Manual

About

FMODB

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

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: Q1M3Y

Calculation Name: 2QC7-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2QC7

Chain ID: A

ChEMBL ID:

UniProt ID: P30040

Base Structure: X-ray

Registration Date: 2023-03-13

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 224
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2543654.17164
FMO2-HF: Nuclear repulsion 2455762.012815
FMO2-HF: Total energy -87892.158825
FMO2-MP2: Total energy -88150.986226


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:VAL)


Summations of interaction energy for fragment #1(A:33:VAL)
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.
-0.8470.1360.0170.181-1.1810
Interaction energy analysis for fragmet #1(A:33:VAL)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.018 / q_NPA : -0.027
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].
3A35THR0-0.0100.0093.3481.3182.3010.0170.181-1.1810.000
4A36LYS10.8940.9375.627-0.557-0.5570.0000.0000.0000.000
5A37GLY00.0610.0237.2780.0510.0510.0000.0000.0000.000
6A38ALA0-0.0030.0138.742-0.023-0.0230.0000.0000.0000.000
7A39LEU00.008-0.0059.310-0.114-0.1140.0000.0000.0000.000
8A40PRO00.0270.0017.8610.0940.0940.0000.0000.0000.000
9A41LEU0-0.007-0.00510.3380.0710.0710.0000.0000.0000.000
10A42ASP-1-0.759-0.87313.166-0.477-0.4770.0000.0000.0000.000
11A43THR00.018-0.01015.0170.0340.0340.0000.0000.0000.000
12A44VAL0-0.037-0.00617.7590.0420.0420.0000.0000.0000.000
13A45THR0-0.060-0.03014.7700.0130.0130.0000.0000.0000.000
14A46PHE00.0380.01017.3540.0380.0380.0000.0000.0000.000
15A47TYR0-0.031-0.01418.4540.0280.0280.0000.0000.0000.000
16A48LYS10.9360.95320.7280.2020.2020.0000.0000.0000.000
17A49VAL0-0.001-0.00417.5920.0170.0170.0000.0000.0000.000
18A50ILE00.0400.03619.7760.0180.0180.0000.0000.0000.000
19A51PRO00.008-0.00622.4090.0140.0140.0000.0000.0000.000
20A52LYS10.8290.92622.6770.1370.1370.0000.0000.0000.000
21A53SER0-0.0090.00221.7130.0060.0060.0000.0000.0000.000
22A54LYS10.8930.96324.0280.0270.0270.0000.0000.0000.000
23A55PHE00.0260.01323.3990.0020.0020.0000.0000.0000.000
24A56VAL00.0420.01418.489-0.006-0.0060.0000.0000.0000.000
25A57LEU0-0.033-0.01917.6330.0080.0080.0000.0000.0000.000
26A58VAL0-0.0110.00515.618-0.006-0.0060.0000.0000.0000.000
27A59LYS10.9070.9509.555-0.142-0.1420.0000.0000.0000.000
28A60PHE0-0.010-0.00513.194-0.042-0.0420.0000.0000.0000.000
29A61ASP-1-0.810-0.96110.4480.0970.0970.0000.0000.0000.000
30A62THR0-0.0210.00410.787-0.088-0.0880.0000.0000.0000.000
31A63GLN00.0840.0388.403-0.087-0.0870.0000.0000.0000.000
32A64TYR0-0.070-0.0315.491-0.205-0.2050.0000.0000.0000.000
33A65PRO0-0.0350.0096.5920.2830.2830.0000.0000.0000.000
