FMODB

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

Last updated: 2026-04-18

All entries: 88827

Number of unique PDB entries: 32070

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FMODB ID: 2MMVR

Calculation Name: 2R55-A-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2R55

Chain ID: A

ChEMBL ID:

UniProt ID: Q9NSY2

Base Structure: X-ray

Registration Date: 2025-10-05

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 212
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2535336.480211
FMO2-HF: Nuclear repulsion 2450602.612632
FMO2-HF: Total energy -84733.867579
FMO2-MP2: Total energy -84976.190494


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:PHE)


Summations of interaction energy for fragment #1(A:2:PHE)
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.
-54.694-47.1392.342-2.937-6.957-0.008
Interaction energy analysis for fragmet #1(A:2:PHE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.888 / q_NPA : 0.934
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].
3A4SER00.0100.0043.277-3.580-1.1690.033-0.997-1.447-0.004
4A5MET0-0.003-0.0033.1195.1946.5610.069-0.466-0.970-0.002
5A6ALA00.0200.0243.5834.8376.2400.148-0.495-1.0560.003
89A90GLN00.003-0.0012.660-1.0420.0560.611-0.510-1.1980.000
91A92ILE0-0.100-0.0352.311-4.311-3.0871.482-0.465-2.240-0.005
92A93THR0-0.072-0.0574.561-1.770-1.718-0.001-0.004-0.0460.000
6A7ALA00.0850.0495.6184.7924.7920.0000.0000.0000.000
7A8GLN0-0.042-0.0127.5694.7004.7000.0000.0000.0000.000
8A9MET0-0.003-0.0097.9121.9471.9470.0000.0000.0000.000
9A10SER0-0.016-0.0188.7832.6322.6320.0000.0000.0000.000
10A11GLU-1-0.782-0.88311.172-19.120-19.1200.0000.0000.0000.000
11A12ALA00.0250.00813.3201.7161.7160.0000.0000.0000.000
12A13VAL0-0.063-0.02512.9741.4211.4210.0000.0000.0000.000
13A14ALA00.0570.02515.5121.1801.1800.0000.0000.0000.000
14A15GLU-1-0.983-0.98017.397-17.107-17.1070.0000.0000.0000.000
15A16LYS10.8020.87917.72617.34017.3400.0000.0000.0000.000
16A17MET0-0.0230.02118.5841.0251.0250.0000.0000.0000.000
17A18LEU00.0080.00921.2000.8530.8530.0000.0000.0000.000
18A19GLN0-0.012-0.00923.3140.4540.4540.0000.0000.0000.000
19A20TYR0-0.035-0.02721.3580.4910.4910.0000.0000.0000.000
20A21ARG10.7840.86625.39010.82010.8200.0000.0000.0000.000
21A22ARG10.8980.95925.75312.45912.4590.0000.0000.0000.000
22A23ASP-1-0.837-0.89428.579-10.650-10.6500.0000.0000.0000.000
23A24THR00.0290.00930.8140.0690.0690.0000.0000.0000.000
24A25ALA00.0110.01033.4860.2560.2560.0000.0000.0000.000
25A26GLY00.0050.00232.705-0.283-0.2830.0000.0000.0000.000
26A27TRP0-0.023-0.01827.2770.2450.2450.0000.0000.0000.000
27A28LYS10.8410.92034.1288.6868.6860.0000.0000.0000.000
28A29ILE00.0410.02235.579-0.227-0.2270.0000.0000.0000.000
