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: NN4GQ

Calculation Name: 3BUU-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3BUU

Chain ID: A

ChEMBL ID:

UniProt ID: Q82SR2

Base Structure: X-ray

Registration Date: 2023-09-24

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 224
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2875665.33862
FMO2-HF: Nuclear repulsion 2785624.6986
FMO2-HF: Total energy -90040.64002
FMO2-MP2: Total energy -90304.643331


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:34:ALA)


Summations of interaction energy for fragment #1(A:34: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.
-1.570.3240.003-0.963-0.9340.004
Interaction energy analysis for fragmet #1(A:34:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.018 / q_NPA : 0.004
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].
3A36THR00.0100.0083.687-0.5231.3710.003-0.963-0.9340.004
4A37ALA00.0440.0216.0970.2490.2490.0000.0000.0000.000
5A38GLN00.002-0.0019.551-0.026-0.0260.0000.0000.0000.000
6A39SER00.0260.0177.150-0.156-0.1560.0000.0000.0000.000
7A40ILE00.001-0.0078.4520.2160.2160.0000.0000.0000.000
8A41LEU0-0.010-0.00410.9330.1800.1800.0000.0000.0000.000
9A42GLU-1-0.910-0.96410.954-1.260-1.2600.0000.0000.0000.000
10A43LYS10.8600.9149.5561.1451.1450.0000.0000.0000.000
11A44ALA00.0430.02813.7340.1110.1110.0000.0000.0000.000
12A45ASP-1-0.724-0.85716.574-0.425-0.4250.0000.0000.0000.000
13A46GLU-1-0.887-0.92913.838-0.716-0.7160.0000.0000.0000.000
14A47ILE00.0150.04116.0610.0650.0650.0000.0000.0000.000
15A48ARG10.8670.93919.3480.3150.3150.0000.0000.0000.000
16A49PHE0-0.044-0.04021.6510.0480.0480.0000.0000.0000.000
17A50PRO00.0190.00621.609-0.032-0.0320.0000.0000.0000.000
18A51GLN0-0.0160.00018.2610.0070.0070.0000.0000.0000.000
19A52ASP-1-0.857-0.92421.613-0.219-0.2190.0000.0000.0000.000
20A53SER0-0.073-0.03624.9640.0020.0020.0000.0000.0000.000
21A54PHE0-0.007-0.00925.9370.0100.0100.0000.0000.0000.000
22A55GLN0-0.0140.00230.2310.0070.0070.0000.0000.0000.000
23A56VAL0-0.009-0.00630.724-0.005-0.0050.0000.0000.0000.000
24A57ASN00.0170.01533.1880.0030.0030.0000.0000.0000.000
25A58VAL00.0010.00133.409-0.005-0.0050.0000.0000.0000.000
26A59ALA0-0.011-0.01436.0250.0080.0080.0000.0000.0000.000
27A60ILE0-0.005-0.00335.638-0.006-0.0060.0000.0000.0000.000
28A61ARG10.8570.92138.3270.1130.1130.0000.0000.0000.000
29A62THR00.0650.03639.309-0.009-0.0090.0000.0000.0000.000
30A63ALA00.0090.02041.1420.0050.0050.0000.0000.0000.000
31A64ALA00.0320.03041.638-0.005-0.0050.0000.0000.0000.000
32A65PRO0-0.050-0.03443.4900.0020.0020.0000.0000.0000.000
33A66ASP-1-0.915-0.94946.403-0.059-0.0590.0000.0000.0000.000
34A67HIS0-0.108-0.06447.2500.0050.0050.0000.0000.0000.000