34A66TYR0-0.038-0.0367.8610.3620.3620.0000.0000.0000.000
35A67GLY00.0610.03310.417-0.151-0.1510.0000.0000.0000.000
36A68GLU-1-0.866-0.93612.9560.3130.3130.0000.0000.0000.000
37A69LYS10.9700.96613.998-0.159-0.1590.0000.0000.0000.000
38A70GLN00.0570.0277.163-0.284-0.2840.0000.0000.0000.000
39A71ASP-1-0.843-0.98210.5550.8440.8440.0000.0000.0000.000
40A72GLU-1-0.849-0.92111.5360.2250.2250.0000.0000.0000.000
41A73PHE0-0.028-0.0099.937-0.031-0.0310.0000.0000.0000.000
42A74LYS10.7990.9457.205-1.199-1.1990.0000.0000.0000.000
43A75ARG10.9380.97610.214-0.376-0.3760.0000.0000.0000.000
44A76LEU00.008-0.00513.469-0.041-0.0410.0000.0000.0000.000
45A77ALA00.0530.05210.596-0.042-0.0420.0000.0000.0000.000
46A78GLU-1-0.974-0.9459.7440.3950.3950.0000.0000.0000.000
47A79ASN0-0.071-0.03712.916-0.005-0.0050.0000.0000.0000.000
48A80SER0-0.013-0.04514.691-0.020-0.0200.0000.0000.0000.000
49A81ALA0-0.085-0.05114.779-0.015-0.0150.0000.0000.0000.000
50A82SER0-0.065-0.02516.612-0.001-0.0010.0000.0000.0000.000
51A83SER0-0.013-0.02220.1500.0070.0070.0000.0000.0000.000
52A84ASP-1-0.916-0.92020.971-0.010-0.0100.0000.0000.0000.000
53A85ASP-1-0.860-0.94722.284-0.012-0.0120.0000.0000.0000.000
54A86LEU0-0.089-0.04818.913-0.007-0.0070.0000.0000.0000.000
55A87LEU00.0000.02315.708-0.002-0.0020.0000.0000.0000.000
56A88VAL0-0.0030.00313.5100.0020.0020.0000.0000.0000.000
57A89ALA0-0.039-0.01812.869-0.023-0.0230.0000.0000.0000.000
58A90GLU-1-0.893-0.9637.486-0.448-0.4480.0000.0000.0000.000
59A91VAL0-0.0210.00011.398-0.103-0.1030.0000.0000.0000.000
60A92GLY00.0720.0369.2240.0600.0600.0000.0000.0000.000
61A93ILE0-0.033-0.01110.235-0.048-0.0480.0000.0000.0000.000
62A94SER0-0.028-0.02112.2840.0280.0280.0000.0000.0000.000
63A95ASP-1-0.886-0.95614.045-0.127-0.1270.0000.0000.0000.000
64A96TYR0-0.042-0.01315.7160.0170.0170.0000.0000.0000.000
65A97GLY0-0.014-0.00816.939-0.021-0.0210.0000.0000.0000.000
66A98ASP-1-0.915-0.94816.778-0.220-0.2200.0000.0000.0000.000
67A99LYS10.9060.94216.9110.1990.1990.0000.0000.0000.000
68A100LEU00.0450.01211.434-0.033-0.0330.0000.0000.0000.000
69A101ASN0-0.008-0.00112.8790.0340.0340.0000.0000.0000.000
70A102MET00.0710.02916.2860.0250.0250.0000.0000.0000.000
71A103GLU-1-0.838-0.91118.762-0.185-0.1850.0000.0000.0000.000
72A104LEU0-0.050-0.02916.7910.0170.0170.0000.0000.0000.000
73A105SER00.0450.02519.1940.0200.0200.0000.0000.0000.000
74A106GLU-1-0.960-0.97720.787-0.100-0.1000.0000.0000.0000.000
75A107LYS10.8510.94522.9200.1200.1200.0000.0000.0000.000
76A108TYR0-0.147-0.13521.7550.0090.0090.0000.0000.0000.000
77A109LYS11.0180.99723.1110.0420.0420.0000.0000.0000.000
78A110LEU0-0.043-0.00319.3360.0110.0110.0000.0000.0000.000
79A111ASP-1-0.812-0.90022.348-0.030-0.0300.0000.0000.0000.000
