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: G5R41

Calculation Name: 1OU0-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1OU0

Chain ID: A

ChEMBL ID:

UniProt ID: Q9HKE7

Base Structure: X-ray

Registration Date: 2023-09-23

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 OptHSide
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 190
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2036850.644704
FMO2-HF: Nuclear repulsion 1963496.305381
FMO2-HF: Total energy -73354.339323
FMO2-MP2: Total energy -73563.869502


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:17:SER)


Summations of interaction energy for fragment #1(A:17:SER)
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.
-4.4930.1970.265-1.837-3.1170.002
Interaction energy analysis for fragmet #1(A:17:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.015 / q_NPA : -0.001
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].
3A19ALA00.0150.0132.863-3.867-1.0610.124-1.294-1.6360.003
4A20ALA00.0070.0062.894-0.8350.2020.138-0.338-0.836-0.001
5A21ILE00.0000.0034.0060.1820.7290.003-0.165-0.3850.000
6A22ASP-1-0.856-0.9246.1780.3500.3500.0000.0000.0000.000
7A23SER0-0.051-0.0167.629-0.044-0.0440.0000.0000.0000.000
8A24MET0-0.036-0.0178.435-0.012-0.0120.0000.0000.0000.000
9A25ILE0-0.043-0.01810.3300.0350.0350.0000.0000.0000.000
10A26ASP-1-0.801-0.89412.8070.0810.0810.0000.0000.0000.000
11A27PRO0-0.004-0.00715.4480.0220.0220.0000.0000.0000.000
12A28ASP-1-0.879-0.93116.9430.1000.1000.0000.0000.0000.000
13A29ILE0-0.092-0.02116.7270.0050.0050.0000.0000.0000.000
14A30SER00.0360.01617.3870.0350.0350.0000.0000.0000.000
15A31GLY00.0140.00919.600-0.011-0.0110.0000.0000.0000.000
16A32PRO0-0.020-0.03518.6720.0250.0250.0000.0000.0000.000
17A33MET00.0290.02317.9090.0220.0220.0000.0000.0000.000
18A34ARG10.8030.88812.333-0.232-0.2320.0000.0000.0000.000
19A35HIS0-0.059-0.03412.8900.0760.0760.0000.0000.0000.000
20A36ILE0-0.047-0.02213.2310.0380.0380.0000.0000.0000.000
21A37VAL00.0570.02512.9130.0140.0140.0000.0000.0000.000
22A38VAL00.0460.0318.8080.0320.0320.0000.0000.0000.000
23A39LYS10.8660.9418.930-0.102-0.1020.0000.0000.0000.000
24A40ALA00.0120.01810.518-0.032-0.0320.0000.0000.0000.000
25A41ILE00.0200.0057.581-0.033-0.0330.0000.0000.0000.000
26A42HIS0-0.016-0.0183.9450.6750.809-0.001-0.013-0.1200.000
27A43ALA0-0.072-0.0357.080-0.261-0.2610.0000.0000.0000.000
28A44ALA0-0.045-0.0219.887-0.097-0.0970.0000.0000.0000.000
29A45GLY0-0.0260.0066.867-0.084-0.0840.0000.0000.0000.000
30A46ASP-1-0.790-0.8897.9330.0600.0600.0000.0000.0000.000
31A47PHE00.020-0.0033.751-0.177-0.0110.001-0.027-0.1400.000
32A48ALA00.0060.0099.861-0.046-0.0460.0000.0000.0000.000
33A49ILE0-0.021-0.02012.439-0.026-0.0260.0000.0000.0000.000
34A50ALA00.0190.01511.453-0.001-0.0010.0000.0000.0000.000
35A51PRO00.0140.01513.599-0.008-0.0080.0000.0000.0000.000
36A52LEU0-0.026-0.00416.725-0.016-0.0160.0000.0000.0000.000
37A53ILE0-0.039-0.00113.968-0.008-0.0080.0000.0000.0000.000
38A54ARG10.8610.91418.225-0.077-0.0770.0000.0000.0000.000
