FMODB

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

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: 49ZRN

Calculation Name: 4F15-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4F15

Chain ID: A

ChEMBL ID:

UniProt ID: C5MQE6

Base Structure: X-ray

Registration Date: 2023-09-19

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
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 232
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2839940.487338
FMO2-HF: Nuclear repulsion 2747965.866474
FMO2-HF: Total energy -91974.620864
FMO2-MP2: Total energy -92244.306165


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:43:LYS)


Summations of interaction energy for fragment #1(A:43:LYS)
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.
18.91821.038-0.025-1.008-1.087-0.001
Interaction energy analysis for fragmet #1(A:43:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.956 / q_NPA : 0.968
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].
3A45ARG10.9770.9923.82724.49626.616-0.025-1.008-1.087-0.001
4A46GLY00.002-0.0046.4322.1882.1880.0000.0000.0000.000
5A47VAL0-0.006-0.0088.4380.9060.9060.0000.0000.0000.000
6A48ALA00.0090.02511.3670.9860.9860.0000.0000.0000.000
7A49PRO0-0.011-0.01014.231-0.111-0.1110.0000.0000.0000.000
8A50LEU00.0010.01217.9300.1200.1200.0000.0000.0000.000
9A51HIS00.002-0.00213.5090.0170.0170.0000.0000.0000.000
10A52LEU0-0.047-0.02519.0100.6230.6230.0000.0000.0000.000
11A53GLY00.008-0.00221.052-0.529-0.5290.0000.0000.0000.000
12A54LYS10.8790.97123.19911.68611.6860.0000.0000.0000.000
13A55CYS0-0.199-0.01926.162-0.180-0.1800.0000.0000.0000.000
14A56ASN00.0610.03023.915-0.259-0.2590.0000.0000.0000.000
15A57ILE00.0590.02821.8420.5500.5500.0000.0000.0000.000
16A58ALA00.0030.00625.3090.3830.3830.0000.0000.0000.000
17A59GLY00.0790.01428.1600.3620.3620.0000.0000.0000.000
18A60TRP0-0.018-0.07925.6710.2640.2640.0000.0000.0000.000
19A61ILE0-0.068-0.01328.4700.3430.3430.0000.0000.0000.000
20A62LEU00.0510.01530.2950.3830.3830.0000.0000.0000.000
21A63GLY0-0.099-0.05832.8610.3750.3750.0000.0000.0000.000
22A64ASN00.0540.03131.9540.4750.4750.0000.0000.0000.000
23A65PRO00.026-0.00733.733-0.154-0.1540.0000.0000.0000.000
24A66GLU-1-0.842-0.90729.346-10.651-10.6510.0000.0000.0000.000
25A68GLU-1-0.891-0.95031.203-9.038-9.0380.0000.0000.0000.000
26A69SER0-0.020-0.02526.769-0.238-0.2380.0000.0000.0000.000
27A70LEU0-0.006-0.00721.7590.1740.1740.0000.0000.0000.000
28A71SER0-0.045-0.00925.449-0.081-0.0810.0000.0000.0000.000
29A72THR00.0270.00827.492-0.070-0.0700.0000.0000.0000.000
30A73ALA00.0250.01529.7620.2390.2390.0000.0000.0000.000
31A74SER0-0.080-0.05125.325-0.318-0.3180.0000.0000.0000.000
