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: 526ZZ

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 OptHSide
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 -2837848.805236
FMO2-HF: Nuclear repulsion 2745870.707888
FMO2-HF: Total energy -91978.097348
FMO2-MP2: Total energy -92247.367432


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.
21.09223.02-0.024-0.924-0.981-0.001
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 : 0.974 / q_NPA : 0.969
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].
3A45ARG10.9740.9943.82725.99127.919-0.024-0.924-0.981-0.001
4A46GLY00.001-0.0106.1682.4562.4560.0000.0000.0000.000
5A47VAL0-0.009-0.0108.4381.1261.1260.0000.0000.0000.000
6A48ALA00.0190.03211.3510.9700.9700.0000.0000.0000.000
7A49PRO0-0.020-0.02214.231-0.109-0.1090.0000.0000.0000.000
8A50LEU00.0050.01517.9220.0810.0810.0000.0000.0000.000
9A51HIS00.0060.01013.365-0.078-0.0780.0000.0000.0000.000
10A52LEU0-0.046-0.02719.0260.6450.6450.0000.0000.0000.000
11A53GLY00.009-0.00121.019-0.557-0.5570.0000.0000.0000.000
12A54LYS10.8550.94923.05711.55711.5570.0000.0000.0000.000
13A55CYS0-0.0950.00226.052-0.267-0.2670.0000.0000.0000.000
14A56ASN00.0280.01823.790-0.093-0.0930.0000.0000.0000.000
15A57ILE00.0390.01921.4580.5490.5490.0000.0000.0000.000
16A58ALA0-0.0020.01125.3110.4110.4110.0000.0000.0000.000
17A59GLY00.0750.01828.2000.3650.3650.0000.0000.0000.000
18A60TRP0-0.042-0.07125.1560.3020.3020.0000.0000.0000.000
19A61ILE0-0.059-0.01028.4820.3620.3620.0000.0000.0000.000
20A62LEU00.0440.01830.2990.3890.3890.0000.0000.0000.000
21A63GLY0-0.076-0.04632.8660.3760.3760.0000.0000.0000.000
22A64ASN00.006-0.00331.7210.5080.5080.0000.0000.0000.000
23A65PRO00.018-0.00433.740-0.166-0.1660.0000.0000.0000.000
24A66GLU-1-0.857-0.91229.208-10.772-10.7720.0000.0000.0000.000
25A68GLU-1-0.854-0.91831.211-8.757-8.7570.0000.0000.0000.000
26A69SER0-0.008-0.02626.668-0.219-0.2190.0000.0000.0000.000
27A70LEU0-0.017-0.01222.2490.1950.1950.0000.0000.0000.000
28A71SER0-0.0060.01425.495-0.127-0.1270.0000.0000.0000.000
29A72THR00.0220.00227.493-0.073-0.0730.0000.0000.0000.000
30A73ALA00.0140.01429.8010.2290.2290.0000.0000.0000.000
31A74SER0-0.073-0.05325.258-0.293-0.2930.0000.0000.0000.000
32A75SER0-0.0250.00724.8270.2460.2460.0000.0000.0000.000
33A76TRP0-0.043-0.04620.173-0.242-0.2420.0000.0000.0000.000
34A77SER00.0260.01415.4890.1280.1280.0000.0000.0000.000
35A78TYR00.019-0.01011.099-0.270-0.2700.0000.0000.0000.000
36A79ILE00.0220.03117.766-0.369-0.3690.0000.0000.0000.000
37A80VAL00.0120.00214.888-0.890-0.8900.0000.0000.0000.000
38A81GLU-1-0.761-0.88017.503-12.724-12.7240.0000.0000.0000.000
