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

tag_button

FMODB ID: JQ519

Calculation Name: 1Q6H-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1Q6H

Chain ID: A

ChEMBL ID:

UniProt ID: P45523

Base Structure: X-ray

Registration Date: 2023-09-24

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 210
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1965068.968249
FMO2-HF: Nuclear repulsion 1885923.34975
FMO2-HF: Total energy -79145.618498
FMO2-MP2: Total energy -79380.530601


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:15:ALA)


Summations of interaction energy for fragment #1(A:15:ALA)
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.
0.3781.8540.017-0.612-0.8810.002
Interaction energy analysis for fragmet #1(A:15:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.034 / q_NPA : 0.007
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].
3A17LYS10.8820.9343.0932.1183.5940.017-0.612-0.8810.002
4A18ASN0-0.013-0.0226.4780.1180.1180.0000.0000.0000.000
5A19ASP-1-0.813-0.8938.8270.5430.5430.0000.0000.0000.000
6A20ASP-1-0.804-0.88811.0750.0590.0590.0000.0000.0000.000
7A21GLN0-0.0230.0036.556-0.465-0.4650.0000.0000.0000.000
8A22LYS10.9420.9706.669-1.544-1.5440.0000.0000.0000.000
9A23SER00.004-0.0317.775-0.019-0.0190.0000.0000.0000.000
10A24ALA00.0050.01611.107-0.048-0.0480.0000.0000.0000.000
11A25TYR0-0.002-0.0067.460-0.056-0.0560.0000.0000.0000.000
12A26ALA0-0.013-0.0099.545-0.024-0.0240.0000.0000.0000.000
13A27LEU00.0160.01611.039-0.041-0.0410.0000.0000.0000.000
14A28GLY00.0490.02013.168-0.019-0.0190.0000.0000.0000.000
15A29ALA0-0.018-0.01410.993-0.018-0.0180.0000.0000.0000.000
16A30SER0-0.042-0.01213.129-0.011-0.0110.0000.0000.0000.000
17A31LEU00.0420.01716.097-0.012-0.0120.0000.0000.0000.000
18A32GLY00.0290.01916.468-0.009-0.0090.0000.0000.0000.000
19A33ARG10.8680.92216.577-0.080-0.0800.0000.0000.0000.000
20A34TYR00.0330.01518.286-0.001-0.0010.0000.0000.0000.000
21A35MET00.0440.03820.849-0.002-0.0020.0000.0000.0000.000
22A36GLU-1-0.819-0.90219.967-0.025-0.0250.0000.0000.0000.000
23A37ASN0-0.009-0.00921.2920.0140.0140.0000.0000.0000.000
24A38SER00.0380.00724.0030.0010.0010.0000.0000.0000.000
25A39LEU0-0.034-0.01724.820-0.001-0.0010.0000.0000.0000.000
26A40LYS10.8590.92523.2530.0140.0140.0000.0000.0000.000
27A41GLU-1-0.819-0.89327.7560.0160.0160.0000.0000.0000.000
28A42GLN00.0120.00428.607-0.004-0.0040.0000.0000.0000.000
29A43GLU-1-0.858-0.91728.361-0.021-0.0210.0000.0000.0000.000
30A44LYS10.7510.85129.802-0.014-0.0140.0000.0000.0000.000
31A45LEU0-0.038-0.01534.0460.0020.0020.0000.0000.0000.000
32A46GLY0-0.0010.00835.675-0.001-0.0010.0000.0000.0000.000
