Manual

About

FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: XYVG2

Calculation Name: 3OFG-A-Xray21

Preferred Name:

Target Type:

Ligand Name: chloride ion

ligand 3-letter code: CL

PDB ID: 3OFG

Chain ID: A

ChEMBL ID:

UniProt ID: Q8IG33

Base Structure: X-ray

Registration Date: 2018-06-07

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement Missing residues were capped by ACE, NME. Missing atoms were corrected by Structure prepareation by MOE.
Water Apo structure with with a 3 angstrom solvent shell.
Procedure Auto-FMO protocol ver. 1.20180227
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 197
LigandCharge CL-=-1
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -906972.560366
FMO2-HF: Nuclear repulsion 860486.630597
FMO2-HF: Total energy -46485.929769
FMO2-MP2: Total energy -46614.990326


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:83:ACE)


Summations of interaction energy for fragment #1(A:83: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.
0.9081.734-0.013-0.355-0.4580
Interaction energy analysis for fragmet #1(A:83:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.032 / q_NPA : 0.007
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].
3A85LYS10.9330.9983.8271.4992.325-0.013-0.355-0.4580.000
4A86LYS10.8300.9056.9350.2070.2070.0000.0000.0000.000
5A87GLY0-0.022-0.01710.2590.0880.0880.0000.0000.0000.000
6A88GLN00.0630.08112.075-0.083-0.0830.0000.0000.0000.000
7A89THR0-0.004-0.00912.727-0.025-0.0250.0000.0000.0000.000
8A90LEU00.0040.01114.1370.0270.0270.0000.0000.0000.000
9A91MET0-0.042-0.01815.8400.0020.0020.0000.0000.0000.000
10A92LEU0-0.026-0.01118.3380.0040.0040.0000.0000.0000.000
11A93PHE00.0120.01621.3940.0030.0030.0000.0000.0000.000
12A94VAL00.016-0.00123.3530.0020.0020.0000.0000.0000.000
13A95GLY00.0280.02726.1290.0020.0020.0000.0000.0000.000
14A96VAL0-0.017-0.01328.7600.0030.0030.0000.0000.0000.000
15A97VAL00.0390.01531.408-0.001-0.0010.0000.0000.0000.000
16A98ASP-1-0.739-0.83135.1410.0080.0080.0000.0000.0000.000
17A99PRO0-0.009-0.01436.805-0.001-0.0010.0000.0000.0000.000
18A100SER0-0.089-0.05539.9440.0000.0000.0000.0000.0000.000
19A101GLN0-0.076-0.04839.4580.0000.0000.0000.0000.0000.000
20A102PRO00.0180.01440.270-0.001-0.0010.0000.0000.0000.000
21A103ASP-1-0.859-0.90640.054-0.010-0.0100.0000.0000.0000.000
22A104ARG10.7760.91639.083-0.002-0.0020.0000.0000.0000.000
23A105SER00.1000.04236.1140.0010.0010.0000.0000.0000.000
24A106ASP-1-0.832-0.89535.164-0.003-0.0030.0000.0000.0000.000
25A107ILE0-0.047-0.02233.4270.0030.0030.0000.0000.0000.000
26A108ARG10.9320.96827.2920.0080.0080.0000.0000.0000.000
27A109PRO0-0.006-0.00430.5610.0020.0020.0000.0000.0000.000
28A110PHE00.0190.02331.1380.0040.0040.0000.0000.0000.000
29A111THR00.039-0.00727.4430.0020.0020.0000.0000.0000.000
30A112GLU-1-0.832-0.89526.4830.0170.0170.0000.0000.0000.000
31A113LYS10.8510.94826.326-0.020-0.0200.0000.0000.0000.000
32A114TRP00.008-0.01527.2950.0070.0070.0000.0000.0000.000
33A115THR00.0040.00223.4390.0030.0030.0000.0000.0000.000
34A116GLN00.0030.01621.793-0.001-0.0010.0000.0000.0000.000
35A117ILE0-0.0040.00422.7940.0080.0080.0000.0000.0000.000
36A118TRP0-0.017-0.02724.0580.0030.0030.0000.0000.0000.000
