FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: 1N49Z

Calculation Name: 1JAL-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1JAL

Chain ID: A

ChEMBL ID:

UniProt ID: P44681

Base Structure: X-ray

Registration Date: 2023-09-21

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 354
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5179925.838323
FMO2-HF: Nuclear repulsion 5043470.123083
FMO2-HF: Total energy -136455.715241
FMO2-MP2: Total energy -136853.003375


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:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-13.086-5.557.417-5.515-9.439-0.031
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.042 / q_NPA : -0.035
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].
3A3PHE0-0.041-0.0133.870-1.3170.992-0.013-1.106-1.191-0.001
4A4LYS10.8850.9424.870-1.208-1.084-0.001-0.014-0.1090.000
5A5CYS0-0.030-0.0087.6580.0410.0410.0000.0000.0000.000
6A6GLY00.0600.0209.662-0.146-0.1460.0000.0000.0000.000
7A7ILE0-0.0160.00412.701-0.003-0.0030.0000.0000.0000.000
8A8VAL0-0.006-0.01315.858-0.030-0.0300.0000.0000.0000.000
9A9GLY00.0890.03218.313-0.009-0.0090.0000.0000.0000.000
10A10LEU0-0.040-0.01421.826-0.003-0.0030.0000.0000.0000.000
11A11PRO0-0.039-0.04025.458-0.004-0.0040.0000.0000.0000.000
12A12ASN0-0.051-0.01727.711-0.006-0.0060.0000.0000.0000.000
13A13VAL00.0240.02123.897-0.005-0.0050.0000.0000.0000.000
14A14GLY00.0690.04125.8850.0010.0010.0000.0000.0000.000
15A15LYS10.8100.90219.565-0.210-0.2100.0000.0000.0000.000
16A16SER0-0.0020.00122.4440.0050.0050.0000.0000.0000.000
17A17THR00.0410.01824.8100.0020.0020.0000.0000.0000.000
18A18LEU00.0360.02618.996-0.005-0.0050.0000.0000.0000.000
19A19PHE00.0370.00216.3220.0010.0010.0000.0000.0000.000
20A20ASN0-0.089-0.03321.207-0.006-0.0060.0000.0000.0000.000
21A21ALA00.0510.02523.006-0.007-0.0070.0000.0000.0000.000
22A22LEU0-0.041-0.02316.514-0.006-0.0060.0000.0000.0000.000
23A23THR0-0.035-0.03319.501-0.006-0.0060.0000.0000.0000.000
24A24LYS10.7960.89020.885-0.058-0.0580.0000.0000.0000.000
25A25ALA00.0570.03320.158-0.011-0.0110.0000.0000.0000.000
26A26GLY0-0.035-0.02018.289-0.009-0.0090.0000.0000.0000.000
27A27ILE0-0.027-0.02119.280-0.009-0.0090.0000.0000.0000.000
28A28GLU-1-0.785-0.86821.803-0.015-0.0150.0000.0000.0000.000
29A29ALA0-0.012-0.01919.764-0.009-0.0090.0000.0000.0000.000
30A30ALA0-0.074-0.03919.642-0.012-0.0120.0000.0000.0000.000
31A31ASN0-0.066-0.02921.380-0.008-0.0080.0000.0000.0000.000
32A32TYR0-0.122-0.08123.071-0.009-0.0090.0000.0000.0000.000
33A33PRO0-0.033-0.01921.476-0.008-0.0080.0000.0000.0000.000
34A34PHE00.002-0.00622.5150.0050.0050.0000.0000.0000.000
