FMODB

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

Last updated: 2024-07-23

All entries: 37478

Number of unique PDB entries: 7783

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FMODB ID: M34RZ

Calculation Name: 3FBQ-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3FBQ

Chain ID: A

ChEMBL ID:

UniProt ID: A0A0F7

Base Structure: X-ray

Registration Date: 2023-06-19

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 OptAll
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 288
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3776691.688462
FMO2-HF: Nuclear repulsion 3663837.507334
FMO2-HF: Total energy -112854.181127
FMO2-MP2: Total energy -113184.66944


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:4:PRO)


Summations of interaction energy for fragment #1(A:4:PRO)
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.
-0.7460.6690-0.431-0.9820.002
Interaction energy analysis for fragmet #1(A:4:PRO)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.009 / q_NPA : -0.028
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].
3A6VAL00.0100.0063.880-0.4140.6680.001-0.390-0.6930.002
4A7GLY0-0.012-0.0013.812-0.223-0.0260.000-0.035-0.1610.000
5A8ASP-1-0.787-0.9054.783-0.344-0.208-0.001-0.006-0.1280.000
6A9ILE00.0050.0057.1810.1260.1260.0000.0000.0000.000
7A10PHE00.0100.0039.6930.1080.1080.0000.0000.0000.000
8A11ARG10.8680.92812.0360.4460.4460.0000.0000.0000.000
9A12PHE0-0.040-0.01910.4500.0280.0280.0000.0000.0000.000
10A13LEU00.0060.01312.5940.0510.0510.0000.0000.0000.000
11A14ASP-1-0.832-0.90515.779-0.148-0.1480.0000.0000.0000.000
12A15ASN0-0.053-0.02416.0980.0180.0180.0000.0000.0000.000
13A16GLY00.0220.00820.0980.0110.0110.0000.0000.0000.000
14A17ARG10.7740.88322.6410.0910.0910.0000.0000.0000.000
15A18THR0-0.014-0.01919.2100.0030.0030.0000.0000.0000.000
16A19GLY00.0440.02620.6630.0170.0170.0000.0000.0000.000
17A20LEU0-0.059-0.01020.928-0.001-0.0010.0000.0000.0000.000
18A21TYR0-0.025-0.05716.3030.0010.0010.0000.0000.0000.000
19A22GLU-1-0.921-0.93116.091-0.225-0.2250.0000.0000.0000.000
20A23ASN0-0.012-0.03515.819-0.046-0.0460.0000.0000.0000.000
21A24TYR0-0.024-0.04115.6740.0040.0040.0000.0000.0000.000
22A25LYS10.7870.8716.5490.6720.6720.0000.0000.0000.000
23A26GLU-1-0.960-0.96812.459-0.248-0.2480.0000.0000.0000.000
24A27PHE0-0.020-0.01714.0620.0340.0340.0000.0000.0000.000
25A28SER0-0.039-0.02512.5410.0290.0290.0000.0000.0000.000
26A29THR0-0.060-0.03213.8470.0020.0020.0000.0000.0000.000
27A30GLU-1-0.790-0.8676.782-0.168-0.1680.0000.0000.0000.000
28A31LEU0-0.080-0.05210.7920.0220.0220.0000.0000.0000.000
29A32ASN0-0.087-0.0406.7410.1420.1420.0000.0000.0000.000
30A33MET00.0060.0339.7380.0580.0580.0000.0000.0000.000
31A34THR00.0280.00811.0090.0110.0110.0000.0000.0000.000
