Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: N23JQ

Calculation Name: 1QQG-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1QQG

Chain ID: A

ChEMBL ID:

UniProt ID: P35568

Base Structure: X-ray

Registration Date: 2023-09-26

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 207
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2423664.915483
FMO2-HF: Nuclear repulsion 2340196.573154
FMO2-HF: Total energy -83468.342329
FMO2-MP2: Total energy -83710.604481


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:12:ASP)


Summations of interaction energy for fragment #1(A:12:ASP)
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.
-257.013-258.1431.118-15.071-14.9220.143
Interaction energy analysis for fragmet #1(A:12:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.749 / q_NPA : -0.860
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].
3A14ARG10.8650.9342.057-77.254-78.0119.642-3.987-4.8990.037
4A15LYS10.8980.9646.479-26.436-26.4360.0000.0000.0000.000
5A16VAL0-0.014-0.0048.5293.5723.5720.0000.0000.0000.000
6A17GLY00.0560.02910.849-2.121-2.1210.0000.0000.0000.000
7A18TYR0-0.032-0.03214.4050.4020.4020.0000.0000.0000.000
8A19LEU00.0790.07415.573-0.734-0.7340.0000.0000.0000.000
9A20ARG10.8960.93018.537-13.016-13.0160.0000.0000.0000.000
10A21LYS10.9210.95918.043-16.293-16.2930.0000.0000.0000.000
11A22PRO00.0570.03521.553-0.597-0.5970.0000.0000.0000.000
12A23LYS10.9630.99024.584-11.122-11.1220.0000.0000.0000.000
13A24SER0-0.016-0.02524.282-0.316-0.3160.0000.0000.0000.000
14A25MET00.0380.03025.3950.0770.0770.0000.0000.0000.000
15A26HIS0-0.0080.00522.3270.6560.6560.0000.0000.0000.000
16A27LYS10.9410.99819.958-15.459-15.4590.0000.0000.0000.000
17A28ARG10.8280.91016.423-16.645-16.6450.0000.0000.0000.000
18A29PHE00.0420.01710.190-0.623-0.6230.0000.0000.0000.000
19A30PHE00.0420.01311.9060.8340.8340.0000.0000.0000.000
20A31VAL0-0.001-0.0105.6750.2810.2810.0000.0000.0000.000
21A32LEU00.0080.0097.502-0.726-0.7260.0000.0000.0000.000
22A33ARG10.7850.8591.676-107.255-110.99221.100-9.749-7.6130.111
23A34ALA00.0540.0222.768-9.470-8.4280.183-0.448-0.7780.000
24A35ALA00.013-0.0013.2704.9856.1300.047-0.509-0.683-0.004
25A36SER0-0.009-0.0063.0204.1534.9510.148-0.323-0.623-0.001
26A37GLU-1-0.883-0.9384.92229.81329.859-0.001-0.007-0.0390.000
27A38ALA0-0.041-0.0286.788-2.290-2.2900.0000.0000.0000.000
28A39GLY00.0080.0154.628-0.945-0.900-0.001-0.005-0.0390.000
29A40GLY0-0.0150.0015.3544.6194.692-0.001-0.001-0.0700.000
30A41PRO00.0790.0335.2784.0354.0350.0000.0000.0000.000
31A42ALA00.0350.0285.9035.7865.7860.0000.0000.0000.000
32A43ARG10.7900.9014.115-55.775-55.5570.001-0.042-0.1780.000
