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: PG521

Calculation Name: 3HNX-A-Xray21

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3HNX

Chain ID: A

ChEMBL ID:

UniProt ID: Q7S6U4

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 223
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1118001.031922
FMO2-HF: Nuclear repulsion 1065974.791026
FMO2-HF: Total energy -52026.240896
FMO2-MP2: Total energy -52174.545362


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:-1:ACE)


Summations of interaction energy for fragment #1(A:-1: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.
-0.310.637-0.011-0.432-0.504-0.001
Interaction energy analysis for fragmet #1(A:-1:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.019 / q_NPA : -0.022
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].
3A1MET0-0.0220.0153.8560.8381.785-0.011-0.432-0.504-0.001
4A2SER00.0860.0836.698-0.023-0.0230.0000.0000.0000.000
5A3TYR00.0400.01510.2290.1320.1320.0000.0000.0000.000
6A4ALA0-0.029-0.00212.3630.0820.0820.0000.0000.0000.000
7A5ASP-1-0.826-0.90510.437-0.263-0.2630.0000.0000.0000.000
8A6SER0-0.102-0.06111.3970.0750.0750.0000.0000.0000.000
9A7SER0-0.004-0.01113.9680.0140.0140.0000.0000.0000.000
10A8ARG10.8130.90016.8200.0720.0720.0000.0000.0000.000
11A9ASN0-0.080-0.06520.397-0.005-0.0050.0000.0000.0000.000
12A10ALA00.0110.02820.0210.0020.0020.0000.0000.0000.000
13A11VAL00.0090.00522.1450.0100.0100.0000.0000.0000.000
14A12LEU00.0300.02023.304-0.012-0.0120.0000.0000.0000.000
15A13THR00.001-0.01026.0270.0160.0160.0000.0000.0000.000
16A14ASN0-0.061-0.04328.0390.0010.0010.0000.0000.0000.000
17A15GLY00.0260.00730.606-0.003-0.0030.0000.0000.0000.000
18A16GLY00.0120.01328.1700.0010.0010.0000.0000.0000.000
19A17ARG10.9110.96826.8300.0960.0960.0000.0000.0000.000
20A18THR00.0080.00724.105-0.011-0.0110.0000.0000.0000.000
21A19LEU0-0.0030.01017.9490.0100.0100.0000.0000.0000.000
22A20ARG10.8800.91121.8640.1000.1000.0000.0000.0000.000
23A21ALA00.0170.00318.7750.0020.0020.0000.0000.0000.000
24A22GLU-1-0.788-0.86020.743-0.075-0.0750.0000.0000.0000.000
25A23CYS00.005-0.00315.503-0.010-0.0100.0000.0000.0000.000
26A24ARG10.8920.92814.9000.0500.0500.0000.0000.0000.000
27A25ASN00.0630.03414.744-0.012-0.0120.0000.0000.0000.000
28A26ALA00.0200.00113.5120.0180.0180.0000.0000.0000.000
29A27ASP-1-0.877-0.92815.0490.0460.0460.0000.0000.0000.000
30A28GLY0-0.054-0.01217.3910.0080.0080.0000.0000.0000.000
31A29ASN0-0.047-0.02118.612-0.003-0.0030.0000.0000.0000.000
32A30TRP0-0.031-0.02118.377-0.012-0.0120.0000.0000.0000.000
33A31VAL00.0100.01419.0650.0100.0100.0000.0000.0000.000
34A32THR0-0.021-0.00420.138-0.013-0.0130.0000.0000.0000.000
35A33SER00.0380.04818.6000.0000.0000.0000.0000.0000.000
36A34GLU-1-0.773-0.86020.669-0.120-0.1200.0000.0000.0000.000
