FMODB

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

Last updated: 2024-07-23

All entries: 37478

Number of unique PDB entries: 7783

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FMODB ID: G5GK1

Calculation Name: 4IGI-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4IGI

Chain ID: A

ChEMBL ID:

UniProt ID: E9PWQ3

Base Structure: X-ray

Registration Date: 2023-09-23

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

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
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 197
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2195252.99264
FMO2-HF: Nuclear repulsion 2121901.804646
FMO2-HF: Total energy -73351.187995
FMO2-MP2: Total energy -73569.738157


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:1024:GLU)


Summations of interaction energy for fragment #1(A:1024:GLU)
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.
-27.142-32.78350.468-21.668-23.160.153
Interaction energy analysis for fragmet #1(A:1024:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.833 / q_NPA : -0.888
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].
3A1026ASP-1-0.713-0.8273.87645.28646.952-0.017-0.739-0.9100.002
4A1027VAL0-0.009-0.0026.640-1.913-1.9130.0000.0000.0000.000
5A1028VAL0-0.007-0.0099.969-0.567-0.5670.0000.0000.0000.000
6A1029PHE00.0260.00713.330-0.694-0.6940.0000.0000.0000.000
7A1030LEU0-0.010-0.00516.630-0.360-0.3600.0000.0000.0000.000
8A1031ILE0-0.025-0.02519.738-0.385-0.3850.0000.0000.0000.000
9A1032ASH00.015-0.02322.615-0.270-0.2700.0000.0000.0000.000
10A1033GLY00.010-0.01026.263-0.017-0.0170.0000.0000.0000.000
11A1034SER00.008-0.02728.408-0.329-0.3290.0000.0000.0000.000
12A1035GLU-1-0.815-0.89831.8418.6388.6380.0000.0000.0000.000
13A1036GLY0-0.0230.00934.063-0.146-0.1460.0000.0000.0000.000
14A1037VAL00.0110.00527.841-0.016-0.0160.0000.0000.0000.000
15A1038ARG10.8240.88731.207-8.533-8.5330.0000.0000.0000.000
16A1039SER0-0.031-0.01833.2050.0800.0800.0000.0000.0000.000
17A1040GLY00.0440.02230.837-0.068-0.0680.0000.0000.0000.000
18A1041PHE00.006-0.00125.7410.2860.2860.0000.0000.0000.000
19A1042PRO0-0.014-0.01626.9840.3720.3720.0000.0000.0000.000
20A1043LEU00.0260.00926.9220.2560.2560.0000.0000.0000.000
21A1044LEU00.0070.01523.2500.3240.3240.0000.0000.0000.000
22A1045LYS10.8340.90722.693-10.516-10.5160.0000.0000.0000.000
23A1046ASP-1-0.858-0.87722.05211.72411.7240.0000.0000.0000.000
24A1047PHE00.0320.00819.2010.4480.4480.0000.0000.0000.000
25A1048VAL00.0160.00317.2030.5240.5240.0000.0000.0000.000
26A1049GLN0-0.023-0.01717.2030.5820.5820.0000.0000.0000.000
27A1050ARG10.8530.90317.536-10.959-10.9590.0000.0000.0000.000
28A1051VAL00.0230.02313.9190.4480.4480.0000.0000.0000.000
29A1052VAL0-0.034-0.01712.7471.1461.1460.0000.0000.0000.000
30A1053GLU-1-0.892-0.95513.10314.51014.5100.0000.0000.0000.000
31A1054SER0-0.076-0.02514.216-0.173-0.1730.0000.0000.0000.000
32A1055LEU0-0.041-0.0178.7361.2901.2900.0000.0000.0000.000
33A1056ASP-1-0.809-0.8797.15027.82827.8280.0000.0000.0000.000
34A1057VAL0-0.033-0.0197.0613.0183.0180.0000.0000.0000.000
35A1058GLY00.004-0.0067.607-1.910-1.9100.0000.0000.0000.000
36A1059PRO0-0.024-0.0026.4553.0143.0140.0000.0000.0000.000
37A1060ASP-1-0.819-0.8994.54640.27240.465-0.001-0.027-0.1650.000
