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: 1VM1Z

Calculation Name: 1DAB-A-Xray549

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1DAB

Chain ID: A

ChEMBL ID:

UniProt ID: P14283

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 539
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -8828765.855264
FMO2-HF: Nuclear repulsion 8639769.383462
FMO2-HF: Total energy -188996.471801
FMO2-MP2: Total energy -189558.57514


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:ASP)


Summations of interaction energy for fragment #1(A:1:ASP)
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.
-49.828-38.59813.934-11.781-13.3820.011
Interaction energy analysis for fragmet #1(A:1:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.085 / q_NPA : -0.045
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].
3A3ASN00.0120.0203.675-0.3471.685-0.018-0.873-1.141-0.002
28A28ARG10.8440.9282.495-16.102-11.9652.250-2.585-3.8030.031
29A29THR0-0.047-0.0332.133-21.043-17.3915.412-4.032-5.0320.046
30A30ALA00.0340.0192.004-27.339-26.0886.291-4.275-3.266-0.064
31A31SER0-0.004-0.0064.7033.6893.847-0.001-0.016-0.1400.000
4A4ASN0-0.011-0.0035.4741.1481.1480.0000.0000.0000.000
5A5GLN00.0110.0146.057-1.945-1.9450.0000.0000.0000.000
6A6SER00.0160.0009.9110.5260.5260.0000.0000.0000.000
7A7ILE0-0.057-0.0197.1870.1290.1290.0000.0000.0000.000
8A8VAL00.0150.00611.8110.2590.2590.0000.0000.0000.000
9A9LYS10.8320.90811.0340.1200.1200.0000.0000.0000.000
10A10THR00.007-0.00616.5810.0140.0140.0000.0000.0000.000
11A11GLY0-0.0020.00919.3660.0420.0420.0000.0000.0000.000
12A12GLU-1-0.856-0.94219.9940.3500.3500.0000.0000.0000.000
13A13ARG10.8010.87418.846-0.623-0.6230.0000.0000.0000.000
14A14GLN00.0080.02315.6270.0240.0240.0000.0000.0000.000
15A15HIS00.0850.05013.055-0.335-0.3350.0000.0000.0000.000
16A16GLY0-0.022-0.00311.672-0.113-0.1130.0000.0000.0000.000
17A17ILE0-0.059-0.0335.715-0.234-0.2340.0000.0000.0000.000
18A18HIS0-0.045-0.0418.829-0.222-0.2220.0000.0000.0000.000
19A19ILE0-0.047-0.0156.4871.0741.0740.0000.0000.0000.000
20A20GLN00.0560.0299.697-1.054-1.0540.0000.0000.0000.000
21A21GLY00.0320.01612.3470.5280.5280.0000.0000.0000.000
22A22SER0-0.028-0.00913.552-0.222-0.2220.0000.0000.0000.000
23A23ASP-1-0.877-0.9278.9585.3105.3100.0000.0000.0000.000
24A24PRO00.001-0.0098.520-0.355-0.3550.0000.0000.0000.000
25A25GLY00.0870.0539.1710.8910.8910.0000.0000.0000.000
26A26GLY0-0.017-0.0138.6681.2541.2540.0000.0000.0000.000
27A27VAL0-0.027-0.0155.9640.6060.6060.0000.0000.0000.000
32A32GLY00.0640.0357.143-1.303-1.3030.0000.0000.0000.000
33A33THR0-0.052-0.0436.6010.2720.2720.0000.0000.0000.000
