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: 4GZKN

Calculation Name: 1K1E-A-Xray549

Preferred Name:

Target Type:

Ligand Name: 2-(n-morpholino)-ethanesulfonic acid | sulfate ion | glycerol | cobalt (ii) ion | mercury (ii) ion

Ligand 3-letter code: MES | SO4 | GOL | CO | HG

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1K1E

Chain ID: A

ChEMBL ID:

UniProt ID: P45314

Base Structure: X-ray

Registration Date: 2025-10-11

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 OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 177
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1794110.31437
FMO2-HF: Nuclear repulsion 1726582.587058
FMO2-HF: Total energy -67527.727312
FMO2-MP2: Total energy -67722.311647


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:4:LYS)


Summations of interaction energy for fragment #1(A:4:LYS)
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.
-302.032-292.2550.681-4.154-6.302-0.034
Interaction energy analysis for fragmet #1(A:4:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 2 / q_Mulliken : 1.841 / q_NPA : 1.906
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].
3A6GLU-1-0.903-0.9522.531-87.303-84.0060.196-1.400-2.093-0.010
4A7ASN0-0.038-0.0223.2737.8249.8610.084-0.893-1.227-0.006
5A8ILE0-0.038-0.0034.8646.9277.130-0.001-0.023-0.1790.000
97A100GLU-1-0.967-0.9884.641-81.666-81.540-0.001-0.007-0.1180.000
98A101GLN0-0.0340.0024.521-7.720-7.589-0.001-0.011-0.1190.000
116A119GLY00.0130.0184.160-2.270-2.171-0.001-0.016-0.0820.000
117A120THR0-0.127-0.0832.909-32.663-29.0030.408-1.782-2.286-0.018
118A121SER00.0000.0034.82510.03210.057-0.001-0.010-0.0130.000
133A136ASP-1-0.856-0.9064.644-82.357-82.211-0.001-0.010-0.1350.000
134A137HIS10.7860.8864.66671.25671.309-0.001-0.002-0.0500.000
6A9LYS10.8320.9016.98950.19650.1960.0000.0000.0000.000
7A10PHE0-0.013-0.0069.9975.2405.2400.0000.0000.0000.000
8A11VAL00.0050.00310.241-4.656-4.6560.0000.0000.0000.000
9A12ILE0-0.0090.00612.4083.6133.6130.0000.0000.0000.000
10A13THR0-0.013-0.03613.918-1.956-1.9560.0000.0000.0000.000
11A14ASP-1-0.761-0.86616.594-26.306-26.3060.0000.0000.0000.000
12A15VAL0-0.028-0.01819.120-0.048-0.0480.0000.0000.0000.000
13A16ASP-1-0.855-0.91922.474-21.984-21.9840.0000.0000.0000.000
14A17GLY00.0850.05922.764-0.023-0.0230.0000.0000.0000.000
15A18VAL0-0.049-0.00817.312-0.928-0.9280.0000.0000.0000.000
16A19LEU0-0.022-0.01419.5330.0950.0950.0000.0000.0000.000
17A20THR0-0.005-0.00822.3270.8160.8160.0000.0000.0000.000
18A21ASP-1-0.845-0.91424.062-21.573-21.5730.0000.0000.0000.000
19A22GLY00.0580.02925.8060.3700.3700.0000.0000.0000.000
20A23GLN0-0.121-0.06026.7621.2051.2050.0000.0000.0000.000
21A24LEU0-0.0040.00928.943-0.111-0.1110.0000.0000.0000.000
22A25HIS0-0.004-0.00731.6770.9590.9590.0000.0000.0000.000
23A26TYR0-0.007-0.01834.234-0.141-0.1410.0000.0000.0000.000
24A27ASP-1-0.859-0.92037.833-14.664-14.6640.0000.0000.0000.000