32A35ARG10.8150.90713.531-0.219-0.2190.0000.0000.0000.000
33A36GLU-1-0.919-0.97013.3020.3640.3640.0000.0000.0000.000
34A37SER00.0120.00316.678-0.011-0.0110.0000.0000.0000.000
35A38ASN0-0.056-0.04219.3270.0050.0050.0000.0000.0000.000
36A39GLY00.0260.02318.161-0.011-0.0110.0000.0000.0000.000
37A40VAL0-0.0090.00215.7590.0050.0050.0000.0000.0000.000
38A41LYS10.8900.9517.570-0.866-0.8660.0000.0000.0000.000
39A42VAL00.0250.01212.948-0.015-0.0150.0000.0000.0000.000
40A43THR0-0.007-0.0318.7500.0570.0570.0000.0000.0000.000
41A44ILE00.0170.01411.242-0.055-0.0550.0000.0000.0000.000
42A45ASN0-0.007-0.0076.668-0.141-0.1410.0000.0000.0000.000
43A46ASP-1-0.755-0.8768.786-0.362-0.3620.0000.0000.0000.000
44A47VAL0-0.025-0.01011.3710.0080.0080.0000.0000.0000.000
45A48ILE00.0320.03515.200-0.003-0.0030.0000.0000.0000.000
46A49SER00.0620.02617.7840.0080.0080.0000.0000.0000.000
47A50ASP-1-0.744-0.83521.565-0.085-0.0850.0000.0000.0000.000
48A51GLY0-0.008-0.00224.3260.0040.0040.0000.0000.0000.000
49A52ARG10.7740.87526.8610.0380.0380.0000.0000.0000.000
50A53THR00.0410.00523.2570.0080.0080.0000.0000.0000.000
51A54LEU0-0.035-0.00120.100-0.003-0.0030.0000.0000.0000.000
52A55SER00.010-0.01117.8640.0020.0020.0000.0000.0000.000
53A56ILE00.003-0.00815.0370.0000.0000.0000.0000.0000.000
54A57THR00.0250.0219.979-0.016-0.0160.0000.0000.0000.000
55A58TYR0-0.045-0.02010.9360.0600.0600.0000.0000.0000.000
56A59SER00.0380.0037.951-0.145-0.1450.0000.0000.0000.000
57A60LEU0-0.025-0.00810.2200.0640.0640.0000.0000.0000.000
58A61GLU-1-0.817-0.8877.4620.7260.7260.0000.0000.0000.000
59A62SER0-0.002-0.01011.514-0.006-0.0060.0000.0000.0000.000
60A63GLU-1-0.901-0.94314.2800.2140.2140.0000.0000.0000.000
61A64GLN0-0.070-0.04416.499-0.029-0.0290.0000.0000.0000.000
62A65ASP-1-0.806-0.91317.4440.0310.0310.0000.0000.0000.000
63A66LEU00.0150.01214.5950.0010.0010.0000.0000.0000.000
64A67GLY00.0030.01018.626-0.006-0.0060.0000.0000.0000.000
65A68ASP-1-0.874-0.92819.194-0.033-0.0330.0000.0000.0000.000
66A69ASP-1-0.952-0.96320.497-0.056-0.0560.0000.0000.0000.000
67A70PRO0-0.060-0.02117.6610.0090.0090.0000.0000.0000.000
68A71ILE00.0120.00920.825-0.008-0.0080.0000.0000.0000.000
69A72ILE0-0.017-0.01417.6020.0120.0120.0000.0000.0000.000
70A73LEU0-0.0030.01321.670-0.007-0.0070.0000.0000.0000.000
71A74GLY00.045-0.00424.1800.0110.0110.0000.0000.0000.000
72A75GLY00.0140.02824.826-0.008-0.0080.0000.0000.0000.000
73A76LEU0-0.038-0.01720.2000.0100.0100.0000.0000.0000.000
74A77ASP-1-0.850-0.91823.6370.0110.0110.0000.0000.0000.000
75A78ILE0-0.017-0.02124.9140.0050.0050.0000.0000.0000.000
76A79MET0-0.048-0.03227.2000.0010.0010.0000.0000.0000.000
77A80ASP-1-0.910-0.96229.9940.0040.0040.0000.0000.0000.000
78A81ALA0-0.031-0.00930.167-0.003-0.0030.0000.0000.0000.000