34A34THR0-0.049-0.0179.6190.8870.8870.0000.0000.0000.000
35A35ILE00.0040.0068.902-0.236-0.2360.0000.0000.0000.000
36A36LYS10.8430.92112.9601.2851.2850.0000.0000.0000.000
37A37VAL00.0230.01714.835-0.045-0.0450.0000.0000.0000.000
38A38SER00.004-0.00817.6040.0240.0240.0000.0000.0000.000
39A39GLY00.0250.03919.9450.0240.0240.0000.0000.0000.000
40A40ARG10.8500.90721.418-0.311-0.3110.0000.0000.0000.000
41A41GLN0-0.047-0.03722.1100.0190.0190.0000.0000.0000.000
42A42ALA0-0.0100.01017.5370.1320.1320.0000.0000.0000.000
43A43GLN00.0260.00615.293-0.080-0.0800.0000.0000.0000.000
44A44GLY00.015-0.00213.991-0.055-0.0550.0000.0000.0000.000
45A45ILE0-0.045-0.0409.461-0.056-0.0560.0000.0000.0000.000
46A46LEU00.0130.01911.872-0.129-0.1290.0000.0000.0000.000
47A47LEU0-0.042-0.0199.8030.5940.5940.0000.0000.0000.000
48A48GLU-1-0.812-0.91412.8971.3821.3820.0000.0000.0000.000
49A49ASN0-0.032-0.03111.621-0.200-0.2000.0000.0000.0000.000
50A50PRO00.0450.02313.2840.2980.2980.0000.0000.0000.000
51A51ALA0-0.0200.00313.448-0.136-0.1360.0000.0000.0000.000
52A52ALA0-0.024-0.0018.7090.6790.6790.0000.0000.0000.000
53A53GLU-1-0.819-0.8928.7911.7031.7030.0000.0000.0000.000
54A54LEU0-0.013-0.0035.2902.8332.8330.0000.0000.0000.000
55A55GLN0-0.018-0.0086.627-2.341-2.3410.0000.0000.0000.000
56A56PHE0-0.012-0.0136.420-1.473-1.4730.0000.0000.0000.000
57A57ARG10.8330.8918.4602.0392.0390.0000.0000.0000.000
58A58ASN0-0.014-0.0129.938-0.503-0.5030.0000.0000.0000.000
59A59GLY00.0700.04611.588-0.368-0.3680.0000.0000.0000.000
60A60SER0-0.049-0.03212.5500.4960.4960.0000.0000.0000.000
61A61VAL00.0080.00211.932-0.242-0.2420.0000.0000.0000.000
62A62THR0-0.008-0.00314.6420.0770.0770.0000.0000.0000.000
63A63SER00.0570.03317.305-0.032-0.0320.0000.0000.0000.000
64A64SER0-0.011-0.02419.569-0.040-0.0400.0000.0000.0000.000
65A65GLY00.0560.04622.1730.0000.0000.0000.0000.0000.000
66A66GLN00.0170.02123.6360.0560.0560.0000.0000.0000.000
67A67LEU0-0.059-0.02620.3960.0530.0530.0000.0000.0000.000
68A68SER00.0210.01723.5680.0690.0690.0000.0000.0000.000
69A69ASP-1-0.791-0.90623.6180.9170.9170.0000.0000.0000.000
70A70ASP-1-0.831-0.88623.5310.6660.6660.0000.0000.0000.000
71A71GLY0-0.061-0.02426.311-0.023-0.0230.0000.0000.0000.000
72A72ILE0-0.044-0.02428.073-0.011-0.0110.0000.0000.0000.000
73A73ARG10.8700.93330.790-0.392-0.3920.0000.0000.0000.000
74A74ARG10.8380.89425.456-0.465-0.4650.0000.0000.0000.000
75A75PHE00.0280.06025.425-0.003-0.0030.0000.0000.0000.000
76A76LEU0-0.053-0.02619.9660.0480.0480.0000.0000.0000.000
77A77GLY00.0410.01519.919-0.088-0.0880.0000.0000.0000.000
78A78THR0-0.0160.00317.2960.0820.0820.0000.0000.0000.000
79A79VAL0-0.004-0.01013.5710.0330.0330.0000.0000.0000.000
