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: 5JZGZ

Calculation Name: 2FBQ-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2FBQ

Chain ID: A

ChEMBL ID:

UniProt ID: Q9HZJ9

Base Structure: X-ray

Registration Date: 2023-09-20

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 OptH
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 213
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2347643.352076
FMO2-HF: Nuclear repulsion 2264216.262246
FMO2-HF: Total energy -83427.08983
FMO2-MP2: Total energy -83668.512747


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:2:ALA)


Summations of interaction energy for fragment #1(A:2: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.
-12.199-12.02611.545-5.681-6.0370.016
Interaction energy analysis for fragmet #1(A:2:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.056 / q_NPA : 0.020
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].
3A4SER00.0780.0223.208-3.545-1.0180.492-1.366-1.6530.010
4A5GLU-1-0.879-0.9431.990-6.286-9.28110.999-4.305-3.6990.005
5A6THR0-0.042-0.0163.367-1.975-1.4180.055-0.005-0.6070.001
6A7VAL0-0.008-0.0015.096-0.374-0.290-0.001-0.005-0.0780.000
7A8GLU-1-0.834-0.9196.4480.8220.8220.0000.0000.0000.000
8A9ARG10.9480.9825.5500.2500.2500.0000.0000.0000.000
9A10ILE0-0.040-0.0168.616-0.126-0.1260.0000.0000.0000.000
10A11LEU0-0.021-0.01210.797-0.111-0.1110.0000.0000.0000.000
11A12ASP-1-0.822-0.90011.1090.3370.3370.0000.0000.0000.000
12A13ALA0-0.053-0.02612.775-0.061-0.0610.0000.0000.0000.000
13A14ALA0-0.009-0.01914.682-0.028-0.0280.0000.0000.0000.000
14A15GLU-1-0.840-0.91616.1260.2510.2510.0000.0000.0000.000
15A16GLN0-0.034-0.01617.340-0.020-0.0200.0000.0000.0000.000
16A17LEU0-0.009-0.02517.990-0.020-0.0200.0000.0000.0000.000
17A18PHE0-0.044-0.02819.269-0.012-0.0120.0000.0000.0000.000
18A19ALA00.0160.00321.895-0.009-0.0090.0000.0000.0000.000
19A20GLU-1-0.943-0.96522.7970.0340.0340.0000.0000.0000.000
20A21LYS10.9240.96823.623-0.032-0.0320.0000.0000.0000.000
21A22GLY00.0480.03325.721-0.005-0.0050.0000.0000.0000.000
22A23PHE00.005-0.02223.023-0.001-0.0010.0000.0000.0000.000
23A24ALA0-0.034-0.01925.412-0.003-0.0030.0000.0000.0000.000
24A25GLU-1-0.871-0.93727.5220.0250.0250.0000.0000.0000.000
25A26THR0-0.0220.00920.821-0.011-0.0110.0000.0000.0000.000
26A27SER0-0.025-0.01222.6290.0060.0060.0000.0000.0000.000
27A28LEU00.1020.02318.0100.0010.0010.0000.0000.0000.000
28A29ARG10.9841.00917.9270.0230.0230.0000.0000.0000.000
29A30LEU0-0.029-0.00918.612-0.018-0.0180.0000.0000.0000.000
30A31ILE00.0610.02314.758-0.015-0.0150.0000.0000.0000.000
31A32THR0-0.017-0.00613.950-0.004-0.0040.0000.0000.0000.000
32A33SER0-0.077-0.04013.916-0.033-0.0330.0000.0000.0000.000
