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: 9G5L2

Calculation Name: 1QHL-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1QHL

Chain ID: A

ChEMBL ID:

UniProt ID: P22523

Base Structure: X-ray

Registration Date: 2023-06-21

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 203
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2389703.016894
FMO2-HF: Nuclear repulsion 2310431.653786
FMO2-HF: Total energy -79271.363108
FMO2-MP2: Total energy -79503.939366


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:4:ARG)


Summations of interaction energy for fragment #1(A:4:ARG)
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.
28.11439.10520.51-13.834-17.665-0.104
Interaction energy analysis for fragmet #1(A:4:ARG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.888 / q_NPA : 0.918
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].
3A6LYS10.9320.9503.49522.25824.0460.007-0.935-0.8600.000
4A7PHE00.0250.0106.2322.6172.6170.0000.0000.0000.000
5A8ARG10.8300.9068.45619.49319.4930.0000.0000.0000.000
6A9SER0-0.004-0.01411.8791.3591.3590.0000.0000.0000.000
7A10LEU0-0.0060.01814.563-0.505-0.5050.0000.0000.0000.000
8A11THR0-0.0090.00016.7050.8130.8130.0000.0000.0000.000
9A12LEU0-0.024-0.00320.122-0.021-0.0210.0000.0000.0000.000
10A13ILE0-0.013-0.01223.3100.3310.3310.0000.0000.0000.000
11A14ASN0-0.026-0.04726.3490.1310.1310.0000.0000.0000.000
12A15TRP00.0480.01923.9560.1520.1520.0000.0000.0000.000
13A16ASN0-0.089-0.06628.7060.3990.3990.0000.0000.0000.000
14A17GLY00.0210.01229.984-0.184-0.1840.0000.0000.0000.000
15A18PHE0-0.048-0.03426.078-0.146-0.1460.0000.0000.0000.000
16A19PHE00.0430.03128.092-0.201-0.2010.0000.0000.0000.000
17A20ALA00.0710.02726.448-0.116-0.1160.0000.0000.0000.000
18A21ARG10.7670.87721.88713.58813.5880.0000.0000.0000.000
19A22THR00.014-0.00118.677-0.078-0.0780.0000.0000.0000.000
20A23PHE00.0030.00517.9290.4750.4750.0000.0000.0000.000
21A24ASP-1-0.818-0.89914.724-18.689-18.6890.0000.0000.0000.000
22A25LEU0-0.011-0.0307.910-0.349-0.3490.0000.0000.0000.000
23A26ASP-1-0.855-0.91512.620-20.782-20.7820.0000.0000.0000.000
24A27GLU-1-0.764-0.85014.726-13.713-13.7130.0000.0000.0000.000
25A28LEU0-0.060-0.01213.1620.6860.6860.0000.0000.0000.000
26A29VAL00.0400.00512.0680.5390.5390.0000.0000.0000.000
27A30THR00.0060.01415.3380.8100.8100.0000.0000.0000.000
28A31THR0-0.077-0.05718.5651.0441.0440.0000.0000.0000.000
29A32LEU0-0.034-0.03215.9020.7160.7160.0000.0000.0000.000
30A33SER0-0.027-0.02317.217-0.007-0.0070.0000.0000.0000.000
31A34GLY00.0110.02219.4220.4960.4960.0000.0000.0000.000
32A35GLY00.006-0.00823.0410.0860.0860.0000.0000.0000.000
33A36ASN00.051-0.00924.674-0.739-0.7390.0000.0000.0000.000
34A37GLY0-0.0120.01626.5790.0830.0830.0000.0000.0000.000
35A38ALA00.0460.01627.280-0.349-0.3490.0000.0000.0000.000
36A39GLY00.0450.02926.762-0.224-0.2240.0000.0000.0000.000
37A40LYS10.9420.99720.91513.79313.7930.0000.0000.0000.000
38A41SER00.0230.01722.501-0.403-0.4030.0000.0000.0000.000
39A42THR0-0.033-0.03924.016-0.155-0.1550.0000.0000.0000.000
40A43THR00.0270.00919.440-0.121-0.1210.0000.0000.0000.000
41A44MET00.0010.01318.078-0.776-0.7760.0000.0000.0000.000
42A45ALA00.0110.01919.426-0.437-0.4370.0000.0000.0000.000
