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: GQK91

Calculation Name: 2OZV-A-Xray311

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2OZV

Chain ID: A

ChEMBL ID:

UniProt ID: Q7D120

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 212
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2314674.23202
FMO2-HF: Nuclear repulsion 2234538.8564
FMO2-HF: Total energy -80135.37562
FMO2-MP2: Total energy -80365.870351


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:30:ACE )


Summations of interaction energy for fragment #1(A:30: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.
0.5591.732-0.006-0.515-0.653-0.001
Interaction energy analysis for fragmet #1(A:30:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.006 / q_NPA : -0.008
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].
3A32ASP -1-0.820-0.9133.8210.1361.309-0.006-0.515-0.653-0.001
4A33ALA 00.0020.0035.0800.1370.1370.0000.0000.0000.000
5A34MET 00.0550.0375.6530.2680.2680.0000.0000.0000.000
6A35LEU 0-0.011-0.0147.7780.2590.2590.0000.0000.0000.000
7A36LEU 0-0.0030.0079.4260.1460.1460.0000.0000.0000.000
8A37ALA 00.0410.01710.5610.0710.0710.0000.0000.0000.000
9A38SER 0-0.051-0.02212.0520.0730.0730.0000.0000.0000.000
10A39LEU 0-0.012-0.01313.9910.0460.0460.0000.0000.0000.000
11A40VAL 00.0090.02516.2320.0360.0360.0000.0000.0000.000
12A41ALA 0-0.0020.00418.299-0.012-0.0120.0000.0000.0000.000
13A42ASP -1-0.827-0.91420.740-0.080-0.0800.0000.0000.0000.000
14A43ASP -1-0.872-0.92122.693-0.140-0.1400.0000.0000.0000.000
15A44ARG 10.8790.92724.9680.0810.0810.0000.0000.0000.000
16A45ALA 00.0080.00925.509-0.004-0.0040.0000.0000.0000.000
17A46CYS 0-0.074-0.02823.3550.0010.0010.0000.0000.0000.000
18A47ARG 10.9290.96424.1350.0320.0320.0000.0000.0000.000
19A48ILE 0-0.005-0.01917.965-0.005-0.0050.0000.0000.0000.000
20A49ALA 00.0240.02820.2430.0090.0090.0000.0000.0000.000
21A50ASP -1-0.819-0.92813.375-0.014-0.0140.0000.0000.0000.000
22A51LEU 0-0.058-0.04616.8190.0190.0190.0000.0000.0000.000
23A52GLY 00.0940.08414.0190.0200.0200.0000.0000.0000.000
24A53ALA 0-0.036-0.04912.647-0.042-0.0420.0000.0000.0000.000
25A54GLY 0-0.026-0.02810.3510.0230.0230.0000.0000.0000.000
26A55ALA 00.0430.03210.578-0.032-0.0320.0000.0000.0000.000
27A56GLY 00.0900.03312.303-0.022-0.0220.0000.0000.0000.000
28A57ALA 0-0.016-0.0057.303-0.038-0.0380.0000.0000.0000.000
29A58ALA 0-0.010-0.0029.311-0.105-0.1050.0000.0000.0000.000
30A59GLY 00.0860.02710.421-0.038-0.0380.0000.0000.0000.000
31A60MET 0-0.030-0.01011.621-0.002-0.0020.0000.0000.0000.000
32A61ALA 00.0140.0119.763-0.021-0.0210.0000.0000.0000.000
33A62VAL 0-0.060-0.02611.882-0.012-0.0120.0000.0000.0000.000
34A63ALA 00.0180.01015.0080.0040.0040.0000.0000.0000.000
