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: 4QR2N

Calculation Name: 5HYC-B-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 5HYC

Chain ID: B

ChEMBL ID:

UniProt ID: G4NCW2

Base Structure: X-ray

Registration Date: 2025-07-11

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
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 230
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -932304.860447
FMO2-HF: Nuclear repulsion 884715.99719
FMO2-HF: Total energy -47588.863257
FMO2-MP2: Total energy -47725.683344


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(B:3:ALA)


Summations of interaction energy for fragment #1(B:3: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.
-10.467-11.9539.501-4.123-3.893-0.029
Interaction energy analysis for fragmet #1(B:3:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.167 / q_NPA : 0.048
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].
4B4GLN0-0.0240.1213.591-0.1820.4350.016-0.213-0.4200.001
5B5GLY0-0.005-0.0673.880-1.5510.496-0.014-1.234-0.8000.005
6B6PRO0-0.052-0.0317.1430.3930.3930.0000.0000.0000.000
7B7SER00.0940.02310.141-0.081-0.0810.0000.0000.0000.000
8B7SER0-0.0490.05711.5560.0270.0270.0000.0000.0000.000
9B8PRO0-0.079-0.11312.0630.0650.0650.0000.0000.0000.000
10B9ILE00.093-0.00315.3780.0450.0450.0000.0000.0000.000
11B9ILE0-0.0610.13117.3040.0060.0060.0000.0000.0000.000
12B10PRO0-0.003-0.09115.692-0.009-0.0090.0000.0000.0000.000
13B11THR00.1000.03614.7840.0060.0060.0000.0000.0000.000
14B11THR0-0.0220.08412.633-0.009-0.0090.0000.0000.0000.000
15B12ASN00.130-0.04915.9330.0300.0300.0000.0000.0000.000
16B12ASN0-0.1130.06418.9470.0160.0160.0000.0000.0000.000
17B13ARG00.104-0.07919.4310.0270.0270.0000.0000.0000.000
18B13ARG10.7330.97920.5030.1270.1270.0000.0000.0000.000
19B14LEU00.043-0.11617.4990.0110.0110.0000.0000.0000.000
20B14LEU0-0.0400.10314.9240.0010.0010.0000.0000.0000.000
21B15LYS00.140-0.05218.9090.0080.0080.0000.0000.0000.000
22B15LYS10.8211.04018.862-0.079-0.0790.0000.0000.0000.000
23B16GLN00.067-0.08620.1420.0200.0200.0000.0000.0000.000
24B16GLN0-0.1190.06923.641-0.009-0.0090.0000.0000.0000.000
25B17ILE00.141-0.04922.5010.0160.0160.0000.0000.0000.000
26B17ILE0-0.1330.06721.076-0.005-0.0050.0000.0000.0000.000
27B18ALA00.115-0.08921.342-0.005-0.0050.0000.0000.0000.000
28B18ALA0-0.0750.08820.5320.0020.0020.0000.0000.0000.000
29B19ALA00.083-0.08522.6560.0080.0080.0000.0000.0000.000
30B19ALA0-0.0880.08324.2750.0020.0020.0000.0000.0000.000
31B20ASP00.020-0.10225.2160.0130.0130.0000.0000.0000.000
32B20ASP-1-0.974-0.87326.939-0.059-0.0590.0000.0000.0000.000
33B21ALA00.200-0.04826.4930.0080.0080.0000.0000.0000.000
34B21ALA0-0.0800.08625.606-0.003-0.0030.0000.0000.0000.000
35B22CYS00.056-0.13226.590-0.002-0.0020.0000.0000.0000.000
36B22CYS0-0.1590.07124.8160.0050.0050.0000.0000.0000.000
