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: R8N68

Calculation Name: 2OF7-A-Xray372

Preferred Name:
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Target Type:
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Ligand Name:
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ligand 3-letter code:
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PDB ID: 2OF7

Chain ID: A

ChEMBL ID:
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UniProt ID: Q9EWH2

Base Structure: X-ray

Registration Date: 2023-09-20

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 191
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2018763.410752
FMO2-HF: Nuclear repulsion 1944075.369102
FMO2-HF: Total energy -74688.04165
FMO2-MP2: Total energy -74905.921861


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:GLY)


Summations of interaction energy for fragment #1(A:17:GLY)
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.
-4.712-3.1742.707-1.419-2.8270.014
Interaction energy analysis for fragmet #1(A:17:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.048 / q_NPA : 0.006
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].
3A19ARG10.8660.8932.590-1.721-0.6072.686-1.289-2.5110.013
4A20GLU-1-0.777-0.9084.113-0.856-0.4320.021-0.130-0.3160.001
5A21ARG10.9670.9876.187-0.260-0.2600.0000.0000.0000.000
6A22LYS10.9530.9866.862-1.192-1.1920.0000.0000.0000.000
7A23LYN00.0100.0337.971-0.172-0.1720.0000.0000.0000.000
8A24THR0-0.002-0.0119.864-0.156-0.1560.0000.0000.0000.000
9A25ARG10.8510.90311.795-0.203-0.2030.0000.0000.0000.000
10A26THR0-0.034-0.00711.888-0.017-0.0170.0000.0000.0000.000
11A27ARG10.9941.00011.612-0.559-0.5590.0000.0000.0000.000
12A28GLU-1-0.786-0.87414.9400.1570.1570.0000.0000.0000.000
13A29ALA00.0210.02517.249-0.036-0.0360.0000.0000.0000.000
14A30ILE00.0320.01617.121-0.021-0.0210.0000.0000.0000.000
15A31ARG10.9570.99320.152-0.174-0.1740.0000.0000.0000.000
16A32ALA0-0.012-0.00521.726-0.021-0.0210.0000.0000.0000.000
17A33ALA0-0.0100.00222.938-0.019-0.0190.0000.0000.0000.000
18A34THR00.0490.01124.057-0.016-0.0160.0000.0000.0000.000
19A35TYR0-0.032-0.02125.798-0.017-0.0170.0000.0000.0000.000
20A36GLY0-0.035-0.02127.466-0.011-0.0110.0000.0000.0000.000
21A37LEU0-0.025-0.02927.583-0.008-0.0080.0000.0000.0000.000
22A38ILE00.0020.02729.629-0.007-0.0070.0000.0000.0000.000
23A39ARG10.9200.95829.259-0.088-0.0880.0000.0000.0000.000
24A40GLN0-0.0360.00132.380-0.003-0.0030.0000.0000.0000.000
25A41GLN0-0.021-0.01533.872-0.004-0.0040.0000.0000.0000.000
26A42GLY00.0610.04635.946-0.001-0.0010.0000.0000.0000.000
27A43TYR0-0.005-0.05630.3130.0060.0060.0000.0000.0000.000
28A44GLU-1-0.796-0.89033.5180.1090.1090.0000.0000.0000.000
29A45ALA0-0.0160.01335.2600.0020.0020.0000.0000.0000.000
30A46THR0-0.055-0.04029.2690.0050.0050.0000.0000.0000.000
31A47THR0-0.020-0.02130.4140.0040.0040.0000.0000.0000.000
32A48VAL00.0600.02024.2730.0070.0070.0000.0000.0000.000
33A49GLU-1-0.863-0.93425.5410.1610.1610.0000.0000.0000.000
34A50GLN00.0360.02226.7470.0020.0020.0000.0000.0000.000
35A51ILE0-0.030-0.01723.0300.0030.0030.0000.0000.0000.000
