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: 7JRZK

Calculation Name: 1TC5-A-Xray310

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1TC5

Chain ID: A

ChEMBL ID:

UniProt ID: P84066

Base Structure: X-ray

Registration Date: 2021-09-06

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

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. 1.20200116
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 188
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2004959.262361
FMO2-HF: Nuclear repulsion 1930886.843705
FMO2-HF: Total energy -74072.418656
FMO2-MP2: Total energy -74285.715928


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:7:ACE )


Summations of interaction energy for fragment #1(A:7:ACE )
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.
1.3183.2580.162-1.006-1.095-0.002
Interaction energy analysis for fragmet #1(A:7:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.038 / q_NPA : 0.010
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].
3A9MET 0-0.0320.0013.8510.9551.790-0.006-0.427-0.4020.000
4A10THR 0-0.0230.0177.1770.1100.1100.0000.0000.0000.000
5A11ILE 00.002-0.0039.7750.1010.1010.0000.0000.0000.000
6A12ARG 10.7970.87213.2970.1190.1190.0000.0000.0000.000
7A13VAL 0-0.005-0.01815.4510.0150.0150.0000.0000.0000.000
8A14MET 0-0.034-0.01019.0430.0130.0130.0000.0000.0000.000
9A15LEU 0-0.021-0.00321.876-0.001-0.0010.0000.0000.0000.000
10A16GLN 00.000-0.01224.8190.0050.0050.0000.0000.0000.000
11A17ALA 00.038-0.01128.478-0.004-0.0040.0000.0000.0000.000
12A18MET 0-0.041-0.00531.6510.0040.0040.0000.0000.0000.000
13A19ASP -1-0.872-0.93833.705-0.040-0.0400.0000.0000.0000.000
14A20GLN 0-0.022-0.02337.4550.0010.0010.0000.0000.0000.000
15A21GLY 00.0170.01135.0910.0000.0000.0000.0000.0000.000
16A22HIS 0-0.010-0.00636.1360.0000.0000.0000.0000.0000.000
17A23LEU 00.0120.00929.9240.0010.0010.0000.0000.0000.000
18A24LEU 0-0.067-0.01734.3420.0000.0000.0000.0000.0000.000
19A25VAL 0-0.007-0.00432.968-0.003-0.0030.0000.0000.0000.000
20A26ASN 00.0760.03534.090-0.002-0.0020.0000.0000.0000.000
21A27ASN 00.0190.00232.5240.0010.0010.0000.0000.0000.000
22A28VAL 0-0.045-0.02435.8440.0030.0030.0000.0000.0000.000
23A29ASP -1-0.929-0.96839.571-0.028-0.0280.0000.0000.0000.000
24A30LYS 11.0121.02438.8090.0460.0460.0000.0000.0000.000
25A31TYR 0-0.014-0.02237.274-0.002-0.0020.0000.0000.0000.000
26A32VAL 0-0.0150.00734.3510.0010.0010.0000.0000.0000.000
27A33ARG 10.8120.88236.6080.0380.0380.0000.0000.0000.000
28A34ALA 0-0.0090.00534.608-0.003-0.0030.0000.0000.0000.000
29A35GLY 0-0.005-0.00236.6560.0040.0040.0000.0000.0000.000
30A36ARG 10.9160.94836.0880.0420.0420.0000.0000.0000.000
31A37GLY 00.0210.00533.323-0.002-0.0020.0000.0000.0000.000
32A38VAL 0-0.015-0.00526.8080.0020.0020.0000.0000.0000.000
33A39MET 0-0.0090.01428.192-0.002-0.0020.0000.0000.0000.000
34A40VAL 0-0.006-0.00922.638-0.001-0.0010.0000.0000.0000.000
35A41TYR 0-0.014-0.00922.9320.0040.0040.0000.0000.0000.000
36A42ILE 00.0260.01518.223-0.007-0.0070.0000.0000.0000.000
37A43ALA 0-0.042-0.01616.4320.0170.0170.0000.0000.0000.000
