Manual

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: QY47Y

Calculation Name: 4FCZ-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4FCZ

Chain ID: B

ChEMBL ID:

UniProt ID: Q88P91

Base Structure: X-ray

Registration Date: 2023-06-26

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 183
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1880302.659943
FMO2-HF: Nuclear repulsion 1808869.729842
FMO2-HF: Total energy -71432.930102
FMO2-MP2: Total energy -71641.792179


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:22:ALA)


Summations of interaction energy for fragment #1(B:22: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.
-7.329-9.39716.659-7.172-7.418-0.019
Interaction energy analysis for fragmet #1(B:22:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.000 / q_NPA : -0.017
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].
3B24GLN00.0070.0243.123-1.1430.7040.002-0.795-1.0540.000
4B25THR00.0300.0205.191-0.111-0.085-0.001-0.007-0.0180.000
5B26PRO00.0530.0037.9510.2540.2540.0000.0000.0000.000
6B27HIS00.0220.0019.9720.0600.0600.0000.0000.0000.000
7B28GLU-1-0.890-0.9618.065-0.017-0.0170.0000.0000.0000.000
8B29VAL0-0.0020.0166.8170.0480.0480.0000.0000.0000.000
9B30VAL00.0160.0229.530-0.009-0.0090.0000.0000.0000.000
10B31GLN00.0340.06913.306-0.030-0.0300.0000.0000.0000.000
11B32SER0-0.043-0.01810.023-0.010-0.0100.0000.0000.0000.000
12B33THR00.1150.05211.1680.0050.0050.0000.0000.0000.000
13B34THR0-0.074-0.10013.478-0.034-0.0340.0000.0000.0000.000
14B35ASN0-0.053-0.03515.938-0.027-0.0270.0000.0000.0000.000
15B36GLU-1-0.925-0.95712.3910.3800.3800.0000.0000.0000.000
16B37LEU0-0.010-0.00116.288-0.017-0.0170.0000.0000.0000.000
17B38LEU00.020-0.00918.290-0.020-0.0200.0000.0000.0000.000
18B39GLY0-0.076-0.02820.184-0.016-0.0160.0000.0000.0000.000
19B40ASP-1-0.828-0.91820.0410.1570.1570.0000.0000.0000.000
20B41LEU00.006-0.00522.031-0.010-0.0100.0000.0000.0000.000
21B42LYS10.9430.96824.521-0.086-0.0860.0000.0000.0000.000
22B43ALA0-0.049-0.02424.918-0.008-0.0080.0000.0000.0000.000
23B44ASN00.0220.02823.954-0.012-0.0120.0000.0000.0000.000
24B45LYS10.9840.99627.507-0.065-0.0650.0000.0000.0000.000
25B46GLU-1-0.919-0.97829.3940.0570.0570.0000.0000.0000.000
26B47GLN00.0130.00528.291-0.001-0.0010.0000.0000.0000.000
27B48TYR0-0.0260.01222.984-0.002-0.0020.0000.0000.0000.000
28B49LYS10.7880.90829.436-0.063-0.0630.0000.0000.0000.000
29B50SER0-0.0010.00832.692-0.005-0.0050.0000.0000.0000.000
30B51ASN0-0.033-0.01530.511-0.003-0.0030.0000.0000.0000.000
31B52PRO00.0700.02329.4080.0070.0070.0000.0000.0000.000
32B53ASN00.0200.00727.8000.0060.0060.0000.0000.0000.000
33B54ALA00.0690.04525.9110.0070.0070.0000.0000.0000.000
34B55PHE00.0100.01024.0500.0090.0090.0000.0000.0000.000
35B56TYR00.008-0.02623.5470.0120.0120.0000.0000.0000.000
36B57ASP-1-0.897-0.94021.8450.1380.1380.0000.0000.0000.000
37B58SER0-0.072-0.06919.9570.0220.0220.0000.0000.0000.000