33A47ILE0-0.096-0.03632.866-0.003-0.0030.0000.0000.0000.000
34A48LYS10.8660.90830.6380.0270.0270.0000.0000.0000.000
35A49LEU00.0070.01128.600-0.002-0.0020.0000.0000.0000.000
36A50ASP-1-0.839-0.91627.832-0.070-0.0700.0000.0000.0000.000
37A51LYS10.9040.92422.3070.0520.0520.0000.0000.0000.000
38A52ASP-1-0.870-0.91523.461-0.112-0.1120.0000.0000.0000.000
39A53GLN0-0.019-0.02324.562-0.005-0.0050.0000.0000.0000.000
40A54LEU0-0.047-0.00722.5620.0010.0010.0000.0000.0000.000
41A55ILE0-0.024-0.02018.491-0.001-0.0010.0000.0000.0000.000
42A56ALA00.0150.01221.925-0.007-0.0070.0000.0000.0000.000
43A57GLY00.0560.03224.1500.0000.0000.0000.0000.0000.000
44A58VAL0-0.040-0.02419.7600.0040.0040.0000.0000.0000.000
45A59GLN0-0.041-0.02817.9240.0040.0040.0000.0000.0000.000
46A60ASP-1-0.811-0.89221.747-0.087-0.0870.0000.0000.0000.000
47A61ALA0-0.021-0.01224.7750.0030.0030.0000.0000.0000.000
48A62PHE0-0.061-0.02917.4920.0020.0020.0000.0000.0000.000
49A63ALA0-0.0140.00522.268-0.007-0.0070.0000.0000.0000.000
50A64ASP-1-0.939-0.96523.976-0.061-0.0610.0000.0000.0000.000
51A65LYS10.8500.91025.9830.0910.0910.0000.0000.0000.000
52A66SER0-0.016-0.01928.776-0.003-0.0030.0000.0000.0000.000
53A67LYS10.8110.88728.0040.0840.0840.0000.0000.0000.000
54A68LEU0-0.0240.00732.0650.0030.0030.0000.0000.0000.000
55A69SER00.016-0.01932.774-0.001-0.0010.0000.0000.0000.000
56A70ASP-1-0.858-0.94432.819-0.027-0.0270.0000.0000.0000.000
57A71GLN0-0.0090.00034.6620.0010.0010.0000.0000.0000.000
58A72GLU-1-0.811-0.86836.384-0.032-0.0320.0000.0000.0000.000
59A73ILE0-0.0250.00730.4450.0010.0010.0000.0000.0000.000
60A74GLU-1-0.876-0.93234.079-0.008-0.0080.0000.0000.0000.000
61A75GLN00.0090.00436.0300.0010.0010.0000.0000.0000.000
62A76THR0-0.032-0.03234.3220.0010.0010.0000.0000.0000.000
63A77LEU0-0.021-0.01530.8450.0010.0010.0000.0000.0000.000
64A78GLN0-0.033-0.02134.9980.0030.0030.0000.0000.0000.000
65A79ALA0-0.018-0.00638.5350.0020.0020.0000.0000.0000.000
66A80PHE0-0.028-0.01831.9500.0000.0000.0000.0000.0000.000
67A81GLU-1-0.834-0.91535.6240.0020.0020.0000.0000.0000.000
68A82ALA0-0.0150.00437.3370.0020.0020.0000.0000.0000.000
69A83ARG10.9680.98736.2870.0210.0210.0000.0000.0000.000
70A84VAL00.0000.00434.2970.0010.0010.0000.0000.0000.000
71A85LYS10.8700.92137.5030.0000.0000.0000.0000.0000.000
72A86SER00.0190.00940.4210.0010.0010.0000.0000.0000.000
73A87SER0-0.056-0.04438.6300.0000.0000.0000.0000.0000.000
74A88ALA00.0020.00438.8620.0010.0010.0000.0000.0000.000
75A89GLN0-0.013-0.00540.3400.0020.0020.0000.0000.0000.000
76A90ALA00.000-0.00442.8050.0000.0000.0000.0000.0000.000
77A91LYS10.8560.91138.046-0.003-0.0030.0000.0000.0000.000
