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: V53G1

Calculation Name: 3HIN-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3HIN

Chain ID: A

ChEMBL ID:

UniProt ID: Q6N8W7

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 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 258
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3032985.692877
FMO2-HF: Nuclear repulsion 2936273.323318
FMO2-HF: Total energy -96712.369559
FMO2-MP2: Total energy -96992.970032


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:9:ALA)


Summations of interaction energy for fragment #1(A:9:ALA)
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.
-2.481-1.257-0.009-0.72-0.4950.001
Interaction energy analysis for fragmet #1(A:9:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.006 / q_NPA : -0.014
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].
3A11THR00.0060.0053.911-2.128-0.904-0.009-0.720-0.4950.001
4A12ILE00.0030.0066.752-0.083-0.0830.0000.0000.0000.000
5A13ALA00.0140.0189.4040.1530.1530.0000.0000.0000.000
6A14ASP-1-0.816-0.89212.826-0.087-0.0870.0000.0000.0000.000
7A15PRO00.0210.01015.7790.0400.0400.0000.0000.0000.000
8A16SER0-0.077-0.04618.6100.0160.0160.0000.0000.0000.000
9A17THR0-0.089-0.05918.0840.0230.0230.0000.0000.0000.000
10A18LEU0-0.032-0.02918.9080.0200.0200.0000.0000.0000.000
11A19VAL0-0.017-0.01322.509-0.013-0.0130.0000.0000.0000.000
12A20VAL0-0.008-0.00322.3440.0100.0100.0000.0000.0000.000
13A21ASP-1-0.841-0.91225.740-0.023-0.0230.0000.0000.0000.000
14A22THR0-0.075-0.03528.4700.0040.0040.0000.0000.0000.000
15A23VAL00.0130.00930.485-0.003-0.0030.0000.0000.0000.000
16A24GLY00.0060.00333.9170.0030.0030.0000.0000.0000.000
17A25PRO0-0.017-0.00832.710-0.003-0.0030.0000.0000.0000.000
18A26VAL00.0100.01030.6950.0040.0040.0000.0000.0000.000
19A27LEU00.0230.01723.317-0.004-0.0040.0000.0000.0000.000
20A28THR0-0.027-0.02327.6890.0090.0090.0000.0000.0000.000
21A29ILE00.0420.01221.837-0.006-0.0060.0000.0000.0000.000
22A30GLY00.0330.00725.5210.0120.0120.0000.0000.0000.000
23A31LEU0-0.020-0.02022.617-0.004-0.0040.0000.0000.0000.000
24A32ASN00.0150.00623.4220.0010.0010.0000.0000.0000.000
25A33ARG10.8250.89719.418-0.108-0.1080.0000.0000.0000.000
26A34PRO00.0730.04424.2240.0090.0090.0000.0000.0000.000
27A35LYS10.9270.96226.752-0.016-0.0160.0000.0000.0000.000
28A36LYS10.8940.96021.537-0.084-0.0840.0000.0000.0000.000
29A37ARG10.9440.98325.353-0.076-0.0760.0000.0000.0000.000
30A38ASN0-0.015-0.01424.0180.0040.0040.0000.0000.0000.000
31A39ALA0-0.0070.00621.7020.0130.0130.0000.0000.0000.000
32A40LEU0-0.018-0.00118.190-0.007-0.0070.0000.0000.0000.000
33A41ASN00.030-0.00315.3130.0170.0170.0000.0000.0000.000
34A42ASP-1-0.779-0.91110.0590.6450.6450.0000.0000.0000.000
