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: XMNYZ

Calculation Name: 3BQX-A-Xray22

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3BQX

Chain ID: A

ChEMBL ID:

UniProt ID: Q0G7J9

Base Structure: X-ray

Registration Date: 2018-06-07

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement Missing residues were capped by ACE, NME. Missing atoms were corrected by Structure prepareation by MOE.
Water Apo structure with with a 3 angstrom solvent shell.
Procedure Auto-FMO protocol ver. 1.20180227
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 233
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1374474.689115
FMO2-HF: Nuclear repulsion 1315688.810102
FMO2-HF: Total energy -58785.879013
FMO2-MP2: Total energy -58956.675111


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:2:ACE)


Summations of interaction energy for fragment #1(A:2:ACE)
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.
1.3772.184-0.009-0.35-0.4480
Interaction energy analysis for fragmet #1(A:2:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.008 / 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].
3A4GLN0-0.031-0.0153.8721.0411.848-0.009-0.350-0.4480.000
4A5GLN00.001-0.0016.7020.2370.2370.0000.0000.0000.000
5A6VAL00.0470.0418.3610.1250.1250.0000.0000.0000.000
6A7ALA00.0120.00310.700-0.031-0.0310.0000.0000.0000.000
7A8VAL00.018-0.00112.282-0.004-0.0040.0000.0000.0000.000
8A9ILE0-0.0180.01715.4490.0130.0130.0000.0000.0000.000
9A10THR00.021-0.01717.978-0.003-0.0030.0000.0000.0000.000
10A11LEU0-0.039-0.01220.4880.0030.0030.0000.0000.0000.000
11A12GLY00.0310.01423.8670.0030.0030.0000.0000.0000.000
12A13ILE0-0.061-0.01526.386-0.006-0.0060.0000.0000.0000.000
13A14GLY00.0320.01029.7770.0050.0050.0000.0000.0000.000
14A15ASP-1-0.783-0.88933.3070.0090.0090.0000.0000.0000.000
15A16LEU00.013-0.00430.538-0.003-0.0030.0000.0000.0000.000
16A17GLU-1-0.952-0.95433.253-0.002-0.0020.0000.0000.0000.000
17A18ALA00.0530.02635.734-0.003-0.0030.0000.0000.0000.000
18A19SER00.009-0.00230.149-0.004-0.0040.0000.0000.0000.000
19A20ALA0-0.028-0.02131.902-0.004-0.0040.0000.0000.0000.000
20A21ARG10.9030.97332.8980.0070.0070.0000.0000.0000.000
21A22PHE00.0220.01130.031-0.003-0.0030.0000.0000.0000.000
22A23TYR0-0.041-0.04427.548-0.006-0.0060.0000.0000.0000.000
23A24GLY00.0170.01231.058-0.004-0.0040.0000.0000.0000.000
24A25GLU-1-0.929-0.97933.331-0.016-0.0160.0000.0000.0000.000
25A26GLY00.0010.00434.804-0.001-0.0010.0000.0000.0000.000
26A27PHE0-0.010-0.01728.926-0.004-0.0040.0000.0000.0000.000
27A28GLY0-0.055-0.00531.960-0.004-0.0040.0000.0000.0000.000
28A29TRP0-0.057-0.02325.908-0.002-0.0020.0000.0000.0000.000
29A30ALA00.0690.03329.1800.0050.0050.0000.0000.0000.000
30A31PRO0-0.0030.00227.382-0.004-0.0040.0000.0000.0000.000
31A32VAL0-0.0020.01522.9900.0000.0000.0000.0000.0000.000
32A33PHE0-0.027-0.02425.0370.0050.0050.0000.0000.0000.000
33A34ARG10.9500.96726.892-0.005-0.0050.0000.0000.0000.000
34A35ASN00.0080.03427.823-0.001-0.0010.0000.0000.0000.000