29A30CYS0-0.104-0.03433.8350.0420.0420.0000.0000.0000.000
30A31ARG10.8590.91836.1048.1438.1430.0000.0000.0000.000
31A32GLU-1-0.874-0.93937.538-7.811-7.8110.0000.0000.0000.000
32A33GLY0-0.009-0.00439.5690.1140.1140.0000.0000.0000.000
33A34ASN0-0.017-0.01841.0930.0260.0260.0000.0000.0000.000
34A35GLY00.0050.00938.265-0.120-0.1200.0000.0000.0000.000
35A36VAL0-0.0230.00233.473-0.183-0.1830.0000.0000.0000.000
36A37SER0-0.0070.00735.0640.1960.1960.0000.0000.0000.000
37A38VAL0-0.011-0.01632.309-0.277-0.2770.0000.0000.0000.000
38A39SER0-0.016-0.01532.3890.2560.2560.0000.0000.0000.000
39A40TRP00.0210.00030.927-0.314-0.3140.0000.0000.0000.000
40A41ARG10.7830.88826.78511.12411.1240.0000.0000.0000.000
41A42PRO00.0410.01829.621-0.211-0.2110.0000.0000.0000.000
42A43SER0-0.016-0.02123.644-0.284-0.2840.0000.0000.0000.000
43A44VAL0-0.014-0.01223.1500.3160.3160.0000.0000.0000.000
44A45GLU-1-0.862-0.91019.288-15.660-15.6600.0000.0000.0000.000
45A46PHE0-0.044-0.03020.838-0.378-0.3780.0000.0000.0000.000
46A47PRO00.001-0.01123.3910.2300.2300.0000.0000.0000.000
47A48GLY00.0140.03526.0350.3980.3980.0000.0000.0000.000
48A49ASN0-0.034-0.02527.605-0.078-0.0780.0000.0000.0000.000
49A50LEU0-0.0110.01023.804-0.275-0.2750.0000.0000.0000.000
50A51TYR0-0.010-0.03726.4430.4850.4850.0000.0000.0000.000
51A52ARG10.8770.92726.6799.3049.3040.0000.0000.0000.000
52A53GLY0-0.001-0.00828.4160.4390.4390.0000.0000.0000.000
53A54GLU-1-0.768-0.87629.521-9.612-9.6120.0000.0000.0000.000
54A55GLY00.0310.01332.0020.3280.3280.0000.0000.0000.000
55A56ILE0-0.0010.01732.742-0.205-0.2050.0000.0000.0000.000
56A57VAL0-0.020-0.01130.5390.1930.1930.0000.0000.0000.000
57A58TYR0-0.050-0.03434.0050.0400.0400.0000.0000.0000.000
58A59GLY00.0630.01833.6290.1300.1300.0000.0000.0000.000
59A60THR0-0.042-0.01931.784-0.159-0.1590.0000.0000.0000.000
60A61LEU00.0340.01026.688-0.097-0.0970.0000.0000.0000.000
61A62GLU-1-0.927-0.98125.378-10.990-10.9900.0000.0000.0000.000
62A63GLU-1-0.789-0.85126.539-8.896-8.8960.0000.0000.0000.000
63A64VAL0-0.026-0.02727.100-0.051-0.0510.0000.0000.0000.000
64A65TRP00.1080.05620.458-0.589-0.5890.0000.0000.0000.000
65A66ASP-1-0.849-0.93722.961-11.896-11.8960.0000.0000.0000.000
66A67CYS0-0.191-0.07924.0970.0360.0360.0000.0000.0000.000
67A68VAL0-0.003-0.01821.150-0.056-0.0560.0000.0000.0000.000
68A69LYS10.6770.85617.09114.08314.0830.0000.0000.0000.000
69A70PRO00.007-0.01914.476-0.083-0.0830.0000.0000.0000.000
70A71ALA00.027-0.00213.312-0.990-0.9900.0000.0000.0000.000
71A72VAL00.0120.01014.258-0.183-0.1830.0000.0000.0000.000
72A73GLY0-0.027-0.01016.853-0.072-0.0720.0000.0000.0000.000
73A74GLY00.0550.03319.2460.5670.5670.0000.0000.0000.000