39A82THR00.0020.04018.421-0.807-0.8070.0000.0000.0000.000
40A83SER0-0.010-0.02120.2960.9440.9440.0000.0000.0000.000
41A84SER00.0380.02222.195-0.016-0.0160.0000.0000.0000.000
42A85SER0-0.028-0.00124.8840.3080.3080.0000.0000.0000.000
43A86ASP-1-0.898-0.94426.606-11.404-11.4040.0000.0000.0000.000
44A87ASN0-0.067-0.04627.8530.6560.6560.0000.0000.0000.000
45A88GLY0-0.013-0.00528.5830.3820.3820.0000.0000.0000.000
46A89THR0-0.015-0.01429.586-0.010-0.0100.0000.0000.0000.000
47A90CYS0-0.0110.01332.545-0.028-0.0280.0000.0000.0000.000
48A91TYR0-0.017-0.03035.5140.1500.1500.0000.0000.0000.000
49A92PRO00.0390.03835.959-0.195-0.1950.0000.0000.0000.000
50A93GLY00.0470.00935.7200.2850.2850.0000.0000.0000.000
51A94ASP-1-0.835-0.91733.960-8.847-8.8470.0000.0000.0000.000
52A95PHE0-0.019-0.01230.5390.1880.1880.0000.0000.0000.000
53A96ILE0-0.030-0.01331.274-0.222-0.2220.0000.0000.0000.000
54A97ASP-1-0.848-0.93430.231-8.964-8.9640.0000.0000.0000.000
55A98TYR0-0.020-0.00724.350-0.093-0.0930.0000.0000.0000.000
56A99GLU-1-0.813-0.91222.186-13.197-13.1970.0000.0000.0000.000
57A100GLU-1-0.950-0.95424.294-9.688-9.6880.0000.0000.0000.000
58A101LEU0-0.021-0.02326.146-0.139-0.1390.0000.0000.0000.000
59A102ARG10.8170.86720.10313.41313.4130.0000.0000.0000.000
60A103GLU-1-0.842-0.91021.321-12.083-12.0830.0000.0000.0000.000
61A104GLN00.0670.02922.518-0.166-0.1660.0000.0000.0000.000
62A105LEU0-0.028-0.01424.5450.2500.2500.0000.0000.0000.000
63A106SER0-0.044-0.02019.550-0.567-0.5670.0000.0000.0000.000
64A107SER0-0.028-0.02221.209-0.103-0.1030.0000.0000.0000.000
65A108VAL0-0.0140.01722.3730.3360.3360.0000.0000.0000.000
66A109SER00.0000.01324.591-0.353-0.3530.0000.0000.0000.000
67A110SER0-0.017-0.04027.0100.1170.1170.0000.0000.0000.000
68A111PHE00.0380.01228.492-0.127-0.1270.0000.0000.0000.000
69A112GLU-1-0.889-0.92230.634-8.061-8.0610.0000.0000.0000.000
70A113ARG10.9200.97433.9648.8238.8230.0000.0000.0000.000
71A114PHE00.0170.01335.5120.1490.1490.0000.0000.0000.000
72A115GLU-1-0.900-0.96739.200-7.148-7.1480.0000.0000.0000.000
73A116ILE0-0.065-0.01240.6670.1430.1430.0000.0000.0000.000
74A117PHE00.013-0.01642.9690.1870.1870.0000.0000.0000.000
75A118PRO00.0100.03345.733-0.097-0.0970.0000.0000.0000.000
76A119LYS10.9430.93846.2286.7566.7560.0000.0000.0000.000
77A120THR0-0.007-0.01247.8950.0920.0920.0000.0000.0000.000
78A121SER00.0400.02251.1880.0340.0340.0000.0000.0000.000
79A122SER0-0.017-0.02448.9670.1330.1330.0000.0000.0000.000
80A123TRP0-0.008-0.01346.8650.0940.0940.0000.0000.0000.000
81A124PRO00.0320.02153.0280.0210.0210.0000.0000.0000.000