80A80THR0-0.008-0.01015.235-0.071-0.0710.0000.0000.0000.000
81A81VAL0-0.031-0.00814.3020.2550.2550.0000.0000.0000.000
82A82LYS10.9000.94816.656-1.303-1.3030.0000.0000.0000.000
83A83ALA0-0.003-0.00716.430-0.095-0.0950.0000.0000.0000.000
84A84GLY00.0470.04313.3060.3550.3550.0000.0000.0000.000
85A85LYS10.8210.89712.598-2.597-2.5970.0000.0000.0000.000
86A86LEU00.0270.01110.5870.6310.6310.0000.0000.0000.000
87A87VAL0-0.040-0.02410.993-0.244-0.2440.0000.0000.0000.000
88A88ALA0-0.0060.00310.963-0.201-0.2010.0000.0000.0000.000
89A89ASP-1-0.781-0.86912.386-1.035-1.0350.0000.0000.0000.000
90A90HIS10.8600.91413.4920.6760.6760.0000.0000.0000.000
91A91ALA0-0.0010.01213.622-0.257-0.2570.0000.0000.0000.000
92A92THR0-0.016-0.01315.4490.2350.2350.0000.0000.0000.000
93A93LEU0-0.023-0.01314.238-0.111-0.1110.0000.0000.0000.000
94A94ALA00.0160.00517.8100.0720.0720.0000.0000.0000.000
95A95ASN0-0.091-0.06520.137-0.080-0.0800.0000.0000.0000.000
96A96VAL0-0.030-0.02522.182-0.025-0.0250.0000.0000.0000.000
97A97GLY00.0020.01924.239-0.014-0.0140.0000.0000.0000.000
98A98ASP-1-0.918-0.95725.826-0.141-0.1410.0000.0000.0000.000
99A99THR0-0.040-0.03929.6060.0240.0240.0000.0000.0000.000
100A100TRP0-0.032-0.02831.3120.0310.0310.0000.0000.0000.000
101A101ASP-1-0.855-0.93429.2490.0500.0500.0000.0000.0000.000
102A102ASP-1-0.786-0.91225.1010.2190.2190.0000.0000.0000.000
103A103ASP-1-0.841-0.92027.3470.2240.2240.0000.0000.0000.000
104A104GLY00.0150.01025.700-0.023-0.0230.0000.0000.0000.000
105A105ILE0-0.092-0.03722.189-0.037-0.0370.0000.0000.0000.000
106A106ALA0-0.0010.01220.883-0.006-0.0060.0000.0000.0000.000
107A107LEU0-0.036-0.03416.7760.0190.0190.0000.0000.0000.000
108A108TYR0-0.034-0.04519.067-0.008-0.0080.0000.0000.0000.000
109A109VAL0-0.005-0.00618.2290.1340.1340.0000.0000.0000.000
110A110ALA0-0.024-0.02720.410-0.114-0.1140.0000.0000.0000.000
111A111GLY00.0610.03521.4370.1140.1140.0000.0000.0000.000
112A112GLU-1-0.867-0.94422.3521.0471.0470.0000.0000.0000.000
113A113GLN0-0.040-0.02318.8140.0920.0920.0000.0000.0000.000
114A114ALA0-0.0330.01217.7820.2870.2870.0000.0000.0000.000
115A115GLN00.006-0.01316.656-0.263-0.2630.0000.0000.0000.000
116A116ALA00.0140.00215.9250.1760.1760.0000.0000.0000.000
117A117SER0-0.037-0.00915.697-0.169-0.1690.0000.0000.0000.000
118A118ILE00.0040.00315.617-0.041-0.0410.0000.0000.0000.000
119A119ALA00.0290.01017.0090.0260.0260.0000.0000.0000.000
120A120ASP-1-0.813-0.86617.757-0.732-0.7320.0000.0000.0000.000
121A121SER00.013-0.00717.122-0.190-0.1900.0000.0000.0000.000
122A122THR0-0.038-0.02119.3740.0950.0950.0000.0000.0000.000
123A123LEU0-0.023-0.00718.907-0.027-0.0270.0000.0000.0000.000
