Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: G54L1

Calculation Name: 1I49-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1I49

Chain ID: A

ChEMBL ID:

UniProt ID: P53365

Base Structure: X-ray

Registration Date: 2023-09-23

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 201
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1897126.737111
FMO2-HF: Nuclear repulsion 1817319.541781
FMO2-HF: Total energy -79807.19533
FMO2-MP2: Total energy -80042.45322


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:23:SER)


Summations of interaction energy for fragment #1(A:23:SER)
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.
-1.754-0.352-0.015-0.582-0.8060.003
Interaction energy analysis for fragmet #1(A:23:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.028 / q_NPA : -0.022
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].
3A25THR00.002-0.0303.8650.3651.635-0.014-0.564-0.6930.003
4A26VAL0-0.058-0.0315.5610.4580.4580.0000.0000.0000.000
5A27ASP-1-0.742-0.8198.233-0.520-0.5200.0000.0000.0000.000
6A28LEU00.0260.01210.1940.0550.0550.0000.0000.0000.000
7A29GLU-1-0.853-0.92912.844-0.004-0.0040.0000.0000.0000.000
8A30LEU0-0.014-0.01615.6570.0070.0070.0000.0000.0000.000
9A31GLU-1-0.745-0.85310.7630.0460.0460.0000.0000.0000.000
10A32LEU00.0130.01415.1410.0250.0250.0000.0000.0000.000
11A33GLN0-0.018-0.00817.5020.0050.0050.0000.0000.0000.000
12A34ILE0-0.017-0.00916.560-0.007-0.0070.0000.0000.0000.000
13A35GLU-1-0.807-0.89217.8460.1390.1390.0000.0000.0000.000
14A36LEU00.0200.00819.8290.0000.0000.0000.0000.0000.000
15A37LEU0-0.0200.01022.780-0.006-0.0060.0000.0000.0000.000
16A38ARG10.8800.92117.029-0.018-0.0180.0000.0000.0000.000
17A39GLU-1-0.885-0.89423.7000.0960.0960.0000.0000.0000.000
18A40THR00.013-0.00425.382-0.006-0.0060.0000.0000.0000.000
19A41LYS10.8050.89727.0950.0020.0020.0000.0000.0000.000
20A42ARG10.8580.89921.460-0.114-0.1140.0000.0000.0000.000
21A43LYS10.8240.90028.260-0.089-0.0890.0000.0000.0000.000
22A44TYR00.0550.01231.246-0.003-0.0030.0000.0000.0000.000
23A45GLU-1-0.843-0.91729.5840.0120.0120.0000.0000.0000.000
24A46SER0-0.067-0.04032.978-0.001-0.0010.0000.0000.0000.000
25A47VAL00.0290.00334.741-0.002-0.0020.0000.0000.0000.000
26A48LEU0-0.020-0.00236.363-0.003-0.0030.0000.0000.0000.000
27A49GLN00.0000.00736.218-0.006-0.0060.0000.0000.0000.000
28A50LEU00.0170.01138.585-0.001-0.0010.0000.0000.0000.000
29A51GLY00.0400.02540.980-0.001-0.0010.0000.0000.0000.000
30A52ARG10.8760.92237.242-0.008-0.0080.0000.0000.0000.000
31A53ALA00.0000.00643.086-0.001-0.0010.0000.0000.0000.000
32A54LEU00.0060.00444.900-0.001-0.0010.0000.0000.0000.000
33A55THR0-0.011-0.02246.244-0.002-0.0020.0000.0000.0000.000
34A56ALA00.0130.01247.756-0.001-0.0010.0000.0000.0000.000
35A57HIS00.0090.01146.612-0.002-0.0020.0000.0000.0000.000
36A58LEU00.0210.00850.4580.0000.0000.0000.0000.0000.000
37A59TYR00.000-0.00852.427-0.001-0.0010.0000.0000.0000.000
38A60SER0-0.005-0.02052.749-0.001-0.0010.0000.0000.0000.000
39A61LEU0-0.0350.00355.1140.0000.0000.0000.0000.0000.000
40A62LEU00.0010.00655.9150.0000.0000.0000.0000.0000.000
41A63GLN00.0040.01057.474-0.001-0.0010.0000.0000.0000.000
