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: MM7KZ

Calculation Name: 3CUQ-A-Xray312

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3CUQ

Chain ID: A

ChEMBL ID:

UniProt ID: Q96H20

Base Structure: X-ray

Registration Date: 2021-09-06

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

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. 1.20200116
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 221
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2406383.808145
FMO2-HF: Nuclear repulsion 2320036.361493
FMO2-HF: Total energy -86347.446651
FMO2-MP2: Total energy -86600.067206


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:33:ACE )


Summations of interaction energy for fragment #1(A:33:ACE )
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.
1.5352.5-0.005-0.427-0.5340
Interaction energy analysis for fragmet #1(A:33:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.023 / q_NPA : 0.000
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].
3A35GLN 0-0.015-0.0073.8460.8701.835-0.005-0.427-0.5340.000
4A36MET 00.0260.0095.8330.2090.2090.0000.0000.0000.000
5A37SER 00.0180.0037.2080.1210.1210.0000.0000.0000.000
6A38LYS 10.9861.0058.5850.4400.4400.0000.0000.0000.000
7A39GLN 00.010-0.02610.3040.0910.0910.0000.0000.0000.000
8A40LEU 00.0130.02611.5230.0660.0660.0000.0000.0000.000
9A41ASP -1-0.896-0.96512.556-0.507-0.5070.0000.0000.0000.000
10A42MET 0-0.080-0.02514.6820.0650.0650.0000.0000.0000.000
11A43PHE 00.0420.02216.8360.0370.0370.0000.0000.0000.000
12A44LYS 10.9310.98016.5220.3490.3490.0000.0000.0000.000
13A45THR 00.0630.02519.6000.0200.0200.0000.0000.0000.000
14A46ASN 0-0.044-0.01920.8970.0100.0100.0000.0000.0000.000
15A47LEU 00.0100.01022.8610.0180.0180.0000.0000.0000.000
16A48GLU -1-0.896-0.95522.238-0.178-0.1780.0000.0000.0000.000
17A49GLU -1-0.941-0.94825.923-0.095-0.0950.0000.0000.0000.000
18A50PHE 0-0.017-0.00427.4810.0110.0110.0000.0000.0000.000
19A51ALA 00.0190.00128.4940.0090.0090.0000.0000.0000.000
20A52SER 0-0.100-0.06330.0880.0110.0110.0000.0000.0000.000
21A53LYS 10.9330.96132.0480.0720.0720.0000.0000.0000.000
22A54HIS 0-0.018-0.00332.4300.0110.0110.0000.0000.0000.000
23A55LYS 10.9671.00033.9680.0750.0750.0000.0000.0000.000
24A56GLN 0-0.044-0.04934.899-0.002-0.0020.0000.0000.0000.000
25A57GLU -1-0.865-0.92937.332-0.055-0.0550.0000.0000.0000.000
26A58ILE 00.0260.01632.9420.0030.0030.0000.0000.0000.000
27A59ARG 10.9150.95334.5200.0840.0840.0000.0000.0000.000
28A60LYS 10.9300.98939.2350.0500.0500.0000.0000.0000.000
29A61ASN 0-0.035-0.03440.6820.0050.0050.0000.0000.0000.000
30A62PRO 00.0840.03041.201-0.003-0.0030.0000.0000.0000.000
31A63GLU -1-0.900-0.95641.007-0.046-0.0460.0000.0000.0000.000
32A64PHE 0-0.025-0.00834.980-0.002-0.0020.0000.0000.0000.000
33A65ARG 10.8940.95836.4210.0580.0580.0000.0000.0000.000