82A125ASN00.002-0.01256.4980.1000.1000.0000.0000.0000.000
83A126HIS0-0.012-0.02653.6760.0300.0300.0000.0000.0000.000
84A127ASP-1-0.884-0.92554.181-5.910-5.9100.0000.0000.0000.000
85A128SER00.1030.06550.006-0.168-0.1680.0000.0000.0000.000
86A129ASN0-0.087-0.05149.302-0.180-0.1800.0000.0000.0000.000
87A130LYS10.9360.95750.3595.9995.9990.0000.0000.0000.000
88A131GLY0-0.0170.01246.908-0.029-0.0290.0000.0000.0000.000
89A132VAL0-0.049-0.01344.920-0.163-0.1630.0000.0000.0000.000
90A133THR00.0100.00242.3290.1050.1050.0000.0000.0000.000
91A134ALA0-0.010-0.02143.326-0.086-0.0860.0000.0000.0000.000
92A135ALA00.0100.01639.045-0.118-0.1180.0000.0000.0000.000
93A137PRO0-0.0230.00438.6220.1760.1760.0000.0000.0000.000
94A138HIS00.0040.00937.353-0.251-0.2510.0000.0000.0000.000
95A139ALA00.0200.01438.9060.1500.1500.0000.0000.0000.000
96A140GLY0-0.013-0.00640.6390.1820.1820.0000.0000.0000.000
97A141ALA0-0.004-0.00943.465-0.044-0.0440.0000.0000.0000.000
98A142LYS11.0050.99343.2616.5886.5880.0000.0000.0000.000
99A143SER00.0410.02140.9030.2610.2610.0000.0000.0000.000
100A144PHE00.038-0.00540.9560.0240.0240.0000.0000.0000.000
101A145TYR0-0.007-0.02134.739-0.182-0.1820.0000.0000.0000.000
102A146LYS10.8450.91636.8268.5588.5580.0000.0000.0000.000
103A147ASN0-0.013-0.02434.0420.3880.3880.0000.0000.0000.000
104A148LEU00.0140.03337.6420.1370.1370.0000.0000.0000.000
105A149ILE0-0.069-0.02440.7930.0850.0850.0000.0000.0000.000
106A150TRP00.0330.02143.365-0.038-0.0380.0000.0000.0000.000
107A151LEU0-0.040-0.02845.4280.1110.1110.0000.0000.0000.000
108A152VAL0-0.024-0.00348.932-0.001-0.0010.0000.0000.0000.000
109A153LYS10.8380.93452.1745.6115.6110.0000.0000.0000.000
110A154LYS10.9010.95955.9375.4435.4430.0000.0000.0000.000
111A155GLY0-0.025-0.01357.9840.0770.0770.0000.0000.0000.000
112A156ASN0-0.017-0.02160.2330.0040.0040.0000.0000.0000.000
113A157SER00.0540.02659.9670.0490.0490.0000.0000.0000.000
114A158TYR00.0320.01150.834-0.110-0.1100.0000.0000.0000.000
115A159PRO00.0120.02457.6270.0070.0070.0000.0000.0000.000
116A160LYS10.8820.93654.7115.5145.5140.0000.0000.0000.000
117A161LEU0-0.048-0.00849.5140.0450.0450.0000.0000.0000.000
118A162SER00.0070.00252.514-0.090-0.0900.0000.0000.0000.000
119A163LYS10.9260.95648.5586.1486.1480.0000.0000.0000.000
120A164SER00.0160.01947.803-0.061-0.0610.0000.0000.0000.000
121A165TYR00.0380.01141.0270.0300.0300.0000.0000.0000.000
122A166ILE00.0140.00945.405-0.011-0.0110.0000.0000.0000.000
123A167ASN0-0.0850.01739.755-0.150-0.1500.0000.0000.0000.000
124A168ASP-1-0.828-0.90043.001-6.537-6.5370.0000.0000.0000.000
125A169LYS10.7950.87838.5377.7387.7380.0000.0000.0000.000
