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

tag_button

FMODB ID: 97N82

Calculation Name: 2MHS-A-Other547

Preferred Name: Induced myeloid leukemia cell differentiation protein Mcl-1

Target Type: SINGLE PROTEIN

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2MHS

Chain ID: A

ChEMBL ID: CHEMBL4361

UniProt ID: Q07820

Base Structure: SolutionNMR

Registration Date: 2025-10-04

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
Remarks
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE.
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 164
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1719421.644825
FMO2-HF: Nuclear repulsion 1653696.932808
FMO2-HF: Total energy -65724.712016
FMO2-MP2: Total energy -65918.081168


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(A:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
34.55836.116-0.019-0.755-0.7840
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.804 / q_NPA : 0.880
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].
3A3ASP-1-0.778-0.8473.856-39.509-37.951-0.019-0.755-0.7840.000
4A4GLU-1-0.806-0.8816.698-23.473-23.4730.0000.0000.0000.000
5A5LEU00.0300.0119.2281.2961.2960.0000.0000.0000.000
6A6TYR00.0630.0436.9240.8490.8490.0000.0000.0000.000
7A7ARG10.9040.9305.25245.08845.0880.0000.0000.0000.000
8A8GLN00.0290.0358.9872.0872.0870.0000.0000.0000.000
9A9SER0-0.036-0.04412.2521.2121.2120.0000.0000.0000.000
10A10LEU00.0390.0348.0491.5631.5630.0000.0000.0000.000
11A11GLU-1-0.826-0.89811.835-19.551-19.5510.0000.0000.0000.000
12A12ILE0-0.059-0.02313.9761.5271.5270.0000.0000.0000.000
13A13ILE00.013-0.00114.0801.3391.3390.0000.0000.0000.000
14A14SER00.0180.00813.6721.5141.5140.0000.0000.0000.000
15A15ARG10.7850.87115.77915.93815.9380.0000.0000.0000.000
16A16TYR00.0520.02918.9610.7990.7990.0000.0000.0000.000
17A17LEU00.005-0.00316.4910.7770.7770.0000.0000.0000.000
18A18ARG10.8570.91817.76815.75815.7580.0000.0000.0000.000
19A19GLU-1-0.736-0.82120.718-12.463-12.4630.0000.0000.0000.000
20A20GLN00.0220.01523.3080.7910.7910.0000.0000.0000.000
21A21ALA0-0.0080.00422.1980.4790.4790.0000.0000.0000.000
22A22THR0-0.067-0.05924.1670.4880.4880.0000.0000.0000.000
23A23GLY0-0.0020.02226.4820.4190.4190.0000.0000.0000.000
24A24ALA0-0.016-0.00227.6540.4340.4340.0000.0000.0000.000
25A25LYS10.8630.91826.73411.17811.1780.0000.0000.0000.000
26A26ASP-1-0.722-0.85121.273-14.534-14.5340.0000.0000.0000.000
27A27THR0-0.082-0.05623.6540.5700.5700.0000.0000.0000.000
28A28LYS10.8360.91714.78119.77519.7750.0000.0000.0000.000
29A29PRO00.0140.00319.2330.3220.3220.0000.0000.0000.000
30A30MET0-0.0220.01918.461-0.449-0.4490.0000.0000.0000.000
