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: 94G92

Calculation Name: 3OTC-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3OTC

Chain ID: A

ChEMBL ID:

UniProt ID: Q9NWX6

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 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 264
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3509104.245347
FMO2-HF: Nuclear repulsion 3399541.653381
FMO2-HF: Total energy -109562.591966
FMO2-MP2: Total energy -109879.908543


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:4:SER)


Summations of interaction energy for fragment #1(A:4: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.
-12.603-8.6846.889-5.021-5.79-0.016
Interaction energy analysis for fragmet #1(A:4:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.050 / q_NPA : 0.022
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].
3A6PHE00.0700.0192.214-4.837-0.8120.710-2.162-2.5740.002
4A7GLU-1-0.921-0.9741.910-8.372-8.6586.174-2.820-3.069-0.018
5A8TYR00.0060.0093.956-0.303-0.1230.005-0.039-0.1470.000
6A9VAL0-0.002-0.0096.796-0.164-0.1640.0000.0000.0000.000
7A10ARG10.9580.9747.2400.8960.8960.0000.0000.0000.000
8A11ASP-1-0.928-0.9539.7790.2880.2880.0000.0000.0000.000
9A12PHE0-0.083-0.03011.1060.0240.0240.0000.0000.0000.000
10A13GLU-1-1.023-0.99312.552-0.389-0.3890.0000.0000.0000.000
11A14ALA00.0080.00815.5610.0110.0110.0000.0000.0000.000
12A15ASP-1-0.892-0.95119.142-0.120-0.1200.0000.0000.0000.000
13A16ASP-1-0.786-0.88921.118-0.107-0.1070.0000.0000.0000.000
14A17THR0-0.042-0.02323.878-0.013-0.0130.0000.0000.0000.000
15A18CYS0-0.061-0.02125.9120.0140.0140.0000.0000.0000.000
16A19LEU00.0260.01229.610-0.004-0.0040.0000.0000.0000.000
17A20ALA00.0420.00731.921-0.004-0.0040.0000.0000.0000.000
18A21HIS00.0090.00233.2510.0030.0030.0000.0000.0000.000
19A22CYS0-0.0380.00335.3210.0060.0060.0000.0000.0000.000
20A23TRP00.0240.00835.775-0.008-0.0080.0000.0000.0000.000
21A24VAL00.0110.01731.3760.0040.0040.0000.0000.0000.000
22A25VAL00.004-0.00434.735-0.002-0.0020.0000.0000.0000.000
23A26VAL00.0040.00431.3600.0020.0020.0000.0000.0000.000
24A27ARG10.8410.92034.1320.0390.0390.0000.0000.0000.000
25A28LEU0-0.021-0.01832.291-0.002-0.0020.0000.0000.0000.000
26A29ASP-1-0.804-0.91035.823-0.037-0.0370.0000.0000.0000.000
27A30GLY00.0290.02236.362-0.002-0.0020.0000.0000.0000.000
28A31ARG10.9440.96432.6680.0380.0380.0000.0000.0000.000
29A32ASN0-0.071-0.04636.8700.0020.0020.0000.0000.0000.000
30A33PHE00.0780.02337.9740.0000.0000.0000.0000.0000.000
31A34HIS00.0250.04341.816-0.001-0.0010.0000.0000.0000.000
32A35ARG10.9610.97140.5730.0250.0250.0000.0000.0000.000
33A36PHE0-0.027-0.00539.7020.0010.0010.0000.0000.0000.000
34A37ALA00.0570.02642.882-0.001-0.0010.0000.0000.0000.000
