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: N232Q

Calculation Name: 1H7S-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1H7S

Chain ID: B

ChEMBL ID:

UniProt ID: P54278

Base Structure: X-ray

Registration Date: 2023-09-26

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 302
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -4119522.932688
FMO2-HF: Nuclear repulsion 4000542.312842
FMO2-HF: Total energy -118980.619846
FMO2-MP2: Total energy -119321.106122


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:33:LEU)


Summations of interaction energy for fragment #1(B:33:LEU)
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.
-21.032-9.9848.012-6.012-13.047-0.029
Interaction energy analysis for fragmet #1(B:33:LEU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.051 / q_NPA : 0.024
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].
3B35LEU00.0630.0333.263-1.8850.6750.081-1.310-1.3310.000
4B36SER0-0.049-0.0345.696-0.233-0.2330.0000.0000.0000.000
5B37THR00.0290.0242.394-1.992-0.3521.939-1.380-2.199-0.009
6B38ALA00.0840.0512.646-2.389-0.9580.841-0.560-1.712-0.001
7B39VAL00.001-0.0123.1820.3690.1850.0750.365-0.2560.001
8B40LYS10.7990.8876.4350.7120.7120.0000.0000.0000.000
9B41GLU-1-0.854-0.9382.958-8.114-5.2330.620-1.659-1.842-0.017
10B42LEU0-0.022-0.0036.4190.2240.2240.0000.0000.0000.000
11B43VAL0-0.019-0.0128.3490.1500.1500.0000.0000.0000.000
12B44GLU-1-0.751-0.8439.709-0.645-0.6450.0000.0000.0000.000
13B45ASN00.0120.0028.9730.1400.1400.0000.0000.0000.000
14B46SER0-0.034-0.04311.9420.0680.0680.0000.0000.0000.000
15B47LEU0-0.071-0.04314.0500.0630.0630.0000.0000.0000.000
16B48ASP-1-0.891-0.93214.081-0.493-0.4930.0000.0000.0000.000
17B49ALA0-0.053-0.01916.1220.0390.0390.0000.0000.0000.000
18B50GLY00.0160.00518.0050.0390.0390.0000.0000.0000.000
19B51ALA0-0.062-0.02518.0620.0290.0290.0000.0000.0000.000
20B52THR00.0290.00820.0390.0020.0020.0000.0000.0000.000
21B53ASN0-0.070-0.03621.1200.0300.0300.0000.0000.0000.000
22B54ILE00.0580.03214.383-0.017-0.0170.0000.0000.0000.000
23B55ASP-1-0.822-0.86616.866-0.137-0.1370.0000.0000.0000.000
24B56LEU00.0200.00311.001-0.023-0.0230.0000.0000.0000.000
25B57LYS10.8150.90314.5200.1890.1890.0000.0000.0000.000
26B58LEU00.0410.01211.530-0.005-0.0050.0000.0000.0000.000
27B59LYS10.9140.95514.042-0.033-0.0330.0000.0000.0000.000
28B60ASP-1-0.793-0.90314.1410.1360.1360.0000.0000.0000.000
29B61TYR0-0.072-0.05113.9740.0350.0350.0000.0000.0000.000
30B62GLY00.0400.00610.241-0.011-0.0110.0000.0000.0000.000
31B63VAL0-0.055-0.02010.1680.0380.0380.0000.0000.0000.000
32B64ASP-1-0.842-0.92611.9570.1340.1340.0000.0000.0000.000
33B65LEU0-0.033-0.01212.008-0.019-0.0190.0000.0000.0000.000