33A34LYS10.9280.97215.215-0.037-0.0370.0000.0000.0000.000
34A35ALA00.0340.02210.542-0.006-0.0060.0000.0000.0000.000
35A36GLY0-0.033-0.00510.122-0.070-0.0700.0000.0000.0000.000
36A37VAL00.0040.0127.942-0.118-0.1180.0000.0000.0000.000
37A38ASN00.021-0.00910.5970.0580.0580.0000.0000.0000.000
38A39LEU00.0580.00912.8330.0190.0190.0000.0000.0000.000
39A40ALA00.0080.01413.9320.0390.0390.0000.0000.0000.000
40A41ALA00.0320.0289.4760.0340.0340.0000.0000.0000.000
41A42VAL00.0140.00111.5540.0980.0980.0000.0000.0000.000
42A43ASN0-0.052-0.04613.7520.0580.0580.0000.0000.0000.000
43A44TYR0-0.027-0.01210.9260.0270.0270.0000.0000.0000.000
44A45HIS00.0090.0127.8630.1260.1260.0000.0000.0000.000
45A46PHE0-0.019-0.01411.6060.0360.0360.0000.0000.0000.000
46A47GLY00.0520.03916.023-0.011-0.0110.0000.0000.0000.000
47A48SER0-0.021-0.01818.704-0.025-0.0250.0000.0000.0000.000
48A49LYS10.8780.94019.707-0.051-0.0510.0000.0000.0000.000
49A50LYS10.9450.97321.187-0.082-0.0820.0000.0000.0000.000
50A51ALA00.0560.04219.1110.0090.0090.0000.0000.0000.000
51A52LEU00.0120.01614.8590.0260.0260.0000.0000.0000.000
52A53ILE0-0.031-0.02217.9730.0260.0260.0000.0000.0000.000
53A54GLN0-0.022-0.02620.6730.0250.0250.0000.0000.0000.000
54A55ALA00.0290.01715.2670.0110.0110.0000.0000.0000.000
55A56VAL0-0.009-0.00416.3810.0410.0410.0000.0000.0000.000
56A57PHE0-0.024-0.02117.7030.0030.0030.0000.0000.0000.000
57A58SER00.0370.02518.165-0.013-0.0130.0000.0000.0000.000
58A59ARG10.7580.88011.138-0.583-0.5830.0000.0000.0000.000
59A60PHE0-0.021-0.01316.3310.0040.0040.0000.0000.0000.000
60A61LEU00.015-0.00919.415-0.012-0.0120.0000.0000.0000.000
61A62GLY0-0.0200.00518.983-0.017-0.0170.0000.0000.0000.000
62A63PRO00.0140.00017.070-0.021-0.0210.0000.0000.0000.000
63A64PHE00.0270.01919.913-0.024-0.0240.0000.0000.0000.000
64A65CYS0-0.032-0.01523.221-0.026-0.0260.0000.0000.0000.000
65A66ALA00.0080.02521.876-0.015-0.0150.0000.0000.0000.000
66A67SER0-0.061-0.07823.478-0.018-0.0180.0000.0000.0000.000
67A68LEU00.0080.00525.148-0.017-0.0170.0000.0000.0000.000
68A69GLU-1-0.947-0.98827.5040.1610.1610.0000.0000.0000.000
69A70LYS10.9881.00225.035-0.195-0.1950.0000.0000.0000.000
70A71GLU-1-0.755-0.83728.9410.1050.1050.0000.0000.0000.000
71A72LEU0-0.038-0.02031.067-0.012-0.0120.0000.0000.0000.000
72A73ASP-1-0.830-0.90131.5240.1230.1230.0000.0000.0000.000
73A74ARG10.7650.84431.931-0.114-0.1140.0000.0000.0000.000
74A75ARG10.8470.89633.513-0.106-0.1060.0000.0000.0000.000
75A76GLN00.0390.03036.852-0.003-0.0030.0000.0000.0000.000
76A77ALA00.0210.02837.244-0.004-0.0040.0000.0000.0000.000
77A78LYS10.8660.94337.668-0.082-0.0820.0000.0000.0000.000
78A79PRO00.0380.01440.904-0.001-0.0010.0000.0000.0000.000