43A46ALA00.0180.02821.208-0.254-0.2540.0000.0000.0000.000
44A47PHE00.0320.01711.546-0.299-0.2990.0000.0000.0000.000
45A48VAL00.029-0.00216.434-0.773-0.7730.0000.0000.0000.000
46A49THR0-0.049-0.04017.7260.1770.1770.0000.0000.0000.000
47A50ALA00.0020.00617.4620.2540.2540.0000.0000.0000.000
48A51LEU00.0120.04011.813-0.388-0.3880.0000.0000.0000.000
49A52ILE0-0.041-0.01215.221-0.319-0.3190.0000.0000.0000.000
50A53PRO00.0110.03418.1990.7030.7030.0000.0000.0000.000
51A54ASP-1-0.778-0.89621.647-12.284-12.2840.0000.0000.0000.000
52A55LEU00.003-0.00623.589-0.054-0.0540.0000.0000.0000.000
53A56THR0-0.054-0.02926.0770.4710.4710.0000.0000.0000.000
54A57LEU0-0.086-0.04720.608-0.028-0.0280.0000.0000.0000.000
55A58LEU0-0.0180.02323.180-0.019-0.0190.0000.0000.0000.000
56A77LEU00.0390.01326.0060.1390.1390.0000.0000.0000.000
57A78HIS00.0800.03328.9100.0180.0180.0000.0000.0000.000
58A79GLY00.0140.01332.2600.0820.0820.0000.0000.0000.000
59A80LYS10.8770.94526.20111.45811.4580.0000.0000.0000.000
60A81LEU0-0.0120.02027.347-0.202-0.2020.0000.0000.0000.000
61A82LYS10.9180.96430.8129.4829.4820.0000.0000.0000.000
62A83ALA00.0200.00833.522-0.118-0.1180.0000.0000.0000.000
63A84GLY00.0370.02135.092-0.013-0.0130.0000.0000.0000.000
64A85VAL0-0.015-0.01329.585-0.194-0.1940.0000.0000.0000.000
65A86CYS0-0.0300.02128.1150.0590.0590.0000.0000.0000.000
66A87TYR00.010-0.02323.681-0.206-0.2060.0000.0000.0000.000
67A88SER0-0.040-0.01820.334-0.008-0.0080.0000.0000.0000.000
68A89MET0-0.073-0.03418.628-0.084-0.0840.0000.0000.0000.000
69A90LEU00.0460.02513.200-0.219-0.2190.0000.0000.0000.000
70A91ASP-1-0.780-0.85914.136-17.964-17.9640.0000.0000.0000.000
71A92THR00.033-0.0029.148-2.560-2.5600.0000.0000.0000.000
72A93ILE00.0500.0297.9002.5452.5450.0000.0000.0000.000
73A94ASN00.0020.0026.190-3.842-3.8420.0000.0000.0000.000
74A95SER00.024-0.0022.6760.7211.6200.418-0.492-0.825-0.001
75A96ARG10.8750.9333.77626.88427.1140.000-0.025-0.2060.000
76A97HIS0-0.035-0.0195.2582.9762.9760.0000.0000.0000.000
77A98GLN00.0140.0177.9801.2421.2420.0000.0000.0000.000
78A99ARG10.7490.85010.32414.41814.4180.0000.0000.0000.000
79A100VAL0-0.050-0.02511.9081.0941.0940.0000.0000.0000.000
80A101VAL0-0.0120.00213.262-0.969-0.9690.0000.0000.0000.000
81A102VAL00.0060.00014.4220.6540.6540.0000.0000.0000.000
82A103GLY00.0280.00316.548-0.354-0.3540.0000.0000.0000.000
83A104VAL00.0140.02419.3790.2930.2930.0000.0000.0000.000
84A105ARG10.8430.93122.87310.41210.4120.0000.0000.0000.000
85A106LEU0-0.058-0.03924.3750.0600.0600.0000.0000.0000.000
86A107GLN00.029-0.00228.2720.0930.0930.0000.0000.0000.000
87A108GLN00.0110.03632.0990.2290.2290.0000.0000.0000.000
88A109VAL0-0.050-0.03134.7190.1330.1330.0000.0000.0000.000
89A110ALA00.0600.02837.2570.0700.0700.0000.0000.0000.000
90A111GLY0-0.0090.00040.482-0.053-0.0530.0000.0000.0000.000
91A112ARG10.8230.89737.9988.0108.0100.0000.0000.0000.000
92A113ASP-1-0.817-0.92137.403-8.140-8.1400.0000.0000.0000.000
93A114ARG10.9770.97735.4198.2488.2480.0000.0000.0000.000
94A115LYS10.9500.99434.0028.6088.6080.0000.0000.0000.000
95A116VAL00.0440.01029.4600.0970.0970.0000.0000.0000.000
96A117ASP-1-0.886-0.92131.151-10.173-10.1730.0000.0000.0000.000
97A118ILE0-0.011-0.02324.645-0.147-0.1470.0000.0000.0000.000