35A36PRO00.030-0.01831.032-0.001-0.0010.0000.0000.0000.000
36A37GLU-1-0.751-0.85627.5330.0480.0480.0000.0000.0000.000
37A38ILE00.0170.01522.7840.0010.0010.0000.0000.0000.000
38A39ILE0-0.026-0.00926.417-0.002-0.0020.0000.0000.0000.000
39A40PHE00.0220.01521.0030.0010.0010.0000.0000.0000.000
40A41TYR00.0320.00423.039-0.002-0.0020.0000.0000.0000.000
41A42GLN00.0270.02118.0290.0110.0110.0000.0000.0000.000
42A43MET00.0120.01819.4590.0010.0010.0000.0000.0000.000
43A44ASN0-0.021-0.01219.3970.0080.0080.0000.0000.0000.000
44A45GLY0-0.010-0.01115.547-0.027-0.0270.0000.0000.0000.000
45A46PHE0-0.063-0.02614.149-0.017-0.0170.0000.0000.0000.000
46A47VAL00.0140.01715.8400.0040.0040.0000.0000.0000.000
47A48LEU00.0090.01618.1390.0040.0040.0000.0000.0000.000
48A49ALA00.010-0.01120.7550.0030.0030.0000.0000.0000.000
49A50THR0-0.0110.01022.387-0.002-0.0020.0000.0000.0000.000
50A51TRP0-0.029-0.02621.410-0.001-0.0010.0000.0000.0000.000
51A52LEU00.0040.01926.179-0.002-0.0020.0000.0000.0000.000
52A53VAL0-0.006-0.01227.7750.0060.0060.0000.0000.0000.000
53A54GLN00.0340.02028.1170.0050.0050.0000.0000.0000.000
54A55ASN00.0480.02826.9920.0000.0000.0000.0000.0000.000
55A56LEU00.0420.04021.4820.0080.0080.0000.0000.0000.000
56A57GLN00.009-0.00123.9700.0080.0080.0000.0000.0000.000
57A58GLU-1-0.939-0.96825.8790.0740.0740.0000.0000.0000.000
58A59ASP-1-0.909-0.94420.3460.1310.1310.0000.0000.0000.000
59A60VAL0-0.062-0.02320.3580.0140.0140.0000.0000.0000.000
60A61GLY00.0100.01822.0440.0110.0110.0000.0000.0000.000
61A62VAL0-0.103-0.04823.045-0.006-0.0060.0000.0000.0000.000
62A63ALA00.018-0.00225.949-0.003-0.0030.0000.0000.0000.000
63A64VAL0-0.014-0.00823.7290.0020.0020.0000.0000.0000.000
64A65THR0-0.014-0.01826.625-0.005-0.0050.0000.0000.0000.000
65A66SER00.0670.03427.9530.0010.0010.0000.0000.0000.000
66A67ARG10.9110.97230.421-0.022-0.0220.0000.0000.0000.000
67A68PRO00.0100.03827.7220.0040.0040.0000.0000.0000.000
68A69GLY00.028-0.00225.4380.0030.0030.0000.0000.0000.000
69A70SER0-0.049-0.01824.263-0.006-0.0060.0000.0000.0000.000
70A71MET0-0.015-0.01421.068-0.002-0.0020.0000.0000.0000.000
71A72ALA00.0170.01423.0180.0040.0040.0000.0000.0000.000
72A73LEU0-0.0040.01820.806-0.010-0.0100.0000.0000.0000.000
73A74ALA00.0130.01522.9840.0060.0060.0000.0000.0000.000
74A75HIS00.0040.00923.857-0.010-0.0100.0000.0000.0000.000
75A76ASN0-0.012-0.01125.3240.0100.0100.0000.0000.0000.000
76A77VAL0-0.014-0.00427.423-0.002-0.0020.0000.0000.0000.000
77A78ARG10.8620.89826.9060.0960.0960.0000.0000.0000.000
78A79ALA00.0250.01031.9060.0000.0000.0000.0000.0000.000
79A80GLU-1-0.855-0.92135.238-0.050-0.0500.0000.0000.0000.000
80A81THR0-0.031-0.01836.7090.0020.0020.0000.0000.0000.000
81A82GLU-1-0.889-0.93834.741-0.046-0.0460.0000.0000.0000.000
82A83VAL0-0.004-0.00133.5030.0010.0010.0000.0000.0000.000
83A84ALA00.0420.01635.6160.0020.0020.0000.0000.0000.000
84A85PRO00.0420.01838.5350.0020.0020.0000.0000.0000.000
85A86LEU00.0000.01131.3890.0020.0020.0000.0000.0000.000