37A119GLN0-0.010-0.01216.4330.0010.0010.0000.0000.0000.000
38A120SER0-0.0110.00019.4480.0150.0150.0000.0000.0000.000
39A121GLN00.004-0.00221.1310.0040.0040.0000.0000.0000.000
40A122LEU0-0.010-0.00719.0140.0010.0010.0000.0000.0000.000
41A123TYR0-0.0020.02913.8700.0000.0000.0000.0000.0000.000
42A124ASN0-0.010-0.02617.8620.0260.0260.0000.0000.0000.000
43A125ASN0-0.0670.00120.3270.0050.0050.0000.0000.0000.000
44A126HIS00.0090.00016.318-0.003-0.0030.0000.0000.0000.000
45A127VAL0-0.032-0.00315.305-0.011-0.0110.0000.0000.0000.000
46A128ASP-1-0.792-0.87811.2970.2350.2350.0000.0000.0000.000
47A129LEU0-0.038-0.02513.083-0.048-0.0480.0000.0000.0000.000
48A130GLN0-0.049-0.01412.8030.0140.0140.0000.0000.0000.000
49A131VAL00.012-0.01014.964-0.026-0.0260.0000.0000.0000.000
50A132PHE0-0.015-0.00415.2310.0070.0070.0000.0000.0000.000
51A133VAL00.0350.01020.625-0.006-0.0060.0000.0000.0000.000
52A134ILE0-0.042-0.02023.1280.0000.0000.0000.0000.0000.000
53A135ASP-1-0.810-0.90225.788-0.035-0.0350.0000.0000.0000.000
54A136ASP-1-0.859-0.92929.027-0.005-0.0050.0000.0000.0000.000
55A137ASN00.0160.02431.2130.0020.0020.0000.0000.0000.000
56A138ARG10.8580.91926.8210.0430.0430.0000.0000.0000.000
57A139ALA0-0.0070.00223.1880.0020.0020.0000.0000.0000.000
58A140ILE00.0370.02718.721-0.005-0.0050.0000.0000.0000.000
59A141PHE0-0.018-0.00818.3840.0150.0150.0000.0000.0000.000
60A142MET00.0180.00413.747-0.014-0.0140.0000.0000.0000.000
61A143PHE00.0020.00713.4910.0280.0280.0000.0000.0000.000
62A144LYS10.9560.9857.610-0.172-0.1720.0000.0000.0000.000
63A145ASN0-0.020-0.0289.334-0.181-0.1810.0000.0000.0000.000
64A146GLY00.0740.04411.6620.0440.0440.0000.0000.0000.000
65A147GLU-1-0.793-0.87814.540-0.134-0.1340.0000.0000.0000.000
66A148GLN00.0020.01714.2810.0190.0190.0000.0000.0000.000
67A149ALA00.0320.03317.4160.0170.0170.0000.0000.0000.000
68A150PHE00.003-0.00119.1930.0140.0140.0000.0000.0000.000
69A151GLU-1-0.784-0.85219.7070.0140.0140.0000.0000.0000.000
70A152ALA00.0360.01819.5520.0100.0100.0000.0000.0000.000
71A153LYS10.9170.96021.6160.0560.0560.0000.0000.0000.000
72A154LYS10.9330.97524.4830.0190.0190.0000.0000.0000.000
73A155PHE0-0.008-0.00524.0820.0030.0030.0000.0000.0000.000
74A156LEU00.0290.01122.8800.0040.0040.0000.0000.0000.000
75A157LEU0-0.0100.00926.7350.0020.0020.0000.0000.0000.000
76A158LYS10.7940.90929.1780.0000.0000.0000.0000.0000.000
77A159GLN0-0.061-0.02427.9270.0070.0070.0000.0000.0000.000
78A160GLU-1-0.835-0.89631.2120.0040.0040.0000.0000.0000.000
79A161PHE0-0.035-0.02731.745-0.002-0.0020.0000.0000.0000.000
80A162VAL0-0.0110.01528.158-0.001-0.0010.0000.0000.0000.000
81A163SER0-0.020-0.02031.035-0.001-0.0010.0000.0000.0000.000
82A164GLU-1-0.907-0.94930.481-0.040-0.0400.0000.0000.0000.000
83A165VAL00.001-0.00924.9960.0010.0010.0000.0000.0000.000
84A166THR00.0190.02226.1700.0020.0020.0000.0000.0000.000
85A167ILE0-0.044-0.04320.885-0.001-0.0010.0000.0000.0000.000
86A168GLU-1-0.921-0.94821.637-0.090-0.0900.0000.0000.0000.000
87A169GLY00.007-0.01119.247-0.013-0.0130.0000.0000.0000.000
88A170GLN0-0.065-0.01218.7290.0010.0010.0000.0000.0000.000
89A171SER00.005-0.01120.4510.0120.0120.0000.0000.0000.000
90A172PHE0-0.044-0.04023.0790.0180.0180.0000.0000.0000.000