35A68ALA0-0.009-0.01145.863-0.003-0.0030.0000.0000.0000.000
36A69GLU-1-0.879-0.92143.840-0.080-0.0800.0000.0000.0000.000
37A70ASP-1-0.915-0.95645.984-0.073-0.0730.0000.0000.0000.000
38A71LEU0-0.110-0.06041.967-0.005-0.0050.0000.0000.0000.000
39A72TYR00.024-0.01041.0980.0010.0010.0000.0000.0000.000
40A73ARG10.7960.87240.4500.0880.0880.0000.0000.0000.000
41A74TYR00.0650.03437.6360.0030.0030.0000.0000.0000.000
42A75GLN0-0.0080.00737.865-0.003-0.0030.0000.0000.0000.000
43A76VAL0-0.001-0.00332.3580.0020.0020.0000.0000.0000.000
44A77LEU0-0.034-0.01633.672-0.001-0.0010.0000.0000.0000.000
45A78SER00.0300.00428.2430.0000.0000.0000.0000.0000.000
46A79LYS10.8820.92928.3870.1890.1890.0000.0000.0000.000
47A80GLY00.0740.03124.858-0.005-0.0050.0000.0000.0000.000
48A81ASN00.004-0.01823.9330.0150.0150.0000.0000.0000.000
49A82GLU-1-0.827-0.87126.173-0.188-0.1880.0000.0000.0000.000
50A83ASN0-0.070-0.06728.4400.0240.0240.0000.0000.0000.000
51A84SER0-0.014-0.02130.720-0.005-0.0050.0000.0000.0000.000
52A85ILE0-0.016-0.01433.0180.0090.0090.0000.0000.0000.000
53A86VAL00.0070.01435.182-0.005-0.0050.0000.0000.0000.000
54A87MET0-0.015-0.00837.7270.0080.0080.0000.0000.0000.000
55A88ILE00.0170.02941.052-0.003-0.0030.0000.0000.0000.000
56A89THR0-0.029-0.04242.7850.0030.0030.0000.0000.0000.000
57A90GLU-1-0.836-0.86444.419-0.082-0.0820.0000.0000.0000.000
58A91PRO00.1740.08444.426-0.005-0.0050.0000.0000.0000.000
59A92ALA0-0.017-0.02647.898-0.001-0.0010.0000.0000.0000.000
60A93SER0-0.014-0.00850.2060.0010.0010.0000.0000.0000.000
61A94GLU-1-0.848-0.90246.041-0.090-0.0900.0000.0000.0000.000
62A95ARG10.8470.91547.0720.0730.0730.0000.0000.0000.000
63A96GLY00.0080.00946.6140.0030.0030.0000.0000.0000.000
64A97GLN0-0.062-0.02345.3150.0030.0030.0000.0000.0000.000
65A98ALA0-0.018-0.01842.059-0.003-0.0030.0000.0000.0000.000
66A99ILE0-0.0010.00137.1030.0020.0020.0000.0000.0000.000
67A100LEU0-0.0340.00036.901-0.002-0.0020.0000.0000.0000.000
68A101MET00.0120.04829.3570.0020.0020.0000.0000.0000.000
69A102LYS10.8820.93233.2870.1240.1240.0000.0000.0000.000
70A103GLY00.0360.01930.1640.0060.0060.0000.0000.0000.000
71A104ARG10.8100.88823.9910.2430.2430.0000.0000.0000.000
72A105ASP-1-0.872-0.90131.410-0.133-0.1330.0000.0000.0000.000
73A106LEU0-0.0030.00734.161-0.002-0.0020.0000.0000.0000.000
74A107TRP00.0180.00037.3940.0110.0110.0000.0000.0000.000
75A108VAL00.019-0.00140.423-0.004-0.0040.0000.0000.0000.000
76A109PHE0-0.040-0.02641.8210.0060.0060.0000.0000.0000.000
77A110MET00.0720.03545.888-0.002-0.0020.0000.0000.0000.000
78A111PRO00.0600.02248.6590.0020.0020.0000.0000.0000.000
79A112SER0-0.027-0.00151.9700.0020.0020.0000.0000.0000.000
80A113VAL0-0.015-0.00749.4730.0020.0020.0000.0000.0000.000
81A114SER00.0080.00151.808-0.001-0.0010.0000.0000.0000.000