42A64THR0-0.043-0.02858.6690.0000.0000.0000.0000.0000.000
43A65GLN00.0200.00259.5950.0000.0000.0000.0000.0000.000
44A66HIS00.000-0.01861.8450.0000.0000.0000.0000.0000.000
45A67ALA00.0040.01264.3570.0000.0000.0000.0000.0000.000
46A68LEU0-0.033-0.00664.7660.0000.0000.0000.0000.0000.000
47A69GLY00.0600.02166.8700.0000.0000.0000.0000.0000.000
48A70ASP-1-0.859-0.93468.7370.0040.0040.0000.0000.0000.000
49A71ALA0-0.049-0.01569.9770.0000.0000.0000.0000.0000.000
50A72PHE0-0.002-0.01068.3410.0000.0000.0000.0000.0000.000
51A73ALA00.0270.01072.8230.0000.0000.0000.0000.0000.000
52A74ASP-1-0.904-0.93874.5840.0050.0050.0000.0000.0000.000
53A75LEU00.001-0.01074.9520.0000.0000.0000.0000.0000.000
54A76SER0-0.070-0.04576.9250.0000.0000.0000.0000.0000.000
55A77GLN0-0.062-0.03378.7380.0000.0000.0000.0000.0000.000
56A78LYS10.7820.87679.001-0.005-0.0050.0000.0000.0000.000
57A79SER0-0.031-0.02080.4510.0000.0000.0000.0000.0000.000
58A80PRO00.016-0.00782.4820.0000.0000.0000.0000.0000.000
59A81GLU-1-0.899-0.93183.7720.0070.0070.0000.0000.0000.000
60A82LEU0-0.0060.00878.0950.0000.0000.0000.0000.0000.000
61A83GLN0-0.0010.01379.5020.0000.0000.0000.0000.0000.000
62A84GLU-1-0.938-0.94579.1680.0070.0070.0000.0000.0000.000
63A85GLU-1-0.839-0.93176.2010.0090.0090.0000.0000.0000.000
64A86PHE0-0.015-0.00174.4570.0000.0000.0000.0000.0000.000
65A87GLY00.0570.01774.1660.0000.0000.0000.0000.0000.000
66A88TYR0-0.040-0.01572.8560.0000.0000.0000.0000.0000.000
67A89ASN0-0.046-0.03270.2880.0010.0010.0000.0000.0000.000
68A90ALA0-0.015-0.00369.6400.0000.0000.0000.0000.0000.000
69A91GLU-1-0.915-0.95869.9560.0050.0050.0000.0000.0000.000
70A92THR0-0.036-0.01666.4510.0000.0000.0000.0000.0000.000
71A93GLN0-0.019-0.03264.0870.0000.0000.0000.0000.0000.000
72A94LYS10.8940.94465.014-0.005-0.0050.0000.0000.0000.000
73A95LEU0-0.045-0.01265.376-0.001-0.0010.0000.0000.0000.000
74A96LEU00.0110.00361.7920.0000.0000.0000.0000.0000.000
75A97CYS0-0.0440.00061.0110.0000.0000.0000.0000.0000.000
76A98LYS10.9971.01060.736-0.002-0.0020.0000.0000.0000.000
77A99ASN0-0.060-0.03360.435-0.001-0.0010.0000.0000.0000.000
78A100GLY00.0540.01557.3020.0000.0000.0000.0000.0000.000
79A101GLU-1-0.887-0.94156.1900.0030.0030.0000.0000.0000.000
80A102THR0-0.058-0.02556.265-0.001-0.0010.0000.0000.0000.000
81A103LEU0-0.031-0.00851.788-0.001-0.0010.0000.0000.0000.000
82A104LEU0-0.0030.00151.1350.0000.0000.0000.0000.0000.000
83A105GLY00.0400.02451.2750.0000.0000.0000.0000.0000.000
84A106ALA0-0.021-0.01050.749-0.001-0.0010.0000.0000.0000.000
85A107VAL00.002-0.00446.8340.0000.0000.0000.0000.0000.000
86A108ASN00.0310.00446.5710.0010.0010.0000.0000.0000.000
87A109PHE0-0.0120.00146.428-0.002-0.0020.0000.0000.0000.000
88A110PHE00.0240.01941.801-0.002-0.0020.0000.0000.0000.000
89A111VAL00.0090.00742.1820.0000.0000.0000.0000.0000.000
90A112SER00.0280.00641.453-0.001-0.0010.0000.0000.0000.000
91A113SER0-0.066-0.03441.673-0.004-0.0040.0000.0000.0000.000
92A114ILE00.0270.00836.815-0.003-0.0030.0000.0000.0000.000
93A115ASN00.0210.02036.8930.0010.0010.0000.0000.0000.000
94A116THR0-0.059-0.02236.936-0.004-0.0040.0000.0000.0000.000
95A117LEU00.0040.00133.917-0.004-0.0040.0000.0000.0000.000
96A118VAL00.0370.00832.016-0.004-0.0040.0000.0000.0000.000
