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: MNNQZ

Calculation Name: 1TW9-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1TW9

Chain ID: A

ChEMBL ID:

UniProt ID: Q9NJQ6

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 OptH
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 191
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2158264.539501
FMO2-HF: Nuclear repulsion 2082559.592875
FMO2-HF: Total energy -75704.946627
FMO2-MP2: Total energy -75927.235927


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.
-3.133-1.1350.005-0.876-1.1270.004
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 : -0.020 / q_NPA : -0.019
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].
3A3HIS0-0.0210.0033.727-0.9450.9390.006-0.875-1.0150.004
4A4TYR00.0180.0075.6440.5040.5040.0000.0000.0000.000
5A5LYS10.9280.9868.8540.8280.8280.0000.0000.0000.000
6A6LEU0-0.006-0.00211.8060.0340.0340.0000.0000.0000.000
7A7THR00.0000.01315.1020.0180.0180.0000.0000.0000.000
8A8TYR00.028-0.00918.2510.0280.0280.0000.0000.0000.000
9A9PHE00.0570.04521.523-0.007-0.0070.0000.0000.0000.000
10A10ASN00.0370.01723.2200.0050.0050.0000.0000.0000.000
11A11GLY0-0.002-0.01024.2160.0120.0120.0000.0000.0000.000
12A12ARG10.8680.95323.919-0.006-0.0060.0000.0000.0000.000
13A13GLY00.021-0.00924.215-0.012-0.0120.0000.0000.0000.000
14A14ALA00.008-0.00825.0470.0090.0090.0000.0000.0000.000
15A15GLY00.0400.02821.027-0.011-0.0110.0000.0000.0000.000
16A16GLU-1-0.760-0.85519.8900.0140.0140.0000.0000.0000.000
17A17CYS0-0.0030.02120.4220.0240.0240.0000.0000.0000.000
18A18ALA00.0850.02916.6210.0260.0260.0000.0000.0000.000
19A19ARG10.7790.88915.9690.1140.1140.0000.0000.0000.000
20A20GLN0-0.055-0.04316.3360.0590.0590.0000.0000.0000.000
21A21VAL0-0.017-0.00314.5770.0470.0470.0000.0000.0000.000
22A22PHE00.0360.01510.1190.0470.0470.0000.0000.0000.000
23A23ALA0-0.0140.01012.7560.1230.1230.0000.0000.0000.000
24A24LEU0-0.022-0.03015.1070.0750.0750.0000.0000.0000.000
25A25ALA0-0.049-0.02811.8110.0280.0280.0000.0000.0000.000
26A26ASP-1-1.015-0.98811.3191.1111.1110.0000.0000.0000.000
27A27GLN0-0.0090.0124.7600.4900.604-0.001-0.001-0.1120.000
28A28LYS10.9570.9734.8260.0620.0620.0000.0000.0000.000
29A29TYR0-0.018-0.0217.460-0.199-0.1990.0000.0000.0000.000
30A30GLU-1-0.901-0.9529.607-0.704-0.7040.0000.0000.0000.000
31A31ASP-1-0.752-0.87411.654-0.137-0.1370.0000.0000.0000.000
32A32VAL00.004-0.00314.9430.0250.0250.0000.0000.0000.000
33A33ARG10.8030.89417.4410.0990.0990.0000.0000.0000.000
34A34LEU0-0.005-0.01020.9590.0060.0060.0000.0000.0000.000
35A35THR00.0500.02023.5550.0130.0130.0000.0000.0000.000
36A36GLN00.040-0.00727.179-0.018-0.0180.0000.0000.0000.000
37A37GLU-1-0.847-0.93029.755-0.123-0.1230.0000.0000.0000.000
38A38THR0-0.028-0.02024.372-0.013-0.0130.0000.0000.0000.000
39A39PHE0-0.030-0.01125.240-0.017-0.0170.0000.0000.0000.000
40A40VAL0-0.0130.00826.615-0.012-0.0120.0000.0000.0000.000
41A41PRO0-0.018-0.01427.367-0.001-0.0010.0000.0000.0000.000
