FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: 94G32

Calculation Name: 3SWH-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3SWH

Chain ID: A

ChEMBL ID:

UniProt ID: Q62768

Base Structure: X-ray

Registration Date: 2023-06-21

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 295
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -4104289.970955
FMO2-HF: Nuclear repulsion 3984524.067054
FMO2-HF: Total energy -119765.903901
FMO2-MP2: Total energy -120110.80183


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:1156:ALA)


Summations of interaction energy for fragment #1(A:1156:ALA)
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.
-7.536-4.2355.056-3.14-5.2170.006
Interaction energy analysis for fragmet #1(A:1156:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.046 / q_NPA : 0.005
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].
3A1158PHE00.017-0.0012.677-5.245-1.9751.332-1.781-2.8220.012
4A1159GLU-1-0.851-0.9253.535-2.330-1.8200.001-0.123-0.3870.000
5A1160PRO00.0240.0005.1590.3490.469-0.001-0.013-0.1060.000
6A1161PHE0-0.036-0.0087.6800.1740.1740.0000.0000.0000.000
7A1162VAL00.0290.0217.2230.0280.0280.0000.0000.0000.000
8A1163ILE0-0.011-0.0119.0080.0190.0190.0000.0000.0000.000
9A1164GLN00.000-0.00411.2240.0880.0880.0000.0000.0000.000
10A1165TRP00.0090.00410.6970.0570.0570.0000.0000.0000.000
11A1166LEU0-0.037-0.01711.4900.0110.0110.0000.0000.0000.000
12A1167ASP-1-0.840-0.90614.972-0.216-0.2160.0000.0000.0000.000
13A1168GLU-1-0.918-0.95517.3320.0270.0270.0000.0000.0000.000
14A1169ASN0-0.026-0.02617.492-0.006-0.0060.0000.0000.0000.000
15A1170GLU-1-0.790-0.84619.227-0.129-0.1290.0000.0000.0000.000
16A1171GLU-1-0.937-0.96021.088-0.054-0.0540.0000.0000.0000.000
17A1172VAL00.0180.00422.1720.0070.0070.0000.0000.0000.000
18A1173SER0-0.030-0.03521.8730.0070.0070.0000.0000.0000.000
19A1174ARG10.8090.89424.4690.0860.0860.0000.0000.0000.000
20A1175ASP-1-0.834-0.91326.964-0.026-0.0260.0000.0000.0000.000
21A1176PHE0-0.067-0.03727.2310.0050.0050.0000.0000.0000.000
22A1177LEU0-0.017-0.01528.6410.0030.0030.0000.0000.0000.000
23A1178HIS0-0.013-0.01130.463-0.001-0.0010.0000.0000.0000.000
24A1179GLY0-0.0090.00132.3510.0020.0020.0000.0000.0000.000
25A1180ALA0-0.044-0.01532.1550.0030.0030.0000.0000.0000.000
26A1181LEU00.013-0.01434.1240.0010.0010.0000.0000.0000.000
27A1182GLU-1-0.799-0.87236.285-0.016-0.0160.0000.0000.0000.000
28A1183ARG10.8180.87933.6990.0060.0060.0000.0000.0000.000
29A1184ASP-1-0.672-0.79538.163-0.016-0.0160.0000.0000.0000.000
30A1185LYS10.8350.93340.1260.0210.0210.0000.0000.0000.000
31A1186LYS10.7790.87842.1350.0120.0120.0000.0000.0000.000
32A1187ASP-1-0.922-0.95243.106-0.005-0.0050.0000.0000.0000.000
