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: 85J6Y

Calculation Name: 1EIA-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1EIA

Chain ID: A

ChEMBL ID:

UniProt ID: P69732

Base Structure: X-ray

Registration Date: 2023-06-21

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 206
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2183413.950892
FMO2-HF: Nuclear repulsion 2100058.297104
FMO2-HF: Total energy -83355.653788
FMO2-MP2: Total energy -83595.386437


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:16:THR)


Summations of interaction energy for fragment #1(A:16:THR)
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.
-3.579-0.1510.066-1.526-1.9690.001
Interaction energy analysis for fragmet #1(A:16:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.034 / q_NPA : 0.015
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].
3A18ARG10.8380.8773.249-0.2352.1450.015-1.291-1.1040.001
4A19GLY00.0100.0085.7630.5210.5210.0000.0000.0000.000
5A20TYR0-0.033-0.0103.4130.7741.2580.005-0.097-0.3930.000
6A21THR00.0600.0225.5430.2340.2340.0000.0000.0000.000
7A22THR00.0460.0168.5830.0860.0860.0000.0000.0000.000
8A23TRP0-0.0150.0048.154-0.100-0.1000.0000.0000.0000.000
9A24VAL00.0250.0108.2610.0310.0310.0000.0000.0000.000
10A25ASN0-0.003-0.01210.979-0.082-0.0820.0000.0000.0000.000
11A26THR00.001-0.01213.905-0.042-0.0420.0000.0000.0000.000
12A27ILE0-0.031-0.00511.950-0.013-0.0130.0000.0000.0000.000
13A28GLN0-0.0160.00515.1080.0460.0460.0000.0000.0000.000
14A29THR0-0.050-0.01416.850-0.030-0.0300.0000.0000.0000.000
15A30ASN00.000-0.01719.7690.0320.0320.0000.0000.0000.000
16A31GLY00.0390.02418.035-0.032-0.0320.0000.0000.0000.000
17A32LEU00.0050.01414.144-0.041-0.0410.0000.0000.0000.000
18A33LEU0-0.058-0.01017.281-0.050-0.0500.0000.0000.0000.000
19A34ASN00.0110.00220.1800.0040.0040.0000.0000.0000.000
20A35GLU-1-0.821-0.92520.369-0.082-0.0820.0000.0000.0000.000
21A36ALA0-0.0230.01319.000-0.043-0.0430.0000.0000.0000.000
22A37SER00.011-0.03015.530-0.038-0.0380.0000.0000.0000.000
23A38GLN0-0.011-0.00316.113-0.060-0.0600.0000.0000.0000.000
24A39ASN0-0.038-0.02818.036-0.081-0.0810.0000.0000.0000.000
25A40LEU0-0.0250.00312.528-0.069-0.0690.0000.0000.0000.000
26A41PHE00.0360.00810.974-0.154-0.1540.0000.0000.0000.000
27A42GLY00.0060.02114.115-0.134-0.1340.0000.0000.0000.000
28A43ILE0-0.0120.00414.313-0.034-0.0340.0000.0000.0000.000
29A44LEU0-0.024-0.0219.226-0.109-0.1090.0000.0000.0000.000
30A45SER0-0.015-0.02910.856-0.303-0.3030.0000.0000.0000.000
31A46VAL0-0.018-0.01712.4290.0140.0140.0000.0000.0000.000
32A47ASP-1-0.839-0.92312.836-1.128-1.1280.0000.0000.0000.000
