FMODB

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

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: LN1Q9

Calculation Name: 2FB5-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2FB5

Chain ID: A

ChEMBL ID:

UniProt ID: Q812L9

Base Structure: X-ray

Registration Date: 2023-09-24

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 OptAll
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 204
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2153240.129329
FMO2-HF: Nuclear repulsion 2074154.467608
FMO2-HF: Total energy -79085.661722
FMO2-MP2: Total energy -79315.656512


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:2:SER)


Summations of interaction energy for fragment #1(A:2: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.
-31.603-32.84922.757-11.553-9.954-0.11
Interaction energy analysis for fragmet #1(A:2:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.001 / q_NPA : -0.033
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].
3A4ALA00.0880.0323.844-1.774-0.561-0.003-0.486-0.7240.003
4A5MET0-0.0160.0015.543-0.023-0.0230.0000.0000.0000.000
5A6HIS0-0.071-0.0413.4080.5670.8790.000-0.109-0.2030.000
6A7GLU-1-0.761-0.8722.006-10.958-10.3667.007-4.038-3.561-0.051
7A8TRP0-0.036-0.0115.1880.3100.347-0.001-0.002-0.0330.000
8A9GLY00.0340.0098.6240.0480.0480.0000.0000.0000.000
9A10LEU00.002-0.0055.6190.0910.0910.0000.0000.0000.000
10A11SER0-0.020-0.0228.9000.0620.0620.0000.0000.0000.000
11A12GLU-1-0.826-0.90311.039-0.051-0.0510.0000.0000.0000.000
12A13GLU-1-0.895-0.94712.627-0.061-0.0610.0000.0000.0000.000
13A14LEU0-0.0080.00511.2230.0210.0210.0000.0000.0000.000
14A15LYS10.7910.90014.7030.1420.1420.0000.0000.0000.000
15A16ILE0-0.015-0.00516.8430.0220.0220.0000.0000.0000.000
16A17GLN00.0200.00315.974-0.011-0.0110.0000.0000.0000.000
17A18THR0-0.027-0.03218.1230.0080.0080.0000.0000.0000.000
18A19LYS10.9150.96420.6380.0680.0680.0000.0000.0000.000
19A20GLN00.0480.02621.985-0.001-0.0010.0000.0000.0000.000
20A21MET0-0.018-0.00423.3620.0090.0090.0000.0000.0000.000
21A22ILE0-0.015-0.00424.4030.0040.0040.0000.0000.0000.000
22A23GLU-1-0.882-0.94825.862-0.045-0.0450.0000.0000.0000.000
23A24ILE0-0.050-0.02926.5220.0060.0060.0000.0000.0000.000
24A25ALA00.0250.01329.3720.0040.0040.0000.0000.0000.000
25A26GLU-1-0.925-0.97130.634-0.041-0.0410.0000.0000.0000.000
26A27LYS10.9250.97232.5710.0350.0350.0000.0000.0000.000
27A28GLU-1-0.796-0.87933.904-0.036-0.0360.0000.0000.0000.000
28A29LEU00.0310.01134.2070.0030.0030.0000.0000.0000.000
29A30SER0-0.105-0.06136.9880.0040.0040.0000.0000.0000.000
30A31ILE0-0.028-0.01738.4080.0030.0030.0000.0000.0000.000
31A32MET00.0140.00538.2520.0020.0020.0000.0000.0000.000
32A33ARG10.8720.92141.2620.0270.0270.0000.0000.0000.000
33A34ASN00.0100.00442.8100.0020.0020.0000.0000.0000.000
34A35ALA00.0090.01244.3020.0010.0010.0000.0000.0000.000
35A36ILE0-0.042-0.02545.9650.0000.0000.0000.0000.0000.000
36A37ASP-1-0.958-0.95747.774-0.020-0.0200.0000.0000.0000.000
37A38LYS10.7730.87848.0360.0220.0220.0000.0000.0000.000
38A39GLU-1-0.902-0.95251.350-0.021-0.0210.0000.0000.0000.000
39A40ASP-1-0.987-0.99351.637-0.019-0.0190.0000.0000.0000.000
40A41GLU-1-0.886-0.93045.701-0.025-0.0250.0000.0000.0000.000
41A42CYS00.026-0.00247.4640.0000.0000.0000.0000.0000.000