78A92MET00.0040.00642.4740.0010.0010.0000.0000.0000.000
79A93GLU-1-0.801-0.87544.6690.0020.0020.0000.0000.0000.000
80A94LYS10.8620.92043.7870.0030.0030.0000.0000.0000.000
81A95ASP-1-0.855-0.91042.0510.0040.0040.0000.0000.0000.000
82A96ALA00.0080.00545.5590.0010.0010.0000.0000.0000.000
83A97ALA00.0020.00748.9500.0000.0000.0000.0000.0000.000
84A98ASP-1-0.821-0.90946.148-0.001-0.0010.0000.0000.0000.000
85A99ASN0-0.033-0.02545.0200.0000.0000.0000.0000.0000.000
86A100GLH0-0.013-0.02549.1850.0010.0010.0000.0000.0000.000
87A101ALA0-0.053-0.01451.9090.0000.0000.0000.0000.0000.000
88A102LYS10.9410.96445.088-0.003-0.0030.0000.0000.0000.000
89A103GLY00.0260.01451.5940.0010.0010.0000.0000.0000.000
90A104LYS10.8690.93053.188-0.003-0.0030.0000.0000.0000.000
91A105GLU-1-0.931-0.96152.9520.0020.0020.0000.0000.0000.000
92A106TYR00.013-0.00251.6740.0000.0000.0000.0000.0000.000
93A107ARG10.8730.92855.035-0.006-0.0060.0000.0000.0000.000
94A108GLU-1-0.847-0.92357.9800.0040.0040.0000.0000.0000.000
95A109LYS10.8770.93756.113-0.006-0.0060.0000.0000.0000.000
96A110PHE00.0760.02557.4650.0000.0000.0000.0000.0000.000
97A111ALA00.007-0.01259.5120.0000.0000.0000.0000.0000.000
98A112LYS10.8090.91162.724-0.004-0.0040.0000.0000.0000.000
99A113GLU-1-0.867-0.90559.2910.0070.0070.0000.0000.0000.000
100A114LYS10.9710.96663.639-0.007-0.0070.0000.0000.0000.000
101A115GLY0-0.002-0.01064.6920.0000.0000.0000.0000.0000.000
102A116VAL0-0.055-0.00261.6140.0010.0010.0000.0000.0000.000
103A117LYS10.9220.96864.401-0.009-0.0090.0000.0000.0000.000
104A118THR00.0410.00663.7260.0000.0000.0000.0000.0000.000
105A119SER0-0.051-0.03365.1460.0000.0000.0000.0000.0000.000
106A120SER00.013-0.01066.7980.0000.0000.0000.0000.0000.000
107A121THR0-0.066-0.05664.2610.0000.0000.0000.0000.0000.000
108A122GLY00.0080.01062.7300.0000.0000.0000.0000.0000.000
109A123LEU0-0.033-0.00859.6370.0000.0000.0000.0000.0000.000
110A124VAL0-0.0110.00959.5170.0000.0000.0000.0000.0000.000
111A125TYR0-0.063-0.04860.0080.0010.0010.0000.0000.0000.000
112A126GLN00.0190.00260.2990.0000.0000.0000.0000.0000.000
113A127VAL0-0.027-0.00461.8160.0010.0010.0000.0000.0000.000
114A128VAL0-0.019-0.00459.8300.0000.0000.0000.0000.0000.000
115A129GLU-1-0.848-0.91662.9340.0140.0140.0000.0000.0000.000
116A130ALA00.0200.00165.4890.0000.0000.0000.0000.0000.000
117A131GLY00.0520.02967.5690.0000.0000.0000.0000.0000.000
118A132LYS10.8690.92768.055-0.012-0.0120.0000.0000.0000.000
119A133GLY00.0110.00370.4560.0010.0010.0000.0000.0000.000
120A134GLU-1-0.845-0.91571.5480.0110.0110.0000.0000.0000.000
121A135ALA0-0.018-0.00769.7930.0000.0000.0000.0000.0000.000
122A136PRO00.0090.00065.4650.0000.0000.0000.0000.0000.000
