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FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: 63VRZ

Calculation Name: 6WIQ-AB-Xray112

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 6WIQ

Chain ID: AB

ChEMBL ID:

UniProt ID: P0DTD1

Base Structure: X-ray

Registration Date: 2020-04-27

Reference: K. Kato Y. Handa, Y. Kawashima, K. Fukuzawa et.al., FMO calculation for SARS Cov-2 related proteins. To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptHSide
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Manual calculation
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 195
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2082890.873959
FMO2-HF: Nuclear repulsion 2004674.381746
FMO2-HF: Total energy -78216.492213
FMO2-MP2: Total energy -78436.239894


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(A:5:ALA )


Summations of interaction energy for fragment #1(A:5:ALA )
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.
-3.249-1.091-0.013-1.166-0.9780.004
Interaction energy analysis for fragmet #1(A:5:ALA )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.015 / q_NPA : ******
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].
3A7LYS 10.9633.8150.0211.901-0.016-1.096-0.7680.004
4A8MET 0-0.0084.827-0.128-0.1280.0000.0000.0000.000
5A9SER 0-0.0333.773-1.493-1.2150.003-0.070-0.2100.000
6A10ASP -1-0.7795.698-0.210-0.2100.0000.0000.0000.000
7A11VAL 0-0.0208.651-0.252-0.2520.0000.0000.0000.000
8A12LYS 10.8267.634-1.714-1.7140.0000.0000.0000.000
9A13CYS 00.0199.862-0.215-0.2150.0000.0000.0000.000
10A14THR 0-0.00711.520-0.154-0.1540.0000.0000.0000.000
11A15SER 0-0.01813.731-0.075-0.0750.0000.0000.0000.000
12A16VAL 00.01914.004-0.059-0.0590.0000.0000.0000.000
13A17VAL 00.00915.934-0.057-0.0570.0000.0000.0000.000
14A18LEU 00.00418.024-0.037-0.0370.0000.0000.0000.000
15A19LEU 00.00819.421-0.030-0.0300.0000.0000.0000.000
16A20SER 00.01620.531-0.031-0.0310.0000.0000.0000.000
17A21VAL 0-0.00222.136-0.023-0.0230.0000.0000.0000.000
18A22LEU 00.00023.659-0.019-0.0190.0000.0000.0000.000
19A23GLN 0-0.01624.605-0.012-0.0120.0000.0000.0000.000
20A24GLN 0-0.04626.074-0.014-0.0140.0000.0000.0000.000
21A25LEU 0-0.03627.691-0.012-0.0120.0000.0000.0000.000
22A26ARG 10.84830.376-0.084-0.0840.0000.0000.0000.000
23A27VAL 00.08228.633-0.005-0.0050.0000.0000.0000.000
24A28GLU -1-0.93328.4220.1250.1250.0000.0000.0000.000
25A29SER 0-0.07130.875-0.004-0.0040.0000.0000.0000.000
26A30SER 00.01732.944-0.005-0.0050.0000.0000.0000.000
27A31SER 00.06531.9430.0060.0060.0000.0000.0000.000
28A32LYS 10.86931.456-0.111-0.1110.0000.0000.0000.000
29A33LEU 00.03628.9510.0070.0070.0000.0000.0000.000
30A34TRP 00.07024.3550.0180.0180.0000.0000.0000.000
31A35ALA 00.04026.3050.0150.0150.0000.0000.0000.000
32A36GLN 00.02325.7770.0040.0040.0000.0000.0000.000
33A37CYS 0-0.02123.6550.0170.0170.0000.0000.0000.000
34A38VAL 00.02321.8550.0290.0290.0000.0000.0000.000