33A48CYS0-0.0790.0049.324-0.313-0.3130.0000.0000.0000.000
34A49THR00.0740.0278.5220.2340.2340.0000.0000.0000.000
35A50SER00.020-0.0269.735-0.140-0.1400.0000.0000.0000.000
36A51GLU-1-0.834-0.8755.949-0.872-0.8720.0000.0000.0000.000
37A52GLU-1-0.795-0.8684.994-3.796-3.7960.0000.0000.0000.000
38A53MET0-0.022-0.0016.066-0.142-0.1420.0000.0000.0000.000
39A54ASN00.0340.0278.2280.2760.2760.0000.0000.0000.000
40A55ALA00.0220.0133.202-0.0060.3480.048-0.116-0.2860.000
41A56PHE00.009-0.0135.1430.6250.713-0.001-0.005-0.0820.000
42A57LEU00.0070.0067.1020.4660.4660.0000.0000.0000.000
43A58ASP-1-0.882-0.9357.6040.7000.7000.0000.0000.0000.000
44A59VAL0-0.032-0.0094.2500.2960.418-0.001-0.017-0.1040.000
45A60VAL0-0.070-0.0257.247-0.057-0.0570.0000.0000.0000.000
46A61PRO0-0.0110.00610.968-0.007-0.0070.0000.0000.0000.000
47A62GLY00.0570.01712.7780.0250.0250.0000.0000.0000.000
48A63GLN0-0.0430.00816.166-0.063-0.0630.0000.0000.0000.000
49A64ALA00.005-0.00517.867-0.040-0.0400.0000.0000.0000.000
50A65GLY00.0270.01118.828-0.024-0.0240.0000.0000.0000.000
51A66GLN00.021-0.00219.108-0.024-0.0240.0000.0000.0000.000
52A67LYS10.8730.91811.545-0.564-0.5640.0000.0000.0000.000
53A68GLN0-0.049-0.02317.3660.0050.0050.0000.0000.0000.000
54A69ILE00.0070.01220.183-0.030-0.0300.0000.0000.0000.000
55A70LEU0-0.009-0.00715.097-0.026-0.0260.0000.0000.0000.000
56A71LEU00.012-0.00314.535-0.038-0.0380.0000.0000.0000.000
57A72ASP-1-0.799-0.89318.4330.0640.0640.0000.0000.0000.000
58A73ALA0-0.068-0.02121.651-0.022-0.0220.0000.0000.0000.000
59A74ILE00.0310.00515.783-0.030-0.0300.0000.0000.0000.000
60A75ASP-1-0.806-0.87619.560-0.029-0.0290.0000.0000.0000.000
61A76LYS10.8950.95421.7500.0690.0690.0000.0000.0000.000
62A77ILE0-0.055-0.02321.8220.0020.0020.0000.0000.0000.000
63A78ALA0-0.014-0.01020.632-0.013-0.0130.0000.0000.0000.000
64A79ASP-1-0.858-0.93422.703-0.036-0.0360.0000.0000.0000.000
65A80ASP-1-0.878-0.88626.035-0.101-0.1010.0000.0000.0000.000
66A81TRP00.007-0.02024.266-0.005-0.0050.0000.0000.0000.000
67A82ASP-1-0.742-0.88824.355-0.132-0.1320.0000.0000.0000.000
68A83ASN0-0.091-0.05727.2040.0110.0110.0000.0000.0000.000
69A84ARG10.7630.85829.3610.1040.1040.0000.0000.0000.000
70A85HIS10.7870.89627.4570.1490.1490.0000.0000.0000.000
71A86PRO00.0500.04729.035-0.003-0.0030.0000.0000.0000.000
72A87LEU0-0.006-0.00726.819-0.003-0.0030.0000.0000.0000.000
73A88PRO00.0260.01129.0520.0030.0030.0000.0000.0000.000
74A89ASN0-0.040-0.03931.1620.0010.0010.0000.0000.0000.000
75A90ALA00.0030.02425.746-0.004-0.0040.0000.0000.0000.000
76A91PRO0-0.0140.00324.0110.0130.0130.0000.0000.0000.000