97A119THR0-0.052-0.05031.980-0.003-0.0030.0000.0000.0000.000
98A120LYS10.9340.97033.6020.0260.0260.0000.0000.0000.000
99A121THR00.0080.01532.146-0.005-0.0050.0000.0000.0000.000
100A122MET00.0020.00428.839-0.003-0.0030.0000.0000.0000.000
101A123GLU-1-0.809-0.90227.112-0.043-0.0430.0000.0000.0000.000
102A124ASP-1-0.839-0.90527.740-0.095-0.0950.0000.0000.0000.000
103A125THR00.0120.00024.471-0.014-0.0140.0000.0000.0000.000
104A126LEU0-0.002-0.00522.215-0.013-0.0130.0000.0000.0000.000
105A127MET0-0.030-0.00423.111-0.007-0.0070.0000.0000.0000.000
106A128THR00.0220.00822.631-0.013-0.0130.0000.0000.0000.000
107A129VAL0-0.0010.00218.596-0.029-0.0290.0000.0000.0000.000
108A130LYS10.8830.93318.7330.0360.0360.0000.0000.0000.000
109A131GLN0-0.012-0.00518.985-0.033-0.0330.0000.0000.0000.000
110A132TYR0-0.010-0.03412.997-0.017-0.0170.0000.0000.0000.000
111A133GLU-1-0.805-0.87514.382-0.126-0.1260.0000.0000.0000.000
112A134ALA0-0.0060.00513.866-0.091-0.0910.0000.0000.0000.000
113A135ALA0-0.009-0.00714.825-0.085-0.0850.0000.0000.0000.000
114A136ARG10.8780.92810.0490.2920.2920.0000.0000.0000.000
115A137LEU0-0.026-0.0039.538-0.273-0.2730.0000.0000.0000.000
116A138GLU-1-0.800-0.88710.564-0.676-0.6760.0000.0000.0000.000
117A139TYR0-0.019-0.0069.526-0.025-0.0250.0000.0000.0000.000
118A140ASP-1-0.745-0.8556.397-3.551-3.5510.0000.0000.0000.000
119A141ALA0-0.0320.0077.273-0.403-0.4030.0000.0000.0000.000
120A142TYR00.0600.0049.4610.0730.0730.0000.0000.0000.000
121A143ARG10.7400.8394.3294.1374.269-0.001-0.018-0.1130.000
122A144THR00.006-0.0105.950-0.334-0.3340.0000.0000.0000.000
123A145ASP-1-0.894-0.9367.784-0.446-0.4460.0000.0000.0000.000
124A146LEU0-0.052-0.03311.5450.1690.1690.0000.0000.0000.000
125A147GLU-1-0.814-0.8656.305-2.071-2.0710.0000.0000.0000.000
126A148GLU-1-0.920-0.9679.474-0.286-0.2860.0000.0000.0000.000
127A149LEU0-0.063-0.03911.6800.1130.1130.0000.0000.0000.000
128A150SER0-0.070-0.04413.1780.0660.0660.0000.0000.0000.000
129A151LEU0-0.050-0.01511.4000.0520.0520.0000.0000.0000.000
130A152GLY0-0.0330.00715.3000.0370.0370.0000.0000.0000.000
131A153PRO0-0.002-0.00118.5590.0070.0070.0000.0000.0000.000
132A154ARG10.9880.98519.8260.1110.1110.0000.0000.0000.000
133A155ASP-1-0.763-0.85123.438-0.142-0.1420.0000.0000.0000.000
134A156ALA0-0.009-0.02125.600-0.012-0.0120.0000.0000.0000.000
135A157GLY00.0110.01125.9560.0030.0030.0000.0000.0000.000
136A158THR0-0.053-0.07019.662-0.021-0.0210.0000.0000.0000.000
137A159ARG10.8430.93521.1120.1260.1260.0000.0000.0000.000
138A160GLY00.1340.07622.435-0.020-0.0200.0000.0000.0000.000
139A161ARG10.9240.96318.8320.2230.2230.0000.0000.0000.000
140A162LEU00.0360.02116.526-0.035-0.0350.0000.0000.0000.000
141A163GLU-1-0.924-0.96918.849-0.253-0.2530.0000.0000.0000.000
142A164SER0-0.028-0.02421.103-0.012-0.0120.0000.0000.0000.000
143A165ALA00.0180.01415.577-0.017-0.0170.0000.0000.0000.000
144A166GLN0-0.013-0.00216.262-0.055-0.0550.0000.0000.0000.000
145A167ALA0-0.013-0.00617.818-0.023-0.0230.0000.0000.0000.000
146A168THR0-0.037-0.03018.067-0.028-0.0280.0000.0000.0000.000
147A169PHE00.0110.00610.904-0.006-0.0060.0000.0000.0000.000
148A170GLN00.0010.02015.462-0.067-0.0670.0000.0000.0000.000
