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: KG573

Calculation Name: 3DQP-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3DQP

Chain ID: A

ChEMBL ID:

UniProt ID: Q9CGI7

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 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 219
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2630484.297584
FMO2-HF: Nuclear repulsion 2545899.982438
FMO2-HF: Total energy -84584.315146
FMO2-MP2: Total energy -84832.592772


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:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-18.931-9.21713.888-7.518-16.083-0.031
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.018 / q_NPA : 0.010
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].
3A3ILE00.0460.0252.347-0.8371.5642.065-1.133-3.3320.001
4A4PHE00.0130.0004.646-0.733-0.665-0.001-0.018-0.0490.000
5A5ILE0-0.0070.0017.9030.2310.2310.0000.0000.0000.000
6A6VAL00.0530.02410.787-0.194-0.1940.0000.0000.0000.000
7A7GLY00.033-0.00314.3210.0250.0250.0000.0000.0000.000
8A8SER0-0.005-0.01214.2000.0230.0230.0000.0000.0000.000
9A9THR0-0.047-0.03015.702-0.006-0.0060.0000.0000.0000.000
10A10GLY00.0200.01718.917-0.039-0.0390.0000.0000.0000.000
11A11ARG10.8140.86719.392-0.217-0.2170.0000.0000.0000.000
12A12VAL00.0860.04116.3070.0070.0070.0000.0000.0000.000
13A13GLY00.0420.03115.0200.0620.0620.0000.0000.0000.000
14A14LYS10.8530.92814.862-0.217-0.2170.0000.0000.0000.000
15A15SER00.0200.01916.520-0.016-0.0160.0000.0000.0000.000
16A16LEU00.0160.01010.320-0.008-0.0080.0000.0000.0000.000
17A17LEU0-0.008-0.00711.1370.1030.1030.0000.0000.0000.000
18A18LYS10.9700.99212.552-0.349-0.3490.0000.0000.0000.000
19A19SER0-0.046-0.03612.5090.0550.0550.0000.0000.0000.000
20A20LEU00.0440.0066.6970.0270.0270.0000.0000.0000.000
21A21SER0-0.077-0.0299.2220.0400.0400.0000.0000.0000.000
22A22THR0-0.082-0.03511.665-0.088-0.0880.0000.0000.0000.000
23A23THR0-0.034-0.0196.7950.1940.1940.0000.0000.0000.000
24A24ASP-1-0.903-0.9525.3110.3650.3650.0000.0000.0000.000
25A25TYR0-0.017-0.0222.500-5.341-3.1854.541-1.831-4.8650.002
26A26GLN0-0.021-0.0033.643-1.399-0.6710.001-0.236-0.4940.001
27A27ILE00.0220.0045.263-0.145-0.1450.0000.0000.0000.000
28A28TYR0-0.026-0.0266.650-0.077-0.0770.0000.0000.0000.000
29A29ALA00.0240.0089.8140.1780.1780.0000.0000.0000.000
30A30GLY00.0440.02612.450-0.097-0.0970.0000.0000.0000.000
31A31ALA0-0.051-0.03314.8470.0360.0360.0000.0000.0000.000
32A32ARG10.9701.00818.423-0.176-0.1760.0000.0000.0000.000
33A33LYS10.8480.92221.963-0.138-0.1380.0000.0000.0000.000
34A34VAL00.0690.03118.6200.0170.0170.0000.0000.0000.000
35A35GLU-1-0.800-0.90019.9810.1270.1270.0000.0000.0000.000