42A43ILE00.0470.02143.394-0.002-0.0020.0000.0000.0000.000
43A44LEU00.0150.00442.701-0.002-0.0020.0000.0000.0000.000
44A45CYS0-0.073-0.03642.475-0.002-0.0020.0000.0000.0000.000
45A46LYS10.8750.93237.9940.0360.0360.0000.0000.0000.000
46A47MET0-0.045-0.02137.794-0.003-0.0030.0000.0000.0000.000
47A48GLU-1-0.941-0.96535.825-0.058-0.0580.0000.0000.0000.000
48A49ASP-1-0.870-0.94134.198-0.053-0.0530.0000.0000.0000.000
49A50ILE0-0.013-0.01032.724-0.005-0.0050.0000.0000.0000.000
50A51HIS00.0160.00432.338-0.007-0.0070.0000.0000.0000.000
51A52HIS00.0290.02528.138-0.010-0.0100.0000.0000.0000.000
52A53MET0-0.0280.00128.522-0.008-0.0080.0000.0000.0000.000
53A54LEU00.0170.01027.454-0.007-0.0070.0000.0000.0000.000
54A55ALA0-0.002-0.00227.256-0.008-0.0080.0000.0000.0000.000
55A56ASN0-0.038-0.03324.090-0.019-0.0190.0000.0000.0000.000
56A57VAL0-0.0040.00322.852-0.013-0.0130.0000.0000.0000.000
57A58GLN0-0.036-0.01322.645-0.019-0.0190.0000.0000.0000.000
58A59THR00.010-0.01519.900-0.009-0.0090.0000.0000.0000.000
59A60LEU0-0.042-0.00618.428-0.030-0.0300.0000.0000.0000.000
60A61ALA00.0500.02717.608-0.024-0.0240.0000.0000.0000.000
61A62ALA0-0.025-0.01417.925-0.014-0.0140.0000.0000.0000.000
62A63THR0-0.023-0.03013.533-0.034-0.0340.0000.0000.0000.000
63A64TYR0-0.0130.00213.424-0.052-0.0520.0000.0000.0000.000
64A65TYR0-0.010-0.01213.190-0.025-0.0250.0000.0000.0000.000
65A66ILE0-0.0130.00211.641-0.002-0.0020.0000.0000.0000.000
66A67GLN0-0.008-0.0025.4410.0710.0710.0000.0000.0000.000
67A68ALA0-0.0100.0058.654-0.015-0.0150.0000.0000.0000.000
68A69TYR0-0.022-0.01210.5250.0760.0760.0000.0000.0000.000
69A70LEU00.0060.0019.1800.0690.0690.0000.0000.0000.000
70A71SER00.0150.0004.480-0.0030.050-0.001-0.006-0.0450.000
71A72PRO0-0.056-0.0293.8140.4820.8470.002-0.101-0.266-0.001
72A73TYR0-0.035-0.0125.7720.3620.3620.0000.0000.0000.000
73A74THR0-0.079-0.0645.486-0.407-0.4070.0000.0000.0000.000
74A75GLU-1-0.769-0.8351.723-23.217-27.41515.753-6.651-4.903-0.061
75A76SER0-0.036-0.0324.9650.5990.631-0.001-0.006-0.0240.000
76A77SER00.0260.0217.6610.2650.2650.0000.0000.0000.000
77A78SER00.0620.0439.1720.1640.1640.0000.0000.0000.000
78A79PHE00.0140.00911.0620.1380.1380.0000.0000.0000.000
79A80ILE00.0470.01811.1060.0960.0960.0000.0000.0000.000
80A81THR0-0.016-0.02013.0150.0900.0900.0000.0000.0000.000
81A82THR0-0.042-0.02914.8280.0600.0600.0000.0000.0000.000
82A83ALA00.0030.00217.0620.0410.0410.0000.0000.0000.000
83A84ILE00.0050.00818.2060.0370.0370.0000.0000.0000.000
84A85GLN0-0.007-0.00417.8410.0370.0370.0000.0000.0000.000
85A86HIS0-0.095-0.06621.1190.0310.0310.0000.0000.0000.000
86A87LEU0-0.033-0.01421.6870.0190.0190.0000.0000.0000.000
87A88SER0-0.015-0.01123.9610.0180.0180.0000.0000.0000.000
88A89ALA0-0.008-0.00725.6500.0150.0150.0000.0000.0000.000
89A90ARG10.7740.86324.6370.1820.1820.0000.0000.0000.000
90A91LYS10.8980.96328.8000.1150.1150.0000.0000.0000.000
91A92HIS0-0.035-0.01327.238-0.001-0.0010.0000.0000.0000.000
92A93GLY00.0350.02926.745-0.011-0.0110.0000.0000.0000.000
93A94ALA0-0.007-0.00722.772-0.003-0.0030.0000.0000.0000.000
94A95LEU0-0.039-0.01722.5050.0080.0080.0000.0000.0000.000
95A96ILE0-0.009-0.00516.040-0.004-0.0040.0000.0000.0000.000
96A97VAL00.0270.01816.643-0.002-0.0020.0000.0000.0000.000