34A66VAL 00.0480.03335.749-0.005-0.0050.0000.0000.0000.000
35A67GLN 00.0160.02836.055-0.002-0.0020.0000.0000.0000.000
36A68PHE 0-0.008-0.00528.369-0.004-0.0040.0000.0000.0000.000
37A69GLN 0-0.025-0.02731.413-0.007-0.0070.0000.0000.0000.000
38A70ASP -1-0.856-0.94231.822-0.062-0.0620.0000.0000.0000.000
39A71MET 0-0.073-0.03330.4700.0000.0000.0000.0000.0000.000
40A72CYS 0-0.063-0.02427.732-0.007-0.0070.0000.0000.0000.000
41A73ALA 00.0360.00727.329-0.005-0.0050.0000.0000.0000.000
42A74THR 0-0.047-0.00729.0570.0050.0050.0000.0000.0000.000
43A75ILE 0-0.079-0.03723.3000.0000.0000.0000.0000.0000.000
44A76GLY 00.0050.01824.168-0.003-0.0030.0000.0000.0000.000
45A77VAL 0-0.089-0.04121.813-0.014-0.0140.0000.0000.0000.000
46A78ASP -1-0.799-0.93124.450-0.089-0.0890.0000.0000.0000.000
47A79PRO 0-0.063-0.02725.715-0.011-0.0110.0000.0000.0000.000
48A80LEU 00.028-0.00227.350-0.003-0.0030.0000.0000.0000.000
49A81ALA 0-0.0240.03025.1870.0030.0030.0000.0000.0000.000
50A82SER 0-0.014-0.01523.3520.0010.0010.0000.0000.0000.000
51A83GLY 00.0980.05125.830-0.001-0.0010.0000.0000.0000.000
52A84LYS 10.9280.96716.8100.2860.2860.0000.0000.0000.000
53A85GLY 00.0040.00621.101-0.024-0.0240.0000.0000.0000.000
54A86PHE 00.0360.00416.798-0.001-0.0010.0000.0000.0000.000
55A87TRP 00.0470.01222.5510.0150.0150.0000.0000.0000.000
56A88SER 00.0460.02025.7620.0140.0140.0000.0000.0000.000
57A89GLU -1-0.961-0.96522.038-0.203-0.2030.0000.0000.0000.000
58A90MET 0-0.017-0.01722.2140.0090.0090.0000.0000.0000.000
59A91LEU 0-0.064-0.03027.3260.0100.0100.0000.0000.0000.000
60A92GLY 0-0.040-0.00929.7140.0090.0090.0000.0000.0000.000
61A93VAL 0-0.047-0.03329.9060.0060.0060.0000.0000.0000.000
62A94GLY 00.0560.01930.4100.0040.0040.0000.0000.0000.000
63A95ASP -1-0.895-0.95431.298-0.093-0.0930.0000.0000.0000.000
64A96PHE 0-0.091-0.01933.8020.0060.0060.0000.0000.0000.000
65A97TYR 0-0.009-0.01334.1420.0040.0040.0000.0000.0000.000
66A98TYR 0-0.084-0.07328.9390.0000.0000.0000.0000.0000.000
67A99GLU -1-0.891-0.93835.178-0.056-0.0560.0000.0000.0000.000
68A100LEU 00.0020.01038.2900.0040.0040.0000.0000.0000.000
69A101GLY 0-0.010-0.01738.6050.0040.0040.0000.0000.0000.000
70A102VAL 00.0260.02438.7070.0030.0030.0000.0000.0000.000
71A103GLN 00.1100.05941.2140.0010.0010.0000.0000.0000.000
72A104ILE 0-0.063-0.02841.4750.0030.0030.0000.0000.0000.000
73A105ILE 0-0.052-0.03040.2670.0030.0030.0000.0000.0000.000
74A106GLU -1-0.858-0.94444.599-0.044-0.0440.0000.0000.0000.000
75A107VAL 0-0.025-0.00547.1980.0020.0020.0000.0000.0000.000
76A108CYS 0-0.045-0.02547.3690.0020.0020.0000.0000.0000.000
77A109LEU 0-0.022-0.00847.0210.0020.0020.0000.0000.0000.000
78A110ALA 00.0260.02750.5240.0020.0020.0000.0000.0000.000
79A111LEU 0-0.012-0.02552.7630.0020.0020.0000.0000.0000.000
80A112LYS 10.9650.98750.6420.0310.0310.0000.0000.0000.000
81A113HIS 0-0.0330.00254.0900.0010.0010.0000.0000.0000.000
