FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: N92ZQ

Calculation Name: 3QHY-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3QHY

Chain ID: B

ChEMBL ID:

UniProt ID: O87916

Base Structure: X-ray

Registration Date: 2023-06-22

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 271
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3182052.561364
FMO2-HF: Nuclear repulsion 3087990.880987
FMO2-HF: Total energy -94061.680378
FMO2-MP2: Total energy -94342.276287


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:41:ALA)


Summations of interaction energy for fragment #1(B:41: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.
-30.434-20.84110.422-7.485-12.529-0.055
Interaction energy analysis for fragmet #1(B:41:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.010 / q_NPA : 0.016
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].
3B43SER0-0.066-0.0332.960-1.2010.7920.027-0.964-1.0560.005
4B44VAL00.0810.0442.938-2.602-1.2580.244-0.633-0.954-0.006
5B45VAL0-0.070-0.0235.2340.3340.334-0.001-0.0010.0020.000
6B46ALA00.0430.0318.502-0.087-0.0870.0000.0000.0000.000
7B47TRP0-0.061-0.04110.6550.0790.0790.0000.0000.0000.000
8B48GLY00.0310.01214.794-0.017-0.0170.0000.0000.0000.000
9B49GLY00.0300.01118.193-0.008-0.0080.0000.0000.0000.000
10B50ASN0-0.031-0.01020.9050.0010.0010.0000.0000.0000.000
11B51ASN00.0050.01317.808-0.002-0.0020.0000.0000.0000.000
12B52ASP-1-0.875-0.93920.415-0.086-0.0860.0000.0000.0000.000
13B53TRP0-0.051-0.02021.2500.0140.0140.0000.0000.0000.000
14B54GLY0-0.021-0.00918.6930.0070.0070.0000.0000.0000.000
15B55GLU-1-0.768-0.89716.376-0.176-0.1760.0000.0000.0000.000
16B56ALA0-0.0230.01013.977-0.057-0.0570.0000.0000.0000.000
17B57THR0-0.060-0.03213.987-0.008-0.0080.0000.0000.0000.000
18B58VAL00.0260.0277.8010.0190.0190.0000.0000.0000.000
19B59PRO00.0310.02510.8190.0700.0700.0000.0000.0000.000
20B60ALA00.025-0.03210.1350.0110.0110.0000.0000.0000.000
21B61GLU-1-0.962-0.9779.5340.4170.4170.0000.0000.0000.000
22B62ALA0-0.013-0.0127.1230.2250.2250.0000.0000.0000.000
23B63GLN0-0.0060.0145.951-0.338-0.3380.0000.0000.0000.000
24B64SER0-0.002-0.0093.598-0.890-0.5320.003-0.134-0.2270.000
25B65GLY0-0.039-0.0202.721-4.182-3.1151.765-1.219-1.6130.011
26B66VAL0-0.048-0.0142.497-3.672-3.9091.3180.874-1.9560.000
27B67ASP-1-0.892-0.9522.172-12.382-10.5274.998-3.380-3.473-0.046
28B68ALA0-0.026-0.0274.6400.1100.188-0.001-0.007-0.0690.000
29B69ILE0-0.021-0.0216.1340.1190.1190.0000.0000.0000.000
30B70ALA00.0020.0248.7090.0270.0270.0000.0000.0000.000
31B71GLY0-0.019-0.02012.5100.0360.0360.0000.0000.0000.000
32B72GLY00.0770.03914.7680.0160.0160.0000.0000.0000.000
33B73TYR0-0.089-0.04518.2920.0000.0000.0000.0000.0000.000