35A43GLY00.0680.04412.0300.0030.0030.0000.0000.0000.000
36A44LEU00.0200.02013.155-0.031-0.0310.0000.0000.0000.000
37A45MET0-0.028-0.01413.630-0.038-0.0380.0000.0000.0000.000
38A46ALA00.0180.00910.6430.0080.0080.0000.0000.0000.000
39A47ALA00.0170.00812.533-0.055-0.0550.0000.0000.0000.000
40A48LEU0-0.007-0.01115.597-0.016-0.0160.0000.0000.0000.000
41A49LYS10.9430.9609.417-0.361-0.3610.0000.0000.0000.000
42A50ASP-1-0.902-0.93413.058-0.167-0.1670.0000.0000.0000.000
43A51CYS0-0.068-0.01715.378-0.014-0.0140.0000.0000.0000.000
44A52LEU0-0.050-0.03418.014-0.003-0.0030.0000.0000.0000.000
45A53THR0-0.085-0.06414.2950.0280.0280.0000.0000.0000.000
46A54ASP-1-0.929-0.95117.202-0.101-0.1010.0000.0000.0000.000
47A55ILE0-0.028-0.00119.865-0.007-0.0070.0000.0000.0000.000
48A56PRO00.0730.03422.5920.0020.0020.0000.0000.0000.000
49A57ASP-1-0.858-0.95025.470-0.015-0.0150.0000.0000.0000.000
50A58GLN0-0.065-0.01928.4880.0070.0070.0000.0000.0000.000
51A59ILE0-0.062-0.01026.6180.0030.0030.0000.0000.0000.000
52A60ARG10.8630.89329.106-0.001-0.0010.0000.0000.0000.000
53A61ALA00.0030.00329.4610.0050.0050.0000.0000.0000.000
54A62VAL00.0380.03624.289-0.006-0.0060.0000.0000.0000.000
55A63VAL00.0120.01727.5690.0070.0070.0000.0000.0000.000
56A64ILE00.0270.01223.073-0.003-0.0030.0000.0000.0000.000
57A65HIS0-0.029-0.01326.7880.0010.0010.0000.0000.0000.000
58A66GLY00.0510.04527.4340.0030.0030.0000.0000.0000.000
59A67ILE0-0.0010.00327.929-0.007-0.0070.0000.0000.0000.000
60A68GLY0-0.001-0.00429.5260.0050.0050.0000.0000.0000.000
61A69ASP-1-0.889-0.95932.1150.0400.0400.0000.0000.0000.000
62A70HIS0-0.014-0.01129.5580.0070.0070.0000.0000.0000.000
63A71PHE00.0040.02125.975-0.003-0.0030.0000.0000.0000.000
64A72SER00.012-0.01623.2560.0070.0070.0000.0000.0000.000
65A73ALA0-0.038-0.01725.7640.0010.0010.0000.0000.0000.000
66A74GLY00.0090.01122.5770.0060.0060.0000.0000.0000.000
67A75LEU0-0.0030.00816.514-0.007-0.0070.0000.0000.0000.000
68A76ASP-1-0.752-0.85118.4630.1060.1060.0000.0000.0000.000
69A77LEU0-0.016-0.01719.3460.0150.0150.0000.0000.0000.000
70A78SER0-0.093-0.08221.441-0.008-0.0080.0000.0000.0000.000
71A79GLU-1-0.830-0.91816.2940.1170.1170.0000.0000.0000.000
72A80LEU0-0.047-0.00515.8390.0400.0400.0000.0000.0000.000
73A81ARG10.9260.9589.881-0.444-0.4440.0000.0000.0000.000
74A82GLU-1-0.970-0.97414.4620.2370.2370.0000.0000.0000.000
75A83ARG10.8920.9519.322-0.713-0.7130.0000.0000.0000.000
76A84ASP-1-0.820-0.89113.4130.4640.4640.0000.0000.0000.000
77A85ALA00.019-0.01614.3340.0630.0630.0000.0000.0000.000
78A86THR00.0000.00810.8660.0220.0220.0000.0000.0000.000
79A87GLU-1-0.851-0.9289.3480.7840.7840.0000.0000.0000.000
80A88GLY0-0.013-0.00910.8930.1550.1550.0000.0000.0000.000
81A89LEU0-0.0120.00712.716-0.006-0.0060.0000.0000.0000.000