25A28ALA0-0.033-0.03241.116-0.126-0.1260.0000.0000.0000.000
26A29ASN0-0.069-0.03041.9680.3210.3210.0000.0000.0000.000
27A30GLY00.0020.00938.033-0.226-0.2260.0000.0000.0000.000
28A31GLU-1-0.820-0.89131.371-19.679-19.6790.0000.0000.0000.000
29A32ALA00.0210.01935.8790.0470.0470.0000.0000.0000.000
30A33ILE0-0.035-0.02733.7610.0030.0030.0000.0000.0000.000
31A34LYS10.7870.86927.83120.93320.9330.0000.0000.0000.000
32A35SER00.0070.00030.1730.1910.1910.0000.0000.0000.000
33A36PHE00.0440.01825.252-0.596-0.5960.0000.0000.0000.000
34A37HIS00.0440.03723.7520.2480.2480.0000.0000.0000.000
35A38VAL00.0200.00524.959-0.605-0.6050.0000.0000.0000.000
36A39ARG10.9400.96922.39623.76823.7680.0000.0000.0000.000
37A40ASP-1-0.767-0.89019.969-29.770-29.7700.0000.0000.0000.000
38A41GLY00.0170.00520.414-1.027-1.0270.0000.0000.0000.000
39A42LEU0-0.022-0.01722.330-0.321-0.3210.0000.0000.0000.000
40A43GLY00.0630.02618.323-0.460-0.4600.0000.0000.0000.000
41A44ILE00.005-0.00317.732-1.430-1.4300.0000.0000.0000.000
42A45LYS10.8010.91319.18724.11924.1190.0000.0000.0000.000
43A46MET0-0.038-0.01817.948-0.292-0.2920.0000.0000.0000.000
44A47LEU0-0.0070.00712.773-1.155-1.1550.0000.0000.0000.000
45A48MET0-0.025-0.00915.888-0.595-0.5950.0000.0000.0000.000
46A49ASP-1-0.857-0.89618.386-27.397-27.3970.0000.0000.0000.000
47A50ALA0-0.0170.00313.9900.0660.0660.0000.0000.0000.000
48A51ASP-1-0.857-0.91114.053-40.219-40.2190.0000.0000.0000.000
49A52ILE0-0.061-0.01510.647-3.269-3.2690.0000.0000.0000.000
50A53GLN0-0.003-0.01213.7923.6223.6220.0000.0000.0000.000
51A54VAL00.008-0.00414.550-2.305-2.3050.0000.0000.0000.000
52A55ALA00.000-0.00416.5601.7811.7810.0000.0000.0000.000
53A56VAL0-0.0210.00017.726-1.033-1.0330.0000.0000.0000.000
54A57LEU00.008-0.00317.0920.9230.9230.0000.0000.0000.000
55A58SER00.012-0.00120.4630.1040.1040.0000.0000.0000.000
56A59GLY00.0390.01723.3990.3440.3440.0000.0000.0000.000
57A60ARG10.8270.90425.72820.68520.6850.0000.0000.0000.000
58A61ASP-1-0.747-0.86027.545-21.064-21.0640.0000.0000.0000.000
59A62SER00.0280.01430.1300.5380.5380.0000.0000.0000.000
60A63PRO00.0290.01231.807-0.510-0.5100.0000.0000.0000.000
61A64ILE00.0170.01531.934-0.202-0.2020.0000.0000.0000.000
62A65LEU00.0130.01225.318-0.380-0.3800.0000.0000.0000.000
63A66ARG10.8540.88228.35119.75419.7540.0000.0000.0000.000
64A67ARG10.8230.91229.88417.95717.9570.0000.0000.0000.000
65A68ARG10.9010.95625.80322.63222.6320.0000.0000.0000.000
66A69ILE00.002-0.00524.412-0.589-0.5890.0000.0000.0000.000
67A70ALA0-0.018-0.00526.397-0.492-0.4920.0000.0000.0000.000
68A71ASP-1-0.844-0.89729.157-19.257-19.2570.0000.0000.0000.000
69A72LEU0-0.0200.00023.357-0.298-0.2980.0000.0000.0000.000
70A73GLY0-0.0100.00724.796-0.845-0.8450.0000.0000.0000.000
71A74ILE0-0.040-0.01221.055-0.653-0.6530.0000.0000.0000.000
72A75LYS10.9560.97622.99625.88225.8820.0000.0000.0000.000
73A76LEU0-0.029-0.01118.4750.6430.6430.0000.0000.0000.000