33A1188GLY0-0.0110.00444.3690.0010.0010.0000.0000.0000.000
34A1189PHE0-0.073-0.04739.314-0.001-0.0010.0000.0000.0000.000
35A1190GLN00.0410.01343.333-0.001-0.0010.0000.0000.0000.000
36A1191GLN0-0.050-0.05342.887-0.001-0.0010.0000.0000.0000.000
37A1192THR0-0.037-0.04039.3640.0020.0020.0000.0000.0000.000
38A1193SER0-0.014-0.01342.2660.0020.0020.0000.0000.0000.000
39A1194GLU-1-0.837-0.90445.137-0.010-0.0100.0000.0000.0000.000
40A1195HIS0-0.027-0.02144.953-0.002-0.0020.0000.0000.0000.000
41A1196ALA0-0.048-0.01240.258-0.002-0.0020.0000.0000.0000.000
42A1197LEU00.0020.00741.8520.0000.0000.0000.0000.0000.000
43A1198PHE00.0450.01737.137-0.002-0.0020.0000.0000.0000.000
44A1199SER00.0150.00639.5880.0020.0020.0000.0000.0000.000
45A1200CYS0-0.042-0.02837.475-0.001-0.0010.0000.0000.0000.000
46A1201SER00.011-0.01634.926-0.001-0.0010.0000.0000.0000.000
47A1202VAL0-0.017-0.00233.128-0.002-0.0020.0000.0000.0000.000
48A1203VAL0-0.013-0.01031.955-0.002-0.0020.0000.0000.0000.000
49A1204ASP-1-0.799-0.87531.186-0.003-0.0030.0000.0000.0000.000
50A1205VAL00.0240.01728.0690.0010.0010.0000.0000.0000.000
51A1206PHE00.0340.01026.881-0.003-0.0030.0000.0000.0000.000
52A1207SER0-0.0210.01826.4910.0010.0010.0000.0000.0000.000
53A1208GLN00.020-0.00422.805-0.001-0.0010.0000.0000.0000.000
54A1209LEU00.0380.02722.6980.0000.0000.0000.0000.0000.000
55A1210ASN0-0.035-0.04821.572-0.009-0.0090.0000.0000.0000.000
56A1211GLN0-0.0060.00021.5840.0110.0110.0000.0000.0000.000
57A1212SER0-0.013-0.00118.8770.0140.0140.0000.0000.0000.000
58A1213PHE00.0180.00417.0800.0070.0070.0000.0000.0000.000
59A1214GLU-1-0.833-0.91316.9530.0320.0320.0000.0000.0000.000
60A1215ILE0-0.042-0.02115.2030.0220.0220.0000.0000.0000.000
61A1216ILE00.002-0.00212.1510.0340.0340.0000.0000.0000.000
62A1217LYS10.8230.91512.278-0.001-0.0010.0000.0000.0000.000
63A1218LYS10.8710.92413.660-0.058-0.0580.0000.0000.0000.000
64A1219LEU0-0.0560.0038.6730.0810.0810.0000.0000.0000.000
65A1220GLU-1-0.946-0.9749.4700.1440.1440.0000.0000.0000.000
66A1221CYS0-0.044-0.0224.8420.2890.2890.0000.0000.0000.000
67A1222PRO0-0.015-0.0075.504-0.145-0.1450.0000.0000.0000.000
68A1223ASP-1-0.840-0.9234.652-1.806-1.688-0.001-0.008-0.1090.000
69A1224PRO00.0350.0066.589-0.023-0.0230.0000.0000.0000.000
70A1225GLN00.0010.0097.6150.1460.1460.0000.0000.0000.000
71A1226ILE00.0200.0202.001-0.565-1.2823.725-1.215-1.793-0.006
72A1227VAL00.0040.0066.2510.2680.2680.0000.0000.0000.000
73A1228GLY00.0160.0049.0050.1170.1170.0000.0000.0000.000
74A1229HIS00.0300.0138.6540.2110.2110.0000.0000.0000.000
75A1230TYR00.011-0.0035.870-0.022-0.0220.0000.0000.0000.000
76A1231MET00.0140.00810.8470.0940.0940.0000.0000.0000.000
77A1232ARG10.7540.86611.4210.6320.6320.0000.0000.0000.000