36A52ALA0-0.052-0.03721.9050.0150.0150.0000.0000.0000.000
37A53GLU-1-0.924-0.95222.3540.1450.1450.0000.0000.0000.000
38A54ARG10.8610.93124.134-0.116-0.1160.0000.0000.0000.000
39A55ALA0-0.049-0.02319.863-0.003-0.0030.0000.0000.0000.000
40A56GLU-1-0.997-0.97619.4000.2130.2130.0000.0000.0000.000
41A57VAL0-0.059-0.03416.3280.0590.0590.0000.0000.0000.000
42A58SER00.0160.00618.022-0.019-0.0190.0000.0000.0000.000
43A59PRO00.1260.03319.7100.0300.0300.0000.0000.0000.000
44A60SER0-0.0090.00519.7030.0070.0070.0000.0000.0000.000
45A61THR0-0.045-0.03815.0810.0730.0730.0000.0000.0000.000
46A62VAL00.0290.02417.2860.0300.0300.0000.0000.0000.000
47A63LEU00.0680.03519.6460.0120.0120.0000.0000.0000.000
48A64ARG10.8420.94612.971-0.669-0.6690.0000.0000.0000.000
49A65TYR0-0.093-0.06410.7390.1010.1010.0000.0000.0000.000
50A66PHE0-0.030-0.02317.2580.0020.0020.0000.0000.0000.000
51A67PRO00.0200.02320.969-0.009-0.0090.0000.0000.0000.000
52A68THR0-0.022-0.02123.428-0.015-0.0150.0000.0000.0000.000
53A69ARG10.8250.88525.273-0.109-0.1090.0000.0000.0000.000
54A70GLU-1-0.792-0.88227.1240.1310.1310.0000.0000.0000.000
55A71ASP-1-0.764-0.85323.0530.1810.1810.0000.0000.0000.000
56A72ILE0-0.081-0.02622.4300.0070.0070.0000.0000.0000.000
57A73VAL0-0.022-0.00823.851-0.006-0.0060.0000.0000.0000.000
58A74LEU0-0.0150.00625.835-0.010-0.0100.0000.0000.0000.000
59A75THR0-0.028-0.02219.4910.0200.0200.0000.0000.0000.000
60A76ASP-1-0.869-0.92421.5420.0880.0880.0000.0000.0000.000
61A77GLU-1-0.908-0.97219.9240.1480.1480.0000.0000.0000.000
62A78TYR00.0220.02024.515-0.001-0.0010.0000.0000.0000.000
63A79ASP-1-0.729-0.86726.0100.0560.0560.0000.0000.0000.000
64A80PRO00.0600.01221.576-0.012-0.0120.0000.0000.0000.000
65A81VAL0-0.0200.00723.043-0.011-0.0110.0000.0000.0000.000
66A82MET0-0.029-0.02325.073-0.007-0.0070.0000.0000.0000.000
67A83ALA0-0.0050.01225.240-0.008-0.0080.0000.0000.0000.000
68A84ALA0-0.023-0.00523.114-0.009-0.0090.0000.0000.0000.000
69A85GLU-1-0.840-0.91125.2020.0090.0090.0000.0000.0000.000
70A86LEU0-0.015-0.00328.155-0.006-0.0060.0000.0000.0000.000
71A87ALA00.018-0.01026.257-0.005-0.0050.0000.0000.0000.000
72A88ALA0-0.063-0.03126.011-0.007-0.0070.0000.0000.0000.000
73A89ARG10.8550.94728.1270.0000.0000.0000.0000.0000.000
74A90PRO0-0.052-0.01229.983-0.001-0.0010.0000.0000.0000.000
75A91ALA0-0.055-0.07231.909-0.001-0.0010.0000.0000.0000.000
76A92GLY00.0630.02535.5490.0030.0030.0000.0000.0000.000
77A93GLU-1-0.819-0.83336.6190.0000.0000.0000.0000.0000.000
78A94PRO00.013-0.00639.0120.0000.0000.0000.0000.0000.000
79A95TRP00.0300.00935.7430.0000.0000.0000.0000.0000.000
80A96SER00.023-0.02639.3190.0010.0010.0000.0000.0000.000
81A97ASP-1-0.930-0.96540.3180.0070.0070.0000.0000.0000.000
82A98SER0-0.040-0.04935.2220.0000.0000.0000.0000.0000.000
83A99LEU0-0.0180.00635.5140.0030.0030.0000.0000.0000.000
84A100ARG10.8480.89337.351-0.011-0.0110.0000.0000.0000.000
85A101HIS0-0.134-0.08131.6650.0030.0030.0000.0000.0000.000
86A102VAL00.037-0.00131.4690.0030.0030.0000.0000.0000.000
87A103LEU0-0.0030.01432.9450.0060.0060.0000.0000.0000.000
88A104ARG10.9520.97635.563-0.017-0.0170.0000.0000.0000.000