86A87MET0-0.026-0.00334.7420.0010.0010.0000.0000.0000.000
87A88GLU-1-0.893-0.93136.510-0.025-0.0250.0000.0000.0000.000
88A89ARG10.9100.94535.4150.0400.0400.0000.0000.0000.000
89A90LEU00.0100.01932.1080.0030.0030.0000.0000.0000.000
90A91VAL0-0.022-0.00136.0360.0030.0030.0000.0000.0000.000
91A92ALA0-0.021-0.00638.8780.0020.0020.0000.0000.0000.000
92A93ALA0-0.0010.01436.5460.0020.0020.0000.0000.0000.000
93A94GLY00.0270.02537.3740.0020.0020.0000.0000.0000.000
94A95GLY00.0430.02435.6450.0010.0010.0000.0000.0000.000
95A96GLN0-0.0130.00235.6770.0020.0020.0000.0000.0000.000
96A97LEU00.0230.00135.951-0.002-0.0020.0000.0000.0000.000
97A98LEU0-0.027-0.00232.5710.0020.0020.0000.0000.0000.000
98A99ARG10.8550.92334.6170.0350.0350.0000.0000.0000.000
99A100PRO00.0200.01936.499-0.003-0.0030.0000.0000.0000.000
100A101ALA00.0520.01036.556-0.001-0.0010.0000.0000.0000.000
101A102ASP-1-0.803-0.86536.611-0.036-0.0360.0000.0000.0000.000
102A103ALA00.0580.01036.029-0.003-0.0030.0000.0000.0000.000
103A104PRO0-0.0270.01431.8300.0040.0040.0000.0000.0000.000
104A105PRO00.035-0.00232.454-0.001-0.0010.0000.0000.0000.000
105A106HIS0-0.081-0.02629.0250.0010.0010.0000.0000.0000.000
106A107GLY00.0170.00631.293-0.005-0.0050.0000.0000.0000.000
107A108GLY00.0350.02132.410-0.003-0.0030.0000.0000.0000.000
108A109LEU0-0.061-0.02633.2960.0050.0050.0000.0000.0000.000
109A110ARG10.8640.91430.9360.0450.0450.0000.0000.0000.000
110A111GLY00.0470.02632.8890.0040.0040.0000.0000.0000.000
111A112TYR0-0.081-0.04427.923-0.003-0.0030.0000.0000.0000.000
112A113VAL00.018-0.00131.9380.0030.0030.0000.0000.0000.000
113A114ALA0-0.0110.00831.277-0.003-0.0030.0000.0000.0000.000
114A115ASP-1-0.725-0.84029.119-0.009-0.0090.0000.0000.0000.000
115A116PRO00.0210.00432.1030.0020.0020.0000.0000.0000.000
116A117ASP-1-0.750-0.82930.4180.0080.0080.0000.0000.0000.000
117A118GLY0-0.006-0.00631.4690.0030.0030.0000.0000.0000.000
118A119HIS0-0.012-0.00726.266-0.004-0.0040.0000.0000.0000.000
119A120ILE0-0.031-0.01527.655-0.003-0.0030.0000.0000.0000.000
120A121TRP00.0360.00824.172-0.008-0.0080.0000.0000.0000.000
121A122GLU-1-0.765-0.88026.786-0.068-0.0680.0000.0000.0000.000
122A123ILE0-0.045-0.00828.153-0.006-0.0060.0000.0000.0000.000
123A124ALA00.014-0.01328.3540.0030.0030.0000.0000.0000.000
124A125PHE00.0220.03329.956-0.004-0.0040.0000.0000.0000.000
125A126ASN00.041-0.00227.1300.0020.0020.0000.0000.0000.000
126A127PRO00.0520.02428.377-0.009-0.0090.0000.0000.0000.000
127A128VAL00.0090.01526.654-0.004-0.0040.0000.0000.0000.000
128A129TRP0-0.0160.00121.344-0.016-0.0160.0000.0000.0000.000
129A130PRO0-0.0010.01823.4130.0110.0110.0000.0000.0000.000
130A131ILE0-0.0010.00823.402-0.013-0.0130.0000.0000.0000.000
131A132GLY0-0.0080.00323.1890.0090.0090.0000.0000.0000.000
132A133ALA0-0.012-0.01224.1730.0100.0100.0000.0000.0000.000
133A134ASP-1-0.875-0.92622.643-0.098-0.0980.0000.0000.0000.000
134A135GLY00.0110.00122.036-0.008-0.0080.0000.0000.0000.000
135A136SER0-0.008-0.01719.022-0.001-0.0010.0000.0000.0000.000
