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: 98NM2

Calculation Name: 1ZZG-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1ZZG

Chain ID: A

ChEMBL ID:

UniProt ID: Q5SLL6

Base Structure: X-ray

Registration Date: 2023-09-20

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 OptHSide
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 415
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -7231475.341929
FMO2-HF: Nuclear repulsion 7072629.870695
FMO2-HF: Total energy -158845.471234
FMO2-MP2: Total energy -159318.641074


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.
-12.62-7.08514.238-7.823-11.946-0.026
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 : -0.007 / q_NPA : -0.005
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].
3A3ARG10.8710.9202.656-3.7190.3101.188-2.465-2.752-0.016
4A4LEU0-0.0140.0004.6870.9641.088-0.001-0.014-0.1080.000
5A5ASP-1-0.801-0.8737.522-1.445-1.4450.0000.0000.0000.000
6A6THR00.0640.00510.7210.1230.1230.0000.0000.0000.000
7A7ARG10.7890.89012.9931.2891.2890.0000.0000.0000.000
8A8PHE00.0360.02415.9040.0850.0850.0000.0000.0000.000
9A9LEU0-0.051-0.02215.9370.0770.0770.0000.0000.0000.000
10A10PRO00.0460.00817.437-0.036-0.0360.0000.0000.0000.000
11A11GLY00.0010.00319.3580.0120.0120.0000.0000.0000.000
12A12PHE00.002-0.00211.6770.0400.0400.0000.0000.0000.000
13A13PRO00.0520.02014.7440.0170.0170.0000.0000.0000.000
14A14GLU-1-0.837-0.90216.129-0.298-0.2980.0000.0000.0000.000
15A15ALA00.0360.02118.3360.0400.0400.0000.0000.0000.000
16A16LEU00.0050.00411.8480.0400.0400.0000.0000.0000.000
17A17SER0-0.006-0.00516.3720.0600.0600.0000.0000.0000.000
18A18ARG10.8430.91218.1180.3430.3430.0000.0000.0000.000
19A19HIS0-0.087-0.05618.9140.0620.0620.0000.0000.0000.000
20A20GLY00.0610.03817.0280.0070.0070.0000.0000.0000.000
21A21PRO00.009-0.01518.0480.0210.0210.0000.0000.0000.000
22A22LEU0-0.0210.00220.8150.0230.0230.0000.0000.0000.000
23A23LEU00.0140.00214.6300.0160.0160.0000.0000.0000.000
24A24GLU-1-0.817-0.89914.763-0.089-0.0890.0000.0000.0000.000
25A25GLU-1-0.792-0.84517.859-0.001-0.0010.0000.0000.0000.000
26A26ALA0-0.024-0.00618.6160.0250.0250.0000.0000.0000.000
27A27ARG10.8200.86011.0940.0680.0680.0000.0000.0000.000
28A28ARG10.8420.89517.6000.0450.0450.0000.0000.0000.000
29A29ARG10.7960.87420.3240.0970.0970.0000.0000.0000.000
30A30LEU00.0000.00917.2030.0150.0150.0000.0000.0000.000
31A31LEU00.001-0.01516.0310.0290.0290.0000.0000.0000.000
32A32ALA0-0.060-0.02420.2710.0220.0220.0000.0000.0000.000
33A33LYS10.7920.87923.4690.0190.0190.0000.0000.0000.000
34A34ARG10.8670.93618.525-0.303-0.3030.0000.0000.0000.000
35A35GLY0-0.0260.00223.924-0.002-0.0020.0000.0000.0000.000