35A64ALA 0-0.0270.00214.1190.0080.0080.0000.0000.0000.000
36A65ARG 10.8450.92214.9600.2600.2600.0000.0000.0000.000
37A66LEU 0-0.036-0.01017.1380.0110.0110.0000.0000.0000.000
38A67GLU -1-0.905-0.96520.118-0.070-0.0700.0000.0000.0000.000
39A68LYS 10.8440.91822.6080.0980.0980.0000.0000.0000.000
40A69ALA 0-0.028-0.00320.3130.0060.0060.0000.0000.0000.000
41A70GLU -1-0.924-0.95622.324-0.023-0.0230.0000.0000.0000.000
42A71VAL 0-0.027-0.01916.750-0.004-0.0040.0000.0000.0000.000
43A72THR 00.0200.01820.2520.0080.0080.0000.0000.0000.000
44A73LEU 0-0.025-0.01514.994-0.007-0.0070.0000.0000.0000.000
45A74TYR 0-0.002-0.03218.1340.0020.0020.0000.0000.0000.000
46A75GLU -1-0.858-0.93415.5540.1710.1710.0000.0000.0000.000
47A76ARG 10.9130.96019.202-0.117-0.1170.0000.0000.0000.000
48A77SER 0-0.033-0.02020.392-0.009-0.0090.0000.0000.0000.000
49A78GLN 00.1250.05621.4170.0060.0060.0000.0000.0000.000
50A79GLU -1-0.970-0.97920.3500.1780.1780.0000.0000.0000.000
51A80MET 0-0.030-0.00513.7620.0250.0250.0000.0000.0000.000
52A81ALA 00.0430.02117.4590.0040.0040.0000.0000.0000.000
53A82GLU -1-0.822-0.90019.6310.0830.0830.0000.0000.0000.000
54A83PHE 0-0.038-0.01412.2500.0050.0050.0000.0000.0000.000
55A84ALA 00.0240.00315.1630.0090.0090.0000.0000.0000.000
56A85ARG 10.7880.86816.173-0.087-0.0870.0000.0000.0000.000
57A86ARG 10.8210.87518.706-0.102-0.1020.0000.0000.0000.000
58A87SER 0-0.029-0.00112.722-0.004-0.0040.0000.0000.0000.000
59A88LEU 0-0.005-0.01915.717-0.020-0.0200.0000.0000.0000.000
60A89GLU -1-0.884-0.90117.5850.0670.0670.0000.0000.0000.000
61A90LEU 0-0.044-0.01314.759-0.004-0.0040.0000.0000.0000.000
62A91PRO 00.000-0.01618.697-0.014-0.0140.0000.0000.0000.000
63A92ASP -1-0.945-0.97014.1130.0070.0070.0000.0000.0000.000
64A93ASN 0-0.033-0.02013.838-0.044-0.0440.0000.0000.0000.000
65A94ALA 0-0.004-0.00716.991-0.008-0.0080.0000.0000.0000.000
66A95ALA 0-0.051-0.01619.112-0.003-0.0030.0000.0000.0000.000
67A96PHE 00.009-0.01414.107-0.008-0.0080.0000.0000.0000.000
68A97SER 00.0330.02819.058-0.002-0.0020.0000.0000.0000.000
69A98ALA 00.0050.00320.0350.0050.0050.0000.0000.0000.000
70A99ARG 10.7980.90819.9870.0780.0780.0000.0000.0000.000
71A100ILE 0-0.038-0.01316.332-0.006-0.0060.0000.0000.0000.000
72A101GLU -1-0.913-0.94720.4510.0250.0250.0000.0000.0000.000
73A102VAL 0-0.043-0.00918.300-0.001-0.0010.0000.0000.0000.000
74A103LEU 0-0.0020.00020.8880.0000.0000.0000.0000.0000.000
75A104GLU -1-0.870-0.94021.9010.0840.0840.0000.0000.0000.000
76A105ALA 00.0260.00423.023-0.009-0.0090.0000.0000.0000.000
77A106ASP -1-0.857-0.92022.8820.0700.0700.0000.0000.0000.000
78A107VAL 00.0340.01520.235-0.008-0.0080.0000.0000.0000.000
79A108THR 0-0.077-0.02623.508-0.010-0.0100.0000.0000.0000.000