136A137VAL00.0380.05219.6200.0080.0080.0000.0000.0000.000
137A138THR0-0.032-0.01817.821-0.025-0.0250.0000.0000.0000.000
138A139PHE00.0160.01518.8560.0210.0210.0000.0000.0000.000
139A140ALA00.0210.01320.583-0.016-0.0160.0000.0000.0000.000
140A141ALA0-0.006-0.00323.3820.0120.0120.0000.0000.0000.000
141A142NME00.0070.00825.5190.0030.0030.0000.0000.0000.000
142A201HOH00.0240.00926.5110.0010.0010.0000.0000.0000.000
143A202HOH00.0180.00528.671-0.002-0.0020.0000.0000.0000.000
144A203HOH00.0050.00125.650-0.001-0.0010.0000.0000.0000.000
145A204HOH0-0.008-0.00829.996-0.001-0.0010.0000.0000.0000.000
146A205HOH00.007-0.01226.0870.0010.0010.0000.0000.0000.000
147A206HOH0-0.018-0.02632.9100.0010.0010.0000.0000.0000.000
148A207HOH0-0.007-0.00128.3070.0020.0020.0000.0000.0000.000
149A208HOH0-0.034-0.03525.9000.0010.0010.0000.0000.0000.000
150A209HOH00.0160.02916.213-0.006-0.0060.0000.0000.0000.000
151A210HOH0-0.038-0.02640.3690.0000.0000.0000.0000.0000.000
152A211HOH0-0.020-0.02025.7590.0020.0020.0000.0000.0000.000
153A212HOH0-0.040-0.02028.280-0.002-0.0020.0000.0000.0000.000
154A213HOH0-0.026-0.02721.1970.0020.0020.0000.0000.0000.000
155A214HOH00.0340.02332.183-0.002-0.0020.0000.0000.0000.000
156A215HOH00.0140.01228.141-0.002-0.0020.0000.0000.0000.000
157A216HOH0-0.027-0.02425.244-0.001-0.0010.0000.0000.0000.000
158A217HOH0-0.028-0.02426.403-0.004-0.0040.0000.0000.0000.000
159A218HOH00.0130.01539.4670.0000.0000.0000.0000.0000.000
160A219HOH0-0.018-0.00534.1820.0000.0000.0000.0000.0000.000
161A220HOH0-0.038-0.0239.465-0.045-0.0450.0000.0000.0000.000
162A221HOH0-0.006-0.01628.173-0.001-0.0010.0000.0000.0000.000
163A222HOH0-0.017-0.01239.6440.0000.0000.0000.0000.0000.000
164A223HOH0-0.053-0.03838.6590.0000.0000.0000.0000.0000.000
165A224HOH0-0.005-0.01338.5050.0010.0010.0000.0000.0000.000
166A225HOH0-0.018-0.01528.062-0.001-0.0010.0000.0000.0000.000
167A226HOH0-0.018-0.02227.4770.0000.0000.0000.0000.0000.000
168A227HOH0-0.033-0.02930.8760.0000.0000.0000.0000.0000.000
169A228HOH0-0.009-0.01234.5860.0000.0000.0000.0000.0000.000
170A230HOH00.0210.01840.384-0.001-0.0010.0000.0000.0000.000
171A231HOH0-0.042-0.03836.2090.0010.0010.0000.0000.0000.000
172A232HOH0-0.034-0.02224.698-0.004-0.0040.0000.0000.0000.000
173A233HOH0-0.057-0.03939.3530.0010.0010.0000.0000.0000.000
174A234HOH0-0.029-0.02141.7640.0010.0010.0000.0000.0000.000
175A235HOH0-0.044-0.03023.631-0.001-0.0010.0000.0000.0000.000
176A237HOH0-0.030-0.01828.713-0.002-0.0020.0000.0000.0000.000
177A238HOH0-0.009-0.01421.1440.0000.0000.0000.0000.0000.000
178A239HOH0-0.011-0.00625.2310.0000.0000.0000.0000.0000.000
179A240HOH0-0.038-0.02139.3950.0010.0010.0000.0000.0000.000
180A241HOH0-0.062-0.04128.3780.0010.0010.0000.0000.0000.000
181A242HOH0-0.019-0.01920.970-0.002-0.0020.0000.0000.0000.000
182A243HOH0-0.040-0.02742.7540.0000.0000.0000.0000.0000.000
183A245HOH0-0.038-0.03437.541-0.001-0.0010.0000.0000.0000.000
184A246HOH00.0160.0146.5310.0250.0250.0000.0000.0000.000
