FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-04-25

All entries: 37426

Number of unique PDB entries: 7782

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FMODB ID: 7J8MK

Calculation Name: 3MTI-A-Xray313

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3MTI

Chain ID: A

ChEMBL ID:

UniProt ID: Q5M2Z6

Base Structure: X-ray

Registration Date: 2021-09-06

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 1.20200116
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 175
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -1810605.07999
FMO2-HF: Nuclear repulsion 1742243.266716
FMO2-HF: Total energy -68361.813274
FMO2-MP2: Total energy -68559.96986


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(A:-1:ACE )


Summations of interaction energy for fragment #1(A:-1:ACE )
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.
0.0871.751-0.003-0.851-0.809-0.002
Interaction energy analysis for fragmet #1(A:-1:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.020 / q_NPA : 0.000
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].
3A1MET 0-0.052-0.0053.8110.3751.910-0.004-0.803-0.729-0.002
4A2ILE 00.0430.0205.929-0.192-0.1920.0000.0000.0000.000
5A3LYS 10.9650.9856.1531.1641.1640.0000.0000.0000.000
6A4ARG 11.0021.0128.751-0.286-0.2860.0000.0000.0000.000
7A5PRO 00.0710.03210.804-0.019-0.0190.0000.0000.0000.000
8A6ILE 00.0740.04311.118-0.005-0.0050.0000.0000.0000.000
9A7HIS 0-0.088-0.0414.306-0.172-0.0430.001-0.048-0.0800.000
10A8MET 00.0020.0039.015-0.083-0.0830.0000.0000.0000.000
11A9SER 00.0000.00210.790-0.005-0.0050.0000.0000.0000.000
12A10HIS 10.8240.8919.881-0.184-0.1840.0000.0000.0000.000
13A11ASP -1-0.829-0.9306.730-0.400-0.4000.0000.0000.0000.000
14A12PHE 0-0.032-0.00910.171-0.018-0.0180.0000.0000.0000.000
15A13LEU 00.0160.01113.6680.0050.0050.0000.0000.0000.000
16A14ALA 00.022-0.00411.3620.0020.0020.0000.0000.0000.000
17A15GLU -1-0.942-0.94113.341-0.292-0.2920.0000.0000.0000.000
18A16VAL 0-0.0040.00714.3280.0000.0000.0000.0000.0000.000
19A17LEU 0-0.065-0.02415.6570.0200.0200.0000.0000.0000.000
20A18ASP -1-0.802-0.90117.363-0.043-0.0430.0000.0000.0000.000
21A19ASP -1-0.926-0.97419.3330.0150.0150.0000.0000.0000.000
22A20GLU -1-0.914-0.96521.4710.0090.0090.0000.0000.0000.000
23A21SER 0-0.105-0.04121.029-0.004-0.0040.0000.0000.0000.000
24A22ILE 00.0160.00923.1650.0110.0110.0000.0000.0000.000
25A23VAL 00.027-0.00119.605-0.008-0.0080.0000.0000.0000.000
26A24VAL 0-0.007-0.00822.7530.0070.0070.0000.0000.0000.000
27A25ASP -1-0.820-0.91321.1520.0700.0700.0000.0000.0000.000
28A26ALA 00.0240.01122.9980.0020.0020.0000.0000.0000.000
29A27THR 0-0.022-0.00622.697-0.004-0.0040.0000.0000.0000.000
30A28MET 00.0130.03622.9700.0100.0100.0000.0000.0000.000
31A29GLY 00.0470.01622.4660.0130.0130.0000.0000.0000.000
32A30ASN 0-0.085-0.06219.5550.0010.0010.0000.0000.0000.000