82A114ARG 10.8880.94557.6110.0270.0270.0000.0000.0000.000
83A115ASN 00.046-0.00254.0430.0010.0010.0000.0000.0000.000
84A116GLY 00.0600.04655.9900.0000.0000.0000.0000.0000.000
85A117GLY 0-0.013-0.00851.8580.0000.0000.0000.0000.0000.000
86A118LEU 0-0.021-0.01650.832-0.001-0.0010.0000.0000.0000.000
87A119ILE 0-0.0090.00650.1170.0000.0000.0000.0000.0000.000
88A120THR 00.0840.04551.407-0.001-0.0010.0000.0000.0000.000
89A121LEU 0-0.018-0.02446.283-0.001-0.0010.0000.0000.0000.000
90A122GLU -1-0.953-0.98050.031-0.029-0.0290.0000.0000.0000.000
91A123GLU -1-0.878-0.94352.769-0.030-0.0300.0000.0000.0000.000
92A124LEU 00.0380.01345.994-0.001-0.0010.0000.0000.0000.000
93A125HIS 0-0.054-0.04447.6110.0000.0000.0000.0000.0000.000
94A126GLN 0-0.001-0.00549.8070.0000.0000.0000.0000.0000.000
95A127GLN 0-0.045-0.04551.5540.0010.0010.0000.0000.0000.000
96A128VAL 00.0090.00345.537-0.001-0.0010.0000.0000.0000.000
97A129LEU 0-0.028-0.01247.785-0.001-0.0010.0000.0000.0000.000
98A130LYS 10.8920.96050.0330.0290.0290.0000.0000.0000.000
99A131GLY 00.0170.01050.3830.0010.0010.0000.0000.0000.000
100A132ARG 10.8240.92440.6690.0540.0540.0000.0000.0000.000
101A133GLY 00.0000.01648.030-0.001-0.0010.0000.0000.0000.000
102A134LYS 10.8950.91750.0530.0380.0380.0000.0000.0000.000
103A135PHE 0-0.093-0.03544.6530.0000.0000.0000.0000.0000.000
104A136ALA 00.0770.05447.465-0.001-0.0010.0000.0000.0000.000
105A137GLN 0-0.028-0.04548.1820.0010.0010.0000.0000.0000.000
106A138ASP -1-0.839-0.92543.340-0.050-0.0500.0000.0000.0000.000
107A139VAL 0-0.0260.00542.619-0.003-0.0030.0000.0000.0000.000
108A140SER 0-0.011-0.01842.8250.0030.0030.0000.0000.0000.000
109A141GLN 00.1040.01744.404-0.003-0.0030.0000.0000.0000.000
110A142ASP -1-0.834-0.91340.231-0.054-0.0540.0000.0000.0000.000
111A143ASP -1-0.790-0.88639.916-0.060-0.0600.0000.0000.0000.000
112A144LEU 00.0250.01940.220-0.002-0.0020.0000.0000.0000.000
113A145ILE 00.0360.01740.398-0.001-0.0010.0000.0000.0000.000
114A146ARG 10.8200.90934.6770.0630.0630.0000.0000.0000.000
115A147ALA 00.0320.01436.928-0.003-0.0030.0000.0000.0000.000
116A148ILE 00.0090.01337.803-0.001-0.0010.0000.0000.0000.000
117A149LYS 10.9220.95136.0800.0510.0510.0000.0000.0000.000
118A150LYS 10.9130.95730.2180.0830.0830.0000.0000.0000.000
119A151LEU 00.0440.04034.849-0.001-0.0010.0000.0000.0000.000
120A152LYS 10.8910.95836.6160.0450.0450.0000.0000.0000.000
121A153ALA 0-0.029-0.00532.3540.0020.0020.0000.0000.0000.000
122A154LEU 0-0.071-0.03034.165-0.002-0.0020.0000.0000.0000.000
123A155GLY 00.0000.00736.4170.0020.0020.0000.0000.0000.000
124A156THR 0-0.050-0.04138.1000.0000.0000.0000.0000.0000.000
125A157GLY 00.0670.02841.5480.0000.0000.0000.0000.0000.000
126A158PHE 00.0300.02041.4790.0010.0010.0000.0000.0000.000
127A159GLY 0-0.088-0.04642.470-0.001-0.0010.0000.0000.0000.000
128A160ILE 0-0.0160.01141.4790.0000.0000.0000.0000.0000.000
