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: 7697K

Calculation Name: 3CEY-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3CEY

Chain ID: A

ChEMBL ID:

UniProt ID: Q969R5

Base Structure: X-ray

Registration Date: 2023-09-24

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 407
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -7123323.93477
FMO2-HF: Nuclear repulsion 6955486.26552
FMO2-HF: Total energy -167837.66925
FMO2-MP2: Total energy -168315.330913


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:172:GLN)


Summations of interaction energy for fragment #1(A:172:GLN)
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.
-4.077-0.1770.122-1.45-2.571-0.001
Interaction energy analysis for fragmet #1(A:172:GLN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.038 / q_NPA : -0.035
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].
3A174ALA00.0050.0052.881-2.0660.4110.060-1.103-1.434-0.001
4A175LEU0-0.075-0.0333.2310.8612.1950.063-0.329-1.0680.000
5A176VAL00.0230.0144.387-1.917-1.828-0.001-0.018-0.0690.000
6A177LEU0-0.003-0.0146.1140.9730.9730.0000.0000.0000.000
7A178GLY00.0020.0238.5810.5790.5790.0000.0000.0000.000
8A179PHE00.000-0.0209.342-0.334-0.3340.0000.0000.0000.000
9A180ASP-1-0.815-0.9138.539-0.822-0.8220.0000.0000.0000.000
10A181TRP0-0.027-0.04810.6720.1420.1420.0000.0000.0000.000
11A182GLY0-0.035-0.02011.9890.1050.1050.0000.0000.0000.000
12A183LYS10.8230.8979.3160.7350.7350.0000.0000.0000.000
13A184PHE00.0140.01511.4470.0840.0840.0000.0000.0000.000
14A185LEU0-0.017-0.02514.5710.0780.0780.0000.0000.0000.000
15A186LYS10.8790.96314.327-0.124-0.1240.0000.0000.0000.000
16A187ASP-1-0.780-0.88114.028-0.368-0.3680.0000.0000.0000.000
17A188HIS0-0.020-0.01516.7790.0420.0420.0000.0000.0000.000
18A189SER0-0.046-0.00419.7860.0270.0270.0000.0000.0000.000
19A190TYR0-0.0060.01519.3630.0260.0260.0000.0000.0000.000
20A191LYS10.8750.94421.9840.1610.1610.0000.0000.0000.000
21A192ALA00.0180.00821.715-0.027-0.0270.0000.0000.0000.000
22A193ALA00.0320.00523.7970.0280.0280.0000.0000.0000.000
23A194PRO0-0.012-0.01425.652-0.010-0.0100.0000.0000.0000.000
24A195VAL00.0520.00925.098-0.011-0.0110.0000.0000.0000.000
25A196SER0-0.022-0.00527.605-0.006-0.0060.0000.0000.0000.000
26A197CYS0-0.043-0.01030.1050.0060.0060.0000.0000.0000.000
27A198PHE0-0.006-0.00227.239-0.008-0.0080.0000.0000.0000.000
28A199LYS10.9190.94131.2470.0970.0970.0000.0000.0000.000
29A200HIS0-0.0400.00529.5420.0250.0250.0000.0000.0000.000
30A201VAL0-0.049-0.00727.270-0.012-0.0120.0000.0000.0000.000
31A202PRO00.0660.02426.4050.0190.0190.0000.0000.0000.000
32A203LEU0-0.013-0.00524.868-0.004-0.0040.0000.0000.0000.000
33A204TYR00.0150.02329.0610.0140.0140.0000.0000.0000.000
