FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: 9Q7V2

Calculation Name: 6D90-Q-Other547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 6D90

Chain ID: Q

ChEMBL ID:

UniProt ID: P62495

Base Structure: ElectronMicroscopy

Registration Date: 2025-10-06

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
Remarks
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE.
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 187
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1794764.330073
FMO2-HF: Nuclear repulsion 1720549.404937
FMO2-HF: Total energy -74214.925136
FMO2-MP2: Total energy -74434.170066


3D Structure Molmil
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:GLY)


Summations of interaction energy for fragment #1(A:2:GLY)
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.
261.168262.052-0.01-0.32-0.555-0.001
Interaction energy analysis for fragmet #1(A:2:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.854 / q_NPA : 0.914
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].
3A4ASP-1-0.858-0.9093.854-34.486-33.602-0.010-0.320-0.555-0.001
4A5ILE00.0050.0066.1726.2376.2370.0000.0000.0000.000
5A6ARG10.9140.9458.33320.91720.9170.0000.0000.0000.000
6A7HIS00.0300.0317.789-0.988-0.9880.0000.0000.0000.000
7A8ASN0-0.008-0.00711.9041.4661.4660.0000.0000.0000.000
8A9LYS10.9100.93315.29817.30917.3090.0000.0000.0000.000
9A10ASP-1-0.815-0.89613.067-20.070-20.0700.0000.0000.0000.000
10A11ARG10.9750.99716.82614.87914.8790.0000.0000.0000.000
11A12LYS10.9610.97019.01114.94414.9440.0000.0000.0000.000
12A13VAL00.0010.00222.1370.3240.3240.0000.0000.0000.000
13A14ARG10.9450.98223.80212.55512.5550.0000.0000.0000.000
14A15ARG10.8590.91827.9828.8388.8380.0000.0000.0000.000
15A16LYS10.9880.99423.98412.28412.2840.0000.0000.0000.000
16A17GLU-1-0.778-0.88830.708-9.745-9.7450.0000.0000.0000.000
17A18PRO0-0.048-0.01134.189-0.102-0.1020.0000.0000.0000.000
18A19LYS10.9540.96532.8689.2499.2490.0000.0000.0000.000
19A20SER0-0.0140.00836.983-0.021-0.0210.0000.0000.0000.000
20A21GLN00.1100.03839.465-0.250-0.2500.0000.0000.0000.000
21A22ASP-1-0.896-0.92542.028-6.781-6.7810.0000.0000.0000.000
22A23ILE00.1160.03844.355-0.156-0.1560.0000.0000.0000.000
23A24TYR00.0690.04446.141-0.070-0.0700.0000.0000.0000.000
24A25LEU0-0.058-0.03341.710-0.058-0.0580.0000.0000.0000.000
25A26ARG10.8710.91236.1908.0538.0530.0000.0000.0000.000
26A27LEU00.0320.03342.601-0.148-0.1480.0000.0000.0000.000
27A28LEU00.008-0.00144.614-0.073-0.0730.0000.0000.0000.000
28A29VAL0-0.029-0.02838.023-0.115-0.1150.0000.0000.0000.000
29A30LYS10.9540.98940.2947.2187.2180.0000.0000.0000.000
30A31LEU00.0640.04841.413-0.104-0.1040.0000.0000.0000.000
31A32TYR00.002-0.03741.245-0.090-0.0900.0000.0000.0000.000
32A33ARG10.8250.89833.5308.9768.9760.0000.0000.0000.000
33A34PHE00.0140.01337.966-0.238-0.2380.0000.0000.0000.000
34A35LEU00.0440.01640.414-0.105-0.1050.0000.0000.0000.000
35A36ALA0-0.058-0.02737.1420.0090.0090.0000.0000.0000.000
