0020.0000.0000.0000.000
134B134ALA 0-0.023-0.00334.726-0.004-0.0040.0000.0000.0000.000
135B135ASP -1-0.814-0.91135.832-0.002-0.0020.0000.0000.0000.000
136B136PRO 0-0.032-0.02432.278-0.001-0.0010.0000.0000.0000.000
137B137ILE 00.0180.00132.671-0.003-0.0030.0000.0000.0000.000
138B138HIS 00.0560.03234.594-0.006-0.0060.0000.0000.0000.000
139B139SER 0-0.027-0.03130.677-0.003-0.0030.0000.0000.0000.000
140B140LEU 0-0.019-0.00928.3170.0000.0000.0000.0000.0000.000
141B141ARG 10.8580.90430.7680.0320.0320.0000.0000.0000.000
142B142VAL 00.0180.01231.787-0.003-0.0030.0000.0000.0000.000
143B143CYS 0-0.0110.00926.4120.0000.0000.0000.0000.0000.000
144B144VAL 0-0.0080.00328.339-0.005-0.0050.0000.0000.0000.000
145B145ASP -1-0.765-0.83529.543-0.043-0.0430.0000.0000.0000.000
146B146THR 0-0.109-0.05929.1300.0020.0020.0000.0000.0000.000
147B147VAL 0-0.060-0.01923.3820.0020.0020.0000.0000.0000.000
148B148ARG 10.9220.97025.3900.0290.0290.0000.0000.0000.000
149B149THR 0-0.0190.01819.838-0.020-0.0200.0000.0000.0000.000
150B150ASN 0-0.040-0.01117.525-0.009-0.0090.0000.0000.0000.000
151B151VAL 00.0370.01418.3610.0240.0240.0000.0000.0000.000
152B152TYR 0-0.019-0.00816.546-0.028-0.0280.0000.0000.0000.000
153B153LEU 00.021-0.00219.4490.0320.0320.0000.0000.0000.000
154B154ALA 00.0020.00119.894-0.016-0.0160.0000.0000.0000.000
155B155VAL 0-0.019-0.01421.9800.0120.0120.0000.0000.0000.000
156B156PHE 00.0170.00824.565-0.009-0.0090.0000.0000.0000.000
157B157ASP -1-0.794-0.89226.1110.0010.0010.0000.0000.0000.000
158B158LYS 10.8710.91729.0060.0370.0370.0000.0000.0000.000
159B159ASN 0-0.015-0.02830.040-0.009-0.0090.0000.0000.0000.000
160B160LEU 0-0.0080.00430.563-0.003-0.0030.0000.0000.0000.000
161B161TYR 0-0.011-0.01325.489-0.003-0.0030.0000.0000.0000.000
162B162ASP -1-0.761-0.85829.853-0.044-0.0440.0000.0000.0000.000
163B163LYS 10.9471.01132.6810.0080.0080.0000.0000.0000.000
164B164LEU 0-0.0360.00229.443-0.001-0.0010.0000.0000.0000.000
165B165VAL 00.0350.00628.896-0.003-0.0030.0000.0000.0000.000
166B166SER 0-0.070-0.04131.784-0.002-0.0020.0000.0000.0000.000
167B167SER 0-0.019-0.02735.352-0.001-0.0010.0000.0000.0000.000
168B168PHE 0-0.018-0.00231.2970.0020.0020.0000.0000.0000.000
169B169LEU -1-0.908-0.92934.117-0.054-0.0540.0000.0000.0000.000
170B219HOH 0-0.006-0.01133.7100.0010.0010.0000.0000.0000.000
171B223HOH 0-0.038-0.03138.8170.0010.0010.0000.0000.0000.000
172B233HOH 0-0.036-0.03111.417-0.026-0.0260.0000.0000.0000.000
173B234HOH 0-0.043-0.03327.6490.0010.0010.0000.0000.0000.000
174B245HOH 0-0.050-0.05033.9270.0020.0020.0000.0000.0000.000
175B249HOH 0-0.023-0.03313.6760.0010.0010.0000.0000.0000.000
176B253HOH 0-0.020-0.02122.8080.0040.0040.0000.0000.0000.000
177B254HOH 0-0.042-0.03134.7570.0010.0010.0000.0000.0000.000
178B260HOH 0-0.035-0.02831.0690.0020.0020.0000.0000.0000.000
179B261HOH 0-0.010-0.01228.474-0.004-0.0040.0000.0000.0000.000
180B263HOH 0-0.011-0.03419.456-0.014-0.0140.0000.0000.0000.000
181B265HOH 00.0160.00424.0500.0060.0060.0000.0000.0000.000
182B271HOH 0-0.022-0.00927.423-0.002-0.0020.0000.0000.0000.000
183B274HOH 0-0.030-0.03023.0450.0060.0060.0000.0000.0000.000
184B281HOH 00.0230.00129.546-0.002-0.0020.0000.0000.0000.000
185B287HOH 0-0.069-0.05229.056-0.003-0.0030.0000.0000.0000.000
186B292HOH 0-0.085-0.06237.048-0.001-0.0010.0000.0000.0000.000
187B294HOH 0-0.022-0.02228.3600.0010.0010.0000.0000.0000.000
188B300HOH 00.0210.01328.057-0.002-0.0020.0000.0000.0000.000
189B302HOH 0-0.016-0.01015.3550.0140.0140.0000.0000.0000.000
190B305HOH 0-0.019-0.03012.4830.0330.0330.0000.0000.0000.000
191B312HOH 00.001-0.00322.1560.0030.0030.0000.0000.0000.000
192B314HOH 00.008-0.01427.975-0.003-0.0030.0000.0000.0000.000
193B316HOH 0-0.041-0.03234.059-0.002-0.0020.0000.0000.0000.000
194B319HOH 0-0.021-0.00329.5160.0030.0030.0000.0000.0000.000
195B331HOH 00.0020.00231.6200.0030.0030.0000.0000.0000.000
196B334HOH 0-0.001-0.01915.8490.0200.0200.0000.0000.0000.000
197B336HOH 00.005-0.01234.7100.0020.0020.0000.0000.0000.000
198B341HOH 00.0180.00830.0480.0020.0020.0000.0000.0000.000
199B349HOH 00.0280.01831.9180.0010.0010.0000.0000.0000.000
200B352HOH 00.0150.00428.378-0.003-0.0030.0000.0000.0000.000
201B355HOH 00.006-0.00530.595-0.002-0.0020.0000.0000.0000.000
202B361HOH 0-0.015-0.02728.6400.0000.0000.0000.0000.0000.000
203B370HOH 0-0.029-0.02028.8600.0000.0000.0000.0000.0000.000