FMODB

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

Last updated: 2024-04-25

All entries: 37426

Number of unique PDB entries: 7782

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FMODB ID: YQ4L2

Calculation Name: 6A84-A-Xray63

Preferred Name:

Target Type:

Ligand Name: 2-(4-chloro-1,2-dihydro-1'h-spiro[indole-3,4'-piperidin]-1'-yl)-5,6,7,8-tetrahydroquinazolin-4(3h)-one

ligand 3-letter code: 9SU

PDB ID: 6A84

Chain ID: A

ChEMBL ID:

UniProt ID:

Base Structure: X-Ray

Registration Date: 2019-08-23

Reference:

DOI: 10.1021/acs.jmedchem.8b01888


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptHL
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Manual calculation
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 212
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -2642190.874163
FMO2-HF: Nuclear repulsion 2555621.849672
FMO2-HF: Total energy -86569.024491
FMO2-MP2: Total energy -86817.097545


3D Structure
Snapshot
 
Ligand structure

9SU

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.
-116.814-79.62376.754-29.442-84.5030.043


Interactive mode: IFIE and PIEDA for fragment #212(A:1163:9SU )


Summations of interaction energy for fragment #212(A:1163:9SU )
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.
-116.814-79.62376.754-29.442-84.503-0.043
Interaction energy analysis for fragmet #212(A:1163:9SU )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.042 / q_NPA : 0.011
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].
1A952GLY 10.8180.88620.5510.2340.2340.0000.0000.0000.000
2A953THR 00.0680.01016.648-0.024-0.0240.0000.0000.0000.000
3A954ILE 00.0080.02619.759-0.007-0.0070.0000.0000.0000.000
4A955LEU 0-0.005-0.00116.5040.0180.0180.0000.0000.0000.000
5A956ILE 0-0.006-0.00120.467-0.027-0.0270.0000.0000.0000.000
6A957ASP -1-0.851-0.93420.9570.5520.5520.0000.0000.0000.000
7A958LEU 0-0.023-0.00519.028-0.043-0.0430.0000.0000.0000.000
8A959SER 00.0190.01222.5000.0320.0320.0000.0000.0000.000
9A960PRO 00.0640.01723.3370.0210.0210.0000.0000.0000.000
10A961ASP -1-0.905-0.94624.3580.4440.4440.0000.0000.0000.000
11A962ASP -1-0.931-0.95924.1940.4610.4610.0000.0000.0000.000
12A963LYS 10.9720.96624.169-0.376-0.3760.0000.0000.0000.000
13A964GLU -1-0.775-0.83220.0010.6480.6480.0000.0000.0000.000
14A965PHE 0-0.0080.00119.6960.1130.1130.0000.0000.0000.000
15A966GLN 00.000-0.01419.2020.1080.1080.0000.0000.0000.000
16A967SER 0-0.0090.00718.7050.0320.0320.0000.0000.0000.000
17A968VAL 0-0.013-0.00214.0080.1110.1110.0000.0000.0000.000
18A969GLU -1-0.894-0.94814.9881.2751.2750.0000.0000.0000.000
19A970GLU -1-0.881-0.95716.1041.1101.1100.0000.0000.0000.000
20A971GLU -1-0.933-0.94712.6361.3351.3350.0000.0000.0000.000
21A972MET 0-0.093-0.03510.3220.4920.4920.0000.0000.0000.000
22A973GLN 0-0.011-0.03012.3540.2710.2710.0000.0000.0000.000
23A974SER 0-0.0020.01514.8960.0210.0210.0000.0000.0000.000
