Manual

About

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: 3QYRL

Calculation Name: 4HWI-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4HWI

Chain ID: B

ChEMBL ID:

UniProt ID: Q0WUQ1

Base Structure: X-ray

Registration Date: 2023-06-20

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 OptHSide
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 177
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1571707.387398
FMO2-HF: Nuclear repulsion 1501018.56592
FMO2-HF: Total energy -70688.821478
FMO2-MP2: Total energy -70893.14786


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:66:MET)


Summations of interaction energy for fragment #1(B:66:MET)
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.
-7.387-0.9698.724-6.902-8.241-0.023
Interaction energy analysis for fragmet #1(B:66:MET)
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 : 0.000
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].
3B68ARG10.8800.9402.984-2.1751.6980.159-1.888-2.1440.003
4B69VAL00.0200.0174.8500.4420.520-0.001-0.006-0.0720.000
5B70ARG10.8330.8888.0860.8860.8860.0000.0000.0000.000
6B71ILE00.0220.00610.6630.0920.0920.0000.0000.0000.000
7B72LYS10.9160.97513.8040.2240.2240.0000.0000.0000.000
8B73TYR00.0290.01117.2450.0150.0150.0000.0000.0000.000
9B74GLY00.0620.03819.6020.0030.0030.0000.0000.0000.000
10B75ALA0-0.027-0.03322.125-0.007-0.0070.0000.0000.0000.000
11B76VAL00.0210.02617.442-0.012-0.0120.0000.0000.0000.000
12B77TYR0-0.026-0.02314.4200.0020.0020.0000.0000.0000.000
13B78HIS00.0610.03212.912-0.038-0.0380.0000.0000.0000.000
14B79GLU-1-0.839-0.9056.431-1.421-1.4210.0000.0000.0000.000
15B80ILE00.0060.0047.3040.0050.0050.0000.0000.0000.000
16B81ASN0-0.002-0.0032.410-2.843-1.7731.980-0.947-2.104-0.007
17B82ILE00.020-0.0033.459-0.4130.6660.047-0.308-0.818-0.002
18B83SER00.0440.0331.898-2.691-1.2925.736-5.048-2.086-0.015
19B84PRO00.010-0.0112.514-0.122-1.2980.8041.298-0.926-0.002
20B85GLN00.038-0.0045.2300.2800.375-0.001-0.003-0.0910.000
21B86ALA0-0.0070.0226.698-0.157-0.1570.0000.0000.0000.000
22B87SER0-0.009-0.0358.506-0.184-0.1840.0000.0000.0000.000
23B88PHE00.003-0.03411.250-0.049-0.0490.0000.0000.0000.000
24B89GLY00.007-0.00813.350-0.046-0.0460.0000.0000.0000.000
25B90GLU-1-0.830-0.87510.2560.4880.4880.0000.0000.0000.000
26B91LEU00.0110.0039.027-0.053-0.0530.0000.0000.0000.000
27B92LYS10.8570.93611.2900.0130.0130.0000.0000.0000.000
28B93LYS10.9050.95313.918-0.077-0.0770.0000.0000.0000.000
29B94MET0-0.028-0.0096.7800.0500.0500.0000.0000.0000.000
30B95LEU00.0230.01012.011-0.076-0.0760.0000.0000.0000.000
31B96THR0-0.049-0.01714.2670.0080.0080.0000.0000.0000.000
32B97GLY0-0.0200.00515.6770.0070.0070.0000.0000.0000.000
33B98PRO0-0.013-0.00613.0230.0130.0130.0000.0000.0000.000
34B99THR0-0.064-0.05216.1880.0150.0150.0000.0000.0000.000
35B100GLY00.0290.02418.7690.0170.0170.0000.0000.0000.000