97A98VAL0-0.022-0.00910.972-0.042-0.0420.0000.0000.0000.000
98A99GLU-1-0.785-0.89313.086-0.120-0.1200.0000.0000.0000.000
99A100ARG10.7470.86211.0720.0390.0390.0000.0000.0000.000
100A101ASN0-0.056-0.03111.8110.0570.0570.0000.0000.0000.000
101A102GLU-1-0.902-0.94613.365-0.010-0.0100.0000.0000.0000.000
102A103THR0-0.071-0.04815.557-0.018-0.0180.0000.0000.0000.000
103A104LEU00.022-0.00116.8310.0070.0070.0000.0000.0000.000
104A105GLU-1-0.829-0.89219.737-0.077-0.0770.0000.0000.0000.000
105A106ALA0-0.049-0.03121.8900.0020.0020.0000.0000.0000.000
106A107LEU0-0.079-0.03921.8460.0050.0050.0000.0000.0000.000
107A108ILE0-0.007-0.00619.671-0.007-0.0070.0000.0000.0000.000
108A109GLN00.0000.00423.857-0.001-0.0010.0000.0000.0000.000
109A110THR0-0.013-0.00923.068-0.010-0.0100.0000.0000.0000.000
110A111GLY00.0190.03024.8390.0100.0100.0000.0000.0000.000
111A112THR0-0.060-0.04224.8060.0110.0110.0000.0000.0000.000
112A113THR0-0.014-0.01120.574-0.013-0.0130.0000.0000.0000.000
113A114LEU0-0.057-0.02919.4160.0090.0090.0000.0000.0000.000
114A115ASN0-0.058-0.03316.555-0.005-0.0050.0000.0000.0000.000
115A116ALA00.0150.02616.7100.0000.0000.0000.0000.0000.000
116A117HIS00.0170.00510.924-0.058-0.0580.0000.0000.0000.000
117A118LEU0-0.0010.01011.4260.0810.0810.0000.0000.0000.000
118A119THR0-0.012-0.01613.271-0.023-0.0230.0000.0000.0000.000
119A120ALA00.0450.02215.7600.0190.0190.0000.0000.0000.000
120A121PRO00.0590.01417.8000.0200.0200.0000.0000.0000.000
121A122LEU0-0.0160.01217.6850.0250.0250.0000.0000.0000.000
122A123LEU00.0370.00915.2770.0190.0190.0000.0000.0000.000
123A124GLU-1-0.792-0.87719.710-0.200-0.2000.0000.0000.0000.000
124A125SER0-0.035-0.02722.8740.0220.0220.0000.0000.0000.000
125A126ILE0-0.034-0.00520.2150.0130.0130.0000.0000.0000.000
126A127PHE00.0450.01621.0020.0100.0100.0000.0000.0000.000
127A128TYR0-0.0020.01525.6100.0110.0110.0000.0000.0000.000
128A129PRO00.011-0.00228.4190.0040.0040.0000.0000.0000.000
129A130GLY0-0.008-0.00531.5980.0030.0030.0000.0000.0000.000
130A131ASN0-0.081-0.04227.3210.0050.0050.0000.0000.0000.000
131A132PRO0-0.012-0.02929.975-0.001-0.0010.0000.0000.0000.000
132A133LEU0-0.023-0.00624.4070.0000.0000.0000.0000.0000.000
133A134HIS0-0.0200.00626.118-0.004-0.0040.0000.0000.0000.000
134A135ASP-1-0.909-0.95227.777-0.106-0.1060.0000.0000.0000.000
135A136GLY00.0150.01626.9700.0000.0000.0000.0000.0000.000
136A137ALA0-0.042-0.03421.835-0.007-0.0070.0000.0000.0000.000
137A138VAL0-0.022-0.01117.3890.0020.0020.0000.0000.0000.000
138A139LEU0-0.0160.00416.1640.0040.0040.0000.0000.0000.000
139A140VAL0-0.016-0.01310.975-0.019-0.0190.0000.0000.0000.000
140A141LYS10.8710.9199.9530.2070.2070.0000.0000.0000.000
141A142ASN00.027-0.0063.2220.6110.9590.001-0.154-0.1950.000
142A143ASN00.0150.0275.2210.3380.3380.0000.0000.0000.000
143A144HIS0-0.004-0.0038.7340.2210.2210.0000.0000.0000.000
144A145ILE00.0180.00912.1250.0160.0160.0000.0000.0000.000
145A146VAL00.0370.01814.4040.0280.0280.0000.0000.0000.000
146A147SER00.0500.01616.7070.0250.0250.0000.0000.0000.000
147A148ALA0-0.0020.00019.675-0.022-0.0220.0000.0000.0000.000
148A149ALA00.0540.02822.4660.0110.0110.0000.0000.0000.000
149A150ASN0-0.045-0.01520.9960.0220.0220.0000.0000.0000.000
150A151ILE00.0020.00224.9780.0010.0010.0000.0000.0000.000