34A205ASP-1-0.901-0.96831.141-0.060-0.0600.0000.0000.0000.000
35A206GLN0-0.100-0.04930.4170.0220.0220.0000.0000.0000.000
36A207TRP00.0300.02223.6670.0090.0090.0000.0000.0000.000
37A208GLU-1-1.002-1.03129.537-0.008-0.0080.0000.0000.0000.000
38A209ASP-1-0.869-0.91631.2910.0370.0370.0000.0000.0000.000
39A210VAL0-0.089-0.03525.3000.0150.0150.0000.0000.0000.000
40A211MET00.0520.02028.327-0.011-0.0110.0000.0000.0000.000
41A212LYS10.9050.93025.324-0.098-0.0980.0000.0000.0000.000
42A213GLY0-0.051-0.02526.338-0.003-0.0030.0000.0000.0000.000
43A214MET0-0.0520.03326.7380.0100.0100.0000.0000.0000.000
44A215LYS10.8670.94225.880-0.165-0.1650.0000.0000.0000.000
45A216VAL00.0510.03921.863-0.024-0.0240.0000.0000.0000.000
46A217GLU-1-0.800-0.90023.9640.2450.2450.0000.0000.0000.000
47A218VAL00.0290.00218.383-0.030-0.0300.0000.0000.0000.000
48A219LEU00.0170.00415.7320.0090.0090.0000.0000.0000.000
49A220ASN0-0.037-0.01517.1050.1160.1160.0000.0000.0000.000
50A221SER0-0.011-0.00311.5900.0450.0450.0000.0000.0000.000
51A222ASP-1-0.847-0.90912.8191.7301.7300.0000.0000.0000.000
52A223ALA0-0.038-0.03114.451-0.185-0.1850.0000.0000.0000.000
53A224VAL0-0.013-0.01717.0310.0630.0630.0000.0000.0000.000
54A225LEU0-0.008-0.00219.470-0.034-0.0340.0000.0000.0000.000
55A226PRO00.0290.02217.7640.0460.0460.0000.0000.0000.000
56A227SER00.001-0.01018.771-0.088-0.0880.0000.0000.0000.000
57A228ARG10.9460.98116.924-0.286-0.2860.0000.0000.0000.000
58A229VAL00.0080.01519.607-0.059-0.0590.0000.0000.0000.000
59A230TYR00.0440.01219.7270.0450.0450.0000.0000.0000.000
60A231TRP0-0.039-0.02420.5960.0030.0030.0000.0000.0000.000
61A232ILE00.0280.02722.382-0.025-0.0250.0000.0000.0000.000
62A233ALA00.0010.00420.4260.0430.0430.0000.0000.0000.000
63A234SER00.0180.00222.417-0.051-0.0510.0000.0000.0000.000
64A235VAL00.0010.02422.1260.0320.0320.0000.0000.0000.000
65A236ILE0-0.042-0.02420.822-0.020-0.0200.0000.0000.0000.000
66A237GLN00.014-0.00420.3200.0090.0090.0000.0000.0000.000
67A238THR00.0280.00521.3110.0200.0200.0000.0000.0000.000
68A239ALA0-0.019-0.00719.312-0.006-0.0060.0000.0000.0000.000
69A240GLY00.0410.03620.364-0.028-0.0280.0000.0000.0000.000
70A241TYR00.022-0.04020.4970.0250.0250.0000.0000.0000.000
71A242ARG10.8360.93812.2270.4010.4010.0000.0000.0000.000
72A243VAL0-0.003-0.00218.6220.0040.0040.0000.0000.0000.000
73A244LEU0-0.0200.00115.8070.0290.0290.0000.0000.0000.000
74A245LEU00.002-0.01117.214-0.022-0.0220.0000.0000.0000.000
75A246ARG10.8490.91117.823-0.276-0.2760.0000.0000.0000.000
76A247TYR00.012-0.01915.059-0.029-0.0290.0000.0000.0000.000
77A248GLU-1-0.780-0.89720.3760.2560.2560.0000.0000.0000.000
78A249GLY00.0540.02723.4180.0350.0350.0000.0000.0000.000
79A250PHE00.0320.03917.3810.0080.0080.0000.0000.0000.000