34B74PHE0-0.025-0.01720.8640.0050.0050.0000.0000.0000.000
35B75HIS0-0.030-0.02316.9550.0230.0230.0000.0000.0000.000
36B76GLY00.0480.04113.314-0.028-0.0280.0000.0000.0000.000
37B77LEU0-0.017-0.01612.3280.0690.0690.0000.0000.0000.000
38B78ALA00.014-0.0077.079-0.122-0.1220.0000.0000.0000.000
39B79LEU0-0.0160.0217.9050.2190.2190.0000.0000.0000.000
40B80LYS10.9010.9436.288-1.985-1.9850.0000.0000.0000.000
41B81GLY00.0060.0137.0590.1610.1610.0000.0000.0000.000
42B82GLY0-0.0030.0088.9950.0280.0280.0000.0000.0000.000
43B83LYS10.9400.96810.856-0.158-0.1580.0000.0000.0000.000
44B84VAL00.0230.01011.047-0.053-0.0530.0000.0000.0000.000
45B85LEU0-0.062-0.0278.9280.0820.0820.0000.0000.0000.000
46B86GLY00.0580.00412.449-0.082-0.0820.0000.0000.0000.000
47B87TRP0-0.113-0.0529.1150.0660.0660.0000.0000.0000.000
48B88GLY00.0730.04015.503-0.032-0.0320.0000.0000.0000.000
49B89ALA0-0.0040.00018.4300.0240.0240.0000.0000.0000.000
50B90ASN0-0.013-0.01222.045-0.021-0.0210.0000.0000.0000.000
51B91LEU0-0.035-0.02023.0490.0110.0110.0000.0000.0000.000
52B92ASN00.020-0.00424.974-0.001-0.0010.0000.0000.0000.000
53B93GLY00.0340.03124.8830.0020.0020.0000.0000.0000.000
54B94GLN00.0570.02520.4430.0190.0190.0000.0000.0000.000
55B95LEU0-0.025-0.01016.813-0.015-0.0150.0000.0000.0000.000
56B96THR0-0.080-0.03319.8810.0190.0190.0000.0000.0000.000
57B97MET0-0.0070.01815.655-0.012-0.0120.0000.0000.0000.000
58B98PRO00.0670.04720.2620.0220.0220.0000.0000.0000.000
59B99ALA00.0330.02220.629-0.002-0.0020.0000.0000.0000.000
60B100ALA0-0.025-0.00720.6560.0110.0110.0000.0000.0000.000
61B101THR00.014-0.01516.790-0.002-0.0020.0000.0000.0000.000
62B102GLN0-0.040-0.03115.783-0.006-0.0060.0000.0000.0000.000
63B103SER0-0.037-0.02114.8720.0340.0340.0000.0000.0000.000
64B104GLY00.0250.00914.676-0.016-0.0160.0000.0000.0000.000
65B105VAL0-0.0350.00713.283-0.008-0.0080.0000.0000.0000.000
66B106ASP-1-0.857-0.93812.687-0.238-0.2380.0000.0000.0000.000
67B107ALA0-0.033-0.02012.565-0.097-0.0970.0000.0000.0000.000
68B108ILE0-0.043-0.02410.1120.0800.0800.0000.0000.0000.000
69B109ALA00.0410.01714.071-0.046-0.0460.0000.0000.0000.000
70B110ALA0-0.020-0.01716.0400.0310.0310.0000.0000.0000.000
71B111GLY00.0840.06117.942-0.009-0.0090.0000.0000.0000.000
72B112ASN0-0.057-0.04420.872-0.016-0.0160.0000.0000.0000.000
73B113TYR0-0.019-0.01523.1420.0040.0040.0000.0000.0000.000
74B114HIS0-0.033-0.00522.6180.0150.0150.0000.0000.0000.000
75B115SER00.0220.00818.187-0.032-0.0320.0000.0000.0000.000
76B116LEU0-0.0050.00118.1830.0290.0290.0000.0000.0000.000
77B117ALA0-0.002-0.01116.763-0.039-0.0390.0000.0000.0000.000
78B118LEU0-0.0260.01316.6270.0310.0310.0000.0000.0000.000