79A82HIS0-0.020-0.01332.2780.0000.0000.0000.0000.0000.000
80A83GLY00.0360.02534.0990.0010.0010.0000.0000.0000.000
81A84SER00.007-0.00829.0870.0010.0010.0000.0000.0000.000
82A85SER0-0.048-0.02829.4340.0030.0030.0000.0000.0000.000
83A86GLY00.0360.00525.765-0.001-0.0010.0000.0000.0000.000
84A87SER00.0100.02023.2770.0050.0050.0000.0000.0000.000
85A88GLY00.003-0.00220.3110.0020.0020.0000.0000.0000.000
86A89LYS10.8590.94217.9160.1430.1430.0000.0000.0000.000
87A90MET00.0160.00015.610-0.001-0.0010.0000.0000.0000.000
88A91THR00.0170.01412.9550.0130.0130.0000.0000.0000.000
89A92LYS10.8390.92413.4620.0250.0250.0000.0000.0000.000
90A93VAL0-0.0010.0007.946-0.033-0.0330.0000.0000.0000.000
91A94THR0-0.091-0.0579.8130.0530.0530.0000.0000.0000.000
92A95GLU-1-0.778-0.88512.0370.0780.0780.0000.0000.0000.000
93A96LYS10.8150.92112.207-0.095-0.0950.0000.0000.0000.000
94A97LYS10.8350.8897.575-0.329-0.3290.0000.0000.0000.000
95A98TYR00.047-0.01110.833-0.067-0.0670.0000.0000.0000.000
96A99VAL0-0.010-0.0017.9360.0360.0360.0000.0000.0000.000
97A100GLY00.0420.00911.2490.0100.0100.0000.0000.0000.000
98A101MET0-0.0150.00613.123-0.022-0.0220.0000.0000.0000.000
99A102VAL0-0.036-0.01815.6470.0150.0150.0000.0000.0000.000
100A103THR00.0390.02118.686-0.004-0.0040.0000.0000.0000.000
101A104THR0-0.0060.00221.2800.0030.0030.0000.0000.0000.000
102A105THR00.0020.00524.489-0.002-0.0020.0000.0000.0000.000
103A106HIS0-0.010-0.01227.2160.0070.0070.0000.0000.0000.000
104A107HIS0-0.030-0.02830.069-0.001-0.0010.0000.0000.0000.000
105A108ASP-1-0.783-0.85433.187-0.012-0.0120.0000.0000.0000.000
106A109SER00.000-0.00234.590-0.004-0.0040.0000.0000.0000.000
107A110ASN0-0.081-0.04335.143-0.003-0.0030.0000.0000.0000.000
108A111LYS10.9120.96329.6530.0370.0370.0000.0000.0000.000
109A112LYS10.8080.88628.8960.0120.0120.0000.0000.0000.000
110A113ASP-1-0.884-0.94827.955-0.024-0.0240.0000.0000.0000.000
111A114LYS10.9220.95326.060-0.006-0.0060.0000.0000.0000.000
112A115VAL00.0210.02723.8560.0020.0020.0000.0000.0000.000
113A116ASN00.0400.00324.1220.0050.0050.0000.0000.0000.000
114A117PHE00.006-0.00318.429-0.005-0.0050.0000.0000.0000.000
115A118ARG10.8920.92723.213-0.035-0.0350.0000.0000.0000.000
116A119TRP00.0170.02315.261-0.004-0.0040.0000.0000.0000.000
117A120ASN00.002-0.00421.5900.0230.0230.0000.0000.0000.000
118A121ILE00.0320.01618.793-0.007-0.0070.0000.0000.0000.000
119A122GLU-1-0.908-0.95922.9270.0460.0460.0000.0000.0000.000
120A123GLY0-0.018-0.02923.5720.0020.0020.0000.0000.0000.000
121A124ILE0-0.0100.01318.559-0.002-0.0020.0000.0000.0000.000
122A125GLU-1-0.904-0.96121.9940.0180.0180.0000.0000.0000.000
123A126ILE0-0.004-0.00621.053-0.002-0.0020.0000.0000.0000.000
124A127PRO00.0740.03523.6810.0020.0020.0000.0000.0000.000
