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: GN191

Calculation Name: 2WRZ-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2WRZ

Chain ID: A

ChEMBL ID:

UniProt ID: P02924

Base Structure: X-ray

Registration Date: 2023-06-20

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 299
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3991952.047925
FMO2-HF: Nuclear repulsion 3878322.294059
FMO2-HF: Total energy -113629.753867
FMO2-MP2: Total energy -113960.551703


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:GLU)


Summations of interaction energy for fragment #1(A:1:GLU)
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.
39.741-0.008-0.65-0.6420.001
Interaction energy analysis for fragmet #1(A:1:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.969 / q_NPA : -0.999
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].
3A3LEU00.0300.0273.882-3.218-1.918-0.008-0.650-0.6420.001
4A4LYS10.8620.9356.447-29.901-29.9010.0000.0000.0000.000
5A5LEU00.0050.0009.078-0.692-0.6920.0000.0000.0000.000
6A6GLY00.0120.00112.6800.0550.0550.0000.0000.0000.000
7A7PHE0-0.010-0.00916.074-0.290-0.2900.0000.0000.0000.000
8A8LEU0-0.0140.00119.162-0.088-0.0880.0000.0000.0000.000
9A9VAL00.0590.02722.290-0.235-0.2350.0000.0000.0000.000
10A10ALA0-0.0080.01425.947-0.044-0.0440.0000.0000.0000.000
11A11GLN00.017-0.00429.321-0.334-0.3340.0000.0000.0000.000
12A12PRO00.0110.01527.1430.0720.0720.0000.0000.0000.000
13A13GLU-1-0.894-0.95228.7339.8749.8740.0000.0000.0000.000
14A14GLU-1-0.923-0.94931.4938.5118.5110.0000.0000.0000.000
15A15PRO00.0320.00630.5420.4050.4050.0000.0000.0000.000
16A16ALA00.0350.03130.2850.2990.2990.0000.0000.0000.000
17A17SER00.025-0.00627.3070.2870.2870.0000.0000.0000.000
18A18GLN0-0.025-0.01725.9050.8330.8330.0000.0000.0000.000
19A19THR0-0.042-0.03525.4440.5200.5200.0000.0000.0000.000
20A20GLN0-0.051-0.04024.4560.5300.5300.0000.0000.0000.000
21A21TRP0-0.010-0.02621.1300.4780.4780.0000.0000.0000.000
22A22LYS10.9460.98520.790-10.216-10.2160.0000.0000.0000.000
23A23PHE00.030-0.00222.1750.1500.1500.0000.0000.0000.000
24A24ALA00.0370.03518.6280.3810.3810.0000.0000.0000.000
25A25ASP-1-0.792-0.88816.45717.55217.5520.0000.0000.0000.000
26A26LYS10.7290.89516.529-11.671-11.6710.0000.0000.0000.000
27A27ALA00.0760.03917.3620.6000.6000.0000.0000.0000.000
28A28GLY00.0410.01913.4100.6220.6220.0000.0000.0000.000
29A29LYS10.8450.90712.722-14.984-14.9840.0000.0000.0000.000
30A30ASP-1-0.851-0.91114.07616.49316.4930.0000.0000.0000.000
31A31LEU0-0.037-0.01313.903-0.355-0.3550.0000.0000.0000.000
32A32GLY0-0.0200.0119.9020.8290.8290.0000.0000.0000.000
33A33PHE0-0.069-0.0378.4871.8931.8930.0000.0000.0000.000