37B23ASN00.057-0.06927.8120.0080.0080.0000.0000.0000.000
38B23ASN0-0.1180.06229.2350.0080.0080.0000.0000.0000.000
39B24ASP00.111-0.09530.7750.0080.0080.0000.0000.0000.000
40B24ASP-1-1.020-0.85831.227-0.046-0.0460.0000.0000.0000.000
41B25ALA00.100-0.07330.9990.0010.0010.0000.0000.0000.000
42B25ALA0-0.1100.07830.2250.0000.0000.0000.0000.0000.000
43B26ILE0-0.053-0.13231.6400.0000.0000.0000.0000.0000.000
44B26ILE0-0.0400.09829.3610.0010.0010.0000.0000.0000.000
45B27GLY00.054-0.08632.9420.0080.0080.0000.0000.0000.000
46B28SER00.0380.00934.0110.0070.0070.0000.0000.0000.000
47B28SER0-0.0470.05937.721-0.001-0.0010.0000.0000.0000.000
48B29ALA00.045-0.09235.943-0.001-0.0010.0000.0000.0000.000
49B29ALA0-0.0840.09635.0590.0000.0000.0000.0000.0000.000
50B30GLU00.116-0.09436.6270.0050.0050.0000.0000.0000.000
51B30GLU-1-1.033-0.88140.7760.0240.0240.0000.0000.0000.000
52B31PHE00.085-0.04736.8600.0040.0040.0000.0000.0000.000
53B31PHE0-0.1220.06338.249-0.001-0.0010.0000.0000.0000.000
54B32TYR00.142-0.11134.587-0.007-0.0070.0000.0000.0000.000
55B32TYR0-0.1000.08530.9020.0020.0020.0000.0000.0000.000
56B33ASP00.128-0.10135.3450.0030.0030.0000.0000.0000.000
57B33ASP-1-0.953-0.80637.3980.0140.0140.0000.0000.0000.000
58B34HIS00.149-0.07234.455-0.004-0.0040.0000.0000.0000.000
59B34HIS0-0.0400.11632.3550.0050.0050.0000.0000.0000.000
60B35ALA00.085-0.08734.923-0.002-0.0020.0000.0000.0000.000
61B35ALA0-0.0880.10139.0500.0000.0000.0000.0000.0000.000
62B36LYS00.036-0.11436.197-0.006-0.0060.0000.0000.0000.000
63B36LYS10.8231.03736.310-0.007-0.0070.0000.0000.0000.000
64B37THR00.030-0.11531.831-0.007-0.0070.0000.0000.0000.000
65B37THR0-0.0810.06730.7500.0000.0000.0000.0000.0000.000
66B38GLU00.096-0.08330.957-0.002-0.0020.0000.0000.0000.000
67B38GLU-1-0.997-0.84531.449-0.028-0.0280.0000.0000.0000.000
68B39GLN00.087-0.09731.292-0.008-0.0080.0000.0000.0000.000
69B39GLN0-0.0990.09435.2180.0020.0020.0000.0000.0000.000
70B40TRP00.081-0.10031.756-0.010-0.0100.0000.0000.0000.000
71B40TRP0-0.0700.09631.1240.0030.0030.0000.0000.0000.000
72B41ASN00.162-0.05127.683-0.007-0.0070.0000.0000.0000.000
73B41ASN0-0.1190.07325.0480.0050.0050.0000.0000.0000.000
74B42HIS00.116-0.07427.137-0.011-0.0110.0000.0000.0000.000
75B42HIS0-0.1120.07330.665-0.006-0.0060.0000.0000.0000.000
76B43GLN00.076-0.10928.776-0.015-0.0150.0000.0000.0000.000
77B43GLN0-0.0590.11931.1950.0030.0030.0000.0000.0000.000
78B44ILE00.106-0.07426.619-0.015-0.0150.0000.0000.0000.000
79B44ILE0-0.0790.10624.4730.0010.0010.0000.0000.0000.000
80B45ILE00.104-0.10123.837-0.013-0.0130.0000.0000.0000.000
81B45ILE0-0.1150.09923.043-0.001-0.0010.0000.0000.0000.000
82B46ASN00.084-0.08824.498-0.024-0.0240.0000.0000.0000.000
83B46ASN0-0.1090.07027.946-0.007-0.0070.0000.0000.0000.000
84B47THR00.007-0.09726.969-0.020-0.0200.0000.0000.0000.000