77A92LEU00.0410.00821.983-0.011-0.0110.0000.0000.0000.000
78A93VAL0-0.017-0.01318.7550.0020.0020.0000.0000.0000.000
79A94ALA00.0040.00818.8170.0050.0050.0000.0000.0000.000
80A95PRO00.0150.00720.6780.0050.0050.0000.0000.0000.000
81A96PRO00.0320.02621.095-0.029-0.0290.0000.0000.0000.000
82A97GLN0-0.022-0.02022.143-0.013-0.0130.0000.0000.0000.000
83A98GLY00.0420.03125.1380.0160.0160.0000.0000.0000.000
84A99PRO00.005-0.01124.732-0.022-0.0220.0000.0000.0000.000
85A100ILE00.0260.02719.1600.0160.0160.0000.0000.0000.000
86A101PRO0-0.0020.00423.321-0.007-0.0070.0000.0000.0000.000
87A102MET00.0290.01321.652-0.002-0.0020.0000.0000.0000.000
88A103THR00.0250.01322.4270.0010.0010.0000.0000.0000.000
89A104ALA00.0430.01221.053-0.034-0.0340.0000.0000.0000.000
90A105ARG10.8300.92417.7800.0200.0200.0000.0000.0000.000
91A106PHE0-0.035-0.01917.421-0.016-0.0160.0000.0000.0000.000
92A107ILE00.0110.02116.778-0.064-0.0640.0000.0000.0000.000
93A108ARG10.8280.89314.7400.0180.0180.0000.0000.0000.000
94A109GLY00.018-0.00312.726-0.025-0.0250.0000.0000.0000.000
95A110LEU0-0.041-0.01813.3650.0270.0270.0000.0000.0000.000
96A111GLY00.0050.00114.8610.0730.0730.0000.0000.0000.000
97A112VAL0-0.0370.00014.4400.0190.0190.0000.0000.0000.000
98A113PRO00.0430.04213.196-0.048-0.0480.0000.0000.0000.000
99A114ARG10.8780.8926.0340.6320.6320.0000.0000.0000.000
100A115GLU-1-0.877-0.95911.246-0.494-0.4940.0000.0000.0000.000
101A116ARG10.7570.82414.3160.2760.2760.0000.0000.0000.000
102A117GLN0-0.052-0.04010.857-0.141-0.1410.0000.0000.0000.000
103A118MET0-0.0130.0009.197-0.111-0.1110.0000.0000.0000.000
104A119GLU-1-0.818-0.85314.235-0.332-0.3320.0000.0000.0000.000
105A120PRO00.0680.02118.091-0.007-0.0070.0000.0000.0000.000
106A121ALA0-0.036-0.01620.3460.0190.0190.0000.0000.0000.000
107A122PHE0-0.007-0.00913.6250.0310.0310.0000.0000.0000.000
108A123ASP-1-0.820-0.89517.530-0.687-0.6870.0000.0000.0000.000
109A124GLN00.013-0.00318.544-0.002-0.0020.0000.0000.0000.000
110A125PHE0-0.0340.00817.5460.0250.0250.0000.0000.0000.000
111A126ARG10.8000.88913.5430.9500.9500.0000.0000.0000.000
112A127GLN00.003-0.00815.4020.0270.0270.0000.0000.0000.000
113A128THR0-0.028-0.02617.9640.0350.0350.0000.0000.0000.000
114A129TYR0-0.039-0.03712.1690.0560.0560.0000.0000.0000.000
115A130ARG10.8480.90514.4220.6850.6850.0000.0000.0000.000
116A131GLN00.0010.01015.975-0.014-0.0140.0000.0000.0000.000
117A132TRP00.0830.03418.4310.0310.0310.0000.0000.0000.000
118A133ILE00.0160.01412.8860.0530.0530.0000.0000.0000.000
119A134ILE0-0.0100.00117.1930.0520.0520.0000.0000.0000.000
120A135GLU-1-0.878-0.95919.227-0.197-0.1970.0000.0000.0000.000