80A112LYS10.8820.92316.4270.0890.0890.0000.0000.0000.000
81A113GLU-1-1.013-0.99119.1880.0120.0120.0000.0000.0000.000
82A114SER0-0.011-0.01920.8450.0180.0180.0000.0000.0000.000
83A115TYR0-0.0640.01915.0660.0090.0090.0000.0000.0000.000
84A116PRO0-0.069-0.05114.6050.0290.0290.0000.0000.0000.000
85A117VAL00.0380.01316.0770.0000.0000.0000.0000.0000.000
86A118PHE0-0.022-0.01215.519-0.016-0.0160.0000.0000.0000.000
87A119TYR00.0030.00019.2870.0050.0050.0000.0000.0000.000
88A120LEU0-0.013-0.01020.730-0.010-0.0100.0000.0000.0000.000
89A121PHE0-0.011-0.00920.4430.0020.0020.0000.0000.0000.000
90A122ARG10.9730.96624.2150.0340.0340.0000.0000.0000.000
91A123ASP-1-0.844-0.93927.150-0.039-0.0390.0000.0000.0000.000
92A124GLY0-0.040-0.01526.292-0.001-0.0010.0000.0000.0000.000
93A125ASP-1-0.821-0.88927.310-0.060-0.0600.0000.0000.0000.000
94A126PHE00.0330.01123.146-0.009-0.0090.0000.0000.0000.000
95A127GLU-1-0.962-0.95726.368-0.075-0.0750.0000.0000.0000.000
96A128ASN0-0.171-0.07328.7790.0110.0110.0000.0000.0000.000
97A129PRO0-0.0160.01324.3750.0040.0040.0000.0000.0000.000
98A130VAL00.0160.00126.2960.0040.0040.0000.0000.0000.000
99A131PRO00.0370.02223.993-0.001-0.0010.0000.0000.0000.000
100A132TYR0-0.0500.00021.9400.0070.0070.0000.0000.0000.000
101A133THR0-0.003-0.01123.4870.0030.0030.0000.0000.0000.000
102A134GLY00.028-0.00524.7840.0020.0020.0000.0000.0000.000
103A135ALA00.0210.00223.1180.0020.0020.0000.0000.0000.000
104A136VAL0-0.0060.01617.608-0.003-0.0030.0000.0000.0000.000
105A137LYS10.9460.98318.783-0.097-0.0970.0000.0000.0000.000
106A138VAL00.0660.02116.934-0.027-0.0270.0000.0000.0000.000
107A139GLY0-0.066-0.04319.384-0.022-0.0220.0000.0000.0000.000
108A140ALA0-0.055-0.03622.918-0.014-0.0140.0000.0000.0000.000
109A141ILE00.1040.04918.719-0.012-0.0120.0000.0000.0000.000
110A142GLN00.0590.02319.595-0.008-0.0080.0000.0000.0000.000
111A143ARG10.9160.96323.104-0.088-0.0880.0000.0000.0000.000
112A144TRP00.0240.03023.207-0.003-0.0030.0000.0000.0000.000
113A145LEU00.0750.03920.952-0.008-0.0080.0000.0000.0000.000
114A146LYS10.9350.96525.073-0.070-0.0700.0000.0000.0000.000
115A147GLY0-0.057-0.03127.564-0.005-0.0050.0000.0000.0000.000
116A148GLN0-0.080-0.02727.326-0.002-0.0020.0000.0000.0000.000
117A149GLY00.0030.00229.566-0.006-0.0060.0000.0000.0000.000
118A150VAL00.000-0.00623.624-0.006-0.0060.0000.0000.0000.000
119A151TYR0-0.065-0.02525.7930.0100.0100.0000.0000.0000.000
120A152LEU0-0.015-0.00521.6260.0010.0010.0000.0000.0000.000
121A153GLY0-0.0070.00824.1320.0080.0080.0000.0000.0000.000
122A154MET0-0.001-0.01822.6380.0080.0080.0000.0000.0000.000
123A155PRO00.0600.02418.665-0.006-0.0060.0000.0000.0000.000
124A156GLY0-0.040-0.02320.5380.0060.0060.0000.0000.0000.000
125A157CYS0-0.0240.01021.947-0.001-0.0010.0000.0000.0000.000