85B47THR0-0.0340.07027.3340.0010.0010.0000.0000.0000.000
86B48ILE00.122-0.07822.727-0.011-0.0110.0000.0000.0000.000
87B48ILE0-0.1030.10020.639-0.001-0.0010.0000.0000.0000.000
88B49LEU00.108-0.09522.327-0.027-0.0270.0000.0000.0000.000
89B49LEU0-0.0970.09921.384-0.001-0.0010.0000.0000.0000.000
90B50LYS00.083-0.11323.369-0.029-0.0290.0000.0000.0000.000
91B50LYS10.8151.05627.6320.1650.1650.0000.0000.0000.000
92B51ALA00.077-0.10124.536-0.009-0.0090.0000.0000.0000.000
93B51ALA0-0.0460.11123.7500.0040.0040.0000.0000.0000.000
94B52VAL00.037-0.12020.062-0.001-0.0010.0000.0000.0000.000
95B52VAL0-0.0690.10518.844-0.004-0.0040.0000.0000.0000.000
96B53ILE00.106-0.05721.135-0.043-0.0430.0000.0000.0000.000
97B53ILE0-0.0750.09022.2670.0000.0000.0000.0000.0000.000
98B54ALA00.071-0.08922.906-0.021-0.0210.0000.0000.0000.000
99B54ALA0-0.1080.07226.3640.0060.0060.0000.0000.0000.000
100B55GLU00.010-0.09823.3140.0000.0000.0000.0000.0000.000
101B55GLU-1-0.856-0.77122.652-0.167-0.1670.0000.0000.0000.000
102B56SER00.035-0.10219.6760.0040.0040.0000.0000.0000.000
103B56SER0-0.0530.04118.872-0.017-0.0170.0000.0000.0000.000
104B57GLN00.025-0.08920.444-0.052-0.0520.0000.0000.0000.000
105B57GLN0-0.0540.09121.473-0.028-0.0280.0000.0000.0000.000
106B58PRO0-0.020-0.12522.9350.0280.0280.0000.0000.0000.000
107B59SER00.0440.05425.9600.0010.0010.0000.0000.0000.000
108B59SER0-0.0330.06927.3590.0000.0000.0000.0000.0000.000
109B60ASP00.045-0.08628.9800.0170.0170.0000.0000.0000.000
110B60ASP-1-0.829-0.78931.763-0.178-0.1780.0000.0000.0000.000
111B61SER0-0.068-0.12630.646-0.018-0.0180.0000.0000.0000.000
112B61SER0-0.0210.06134.7840.0060.0060.0000.0000.0000.000
113B62THR0-0.077-0.07630.8960.0040.0040.0000.0000.0000.000
114B62THR0-0.0810.03328.827-0.003-0.0030.0000.0000.0000.000
115B63THR00.091-0.11626.7460.0000.0000.0000.0000.0000.000
116B63THR0-0.0300.09625.218-0.006-0.0060.0000.0000.0000.000
117B64PRO0-0.058-0.09925.4180.0110.0110.0000.0000.0000.000
118B65PRO00.0280.00123.088-0.015-0.0150.0000.0000.0000.000
119B66GLN00.0340.01220.3010.0050.0050.0000.0000.0000.000
120B66GLN0-0.0860.08118.5470.0370.0370.0000.0000.0000.000
121B67PHE00.028-0.13317.109-0.086-0.0860.0000.0000.0000.000
122B67PHE0-0.0210.11113.570-0.002-0.0020.0000.0000.0000.000
123B68LYS00.133-0.07716.9670.0830.0830.0000.0000.0000.000
124B68LYS10.8051.03716.7880.5270.5270.0000.0000.0000.000
125B69PHE00.048-0.10116.204-0.099-0.0990.0000.0000.0000.000
126B69PHE0-0.0590.10316.093-0.003-0.0030.0000.0000.0000.000
127B70ALA00.106-0.09216.3940.0360.0360.0000.0000.0000.000
128B70ALA0-0.1010.09715.904-0.001-0.0010.0000.0000.0000.000
129B71VAL00.057-0.11616.689-0.032-0.0320.0000.0000.0000.000
130B71VAL0-0.0760.11219.1070.0000.0000.0000.0000.0000.000
131B72ASN00.102-0.07118.4960.0010.0010.0000.0000.0000.000