36A37ARG10.9670.98735.0638.4778.4770.0000.0000.0000.000
37A38ARG10.9851.00937.3657.4917.4910.0000.0000.0000.000
38A39THR0-0.049-0.02340.3390.2380.2380.0000.0000.0000.000
39A40ASN00.0620.04040.182-0.267-0.2670.0000.0000.0000.000
40A41SER00.0310.00941.5120.1830.1830.0000.0000.0000.000
41A42THR00.0430.01638.448-0.043-0.0430.0000.0000.0000.000
42A43PHE00.0090.00340.427-0.112-0.1120.0000.0000.0000.000
43A44ASN00.0440.00941.6250.0380.0380.0000.0000.0000.000
44A45GLN00.0050.00235.622-0.196-0.1960.0000.0000.0000.000
45A46VAL0-0.052-0.02537.804-0.172-0.1720.0000.0000.0000.000
46A47VAL00.0000.00439.630-0.011-0.0110.0000.0000.0000.000
47A48LEU00.0170.01736.261-0.028-0.0280.0000.0000.0000.000
48A49LYS10.9520.97533.4878.8588.8580.0000.0000.0000.000
49A50ARG10.8200.88836.8657.2237.2230.0000.0000.0000.000
50A51LEU00.0270.02239.8750.0350.0350.0000.0000.0000.000
51A52PHE00.0700.03833.6490.0260.0260.0000.0000.0000.000
52A53MET0-0.052-0.00536.594-0.126-0.1260.0000.0000.0000.000
53A54SER00.0460.01737.5460.1540.1540.0000.0000.0000.000
54A55ARG11.0261.00339.5606.7036.7030.0000.0000.0000.000
55A56THR00.0260.00640.0450.1000.1000.0000.0000.0000.000
56A57ASN0-0.057-0.02836.6790.1100.1100.0000.0000.0000.000
57A58ARG10.8840.94640.7817.3247.3240.0000.0000.0000.000
58A59PRO00.0030.01343.7870.1000.1000.0000.0000.0000.000
59A60PRO0-0.013-0.01046.863-0.014-0.0140.0000.0000.0000.000
60A61LEU0-0.007-0.00250.556-0.032-0.0320.0000.0000.0000.000
61A62SER0-0.033-0.01752.1910.0130.0130.0000.0000.0000.000
62A63LEU00.0730.03055.896-0.051-0.0510.0000.0000.0000.000
63A64SER0-0.013-0.02358.910-0.016-0.0160.0000.0000.0000.000
64A65ARG10.9160.95850.8716.1196.1190.0000.0000.0000.000
65A66MET0-0.013-0.00955.606-0.085-0.0850.0000.0000.0000.000
66A67ILE00.0290.01756.487-0.012-0.0120.0000.0000.0000.000
67A68ARG10.9740.99057.5755.4165.4160.0000.0000.0000.000
68A69LYS10.9000.93952.1905.9475.9470.0000.0000.0000.000
69A70MET00.005-0.00455.795-0.149-0.1490.0000.0000.0000.000
70A71LYS10.9811.00958.2405.0575.0570.0000.0000.0000.000
71A72LEU0-0.0240.00155.0690.0110.0110.0000.0000.0000.000
72A73PRO00.1020.04958.7900.0140.0140.0000.0000.0000.000
73A74GLY00.0740.04658.681-0.109-0.1090.0000.0000.0000.000
74A75ARG10.8040.91151.5955.9455.9450.0000.0000.0000.000
75A76GLU-1-0.869-0.93957.920-5.071-5.0710.0000.0000.0000.000
76A77ASN00.0200.00859.096-0.051-0.0510.0000.0000.0000.000
77A78LYS10.8700.93954.2345.6545.6540.0000.0000.0000.000
78A79THR00.0260.02453.3270.1010.1010.0000.0000.0000.000
79A80ALA0-0.009-0.01153.111-0.119-0.1190.0000.0000.0000.000
80A81VAL0-0.024-0.00947.9950.0160.0160.0000.0000.0000.000
81A82VAL00.002-0.00948.579-0.115-0.1150.0000.0000.0000.000
82A83VAL00.0060.00343.2480.0390.0390.0000.0000.0000.000
83A84GLY0-0.004-0.02245.334-0.163-0.1630.0000.0000.0000.000
84A85THR0-0.092-0.04547.7840.1000.1000.0000.0000.0000.000
85A86VAL00.0830.04451.507-0.054-0.0540.0000.0000.0000.000
86A87THR0-0.0010.00154.3780.0430.0430.0000.0000.0000.000
87A88ASP-1-0.777-0.88656.967-5.036-5.0360.0000.0000.0000.000