36A36GLN0-0.067-0.03822.1210.0100.0100.0000.0000.0000.000
37A37VAL0-0.012-0.00615.4450.0290.0290.0000.0000.0000.000
38A38PRO0-0.057-0.01416.611-0.030-0.0300.0000.0000.0000.000
39A39GLN00.012-0.00316.7740.0100.0100.0000.0000.0000.000
40A40TYR00.0720.01613.8190.0210.0210.0000.0000.0000.000
41A41ASN00.0150.00213.548-0.024-0.0240.0000.0000.0000.000
42A42ASN0-0.0100.0037.541-0.198-0.1980.0000.0000.0000.000
43A43VAL0-0.0040.0109.3280.0080.0080.0000.0000.0000.000
44A44LYS10.9180.96310.4670.2030.2030.0000.0000.0000.000
45A45ALA00.0040.00912.8010.0560.0560.0000.0000.0000.000
46A46VAL0-0.006-0.00312.949-0.059-0.0590.0000.0000.0000.000
47A47HIS00.0110.00115.8800.0540.0540.0000.0000.0000.000
48A48PHE00.0500.00715.9470.0060.0060.0000.0000.0000.000
49A49ASP-1-0.860-0.94218.6110.1770.1770.0000.0000.0000.000
50A50VAL00.0020.01919.8280.0010.0010.0000.0000.0000.000
51A51ASP-1-0.833-0.91721.7740.1400.1400.0000.0000.0000.000
52A52TRP0-0.049-0.00419.245-0.011-0.0110.0000.0000.0000.000
53A53THR00.016-0.02223.5660.0130.0130.0000.0000.0000.000
54A54PRO00.0560.01920.5270.0080.0080.0000.0000.0000.000
55A55GLU-1-0.783-0.88819.9520.1040.1040.0000.0000.0000.000
56A56GLU-1-0.896-0.91220.8330.0890.0890.0000.0000.0000.000
57A57MET0-0.066-0.02017.6460.0090.0090.0000.0000.0000.000
58A58ALA00.0460.01716.1380.0160.0160.0000.0000.0000.000
59A59LYS10.8900.95715.790-0.042-0.0420.0000.0000.0000.000
60A60GLN0-0.071-0.04115.187-0.061-0.0610.0000.0000.0000.000
61A61LEU0-0.035-0.01611.7730.0020.0020.0000.0000.0000.000
62A62HIS00.0550.03010.7710.0270.0270.0000.0000.0000.000
63A63GLY00.0170.0109.323-0.057-0.0570.0000.0000.0000.000
64A64MET0-0.080-0.0156.383-0.504-0.5040.0000.0000.0000.000
65A65ASP-1-0.782-0.8782.207-6.972-3.8964.007-3.268-3.814-0.033
66A66ALA0-0.003-0.0063.453-0.0360.7100.558-0.265-1.0390.000
67A67ILE0-0.033-0.0045.111-0.677-0.6730.000-0.0090.0050.000
68A68ILE00.0240.0136.507-0.071-0.0710.0000.0000.0000.000
69A69ASN00.0190.0329.800-0.196-0.1960.0000.0000.0000.000
70A70VAL00.018-0.00113.269-0.030-0.0300.0000.0000.0000.000
71A71SER0-0.071-0.05315.661-0.078-0.0780.0000.0000.0000.000
72A72GLY00.0500.02918.553-0.008-0.0080.0000.0000.0000.000
73A73SER0-0.078-0.06422.093-0.013-0.0130.0000.0000.0000.000
74A74GLY0-0.005-0.00825.278-0.018-0.0180.0000.0000.0000.000
75A75GLY00.0180.00127.225-0.014-0.0140.0000.0000.0000.000
76A76LYS10.8960.95429.106-0.154-0.1540.0000.0000.0000.000
77A77SER0-0.008-0.01727.939-0.013-0.0130.0000.0000.0000.000
78A78LEU00.0360.03427.1690.0110.0110.0000.0000.0000.000
79A79LEU00.0550.02526.9080.0100.0100.0000.0000.0000.000
80A80LYS10.8850.91327.272-0.127-0.1270.0000.0000.0000.000