78A1233ARG10.7830.86413.2880.2540.2540.0000.0000.0000.000
79A1234PHE00.0100.00114.8740.0460.0460.0000.0000.0000.000
80A1235ALA00.0100.00416.7310.0310.0310.0000.0000.0000.000
81A1236LYS10.8490.92018.0490.2720.2720.0000.0000.0000.000
82A1237THR00.0370.03818.7110.0080.0080.0000.0000.0000.000
83A1238ILE00.0150.00320.6300.0170.0170.0000.0000.0000.000
84A1239SER00.025-0.00122.9060.0120.0120.0000.0000.0000.000
85A1240ASN0-0.068-0.05223.3500.0130.0130.0000.0000.0000.000
86A1241VAL00.0020.01324.4360.0100.0100.0000.0000.0000.000
87A1242LEU0-0.006-0.01326.7140.0080.0080.0000.0000.0000.000
88A1243LEU0-0.004-0.01128.5160.0050.0050.0000.0000.0000.000
89A1244GLN00.0170.02929.647-0.001-0.0010.0000.0000.0000.000
90A1245TYR00.007-0.01931.0060.0050.0050.0000.0000.0000.000
91A1246ALA00.0130.00532.8790.0040.0040.0000.0000.0000.000
92A1247ASP-1-0.831-0.90034.223-0.048-0.0480.0000.0000.0000.000
93A1248ILE0-0.021-0.01533.8550.0030.0030.0000.0000.0000.000
94A1249VAL0-0.0040.00037.0260.0030.0030.0000.0000.0000.000
95A1250SER0-0.026-0.04238.3990.0020.0020.0000.0000.0000.000
96A1251LYS10.7430.88937.6970.0470.0470.0000.0000.0000.000
97A1252ASP-1-0.788-0.87442.154-0.023-0.0230.0000.0000.0000.000
98A1253PHE00.0030.01943.1970.0020.0020.0000.0000.0000.000
99A1254ALA00.0490.01945.0800.0010.0010.0000.0000.0000.000
100A1255SER0-0.082-0.05047.3760.0020.0020.0000.0000.0000.000
101A1256TYR0-0.025-0.05943.5400.0020.0020.0000.0000.0000.000
102A1257CYS0-0.045-0.00948.5470.0000.0000.0000.0000.0000.000
103A1258SER0-0.0270.00051.0970.0010.0010.0000.0000.0000.000
104A1259LYS10.8630.91753.7580.0200.0200.0000.0000.0000.000
105A1260GLU-1-0.850-0.89855.932-0.010-0.0100.0000.0000.0000.000
106A1261LYS10.8170.87551.2380.0120.0120.0000.0000.0000.000
107A1262GLU-1-0.788-0.89351.019-0.018-0.0180.0000.0000.0000.000
108A1263LYN00.0050.02846.689-0.001-0.0010.0000.0000.0000.000
109A1264VAL00.0310.02245.125-0.001-0.0010.0000.0000.0000.000
110A1265PRO00.0200.00445.181-0.001-0.0010.0000.0000.0000.000
111A1266CYS0-0.011-0.00244.951-0.002-0.0020.0000.0000.0000.000
112A1267ILE00.0140.01441.919-0.002-0.0020.0000.0000.0000.000
113A1268LEU0-0.0110.00740.355-0.002-0.0020.0000.0000.0000.000
114A1269MET0-0.0550.00139.979-0.003-0.0030.0000.0000.0000.000
115A1270ASN00.003-0.01840.053-0.004-0.0040.0000.0000.0000.000
116A1271ASN00.003-0.00637.001-0.001-0.0010.0000.0000.0000.000
117A1272THR00.0190.01235.772-0.003-0.0030.0000.0000.0000.000
118A1273GLN00.0520.03135.408-0.006-0.0060.0000.0000.0000.000
119A1274GLN0-0.001-0.00934.218-0.004-0.0040.0000.0000.0000.000
120A1275LEU0-0.018-0.01731.168-0.001-0.0010.0000.0000.0000.000
121A1276ARG10.8800.95430.6070.0550.0550.0000.0000.0000.000
122A1277VAL0-0.037-0.00431.178-0.004-0.0040.0000.0000.0000.000