34A34GLU-1-0.784-0.8688.90825.75025.7500.0000.0000.0000.000
35A35VAL00.004-0.00110.805-0.521-0.5210.0000.0000.0000.000
36A36ILE00.0270.01411.374-0.610-0.6100.0000.0000.0000.000
37A37LYS10.7870.87915.288-16.998-16.9980.0000.0000.0000.000
38A38ILE0-0.002-0.00717.712-0.081-0.0810.0000.0000.0000.000
39A39ALA00.0220.01821.517-0.215-0.2150.0000.0000.0000.000
40A40VAL0-0.044-0.02923.8940.0590.0590.0000.0000.0000.000
41A41PRO00.0560.02826.714-0.197-0.1970.0000.0000.0000.000
42A42ASP-1-0.779-0.87229.7299.1479.1470.0000.0000.0000.000
43A43GLY00.0400.00829.1580.3470.3470.0000.0000.0000.000
44A44GLU-1-0.886-0.92628.4729.9589.9580.0000.0000.0000.000
45A45LYS10.8410.87726.361-9.272-9.2720.0000.0000.0000.000
46A46THR0-0.019-0.02524.7340.4950.4950.0000.0000.0000.000
47A47LEU0-0.040-0.02523.6530.4520.4520.0000.0000.0000.000
48A48ASN00.0210.00822.6660.5270.5270.0000.0000.0000.000
49A49ALA00.0140.01220.6630.5860.5860.0000.0000.0000.000
50A50ILE0-0.009-0.00218.8030.7230.7230.0000.0000.0000.000
51A51ASP-1-0.738-0.83517.75713.02613.0260.0000.0000.0000.000
52A52SER00.0030.00416.9170.5300.5300.0000.0000.0000.000
53A53LEU0-0.036-0.00114.4511.0561.0560.0000.0000.0000.000
54A54ALA00.0190.01012.9451.2441.2440.0000.0000.0000.000
55A55ALA0-0.034-0.01512.6581.0081.0080.0000.0000.0000.000
56A56SER0-0.068-0.03911.4150.8500.8500.0000.0000.0000.000
57A57GLY0-0.026-0.0108.3171.9411.9410.0000.0000.0000.000
58A58ALA0-0.029-0.0188.3431.6751.6750.0000.0000.0000.000
59A59LYS10.9340.9586.138-29.152-29.1520.0000.0000.0000.000
60A60GLY00.0470.01011.520-0.835-0.8350.0000.0000.0000.000
61A61PHE0-0.047-0.03114.7640.5700.5700.0000.0000.0000.000
62A62VAL00.0380.03217.533-0.504-0.5040.0000.0000.0000.000
63A63ILE0-0.045-0.03120.6890.1170.1170.0000.0000.0000.000
64A64SER00.0730.06023.733-0.248-0.2480.0000.0000.0000.000
65A65THR0-0.038-0.03427.277-0.033-0.0330.0000.0000.0000.000
66A66PRO00.0390.02528.615-0.258-0.2580.0000.0000.0000.000
67A67ASP-1-0.780-0.87031.3287.9097.9090.0000.0000.0000.000
68A68PRO00.0420.02231.8490.2290.2290.0000.0000.0000.000
69A69LYS10.8250.88332.454-7.830-7.8300.0000.0000.0000.000
70A70LEU0-0.0160.01129.183-0.027-0.0270.0000.0000.0000.000
71A71GLY00.0540.02128.5460.2470.2470.0000.0000.0000.000
72A72SER0-0.012-0.02527.9200.2800.2800.0000.0000.0000.000
73A73ALA0-0.0080.00628.1140.1690.1690.0000.0000.0000.000
74A74ILE00.0130.01523.4940.3300.3300.0000.0000.0000.000
75A75VAL00.0160.00523.3620.4360.4360.0000.0000.0000.000
76A76ALA0-0.041-0.01923.5530.3340.3340.0000.0000.0000.000
77A77LYS10.8090.88821.225-11.557-11.5570.0000.0000.0000.000
78A78ALA00.0340.02119.2710.4250.4250.0000.0000.0000.000
79A79ARG10.9580.97718.688-10.908-10.9080.0000.0000.0000.000