129A161ILE 0-0.005-0.00545.2160.0000.0000.0000.0000.0000.000
130A162PRO 0-0.0030.01346.9000.0000.0000.0000.0000.0000.000
131A163VAL 00.0430.01249.3650.0010.0010.0000.0000.0000.000
132A164GLY 00.0570.01452.638-0.001-0.0010.0000.0000.0000.000
133A165GLY 0-0.0310.00452.9550.0000.0000.0000.0000.0000.000
134A166THR 0-0.019-0.01350.845-0.001-0.0010.0000.0000.0000.000
135A167TYR 0-0.019-0.01045.7290.0000.0000.0000.0000.0000.000
136A168LEU 00.0140.00449.5050.0000.0000.0000.0000.0000.000
137A169ILE 0-0.047-0.03345.692-0.002-0.0020.0000.0000.0000.000
138A170GLN 00.0100.01147.2410.0010.0010.0000.0000.0000.000
139A171SER 0-0.019-0.01646.105-0.002-0.0020.0000.0000.0000.000
140A172VAL 00.0180.01346.923-0.001-0.0010.0000.0000.0000.000
141A173PRO 0-0.050-0.03345.6470.0000.0000.0000.0000.0000.000
142A174ALA 00.0760.04647.6700.0010.0010.0000.0000.0000.000
143A175GLU -1-0.957-0.98048.024-0.023-0.0230.0000.0000.0000.000
144A176LEU 0-0.016-0.02444.9710.0000.0000.0000.0000.0000.000
145A177ASN 00.0250.03048.830-0.001-0.0010.0000.0000.0000.000
146A178MET 00.0790.03751.0580.0000.0000.0000.0000.0000.000
147A179ASP -1-0.820-0.89652.044-0.017-0.0170.0000.0000.0000.000
148A180HIS 0-0.011-0.01553.4050.0000.0000.0000.0000.0000.000
149A181THR 00.0020.00550.385-0.001-0.0010.0000.0000.0000.000
150A182VAL 00.023-0.00253.0080.0000.0000.0000.0000.0000.000
151A183VAL 00.0060.01355.7020.0000.0000.0000.0000.0000.000
152A184LEU 00.0180.02352.9980.0000.0000.0000.0000.0000.000
153A185GLN 0-0.073-0.04951.6670.0010.0010.0000.0000.0000.000
154A186LEU 0-0.050-0.01756.3290.0000.0000.0000.0000.0000.000
155A187ALA 0-0.005-0.00659.0700.0000.0000.0000.0000.0000.000
156A188GLU -1-0.951-0.98355.950-0.024-0.0240.0000.0000.0000.000
157A189LYS 10.9110.97059.1320.0200.0200.0000.0000.0000.000
158A190ASN 0-0.046-0.02961.9480.0000.0000.0000.0000.0000.000
159A191GLY 00.0140.01261.8880.0000.0000.0000.0000.0000.000
160A192TYR 0-0.024-0.01762.9370.0000.0000.0000.0000.0000.000
161A193VAL 00.0230.02262.3070.0000.0000.0000.0000.0000.000
162A194THR 00.0260.01265.1300.0000.0000.0000.0000.0000.000
163A195VAL 00.0430.02067.5370.0000.0000.0000.0000.0000.000
164A196SER 0-0.013-0.04068.4340.0000.0000.0000.0000.0000.000
165A197GLU -1-0.906-0.96165.315-0.016-0.0160.0000.0000.0000.000
166A198ILE 00.0010.01262.8760.0000.0000.0000.0000.0000.000
167A199LYN 0-0.007-0.00264.9490.0000.0000.0000.0000.0000.000
168A200ALA 0-0.0110.00567.0520.0000.0000.0000.0000.0000.000
169A201SER 0-0.007-0.02063.9060.0000.0000.0000.0000.0000.000
170A202LEU 0-0.017-0.01359.2230.0000.0000.0000.0000.0000.000
171A203LYS 10.7910.90062.5880.0130.0130.0000.0000.0000.000
172A204TRP 0-0.031-0.00358.2010.0000.0000.0000.0000.0000.000
173A205GLU -1-0.898-0.95764.751-0.011-0.0110.0000.0000.0000.000
174A206THR 0-0.005-0.01266.090-0.001-0.0010.0000.0000.0000.000
175A207GLU -1-0.841-0.92765.570-0.013-0.0130.0000.0000.0000.000