82A90VAL0-0.017-0.0186.6090.0570.0570.0000.0000.0000.000
83A91HIS0-0.070-0.0479.6850.1630.1630.0000.0000.0000.000
84A92SER0-0.006-0.01310.662-0.074-0.0740.0000.0000.0000.000
85A93GLN00.013-0.00610.847-0.072-0.0720.0000.0000.0000.000
86A94THR00.0120.0047.9380.0340.0340.0000.0000.0000.000
87A95TRP0-0.008-0.01310.136-0.221-0.2210.0000.0000.0000.000
88A96HIS0-0.053-0.01913.646-0.096-0.0960.0000.0000.0000.000
89A97ARG10.8160.90510.005-0.604-0.6040.0000.0000.0000.000
90A98VAL0-0.034-0.01212.611-0.088-0.0880.0000.0000.0000.000
91A99PHE00.0270.00114.429-0.061-0.0610.0000.0000.0000.000
92A100ASP-1-0.819-0.89315.8330.2690.2690.0000.0000.0000.000
93A101LYS10.8790.94113.794-0.133-0.1330.0000.0000.0000.000
94A102ILE00.0030.01518.099-0.026-0.0260.0000.0000.0000.000
95A103GLN00.0520.03821.0920.0010.0010.0000.0000.0000.000
96A104TYR0-0.032-0.00919.691-0.011-0.0110.0000.0000.0000.000
97A105CYS0-0.0430.00821.934-0.017-0.0170.0000.0000.0000.000
98A106ARG10.8600.91622.811-0.005-0.0050.0000.0000.0000.000
99A107VAL0-0.068-0.03425.235-0.006-0.0060.0000.0000.0000.000
100A108PRO00.008-0.00726.6060.0080.0080.0000.0000.0000.000
101A109VAL00.005-0.00824.004-0.005-0.0050.0000.0000.0000.000
102A110ILE0-0.040-0.01427.3770.0040.0040.0000.0000.0000.000
103A111ALA00.0070.00527.581-0.001-0.0010.0000.0000.0000.000
104A112ALA0-0.014-0.00929.290-0.003-0.0030.0000.0000.0000.000
105A113LEU0-0.054-0.04729.4600.0040.0040.0000.0000.0000.000
106A114LYS10.9160.96032.160-0.050-0.0500.0000.0000.0000.000
107A115GLY00.0130.01032.3960.0050.0050.0000.0000.0000.000
108A116ALA00.003-0.01929.7120.0030.0030.0000.0000.0000.000
109A117VAL00.0210.01128.5310.0020.0020.0000.0000.0000.000
110A118ILE0-0.024-0.00927.3200.0000.0000.0000.0000.0000.000
111A119GLY00.0600.03324.8610.0070.0070.0000.0000.0000.000
112A120GLY00.0290.00521.266-0.001-0.0010.0000.0000.0000.000
113A121GLY00.0010.01022.1370.0020.0020.0000.0000.0000.000
114A122LEU00.010-0.00524.504-0.010-0.0100.0000.0000.0000.000
115A123GLU-1-0.792-0.90421.8160.2630.2630.0000.0000.0000.000
116A124LEU0-0.0050.00120.762-0.001-0.0010.0000.0000.0000.000
117A125ALA00.001-0.00522.823-0.011-0.0110.0000.0000.0000.000
118A126CYS0-0.084-0.05025.338-0.013-0.0130.0000.0000.0000.000
119A127ALA0-0.020-0.00921.875-0.003-0.0030.0000.0000.0000.000
120A128ALA0-0.0140.00323.861-0.007-0.0070.0000.0000.0000.000
121A129HIS00.0230.02625.521-0.006-0.0060.0000.0000.0000.000
122A130ILE0-0.042-0.02129.053-0.004-0.0040.0000.0000.0000.000
123A131ARG10.8560.93628.761-0.096-0.0960.0000.0000.0000.000
124A132VAL00.016-0.00432.369-0.004-0.0040.0000.0000.0000.000
125A133ALA0-0.0010.01134.3540.0030.0030.0000.0000.0000.000
126A134GLU-1-0.791-0.88036.3590.0390.0390.0000.0000.0000.000
127A135ALA00.0230.00438.4030.0040.0040.0000.0000.0000.000