98A119LYS10.8960.96326.69010.69310.6930.0000.0000.0000.000
99A120PRO00.0130.00821.409-0.136-0.1360.0000.0000.0000.000
100A121PHE0-0.023-0.02321.3360.5490.5490.0000.0000.0000.000
101A122ALA0-0.0010.00017.850-0.860-0.8600.0000.0000.0000.000
102A123ILE00.0010.00318.2760.8030.8030.0000.0000.0000.000
103A124GLN00.0280.00616.051-0.534-0.5340.0000.0000.0000.000
104A125GLY00.0890.03516.6620.7010.7010.0000.0000.0000.000
105A126LEU00.0030.02418.2660.5480.5480.0000.0000.0000.000
106A127PRO00.0840.03318.166-0.782-0.7820.0000.0000.0000.000
107A128MET00.009-0.00813.3490.0230.0230.0000.0000.0000.000
108A129SER0-0.0020.01618.818-0.123-0.1230.0000.0000.0000.000
109A130VAL0-0.0090.00721.6560.4260.4260.0000.0000.0000.000
110A131GLN00.0290.01020.576-1.095-1.0950.0000.0000.0000.000
111A132PRO00.0490.00618.3640.5810.5810.0000.0000.0000.000
112A133THR00.0470.01321.3800.2800.2800.0000.0000.0000.000
113A134GLN00.0650.05324.479-0.029-0.0290.0000.0000.0000.000
114A135LEU0-0.022-0.00322.3550.3670.3670.0000.0000.0000.000
115A136VAL00.0170.00924.7880.3930.3930.0000.0000.0000.000
116A137THR0-0.086-0.04826.7140.3940.3940.0000.0000.0000.000
117A138GLU-1-0.838-0.91029.751-8.620-8.6200.0000.0000.0000.000
118A139THR0-0.020-0.02232.7670.0240.0240.0000.0000.0000.000
119A140LEU00.0050.00834.9400.0390.0390.0000.0000.0000.000
120A141ASN00.010-0.00238.179-0.074-0.0740.0000.0000.0000.000
121A142GLU-1-0.850-0.90440.065-7.024-7.0240.0000.0000.0000.000
122A143ARG10.8640.92539.1207.1267.1260.0000.0000.0000.000
123A144GLN0-0.0090.00537.1170.0280.0280.0000.0000.0000.000
124A145ALA0-0.035-0.03032.658-0.048-0.0480.0000.0000.0000.000
125A146ARG10.8170.88234.0678.6758.6750.0000.0000.0000.000
126A147VAL0-0.032-0.02929.276-0.221-0.2210.0000.0000.0000.000
127A148LEU00.0220.02829.6140.2540.2540.0000.0000.0000.000
128A149PRO00.0440.03330.381-0.404-0.4040.0000.0000.0000.000
129A150LEU00.024-0.01626.055-0.050-0.0500.0000.0000.0000.000
130A151ASN0-0.024-0.00529.870-0.285-0.2850.0000.0000.0000.000
131A152GLU-1-0.721-0.84232.546-8.666-8.6660.0000.0000.0000.000
132A153LEU0-0.049-0.00724.580-0.113-0.1130.0000.0000.0000.000
133A154LYS10.8140.88028.2399.7809.7800.0000.0000.0000.000
134A155ASP-1-0.854-0.93029.248-9.116-9.1160.0000.0000.0000.000
135A156LYS10.8420.91628.14010.42810.4280.0000.0000.0000.000
136A157LEU0-0.045-0.04423.696-0.219-0.2190.0000.0000.0000.000
137A158GLU-1-0.831-0.89026.950-10.551-10.5510.0000.0000.0000.000
138A159ALA0-0.040-0.01229.2140.0650.0650.0000.0000.0000.000
139A160MET0-0.107-0.03725.498-0.155-0.1550.0000.0000.0000.000
140A161GLU-1-0.864-0.93525.787-10.284-10.2840.0000.0000.0000.000
141A162GLY0-0.007-0.00322.567-0.321-0.3210.0000.0000.0000.000
142A163VAL0-0.076-0.03421.378-0.748-0.7480.0000.0000.0000.000
143A164GLN00.0170.01620.3540.3190.3190.0000.0000.0000.000
144A165PHE00.0290.00621.151-0.643-0.6430.0000.0000.0000.000
145A166LYS10.8580.92420.08314.25814.2580.0000.0000.0000.000
146A167GLN00.0670.04223.036-0.276-0.2760.0000.0000.0000.000
147A168PHE00.010-0.00120.3860.0080.0080.0000.0000.0000.000
148A169ASN00.033-0.00425.4670.0400.0400.0000.0000.0000.000
149A170SER0-0.003-0.01625.2860.1470.1470.0000.0000.0000.000
150A171ILE00.0130.00220.759-0.470-0.4700.0000.0000.0000.000
