FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: YNMM2

Calculation Name: 2I15-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2I15

Chain ID: A

ChEMBL ID:

UniProt ID: P75364

Base Structure: X-ray

Registration Date: 2025-07-08

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:

Apendix: None


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
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 236
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -913846.885764
FMO2-HF: Nuclear repulsion 863798.215262
FMO2-HF: Total energy -50048.670502
FMO2-MP2: Total energy -50193.634354


3D Structure Molmil
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:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
1.7453.880.04-0.999-1.1750.005
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.201 / q_NPA : 0.042
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].
4A2LYS10.8671.0703.1860.1290.6300.053-0.217-0.3370.001
5A3PRO00.110-0.0763.806-1.0220.524-0.010-0.780-0.7560.004
6A4GLN00.1580.0475.9810.1190.189-0.002-0.001-0.0670.000
7A4GLN0-0.0760.1139.3370.0080.0080.0000.0000.0000.000
8A5LEU00.150-0.1076.3250.2310.2310.0000.0000.0000.000
9A5LEU0-0.1190.1015.0910.0390.0390.0000.0000.0000.000
10A6LEU00.068-0.1025.8050.5700.5700.0000.0000.0000.000
11A6LEU0-0.1150.0705.240-0.265-0.247-0.001-0.001-0.0150.000
12A7ALA00.145-0.0536.4040.3640.3640.0000.0000.0000.000
13A7ALA0-0.0580.10310.2500.0180.0180.0000.0000.0000.000
14A8LEU00.115-0.1089.9960.1430.1430.0000.0000.0000.000
15A8LEU0-0.1010.12110.901-0.002-0.0020.0000.0000.0000.000
16A9LYS00.175-0.0749.5360.1970.1970.0000.0000.0000.000
17A9LYS10.8001.0437.7011.1211.1210.0000.0000.0000.000
18A10GLN00.041-0.10010.2900.1670.1670.0000.0000.0000.000
19A10GLN0-0.1160.07710.1940.0170.0170.0000.0000.0000.000
20A11PHE00.102-0.05711.8660.0910.0910.0000.0000.0000.000
21A11PHE0-0.0840.08114.449-0.008-0.0080.0000.0000.0000.000
22A12VAL00.106-0.06114.6450.0440.0440.0000.0000.0000.000
23A12VAL0-0.0520.09714.2920.0050.0050.0000.0000.0000.000
24A13GLN00.117-0.06914.3420.0890.0890.0000.0000.0000.000
25A13GLN0-0.1240.05112.093-0.007-0.0070.0000.0000.0000.000
26A14THR00.103-0.05015.6630.0580.0580.0000.0000.0000.000
27A14THR0-0.0800.03015.405-0.014-0.0140.0000.0000.0000.000
28A15GLU00.061-0.11317.6280.0360.0360.0000.0000.0000.000
29A15GLU-1-0.992-0.85618.796-0.335-0.3350.0000.0000.0000.000
30A16PHE00.092-0.10319.1660.0300.0300.0000.0000.0000.000
31A16PHE0-0.1200.07018.9690.0130.0130.0000.0000.0000.000
32A17GLU00.045-0.12420.0060.0400.0400.0000.0000.0000.000
33A17GLU-1-1.037-0.85417.622-0.414-0.4140.0000.0000.0000.000
34A18LYS00.019-0.08521.6010.0210.0210.0000.0000.0000.000
35A18LYS10.7491.01921.7480.2930.2930.0000.0000.0000.000
36A19VAL0-0.027-0.10823.9350.0040.0040.0000.0000.0000.000
37A19VAL0-0.0390.09624.4760.0040.0040.0000.0000.0000.000
38A20ASP00.173-0.08226.065-0.003-0.0030.0000.0000.0000.000