81A81VAL0-0.028-0.00722.4720.0060.0060.0000.0000.0000.000
82A82ASP-1-0.805-0.89522.4030.2680.2680.0000.0000.0000.000
83A83LEU00.0050.02322.5330.0130.0130.0000.0000.0000.000
84A84TYR00.0090.00023.0200.0120.0120.0000.0000.0000.000
85A85GLY00.028-0.00522.0660.0030.0030.0000.0000.0000.000
86A86ALA0-0.020-0.00618.5990.0260.0260.0000.0000.0000.000
87A87VAL00.0510.01418.3630.0270.0270.0000.0000.0000.000
88A88LYS10.7780.89519.946-0.179-0.1790.0000.0000.0000.000
89A89LEU00.0160.00413.801-0.008-0.0080.0000.0000.0000.000
90A90MET0-0.0400.01415.4910.0180.0180.0000.0000.0000.000
91A91GLN00.026-0.00316.490-0.015-0.0150.0000.0000.0000.000
92A92ALA0-0.054-0.03116.553-0.028-0.0280.0000.0000.0000.000
93A93ALA0-0.0060.00112.354-0.021-0.0210.0000.0000.0000.000
94A94GLU-1-0.804-0.90013.9210.1390.1390.0000.0000.0000.000
95A95LYS10.7790.87216.161-0.140-0.1400.0000.0000.0000.000
96A96ALA0-0.063-0.03113.359-0.038-0.0380.0000.0000.0000.000
97A97GLU-1-0.984-0.97613.088-0.077-0.0770.0000.0000.0000.000
98A98VAL0-0.046-0.0127.9330.0000.0000.0000.0000.0000.000
99A99LYS10.8450.8889.273-0.021-0.0210.0000.0000.0000.000
100A100ARG10.8600.9384.095-0.388-0.220-0.001-0.015-0.1520.000
101A101PHE00.011-0.0017.2310.4260.4260.0000.0000.0000.000
102A102ILE00.0200.0136.497-0.177-0.1770.0000.0000.0000.000
103A103LEU0-0.017-0.00710.4070.0440.0440.0000.0000.0000.000
104A104LEU00.0020.01414.064-0.041-0.0410.0000.0000.0000.000
105A105SER0-0.051-0.07416.277-0.044-0.0440.0000.0000.0000.000
106A106THR0-0.042-0.03019.6420.0090.0090.0000.0000.0000.000
107A107ILE00.0500.03022.526-0.009-0.0090.0000.0000.0000.000
108A108PHE00.0530.02824.253-0.009-0.0090.0000.0000.0000.000
109A109SER0-0.023-0.00421.808-0.017-0.0170.0000.0000.0000.000
110A110LEU00.000-0.00921.169-0.009-0.0090.0000.0000.0000.000
111A111GLN0-0.026-0.02125.2720.0000.0000.0000.0000.0000.000
112A112PRO00.0530.01828.433-0.001-0.0010.0000.0000.0000.000
113A113GLU-1-0.889-0.94830.5580.1040.1040.0000.0000.0000.000
114A114LYS10.8140.90828.787-0.119-0.1190.0000.0000.0000.000
115A115TRP0-0.107-0.03928.0870.0010.0010.0000.0000.0000.000
116A116ILE0-0.010-0.00533.017-0.007-0.0070.0000.0000.0000.000
117A117GLY00.0250.01035.7640.0030.0030.0000.0000.0000.000
118A118ALA00.0390.00037.1520.0040.0040.0000.0000.0000.000
119A119GLY0-0.0100.00134.6440.0020.0020.0000.0000.0000.000
120A120PHE00.0490.01829.0070.0060.0060.0000.0000.0000.000
121A121ASP-1-0.904-0.94433.5950.1010.1010.0000.0000.0000.000
122A122ALA0-0.035-0.01235.2250.0000.0000.0000.0000.0000.000
123A123LEU0-0.031-0.00829.3180.0050.0050.0000.0000.0000.000
124A124LYS10.9010.95731.007-0.101-0.1010.0000.0000.0000.000
125A125ASP-1-0.864-0.93431.8620.1240.1240.0000.0000.0000.000