38B59LEU0-0.006-0.00118.5920.0230.0230.0000.0000.0000.000
39B60ASN0-0.056-0.04717.7560.0210.0210.0000.0000.0000.000
40B61ARG10.9050.95616.001-0.188-0.1880.0000.0000.0000.000
41B62ILE0-0.0200.00214.2580.0360.0360.0000.0000.0000.000
42B63LEU0-0.013-0.01713.2010.0480.0480.0000.0000.0000.000
43B64GLY0-0.0240.00213.5680.0330.0330.0000.0000.0000.000
44B65PRO00.0220.0069.283-0.007-0.0070.0000.0000.0000.000
45B66VAL00.0440.0358.5170.1990.1990.0000.0000.0000.000
46B67VAL0-0.014-0.00210.521-0.093-0.0930.0000.0000.0000.000
47B68ASP-1-0.841-0.92612.1750.0720.0720.0000.0000.0000.000
48B69ALA00.0420.01013.410-0.045-0.0450.0000.0000.0000.000
49B70ASP-1-0.843-0.92315.7230.0660.0660.0000.0000.0000.000
50B71GLY0-0.041-0.02215.952-0.023-0.0230.0000.0000.0000.000
51B72ILE0-0.044-0.02016.578-0.018-0.0180.0000.0000.0000.000
52B73SER00.008-0.01219.190-0.010-0.0100.0000.0000.0000.000
53B74ARG10.8850.94215.945-0.002-0.0020.0000.0000.0000.000
54B75SER0-0.064-0.01220.819-0.008-0.0080.0000.0000.0000.000
55B76ILE0-0.0290.00422.943-0.004-0.0040.0000.0000.0000.000
56B77MET00.0320.03025.480-0.003-0.0030.0000.0000.0000.000
57B78THR0-0.005-0.00525.744-0.004-0.0040.0000.0000.0000.000
58B79VAL00.1290.05022.9820.0020.0020.0000.0000.0000.000
59B80LYS10.8980.95125.6500.0090.0090.0000.0000.0000.000
60B81TYR00.028-0.01828.980-0.001-0.0010.0000.0000.0000.000
61B82SER00.0770.04124.1760.0000.0000.0000.0000.0000.000
62B83ARG10.8770.94525.6080.0260.0260.0000.0000.0000.000
63B84LYS10.8420.93327.3070.0070.0070.0000.0000.0000.000
64B85ALA00.0350.03526.7080.0020.0020.0000.0000.0000.000
65B86THR00.0290.01226.9540.0000.0000.0000.0000.0000.000
66B87PRO00.0660.01624.2300.0020.0020.0000.0000.0000.000
67B88GLU-1-0.911-0.94125.4560.0340.0340.0000.0000.0000.000
68B89GLN00.0040.00427.7240.0030.0030.0000.0000.0000.000
69B90MET0-0.023-0.01122.3750.0050.0050.0000.0000.0000.000
70B91GLN0-0.008-0.01722.5410.0040.0040.0000.0000.0000.000
71B92ARG10.9480.98724.459-0.026-0.0260.0000.0000.0000.000
72B93PHE00.0150.00923.8440.0020.0020.0000.0000.0000.000
73B94GLN0-0.003-0.01119.5770.0160.0160.0000.0000.0000.000
74B95GLU-1-0.870-0.93123.7390.1020.1020.0000.0000.0000.000
75B96ASN00.002-0.01725.5380.0050.0050.0000.0000.0000.000
76B97PHE0-0.027-0.00622.9140.0000.0000.0000.0000.0000.000
77B98LYS10.9450.97319.827-0.130-0.1300.0000.0000.0000.000
78B99ARG10.9230.97724.587-0.079-0.0790.0000.0000.0000.000
79B100SER00.0400.01627.715-0.003-0.0030.0000.0000.0000.000
80B101LEU0-0.051-0.00223.612-0.003-0.0030.0000.0000.0000.000
81B102MET00.0040.01525.2780.0000.0000.0000.0000.0000.000
82B103GLN0-0.0180.00627.095-0.001-0.0010.0000.0000.0000.000
83B104PHE0-0.051-0.04330.489-0.004-0.0040.0000.0000.0000.000
84B105TYR0-0.009-0.03027.165-0.006-0.0060.0000.0000.0000.000
85B106GLY00.0320.02526.8990.0030.0030.0000.0000.0000.000
86B107ASN0-0.036-0.03627.9120.0020.0020.0000.0000.0000.000