89A105LYS10.8490.93529.565-0.024-0.0240.0000.0000.0000.000
90A106ALA00.0220.00730.7660.0050.0050.0000.0000.0000.000
91A107LEU00.0000.00531.8240.0070.0070.0000.0000.0000.000
92A108GLY00.0300.04133.4730.0030.0030.0000.0000.0000.000
93A109LEU0-0.051-0.02234.411-0.003-0.0030.0000.0000.0000.000
94A110GLY0-0.004-0.00735.535-0.002-0.0020.0000.0000.0000.000
95A111ALA0-0.012-0.01336.3740.0030.0030.0000.0000.0000.000
96A112GLY00.0490.02732.5610.0000.0000.0000.0000.0000.000
97A113GLU-1-0.906-0.97431.9680.0310.0310.0000.0000.0000.000
98A114GLU-1-0.938-0.96327.0240.0410.0410.0000.0000.0000.000
99A115ALA00.0450.01629.7210.0060.0060.0000.0000.0000.000
100A116GLU-1-0.863-0.91432.6060.0470.0470.0000.0000.0000.000
101A117LEU0-0.065-0.02626.9850.0050.0050.0000.0000.0000.000
102A118ILE0-0.0030.00628.3910.0060.0060.0000.0000.0000.000
103A119ARG10.8740.92831.128-0.037-0.0370.0000.0000.0000.000
104A120LEU0-0.056-0.01131.8490.0000.0000.0000.0000.0000.000
105A121ARG10.8540.90726.934-0.086-0.0860.0000.0000.0000.000
106A122THR0-0.061-0.05432.0570.0020.0020.0000.0000.0000.000
107A123ARG10.8400.89635.102-0.047-0.0470.0000.0000.0000.000
108A124LEU0-0.009-0.00931.7180.0000.0000.0000.0000.0000.000
109A125LEU00.0090.01333.1690.0020.0020.0000.0000.0000.000
110A126ALA00.0200.02135.385-0.002-0.0020.0000.0000.0000.000
111A127GLU-1-0.930-0.96938.3670.0560.0560.0000.0000.0000.000
112A128VAL0-0.053-0.01234.8880.0010.0010.0000.0000.0000.000
113A129PRO0-0.0320.00336.1730.0030.0030.0000.0000.0000.000
114A130ALA00.0680.02434.0420.0020.0020.0000.0000.0000.000
115A131VAL00.0570.02130.9360.0060.0060.0000.0000.0000.000
116A132ARG10.8570.90732.255-0.062-0.0620.0000.0000.0000.000
117A133ALA0-0.035-0.02634.5000.0000.0000.0000.0000.0000.000
118A134ARG10.8320.90825.406-0.155-0.1550.0000.0000.0000.000
119A135MET0-0.019-0.00529.8750.0010.0010.0000.0000.0000.000
120A136LEU00.014-0.00530.921-0.003-0.0030.0000.0000.0000.000
121A137GLU-1-0.918-0.95229.1690.1210.1210.0000.0000.0000.000
122A138ASN0-0.013-0.01725.8760.0030.0030.0000.0000.0000.000
123A139MET0-0.030-0.00528.454-0.002-0.0020.0000.0000.0000.000
124A140SER0-0.030-0.00230.937-0.009-0.0090.0000.0000.0000.000
125A141ASP-1-0.958-0.98526.6720.1090.1090.0000.0000.0000.000
126A142THR0-0.0770.00124.6390.0030.0030.0000.0000.0000.000
127A143GLY00.035-0.00725.340-0.001-0.0010.0000.0000.0000.000
128A144ARG10.8540.92125.507-0.062-0.0620.0000.0000.0000.000
129A145MET00.0110.00820.519-0.003-0.0030.0000.0000.0000.000
130A146LEU0-0.022-0.00125.687-0.009-0.0090.0000.0000.0000.000
131A147ALA00.043-0.00128.775-0.005-0.0050.0000.0000.0000.000
132A148ARG10.8610.91626.178-0.021-0.0210.0000.0000.0000.000
133A149ALA00.0490.03127.779-0.005-0.0050.0000.0000.0000.000
134A150ILE0-0.023-0.01829.544-0.004-0.0040.0000.0000.0000.000
135A151ALA00.0040.03731.891-0.002-0.0020.0000.0000.0000.000
136A152ASP-1-0.881-0.92528.728-0.008-0.0080.0000.0000.0000.000
137A153ARG10.8140.88932.3320.0020.0020.0000.0000.0000.000
138A154THR0-0.061-0.04734.8870.0010.0010.0000.0000.0000.000
139A155GLY0-0.069-0.02635.894-0.001-0.0010.0000.0000.0000.000
140A156LEU0-0.050-0.02936.8350.0000.0000.0000.0000.0000.000