35A35CYS0-0.057-0.02418.066-0.016-0.0160.0000.0000.0000.000
36A36THR00.0160.01319.3120.0060.0060.0000.0000.0000.000
37A37ILE0-0.033-0.01715.348-0.019-0.0190.0000.0000.0000.000
38A38GLU-1-0.804-0.90417.644-0.003-0.0030.0000.0000.0000.000
39A39PRO0-0.093-0.03814.4630.0040.0040.0000.0000.0000.000
40A40ASN00.0050.00015.6370.0340.0340.0000.0000.0000.000
41A41THR0-0.036-0.01915.863-0.004-0.0040.0000.0000.0000.000
42A42GLY00.019-0.00415.6000.0250.0250.0000.0000.0000.000
43A43VAL0-0.063-0.02111.5850.0430.0430.0000.0000.0000.000
44A44VAL00.0300.01613.057-0.033-0.0330.0000.0000.0000.000
45A45PRO00.0430.01913.0830.0050.0050.0000.0000.0000.000
46A46MET0-0.033-0.01810.9760.0630.0630.0000.0000.0000.000
47A47PRO00.0130.02714.162-0.032-0.0320.0000.0000.0000.000
48A48ASP-1-0.815-0.92615.390-0.268-0.2680.0000.0000.0000.000
49A49PRO00.0700.03817.512-0.011-0.0110.0000.0000.0000.000
50A50ARG10.7550.86514.1800.3660.3660.0000.0000.0000.000
51A51LEU0-0.016-0.01116.504-0.007-0.0070.0000.0000.0000.000
52A52ASP-1-0.830-0.91920.406-0.113-0.1130.0000.0000.0000.000
53A53ALA0-0.0130.00023.4990.0050.0050.0000.0000.0000.000
54A54LEU0-0.043-0.02119.9490.0030.0030.0000.0000.0000.000
55A55ALA0-0.015-0.01124.0900.0060.0060.0000.0000.0000.000
56A56GLU-1-0.824-0.91125.705-0.082-0.0820.0000.0000.0000.000
57A57ILE0-0.058-0.00227.0760.0070.0070.0000.0000.0000.000
58A58VAL0-0.074-0.04825.4150.0040.0040.0000.0000.0000.000
59A59LYS10.7410.87028.3860.0980.0980.0000.0000.0000.000
60A60PRO0-0.0260.00724.9170.0030.0030.0000.0000.0000.000
61A61GLU-1-0.860-0.91327.638-0.100-0.1000.0000.0000.0000.000
62A62ARG10.8400.91522.1190.1560.1560.0000.0000.0000.000
63A63ILE00.0700.02420.306-0.010-0.0100.0000.0000.0000.000
64A64LEU0-0.042-0.01717.2470.0120.0120.0000.0000.0000.000
65A65PRO00.0840.04115.439-0.044-0.0440.0000.0000.0000.000
66A66THR0-0.023-0.0169.1630.0190.0190.0000.0000.0000.000
67A67THR00.0190.0039.1070.0040.0040.0000.0000.0000.000
68A68MET0-0.055-0.0068.7730.0420.0420.0000.0000.0000.000
69A69GLU-1-0.823-0.8939.0140.2340.2340.0000.0000.0000.000
70A70PHE0-0.0080.00210.1320.1940.1940.0000.0000.0000.000
71A71VAL00.0490.01112.077-0.060-0.0600.0000.0000.0000.000
72A72ASP-1-0.832-0.89314.5740.2220.2220.0000.0000.0000.000
73A73ILE0-0.032-0.00514.210-0.017-0.0170.0000.0000.0000.000
74A74ALA00.0220.02618.137-0.023-0.0230.0000.0000.0000.000
75A75GLY0-0.013-0.01821.0500.0150.0150.0000.0000.0000.000
76A76LEU0-0.048-0.02623.767-0.003-0.0030.0000.0000.0000.000
77A77VAL00.1010.04922.8360.0030.0030.0000.0000.0000.000
78A78ALA00.0200.00124.8400.0040.0040.0000.0000.0000.000
79A79GLY0-0.061-0.03227.163-0.010-0.0100.0000.0000.0000.000
80A80ALA00.0130.01422.560-0.006-0.0060.0000.0000.0000.000