87B108ALA00.0010.00029.2740.0000.0000.0000.0000.0000.000
88B109LEU00.0160.01222.796-0.001-0.0010.0000.0000.0000.000
89B110LEU00.0610.03227.0220.0010.0010.0000.0000.0000.000
90B111GLU-1-0.939-0.94728.7860.0570.0570.0000.0000.0000.000
91B112TYR0-0.029-0.02125.919-0.005-0.0050.0000.0000.0000.000
92B113ASN0-0.063-0.02628.4270.0080.0080.0000.0000.0000.000
93B114ASN0-0.026-0.01129.318-0.008-0.0080.0000.0000.0000.000
94B115GLN00.0730.02727.0340.0100.0100.0000.0000.0000.000
95B116GLY00.0180.01526.775-0.003-0.0030.0000.0000.0000.000
96B117ILE0-0.0020.01020.783-0.002-0.0020.0000.0000.0000.000
97B118THR00.0060.01622.3690.0010.0010.0000.0000.0000.000
98B119VAL00.0070.00516.0440.0000.0000.0000.0000.0000.000
99B120ASP-1-0.922-0.96219.4660.0030.0030.0000.0000.0000.000
100B121PRO0-0.005-0.00818.448-0.002-0.0020.0000.0000.0000.000
101B122ALA00.0030.01314.671-0.004-0.0040.0000.0000.0000.000
102B123LYS10.8930.94016.6920.0660.0660.0000.0000.0000.000
103B124ALA00.0400.02715.161-0.013-0.0130.0000.0000.0000.000
104B125ASP-1-0.929-0.96910.993-0.455-0.4550.0000.0000.0000.000
105B126ASP-1-0.842-0.92413.449-0.282-0.2820.0000.0000.0000.000
106B127GLY00.0100.0159.610-0.008-0.0080.0000.0000.0000.000
107B128LYS10.8310.9229.3050.2110.2110.0000.0000.0000.000
108B129ARG10.9250.95310.9570.1610.1610.0000.0000.0000.000
109B130ALA00.0540.02411.502-0.030-0.0300.0000.0000.0000.000
110B131SER0-0.080-0.10213.3230.0430.0430.0000.0000.0000.000
111B132VAL00.0230.02413.443-0.017-0.0170.0000.0000.0000.000
112B133GLY00.0040.01716.5830.0160.0160.0000.0000.0000.000
113B134MET00.0150.00218.5310.0070.0070.0000.0000.0000.000
114B135LYS10.8970.95921.745-0.019-0.0190.0000.0000.0000.000
115B136VAL00.0420.01724.2460.0060.0060.0000.0000.0000.000
116B137THR0-0.092-0.07126.300-0.007-0.0070.0000.0000.0000.000
117B138GLY00.008-0.00129.3480.0030.0030.0000.0000.0000.000
118B139ASN00.0240.00631.451-0.002-0.0020.0000.0000.0000.000
119B140ASN00.0190.02033.9830.0010.0010.0000.0000.0000.000
120B141GLY00.0710.02834.731-0.002-0.0020.0000.0000.0000.000
121B142ALA0-0.101-0.02934.617-0.003-0.0030.0000.0000.0000.000
122B143VAL00.0110.00529.1020.0040.0040.0000.0000.0000.000
123B144TYR00.0000.00128.533-0.005-0.0050.0000.0000.0000.000
124B145PRO0-0.054-0.02126.2320.0040.0040.0000.0000.0000.000
125B146VAL00.0070.00120.7830.0000.0000.0000.0000.0000.000
126B147GLN00.0260.06319.430-0.010-0.0100.0000.0000.0000.000
127B148TYR00.028-0.00115.5580.0090.0090.0000.0000.0000.000
128B149THR0-0.067-0.03215.430-0.030-0.0300.0000.0000.0000.000
129B150LEU00.0020.00010.4360.0310.0310.0000.0000.0000.000
130B151GLU-1-0.878-0.92510.581-0.147-0.1470.0000.0000.0000.000
131B152ASN0-0.0070.0174.0850.3610.441-0.001-0.020-0.0580.000
132B153ILE0-0.035-0.0356.717-0.073-0.0730.0000.0000.0000.000
133B154GLY00.0090.0045.8250.0770.0770.0000.0000.0000.000
134B155GLY00.0280.0083.326-0.5090.1020.038-0.315-0.3340.000
135B156GLU-1-0.885-0.9421.896-3.994-8.49416.561-6.370-5.690-0.020