141A157ASP-1-0.833-0.91934.6560.0110.0110.0000.0000.0000.000
142A158PRO0-0.027-0.02530.1210.0030.0030.0000.0000.0000.000
143A159ASP-1-0.898-0.94429.6320.0320.0320.0000.0000.0000.000
144A160GLY00.0130.02032.5230.0020.0020.0000.0000.0000.000
145A161LEU0-0.023-0.02135.5620.0030.0030.0000.0000.0000.000
146A162GLU-1-0.886-0.95237.9300.0210.0210.0000.0000.0000.000
147A163VAL00.0370.01933.6470.0010.0010.0000.0000.0000.000
148A164ARG10.8730.93531.027-0.031-0.0310.0000.0000.0000.000
149A165ILE0-0.0170.00435.0610.0030.0030.0000.0000.0000.000
150A166VAL00.0480.01837.0070.0020.0020.0000.0000.0000.000
151A167SER00.0070.00232.0880.0020.0020.0000.0000.0000.000
152A168MET0-0.011-0.00233.8770.0030.0030.0000.0000.0000.000
153A169SER00.0000.00835.6500.0010.0010.0000.0000.0000.000
154A170LEU0-0.051-0.01935.2630.0000.0000.0000.0000.0000.000
155A171VAL00.015-0.00731.5450.0010.0010.0000.0000.0000.000
156A172GLY00.0350.01334.4920.0030.0030.0000.0000.0000.000
157A173GLY00.0300.02037.603-0.001-0.0010.0000.0000.0000.000
158A174LEU0-0.037-0.01832.4310.0000.0000.0000.0000.0000.000
159A175MET0-0.0300.00236.1090.0030.0030.0000.0000.0000.000
160A176GLU-1-0.759-0.86437.5220.0460.0460.0000.0000.0000.000
161A177VAL00.0170.02239.850-0.001-0.0010.0000.0000.0000.000
162A178SER0-0.073-0.03437.5800.0010.0010.0000.0000.0000.000
163A179ARG10.8060.85739.655-0.047-0.0470.0000.0000.0000.000
164A180TYR00.0180.02141.897-0.001-0.0010.0000.0000.0000.000
165A181TRP00.026-0.01239.2310.0000.0000.0000.0000.0000.000
166A182ALA0-0.022-0.01541.947-0.001-0.0010.0000.0000.0000.000
167A183GLU-1-0.961-0.95943.9200.0380.0380.0000.0000.0000.000
168A184HIS10.7970.87447.007-0.034-0.0340.0000.0000.0000.000
169A185ASP-1-0.796-0.87045.4350.0360.0360.0000.0000.0000.000
170A186HIS0-0.105-0.03547.4600.0000.0000.0000.0000.0000.000
171A187GLU-1-0.881-0.93850.7120.0250.0250.0000.0000.0000.000
172A188GLU-1-0.805-0.87348.5080.0240.0240.0000.0000.0000.000
173A189SER0-0.070-0.06745.4570.0020.0020.0000.0000.0000.000
174A190LEU00.027-0.00538.126-0.001-0.0010.0000.0000.0000.000
175A191ALA0-0.026-0.04642.4230.0000.0000.0000.0000.0000.000
176A192GLU-1-0.801-0.85043.3580.0210.0210.0000.0000.0000.000
177A193LEU00.0420.04844.167-0.001-0.0010.0000.0000.0000.000
178A194VAL0-0.035-0.03939.5440.0000.0000.0000.0000.0000.000
179A195ASP-1-0.831-0.87442.4520.0170.0170.0000.0000.0000.000
180A196ARG10.8390.89045.243-0.026-0.0260.0000.0000.0000.000
181A197ALA0-0.031-0.01442.1860.0000.0000.0000.0000.0000.000
182A198LEU0-0.041-0.02639.5780.0000.0000.0000.0000.0000.000
183A199ASP-1-0.846-0.91543.3590.0140.0140.0000.0000.0000.000
184A200ALA0-0.016-0.00246.138-0.001-0.0010.0000.0000.0000.000
185A201LEU0-0.093-0.05840.3210.0000.0000.0000.0000.0000.000
186A202GLU-1-0.836-0.89942.4500.0130.0130.0000.0000.0000.000
187A203ASN0-0.065-0.04145.463-0.002-0.0020.0000.0000.0000.000
188A204GLY0-0.0240.00148.2540.0000.0000.0000.0000.0000.000
189A205LEU0-0.033-0.02347.3010.0000.0000.0000.0000.0000.000
190A206PRO0-0.059-0.02750.006-0.001-0.0010.0000.0000.0000.000
191A207ALA00.0130.02453.7600.0000.0000.0000.0000.0000.000