35A38GLU-1-0.957-0.98046.209-0.018-0.0180.0000.0000.0000.000
36A39LYS10.8740.93344.0440.0230.0230.0000.0000.0000.000
37A40HIS0-0.0290.00741.817-0.002-0.0020.0000.0000.0000.000
38A41ASN0-0.037-0.01046.8200.0000.0000.0000.0000.0000.000
39A42PHE00.006-0.00644.310-0.001-0.0010.0000.0000.0000.000
40A43ALA00.0030.00350.0830.0020.0020.0000.0000.0000.000
41A44LYS10.9280.98249.9180.0240.0240.0000.0000.0000.000
42A45PRO0-0.023-0.02554.5780.0010.0010.0000.0000.0000.000
43A46ASN0-0.040-0.04151.963-0.001-0.0010.0000.0000.0000.000
44A47ASP-1-0.726-0.84549.358-0.033-0.0330.0000.0000.0000.000
45A48SER00.0340.00349.762-0.001-0.0010.0000.0000.0000.000
46A49ARG10.8900.95748.2730.0320.0320.0000.0000.0000.000
47A50ALA00.0150.00445.455-0.003-0.0030.0000.0000.0000.000
48A51LEU00.0130.00044.773-0.003-0.0030.0000.0000.0000.000
49A52GLN0-0.015-0.01345.559-0.003-0.0030.0000.0000.0000.000
50A53LEU00.0230.04040.522-0.003-0.0030.0000.0000.0000.000
51A54MET0-0.031-0.00539.733-0.006-0.0060.0000.0000.0000.000
52A55THR0-0.003-0.00140.701-0.003-0.0030.0000.0000.0000.000
53A56LYS10.9721.01940.5240.0660.0660.0000.0000.0000.000
54A57CYS0-0.054-0.00536.792-0.005-0.0050.0000.0000.0000.000
55A58ALA00.020-0.00236.835-0.006-0.0060.0000.0000.0000.000
56A59GLN0-0.058-0.05037.975-0.003-0.0030.0000.0000.0000.000
57A60THR00.0230.01434.229-0.003-0.0030.0000.0000.0000.000
58A61VAL0-0.058-0.03132.701-0.007-0.0070.0000.0000.0000.000
59A62MET0-0.087-0.05733.851-0.004-0.0040.0000.0000.0000.000
60A63GLU-1-0.996-0.99136.139-0.085-0.0850.0000.0000.0000.000
61A64GLU-1-0.963-0.96230.952-0.135-0.1350.0000.0000.0000.000
62A65LEU0-0.072-0.02228.595-0.012-0.0120.0000.0000.0000.000
63A66GLU-1-0.887-0.94929.802-0.145-0.1450.0000.0000.0000.000
64A67ASP-1-0.869-0.94232.704-0.106-0.1060.0000.0000.0000.000
65A68ILE00.0270.02933.5500.0060.0060.0000.0000.0000.000
66A69VAL0-0.031-0.01136.7870.0010.0010.0000.0000.0000.000
67A70ILE0-0.014-0.00440.3830.0030.0030.0000.0000.0000.000
68A71ALA00.0160.00539.718-0.002-0.0020.0000.0000.0000.000
69A72TYR0-0.036-0.04241.3990.0020.0020.0000.0000.0000.000
70A73GLY00.0530.01842.292-0.002-0.0020.0000.0000.0000.000
71A74GLN0-0.048-0.00743.5640.0010.0010.0000.0000.0000.000
72A75SER00.0370.00844.6270.0000.0000.0000.0000.0000.000
73A76ASP-1-0.899-0.95341.634-0.038-0.0380.0000.0000.0000.000
74A77GLU-1-0.832-0.92039.887-0.040-0.0400.0000.0000.0000.000
75A78TYR00.006-0.02538.693-0.001-0.0010.0000.0000.0000.000
76A79SER0-0.067-0.02637.972-0.002-0.0020.0000.0000.0000.000
77A80PHE00.0020.00435.2690.0000.0000.0000.0000.0000.000
78A81VAL0-0.008-0.00236.323-0.001-0.0010.0000.0000.0000.000
79A82PHE00.0320.01531.505-0.002-0.0020.0000.0000.0000.000
80A83LYS10.9170.95535.6870.0890.0890.0000.0000.0000.000
81A84ARG10.9470.98535.5960.0460.0460.0000.0000.0000.000