34B66ILE00.0040.0066.7500.0350.0350.0000.0000.0000.000
35B67GLU-1-0.784-0.8729.847-0.258-0.2580.0000.0000.0000.000
36B68VAL00.0020.01210.3090.0400.0400.0000.0000.0000.000
37B69SER0-0.063-0.03712.899-0.003-0.0030.0000.0000.0000.000
38B70ASP-1-0.728-0.84715.989-0.358-0.3580.0000.0000.0000.000
39B71ASN00.008-0.00718.2620.0010.0010.0000.0000.0000.000
40B72GLY00.0790.05019.5990.0170.0170.0000.0000.0000.000
41B73CYS0-0.050-0.03020.5780.0180.0180.0000.0000.0000.000
42B74GLY0-0.019-0.00319.9450.0230.0230.0000.0000.0000.000
43B75VAL00.0170.00617.239-0.017-0.0170.0000.0000.0000.000
44B76GLU-1-0.803-0.89420.503-0.224-0.2240.0000.0000.0000.000
45B77GLU-1-0.860-0.94322.357-0.154-0.1540.0000.0000.0000.000
46B78GLU-1-0.964-0.98323.664-0.164-0.1640.0000.0000.0000.000
47B79ASN0-0.047-0.03720.121-0.024-0.0240.0000.0000.0000.000
48B80PHE00.0140.00918.621-0.027-0.0270.0000.0000.0000.000
49B81GLU-1-0.940-0.98017.273-0.209-0.2090.0000.0000.0000.000
50B82GLY00.0010.01117.288-0.007-0.0070.0000.0000.0000.000
51B83LEU0-0.038-0.03113.510-0.063-0.0630.0000.0000.0000.000
52B84THR0-0.048-0.04211.189-0.084-0.0840.0000.0000.0000.000
53B85LEU0-0.0080.02212.695-0.021-0.0210.0000.0000.0000.000
54B108GLY00.0220.00811.988-0.029-0.0290.0000.0000.0000.000
55B109GLU-1-0.843-0.9199.735-0.836-0.8360.0000.0000.0000.000
56B110ALA00.0190.0115.954-0.176-0.1760.0000.0000.0000.000
57B111LEU00.0280.0145.589-0.387-0.3870.0000.0000.0000.000
58B112SER00.0320.0187.7500.1420.1420.0000.0000.0000.000
59B113SER0-0.076-0.0423.619-0.899-0.4960.010-0.151-0.262-0.001
60B114LEU00.014-0.0102.508-0.1510.3420.826-0.207-1.112-0.001
61B115CYS0-0.0270.0064.7820.4860.494-0.001-0.004-0.0030.000
62B116ALA00.0280.0326.7720.2080.2080.0000.0000.0000.000
63B117LEU0-0.051-0.0142.3500.4470.0622.246-0.314-1.547-0.004
64B118SER0-0.042-0.0385.6870.1640.1640.0000.0000.0000.000
65B119ASP-1-0.855-0.9247.9720.0240.0240.0000.0000.0000.000
66B120VAL00.0130.0118.344-0.017-0.0170.0000.0000.0000.000
67B121THR0-0.018-0.01511.3110.0320.0320.0000.0000.0000.000
68B122ILE00.0230.00711.567-0.040-0.0400.0000.0000.0000.000
69B123SER0-0.051-0.02515.0570.0490.0490.0000.0000.0000.000
70B124THR00.0220.00017.742-0.029-0.0290.0000.0000.0000.000
71B125CYS0-0.024-0.00920.0620.0270.0270.0000.0000.0000.000
72B126HIS00.0800.08423.4130.0080.0080.0000.0000.0000.000
73B127ALA00.004-0.01524.8110.0140.0140.0000.0000.0000.000
74B128SER0-0.044-0.02927.8630.0130.0130.0000.0000.0000.000
75B129ALA0-0.030-0.00326.8500.0090.0090.0000.0000.0000.000
76B130LYS10.9320.95128.9040.0980.0980.0000.0000.0000.000
77B131VAL0-0.034-0.01528.0490.0070.0070.0000.0000.0000.000
78B132GLY00.0670.03524.588-0.007-0.0070.0000.0000.0000.000
