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

tag_button

FMODB ID: G62G1

Calculation Name: 3JWI-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3JWI

Chain ID: B

ChEMBL ID:

UniProt ID: A3DJ37

Base Structure: X-ray

Registration Date: 2023-09-19

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 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 198
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2359657.135871
FMO2-HF: Nuclear repulsion 2279870.920703
FMO2-HF: Total energy -79786.215168
FMO2-MP2: Total energy -80023.394329


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(B:12:ASN)


Summations of interaction energy for fragment #1(B:12:ASN)
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.
-10.728-11.86610.055-3.865-5.0520.029
Interaction energy analysis for fragmet #1(B:12:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.057 / q_NPA : 0.015
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].
3B14ASN00.0170.0033.290-1.6700.037-0.002-0.710-0.9960.000
4B15GLN0-0.009-0.0063.3840.0840.8460.026-0.223-0.5650.001
5B16GLN00.0250.0101.842-10.652-14.32610.032-2.928-3.4300.028
6B17ARG10.8740.9415.541-2.158-2.091-0.001-0.004-0.0610.000
7B18LEU00.013-0.0068.277-0.206-0.2060.0000.0000.0000.000
8B19GLY00.0050.0068.675-0.187-0.1870.0000.0000.0000.000
9B20THR00.019-0.0039.301-0.178-0.1780.0000.0000.0000.000
10B21VAL0-0.0050.00211.507-0.185-0.1850.0000.0000.0000.000
11B22VAL0-0.015-0.01613.458-0.102-0.1020.0000.0000.0000.000
12B23ALA00.0010.00313.265-0.078-0.0780.0000.0000.0000.000
13B24VAL00.0190.00415.121-0.069-0.0690.0000.0000.0000.000
14B25LEU0-0.001-0.00417.440-0.069-0.0690.0000.0000.0000.000
15B26LYS10.8220.89117.779-0.175-0.1750.0000.0000.0000.000
16B27SER0-0.039-0.01418.957-0.021-0.0210.0000.0000.0000.000
17B28VAL0-0.040-0.01320.779-0.009-0.0090.0000.0000.0000.000
18B29ASN0-0.071-0.03323.264-0.038-0.0380.0000.0000.0000.000
19B30ALA00.0170.02322.754-0.027-0.0270.0000.0000.0000.000
20B31LYS10.8500.91523.282-0.059-0.0590.0000.0000.0000.000
21B32LYS10.8310.91324.991-0.085-0.0850.0000.0000.0000.000
22B33VAL00.0200.00019.9680.0210.0210.0000.0000.0000.000
23B34ILE0-0.0220.00023.334-0.032-0.0320.0000.0000.0000.000
24B35ASP-1-0.798-0.89217.2410.1180.1180.0000.0000.0000.000
25B36LEU0-0.026-0.02120.501-0.038-0.0380.0000.0000.0000.000
26B37GLY00.0520.01419.6200.0330.0330.0000.0000.0000.000
27B38CYS0-0.067-0.01517.290-0.002-0.0020.0000.0000.0000.000
28B39GLY00.0570.04016.423-0.051-0.0510.0000.0000.0000.000
29B40GLU-1-0.857-0.92014.847-0.357-0.3570.0000.0000.0000.000
30B41GLY00.0580.03015.991-0.067-0.0670.0000.0000.0000.000
31B42ASN00.001-0.02710.810-0.078-0.0780.0000.0000.0000.000
32B43LEU00.0400.03312.718-0.064-0.0640.0000.0000.0000.000
33B44LEU00.0830.03113.981-0.007-0.0070.0000.0000.0000.000
34B45SER0-0.060-0.01113.359-0.015-0.0150.0000.0000.0000.000
35B46LEU0-0.060-0.0319.611-0.123-0.1230.0000.0000.0000.000
36B47LEU00.0650.03214.0210.0100.0100.0000.0000.0000.000
37B48LEU00.0370.02317.3820.0040.0040.0000.0000.0000.000
38B49LYS10.9050.96611.8870.7720.7720.0000.0000.0000.000
39B50ASP-1-0.732-0.81517.3040.0340.0340.0000.0000.0000.000
40B51LYS10.7970.86618.8170.1680.1680.0000.0000.0000.000