36B101ILE0-0.0120.01120.3750.0210.0210.0000.0000.0000.000
37B102HIS00.1180.06819.905-0.012-0.0120.0000.0000.0000.000
38B103HIS00.0690.01917.8940.0090.0090.0000.0000.0000.000
39B104GLN0-0.110-0.06719.4850.0080.0080.0000.0000.0000.000
40B105ASP-1-0.785-0.86822.559-0.054-0.0540.0000.0000.0000.000
41B106GLN0-0.034-0.01816.848-0.028-0.0280.0000.0000.0000.000
42B107LYS10.8620.92620.8710.1050.1050.0000.0000.0000.000
43B108LEU00.0300.00114.606-0.015-0.0150.0000.0000.0000.000
44B109MET0-0.030-0.00118.7200.0300.0300.0000.0000.0000.000
45B110TYR00.008-0.00613.851-0.053-0.0530.0000.0000.0000.000
46B111LYS10.9460.96817.4540.2180.2180.0000.0000.0000.000
47B112ASP-1-0.851-0.91319.919-0.144-0.1440.0000.0000.0000.000
48B113LYS10.9330.97020.7640.0790.0790.0000.0000.0000.000
49B114GLU-1-0.774-0.88620.222-0.088-0.0880.0000.0000.0000.000
50B115ARG10.7880.90016.2720.1480.1480.0000.0000.0000.000
51B116ASP-1-0.784-0.87518.7610.0200.0200.0000.0000.0000.000
52B117SER00.039-0.00716.804-0.007-0.0070.0000.0000.0000.000
53B118LYS10.8740.91516.060-0.015-0.0150.0000.0000.0000.000
54B119ALA0-0.0340.01316.3150.0250.0250.0000.0000.0000.000
55B120PHE00.0700.02811.639-0.019-0.0190.0000.0000.0000.000
56B121LEU0-0.021-0.0077.091-0.117-0.1170.0000.0000.0000.000
57B122ASP-1-0.767-0.8728.5520.2410.2410.0000.0000.0000.000
58B123VAL0-0.029-0.01510.201-0.064-0.0640.0000.0000.0000.000
59B124SER0-0.076-0.04113.109-0.030-0.0300.0000.0000.0000.000
60B125GLY0-0.031-0.02213.339-0.023-0.0230.0000.0000.0000.000
61B126VAL0-0.117-0.0468.904-0.061-0.0610.0000.0000.0000.000
62B127LYS11.0061.0008.9090.3220.3220.0000.0000.0000.000
63B128ASP-1-0.680-0.8215.542-1.549-1.5490.0000.0000.0000.000
64B129LYS10.7600.8607.5581.0711.0710.0000.0000.0000.000
65B130SER00.0060.0209.4030.1410.1410.0000.0000.0000.000
66B131LYS10.9470.97811.3740.3100.3100.0000.0000.0000.000
67B132MET0-0.039-0.01813.2340.0380.0380.0000.0000.0000.000
68B133VAL0-0.031-0.01215.578-0.017-0.0170.0000.0000.0000.000
69B134LEU00.0010.01217.0840.0140.0140.0000.0000.0000.000
70B135ILE0-0.045-0.02819.1110.0020.0020.0000.0000.0000.000
71B136GLU-1-0.874-0.93722.701-0.110-0.1100.0000.0000.0000.000
72B137ASP-1-0.894-0.97224.399-0.058-0.0580.0000.0000.0000.000
73B138PRO00.0500.02227.1130.0060.0060.0000.0000.0000.000
74B139LEU0-0.016-0.00229.6410.0080.0080.0000.0000.0000.000
75B140SER0-0.019-0.01626.2870.0080.0080.0000.0000.0000.000
76B141GLN00.009-0.00628.2470.0110.0110.0000.0000.0000.000
77B142GLU-1-0.852-0.93630.234-0.013-0.0130.0000.0000.0000.000
78B143LYS10.8730.94924.8400.0590.0590.0000.0000.0000.000
79B144ARG10.9390.96626.281-0.006-0.0060.0000.0000.0000.000
80B145PHE0-0.002-0.02228.5020.0080.0080.0000.0000.0000.000
81B146LEU0-0.031-0.00931.7840.0040.0040.0000.0000.0000.000
82B147GLU-1-0.832-0.90926.854-0.003-0.0030.0000.0000.0000.000