39A55TYR00.001-0.02219.0610.0100.0100.0000.0000.0000.000
40A56SER00.0250.00423.5610.0000.0000.0000.0000.0000.000
41A57ASP-1-0.885-0.94626.1010.0800.0800.0000.0000.0000.000
42A58GLY0-0.019-0.00127.7900.0050.0050.0000.0000.0000.000
43A59PHE00.0280.00721.2690.0020.0020.0000.0000.0000.000
44A60PHE00.021-0.00821.6420.0020.0020.0000.0000.0000.000
45A61LYS10.9570.97124.884-0.071-0.0710.0000.0000.0000.000
46A62SER00.0360.02528.419-0.002-0.0020.0000.0000.0000.000
47A63MET00.0130.00622.915-0.006-0.0060.0000.0000.0000.000
48A64LEU0-0.065-0.03624.575-0.002-0.0020.0000.0000.0000.000
49A65ALA0-0.0020.01027.063-0.002-0.0020.0000.0000.0000.000
50A66LYS10.8270.91229.193-0.050-0.0500.0000.0000.0000.000
51A67LEU0-0.018-0.01523.999-0.002-0.0020.0000.0000.0000.000
52A68LYS10.8650.93727.369-0.099-0.0990.0000.0000.0000.000
53A69GLU-1-0.961-0.98229.8660.0550.0550.0000.0000.0000.000
54A70GLY0-0.0280.02031.261-0.004-0.0040.0000.0000.0000.000
55A71CYS0-0.081-0.03330.081-0.003-0.0030.0000.0000.0000.000
56A72THR0-0.027-0.01631.543-0.001-0.0010.0000.0000.0000.000
57A73ILE00.009-0.01825.1030.0020.0020.0000.0000.0000.000
58A74ILE00.0190.01228.590-0.004-0.0040.0000.0000.0000.000
59A75CYS0-0.040-0.00725.7740.0050.0050.0000.0000.0000.000
60A76ASP-1-0.702-0.85525.5390.0130.0130.0000.0000.0000.000
61A77SER0-0.044-0.03224.646-0.006-0.0060.0000.0000.0000.000
62A78GLU-1-0.731-0.88525.7350.0040.0040.0000.0000.0000.000
63A79MET0-0.028-0.01220.2380.0020.0020.0000.0000.0000.000
64A80VAL0-0.0170.00620.8990.0000.0000.0000.0000.0000.000
65A81ARG10.8800.93321.847-0.003-0.0030.0000.0000.0000.000
66A82ALA0-0.035-0.01622.3100.0030.0030.0000.0000.0000.000
67A83GLY00.0100.01618.742-0.005-0.0050.0000.0000.0000.000
68A84ILE0-0.036-0.01218.2490.0130.0130.0000.0000.0000.000
69A85TYR00.0400.00713.7890.0120.0120.0000.0000.0000.000
70A86SER0-0.022-0.01419.1300.0020.0020.0000.0000.0000.000
71A87ARG10.9390.95820.466-0.089-0.0890.0000.0000.0000.000
72A88PRO0-0.029-0.01421.822-0.006-0.0060.0000.0000.0000.000
73A89VAL00.0220.01321.817-0.003-0.0030.0000.0000.0000.000
74A90LEU00.0300.01223.865-0.006-0.0060.0000.0000.0000.000
75A91GLU-1-0.816-0.88426.4280.0660.0660.0000.0000.0000.000
76A92ARG10.8490.91627.009-0.081-0.0810.0000.0000.0000.000
77A93ASN0-0.034-0.00427.439-0.004-0.0040.0000.0000.0000.000
78A94ARG10.8810.95529.042-0.042-0.0420.0000.0000.0000.000
79A95VAL00.0270.02725.1650.0020.0020.0000.0000.0000.000
80A96VAL0-0.004-0.00128.357-0.005-0.0050.0000.0000.0000.000
81A97CYS0-0.041-0.01928.6170.0010.0010.0000.0000.0000.000
82A98TYR00.0370.00230.678-0.003-0.0030.0000.0000.0000.000
83A99LEU0-0.0340.00429.690-0.001-0.0010.0000.0000.0000.000
84A100ASN0-0.069-0.05831.087-0.003-0.0030.0000.0000.0000.000
85A101ASP-1-0.781-0.84935.0790.0060.0060.0000.0000.0000.000
86A102VAL00.020-0.01137.799-0.001-0.0010.0000.0000.0000.000
87A103ARG10.8130.86839.557-0.011-0.0110.0000.0000.0000.000
88A104SER0-0.017-0.02336.7490.0010.0010.0000.0000.0000.000
89A105LYS10.8950.93539.4200.0050.0050.0000.0000.0000.000
