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: 1N32Z

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 OptHSide
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 -1894845.88272
FMO2-HF: Nuclear repulsion 1815039.655416
FMO2-HF: Total energy -79806.227303
FMO2-MP2: Total energy -80041.694986


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.
-1.4140.244-0.024-0.782-0.8520.002
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 : -0.024 / q_NPA : -0.018
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].
3A25THR0-0.022-0.0373.8220.5042.073-0.023-0.772-0.7740.002
4A26VAL0-0.056-0.0285.5020.4260.4260.0000.0000.0000.000
5A27ASP-1-0.762-0.8448.199-0.582-0.5820.0000.0000.0000.000
6A28LEU00.0200.00010.1620.0640.0640.0000.0000.0000.000
7A29GLU-1-0.850-0.91412.872-0.086-0.0860.0000.0000.0000.000
8A30LEU00.003-0.00115.6160.0230.0230.0000.0000.0000.000
9A31GLU-1-0.754-0.85410.516-0.238-0.2380.0000.0000.0000.000
10A32LEU00.0480.03115.0110.0290.0290.0000.0000.0000.000
11A33GLN0-0.026-0.01217.3110.0190.0190.0000.0000.0000.000
12A34ILE0-0.045-0.03716.5130.0030.0030.0000.0000.0000.000
13A35GLU-1-0.878-0.93217.4430.0490.0490.0000.0000.0000.000
14A36LEU00.0270.00619.3670.0070.0070.0000.0000.0000.000
15A37LEU0-0.0170.01422.6560.0030.0030.0000.0000.0000.000
16A38ARG10.8660.88616.8260.0940.0940.0000.0000.0000.000
17A39GLU-1-0.841-0.88223.4190.0460.0460.0000.0000.0000.000
18A40THR0-0.028-0.01325.0460.0000.0000.0000.0000.0000.000
19A41LYS10.8330.90326.8540.0480.0480.0000.0000.0000.000
20A42ARG10.8730.92321.711-0.034-0.0340.0000.0000.0000.000
21A43LYS10.8170.88628.048-0.037-0.0370.0000.0000.0000.000
22A44TYR00.037-0.01731.0310.0000.0000.0000.0000.0000.000
23A45GLU-1-0.844-0.90429.799-0.027-0.0270.0000.0000.0000.000
24A46SER0-0.067-0.03133.1190.0020.0020.0000.0000.0000.000
25A47VAL00.0280.01034.9230.0010.0010.0000.0000.0000.000
26A48LEU0-0.028-0.00236.445-0.001-0.0010.0000.0000.0000.000
27A49GLN0-0.016-0.00736.434-0.003-0.0030.0000.0000.0000.000
28A50LEU00.0290.00938.5130.0000.0000.0000.0000.0000.000
29A51GLY00.0410.03040.8700.0000.0000.0000.0000.0000.000
30A52ARG10.9110.95937.6650.0160.0160.0000.0000.0000.000
31A53ALA0-0.0100.01743.3010.0000.0000.0000.0000.0000.000
32A54LEU00.007-0.00444.9390.0000.0000.0000.0000.0000.000
33A55THR0-0.038-0.04346.200-0.001-0.0010.0000.0000.0000.000
34A56ALA0-0.007-0.00147.6250.0000.0000.0000.0000.0000.000
35A57HIS00.0250.00846.877-0.001-0.0010.0000.0000.0000.000
36A58LEU00.0130.01350.4540.0000.0000.0000.0000.0000.000
37A59TYR00.0110.00352.4510.0000.0000.0000.0000.0000.000
38A60SER0-0.004-0.01153.0030.0000.0000.0000.0000.0000.000
39A61LEU0-0.043-0.01055.1740.0000.0000.0000.0000.0000.000
40A62LEU00.018-0.00256.0380.0000.0000.0000.0000.0000.000
41A63GLN00.0140.01657.8760.0000.0000.0000.0000.0000.000
42A64THR0-0.041-0.02558.9510.0000.0000.0000.0000.0000.000
43A65GLN0-0.020-0.01660.0230.0000.0000.0000.0000.0000.000
44A66HIS00.007-0.00861.7050.0000.0000.0000.0000.0000.000
45A67ALA0-0.0140.00764.3880.0000.0000.0000.0000.0000.000
46A68LEU0-0.045-0.01464.9930.0000.0000.0000.0000.0000.000