36A36GLU-1-0.918-0.96326.7450.0800.0800.0000.0000.0000.000
37A37PRO0-0.043-0.02428.728-0.001-0.0010.0000.0000.0000.000
38A38GLY0-0.025-0.01730.129-0.012-0.0120.0000.0000.0000.000
39A39SER0-0.0130.00425.664-0.010-0.0100.0000.0000.0000.000
40A40MET0-0.112-0.05325.710-0.009-0.0090.0000.0000.0000.000
41A41LEU00.0650.01821.120-0.010-0.0100.0000.0000.0000.000
42A42GLY00.0270.00821.1570.0330.0330.0000.0000.0000.000
43A43TRP0-0.009-0.01215.6270.0400.0400.0000.0000.0000.000
44A44MET0-0.0320.00516.6810.0490.0490.0000.0000.0000.000
45A45ASP-1-0.793-0.90316.7570.4430.4430.0000.0000.0000.000
46A46LEU0-0.040-0.00217.9080.0250.0250.0000.0000.0000.000
47A47PRO0-0.020-0.01413.4570.0020.0020.0000.0000.0000.000
48A48GLU-1-0.826-0.88714.9711.1021.1020.0000.0000.0000.000
49A49ASP-1-0.810-0.84417.8490.3200.3200.0000.0000.0000.000
50A50THR0-0.062-0.05318.024-0.003-0.0030.0000.0000.0000.000
51A51GLU-1-0.964-0.97920.5660.2870.2870.0000.0000.0000.000
52A52THR00.004-0.04822.646-0.034-0.0340.0000.0000.0000.000
53A53LEU0-0.0110.00617.529-0.038-0.0380.0000.0000.0000.000
54A54ARG10.9330.97321.217-0.501-0.5010.0000.0000.0000.000
55A55GLU-1-0.824-0.89123.8520.1720.1720.0000.0000.0000.000
56A56VAL0-0.033-0.01822.811-0.027-0.0270.0000.0000.0000.000
57A57ARG10.8130.88817.515-0.473-0.4730.0000.0000.0000.000
58A58ARG10.8170.87324.649-0.308-0.3080.0000.0000.0000.000
59A59TYR00.0300.01428.152-0.019-0.0190.0000.0000.0000.000
60A60ARG10.9170.96725.416-0.155-0.1550.0000.0000.0000.000
61A61GLU-1-0.816-0.87725.5330.2470.2470.0000.0000.0000.000
62A62ALA0-0.0180.01329.219-0.011-0.0110.0000.0000.0000.000
63A63ASN0-0.048-0.03531.357-0.023-0.0230.0000.0000.0000.000
64A64PRO00.0230.00331.121-0.005-0.0050.0000.0000.0000.000
65A65TRP0-0.053-0.02832.175-0.007-0.0070.0000.0000.0000.000
66A66VAL0-0.060-0.01730.667-0.008-0.0080.0000.0000.0000.000
67A67GLU-1-0.742-0.84231.2970.0380.0380.0000.0000.0000.000
68A68ASP-1-0.796-0.84931.4120.0040.0040.0000.0000.0000.000
69A69PHE00.0290.01227.3420.0080.0080.0000.0000.0000.000
70A70VAL0-0.026-0.02129.882-0.012-0.0120.0000.0000.0000.000
71A71LEU00.0080.01025.7940.0090.0090.0000.0000.0000.000
72A72ILE0-0.034-0.00329.930-0.013-0.0130.0000.0000.0000.000
73A73GLY00.0310.00029.7290.0120.0120.0000.0000.0000.000
74A74ILE00.0280.01029.533-0.009-0.0090.0000.0000.0000.000
75A75GLY00.0360.02627.4520.0080.0080.0000.0000.0000.000
76A76GLY00.0430.02024.420-0.004-0.0040.0000.0000.0000.000
77A77SER0-0.079-0.04424.2370.0150.0150.0000.0000.0000.000
78A78ALA0-0.021-0.01325.6920.0100.0100.0000.0000.0000.000
79A79LEU00.0140.00622.253-0.001-0.0010.0000.0000.0000.000
80A80GLY00.0300.02919.212-0.018-0.0180.0000.0000.0000.000
81A81PRO0-0.011-0.02519.169-0.002-0.0020.0000.0000.0000.000