79B119LYS10.9080.92916.8190.0340.0340.0000.0000.0000.000
80B120ASP-1-0.892-0.92118.953-0.061-0.0610.0000.0000.0000.000
81B121GLY0-0.033-0.00620.6030.0130.0130.0000.0000.0000.000
82B122GLU-1-0.973-0.99322.258-0.079-0.0790.0000.0000.0000.000
83B123VAL0-0.012-0.00521.548-0.015-0.0150.0000.0000.0000.000
84B124ILE0-0.015-0.00919.8580.0210.0210.0000.0000.0000.000
85B125ALA00.0170.00421.341-0.021-0.0210.0000.0000.0000.000
86B126TRP0-0.070-0.04517.2960.0180.0180.0000.0000.0000.000
87B127GLY00.0180.01323.045-0.015-0.0150.0000.0000.0000.000
88B128GLY00.002-0.01024.7300.0090.0090.0000.0000.0000.000
89B129ASN0-0.019-0.03127.164-0.013-0.0130.0000.0000.0000.000
90B130GLU-1-0.978-0.97829.837-0.065-0.0650.0000.0000.0000.000
91B131ASP-1-0.856-0.91430.866-0.089-0.0890.0000.0000.0000.000
92B132GLY0-0.038-0.01731.877-0.001-0.0010.0000.0000.0000.000
93B133GLN00.0960.03326.2530.0060.0060.0000.0000.0000.000
94B134THR0-0.043-0.02124.990-0.009-0.0090.0000.0000.0000.000
95B135THR0-0.035-0.01627.2320.0060.0060.0000.0000.0000.000
96B136VAL00.0110.02625.6970.0000.0000.0000.0000.0000.000
97B137PRO00.0450.04128.6600.0120.0120.0000.0000.0000.000
98B138ALA00.000-0.03330.184-0.004-0.0040.0000.0000.0000.000
99B139GLU-1-0.886-0.93330.947-0.092-0.0920.0000.0000.0000.000
100B140ALA00.0260.01326.184-0.003-0.0030.0000.0000.0000.000
101B141ARG10.8940.93825.9980.0660.0660.0000.0000.0000.000
102B142SER00.0090.00026.1130.0050.0050.0000.0000.0000.000
103B143GLY00.006-0.00125.8300.0000.0000.0000.0000.0000.000
104B144VAL0-0.063-0.00721.642-0.001-0.0010.0000.0000.0000.000
105B145ASP-1-0.859-0.93921.082-0.167-0.1670.0000.0000.0000.000
106B146ALA0-0.040-0.02018.576-0.034-0.0340.0000.0000.0000.000
107B147ILE0-0.017-0.01916.5810.0340.0340.0000.0000.0000.000
108B148ALA00.0270.02118.182-0.035-0.0350.0000.0000.0000.000
109B149ALA0-0.007-0.00219.5090.0290.0290.0000.0000.0000.000
110B150GLY00.0760.04121.076-0.011-0.0110.0000.0000.0000.000
111B151ALA0-0.062-0.02623.497-0.002-0.0020.0000.0000.0000.000
112B152TRP0-0.002-0.01924.974-0.002-0.0020.0000.0000.0000.000
113B153ALA00.0250.02325.6500.0110.0110.0000.0000.0000.000
114B154SER0-0.022-0.01823.713-0.024-0.0240.0000.0000.0000.000
115B155TYR0-0.025-0.02823.1300.0150.0150.0000.0000.0000.000
116B156ALA0-0.006-0.00522.564-0.017-0.0170.0000.0000.0000.000
117B157LEU0-0.0240.00722.0650.0120.0120.0000.0000.0000.000
118B158LYS10.8540.91123.9310.0930.0930.0000.0000.0000.000
119B159ASP-1-0.921-0.95326.399-0.093-0.0930.0000.0000.0000.000
120B160GLY00.0040.01526.7160.0080.0080.0000.0000.0000.000
121B161LYS10.8450.91928.1150.0930.0930.0000.0000.0000.000
122B162VAL00.0140.00726.135-0.007-0.0070.0000.0000.0000.000
123B163ILE0-0.054-0.02727.2330.0130.0130.0000.0000.0000.000