126A170GLY00.0520.02539.1570.1170.1170.0000.0000.0000.000
127A171LYS10.7650.85533.0828.6468.6460.0000.0000.0000.000
128A172GLU-1-0.820-0.91831.633-9.030-9.0300.0000.0000.0000.000
129A173VAL0-0.053-0.01934.104-0.228-0.2280.0000.0000.0000.000
130A174LEU00.0170.02831.0260.0940.0940.0000.0000.0000.000
131A175VAL0-0.028-0.02134.907-0.005-0.0050.0000.0000.0000.000
132A176LEU00.023-0.00232.113-0.068-0.0680.0000.0000.0000.000
133A177TRP0-0.067-0.02336.7610.1440.1440.0000.0000.0000.000
134A178GLY00.0490.01838.040-0.249-0.2490.0000.0000.0000.000
135A179ILE0-0.073-0.04740.0510.2290.2290.0000.0000.0000.000
136A180HIS00.0420.03142.359-0.182-0.1820.0000.0000.0000.000
137A181HIS00.0020.01541.6430.3860.3860.0000.0000.0000.000
138A182PRO0-0.072-0.02746.051-0.087-0.0870.0000.0000.0000.000
139A183SER00.0940.02448.245-0.054-0.0540.0000.0000.0000.000
140A184THR00.043-0.01549.1730.1360.1360.0000.0000.0000.000
141A185SER00.0280.01552.905-0.004-0.0040.0000.0000.0000.000
142A186ALA00.0320.01655.4840.0630.0630.0000.0000.0000.000
143A187ASP-1-0.766-0.83351.196-6.196-6.1960.0000.0000.0000.000
144A188GLN0-0.002-0.02151.689-0.142-0.1420.0000.0000.0000.000
145A189GLN0-0.022-0.00553.222-0.012-0.0120.0000.0000.0000.000
146A190SER0-0.024-0.02754.4560.1020.1020.0000.0000.0000.000
147A191LEU0-0.060-0.03249.8820.0140.0140.0000.0000.0000.000
148A192TYR00.0460.00547.5060.0530.0530.0000.0000.0000.000
149A193GLN0-0.063-0.00654.1170.0060.0060.0000.0000.0000.000
150A194ASN0-0.042-0.04055.5460.1810.1810.0000.0000.0000.000
151A195ALA00.0040.01355.401-0.104-0.1040.0000.0000.0000.000
152A196ASP-1-0.834-0.90055.187-5.700-5.7000.0000.0000.0000.000
153A197ALA0-0.014-0.00552.4070.0580.0580.0000.0000.0000.000
154A198TYR0-0.045-0.02550.475-0.105-0.1050.0000.0000.0000.000
155A199VAL0-0.006-0.00945.6320.0490.0490.0000.0000.0000.000
156A200PHE0-0.0030.01246.794-0.103-0.1030.0000.0000.0000.000
157A201VAL00.013-0.00641.952-0.113-0.1130.0000.0000.0000.000
158A202GLY0-0.037-0.04244.1610.1680.1680.0000.0000.0000.000
159A203SER0-0.089-0.03442.224-0.212-0.2120.0000.0000.0000.000
160A204SER00.007-0.02342.8490.0670.0670.0000.0000.0000.000
161A205ARG10.9260.98434.2038.0978.0970.0000.0000.0000.000
162A206TYR00.0470.01237.156-0.140-0.1400.0000.0000.0000.000
163A207SER00.0260.01540.0420.1560.1560.0000.0000.0000.000
164A208LYS10.9330.96937.6637.7277.7270.0000.0000.0000.000
165A209LYS10.9550.97043.7846.1196.1190.0000.0000.0000.000
166A210PHE0-0.003-0.00540.225-0.055-0.0550.0000.0000.0000.000
167A211LYS10.8630.90545.8846.0446.0440.0000.0000.0000.000
168A212PRO00.0000.02546.494-0.139-0.1390.0000.0000.0000.000