80A80GLY0-0.042-0.01820.0150.2050.2050.0000.0000.0000.000
81A81TYR0-0.085-0.07215.5400.1470.1470.0000.0000.0000.000
82A82ASP-1-0.874-0.92814.96816.67216.6720.0000.0000.0000.000
83A83MET0-0.0480.00013.9670.7350.7350.0000.0000.0000.000
84A84LYS10.8290.92315.703-16.921-16.9210.0000.0000.0000.000
85A85VAL0-0.011-0.00917.8170.2540.2540.0000.0000.0000.000
86A86ILE0-0.0150.00320.397-0.315-0.3150.0000.0000.0000.000
87A87ALA0-0.0210.00222.7880.1270.1270.0000.0000.0000.000
88A88VAL00.010-0.00824.8460.0000.0000.0000.0000.0000.000
89A89ASP-1-0.779-0.87127.02010.09810.0980.0000.0000.0000.000
90A90ASN0-0.066-0.03930.002-0.508-0.5080.0000.0000.0000.000
91A91GLN00.0050.00030.1970.0750.0750.0000.0000.0000.000
92A92PHE00.0330.01825.245-0.231-0.2310.0000.0000.0000.000
93A93VAL0-0.021-0.01531.420-0.191-0.1910.0000.0000.0000.000
94A94ASN00.0620.02433.980-0.066-0.0660.0000.0000.0000.000
95A95ALA00.029-0.00135.328-0.142-0.1420.0000.0000.0000.000
96A96LYS10.9300.96937.706-7.328-7.3280.0000.0000.0000.000
97A97GLY00.0360.02839.148-0.175-0.1750.0000.0000.0000.000
98A98LYS10.8560.92538.495-7.113-7.1130.0000.0000.0000.000
99A99PRO00.0770.03435.4180.1440.1440.0000.0000.0000.000
100A100MET0-0.043-0.00929.258-0.127-0.1270.0000.0000.0000.000
101A101ASP-1-0.843-0.90231.0688.9048.9040.0000.0000.0000.000
102A102THR0-0.071-0.06128.743-0.051-0.0510.0000.0000.0000.000
103A103VAL0-0.0050.01324.7430.3090.3090.0000.0000.0000.000
104A104PRO0-0.0060.01123.507-0.315-0.3150.0000.0000.0000.000
105A105LEU0-0.0030.00125.8990.2070.2070.0000.0000.0000.000
106A106VAL0-0.004-0.00724.497-0.051-0.0510.0000.0000.0000.000
107A107MET0-0.0020.00327.8470.0300.0300.0000.0000.0000.000
108A108GLU-1-0.748-0.85631.1128.4308.4300.0000.0000.0000.000
109A109ALA0-0.0020.00134.333-0.076-0.0760.0000.0000.0000.000
110A110ALA0-0.008-0.00736.826-0.171-0.1710.0000.0000.0000.000
111A111THR0-0.012-0.02039.512-0.108-0.1080.0000.0000.0000.000
112A112LYS10.8580.92438.899-7.432-7.4320.0000.0000.0000.000
113A113ILE00.0170.01638.307-0.120-0.1200.0000.0000.0000.000
114A114GLY00.0390.02241.087-0.124-0.1240.0000.0000.0000.000
115A115GLU-1-0.842-0.91743.4806.8986.8980.0000.0000.0000.000
116A116ARG10.8230.91040.690-7.426-7.4260.0000.0000.0000.000
117A117GLN00.0350.01144.593-0.171-0.1710.0000.0000.0000.000
118A118GLY00.0220.01146.642-0.127-0.1270.0000.0000.0000.000
119A119GLN0-0.019-0.02445.011-0.058-0.0580.0000.0000.0000.000
120A120GLU-1-0.792-0.87745.7646.6056.6050.0000.0000.0000.000
121A121LEU0-0.027-0.00649.004-0.113-0.1130.0000.0000.0000.000
122A122TYR00.014-0.01151.971-0.140-0.1400.0000.0000.0000.000
123A123LYS10.8350.90947.310-6.625-6.6250.0000.0000.0000.000
124A124GLU-1-0.739-0.84952.5825.7055.7050.0000.0000.0000.000
