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: M3KRZ

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 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 203
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2390488.380356
FMO2-HF: Nuclear repulsion 2311216.314144
FMO2-HF: Total energy -79272.066212
FMO2-MP2: Total energy -79504.578923


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.
2.82212.96825.053-15.494-19.706-0.153
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 : 0.879 / q_NPA : 0.921
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].
3A6LYS10.8820.9413.09819.73122.0730.097-1.282-1.157-0.003
4A7PHE00.0470.0215.9583.2483.2480.0000.0000.0000.000
5A8ARG10.8500.9148.55318.92218.9220.0000.0000.0000.000
6A9SER00.030-0.00111.9240.8510.8510.0000.0000.0000.000
7A10LEU0-0.0060.02014.412-0.336-0.3360.0000.0000.0000.000
8A11THR0-0.029-0.01316.4460.7890.7890.0000.0000.0000.000
9A12LEU0-0.0330.00819.912-0.042-0.0420.0000.0000.0000.000
10A13ILE00.0080.00023.0020.3270.3270.0000.0000.0000.000
11A14ASN0-0.003-0.03326.3620.0940.0940.0000.0000.0000.000
12A15TRP00.0330.00723.9320.1470.1470.0000.0000.0000.000
13A16ASN0-0.091-0.05228.7010.4030.4030.0000.0000.0000.000
14A17GLY00.0320.01129.788-0.157-0.1570.0000.0000.0000.000
15A18PHE0-0.047-0.02725.675-0.086-0.0860.0000.0000.0000.000
16A19PHE00.0340.02428.069-0.218-0.2180.0000.0000.0000.000
17A20ALA00.0520.00826.468-0.109-0.1090.0000.0000.0000.000
18A21ARG10.7690.85621.58313.46213.4620.0000.0000.0000.000
19A22THR00.0090.00118.595-0.174-0.1740.0000.0000.0000.000
20A23PHE00.0110.00718.0250.6230.6230.0000.0000.0000.000
21A24ASP-1-0.810-0.89714.729-18.490-18.4900.0000.0000.0000.000
22A25LEU0-0.036-0.0277.560-0.369-0.3690.0000.0000.0000.000
23A26ASP-1-0.833-0.90912.282-21.403-21.4030.0000.0000.0000.000
24A27GLU-1-0.770-0.85414.239-13.435-13.4350.0000.0000.0000.000
25A28LEU0-0.057-0.00413.1080.7930.7930.0000.0000.0000.000
26A29VAL00.0400.00411.7790.5000.5000.0000.0000.0000.000
27A30THR0-0.0100.00514.9290.8600.8600.0000.0000.0000.000
28A31THR0-0.065-0.05118.3710.9730.9730.0000.0000.0000.000
29A32LEU0-0.013-0.02316.1720.7540.7540.0000.0000.0000.000
30A33SER0-0.016-0.02117.3260.0290.0290.0000.0000.0000.000
31A34GLY00.0100.01919.4620.5660.5660.0000.0000.0000.000
32A35GLY00.0480.02423.074-0.007-0.0070.0000.0000.0000.000
33A36ASN00.008-0.00424.825-0.575-0.5750.0000.0000.0000.000
34A37GLY00.0380.02426.6420.2760.2760.0000.0000.0000.000
35A38ALA00.015-0.00627.189-0.408-0.4080.0000.0000.0000.000
36A39GLY00.0530.03126.719-0.238-0.2380.0000.0000.0000.000
37A40LYS10.8950.96821.24713.59213.5920.0000.0000.0000.000
38A41SER00.0100.01422.648-0.421-0.4210.0000.0000.0000.000
39A42THR0-0.033-0.03524.312-0.164-0.1640.0000.0000.0000.000
40A43THR00.0230.00619.375-0.220-0.2200.0000.0000.0000.000
41A44MET00.0000.00418.429-0.717-0.7170.0000.0000.0000.000
42A45ALA00.0130.01119.598-0.467-0.4670.0000.0000.0000.000
43A46ALA00.0150.02021.363-0.207-0.2070.0000.0000.0000.000
44A47PHE00.0290.02211.642-0.213-0.2130.0000.0000.0000.000
45A48VAL00.0210.00616.674-0.740-0.7400.0000.0000.0000.000
46A49THR0-0.027-0.03218.0080.1000.1000.0000.0000.0000.000