32A75SER0-0.054-0.03925.0300.2190.2190.0000.0000.0000.000
33A76TRP0-0.057-0.03119.729-0.221-0.2210.0000.0000.0000.000
34A77SER00.0270.02815.5150.2340.2340.0000.0000.0000.000
35A78TYR00.048-0.01412.017-0.342-0.3420.0000.0000.0000.000
36A79ILE00.0280.03917.766-0.357-0.3570.0000.0000.0000.000
37A80VAL00.0180.00714.785-0.884-0.8840.0000.0000.0000.000
38A81GLU-1-0.806-0.94117.502-12.394-12.3940.0000.0000.0000.000
39A82THR0-0.016-0.00518.415-0.566-0.5660.0000.0000.0000.000
40A83SER0-0.0090.01320.2890.8890.8890.0000.0000.0000.000
41A84SER00.0580.04022.1900.0100.0100.0000.0000.0000.000
42A85SER0-0.0040.00024.7380.3090.3090.0000.0000.0000.000
43A86ASP-1-0.922-0.94926.604-11.023-11.0230.0000.0000.0000.000
44A87ASN0-0.059-0.03527.9380.6020.6020.0000.0000.0000.000
45A88GLY0-0.054-0.03128.5790.3600.3600.0000.0000.0000.000
46A89THR0-0.021-0.00729.582-0.021-0.0210.0000.0000.0000.000
47A90CYS0-0.022-0.00732.542-0.011-0.0110.0000.0000.0000.000
48A91TYR0-0.012-0.10935.5100.1850.1850.0000.0000.0000.000
49A92PRO00.0680.06335.961-0.195-0.1950.0000.0000.0000.000
50A93GLY00.018-0.01535.7010.2780.2780.0000.0000.0000.000
51A94ASP-1-0.839-0.93934.031-8.666-8.6660.0000.0000.0000.000
52A95PHE0-0.030-0.01330.6770.1630.1630.0000.0000.0000.000
53A96ILE0-0.039-0.01531.612-0.213-0.2130.0000.0000.0000.000
54A97ASP-1-0.826-0.92631.003-8.840-8.8400.0000.0000.0000.000
55A98TYR0-0.010-0.01025.253-0.158-0.1580.0000.0000.0000.000
56A99GLU-1-0.901-0.97322.618-12.904-12.9040.0000.0000.0000.000
57A100GLU-1-0.921-0.92925.143-9.478-9.4780.0000.0000.0000.000
58A101LEU0-0.032-0.03926.988-0.142-0.1420.0000.0000.0000.000
59A102ARG10.9070.94520.62713.09013.0900.0000.0000.0000.000
60A103GLU-1-0.933-0.95622.260-11.966-11.9660.0000.0000.0000.000
61A104GLN0-0.018-0.00523.322-0.075-0.0750.0000.0000.0000.000
62A105LEU0-0.052-0.03925.0810.2280.2280.0000.0000.0000.000
63A106SER0-0.049-0.02020.086-0.531-0.5310.0000.0000.0000.000
64A107SER0-0.030-0.04821.547-0.101-0.1010.0000.0000.0000.000
65A108VAL0-0.0020.03522.6520.3580.3580.0000.0000.0000.000
66A109SER00.0410.07324.693-0.320-0.3200.0000.0000.0000.000
67A110SER0-0.004-0.02027.0380.1290.1290.0000.0000.0000.000
68A111PHE00.0390.00928.536-0.117-0.1170.0000.0000.0000.000
69A112GLU-1-0.947-0.96530.658-8.117-8.1170.0000.0000.0000.000
70A113ARG10.9340.98033.9838.7248.7240.0000.0000.0000.000
71A114PHE0-0.0160.01035.5120.1570.1570.0000.0000.0000.000
72A115GLU-1-0.945-0.98639.200-7.012-7.0120.0000.0000.0000.000
73A116ILE0-0.061-0.01541.0270.1420.1420.0000.0000.0000.000
74A117PHE00.022-0.02243.0920.1930.1930.0000.0000.0000.000
75A118PRO00.1240.09745.759-0.093-0.0930.0000.0000.0000.000
76A119LYS10.9701.02446.3126.6876.6870.0000.0000.0000.000