83B148MET0-0.029-0.00928.7380.0080.0080.0000.0000.0000.000
84B149ARG10.9771.00730.5260.0050.0050.0000.0000.0000.000
85B150LYS10.8390.90630.5070.0120.0120.0000.0000.0000.000
86B151ILE00.0060.00626.5930.0030.0030.0000.0000.0000.000
87B152ALA00.0220.01230.9110.0040.0040.0000.0000.0000.000
88B153LYS10.8470.92033.816-0.011-0.0110.0000.0000.0000.000
89B154THR0-0.035-0.03631.815-0.001-0.0010.0000.0000.0000.000
90B155GLU-1-0.866-0.93331.3770.0570.0570.0000.0000.0000.000
91B156LYS10.9280.97234.213-0.022-0.0220.0000.0000.0000.000
92B157ALA00.0110.00437.8020.0000.0000.0000.0000.0000.000
93B158SER00.0480.02234.2360.0000.0000.0000.0000.0000.000
94B159LYS10.8580.90536.954-0.042-0.0420.0000.0000.0000.000
95B160ALA0-0.006-0.00338.3540.0000.0000.0000.0000.0000.000
96B161ILE0-0.003-0.00239.446-0.001-0.0010.0000.0000.0000.000
97B162SER0-0.046-0.02838.1340.0010.0010.0000.0000.0000.000
98B163ASP-1-0.811-0.88140.5610.0410.0410.0000.0000.0000.000
99B164ILE00.0010.00243.440-0.001-0.0010.0000.0000.0000.000
100B165SER0-0.011-0.00442.267-0.001-0.0010.0000.0000.0000.000
101B166LEU0-0.0100.00241.6610.0000.0000.0000.0000.0000.000
102B167GLU-1-0.780-0.84145.2580.0280.0280.0000.0000.0000.000
103B168VAL0-0.015-0.02447.164-0.001-0.0010.0000.0000.0000.000
104B169ASP-1-0.848-0.90244.5900.0400.0400.0000.0000.0000.000
105B170ARG10.7780.85948.136-0.030-0.0300.0000.0000.0000.000
106B171LEU0-0.031-0.02151.054-0.001-0.0010.0000.0000.0000.000
107B172GLY00.0760.03551.501-0.001-0.0010.0000.0000.0000.000
108B173GLY0-0.0210.00052.0430.0000.0000.0000.0000.0000.000
109B174ARG10.9280.95753.201-0.024-0.0240.0000.0000.0000.000
110B175VAL00.0150.02455.283-0.001-0.0010.0000.0000.0000.000
111B176SER00.022-0.00353.512-0.001-0.0010.0000.0000.0000.000
112B177ALA0-0.049-0.02155.9990.0000.0000.0000.0000.0000.000
113B178PHE00.023-0.02358.431-0.001-0.0010.0000.0000.0000.000
114B179GLU-1-0.875-0.92856.6290.0230.0230.0000.0000.0000.000
115B180MET0-0.067-0.02658.656-0.001-0.0010.0000.0000.0000.000
116B181VAL00.021-0.00760.607-0.001-0.0010.0000.0000.0000.000
117B182THR0-0.0170.00063.664-0.001-0.0010.0000.0000.0000.000
118B183LYS10.9250.96559.459-0.025-0.0250.0000.0000.0000.000
119B184LYS10.8650.92961.089-0.027-0.0270.0000.0000.0000.000
120B185GLY00.0200.02265.7810.0000.0000.0000.0000.0000.000
121B186GLY0-0.0140.00667.594-0.001-0.0010.0000.0000.0000.000
122B187LYS10.9570.96468.750-0.016-0.0160.0000.0000.0000.000
123B188ILE00.0090.02363.5440.0000.0000.0000.0000.0000.000
124B189ALA0-0.016-0.00267.488-0.001-0.0010.0000.0000.0000.000
125B190GLU-1-0.760-0.88267.4410.0140.0140.0000.0000.0000.000
126B191LYS10.9140.94767.293-0.017-0.0170.0000.0000.0000.000
127B192ASP-1-0.849-0.91664.2910.0180.0180.0000.0000.0000.000
128B193LEU0-0.009-0.00162.8920.0010.0010.0000.0000.0000.000
129B194VAL00.0310.01562.4330.0000.0000.0000.0000.0000.000
130B195THR0-0.001-0.00861.4070.0000.0000.0000.0000.0000.000