149A171ALA00.0740.03817.649-0.010-0.0100.0000.0000.0000.000
150A172HIS10.8000.89314.9480.5870.5870.0000.0000.0000.000
151A173ARG10.8690.92113.9310.5090.5090.0000.0000.0000.000
152A174ASP-1-0.858-0.91115.265-0.393-0.3930.0000.0000.0000.000
153A175LYS10.8120.89018.6500.4490.4490.0000.0000.0000.000
154A176TYR0-0.015-0.03611.834-0.007-0.0070.0000.0000.0000.000
155A177GLU-1-0.848-0.91614.856-0.493-0.4930.0000.0000.0000.000
156A178LYS10.8470.91017.4080.2640.2640.0000.0000.0000.000
157A179LEU0-0.018-0.00918.9380.0350.0350.0000.0000.0000.000
158A180ARG10.8280.89813.2350.5240.5240.0000.0000.0000.000
159A181GLY00.0150.01318.1840.0400.0400.0000.0000.0000.000
160A182ASP-1-0.835-0.90821.418-0.172-0.1720.0000.0000.0000.000
161A183VAL0-0.004-0.00219.6170.0290.0290.0000.0000.0000.000
162A184ALA00.0270.02420.4830.0270.0270.0000.0000.0000.000
163A185ILE0-0.058-0.03122.2950.0230.0230.0000.0000.0000.000
164A186LYS10.8630.91725.3710.1200.1200.0000.0000.0000.000
165A187LEU00.0230.00721.2240.0130.0130.0000.0000.0000.000
166A188LYS10.8970.95525.4280.0910.0910.0000.0000.0000.000
167A189PHE00.0180.01028.2350.0070.0070.0000.0000.0000.000
168A190LEU0-0.034-0.00527.0370.0070.0070.0000.0000.0000.000
169A191GLU-1-0.774-0.87928.3890.0150.0150.0000.0000.0000.000
170A192GLU-1-0.834-0.89330.407-0.024-0.0240.0000.0000.0000.000
171A193ASN0-0.005-0.02433.5690.0060.0060.0000.0000.0000.000
172A194LYS10.7990.89729.252-0.014-0.0140.0000.0000.0000.000
173A195ILE00.0200.01232.9120.0040.0040.0000.0000.0000.000
174A196LYS10.8130.89335.9780.0280.0280.0000.0000.0000.000
175A197VAL0-0.038-0.02737.6160.0010.0010.0000.0000.0000.000
176A198MET0-0.005-0.00235.8600.0010.0010.0000.0000.0000.000
177A199HIS00.0480.04139.0030.0040.0040.0000.0000.0000.000
178A200LYS10.9580.98141.4250.0110.0110.0000.0000.0000.000
179A201GLN0-0.016-0.01641.3890.0020.0020.0000.0000.0000.000
180A202LEU00.0120.00038.8950.0010.0010.0000.0000.0000.000
181A203LEU0-0.0010.01343.3760.0010.0010.0000.0000.0000.000
182A204LEU0-0.015-0.01346.5450.0000.0000.0000.0000.0000.000
183A205PHE0-0.0040.00645.4740.0000.0000.0000.0000.0000.000
184A206HIS00.0210.00647.0660.0020.0020.0000.0000.0000.000
185A207ASN00.0010.00048.6980.0020.0020.0000.0000.0000.000
186A208ALA00.0160.01951.0510.0000.0000.0000.0000.0000.000
187A209VAL00.0040.00049.4770.0000.0000.0000.0000.0000.000
188A210SER0-0.014-0.02152.5810.0000.0000.0000.0000.0000.000
189A211ALA0-0.007-0.00754.6380.0000.0000.0000.0000.0000.000
190A212TYR00.0030.01555.6870.0000.0000.0000.0000.0000.000
191A213PHE0-0.0030.00253.7900.0000.0000.0000.0000.0000.000
192A214ALA00.0080.00758.7850.0000.0000.0000.0000.0000.000
193A215GLY0-0.021-0.01260.5790.0000.0000.0000.0000.0000.000
194A216ASN0-0.014-0.02760.177-0.001-0.0010.0000.0000.0000.000
195A217GLN0-0.016-0.02262.6840.0000.0000.0000.0000.0000.000
196A218LYS10.9440.97364.869-0.004-0.0040.0000.0000.0000.000
197A219GLN0-0.0180.00066.8880.0000.0000.0000.0000.0000.000
198A220LEU00.0150.01065.4960.0000.0000.0000.0000.0000.000
199A221GLU-1-0.889-0.93466.7790.0100.0100.0000.0000.0000.000
200A222GLN0-0.114-0.05070.5430.0000.0000.0000.0000.0000.000
201A223THR0-0.0040.00271.5620.0000.0000.0000.0000.0000.000