125A125MET0-0.016-0.00954.275-0.109-0.1090.0000.0000.0000.000
126A126GLN0-0.027-0.02156.457-0.144-0.1440.0000.0000.0000.000
127A127LYS10.7890.89552.550-5.970-5.9700.0000.0000.0000.000
128A128ARG10.7440.85755.679-5.584-5.5840.0000.0000.0000.000
129A129GLY0-0.0130.01160.327-0.091-0.0910.0000.0000.0000.000
130A130TRP0-0.045-0.02758.728-0.084-0.0840.0000.0000.0000.000
131A131ASP-1-0.775-0.86663.6814.6154.6150.0000.0000.0000.000
132A132VAL00.0610.02662.3120.0020.0020.0000.0000.0000.000
133A133LYS10.8120.88564.524-4.531-4.5310.0000.0000.0000.000
134A134GLU-1-0.840-0.89667.1104.5334.5330.0000.0000.0000.000
135A135SER0-0.016-0.02362.0130.0410.0410.0000.0000.0000.000
136A136ALA0-0.026-0.00661.543-0.035-0.0350.0000.0000.0000.000
137A137VAL0-0.0140.00355.0110.0700.0700.0000.0000.0000.000
138A138MET00.0100.01856.583-0.026-0.0260.0000.0000.0000.000
139A139ALA00.009-0.00253.5240.1090.1090.0000.0000.0000.000
140A140ILE00.0160.02152.452-0.046-0.0460.0000.0000.0000.000
141A141THR0-0.069-0.04850.8470.1240.1240.0000.0000.0000.000
142A142ALA00.0440.03247.774-0.069-0.0690.0000.0000.0000.000
143A143ASN0-0.006-0.02047.9280.1890.1890.0000.0000.0000.000
144A144GLU-1-0.805-0.90147.9536.3096.3090.0000.0000.0000.000
145A145LEU0-0.0010.00443.2710.1830.1830.0000.0000.0000.000
146A146ASP-1-0.790-0.86741.4607.1137.1130.0000.0000.0000.000
147A147THR00.022-0.00338.860-0.070-0.0700.0000.0000.0000.000
148A148ALA00.0440.02041.368-0.013-0.0130.0000.0000.0000.000
149A149ARG10.8600.91944.534-6.683-6.6830.0000.0000.0000.000
150A150ARG10.8200.91240.947-7.383-7.3830.0000.0000.0000.000
151A151ARG10.8090.88938.156-7.697-7.6970.0000.0000.0000.000
152A152THR00.0420.01244.531-0.057-0.0570.0000.0000.0000.000
153A153THR0-0.038-0.03047.424-0.147-0.1470.0000.0000.0000.000
154A154GLY00.0520.02045.921-0.083-0.0830.0000.0000.0000.000
155A155SER0-0.033-0.01446.990-0.092-0.0920.0000.0000.0000.000
156A156MET00.005-0.01348.814-0.156-0.1560.0000.0000.0000.000
157A157ASP-1-0.878-0.91549.4675.8955.8950.0000.0000.0000.000
158A158ALA0-0.017-0.00148.239-0.071-0.0710.0000.0000.0000.000
159A159LEU0-0.0070.00150.361-0.077-0.0770.0000.0000.0000.000
160A160LYS10.8090.88653.583-5.809-5.8090.0000.0000.0000.000
161A161ALA0-0.046-0.01851.750-0.079-0.0790.0000.0000.0000.000
162A162ALA0-0.0190.00052.992-0.024-0.0240.0000.0000.0000.000
163A163GLY00.0000.01354.685-0.072-0.0720.0000.0000.0000.000
164A164PHE0-0.046-0.02257.325-0.104-0.1040.0000.0000.0000.000
165A165PRO00.0310.00958.9500.0420.0420.0000.0000.0000.000
166A166GLU-1-0.808-0.91859.4435.0335.0330.0000.0000.0000.000
167A167LYS10.8800.93460.522-4.791-4.7910.0000.0000.0000.000
168A168GLN0-0.081-0.02962.322-0.092-0.0920.0000.0000.0000.000