88A89ASP-1-0.816-0.88759.099-5.553-5.5530.0000.0000.0000.000
89A90VAL00.0400.01961.5690.0360.0360.0000.0000.0000.000
90A91ARG10.9170.97358.5555.3475.3470.0000.0000.0000.000
91A92VAL00.007-0.01262.612-0.068-0.0680.0000.0000.0000.000
92A93GLN00.0550.04965.740-0.063-0.0630.0000.0000.0000.000
93A94GLU-1-0.868-0.92768.518-4.548-4.5480.0000.0000.0000.000
94A95VAL0-0.075-0.04564.259-0.105-0.1050.0000.0000.0000.000
95A96PRO00.023-0.00164.2350.0370.0370.0000.0000.0000.000
96A97LYS11.0431.03465.0504.6554.6550.0000.0000.0000.000
97A98LEU0-0.051-0.02459.503-0.061-0.0610.0000.0000.0000.000
98A99LYS10.9040.95057.0195.5895.5890.0000.0000.0000.000
99A100VAL0-0.002-0.00255.078-0.093-0.0930.0000.0000.0000.000
100A101CYS00.0330.03450.6800.0260.0260.0000.0000.0000.000
101A102ALA0-0.030-0.01750.873-0.133-0.1330.0000.0000.0000.000
102A103LEU00.0030.01245.7020.0240.0240.0000.0000.0000.000
103A104ARG10.9640.97750.4206.0326.0320.0000.0000.0000.000
104A105VAL00.0360.02653.143-0.039-0.0390.0000.0000.0000.000
105A106THR0-0.042-0.04356.0330.0740.0740.0000.0000.0000.000
106A107SER00.0640.01758.2060.0180.0180.0000.0000.0000.000
107A108ARG10.9690.99961.6924.9904.9900.0000.0000.0000.000
108A109ALA00.0210.00059.3740.0540.0540.0000.0000.0000.000
109A110ARG10.9280.95957.3215.4315.4310.0000.0000.0000.000
110A111SER00.0440.02162.5250.0560.0560.0000.0000.0000.000
111A112ARG10.8210.90063.7764.9884.9880.0000.0000.0000.000
112A113ILE00.015-0.00659.9700.0330.0330.0000.0000.0000.000
113A114LEU0-0.021-0.01162.2370.0170.0170.0000.0000.0000.000
114A115LYS10.9100.96265.6044.6504.6500.0000.0000.0000.000
115A116ALA00.0190.02766.5030.0610.0610.0000.0000.0000.000
116A117GLY00.0640.04368.1720.0190.0190.0000.0000.0000.000
117A118GLY0-0.012-0.00863.822-0.029-0.0290.0000.0000.0000.000
118A119LYS10.9390.96760.7625.0655.0650.0000.0000.0000.000
119A120ILE0-0.044-0.04156.782-0.092-0.0920.0000.0000.0000.000
120A121LEU00.0170.02554.8710.0440.0440.0000.0000.0000.000
121A122THR0-0.005-0.02052.340-0.079-0.0790.0000.0000.0000.000
122A123PHE00.024-0.01946.208-0.024-0.0240.0000.0000.0000.000
123A124ASP-1-0.858-0.91849.002-6.189-6.1890.0000.0000.0000.000
124A125GLN00.0450.02550.8970.0430.0430.0000.0000.0000.000
125A126LEU0-0.046-0.03849.1040.0480.0480.0000.0000.0000.000
126A127ALA0-0.039-0.01548.457-0.060-0.0600.0000.0000.0000.000
127A128LEU00.0500.01849.731-0.063-0.0630.0000.0000.0000.000
128A129ASP-1-0.817-0.88352.966-5.568-5.5680.0000.0000.0000.000
129A130SER0-0.028-0.02251.0810.0540.0540.0000.0000.0000.000
130A131PRO00.0400.03148.784-0.149-0.1490.0000.0000.0000.000
131A132LYS10.9780.98745.7736.7246.7240.0000.0000.0000.000
132A133GLY0-0.0160.00146.048-0.152-0.1520.0000.0000.0000.000
133A134ARG10.9620.96348.4546.0996.0990.0000.0000.0000.000
134A135GLY00.0990.06151.4350.0780.0780.0000.0000.0000.000
135A136THR0-0.048-0.02448.9500.0820.0820.0000.0000.0000.000
136A137VAL00.0370.02250.649-0.043-0.0430.0000.0000.0000.000
137A138LEU0-0.018-0.00544.1210.0180.0180.0000.0000.0000.000