79A80GLU-1-0.939-0.96144.4480.0490.0490.0000.0000.0000.000
80A81ALA0-0.082-0.03342.037-0.001-0.0010.0000.0000.0000.000
81A82GLN00.0240.01043.857-0.002-0.0020.0000.0000.0000.000
82A83HIS0-0.028-0.01643.6330.0020.0020.0000.0000.0000.000
83A84ALA0-0.0140.00840.267-0.001-0.0010.0000.0000.0000.000
84A85THR00.0480.03342.223-0.001-0.0010.0000.0000.0000.000
85A86LEU00.008-0.01541.6030.0040.0040.0000.0000.0000.000
86A87GLU-1-0.770-0.86140.3310.0610.0610.0000.0000.0000.000
87A88ASP-1-0.847-0.91739.2140.0730.0730.0000.0000.0000.000
88A89LEU0-0.010-0.00737.0090.0070.0070.0000.0000.0000.000
89A90LEU0-0.0200.01435.6140.0080.0080.0000.0000.0000.000
90A91HIS00.0660.01234.8370.0080.0080.0000.0000.0000.000
91A92LEU0-0.072-0.01231.6590.0060.0060.0000.0000.0000.000
92A93LEU00.0010.00330.6280.0100.0100.0000.0000.0000.000
93A94VAL00.0220.01929.6970.0100.0100.0000.0000.0000.000
94A95SER0-0.041-0.02729.4380.0070.0070.0000.0000.0000.000
95A96GLN00.0390.04626.9570.0210.0210.0000.0000.0000.000
96A97ALA0-0.011-0.00925.4500.0160.0160.0000.0000.0000.000
97A98MET0-0.055-0.01224.7130.0100.0100.0000.0000.0000.000
98A99ALA0-0.0250.00224.4970.0010.0010.0000.0000.0000.000
99A100VAL0-0.056-0.01319.4750.0220.0220.0000.0000.0000.000
100A101LYS10.9450.96814.151-0.324-0.3240.0000.0000.0000.000
101A102PRO0-0.0010.00617.4670.0300.0300.0000.0000.0000.000
102A103ARG10.8630.92513.110-0.349-0.3490.0000.0000.0000.000
103A104SER00.0200.00815.549-0.040-0.0400.0000.0000.0000.000
104A105GLY0-0.0110.00417.530-0.030-0.0300.0000.0000.0000.000
105A106ASN0-0.071-0.04620.464-0.022-0.0220.0000.0000.0000.000
106A107ASP-1-0.749-0.87818.0590.2200.2200.0000.0000.0000.000
107A108LEU00.0660.03021.0830.0040.0040.0000.0000.0000.000
108A109SER0-0.026-0.02424.512-0.004-0.0040.0000.0000.0000.000
109A110ILE00.0290.01020.403-0.008-0.0080.0000.0000.0000.000
110A111PHE00.0120.00922.472-0.003-0.0030.0000.0000.0000.000
111A112MET00.0060.01123.635-0.006-0.0060.0000.0000.0000.000
112A113ARG10.8550.93225.612-0.086-0.0860.0000.0000.0000.000
113A114LEU0-0.038-0.02020.888-0.008-0.0080.0000.0000.0000.000
114A115LEU00.0240.00925.571-0.003-0.0030.0000.0000.0000.000
115A116GLY00.0300.01627.886-0.007-0.0070.0000.0000.0000.000
116A117LEU0-0.026-0.00726.421-0.007-0.0070.0000.0000.0000.000
117A118ALA0-0.037-0.02227.558-0.005-0.0050.0000.0000.0000.000
118A119PHE0-0.0160.00229.263-0.004-0.0040.0000.0000.0000.000
119A120SER0-0.0060.00032.195-0.006-0.0060.0000.0000.0000.000
120A121GLN00.0340.01229.147-0.002-0.0020.0000.0000.0000.000
121A122SER00.0250.02131.8750.0010.0010.0000.0000.0000.000
122A123GLN0-0.025-0.00527.1020.0080.0080.0000.0000.0000.000
123A124GLY00.0300.00629.8950.0090.0090.0000.0000.0000.000
124A125HIS0-0.051-0.04524.4170.0070.0070.0000.0000.0000.000