38A44PHE 00.0430.02613.572-0.021-0.0210.0000.0000.0000.000
39A45LEU 0-0.023-0.02510.6390.0660.0660.0000.0000.0000.000
40A46SER 0-0.012-0.0266.971-0.098-0.0980.0000.0000.0000.000
41A47ASP -1-0.823-0.9073.5670.2760.7280.027-0.315-0.164-0.002
42A48ARG 10.7780.8736.019-0.264-0.2640.0000.0000.0000.000
43A49ASP -1-0.866-0.9264.5550.6320.6390.000-0.0100.0040.000
44A50SER 0-0.064-0.0012.981-0.2100.3120.135-0.242-0.4140.000
45A51DAL 00.0420.0083.8740.5280.6520.006-0.012-0.1190.000
46A52PRO 0-0.014-0.0076.484-0.064-0.0640.0000.0000.0000.000
47A53ILE 0-0.001-0.0069.809-0.055-0.0550.0000.0000.0000.000
48A54THR 00.0200.01011.6650.0990.0990.0000.0000.0000.000
49A55ASP -1-0.747-0.89614.263-0.241-0.2410.0000.0000.0000.000
50A56GLU -1-0.876-0.93816.117-0.255-0.2550.0000.0000.0000.000
51A57ALA 0-0.0040.00212.3070.0080.0080.0000.0000.0000.000
52A58LEU 00.003-0.00714.2590.0220.0220.0000.0000.0000.000
53A59ARG 10.8990.94116.6360.2420.2420.0000.0000.0000.000
54A60HIS 00.0160.02614.4660.0450.0450.0000.0000.0000.000
55A61ALA 00.0210.00515.5620.0240.0240.0000.0000.0000.000
56A62VAL 0-0.047-0.02117.3550.0320.0320.0000.0000.0000.000
57A63GLY 00.0660.03220.6260.0220.0220.0000.0000.0000.000
58A64VAL 0-0.0140.01017.0460.0220.0220.0000.0000.0000.000
59A65LEU 0-0.031-0.00120.4050.0230.0230.0000.0000.0000.000
60A66LEU 0-0.027-0.01922.5140.0180.0180.0000.0000.0000.000
61A67HIS 00.0180.01023.0000.0020.0020.0000.0000.0000.000
62A68THR 0-0.065-0.04522.2200.0080.0080.0000.0000.0000.000
63A69LYS 10.8660.93424.8180.0750.0750.0000.0000.0000.000
64A70ILE 0-0.029-0.00123.7310.0020.0020.0000.0000.0000.000
65A71PHE 00.005-0.01826.7470.0070.0070.0000.0000.0000.000
66A72THR 00.0170.00430.777-0.001-0.0010.0000.0000.0000.000
67A73HIS 00.0270.04132.3400.0040.0040.0000.0000.0000.000
68A74PHE 0-0.004-0.01730.4170.0020.0020.0000.0000.0000.000
69A75SER 0-0.013-0.00936.4560.0010.0010.0000.0000.0000.000
70A76PRO 0-0.017-0.01039.5970.0020.0020.0000.0000.0000.000
71A77GLU -1-0.870-0.93942.153-0.040-0.0400.0000.0000.0000.000
72A78LYS 10.8950.95539.2910.0450.0450.0000.0000.0000.000
73A79MET 0-0.0040.01243.0280.0010.0010.0000.0000.0000.000
74A80ILE 0-0.002-0.00839.9990.0010.0010.0000.0000.0000.000
75A81ASN 0-0.008-0.00437.870-0.002-0.0020.0000.0000.0000.000
76A82GLN 0-0.017-0.01134.7490.0000.0000.0000.0000.0000.000
77A83PRO 0-0.027-0.02630.198-0.001-0.0010.0000.0000.0000.000
78A84GLN 00.0490.04831.7780.0020.0020.0000.0000.0000.000
79A85SER 0-0.035-0.00728.337-0.003-0.0030.0000.0000.0000.000
80A86LEU 00.045-0.00126.9340.0060.0060.0000.0000.0000.000
81A87GLU -1-0.953-0.95328.555-0.103-0.1030.0000.0000.0000.000
82A88GLU -1-0.844-0.92230.430-0.064-0.0640.0000.0000.0000.000
83A89CYS 0-0.068-0.02533.0450.0080.0080.0000.0000.0000.000
84A90PRO 00.0780.02733.894-0.002-0.0020.0000.0000.0000.000
85A91GLU -1-0.943-0.97134.946-0.052-0.0520.0000.0000.0000.000
86A92MET 0-0.069-0.00233.3540.0030.0030.0000.0000.0000.000
87A93ASP -1-0.682-0.83133.894-0.063-0.0630.0000.0000.0000.000
88A94ILE 0-0.011-0.00727.220-0.002-0.0020.0000.0000.0000.000