81A81SER0-0.0180.00424.108-0.003-0.0030.0000.0000.0000.000
82A82LYS10.9300.95024.968-0.143-0.1430.0000.0000.0000.000
83A83GLY00.0280.00827.537-0.010-0.0100.0000.0000.0000.000
84A84GLU-1-0.782-0.85221.0840.2320.2320.0000.0000.0000.000
85A85GLY0-0.004-0.00625.555-0.007-0.0070.0000.0000.0000.000
86A86LEU0-0.075-0.03728.575-0.011-0.0110.0000.0000.0000.000
87A87GLY0-0.0030.01027.444-0.007-0.0070.0000.0000.0000.000
88A88ASN0-0.028-0.02524.8210.0030.0030.0000.0000.0000.000
89A89LYS10.9040.93321.214-0.138-0.1380.0000.0000.0000.000
90A90PHE00.0460.03919.9270.0170.0170.0000.0000.0000.000
91A91LEU00.0360.02318.2050.0260.0260.0000.0000.0000.000
92A92ALA0-0.022-0.01916.7490.0360.0360.0000.0000.0000.000
93A93ASN00.0280.00715.9160.0090.0090.0000.0000.0000.000
94A94ILE00.0290.02513.2100.0350.0350.0000.0000.0000.000
95A95ARG10.8060.87812.045-0.215-0.2150.0000.0000.0000.000
96A96GLU-1-0.973-0.96611.5160.2490.2490.0000.0000.0000.000
97A97THR0-0.068-0.0338.942-0.006-0.0060.0000.0000.0000.000
98A98ASP-1-0.811-0.9124.1571.1941.265-0.001-0.019-0.0510.000
99A99ALA0-0.015-0.0096.2350.2580.2580.0000.0000.0000.000
100A100ILE0-0.022-0.0088.211-0.144-0.1440.0000.0000.0000.000
101A101GLY00.0590.01212.001-0.022-0.0220.0000.0000.0000.000
102A102HIS0-0.030-0.02414.432-0.039-0.0390.0000.0000.0000.000
103A103VAL00.0060.00517.670-0.025-0.0250.0000.0000.0000.000
104A104VAL0-0.002-0.00720.611-0.003-0.0030.0000.0000.0000.000
105A105ARG10.8140.89023.690-0.114-0.1140.0000.0000.0000.000
106A106CYS0-0.084-0.01425.421-0.001-0.0010.0000.0000.0000.000
107A107PHE00.0400.00728.255-0.008-0.0080.0000.0000.0000.000
108A108GLU-1-0.839-0.88331.8430.0620.0620.0000.0000.0000.000
109A109ASN0-0.041-0.02033.3590.0040.0040.0000.0000.0000.000
110A119ILE0-0.059-0.03832.308-0.002-0.0020.0000.0000.0000.000
111A120ASP-1-0.724-0.83429.9900.1060.1060.0000.0000.0000.000
112A121PRO00.016-0.00126.9070.0060.0060.0000.0000.0000.000
113A122LEU0-0.003-0.00225.4980.0130.0130.0000.0000.0000.000
114A123ASP-1-0.863-0.92026.7240.1220.1220.0000.0000.0000.000
115A124ASP-1-0.840-0.88925.8950.1340.1340.0000.0000.0000.000
116A125ILE0-0.033-0.01521.4760.0150.0150.0000.0000.0000.000
117A126ASP-1-0.765-0.90222.6400.2220.2220.0000.0000.0000.000
118A127THR0-0.106-0.04724.7670.0020.0020.0000.0000.0000.000
119A128ILE0-0.061-0.02419.2900.0010.0010.0000.0000.0000.000
120A129ASN0-0.019-0.02219.5950.0420.0420.0000.0000.0000.000
121A130THR00.013-0.00321.3260.0110.0110.0000.0000.0000.000
122A131GLU-1-0.843-0.93523.2410.1850.1850.0000.0000.0000.000
123A132LEU0-0.021-0.01016.5740.0070.0070.0000.0000.0000.000
124A133ALA00.0670.03319.8240.0180.0180.0000.0000.0000.000