121A136ALA0-0.026-0.00719.1780.0320.0320.0000.0000.0000.000
122A137MET0-0.010-0.00415.4870.0460.0460.0000.0000.0000.000
123A138SER00.0420.02120.1930.0250.0250.0000.0000.0000.000
124A139GLU-1-0.885-0.91623.782-0.059-0.0590.0000.0000.0000.000
125A140GLY00.0530.00522.5610.0190.0190.0000.0000.0000.000
126A141ILE0-0.011-0.00421.3120.0210.0210.0000.0000.0000.000
127A142LYS10.7970.88024.7210.0830.0830.0000.0000.0000.000
128A143VAL0-0.029-0.00626.3840.0090.0090.0000.0000.0000.000
129A144MET0-0.038-0.02623.8380.0190.0190.0000.0000.0000.000
130A145ILE00.0140.01327.1690.0060.0060.0000.0000.0000.000
131A146GLY0-0.0060.01529.8650.0020.0020.0000.0000.0000.000
132A147LYS10.7960.88728.778-0.032-0.0320.0000.0000.0000.000
133A148PRO00.0110.01030.4220.0070.0070.0000.0000.0000.000
134A149LYS10.9540.98026.881-0.098-0.0980.0000.0000.0000.000
135A150ALA00.019-0.00132.206-0.010-0.0100.0000.0000.0000.000
136A151GLN00.013-0.00127.716-0.010-0.0100.0000.0000.0000.000
137A152ASN0-0.013-0.00429.475-0.001-0.0010.0000.0000.0000.000
138A153ILE0-0.0380.00532.642-0.008-0.0080.0000.0000.0000.000
139A154ARG10.9790.99235.1030.0190.0190.0000.0000.0000.000
140A155GLN00.0170.02437.3600.0010.0010.0000.0000.0000.000
141A156GLY00.007-0.00140.559-0.005-0.0050.0000.0000.0000.000
142A157ALA0-0.007-0.01643.0070.0020.0020.0000.0000.0000.000
143A158LYS10.7970.87044.4970.0120.0120.0000.0000.0000.000
144A159GLU-1-0.745-0.82343.4780.0090.0090.0000.0000.0000.000
145A160PRO00.0330.02046.751-0.001-0.0010.0000.0000.0000.000
146A161TYR00.018-0.01041.0120.0030.0030.0000.0000.0000.000
147A162PRO00.036-0.00444.7540.0020.0020.0000.0000.0000.000
148A163GLU-1-0.854-0.91845.8970.0150.0150.0000.0000.0000.000
149A164PHE0-0.040-0.01637.8950.0020.0020.0000.0000.0000.000
150A165VAL00.0020.00741.4390.0040.0040.0000.0000.0000.000
151A166ASP-1-0.879-0.93141.8590.0380.0380.0000.0000.0000.000
152A167ARG10.7530.83640.107-0.009-0.0090.0000.0000.0000.000
153A168LEU0-0.033-0.01035.3370.0050.0050.0000.0000.0000.000
154A169LEU00.010-0.01037.8550.0080.0080.0000.0000.0000.000
155A170SER0-0.036-0.01139.5870.0060.0060.0000.0000.0000.000
156A171GLN0-0.047-0.03034.4140.0020.0020.0000.0000.0000.000
157A172ILE0-0.029-0.01434.0920.0090.0090.0000.0000.0000.000
158A173LYS10.9530.98735.409-0.057-0.0570.0000.0000.0000.000
159A174SER0-0.059-0.03637.4020.0050.0050.0000.0000.0000.000
160A175GLU-1-0.747-0.85831.6040.0850.0850.0000.0000.0000.000
161A176GLY0-0.0230.00532.3240.0110.0110.0000.0000.0000.000
162A177HIS10.7960.87930.204-0.111-0.1110.0000.0000.0000.000
163A178PRO00.0580.03830.655-0.009-0.0090.0000.0000.0000.000