128A136SER0-0.0110.00237.2550.0030.0030.0000.0000.0000.000
129A137ALA0-0.034-0.00934.2560.0030.0030.0000.0000.0000.000
130A138TYR0-0.021-0.01632.9720.0000.0000.0000.0000.0000.000
131A139TYR00.0020.00331.6020.0040.0040.0000.0000.0000.000
132A140ALA00.030-0.00730.816-0.005-0.0050.0000.0000.0000.000
133A141LEU00.0290.01526.7060.0090.0090.0000.0000.0000.000
134A142PRO0-0.0040.00627.028-0.003-0.0030.0000.0000.0000.000
135A143GLU-1-0.830-0.94124.2090.1860.1860.0000.0000.0000.000
136A144GLY00.0650.03926.4200.0040.0040.0000.0000.0000.000
137A145SER0-0.048-0.01228.851-0.005-0.0050.0000.0000.0000.000
138A146ARG10.9120.93924.907-0.156-0.1560.0000.0000.0000.000
139A147GLY00.0060.02126.1030.0080.0080.0000.0000.0000.000
140A148ILE0-0.073-0.02421.3690.0130.0130.0000.0000.0000.000
141A149PHE00.0230.00123.118-0.018-0.0180.0000.0000.0000.000
142A150VAL00.0110.01022.5030.0110.0110.0000.0000.0000.000
143A151GLY00.0350.00618.4990.0080.0080.0000.0000.0000.000
144A152GLY00.0190.01717.3840.0670.0670.0000.0000.0000.000
145A153GLY00.005-0.01019.124-0.021-0.0210.0000.0000.0000.000
146A154GLY00.0490.02221.097-0.026-0.0260.0000.0000.0000.000
147A155SER0-0.024-0.02424.044-0.015-0.0150.0000.0000.0000.000
148A156VAL00.0000.00422.913-0.014-0.0140.0000.0000.0000.000
149A157ARG10.9170.96119.605-0.239-0.2390.0000.0000.0000.000
150A158LEU00.0720.03026.512-0.012-0.0120.0000.0000.0000.000
151A159PRO0-0.048-0.00828.434-0.013-0.0130.0000.0000.0000.000
152A160ARG10.7910.88027.925-0.141-0.1410.0000.0000.0000.000
153A161LEU0-0.052-0.00429.665-0.007-0.0070.0000.0000.0000.000
154A162ILE00.0000.00132.887-0.006-0.0060.0000.0000.0000.000
155A163GLY00.0190.02034.279-0.005-0.0050.0000.0000.0000.000
156A164VAL00.010-0.02632.4360.0030.0030.0000.0000.0000.000
157A165ALA0-0.0060.00834.4480.0030.0030.0000.0000.0000.000
158A166ARG10.9750.96736.561-0.072-0.0720.0000.0000.0000.000
159A167MET00.0190.03027.0940.0010.0010.0000.0000.0000.000
160A168ALA00.010-0.00332.8840.0050.0050.0000.0000.0000.000
161A169ASP-1-0.851-0.92534.1700.0840.0840.0000.0000.0000.000
162A170MET0-0.046-0.00832.2360.0000.0000.0000.0000.0000.000
163A171MET0-0.066-0.02726.9180.0030.0030.0000.0000.0000.000
164A172LEU0-0.025-0.01231.7820.0010.0010.0000.0000.0000.000
165A173THR0-0.047-0.01734.480-0.003-0.0030.0000.0000.0000.000
166A174GLY0-0.0130.00333.360-0.004-0.0040.0000.0000.0000.000
167A175ARG10.8740.94334.399-0.077-0.0770.0000.0000.0000.000
168A176VAL0-0.035-0.02434.7840.0060.0060.0000.0000.0000.000
169A177TYR0-0.0120.02335.796-0.006-0.0060.0000.0000.0000.000
170A178SER00.014-0.01036.7800.0020.0020.0000.0000.0000.000
171A179ALA00.0540.02537.8910.0020.0020.0000.0000.0000.000
172A180ALA00.0000.00338.8210.0000.0000.0000.0000.0000.000