80A109LEU 00.0060.01425.631-0.005-0.0050.0000.0000.0000.000
81A110ARG 10.9390.95128.843-0.027-0.0270.0000.0000.0000.000
82A111ALA 0-0.019-0.01731.6230.0010.0010.0000.0000.0000.000
83A112LYS 11.0130.99833.494-0.010-0.0100.0000.0000.0000.000
84A113ALA 00.0770.06332.7020.0000.0000.0000.0000.0000.000
85A114ARG 10.9150.95727.957-0.006-0.0060.0000.0000.0000.000
86A115VAL 00.0450.02029.8930.0010.0010.0000.0000.0000.000
87A116GLU -1-0.970-0.99131.9450.0200.0200.0000.0000.0000.000
88A117ALA 0-0.043-0.01328.1310.0020.0020.0000.0000.0000.000
89A118GLY 00.0390.02627.8780.0030.0030.0000.0000.0000.000
90A119LEU 0-0.069-0.01323.657-0.003-0.0030.0000.0000.0000.000
91A120PRO 0-0.010-0.00527.2350.0000.0000.0000.0000.0000.000
92A121ASP -1-0.892-0.95929.322-0.004-0.0040.0000.0000.0000.000
93A122GLU -1-1.065-1.03530.678-0.020-0.0200.0000.0000.0000.000
94A123HIS 00.0390.02426.896-0.002-0.0020.0000.0000.0000.000
95A124PHE 00.007-0.00923.890-0.004-0.0040.0000.0000.0000.000
96A125HIS 00.0310.01824.931-0.001-0.0010.0000.0000.0000.000
97A126HIS 0-0.024-0.03020.134-0.012-0.0120.0000.0000.0000.000
98A127VAL 0-0.002-0.00119.7850.0100.0100.0000.0000.0000.000
99A128ILE 0-0.018-0.01013.583-0.016-0.0160.0000.0000.0000.000
100A129MET 0-0.040-0.01515.0140.0300.0300.0000.0000.0000.000
101A130ASN 0-0.008-0.0258.608-0.055-0.0550.0000.0000.0000.000
102A131PRO 00.0130.02812.5600.0570.0570.0000.0000.0000.000
103A132PRO 0-0.0060.00713.0950.0130.0130.0000.0000.0000.000
104A133TYR 0-0.019-0.03510.216-0.027-0.0270.0000.0000.0000.000
105A134NME 00.0260.02415.2350.0160.0160.0000.0000.0000.000
106A154ACE 0-0.010-0.01824.899-0.001-0.0010.0000.0000.0000.000
107A155GLY 00.001-0.00221.4130.0070.0070.0000.0000.0000.000
108A156LEU 00.0350.01918.206-0.004-0.0040.0000.0000.0000.000
109A157PHE 00.0230.00916.303-0.007-0.0070.0000.0000.0000.000
110A158GLU -1-0.778-0.87921.694-0.003-0.0030.0000.0000.0000.000
111A159ASP -1-0.864-0.94324.1160.0330.0330.0000.0000.0000.000
112A160TRP 00.0400.01115.971-0.003-0.0030.0000.0000.0000.000
113A161ILE 00.017-0.00121.139-0.008-0.0080.0000.0000.0000.000
114A162ARG 10.7750.90723.755-0.025-0.0250.0000.0000.0000.000
115A163THR 0-0.051-0.05524.208-0.005-0.0050.0000.0000.0000.000
116A164ALA 00.0400.01922.255-0.003-0.0030.0000.0000.0000.000
117A165SER 0-0.025-0.02324.220-0.006-0.0060.0000.0000.0000.000
118A166ALA 0-0.062-0.03027.542-0.002-0.0020.0000.0000.0000.000
119A167ILE 00.0560.04123.203-0.001-0.0010.0000.0000.0000.000
120A168MET 0-0.0720.03022.769-0.005-0.0050.0000.0000.0000.000
121A169VAL 0-0.002-0.00127.4380.0030.0030.0000.0000.0000.000
122A170SER 0-0.016-0.02429.549-0.004-0.0040.0000.0000.0000.000
123A171GLY 0-0.005-0.00430.358-0.002-0.0020.0000.0000.0000.000