82A82LYS10.8300.91820.7700.0870.0870.0000.0000.0000.000
83A83ALA0-0.023-0.01017.098-0.012-0.0120.0000.0000.0000.000
84A84LEU0-0.022-0.01314.386-0.019-0.0190.0000.0000.0000.000
85A85GLU-1-0.797-0.88217.091-0.017-0.0170.0000.0000.0000.000
86A86ALA0-0.0090.00219.6880.0040.0040.0000.0000.0000.000
87A87ALA0-0.018-0.00314.607-0.019-0.0190.0000.0000.0000.000
88A88PHE0-0.059-0.04411.2450.0060.0060.0000.0000.0000.000
89A89ASN0-0.053-0.01916.8920.0590.0590.0000.0000.0000.000
90A90GLU-1-0.887-0.94717.2120.0550.0550.0000.0000.0000.000
91A91SER0-0.110-0.07221.271-0.007-0.0070.0000.0000.0000.000
92A92GLY00.0370.02724.662-0.003-0.0030.0000.0000.0000.000
93A93VAL0-0.091-0.04026.352-0.008-0.0080.0000.0000.0000.000
94A94ARG10.7760.85326.851-0.028-0.0280.0000.0000.0000.000
95A95PHE00.0320.02324.7430.0090.0090.0000.0000.0000.000
96A96HIS10.7690.86128.147-0.004-0.0040.0000.0000.0000.000
97A97TYR00.001-0.04123.9910.0110.0110.0000.0000.0000.000
98A98LEU0-0.015-0.00429.999-0.007-0.0070.0000.0000.0000.000
99A99ASP-1-0.827-0.90428.949-0.069-0.0690.0000.0000.0000.000
100A100HIS00.0100.00331.713-0.010-0.0100.0000.0000.0000.000
101A101VAL0-0.023-0.02335.1170.0080.0080.0000.0000.0000.000
102A102GLU-1-0.910-0.93938.360-0.061-0.0610.0000.0000.0000.000
103A103PRO00.020-0.01140.0250.0020.0020.0000.0000.0000.000
104A104GLU-1-0.866-0.93742.408-0.037-0.0370.0000.0000.0000.000
105A105PRO00.0080.00037.0200.0040.0040.0000.0000.0000.000
106A106ILE00.0080.00537.6780.0050.0050.0000.0000.0000.000
107A107LEU0-0.013-0.00639.4610.0060.0060.0000.0000.0000.000
108A108ARG10.9600.97638.5480.0450.0450.0000.0000.0000.000
109A109LEU00.0120.02434.8470.0030.0030.0000.0000.0000.000
110A110LEU0-0.028-0.01238.8390.0050.0050.0000.0000.0000.000
111A111ARG10.9120.95641.7780.0200.0200.0000.0000.0000.000
112A112THR0-0.058-0.03739.3560.0000.0000.0000.0000.0000.000
113A113LEU0-0.0300.00835.4740.0010.0010.0000.0000.0000.000
114A114ASP-1-0.781-0.89438.7680.0300.0300.0000.0000.0000.000
115A115PRO00.010-0.00139.0640.0050.0050.0000.0000.0000.000
116A116ARG10.9410.95839.516-0.040-0.0400.0000.0000.0000.000
117A117LYS10.8520.92536.196-0.027-0.0270.0000.0000.0000.000
118A118THR0-0.006-0.01534.978-0.001-0.0010.0000.0000.0000.000
119A119LEU0-0.037-0.00430.4130.0040.0040.0000.0000.0000.000
120A120VAL0-0.024-0.01932.836-0.006-0.0060.0000.0000.0000.000
121A121ASN00.0650.02527.4600.0130.0130.0000.0000.0000.000
122A122ALA0-0.0120.00831.296-0.010-0.0100.0000.0000.0000.000
123A123VAL00.0370.01226.8870.0110.0110.0000.0000.0000.000
124A124SER0-0.022-0.03230.350-0.013-0.0130.0000.0000.0000.000
125A125LYS10.8610.97828.000-0.073-0.0730.0000.0000.0000.000
126A126SER00.016-0.00330.6880.0050.0050.0000.0000.0000.000