123A1278GLN00.0160.00429.088-0.001-0.0010.0000.0000.0000.000
124A1279LEU00.0110.02125.401-0.003-0.0030.0000.0000.0000.000
125A1280GLU-1-0.891-0.92926.098-0.083-0.0830.0000.0000.0000.000
126A1281LYS10.9300.96626.5830.0250.0250.0000.0000.0000.000
127A1282MET0-0.037-0.01721.6940.0010.0010.0000.0000.0000.000
128A1283PHE0-0.037-0.01722.018-0.013-0.0130.0000.0000.0000.000
129A1284GLU-1-0.934-0.97922.247-0.070-0.0700.0000.0000.0000.000
130A1285ALA0-0.051-0.01121.519-0.005-0.0050.0000.0000.0000.000
131A1286MET0-0.033-0.02017.775-0.007-0.0070.0000.0000.0000.000
132A1287GLY00.0200.01417.437-0.030-0.0300.0000.0000.0000.000
133A1288GLY00.0130.00319.6250.0040.0040.0000.0000.0000.000
134A1289LYS10.7140.82922.7240.1100.1100.0000.0000.0000.000
135A1290GLU-1-0.795-0.88618.132-0.135-0.1350.0000.0000.0000.000
136A1291LEU0-0.0560.00016.663-0.035-0.0350.0000.0000.0000.000
137A1292ASP-1-0.709-0.85314.626-0.384-0.3840.0000.0000.0000.000
138A1293ALA00.0150.02216.7130.0310.0310.0000.0000.0000.000
139A1294GLU-1-0.843-0.91617.593-0.284-0.2840.0000.0000.0000.000
140A1295ALA0-0.0090.00716.6480.0280.0280.0000.0000.0000.000
141A1296SER0-0.025-0.03118.7620.0330.0330.0000.0000.0000.000
142A1297GLY0-0.005-0.00421.6490.0200.0200.0000.0000.0000.000
143A1298THR0-0.042-0.04921.1170.0160.0160.0000.0000.0000.000
144A1299LEU00.0340.01620.5000.0160.0160.0000.0000.0000.000
145A1300LYS10.8990.96024.4440.1380.1380.0000.0000.0000.000
146A1301GLU-1-0.833-0.90227.088-0.089-0.0890.0000.0000.0000.000
147A1302LEU0-0.0250.00525.4930.0090.0090.0000.0000.0000.000
148A1303GLN0-0.006-0.03628.5810.0110.0110.0000.0000.0000.000
149A1304VAL0-0.037-0.00930.8170.0080.0080.0000.0000.0000.000
150A1305LYS10.8750.91629.8410.1020.1020.0000.0000.0000.000
151A1306LEU00.0290.01130.1430.0060.0060.0000.0000.0000.000
152A1307ASN0-0.068-0.01734.0150.0070.0070.0000.0000.0000.000
153A1308ASN0-0.005-0.00136.6410.0040.0040.0000.0000.0000.000
154A1309VAL00.1010.05235.9690.0030.0030.0000.0000.0000.000
155A1310LEU0-0.0150.00138.4310.0040.0040.0000.0000.0000.000
156A1311ASP-1-0.830-0.89540.133-0.042-0.0420.0000.0000.0000.000
157A1312GLU-1-0.934-0.96740.008-0.049-0.0490.0000.0000.0000.000
158A1313LEU0-0.016-0.00839.7370.0030.0030.0000.0000.0000.000
159A1314SER0-0.010-0.03843.7810.0030.0030.0000.0000.0000.000
160A1315HIS0-0.048-0.02546.1620.0020.0020.0000.0000.0000.000
161A1316VAL00.0040.01546.1990.0020.0020.0000.0000.0000.000
162A1317PHE00.0220.00047.7840.0020.0020.0000.0000.0000.000
163A1318ALA00.0050.01949.5250.0020.0020.0000.0000.0000.000
164A1319THR00.026-0.00751.2480.0010.0010.0000.0000.0000.000
165A1320SER0-0.076-0.04551.9890.0020.0020.0000.0000.0000.000
166A1321PHE00.000-0.01352.8810.0010.0010.0000.0000.0000.000