82A85LYS10.9090.94635.6630.0700.0700.0000.0000.0000.000
83A86THR0-0.050-0.01831.374-0.007-0.0070.0000.0000.0000.000
84A87ASN0-0.008-0.04127.7610.0030.0030.0000.0000.0000.000
85A88TRP00.0270.03527.362-0.011-0.0110.0000.0000.0000.000
86A89PHE00.0830.02621.368-0.024-0.0240.0000.0000.0000.000
87A90LYS10.8980.95122.0360.1750.1750.0000.0000.0000.000
88A91ARG10.8220.90025.1180.0890.0890.0000.0000.0000.000
89A92ARG10.9210.96117.8680.1900.1900.0000.0000.0000.000
90A93ALA00.0630.01824.711-0.006-0.0060.0000.0000.0000.000
91A94SER0-0.005-0.02421.916-0.011-0.0110.0000.0000.0000.000
92A95LYS10.8890.97119.6670.2540.2540.0000.0000.0000.000
93A96PHE00.0310.01724.110-0.001-0.0010.0000.0000.0000.000
94A97MET0-0.0140.01225.7310.0060.0060.0000.0000.0000.000
95A98THR00.000-0.01722.928-0.002-0.0020.0000.0000.0000.000
96A99HIS00.0090.02422.6380.0090.0090.0000.0000.0000.000
97A100VAL00.0130.01926.7650.0040.0040.0000.0000.0000.000
98A101ALA00.009-0.00728.3740.0040.0040.0000.0000.0000.000
99A102SER0-0.055-0.03526.2710.0030.0030.0000.0000.0000.000
100A103GLN00.0500.03428.3630.0090.0090.0000.0000.0000.000
101A104PHE00.0280.00830.4810.0060.0060.0000.0000.0000.000
102A105ALA00.007-0.00430.7150.0050.0050.0000.0000.0000.000
103A106SER0-0.009-0.01529.2490.0050.0050.0000.0000.0000.000
104A107SER0-0.012-0.00831.9520.0050.0050.0000.0000.0000.000
105A108TYR00.033-0.01035.2120.0050.0050.0000.0000.0000.000
106A109VAL0-0.036-0.02434.3430.0050.0050.0000.0000.0000.000
107A110PHE0-0.046-0.01134.8770.0020.0020.0000.0000.0000.000
108A111TYR00.003-0.01337.0410.0030.0030.0000.0000.0000.000
109A112TRP0-0.0040.00139.9970.0030.0030.0000.0000.0000.000
110A113ARG10.9510.95341.8510.0530.0530.0000.0000.0000.000
111A114ASP-1-0.911-0.93843.675-0.059-0.0590.0000.0000.0000.000
112A115TYR0-0.044-0.02443.5480.0020.0020.0000.0000.0000.000
113A116PHE0-0.083-0.04544.8150.0030.0030.0000.0000.0000.000
114A117GLU-1-0.927-0.96046.929-0.040-0.0400.0000.0000.0000.000
115A118ASP-1-0.929-0.95849.097-0.033-0.0330.0000.0000.0000.000
116A119GLN0-0.053-0.01146.8680.0020.0020.0000.0000.0000.000
117A120PRO00.0020.00044.942-0.003-0.0030.0000.0000.0000.000
118A121LEU0-0.003-0.00237.8990.0010.0010.0000.0000.0000.000
119A122LEU0-0.028-0.02741.086-0.001-0.0010.0000.0000.0000.000
120A123TYR0-0.040-0.03136.9500.0030.0030.0000.0000.0000.000
121A124PRO00.0210.02233.1180.0000.0000.0000.0000.0000.000
122A125PRO0-0.0040.00234.5800.0020.0020.0000.0000.0000.000
123A126GLY00.0000.00132.577-0.005-0.0050.0000.0000.0000.000
124A127PHE0-0.014-0.02432.0890.0040.0040.0000.0000.0000.000
125A128ASP-1-0.933-0.95631.681-0.047-0.0470.0000.0000.0000.000
126A129GLY00.0450.02131.527-0.002-0.0020.0000.0000.0000.000
127A130ARG10.9010.96431.2600.0400.0400.0000.0000.0000.000