138A139LEU00.0090.02047.691-0.062-0.0620.0000.0000.0000.000
139A140SER00.024-0.00745.552-0.209-0.2090.0000.0000.0000.000
140A141GLY00.0400.04547.5480.1320.1320.0000.0000.0000.000
141A142PRO0-0.028-0.01246.723-0.168-0.1680.0000.0000.0000.000
142A143ARG10.9140.94037.3438.0238.0230.0000.0000.0000.000
143A144LYS10.9300.96439.9847.5817.5810.0000.0000.0000.000
144A145GLY00.0280.02845.4850.0770.0770.0000.0000.0000.000
145A146ARG10.9420.97141.3067.4527.4520.0000.0000.0000.000
146A147GLU-1-0.763-0.88346.708-6.335-6.3350.0000.0000.0000.000
147A148VAL0-0.0040.00241.960-0.026-0.0260.0000.0000.0000.000
148A149TYR00.0410.01039.421-0.151-0.1510.0000.0000.0000.000
149A150ARG10.9560.98444.1146.1216.1210.0000.0000.0000.000
150A151HIS10.8040.89544.7596.8006.8000.0000.0000.0000.000
151A152PHE0-0.022-0.01239.573-0.142-0.1420.0000.0000.0000.000
152A153GLY00.0510.03140.7960.1580.1580.0000.0000.0000.000
153A154LYS11.0141.00940.6977.3837.3830.0000.0000.0000.000
154A155ALA00.0770.04341.5780.1540.1540.0000.0000.0000.000
155A156PRO0-0.0180.00243.3920.0680.0680.0000.0000.0000.000
156A157GLY0-0.019-0.02946.4860.1530.1530.0000.0000.0000.000
157A158THR0-0.030-0.01443.056-0.113-0.1130.0000.0000.0000.000
158A159PRO00.0920.04045.9680.0820.0820.0000.0000.0000.000
159A160HIS0-0.0010.00646.786-0.141-0.1410.0000.0000.0000.000
160A161SER0-0.045-0.01345.826-0.159-0.1590.0000.0000.0000.000
161A162HIS00.0210.00547.7790.0460.0460.0000.0000.0000.000
162A163THR0-0.050-0.01944.8810.0560.0560.0000.0000.0000.000
163A164LYS10.8670.94247.9096.1936.1930.0000.0000.0000.000
164A165PRO00.0730.03447.997-0.151-0.1510.0000.0000.0000.000
165A166TYR0-0.017-0.02843.1150.1070.1070.0000.0000.0000.000
166A167VAL0-0.0150.00549.1070.0230.0230.0000.0000.0000.000
167A168ARG11.0070.99952.7305.6145.6140.0000.0000.0000.000
168A169SER00.0770.04054.5160.0650.0650.0000.0000.0000.000
169A170LYS10.8950.94957.6855.3655.3650.0000.0000.0000.000
170A171GLY00.0740.02259.2840.0510.0510.0000.0000.0000.000
171A172ARG11.0011.00362.8794.7624.7620.0000.0000.0000.000
172A173LYS10.9690.98362.2824.9934.9930.0000.0000.0000.000
173A174PHE00.0500.02357.626-0.046-0.0460.0000.0000.0000.000
174A175GLU-1-0.789-0.88452.113-6.119-6.1190.0000.0000.0000.000
175A176ARG10.7950.89156.5895.4085.4080.0000.0000.0000.000
176A177ALA00.0850.01158.0840.0930.0930.0000.0000.0000.000
177A178ARG11.0211.02552.3635.8825.8820.0000.0000.0000.000
178A179GLY00.0730.05053.806-0.098-0.0980.0000.0000.0000.000
179A180ARG10.7570.87551.9475.9075.9070.0000.0000.0000.000
180A181ARG10.9180.94756.8935.2945.2940.0000.0000.0000.000
181A182ALA00.0910.05559.431-0.036-0.0360.0000.0000.0000.000
182A183SER00.0540.03560.446-0.038-0.0380.0000.0000.0000.000
183A184ARG10.8800.95159.9255.0755.0750.0000.0000.0000.000
184A185GLY00.0570.02557.719-0.099-0.0990.0000.0000.0000.000
185A186TYR00.0320.02151.379-0.054-0.0540.0000.0000.0000.000
186A187LYS10.8070.89454.8075.7635.7630.0000.0000.0000.000
187A188ASN-1-0.800-0.88549.504-6.008-6.0080.0000.0000.0000.000