126A126TYR0-0.059-0.04523.2840.0110.0110.0000.0000.0000.000
127A127TYR0-0.005-0.03126.6010.0150.0150.0000.0000.0000.000
128A128ILE00.0060.01427.6690.0050.0050.0000.0000.0000.000
129A129ALA0-0.038-0.02226.4610.0020.0020.0000.0000.0000.000
130A130LYS10.8840.93719.438-0.336-0.3360.0000.0000.0000.000
131A131HIS0-0.006-0.00223.2460.0020.0020.0000.0000.0000.000
132A132PHE0-0.012-0.01424.668-0.001-0.0010.0000.0000.0000.000
133A133ALA0-0.0030.00220.923-0.003-0.0030.0000.0000.0000.000
134A134ASP-1-0.738-0.82419.8130.3080.3080.0000.0000.0000.000
135A135LEU0-0.033-0.00620.747-0.008-0.0080.0000.0000.0000.000
136A136TYR00.0250.02020.299-0.011-0.0110.0000.0000.0000.000
137A137LEU00.0330.00414.456-0.002-0.0020.0000.0000.0000.000
138A138THR0-0.055-0.04317.903-0.016-0.0160.0000.0000.0000.000
139A139LYS10.8580.93319.460-0.133-0.1330.0000.0000.0000.000
140A140GLU-1-0.967-0.97621.4910.0840.0840.0000.0000.0000.000
141A141THR0-0.077-0.02316.8860.0200.0200.0000.0000.0000.000
142A142ASN0-0.042-0.02516.883-0.032-0.0320.0000.0000.0000.000
143A143LEU0-0.014-0.00112.187-0.021-0.0210.0000.0000.0000.000
144A144ASP-1-0.814-0.8948.924-0.039-0.0390.0000.0000.0000.000
145A145TYR00.011-0.0049.2100.1310.1310.0000.0000.0000.000
146A146THR00.0070.00110.108-0.064-0.0640.0000.0000.0000.000
147A147ILE0-0.0270.00111.9560.1040.1040.0000.0000.0000.000
148A148ILE00.0240.01814.077-0.041-0.0410.0000.0000.0000.000
149A149GLN0-0.044-0.04915.910-0.002-0.0020.0000.0000.0000.000
150A150PRO00.000-0.00318.567-0.027-0.0270.0000.0000.0000.000
151A151GLY00.0610.03721.201-0.017-0.0170.0000.0000.0000.000
152A152ALA0-0.039-0.02524.2260.0180.0180.0000.0000.0000.000
153A153LEU00.0070.00121.1290.0050.0050.0000.0000.0000.000
154A154THR0-0.034-0.03424.894-0.010-0.0100.0000.0000.0000.000
155A155GLU-1-0.848-0.91524.7690.2570.2570.0000.0000.0000.000
156A156GLU-1-0.905-0.92426.2460.1730.1730.0000.0000.0000.000
157A157GLU-1-0.941-0.98224.5130.2520.2520.0000.0000.0000.000
158A158ALA0-0.053-0.01320.538-0.005-0.0050.0000.0000.0000.000
159A159THR0-0.016-0.02222.588-0.019-0.0190.0000.0000.0000.000
160A160GLY0-0.026-0.01019.530-0.014-0.0140.0000.0000.0000.000
161A161LEU0-0.055-0.02120.038-0.001-0.0010.0000.0000.0000.000
162A162ILE0-0.014-0.01017.3940.0050.0050.0000.0000.0000.000
163A163ASP-1-0.818-0.89521.7300.1340.1340.0000.0000.0000.000
164A164ILE00.012-0.01117.5460.0220.0220.0000.0000.0000.000
165A165ASN00.0000.00119.0890.0000.0000.0000.0000.0000.000
166A166ASP-1-0.739-0.84722.4360.1390.1390.0000.0000.0000.000
167A167GLU-1-0.854-0.92025.5590.1150.1150.0000.0000.0000.000
168A168VAL0-0.0250.00126.690-0.007-0.0070.0000.0000.0000.000
169A169SER0-0.039-0.00826.3980.0200.0200.0000.0000.0000.000