37A35LEU0-0.028-0.00916.472-0.009-0.0090.0000.0000.0000.000
38A36ASP-1-0.770-0.86920.538-0.151-0.1510.0000.0000.0000.000
39A37LEU00.0150.00719.932-0.019-0.0190.0000.0000.0000.000
40A38ASP-1-0.716-0.81422.250-0.156-0.1560.0000.0000.0000.000
41A39THR0-0.065-0.01821.356-0.005-0.0050.0000.0000.0000.000
42A40ILE0-0.038-0.01316.850-0.015-0.0150.0000.0000.0000.000
43A41ILE00.0100.02019.286-0.027-0.0270.0000.0000.0000.000
44A42GLY00.0020.01221.6010.0200.0200.0000.0000.0000.000
45A43ASN0-0.018-0.03924.519-0.014-0.0140.0000.0000.0000.000
46A44ASN0-0.017-0.00524.9050.0190.0190.0000.0000.0000.000
47A45ASP-1-0.769-0.88727.507-0.097-0.0970.0000.0000.0000.000
48A46GLY00.0510.04030.1370.0040.0040.0000.0000.0000.000
49A47HIS00.0070.02125.003-0.009-0.0090.0000.0000.0000.000
50A48PHE00.0090.00821.942-0.004-0.0040.0000.0000.0000.000
51A49GLN00.0260.02021.2850.0090.0090.0000.0000.0000.000
52A50TRP0-0.008-0.00816.185-0.017-0.0170.0000.0000.0000.000
53A51GLY00.0090.00918.309-0.001-0.0010.0000.0000.0000.000
54A52GLY0-0.0100.00918.8540.0240.0240.0000.0000.0000.000
55A53GLN0-0.030-0.02622.081-0.006-0.0060.0000.0000.0000.000
56A54ASN00.0460.00724.7870.0030.0030.0000.0000.0000.000
57A55PHE00.0110.01424.3030.0120.0120.0000.0000.0000.000
58A56THR0-0.039-0.04327.4000.0140.0140.0000.0000.0000.000
59A57GLU-1-0.895-0.92429.576-0.097-0.0970.0000.0000.0000.000
60A58THR0-0.076-0.04831.1440.0070.0070.0000.0000.0000.000
61A59ALA00.0050.01229.725-0.001-0.0010.0000.0000.0000.000
62A60GLU-1-0.897-0.94831.837-0.070-0.0700.0000.0000.0000.000
63A61ASP-1-0.890-0.95432.433-0.085-0.0850.0000.0000.0000.000
64A62ILE00.0310.01527.424-0.005-0.0050.0000.0000.0000.000
65A63ARG10.8780.94628.4540.1000.1000.0000.0000.0000.000
66A64PHE00.0230.01020.586-0.011-0.0110.0000.0000.0000.000
67A65HIS00.0390.03824.3270.0060.0060.0000.0000.0000.000
68A66PRO00.0020.01421.468-0.016-0.0160.0000.0000.0000.000
69A67LYS10.8530.91520.3010.0840.0840.0000.0000.0000.000
70A68GLU-1-0.685-0.78722.005-0.117-0.1170.0000.0000.0000.000
71A69GLY00.0590.03022.074-0.010-0.0100.0000.0000.0000.000
72A70ALA00.001-0.00423.5150.0010.0010.0000.0000.0000.000
73A71ALA00.0280.01818.0080.0070.0070.0000.0000.0000.000
74A72GLU-1-0.800-0.85518.404-0.100-0.1000.0000.0000.0000.000
75A73GLN00.0040.00414.716-0.068-0.0680.0000.0000.0000.000
76A74PRO0-0.0500.00016.1720.0240.0240.0000.0000.0000.000
77A75ILE0-0.0130.01519.016-0.031-0.0310.0000.0000.0000.000
78A76LEU0-0.0160.00121.5130.0200.0200.0000.0000.0000.000
79A77ARG10.8180.86523.4910.1220.1220.0000.0000.0000.000
80A78ALA00.0110.00126.6130.0020.0020.0000.0000.0000.000
81A79ARG10.8900.96929.2320.0780.0780.0000.0000.0000.000
82A80LEU0-0.034-0.00626.5040.0000.0000.0000.0000.0000.000
83A81ARG10.9010.94931.2240.0880.0880.0000.0000.0000.000
84A82ASP-1-0.705-0.83832.692-0.089-0.0890.0000.0000.0000.000