47A69GLY00.0530.02266.9190.0000.0000.0000.0000.0000.000
48A70ASP-1-0.849-0.92868.765-0.003-0.0030.0000.0000.0000.000
49A71ALA0-0.047-0.01470.1700.0000.0000.0000.0000.0000.000
50A72PHE00.000-0.01568.4630.0000.0000.0000.0000.0000.000
51A73ALA00.0210.01472.9270.0000.0000.0000.0000.0000.000
52A74ASP-1-0.868-0.92674.824-0.001-0.0010.0000.0000.0000.000
53A75LEU0-0.012-0.01174.7320.0000.0000.0000.0000.0000.000
54A76SER0-0.050-0.04077.2150.0000.0000.0000.0000.0000.000
55A77GLN0-0.074-0.04778.9810.0000.0000.0000.0000.0000.000
56A78LYS10.7970.87679.1000.0010.0010.0000.0000.0000.000
57A79SER0-0.044-0.02580.6970.0000.0000.0000.0000.0000.000
58A80PRO00.0260.00882.6730.0000.0000.0000.0000.0000.000
59A81GLU-1-0.917-0.93483.5980.0010.0010.0000.0000.0000.000
60A82LEU00.003-0.01178.5600.0000.0000.0000.0000.0000.000
61A83GLN0-0.045-0.00179.6590.0000.0000.0000.0000.0000.000
62A84GLU-1-0.922-0.92679.2370.0010.0010.0000.0000.0000.000
63A85GLU-1-0.825-0.92276.2400.0020.0020.0000.0000.0000.000
64A86PHE0-0.016-0.00374.4930.0000.0000.0000.0000.0000.000
65A87GLY00.0720.02474.2590.0000.0000.0000.0000.0000.000
66A88TYR0-0.038-0.00873.2060.0000.0000.0000.0000.0000.000
67A89ASN0-0.060-0.05470.5190.0000.0000.0000.0000.0000.000
68A90ALA0-0.032-0.01569.7910.0000.0000.0000.0000.0000.000
69A91GLU-1-0.918-0.94570.523-0.003-0.0030.0000.0000.0000.000
70A92THR00.004-0.00365.9030.0000.0000.0000.0000.0000.000
71A93GLN0-0.009-0.00563.7550.0000.0000.0000.0000.0000.000
72A94LYS10.9360.95665.0780.0020.0020.0000.0000.0000.000
73A95LEU0-0.043-0.01065.202-0.001-0.0010.0000.0000.0000.000
74A96LEU0-0.017-0.03361.729-0.001-0.0010.0000.0000.0000.000
75A97CYS0-0.0040.03060.9430.0000.0000.0000.0000.0000.000
76A98LYS10.9560.99560.8470.0050.0050.0000.0000.0000.000
77A99ASN0-0.091-0.04960.521-0.001-0.0010.0000.0000.0000.000
78A100GLY00.0560.02157.3330.0000.0000.0000.0000.0000.000
79A101GLU-1-0.881-0.95056.227-0.008-0.0080.0000.0000.0000.000
80A102THR0-0.042-0.00456.193-0.001-0.0010.0000.0000.0000.000
81A103LEU0-0.010-0.00251.627-0.001-0.0010.0000.0000.0000.000
82A104LEU00.0030.00651.2220.0000.0000.0000.0000.0000.000
83A105GLY00.0390.02151.102-0.001-0.0010.0000.0000.0000.000
84A106ALA0-0.034-0.01550.646-0.002-0.0020.0000.0000.0000.000
85A107VAL00.0060.00846.430-0.001-0.0010.0000.0000.0000.000
86A108ASN00.015-0.00946.3990.0000.0000.0000.0000.0000.000
87A109PHE0-0.0070.00846.640-0.003-0.0030.0000.0000.0000.000
88A110PHE00.0130.00141.268-0.002-0.0020.0000.0000.0000.000
89A111VAL0-0.002-0.00541.874-0.002-0.0020.0000.0000.0000.000
90A112SER00.0370.01641.308-0.002-0.0020.0000.0000.0000.000
91A113SER0-0.084-0.04541.610-0.004-0.0040.0000.0000.0000.000
92A114ILE00.0320.00236.612-0.004-0.0040.0000.0000.0000.000
93A115ASN00.0460.03436.6630.0000.0000.0000.0000.0000.000
94A116THR0-0.036-0.00536.482-0.005-0.0050.0000.0000.0000.000
95A117LEU00.0000.00533.892-0.005-0.0050.0000.0000.0000.000
96A118VAL00.0510.01831.802-0.005-0.0050.0000.0000.0000.000
97A119THR0-0.032-0.04031.911-0.005-0.0050.0000.0000.0000.000
98A120LYS10.9180.95633.4450.0440.0440.0000.0000.0000.000
99A121THR0-0.023-0.00232.344-0.004-0.0040.0000.0000.0000.000