24A975THR 0-0.0250.00210.1930.1480.1480.0000.0000.0000.000
25A976VAL 0-0.031-0.0119.9810.4310.4310.0000.0000.0000.000
26A977ARG 10.8410.9326.469-1.339-1.3390.0000.0000.0000.000
27A978GLU -1-0.858-0.91611.6610.8850.8850.0000.0000.0000.000
28A979HIS 0-0.051-0.0606.598-0.304-0.3040.0000.0000.0000.000
29A980ARG 10.9080.9159.177-0.230-0.2300.0000.0000.0000.000
30A981ASP -1-0.841-0.91310.2151.1081.1080.0000.0000.0000.000
31A982GLY 00.0200.01012.5010.0030.0030.0000.0000.0000.000
32A983GLY 00.0260.01512.688-0.011-0.0110.0000.0000.0000.000
33A984HIS 0-0.062-0.01512.4500.0830.0830.0000.0000.0000.000
34A985ALA 0-0.031-0.0268.6380.0490.0490.0000.0000.0000.000
35A986GLY 00.030-0.0069.6150.2070.2070.0000.0000.0000.000
36A987GLY 00.0260.01410.4200.0740.0740.0000.0000.0000.000
37A988ILE 0-0.0020.00513.4110.0780.0780.0000.0000.0000.000
38A989PHE 0-0.031-0.01610.1470.0280.0280.0000.0000.0000.000
39A990ASN 00.0620.03314.9680.0690.0690.0000.0000.0000.000
40A991ARG 10.9030.95215.773-0.765-0.7650.0000.0000.0000.000
41A992TYR 0-0.063-0.0679.8390.1480.1480.0000.0000.0000.000
42A993ASN 00.0160.01316.251-0.135-0.1350.0000.0000.0000.000
43A994ILE 00.0120.00114.7130.1230.1230.0000.0000.0000.000
44A995LEU 0-0.048-0.01717.253-0.123-0.1230.0000.0000.0000.000
45A996LYS 10.9280.95717.518-0.676-0.6760.0000.0000.0000.000
46A997ILE 00.0280.03615.6210.1740.1740.0000.0000.0000.000
47A998GLN 0-0.046-0.02316.266-0.071-0.0710.0000.0000.0000.000
48A999LYS 10.9070.94916.268-0.428-0.4280.0000.0000.0000.000
49A1000VAL 00.0110.00714.215-0.119-0.1190.0000.0000.0000.000
50A1001CYS 0-0.0200.01917.435-0.024-0.0240.0000.0000.0000.000
51A1002ASN 00.017-0.03418.427-0.075-0.0750.0000.0000.0000.000
52A1003LYS 10.9380.94820.3940.0970.0970.0000.0000.0000.000
53A1004LYS 10.9700.99019.6750.4820.4820.0000.0000.0000.000
54A1005LEU 0-0.036-0.02215.166-0.038-0.0380.0000.0000.0000.000
55A1006TRP 00.0650.03817.532-0.031-0.0310.0000.0000.0000.000
56A1007GLU -1-0.843-0.90519.966-0.155-0.1550.0000.0000.0000.000
57A1008ARG 10.9400.97115.5350.8420.8420.0000.0000.0000.000
58A1009TYR 0-0.041-0.01914.951-0.020-0.0200.0000.0000.0000.000
59A1010THR 0-0.070-0.04218.2980.0140.0140.0000.0000.0000.000
60A1011HIS 0-0.0080.00721.6710.0420.0420.0000.0000.0000.000
61A1012ARG 10.8900.94717.4320.5620.5620.0000.0000.0000.000
62A1013ARG 10.8850.93918.892-0.071-0.0710.0000.0000.0000.000
63A1014LYS 10.8820.93320.3720.1840.1840.0000.0000.0000.000
64A1015GLU -1-0.840-0.91722.539-0.448-0.4480.0000.0000.0000.000
65A1016VAL 0-0.0070.00117.7050.0100.0100.0000.0000.0000.000
66A1017SER 0-0.029-0.02820.9750.0280.0280.0000.0000.0000.000
67A1018GLU -1-0.889-0.93822.769-0.156-0.1560.0000.0000.0000.000
68A1019GLU -1-0.896-0.90522.372-0.403-0.4030.0000.0000.0000.000
69A1020ASN 0-0.087-0.05819.722-0.020-0.0200.0000.0000.0000.000
70A1021HIS 10.8720.93322.4280.1050.1050.0000.0000.0000.000
71A1022ASN 00.0080.01025.6630.0140.0140.0000.0000.0000.000