77A120THR00.0150.01247.8910.1230.1230.0000.0000.0000.000
78A121SER00.0110.00051.1830.1030.1030.0000.0000.0000.000
79A122SER0-0.179-0.18348.7370.0770.0770.0000.0000.0000.000
80A123TRP0-0.023-0.00646.9340.0860.0860.0000.0000.0000.000
81A124PRO00.0220.01853.0600.0190.0190.0000.0000.0000.000
82A125ASN0-0.003-0.02456.5780.0750.0750.0000.0000.0000.000
83A126HIS00.021-0.02453.7250.0390.0390.0000.0000.0000.000
84A127ASP-1-0.917-0.93853.518-5.914-5.9140.0000.0000.0000.000
85A128SER00.0830.03749.710-0.150-0.1500.0000.0000.0000.000
86A129ASN0-0.097-0.06149.341-0.115-0.1150.0000.0000.0000.000
87A130LYS11.0201.02150.3545.9095.9090.0000.0000.0000.000
88A131GLY0-0.0080.01146.907-0.033-0.0330.0000.0000.0000.000
89A132VAL0-0.049-0.01644.921-0.170-0.1700.0000.0000.0000.000
90A133THR00.0200.00642.3990.1160.1160.0000.0000.0000.000
91A134ALA0-0.019-0.02643.321-0.088-0.0880.0000.0000.0000.000
92A135ALA00.0140.01738.977-0.111-0.1110.0000.0000.0000.000
93A137PRO0-0.0330.00438.5990.1750.1750.0000.0000.0000.000
94A138HIS0-0.0120.00837.638-0.211-0.2110.0000.0000.0000.000
95A139ALA00.0240.01639.2350.1510.1510.0000.0000.0000.000
96A140GLY0-0.018-0.00740.9090.1790.1790.0000.0000.0000.000
97A141ALA0-0.005-0.00843.740-0.039-0.0390.0000.0000.0000.000
98A142LYS10.9850.99043.3176.5836.5830.0000.0000.0000.000
99A143SER00.0470.01740.8570.2620.2620.0000.0000.0000.000
100A144PHE00.012-0.01240.8300.0320.0320.0000.0000.0000.000
101A145TYR0-0.093-0.08334.731-0.151-0.1510.0000.0000.0000.000
102A146LYS10.9320.98036.6868.0248.0240.0000.0000.0000.000
103A147ASN0-0.017-0.02034.2020.4470.4470.0000.0000.0000.000
104A148LEU00.0110.02537.9340.1330.1330.0000.0000.0000.000
105A149ILE0-0.091-0.02740.7900.0770.0770.0000.0000.0000.000
106A150TRP00.0590.01843.480-0.044-0.0440.0000.0000.0000.000
107A151LEU0-0.055-0.02845.4250.0970.0970.0000.0000.0000.000
108A152VAL00.0010.01348.9310.0030.0030.0000.0000.0000.000
109A153LYS10.8840.98352.1725.5035.5030.0000.0000.0000.000
110A154LYS10.9180.98855.9355.3715.3710.0000.0000.0000.000
111A155GLY0-0.014-0.00457.9820.0780.0780.0000.0000.0000.000
112A156ASN0-0.031-0.03360.2350.0070.0070.0000.0000.0000.000
113A157SER00.0630.02659.9920.0420.0420.0000.0000.0000.000
114A158TYR00.0300.01551.562-0.138-0.1380.0000.0000.0000.000
115A159PRO0-0.0210.00657.6910.0110.0110.0000.0000.0000.000
116A160LYS10.8930.94055.6675.4275.4270.0000.0000.0000.000
117A161LEU0-0.036-0.00549.6830.0430.0430.0000.0000.0000.000
118A162SER0-0.009-0.00652.925-0.085-0.0850.0000.0000.0000.000
119A163LYS10.9380.96648.9316.1116.1110.0000.0000.0000.000
120A164SER00.0490.02748.330-0.082-0.0820.0000.0000.0000.000
121A165TYR00.0390.01941.860-0.026-0.0260.0000.0000.0000.000
122A166ILE00.0170.01345.901-0.014-0.0140.0000.0000.0000.000