79B133THR0-0.040-0.02021.3860.0180.0180.0000.0000.0000.000
80B134ARG10.8170.88318.4650.1000.1000.0000.0000.0000.000
81B135LEU00.0160.01016.9210.0190.0190.0000.0000.0000.000
82B136MET00.0070.03615.757-0.001-0.0010.0000.0000.0000.000
83B137PHE00.0410.01712.5680.0030.0030.0000.0000.0000.000
84B138ASP-1-0.802-0.89813.724-0.048-0.0480.0000.0000.0000.000
85B139HIS10.7920.8879.953-0.118-0.1180.0000.0000.0000.000
86B140ASN0-0.064-0.04011.2840.0190.0190.0000.0000.0000.000
87B141GLY00.0570.03712.562-0.046-0.0460.0000.0000.0000.000
88B142LYS10.9610.99913.1750.0690.0690.0000.0000.0000.000
89B143ILE00.0270.01316.5750.0070.0070.0000.0000.0000.000
90B144ILE0-0.050-0.02116.3970.0240.0240.0000.0000.0000.000
91B145GLN0-0.001-0.01119.6790.0090.0090.0000.0000.0000.000
92B146LYS10.8970.94120.2830.1250.1250.0000.0000.0000.000
93B147THR0-0.046-0.02022.7290.0140.0140.0000.0000.0000.000
94B148PRO00.0500.02324.279-0.014-0.0140.0000.0000.0000.000
95B149TYR0-0.018-0.01922.8210.0070.0070.0000.0000.0000.000
96B150PRO00.0210.01925.528-0.007-0.0070.0000.0000.0000.000
97B151ARG10.8150.90719.0880.2210.2210.0000.0000.0000.000
98B152PRO00.0340.01724.4480.0000.0000.0000.0000.0000.000
99B153ARG10.8700.91823.8910.1760.1760.0000.0000.0000.000
100B154GLY00.0060.02320.7830.0050.0050.0000.0000.0000.000
101B155THR00.012-0.00515.2910.0130.0130.0000.0000.0000.000
102B156THR0-0.033-0.00315.1540.0190.0190.0000.0000.0000.000
103B157VAL00.0460.0369.2340.0150.0150.0000.0000.0000.000
104B158SER0-0.030-0.03311.385-0.019-0.0190.0000.0000.0000.000
105B159VAL00.0460.0235.8330.0350.0350.0000.0000.0000.000
106B160GLN0-0.006-0.0029.0070.0520.0520.0000.0000.0000.000
107B161GLN0-0.011-0.01410.2640.0680.0680.0000.0000.0000.000
108B162LEU00.0110.0233.024-0.702-0.0340.083-0.130-0.6200.001
109B163PHE00.012-0.0142.291-1.501-0.2461.293-0.556-1.9920.002
110B164SER0-0.024-0.0096.6800.0170.0170.0000.0000.0000.000
111B165THR0-0.029-0.0228.2100.0490.0490.0000.0000.0000.000
112B166LEU00.0070.0076.5390.0320.0320.0000.0000.0000.000
113B167PRO00.0490.0119.8860.1740.1740.0000.0000.0000.000
114B168VAL00.0200.01911.706-0.030-0.0300.0000.0000.0000.000
115B169ARG10.8390.9094.534-2.631-2.353-0.001-0.106-0.1710.000
116B170HIS00.0090.0268.675-0.014-0.0140.0000.0000.0000.000
117B171LYS10.9180.94310.244-0.560-0.5600.0000.0000.0000.000
118B172GLU-1-0.767-0.85210.1500.5540.5540.0000.0000.0000.000
119B173PHE0-0.041-0.0058.147-0.076-0.0760.0000.0000.0000.000
120B174GLN00.0630.02910.028-0.132-0.1320.0000.0000.0000.000
121B175ARG10.8150.87313.516-0.557-0.5570.0000.0000.0000.000
122B176ASN0-0.098-0.05211.494-0.133-0.1330.0000.0000.0000.000
123B177ILE00.0550.05211.358-0.040-0.0400.0000.0000.0000.000
124B178LYS10.9760.97813.127-0.169-0.1690.0000.0000.0000.000