74A77PHE00.030-0.00821.203-0.373-0.3730.0000.0000.0000.000
75A78PHE0-0.020-0.00821.4360.7570.7570.0000.0000.0000.000
76A79LEU0-0.024-0.00523.212-0.454-0.4540.0000.0000.0000.000
77A80GLY0-0.017-0.00326.0410.4250.4250.0000.0000.0000.000
78A81LYS10.8450.94322.60026.23426.2340.0000.0000.0000.000
79A82LEU00.0270.00023.535-0.898-0.8980.0000.0000.0000.000
80A83GLU-1-0.822-0.86220.461-28.228-28.2280.0000.0000.0000.000
81A84LYS10.8550.89317.93629.59829.5980.0000.0000.0000.000
82A85GLU-1-0.896-0.92915.353-34.622-34.6220.0000.0000.0000.000
83A86THR0-0.046-0.07616.414-1.037-1.0370.0000.0000.0000.000
84A87ALA00.0040.01118.566-0.452-0.4520.0000.0000.0000.000
85A88CYS0-0.0090.00913.525-0.746-0.7460.0000.0000.0000.000
86A89PHE00.0130.00011.857-0.916-0.9160.0000.0000.0000.000
87A90ASP-1-0.889-0.95615.888-27.392-27.3920.0000.0000.0000.000
88A91LEU0-0.057-0.02116.9190.8480.8480.0000.0000.0000.000
89A92MET0-0.035-0.00610.478-0.075-0.0750.0000.0000.0000.000
90A93LYS10.9430.97115.17330.98430.9840.0000.0000.0000.000
91A94GLN0-0.088-0.05318.0141.8141.8140.0000.0000.0000.000
92A95ALA00.0100.02215.5110.9230.9230.0000.0000.0000.000
93A96GLY0-0.038-0.00116.763-0.227-0.2270.0000.0000.0000.000
94A97VAL0-0.035-0.01011.346-0.867-0.8670.0000.0000.0000.000
95A98THR0-0.002-0.0179.2890.9100.9100.0000.0000.0000.000
96A99ALA00.0960.0328.612-1.904-1.9040.0000.0000.0000.000
99A102THR00.0270.0017.1116.0596.0590.0000.0000.0000.000
100A103ALA0-0.041-0.0177.173-5.845-5.8450.0000.0000.0000.000
101A104TYR00.007-0.0398.4525.2355.2350.0000.0000.0000.000
102A105ILE0-0.040-0.02410.593-2.246-2.2460.0000.0000.0000.000
103A106GLY00.033-0.00213.3481.7711.7710.0000.0000.0000.000
104A107ASP-1-0.893-0.96116.085-28.239-28.2390.0000.0000.0000.000
105A108ASP-1-0.760-0.87018.670-24.890-24.8900.0000.0000.0000.000
106A109SER0-0.057-0.07818.946-1.349-1.3490.0000.0000.0000.000
107A110VAL0-0.037-0.01419.647-0.429-0.4290.0000.0000.0000.000
108A111ASP-1-0.726-0.84615.740-32.103-32.1030.0000.0000.0000.000
109A112LEU0-0.0310.00214.900-2.288-2.2880.0000.0000.0000.000
110A113PRO0-0.001-0.01013.973-2.126-2.1260.0000.0000.0000.000
111A114ALA00.0110.00413.940-1.496-1.4960.0000.0000.0000.000
112A115PHE00.006-0.01810.283-2.760-2.7600.0000.0000.0000.000
113A116ALA0-0.0090.0089.271-4.318-4.3180.0000.0000.0000.000
114A117ALA00.0040.01510.218-1.803-1.8030.0000.0000.0000.000
115A118CYS0-0.082-0.0238.258-0.027-0.0270.0000.0000.0000.000
119A122PHE0-0.017-0.0307.582-3.416-3.4160.0000.0000.0000.000
120A123ALA00.0510.03210.6572.0512.0510.0000.0000.0000.000
121A124VAL00.0240.01314.211-0.636-0.6360.0000.0000.0000.000
122A125ALA00.0120.01417.3750.1210.1210.0000.0000.0000.000
123A126ASP-1-0.867-0.93419.410-25.493-25.4930.0000.0000.0000.000
124A127ALA00.0260.03317.9280.7410.7410.0000.0000.0000.000
125A128PRO00.0030.00920.0000.1930.1930.0000.0000.0000.000
126A129ILE00.004-0.01719.258-1.405-1.4050.0000.0000.0000.000
127A130TYR0-0.003-0.01118.055-1.185-1.1850.0000.0000.0000.000