123A167ASN0-0.0190.08939.841-0.185-0.1850.0000.0000.0000.000
124A168ASP-1-0.860-0.91843.359-6.489-6.4890.0000.0000.0000.000
125A169LYS10.8470.91138.8267.5907.5900.0000.0000.0000.000
126A170GLY00.0680.03139.2350.1140.1140.0000.0000.0000.000
127A171LYS10.8530.88633.8588.3368.3360.0000.0000.0000.000
128A172GLU-1-0.810-0.89332.262-8.772-8.7720.0000.0000.0000.000
129A173VAL0-0.092-0.03734.512-0.235-0.2350.0000.0000.0000.000
130A174LEU00.0430.03831.3850.0980.0980.0000.0000.0000.000
131A175VAL0-0.041-0.02235.361-0.004-0.0040.0000.0000.0000.000
132A176LEU00.034-0.00632.360-0.061-0.0610.0000.0000.0000.000
133A177TRP0-0.071-0.00937.0650.1360.1360.0000.0000.0000.000
134A178GLY00.0490.01838.246-0.237-0.2370.0000.0000.0000.000
135A179ILE0-0.064-0.04640.1930.2200.2200.0000.0000.0000.000
136A180HIS00.0560.10042.452-0.197-0.1970.0000.0000.0000.000
137A181HIS0-0.0080.03142.2250.3240.3240.0000.0000.0000.000
138A182PRO0-0.035-0.00746.053-0.101-0.1010.0000.0000.0000.000
139A183SER00.1050.03448.056-0.044-0.0440.0000.0000.0000.000
140A184THR00.041-0.01849.1740.1230.1230.0000.0000.0000.000
141A185SER00.0060.00452.906-0.015-0.0150.0000.0000.0000.000
142A186ALA00.0840.03855.4860.0550.0550.0000.0000.0000.000
143A187ASP-1-0.765-0.82151.158-6.110-6.1100.0000.0000.0000.000
144A188GLN0-0.030-0.04051.769-0.148-0.1480.0000.0000.0000.000
145A189GLN0-0.041-0.01653.223-0.011-0.0110.0000.0000.0000.000
146A190SER0-0.077-0.08454.3360.0890.0890.0000.0000.0000.000
147A191LEU0-0.058-0.03349.8550.0100.0100.0000.0000.0000.000
148A192TYR00.047-0.00447.3730.0480.0480.0000.0000.0000.000
149A193GLN0-0.046-0.00454.118-0.004-0.0040.0000.0000.0000.000
150A194ASN0-0.016-0.02355.9420.1680.1680.0000.0000.0000.000
151A195ALA0-0.0050.01855.567-0.104-0.1040.0000.0000.0000.000
152A196ASP-1-0.908-0.94655.421-5.576-5.5760.0000.0000.0000.000
153A197ALA0-0.017-0.00952.6350.0510.0510.0000.0000.0000.000
154A198TYR0-0.082-0.04550.925-0.113-0.1130.0000.0000.0000.000
155A199VAL00.006-0.00245.9200.0440.0440.0000.0000.0000.000
156A200PHE00.0120.02147.358-0.114-0.1140.0000.0000.0000.000
157A201VAL00.0380.00942.772-0.088-0.0880.0000.0000.0000.000
158A202GLY0-0.080-0.06044.9280.1560.1560.0000.0000.0000.000
159A203SER0-0.076-0.03143.125-0.196-0.1960.0000.0000.0000.000
160A204SER00.0280.01043.4690.0450.0450.0000.0000.0000.000
161A205ARG10.9570.98835.0287.9547.9540.0000.0000.0000.000
162A206TYR00.0640.03538.016-0.105-0.1050.0000.0000.0000.000
163A207SER00.0080.00240.8600.1390.1390.0000.0000.0000.000
164A208LYS10.9520.97839.3717.4597.4590.0000.0000.0000.000
165A209LYS10.9600.97344.6146.0846.0840.0000.0000.0000.000
166A210PHE0-0.036-0.01840.916-0.046-0.0460.0000.0000.0000.000