124A124GLN00.001-0.01021.7070.0470.0470.0000.0000.0000.000
125A125GLY00.0280.01222.9990.0010.0010.0000.0000.0000.000
126A126ALA00.0530.02325.6690.0350.0350.0000.0000.0000.000
127A127GLY00.0850.05126.9570.0190.0190.0000.0000.0000.000
128A128GLY0-0.023-0.00725.6540.0490.0490.0000.0000.0000.000
129A129VAL0-0.049-0.02622.0420.0200.0200.0000.0000.0000.000
130A130GLN0-0.008-0.01323.4380.0270.0270.0000.0000.0000.000
131A131ILE00.0200.01422.7290.0730.0730.0000.0000.0000.000
132A132GLU-1-0.746-0.82824.7170.5350.5350.0000.0000.0000.000
133A133ARG10.9220.94025.210-0.668-0.6680.0000.0000.0000.000
134A134GLY00.1040.06126.0500.0690.0690.0000.0000.0000.000
135A135ALA0-0.0430.00922.2080.0560.0560.0000.0000.0000.000
136A136ASN0-0.028-0.02121.906-0.164-0.1640.0000.0000.0000.000
137A137VAL0-0.004-0.01020.2830.1050.1050.0000.0000.0000.000
138A138THR0-0.024-0.00820.438-0.083-0.0830.0000.0000.0000.000
139A139VAL00.004-0.00120.2530.0070.0070.0000.0000.0000.000
140A140GLN00.012-0.00321.169-0.057-0.0570.0000.0000.0000.000
141A141ARG10.8140.89420.1920.2620.2620.0000.0000.0000.000
142A142SER00.0320.01021.233-0.099-0.0990.0000.0000.0000.000
143A143ALA0-0.0420.00023.4030.0420.0420.0000.0000.0000.000
144A144ILE0-0.007-0.00123.976-0.028-0.0280.0000.0000.0000.000
145A145VAL0-0.041-0.03125.0360.0130.0130.0000.0000.0000.000
146A146ASP-1-0.746-0.87227.352-0.137-0.1370.0000.0000.0000.000
147A147GLY00.1010.05927.8490.0160.0160.0000.0000.0000.000
148A148GLY0-0.0080.01429.0510.0430.0430.0000.0000.0000.000
149A149LEU0-0.046-0.02325.6780.0160.0160.0000.0000.0000.000
150A150HIS10.7730.86627.689-0.190-0.1900.0000.0000.0000.000
151A151ILE00.0470.01927.6910.0430.0430.0000.0000.0000.000
152A152GLY00.0500.02528.802-0.022-0.0220.0000.0000.0000.000
153A153ALA0-0.024-0.01730.637-0.027-0.0270.0000.0000.0000.000
154A154LEU0-0.001-0.00133.120-0.001-0.0010.0000.0000.0000.000
155A155GLN0-0.035-0.03735.9330.0230.0230.0000.0000.0000.000
156A156SER0-0.035-0.02233.5680.0080.0080.0000.0000.0000.000
157A157LEU00.0230.02734.7090.0240.0240.0000.0000.0000.000
158A158GLN0-0.017-0.03030.436-0.047-0.0470.0000.0000.0000.000
159A159PRO0-0.061-0.01631.2810.0070.0070.0000.0000.0000.000
160A160GLU-1-0.853-0.91931.0510.5520.5520.0000.0000.0000.000
161A161ASP-1-0.882-0.95030.0120.7730.7730.0000.0000.0000.000
162A162LEU0-0.060-0.02131.269-0.043-0.0430.0000.0000.0000.000
163A163PRO0-0.047-0.00227.753-0.048-0.0480.0000.0000.0000.000
164A164PRO00.009-0.00130.0220.0050.0050.0000.0000.0000.000
165A165SER0-0.012-0.01326.7300.0720.0720.0000.0000.0000.000
166A166ARG10.8050.89626.428-0.611-0.6110.0000.0000.0000.000
167A167VAL00.004-0.00224.9480.0530.0530.0000.0000.0000.000