41B52SER0-0.038-0.02721.2260.0160.0160.0000.0000.0000.000
42B53PHE00.0000.00818.3520.0030.0030.0000.0000.0000.000
43B54GLU-1-0.800-0.88923.5040.0070.0070.0000.0000.0000.000
44B55GLN0-0.049-0.02425.730-0.022-0.0220.0000.0000.0000.000
45B56ILE0-0.0030.00919.9450.0230.0230.0000.0000.0000.000
46B57THR00.0310.01023.135-0.032-0.0320.0000.0000.0000.000
47B58GLY00.0000.00521.3670.0200.0200.0000.0000.0000.000
48B59VAL0-0.017-0.01621.932-0.010-0.0100.0000.0000.0000.000
49B60ASP-1-0.775-0.89620.554-0.014-0.0140.0000.0000.0000.000
50B61VAL00.0610.03023.196-0.002-0.0020.0000.0000.0000.000
51B62SER0-0.016-0.00123.616-0.008-0.0080.0000.0000.0000.000
52B63TYR00.0770.01324.409-0.017-0.0170.0000.0000.0000.000
53B64SER0-0.030-0.00924.735-0.018-0.0180.0000.0000.0000.000
54B65VAL0-0.0200.00419.060-0.028-0.0280.0000.0000.0000.000
55B66LEU00.0280.00920.879-0.029-0.0290.0000.0000.0000.000
56B67GLU-1-0.787-0.87823.007-0.152-0.1520.0000.0000.0000.000
57B68ARG10.8330.89818.1220.2000.2000.0000.0000.0000.000
58B69ALA0-0.0020.00118.782-0.043-0.0430.0000.0000.0000.000
59B70LYS10.8200.89519.8300.1100.1100.0000.0000.0000.000
60B71ASP-1-0.824-0.89222.012-0.319-0.3190.0000.0000.0000.000
61B72ARG10.8060.90014.2420.4690.4690.0000.0000.0000.000
62B73LEU0-0.072-0.03917.210-0.064-0.0640.0000.0000.0000.000
63B74LYS10.9220.96619.4790.5150.5150.0000.0000.0000.000
64B75ILE00.0500.02122.3450.0120.0120.0000.0000.0000.000
65B76ASP-1-0.888-0.95224.763-0.168-0.1680.0000.0000.0000.000
66B77ARG10.8350.90025.1040.2930.2930.0000.0000.0000.000
67B78LEU0-0.0350.00922.207-0.011-0.0110.0000.0000.0000.000
68B79PRO00.0440.00825.7710.0240.0240.0000.0000.0000.000
69B80GLU-1-0.827-0.89728.111-0.106-0.1060.0000.0000.0000.000
70B81MET0-0.009-0.01327.7970.0060.0060.0000.0000.0000.000
71B82GLN00.0070.01221.1870.0420.0420.0000.0000.0000.000
72B83ARG10.8890.92725.6600.1490.1490.0000.0000.0000.000
73B84LYS10.9220.96427.2150.0920.0920.0000.0000.0000.000
74B85ARG10.7490.87821.3080.1160.1160.0000.0000.0000.000
75B86ILE0-0.035-0.01420.7160.0080.0080.0000.0000.0000.000
76B87SER00.0170.01624.745-0.006-0.0060.0000.0000.0000.000
77B88LEU0-0.022-0.01521.4200.0000.0000.0000.0000.0000.000
78B89PHE0-0.012-0.00725.4410.0000.0000.0000.0000.0000.000
79B90GLN0-0.0050.00226.0470.0030.0030.0000.0000.0000.000
80B91SER0-0.038-0.05327.3480.0080.0080.0000.0000.0000.000
81B92SER00.0010.00227.3760.0030.0030.0000.0000.0000.000
82B93LEU00.0230.01323.1330.0060.0060.0000.0000.0000.000
83B94VAL00.0090.00727.7580.0140.0140.0000.0000.0000.000
84B95TYR00.0300.02030.873-0.002-0.0020.0000.0000.0000.000
85B96ARG10.9040.95532.178-0.092-0.0920.0000.0000.0000.000
86B97ASP-1-0.762-0.84931.1990.0220.0220.0000.0000.0000.000
87B98LYS10.9210.94732.613-0.043-0.0430.0000.0000.0000.000
88B99ARG10.7980.87831.057-0.007-0.0070.0000.0000.0000.000
89B100PHE00.019-0.00828.239-0.005-0.0050.0000.0000.0000.000
90B101SER00.0050.01329.9680.0100.0100.0000.0000.0000.000
91B102GLY0-0.003-0.00132.372-0.010-0.0100.0000.0000.0000.000
92B103TYR0-0.037-0.01926.257-0.011-0.0110.0000.0000.0000.000
93B104ASP-1-0.792-0.88526.3220.1150.1150.0000.0000.0000.000
94B105ALA0-0.036-0.02923.0750.0250.0250.0000.0000.0000.000