38A1061ARG10.7590.8612.658-23.417-21.1600.879-1.143-1.994-0.013
39A1062VAL00.0190.0262.4342.4843.7382.353-1.903-1.704-0.021
40A1063ARG10.8340.9215.118-47.588-47.450-0.001-0.004-0.1330.000
41A1064VAL00.023-0.0077.402-0.784-0.7840.0000.0000.0000.000
42A1065ALA0-0.032-0.01110.700-0.643-0.6430.0000.0000.0000.000
43A1066LEU0-0.019-0.00613.920-0.316-0.3160.0000.0000.0000.000
44A1067VAL00.0090.00217.358-0.311-0.3110.0000.0000.0000.000
45A1068GLN0-0.005-0.01320.332-0.493-0.4930.0000.0000.0000.000
46A1069TYR0-0.012-0.02923.6760.1710.1710.0000.0000.0000.000
47A1070SER0-0.016-0.02525.967-0.109-0.1090.0000.0000.0000.000
48A1071ASP-1-0.832-0.89229.6249.3659.3650.0000.0000.0000.000
49A1072ARG10.7840.87229.340-9.633-9.6330.0000.0000.0000.000
50A1073THR00.010-0.00823.8510.0000.0000.0000.0000.0000.000
51A1074ARG10.8030.85524.569-11.593-11.5930.0000.0000.0000.000
52A1075PRO00.0070.00319.6100.1600.1600.0000.0000.0000.000
53A1076GLU-1-0.802-0.83620.34311.72111.7210.0000.0000.0000.000
54A1077PHE0-0.049-0.03614.521-0.313-0.3130.0000.0000.0000.000
55A1078TYR00.0400.01415.1330.0250.0250.0000.0000.0000.000
56A1079LEU00.0230.0279.0140.1380.1380.0000.0000.0000.000
57A1080ASN00.0250.00110.5991.3831.3830.0000.0000.0000.000
58A1081SER0-0.066-0.02212.547-1.024-1.0240.0000.0000.0000.000
59A1082HIS0-0.010-0.00113.407-1.442-1.4420.0000.0000.0000.000
60A1083MET0-0.003-0.00511.5531.3511.3510.0000.0000.0000.000
61A1084ASP-1-0.763-0.89211.99917.67017.6700.0000.0000.0000.000
62A1085GLN00.0380.01213.114-0.803-0.8030.0000.0000.0000.000
63A1086GLN0-0.004-0.00814.311-1.227-1.2270.0000.0000.0000.000
64A1087GLY0-0.0020.00916.858-0.748-0.7480.0000.0000.0000.000
65A1088VAL00.0210.01312.456-0.711-0.7110.0000.0000.0000.000
66A1089ILE00.0220.02015.924-0.914-0.9140.0000.0000.0000.000
67A1090SER0-0.061-0.05218.368-1.067-1.0670.0000.0000.0000.000
68A1091ALA0-0.072-0.03118.662-0.689-0.6890.0000.0000.0000.000
69A1092ILE00.0280.01016.348-0.636-0.6360.0000.0000.0000.000
70A1093ARG10.8560.91320.709-13.251-13.2510.0000.0000.0000.000
71A1094ARG10.9380.97421.877-13.178-13.1780.0000.0000.0000.000
72A1095LEU0-0.0160.02720.942-0.366-0.3660.0000.0000.0000.000
73A1096THR00.016-0.00125.283-0.392-0.3920.0000.0000.0000.000
74A1097LEU0-0.0380.01628.1640.2060.2060.0000.0000.0000.000
75A1098LEU0-0.044-0.01227.061-0.209-0.2090.0000.0000.0000.000
76A1099GLY00.0550.03929.730-0.284-0.2840.0000.0000.0000.000
77A1100GLY00.0190.01632.3720.2320.2320.0000.0000.0000.000
78A1101PRO0-0.029-0.01234.4280.0140.0140.0000.0000.0000.000
79A1102THR00.010-0.00833.400-0.186-0.1860.0000.0000.0000.000
80A1103PRO00.0170.02928.6080.1650.1650.0000.0000.0000.000
81A1104ASN0-0.0020.01129.588-0.221-0.2210.0000.0000.0000.000
82A1105THR00.0590.01124.4520.4190.4190.0000.0000.0000.000
83A1106GLY00.012-0.00224.7010.5620.5620.0000.0000.0000.000
84A1107ALA0-0.008-0.01925.0270.4670.4670.0000.0000.0000.000
85A1108ALA00.0000.00123.6260.4150.4150.0000.0000.0000.000
86A1109LEU00.0070.00519.9660.7360.7360.0000.0000.0000.000
87A1110GLU-1-0.761-0.87520.12013.76213.7620.0000.0000.0000.000
88A1111PHE0-0.034-0.01021.0980.5300.5300.0000.0000.0000.000
89A1112VAL00.0480.01116.0920.5630.5630.0000.0000.0000.000
90A1113LEU00.0090.00415.7951.0051.0050.0000.0000.0000.000
91A1114ARG10.8170.88316.773-12.846-12.8460.0000.0000.0000.000