85A83CYS0-0.090-0.07033.9230.0020.0020.0000.0000.0000.000
86A84ASN0-0.0280.00435.8810.0050.0050.0000.0000.0000.000
87A85GLY0-0.044-0.01037.6670.0040.0040.0000.0000.0000.000
88A86GLU-1-0.874-0.88037.071-0.068-0.0680.0000.0000.0000.000
89A87PHE0-0.029-0.03534.903-0.006-0.0060.0000.0000.0000.000
90A88HIS00.0170.02131.5130.0030.0030.0000.0000.0000.000
91A89ASP-1-0.884-0.92931.103-0.095-0.0950.0000.0000.0000.000
92A90ARG10.8280.89526.2270.1150.1150.0000.0000.0000.000
93A91ASP-1-0.845-0.91622.954-0.165-0.1650.0000.0000.0000.000
94A92VAL00.0390.02318.607-0.013-0.0130.0000.0000.0000.000
95A93ASN00.0350.01915.912-0.016-0.0160.0000.0000.0000.000
96A94LEU00.026-0.00416.272-0.050-0.0500.0000.0000.0000.000
97A95ASN00.0030.01312.256-0.089-0.0890.0000.0000.0000.000
98A96ARG10.9760.99610.7380.3780.3780.0000.0000.0000.000
99A97ILE0-0.0050.02010.800-0.133-0.1330.0000.0000.0000.000
100A98GLN0-0.018-0.0056.434-0.207-0.2070.0000.0000.0000.000
101A99ASN0-0.024-0.03410.0270.1470.1470.0000.0000.0000.000
102A100VAL0-0.039-0.0268.772-0.005-0.0050.0000.0000.0000.000
103A101ASN00.007-0.02211.0560.0550.0550.0000.0000.0000.000
104A102GLY00.0230.00913.5590.0230.0230.0000.0000.0000.000
105A103ARG10.8450.90814.4840.2490.2490.0000.0000.0000.000
106A104LEU00.0110.00313.822-0.051-0.0510.0000.0000.0000.000
107A105VAL0-0.058-0.02211.0210.0510.0510.0000.0000.0000.000
108A106PHE0-0.001-0.01512.469-0.073-0.0730.0000.0000.0000.000
109A107GLN-1-0.872-0.9268.612-0.931-0.9310.0000.0000.0000.000
110A108HOH00.0230.01822.922-0.002-0.0020.0000.0000.0000.000
111A109HOH0-0.040-0.01739.7230.0000.0000.0000.0000.0000.000
112A111HOH00.0160.01230.2660.0000.0000.0000.0000.0000.000
113A112HOH0-0.038-0.02419.7030.0000.0000.0000.0000.0000.000
114A113HOH0-0.020-0.00733.1490.0000.0000.0000.0000.0000.000
115A114HOH00.0180.01927.515-0.002-0.0020.0000.0000.0000.000
116A115HOH0-0.056-0.03621.8420.0050.0050.0000.0000.0000.000
117A117HOH0-0.079-0.07318.9570.0030.0030.0000.0000.0000.000
118A119HOH00.0300.01926.477-0.002-0.0020.0000.0000.0000.000
119A121HOH0-0.008-0.00640.6880.0000.0000.0000.0000.0000.000
120A122HOH00.0090.01619.3790.0000.0000.0000.0000.0000.000
121A123HOH0-0.028-0.03829.891-0.001-0.0010.0000.0000.0000.000
122A131HOH0-0.015-0.02333.941-0.001-0.0010.0000.0000.0000.000
123A133HOH0-0.032-0.0248.977-0.096-0.0960.0000.0000.0000.000
124A135HOH00.006-0.00630.279-0.003-0.0030.0000.0000.0000.000
125A139HOH00.004-0.00332.226-0.002-0.0020.0000.0000.0000.000
126A143HOH00.0070.00927.389-0.002-0.0020.0000.0000.0000.000
127A146HOH00.0400.02635.6040.0000.0000.0000.0000.0000.000
128A151HOH0-0.031-0.01822.9940.0050.0050.0000.0000.0000.000
129A152HOH00.0220.02216.1380.0020.0020.0000.0000.0000.000
130A157HOH0-0.071-0.05436.9740.0010.0010.0000.0000.0000.000