31A31GLY00.0390.02114.675-0.209-0.2090.0000.0000.0000.000
32A32ARG10.8420.88813.60322.19622.1960.0000.0000.0000.000
33A33SER00.0340.01115.7111.1731.1730.0000.0000.0000.000
34A34GLY00.0000.00418.7830.3320.3320.0000.0000.0000.000
35A35ALA00.0210.01021.2430.2850.2850.0000.0000.0000.000
36A36THR00.000-0.02820.2920.1450.1450.0000.0000.0000.000
37A37SER00.003-0.02917.3520.0160.0160.0000.0000.0000.000
38A38ARG10.7610.85120.05811.44311.4430.0000.0000.0000.000
39A39LYS10.9160.95923.33611.99311.9930.0000.0000.0000.000
40A40ALA00.0340.02821.0520.3400.3400.0000.0000.0000.000
41A41LEU00.0180.00920.9710.3020.3020.0000.0000.0000.000
42A42GLU-1-0.868-0.91822.948-10.818-10.8180.0000.0000.0000.000
43A43THR00.002-0.00525.9330.6360.6360.0000.0000.0000.000
44A44LEU0-0.012-0.02220.2020.2820.2820.0000.0000.0000.000
45A45ARG10.7630.85224.52812.54412.5440.0000.0000.0000.000
46A46ARG10.9340.98226.56510.21310.2130.0000.0000.0000.000
47A47VAL00.0030.00227.1280.3300.3300.0000.0000.0000.000
48A48GLY00.0390.01825.9590.1240.1240.0000.0000.0000.000
49A49ASP-1-0.907-0.94226.910-9.933-9.9330.0000.0000.0000.000
50A50GLY00.0480.02229.7020.2060.2060.0000.0000.0000.000
51A51VAL0-0.024-0.00726.8410.2540.2540.0000.0000.0000.000
52A52GLN00.0280.00826.7770.2390.2390.0000.0000.0000.000
53A53ARG10.8990.94929.6879.1239.1230.0000.0000.0000.000
54A54ASN0-0.040-0.02532.7240.4740.4740.0000.0000.0000.000
55A55HIS00.0110.00928.9100.0690.0690.0000.0000.0000.000
56A56GLU-1-0.925-0.94530.509-9.421-9.4210.0000.0000.0000.000
57A57THR0-0.008-0.01231.503-0.067-0.0670.0000.0000.0000.000
58A58ALA00.0190.01430.6430.0640.0640.0000.0000.0000.000
59A59PHE0-0.005-0.01725.816-0.190-0.1900.0000.0000.0000.000
60A60GLN00.0880.03128.019-0.275-0.2750.0000.0000.0000.000
61A61GLY0-0.043-0.00130.5270.1710.1710.0000.0000.0000.000
62A62MET0-0.025-0.01724.6560.0180.0180.0000.0000.0000.000
63A63LEU00.0250.00124.401-0.122-0.1220.0000.0000.0000.000
64A64ARG10.9230.95426.7958.7638.7630.0000.0000.0000.000
65A65LYS10.8970.96324.90410.98510.9850.0000.0000.0000.000
66A66LEU0-0.115-0.05521.703-0.190-0.1900.0000.0000.0000.000
67A67ASP-1-0.856-0.92323.455-11.233-11.2330.0000.0000.0000.000
68A68ILE0-0.030-0.01218.481-0.122-0.1220.0000.0000.0000.000
69A69LYS10.9260.94621.22312.28812.2880.0000.0000.0000.000
70A70ASN0-0.020-0.02817.200-0.425-0.4250.0000.0000.0000.000
71A71GLU-1-0.813-0.91110.730-22.084-22.0840.0000.0000.0000.000
72A72ASP-1-0.929-0.95913.821-16.244-16.2440.0000.0000.0000.000
73A73ASP-1-0.745-0.84815.014-13.197-13.1970.0000.0000.0000.000
74A74VAL00.0030.00013.2970.3530.3530.0000.0000.0000.000
75A75LYS10.8640.9349.30419.88319.8830.0000.0000.0000.000
76A76SER0-0.019-0.00912.8750.2500.2500.0000.0000.0000.000