151A172THR00.0270.00620.792-0.805-0.8050.0000.0000.0000.000
152A173ASP-1-0.821-0.87020.630-13.274-13.2740.0000.0000.0000.000
153A174TYR0-0.092-0.06118.047-0.480-0.4800.0000.0000.0000.000
154A175HIS0-0.008-0.05615.672-0.367-0.3670.0000.0000.0000.000
155A176SER0-0.057-0.03315.977-1.271-1.2710.0000.0000.0000.000
156A177LEU00.0410.03316.312-0.656-0.6560.0000.0000.0000.000
157A178MET0-0.0030.00213.152-0.649-0.6490.0000.0000.0000.000
158A179PHE0-0.044-0.01711.308-1.832-1.8320.0000.0000.0000.000
159A180ASP-1-0.813-0.90111.616-19.661-19.6610.0000.0000.0000.000
160A181LEU0-0.057-0.02611.734-0.423-0.4230.0000.0000.0000.000
161A182GLY00.0160.0237.724-0.940-0.9400.0000.0000.0000.000
162A183ILE0-0.016-0.0107.154-3.820-3.8200.0000.0000.0000.000
163A184ILE0-0.018-0.0108.571-2.505-2.5050.0000.0000.0000.000
164A185ALA00.0260.0155.6121.2941.2940.0000.0000.0000.000
165A186ARG10.9050.9717.71028.00828.0080.0000.0000.0000.000
166A187ARG10.8740.93011.00119.70919.7090.0000.0000.0000.000
167A188LEU0-0.050-0.02213.9190.5670.5670.0000.0000.0000.000
168A189ARG11.0120.99216.73716.27416.2740.0000.0000.0000.000
169A190SER0-0.014-0.01320.2490.8780.8780.0000.0000.0000.000
170A191ALA00.0910.02920.973-0.598-0.5980.0000.0000.0000.000
171A192SER00.0560.03922.049-0.505-0.5050.0000.0000.0000.000
172A193ASP-1-0.863-0.92217.455-15.987-15.9870.0000.0000.0000.000
173A194ARG10.8770.92817.21013.07913.0790.0000.0000.0000.000
174A195SER00.0310.01918.166-0.232-0.2320.0000.0000.0000.000
175A196LYS10.8890.94516.40815.43415.4340.0000.0000.0000.000
176A197PHE00.0230.0009.814-0.438-0.4380.0000.0000.0000.000
177A198TYR00.014-0.00614.415-0.933-0.9330.0000.0000.0000.000
178A199ARG10.8570.91516.75714.20414.2040.0000.0000.0000.000
179A200LEU0-0.055-0.01811.984-0.122-0.1220.0000.0000.0000.000
180A201ILE00.0200.00910.611-0.677-0.6770.0000.0000.0000.000
181A202GLU-1-0.752-0.86513.439-14.369-14.3690.0000.0000.0000.000
182A203ALA0-0.046-0.01815.3640.3740.3740.0000.0000.0000.000
183A204SER0-0.085-0.03911.839-0.648-0.6480.0000.0000.0000.000
184A205LEU0-0.008-0.00913.142-0.168-0.1680.0000.0000.0000.000
185A206TYR0-0.036-0.00915.7140.9560.9560.0000.0000.0000.000
186A207GLY00.0340.00218.314-0.395-0.3950.0000.0000.0000.000
187A208GLY0-0.040-0.01219.6160.3660.3660.0000.0000.0000.000
188A209ILE00.0070.01715.8800.1360.1360.0000.0000.0000.000
189A210SER00.0910.04215.511-1.246-1.2460.0000.0000.0000.000
190A211SER00.011-0.01212.635-1.274-1.2740.0000.0000.0000.000
191A212ALA00.0300.01111.127-2.460-2.4600.0000.0000.0000.000
192A213ILE00.0270.02610.778-1.981-1.9810.0000.0000.0000.000
193A214THR0-0.025-0.0198.120-2.213-2.2130.0000.0000.0000.000
194A215ARG10.7870.8754.72237.61837.727-0.001-0.004-0.1040.000
195A216SER00.0400.0135.859-5.736-5.7360.0000.0000.0000.000
196A217LEU0-0.0040.0026.433-3.259-3.2590.0000.0000.0000.000
197A218ARG10.9510.9782.58639.78442.1342.016-1.203-3.1630.002
198A219ASP-1-0.847-0.8951.801-81.345-82.88012.934-6.315-5.084-0.069
199A220TYR00.0350.0073.1635.5035.2730.0170.392-0.1790.000
200A221LEU0-0.033-0.0195.0516.1026.1020.0000.0000.0000.000
201A222LEU0-0.073-0.0063.859-10.391-9.9150.001-0.095-0.3810.000
202A223PRO0-0.0110.0002.567-15.896-13.6421.339-1.442-2.150-0.015
203A224GLU-1-0.870-0.9202.372-41.558-36.9083.779-3.715-4.713-0.021