90A106GLU-1-0.896-0.94140.7430.0010.0010.0000.0000.0000.000
91A107MET00.0110.01941.4380.0000.0000.0000.0000.0000.000
92A108ALA0-0.036-0.02839.1710.0000.0000.0000.0000.0000.000
93A109ASP-1-0.896-0.96041.143-0.004-0.0040.0000.0000.0000.000
94A110VAL0-0.042-0.01444.1000.0000.0000.0000.0000.0000.000
95A111ASN0-0.070-0.04743.1470.0010.0010.0000.0000.0000.000
96A112GLY00.0170.03643.2950.0000.0000.0000.0000.0000.000
97A113ILE0-0.038-0.00638.7010.0010.0010.0000.0000.0000.000
98A114THR00.010-0.00633.5260.0000.0000.0000.0000.0000.000
99A115ARG11.0091.01334.6370.0060.0060.0000.0000.0000.000
100A116SER00.022-0.00530.7320.0010.0010.0000.0000.0000.000
101A117ALA0-0.0130.00432.7840.0030.0030.0000.0000.0000.000
102A118ALA00.0270.01634.8360.0020.0020.0000.0000.0000.000
103A119GLY00.0340.01934.3010.0010.0010.0000.0000.0000.000
104A120ILE0-0.041-0.01929.8790.0020.0020.0000.0000.0000.000
105A121ARG10.8560.89533.997-0.010-0.0100.0000.0000.0000.000
106A122ILE00.0230.00837.6670.0010.0010.0000.0000.0000.000
107A123ALA00.0150.01133.9560.0010.0010.0000.0000.0000.000
108A124MET0-0.045-0.02834.4480.0010.0010.0000.0000.0000.000
109A125GLN0-0.044-0.01236.7330.0000.0000.0000.0000.0000.000
110A126ASP-1-0.829-0.87938.3830.0140.0140.0000.0000.0000.000
111A127HIS0-0.062-0.01935.593-0.001-0.0010.0000.0000.0000.000
112A128ARG10.8710.91936.552-0.031-0.0310.0000.0000.0000.000
113A129ASN00.0350.01234.8360.0030.0030.0000.0000.0000.000
114A130SER00.003-0.00432.0970.0010.0010.0000.0000.0000.000
115A131VAL00.0810.04026.1540.0030.0030.0000.0000.0000.000
116A132ILE00.0130.00928.485-0.004-0.0040.0000.0000.0000.000
117A133VAL0-0.004-0.00522.3530.0070.0070.0000.0000.0000.000
118A134ILE0-0.031-0.02424.554-0.008-0.0080.0000.0000.0000.000
119A135GLY00.016-0.00721.5860.0070.0070.0000.0000.0000.000
120A136ASN0-0.057-0.04221.834-0.008-0.0080.0000.0000.0000.000
121A137ALA00.0410.02424.454-0.001-0.0010.0000.0000.0000.000
122A138PRO00.0490.01627.4880.0040.0040.0000.0000.0000.000
123A139THR0-0.003-0.01729.1720.0020.0020.0000.0000.0000.000
124A140ALA00.0020.00929.2360.0000.0000.0000.0000.0000.000
125A141LEU00.0090.01226.7270.0020.0020.0000.0000.0000.000
126A142LEU0-0.008-0.01329.9120.0010.0010.0000.0000.0000.000
127A143GLU-1-0.725-0.80033.2680.0160.0160.0000.0000.0000.000
128A144ALA00.008-0.00131.3810.0000.0000.0000.0000.0000.000
129A145MET0-0.0240.00331.7160.0010.0010.0000.0000.0000.000
130A146ARG10.8230.89034.237-0.016-0.0160.0000.0000.0000.000
131A147MET0-0.010-0.00636.523-0.001-0.0010.0000.0000.0000.000
132A148ILE0-0.0220.00032.8580.0000.0000.0000.0000.0000.000
133A149GLU-1-0.917-0.97536.6170.0290.0290.0000.0000.0000.000
134A150GLU-1-0.930-0.94939.2600.0150.0150.0000.0000.0000.000
135A151ASN0-0.111-0.06740.863-0.002-0.0020.0000.0000.0000.000
136A152GLY00.0190.02440.6660.0000.0000.0000.0000.0000.000
137A153TRP0-0.064-0.04237.6220.0010.0010.0000.0000.0000.000
138A154TYR00.0700.01435.4590.0010.0010.0000.0000.0000.000
139A155ASP-1-0.790-0.84634.6860.0420.0420.0000.0000.0000.000
140A156ILE0-0.075-0.04331.6040.0040.0040.0000.0000.0000.000