168A168VAL00.0010.00225.120-0.046-0.0460.0000.0000.0000.000
169A169LEU0-0.004-0.00524.911-0.005-0.0050.0000.0000.0000.000
170A170ARG10.9050.93425.9740.0440.0440.0000.0000.0000.000
171A171ASP-1-0.890-0.95226.341-0.139-0.1390.0000.0000.0000.000
172A172THR0-0.104-0.06325.669-0.033-0.0330.0000.0000.0000.000
173A173ASN00.0170.01527.6320.0500.0500.0000.0000.0000.000
174A174VAL0-0.009-0.01127.903-0.003-0.0030.0000.0000.0000.000
175A175THR00.0130.00829.8760.0050.0050.0000.0000.0000.000
176A176ALA0-0.047-0.01030.7260.0110.0110.0000.0000.0000.000
177A177VAL00.0340.03632.5740.0030.0030.0000.0000.0000.000
178A178PRO0-0.019-0.00934.4470.0160.0160.0000.0000.0000.000
179A179ALA00.0050.00133.3850.0090.0090.0000.0000.0000.000
180A180SER0-0.0100.02131.4240.0200.0200.0000.0000.0000.000
181A181GLY00.0140.01733.2860.0010.0010.0000.0000.0000.000
182A182ALA0-0.019-0.02632.8030.0230.0230.0000.0000.0000.000
183A183PRO0-0.046-0.01534.889-0.020-0.0200.0000.0000.0000.000
184A184ALA0-0.006-0.00335.763-0.011-0.0110.0000.0000.0000.000
185A185ALA00.0310.02433.4490.0090.0090.0000.0000.0000.000
186A186VAL00.009-0.00431.2140.0090.0090.0000.0000.0000.000
187A187SER0-0.038-0.01432.244-0.003-0.0030.0000.0000.0000.000
188A188VAL00.0040.01032.1470.0270.0270.0000.0000.0000.000
189A189LEU0-0.026-0.02433.231-0.027-0.0270.0000.0000.0000.000
190A190GLY00.0560.03833.7150.0360.0360.0000.0000.0000.000
191A191ALA00.0070.00933.021-0.014-0.0140.0000.0000.0000.000
192A192SER0-0.023-0.02231.1460.0650.0650.0000.0000.0000.000
193A193GLU-1-0.820-0.89630.7500.4240.4240.0000.0000.0000.000
194A194LEU0-0.027-0.01029.1290.0260.0260.0000.0000.0000.000
195A195THR0-0.014-0.00329.989-0.028-0.0280.0000.0000.0000.000
196A196LEU0-0.011-0.00829.6480.0100.0100.0000.0000.0000.000
197A197ASP-1-0.823-0.89630.5920.0300.0300.0000.0000.0000.000
198A198GLY00.0640.03330.758-0.018-0.0180.0000.0000.0000.000
199A199GLY00.009-0.00230.8380.0040.0040.0000.0000.0000.000
200A200HIS0-0.060-0.01232.3160.0290.0290.0000.0000.0000.000
201A201ILE00.0220.01332.787-0.005-0.0050.0000.0000.0000.000
202A202THR0-0.033-0.04034.176-0.004-0.0040.0000.0000.0000.000
203A203GLY00.1030.06234.9970.0020.0020.0000.0000.0000.000
204A204GLY0-0.038-0.01736.6420.0180.0180.0000.0000.0000.000
205A205ARG10.8470.91137.419-0.100-0.1000.0000.0000.0000.000
206A206ALA0-0.040-0.02140.163-0.006-0.0060.0000.0000.0000.000
207A207ALA00.002-0.01239.7140.0030.0030.0000.0000.0000.000
208A208GLY00.0720.04738.051-0.006-0.0060.0000.0000.0000.000
209A209VAL0-0.050-0.03035.4870.0080.0080.0000.0000.0000.000
210A210ALA00.0070.00436.694-0.002-0.0020.0000.0000.0000.000
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