125A128ASP-1-0.814-0.88823.742-0.002-0.0020.0000.0000.0000.000
126A129ARG10.7610.84322.062-0.018-0.0180.0000.0000.0000.000
127A130LYS10.8080.91427.141-0.005-0.0050.0000.0000.0000.000
128A131LYS10.9140.98423.478-0.056-0.0560.0000.0000.0000.000
129A132SER00.0320.00725.119-0.002-0.0020.0000.0000.0000.000
130A133ILE0-0.030-0.01320.2090.0030.0030.0000.0000.0000.000
131A134GLN00.0620.04423.531-0.001-0.0010.0000.0000.0000.000
132A135GLY00.000-0.01723.6230.0080.0080.0000.0000.0000.000
133A136HIS00.0470.03723.297-0.005-0.0050.0000.0000.0000.000
134A137TRP0-0.091-0.02317.2610.0050.0050.0000.0000.0000.000
135A138ASN00.0080.00219.973-0.006-0.0060.0000.0000.0000.000
136A139PHE0-0.028-0.01315.4250.0130.0130.0000.0000.0000.000
137A140ALA0-0.002-0.00920.610-0.015-0.0150.0000.0000.0000.000
138A141LEU0-0.0310.00217.7590.0110.0110.0000.0000.0000.000
139A142THR0-0.018-0.01022.227-0.009-0.0090.0000.0000.0000.000
140A143VAL00.0080.01818.9130.0060.0060.0000.0000.0000.000
141A144LYS10.8040.88521.8140.0310.0310.0000.0000.0000.000
142A145SER0-0.007-0.00722.088-0.003-0.0030.0000.0000.0000.000
143A146MET0-0.0230.00420.4300.0040.0040.0000.0000.0000.000
144A147ASP-1-0.885-0.92623.573-0.036-0.0360.0000.0000.0000.000
145A148SER00.0620.02426.618-0.004-0.0040.0000.0000.0000.000
146A149LYS10.8990.94928.8680.0460.0460.0000.0000.0000.000
147A150GLU-1-0.762-0.86632.374-0.037-0.0370.0000.0000.0000.000
148A151ARG10.8200.89234.2560.0370.0370.0000.0000.0000.000
149A152THR00.0520.03337.679-0.001-0.0010.0000.0000.0000.000
150A153ILE0-0.099-0.04638.0450.0000.0000.0000.0000.0000.000
151A154GLY00.0490.02741.6820.0010.0010.0000.0000.0000.000
152A155GLY00.011-0.00144.134-0.001-0.0010.0000.0000.0000.000
153A156SER0-0.042-0.01843.9840.0000.0000.0000.0000.0000.000
154A157SER0-0.031-0.00645.6020.0010.0010.0000.0000.0000.000
155A158GLU-1-0.904-0.96646.988-0.021-0.0210.0000.0000.0000.000
156A159LYS10.8720.92648.7650.0260.0260.0000.0000.0000.000
157A160GLU-1-0.817-0.88350.425-0.023-0.0230.0000.0000.0000.000
158A161GLY0-0.039-0.02052.0020.0010.0010.0000.0000.0000.000
159A162ILE0-0.002-0.00346.2800.0010.0010.0000.0000.0000.000
160A163LYS10.8500.92347.0680.0220.0220.0000.0000.0000.000
161A164ALA00.0460.03441.9450.0000.0000.0000.0000.0000.000
162A165ASN0-0.053-0.05742.7880.0010.0010.0000.0000.0000.000
163A166MET00.0010.00638.797-0.002-0.0020.0000.0000.0000.000
164A167GLU-1-0.789-0.84238.636-0.026-0.0260.0000.0000.0000.000
165A168LYS10.7750.87134.6060.0330.0330.0000.0000.0000.000
166A169VAL00.0180.03533.172-0.002-0.0020.0000.0000.0000.000
167A170ALA0-0.006-0.01130.5660.0040.0040.0000.0000.0000.000
168A171MET0-0.0080.00528.989-0.004-0.0040.0000.0000.0000.000
169A172SER00.027-0.01024.2210.0040.0040.0000.0000.0000.000
170A173PRO0-0.013-0.01322.398-0.001-0.0010.0000.0000.0000.000