39A20ASP-1-0.939-0.80930.323-0.105-0.1050.0000.0000.0000.000
40A21PHE00.128-0.06626.4590.0030.0030.0000.0000.0000.000
41A21PHE0-0.0800.06724.9060.0030.0030.0000.0000.0000.000
42A22GLU00.106-0.11627.3540.0060.0060.0000.0000.0000.000
43A22GLU-1-0.892-0.75331.604-0.061-0.0610.0000.0000.0000.000
44A23THR00.035-0.08730.5850.0120.0120.0000.0000.0000.000
45A23THR0-0.0580.03330.7060.0010.0010.0000.0000.0000.000
46A24PHE00.059-0.09426.6370.0090.0090.0000.0000.0000.000
47A24PHE0-0.0640.09322.867-0.004-0.0040.0000.0000.0000.000
48A25ARG00.082-0.09527.5610.0060.0060.0000.0000.0000.000
49A25ARG10.7280.98928.1250.0440.0440.0000.0000.0000.000
50A26GLN00.053-0.07028.4600.0120.0120.0000.0000.0000.000
51A26GLN0-0.1070.05432.614-0.004-0.0040.0000.0000.0000.000
52A27ASN00.102-0.04330.3070.0110.0110.0000.0000.0000.000
53A27ASN0-0.0820.07229.3330.0060.0060.0000.0000.0000.000
54A28PHE00.180-0.03526.7950.0050.0050.0000.0000.0000.000
55A28PHE0-0.1090.07923.513-0.002-0.0020.0000.0000.0000.000
56A29ASN00.100-0.06827.9300.0090.0090.0000.0000.0000.000
57A29ASN0-0.1360.03629.2420.0020.0020.0000.0000.0000.000
58A30ARG00.095-0.04430.4480.0100.0100.0000.0000.0000.000
59A30ARG10.8551.01632.7870.0440.0440.0000.0000.0000.000
60A31CYS00.050-0.11829.3140.0060.0060.0000.0000.0000.000
61A31CYS0-0.1220.05828.622-0.005-0.0050.0000.0000.0000.000
62A32LEU00.172-0.02728.8800.0040.0040.0000.0000.0000.000
63A32LEU0-0.1720.05326.8980.0010.0010.0000.0000.0000.000
64A33GLU00.125-0.10629.5400.0090.0090.0000.0000.0000.000
65A33GLU-1-1.077-0.87333.865-0.005-0.0050.0000.0000.0000.000
66A34ARG00.039-0.12132.7510.0060.0060.0000.0000.0000.000
67A34ARG10.7701.02632.7240.0230.0230.0000.0000.0000.000
68A35GLU00.269-0.03129.7790.0010.0010.0000.0000.0000.000
69A35GLU-1-0.982-0.83027.9540.0130.0130.0000.0000.0000.000
70A36GLN0-0.060-0.11731.2900.0070.0070.0000.0000.0000.000
71A36GLN0-0.1580.04428.5780.0080.0080.0000.0000.0000.000
72A37SER00.074-0.09532.4510.0070.0070.0000.0000.0000.000
73A37SER0-0.0320.09735.573-0.002-0.0020.0000.0000.0000.000
74A38THR0-0.095-0.09435.2940.0000.0000.0000.0000.0000.000
75A38THR0-0.0730.03634.1990.0040.0040.0000.0000.0000.000
76A39LEU00.168-0.08836.5290.0030.0030.0000.0000.0000.000
77A39LEU0-0.1180.09640.201-0.001-0.0010.0000.0000.0000.000
78A40LEU00.087-0.11639.0930.0020.0020.0000.0000.0000.000
79A40LEU0-0.1250.11539.7120.0000.0000.0000.0000.0000.000
80A41ILE00.208-0.06635.898-0.006-0.0060.0000.0000.0000.000
81A41ILE0-0.0880.09233.4960.0010.0010.0000.0000.0000.000
82A42TYR0-0.025-0.09635.861-0.002-0.0020.0000.0000.0000.000
83A42TYR0-0.0740.06638.4390.0010.0010.0000.0000.0000.000
84A43GLU00.156-0.09538.141-0.003-0.0030.0000.0000.0000.000
85A43GLU-1-1.038-0.88939.450-0.014-0.0140.0000.0000.0000.000
86A44ASP0-0.081-0.15334.782-0.008-0.0080.0000.0000.0000.000
87A44ASP-1-0.894-0.82533.5380.0050.0050.0000.0000.0000.000
88A45ASP0-0.078-0.07732.2250.0010.0010.0000.0000.0000.000