132B72ASN0-0.1120.06217.9890.0220.0220.0000.0000.0000.000
133B73SER00.075-0.08019.7470.0030.0030.0000.0000.0000.000
134B73SER0-0.0120.07722.8660.0010.0010.0000.0000.0000.000
135B74THR00.003-0.08122.252-0.015-0.0150.0000.0000.0000.000
136B74THR0-0.0540.07621.4520.0050.0050.0000.0000.0000.000
137B75ILE00.101-0.08223.7040.0180.0180.0000.0000.0000.000
138B75ILE0-0.0390.11227.327-0.001-0.0010.0000.0000.0000.000
139B76VAL00.033-0.12426.498-0.006-0.0060.0000.0000.0000.000
140B76VAL0-0.1050.10024.4420.0040.0040.0000.0000.0000.000
141B77GLN00.153-0.07327.6670.0020.0020.0000.0000.0000.000
142B77GLN0-0.1000.08532.045-0.007-0.0070.0000.0000.0000.000
143B78HIS00.021-0.13430.3220.0120.0120.0000.0000.0000.000
144B78HIS0-0.1210.08329.140-0.002-0.0020.0000.0000.0000.000
145B79LEU00.035-0.12431.398-0.009-0.0090.0000.0000.0000.000
146B79LEU0-0.0880.08930.2180.0030.0030.0000.0000.0000.000
147B80VAL00.068-0.08733.1600.0010.0010.0000.0000.0000.000
148B80VAL0-0.0780.11037.186-0.001-0.0010.0000.0000.0000.000
149B81PRO00.020-0.08936.3130.0080.0080.0000.0000.0000.000
150B82SER0-0.081-0.07237.363-0.007-0.0070.0000.0000.0000.000
151B82SER00.0540.06337.9160.0030.0030.0000.0000.0000.000
152B112ARG00.1530.08324.3280.0070.0070.0000.0000.0000.000
153B112ARG10.8491.01526.065-0.164-0.1640.0000.0000.0000.000
154B113GLY00.006-0.12425.8970.0090.0090.0000.0000.0000.000
155B114MET00.052-0.00723.854-0.007-0.0070.0000.0000.0000.000
156B114MET0-0.0520.11521.587-0.010-0.0100.0000.0000.0000.000
157B115HIS00.071-0.08619.718-0.003-0.0030.0000.0000.0000.000
158B115HIS0-0.0620.08915.211-0.024-0.0240.0000.0000.0000.000
159B116SER00.039-0.08117.158-0.027-0.0270.0000.0000.0000.000
160B116SER0-0.0300.06817.099-0.003-0.0030.0000.0000.0000.000
161B117ALA00.031-0.09813.0190.0140.0140.0000.0000.0000.000
162B117ALA0-0.0590.10011.9510.0330.0330.0000.0000.0000.000
163B118THR0-0.078-0.09010.950-0.043-0.0430.0000.0000.0000.000
164B118THR00.0150.05210.1670.0030.0030.0000.0000.0000.000
165B119GLY00.045-0.0787.5370.2530.2530.0000.0000.0000.000
166B120ALA00.038-0.0156.8190.0420.0420.0000.0000.0000.000
167B120ALA0-0.0280.1046.839-0.043-0.0430.0000.0000.0000.000
168B121PHE00.098-0.0876.6340.0050.0050.0000.0000.0000.000
169B121PHE0-0.1220.0898.1620.0050.0050.0000.0000.0000.000
170B122TRP00.088-0.0596.8160.3870.3870.0000.0000.0000.000
171B122TRP0-0.0960.0593.7171.3731.525-0.001-0.052-0.0990.000
172B123ASN00.178-0.0247.239-0.251-0.2510.0000.0000.0000.000
173B123ASN0-0.1620.0519.620-0.122-0.1220.0000.0000.0000.000
174B124ASP00.081-0.1153.9501.1151.2240.000-0.070-0.0390.000
175B124ASP-1-0.877-0.8191.878-11.405-15.8539.501-2.537-2.516-0.035
176B125LYS00.064-0.0824.263-1.556-1.519-0.001-0.017-0.0190.000
177B125LYS10.7971.0207.2661.8731.8730.0000.0000.0000.000
178B126THR0-0.097-0.1347.0520.4640.4640.0000.0000.0000.000