74A75LEU00.007-0.00721.2320.0610.0610.0000.0000.0000.000
75A76ARG10.9220.95820.22712.60212.6020.0000.0000.0000.000
76A77VAL0-0.033-0.02821.5520.1840.1840.0000.0000.0000.000
77A78LYS10.8840.95524.1499.1769.1760.0000.0000.0000.000
78A79TRP0-0.036-0.02625.0560.4630.4630.0000.0000.0000.000
79A80ASP-1-0.785-0.87824.934-10.350-10.3500.0000.0000.0000.000
80A81GLU-1-0.888-0.93527.388-8.632-8.6320.0000.0000.0000.000
81A82ASN0-0.062-0.03925.6960.1270.1270.0000.0000.0000.000
82A83VAL0-0.009-0.00921.534-0.381-0.3810.0000.0000.0000.000
83A84THR0-0.013-0.01423.9510.1080.1080.0000.0000.0000.000
84A85GLY0-0.011-0.00821.4800.1960.1960.0000.0000.0000.000
85A86PHE0-0.0270.00414.874-0.240-0.2400.0000.0000.0000.000
86A87GLU-1-0.889-0.94014.859-13.715-13.7150.0000.0000.0000.000
87A88ILE00.0440.01410.740-0.750-0.7500.0000.0000.0000.000
88A89ILE0-0.058-0.0198.2880.2690.2690.0000.0000.0000.000
90A91SER00.0540.0206.616-1.337-1.3370.0000.0000.0000.000
93A94ASP-1-0.895-0.9427.545-17.529-17.5290.0000.0000.0000.000
94A95THR00.0120.01310.5421.3401.3400.0000.0000.0000.000
95A96LEU0-0.028-0.0085.831-0.248-0.2480.0000.0000.0000.000
96A97CYS0-0.034-0.0017.023-1.160-1.1600.0000.0000.0000.000
97A98VAL00.0170.0144.999-0.297-0.2970.0000.0000.0000.000
98A99SER00.0180.0137.6850.6390.6390.0000.0000.0000.000
99A100ARG10.8340.89711.36313.64113.6410.0000.0000.0000.000
100A101THR00.0220.02014.1700.6000.6000.0000.0000.0000.000
101A102SER0-0.038-0.01817.6450.0060.0060.0000.0000.0000.000
102A103THR00.0230.00920.7700.2840.2840.0000.0000.0000.000
103A104PRO00.0060.00624.0200.0550.0550.0000.0000.0000.000
104A105SER0-0.023-0.02027.653-0.168-0.1680.0000.0000.0000.000
105A106ALA00.0510.02829.9220.1360.1360.0000.0000.0000.000
106A107ALA00.011-0.00731.6640.1440.1440.0000.0000.0000.000
107A108MET00.017-0.00334.6940.0410.0410.0000.0000.0000.000
108A109LYS10.8820.94033.6397.7637.7630.0000.0000.0000.000
109A110LEU0-0.0150.01034.120-0.034-0.0340.0000.0000.0000.000
110A111ILE0-0.0020.01728.273-0.125-0.1250.0000.0000.0000.000
111A112SER00.0500.02728.0090.0680.0680.0000.0000.0000.000
112A113PRO00.0210.01725.979-0.170-0.1700.0000.0000.0000.000
113A114ARG10.8460.91822.49810.41010.4100.0000.0000.0000.000
114A115ASP-1-0.791-0.88118.615-13.397-13.3970.0000.0000.0000.000
115A116PHE00.0050.01216.406-0.001-0.0010.0000.0000.0000.000
116A117VAL00.009-0.00910.2340.0930.0930.0000.0000.0000.000
117A118ASP-1-0.801-0.88811.581-16.948-16.9480.0000.0000.0000.000
118A119LEU0-0.063-0.0245.558-1.096-1.0960.0000.0000.0000.000
119A120VAL0-0.021-0.0228.8771.2691.2690.0000.0000.0000.000
120A121LEU0-0.0010.00510.402-1.202-1.2020.0000.0000.0000.000
121A122VAL00.0000.00412.0571.3231.3230.0000.0000.0000.000
122A123LYS10.8330.91214.56216.63216.6320.0000.0000.0000.000