125B179LYS10.9260.96212.411-0.345-0.3450.0000.0000.0000.000
126B180GLU-1-0.759-0.8757.2350.6010.6010.0000.0000.0000.000
127B181TYR00.0580.01710.224-0.069-0.0690.0000.0000.0000.000
128B182ALA0-0.025-0.00612.392-0.046-0.0460.0000.0000.0000.000
129B183LYS10.8730.9277.149-0.293-0.2930.0000.0000.0000.000
130B184MET00.0250.0239.242-0.045-0.0450.0000.0000.0000.000
131B185VAL0-0.0180.00010.693-0.049-0.0490.0000.0000.0000.000
132B186GLN0-0.020-0.00813.864-0.018-0.0180.0000.0000.0000.000
133B187VAL00.006-0.0059.006-0.016-0.0160.0000.0000.0000.000
134B188LEU00.0080.00612.246-0.031-0.0310.0000.0000.0000.000
135B189HIS00.0570.01613.966-0.019-0.0190.0000.0000.0000.000
136B190ALA0-0.0070.00614.6820.0030.0030.0000.0000.0000.000
137B191TYR00.009-0.03510.729-0.002-0.0020.0000.0000.0000.000
138B192CYS0-0.065-0.01616.0460.0070.0070.0000.0000.0000.000
139B193ILE0-0.019-0.02018.9390.0090.0090.0000.0000.0000.000
140B194ILE0-0.035-0.00817.7240.0100.0100.0000.0000.0000.000
141B195SER0-0.003-0.00917.961-0.010-0.0100.0000.0000.0000.000
142B196ALA0-0.063-0.03620.5630.0100.0100.0000.0000.0000.000
143B197GLY0-0.016-0.00924.095-0.009-0.0090.0000.0000.0000.000
144B198ILE0-0.0130.00219.231-0.002-0.0020.0000.0000.0000.000
145B199ARG10.7600.84421.7270.1530.1530.0000.0000.0000.000
146B200VAL00.0100.00216.237-0.019-0.0190.0000.0000.0000.000
147B201SER0-0.029-0.03617.9710.0330.0330.0000.0000.0000.000
148B202CYS0-0.026-0.00315.386-0.018-0.0180.0000.0000.0000.000
149B203THR00.0150.01917.4160.0270.0270.0000.0000.0000.000
150B204ASN00.0520.02416.671-0.006-0.0060.0000.0000.0000.000
151B205GLN0-0.062-0.04118.333-0.009-0.0090.0000.0000.0000.000
152B206LEU0-0.0100.01718.7100.0090.0090.0000.0000.0000.000
153B207GLY00.0630.01820.096-0.004-0.0040.0000.0000.0000.000
154B208GLN0-0.029-0.01221.963-0.012-0.0120.0000.0000.0000.000
155B209GLY0-0.0020.01624.456-0.007-0.0070.0000.0000.0000.000
156B210LYS10.9730.97724.653-0.006-0.0060.0000.0000.0000.000
157B211ARG10.8380.89718.0320.0540.0540.0000.0000.0000.000
158B212GLN0-0.051-0.02522.3850.0010.0010.0000.0000.0000.000
159B213PRO00.0390.00421.800-0.005-0.0050.0000.0000.0000.000
160B214VAL0-0.058-0.01517.5500.0130.0130.0000.0000.0000.000
161B215VAL00.0170.00218.2070.0060.0060.0000.0000.0000.000
162B216CYS0-0.022-0.01020.775-0.012-0.0120.0000.0000.0000.000
163B217THR00.0140.02921.1880.0110.0110.0000.0000.0000.000
164B218GLY00.006-0.00123.646-0.002-0.0020.0000.0000.0000.000
165B219GLY00.0070.00624.5800.0010.0010.0000.0000.0000.000
166B220SER0-0.017-0.02425.550-0.001-0.0010.0000.0000.0000.000
167B221PRO00.0390.01726.749-0.010-0.0100.0000.0000.0000.000
168B222SER0-0.011-0.00228.528-0.002-0.0020.0000.0000.0000.000