136B157TRP0-0.028-0.0083.469-1.355-1.4870.0600.335-0.2640.001
137B158LYS10.8720.9506.326-0.793-0.7930.0000.0000.0000.000
138B159VAL00.013-0.0069.530-0.159-0.1590.0000.0000.0000.000
139B160ARG10.7910.87913.109-0.006-0.0060.0000.0000.0000.000
140B161ASN0-0.054-0.06415.320-0.004-0.0040.0000.0000.0000.000
141B162VAL00.0500.02517.8570.0070.0070.0000.0000.0000.000
142B163ILE0-0.043-0.00920.424-0.008-0.0080.0000.0000.0000.000
143B164VAL00.0720.02223.5220.0030.0030.0000.0000.0000.000
144B165ASN00.0380.01325.904-0.004-0.0040.0000.0000.0000.000
145B166GLY00.0050.00727.884-0.002-0.0020.0000.0000.0000.000
146B167ILE00.0170.01728.185-0.004-0.0040.0000.0000.0000.000
147B168ASN0-0.0150.00323.7560.0100.0100.0000.0000.0000.000
148B169ILE00.0800.04123.190-0.002-0.0020.0000.0000.0000.000
149B170GLY00.0440.01122.7920.0000.0000.0000.0000.0000.000
150B171LYS10.8370.90923.6660.0010.0010.0000.0000.0000.000
151B172LEU00.0380.04226.851-0.003-0.0030.0000.0000.0000.000
152B173PHE00.044-0.00225.799-0.001-0.0010.0000.0000.0000.000
153B174ARG10.8770.95626.3270.0020.0020.0000.0000.0000.000
154B175ASP-1-0.858-0.92928.3090.0020.0020.0000.0000.0000.000
155B176GLN00.0250.01831.1520.0000.0000.0000.0000.0000.000
156B177PHE00.015-0.00629.582-0.001-0.0010.0000.0000.0000.000
157B178ALA0-0.007-0.00231.686-0.001-0.0010.0000.0000.0000.000
158B179ASP-1-0.890-0.94833.7130.0080.0080.0000.0000.0000.000
159B180ALA0-0.0290.00234.673-0.001-0.0010.0000.0000.0000.000
160B181MET0-0.066-0.00433.0910.0000.0000.0000.0000.0000.000
161B182GLN0-0.022-0.01236.245-0.002-0.0020.0000.0000.0000.000
162B183ARG10.8720.93237.518-0.015-0.0150.0000.0000.0000.000
163B184ASN0-0.068-0.03736.985-0.001-0.0010.0000.0000.0000.000
164B185GLY00.0370.01540.2670.0000.0000.0000.0000.0000.000
165B186ASN0-0.069-0.05536.843-0.001-0.0010.0000.0000.0000.000
166B187ASP-1-0.834-0.89836.8430.0130.0130.0000.0000.0000.000
167B188LEU00.008-0.02630.4010.0020.0020.0000.0000.0000.000
168B189ASP-1-0.821-0.90833.3590.0240.0240.0000.0000.0000.000
169B190LYS10.9370.96034.920-0.012-0.0120.0000.0000.0000.000
170B191THR0-0.048-0.02832.4400.0010.0010.0000.0000.0000.000
171B192ILE0-0.064-0.03029.4770.0030.0030.0000.0000.0000.000
172B193ASP-1-0.902-0.95031.9890.0340.0340.0000.0000.0000.000
173B194GLY0-0.037-0.00534.5840.0020.0020.0000.0000.0000.000
174B195TRP00.013-0.01227.373-0.003-0.0030.0000.0000.0000.000
175B196ALA00.0670.03631.9660.0010.0010.0000.0000.0000.000
176B197GLY00.020-0.00432.9600.0010.0010.0000.0000.0000.000
177B198GLU-1-0.823-0.90332.7130.0210.0210.0000.0000.0000.000
178B199VAL0-0.048-0.02629.004-0.001-0.0010.0000.0000.0000.000
179B200ALA0-0.037-0.02531.7530.0000.0000.0000.0000.0000.000
180B201LYS10.8720.93434.594-0.023-0.0230.0000.0000.0000.000
181B202ALA0-0.041-0.01931.441-0.002-0.0020.0000.0000.0000.000
182B203LYS10.8410.95231.693-0.044-0.0440.0000.0000.0000.000
183B204GLN0-0.0090.01133.492-0.002-0.0020.0000.0000.0000.000