92A1115ASN0-0.070-0.03718.688-0.378-0.3780.0000.0000.0000.000
93A1116ILE0-0.043-0.00714.3700.1740.1740.0000.0000.0000.000
94A1117LEU0-0.0090.01111.5481.3631.3630.0000.0000.0000.000
95A1118THR00.0230.01213.1570.6630.6630.0000.0000.0000.000
96A1119SER00.0140.00310.097-0.172-0.1720.0000.0000.0000.000
97A1120SER0-0.061-0.02811.8810.5990.5990.0000.0000.0000.000
98A1121THR0-0.037-0.03014.134-0.646-0.6460.0000.0000.0000.000
99A1122GLY00.022-0.00310.565-0.330-0.3300.0000.0000.0000.000
100A1123SER0-0.040-0.0158.5834.2584.2580.0000.0000.0000.000
101A1124ARG10.7720.8411.736-89.696-94.81418.869-6.679-7.0710.063
102A1125ILE00.0000.0016.4643.6913.6910.0000.0000.0000.000
103A1126ALA0-0.030-0.0058.904-1.119-1.1190.0000.0000.0000.000
104A1127GLU-1-0.883-0.9494.36848.37148.654-0.001-0.022-0.2610.000
105A1128GLY00.0050.0005.0647.6497.723-0.001-0.001-0.0720.000
106A1129VAL0-0.060-0.0172.469-2.388-0.8142.735-1.374-2.9350.009
107A1130PRO0-0.0010.0003.936-6.201-5.9100.001-0.061-0.2310.000
108A1131GLN0-0.0030.0026.661-2.037-2.0370.0000.0000.0000.000
109A1132LEU0-0.0060.0037.979-2.630-2.6300.0000.0000.0000.000
110A1133LEU0-0.005-0.00210.979-0.196-0.1960.0000.0000.0000.000
111A1134ILE00.0340.02513.976-1.037-1.0370.0000.0000.0000.000
112A1135VAL0-0.013-0.00616.576-0.177-0.1770.0000.0000.0000.000
113A1136LEU00.0060.00519.963-0.316-0.3160.0000.0000.0000.000
114A1137THR00.017-0.01423.013-0.183-0.1830.0000.0000.0000.000
115A1138ALA00.0150.00426.774-0.004-0.0040.0000.0000.0000.000
116A1139GLU-1-0.798-0.85330.2169.2469.2460.0000.0000.0000.000
117A1140PRO0-0.008-0.01230.8210.3170.3170.0000.0000.0000.000
118A1141SER0-0.033-0.02129.3380.0510.0510.0000.0000.0000.000
119A1142GLY0-0.044-0.01331.092-0.310-0.3100.0000.0000.0000.000
120A1143ASP-1-0.845-0.90429.29710.39110.3910.0000.0000.0000.000
121A1144ASP-1-0.778-0.87530.90210.19610.1960.0000.0000.0000.000
122A1145VAL00.0640.02326.2860.3550.3550.0000.0000.0000.000
123A1146ARG10.8600.92026.185-9.504-9.5040.0000.0000.0000.000
124A1147GLY0-0.014-0.00127.1360.2410.2410.0000.0000.0000.000
125A1148PRO00.0350.01423.9420.3480.3480.0000.0000.0000.000
126A1149SER0-0.058-0.02322.3800.6280.6280.0000.0000.0000.000
127A1150VAL0-0.016-0.00421.8280.5510.5510.0000.0000.0000.000
128A1151VAL0-0.0120.00021.3960.5550.5550.0000.0000.0000.000
129A1152LEU0-0.009-0.01317.7720.7360.7360.0000.0000.0000.000
130A1153LYS10.7710.90417.237-12.500-12.5000.0000.0000.0000.000
131A1154GLN0-0.060-0.03417.9100.4610.4610.0000.0000.0000.000
132A1155GLY0-0.034-0.01017.2380.4310.4310.0000.0000.0000.000
133A1156GLY0-0.0020.00213.5441.0391.0390.0000.0000.0000.000
134A1157ALA0-0.0070.00512.3151.6681.6680.0000.0000.0000.000
135A1158VAL0-0.010-0.01711.127-0.906-0.9060.0000.0000.0000.000
136A1159PRO0-0.022-0.00713.8720.2380.2380.0000.0000.0000.000
137A1160ILE00.0000.00113.657-0.259-0.2590.0000.0000.0000.000
138A1161GLY00.0070.01517.784-0.003-0.0030.0000.0000.0000.000
139A1162ILE0-0.006-0.01319.239-0.295-0.2950.0000.0000.0000.000
140A1163GLY00.0400.00923.226-0.091-0.0910.0000.0000.0000.000
141A1164ILE0-0.036-0.03325.770-0.079-0.0790.0000.0000.0000.000
142A1165GLY00.0190.00129.326-0.123-0.1230.0000.0000.0000.000
143A1166ASN0-0.055-0.02333.153-0.253-0.2530.0000.0000.0000.000
144A1167ALA0-0.0450.00228.962-0.054-0.0540.0000.0000.0000.000