80A251GLU-1-0.857-0.90822.4890.3160.3160.0000.0000.0000.000
81A252ASN00.009-0.00424.562-0.019-0.0190.0000.0000.0000.000
82A253ASP-1-0.903-0.94519.4360.5920.5920.0000.0000.0000.000
83A254ALA00.007-0.00519.0720.0190.0190.0000.0000.0000.000
84A255SER0-0.049-0.02415.2900.0660.0660.0000.0000.0000.000
85A256HIS10.8940.94413.600-1.075-1.0750.0000.0000.0000.000
86A257ASP-1-0.791-0.88214.6110.4430.4430.0000.0000.0000.000
87A258PHE0-0.024-0.01212.5090.0900.0900.0000.0000.0000.000
88A259TRP0-0.0040.00012.361-0.119-0.1190.0000.0000.0000.000
89A260CYS0-0.0100.00413.5730.0490.0490.0000.0000.0000.000
90A261ASN0-0.0170.00416.0180.0140.0140.0000.0000.0000.000
91A262LEU00.008-0.01617.6580.0350.0350.0000.0000.0000.000
92A263GLY00.0480.01720.5790.0140.0140.0000.0000.0000.000
93A264THR0-0.038-0.00816.169-0.001-0.0010.0000.0000.0000.000
94A265VAL00.006-0.01219.6000.0280.0280.0000.0000.0000.000
95A266ASP-1-1.009-1.00416.4090.2490.2490.0000.0000.0000.000
96A267VAL00.0730.04119.6280.0610.0610.0000.0000.0000.000
97A268HIS10.8290.92021.587-0.183-0.1830.0000.0000.0000.000
98A269PRO00.0650.04325.1770.0190.0190.0000.0000.0000.000
99A270ILE00.016-0.00927.6760.0150.0150.0000.0000.0000.000
100A271GLY0-0.0060.00329.622-0.018-0.0180.0000.0000.0000.000
101A272TRP00.0030.00424.9940.0030.0030.0000.0000.0000.000
102A273CYS0-0.040-0.04526.3360.0050.0050.0000.0000.0000.000
103A274ALA0-0.024-0.00128.7940.0010.0010.0000.0000.0000.000
104A275ILE00.0040.00832.488-0.005-0.0050.0000.0000.0000.000
105A276ASN0-0.071-0.04329.055-0.016-0.0160.0000.0000.0000.000
106A277SER0-0.0180.00129.8620.0070.0070.0000.0000.0000.000
107A278LYS10.8960.96824.744-0.226-0.2260.0000.0000.0000.000
108A279ILE00.016-0.00226.219-0.010-0.0100.0000.0000.0000.000
109A280LEU0-0.034-0.00824.8670.0270.0270.0000.0000.0000.000
110A281VAL0-0.017-0.02521.714-0.013-0.0130.0000.0000.0000.000
111A282PRO00.0320.02221.8910.0280.0280.0000.0000.0000.000
112A283PRO00.0350.01317.3070.0330.0330.0000.0000.0000.000
113A284ARG10.9620.97917.608-0.933-0.9330.0000.0000.0000.000
114A285THR0-0.003-0.00615.932-0.023-0.0230.0000.0000.0000.000
115A286ILE00.0130.01718.489-0.055-0.0550.0000.0000.0000.000
116A287HIS0-0.063-0.02121.844-0.093-0.0930.0000.0000.0000.000
117A288ALA00.0140.00223.836-0.039-0.0390.0000.0000.0000.000
118A289LYS10.8090.91224.122-0.425-0.4250.0000.0000.0000.000
119A290PHE0-0.012-0.01527.301-0.034-0.0340.0000.0000.0000.000
120A291THR00.0420.02629.5270.0120.0120.0000.0000.0000.000
121A292ASP-1-0.876-0.95531.9620.2160.2160.0000.0000.0000.000
122A293TRP00.011-0.00625.259-0.012-0.0120.0000.0000.0000.000
123A294LYS10.9730.99530.420-0.189-0.1890.0000.0000.0000.000
124A295GLY00.0360.01732.622-0.011-0.0110.0000.0000.0000.000
125A296TYR0-0.068-0.05827.493-0.014-0.0140.0000.0000.0000.000