33A44LEU00.0290.0367.0644.1424.1420.0000.0000.0000.000
34A45GLU-1-0.739-0.8326.53143.68643.6860.0000.0000.0000.000
35A46TYR0-0.0040.0049.651-1.611-1.6110.0000.0000.0000.000
36A47TYR00.017-0.0187.250-1.275-1.2750.0000.0000.0000.000
37A48GLU-1-0.853-0.90813.40115.36315.3630.0000.0000.0000.000
38A49ASN00.006-0.01216.029-0.444-0.4440.0000.0000.0000.000
39A50GLU-1-0.780-0.87413.35521.62421.6240.0000.0000.0000.000
40A51LYN00.0110.01513.3081.8991.8990.0000.0000.0000.000
41A52LYS10.8320.90314.594-17.025-17.0250.0000.0000.0000.000
42A53TRP00.0420.0335.941-2.825-2.8250.0000.0000.0000.000
43A54ARG10.8650.9149.918-18.279-18.2790.0000.0000.0000.000
44A55HIS00.025-0.00611.5871.8561.8560.0000.0000.0000.000
45A56LYS10.9010.9577.968-32.628-32.6280.0000.0000.0000.000
46A57SER00.0570.04411.806-0.532-0.5320.0000.0000.0000.000
47A58SER0-0.080-0.06013.922-2.324-2.3240.0000.0000.0000.000
48A59ALA00.0670.05012.1221.8891.8890.0000.0000.0000.000
49A60PRO0-0.029-0.0019.109-1.875-1.8750.0000.0000.0000.000
50A61LYS10.8490.89712.023-18.622-18.6220.0000.0000.0000.000
51A62ARG10.7690.84013.537-18.896-18.8960.0000.0000.0000.000
52A63SER0-0.013-0.0378.2891.4641.4640.0000.0000.0000.000
53A64ILE00.0030.00110.570-1.936-1.9360.0000.0000.0000.000
54A65PRO00.0420.02110.2921.5621.5620.0000.0000.0000.000
55A66LEU00.0070.0089.630-2.090-2.0900.0000.0000.0000.000
56A67GLU-1-0.849-0.92911.88721.90921.9090.0000.0000.0000.000
57A68SER0-0.070-0.03514.142-1.596-1.5960.0000.0000.0000.000
58A69CYS0-0.085-0.04415.271-1.074-1.0740.0000.0000.0000.000
59A70PHE00.0260.00917.820-0.026-0.0260.0000.0000.0000.000
60A71ASN0-0.031-0.03420.612-0.472-0.4720.0000.0000.0000.000
61A72ILE00.0210.00415.7420.5580.5580.0000.0000.0000.000
62A73ASN0-0.0050.00820.257-0.543-0.5430.0000.0000.0000.000
63A74LYS10.8630.93322.201-12.667-12.6670.0000.0000.0000.000
64A75ARG10.7680.85523.985-12.188-12.1880.0000.0000.0000.000
65A76ALA00.0360.01026.3690.2430.2430.0000.0000.0000.000
66A77ASP-1-0.788-0.87728.74210.78810.7880.0000.0000.0000.000
67A78SER0-0.071-0.07030.999-0.026-0.0260.0000.0000.0000.000
68A79LYS10.7580.88130.168-10.434-10.4340.0000.0000.0000.000
69A80ASN0-0.065-0.04526.2120.4870.4870.0000.0000.0000.000
70A81LYS11.0120.99128.150-9.665-9.6650.0000.0000.0000.000
71A82HIS00.0180.01524.446-0.302-0.3020.0000.0000.0000.000
72A83LEU0-0.0230.00322.9860.7530.7530.0000.0000.0000.000
73A84VAL00.0110.02118.033-0.263-0.2630.0000.0000.0000.000
74A85ALA0-0.019-0.01320.2480.2500.2500.0000.0000.0000.000
75A86LEU00.0250.01514.456-0.036-0.0360.0000.0000.0000.000
76A87TYR0-0.005-0.03019.101-0.730-0.7300.0000.0000.0000.000