47A50ALA0-0.0050.00617.4510.2480.2480.0000.0000.0000.000
48A51LEU00.0100.02712.068-0.455-0.4550.0000.0000.0000.000
49A52ILE0-0.047-0.01815.554-0.392-0.3920.0000.0000.0000.000
50A53PRO00.0050.03218.4940.7260.7260.0000.0000.0000.000
51A54ASP-1-0.797-0.89621.916-12.298-12.2980.0000.0000.0000.000
52A55LEU00.020-0.00923.817-0.040-0.0400.0000.0000.0000.000
53A56THR0-0.068-0.03826.1440.4330.4330.0000.0000.0000.000
54A57LEU0-0.079-0.03121.079-0.043-0.0430.0000.0000.0000.000
55A58LEU0-0.0100.01523.2340.1160.1160.0000.0000.0000.000
56A77LEU00.0480.01726.3090.1280.1280.0000.0000.0000.000
57A78HIS00.0490.03229.2550.0120.0120.0000.0000.0000.000
58A79GLY00.0490.02132.5970.0870.0870.0000.0000.0000.000
59A80LYS10.8610.93626.43811.32111.3210.0000.0000.0000.000
60A81LEU0-0.0090.02227.618-0.264-0.2640.0000.0000.0000.000
61A82LYS10.8890.93631.0129.5409.5400.0000.0000.0000.000
62A83ALA00.0390.02133.968-0.104-0.1040.0000.0000.0000.000
63A84GLY00.0440.02435.354-0.041-0.0410.0000.0000.0000.000
64A85VAL0-0.006-0.01129.713-0.175-0.1750.0000.0000.0000.000
65A86CYS0-0.0380.01028.3890.1040.1040.0000.0000.0000.000
66A87TYR00.013-0.02423.679-0.219-0.2190.0000.0000.0000.000
67A88SER0-0.049-0.03120.252-0.004-0.0040.0000.0000.0000.000
68A89MET0-0.034-0.00918.424-0.031-0.0310.0000.0000.0000.000
69A90LEU00.0300.01113.031-0.150-0.1500.0000.0000.0000.000
70A91ASP-1-0.733-0.84013.974-18.165-18.1650.0000.0000.0000.000
71A92THR0-0.001-0.0118.328-2.410-2.4100.0000.0000.0000.000
72A93ILE00.0230.0247.7922.3292.3290.0000.0000.0000.000
73A94ASN0-0.020-0.0246.125-3.755-3.7550.0000.0000.0000.000
74A95SER00.014-0.0292.3671.1641.7461.551-0.875-1.2580.001
75A96ARG10.7980.8983.51129.55229.8110.0010.002-0.2620.000
76A97HIS00.0140.0025.4923.4453.4450.0000.0000.0000.000
77A98GLN00.0350.0338.0430.8810.8810.0000.0000.0000.000
78A99ARG10.7270.82710.41914.67914.6790.0000.0000.0000.000
79A100VAL0-0.047-0.03011.6931.1121.1120.0000.0000.0000.000
80A101VAL0-0.037-0.01013.140-0.842-0.8420.0000.0000.0000.000
81A102VAL00.0130.00213.7660.6120.6120.0000.0000.0000.000
82A103GLY00.0250.00416.152-0.370-0.3700.0000.0000.0000.000
83A104VAL00.0050.01619.0950.3350.3350.0000.0000.0000.000
84A105ARG10.8580.93422.68310.47010.4700.0000.0000.0000.000
85A106LEU0-0.069-0.03224.2840.0450.0450.0000.0000.0000.000
86A107GLN00.0370.01128.0870.0630.0630.0000.0000.0000.000
87A108GLN00.0440.03531.9470.2390.2390.0000.0000.0000.000
88A109VAL0-0.032-0.01834.8630.0280.0280.0000.0000.0000.000
89A110ALA00.0380.01537.5370.1010.1010.0000.0000.0000.000
90A111GLY00.0220.01540.639-0.059-0.0590.0000.0000.0000.000
91A112ARG10.8260.90038.0777.9447.9440.0000.0000.0000.000
92A113ASP-1-0.838-0.94237.423-8.153-8.1530.0000.0000.0000.000
93A114ARG10.9570.98636.3478.2138.2130.0000.0000.0000.000
94A115LYS10.8980.96533.9249.0019.0010.0000.0000.0000.000
95A116VAL00.0170.00829.6300.0690.0690.0000.0000.0000.000
96A117ASP-1-0.873-0.93131.519-9.894-9.8940.0000.0000.0000.000
97A118ILE00.012-0.00924.878-0.146-0.1460.0000.0000.0000.000
98A119LYS10.8810.95626.56010.94510.9450.0000.0000.0000.000
99A120PRO00.0240.01121.307-0.140-0.1400.0000.0000.0000.000
100A121PHE0-0.019-0.02421.2420.5980.5980.0000.0000.0000.000