33A31GLY 00.1230.07220.8200.0130.0130.0000.0000.0000.000
34A32ASN 0-0.069-0.02015.6220.0160.0160.0000.0000.0000.000
35A33ASP -1-0.773-0.86615.6290.1410.1410.0000.0000.0000.000
36A34THR 00.033-0.00416.885-0.002-0.0020.0000.0000.0000.000
37A35ALA 0-0.027-0.01616.6810.0000.0000.0000.0000.0000.000
38A36PHE 0-0.095-0.0409.6480.0240.0240.0000.0000.0000.000
39A37LEU 00.0370.00014.377-0.006-0.0060.0000.0000.0000.000
40A38ALA 00.0360.02916.373-0.014-0.0140.0000.0000.0000.000
41A39GLY 0-0.016-0.00815.976-0.011-0.0110.0000.0000.0000.000
42A40LEU 0-0.071-0.03512.008-0.008-0.0080.0000.0000.0000.000
43A41SER 0-0.041-0.01116.278-0.025-0.0250.0000.0000.0000.000
44A42LYS 10.9671.00019.932-0.009-0.0090.0000.0000.0000.000
45A43LYS 10.8310.91123.567-0.025-0.0250.0000.0000.0000.000
46A44VAL 0-0.0060.02320.412-0.005-0.0050.0000.0000.0000.000
47A45TYR 0-0.042-0.03823.6820.0050.0050.0000.0000.0000.000
48A46ALA 00.002-0.00124.0910.0000.0000.0000.0000.0000.000
49A47PHE 00.0150.01925.803-0.002-0.0020.0000.0000.0000.000
50A48ASP -1-0.821-0.92727.1350.0620.0620.0000.0000.0000.000
51A49VAL 00.0290.02529.418-0.002-0.0020.0000.0000.0000.000
52A50GLN 0-0.074-0.04029.795-0.003-0.0030.0000.0000.0000.000
53A51GLU -1-0.860-0.92731.1520.0560.0560.0000.0000.0000.000
54A52GLN 0-0.011-0.02230.5890.0030.0030.0000.0000.0000.000
55A53ALA 0-0.0110.00326.9380.0080.0080.0000.0000.0000.000
56A54LEU 00.0880.04126.8950.0090.0090.0000.0000.0000.000
57A55GLY 00.0140.03428.3670.0050.0050.0000.0000.0000.000
58A56LYS 10.7930.89423.258-0.128-0.1280.0000.0000.0000.000
59A57THR 00.0470.00122.7250.0160.0160.0000.0000.0000.000
60A58SER 00.016-0.00224.2640.0060.0060.0000.0000.0000.000
61A59GLN 0-0.012-0.00723.8660.0030.0030.0000.0000.0000.000
62A60ARG 10.8000.87016.801-0.191-0.1910.0000.0000.0000.000
63A61LEU 0-0.0010.00220.7640.0140.0140.0000.0000.0000.000
64A62SER 00.0780.03122.7470.0010.0010.0000.0000.0000.000
65A63ASP -1-0.944-0.95222.9450.1370.1370.0000.0000.0000.000
66A64LEU 0-0.126-0.06617.1260.0190.0190.0000.0000.0000.000
67A65GLY 0-0.026-0.00220.5870.0040.0040.0000.0000.0000.000
68A66ILE 0-0.082-0.03218.061-0.007-0.0070.0000.0000.0000.000
69A67GLU -1-0.904-0.96822.5700.0740.0740.0000.0000.0000.000
70A68ASN 0-0.088-0.02421.1800.0040.0040.0000.0000.0000.000
71A69THR 0-0.001-0.01922.701-0.003-0.0030.0000.0000.0000.000
72A70GLU -1-0.889-0.95125.5890.0300.0300.0000.0000.0000.000
73A71LEU 0-0.043-0.02025.1720.0000.0000.0000.0000.0000.000
74A72ILE 0-0.004-0.00328.750-0.003-0.0030.0000.0000.0000.000
75A73LEU 0-0.042-0.02130.9080.0020.0020.0000.0000.0000.000
76A74ASP -1-0.785-0.85232.6620.0200.0200.0000.0000.0000.000
77A75GLY 0-0.031-0.00532.4570.0030.0030.0000.0000.0000.000
78A76HIS 0-0.032-0.03128.402-0.004-0.0040.0000.0000.0000.000
79A77GLU -1-0.861-0.94331.2060.0150.0150.0000.0000.0000.000
80A78ASN 0-0.039-0.01134.093-0.005-0.0050.0000.0000.0000.000
81A79LEU 00.0230.01229.3450.0010.0010.0000.0000.0000.000