42A42LEU00.0290.01822.055-0.014-0.0140.0000.0000.0000.000
43A43LYS10.8961.00225.0430.1410.1410.0000.0000.0000.000
44A44ALA0-0.003-0.02126.931-0.003-0.0030.0000.0000.0000.000
45A45THR0-0.058-0.04522.446-0.013-0.0130.0000.0000.0000.000
46A46PHE00.0000.00620.497-0.028-0.0280.0000.0000.0000.000
47A47PRO00.0360.02121.5620.0270.0270.0000.0000.0000.000
48A48PHE00.013-0.00524.5600.0150.0150.0000.0000.0000.000
49A49GLY00.0060.02726.8970.0190.0190.0000.0000.0000.000
50A50GLN0-0.065-0.05326.1590.0110.0110.0000.0000.0000.000
51A51VAL00.0060.03721.453-0.022-0.0220.0000.0000.0000.000
52A52PRO0-0.048-0.03620.0700.0240.0240.0000.0000.0000.000
53A53VAL0-0.020-0.02317.8380.0110.0110.0000.0000.0000.000
54A54LEU0-0.037-0.00912.2070.0040.0040.0000.0000.0000.000
55A55GLU-1-0.890-0.96812.750-0.806-0.8060.0000.0000.0000.000
56A56VAL00.001-0.0139.284-0.041-0.0410.0000.0000.0000.000
57A57ASP-1-0.869-0.9396.414-3.846-3.8460.0000.0000.0000.000
58A58GLY0-0.016-0.0098.9360.1760.1760.0000.0000.0000.000
59A59GLN0-0.035-0.00612.1040.2940.2940.0000.0000.0000.000
60A60GLN00.000-0.01214.4850.0180.0180.0000.0000.0000.000
61A61LEU00.0080.01916.8280.0420.0420.0000.0000.0000.000
62A62ALA00.008-0.00118.5290.0020.0020.0000.0000.0000.000
63A63GLN00.0430.01521.4880.0250.0250.0000.0000.0000.000
64A64SER0-0.005-0.00222.0430.0030.0030.0000.0000.0000.000
65A65GLN00.0840.02221.6420.0100.0100.0000.0000.0000.000
66A66ALA0-0.052-0.02621.7790.0150.0150.0000.0000.0000.000
67A67ILE00.0290.02616.5660.0020.0020.0000.0000.0000.000
68A68CYS0-0.034-0.01117.2650.0140.0140.0000.0000.0000.000
69A69ARG10.8970.94018.4320.0760.0760.0000.0000.0000.000
70A70TYR00.0180.00811.5420.0530.0530.0000.0000.0000.000
71A71LEU00.0170.01612.0820.0280.0280.0000.0000.0000.000
72A72ALA00.002-0.00814.5240.0750.0750.0000.0000.0000.000
73A73LYS10.8970.94717.0620.0190.0190.0000.0000.0000.000
74A74THR0-0.034-0.00110.6550.0110.0110.0000.0000.0000.000
75A75PHE0-0.014-0.0128.8380.0810.0810.0000.0000.0000.000
76A76GLY0-0.0080.02113.7510.0490.0490.0000.0000.0000.000
77A77PHE0-0.011-0.01214.980-0.012-0.0120.0000.0000.0000.000
78A78ALA0-0.001-0.02719.432-0.033-0.0330.0000.0000.0000.000
79A79GLY00.0540.03321.643-0.018-0.0180.0000.0000.0000.000
80A80ALA00.001-0.00322.9150.0120.0120.0000.0000.0000.000
81A81THR00.0240.01425.037-0.005-0.0050.0000.0000.0000.000
82A82PRO00.017-0.01126.380-0.004-0.0040.0000.0000.0000.000
83A83PHE00.0420.01527.432-0.008-0.0080.0000.0000.0000.000
84A84GLU-1-0.839-0.91527.3530.1060.1060.0000.0000.0000.000
85A85SER00.0120.00624.327-0.004-0.0040.0000.0000.0000.000
86A86ALA00.0110.01526.201-0.009-0.0090.0000.0000.0000.000
87A87LEU0-0.014-0.00729.190-0.006-0.0060.0000.0000.0000.000
88A88ILE00.0080.02524.573-0.004-0.0040.0000.0000.0000.000
89A89ASP-1-0.830-0.91025.763-0.013-0.0130.0000.0000.0000.000
90A90SER0-0.053-0.03728.115-0.006-0.0060.0000.0000.0000.000
91A91LEU00.005-0.00630.148-0.003-0.0030.0000.0000.0000.000
92A92ALA0-0.024-0.01327.219-0.002-0.0020.0000.0000.0000.000