91A173ASP-1-0.956-0.97022.728-0.161-0.1610.0000.0000.0000.000
92A174GLY-1-0.879-0.93418.823-0.301-0.3010.0000.0000.0000.000
93A1CL--1-0.879-0.90221.491-0.194-0.1940.0000.0000.0000.000
94A2CL--1-0.871-0.91127.544-0.064-0.0640.0000.0000.0000.000
95A3CL--1-0.876-0.87025.4520.0610.0610.0000.0000.0000.000
96A4CL--1-0.855-0.89016.5650.0630.0630.0000.0000.0000.000
97A7HOH0-0.008-0.00835.096-0.001-0.0010.0000.0000.0000.000
98A9HOH0-0.034-0.02026.9940.0010.0010.0000.0000.0000.000
99A12HOH0-0.009-0.01737.7820.0000.0000.0000.0000.0000.000
100A13HOH00.005-0.00213.195-0.020-0.0200.0000.0000.0000.000
101A14HOH00.0600.03635.0820.0010.0010.0000.0000.0000.000
102A15HOH0-0.038-0.02823.9190.0000.0000.0000.0000.0000.000
103A17HOH00.0230.00417.478-0.004-0.0040.0000.0000.0000.000
104A18HOH0-0.017-0.03223.545-0.004-0.0040.0000.0000.0000.000
105A23HOH00.0200.01834.7680.0010.0010.0000.0000.0000.000
106A24HOH0-0.038-0.02214.4210.0030.0030.0000.0000.0000.000
107A25HOH00.001-0.00612.450-0.002-0.0020.0000.0000.0000.000
108A27HOH00.008-0.01231.424-0.001-0.0010.0000.0000.0000.000
109A28HOH0-0.019-0.01823.109-0.001-0.0010.0000.0000.0000.000
110A29HOH0-0.016-0.01331.2010.0010.0010.0000.0000.0000.000
111A30HOH0-0.023-0.03240.0910.0000.0000.0000.0000.0000.000
112A33HOH00.0450.02130.6890.0010.0010.0000.0000.0000.000
113A34HOH00.0260.02230.277-0.001-0.0010.0000.0000.0000.000
114A35HOH0-0.049-0.03114.1350.0150.0150.0000.0000.0000.000
115A36HOH00.0110.00512.3810.0080.0080.0000.0000.0000.000
116A38HOH0-0.006-0.00826.234-0.001-0.0010.0000.0000.0000.000
117A39HOH0-0.037-0.02629.9030.0010.0010.0000.0000.0000.000
118A40HOH0-0.014-0.00933.0810.0000.0000.0000.0000.0000.000
119A41HOH0-0.002-0.00728.324-0.001-0.0010.0000.0000.0000.000
120A43HOH0-0.031-0.02529.6550.0000.0000.0000.0000.0000.000
121A44HOH0-0.072-0.04828.707-0.001-0.0010.0000.0000.0000.000
122A45HOH0-0.032-0.02121.4410.0050.0050.0000.0000.0000.000
123A46HOH00.0030.00427.9460.0000.0000.0000.0000.0000.000
124A47HOH0-0.049-0.03822.701-0.001-0.0010.0000.0000.0000.000
125A49HOH00.0190.00421.9940.0000.0000.0000.0000.0000.000
126A50HOH00.0310.02021.916-0.004-0.0040.0000.0000.0000.000
127A52HOH0-0.013-0.01525.9740.0010.0010.0000.0000.0000.000
128A54HOH0-0.016-0.01936.8830.0010.0010.0000.0000.0000.000
129A57HOH0-0.018-0.02819.8390.0010.0010.0000.0000.0000.000
130A58HOH0-0.061-0.04721.7780.0050.0050.0000.0000.0000.000
131A60HOH00.0440.03029.501-0.001-0.0010.0000.0000.0000.000
132A61HOH0-0.014-0.00836.4470.0000.0000.0000.0000.0000.000
133A62HOH00.0160.01332.4370.0010.0010.0000.0000.0000.000
134A65HOH0-0.070-0.05128.4890.0010.0010.0000.0000.0000.000
135A67HOH0-0.045-0.02220.3700.0050.0050.0000.0000.0000.000
136A69HOH0-0.042-0.03731.974-0.002-0.0020.0000.0000.0000.000
137A70HOH0-0.018-0.01525.237-0.001-0.0010.0000.0000.0000.000
138A72HOH0-0.025-0.02232.332-0.001-0.0010.0000.0000.0000.000
139A73HOH0-0.026-0.01835.602-0.001-0.0010.0000.0000.0000.000
140A76HOH00.0020.01835.870-0.001-0.0010.0000.0000.0000.000
141A175HOH0-0.023-0.02123.912-0.003-0.0030.0000.0000.0000.000
142A176HOH0-0.040-0.03316.6000.0010.0010.0000.0000.0000.000
143A177HOH0-0.025-0.03735.273-0.001-0.0010.0000.0000.0000.000
144A179HOH00.0240.01632.9430.0000.0000.0000.0000.0000.000