179B126THR0-0.0570.01410.8280.0310.0310.0000.0000.0000.000
180B127ASP00.092-0.0968.1860.4410.4410.0000.0000.0000.000
181B127ASP-1-0.807-0.7528.246-1.582-1.5820.0000.0000.0000.000
182B128GLY00.037-0.0736.856-0.947-0.9470.0000.0000.0000.000
183B129MET00.0670.0017.9670.1820.1820.0000.0000.0000.000
184B129MET0-0.0830.0907.6970.1000.1000.0000.0000.0000.000
185B130TRP00.089-0.0869.3150.0770.0770.0000.0000.0000.000
186B130TRP0-0.0710.10011.958-0.016-0.0160.0000.0000.0000.000
187B131THR0-0.006-0.07712.025-0.054-0.0540.0000.0000.0000.000
188B131THR0-0.0310.05112.8200.0110.0110.0000.0000.0000.000
189B132TYR00.065-0.09314.6090.0270.0270.0000.0000.0000.000
190B132TYR0-0.0870.06618.024-0.004-0.0040.0000.0000.0000.000
191B133LYS00.095-0.10318.021-0.006-0.0060.0000.0000.0000.000
192B133LYS10.6620.95420.157-0.168-0.1680.0000.0000.0000.000
193B134HIS00.082-0.08221.1380.0070.0070.0000.0000.0000.000
194B134HIS0-0.0660.12924.7840.0010.0010.0000.0000.0000.000
195B135GLU00.093-0.12424.690-0.002-0.0020.0000.0000.0000.000
196B135GLU-1-0.956-0.81424.1740.1790.1790.0000.0000.0000.000
197B136GLY0-0.007-0.08726.099-0.013-0.0130.0000.0000.0000.000
198B137ASP00.036-0.00529.8000.0140.0140.0000.0000.0000.000
199B137ASP-1-0.867-0.79833.0690.0610.0610.0000.0000.0000.000
200B138GLU00.135-0.10732.730-0.002-0.0020.0000.0000.0000.000
201B138GLU-1-1.048-0.87535.4710.0880.0880.0000.0000.0000.000
202B139SER0-0.026-0.10835.3370.0000.0000.0000.0000.0000.000
203B139SER0-0.1010.02136.995-0.003-0.0030.0000.0000.0000.000
204B140LYS00.149-0.07633.747-0.004-0.0040.0000.0000.0000.000
205B140LYS10.6991.00332.075-0.031-0.0310.0000.0000.0000.000
206B141GLY00.009-0.09534.326-0.004-0.0040.0000.0000.0000.000
207B142MET00.041-0.02830.7020.0030.0030.0000.0000.0000.000
208B142MET0-0.1090.09430.371-0.004-0.0040.0000.0000.0000.000
209B143ASP00.101-0.06126.338-0.006-0.0060.0000.0000.0000.000
210B143ASP-1-0.852-0.77425.3230.1360.1360.0000.0000.0000.000
211B144VAL0-0.001-0.12525.078-0.004-0.0040.0000.0000.0000.000
212B144VAL0-0.0410.11623.932-0.002-0.0020.0000.0000.0000.000
213B145VAL00.115-0.09120.8480.0030.0030.0000.0000.0000.000
214B145VAL0-0.0840.10018.8850.0050.0050.0000.0000.0000.000
215B146VAL00.038-0.11019.557-0.014-0.0140.0000.0000.0000.000
216B146VAL0-0.0700.10319.100-0.004-0.0040.0000.0000.0000.000
217B147MET00.142-0.09515.6240.0410.0410.0000.0000.0000.000
218B147MET0-0.1200.10113.4360.0200.0200.0000.0000.0000.000
219B148LEU00.089-0.09514.8090.0010.0010.0000.0000.0000.000
220B148LEU0-0.1140.09614.8590.0030.0030.0000.0000.0000.000
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224B150TRP0-0.0760.1068.9920.1320.1320.0000.0000.0000.000
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229B153VAL0-0.127-0.14114.6910.0270.0270.0000.0000.0000.000
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