125A134LEU00.0030.00021.561-0.004-0.0040.0000.0000.0000.000
126A135ALA0-0.019-0.00620.041-0.009-0.0090.0000.0000.0000.000
127A136ASP-1-0.693-0.81317.0960.4750.4750.0000.0000.0000.000
128A137LEU00.0210.01419.916-0.001-0.0010.0000.0000.0000.000
129A138ASP-1-0.789-0.85323.4900.1780.1780.0000.0000.0000.000
130A139SER0-0.049-0.04419.560-0.011-0.0110.0000.0000.0000.000
131A140CYS00.0020.01321.2960.0000.0000.0000.0000.0000.000
132A141GLU-1-0.927-0.95622.3700.1540.1540.0000.0000.0000.000
133A142ARG10.7470.82224.200-0.184-0.1840.0000.0000.0000.000
134A143ALA00.0080.01021.543-0.010-0.0100.0000.0000.0000.000
135A144ILE00.0610.03523.549-0.018-0.0180.0000.0000.0000.000
136A145GLN0-0.022-0.00726.363-0.021-0.0210.0000.0000.0000.000
137A146ARG10.8190.92021.224-0.229-0.2290.0000.0000.0000.000
138A147LEU0-0.0020.00822.159-0.019-0.0190.0000.0000.0000.000
139A148GLN0-0.003-0.00326.673-0.017-0.0170.0000.0000.0000.000
140A149LYS10.8350.90730.030-0.125-0.1250.0000.0000.0000.000
141A150ARG10.9560.98127.372-0.118-0.1180.0000.0000.0000.000
142A151ALA00.0200.01828.714-0.008-0.0080.0000.0000.0000.000
143A152LYS10.9370.96230.329-0.088-0.0880.0000.0000.0000.000
144A153GLY0-0.029-0.00733.191-0.007-0.0070.0000.0000.0000.000
145A154GLY00.0130.00733.227-0.005-0.0050.0000.0000.0000.000
146A155ASP-1-0.856-0.92726.7860.1340.1340.0000.0000.0000.000
147A156LYS10.9990.98126.215-0.096-0.0960.0000.0000.0000.000
148A157GLU-1-0.922-0.93920.3890.1890.1890.0000.0000.0000.000
149A158ALA00.0480.01123.1480.0180.0180.0000.0000.0000.000
150A159LYS10.7630.86624.811-0.106-0.1060.0000.0000.0000.000
151A160PHE00.0110.02618.000-0.003-0.0030.0000.0000.0000.000
152A161GLU-1-0.776-0.87319.1100.2750.2750.0000.0000.0000.000
153A162LEU0-0.049-0.02521.3650.0130.0130.0000.0000.0000.000
154A163SER0-0.057-0.03622.9080.0020.0020.0000.0000.0000.000
155A164VAL00.0080.01417.246-0.001-0.0010.0000.0000.0000.000
156A165MET0-0.019-0.00818.2640.0100.0100.0000.0000.0000.000
157A166GLU-1-0.847-0.95222.0540.1510.1510.0000.0000.0000.000
158A167LYS10.8060.90019.273-0.269-0.2690.0000.0000.0000.000
159A168ILE0-0.003-0.01218.005-0.004-0.0040.0000.0000.0000.000
160A169LEU00.0220.01721.4300.0000.0000.0000.0000.0000.000
161A170PRO00.0050.01424.615-0.002-0.0020.0000.0000.0000.000
162A171VAL0-0.040-0.01020.832-0.011-0.0110.0000.0000.0000.000
163A172LEU0-0.006-0.00219.740-0.001-0.0010.0000.0000.0000.000
164A173GLU-1-0.938-0.98023.5790.1520.1520.0000.0000.0000.000
165A174ASN0-0.134-0.07026.352-0.023-0.0230.0000.0000.0000.000
166A175ALA0-0.018-0.00824.484-0.002-0.0020.0000.0000.0000.000
167A176GLY00.0270.02322.3210.0090.0090.0000.0000.0000.000
168A177MET0-0.044-0.02016.8540.0330.0330.0000.0000.0000.000