125A126LEU00.0440.03724.0980.0090.0090.0000.0000.0000.000
126A127ARG10.9730.99127.177-0.085-0.0850.0000.0000.0000.000
127A128LYS10.8880.94129.341-0.122-0.1220.0000.0000.0000.000
128A129TYR00.022-0.01620.220-0.001-0.0010.0000.0000.0000.000
129A130LEU0-0.006-0.01623.7760.0100.0100.0000.0000.0000.000
130A131GLU-1-0.876-0.92226.7600.1250.1250.0000.0000.0000.000
131A132GLU-1-0.904-0.95727.2360.1460.1460.0000.0000.0000.000
132A133VAL0-0.0360.00522.1280.0040.0040.0000.0000.0000.000
133A134TYR00.0360.01620.3700.0100.0100.0000.0000.0000.000
134A135GLY00.0480.02627.016-0.010-0.0100.0000.0000.0000.000
135A136LYS10.8940.94230.127-0.129-0.1290.0000.0000.0000.000
136A137VAL00.0760.04327.742-0.010-0.0100.0000.0000.0000.000
137A138PHE00.0290.00627.135-0.008-0.0080.0000.0000.0000.000
138A139ARG10.8480.91732.131-0.125-0.1250.0000.0000.0000.000
139A140ARG10.8390.90232.761-0.124-0.1240.0000.0000.0000.000
140A141TYR0-0.011-0.04533.385-0.006-0.0060.0000.0000.0000.000
141A142MET0-0.014-0.01435.439-0.007-0.0070.0000.0000.0000.000
142A143LEU0-0.011-0.00237.692-0.005-0.0050.0000.0000.0000.000
143A144LEU00.0270.02137.079-0.003-0.0030.0000.0000.0000.000
144A145VAL0-0.013-0.00637.929-0.004-0.0040.0000.0000.0000.000
145A146ASN0-0.116-0.06540.862-0.006-0.0060.0000.0000.0000.000
146A147GLU-1-0.899-0.96343.6060.0680.0680.0000.0000.0000.000
147A148ALA0-0.0230.00443.204-0.003-0.0030.0000.0000.0000.000
148A149ALA0-0.072-0.02845.009-0.002-0.0020.0000.0000.0000.000
149A150PRO00.0180.00946.776-0.001-0.0010.0000.0000.0000.000
150A151LYS10.9500.96849.189-0.042-0.0420.0000.0000.0000.000
151A152LEU00.0450.03546.791-0.001-0.0010.0000.0000.0000.000
152A153PRO00.0370.02149.7480.0020.0020.0000.0000.0000.000
153A154PRO00.0450.01346.2900.0020.0020.0000.0000.0000.000
154A155ILE00.0060.00345.2490.0030.0030.0000.0000.0000.000
155A156GLU-1-0.722-0.82445.7400.0460.0460.0000.0000.0000.000
156A157LEU00.0150.01342.7090.0010.0010.0000.0000.0000.000
157A158PHE0-0.018-0.00839.0430.0050.0050.0000.0000.0000.000
158A159TRP00.007-0.00341.0670.0040.0040.0000.0000.0000.000
159A160ARG10.8360.91742.036-0.047-0.0470.0000.0000.0000.000
160A161VAL0-0.006-0.00737.2540.0020.0020.0000.0000.0000.000
161A162HIS0-0.055-0.03936.0170.0090.0090.0000.0000.0000.000
162A163PHE00.0010.00438.1200.0010.0010.0000.0000.0000.000
163A164MET0-0.0130.01637.6580.0000.0000.0000.0000.0000.000
164A165LEU00.0090.00431.3450.0030.0030.0000.0000.0000.000
165A166GLY0-0.001-0.00334.1170.0030.0030.0000.0000.0000.000
166A167ALA00.0220.01635.808-0.001-0.0010.0000.0000.0000.000
167A168ALA00.0410.00732.631-0.001-0.0010.0000.0000.0000.000
168A169ALA0-0.001-0.01131.0090.0020.0020.0000.0000.0000.000