169A213GLU-1-0.866-0.93145.486-6.816-6.8160.0000.0000.0000.000
170A214ILE0-0.057-0.01947.488-0.100-0.1000.0000.0000.0000.000
171A215ALA00.0490.02547.3470.1020.1020.0000.0000.0000.000
172A216ILE00.0070.01147.651-0.085-0.0850.0000.0000.0000.000
173A217ARG10.7420.87742.1036.9936.9930.0000.0000.0000.000
174A218PRO00.0550.00740.9350.0840.0840.0000.0000.0000.000
175A219LYS10.8520.93441.7716.6426.6420.0000.0000.0000.000
176A220VAL00.0050.01236.583-0.105-0.1050.0000.0000.0000.000
177A221ARG10.8720.92032.9699.3239.3230.0000.0000.0000.000
178A222ASP-1-0.841-0.91640.525-6.810-6.8100.0000.0000.0000.000
179A223GLN0-0.024-0.00841.6030.2550.2550.0000.0000.0000.000
180A224GLU-1-0.861-0.93842.767-6.817-6.8170.0000.0000.0000.000
181A225GLY00.0450.03244.6140.0780.0780.0000.0000.0000.000
182A226ARG10.8390.89938.8227.7357.7350.0000.0000.0000.000
183A227MET0-0.050-0.01738.5330.2490.2490.0000.0000.0000.000
184A228ASN0-0.0400.01637.557-0.081-0.0810.0000.0000.0000.000
185A229TYR00.0310.01034.3560.2440.2440.0000.0000.0000.000
186A230TYR00.006-0.01335.1660.0050.0050.0000.0000.0000.000
187A231TRP00.014-0.01230.0680.0540.0540.0000.0000.0000.000
188A232THR00.0180.00434.9230.1100.1100.0000.0000.0000.000
189A233LEU00.0070.00031.823-0.153-0.1530.0000.0000.0000.000
190A234VAL0-0.059-0.02535.3710.1650.1650.0000.0000.0000.000
191A235GLU-1-0.821-0.92335.649-8.262-8.2620.0000.0000.0000.000
192A236PRO0-0.048-0.03937.2860.1810.1810.0000.0000.0000.000
193A237GLY00.0420.02740.0940.1270.1270.0000.0000.0000.000
194A238ASP-1-0.812-0.88042.217-6.579-6.5790.0000.0000.0000.000
195A239LYS10.9050.93443.2186.2696.2690.0000.0000.0000.000
196A240ILE00.0000.00740.3930.0680.0680.0000.0000.0000.000
197A241THR0-0.060-0.02144.0170.0790.0790.0000.0000.0000.000
198A242PHE00.0300.00141.423-0.103-0.1030.0000.0000.0000.000
199A243GLU-1-0.837-0.93047.336-5.642-5.6420.0000.0000.0000.000
200A244ALA00.0060.00249.056-0.068-0.0680.0000.0000.0000.000
201A245THR00.0450.02951.1070.0940.0940.0000.0000.0000.000
202A246GLY00.0290.01751.4570.0940.0940.0000.0000.0000.000
203A247ASN0-0.028-0.03747.5340.0610.0610.0000.0000.0000.000
204A248LEU00.0010.02544.038-0.165-0.1650.0000.0000.0000.000
205A249VAL0-0.042-0.02641.5730.1200.1200.0000.0000.0000.000
206A250VAL00.0000.00342.579-0.141-0.1410.0000.0000.0000.000
207A251PRO00.0920.05240.189-0.084-0.0840.0000.0000.0000.000
208A252ARG10.8280.92241.0577.7137.7130.0000.0000.0000.000
209A253TYR0-0.032-0.02937.8430.0200.0200.0000.0000.0000.000
210A254ALA0-0.0110.00037.194-0.021-0.0210.0000.0000.0000.000
211A255PHE00.009-0.00932.539-0.106-0.1060.0000.0000.0000.000
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