93A93ASP-1-0.913-0.95729.174-0.041-0.0410.0000.0000.0000.000
94A94ALA00.0030.00531.623-0.002-0.0020.0000.0000.0000.000
95A95TYR0-0.059-0.03029.102-0.003-0.0030.0000.0000.0000.000
96A96THR0-0.037-0.02730.299-0.006-0.0060.0000.0000.0000.000
97A97ASP-1-0.892-0.93832.618-0.029-0.0290.0000.0000.0000.000
98A98TYR0-0.044-0.06334.5400.0000.0000.0000.0000.0000.000
99A99ARG10.8850.91931.0120.0280.0280.0000.0000.0000.000
100A100ALA0-0.048-0.01235.498-0.003-0.0030.0000.0000.0000.000
101A101GLU-1-0.914-0.93337.620-0.012-0.0120.0000.0000.0000.000
102A102MET0-0.062-0.00635.6990.0010.0010.0000.0000.0000.000
103A118ASP-1-0.946-0.96945.374-0.007-0.0070.0000.0000.0000.000
104A119LYS11.0471.00347.2110.0150.0150.0000.0000.0000.000
105A120PRO00.0270.00044.0570.0010.0010.0000.0000.0000.000
106A121LYS10.9040.99243.954-0.005-0.0050.0000.0000.0000.000
107A122THR00.013-0.00844.9970.0020.0020.0000.0000.0000.000
108A123ASP-1-0.900-0.94948.065-0.009-0.0090.0000.0000.0000.000
109A124VAL0-0.005-0.01542.4180.0000.0000.0000.0000.0000.000
110A125LEU0-0.042-0.01138.9850.0010.0010.0000.0000.0000.000
111A126LEU00.011-0.00142.1610.0020.0020.0000.0000.0000.000
112A127PRO00.0300.01344.3800.0030.0030.0000.0000.0000.000
113A128ALA00.0370.03140.7030.0020.0020.0000.0000.0000.000
114A129ARG10.8360.89139.515-0.013-0.0130.0000.0000.0000.000
115A130THR0-0.024-0.01540.8000.0040.0040.0000.0000.0000.000
116A131LYS10.8550.93542.1280.0100.0100.0000.0000.0000.000
117A132PHE00.0380.01133.0560.0030.0030.0000.0000.0000.000
118A133LEU00.0100.00136.3600.0040.0040.0000.0000.0000.000
119A134GLY00.0450.05039.0690.0050.0050.0000.0000.0000.000
120A135PHE0-0.075-0.04638.3340.0040.0040.0000.0000.0000.000
121A136ILE00.0470.02433.4940.0040.0040.0000.0000.0000.000
122A137THR00.014-0.01236.4510.0070.0070.0000.0000.0000.000
123A138LYS10.9080.96838.876-0.017-0.0170.0000.0000.0000.000
124A139PHE0-0.040-0.02834.0570.0010.0010.0000.0000.0000.000
125A140LEU00.0270.01432.9200.0050.0050.0000.0000.0000.000
126A141LYS10.8370.92336.006-0.040-0.0400.0000.0000.0000.000
127A142LYS10.8870.96036.783-0.042-0.0420.0000.0000.0000.000
128A143ASN0-0.036-0.01831.3700.0040.0040.0000.0000.0000.000
129A144SER0-0.011-0.00635.6010.0020.0020.0000.0000.0000.000
130A145SER0-0.009-0.00830.5400.0010.0010.0000.0000.0000.000
131A146GLY0-0.034-0.00731.5220.0080.0080.0000.0000.0000.000
132A147PHE00.0080.00626.3520.0010.0010.0000.0000.0000.000
133A148LEU0-0.014-0.02229.223-0.008-0.0080.0000.0000.0000.000
134A149VAL0-0.059-0.03128.331-0.008-0.0080.0000.0000.0000.000
135A150GLY00.0370.03328.1510.0090.0090.0000.0000.0000.000
136A151ASP-1-0.895-0.93827.2780.1570.1570.0000.0000.0000.000
137A152LYS10.8890.94618.805-0.282-0.2820.0000.0000.0000.000
138A153ILE0-0.0200.01221.199-0.013-0.0130.0000.0000.0000.000
139A154SER0-0.013-0.02622.0730.0100.0100.0000.0000.0000.000
140A155TRP00.027-0.01620.273-0.010-0.0100.0000.0000.0000.000
141A156VAL00.0260.01722.045-0.012-0.0120.0000.0000.0000.000
142A157ASP-1-0.715-0.85025.0900.0970.0970.0000.0000.0000.000