89A45ASP-1-1.033-0.93530.597-0.051-0.0510.0000.0000.0000.000
90A46ASP00.216-0.04430.0210.0000.0000.0000.0000.0000.000
91A46ASP-1-0.922-0.82930.7710.0220.0220.0000.0000.0000.000
92A47TYR0-0.072-0.13428.821-0.006-0.0060.0000.0000.0000.000
93A47TYR0-0.1450.02229.4580.0020.0020.0000.0000.0000.000
94A48ASP00.073-0.13925.609-0.011-0.0110.0000.0000.0000.000
95A48ASP-1-0.991-0.82025.423-0.032-0.0320.0000.0000.0000.000
96A49ASP0-0.032-0.18223.9340.0030.0030.0000.0000.0000.000
97A49ASP-1-0.769-0.73726.4570.0390.0390.0000.0000.0000.000
98A50GLN00.074-0.08523.141-0.009-0.0090.0000.0000.0000.000
99A50GLN0-0.0910.10222.142-0.001-0.0010.0000.0000.0000.000
100A51SER00.185-0.04823.948-0.001-0.0010.0000.0000.0000.000
101A51SER0-0.0690.04825.1080.0060.0060.0000.0000.0000.000
102A52PHE00.046-0.12925.438-0.011-0.0110.0000.0000.0000.000
103A52PHE0-0.0980.07925.5450.0040.0040.0000.0000.0000.000
104A53PHE00.063-0.08626.7990.0000.0000.0000.0000.0000.000
105A53PHE0-0.0690.10927.1070.0080.0080.0000.0000.0000.000
106A54LEU00.218-0.08428.2400.0000.0000.0000.0000.0000.000
107A54LEU0-0.1320.14228.4490.0010.0010.0000.0000.0000.000
108A55LYS00.158-0.07629.903-0.006-0.0060.0000.0000.0000.000
109A55LYS10.7180.99729.334-0.080-0.0800.0000.0000.0000.000
110A56PRO0-0.168-0.17130.757-0.005-0.0050.0000.0000.0000.000
111A57MET00.1940.03932.776-0.001-0.0010.0000.0000.0000.000
112A57MET0-0.0470.15032.6280.0010.0010.0000.0000.0000.000
113A58LEU00.134-0.07634.212-0.004-0.0040.0000.0000.0000.000
114A58LEU0-0.1580.07934.396-0.001-0.0010.0000.0000.0000.000
115A59SER00.022-0.09536.090-0.005-0.0050.0000.0000.0000.000
116A59SER0-0.0620.04936.8540.0000.0000.0000.0000.0000.000
117A60ASP00.012-0.09637.242-0.003-0.0030.0000.0000.0000.000
118A60ASP-1-1.021-0.87736.6060.0640.0640.0000.0000.0000.000
119A61ALA00.137-0.11638.200-0.001-0.0010.0000.0000.0000.000
120A61ALA0-0.0090.14138.343-0.001-0.0010.0000.0000.0000.000
121A62PHE00.091-0.10439.976-0.005-0.0050.0000.0000.0000.000
122A62PHE0-0.1290.06339.7910.0000.0000.0000.0000.0000.000
123A63PHE00.046-0.11942.132-0.004-0.0040.0000.0000.0000.000
124A63PHE0-0.0880.10542.6550.0010.0010.0000.0000.0000.000
125A64ILE00.030-0.09342.904-0.001-0.0010.0000.0000.0000.000
126A64ILE0-0.0440.12141.2270.0000.0000.0000.0000.0000.000
127A65SER00.132-0.05743.895-0.001-0.0010.0000.0000.0000.000
128A65SER0-0.0560.05143.897-0.001-0.0010.0000.0000.0000.000
129A66SER00.056-0.06845.547-0.002-0.0020.0000.0000.0000.000
130A66SER0-0.1010.03846.9090.0000.0000.0000.0000.0000.000
131A67GLU00.020-0.14147.564-0.002-0.0020.0000.0000.0000.000
132A67GLU-1-1.026-0.85847.8480.0300.0300.0000.0000.0000.000
133A68VAL00.043-0.11348.3180.0000.0000.0000.0000.0000.000
134A68VAL0-0.0800.10847.3260.0000.0000.0000.0000.0000.000
135A69VAL00.075-0.09649.929-0.001-0.0010.0000.0000.0000.000
136A69VAL0-0.0770.10049.219-0.001-0.0010.0000.0000.0000.000
137A70LYS00.015-0.08451.772-0.002-0.0020.0000.0000.0000.000
138A70LYS10.8141.04151.804-0.027-0.0270.0000.0000.0000.000