101A122ALA00.0000.00217.393-0.828-0.8280.0000.0000.0000.000
102A123ILE00.0040.00117.8900.8890.8890.0000.0000.0000.000
103A124GLN00.0410.02015.531-0.677-0.6770.0000.0000.0000.000
104A125GLY00.0760.03316.1380.7890.7890.0000.0000.0000.000
105A126LEU00.0050.02217.6660.5390.5390.0000.0000.0000.000
106A127PRO00.1010.04518.237-0.796-0.7960.0000.0000.0000.000
107A128MET00.000-0.00813.2880.0180.0180.0000.0000.0000.000
108A129SER00.0060.01618.850-0.206-0.2060.0000.0000.0000.000
109A130VAL00.0050.01621.9040.3830.3830.0000.0000.0000.000
110A131GLN00.0200.00420.169-1.088-1.0880.0000.0000.0000.000
111A132PRO00.0410.00417.9650.5690.5690.0000.0000.0000.000
112A133THR00.0350.01520.9170.3690.3690.0000.0000.0000.000
113A134GLN00.0690.05024.122-0.057-0.0570.0000.0000.0000.000
114A135LEU0-0.0050.01922.2810.3800.3800.0000.0000.0000.000
115A136VAL00.0220.01124.1590.3710.3710.0000.0000.0000.000
116A137THR0-0.074-0.04726.3600.4460.4460.0000.0000.0000.000
117A138GLU-1-0.825-0.91329.436-8.645-8.6450.0000.0000.0000.000
118A139THR0-0.012-0.02332.141-0.033-0.0330.0000.0000.0000.000
119A140LEU00.0430.03134.6300.0300.0300.0000.0000.0000.000
120A141ASN00.006-0.01037.866-0.067-0.0670.0000.0000.0000.000
121A142GLU-1-0.841-0.88640.007-6.933-6.9330.0000.0000.0000.000
122A143ARG10.8320.90439.0097.1787.1780.0000.0000.0000.000
123A144GLN0-0.035-0.01636.641-0.009-0.0090.0000.0000.0000.000
124A145ALA00.002-0.00132.550-0.051-0.0510.0000.0000.0000.000
125A146ARG10.7850.86533.8858.6958.6950.0000.0000.0000.000
126A147VAL0-0.012-0.01829.113-0.291-0.2910.0000.0000.0000.000
127A148LEU00.0220.02629.4860.2770.2770.0000.0000.0000.000
128A149PRO00.0250.02030.121-0.420-0.4200.0000.0000.0000.000
129A150LEU00.014-0.01526.043-0.072-0.0720.0000.0000.0000.000
130A151ASN0-0.0170.00629.615-0.324-0.3240.0000.0000.0000.000
131A152GLU-1-0.725-0.84131.911-8.769-8.7690.0000.0000.0000.000
132A153LEU0-0.054-0.01724.544-0.125-0.1250.0000.0000.0000.000
133A154LYS10.7970.88127.9229.9779.9770.0000.0000.0000.000
134A155ASP-1-0.866-0.94728.943-9.252-9.2520.0000.0000.0000.000
135A156LYS10.7880.89427.97710.59110.5910.0000.0000.0000.000
136A157LEU0-0.044-0.03923.630-0.303-0.3030.0000.0000.0000.000
137A158GLU-1-0.803-0.88726.984-10.630-10.6300.0000.0000.0000.000
138A159ALA0-0.0200.00529.2100.0930.0930.0000.0000.0000.000
139A160MET0-0.097-0.03625.153-0.187-0.1870.0000.0000.0000.000
140A161GLU-1-0.865-0.93425.504-10.424-10.4240.0000.0000.0000.000
141A162GLY0-0.012-0.00122.492-0.308-0.3080.0000.0000.0000.000
142A163VAL0-0.086-0.03821.053-0.732-0.7320.0000.0000.0000.000
143A164GLN00.0260.02420.3470.1610.1610.0000.0000.0000.000
144A165PHE00.0360.00920.896-0.665-0.6650.0000.0000.0000.000
145A166LYS10.8530.91519.46914.73014.7300.0000.0000.0000.000
146A167GLN00.0510.03022.630-0.377-0.3770.0000.0000.0000.000
147A168PHE00.0090.00219.885-0.086-0.0860.0000.0000.0000.000
148A169ASN00.031-0.00325.1870.1350.1350.0000.0000.0000.000
149A170SER0-0.007-0.01825.1610.1600.1600.0000.0000.0000.000
150A171ILE00.016-0.00520.598-0.435-0.4350.0000.0000.0000.000
151A172THR00.0180.00120.599-0.787-0.7870.0000.0000.0000.000
152A173ASP-1-0.830-0.87220.527-13.489-13.4890.0000.0000.0000.000