127A127GLY00.0580.02733.8880.0030.0030.0000.0000.0000.000
128A128SER0-0.014-0.02635.558-0.002-0.0020.0000.0000.0000.000
129A129THR0-0.037-0.00133.322-0.002-0.0020.0000.0000.0000.000
130A130ALA00.0460.01636.2300.0020.0020.0000.0000.0000.000
131A131GLU-1-0.826-0.92635.253-0.030-0.0300.0000.0000.0000.000
132A132THR00.0280.01132.941-0.002-0.0020.0000.0000.0000.000
133A133LEU0-0.024-0.00335.8780.0050.0050.0000.0000.0000.000
134A134ALA0-0.0110.00439.2250.0030.0030.0000.0000.0000.000
135A135GLY00.0460.01637.6360.0010.0010.0000.0000.0000.000
136A136LEU00.005-0.00537.1110.0030.0030.0000.0000.0000.000
137A137ALA0-0.0130.00038.9530.0030.0030.0000.0000.0000.000
138A138VAL0-0.017-0.01041.4310.0020.0020.0000.0000.0000.000
139A139PHE00.0570.01137.5420.0010.0010.0000.0000.0000.000
140A140LEU0-0.0170.01140.8210.0040.0040.0000.0000.0000.000
141A141LYS10.9280.96942.572-0.007-0.0070.0000.0000.0000.000
142A142TRP0-0.010-0.01038.9960.0030.0030.0000.0000.0000.000
143A143LEU00.0320.01238.5730.0010.0010.0000.0000.0000.000
144A144LYS10.9240.96443.015-0.033-0.0330.0000.0000.0000.000
145A145ALA0-0.053-0.02146.2520.0010.0010.0000.0000.0000.000
146A146HIS0-0.053-0.02744.854-0.002-0.0020.0000.0000.0000.000
147A147LEU0-0.0190.00040.9710.0010.0010.0000.0000.0000.000
148A148GLY00.0040.02045.5610.0030.0030.0000.0000.0000.000
149A149GLU-1-0.857-0.95146.7190.0500.0500.0000.0000.0000.000
150A150ASP-1-0.903-0.93342.2500.0670.0670.0000.0000.0000.000
151A151TRP0-0.022-0.01941.4480.0020.0020.0000.0000.0000.000
152A152ARG10.8330.91040.490-0.054-0.0540.0000.0000.0000.000
153A153ARG10.9320.97736.098-0.090-0.0900.0000.0000.0000.000
154A154HIS10.7750.88336.583-0.051-0.0510.0000.0000.0000.000
155A155LEU0-0.0150.00535.509-0.007-0.0070.0000.0000.0000.000
156A156VAL0-0.038-0.00230.8770.0060.0060.0000.0000.0000.000
157A157VAL0-0.002-0.00632.898-0.009-0.0090.0000.0000.0000.000
158A158THR00.0120.01926.6070.0190.0190.0000.0000.0000.000
159A159THR0-0.009-0.03830.047-0.015-0.0150.0000.0000.0000.000
160A160ASP-1-0.789-0.88830.9610.1050.1050.0000.0000.0000.000
161A161PRO0-0.032-0.02030.477-0.002-0.0020.0000.0000.0000.000
162A162LYS10.8680.92033.170-0.090-0.0900.0000.0000.0000.000
163A163GLU-1-0.887-0.91935.6710.0630.0630.0000.0000.0000.000
164A164GLY00.0470.01836.4220.0010.0010.0000.0000.0000.000
165A165PRO0-0.047-0.03938.3560.0040.0040.0000.0000.0000.000
166A166LEU0-0.0040.00434.1990.0010.0010.0000.0000.0000.000
167A167ARG10.8550.94632.804-0.098-0.0980.0000.0000.0000.000
168A168ALA00.0440.02137.3640.0030.0030.0000.0000.0000.000
169A169PHE0-0.047-0.03239.5040.0000.0000.0000.0000.0000.000
170A170ALA00.0280.00637.0610.0000.0000.0000.0000.0000.000
171A171GLU-1-0.849-0.91937.9840.0940.0940.0000.0000.0000.000