170A170ALA00.010-0.01226.912-0.012-0.0120.0000.0000.0000.000
171A171SER0-0.006-0.00326.2990.0120.0120.0000.0000.0000.000
172A172ASN00.012-0.00522.039-0.003-0.0030.0000.0000.0000.000
173A173THR00.0410.02722.4180.0200.0200.0000.0000.0000.000
174A174ILE00.006-0.02219.4680.0350.0350.0000.0000.0000.000
175A175GLY00.0040.00618.5130.0550.0550.0000.0000.0000.000
176A176ASP-1-0.638-0.79217.4610.3630.3630.0000.0000.0000.000
177A177VAL0-0.0180.00516.6020.0410.0410.0000.0000.0000.000
178A178ALA0-0.066-0.03514.3270.0820.0820.0000.0000.0000.000
179A179ASP-1-0.772-0.87212.8480.8060.8060.0000.0000.0000.000
180A180THR00.003-0.01012.4710.0350.0350.0000.0000.0000.000
181A181ILE0-0.029-0.0199.8380.0380.0380.0000.0000.0000.000
182A182LYS10.8150.9068.285-0.601-0.6010.0000.0000.0000.000
183A183GLU-1-0.826-0.8997.4510.6940.6940.0000.0000.0000.000
184A184LEU00.0110.0058.076-0.159-0.1590.0000.0000.0000.000
185A185VAL0-0.051-0.0192.698-0.053-0.5492.672-0.424-1.7530.000
186A186MET0-0.0400.0023.404-2.506-1.6670.047-0.319-0.567-0.002
187A187THR0-0.032-0.0105.273-0.233-0.209-0.0010.000-0.0230.000
188A188ASP-1-0.839-0.9175.551-1.238-1.2380.0000.0000.0000.000
189A189HIS0-0.027-0.0117.8650.0930.0930.0000.0000.0000.000
190A190SER00.008-0.0118.9750.1030.1030.0000.0000.0000.000
191A191ILE0-0.0220.0166.8120.1180.1180.0000.0000.0000.000
192A192GLY0-0.015-0.00810.673-0.041-0.0410.0000.0000.0000.000
193A193LYS10.7760.90013.388-0.038-0.0380.0000.0000.0000.000
194A194VAL00.001-0.00514.6500.0570.0570.0000.0000.0000.000
195A195ILE0-0.0080.00113.669-0.029-0.0290.0000.0000.0000.000
196A196SER00.0260.01717.5880.0340.0340.0000.0000.0000.000
197A197MET0-0.0180.00318.0250.0160.0160.0000.0000.0000.000
198A198HIS10.8170.88520.873-0.182-0.1820.0000.0000.0000.000
199A199ASN0-0.010-0.03122.7940.0090.0090.0000.0000.0000.000
200A200GLY0-0.073-0.03924.350-0.017-0.0170.0000.0000.0000.000
201A201LYS10.8690.92425.513-0.133-0.1330.0000.0000.0000.000
202A202THR00.0440.03720.897-0.014-0.0140.0000.0000.0000.000
203A203ALA00.0320.03319.2000.0270.0270.0000.0000.0000.000
204A204ILE00.0190.00414.090-0.008-0.0080.0000.0000.0000.000
205A205LYS10.8240.89510.565-0.291-0.2910.0000.0000.0000.000
206A206GLU-1-0.864-0.93214.9430.1010.1010.0000.0000.0000.000
207A207ALA00.007-0.00317.916-0.021-0.0210.0000.0000.0000.000
208A208LEU0-0.012-0.00511.750-0.011-0.0110.0000.0000.0000.000
209A209GLU-1-0.956-0.97315.2940.0150.0150.0000.0000.0000.000
210A210SER0-0.042-0.03516.251-0.029-0.0290.0000.0000.0000.000
211A211LEU0-0.019-0.00514.876-0.005-0.0050.0000.0000.0000.000
212A212LEU0-0.054-0.04514.234-0.022-0.0220.0000.0000.0000.000
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