123A124ARG10.9740.98517.08614.67914.6790.0000.0000.0000.000
124A125TYR0-0.034-0.02219.987-0.579-0.5790.0000.0000.0000.000
125A126GLU-1-0.909-0.96023.458-12.225-12.2250.0000.0000.0000.000
126A127ASP-1-0.902-0.91726.460-10.782-10.7820.0000.0000.0000.000
127A128GLY0-0.003-0.00326.3560.3940.3940.0000.0000.0000.000
128A129THR0-0.047-0.06124.102-0.095-0.0950.0000.0000.0000.000
129A130ILE0-0.092-0.03920.179-0.624-0.6240.0000.0000.0000.000
130A131SER-1-0.659-0.82319.411-14.639-14.6390.0000.0000.0000.000
131A132SER-1-0.769-0.86517.000-15.495-15.4950.0000.0000.0000.000
132A133ASN0-0.160-0.10214.9590.8310.8310.0000.0000.0000.000
133A134ALA00.0360.00613.263-1.458-1.4580.0000.0000.0000.000
134A135THR00.004-0.01211.9361.3381.3380.0000.0000.0000.000
135A136HIS0-0.014-0.00511.776-0.592-0.5920.0000.0000.0000.000
136A137VAL0-0.065-0.0416.535-1.231-1.2310.0000.0000.0000.000
137A138GLU-1-0.949-0.9609.174-18.471-18.4710.0000.0000.0000.000
138A139HIS00.042-0.0095.197-0.481-0.4810.0000.0000.0000.000
139A140PRO0-0.005-0.0117.2061.7561.7560.0000.0000.0000.000
140A141LEU0-0.024-0.0019.6941.3131.3130.0000.0000.0000.000
141A142CYS0-0.067-0.02511.4341.4981.4980.0000.0000.0000.000
142A143PRO00.0670.04513.015-0.092-0.0920.0000.0000.0000.000
143A144PRO00.000-0.01715.3050.2800.2800.0000.0000.0000.000
144A145LYS10.9801.00217.49513.57913.5790.0000.0000.0000.000
145A146PRO00.007-0.00120.8100.2420.2420.0000.0000.0000.000
146A147GLY0-0.010-0.01324.6400.0450.0450.0000.0000.0000.000
147A148PHE0-0.061-0.01822.0520.2140.2140.0000.0000.0000.000
148A149VAL0-0.033-0.01323.222-0.026-0.0260.0000.0000.0000.000
149A150ARG10.8280.91614.84615.20815.2080.0000.0000.0000.000
150A151GLY00.0240.02019.6500.2840.2840.0000.0000.0000.000
151A152PHE0-0.032-0.03615.390-0.687-0.6870.0000.0000.0000.000
152A153ASN0-0.008-0.00816.2881.2971.2970.0000.0000.0000.000
153A154HIS10.9040.97316.27113.62413.6240.0000.0000.0000.000
154A155PRO00.017-0.00316.5310.2100.2100.0000.0000.0000.000
155A156CYS0-0.012-0.00417.2830.9360.9360.0000.0000.0000.000
156A157GLY00.0330.02517.914-0.823-0.8230.0000.0000.0000.000
157A158CYS-1-0.832-0.92819.945-11.588-11.5880.0000.0000.0000.000
158A159PHE0-0.010-0.01621.612-0.607-0.6070.0000.0000.0000.000
159A160CYS-1-0.795-0.88124.231-10.932-10.9320.0000.0000.0000.000
160A161GLU-1-0.753-0.85625.980-10.596-10.5960.0000.0000.0000.000
161A162PRO00.0140.01928.2830.4030.4030.0000.0000.0000.000
162A163LEU00.0100.00031.2480.0400.0400.0000.0000.0000.000
163A164PRO0-0.058-0.04034.7280.1040.1040.0000.0000.0000.000
164A165GLY00.0110.02238.0640.1830.1830.0000.0000.0000.000
165A166GLU-1-0.845-0.91739.280-7.172-7.1720.0000.0000.0000.000
166A167PRO00.0080.01235.415-0.115-0.1150.0000.0000.0000.000