82A115GLN0-0.052-0.04448.644-0.004-0.0040.0000.0000.0000.000
83A116PRO0-0.0220.01644.3420.0010.0010.0000.0000.0000.000
84A117ILE00.0370.01444.1460.0010.0010.0000.0000.0000.000
85A118ARG10.7450.84737.0830.1180.1180.0000.0000.0000.000
86A119LEU00.0340.03139.2450.0040.0040.0000.0000.0000.000
87A120SER00.000-0.01634.894-0.002-0.0020.0000.0000.0000.000
88A121LEU00.0630.02129.3110.0020.0020.0000.0000.0000.000
89A122SER00.0390.02932.1600.0010.0010.0000.0000.0000.000
90A123GLN0-0.0260.00633.3580.0030.0030.0000.0000.0000.000
91A124ARG10.8640.92236.2150.1090.1090.0000.0000.0000.000
92A125LEU0-0.0340.00136.1680.0030.0030.0000.0000.0000.000
93A126THR0-0.006-0.01638.3130.0070.0070.0000.0000.0000.000
94A127GLY00.0320.03038.320-0.006-0.0060.0000.0000.0000.000
95A128GLN00.0170.01634.903-0.007-0.0070.0000.0000.0000.000
96A129VAL0-0.0210.00933.201-0.012-0.0120.0000.0000.0000.000
97A130ALA00.0100.00532.2030.0090.0090.0000.0000.0000.000
98A131ASN00.007-0.01733.511-0.003-0.0030.0000.0000.0000.000
99A132GLY00.003-0.02230.614-0.004-0.0040.0000.0000.0000.000
100A133ASP-1-0.763-0.85328.956-0.208-0.2080.0000.0000.0000.000
101A134ILE0-0.063-0.02629.532-0.006-0.0060.0000.0000.0000.000
102A135ALA00.0060.00731.215-0.002-0.0020.0000.0000.0000.000
103A136ARG10.7430.81926.1030.2450.2450.0000.0000.0000.000
104A137ALA0-0.0240.01124.4140.0040.0040.0000.0000.0000.000
105A138ASN0-0.005-0.00820.4400.0010.0010.0000.0000.0000.000
106A139PHE0-0.002-0.00619.2970.0380.0380.0000.0000.0000.000
107A140THR0-0.017-0.04615.879-0.016-0.0160.0000.0000.0000.000
108A141GLY0-0.0080.00018.4060.0320.0320.0000.0000.0000.000
109A142ASP-1-0.792-0.86420.407-0.245-0.2450.0000.0000.0000.000
110A143TYR00.000-0.01319.8070.0430.0430.0000.0000.0000.000
111A144HIS0-0.0060.00213.758-0.069-0.0690.0000.0000.0000.000
112A145PRO0-0.0150.00812.9990.0520.0520.0000.0000.0000.000
113A146GLN0-0.005-0.01712.537-0.078-0.0780.0000.0000.0000.000
114A147LEU00.0030.0059.3350.0230.0230.0000.0000.0000.000
115A148LEU0-0.061-0.01212.4820.0610.0610.0000.0000.0000.000
116A149ARG10.8010.87514.9470.2620.2620.0000.0000.0000.000
117A150ASN00.0690.02711.442-0.118-0.1180.0000.0000.0000.000
118A151GLU-1-0.790-0.87915.248-0.155-0.1550.0000.0000.0000.000
119A152SER00.016-0.00418.326-0.020-0.0200.0000.0000.0000.000
120A153ILE0-0.121-0.06519.9480.0110.0110.0000.0000.0000.000
121A154ASP-1-0.926-0.96322.890-0.087-0.0870.0000.0000.0000.000
122A155ASP-1-0.959-0.97422.361-0.090-0.0900.0000.0000.0000.000
123A156GLU-1-0.793-0.86118.019-0.236-0.2360.0000.0000.0000.000
124A157ASP-1-0.846-0.90115.125-0.146-0.1460.0000.0000.0000.000
125A158TYR0-0.058-0.03615.755-0.063-0.0630.0000.0000.0000.000
126A159TYR00.0390.0228.767-0.040-0.0400.0000.0000.0000.000
127A160VAL0-0.030-0.00713.7410.0150.0150.0000.0000.0000.000