139A71GLN00.143-0.07754.0520.0020.0020.0000.0000.0000.000
140A71GLN0-0.1210.09855.5440.0010.0010.0000.0000.0000.000
141A72LEU00.007-0.06456.721-0.002-0.0020.0000.0000.0000.000
142A72LEU0-0.1430.02056.7700.0000.0000.0000.0000.0000.000
143A73ASP00.081-0.15258.1710.0010.0010.0000.0000.0000.000
144A73ASP-1-0.978-0.80658.3800.0180.0180.0000.0000.0000.000
145A74LEU0-0.068-0.18160.1350.0000.0000.0000.0000.0000.000
146A74LEU00.0550.04761.8350.0000.0000.0000.0000.0000.000
147A82PRO00.004-0.03063.7310.0000.0000.0000.0000.0000.000
148A83LYS00.0670.08463.2670.0010.0010.0000.0000.0000.000
149A83LYS10.8130.97064.411-0.009-0.0090.0000.0000.0000.000
150A84GLY00.175-0.00960.4240.0000.0000.0000.0000.0000.000
151A85ASP00.0030.01461.0880.0010.0010.0000.0000.0000.000
152A85ASP-1-0.910-0.81560.8520.0050.0050.0000.0000.0000.000
153A86VAL00.183-0.07158.6010.0010.0010.0000.0000.0000.000
154A86VAL0-0.0950.09157.7800.0000.0000.0000.0000.0000.000
155A87LYS00.056-0.13357.1680.0010.0010.0000.0000.0000.000
156A87LYS10.8201.09358.116-0.004-0.0040.0000.0000.0000.000
157A88SER00.088-0.06156.431-0.001-0.0010.0000.0000.0000.000
158A88SER0-0.0380.03758.0890.0000.0000.0000.0000.0000.000
159A89CYS00.098-0.11754.759-0.001-0.0010.0000.0000.0000.000
160A89CYS0-0.0930.11354.6380.0010.0010.0000.0000.0000.000
161A90CYS00.059-0.11552.4810.0010.0010.0000.0000.0000.000
162A90CYS0-0.1290.07153.4220.0000.0000.0000.0000.0000.000
163A91GLN00.081-0.08751.8260.0000.0000.0000.0000.0000.000
164A91GLN0-0.1010.10353.6380.0010.0010.0000.0000.0000.000
165A92SER00.058-0.09851.349-0.002-0.0020.0000.0000.0000.000
166A92SER00.0010.09751.2330.0000.0000.0000.0000.0000.000
167A93PHE00.144-0.07648.108-0.001-0.0010.0000.0000.0000.000
168A93PHE0-0.1510.08544.9980.0000.0000.0000.0000.0000.000
169A94TYR00.059-0.08746.8860.0000.0000.0000.0000.0000.000
170A94TYR0-0.1250.04748.083-0.001-0.0010.0000.0000.0000.000
171A95GLU00.002-0.14047.047-0.002-0.0020.0000.0000.0000.000
172A95GLU-1-0.963-0.83049.714-0.005-0.0050.0000.0000.0000.000
173A96ALA00.112-0.09245.421-0.004-0.0040.0000.0000.0000.000
174A96ALA0-0.0480.12344.6830.0010.0010.0000.0000.0000.000
175A97LEU00.057-0.10442.619-0.001-0.0010.0000.0000.0000.000
176A97LEU0-0.1280.10441.6270.0000.0000.0000.0000.0000.000
177A98THR00.010-0.07442.827-0.001-0.0010.0000.0000.0000.000
178A98THR0-0.0030.08744.169-0.001-0.0010.0000.0000.0000.000
179A99LEU00.153-0.15240.589-0.002-0.0020.0000.0000.0000.000
180A99LEU00.0090.19337.6970.0000.0000.0000.0000.0000.000
181A100PHE00.113-0.09738.671-0.004-0.0040.0000.0000.0000.000
182A100PHE0-0.0700.10636.5520.0010.0010.0000.0000.0000.000
183A101ILE00.090-0.12639.6340.0000.0000.0000.0000.0000.000
184A101ILE0-0.1410.10143.4180.0000.0000.0000.0000.0000.000
185A102SER00.007-0.09741.8620.0010.0010.0000.0000.0000.000
186A102SER00.0170.08941.2660.0000.0000.0000.0000.0000.000
187A103ALA00.164-0.07037.169-0.004-0.0040.0000.0000.0000.000