77A88THR00.0700.04817.410-0.206-0.2060.0000.0000.0000.000
78A89ARG10.8260.88120.236-13.995-13.9950.0000.0000.0000.000
79A90ASP-1-0.791-0.88921.75912.67512.6750.0000.0000.0000.000
80A91GLU-1-0.813-0.85818.49616.04216.0420.0000.0000.0000.000
81A92HIS00.0080.01222.1470.2590.2590.0000.0000.0000.000
82A93PHE0-0.018-0.00215.567-0.056-0.0560.0000.0000.0000.000
83A94ALA00.0320.01619.3130.3820.3820.0000.0000.0000.000
84A95ILE0-0.066-0.03815.7160.1210.1210.0000.0000.0000.000
85A96ALA00.0000.00019.586-0.332-0.3320.0000.0000.0000.000
86A97ALA00.0110.00420.4640.5470.5470.0000.0000.0000.000
87A98ASP-1-0.895-0.93421.61313.37613.3760.0000.0000.0000.000
88A99SER0-0.007-0.02223.754-0.677-0.6770.0000.0000.0000.000
89A100GLU-1-0.823-0.92123.89012.48612.4860.0000.0000.0000.000
90A101ALA00.0250.02723.2410.3840.3840.0000.0000.0000.000
91A102GLU-1-0.816-0.91018.15518.40818.4080.0000.0000.0000.000
92A103GLN0-0.035-0.03119.1160.7420.7420.0000.0000.0000.000
93A104ASP-1-0.797-0.89919.92915.12715.1270.0000.0000.0000.000
94A105SER00.0150.02716.5891.1991.1990.0000.0000.0000.000
95A106TRP0-0.065-0.06411.0942.1562.1560.0000.0000.0000.000
96A107TYR0-0.0230.00115.0990.8290.8290.0000.0000.0000.000
97A108GLN00.010-0.01216.3590.7300.7300.0000.0000.0000.000
98A109ALA0-0.024-0.00411.2130.6070.6070.0000.0000.0000.000
99A110LEU0-0.036-0.03511.3531.5791.5790.0000.0000.0000.000
100A111LEU00.0200.01613.2600.2290.2290.0000.0000.0000.000
101A112GLN0-0.039-0.00911.7711.0341.0340.0000.0000.0000.000
102A113LEU0-0.053-0.0216.7141.2071.2070.0000.0000.0000.000
103A114HIS0-0.072-0.03610.1400.6190.6190.0000.0000.0000.000
104A159ALA00.0450.03424.2690.1150.1150.0000.0000.0000.000
105A160PHE0-0.062-0.06025.455-0.580-0.5800.0000.0000.0000.000
106A161LYS10.8830.94625.905-9.823-9.8230.0000.0000.0000.000
107A162GLU-1-0.813-0.87426.82011.40911.4090.0000.0000.0000.000
108A163VAL0-0.019-0.00525.577-0.237-0.2370.0000.0000.0000.000
109A164TRP00.0770.04327.3260.2220.2220.0000.0000.0000.000
110A165GLN00.0200.00126.2300.1010.1010.0000.0000.0000.000
111A166VAL0-0.021-0.01128.873-0.129-0.1290.0000.0000.0000.000
112A167ILE0-0.010-0.00832.5430.0590.0590.0000.0000.0000.000
113A168LEU00.0190.01435.080-0.232-0.2320.0000.0000.0000.000
114A169LYS10.8920.95137.822-8.164-8.1640.0000.0000.0000.000
115A170PRO00.0140.01541.247-0.027-0.0270.0000.0000.0000.000
116A171LYS10.8970.95444.340-7.261-7.2610.0000.0000.0000.000
117A172GLY00.0470.01445.5220.1070.1070.0000.0000.0000.000
118A173LEU0-0.022-0.01544.828-0.031-0.0310.0000.0000.0000.000
119A174GLY00.0410.02642.5020.0870.0870.0000.0000.0000.000
120A175GLN00.0170.00543.3250.1460.1460.0000.0000.0000.000