126A297LEU00.005-0.01226.813-0.009-0.0090.0000.0000.0000.000
127A298MET0-0.030-0.00830.892-0.013-0.0130.0000.0000.0000.000
128A299LYS10.9480.96534.496-0.180-0.1800.0000.0000.0000.000
129A300ARG10.8220.90227.343-0.251-0.2510.0000.0000.0000.000
130A301LEU0-0.023-0.00429.707-0.006-0.0060.0000.0000.0000.000
131A302VAL0-0.0160.01233.047-0.013-0.0130.0000.0000.0000.000
132A303GLY0-0.012-0.01236.500-0.002-0.0020.0000.0000.0000.000
133A304SER0-0.026-0.01131.411-0.001-0.0010.0000.0000.0000.000
134A305ARG10.9841.00132.098-0.067-0.0670.0000.0000.0000.000
135A306THR0-0.006-0.03028.3670.0150.0150.0000.0000.0000.000
136A307LEU00.013-0.01124.632-0.010-0.0100.0000.0000.0000.000
137A308PRO00.0320.01729.0920.0070.0070.0000.0000.0000.000
138A309VAL00.007-0.00530.9500.0060.0060.0000.0000.0000.000
139A310ASP-1-0.915-0.96132.0770.0120.0120.0000.0000.0000.000
140A311PHE00.0020.02424.937-0.013-0.0130.0000.0000.0000.000
141A312HIS00.0590.01023.117-0.002-0.0020.0000.0000.0000.000
142A313ILE0-0.020-0.00327.459-0.014-0.0140.0000.0000.0000.000
143A314LYS10.9630.95930.7880.0000.0000.0000.0000.0000.000
144A315MET0-0.0060.01624.155-0.015-0.0150.0000.0000.0000.000
145A316VAL00.0030.00226.805-0.018-0.0180.0000.0000.0000.000
146A317GLU-1-0.871-0.93129.140-0.061-0.0610.0000.0000.0000.000
147A318SER0-0.081-0.03230.618-0.008-0.0080.0000.0000.0000.000
148A319MET0-0.022-0.01124.890-0.008-0.0080.0000.0000.0000.000
149A320LYS10.8320.92730.4570.0610.0610.0000.0000.0000.000
150A321TYR00.0500.00929.0560.0020.0020.0000.0000.0000.000
151A322PRO00.002-0.00834.4990.0020.0020.0000.0000.0000.000
152A323PHE00.0260.00535.9040.0030.0030.0000.0000.0000.000
153A324ARG10.9040.93533.8910.1230.1230.0000.0000.0000.000
154A325GLN00.0380.01134.4000.0120.0120.0000.0000.0000.000
155A326GLY0-0.0030.00136.5110.0100.0100.0000.0000.0000.000
156A327MET0-0.063-0.00339.6000.0060.0060.0000.0000.0000.000
157A328ARG10.8180.88040.8280.1040.1040.0000.0000.0000.000
158A329LEU0-0.040-0.01239.2520.0070.0070.0000.0000.0000.000
159A330GLU-1-0.749-0.87643.676-0.111-0.1110.0000.0000.0000.000
160A331VAL0-0.003-0.00138.851-0.001-0.0010.0000.0000.0000.000
161A332VAL00.012-0.00541.3430.0040.0040.0000.0000.0000.000
162A333ASP-1-0.819-0.88241.495-0.174-0.1740.0000.0000.0000.000
163A334LYS10.8910.90636.1350.2400.2400.0000.0000.0000.000
164A335SER0-0.066-0.05040.5440.0010.0010.0000.0000.0000.000
165A336GLN0-0.029-0.02142.8210.0040.0040.0000.0000.0000.000
166A337VAL00.0420.02842.2880.0050.0050.0000.0000.0000.000
167A338SER0-0.0050.00945.1910.0030.0030.0000.0000.0000.000
168A339ARG10.7940.88046.8720.1450.1450.0000.0000.0000.000
169A340THR0-0.019-0.04045.630-0.006-0.0060.0000.0000.0000.000
170A341ARG10.8540.91541.8620.1770.1770.0000.0000.0000.000