151A152LEU00.0360.02122.261-0.001-0.0010.0000.0000.0000.000
152A153PRO0-0.033-0.00925.4400.0070.0070.0000.0000.0000.000
153A154LEU00.0080.00327.974-0.003-0.0030.0000.0000.0000.000
154A155THR00.004-0.02929.5130.0080.0080.0000.0000.0000.000
155A156LYS10.8330.90330.9660.0610.0610.0000.0000.0000.000
156A157SER0-0.0090.01932.5960.0050.0050.0000.0000.0000.000
157A158THR00.011-0.03434.535-0.002-0.0020.0000.0000.0000.000
158A159GLU-1-0.934-0.91834.325-0.041-0.0410.0000.0000.0000.000
159A160VAL0-0.061-0.03531.971-0.004-0.0040.0000.0000.0000.000
160A161ASP-1-0.872-0.93932.940-0.070-0.0700.0000.0000.0000.000
161A162PRO0-0.027-0.03234.808-0.003-0.0030.0000.0000.0000.000
162A163GLU-1-0.935-0.95435.943-0.060-0.0600.0000.0000.0000.000
163A164LEU0-0.076-0.02730.178-0.007-0.0070.0000.0000.0000.000
164A165GLY00.0760.03233.1570.0030.0030.0000.0000.0000.000
165A166THR0-0.021-0.02931.297-0.005-0.0050.0000.0000.0000.000
166A167ARG10.8680.91326.4170.1250.1250.0000.0000.0000.000
167A168HIS00.0770.02926.507-0.006-0.0060.0000.0000.0000.000
168A169ARG10.9290.95827.3350.0690.0690.0000.0000.0000.000
169A170ALA0-0.0060.00326.2170.0060.0060.0000.0000.0000.000
170A171ALA00.0250.01523.0510.0000.0000.0000.0000.0000.000
171A172ILE00.0110.00323.5310.0010.0010.0000.0000.0000.000
172A173GLY00.0300.01525.5620.0050.0050.0000.0000.0000.000
173A174LEU0-0.005-0.00119.9860.0060.0060.0000.0000.0000.000
174A175SER00.0040.00521.6530.0070.0070.0000.0000.0000.000
175A176GLU-1-0.846-0.89422.583-0.052-0.0520.0000.0000.0000.000
176A177LYS10.7350.85124.0260.0640.0640.0000.0000.0000.000
177A178SER00.0350.03319.301-0.002-0.0020.0000.0000.0000.000
178A179ASP-1-0.802-0.90814.864-0.027-0.0270.0000.0000.0000.000
179A180ALA0-0.0040.01815.919-0.013-0.0130.0000.0000.0000.000
180A181LEU0-0.0020.00314.2070.0100.0100.0000.0000.0000.000
181A182ILE0-0.047-0.01716.382-0.030-0.0300.0000.0000.0000.000
182A183LEU00.0070.00615.3570.0160.0160.0000.0000.0000.000
183A184VAL0-0.017-0.02019.5040.0060.0060.0000.0000.0000.000
184A185VAL0-0.027-0.00723.118-0.005-0.0050.0000.0000.0000.000
185A186SER00.010-0.00425.5770.0060.0060.0000.0000.0000.000
186A187GLU-1-0.797-0.88829.303-0.113-0.1130.0000.0000.0000.000
187A188GLU-1-0.879-0.90731.511-0.094-0.0940.0000.0000.0000.000
188A189THR0-0.046-0.04431.5230.0020.0020.0000.0000.0000.000
189A190GLY00.0260.01528.8220.0010.0010.0000.0000.0000.000
190A191ARG10.9060.97627.1150.0880.0880.0000.0000.0000.000
191A192THR00.0360.01822.156-0.002-0.0020.0000.0000.0000.000
192A193SER0-0.074-0.06022.8890.0170.0170.0000.0000.0000.000
193A194PHE00.0100.00818.698-0.022-0.0220.0000.0000.0000.000
194A195ALA00.0060.02020.6340.0160.0160.0000.0000.0000.000
195A196LEU00.0470.00016.857-0.015-0.0150.0000.0000.0000.000
196A197ASN00.002-0.00420.4030.0120.0120.0000.0000.0000.000
197A198GLY00.0130.01022.6160.0070.0070.0000.0000.0000.000
198A199ILE0-0.040-0.00224.2250.0030.0030.0000.0000.0000.000
199A200LEU0-0.003-0.00823.670-0.011-0.0110.0000.0000.0000.000
200A201TYR00.0020.00221.5800.0090.0090.0000.0000.0000.000
201A202THR0-0.019-0.01622.967-0.010-0.0100.0000.0000.0000.000
202A203ILE00.0120.01318.807-0.002-0.0020.0000.0000.0000.000
203A204SER00.0460.02622.3190.0070.0070.0000.0000.0000.000
204A205LEU00.0250.03916.906-0.002-0.0020.0000.0000.0000.000