153A174TYR0-0.068-0.04017.913-0.574-0.5740.0000.0000.0000.000
154A175HIS00.009-0.03815.397-0.395-0.3950.0000.0000.0000.000
155A176SER0-0.075-0.03415.669-1.369-1.3690.0000.0000.0000.000
156A177LEU00.0420.02315.635-0.922-0.9220.0000.0000.0000.000
157A178MET0-0.010-0.00213.007-0.699-0.6990.0000.0000.0000.000
158A179PHE0-0.024-0.00210.408-2.107-2.1070.0000.0000.0000.000
159A180ASP-1-0.769-0.85210.836-20.960-20.9600.0000.0000.0000.000
160A181LEU0-0.035-0.00911.261-0.313-0.3130.0000.0000.0000.000
161A182GLY00.0090.0167.211-0.990-0.9900.0000.0000.0000.000
162A183ILE00.001-0.0116.726-3.708-3.7080.0000.0000.0000.000
163A184ILE0-0.024-0.0108.486-2.132-2.1320.0000.0000.0000.000
164A185ALA00.0050.0025.5470.7250.7250.0000.0000.0000.000
165A186ARG10.9110.9577.49128.39328.3930.0000.0000.0000.000
166A187ARG10.8330.89211.10220.31820.3180.0000.0000.0000.000
167A188LEU0-0.022-0.01113.8641.0061.0060.0000.0000.0000.000
168A189ARG11.0051.00216.69916.83316.8330.0000.0000.0000.000
169A190SER00.011-0.00420.1200.8830.8830.0000.0000.0000.000
170A191ALA00.0970.03820.906-0.599-0.5990.0000.0000.0000.000
171A192SER00.0750.05822.234-0.430-0.4300.0000.0000.0000.000
172A193ASP-1-0.846-0.90217.257-16.229-16.2290.0000.0000.0000.000
173A194ARG10.8670.92717.26413.32913.3290.0000.0000.0000.000
174A195SER00.014-0.00518.420-0.191-0.1910.0000.0000.0000.000
175A196LYS10.8210.90016.48415.53015.5300.0000.0000.0000.000
176A197PHE00.016-0.00510.040-0.479-0.4790.0000.0000.0000.000
177A198TYR00.019-0.00714.840-0.808-0.8080.0000.0000.0000.000
178A199ARG10.8270.89717.36914.10314.1030.0000.0000.0000.000
179A200LEU0-0.013-0.00312.474-0.064-0.0640.0000.0000.0000.000
180A201ILE00.0130.01411.227-0.867-0.8670.0000.0000.0000.000
181A202GLU-1-0.711-0.82514.051-14.126-14.1260.0000.0000.0000.000
182A203ALA0-0.040-0.01415.6720.3440.3440.0000.0000.0000.000
183A204SER0-0.088-0.03712.108-0.789-0.7890.0000.0000.0000.000
184A205LEU0-0.013-0.01113.491-0.353-0.3530.0000.0000.0000.000
185A206TYR0-0.038-0.03216.4670.9100.9100.0000.0000.0000.000
186A207GLY00.001-0.00418.760-0.520-0.5200.0000.0000.0000.000
187A208GLY00.0040.00419.8500.3760.3760.0000.0000.0000.000
188A209ILE00.0080.00916.168-0.031-0.0310.0000.0000.0000.000
189A210SER00.0600.03915.742-1.399-1.3990.0000.0000.0000.000
190A211SER00.0170.00112.927-1.289-1.2890.0000.0000.0000.000
191A212ALA00.0120.00611.507-2.230-2.2300.0000.0000.0000.000
192A213ILE00.0350.02510.997-2.136-2.1360.0000.0000.0000.000
193A214THR0-0.037-0.0378.931-2.285-2.2850.0000.0000.0000.000
194A215ARG10.8070.9006.25934.47234.4720.0000.0000.0000.000
195A216SER00.0600.0206.053-6.216-6.2160.0000.0000.0000.000
196A217LEU0-0.006-0.0126.796-3.333-3.3330.0000.0000.0000.000
197A218ARG10.9270.9762.46239.74541.7791.366-1.012-2.389-0.001
198A219ASP-1-0.808-0.8871.794-87.803-90.78515.755-7.086-5.687-0.091
199A220TYR0-0.015-0.0153.2945.5185.6100.0090.062-0.163-0.001
200A221LEU0-0.019-0.0115.5445.3625.3620.0000.0000.0000.000
201A222LEU0-0.057-0.0103.387-9.914-9.3320.013-0.107-0.4880.000
202A223PRO0-0.018-0.0012.589-16.863-14.8062.517-1.718-2.856-0.018
203A224GLU-1-0.796-0.8672.354-55.850-50.6703.744-3.478-5.446-0.040