169A169ILE0-0.0090.00156.0880.0680.0680.0000.0000.0000.000
170A170TYR0-0.040-0.03958.965-0.055-0.0550.0000.0000.0000.000
171A171GLN00.0180.00054.4470.1110.1110.0000.0000.0000.000
172A172VAL0-0.033-0.01256.102-0.103-0.1030.0000.0000.0000.000
173A173PRO0-0.0020.00354.2160.0890.0890.0000.0000.0000.000
174A174THR00.009-0.01150.634-0.147-0.1470.0000.0000.0000.000
175A175LYS10.8220.88953.628-5.326-5.3260.0000.0000.0000.000
176A176SER0-0.033-0.03349.901-0.022-0.0220.0000.0000.0000.000
177A177GLU-1-0.881-0.93945.5486.4066.4060.0000.0000.0000.000
178A178ASP-1-0.820-0.85348.1046.1186.1180.0000.0000.0000.000
179A179ILE00.0290.01149.082-0.088-0.0880.0000.0000.0000.000
180A180PRO00.000-0.01151.967-0.100-0.1000.0000.0000.0000.000
181A181GLY00.0360.03253.311-0.116-0.1160.0000.0000.0000.000
182A182ALA00.0360.01951.703-0.089-0.0890.0000.0000.0000.000
183A183PHE0-0.0010.00153.825-0.091-0.0910.0000.0000.0000.000
184A184ASP-1-0.895-0.92156.8065.0805.0800.0000.0000.0000.000
185A185ALA0-0.0050.00455.955-0.093-0.0930.0000.0000.0000.000
186A186ALA00.0530.02456.868-0.086-0.0860.0000.0000.0000.000
187A187ASN0-0.035-0.03158.719-0.156-0.1560.0000.0000.0000.000
188A188SER0-0.076-0.04160.752-0.089-0.0890.0000.0000.0000.000
189A189MET0-0.018-0.00159.629-0.099-0.0990.0000.0000.0000.000
190A190LEU0-0.020-0.01161.215-0.068-0.0680.0000.0000.0000.000
191A191VAL0-0.015-0.00864.347-0.075-0.0750.0000.0000.0000.000
192A192GLN0-0.080-0.02565.469-0.090-0.0900.0000.0000.0000.000
193A193HIS10.7890.87164.363-4.799-4.7990.0000.0000.0000.000
194A194PRO00.0480.02867.0110.0400.0400.0000.0000.0000.000
195A195GLU-1-0.833-0.89968.1574.5874.5870.0000.0000.0000.000
196A196VAL0-0.054-0.00963.405-0.001-0.0010.0000.0000.0000.000
197A197LYS10.9000.95266.418-4.506-4.5060.0000.0000.0000.000
198A198HIS10.7570.85462.262-4.833-4.8330.0000.0000.0000.000
199A199TRP00.0280.00959.1920.0200.0200.0000.0000.0000.000
200A200LEU00.0180.01455.0520.0700.0700.0000.0000.0000.000
201A201ILE0-0.039-0.02052.938-0.049-0.0490.0000.0000.0000.000
202A202VAL0-0.006-0.00249.9040.1120.1120.0000.0000.0000.000
203A203GLY00.0480.00649.184-0.101-0.1010.0000.0000.0000.000
204A204MET0-0.0050.00942.4070.0760.0760.0000.0000.0000.000
205A205ASN00.0410.02043.0540.0700.0700.0000.0000.0000.000
206A206ASP-1-0.678-0.81643.9626.9256.9250.0000.0000.0000.000
207A207SER00.0370.01345.765-0.108-0.1080.0000.0000.0000.000
208A208THR0-0.024-0.02047.251-0.180-0.1800.0000.0000.0000.000
209A209VAL0-0.021-0.00348.711-0.163-0.1630.0000.0000.0000.000
210A210LEU00.020-0.00148.203-0.156-0.1560.0000.0000.0000.000
211A211GLY00.0180.01251.731-0.115-0.1150.0000.0000.0000.000
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