141A157PRO0-0.0140.02227.3850.0000.0000.0000.0000.0000.000
142A158ILE00.006-0.02726.696-0.003-0.0030.0000.0000.0000.000
143A159VAL0-0.029-0.00620.9030.0060.0060.0000.0000.0000.000
144A160GLY00.0670.01923.720-0.008-0.0080.0000.0000.0000.000
145A161ILE0-0.0480.01118.2690.0030.0030.0000.0000.0000.000
146A162PRO0-0.0020.01421.458-0.005-0.0050.0000.0000.0000.000
147A163VAL00.0230.01620.1470.0040.0040.0000.0000.0000.000
148A164GLY0-0.022-0.01422.827-0.004-0.0040.0000.0000.0000.000
149A165PHE00.006-0.01124.2450.0010.0010.0000.0000.0000.000
150A166ILE00.0270.02327.1720.0040.0040.0000.0000.0000.000
151A167ASN00.024-0.00129.0660.0040.0040.0000.0000.0000.000
152A168ALA00.0360.01625.2600.0030.0030.0000.0000.0000.000
153A169SER00.0030.00326.2210.0060.0060.0000.0000.0000.000
154A170LYS11.0011.00027.295-0.006-0.0060.0000.0000.0000.000
155A171ALA0-0.015-0.00129.0430.0020.0020.0000.0000.0000.000
156A172LYS10.8200.90721.950-0.041-0.0410.0000.0000.0000.000
157A173GLU-1-0.961-0.95827.3140.0250.0250.0000.0000.0000.000
158A174GLY00.0280.00729.2270.0010.0010.0000.0000.0000.000
159A175LEU00.006-0.02726.4770.0010.0010.0000.0000.0000.000
160A176VAL0-0.048-0.01125.8290.0020.0020.0000.0000.0000.000
161A177SER0-0.044-0.01228.6440.0010.0010.0000.0000.0000.000
162A178SER0-0.057-0.02131.503-0.002-0.0020.0000.0000.0000.000
163A179HIS00.0090.00432.9850.0040.0040.0000.0000.0000.000
164A180ILE0-0.025-0.01130.9100.0000.0000.0000.0000.0000.000
165A181GLU-1-0.825-0.87528.8410.0690.0690.0000.0000.0000.000
166A182TYR00.007-0.02024.6030.0000.0000.0000.0000.0000.000
167A183ILE00.0140.00418.3790.0080.0080.0000.0000.0000.000
168A184SER0-0.050-0.05721.665-0.010-0.0100.0000.0000.0000.000
169A185VAL0-0.010-0.00717.1820.0150.0150.0000.0000.0000.000
170A186GLU-1-0.818-0.90219.9910.0360.0360.0000.0000.0000.000
171A187GLY00.0170.01620.9050.0020.0020.0000.0000.0000.000
172A188HIS00.029-0.00122.1250.0030.0030.0000.0000.0000.000
173A189ARG10.8290.88813.658-0.045-0.0450.0000.0000.0000.000
174A190GLY00.0600.01018.2650.0080.0080.0000.0000.0000.000
175A191GLY00.0290.01217.650-0.008-0.0080.0000.0000.0000.000
176A192SER00.036-0.00818.3430.0150.0150.0000.0000.0000.000
177A193PRO00.0110.01913.6130.0120.0120.0000.0000.0000.000
178A194ILE00.0300.02613.5900.0200.0200.0000.0000.0000.000
179A195ALA00.0560.03315.2080.0190.0190.0000.0000.0000.000
180A196ALA00.0290.00717.1260.0080.0080.0000.0000.0000.000
181A197SER0-0.109-0.05213.0050.0230.0230.0000.0000.0000.000
182A198ILE00.0590.02415.0840.0240.0240.0000.0000.0000.000
183A199VAL00.0380.02417.2530.0050.0050.0000.0000.0000.000
184A200ASN0-0.018-0.02716.2550.0020.0020.0000.0000.0000.000
185A201GLY0-0.040-0.01616.1490.0110.0110.0000.0000.0000.000
186A202PHE00.0550.01016.8510.0150.0150.0000.0000.0000.000
187A203GLY0-0.029-0.00219.970-0.005-0.0050.0000.0000.0000.000
188A204ARG10.8920.95413.296-0.353-0.3530.0000.0000.0000.000
189A205PHE0-0.002-0.00818.2370.0030.0030.0000.0000.0000.000
190A206LEU0-0.0090.00823.044-0.015-0.0150.0000.0000.0000.000