82A80ASP -1-0.915-0.96932.5240.0060.0060.0000.0000.0000.000
83A81HIS 0-0.098-0.04834.794-0.001-0.0010.0000.0000.0000.000
84A82TYR 0-0.111-0.12232.6620.0010.0010.0000.0000.0000.000
85A83VAL 0-0.0220.00929.0260.0010.0010.0000.0000.0000.000
86A84ARG 10.8720.92232.091-0.012-0.0120.0000.0000.0000.000
87A85GLU -1-0.886-0.90629.8210.0110.0110.0000.0000.0000.000
88A86PRO 00.0190.01029.1140.0000.0000.0000.0000.0000.000
89A87ILE 00.0010.00524.5040.0040.0040.0000.0000.0000.000
90A88ARG 10.8270.92621.1480.0340.0340.0000.0000.0000.000
91A89ALA 00.0190.00018.979-0.010-0.0100.0000.0000.0000.000
92A90ALA 00.0270.01721.1180.0130.0130.0000.0000.0000.000
93A91ILE 0-0.028-0.00716.802-0.011-0.0110.0000.0000.0000.000
94A92PHE 00.0390.00920.5380.0070.0070.0000.0000.0000.000
95A93ASN 0-0.042-0.04019.034-0.006-0.0060.0000.0000.0000.000
96A94LEU 00.0710.03222.3490.0010.0010.0000.0000.0000.000
97A95GLY 0-0.033-0.02024.2460.0010.0010.0000.0000.0000.000
98A96NME 0-0.024-0.00522.9270.0040.0040.0000.0000.0000.000
99A106ACE 00.0500.01632.9130.0010.0010.0000.0000.0000.000
100A107LYS 10.8990.92633.820-0.015-0.0150.0000.0000.0000.000
101A108PRO 00.0770.04733.6260.0000.0000.0000.0000.0000.000
102A109HIS 00.0210.01034.402-0.002-0.0020.0000.0000.0000.000
103A110THR 00.0600.03633.730-0.002-0.0020.0000.0000.0000.000
104A111THR 0-0.0090.00329.0670.0010.0010.0000.0000.0000.000
105A112LEU 0-0.019-0.01830.849-0.002-0.0020.0000.0000.0000.000
106A113GLU -1-0.885-0.93232.7220.0030.0030.0000.0000.0000.000
107A114ALA 0-0.0010.00129.824-0.001-0.0010.0000.0000.0000.000
108A115ILE 0-0.018-0.01326.907-0.001-0.0010.0000.0000.0000.000
109A116GLU -1-0.892-0.94029.298-0.018-0.0180.0000.0000.0000.000
110A117LYS 10.8420.92332.155-0.005-0.0050.0000.0000.0000.000
111A118ILE 00.0160.00425.5660.0000.0000.0000.0000.0000.000
112A119LEU 0-0.010-0.00126.481-0.004-0.0040.0000.0000.0000.000
113A120ASP -1-0.901-0.95129.106-0.020-0.0200.0000.0000.0000.000
114A121ARG 10.8330.90930.5320.0030.0030.0000.0000.0000.000
115A122LEU 0-0.065-0.01224.3790.0010.0010.0000.0000.0000.000
116A123GLU -1-0.871-0.93226.199-0.031-0.0310.0000.0000.0000.000
117A124VAL 00.001-0.00126.781-0.003-0.0030.0000.0000.0000.000
118A125GLY 0-0.035-0.01824.163-0.001-0.0010.0000.0000.0000.000
119A126GLY 0-0.0020.00522.306-0.008-0.0080.0000.0000.0000.000
120A127ARG 10.7080.80915.7350.1530.1530.0000.0000.0000.000
121A128LEU 00.0080.01621.3370.0130.0130.0000.0000.0000.000
122A129ALA 0-0.038-0.01017.291-0.014-0.0140.0000.0000.0000.000
123A130ILE 00.0320.00419.2760.0160.0160.0000.0000.0000.000
124A131MET 0-0.0240.00116.086-0.017-0.0170.0000.0000.0000.000
125A132ILE 00.0300.01919.7800.0090.0090.0000.0000.0000.000
126A133TYR 0-0.031-0.02518.0350.0070.0070.0000.0000.0000.000
127A134TYR 0-0.040-0.02523.1880.0000.0000.0000.0000.0000.000
128A135GLY 00.0230.00624.083-0.004-0.0040.0000.0000.0000.000