77A77LEU0-0.008-0.00816.0870.3440.3440.0000.0000.0000.000
78A78SER0-0.0140.01011.3220.3670.3670.0000.0000.0000.000
79A79ARG10.9670.97412.46916.61116.6110.0000.0000.0000.000
80A80VAL00.0240.02316.3250.5050.5050.0000.0000.0000.000
81A81MET0-0.012-0.01115.1770.4150.4150.0000.0000.0000.000
82A82ILE0-0.008-0.00912.6940.0820.0820.0000.0000.0000.000
83A83HIS0-0.038-0.03016.6090.6390.6390.0000.0000.0000.000
84A84VAL0-0.0320.00519.6450.5380.5380.0000.0000.0000.000
85A85PHE00.011-0.01916.4100.1920.1920.0000.0000.0000.000
86A86SER00.006-0.00220.8170.0610.0610.0000.0000.0000.000
87A87ASP-1-0.847-0.89922.587-11.190-11.1900.0000.0000.0000.000
88A88GLY0-0.0040.01824.6230.3900.3900.0000.0000.0000.000
89A89VAL0-0.004-0.00425.871-0.147-0.1470.0000.0000.0000.000
90A90THR00.0230.01124.944-0.430-0.4300.0000.0000.0000.000
91A91ASN00.0070.00424.584-0.432-0.4320.0000.0000.0000.000
92A92TRP00.1020.05120.862-0.515-0.5150.0000.0000.0000.000
93A93GLY00.0180.01324.469-0.324-0.3240.0000.0000.0000.000
94A94ARG10.7600.86922.83612.27712.2770.0000.0000.0000.000
95A95ILE00.0000.00819.132-0.452-0.4520.0000.0000.0000.000
96A96VAL0-0.0090.00220.943-0.474-0.4740.0000.0000.0000.000
97A97THR0-0.001-0.02223.315-0.026-0.0260.0000.0000.0000.000
98A98LEU0-0.0120.01015.8030.0570.0570.0000.0000.0000.000
99A99ILE00.0240.00817.950-0.215-0.2150.0000.0000.0000.000
100A100SER0-0.068-0.02520.1600.1090.1090.0000.0000.0000.000
101A101PHE00.0260.00720.8900.2030.2030.0000.0000.0000.000
102A102GLY00.0400.00519.0830.0430.0430.0000.0000.0000.000
103A103ALA0-0.013-0.01819.873-0.063-0.0630.0000.0000.0000.000
104A104PHE0-0.040-0.01422.1990.3160.3160.0000.0000.0000.000
105A105VAL00.0090.00120.3180.3310.3310.0000.0000.0000.000
106A106ALA0-0.0020.00020.0450.1250.1250.0000.0000.0000.000
107A107LYS10.8540.91921.65211.44011.4400.0000.0000.0000.000
108A108HIS0-0.037-0.00124.6990.4360.4360.0000.0000.0000.000
109A109LEU0-0.004-0.01219.2310.1240.1240.0000.0000.0000.000
110A110LYS10.8380.91123.37912.26612.2660.0000.0000.0000.000
111A111THR0-0.055-0.02724.8320.3900.3900.0000.0000.0000.000
112A112ILE0-0.026-0.00124.1040.3100.3100.0000.0000.0000.000
113A113ASN0-0.028-0.02325.5760.0280.0280.0000.0000.0000.000
114A114GLN00.0370.03621.107-0.870-0.8700.0000.0000.0000.000
115A115GLU-1-0.751-0.88620.137-13.797-13.7970.0000.0000.0000.000
116A116SER00.0230.00716.603-0.365-0.3650.0000.0000.0000.000
117A117SER00.0000.00215.381-1.323-1.3230.0000.0000.0000.000
118A118ILE0-0.051-0.02416.097-0.408-0.4080.0000.0000.0000.000
119A119GLU-1-0.952-0.96412.554-20.469-20.4690.0000.0000.0000.000
120A120PRO00.0920.05110.541-1.138-1.1380.0000.0000.0000.000