171A342MET0-0.0090.02044.4830.0000.0000.0000.0000.0000.000
172A343ALA00.012-0.00139.596-0.007-0.0070.0000.0000.0000.000
173A344VAL0-0.0100.00239.5660.0100.0100.0000.0000.0000.000
174A345VAL0-0.024-0.01735.026-0.012-0.0120.0000.0000.0000.000
175A346ASP-1-0.811-0.91732.064-0.241-0.2410.0000.0000.0000.000
176A347THR0-0.0180.00027.730-0.005-0.0050.0000.0000.0000.000
177A348VAL0-0.058-0.03230.6680.0030.0030.0000.0000.0000.000
178A349ILE00.0110.00222.7620.0030.0030.0000.0000.0000.000
179A350GLY00.0480.02626.444-0.009-0.0090.0000.0000.0000.000
180A351GLY0-0.041-0.02227.3150.0050.0050.0000.0000.0000.000
181A352ARG10.8500.93626.6240.3050.3050.0000.0000.0000.000
182A353LEU0-0.047-0.02530.0980.0040.0040.0000.0000.0000.000
183A354ARG10.8440.90329.5300.2830.2830.0000.0000.0000.000
184A355LEU0-0.062-0.03732.1680.0180.0180.0000.0000.0000.000
185A356LEU00.0800.04634.264-0.012-0.0120.0000.0000.0000.000
186A357TYR0-0.054-0.01837.6090.0130.0130.0000.0000.0000.000
187A358GLU-1-0.821-0.91541.000-0.125-0.1250.0000.0000.0000.000
188A359ASP-1-0.750-0.87544.073-0.137-0.1370.0000.0000.0000.000
189A360GLY0-0.146-0.09841.475-0.002-0.0020.0000.0000.0000.000
190A361ASP-1-0.881-0.93638.533-0.188-0.1880.0000.0000.0000.000
191A362SER0-0.022-0.01137.021-0.008-0.0080.0000.0000.0000.000
192A363ASP-1-0.973-0.98433.629-0.285-0.2850.0000.0000.0000.000
193A364ASP-1-0.850-0.88233.920-0.250-0.2500.0000.0000.0000.000
194A365ASP-1-0.855-0.90431.217-0.300-0.3000.0000.0000.0000.000
195A366PHE0-0.006-0.02533.9770.0000.0000.0000.0000.0000.000
196A367TRP00.0760.03627.0160.0060.0060.0000.0000.0000.000
197A368CYS0-0.045-0.00731.8760.0100.0100.0000.0000.0000.000
198A369HIS00.1290.07430.4380.0030.0030.0000.0000.0000.000
199A370MET00.004-0.00333.0540.0150.0150.0000.0000.0000.000
200A371TRP0-0.057-0.05435.3120.0140.0140.0000.0000.0000.000
201A372SER00.0330.03136.0410.0070.0070.0000.0000.0000.000
202A373PRO0-0.009-0.01137.5730.0070.0070.0000.0000.0000.000
203A374LEU00.0110.00237.1940.0080.0080.0000.0000.0000.000
204A375ILE0-0.0030.01338.0010.0020.0020.0000.0000.0000.000
205A376HIS10.8790.93041.4410.1340.1340.0000.0000.0000.000
206A377PRO00.0060.03044.716-0.003-0.0030.0000.0000.0000.000
207A378VAL00.0610.02646.5360.0010.0010.0000.0000.0000.000
208A379GLY0-0.034-0.01048.8780.0050.0050.0000.0000.0000.000
209A380TRP0-0.065-0.02748.3570.0030.0030.0000.0000.0000.000
210A381SER00.000-0.01549.3750.0020.0020.0000.0000.0000.000
211A382ARG10.9460.96951.6590.0950.0950.0000.0000.0000.000
212A383ARG10.9060.97551.4690.0870.0870.0000.0000.0000.000
213A384VAL0-0.042-0.02451.5360.0030.0030.0000.0000.0000.000
214A385GLY00.0580.03454.8320.0020.0020.0000.0000.0000.000
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