169B223ILE00.0700.02024.5190.0000.0000.0000.0000.0000.000
170B224LYS10.8600.94526.4310.0580.0580.0000.0000.0000.000
171B225GLU-1-0.816-0.88528.958-0.076-0.0760.0000.0000.0000.000
172B226ASN0-0.0150.01723.1050.0110.0110.0000.0000.0000.000
173B227ILE00.002-0.00524.5030.0020.0020.0000.0000.0000.000
174B228GLY0-0.003-0.00325.5600.0070.0070.0000.0000.0000.000
175B229SER0-0.080-0.04824.8160.0060.0060.0000.0000.0000.000
176B230VAL0-0.047-0.00721.0560.0000.0000.0000.0000.0000.000
177B231PHE0-0.037-0.03021.1800.0100.0100.0000.0000.0000.000
178B232GLY00.0330.03026.3600.0080.0080.0000.0000.0000.000
179B233GLN00.0720.00129.786-0.002-0.0020.0000.0000.0000.000
180B234LYS10.8830.94132.8750.0210.0210.0000.0000.0000.000
181B235GLN00.0200.02127.4360.0050.0050.0000.0000.0000.000
182B236LEU00.0220.00429.0820.0000.0000.0000.0000.0000.000
183B237GLN00.0110.01932.1190.0010.0010.0000.0000.0000.000
184B238SER00.0030.00832.5000.0010.0010.0000.0000.0000.000
185B239LEU0-0.063-0.01428.6270.0000.0000.0000.0000.0000.000
186B240ILE00.0350.01632.770-0.001-0.0010.0000.0000.0000.000
187B241PRO00.005-0.01031.978-0.003-0.0030.0000.0000.0000.000
188B242PHE00.006-0.01827.5280.0040.0040.0000.0000.0000.000
189B243VAL0-0.039-0.04132.156-0.003-0.0030.0000.0000.0000.000
190B244GLN00.0190.00432.610-0.001-0.0010.0000.0000.0000.000
191B245LEU0-0.0160.00035.0000.0020.0020.0000.0000.0000.000
192B246PRO00.021-0.00236.739-0.003-0.0030.0000.0000.0000.000
193B247PRO0-0.046-0.00836.4730.0020.0020.0000.0000.0000.000
194B248SER00.040-0.00238.2780.0020.0020.0000.0000.0000.000
195B249ASP-1-0.835-0.92540.959-0.032-0.0320.0000.0000.0000.000
196B250SER00.0600.02942.5460.0000.0000.0000.0000.0000.000
197B251VAL0-0.049-0.00636.8290.0010.0010.0000.0000.0000.000
198B252CYS0-0.064-0.03637.850-0.003-0.0030.0000.0000.0000.000
199B253GLU-1-0.901-0.95438.957-0.022-0.0220.0000.0000.0000.000
200B254GLU-1-0.856-0.90637.238-0.021-0.0210.0000.0000.0000.000
201B255TYR0-0.016-0.00930.8590.0000.0000.0000.0000.0000.000
202B256GLY0-0.035-0.00435.579-0.002-0.0020.0000.0000.0000.000
203B257LEU0-0.085-0.04034.653-0.003-0.0030.0000.0000.0000.000
204B258SER00.000-0.01638.9480.0030.0030.0000.0000.0000.000
205B259CYS00.0480.01041.036-0.002-0.0020.0000.0000.0000.000
206B260SER00.016-0.00742.634-0.001-0.0010.0000.0000.0000.000
207B261ASP-1-0.800-0.86037.562-0.050-0.0500.0000.0000.0000.000
208B262ALA00.0070.00037.934-0.004-0.0040.0000.0000.0000.000
209B263LEU0-0.047-0.02438.536-0.003-0.0030.0000.0000.0000.000
210B264HIS10.7910.88534.6200.0630.0630.0000.0000.0000.000
211B265ASN0-0.010-0.02033.444-0.004-0.0040.0000.0000.0000.000
212B266LEU00.0320.02130.984-0.001-0.0010.0000.0000.0000.000
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