128A131VAL00.0270.00129.394-0.005-0.0050.0000.0000.0000.000
129A132VAL0-0.035-0.00332.4380.0060.0060.0000.0000.0000.000
130A133VAL00.004-0.00632.583-0.004-0.0040.0000.0000.0000.000
131A134TYR00.0060.00635.6740.0060.0060.0000.0000.0000.000
132A135PRO00.0320.01938.996-0.004-0.0040.0000.0000.0000.000
133A136SER00.0060.00140.172-0.001-0.0010.0000.0000.0000.000
134A137ASN00.0920.02543.330-0.003-0.0030.0000.0000.0000.000
135A138GLN0-0.042-0.02045.368-0.001-0.0010.0000.0000.0000.000
136A139THR00.0220.00243.306-0.001-0.0010.0000.0000.0000.000
137A140LEU00.0210.02040.7590.0000.0000.0000.0000.0000.000
138A141LYS10.9330.96143.7330.0320.0320.0000.0000.0000.000
139A142ASP-1-0.803-0.89247.213-0.026-0.0260.0000.0000.0000.000
140A143TYR0-0.0190.01440.1580.0020.0020.0000.0000.0000.000
141A144LEU00.032-0.00743.1780.0000.0000.0000.0000.0000.000
142A145SER00.0420.01145.8390.0010.0010.0000.0000.0000.000
143A146TRP0-0.0490.00042.4120.0000.0000.0000.0000.0000.000
144A147ARG10.8300.91442.6160.0340.0340.0000.0000.0000.000
145A148GLN00.0570.01746.6470.0010.0010.0000.0000.0000.000
146A149ALA0-0.048-0.02749.7660.0010.0010.0000.0000.0000.000
147A150ASP-1-0.903-0.96947.344-0.025-0.0250.0000.0000.0000.000
148A151CYS00.0110.01249.1430.0000.0000.0000.0000.0000.000
149A152HIS0-0.023-0.00950.5380.0000.0000.0000.0000.0000.000
150A153ILE0-0.019-0.02253.3330.0010.0010.0000.0000.0000.000
151A154ASN0-0.0040.00049.2480.0030.0030.0000.0000.0000.000
152A155ASN00.0680.05753.0890.0000.0000.0000.0000.0000.000
153A156LEU0-0.0270.01054.7260.0010.0010.0000.0000.0000.000
154A157TYR0-0.029-0.02055.5430.0010.0010.0000.0000.0000.000
155A158ASN00.025-0.01052.0390.0020.0020.0000.0000.0000.000
156A159THR00.002-0.02056.2600.0000.0000.0000.0000.0000.000
157A160VAL00.0310.01458.9760.0000.0000.0000.0000.0000.000
158A161PHE0-0.039-0.01656.0980.0010.0010.0000.0000.0000.000
159A162TRP00.013-0.01753.7460.0010.0010.0000.0000.0000.000
160A163ALA00.0180.03959.5010.0000.0000.0000.0000.0000.000
161A164LEU00.0240.00062.9940.0010.0010.0000.0000.0000.000
162A165ILE0-0.049-0.00858.6550.0010.0010.0000.0000.0000.000
163A166GLN0-0.082-0.04558.9010.0000.0000.0000.0000.0000.000
164A167GLN0-0.0110.00363.0910.0000.0000.0000.0000.0000.000
165A168SER0-0.021-0.01366.5380.0000.0000.0000.0000.0000.000
166A169GLY0-0.0020.02165.7120.0010.0010.0000.0000.0000.000
167A170LEU0-0.041-0.01264.9030.0010.0010.0000.0000.0000.000
168A171THR00.0240.00161.733-0.001-0.0010.0000.0000.0000.000
169A172PRO00.0580.00657.1520.0000.0000.0000.0000.0000.000
170A173VAL00.0240.01159.3100.0000.0000.0000.0000.0000.000
171A174GLN00.0110.00060.3700.0000.0000.0000.0000.0000.000
172A175ALA00.0290.01860.8500.0000.0000.0000.0000.0000.000
173A176GLN0-0.023-0.00757.0410.0000.0000.0000.0000.0000.000