173A181GLU-1-0.841-0.92940.4930.0620.0620.0000.0000.0000.000
174A182GLY0-0.007-0.01137.5520.0020.0020.0000.0000.0000.000
175A183VAL0-0.0160.00538.0490.0030.0030.0000.0000.0000.000
176A184VAL0-0.020-0.00339.606-0.001-0.0010.0000.0000.0000.000
177A185HIS0-0.062-0.04038.2250.0010.0010.0000.0000.0000.000
178A186GLY00.0590.03636.6000.0030.0030.0000.0000.0000.000
179A187PHE0-0.061-0.02732.5060.0050.0050.0000.0000.0000.000
180A188SER0-0.065-0.04333.0330.0050.0050.0000.0000.0000.000
181A189GLN00.0250.01432.977-0.002-0.0020.0000.0000.0000.000
182A190TYR00.0150.00336.655-0.006-0.0060.0000.0000.0000.000
183A191LEU00.0100.01638.0780.0040.0040.0000.0000.0000.000
184A192ILE0-0.058-0.02839.897-0.003-0.0030.0000.0000.0000.000
185A193GLU-1-0.911-0.96441.6790.0380.0380.0000.0000.0000.000
186A194ASN0-0.024-0.02244.3670.0000.0000.0000.0000.0000.000
187A195GLY00.0110.01243.202-0.001-0.0010.0000.0000.0000.000
188A196SER00.008-0.00138.7220.0040.0040.0000.0000.0000.000
189A197ALA00.0440.00435.202-0.001-0.0010.0000.0000.0000.000
190A198TYR0-0.030-0.01132.0780.0010.0010.0000.0000.0000.000
191A199ASP-1-0.836-0.91935.2250.0200.0200.0000.0000.0000.000
192A200LYS10.8700.93838.167-0.033-0.0330.0000.0000.0000.000
193A201ALA0-0.024-0.02432.8660.0000.0000.0000.0000.0000.000
194A202LEU00.0340.01133.6350.0000.0000.0000.0000.0000.000
195A203GLU-1-0.908-0.95135.5830.0240.0240.0000.0000.0000.000
196A204LEU0-0.025-0.01035.517-0.001-0.0010.0000.0000.0000.000
197A205GLY00.0190.00433.5940.0000.0000.0000.0000.0000.000
198A206ASN00.031-0.00234.226-0.004-0.0040.0000.0000.0000.000
199A207ARG10.8810.95137.117-0.026-0.0260.0000.0000.0000.000
200A208VAL0-0.022-0.00932.724-0.002-0.0020.0000.0000.0000.000
201A209ALA00.0120.02134.350-0.001-0.0010.0000.0000.0000.000
202A210GLN0-0.008-0.00135.346-0.003-0.0030.0000.0000.0000.000
203A211ASN0-0.031-0.00635.449-0.004-0.0040.0000.0000.0000.000
204A212ALA00.0600.03836.105-0.002-0.0020.0000.0000.0000.000
205A213PRO00.0660.01731.8570.0040.0040.0000.0000.0000.000
206A214LEU00.0670.03232.1740.0050.0050.0000.0000.0000.000
207A215THR0-0.059-0.01134.1910.0020.0020.0000.0000.0000.000
208A216ASN00.0330.00730.2990.0050.0050.0000.0000.0000.000
209A217PHE00.0090.00626.9840.0060.0060.0000.0000.0000.000
210A218ALA00.0450.01130.3840.0070.0070.0000.0000.0000.000
211A219VAL0-0.028-0.01032.6970.0040.0040.0000.0000.0000.000
212A220LEU0-0.029-0.02327.5130.0040.0040.0000.0000.0000.000
213A221GLN00.0040.00624.5290.0180.0180.0000.0000.0000.000
214A222ALA00.0100.00228.1230.0050.0050.0000.0000.0000.000
215A223LEU0-0.018-0.00431.1110.0020.0020.0000.0000.0000.000
216A224PRO0-0.008-0.00228.6290.0010.0010.0000.0000.0000.000
217A225MET00.001-0.00225.5790.0000.0000.0000.0000.0000.000
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