143A158LEU00.0180.00419.860-0.004-0.0040.0000.0000.0000.000
144A159LEU0-0.035-0.01224.258-0.009-0.0090.0000.0000.0000.000
145A160VAL00.008-0.00425.949-0.007-0.0070.0000.0000.0000.000
146A161ALA00.0000.00727.205-0.005-0.0050.0000.0000.0000.000
147A162GLU-1-0.775-0.88625.7240.0360.0360.0000.0000.0000.000
148A163HIS00.0130.05327.909-0.007-0.0070.0000.0000.0000.000
149A164VAL00.0230.00230.777-0.003-0.0030.0000.0000.0000.000
150A165ALA00.0610.03630.091-0.002-0.0020.0000.0000.0000.000
151A166ASP-1-0.893-0.94530.747-0.007-0.0070.0000.0000.0000.000
152A167MET0-0.041-0.03032.567-0.005-0.0050.0000.0000.0000.000
153A168THR0-0.041-0.03335.526-0.001-0.0010.0000.0000.0000.000
154A169ASN0-0.017-0.00232.5890.0020.0020.0000.0000.0000.000
155A170ARG10.7850.90233.1450.0080.0080.0000.0000.0000.000
156A171VAL0-0.034-0.02438.540-0.002-0.0020.0000.0000.0000.000
157A172PRO00.0730.03940.6850.0020.0020.0000.0000.0000.000
158A173GLU-1-0.863-0.94241.7360.0130.0130.0000.0000.0000.000
159A174TYR0-0.033-0.02636.3720.0010.0010.0000.0000.0000.000
160A175ILE00.0190.02137.0070.0000.0000.0000.0000.0000.000
161A176GLU-1-0.939-0.96040.4110.0260.0260.0000.0000.0000.000
162A177GLY0-0.011-0.00844.040-0.002-0.0020.0000.0000.0000.000
163A178PHE0-0.022-0.01839.7420.0000.0000.0000.0000.0000.000
164A179PRO00.0560.02939.5620.0030.0030.0000.0000.0000.000
165A180GLU-1-0.855-0.95537.8220.0510.0510.0000.0000.0000.000
166A181VAL00.0260.01834.8410.0060.0060.0000.0000.0000.000
167A182LYS10.9921.00534.601-0.048-0.0480.0000.0000.0000.000
168A183ALA0-0.020-0.00734.6540.0050.0050.0000.0000.0000.000
169A184HIS0-0.117-0.07428.9970.0050.0050.0000.0000.0000.000
170A185MET00.0400.02930.4190.0060.0060.0000.0000.0000.000
171A186GLU-1-0.928-0.98029.8280.0820.0820.0000.0000.0000.000
172A187ARG10.8940.96328.587-0.092-0.0920.0000.0000.0000.000
173A188ILE0-0.010-0.01724.8120.0170.0170.0000.0000.0000.000
174A189GLN0-0.029-0.02625.1700.0120.0120.0000.0000.0000.000
175A190GLN00.0210.01626.2340.0130.0130.0000.0000.0000.000
176A191THR0-0.018-0.00121.8200.0180.0180.0000.0000.0000.000
177A192PRO00.013-0.00321.4200.0030.0030.0000.0000.0000.000
178A193ARG10.8960.94413.754-0.640-0.6400.0000.0000.0000.000
179A194ILE00.0100.01719.226-0.007-0.0070.0000.0000.0000.000
180A195LYS10.9240.98121.232-0.159-0.1590.0000.0000.0000.000
181A196LYS11.0111.00816.519-0.368-0.3680.0000.0000.0000.000
182A197TRP0-0.065-0.04617.722-0.016-0.0160.0000.0000.0000.000
183A198ILE0-0.024-0.02520.306-0.025-0.0250.0000.0000.0000.000
184A199GLU-1-0.964-0.98823.9440.1280.1280.0000.0000.0000.000
185A200THR0-0.082-0.04320.429-0.006-0.0060.0000.0000.0000.000
186A201ARG10.8020.92621.429-0.059-0.0590.0000.0000.0000.000
187A202PRO00.007-0.01421.219-0.003-0.0030.0000.0000.0000.000
188A203GLU-1-0.913-0.94424.4610.0180.0180.0000.0000.0000.000
189A204THR0-0.014-0.01226.144-0.008-0.0080.0000.0000.0000.000
190A205PRO00.0290.01229.0550.0070.0070.0000.0000.0000.000
191A206PHE00.0310.02727.4170.0020.0020.0000.0000.0000.000