185A249HOH0-0.038-0.02427.2290.0010.0010.0000.0000.0000.000
186A250HOH00.0040.00321.617-0.008-0.0080.0000.0000.0000.000
187A251HOH0-0.0030.00436.9140.0000.0000.0000.0000.0000.000
188A252HOH0-0.016-0.00330.034-0.001-0.0010.0000.0000.0000.000
189A253HOH0-0.025-0.01729.9250.0010.0010.0000.0000.0000.000
190A254HOH00.0170.00910.967-0.038-0.0380.0000.0000.0000.000
191A256HOH00.0210.01625.7380.0030.0030.0000.0000.0000.000
192A258HOH0-0.029-0.03331.7100.0000.0000.0000.0000.0000.000
193A259HOH0-0.029-0.02421.4050.0030.0030.0000.0000.0000.000
194A260HOH0-0.037-0.03529.4630.0000.0000.0000.0000.0000.000
195A261HOH0-0.007-0.00836.8980.0010.0010.0000.0000.0000.000
196A262HOH0-0.0020.00040.7710.0010.0010.0000.0000.0000.000
197A263HOH0-0.027-0.01934.316-0.001-0.0010.0000.0000.0000.000
198A264HOH0-0.013-0.00831.218-0.001-0.0010.0000.0000.0000.000
199A266HOH0-0.051-0.02823.7950.0000.0000.0000.0000.0000.000
200A271HOH0-0.013-0.01327.6970.0030.0030.0000.0000.0000.000
201A272HOH0-0.027-0.01819.7180.0000.0000.0000.0000.0000.000
202A273HOH0-0.033-0.02430.851-0.002-0.0020.0000.0000.0000.000
203A275HOH0-0.057-0.03426.9180.0000.0000.0000.0000.0000.000
204A277HOH00.0450.02636.9310.0000.0000.0000.0000.0000.000
205A280HOH0-0.063-0.04033.0760.0000.0000.0000.0000.0000.000
206A281HOH00.005-0.00618.448-0.006-0.0060.0000.0000.0000.000
207A282HOH00.0290.02140.578-0.001-0.0010.0000.0000.0000.000
208A284HOH0-0.061-0.04338.8510.0000.0000.0000.0000.0000.000
209A285HOH0-0.051-0.02638.0850.0000.0000.0000.0000.0000.000
210A286HOH0-0.025-0.01524.147-0.001-0.0010.0000.0000.0000.000
211A288HOH0-0.044-0.02633.4460.0000.0000.0000.0000.0000.000
212A289HOH0-0.036-0.02140.0350.0010.0010.0000.0000.0000.000
213A291HOH0-0.015-0.01431.647-0.001-0.0010.0000.0000.0000.000
214A292HOH00.0270.02425.824-0.002-0.0020.0000.0000.0000.000
215A293HOH0-0.026-0.02036.8890.0000.0000.0000.0000.0000.000
216A294HOH0-0.031-0.01833.735-0.001-0.0010.0000.0000.0000.000
217A295HOH0-0.029-0.01631.9170.0000.0000.0000.0000.0000.000
218A296HOH0-0.037-0.02037.8910.0010.0010.0000.0000.0000.000
219A298HOH00.0440.01319.459-0.002-0.0020.0000.0000.0000.000
220A300HOH0-0.021-0.01336.9010.0000.0000.0000.0000.0000.000
221A301HOH0-0.032-0.01836.0990.0010.0010.0000.0000.0000.000
222A302HOH0-0.042-0.02732.9640.0010.0010.0000.0000.0000.000
223A303HOH0-0.039-0.02139.5730.0000.0000.0000.0000.0000.000
224A322HOH0-0.031-0.01627.225-0.003-0.0030.0000.0000.0000.000
225A327HOH00.0290.01529.378-0.001-0.0010.0000.0000.0000.000
226A335HOH00.0240.01823.0220.0030.0030.0000.0000.0000.000
227A337HOH0-0.046-0.02137.610-0.001-0.0010.0000.0000.0000.000
228A339HOH0-0.021-0.01229.617-0.001-0.0010.0000.0000.0000.000
229A340HOH0-0.014-0.00741.2720.0000.0000.0000.0000.0000.000
230A343HOH0-0.045-0.02443.1520.0010.0010.0000.0000.0000.000
231A344HOH0-0.017-0.01019.599-0.007-0.0070.0000.0000.0000.000
232A347HOH00.0220.00936.4370.0000.0000.0000.0000.0000.000
233A356HOH0-0.020-0.01129.9910.0020.0020.0000.0000.0000.000