129A136HIS 0-0.083-0.05625.041-0.001-0.0010.0000.0000.0000.000
130A137ASP -1-0.901-0.95327.548-0.010-0.0100.0000.0000.0000.000
131A138GLY 0-0.0110.02031.0310.0010.0010.0000.0000.0000.000
132A139GLY 00.003-0.00132.2380.0020.0020.0000.0000.0000.000
133A140ASP -1-0.964-1.01531.1370.0150.0150.0000.0000.0000.000
134A141MET 00.0330.02532.768-0.002-0.0020.0000.0000.0000.000
135A142GLU -1-0.941-0.98329.1170.0130.0130.0000.0000.0000.000
136A143LYS 10.9150.95927.288-0.015-0.0150.0000.0000.0000.000
137A144ASP -1-0.808-0.89829.497-0.014-0.0140.0000.0000.0000.000
138A145ALA 00.0220.01932.066-0.003-0.0030.0000.0000.0000.000
139A146VAL 0-0.011-0.00826.934-0.002-0.0020.0000.0000.0000.000
140A147LEU 00.003-0.00925.690-0.005-0.0050.0000.0000.0000.000
141A148GLU -1-0.965-0.97829.254-0.022-0.0220.0000.0000.0000.000
142A149TYR 0-0.047-0.01729.962-0.003-0.0030.0000.0000.0000.000
143A150VAL 0-0.014-0.01525.865-0.003-0.0030.0000.0000.0000.000
144A151ILE 0-0.072-0.03529.178-0.005-0.0050.0000.0000.0000.000
145A152GLY 0-0.019-0.00630.719-0.002-0.0020.0000.0000.0000.000
146A153LEU 0-0.054-0.00828.4830.0000.0000.0000.0000.0000.000
147A154ASP -1-0.757-0.87832.248-0.046-0.0460.0000.0000.0000.000
148A155GLN 00.0240.01830.3420.0010.0010.0000.0000.0000.000
149A156ARG 10.7440.85530.3810.0380.0380.0000.0000.0000.000
150A157VAL 00.0040.00831.274-0.001-0.0010.0000.0000.0000.000
151A158PHE 00.0630.02826.669-0.001-0.0010.0000.0000.0000.000
152A159THR 0-0.0100.00323.451-0.003-0.0030.0000.0000.0000.000
153A160ALA 00.0320.01023.9130.0000.0000.0000.0000.0000.000
154A161MET 0-0.053-0.01919.911-0.002-0.0020.0000.0000.0000.000
155A162LEU 00.0070.01720.9840.0070.0070.0000.0000.0000.000
156A163TYR 0-0.056-0.05711.776-0.040-0.0400.0000.0000.0000.000
157A164GLN 00.022-0.00417.8560.0150.0150.0000.0000.0000.000
158A165PRO 0-0.046-0.02016.368-0.013-0.0130.0000.0000.0000.000
159A166LEU 00.0350.01918.4840.0080.0080.0000.0000.0000.000
160A167ASN 0-0.017-0.01119.1760.0050.0050.0000.0000.0000.000
161A168GLN 0-0.039-0.01217.3720.0020.0020.0000.0000.0000.000
162A169ILE 00.0220.01121.413-0.001-0.0010.0000.0000.0000.000
163A170ASN 0-0.019-0.01022.913-0.005-0.0050.0000.0000.0000.000
164A171THR 00.0140.00922.693-0.003-0.0030.0000.0000.0000.000
165A172PRO 0-0.024-0.01518.5740.0090.0090.0000.0000.0000.000
166A173PRO 00.0140.00517.851-0.007-0.0070.0000.0000.0000.000
167A174PHE 0-0.037-0.01818.274-0.010-0.0100.0000.0000.0000.000
168A175LEU 0-0.033-0.01414.6170.0100.0100.0000.0000.0000.000
169A176VAL 00.0160.01618.465-0.015-0.0150.0000.0000.0000.000
170A177MET 0-0.058-0.02315.4040.0050.0050.0000.0000.0000.000
171A178LEU 00.0360.00919.725-0.005-0.0050.0000.0000.0000.000
172A179GLU -1-0.832-0.90620.730-0.124-0.1240.0000.0000.0000.000
173A180LYS 10.8250.91523.2810.0340.0340.0000.0000.0000.000
174A181LEU 0-0.048-0.02425.783-0.005-0.0050.0000.0000.0000.000
175A182GLN -1-0.968-0.96928.328-0.039-0.0390.0000.0000.0000.000