169A170PHE0-0.010-0.00631.5490.0010.0010.0000.0000.0000.000
170A171SER00.017-0.00233.571-0.004-0.0040.0000.0000.0000.000
171A172MET0-0.023-0.00828.6330.0000.0000.0000.0000.0000.000
172A173SER00.0090.02528.6560.0010.0010.0000.0000.0000.000
173A174GLY00.0040.00429.741-0.003-0.0030.0000.0000.0000.000
174A175ILE00.0170.01328.686-0.006-0.0060.0000.0000.0000.000
175A176LYS10.9300.95625.075-0.059-0.0590.0000.0000.0000.000
176A177ALA00.0350.02331.410-0.004-0.0040.0000.0000.0000.000
177A178LEU00.0300.01434.684-0.003-0.0030.0000.0000.0000.000
178A179ARG10.8960.94629.103-0.058-0.0580.0000.0000.0000.000
179A180ALA00.0050.01935.283-0.003-0.0030.0000.0000.0000.000
180A181MET00.001-0.00836.802-0.002-0.0020.0000.0000.0000.000
181A182ALA00.0260.02538.782-0.002-0.0020.0000.0000.0000.000
182A183GLU-1-0.943-0.96738.0430.0230.0230.0000.0000.0000.000
183A184THR0-0.065-0.04040.108-0.003-0.0030.0000.0000.0000.000
184A185ASP-1-0.951-0.97242.6150.0230.0230.0000.0000.0000.000
185A186PHE0-0.111-0.06943.3910.0000.0000.0000.0000.0000.000
186A187GLY00.0020.02942.9320.0000.0000.0000.0000.0000.000
187A188VAL0-0.058-0.02240.6300.0000.0000.0000.0000.0000.000
188A189ASN00.0640.02433.1880.0030.0030.0000.0000.0000.000
189A190THR0-0.030-0.00636.3340.0010.0010.0000.0000.0000.000
190A191SER00.015-0.01631.8440.0020.0020.0000.0000.0000.000
191A192THR00.038-0.01928.348-0.003-0.0030.0000.0000.0000.000
192A193GLU-1-0.874-0.96030.3690.0830.0830.0000.0000.0000.000
193A194GLN00.0320.03231.776-0.001-0.0010.0000.0000.0000.000
194A195VAL00.005-0.00133.882-0.001-0.0010.0000.0000.0000.000
195A196MET0-0.0010.00128.6940.0020.0020.0000.0000.0000.000
196A197HIS00.005-0.01333.725-0.001-0.0010.0000.0000.0000.000
197A198LEU00.0030.00236.878-0.002-0.0020.0000.0000.0000.000
198A199MET0-0.057-0.01033.7850.0000.0000.0000.0000.0000.000
199A200VAL0-0.0080.01637.217-0.001-0.0010.0000.0000.0000.000
200A201PRO00.0340.01739.745-0.001-0.0010.0000.0000.0000.000
201A202PHE0-0.0010.01441.707-0.002-0.0020.0000.0000.0000.000
202A203PHE00.020-0.02236.240-0.001-0.0010.0000.0000.0000.000
203A204ALA0-0.0030.01142.013-0.001-0.0010.0000.0000.0000.000
204A205ALA00.013-0.00643.887-0.001-0.0010.0000.0000.0000.000
205A206GLY00.0120.01145.532-0.002-0.0020.0000.0000.0000.000
206A207MET0-0.070-0.04942.3010.0000.0000.0000.0000.0000.000
207A208ARG10.8260.87645.545-0.054-0.0540.0000.0000.0000.000
208A209ALA0-0.0230.01648.903-0.002-0.0020.0000.0000.0000.000
209A210GLU-1-0.883-0.94151.0100.0360.0360.0000.0000.0000.000
210A211SER0-0.111-0.08252.1590.0000.0000.0000.0000.0000.000
211A212GLY00.0320.00752.191-0.001-0.0010.0000.0000.0000.000
212A213ILE0-0.106-0.05750.6270.0000.0000.0000.0000.0000.000
213A214ASP-1-0.956-0.97254.8650.0340.0340.0000.0000.0000.000