124A172GLY 00.0260.01626.811-0.007-0.0070.0000.0000.0000.000
125A173GLN 0-0.034-0.03119.7740.0090.0090.0000.0000.0000.000
126A174LEU 0-0.0060.00420.0450.0020.0020.0000.0000.0000.000
127A175SER 00.011-0.00916.461-0.018-0.0180.0000.0000.0000.000
128A176LEU 00.0110.00715.0240.0200.0200.0000.0000.0000.000
129A177ILE 0-0.0110.0058.795-0.042-0.0420.0000.0000.0000.000
130A178SER 00.003-0.00512.8140.0530.0530.0000.0000.0000.000
131A179ARG 10.9240.97012.371-0.122-0.1220.0000.0000.0000.000
132A180PRO 00.0730.03613.9060.0050.0050.0000.0000.0000.000
133A181GLN 00.025-0.00315.707-0.013-0.0130.0000.0000.0000.000
134A182SER 0-0.0160.00717.4270.0120.0120.0000.0000.0000.000
135A183VAL 00.0220.01419.3270.0000.0000.0000.0000.0000.000
136A184ALA 00.0170.00321.3240.0000.0000.0000.0000.0000.000
137A185GLU -1-0.864-0.93521.0550.0300.0300.0000.0000.0000.000
138A186ILE 00.0120.00517.8270.0000.0000.0000.0000.0000.000
139A187ILE 0-0.005-0.00522.412-0.002-0.0020.0000.0000.0000.000
140A188ALA 0-0.024-0.01225.5310.0010.0010.0000.0000.0000.000
141A189ALA 00.0070.02024.1200.0010.0010.0000.0000.0000.000
142A190CYS 0-0.039-0.00924.095-0.002-0.0020.0000.0000.0000.000
143A191GLY 00.0570.03626.892-0.002-0.0020.0000.0000.0000.000
144A192SER 0-0.067-0.04330.5730.0030.0030.0000.0000.0000.000
145A193ARG 10.7440.86827.9870.0100.0100.0000.0000.0000.000
146A194PHE 00.019-0.00225.209-0.003-0.0030.0000.0000.0000.000
147A195GLY 00.0520.03428.1330.0030.0030.0000.0000.0000.000
148A196GLY 0-0.036-0.03327.602-0.006-0.0060.0000.0000.0000.000
149A197LEU 00.0190.01423.787-0.008-0.0080.0000.0000.0000.000
150A198GLU -1-0.800-0.87822.433-0.134-0.1340.0000.0000.0000.000
151A199ILE 0-0.007-0.01019.594-0.010-0.0100.0000.0000.0000.000
152A200THR 00.0230.02316.8600.0070.0070.0000.0000.0000.000
153A201LEU 00.0040.01116.285-0.021-0.0210.0000.0000.0000.000
154A202ILE 00.0320.02010.702-0.016-0.0160.0000.0000.0000.000
155A203HIS 0-0.003-0.02313.8240.0310.0310.0000.0000.0000.000
156A204PRO 00.0050.01512.253-0.064-0.0640.0000.0000.0000.000
157A205ARG 10.9190.94513.3310.1610.1610.0000.0000.0000.000
158A206PRO 00.0140.00016.7560.0170.0170.0000.0000.0000.000
159A207GLY 0-0.016-0.00320.4040.0090.0090.0000.0000.0000.000
160A208GLU -1-0.865-0.91815.932-0.124-0.1240.0000.0000.0000.000
161A209ASP -1-0.860-0.92317.863-0.079-0.0790.0000.0000.0000.000
162A210ALA 0-0.073-0.03515.720-0.022-0.0220.0000.0000.0000.000
163A211VAL 00.021-0.00510.4690.0290.0290.0000.0000.0000.000
164A212ARG 10.8230.8997.1820.0790.0790.0000.0000.0000.000
165A213MET 0-0.046-0.01212.0830.0070.0070.0000.0000.0000.000
166A214LEU 00.0570.03611.8890.0080.0080.0000.0000.0000.000
167A215VAL 0-0.013-0.01415.3100.0250.0250.0000.0000.0000.000
168A216THR 00.0590.04718.3200.0030.0030.0000.0000.0000.000