131A158HOH00.0090.00122.146-0.005-0.0050.0000.0000.0000.000
132A159HOH0-0.043-0.03125.1270.0040.0040.0000.0000.0000.000
133A160HOH0-0.0100.00129.7180.0040.0040.0000.0000.0000.000
134A161HOH0-0.007-0.01818.6220.0100.0100.0000.0000.0000.000
135A162HOH00.0410.02521.323-0.002-0.0020.0000.0000.0000.000
136A163HOH00.0150.03517.5000.0010.0010.0000.0000.0000.000
137A165HOH00.0240.00924.4000.0060.0060.0000.0000.0000.000
138A166HOH0-0.029-0.02032.7750.0000.0000.0000.0000.0000.000
139A167HOH00.0250.01427.6590.0010.0010.0000.0000.0000.000
140A168HOH0-0.038-0.03330.967-0.002-0.0020.0000.0000.0000.000
141A169HOH0-0.016-0.01519.2350.0130.0130.0000.0000.0000.000
142A170HOH0-0.031-0.01831.548-0.001-0.0010.0000.0000.0000.000
143A171HOH0-0.039-0.02426.8550.0030.0030.0000.0000.0000.000
144A172HOH0-0.032-0.02326.1330.0010.0010.0000.0000.0000.000
145A173HOH00.005-0.00814.076-0.025-0.0250.0000.0000.0000.000
146A174HOH0-0.048-0.03620.678-0.004-0.0040.0000.0000.0000.000
147A175HOH0-0.015-0.01515.5710.0080.0080.0000.0000.0000.000
148A176HOH0-0.041-0.04017.987-0.009-0.0090.0000.0000.0000.000
149A177HOH0-0.016-0.02024.3180.0010.0010.0000.0000.0000.000
150A178HOH0-0.027-0.02431.4380.0030.0030.0000.0000.0000.000
151A179HOH00.002-0.0397.8140.1190.1190.0000.0000.0000.000
152A180HOH00.0380.03212.631-0.004-0.0040.0000.0000.0000.000
153A181HOH00.0360.02828.414-0.001-0.0010.0000.0000.0000.000
154A182HOH00.0150.01139.585-0.002-0.0020.0000.0000.0000.000
155A183HOH00.0250.02233.948-0.003-0.0030.0000.0000.0000.000
156A184HOH0-0.051-0.03527.0040.0040.0040.0000.0000.0000.000
157A185HOH0-0.044-0.02833.727-0.002-0.0020.0000.0000.0000.000
158A186HOH0-0.038-0.03519.8810.0050.0050.0000.0000.0000.000
159A187HOH00.0030.0169.3770.0700.0700.0000.0000.0000.000
160A188HOH00.0100.01018.1350.0110.0110.0000.0000.0000.000
161A189HOH0-0.055-0.04139.3560.0010.0010.0000.0000.0000.000
162A190HOH0-0.025-0.02417.8020.0090.0090.0000.0000.0000.000
163A191HOH0-0.064-0.04620.7530.0000.0000.0000.0000.0000.000
164A192HOH00.0280.01420.0420.0060.0060.0000.0000.0000.000
165A193HOH0-0.029-0.02934.7950.0020.0020.0000.0000.0000.000
166A194HOH0-0.037-0.02520.980-0.004-0.0040.0000.0000.0000.000
167A196HOH0-0.053-0.04924.7860.0020.0020.0000.0000.0000.000
168A197HOH0-0.059-0.04526.000-0.001-0.0010.0000.0000.0000.000
169A198HOH0-0.060-0.04931.735-0.001-0.0010.0000.0000.0000.000
170A199HOH0-0.029-0.03027.2640.0040.0040.0000.0000.0000.000
171A200HOH0-0.067-0.04830.9530.0000.0000.0000.0000.0000.000
172A201HOH00.003-0.00821.5080.0040.0040.0000.0000.0000.000
173A202HOH00.0210.01125.649-0.002-0.0020.0000.0000.0000.000
174A203HOH00.0320.02532.061-0.003-0.0030.0000.0000.0000.000
175A204HOH0-0.021-0.01024.125-0.002-0.0020.0000.0000.0000.000
176A205HOH0-0.046-0.03428.4870.0020.0020.0000.0000.0000.000
177A206HOH0-0.023-0.02019.778-0.006-0.0060.0000.0000.0000.000