121A176THR0-0.039-0.01845.8590.0030.0030.0000.0000.0000.000
122A177LYS10.8660.94143.227-6.888-6.8880.0000.0000.0000.000
123A178ASN00.0010.00941.6060.1260.1260.0000.0000.0000.000
124A179LEU0-0.040-0.00238.0490.2210.2210.0000.0000.0000.000
125A180ILE00.002-0.01139.004-0.040-0.0400.0000.0000.0000.000
126A181GLY00.0260.01635.9580.1150.1150.0000.0000.0000.000
127A182ILE0-0.043-0.02429.3610.0030.0030.0000.0000.0000.000
128A183TYR00.0280.01331.4340.1010.1010.0000.0000.0000.000
129A184ARG10.8090.90123.872-12.219-12.2190.0000.0000.0000.000
130A185LEU00.0120.03329.974-0.175-0.1750.0000.0000.0000.000
131A186CYS0-0.033-0.01429.0470.4530.4530.0000.0000.0000.000
132A187LEU00.0150.00630.299-0.366-0.3660.0000.0000.0000.000
133A188THR00.008-0.00830.3110.2780.2780.0000.0000.0000.000
134A189SER00.0470.00532.107-0.114-0.1140.0000.0000.0000.000
135A190LYS10.9770.99234.275-8.973-8.9730.0000.0000.0000.000
136A191THR0-0.042-0.01034.582-0.254-0.2540.0000.0000.0000.000
137A192ILE00.0480.03834.6260.3020.3020.0000.0000.0000.000
138A193SER0-0.049-0.02432.489-0.145-0.1450.0000.0000.0000.000
139A194PHE00.0390.01833.2420.1980.1980.0000.0000.0000.000
140A195VAL00.0370.02127.997-0.199-0.1990.0000.0000.0000.000
141A196LYS10.9190.95630.363-9.764-9.7640.0000.0000.0000.000
142A197LEU00.001-0.00225.8330.3040.3040.0000.0000.0000.000
143A198ASN0-0.048-0.03725.571-0.767-0.7670.0000.0000.0000.000
144A199SER0-0.054-0.02927.127-0.351-0.3510.0000.0000.0000.000
145A200GLU-1-0.811-0.88924.64912.73012.7300.0000.0000.0000.000
146A201ALA00.0020.00827.4730.0100.0100.0000.0000.0000.000
147A202ALA0-0.036-0.01630.7040.0040.0040.0000.0000.0000.000
148A203ALA00.0050.01233.129-0.171-0.1710.0000.0000.0000.000
149A204VAL0-0.006-0.00536.132-0.282-0.2820.0000.0000.0000.000
150A205VAL0-0.003-0.00735.1850.3030.3030.0000.0000.0000.000
151A206LEU00.0010.00737.710-0.267-0.2670.0000.0000.0000.000
152A207GLN00.0500.00938.7950.3030.3030.0000.0000.0000.000
153A208LEU00.0280.00637.068-0.129-0.1290.0000.0000.0000.000
154A209MET00.0350.01341.061-0.148-0.1480.0000.0000.0000.000
155A210ASN0-0.049-0.02343.766-0.069-0.0690.0000.0000.0000.000
156A211ILE0-0.0010.00040.281-0.105-0.1050.0000.0000.0000.000
157A212ARG10.8220.89944.948-6.296-6.2960.0000.0000.0000.000
158A213ARG10.9100.94646.498-6.659-6.6590.0000.0000.0000.000
159A214CYS0-0.0320.00241.4000.0550.0550.0000.0000.0000.000
160A215GLY00.0240.00642.712-0.145-0.1450.0000.0000.0000.000
161A216HIS0-0.033-0.02640.4140.1620.1620.0000.0000.0000.000
162A217SER00.000-0.02042.325-0.235-0.2350.0000.0000.0000.000
163A218GLU-1-0.865-0.90942.6197.2687.2680.0000.0000.0000.000
164A219ASN0-0.057-0.02036.987-0.067-0.0670.0000.0000.0000.000