95B106ALA00.0030.00723.104-0.032-0.0320.0000.0000.0000.000
96B107THR0-0.075-0.06117.6640.0390.0390.0000.0000.0000.000
97B108VAL00.0250.00818.646-0.050-0.0500.0000.0000.0000.000
98B109ILE0-0.016-0.01212.4860.0680.0680.0000.0000.0000.000
99B110GLU-1-0.822-0.88711.4410.7270.7270.0000.0000.0000.000
100B111VAL00.0110.00614.880-0.075-0.0750.0000.0000.0000.000
101B112ILE0-0.010-0.00818.546-0.031-0.0310.0000.0000.0000.000
102B113GLU-1-0.798-0.87715.8700.4030.4030.0000.0000.0000.000
103B114HIS0-0.066-0.02615.774-0.058-0.0580.0000.0000.0000.000
104B115LEU0-0.083-0.03521.005-0.039-0.0390.0000.0000.0000.000
105B116ASP-1-0.768-0.86324.5480.1340.1340.0000.0000.0000.000
106B117GLU-1-0.868-0.95027.7990.1750.1750.0000.0000.0000.000
107B118ASN0-0.067-0.03629.9610.0000.0000.0000.0000.0000.000
108B119ARG10.8940.92627.254-0.089-0.0890.0000.0000.0000.000
109B120LEU00.0200.02824.437-0.003-0.0030.0000.0000.0000.000
110B121GLN00.0430.02827.646-0.004-0.0040.0000.0000.0000.000
111B122ALA0-0.024-0.01831.064-0.004-0.0040.0000.0000.0000.000
112B123PHE00.0380.00722.543-0.004-0.0040.0000.0000.0000.000
113B124GLU-1-0.763-0.86727.9250.2240.2240.0000.0000.0000.000
114B125LYS10.8840.95629.277-0.126-0.1260.0000.0000.0000.000
115B126VAL0-0.032-0.01329.388-0.006-0.0060.0000.0000.0000.000
116B127LEU0-0.0140.02224.198-0.009-0.0090.0000.0000.0000.000
117B128PHE00.0490.01024.772-0.002-0.0020.0000.0000.0000.000
118B129GLU-1-0.800-0.89330.3490.1270.1270.0000.0000.0000.000
119B130PHE0-0.082-0.04932.844-0.010-0.0100.0000.0000.0000.000
120B131THR0-0.072-0.05528.519-0.010-0.0100.0000.0000.0000.000
121B132ARG10.7620.88930.906-0.177-0.1770.0000.0000.0000.000
122B133PRO00.0650.04726.915-0.005-0.0050.0000.0000.0000.000
123B134GLN00.0140.00527.8420.0030.0030.0000.0000.0000.000
124B135THR00.008-0.00822.3980.0280.0280.0000.0000.0000.000
125B136VAL0-0.0080.00122.857-0.026-0.0260.0000.0000.0000.000
126B137ILE0-0.032-0.00616.6680.0400.0400.0000.0000.0000.000
127B138VAL00.006-0.00218.699-0.047-0.0470.0000.0000.0000.000
128B139SER0-0.062-0.06313.4310.0630.0630.0000.0000.0000.000
129B140THR00.008-0.01315.241-0.109-0.1090.0000.0000.0000.000
130B141PRO00.0270.01612.7560.1570.1570.0000.0000.0000.000
131B142ASN0-0.034-0.01913.720-0.221-0.2210.0000.0000.0000.000
132B143LYS10.8880.94815.327-0.342-0.3420.0000.0000.0000.000
133B144GLU-1-0.795-0.87117.8500.5630.5630.0000.0000.0000.000
134B145TYR00.0500.0309.8740.0320.0320.0000.0000.0000.000
135B146ASN00.019-0.02612.3280.1390.1390.0000.0000.0000.000
136B147PHE0-0.071-0.04014.643-0.074-0.0740.0000.0000.0000.000
137B148HIS10.8600.93916.469-0.638-0.6380.0000.0000.0000.000
138B149TYR0-0.043-0.01911.732-0.055-0.0550.0000.0000.0000.000
139B150GLN0-0.069-0.0319.1750.2310.2310.0000.0000.0000.000
140B151ASN00.0010.01013.207-0.144-0.1440.0000.0000.0000.000
141B152LEU00.0500.02316.828-0.055-0.0550.0000.0000.0000.000
142B153PHE0-0.095-0.06218.159-0.057-0.0570.0000.0000.0000.000
143B154GLU-1-0.862-0.93515.3200.3580.3580.0000.0000.0000.000
144B155GLY0-0.066-0.02219.600-0.012-0.0120.0000.0000.0000.000
145B156ASN0-0.005-0.00420.2810.0180.0180.0000.0000.0000.000
146B157LEU00.0370.01720.676-0.012-0.0120.0000.0000.0000.000