176A208ARG 10.8530.90557.9920.0150.0150.0000.0000.0000.000
177A209ALA 00.0130.00862.453-0.001-0.0010.0000.0000.0000.000
178A210ARG 10.9200.95863.8570.0120.0120.0000.0000.0000.000
179A211GLN 00.0140.01060.6590.0000.0000.0000.0000.0000.000
180A212VAL 0-0.020-0.00258.132-0.001-0.0010.0000.0000.0000.000
181A213LEU 0-0.032-0.01560.430-0.001-0.0010.0000.0000.0000.000
182A214GLU -1-0.954-0.98362.573-0.015-0.0150.0000.0000.0000.000
183A215HIS 0-0.099-0.05954.8120.0000.0000.0000.0000.0000.000
184A216LEU 00.0280.01757.430-0.001-0.0010.0000.0000.0000.000
185A217LEU 0-0.045-0.02459.7030.0000.0000.0000.0000.0000.000
186A218LYS 10.8970.94258.8290.0170.0170.0000.0000.0000.000
187A219GLU -1-0.862-0.91955.102-0.023-0.0230.0000.0000.0000.000
188A220GLY 0-0.0270.00957.047-0.001-0.0010.0000.0000.0000.000
189A221LEU 0-0.038-0.01354.2550.0000.0000.0000.0000.0000.000
190A222ALA 0-0.025-0.02058.5370.0000.0000.0000.0000.0000.000
191A223TRP 00.0070.00962.0400.0010.0010.0000.0000.0000.000
192A224LEU 0-0.031-0.01665.5200.0000.0000.0000.0000.0000.000
193A225ASP -1-0.779-0.88968.682-0.015-0.0150.0000.0000.0000.000
194A226LEU 0-0.049-0.04571.5800.0000.0000.0000.0000.0000.000
195A227GLN 0-0.055-0.02774.8900.0010.0010.0000.0000.0000.000
196A228ALA 00.0250.04073.2750.0000.0000.0000.0000.0000.000
197A229PRO 00.000-0.01774.7370.0000.0000.0000.0000.0000.000
198A230GLY 0-0.029-0.01375.5020.0000.0000.0000.0000.0000.000
199A231GLU -1-0.811-0.90072.298-0.013-0.0130.0000.0000.0000.000
200A232ALA 00.0040.01971.7190.0000.0000.0000.0000.0000.000
201A233HIS 10.8370.93569.0320.0150.0150.0000.0000.0000.000
202A234TYR 0-0.008-0.01164.6690.0000.0000.0000.0000.0000.000
203A235TRP 00.012-0.02064.7330.0000.0000.0000.0000.0000.000
204A236LEU 00.001-0.00658.0040.0000.0000.0000.0000.0000.000
205A237PRO 00.0010.00460.0070.0000.0000.0000.0000.0000.000
206A238ALA 0-0.0120.01855.547-0.001-0.0010.0000.0000.0000.000
207A239LEU 0-0.063-0.01357.116-0.001-0.0010.0000.0000.0000.000
208A240PHE 0-0.021-0.01659.3310.0000.0000.0000.0000.0000.000
209A241THR 0-0.005-0.00160.7360.0000.0000.0000.0000.0000.000
210A242ASP -1-0.906-0.94861.602-0.023-0.0230.0000.0000.0000.000
211A243LEU 0-0.0030.00859.465-0.001-0.0010.0000.0000.0000.000
212A244TYR 0-0.044-0.05061.3480.0000.0000.0000.0000.0000.000
213A245SER 0-0.054-0.03760.9710.0000.0000.0000.0000.0000.000
214A246GLN 00.0530.05354.761-0.001-0.0010.0000.0000.0000.000
215A247GLU -1-0.925-0.94756.601-0.030-0.0300.0000.0000.0000.000
216A248ILE 0-0.077-0.04858.5970.0010.0010.0000.0000.0000.000
217A249THR 00.0200.00855.0870.0000.0000.0000.0000.0000.000
218A250ALA 0-0.022-0.01253.282-0.001-0.0010.0000.0000.0000.000
219A251GLU -1-0.990-0.98552.034-0.031-0.0310.0000.0000.0000.000
220A252GLU -1-0.932-0.96247.287-0.040-0.0400.0000.0000.0000.000
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