123A137LYS10.8240.91368.026-0.012-0.0120.0000.0000.0000.000
124A138ASP-1-0.794-0.89366.1420.0120.0120.0000.0000.0000.000
125A139SER00.0200.00565.4790.0000.0000.0000.0000.0000.000
126A140ASP-1-0.875-0.92166.3360.0140.0140.0000.0000.0000.000
127A141THR0-0.031-0.02361.2380.0000.0000.0000.0000.0000.000
128A142VAL0-0.0040.00560.1040.0000.0000.0000.0000.0000.000
129A143VAL0-0.040-0.03157.9750.0010.0010.0000.0000.0000.000
130A144VAL0-0.010-0.01255.782-0.001-0.0010.0000.0000.0000.000
131A145ASN00.0230.01254.0220.0020.0020.0000.0000.0000.000
132A146TYR0-0.069-0.07649.616-0.001-0.0010.0000.0000.0000.000
133A147LYS10.8880.94847.963-0.017-0.0170.0000.0000.0000.000
134A148GLY00.0120.01348.456-0.002-0.0020.0000.0000.0000.000
135A149THR0-0.025-0.01446.0050.0010.0010.0000.0000.0000.000
136A150LEU00.0170.00443.433-0.001-0.0010.0000.0000.0000.000
137A151ILE0-0.020-0.02247.2340.0000.0000.0000.0000.0000.000
138A152ASP-1-0.876-0.93042.9870.0120.0120.0000.0000.0000.000
139A153GLY00.0030.00945.3380.0000.0000.0000.0000.0000.000
140A154LYS10.8560.92438.932-0.024-0.0240.0000.0000.0000.000
141A155GLU-1-0.838-0.92342.8480.0250.0250.0000.0000.0000.000
142A156PHE0-0.050-0.04342.1530.0010.0010.0000.0000.0000.000
143A157ASP-1-0.771-0.83743.7150.0280.0280.0000.0000.0000.000
144A158ASN0-0.019-0.02745.322-0.001-0.0010.0000.0000.0000.000
145A159SER00.0280.03946.8160.0010.0010.0000.0000.0000.000
146A160TYR0-0.019-0.03548.3190.0010.0010.0000.0000.0000.000
147A161THR0-0.097-0.05243.1930.0020.0020.0000.0000.0000.000
148A162ARG10.8500.90444.392-0.028-0.0280.0000.0000.0000.000
149A163GLY0-0.0150.00746.4880.0010.0010.0000.0000.0000.000
150A164GLU-1-0.977-0.98248.9690.0300.0300.0000.0000.0000.000
151A165PRO0-0.038-0.01251.4890.0000.0000.0000.0000.0000.000
152A166LEU00.0150.01251.2890.0000.0000.0000.0000.0000.000
153A167SER00.015-0.01154.173-0.001-0.0010.0000.0000.0000.000
154A168PHE0-0.026-0.01555.4950.0010.0010.0000.0000.0000.000
155A169ARG10.8850.93058.594-0.017-0.0170.0000.0000.0000.000
156A170LEU0-0.0120.01460.6160.0000.0000.0000.0000.0000.000
157A171ASP-1-0.826-0.90661.7390.0140.0140.0000.0000.0000.000
158A172GLY0-0.031-0.00559.2260.0000.0000.0000.0000.0000.000
159A173VAL0-0.043-0.01855.6660.0010.0010.0000.0000.0000.000
160A174ILE0-0.0140.01353.152-0.001-0.0010.0000.0000.0000.000
161A175PRO00.0830.02356.6880.0000.0000.0000.0000.0000.000
162A176GLY00.0340.01458.5210.0000.0000.0000.0000.0000.000
163A177TRP0-0.011-0.02053.8850.0000.0000.0000.0000.0000.000
164A178THR0-0.029-0.01959.0140.0000.0000.0000.0000.0000.000
165A179GLU-1-0.780-0.85262.0120.0090.0090.0000.0000.0000.000
166A180GLY00.0310.00761.6040.0000.0000.0000.0000.0000.000