147B158ARG10.8290.91622.347-0.159-0.1590.0000.0000.0000.000
148B159HIS00.0590.02818.8000.0300.0300.0000.0000.0000.000
149B160ARG10.8340.92020.555-0.225-0.2250.0000.0000.0000.000
150B161ASP-1-0.786-0.87319.1550.2860.2860.0000.0000.0000.000
151B162HIS00.008-0.02912.649-0.064-0.0640.0000.0000.0000.000
152B163ARG10.8630.91817.952-0.193-0.1930.0000.0000.0000.000
153B164PHE00.011-0.00215.606-0.001-0.0010.0000.0000.0000.000
154B165GLU-1-0.769-0.84114.3930.6560.6560.0000.0000.0000.000
155B166TRP00.0260.00718.486-0.029-0.0290.0000.0000.0000.000
156B167THR0-0.024-0.05018.9850.0720.0720.0000.0000.0000.000
157B168ARG10.8140.87918.557-0.699-0.6990.0000.0000.0000.000
158B169LYS10.9120.94921.092-0.441-0.4410.0000.0000.0000.000
159B170GLU-1-0.824-0.86623.3880.3540.3540.0000.0000.0000.000
160B171PHE0-0.0110.00219.048-0.030-0.0300.0000.0000.0000.000
161B172GLU-1-0.844-0.92422.7460.4690.4690.0000.0000.0000.000
162B173THR0-0.022-0.02324.723-0.033-0.0330.0000.0000.0000.000
163B174TRP0-0.028-0.02823.050-0.021-0.0210.0000.0000.0000.000
164B175ALA00.015-0.00523.730-0.024-0.0240.0000.0000.0000.000
165B176VAL00.0080.00525.884-0.014-0.0140.0000.0000.0000.000
166B177LYS10.8790.94728.847-0.258-0.2580.0000.0000.0000.000
167B178VAL0-0.057-0.03327.065-0.025-0.0250.0000.0000.0000.000
168B179ALA0-0.016-0.01128.083-0.016-0.0160.0000.0000.0000.000
169B180GLU-1-0.911-0.95729.9640.2260.2260.0000.0000.0000.000
170B181LYS10.7940.89631.889-0.205-0.2050.0000.0000.0000.000
171B182TYR0-0.033-0.01831.071-0.014-0.0140.0000.0000.0000.000
172B183GLY00.0510.04133.650-0.005-0.0050.0000.0000.0000.000
173B184TYR0-0.080-0.05328.058-0.009-0.0090.0000.0000.0000.000
174B185SER0-0.0090.00728.2240.0160.0160.0000.0000.0000.000
175B186VAL00.029-0.00123.5310.0050.0050.0000.0000.0000.000
176B187ARG10.9340.97919.723-0.514-0.5140.0000.0000.0000.000
177B188PHE00.0280.02019.8080.0310.0310.0000.0000.0000.000
178B189LEU0-0.043-0.03014.6900.0120.0120.0000.0000.0000.000
179B190GLN00.0320.02213.813-0.028-0.0280.0000.0000.0000.000
180B191ILE0-0.013-0.0087.9180.1300.1300.0000.0000.0000.000
181B192GLY00.0700.0206.6860.0470.0470.0000.0000.0000.000
182B193GLU-1-0.971-0.9817.1422.2952.2950.0000.0000.0000.000
183B194ILE0-0.027-0.0149.549-0.232-0.2320.0000.0000.0000.000
184B195ASP-1-0.778-0.85713.1770.7990.7990.0000.0000.0000.000
185B196ASP-1-0.919-0.96115.3310.7630.7630.0000.0000.0000.000
186B197GLU-1-0.927-0.95418.9890.4320.4320.0000.0000.0000.000
187B198PHE0-0.077-0.04716.482-0.035-0.0350.0000.0000.0000.000
188B199GLY00.0420.02316.060-0.012-0.0120.0000.0000.0000.000
189B200SER0-0.040-0.03410.909-0.085-0.0850.0000.0000.0000.000
190B201PRO00.0040.0117.943-0.191-0.1910.0000.0000.0000.000
191B202THR0-0.048-0.0139.323-0.340-0.3400.0000.0000.0000.000
192B203GLN0-0.0090.00211.7980.0910.0910.0000.0000.0000.000
193B204MET0-0.016-0.02612.489-0.031-0.0310.0000.0000.0000.000
194B205GLY00.0080.01116.123-0.005-0.0050.0000.0000.0000.000
195B206VAL0-0.033-0.01718.162-0.034-0.0340.0000.0000.0000.000
196B207PHE00.0130.00620.761-0.008-0.0080.0000.0000.0000.000
197B208THR0-0.040-0.03024.2150.0000.0000.0000.0000.0000.000
198B209LEU00.0050.02126.7780.0010.0010.0000.0000.0000.000