35A39GLN 0-0.01420.8510.0160.0160.0000.0000.0000.000
36A40LEU 00.02720.1080.0250.0250.0000.0000.0000.000
37A41HIS 0-0.00317.0300.0690.0690.0000.0000.0000.000
38A42ASN 0-0.03016.1520.0690.0690.0000.0000.0000.000
39A43ASP -1-0.81916.0220.3520.3520.0000.0000.0000.000
40A44ILE 0-0.03112.6220.0750.0750.0000.0000.0000.000
41A45LEU 0-0.01111.3990.2030.2030.0000.0000.0000.000
42A46LEU 0-0.03510.9250.1340.1340.0000.0000.0000.000
43A47ALA 00.03311.332-0.035-0.0350.0000.0000.0000.000
44A48LYS 10.9308.803-0.254-0.2540.0000.0000.0000.000
45A49ASP -1-0.7747.7490.6720.6720.0000.0000.0000.000
46A50THR 00.0518.1390.0730.0730.0000.0000.0000.000
47A51THR 0-0.05810.434-0.041-0.0410.0000.0000.0000.000
48A52GLU -1-0.89113.4640.3940.3940.0000.0000.0000.000
49A53ALA 0-0.02911.193-0.015-0.0150.0000.0000.0000.000
50A54PHE 00.01811.976-0.017-0.0170.0000.0000.0000.000
51A55GLU -1-0.81715.4130.1850.1850.0000.0000.0000.000
52A56LYS 10.83116.663-0.375-0.3750.0000.0000.0000.000
53A57MET 0-0.01815.830-0.016-0.0160.0000.0000.0000.000
54A58VAL 00.01517.955-0.033-0.0330.0000.0000.0000.000
55A59SER 0-0.00721.139-0.019-0.0190.0000.0000.0000.000
56A60LEU 00.00218.699-0.021-0.0210.0000.0000.0000.000
57A61LEU 0-0.00320.636-0.018-0.0180.0000.0000.0000.000
58A62SER 0-0.01922.646-0.026-0.0260.0000.0000.0000.000
59A63VAL 00.01525.332-0.017-0.0170.0000.0000.0000.000
60A64LEU 0-0.02024.219-0.012-0.0120.0000.0000.0000.000
61A65LEU 0-0.01925.511-0.012-0.0120.0000.0000.0000.000
62A66SER 0-0.04528.563-0.011-0.0110.0000.0000.0000.000
63A67MET 0-0.07129.488-0.009-0.0090.0000.0000.0000.000
64A68GLN 00.04832.254-0.002-0.0020.0000.0000.0000.000
65A69GLY 0-0.01434.605-0.001-0.0010.0000.0000.0000.000
66A70ALA 0-0.07330.445-0.002-0.0020.0000.0000.0000.000
67A71VAL 0-0.00527.6260.0000.0000.0000.0000.0000.000
68A72ASP -1-0.79930.8480.0740.0740.0000.0000.0000.000
69A73ILE 00.02727.142-0.001-0.0010.0000.0000.0000.000
70A74ASN 00.02229.8220.0000.0000.0000.0000.0000.000
71A75LYS 10.93232.516-0.070-0.0700.0000.0000.0000.000
72A76LEU 00.01726.264-0.001-0.0010.0000.0000.0000.000
73A77CYS 0-0.09028.5160.0010.0010.0000.0000.0000.000
74A78GLU -1-0.92329.5400.0440.0440.0000.0000.0000.000
75A79GLU -1-0.90030.0220.0640.0640.0000.0000.0000.000
76A80MET 0-0.09523.387-0.001-0.0010.0000.0000.0000.000
77A81LEU 0-0.03828.542-0.006-0.0060.0000.0000.0000.000
78A82ASP -1-0.87730.9940.0310.0310.0000.0000.0000.000
79A83ASN 0-0.08629.305-0.007-0.0070.0000.0000.0000.000
80A84ARG 10.82526.728-0.037-0.0370.0000.0000.0000.000
81B77GLU -1-0.79936.7390.0650.0650.0000.0000.0000.000
82B78ASP -1-0.79736.1520.0460.0460.0000.0000.0000.000
83B79LYS 10.87534.587-0.038-0.0380.0000.0000.0000.000
84B80ARG 10.93631.394-0.084-0.0840.0000.0000.0000.000
85B81ALA 00.03531.2460.0070.0070.0000.0000.0000.000
86B82LYS 10.92331.320-0.041-0.0410.0000.0000.0000.000
87B83VAL 00.01026.3780.0020.0020.0000.0000.0000.000
88B84THR 0-0.01626.6110.0100.0100.0000.0000.0000.000
89B85SER 00.07627.0170.0100.0100.0000.0000.0000.000