167A181LEU00.0140.00059.8480.0000.0000.0000.0000.0000.000
168A182LYS10.8090.90663.457-0.011-0.0110.0000.0000.0000.000
169A183ASN0-0.040-0.01565.219-0.001-0.0010.0000.0000.0000.000
170A184ILE0-0.0520.00062.4210.0000.0000.0000.0000.0000.000
171A185LYS10.8540.92667.026-0.011-0.0110.0000.0000.0000.000
172A186LYS10.9120.94665.453-0.016-0.0160.0000.0000.0000.000
173A187GLY0-0.0050.00064.0690.0000.0000.0000.0000.0000.000
174A188GLY00.0180.01163.7660.0000.0000.0000.0000.0000.000
175A189LYS10.8050.89759.280-0.015-0.0150.0000.0000.0000.000
176A190ILE0-0.025-0.01459.911-0.001-0.0010.0000.0000.0000.000
177A191LYS10.9401.00054.745-0.010-0.0100.0000.0000.0000.000
178A192LEU0-0.025-0.01556.837-0.001-0.0010.0000.0000.0000.000
179A193VAL0-0.029-0.01954.9300.0010.0010.0000.0000.0000.000
180A194ILE00.0220.01754.852-0.001-0.0010.0000.0000.0000.000
181A195PRO00.0150.01254.7850.0000.0000.0000.0000.0000.000
182A196PRO00.0000.01952.1510.0010.0010.0000.0000.0000.000
183A197GLU-1-0.781-0.88254.0920.0070.0070.0000.0000.0000.000
184A198LEU0-0.037-0.01057.0900.0000.0000.0000.0000.0000.000
185A199ALA0-0.003-0.01352.7600.0010.0010.0000.0000.0000.000
186A200TYR00.0460.01649.8120.0000.0000.0000.0000.0000.000
187A201GLY0-0.0090.00651.2030.0000.0000.0000.0000.0000.000
188A202LYS10.8510.88550.242-0.002-0.0020.0000.0000.0000.000
189A203ALA0-0.0060.00848.1580.0000.0000.0000.0000.0000.000
190A204GLY00.0060.01346.5040.0000.0000.0000.0000.0000.000
191A205VAL0-0.002-0.01245.5720.0000.0000.0000.0000.0000.000
192A206PRO00.006-0.00940.4220.0000.0000.0000.0000.0000.000
193A207GLY00.0030.01340.5030.0010.0010.0000.0000.0000.000
194A208ILE0-0.054-0.02541.474-0.001-0.0010.0000.0000.0000.000
195A209PRO00.0340.01641.947-0.001-0.0010.0000.0000.0000.000
196A210PRO00.0580.05144.2020.0000.0000.0000.0000.0000.000
197A211ASN0-0.045-0.04847.1930.0000.0000.0000.0000.0000.000
198A212SER0-0.012-0.01646.779-0.001-0.0010.0000.0000.0000.000
199A213THR0-0.018-0.00549.2130.0000.0000.0000.0000.0000.000
200A214LEU0-0.044-0.01748.8260.0000.0000.0000.0000.0000.000
201A215VAL0-0.0020.00950.834-0.001-0.0010.0000.0000.0000.000
202A216PHE00.0220.01450.9570.0010.0010.0000.0000.0000.000
203A217ASP-1-0.841-0.90852.4510.0150.0150.0000.0000.0000.000
204A218VAL0-0.020-0.01853.9480.0010.0010.0000.0000.0000.000
205A219GLU-1-0.791-0.88756.1970.0190.0190.0000.0000.0000.000
206A220LEU0-0.010-0.00358.6690.0010.0010.0000.0000.0000.000
207A221LEU00.0160.01057.114-0.001-0.0010.0000.0000.0000.000
208A222ASP-1-0.810-0.90461.5380.0170.0170.0000.0000.0000.000
209A223VAL00.0070.00463.4650.0000.0000.0000.0000.0000.000
210A224LYS10.8820.95462.115-0.019-0.0190.0000.0000.0000.000