131B196VAL0-0.050-0.02957.2380.0000.0000.0000.0000.0000.000
132B197ILE00.0510.03557.9390.0010.0010.0000.0000.0000.000
133B198GLU-1-0.913-0.95758.3940.0140.0140.0000.0000.0000.000
134B199LEU0-0.070-0.04156.3450.0000.0000.0000.0000.0000.000
135B200LEU00.0120.00052.9030.0010.0010.0000.0000.0000.000
136B201MET00.0190.01253.8460.0000.0000.0000.0000.0000.000
137B202ASN0-0.011-0.01054.824-0.001-0.0010.0000.0000.0000.000
138B203GLU-1-0.793-0.87850.0510.0240.0240.0000.0000.0000.000
139B204LEU0-0.016-0.00849.9710.0010.0010.0000.0000.0000.000
140B205ILE00.0240.00550.6670.0000.0000.0000.0000.0000.000
141B206LYS10.7920.87948.681-0.024-0.0240.0000.0000.0000.000
142B207LEU0-0.024-0.01744.9070.0000.0000.0000.0000.0000.000
143B208ASP-1-0.896-0.94446.4350.0140.0140.0000.0000.0000.000
144B209ALA0-0.041-0.00648.382-0.002-0.0020.0000.0000.0000.000
145B210ILE0-0.074-0.02441.8830.0000.0000.0000.0000.0000.000
146B211VAL0-0.028-0.01341.247-0.001-0.0010.0000.0000.0000.000
147B212ALA00.0150.00139.1140.0020.0020.0000.0000.0000.000
148B213GLU-1-0.872-0.93035.2970.0100.0100.0000.0000.0000.000
149B214GLY00.0270.00134.0930.0030.0030.0000.0000.0000.000
150B215ASP-1-0.852-0.93531.0700.0340.0340.0000.0000.0000.000
151B216VAL00.0370.02734.2300.0010.0010.0000.0000.0000.000
152B217LYS10.9370.97636.509-0.010-0.0100.0000.0000.0000.000
153B218LEU0-0.035-0.01535.121-0.001-0.0010.0000.0000.0000.000
154B219GLN00.0660.01836.603-0.002-0.0020.0000.0000.0000.000
155B220ARG10.8570.93439.164-0.016-0.0160.0000.0000.0000.000
156B221LYS10.9460.95641.610-0.017-0.0170.0000.0000.0000.000
157B222MET0-0.0200.00238.2450.0000.0000.0000.0000.0000.000
158B223GLN00.0690.03741.530-0.001-0.0010.0000.0000.0000.000
159B224VAL00.0080.02045.094-0.001-0.0010.0000.0000.0000.000
160B225LYS10.8740.93946.468-0.019-0.0190.0000.0000.0000.000
161B226ARG10.8170.89044.816-0.036-0.0360.0000.0000.0000.000
162B227VAL00.0120.00648.3520.0000.0000.0000.0000.0000.000
163B228GLN00.0220.00151.1310.0000.0000.0000.0000.0000.000
164B229ASN00.0350.02250.195-0.002-0.0020.0000.0000.0000.000
165B230TYR00.0170.00849.3290.0000.0000.0000.0000.0000.000
166B231VAL00.0310.00954.4150.0000.0000.0000.0000.0000.000
167B232GLU-1-0.910-0.93555.5250.0170.0170.0000.0000.0000.000
168B233THR0-0.050-0.02456.0780.0000.0000.0000.0000.0000.000
169B234LEU0-0.048-0.02957.8830.0000.0000.0000.0000.0000.000
170B235ASP-1-0.871-0.93960.6730.0140.0140.0000.0000.0000.000
171B236ALA0-0.034-0.01261.716-0.001-0.0010.0000.0000.0000.000
172B237LEU0-0.062-0.04061.1770.0000.0000.0000.0000.0000.000
173B238LYS10.8810.92564.595-0.013-0.0130.0000.0000.0000.000
174B239VAL0-0.0020.00666.576-0.001-0.0010.0000.0000.0000.000
175B240LYS10.8850.95566.049-0.017-0.0170.0000.0000.0000.000
176B241ASN0-0.053-0.02967.6700.0000.0000.0000.0000.0000.000
177B242SER0-0.045-0.01170.7420.0000.0000.0000.0000.0000.000