89A95LEU 0-0.0140.00529.7880.0020.0020.0000.0000.0000.000
90A96ILE 00.0070.00724.038-0.002-0.0020.0000.0000.0000.000
91A97VAL 00.011-0.01225.5740.0060.0060.0000.0000.0000.000
92A98PRO 0-0.0160.01222.342-0.008-0.0080.0000.0000.0000.000
93A99GLN 0-0.036-0.03821.4230.0210.0210.0000.0000.0000.000
94A100ALA 00.0770.02818.386-0.004-0.0040.0000.0000.0000.000
95A101SER 0-0.004-0.01317.988-0.001-0.0010.0000.0000.0000.000
96A102LEU 00.0560.03018.2460.0160.0160.0000.0000.0000.000
97A103GLY 00.0130.01415.1840.0010.0010.0000.0000.0000.000
98A104GLY 0-0.030-0.02015.3950.0260.0260.0000.0000.0000.000
99A105LYS 10.9280.96812.440-0.170-0.1700.0000.0000.0000.000
100A106VAL 00.0500.02518.1940.0010.0010.0000.0000.0000.000
101A107LYS 10.9750.98919.972-0.069-0.0690.0000.0000.0000.000
102A108GLY 0-0.010-0.00521.696-0.008-0.0080.0000.0000.0000.000
103A109ARG 10.9610.97025.179-0.047-0.0470.0000.0000.0000.000
104A110SER 0-0.0220.00024.211-0.006-0.0060.0000.0000.0000.000
105A111VAL 00.0440.02420.6980.0050.0050.0000.0000.0000.000
106A112GLN 0-0.042-0.00914.834-0.012-0.0120.0000.0000.0000.000
107A113PHE 00.0630.00716.981-0.001-0.0010.0000.0000.0000.000
108A114HIS 00.0180.00713.608-0.027-0.0270.0000.0000.0000.000
109A115GLN 0-0.006-0.00510.2150.0330.0330.0000.0000.0000.000
110A116LEU 0-0.0480.00211.472-0.066-0.0660.0000.0000.0000.000
111A117VAL 0-0.0100.02011.3240.0190.0190.0000.0000.0000.000
112A118ALA 00.0250.00013.4290.0330.0330.0000.0000.0000.000
113A119LYS 10.9880.98016.2850.0430.0430.0000.0000.0000.000
114A120ASP -1-0.861-0.93619.659-0.098-0.0980.0000.0000.0000.000
115A121VAL 0-0.0030.00713.402-0.007-0.0070.0000.0000.0000.000
116A122GLY 00.019-0.00116.852-0.024-0.0240.0000.0000.0000.000
117A123ALA 0-0.023-0.01417.595-0.001-0.0010.0000.0000.0000.000
118A124ALA 00.0260.01618.6910.0020.0020.0000.0000.0000.000
119A125LEU 00.0160.00313.495-0.003-0.0030.0000.0000.0000.000
120A126TYR 0-0.013-0.02518.0570.0020.0020.0000.0000.0000.000
121A127ASP -1-0.919-0.95720.698-0.118-0.1180.0000.0000.0000.000
122A128ARG 10.8670.94419.9250.1950.1950.0000.0000.0000.000
123A129PHE 00.009-0.01119.0320.0060.0060.0000.0000.0000.000
124A130CYS 0-0.028-0.02321.3150.0130.0130.0000.0000.0000.000
125A131HIS 0-0.082-0.04124.9140.0040.0040.0000.0000.0000.000
126A132PHE 0-0.004-0.01019.6540.0070.0070.0000.0000.0000.000
127A133VAL 0-0.0100.00723.6810.0070.0070.0000.0000.0000.000
128A134ARG 10.9150.94526.1030.1140.1140.0000.0000.0000.000
129A135VAL 0-0.0050.01227.6100.0070.0070.0000.0000.0000.000
130A136ALA 0-0.030-0.01426.5750.0060.0060.0000.0000.0000.000
131A137ARG 10.7660.86928.6870.0940.0940.0000.0000.0000.000
132A138GLY 0-0.0010.01731.4810.0070.0070.0000.0000.0000.000
133A139VAL 0-0.019-0.01232.6110.0060.0060.0000.0000.0000.000
134A140ASP -1-0.802-0.89834.426-0.065-0.0650.0000.0000.0000.000
135A141GLU -1-0.794-0.90930.198-0.103-0.1030.0000.0000.0000.000
136A142SER 0-0.090-0.04235.0270.0020.0020.0000.0000.0000.000
137A143ARG 10.9590.97038.3400.0530.0530.0000.0000.0000.000
138A144VAL 0-0.0190.01934.3310.0030.0030.0000.0000.0000.000