121A121LEU0-0.0270.01211.573-0.399-0.3990.0000.0000.0000.000
122A122ALA00.031-0.00113.095-0.017-0.0170.0000.0000.0000.000
123A123GLU-1-0.915-0.9516.732-35.590-35.5900.0000.0000.0000.000
124A124SER0-0.019-0.0259.730-0.830-0.8300.0000.0000.0000.000
125A125ILE0-0.058-0.03010.9240.6340.6340.0000.0000.0000.000
126A126THR0-0.014-0.0329.8780.9400.9400.0000.0000.0000.000
127A127ASP-1-0.862-0.8886.409-29.693-29.6930.0000.0000.0000.000
128A128VAL00.0150.0089.0590.5030.5030.0000.0000.0000.000
129A129LEU0-0.016-0.00312.0840.9020.9020.0000.0000.0000.000
130A130VAL0-0.026-0.0279.0990.7850.7850.0000.0000.0000.000
131A131ARG10.7940.8715.85326.92526.9250.0000.0000.0000.000
132A132THR0-0.038-0.00711.0251.2001.2000.0000.0000.0000.000
133A133LYS10.9110.95214.85815.62915.6290.0000.0000.0000.000
134A134ARG10.8650.9148.68230.10230.1020.0000.0000.0000.000
135A135ASP-1-0.869-0.94214.568-17.680-17.6800.0000.0000.0000.000
136A136TRP00.0100.00117.9110.6480.6480.0000.0000.0000.000
137A137LEU0-0.006-0.02014.1850.5950.5950.0000.0000.0000.000
138A138VAL0-0.014-0.00217.3390.1390.1390.0000.0000.0000.000
139A139LYS10.9180.95919.18515.22615.2260.0000.0000.0000.000
140A140GLN00.0280.00922.0950.4270.4270.0000.0000.0000.000
141A141ARG10.8940.93721.47112.75912.7590.0000.0000.0000.000
142A142GLY00.0290.02119.560-0.307-0.3070.0000.0000.0000.000
143A143TRP0-0.026-0.01015.8960.8260.8260.0000.0000.0000.000
144A144ASP-1-0.834-0.91621.349-13.622-13.6220.0000.0000.0000.000
145A145GLY00.0690.04224.1140.5580.5580.0000.0000.0000.000
146A146PHE0-0.069-0.03923.2870.4840.4840.0000.0000.0000.000
147A147VAL0-0.013-0.01825.0770.4350.4350.0000.0000.0000.000
148A148GLU-1-0.829-0.89827.608-10.943-10.9430.0000.0000.0000.000
149A149PHE0-0.023-0.00528.0080.4010.4010.0000.0000.0000.000
150A150PHE0-0.072-0.07526.6750.2820.2820.0000.0000.0000.000
151A151HIS0-0.079-0.03130.7450.3560.3560.0000.0000.0000.000
152A152VAL0-0.032-0.01430.1810.2060.2060.0000.0000.0000.000
153A153GLU-1-0.807-0.89129.047-10.949-10.9490.0000.0000.0000.000
154A154ASP-1-0.769-0.86232.420-9.540-9.5400.0000.0000.0000.000
155A155LEU0-0.036-0.01834.0230.1820.1820.0000.0000.0000.000
156A156GLU-1-0.978-0.97335.010-8.993-8.9930.0000.0000.0000.000
157A157GLY00.0310.00635.9080.2320.2320.0000.0000.0000.000
158A158GLY00.0110.01132.246-0.051-0.0510.0000.0000.0000.000
159A159HIS10.7510.87231.7639.3209.3200.0000.0000.0000.000
160A160HIS00.0520.02432.7990.4570.4570.0000.0000.0000.000
161A161HIS0-0.070-0.03031.644-0.152-0.1520.0000.0000.0000.000
162A162HIS00.0470.01832.7510.3430.3430.0000.0000.0000.000
163A163HIS0-0.066-0.03631.594-0.478-0.4780.0000.0000.0000.000
164A164HIS-1-0.926-0.94532.910-8.843-8.8430.0000.0000.0000.000