126A158LEU00.0180.00124.287-0.004-0.0040.0000.0000.0000.000
127A159PRO00.1170.07527.229-0.001-0.0010.0000.0000.0000.000
128A160VAL00.0320.02230.0610.0000.0000.0000.0000.0000.000
129A161TYR0-0.001-0.02729.6710.0000.0000.0000.0000.0000.000
130A162ASP-1-0.883-0.91529.2180.0500.0500.0000.0000.0000.000
131A163ALA0-0.044-0.02431.9480.0000.0000.0000.0000.0000.000
132A164LEU00.0180.00634.2230.0000.0000.0000.0000.0000.000
133A165ALA00.0180.02233.6710.0000.0000.0000.0000.0000.000
134A166GLY00.0340.01335.6800.0000.0000.0000.0000.0000.000
135A167GLU-1-1.011-1.01237.9730.0210.0210.0000.0000.0000.000
136A168PHE0-0.008-0.02338.363-0.001-0.0010.0000.0000.0000.000
137A169ILE0-0.044-0.01938.4350.0000.0000.0000.0000.0000.000
138A170ARG10.8750.95440.415-0.026-0.0260.0000.0000.0000.000
139A171ALA0-0.052-0.01343.592-0.002-0.0020.0000.0000.0000.000
140A172SER00.0490.02945.5400.0010.0010.0000.0000.0000.000
141A173GLY00.0310.01946.3470.0010.0010.0000.0000.0000.000
142A174VAL0-0.073-0.04846.8010.0010.0010.0000.0000.0000.000
143A175GLU-1-0.790-0.99345.6620.0220.0220.0000.0000.0000.000
144A176ALA00.0880.06942.5450.0000.0000.0000.0000.0000.000
145A177ARG10.9780.96841.857-0.022-0.0220.0000.0000.0000.000
146A178GLN0-0.0380.04442.176-0.001-0.0010.0000.0000.0000.000
147A179ALA00.0240.02639.723-0.001-0.0010.0000.0000.0000.000
148A180LEU0-0.007-0.01536.5880.0000.0000.0000.0000.0000.000
149A181LEU0-0.030-0.02937.7790.0010.0010.0000.0000.0000.000
150A182LYS10.9470.98136.997-0.019-0.0190.0000.0000.0000.000
151A183GLN0-0.008-0.00934.159-0.002-0.0020.0000.0000.0000.000
152A184GLY00.0370.01833.6050.0000.0000.0000.0000.0000.000
153A185GLN0-0.046-0.03534.865-0.003-0.0030.0000.0000.0000.000
154A186ASP-1-0.877-0.92732.5140.0150.0150.0000.0000.0000.000
155A187ASN00.0020.00428.7210.0000.0000.0000.0000.0000.000
156A188LEU0-0.056-0.01029.4240.0000.0000.0000.0000.0000.000
157A189SER00.028-0.00130.395-0.004-0.0040.0000.0000.0000.000
158A190SER0-0.098-0.09325.7870.0000.0000.0000.0000.0000.000
159A191VAL00.0310.06322.9910.0020.0020.0000.0000.0000.000
160A192LYS10.8810.95215.956-0.017-0.0170.0000.0000.0000.000
161A193GLU-1-0.718-0.85719.8010.0250.0250.0000.0000.0000.000
162A194THR0-0.122-0.07516.3480.0160.0160.0000.0000.0000.000
163A195GLN00.069-0.00418.8100.0020.0020.0000.0000.0000.000
164A196LYS10.9240.98321.200-0.019-0.0190.0000.0000.0000.000
165A197LYS10.9550.99317.859-0.131-0.1310.0000.0000.0000.000
166A198TRP0-0.006-0.00617.5800.0060.0060.0000.0000.0000.000
167A199ALA00.0870.04824.133-0.002-0.0020.0000.0000.0000.000
168A200GLU-1-0.870-0.95726.5800.0550.0550.0000.0000.0000.000
169A201GLN00.0190.05924.0680.0030.0030.0000.0000.0000.000
170A202TYR00.038-0.02327.0400.0010.0010.0000.0000.0000.000
171A203LEU00.0670.04830.276-0.001-0.0010.0000.0000.0000.000