100A122MET00.0070.00028.854-0.005-0.0050.0000.0000.0000.000
101A123GLU-1-0.850-0.92127.351-0.086-0.0860.0000.0000.0000.000
102A124ASP-1-0.830-0.89827.912-0.120-0.1200.0000.0000.0000.000
103A125THR00.0230.00624.583-0.014-0.0140.0000.0000.0000.000
104A126LEU0-0.015-0.01322.218-0.017-0.0170.0000.0000.0000.000
105A127MET0-0.030-0.00423.213-0.012-0.0120.0000.0000.0000.000
106A128THR00.0220.00022.477-0.012-0.0120.0000.0000.0000.000
107A129VAL0-0.0040.01618.507-0.032-0.0320.0000.0000.0000.000
108A130LYS10.9250.97118.6260.0720.0720.0000.0000.0000.000
109A131GLN0-0.018-0.00118.963-0.037-0.0370.0000.0000.0000.000
110A132TYR0-0.025-0.05013.147-0.030-0.0300.0000.0000.0000.000
111A133GLU-1-0.814-0.88414.582-0.258-0.2580.0000.0000.0000.000
112A134ALA0-0.0040.00814.099-0.094-0.0940.0000.0000.0000.000
113A135ALA0-0.014-0.01314.884-0.076-0.0760.0000.0000.0000.000
114A136ARG10.9360.97710.3160.4770.4770.0000.0000.0000.000
115A137LEU0-0.034-0.0069.711-0.245-0.2450.0000.0000.0000.000
116A138GLU-1-0.792-0.89210.463-0.666-0.6660.0000.0000.0000.000
117A139TYR0-0.032-0.0119.1520.0360.0360.0000.0000.0000.000
118A140ASP-1-0.746-0.8536.626-3.508-3.5080.0000.0000.0000.000
119A141ALA0-0.0330.0107.625-0.258-0.2580.0000.0000.0000.000
120A142TYR00.055-0.0039.8450.1420.1420.0000.0000.0000.000
121A143ARG10.7610.8544.3283.1183.207-0.001-0.010-0.0780.000
122A144THR0-0.013-0.0346.152-0.184-0.1840.0000.0000.0000.000
123A145ASP-1-0.886-0.9248.061-0.398-0.3980.0000.0000.0000.000
124A146LEU0-0.056-0.03211.6750.1470.1470.0000.0000.0000.000
125A147GLU-1-0.824-0.8796.415-0.921-0.9210.0000.0000.0000.000
126A148GLU-1-0.915-0.9589.771-0.283-0.2830.0000.0000.0000.000
127A149LEU0-0.065-0.03811.9010.0840.0840.0000.0000.0000.000
128A150SER0-0.080-0.04813.3560.0360.0360.0000.0000.0000.000
129A151LEU0-0.058-0.02111.7730.0450.0450.0000.0000.0000.000
130A152GLY0-0.0430.00415.5730.0180.0180.0000.0000.0000.000
131A153PRO00.0030.00618.8510.0080.0080.0000.0000.0000.000
132A154ARG10.9820.97020.1150.0170.0170.0000.0000.0000.000
133A155ASP-1-0.805-0.87623.502-0.086-0.0860.0000.0000.0000.000
134A156ALA0-0.008-0.00125.319-0.010-0.0100.0000.0000.0000.000
135A157GLY00.0660.02426.1100.0060.0060.0000.0000.0000.000
136A158THR0-0.038-0.04620.088-0.020-0.0200.0000.0000.0000.000
137A159ARG10.8830.92621.3800.0700.0700.0000.0000.0000.000
138A160GLY00.0530.03922.959-0.011-0.0110.0000.0000.0000.000
139A161ARG10.9500.96219.2510.1660.1660.0000.0000.0000.000
140A162LEU00.0250.01716.724-0.029-0.0290.0000.0000.0000.000
141A163GLU-1-0.930-0.95719.187-0.175-0.1750.0000.0000.0000.000
142A164SER0-0.041-0.02321.225-0.014-0.0140.0000.0000.0000.000
143A165ALA00.012-0.00316.049-0.018-0.0180.0000.0000.0000.000
144A166GLN00.0270.02616.461-0.045-0.0450.0000.0000.0000.000
145A167ALA0-0.021-0.00618.211-0.026-0.0260.0000.0000.0000.000
146A168THR0-0.022-0.01317.895-0.039-0.0390.0000.0000.0000.000
147A169PHE00.0280.02711.353-0.021-0.0210.0000.0000.0000.000
148A170GLN00.0190.02315.561-0.063-0.0630.0000.0000.0000.000
149A171ALA00.0690.03017.661-0.011-0.0110.0000.0000.0000.000