128A161LEU00.0160.00111.847-0.005-0.0050.0000.0000.0000.000
129A162GLU-1-0.802-0.90515.498-0.187-0.1870.0000.0000.0000.000
130A163LEU0-0.012-0.00616.808-0.054-0.0540.0000.0000.0000.000
131A164THR0-0.007-0.00319.2150.0510.0510.0000.0000.0000.000
132A165GLY0-0.001-0.00621.163-0.026-0.0260.0000.0000.0000.000
133A166ILE0-0.030-0.01419.7580.0160.0160.0000.0000.0000.000
134A167ASP-1-0.787-0.85423.569-0.189-0.1890.0000.0000.0000.000
135A168ARG10.9330.96027.4290.1270.1270.0000.0000.0000.000
136A169SER0-0.087-0.05829.8970.0080.0080.0000.0000.0000.000
137A170VAL0-0.0150.00425.3250.0030.0030.0000.0000.0000.000
138A171THR0-0.030-0.02028.0840.0100.0100.0000.0000.0000.000
139A172TYR00.002-0.02526.4590.0200.0200.0000.0000.0000.000
140A173GLN0-0.047-0.04726.675-0.001-0.0010.0000.0000.0000.000
141A174LYS10.8430.92522.5140.2120.2120.0000.0000.0000.000
142A175VAL0-0.0070.00722.2730.0200.0200.0000.0000.0000.000
143A176LEU0-0.057-0.00419.889-0.021-0.0210.0000.0000.0000.000
144A177LEU00.003-0.00917.6840.0250.0250.0000.0000.0000.000
145A178TRP0-0.056-0.03617.507-0.050-0.0500.0000.0000.0000.000
146A179VAL0-0.027-0.01814.0050.0190.0190.0000.0000.0000.000
147A180ASN00.003-0.01614.828-0.048-0.0480.0000.0000.0000.000
148A181GLN0-0.012-0.02811.317-0.147-0.1470.0000.0000.0000.000
149A182SER0-0.048-0.02611.672-0.061-0.0610.0000.0000.0000.000
150A183ASN0-0.059-0.04814.103-0.021-0.0210.0000.0000.0000.000
151A184PHE00.011-0.0017.968-0.059-0.0590.0000.0000.0000.000
152A185ARG10.9701.01214.1380.2650.2650.0000.0000.0000.000
153A186PRO0-0.0220.00517.733-0.009-0.0090.0000.0000.0000.000
154A187TYR00.0130.00519.5670.0300.0300.0000.0000.0000.000
155A188LYS10.8710.92521.7860.2270.2270.0000.0000.0000.000
156A189ALA0-0.022-0.00722.030-0.036-0.0360.0000.0000.0000.000
157A190GLU-1-0.798-0.88123.923-0.168-0.1680.0000.0000.0000.000
158A191PHE00.0010.00124.898-0.018-0.0180.0000.0000.0000.000
159A192TYR0-0.022-0.03824.8530.0240.0240.0000.0000.0000.000
160A193SER00.0380.00828.490-0.007-0.0070.0000.0000.0000.000
161A194VAL0-0.003-0.01629.794-0.006-0.0060.0000.0000.0000.000
162A195SER0-0.026-0.00531.6200.0010.0010.0000.0000.0000.000
163A196GLY00.0350.02028.5460.0080.0080.0000.0000.0000.000
164A197ARG10.8720.93729.4760.1080.1080.0000.0000.0000.000
165A198LEU00.0450.02827.959-0.006-0.0060.0000.0000.0000.000
166A199LEU0-0.052-0.02830.6270.0110.0110.0000.0000.0000.000
167A200LYS10.8370.90730.1020.1820.1820.0000.0000.0000.000
168A201THR0-0.013-0.00228.334-0.012-0.0120.0000.0000.0000.000
169A202SER0-0.009-0.01126.6770.0030.0030.0000.0000.0000.000
170A203ARG10.8470.89526.4890.1310.1310.0000.0000.0000.000
171A204TYR0-0.012-0.00723.5720.0000.0000.0000.0000.0000.000
172A205GLU-1-0.790-0.89725.838-0.144-0.1440.0000.0000.0000.000