145A180HOH0-0.014-0.03122.4170.0040.0040.0000.0000.0000.000
146A182HOH0-0.0010.00229.7350.0010.0010.0000.0000.0000.000
147A183HOH0-0.023-0.02338.3750.0010.0010.0000.0000.0000.000
148A184HOH00.0130.00410.080-0.056-0.0560.0000.0000.0000.000
149A185HOH00.0410.03230.8690.0010.0010.0000.0000.0000.000
150A187HOH0-0.004-0.00119.850-0.006-0.0060.0000.0000.0000.000
151A188HOH00.0440.02034.4680.0000.0000.0000.0000.0000.000
152A189HOH0-0.043-0.04535.4320.0000.0000.0000.0000.0000.000
153A190HOH0-0.066-0.04611.6270.0260.0260.0000.0000.0000.000
154A191HOH00.008-0.00926.566-0.003-0.0030.0000.0000.0000.000
155A193HOH0-0.020-0.03120.0280.0070.0070.0000.0000.0000.000
156A194HOH0-0.034-0.04419.6150.0020.0020.0000.0000.0000.000
157A195HOH0-0.023-0.00922.9640.0000.0000.0000.0000.0000.000
158A196HOH0-0.0040.00033.249-0.001-0.0010.0000.0000.0000.000
159A197HOH00.004-0.0018.641-0.044-0.0440.0000.0000.0000.000
160A198HOH0-0.020-0.01234.3550.0000.0000.0000.0000.0000.000
161A199HOH00.000-0.01130.829-0.002-0.0020.0000.0000.0000.000
162A200HOH00.0310.02016.495-0.016-0.0160.0000.0000.0000.000
163A204HOH0-0.049-0.04441.978-0.001-0.0010.0000.0000.0000.000
164A206HOH0-0.036-0.01633.274-0.001-0.0010.0000.0000.0000.000
165A207HOH00.0470.02331.288-0.001-0.0010.0000.0000.0000.000
166A208HOH0-0.026-0.02213.043-0.003-0.0030.0000.0000.0000.000
167A209HOH0-0.004-0.02527.179-0.003-0.0030.0000.0000.0000.000
168A210HOH00.002-0.00228.677-0.002-0.0020.0000.0000.0000.000
169A214HOH0-0.0200.00441.2490.0000.0000.0000.0000.0000.000
170A215HOH0-0.031-0.02818.894-0.001-0.0010.0000.0000.0000.000
171A216HOH00.0140.01135.4090.0010.0010.0000.0000.0000.000
172A217HOH0-0.037-0.02129.5110.0010.0010.0000.0000.0000.000
173A220HOH0-0.019-0.01418.636-0.002-0.0020.0000.0000.0000.000
174A221HOH0-0.070-0.04226.8910.0020.0020.0000.0000.0000.000
175A223HOH0-0.034-0.01618.189-0.005-0.0050.0000.0000.0000.000
176A224HOH0-0.004-0.00338.5790.0000.0000.0000.0000.0000.000
177A225HOH00.0260.01144.4170.0000.0000.0000.0000.0000.000
178A226HOH0-0.019-0.01014.6250.0190.0190.0000.0000.0000.000
179A227HOH00.0210.00627.743-0.002-0.0020.0000.0000.0000.000
180A229HOH00.0240.01031.943-0.001-0.0010.0000.0000.0000.000
181A230HOH0-0.035-0.02445.0140.0000.0000.0000.0000.0000.000
182A231HOH0-0.022-0.01615.5500.0030.0030.0000.0000.0000.000
183A235HOH0-0.0020.00425.869-0.003-0.0030.0000.0000.0000.000
184A236HOH0-0.030-0.01646.1280.0010.0010.0000.0000.0000.000
185A237HOH00.0100.01531.815-0.002-0.0020.0000.0000.0000.000
186A239HOH0-0.044-0.02819.5660.0000.0000.0000.0000.0000.000
187A243HOH0-0.015-0.01517.113-0.002-0.0020.0000.0000.0000.000
188A255HOH0-0.050-0.02738.4740.0000.0000.0000.0000.0000.000
189A265HOH00.0100.00326.6710.0020.0020.0000.0000.0000.000
190A266HOH0-0.016-0.03519.154-0.006-0.0060.0000.0000.0000.000
191A267HOH0-0.0090.02320.8180.0020.0020.0000.0000.0000.000
192A268HOH0-0.040-0.02333.7660.0000.0000.0000.0000.0000.000
193A281HOH0-0.015-0.01129.928-0.002-0.0020.0000.0000.0000.000
194B31HOH00.000-0.00624.1960.0030.0030.0000.0000.0000.000
195B59HOH00.008-0.00315.776-0.020-0.0200.0000.0000.0000.000
196B68HOH00.0200.01626.6720.0010.0010.0000.0000.0000.000
197B233HOH0-0.029-0.01231.447-0.001-0.0010.0000.0000.0000.000