169A178ILE00.046-0.00214.518-0.009-0.0090.0000.0000.0000.000
170A179ARG10.8410.90712.420-0.519-0.5190.0000.0000.0000.000
171A180SER0-0.0180.00213.851-0.022-0.0220.0000.0000.0000.000
172A181VAL0-0.037-0.00816.024-0.061-0.0610.0000.0000.0000.000
173A182GLY00.0030.00415.3530.0370.0370.0000.0000.0000.000
174A183LEU0-0.065-0.03013.827-0.033-0.0330.0000.0000.0000.000
175A184ASP-1-0.793-0.89113.5550.2660.2660.0000.0000.0000.000
176A185LYS10.8850.9109.905-0.149-0.1490.0000.0000.0000.000
177A186GLU-1-0.972-0.97811.7390.3100.3100.0000.0000.0000.000
178A187GLU-1-0.784-0.88114.8300.3110.3110.0000.0000.0000.000
179A188LEU00.0210.0079.2960.0160.0160.0000.0000.0000.000
180A189GLN0-0.006-0.00911.3310.2130.2130.0000.0000.0000.000
181A190ALA0-0.041-0.02012.570-0.026-0.0260.0000.0000.0000.000
182A191ILE00.0130.00613.510-0.041-0.0410.0000.0000.0000.000
183A192LYS10.9560.9946.354-1.230-1.2300.0000.0000.0000.000
184A193SER0-0.053-0.03210.8890.0290.0290.0000.0000.0000.000
185A194TYR0-0.057-0.05613.463-0.084-0.0840.0000.0000.0000.000
186A195ASN0-0.068-0.02910.7830.0720.0720.0000.0000.0000.000
187A196PHE00.0030.00612.224-0.033-0.0330.0000.0000.0000.000
188A197LEU00.001-0.01512.5790.1110.1110.0000.0000.0000.000
189A198THR0-0.046-0.04313.5400.0600.0600.0000.0000.0000.000
190A199LEU0-0.035-0.01410.309-0.030-0.0300.0000.0000.0000.000
191A200LYS10.8330.9249.251-0.715-0.7150.0000.0000.0000.000
192A201PRO00.0230.0206.677-0.265-0.2650.0000.0000.0000.000
193A202THR0-0.014-0.02210.015-0.018-0.0180.0000.0000.0000.000
194A203MET0-0.0410.00312.798-0.061-0.0610.0000.0000.0000.000
195A204TYR0-0.034-0.04214.8780.0120.0120.0000.0000.0000.000
196A205ILE0-0.022-0.00415.692-0.029-0.0290.0000.0000.0000.000
197A206ALA00.041-0.00319.413-0.002-0.0020.0000.0000.0000.000
198A207ASN00.0280.00923.025-0.023-0.0230.0000.0000.0000.000
199A208VAL0-0.034-0.01525.0480.0020.0020.0000.0000.0000.000
200A209ASN0-0.030-0.03128.5810.0030.0030.0000.0000.0000.000
201A210GLU-1-0.836-0.93031.0480.0470.0470.0000.0000.0000.000
202A211ASP-1-0.919-0.94432.7450.0210.0210.0000.0000.0000.000
203A212GLY00.008-0.01032.1240.0030.0030.0000.0000.0000.000
204A213PHE0-0.023-0.01626.1690.0080.0080.0000.0000.0000.000
205A214GLU-1-0.890-0.93829.7790.0300.0300.0000.0000.0000.000
206A215ASN0-0.054-0.04932.616-0.004-0.0040.0000.0000.0000.000
207A216ASN00.0080.00130.8290.0030.0030.0000.0000.0000.000
208A217PRO00.0380.00531.4210.0050.0050.0000.0000.0000.000
209A218TYR0-0.061-0.04229.9520.0070.0070.0000.0000.0000.000
210A219LEU00.0300.02025.4870.0100.0100.0000.0000.0000.000
211A220ASP-1-0.874-0.92826.7500.0560.0560.0000.0000.0000.000
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