173A206ASN0-0.020-0.01828.063-0.004-0.0040.0000.0000.0000.000
174A207PHE00.0060.01022.2720.0010.0010.0000.0000.0000.000
175A208ASP-1-0.872-0.93226.466-0.133-0.1330.0000.0000.0000.000
176A209ASN0-0.035-0.02725.726-0.030-0.0300.0000.0000.0000.000
177A210ILE00.0060.00125.6840.0150.0150.0000.0000.0000.000
178A211LEU0-0.031-0.02424.995-0.019-0.0190.0000.0000.0000.000
179A212GLY00.0060.00522.334-0.020-0.0200.0000.0000.0000.000
180A213GLU-1-0.836-0.90917.578-0.397-0.3970.0000.0000.0000.000
181A214MET0-0.075-0.01921.2200.0370.0370.0000.0000.0000.000
182A215ARG10.8350.89221.0050.2980.2980.0000.0000.0000.000
183A216PRO0-0.040-0.00423.0720.0210.0210.0000.0000.0000.000
184A217THR0-0.031-0.02926.0910.0040.0040.0000.0000.0000.000
185A218ARG10.8380.89529.1940.1400.1400.0000.0000.0000.000
186A219ILE0-0.0060.00926.586-0.015-0.0150.0000.0000.0000.000
187A220ILE0-0.039-0.00529.8460.0140.0140.0000.0000.0000.000
188A221MET0-0.039-0.01929.257-0.011-0.0110.0000.0000.0000.000
189A222GLU-1-0.851-0.90632.247-0.122-0.1220.0000.0000.0000.000
190A223ASP-1-0.712-0.84433.188-0.114-0.1140.0000.0000.0000.000
191A224ALA0-0.028-0.00132.3810.0020.0020.0000.0000.0000.000
192A225LEU0-0.102-0.04734.4870.0060.0060.0000.0000.0000.000
193A226LYS10.8960.92437.8970.0770.0770.0000.0000.0000.000
194A227SER0-0.045-0.02939.9050.0030.0030.0000.0000.0000.000
195A228GLY00.0190.01240.7900.0040.0040.0000.0000.0000.000
196A229GLU-1-0.896-0.95639.257-0.105-0.1050.0000.0000.0000.000
197A230VAL00.0080.00235.861-0.007-0.0070.0000.0000.0000.000
198A231SER0-0.007-0.02235.6610.0050.0050.0000.0000.0000.000
199A232VAL0-0.016-0.01634.886-0.009-0.0090.0000.0000.0000.000
200A233LEU0-0.020-0.01331.5930.0060.0060.0000.0000.0000.000
201A234ASP-1-0.756-0.84032.733-0.132-0.1320.0000.0000.0000.000
202A235TYR00.0140.00530.387-0.004-0.0040.0000.0000.0000.000
203A236SER0-0.016-0.01832.7730.0040.0040.0000.0000.0000.000
204A237ASP-1-0.818-0.92134.352-0.120-0.1200.0000.0000.0000.000
205A238MET00.0000.02027.216-0.004-0.0040.0000.0000.0000.000
206A239LYS10.8080.89931.2140.1220.1220.0000.0000.0000.000
207A240LEU00.0430.02326.203-0.002-0.0020.0000.0000.0000.000
208A241ARG10.8540.91630.2650.1380.1380.0000.0000.0000.000
209A242ASP-1-0.835-0.91932.101-0.145-0.1450.0000.0000.0000.000
210A243LEU0-0.073-0.03831.6670.0080.0080.0000.0000.0000.000
211A244PRO00.0630.02833.720-0.006-0.0060.0000.0000.0000.000
212A245ASP-1-0.784-0.89234.324-0.118-0.1180.0000.0000.0000.000
213A246LYS10.8330.89435.6320.1100.1100.0000.0000.0000.000
214A247ILE00.0170.02136.2660.0070.0070.0000.0000.0000.000
215A248PHE00.0040.02933.4940.0020.0020.0000.0000.0000.000
216A249THR0-0.049-0.03638.1000.0010.0010.0000.0000.0000.000
217A250LYS10.9030.95041.6190.0890.0890.0000.0000.0000.000
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