172A172ARG10.7780.89341.003-0.045-0.0450.0000.0000.0000.000
173A173GLU-1-0.829-0.92442.1850.0460.0460.0000.0000.0000.000
174A174GLY00.0100.03041.2560.0000.0000.0000.0000.0000.000
175A175LEU0-0.065-0.02937.4020.0010.0010.0000.0000.0000.000
176A176LYS10.8370.92430.200-0.154-0.1540.0000.0000.0000.000
177A177ALA00.017-0.01632.762-0.008-0.0080.0000.0000.0000.000
178A178PHE0-0.009-0.01827.2280.0100.0100.0000.0000.0000.000
179A179ALA00.0330.00528.377-0.016-0.0160.0000.0000.0000.000
180A180ILE0-0.0140.01425.5400.0140.0140.0000.0000.0000.000
181A181PRO00.0460.00524.028-0.014-0.0140.0000.0000.0000.000
182A182LYS10.9720.96827.170-0.105-0.1050.0000.0000.0000.000
183A183GLU-1-0.780-0.89526.0310.0840.0840.0000.0000.0000.000
184A184VAL0-0.0060.01922.3950.0000.0000.0000.0000.0000.000
185A185GLY00.0560.01924.602-0.010-0.0100.0000.0000.0000.000
186A186GLY00.029-0.00324.2660.0050.0050.0000.0000.0000.000
187A187ARG10.7610.85623.0090.0870.0870.0000.0000.0000.000
188A188PHE00.0180.00119.276-0.016-0.0160.0000.0000.0000.000
189A189SER0-0.038-0.03720.3130.0430.0430.0000.0000.0000.000
190A190ALA00.0500.02917.3250.0220.0220.0000.0000.0000.000
191A191LEU00.0250.01513.5650.0080.0080.0000.0000.0000.000
192A192SER00.0020.00617.6640.0410.0410.0000.0000.0000.000
193A193PRO00.040-0.00821.043-0.005-0.0050.0000.0000.0000.000
194A194VAL0-0.038-0.01322.800-0.011-0.0110.0000.0000.0000.000
195A195GLY00.0280.02319.730-0.025-0.0250.0000.0000.0000.000
196A196LEU0-0.003-0.00717.196-0.002-0.0020.0000.0000.0000.000
197A197LEU00.010-0.00220.4680.0050.0050.0000.0000.0000.000
198A198PRO0-0.026-0.01222.2830.0010.0010.0000.0000.0000.000
199A199LEU00.0600.02216.229-0.003-0.0030.0000.0000.0000.000
200A200ALA0-0.0030.01020.4570.0110.0110.0000.0000.0000.000
201A201PHE0-0.050-0.03622.2300.0010.0010.0000.0000.0000.000
202A202ALA00.0250.03720.692-0.013-0.0130.0000.0000.0000.000
203A203GLY0-0.035-0.00121.475-0.011-0.0110.0000.0000.0000.000
204A204ALA00.0470.04016.2080.0180.0180.0000.0000.0000.000
205A205ASP-1-0.869-0.95013.8050.7020.7020.0000.0000.0000.000
206A206LEU0-0.022-0.02214.0010.0550.0550.0000.0000.0000.000
207A207ASP-1-0.797-0.89814.5850.6550.6550.0000.0000.0000.000
208A208ALA00.0420.02710.1360.1590.1590.0000.0000.0000.000
209A209LEU0-0.022-0.0039.7460.1790.1790.0000.0000.0000.000
210A210LEU0-0.015-0.01110.7910.0460.0460.0000.0000.0000.000
211A211MET0-0.022-0.0089.5070.0330.0330.0000.0000.0000.000
212A212GLY00.0410.0236.6370.4820.4820.0000.0000.0000.000
213A213ALA0-0.023-0.0107.5040.0890.0890.0000.0000.0000.000
214A214ARG10.8570.89610.284-1.317-1.3170.0000.0000.0000.000
215A215LYS10.8100.8965.192-4.693-4.6930.0000.0000.0000.000
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