172A204LYS10.8400.91329.944-0.056-0.0560.0000.0000.0000.000
173A205ILE0-0.057-0.01929.288-0.001-0.0010.0000.0000.0000.000
174A206MET0-0.006-0.00733.191-0.001-0.0010.0000.0000.0000.000
175A207GLY0-0.025-0.02336.185-0.001-0.0010.0000.0000.0000.000
176A208LYS10.9590.98930.922-0.068-0.0680.0000.0000.0000.000
177A209ILE0-0.098-0.01036.3870.0000.0000.0000.0000.0000.000
178A210LEU0-0.094-0.02739.371-0.002-0.0020.0000.0000.0000.000
179A211ASP-1-0.920-0.94239.6130.0410.0410.0000.0000.0000.000
180A212GLN0-0.066-0.03637.620-0.001-0.0010.0000.0000.0000.000
181A213GLY00.1060.04741.534-0.002-0.0020.0000.0000.0000.000
182A214GLU-1-0.871-0.96541.1290.0370.0370.0000.0000.0000.000
183A215ASP-1-0.948-0.96540.8160.0450.0450.0000.0000.0000.000
184A216PHE0-0.068-0.02833.7070.0030.0030.0000.0000.0000.000
185A217PRO00.0290.00134.6800.0040.0040.0000.0000.0000.000
186A218ALA00.022-0.00634.8060.0040.0040.0000.0000.0000.000
187A219SER00.0340.04235.9300.0050.0050.0000.0000.0000.000
188A220GLU-1-0.883-0.94731.3330.0830.0830.0000.0000.0000.000
189A221MET0-0.0130.01430.6480.0060.0060.0000.0000.0000.000
190A222THR00.001-0.00131.2010.0060.0060.0000.0000.0000.000
191A223ARG10.8860.94228.344-0.091-0.0910.0000.0000.0000.000
192A224ILE0-0.011-0.02625.7560.0070.0070.0000.0000.0000.000
193A225ALA00.0310.02727.2500.0090.0090.0000.0000.0000.000
194A226ARG10.9140.96928.662-0.080-0.0800.0000.0000.0000.000
195A227LEU0-0.0120.00025.5590.0070.0070.0000.0000.0000.000
196A228ILE00.0210.01422.9750.0150.0150.0000.0000.0000.000
197A229GLU-1-0.917-0.94524.2500.1400.1400.0000.0000.0000.000
198A230LYS10.8410.90125.755-0.109-0.1090.0000.0000.0000.000
199A231ASN00.0530.04020.1410.0110.0110.0000.0000.0000.000
200A232LYS10.9300.97921.667-0.132-0.1320.0000.0000.0000.000
201A233MET0-0.079-0.04919.613-0.012-0.0120.0000.0000.0000.000
202A234SER00.0300.01514.007-0.002-0.0020.0000.0000.0000.000
203A235ASP-1-0.791-0.91312.7240.4370.4370.0000.0000.0000.000
204A236GLY0-0.041-0.01413.080-0.031-0.0310.0000.0000.0000.000
205A237LYS10.9810.98213.618-0.294-0.2940.0000.0000.0000.000
206A238LYS10.9160.96216.984-0.277-0.2770.0000.0000.0000.000
207A239GLU-1-0.875-0.92914.7960.1810.1810.0000.0000.0000.000
208A240GLU-1-0.971-0.99516.7140.1880.1880.0000.0000.0000.000
209A241LEU0-0.062-0.03418.907-0.024-0.0240.0000.0000.0000.000
210A242GLN00.0390.03020.022-0.008-0.0080.0000.0000.0000.000
211A243LYS10.8920.96516.651-0.166-0.1660.0000.0000.0000.000
212A244SER00.008-0.05221.871-0.014-0.0140.0000.0000.0000.000
213A245LEU0-0.102-0.04024.553-0.009-0.0090.0000.0000.0000.000
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215A247ILE0-0.058-0.02424.726-0.008-0.0080.0000.0000.0000.000
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