124B164ALA00.0110.00127.143-0.012-0.0120.0000.0000.0000.000
125B165TRP0-0.058-0.03325.0620.0090.0090.0000.0000.0000.000
126B166GLY00.003-0.00528.461-0.011-0.0110.0000.0000.0000.000
127B167ASP-1-0.754-0.86930.301-0.092-0.0920.0000.0000.0000.000
128B168ASP-1-0.848-0.90531.742-0.099-0.0990.0000.0000.0000.000
129B169SER0-0.090-0.04334.3820.0060.0060.0000.0000.0000.000
130B170ASP-1-0.961-0.98133.336-0.092-0.0920.0000.0000.0000.000
131B171GLY0-0.016-0.00534.757-0.002-0.0020.0000.0000.0000.000
132B172GLN00.0500.01029.4200.0040.0040.0000.0000.0000.000
133B173THR0-0.052-0.04129.322-0.008-0.0080.0000.0000.0000.000
134B174THR0-0.045-0.01631.5930.0050.0050.0000.0000.0000.000
135B175VAL0-0.068-0.02830.507-0.002-0.0020.0000.0000.0000.000
136B176PRO00.0170.01531.9870.0080.0080.0000.0000.0000.000
137B177ALA00.0370.00234.162-0.003-0.0030.0000.0000.0000.000
138B178GLU-1-0.874-0.93534.103-0.094-0.0940.0000.0000.0000.000
139B179ALA0-0.0030.01129.788-0.003-0.0030.0000.0000.0000.000
140B180GLN0-0.007-0.02030.454-0.002-0.0020.0000.0000.0000.000
141B181SER0-0.031-0.02331.6940.0050.0050.0000.0000.0000.000
142B182GLY00.0170.00530.152-0.001-0.0010.0000.0000.0000.000
143B183VAL0-0.038-0.01025.098-0.003-0.0030.0000.0000.0000.000
144B184THR0-0.013-0.01823.4450.0050.0050.0000.0000.0000.000
145B185ALA00.0070.00820.467-0.019-0.0190.0000.0000.0000.000
146B186LEU0-0.044-0.03120.3770.0270.0270.0000.0000.0000.000
147B187ASP-1-0.768-0.88919.314-0.320-0.3200.0000.0000.0000.000
148B188GLY0-0.0070.00721.1550.0290.0290.0000.0000.0000.000
149B189GLY00.0400.03322.078-0.015-0.0150.0000.0000.0000.000
150B190VAL0-0.072-0.04524.5280.0010.0010.0000.0000.0000.000
151B191TYR00.0240.00326.7260.0050.0050.0000.0000.0000.000
152B192THR0-0.025-0.01227.3860.0060.0060.0000.0000.0000.000
153B193ALA00.0420.03825.922-0.009-0.0090.0000.0000.0000.000
154B194LEU0-0.030-0.02223.8450.0140.0140.0000.0000.0000.000
155B195ALA00.0330.00924.782-0.012-0.0120.0000.0000.0000.000
156B196VAL0-0.0020.01923.4880.0110.0110.0000.0000.0000.000
157B197LYS10.8700.92526.1660.1000.1000.0000.0000.0000.000
158B198ASN0-0.049-0.01629.0910.0040.0040.0000.0000.0000.000
159B199GLY00.0300.01927.2410.0060.0060.0000.0000.0000.000
160B200GLY0-0.019-0.00728.3300.0000.0000.0000.0000.0000.000
161B201VAL0-0.020-0.01626.493-0.004-0.0040.0000.0000.0000.000
162B202ILE0-0.045-0.01328.6190.0120.0120.0000.0000.0000.000
163B203ALA0-0.006-0.00928.770-0.011-0.0110.0000.0000.0000.000
164B204TRP0-0.059-0.02727.9010.0090.0090.0000.0000.0000.000
165B205GLY00.0430.02430.801-0.009-0.0090.0000.0000.0000.000
166B206ASP-1-0.770-0.89632.665-0.095-0.0950.0000.0000.0000.000
167B207ASN0-0.029-0.02233.016-0.010-0.0100.0000.0000.0000.000