174A177GLY0-0.001-0.00860.2820.0000.0000.0000.0000.0000.000
175A178ARG10.9110.96963.1350.0100.0100.0000.0000.0000.000
176A179LEU00.0220.00760.6030.0000.0000.0000.0000.0000.000
177A180GLN0-0.0390.00459.9100.0000.0000.0000.0000.0000.000
178A181GLY00.0090.00761.4660.0010.0010.0000.0000.0000.000
179A182THR0-0.067-0.03162.8470.0000.0000.0000.0000.0000.000
180A183LEU0-0.002-0.01162.306-0.001-0.0010.0000.0000.0000.000
181A184ALA0-0.016-0.02561.0370.0000.0000.0000.0000.0000.000
182A185ALA00.008-0.00362.711-0.001-0.0010.0000.0000.0000.000
183A186ASP-1-0.797-0.90065.894-0.011-0.0110.0000.0000.0000.000
184A187LYS10.9160.96358.5200.0140.0140.0000.0000.0000.000
185A188ASN0-0.024-0.01664.504-0.001-0.0010.0000.0000.0000.000
186A189GLU-1-0.923-0.95365.756-0.012-0.0120.0000.0000.0000.000
187A190ILE00.0440.02566.2660.0000.0000.0000.0000.0000.000
188A191LEU0-0.038-0.01562.3720.0000.0000.0000.0000.0000.000
189A192PHE0-0.0170.00266.9960.0000.0000.0000.0000.0000.000
190A193SER0-0.013-0.02070.0450.0000.0000.0000.0000.0000.000
191A194GLU-1-0.953-0.97969.401-0.011-0.0110.0000.0000.0000.000
192A195PHE0-0.046-0.02966.8880.0000.0000.0000.0000.0000.000
193A196ASN0-0.0460.00369.580-0.001-0.0010.0000.0000.0000.000
194A197ILE00.011-0.00364.382-0.001-0.0010.0000.0000.0000.000
195A198ASN0-0.025-0.01966.7680.0000.0000.0000.0000.0000.000
196A199TYR00.1050.04357.208-0.001-0.0010.0000.0000.0000.000
197A200ASN0-0.058-0.04461.901-0.002-0.0020.0000.0000.0000.000
198A201ASN0-0.0210.00163.066-0.001-0.0010.0000.0000.0000.000
199A202GLU-1-0.909-0.93959.144-0.024-0.0240.0000.0000.0000.000
200A203LEU00.0050.00255.971-0.001-0.0010.0000.0000.0000.000
201A204PRO00.024-0.00755.6830.0000.0000.0000.0000.0000.000
202A205MET0-0.018-0.00350.0330.0000.0000.0000.0000.0000.000
203A206TYR00.0190.00651.628-0.001-0.0010.0000.0000.0000.000
204A207ARG10.8750.95553.4500.0260.0260.0000.0000.0000.000
205A208LYS10.8260.91653.1510.0280.0280.0000.0000.0000.000
206A209GLY00.1240.10749.209-0.001-0.0010.0000.0000.0000.000
207A210THR0-0.033-0.03046.2170.0010.0010.0000.0000.0000.000
208A211VAL0-0.0190.00246.045-0.001-0.0010.0000.0000.0000.000
209A212LEU0-0.0110.00641.7230.0000.0000.0000.0000.0000.000
210A213ILE00.0300.00943.894-0.001-0.0010.0000.0000.0000.000
211A214TRP0-0.034-0.02838.2510.0010.0010.0000.0000.0000.000
212A215GLN00.0170.00344.7440.0030.0030.0000.0000.0000.000
213A216LYS10.9100.95045.7410.0590.0590.0000.0000.0000.000
214A217VAL00.0610.03847.9950.0020.0020.0000.0000.0000.000
215A218ASP-1-0.931-0.98348.912-0.053-0.0530.0000.0000.0000.000
216A219GLU-1-0.909-0.93749.159-0.059-0.0590.0000.0000.0000.000
217A220VAL0-0.012-0.01552.135-0.001-0.0010.0000.0000.0000.000
218A221MET00.0100.01350.1450.0000.0000.0000.0000.0000.000
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