90B86ALA 0-0.02125.3700.0030.0030.0000.0000.0000.000
91B87MET 0-0.03521.5540.0120.0120.0000.0000.0000.000
92B88GLN 00.03222.1020.0140.0140.0000.0000.0000.000
93B89THR 00.05023.4560.0090.0090.0000.0000.0000.000
94B90MET 0-0.04018.0250.0150.0150.0000.0000.0000.000
95B91LEU 00.02218.5870.0220.0220.0000.0000.0000.000
96B92PHE 00.04518.8850.0280.0280.0000.0000.0000.000
97B93THR 0-0.04018.398-0.005-0.0050.0000.0000.0000.000
98B94MET 0-0.02811.745-0.025-0.0250.0000.0000.0000.000
99B95LEU 0-0.01515.4880.0340.0340.0000.0000.0000.000
100B96ARG 10.95117.623-0.106-0.1060.0000.0000.0000.000
101B97LYS 10.83910.670-0.308-0.3080.0000.0000.0000.000
102B98LEU 0-0.10611.7570.0190.0190.0000.0000.0000.000
103B99ASP -1-0.86714.5470.1220.1220.0000.0000.0000.000
104B100ASN 00.03215.977-0.019-0.0190.0000.0000.0000.000
105B101ASP -1-0.83217.9480.1240.1240.0000.0000.0000.000
106B102ALA 0-0.01420.361-0.013-0.0130.0000.0000.0000.000
107B103LEU 0-0.03816.830-0.004-0.0040.0000.0000.0000.000
108B104ASN 0-0.02020.665-0.003-0.0030.0000.0000.0000.000
109B105ASN 0-0.01022.940-0.013-0.0130.0000.0000.0000.000
110B106ILE 00.03122.832-0.010-0.0100.0000.0000.0000.000
111B107ILE 0-0.00921.534-0.007-0.0070.0000.0000.0000.000
112B108ASN 0-0.03925.989-0.011-0.0110.0000.0000.0000.000
113B109ASN 00.03128.376-0.014-0.0140.0000.0000.0000.000
114B110ALA 00.00428.792-0.006-0.0060.0000.0000.0000.000
115B111ARG 10.84328.846-0.084-0.0840.0000.0000.0000.000
116B112ASP -1-0.89431.6760.0660.0660.0000.0000.0000.000
117B113GLY 0-0.00634.089-0.005-0.0050.0000.0000.0000.000
118B114CYS 0-0.12433.4900.0000.0000.0000.0000.0000.000
119B115VAL 00.01931.6860.0080.0080.0000.0000.0000.000
120B116PRO 0-0.02528.920-0.006-0.0060.0000.0000.0000.000
121B117LEU 00.03032.2500.0000.0000.0000.0000.0000.000
122B118ASN 0-0.05632.211-0.004-0.0040.0000.0000.0000.000
123B119ILE 0-0.03426.1470.0030.0030.0000.0000.0000.000
124B120ILE 00.03625.565-0.007-0.0070.0000.0000.0000.000
125B121PRO 0-0.03225.6950.0190.0190.0000.0000.0000.000
126B122LEU 00.03620.6230.0000.0000.0000.0000.0000.000
127B123THR 0-0.02524.760-0.001-0.0010.0000.0000.0000.000
128B124THR 00.01827.188-0.003-0.0030.0000.0000.0000.000
129B125ALA 0-0.00429.754-0.001-0.0010.0000.0000.0000.000
130B126ALA 0-0.01430.151-0.004-0.0040.0000.0000.0000.000
131B127LYS 10.96132.275-0.081-0.0810.0000.0000.0000.000
132B128LEU 0-0.03029.8140.0090.0090.0000.0000.0000.000
133B129MET 0-0.03933.096-0.007-0.0070.0000.0000.0000.000
134B130VAL 00.01632.4460.0060.0060.0000.0000.0000.000
135B131VAL 00.03035.051-0.006-0.0060.0000.0000.0000.000
136B132ILE 00.01536.3830.0030.0030.0000.0000.0000.000
137B133PRO 00.00137.448-0.004-0.0040.0000.0000.0000.000
138B134ASP -1-0.75640.3730.0480.0480.0000.0000.0000.000
139B135TYR 00.04241.4150.0010.0010.0000.0000.0000.000
140B136ASN 0-0.06440.8500.0000.0000.0000.0000.0000.000
141B137THR 00.00935.6980.0020.0020.0000.0000.0000.000
142B138TYR 00.03337.4610.0040.0040.0000.0000.0000.000