145A1168ASP-1-0.791-0.89731.1049.3019.3010.0000.0000.0000.000
146A1169ILE00.0330.00429.0960.3830.3830.0000.0000.0000.000
147A1170SER00.0120.01428.4970.4550.4550.0000.0000.0000.000
148A1171GLU-1-0.847-0.91828.16010.35610.3560.0000.0000.0000.000
149A1172MET0-0.0170.00224.8280.6590.6590.0000.0000.0000.000
150A1173GLN0-0.027-0.01123.8670.4240.4240.0000.0000.0000.000
151A1174THR0-0.053-0.01924.5200.2440.2440.0000.0000.0000.000
152A1175ILE0-0.016-0.02020.9450.4290.4290.0000.0000.0000.000
153A1176SER0-0.008-0.01519.9020.8560.8560.0000.0000.0000.000
154A1177PHE00.002-0.00114.947-0.477-0.4770.0000.0000.0000.000
155A1178ILE00.0290.00718.476-0.431-0.4310.0000.0000.0000.000
156A1179PRO00.030-0.00321.0500.1560.1560.0000.0000.0000.000
157A1180ASP-1-0.791-0.88119.89813.49513.4950.0000.0000.0000.000
158A1181PHE0-0.044-0.03215.0520.2580.2580.0000.0000.0000.000
159A1182ALA0-0.0240.01419.8820.1910.1910.0000.0000.0000.000
160A1183VAL0-0.025-0.01421.755-0.294-0.2940.0000.0000.0000.000
161A1184ALA00.0190.01124.455-0.008-0.0080.0000.0000.0000.000
162A1185ILE0-0.0200.00526.311-0.145-0.1450.0000.0000.0000.000
163A1186PRO00.0130.00129.558-0.070-0.0700.0000.0000.0000.000
164A1187THR0-0.029-0.04731.973-0.150-0.1500.0000.0000.0000.000
165A1188PHE00.0920.02528.0240.1930.1930.0000.0000.0000.000
166A1189ARG10.8370.91328.895-8.177-8.1770.0000.0000.0000.000
167A1190GLU-1-0.746-0.83729.5358.9758.9750.0000.0000.0000.000
168A1191LEU00.0220.03923.2140.2260.2260.0000.0000.0000.000
169A1192GLY00.0180.00424.2520.4300.4300.0000.0000.0000.000
170A1193THR0-0.099-0.07424.3300.2380.2380.0000.0000.0000.000
171A1194ILE00.0240.01422.8440.1220.1220.0000.0000.0000.000
172A1195GLN00.0240.00518.6370.9890.9890.0000.0000.0000.000
173A1196GLN0-0.047-0.02017.8260.5970.5970.0000.0000.0000.000
174A1197VAL00.0660.02717.6850.6240.6240.0000.0000.0000.000
175A1198ILE0-0.0170.00516.0570.5920.5920.0000.0000.0000.000
176A1199SER00.0390.00814.0301.3231.3230.0000.0000.0000.000
177A1200GLU-1-0.871-0.92812.88515.45915.4590.0000.0000.0000.000
178A1201ARG10.7810.88613.162-14.206-14.2060.0000.0000.0000.000
179A1202VAL00.013-0.0019.3461.1651.1650.0000.0000.0000.000
180A1203ILE0-0.021-0.0088.8152.5062.5060.0000.0000.0000.000
181A1204GLN0-0.040-0.0298.5821.4621.4620.0000.0000.0000.000
182A1205LEU00.0180.0209.5550.7600.7600.0000.0000.0000.000
183A1206ASN00.0070.0065.4281.5681.5680.0000.0000.0000.000
184A1207ARG10.8880.9121.719-115.289-123.54225.652-9.715-7.6840.113
185A1208GLU-1-0.889-0.9326.69732.04832.0480.0000.0000.0000.000
186A1209GLU-1-0.839-0.9119.75616.13316.1330.0000.0000.0000.000
187A1210LEU0-0.036-0.0218.560-1.568-1.5680.0000.0000.0000.000
188A1211SER0-0.032-0.01910.617-0.929-0.9290.0000.0000.0000.000
189A1212SER0-0.053-0.01212.939-1.791-1.7910.0000.0000.0000.000
190A1213LEU0-0.029-0.00914.998-1.199-1.1990.0000.0000.0000.000
191A1214LYS10.8080.88316.122-16.791-16.7910.0000.0000.0000.000
192A1215PRO00.0160.03117.110-0.407-0.4070.0000.0000.0000.000
193A1216ILE0-0.012-0.00919.333-0.578-0.5780.0000.0000.0000.000
194A1217LEU00.0060.00121.4210.0170.0170.0000.0000.0000.000
195A1218THR0-0.006-0.01325.205-0.366-0.3660.0000.0000.0000.000
196A1219PRO0-0.014-0.00828.230-0.142-0.1420.0000.0000.0000.000
197A1220SER00.0140.02430.187-0.431-0.4310.0000.0000.0000.000