188A103ALA0-0.0020.17036.1710.0000.0000.0000.0000.0000.000
189A104LEU00.041-0.07637.775-0.003-0.0030.0000.0000.0000.000
190A104LEU0-0.1160.08837.9900.0010.0010.0000.0000.0000.000
191A105ALA00.082-0.07939.1910.0010.0010.0000.0000.0000.000
192A105ALA0-0.0550.09042.3130.0000.0000.0000.0000.0000.000
193A106ILE00.026-0.13338.0630.0000.0000.0000.0000.0000.000
194A106ILE0-0.0360.10736.593-0.001-0.0010.0000.0000.0000.000
195A107THR00.016-0.08235.844-0.005-0.0050.0000.0000.0000.000
196A107THR0-0.0960.03534.1990.0000.0000.0000.0000.0000.000
197A108LYS00.022-0.09136.6650.0000.0000.0000.0000.0000.000
198A108LYS10.7651.01739.7090.0040.0040.0000.0000.0000.000
199A109GLY00.012-0.09739.1460.0010.0010.0000.0000.0000.000
200A110VAL00.038-0.00540.5490.0000.0000.0000.0000.0000.000
201A110VAL0-0.1350.05843.1220.0010.0010.0000.0000.0000.000
202A111ASP00.161-0.07443.458-0.002-0.0020.0000.0000.0000.000
203A111ASP-1-1.081-0.87747.516-0.030-0.0300.0000.0000.0000.000
204A112VAL00.111-0.11944.5160.0040.0040.0000.0000.0000.000
205A112VAL00.0000.15342.5650.0000.0000.0000.0000.0000.000
206A113GLY00.026-0.09145.317-0.001-0.0010.0000.0000.0000.000
207A114ARG00.1340.01248.7840.0020.0020.0000.0000.0000.000
208A114ARG10.8541.05949.1550.0180.0180.0000.0000.0000.000
209A115TYR00.041-0.08446.1240.0030.0030.0000.0000.0000.000
210A115TYR0-0.0620.09143.0260.0000.0000.0000.0000.0000.000
211A116HIS00.082-0.11047.6340.0030.0030.0000.0000.0000.000
212A116HIS0-0.1060.09244.6770.0020.0020.0000.0000.0000.000
213A117GLN00.193-0.05448.8380.0020.0020.0000.0000.0000.000
214A117GLN0-0.1610.07052.2330.0000.0000.0000.0000.0000.000
215A118GLN00.058-0.10151.2650.0010.0010.0000.0000.0000.000
216A118GLN0-0.1420.05649.3270.0000.0000.0000.0000.0000.000
217A119LEU00.069-0.14449.6020.0020.0020.0000.0000.0000.000
218A119LEU0-0.0790.13047.3350.0000.0000.0000.0000.0000.000
219A120GLY00.014-0.10150.7230.0020.0020.0000.0000.0000.000
220A121LYS00.1300.06853.7420.0010.0010.0000.0000.0000.000
221A121LYS10.8181.03155.8870.0040.0040.0000.0000.0000.000
222A122ARG00.076-0.07653.7010.0010.0010.0000.0000.0000.000
223A122ARG10.8201.02849.269-0.006-0.0060.0000.0000.0000.000
224A123PHE0-0.006-0.09253.6060.0010.0010.0000.0000.0000.000
225A123PHE0-0.0580.08450.1030.0010.0010.0000.0000.0000.000
226A124GLY0-0.002-0.13554.911-0.001-0.0010.0000.0000.0000.000
227A125VAL00.036-0.00553.6370.0010.0010.0000.0000.0000.000
228A125VAL0-0.0590.09751.8490.0000.0000.0000.0000.0000.000
229A126LEU00.144-0.10955.149-0.001-0.0010.0000.0000.0000.000
230A126LEU0-0.1050.11355.6840.0000.0000.0000.0000.0000.000
231A127THR00.056-0.07451.9230.0000.0000.0000.0000.0000.000
232A127THR0-0.1050.03951.1370.0000.0000.0000.0000.0000.000
233A128VAL00.085-0.08649.5260.0000.0000.0000.0000.0000.000
234A128VAL0-0.0560.12748.0330.0000.0000.0000.0000.0000.000
235A129TYR0-0.067-0.09650.864-0.001-0.0010.0000.0000.0000.000
236A129TYR00.0760.03045.765-0.001-0.0010.0000.0000.0000.000