169A217ALA 0-0.035-0.02220.6750.0080.0080.0000.0000.0000.000
170A218ILE 00.0090.01624.193-0.002-0.0020.0000.0000.0000.000
171A219LYS 10.9240.96927.0040.0310.0310.0000.0000.0000.000
172A220GLY 00.004-0.00128.920-0.001-0.0010.0000.0000.0000.000
173A221SER 0-0.055-0.01130.0900.0030.0030.0000.0000.0000.000
174A222ARG 11.0080.98332.1430.0370.0370.0000.0000.0000.000
175A223ALA 0-0.046-0.00231.0900.0010.0010.0000.0000.0000.000
176A224ARG 10.9840.99331.0960.0620.0620.0000.0000.0000.000
177A225LEU 00.0230.02126.010-0.004-0.0040.0000.0000.0000.000
178A226THR 0-0.083-0.05026.3040.0010.0010.0000.0000.0000.000
179A227PHE 00.0590.02421.969-0.003-0.0030.0000.0000.0000.000
180A228ARG 10.8250.91421.1550.1720.1720.0000.0000.0000.000
181A229ALA 00.006-0.00322.2750.0020.0020.0000.0000.0000.000
182A230PRO 0-0.0020.00718.611-0.014-0.0140.0000.0000.0000.000
183A231LEU 00.0190.01313.997-0.006-0.0060.0000.0000.0000.000
184A232ILE 00.0010.00615.413-0.005-0.0050.0000.0000.0000.000
185A233MET 0-0.014-0.00710.172-0.092-0.0920.0000.0000.0000.000
186A234HIS 10.8350.91510.3700.4590.4590.0000.0000.0000.000
187A235GLU -1-0.828-0.91715.213-0.188-0.1880.0000.0000.0000.000
188A236THR 00.007-0.02418.335-0.006-0.0060.0000.0000.0000.000
189A237GLY 0-0.026-0.00520.0340.0050.0050.0000.0000.0000.000
190A238SER 0-0.0200.00516.7880.0090.0090.0000.0000.0000.000
191A239HIS 00.023-0.00514.229-0.035-0.0350.0000.0000.0000.000
192A240ALA 00.0010.01412.931-0.059-0.0590.0000.0000.0000.000
193A241PHE 0-0.012-0.0067.114-0.032-0.0320.0000.0000.0000.000
194A242THR 00.0070.00612.9290.0410.0410.0000.0000.0000.000
195A243PRO 00.0580.01614.987-0.056-0.0560.0000.0000.0000.000
196A244PHE 00.0360.02616.367-0.027-0.0270.0000.0000.0000.000
197A245VAL 00.0310.00010.889-0.031-0.0310.0000.0000.0000.000
198A246ASP -1-0.885-0.94411.672-0.696-0.6960.0000.0000.0000.000
199A247ASP -1-0.827-0.90412.425-0.384-0.3840.0000.0000.0000.000
200A248LEU 0-0.080-0.02912.154-0.009-0.0090.0000.0000.0000.000
201A249ASN 0-0.038-0.0296.252-0.458-0.4580.0000.0000.0000.000
202A250ASN 0-0.068-0.0408.899-0.039-0.0390.0000.0000.0000.000
203A251GLY 00.0060.02111.5450.0960.0960.0000.0000.0000.000
204A252ARG 10.7960.87613.3800.4480.4480.0000.0000.0000.000
205A253ALA 0-0.019-0.00515.6110.0440.0440.0000.0000.0000.000
206A254ALA 00.0020.00815.620-0.040-0.0400.0000.0000.0000.000
207A255TYR 0-0.058-0.06116.3940.0100.0100.0000.0000.0000.000
208A256ALA 00.0150.01418.1150.0120.0120.0000.0000.0000.000
209A257ARG 10.8550.91221.4860.1070.1070.0000.0000.0000.000
210A258ASN 0-0.037-0.04223.616-0.004-0.0040.0000.0000.0000.000
211A259VAL 0-0.052-0.02326.6820.0060.0060.0000.0000.0000.000
212A260NME 00.0020.01527.558-0.003-0.0030.0000.0000.0000.000