171A174VAL0-0.0050.00918.556-0.008-0.0080.0000.0000.0000.000
172A175SER00.0070.01821.900-0.007-0.0070.0000.0000.0000.000
173A176PHE0-0.066-0.03624.3380.0090.0090.0000.0000.0000.000
174A177ILE00.0100.01326.407-0.002-0.0020.0000.0000.0000.000
175A178LEU0-0.023-0.00729.6980.0040.0040.0000.0000.0000.000
176A179TYR00.006-0.02132.4610.0000.0000.0000.0000.0000.000
177A180TYR0-0.023-0.03334.1910.0000.0000.0000.0000.0000.000
178A181ASN0-0.025-0.01338.1920.0010.0010.0000.0000.0000.000
179A182GLN00.0080.01340.630-0.003-0.0030.0000.0000.0000.000
180A183GLU-1-0.835-0.89843.152-0.020-0.0200.0000.0000.0000.000
181A184VAL00.0300.01746.366-0.001-0.0010.0000.0000.0000.000
182A185SER0-0.0010.00249.0720.0020.0020.0000.0000.0000.000
183A186LYS10.9930.98552.8760.0130.0130.0000.0000.0000.000
184A187GLY0-0.035-0.02055.4190.0010.0010.0000.0000.0000.000
185A188ALA00.0880.04351.0650.0010.0010.0000.0000.0000.000
186A189ARG10.7720.85048.7690.0170.0170.0000.0000.0000.000
187A190LYS10.8180.91351.8090.0150.0150.0000.0000.0000.000
188A191GLU-1-0.923-0.95752.699-0.019-0.0190.0000.0000.0000.000
189A192TRP0-0.034-0.00847.856-0.001-0.0010.0000.0000.0000.000
190A193ASP-1-0.845-0.91847.403-0.016-0.0160.0000.0000.0000.000
191A194SER0-0.017-0.01141.9910.0000.0000.0000.0000.0000.000
192A195VAL0-0.046-0.01343.745-0.001-0.0010.0000.0000.0000.000
193A196ASP-1-0.845-0.90637.464-0.038-0.0380.0000.0000.0000.000
194A197VAL0-0.013-0.00139.572-0.001-0.0010.0000.0000.0000.000
195A198GLU-1-0.800-0.87332.929-0.057-0.0570.0000.0000.0000.000
196A199LEU0-0.060-0.03734.4960.0030.0030.0000.0000.0000.000
197A200THR0-0.035-0.01633.664-0.003-0.0030.0000.0000.0000.000
198A201VAL00.0070.01132.1340.0040.0040.0000.0000.0000.000
199A202LYS10.8980.94633.0000.0610.0610.0000.0000.0000.000
200A203ASP-1-0.728-0.84233.453-0.067-0.0670.0000.0000.0000.000
201A204ASP-1-0.836-0.90136.360-0.050-0.0500.0000.0000.0000.000
202A205LEU0-0.043-0.00734.3080.0020.0020.0000.0000.0000.000
203A206GLY00.0130.01636.681-0.001-0.0010.0000.0000.0000.000
204A207ASN0-0.059-0.04131.099-0.005-0.0050.0000.0000.0000.000
205A208ASP-1-0.883-0.95530.866-0.071-0.0710.0000.0000.0000.000
206A209TYR0-0.045-0.03827.945-0.007-0.0070.0000.0000.0000.000
207A210SER00.012-0.01924.8210.0100.0100.0000.0000.0000.000
208A211GLY00.017-0.00625.582-0.003-0.0030.0000.0000.0000.000
209A212GLU-1-0.850-0.88222.398-0.118-0.1180.0000.0000.0000.000
210A213GLY00.0260.01526.2820.0030.0030.0000.0000.0000.000
211A214ASN00.0010.00526.765-0.007-0.0070.0000.0000.0000.000
212A215GLY00.0300.03028.3050.0040.0040.0000.0000.0000.000
213A216GLY00.0430.00731.321-0.001-0.0010.0000.0000.0000.000
214A217SER0-0.074-0.03635.0540.0030.0030.0000.0000.0000.000
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