165A220PHE0-0.049-0.03238.0410.2670.2670.0000.0000.0000.000
166A221PHE00.0670.00737.292-0.025-0.0250.0000.0000.0000.000
167A222PHE0-0.024-0.00139.876-0.006-0.0060.0000.0000.0000.000
168A223ILE00.0150.00138.3500.0430.0430.0000.0000.0000.000
169A224GLU-1-0.766-0.84642.8116.3736.3730.0000.0000.0000.000
170A225VAL00.010-0.00243.7190.0440.0440.0000.0000.0000.000
171A226GLY00.0420.00446.799-0.172-0.1720.0000.0000.0000.000
172A227ARG10.9330.93849.057-5.628-5.6280.0000.0000.0000.000
173A228SER00.0140.01747.491-0.044-0.0440.0000.0000.0000.000
174A229ALA0-0.0130.01345.0620.1140.1140.0000.0000.0000.000
175A230VAL00.0370.02041.692-0.127-0.1270.0000.0000.0000.000
176A231THR0-0.027-0.01943.2000.0210.0210.0000.0000.0000.000
177A232GLY00.0210.01545.861-0.118-0.1180.0000.0000.0000.000
178A233PRO0-0.037-0.01447.9820.1290.1290.0000.0000.0000.000
179A234GLY00.0320.01348.790-0.045-0.0450.0000.0000.0000.000
180A235GLU-1-0.891-0.93945.9536.8086.8080.0000.0000.0000.000
181A236PHE00.0150.01040.886-0.017-0.0170.0000.0000.0000.000
182A237TRP00.0690.00941.7930.1210.1210.0000.0000.0000.000
183A238MET0-0.049-0.01136.1780.1580.1580.0000.0000.0000.000
184A239GLN00.0120.00737.022-0.301-0.3010.0000.0000.0000.000
185A240VAL00.0160.01632.7720.2690.2690.0000.0000.0000.000
186A241ASP-1-0.904-0.95730.39110.36910.3690.0000.0000.0000.000
187A242ASP-1-0.752-0.86933.2409.5239.5230.0000.0000.0000.000
188A243SER00.0680.01935.8500.1310.1310.0000.0000.0000.000
189A244VAL00.0030.02033.949-0.082-0.0820.0000.0000.0000.000
190A245VAL00.0210.00831.0030.0660.0660.0000.0000.0000.000
191A246ALA0-0.023-0.01233.5840.0110.0110.0000.0000.0000.000
192A247GLN0-0.038-0.02436.811-0.140-0.1400.0000.0000.0000.000
193A248ASN00.0210.01331.8200.2040.2040.0000.0000.0000.000
194A249MET0-0.037-0.00233.3180.0630.0630.0000.0000.0000.000
195A250HIS0-0.0050.00735.315-0.045-0.0450.0000.0000.0000.000
196A251GLU-1-0.843-0.91636.9368.5398.5390.0000.0000.0000.000
197A252THR0-0.034-0.03132.1520.0030.0030.0000.0000.0000.000
198A253ILE0-0.028-0.02435.3080.0100.0100.0000.0000.0000.000
199A254LEU0-0.007-0.00837.480-0.143-0.1430.0000.0000.0000.000
200A255GLU-1-0.826-0.90537.3927.6697.6690.0000.0000.0000.000
201A256ALA0-0.034-0.01135.786-0.011-0.0110.0000.0000.0000.000
202A257MET0-0.072-0.05037.725-0.071-0.0710.0000.0000.0000.000
203A258ARG10.8570.92041.293-7.596-7.5960.0000.0000.0000.000
204A259ALA00.0630.03338.567-0.111-0.1110.0000.0000.0000.000
205A260MET0-0.073-0.03040.5690.0290.0290.0000.0000.0000.000
206A261SER0-0.076-0.04842.077-0.123-0.1230.0000.0000.0000.000
207A262ASP-1-0.966-0.95141.4327.2587.2580.0000.0000.0000.000