72A1023HIS 00.0600.03919.1090.0250.0250.0000.0000.0000.000
73A1024ALA 00.0520.02318.909-0.033-0.0330.0000.0000.0000.000
74A1025ASN 0-0.060-0.02315.2800.0620.0620.0000.0000.0000.000
75A1026GLU -1-0.725-0.84415.0420.2700.2700.0000.0000.0000.000
76A1027ARG 10.8680.93711.132-0.407-0.4070.0000.0000.0000.000
77A1028MET 00.0180.02511.618-0.160-0.1600.0000.0000.0000.000
78A1029LEU 0-0.0050.0016.2300.0150.0150.0000.0000.0000.000
79A1030PHE 00.0260.0185.209-0.091-0.0910.0000.0000.0000.000
80A1031HIS 0-0.026-0.0282.578-6.728-2.6252.055-1.974-4.1850.004
81A1032GLY 00.0390.0141.828-12.038-15.81810.841-3.690-3.3710.042
82A1033SER 00.002-0.0071.966-23.606-19.9277.089-4.660-6.109-0.058
83A1034PRO 00.0550.0332.627-0.736-0.7025.464-1.261-4.2370.001
84A1035PHE 0-0.023-0.0182.745-3.784-0.8372.878-1.163-4.6610.011
85A1036VAL 00.0680.0436.234-0.350-0.3500.0000.0000.0000.000
86A1037ASN 00.0460.0128.0580.1380.1380.0000.0000.0000.000
87A1038ALA 0-0.014-0.0108.9490.0510.0510.0000.0000.0000.000
88A1039ILE 00.0270.0255.1910.1500.1500.0000.0000.0000.000
89A1040ILE 00.0430.0349.7220.1660.1660.0000.0000.0000.000
90A1041HIS 0-0.077-0.00112.8940.1330.1330.0000.0000.0000.000
91A1042LYS 10.8110.88912.7860.8740.8740.0000.0000.0000.000
92A1043GLY 00.0140.01912.5540.0090.0090.0000.0000.0000.000
93A1044PHE 00.009-0.0065.827-0.162-0.1620.0000.0000.0000.000
94A1045ASP -1-0.871-0.9468.067-2.614-2.6140.0000.0000.0000.000
95A1046GLU -1-0.868-0.9307.161-3.602-3.6020.0000.0000.0000.000
96A1047ARG 10.9130.9645.6131.9371.9370.0000.0000.0000.000
97A1048HIS 0-0.031-0.0203.427-1.863-1.2390.013-0.096-0.5410.000
98A1049ALA 00.0050.0092.776-5.902-3.4420.658-1.285-1.833-0.014
99A1050TYR 0-0.039-0.0142.047-15.563-8.6479.340-4.646-11.610-0.022
100A1051ILE 00.012-0.0122.9511.9501.6140.1471.191-1.0030.001
101A1052GLY 00.002-0.0035.4630.3440.3440.0000.0000.0000.000
102A1053GLY 0-0.0130.0075.5380.2990.2990.0000.0000.0000.000
103A1054MET 0-0.006-0.0215.7680.1690.1690.0000.0000.0000.000
104A1055PHE 00.0080.0125.3600.2480.2480.0000.0000.0000.000
105A1056GLY 00.0340.0428.6430.0460.0460.0000.0000.0000.000
106A1057ALA 00.0130.0077.032-0.211-0.2110.0000.0000.0000.000
107A1058GLY 00.0730.0306.6090.2890.2890.0000.0000.0000.000
108A1059ILE 0-0.002-0.0044.865-1.625-1.6250.0000.0000.0000.000
109A1060TYR 0-0.016-0.0072.247-2.3180.4755.387-1.984-6.1960.005
110A1061PHE 00.0060.0003.094-0.4681.7320.183-0.666-1.717-0.003
111A1062ALA 00.008-0.0032.193-4.995-3.6802.880-1.177-3.018-0.009
112A1063GLU -1-0.748-0.8523.7141.5071.5820.0200.004-0.1000.000
113A1064ASN 00.0150.0065.826-0.318-0.3180.0000.0000.0000.000
114A1065SER 00.1030.0605.4321.4861.4860.0000.0000.0000.000
115A1066SER 00.0490.0326.4361.2481.2480.0000.0000.0000.000
116A1067LYS 10.8010.8922.347-2.452-1.3782.094-0.524-2.6430.002
117A1068SER 00.0360.0051.974-13.930-11.9906.353-3.579-4.7140.032
118A1069ASN 00.0100.0303.448-2.508-2.8740.0190.773-0.4250.002