178A208HOH0-0.043-0.03429.6840.0020.0020.0000.0000.0000.000
179A209HOH00.0230.01331.8090.0000.0000.0000.0000.0000.000
180A210HOH0-0.015-0.02925.916-0.005-0.0050.0000.0000.0000.000
181A211HOH0-0.078-0.05636.9680.0010.0010.0000.0000.0000.000
182A212HOH00.0150.03732.5250.0000.0000.0000.0000.0000.000
183A213HOH0-0.010-0.00517.413-0.008-0.0080.0000.0000.0000.000
184A214HOH0-0.017-0.01527.573-0.003-0.0030.0000.0000.0000.000
185A215HOH0-0.015-0.00510.094-0.008-0.0080.0000.0000.0000.000
186A216HOH00.0390.04032.560-0.003-0.0030.0000.0000.0000.000
187A217HOH0-0.0010.00324.6380.0000.0000.0000.0000.0000.000
188A218HOH00.0340.02135.906-0.002-0.0020.0000.0000.0000.000
189A219HOH00.0350.02526.1860.0000.0000.0000.0000.0000.000
190A220HOH00.0180.02036.0980.0000.0000.0000.0000.0000.000
191A221HOH0-0.014-0.02213.4300.0140.0140.0000.0000.0000.000
192A222HOH0-0.0040.00626.5430.0020.0020.0000.0000.0000.000
193A224HOH00.0370.02323.929-0.003-0.0030.0000.0000.0000.000
194A225HOH00.0280.03113.726-0.006-0.0060.0000.0000.0000.000
195A226HOH00.0100.01525.472-0.001-0.0010.0000.0000.0000.000
196A227HOH00.0290.01432.1190.0000.0000.0000.0000.0000.000
197A228HOH0-0.055-0.03734.5400.0010.0010.0000.0000.0000.000
198A229HOH00.0290.01219.3100.0040.0040.0000.0000.0000.000
199A230HOH0-0.0030.00122.965-0.003-0.0030.0000.0000.0000.000
200A231HOH0-0.005-0.01121.359-0.007-0.0070.0000.0000.0000.000
201A232HOH0-0.036-0.02625.7470.0000.0000.0000.0000.0000.000
202A233HOH00.0260.02230.562-0.004-0.0040.0000.0000.0000.000
203A234HOH0-0.042-0.03027.3350.0050.0050.0000.0000.0000.000
204A235HOH00.0500.03615.405-0.005-0.0050.0000.0000.0000.000
205A236HOH00.0220.01717.969-0.015-0.0150.0000.0000.0000.000
206A238HOH0-0.020-0.02623.638-0.001-0.0010.0000.0000.0000.000
207A239HOH0-0.045-0.05120.243-0.004-0.0040.0000.0000.0000.000
208A241HOH00.0390.03112.813-0.011-0.0110.0000.0000.0000.000
209A242HOH0-0.034-0.01616.4040.0110.0110.0000.0000.0000.000
210A243HOH0-0.028-0.01722.0580.0010.0010.0000.0000.0000.000
211A244HOH0-0.011-0.00721.910-0.002-0.0020.0000.0000.0000.000
212A245HOH0-0.056-0.03530.7880.0000.0000.0000.0000.0000.000
213A246HOH0-0.028-0.03716.3360.0170.0170.0000.0000.0000.000
214A248HOH0-0.024-0.02111.8830.0200.0200.0000.0000.0000.000
215A249HOH0-0.025-0.02116.9020.0010.0010.0000.0000.0000.000
216A251HOH0-0.011-0.01127.7700.0030.0030.0000.0000.0000.000
217A252HOH00.0140.01223.694-0.005-0.0050.0000.0000.0000.000
218A253HOH00.0060.01413.4100.0010.0010.0000.0000.0000.000
219A254HOH00.0260.0189.5720.0110.0110.0000.0000.0000.000
220A258HOH0-0.033-0.02428.9020.0000.0000.0000.0000.0000.000
221A259HOH0-0.041-0.02526.0970.0030.0030.0000.0000.0000.000
222A260HOH0-0.045-0.06133.2710.0010.0010.0000.0000.0000.000
223A261HOH0-0.0050.01328.2310.0030.0030.0000.0000.0000.000