150A172HIS10.7900.89415.0820.5210.5210.0000.0000.0000.000
151A173ARG10.9030.94913.7650.3940.3940.0000.0000.0000.000
152A174ASP-1-0.882-0.93415.479-0.340-0.3400.0000.0000.0000.000
153A175LYS10.8010.88718.6540.4190.4190.0000.0000.0000.000
154A176TYR0-0.014-0.02712.016-0.014-0.0140.0000.0000.0000.000
155A177GLU-1-0.845-0.92914.997-0.438-0.4380.0000.0000.0000.000
156A178LYS10.8600.91817.3280.2570.2570.0000.0000.0000.000
157A179LEU0-0.0140.00918.9820.0280.0280.0000.0000.0000.000
158A180ARG10.8200.90213.0420.5380.5380.0000.0000.0000.000
159A181GLY0-0.007-0.00818.4030.0290.0290.0000.0000.0000.000
160A182ASP-1-0.860-0.93121.548-0.185-0.1850.0000.0000.0000.000
161A183VAL00.0100.00519.5960.0250.0250.0000.0000.0000.000
162A184ALA00.0640.04320.7600.0260.0260.0000.0000.0000.000
163A185ILE0-0.053-0.02522.4370.0250.0250.0000.0000.0000.000
164A186LYS10.8920.93025.4370.1440.1440.0000.0000.0000.000
165A187LEU0-0.027-0.00920.9750.0140.0140.0000.0000.0000.000
166A188LYS10.8970.95125.4910.1200.1200.0000.0000.0000.000
167A189PHE00.0160.00527.9000.0080.0080.0000.0000.0000.000
168A190LEU0-0.025-0.00627.2540.0090.0090.0000.0000.0000.000
169A191GLU-1-0.793-0.89428.236-0.022-0.0220.0000.0000.0000.000
170A192GLU-1-0.876-0.92030.244-0.044-0.0440.0000.0000.0000.000
171A193ASN00.002-0.02133.5190.0080.0080.0000.0000.0000.000
172A194LYS10.8060.89429.1000.0260.0260.0000.0000.0000.000
173A195ILE00.0190.01132.6770.0050.0050.0000.0000.0000.000
174A196LYS10.8830.94935.8610.0440.0440.0000.0000.0000.000
175A197VAL0-0.014-0.02437.3720.0030.0030.0000.0000.0000.000
176A198MET0-0.046-0.01335.3960.0010.0010.0000.0000.0000.000
177A199HIS00.0620.04638.6160.0040.0040.0000.0000.0000.000
178A200LYS10.9490.96141.4270.0260.0260.0000.0000.0000.000
179A201GLN0-0.015-0.01441.1980.0030.0030.0000.0000.0000.000
180A202LEU00.0180.00838.4240.0020.0020.0000.0000.0000.000
181A203LEU0-0.0120.01542.7830.0020.0020.0000.0000.0000.000
182A204LEU00.010-0.00546.1280.0010.0010.0000.0000.0000.000
183A205PHE0-0.0060.01744.9900.0010.0010.0000.0000.0000.000
184A206HIS00.0580.02446.6180.0020.0020.0000.0000.0000.000
185A207ASN0-0.030-0.02748.3020.0020.0020.0000.0000.0000.000
186A208ALA00.0290.01250.8770.0010.0010.0000.0000.0000.000
187A209VAL00.000-0.00549.0220.0010.0010.0000.0000.0000.000
188A210SER0-0.011-0.00252.2330.0000.0000.0000.0000.0000.000
189A211ALA0-0.018-0.01354.4540.0000.0000.0000.0000.0000.000
190A212TYR0-0.0050.00755.3610.0000.0000.0000.0000.0000.000
191A213PHE00.0090.00253.4930.0000.0000.0000.0000.0000.000
192A214ALA0-0.0070.00858.3710.0000.0000.0000.0000.0000.000
193A215GLY0-0.022-0.01860.2960.0000.0000.0000.0000.0000.000
194A216ASN00.005-0.01459.8370.0000.0000.0000.0000.0000.000
195A217GLN0-0.020-0.02562.5800.0010.0010.0000.0000.0000.000
196A218LYS10.9380.97664.6290.0040.0040.0000.0000.0000.000
197A219GLN0-0.025-0.01466.5470.0000.0000.0000.0000.0000.000
198A220LEU00.0110.01865.4470.0000.0000.0000.0000.0000.000
199A221GLU-1-0.906-0.94166.7440.0020.0020.0000.0000.0000.000
200A222GLN0-0.113-0.05070.4090.0000.0000.0000.0000.0000.000
201A223THR0-0.0010.00571.6950.0000.0000.0000.0000.0000.000