167A168THR0-0.029-0.04635.823-0.137-0.1370.0000.0000.0000.000
168A169LYS10.7950.90036.1957.6577.6570.0000.0000.0000.000
169A170THR00.0240.02629.368-0.163-0.1630.0000.0000.0000.000
170A171ASN0-0.098-0.06231.1520.4330.4330.0000.0000.0000.000
171A172LEU00.0410.03025.997-0.270-0.2700.0000.0000.0000.000
172A173VAL0-0.0370.00127.5000.3210.3210.0000.0000.0000.000
173A174THR00.0200.01424.615-0.358-0.3580.0000.0000.0000.000
174A175PHE00.0240.00322.6510.4020.4020.0000.0000.0000.000
175A176PHE0-0.0050.00122.423-0.398-0.3980.0000.0000.0000.000
176A177HIS00.0150.01720.6940.8040.8040.0000.0000.0000.000
177A178THR0-0.009-0.00921.126-0.375-0.3750.0000.0000.0000.000
178A179ASP-1-0.877-0.93120.953-11.616-11.6160.0000.0000.0000.000
179A180LEU0-0.002-0.01721.928-0.262-0.2620.0000.0000.0000.000
180A181SER00.0150.02221.5450.1760.1760.0000.0000.0000.000
181A182GLY0-0.025-0.01224.0380.4110.4110.0000.0000.0000.000
182A183TYR0-0.016-0.01926.3010.0120.0120.0000.0000.0000.000
183A184LEU00.0090.00628.4160.2400.2400.0000.0000.0000.000
184A185PRO00.0070.00631.615-0.046-0.0460.0000.0000.0000.000
185A186GLN00.0510.01630.800-0.272-0.2720.0000.0000.0000.000
186A187ASN00.0310.01633.847-0.210-0.2100.0000.0000.0000.000
187A188VAL0-0.0230.00232.9410.0930.0930.0000.0000.0000.000
188A189VAL00.0210.00928.791-0.038-0.0380.0000.0000.0000.000
189A190ASP-1-0.845-0.93231.456-9.030-9.0300.0000.0000.0000.000
190A191SER0-0.060-0.04333.5130.1710.1710.0000.0000.0000.000
191A192PHE0-0.072-0.03227.0570.2080.2080.0000.0000.0000.000
192A193PHE00.0820.03525.2850.0750.0750.0000.0000.0000.000
193A194PRO00.0310.02230.181-0.035-0.0350.0000.0000.0000.000
194A195ARG10.8960.94833.0647.9377.9370.0000.0000.0000.000
195A196SER0-0.0050.00228.401-0.004-0.0040.0000.0000.0000.000
196A197MET00.0600.04726.5560.0700.0700.0000.0000.0000.000
197A198THR0-0.014-0.02130.1570.1440.1440.0000.0000.0000.000
198A199ARG10.8170.91032.2268.2428.2420.0000.0000.0000.000
199A200PHE00.0630.03424.3380.1440.1440.0000.0000.0000.000
200A201TYR00.002-0.03329.249-0.033-0.0330.0000.0000.0000.000
201A202ALA0-0.0150.00131.5230.0920.0920.0000.0000.0000.000
202A203ASN0-0.080-0.04830.422-0.008-0.0080.0000.0000.0000.000
203A204LEU00.0610.04627.5150.0880.0880.0000.0000.0000.000
204A205GLN0-0.001-0.01130.4140.1910.1910.0000.0000.0000.000
205A206LYS10.8550.92533.9628.1248.1240.0000.0000.0000.000
206A207ALA0-0.020-0.01829.8900.1150.1150.0000.0000.0000.000
207A208VAL00.0460.02130.7660.0320.0320.0000.0000.0000.000
208A209LYS10.9370.96232.8827.4677.4670.0000.0000.0000.000
209A210GLN0-0.0080.01134.2570.1150.1150.0000.0000.0000.000
210A211PHE0-0.0220.00329.201-0.074-0.0740.0000.0000.0000.000
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