128A131VAL00.0030.02215.611-1.141-1.1410.0000.0000.0000.000
129A132LYS10.8330.90414.50626.95026.9500.0000.0000.0000.000
130A133ASN0-0.044-0.02313.797-1.411-1.4110.0000.0000.0000.000
131A134ALA0-0.031-0.01012.412-0.998-0.9980.0000.0000.0000.000
132A135VAL0-0.0180.0079.506-2.465-2.4650.0000.0000.0000.000
135A138VAL00.0430.0309.6211.5091.5090.0000.0000.0000.000
136A139LEU0-0.055-0.01812.592-1.032-1.0320.0000.0000.0000.000
137A140SER0-0.059-0.06515.1622.0312.0310.0000.0000.0000.000
138A141THR0-0.074-0.05118.2222.3192.3190.0000.0000.0000.000
139A142HIS0-0.002-0.00519.381-1.519-1.5190.0000.0000.0000.000
140A143GLY00.0710.02821.126-0.405-0.4050.0000.0000.0000.000
141A144GLY0-0.031-0.00922.0451.2711.2710.0000.0000.0000.000
142A145LYS10.7730.86723.05522.95522.9550.0000.0000.0000.000
143A146GLY0-0.039-0.01921.1590.4520.4520.0000.0000.0000.000
144A147ALA00.0600.03517.630-1.163-1.1630.0000.0000.0000.000
145A148PHE00.0520.01415.870-2.373-2.3730.0000.0000.0000.000
146A149ARG10.7910.88215.45728.41928.4190.0000.0000.0000.000
147A150GLU-1-0.700-0.79114.501-35.698-35.6980.0000.0000.0000.000
148A151MET00.0270.02210.385-2.855-2.8550.0000.0000.0000.000
149A152SER0-0.067-0.04311.199-2.590-2.5900.0000.0000.0000.000
150A153ASP-1-0.785-0.89012.972-34.467-34.4670.0000.0000.0000.000
151A154MET0-0.018-0.0118.692-1.017-1.0170.0000.0000.0000.000
152A155ILE0-0.024-0.0097.591-4.859-4.8590.0000.0000.0000.000
153A156LEU0-0.008-0.0059.054-2.442-2.4420.0000.0000.0000.000
154A157GLN0-0.019-0.01311.4111.9041.9040.0000.0000.0000.000
155A158ALA0-0.049-0.0205.613-0.383-0.3830.0000.0000.0000.000
156A159GLN0-0.024-0.0067.1272.3342.3340.0000.0000.0000.000
157A160GLY00.0010.0108.7523.3113.3110.0000.0000.0000.000
158A161LYS10.8030.88511.30447.75547.7550.0000.0000.0000.000
159A162SER00.017-0.01114.2180.8290.8290.0000.0000.0000.000
160A163SER00.0050.03015.6641.5181.5180.0000.0000.0000.000
161A164VAL0-0.008-0.00517.4641.9231.9230.0000.0000.0000.000
162A165PHE00.008-0.02514.9501.3231.3230.0000.0000.0000.000
163A166ASP-1-0.848-0.90217.945-29.328-29.3280.0000.0000.0000.000
164A167THR0-0.042-0.02520.9521.6001.6000.0000.0000.0000.000
165A168ALA00.0410.01523.555-0.145-0.1450.0000.0000.0000.000
166A169GLN00.004-0.00725.538-0.186-0.1860.0000.0000.0000.000
167A170GLY00.0160.00922.0240.2320.2320.0000.0000.0000.000
168A171PHE00.0630.03422.9680.2700.2700.0000.0000.0000.000
169A172LEU0-0.004-0.01824.1670.2960.2960.0000.0000.0000.000
170A173LYS10.8200.91723.15624.35924.3590.0000.0000.0000.000
171A174SER00.0810.00321.0380.7580.7580.0000.0000.0000.000
172A175VAL0-0.068-0.02523.9370.1500.1500.0000.0000.0000.000
173A176LYS10.8530.93226.85021.30821.3080.0000.0000.0000.000
174A177SER00.005-0.00223.5470.8910.8910.0000.0000.0000.000
175A178MET0-0.097-0.03621.257-0.804-0.8040.0000.0000.0000.000
176A179GLY0-0.0160.00625.6690.1960.1960.0000.0000.0000.000
177A180GLN-1-0.848-0.93925.784-21.963-21.9630.0000.0000.0000.000