167A1322GLN0-0.026-0.00956.4620.0000.0000.0000.0000.0000.000
168A1323PRO00.010-0.00757.8990.0010.0010.0000.0000.0000.000
169A1324HIS00.0490.03660.3760.0000.0000.0000.0000.0000.000
170A1325ILE00.0100.00257.9990.0010.0010.0000.0000.0000.000
171A1326GLU-1-0.798-0.89561.421-0.021-0.0210.0000.0000.0000.000
172A1327GLU-1-0.927-0.95164.198-0.013-0.0130.0000.0000.0000.000
173A1328CYS00.0070.00364.8470.0010.0010.0000.0000.0000.000
174A1329VAL00.008-0.02464.4320.0000.0000.0000.0000.0000.000
175A1330ARG10.7990.87067.4150.0160.0160.0000.0000.0000.000
176A1331GLN00.0200.01969.8600.0010.0010.0000.0000.0000.000
177A1332MET0-0.058-0.01667.4510.0000.0000.0000.0000.0000.000
178A1333GLY00.003-0.00171.3750.0000.0000.0000.0000.0000.000
179A1334ASP-1-0.887-0.94373.179-0.013-0.0130.0000.0000.0000.000
180A1335ILE0-0.0290.00273.8120.0000.0000.0000.0000.0000.000
181A1336LEU0-0.009-0.00873.4210.0000.0000.0000.0000.0000.000
182A1337SER0-0.071-0.04276.4840.0000.0000.0000.0000.0000.000
183A1338GLN0-0.072-0.05279.0800.0010.0010.0000.0000.0000.000
184A1339VAL0-0.0030.01978.4400.0000.0000.0000.0000.0000.000
185A1340LYS10.9140.96681.4970.0110.0110.0000.0000.0000.000
186A1352SER0-0.049-0.03881.6430.0000.0000.0000.0000.0000.000
187A1353VAL00.010-0.01476.2650.0000.0000.0000.0000.0000.000
188A1354ALA00.0130.01075.3110.0000.0000.0000.0000.0000.000
189A1355GLN00.0660.03375.1710.0000.0000.0000.0000.0000.000
190A1356ASP-1-0.863-0.92176.747-0.011-0.0110.0000.0000.0000.000
191A1357ALA0-0.014-0.01471.9620.0000.0000.0000.0000.0000.000
192A1358ASP-1-0.877-0.93872.006-0.012-0.0120.0000.0000.0000.000
193A1359ASN0-0.080-0.05872.4430.0000.0000.0000.0000.0000.000
194A1360VAL0-0.032-0.01571.3200.0000.0000.0000.0000.0000.000
195A1361LEU0-0.002-0.00866.804-0.001-0.0010.0000.0000.0000.000
196A1362GLN00.0090.01468.436-0.001-0.0010.0000.0000.0000.000
197A1363PRO0-0.028-0.01469.0780.0000.0000.0000.0000.0000.000
198A1364ILE0-0.002-0.00862.6140.0000.0000.0000.0000.0000.000
199A1365MET0-0.0010.00464.046-0.001-0.0010.0000.0000.0000.000
200A1366ASP-1-0.855-0.90663.286-0.013-0.0130.0000.0000.0000.000
201A1367LEU00.0070.00757.6430.0000.0000.0000.0000.0000.000
202A1368LEU0-0.068-0.04959.387-0.001-0.0010.0000.0000.0000.000
203A1369ASP-1-0.856-0.89860.424-0.013-0.0130.0000.0000.0000.000
204A1370SER00.0280.00159.7440.0000.0000.0000.0000.0000.000
205A1371ASN0-0.045-0.03256.1950.0000.0000.0000.0000.0000.000
206A1372LEU0-0.014-0.00655.229-0.001-0.0010.0000.0000.0000.000
207A1373THR0-0.039-0.02354.894-0.001-0.0010.0000.0000.0000.000
208A1374LEU0-0.033-0.01052.8910.0000.0000.0000.0000.0000.000
209A1375PHE00.016-0.02750.935-0.001-0.0010.0000.0000.0000.000
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