143B139LYS 10.94838.977-0.038-0.0380.0000.0000.0000.000
144B140ASN 0-0.05033.459-0.003-0.0030.0000.0000.0000.000
145B141THR 0-0.02233.1640.0030.0030.0000.0000.0000.000
146B142CYS 0-0.08835.2640.0040.0040.0000.0000.0000.000
147B143ASP -1-0.88937.6430.0440.0440.0000.0000.0000.000
148B144GLY 00.00939.2180.0010.0010.0000.0000.0000.000
149B145THR 0-0.00840.1610.0000.0000.0000.0000.0000.000
150B146THR 0-0.02934.3620.0040.0040.0000.0000.0000.000
151B147PHE 0-0.00532.903-0.001-0.0010.0000.0000.0000.000
152B148THR 00.01129.8050.0070.0070.0000.0000.0000.000
153B149TYR 00.02328.8550.0030.0030.0000.0000.0000.000
154B150ALA 0-0.01024.6550.0060.0060.0000.0000.0000.000
155B151SER 0-0.02922.8290.0090.0090.0000.0000.0000.000
156B152ALA 00.00724.4470.0060.0060.0000.0000.0000.000
157B153LEU 00.01026.952-0.006-0.0060.0000.0000.0000.000
158B154TRP 0-0.05027.2850.0060.0060.0000.0000.0000.000
159B155GLU -1-0.86232.8960.0600.0600.0000.0000.0000.000
160B156ILE 00.00536.3770.0030.0030.0000.0000.0000.000
161B157GLN 0-0.09438.364-0.005-0.0050.0000.0000.0000.000
162B158GLN 0-0.05141.089-0.004-0.0040.0000.0000.0000.000
163B159VAL 00.04241.6770.0040.0040.0000.0000.0000.000
164B160VAL 0-0.01343.729-0.003-0.0030.0000.0000.0000.000
165B161ASP -1-0.77744.8700.0470.0470.0000.0000.0000.000
166B162ALA 0-0.00546.2730.0020.0020.0000.0000.0000.000
167B163ASP -1-0.94347.5430.0410.0410.0000.0000.0000.000
168B164SER 0-0.11347.5960.0000.0000.0000.0000.0000.000
169B165LYS 10.89248.631-0.041-0.0410.0000.0000.0000.000
170B166ILE 0-0.02547.2940.0010.0010.0000.0000.0000.000
171B167VAL 0-0.00747.292-0.002-0.0020.0000.0000.0000.000
172B168GLN 0-0.05447.2690.0010.0010.0000.0000.0000.000
173B169LEU 00.03743.2180.0000.0000.0000.0000.0000.000
174B170SER 0-0.02446.7880.0000.0000.0000.0000.0000.000
175B171GLU -1-0.86849.9480.0370.0370.0000.0000.0000.000
176B172ILE 0-0.00344.482-0.001-0.0010.0000.0000.0000.000
177B173SER 0-0.00347.3490.0000.0000.0000.0000.0000.000
178B174MET 0-0.03248.7310.0010.0010.0000.0000.0000.000
179B175ASP -1-0.91449.8420.0270.0270.0000.0000.0000.000
180B176ASN 0-0.02552.241-0.002-0.0020.0000.0000.0000.000
181B177SER 00.01347.5970.0010.0010.0000.0000.0000.000
182B178PRO 0-0.02149.9250.0020.0020.0000.0000.0000.000
183B179ASN 0-0.04051.725-0.001-0.0010.0000.0000.0000.000
184B180LEU 0-0.01548.2090.0000.0000.0000.0000.0000.000
185B181ALA 00.00349.7570.0000.0000.0000.0000.0000.000
186B182TRP 0-0.04242.6500.0030.0030.0000.0000.0000.000
187B183PRO 0-0.03141.545-0.001-0.0010.0000.0000.0000.000
188B184LEU 00.01142.410-0.001-0.0010.0000.0000.0000.000
189B185ILE 0-0.03339.2490.0050.0050.0000.0000.0000.000
190B186VAL 00.03337.063-0.003-0.0030.0000.0000.0000.000
191B187THR 0-0.05137.5220.0060.0060.0000.0000.0000.000
192B188ALA 00.03434.801-0.005-0.0050.0000.0000.0000.000
193B189LEU 0-0.05633.7700.0050.0050.0000.0000.0000.000
194B190ARG 10.83523.043-0.177-0.1770.0000.0000.0000.000
195B191ALA 00.04828.929-0.005-0.0050.0000.0000.0000.000