168B208TYR0-0.046-0.00335.2310.0060.0060.0000.0000.0000.000
169B209PHE0-0.100-0.06233.1330.0050.0050.0000.0000.0000.000
170B210GLY0-0.005-0.00234.453-0.002-0.0020.0000.0000.0000.000
171B211GLN00.0490.01129.4140.0030.0030.0000.0000.0000.000
172B212THR00.0050.01730.051-0.008-0.0080.0000.0000.0000.000
173B213THR0-0.039-0.01032.2020.0050.0050.0000.0000.0000.000
174B214VAL0-0.0120.00030.808-0.003-0.0030.0000.0000.0000.000
175B215PRO00.0050.01230.9800.0090.0090.0000.0000.0000.000
176B216ALA00.0440.00733.118-0.003-0.0030.0000.0000.0000.000
177B217GLU-1-0.880-0.92030.688-0.121-0.1210.0000.0000.0000.000
178B218ALA00.0130.01828.404-0.004-0.0040.0000.0000.0000.000
179B219GLN00.0280.00729.872-0.001-0.0010.0000.0000.0000.000
180B220SER0-0.028-0.01631.1060.0040.0040.0000.0000.0000.000
181B221GLY0-0.006-0.01328.401-0.001-0.0010.0000.0000.0000.000
182B222VAL0-0.072-0.02124.222-0.006-0.0060.0000.0000.0000.000
183B223ASP-1-0.890-0.95520.683-0.195-0.1950.0000.0000.0000.000
184B224ASP-1-0.900-0.95317.246-0.352-0.3520.0000.0000.0000.000
185B225VAL0-0.071-0.05020.4380.0260.0260.0000.0000.0000.000
186B226ALA00.0290.01518.909-0.025-0.0250.0000.0000.0000.000
187B227GLY0-0.020-0.00720.8320.0220.0220.0000.0000.0000.000
188B228GLY00.0210.02222.203-0.015-0.0150.0000.0000.0000.000
189B229ILE0-0.066-0.04424.0330.0080.0080.0000.0000.0000.000
190B230PHE0-0.025-0.03027.0130.0100.0100.0000.0000.0000.000
191B231HIS0-0.035-0.01622.8650.0250.0250.0000.0000.0000.000
192B232SER00.0250.00925.096-0.011-0.0110.0000.0000.0000.000
193B233LEU0-0.059-0.03520.2270.0110.0110.0000.0000.0000.000
194B234ALA00.0450.01723.242-0.001-0.0010.0000.0000.0000.000
195B235LEU0-0.047-0.00518.0990.0030.0030.0000.0000.0000.000
196B236LYS10.8890.93222.1580.1260.1260.0000.0000.0000.000
197B237ASP-1-0.884-0.92723.532-0.140-0.1400.0000.0000.0000.000
198B238GLY0-0.041-0.00920.9380.0080.0080.0000.0000.0000.000
199B239LYS10.8040.87021.9940.1240.1240.0000.0000.0000.000
200B240VAL00.0010.00420.683-0.004-0.0040.0000.0000.0000.000
201B241ILE0-0.048-0.01723.4950.0170.0170.0000.0000.0000.000
202B242ALA00.0260.00625.484-0.011-0.0110.0000.0000.0000.000
203B243TRP0-0.062-0.03326.8400.0100.0100.0000.0000.0000.000
204B244GLY00.0580.03529.141-0.008-0.0080.0000.0000.0000.000
205B245ASP-1-0.743-0.85830.638-0.104-0.1040.0000.0000.0000.000
206B246ASN00.0240.01630.259-0.013-0.0130.0000.0000.0000.000
207B247ARG10.8170.90231.7930.1020.1020.0000.0000.0000.000
208B248TYR0-0.027-0.00728.6240.0060.0060.0000.0000.0000.000
209B249LYS10.8920.92727.9840.0910.0910.0000.0000.0000.000
210B250GLN00.0790.03125.8590.0010.0010.0000.0000.0000.000
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