119A1070GLN 00.0170.0195.023-1.314-1.3140.0000.0000.0000.000
120A1071TYR 0-0.003-0.0082.205-14.069-3.8278.128-3.375-14.995-0.015
121A1072VAL 0-0.0090.0043.568-2.400-0.6690.250-0.751-1.229-0.007
122A1073TYR 0-0.006-0.0095.821-0.407-0.263-0.001-0.004-0.1390.000
123A1074GLY 00.012-0.0022.6911.326-1.1445.145-1.048-1.6280.003
124A1075ILE 0-0.011-0.0072.444-0.718-2.1936.0311.884-6.4390.005
125A1076GLY 00.0080.0144.086-0.874-0.8950.0380.312-0.3290.001
126A1077GLY 00.0640.0355.835-0.265-0.2650.0000.0000.0000.000
127A1078GLY 0-0.036-0.0136.418-0.111-0.1110.0000.0000.0000.000
128A1079THR 0-0.023-0.0267.042-0.331-0.3310.0000.0000.0000.000
129A1080GLY 00.0350.0179.228-0.174-0.1740.0000.0000.0000.000
130A1081CYS 0-0.098-0.00210.198-0.030-0.0300.0000.0000.0000.000
131A1082PRO 00.017-0.00910.744-0.094-0.0940.0000.0000.0000.000
132A1083VAL 0-0.010-0.00612.791-0.080-0.0800.0000.0000.0000.000
133A1084HIS 00.025-0.02716.097-0.067-0.0670.0000.0000.0000.000
134A1085LYS 10.8950.96112.255-0.559-0.5590.0000.0000.0000.000
135A1086ASP -1-0.768-0.89114.5380.8770.8770.0000.0000.0000.000
136A1087ARG 10.8580.92610.094-1.040-1.0400.0000.0000.0000.000
137A1088SER 0-0.004-0.00312.5390.2200.2200.0000.0000.0000.000
138A1089CYS 0-0.0830.03514.889-0.084-0.0840.0000.0000.0000.000
139A1090TYR 00.010-0.02316.3280.0590.0590.0000.0000.0000.000
140A1091ILE 00.001-0.01218.788-0.022-0.0220.0000.0000.0000.000
141A1092CYS 0-0.033-0.03315.282-0.045-0.0450.0000.0000.0000.000
142A1093HIS 00.0420.02716.1820.1490.1490.0000.0000.0000.000
143A1094ARG 10.7950.90510.926-1.977-1.9770.0000.0000.0000.000
144A1095GLN 0-0.012-0.02610.637-0.252-0.2520.0000.0000.0000.000
145A1096LEU 0-0.0300.0035.1460.4330.535-0.001-0.002-0.0990.000
146A1097LEU 0-0.029-0.0166.605-1.246-1.2460.0000.0000.0000.000
147A1098PHE 00.0430.0267.1521.5141.5140.0000.0000.0000.000
148A1099CYS 0-0.069-0.0387.728-0.884-0.8840.0000.0000.0000.000
149A1100ARG 10.8240.89510.345-0.424-0.4240.0000.0000.0000.000
150A1101VAL 0-0.010-0.0048.441-0.237-0.2370.0000.0000.0000.000
151A1102THR 0-0.006-0.01211.8930.0240.0240.0000.0000.0000.000
152A1103LEU 0-0.0070.0009.679-0.156-0.1560.0000.0000.0000.000
153A1104GLY 00.0520.04413.490-0.111-0.1110.0000.0000.0000.000
154A1105LYS 10.9080.97216.5740.2710.2710.0000.0000.0000.000
155A1106SER 0-0.0060.00712.024-0.071-0.0710.0000.0000.0000.000
156A1107PHE 0-0.023-0.01113.8900.0550.0550.0000.0000.0000.000
157A1108LEU 0-0.017-0.00112.854-0.043-0.0430.0000.0000.0000.000
158A1109GLN 00.0160.01011.026-0.029-0.0290.0000.0000.0000.000
159A1110PHE 00.006-0.00111.313-0.018-0.0180.0000.0000.0000.000
160A1111SER 00.0180.0188.792-0.081-0.0810.0000.0000.0000.000
161A1112ALA 00.0330.02711.0870.0580.0580.0000.0000.0000.000
162A1113MET 0-0.023-0.0147.1160.0650.0650.0000.0000.0000.000
163A1114NME 00.0630.0508.4380.0840.0840.0000.0000.0000.000
164A1114ACE 00.018-0.0189.8920.1010.1010.0000.0000.0000.000