139A145ASP -1-0.877-0.95535.839-0.061-0.0610.0000.0000.0000.000
140A146ALA 0-0.004-0.01731.721-0.004-0.0040.0000.0000.0000.000
141A147ASN 0-0.100-0.06830.943-0.002-0.0020.0000.0000.0000.000
142A148GLY 00.0250.01532.544-0.001-0.0010.0000.0000.0000.000
143A149ALA 0-0.046-0.01733.7740.0020.0020.0000.0000.0000.000
144A150PRO 00.012-0.00437.262-0.002-0.0020.0000.0000.0000.000
145A151ARG 10.8740.94936.1120.0630.0630.0000.0000.0000.000
146A152SER 0-0.0070.00541.3020.0020.0020.0000.0000.0000.000
147A153GLU -1-0.942-0.98844.323-0.034-0.0340.0000.0000.0000.000
148A154GLY 00.0460.03545.3010.0010.0010.0000.0000.0000.000
149A155ASP -1-0.960-0.98344.495-0.040-0.0400.0000.0000.0000.000
150A156ALA 0-0.089-0.03442.785-0.002-0.0020.0000.0000.0000.000
151A157PRO 0-0.023-0.01740.9250.0020.0020.0000.0000.0000.000
152A158LYS 10.9160.97844.2140.0320.0320.0000.0000.0000.000
153A159ALA 00.0530.02944.505-0.001-0.0010.0000.0000.0000.000
154A160GLU -1-0.916-0.95244.435-0.027-0.0270.0000.0000.0000.000
155A161GLY 00.001-0.00846.4650.0000.0000.0000.0000.0000.000
156A162TRP 00.0490.02142.584-0.001-0.0010.0000.0000.0000.000
157A163ILE 0-0.057-0.03040.1550.0010.0010.0000.0000.0000.000
158A164LYS 10.9871.00942.1760.0410.0410.0000.0000.0000.000
159A165TYR 0-0.037-0.01037.8410.0010.0010.0000.0000.0000.000
160A166ASN 0-0.083-0.07138.1900.0030.0030.0000.0000.0000.000
161A167SER 00.0770.04535.6260.0010.0010.0000.0000.0000.000
162A168ARG 10.7900.89434.9520.0510.0510.0000.0000.0000.000
163A169VAL 00.0410.01328.671-0.004-0.0040.0000.0000.0000.000
164A170ILE 0-0.046-0.00931.5170.0010.0010.0000.0000.0000.000
165A171SER 00.001-0.00127.389-0.007-0.0070.0000.0000.0000.000
166A172GLY 00.0570.02828.0860.0070.0070.0000.0000.0000.000
167A173THR 00.0050.01928.061-0.008-0.0080.0000.0000.0000.000
168A174PHE 00.0390.02220.4390.0050.0050.0000.0000.0000.000
169A175GLY 0-0.040-0.01725.4000.0050.0050.0000.0000.0000.000
170A176ASN 0-0.065-0.02826.4910.0090.0090.0000.0000.0000.000
171A177ARG 10.9470.97828.4740.0290.0290.0000.0000.0000.000
172A178GLN 00.018-0.00727.092-0.001-0.0010.0000.0000.0000.000
173A179GLY 0-0.033-0.01230.5010.0020.0020.0000.0000.0000.000
174A180LEU 00.0270.01030.760-0.003-0.0030.0000.0000.0000.000
175A181ARG 10.9110.96634.2900.0360.0360.0000.0000.0000.000
176A182PHE 00.023-0.00432.034-0.003-0.0030.0000.0000.0000.000
177A183GLU -1-0.899-0.93635.744-0.030-0.0300.0000.0000.0000.000
178A184SER 0-0.026-0.04434.128-0.002-0.0020.0000.0000.0000.000
179A185GLU -1-0.871-0.92436.609-0.028-0.0280.0000.0000.0000.000
180A186GLY 00.001-0.01235.4740.0030.0030.0000.0000.0000.000
181A187PRO 0-0.057-0.01430.870-0.003-0.0030.0000.0000.0000.000
182A188PHE 00.0360.01929.963-0.006-0.0060.0000.0000.0000.000
183A189THR 00.0170.00125.003-0.006-0.0060.0000.0000.0000.000
184A190HIS 10.8680.94922.7650.0720.0720.0000.0000.0000.000
185A191MET 0-0.014-0.00216.258-0.008-0.0080.0000.0000.0000.000
186A192PHE 0-0.008-0.00517.1460.0110.0110.0000.0000.0000.000
187A193ASP -1-0.769-0.85711.767-0.150-0.1500.0000.0000.0000.000
188A194ILE -1-0.874-0.93911.227-0.596-0.5960.0000.0000.0000.000