164A179GLN00.0890.02633.411-0.009-0.0090.0000.0000.0000.000
165A180GLU-1-0.923-0.95331.8080.1680.1680.0000.0000.0000.000
166A181ILE00.005-0.00326.675-0.007-0.0070.0000.0000.0000.000
167A182SER00.006-0.01030.644-0.010-0.0100.0000.0000.0000.000
168A183LYS10.8100.90133.752-0.084-0.0840.0000.0000.0000.000
169A184PHE00.0600.02527.297-0.007-0.0070.0000.0000.0000.000
170A185LEU0-0.0030.01328.962-0.009-0.0090.0000.0000.0000.000
171A186THR00.0290.01032.389-0.008-0.0080.0000.0000.0000.000
172A187ASP-1-0.804-0.86434.3010.0660.0660.0000.0000.0000.000
173A188THR0-0.019-0.03529.967-0.009-0.0090.0000.0000.0000.000
174A189LEU0-0.0140.00230.680-0.010-0.0100.0000.0000.0000.000
175A190THR0-0.010-0.02734.315-0.008-0.0080.0000.0000.0000.000
176A191ILE00.0510.03535.600-0.006-0.0060.0000.0000.0000.000
177A192GLN0-0.039-0.04629.277-0.003-0.0030.0000.0000.0000.000
178A193ASN0-0.075-0.04132.294-0.008-0.0080.0000.0000.0000.000
179A194ALA00.0660.03835.604-0.002-0.0020.0000.0000.0000.000
180A195ASN0-0.019-0.01738.288-0.004-0.0040.0000.0000.0000.000
181A196GLU-1-0.871-0.94538.048-0.021-0.0210.0000.0000.0000.000
182A197GLU-1-0.833-0.89940.430-0.014-0.0140.0000.0000.0000.000
183A198CYS0-0.046-0.02042.439-0.001-0.0010.0000.0000.0000.000
184A199ARG10.8280.90235.9090.0180.0180.0000.0000.0000.000
185A200ASN0-0.070-0.03440.053-0.001-0.0010.0000.0000.0000.000
186A201ALA00.0070.01141.9830.0010.0010.0000.0000.0000.000
187A202MET00.0040.00339.7290.0040.0040.0000.0000.0000.000
188A203ARG10.8990.95837.2660.0200.0200.0000.0000.0000.000
189A204HIS0-0.057-0.03140.6530.0010.0010.0000.0000.0000.000
190A205LEU00.0010.02241.0670.0030.0030.0000.0000.0000.000
191A206ARG10.8220.89434.761-0.046-0.0460.0000.0000.0000.000
192A207PRO0-0.023-0.02532.8740.0000.0000.0000.0000.0000.000
193A208GLU-1-0.826-0.90134.9500.0580.0580.0000.0000.0000.000
194A209ASP-1-0.822-0.88737.4420.0390.0390.0000.0000.0000.000
195A210THR0-0.062-0.07440.9620.0020.0020.0000.0000.0000.000
196A211LEU00.010-0.01541.729-0.003-0.0030.0000.0000.0000.000
197A212GLU-1-0.915-0.94943.9580.0280.0280.0000.0000.0000.000
198A213GLU-1-0.814-0.87445.1660.0300.0300.0000.0000.0000.000
199A214LYS10.8150.90638.460-0.047-0.0470.0000.0000.0000.000
200A215MET0-0.031-0.02444.413-0.004-0.0040.0000.0000.0000.000
201A216TYR0-0.016-0.01247.163-0.004-0.0040.0000.0000.0000.000
202A217ALA0-0.021-0.00945.504-0.003-0.0030.0000.0000.0000.000
203A219ARG10.8320.92047.560-0.007-0.0070.0000.0000.0000.000
204A220ASP-1-0.862-0.91950.8570.0030.0030.0000.0000.0000.000
205A221ILE0-0.0090.01946.179-0.002-0.0020.0000.0000.0000.000
206A222GLY0-0.027-0.00349.543-0.003-0.0030.0000.0000.0000.000