165A1115MET 0-0.069-0.0298.179-0.852-0.8520.0000.0000.0000.000
166A1116ALA 0-0.0270.00610.2840.3600.3600.0000.0000.0000.000
167A1117HIS 00.017-0.00212.723-0.012-0.0120.0000.0000.0000.000
168A1118SER 0-0.017-0.00514.242-0.002-0.0020.0000.0000.0000.000
169A1119PRO 00.0180.00814.0510.0350.0350.0000.0000.0000.000
170A1120PRO 00.0750.02417.2930.0260.0260.0000.0000.0000.000
171A1121GLY 0-0.0010.01720.8820.0340.0340.0000.0000.0000.000
172A1122HIS 0-0.091-0.05516.1970.0950.0950.0000.0000.0000.000
173A1123HIS 00.005-0.02715.963-0.038-0.0380.0000.0000.0000.000
174A1124SER 0-0.031-0.03110.725-0.052-0.0520.0000.0000.0000.000
175A1125VAL 00.0030.0119.4400.0710.0710.0000.0000.0000.000
176A1126THR 0-0.012-0.0278.7490.0360.0360.0000.0000.0000.000
177A1127GLY 00.0310.0127.249-0.005-0.0050.0000.0000.0000.000
178A1128ARG 10.9830.9707.636-0.064-0.0640.0000.0000.0000.000
179A1129PRO 0-0.036-0.0257.685-0.043-0.0430.0000.0000.0000.000
180A1130SER 00.005-0.00110.3120.0770.0770.0000.0000.0000.000
181A1131VAL 0-0.0230.00412.9610.0200.0200.0000.0000.0000.000
182A1132ASN 0-0.015-0.02011.3100.0380.0380.0000.0000.0000.000
183A1133GLY 00.0410.02012.8330.0010.0010.0000.0000.0000.000
184A1134LEU 00.0210.00513.6420.0160.0160.0000.0000.0000.000
185A1135ALA 0-0.114-0.0488.4130.1470.1470.0000.0000.0000.000
186A1136LEU 00.0160.0158.032-0.149-0.1490.0000.0000.0000.000
187A1137ALA 0-0.058-0.0236.890-0.206-0.2060.0000.0000.0000.000
188A1138GLU -1-0.899-0.9572.319-6.345-3.3781.744-1.698-3.012-0.024
189A1139TYR 0-0.090-0.0844.098-0.270-0.1100.000-0.015-0.1450.000
190A1140VAL 0-0.0180.0034.754-0.291-0.158-0.001-0.008-0.1250.000
191A1141ILE 00.0120.0097.1000.2890.2890.0000.0000.0000.000
192A1142TYR 00.001-0.0309.573-0.426-0.4260.0000.0000.0000.000
193A1143ARG 10.9690.98811.5440.8100.8100.0000.0000.0000.000
194A1144GLY 00.0610.03610.6340.0490.0490.0000.0000.0000.000
195A1145GLU -1-0.930-0.98611.627-0.901-0.9010.0000.0000.0000.000
196A1146GLN 0-0.051-0.03413.4720.1370.1370.0000.0000.0000.000
197A1147ALA 00.0170.01110.4790.2160.2160.0000.0000.0000.000
198A1148TYR 0-0.037-0.04212.560-0.319-0.3190.0000.0000.0000.000
199A1149PRO 0-0.022-0.01510.4670.2990.2990.0000.0000.0000.000
200A1150GLU -1-0.804-0.88811.9350.5100.5100.0000.0000.0000.000
201A1151TYR 0-0.034-0.05712.628-0.140-0.1400.0000.0000.0000.000
202A1152LEU 0-0.032-0.01611.6190.3000.3000.0000.0000.0000.000
203A1153ILE 00.0270.01210.642-0.181-0.1810.0000.0000.0000.000
204A1154THR 0-0.020-0.01512.0690.1640.1640.0000.0000.0000.000
205A1155TYR 0-0.011-0.0309.2120.1240.1240.0000.0000.0000.000
206A1156GLN 00.0270.01914.8160.0040.0040.0000.0000.0000.000
207A1157ILE 0-0.0160.00512.8920.0750.0750.0000.0000.0000.000
208A1158MET 00.003-0.00415.621-0.131-0.1310.0000.0000.0000.000
209A1159ARG 10.9280.95718.582-0.622-0.6220.0000.0000.0000.000
210A1160PRO 0-0.060-0.02919.167-0.020-0.0200.0000.0000.0000.000
211A1161GLU -2-1.784-1.86921.7351.2001.2000.0000.0000.0000.000