167A211LYS10.9400.94846.4196.0876.0870.0000.0000.0000.000
168A212PRO0-0.0110.02346.853-0.143-0.1430.0000.0000.0000.000
169A213GLU-1-0.914-0.96646.067-6.504-6.5040.0000.0000.0000.000
170A214ILE0-0.063-0.02647.536-0.097-0.0970.0000.0000.0000.000
171A215ALA00.0500.01847.3590.0900.0900.0000.0000.0000.000
172A216ILE00.0080.02147.560-0.084-0.0840.0000.0000.0000.000
173A217ARG10.7980.91842.0056.9346.9340.0000.0000.0000.000
174A218PRO00.0540.00740.8510.0930.0930.0000.0000.0000.000
175A219LYS10.9260.98141.7716.6016.6010.0000.0000.0000.000
176A220VAL00.0010.01936.592-0.106-0.1060.0000.0000.0000.000
177A221ARG10.9280.96333.6168.9798.9790.0000.0000.0000.000
178A222ASP-1-0.911-0.96640.713-6.720-6.7200.0000.0000.0000.000
179A223GLN0-0.033-0.01841.5870.2370.2370.0000.0000.0000.000
180A224GLU-1-0.888-0.95142.766-6.691-6.6910.0000.0000.0000.000
181A225GLY00.0610.04844.6360.0680.0680.0000.0000.0000.000
182A226ARG10.8610.91238.8167.5957.5950.0000.0000.0000.000
183A227MET0-0.073-0.02538.4950.2590.2590.0000.0000.0000.000
184A228ASN00.0240.06537.631-0.353-0.3530.0000.0000.0000.000
185A229TYR00.0380.03434.5400.2740.2740.0000.0000.0000.000
186A230TYR0-0.004-0.01435.5440.0290.0290.0000.0000.0000.000
187A231TRP00.053-0.00330.9370.0640.0640.0000.0000.0000.000
188A232THR00.0290.00435.4570.1060.1060.0000.0000.0000.000
189A233LEU00.0240.01031.861-0.148-0.1480.0000.0000.0000.000
190A234VAL0-0.086-0.03436.0150.1610.1610.0000.0000.0000.000
191A235GLU-1-0.806-0.91335.738-8.302-8.3020.0000.0000.0000.000
192A236PRO0-0.058-0.05837.5350.1930.1930.0000.0000.0000.000
193A237GLY00.0110.00540.4030.1320.1320.0000.0000.0000.000
194A238ASP-1-0.847-0.91742.659-6.532-6.5320.0000.0000.0000.000
195A239LYS10.8830.92143.7226.2186.2180.0000.0000.0000.000
196A240ILE00.0250.00541.0490.0720.0720.0000.0000.0000.000
197A241THR0-0.069-0.02744.6450.1010.1010.0000.0000.0000.000
198A242PHE00.0280.00942.017-0.097-0.0970.0000.0000.0000.000
199A243GLU-1-0.833-0.92247.866-5.647-5.6470.0000.0000.0000.000
200A244ALA0-0.002-0.00449.494-0.062-0.0620.0000.0000.0000.000
201A245THR00.0350.01651.4890.0880.0880.0000.0000.0000.000
202A246GLY00.0270.00451.6760.0880.0880.0000.0000.0000.000
203A247ASN0-0.028-0.04647.5780.0550.0550.0000.0000.0000.000
204A248LEU00.0000.02144.288-0.159-0.1590.0000.0000.0000.000
205A249VAL0-0.040-0.02541.5360.1150.1150.0000.0000.0000.000
206A250VAL00.0030.00442.683-0.137-0.1370.0000.0000.0000.000
207A251PRO00.0820.03740.526-0.083-0.0830.0000.0000.0000.000
208A252ARG10.8710.92741.0747.6407.6400.0000.0000.0000.000
209A253TYR0-0.049-0.03637.8270.0520.0520.0000.0000.0000.000
210A254ALA0-0.0180.00337.354-0.007-0.0070.0000.0000.0000.000
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