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: LJ5Q9

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 OptH
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 -2389292.362122
FMO2-HF: Nuclear repulsion 2310022.68423
FMO2-HF: Total energy -79269.677892
FMO2-MP2: Total energy -79502.371593


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.
52.64467.73113.178-10.971-17.291-0.045
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 : 0.940 / q_NPA : 0.960
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].
3A6LYS10.9470.9503.40821.96423.7340.017-0.960-0.828-0.001
4A7PHE00.0210.0146.1162.7552.7550.0000.0000.0000.000
5A8ARG10.8220.9028.75819.38419.3840.0000.0000.0000.000
6A9SER00.003-0.01312.0541.2741.2740.0000.0000.0000.000
7A10LEU00.0140.03014.856-0.381-0.3810.0000.0000.0000.000
8A11THR00.0010.00216.9580.7440.7440.0000.0000.0000.000
9A12LEU0-0.048-0.01220.3960.0200.0200.0000.0000.0000.000
10A13ILE0-0.004-0.00423.5580.2850.2850.0000.0000.0000.000
11A14ASN0-0.021-0.05526.6160.1290.1290.0000.0000.0000.000
12A15TRP00.0280.01424.2680.1600.1600.0000.0000.0000.000
13A16ASN0-0.086-0.07328.9210.3400.3400.0000.0000.0000.000
14A17GLY00.0230.01830.438-0.179-0.1790.0000.0000.0000.000
15A18PHE0-0.057-0.04126.506-0.167-0.1670.0000.0000.0000.000
16A19PHE00.0440.03328.335-0.177-0.1770.0000.0000.0000.000
17A20ALA00.0750.02926.736-0.100-0.1000.0000.0000.0000.000
18A21ARG10.8750.96722.59213.21913.2190.0000.0000.0000.000
19A22THR00.0180.00018.874-0.028-0.0280.0000.0000.0000.000
20A23PHE0-0.024-0.01318.0370.5120.5120.0000.0000.0000.000
21A24ASP-1-0.797-0.88514.584-19.026-19.0260.0000.0000.0000.000
22A25LEU00.008-0.0298.612-0.323-0.3230.0000.0000.0000.000
23A26ASP-1-0.890-0.92313.124-21.008-21.0080.0000.0000.0000.000
24A27GLU-1-0.872-0.95115.311-14.456-14.4560.0000.0000.0000.000
25A28LEU0-0.064-0.03013.7230.7180.7180.0000.0000.0000.000
26A29VAL00.008-0.00412.8640.4760.4760.0000.0000.0000.000
27A30THR00.0200.01115.9030.9110.9110.0000.0000.0000.000
28A31THR0-0.075-0.04519.1261.0591.0590.0000.0000.0000.000
29A32LEU0-0.057-0.04115.8030.7400.7400.0000.0000.0000.000
30A33SER0-0.029-0.01217.1610.1450.1450.0000.0000.0000.000
31A34GLY00.0100.02919.7080.4750.4750.0000.0000.0000.000
32A35GLY0-0.010-0.01423.3350.1360.1360.0000.0000.0000.000
33A36ASN00.044-0.01825.400-0.609-0.6090.0000.0000.0000.000
34A37GLY0-0.0060.02126.9380.1000.1000.0000.0000.0000.000
35A38ALA00.0580.02227.734-0.333-0.3330.0000.0000.0000.000
36A39GLY00.0240.01627.273-0.209-0.2090.0000.0000.0000.000
37A40LYS10.9991.02221.45113.79013.7900.0000.0000.0000.000
38A41SER0-0.003-0.01023.009-0.485-0.4850.0000.0000.0000.000
39A42THR0-0.042-0.02624.560-0.083-0.0830.0000.0000.0000.000
40A43THR00.0270.01220.011-0.147-0.1470.0000.0000.0000.000
41A44MET0-0.0050.00818.643-0.715-0.7150.0000.0000.0000.000
42A45ALA0-0.0030.01620.013-0.390-0.3900.0000.0000.0000.000
43A46ALA00.0200.03421.734-0.208-0.2080.0000.0000.0000.000
44A47PHE00.0370.01912.197-0.246-0.2460.0000.0000.0000.000
45A48VAL00.0320.00217.224-0.712-0.7120.0000.0000.0000.000
46A49THR0-0.059-0.05318.3420.1950.1950.0000.0000.0000.000
47A50ALA00.0000.00717.7410.2710.2710.0000.0000.0000.000
48A51LEU00.0110.04612.241-0.309-0.3090.0000.0000.0000.000
49A52ILE0-0.037-0.01215.851-0.261-0.2610.0000.0000.0000.000
50A53PRO00.0120.03518.8200.6460.6460.0000.0000.0000.000
51A54ASP-1-0.800-0.92622.295-12.011-12.0110.0000.0000.0000.000
52A55LEU0-0.001-0.01524.186-0.052-0.0520.0000.0000.0000.000
53A56THR0-0.037-0.01126.5880.4590.4590.0000.0000.0000.000
54A57LEU0-0.085-0.04220.793-0.010-0.0100.0000.0000.0000.000
55A58LEU0-0.0370.02023.820-0.002-0.0020.0000.0000.0000.000
56A77LEU00.0680.02126.5890.1470.1470.0000.0000.0000.000
57A78HIS00.0870.03729.5200.0190.0190.0000.0000.0000.000
58A79GLY00.0090.01132.8900.0740.0740.0000.0000.0000.000
59A80LYS10.9330.97127.33211.29911.2990.0000.0000.0000.000
60A81LEU0-0.0090.02127.849-0.213-0.2130.0000.0000.0000.000
61A82LYS10.9290.97831.2249.2579.2570.0000.0000.0000.000
62A83ALA00.0290.01333.737-0.100-0.1000.0000.0000.0000.000
63A84GLY00.0290.01735.333-0.015-0.0150.0000.0000.0000.000
64A85VAL00.0050.00329.825-0.192-0.1920.0000.0000.0000.000
65A86CYS0-0.0230.02028.3930.0510.0510.0000.0000.0000.000
66A87TYR00.014-0.00323.941-0.181-0.1810.0000.0000.0000.000
67A88SER0-0.042-0.01920.769-0.065-0.0650.0000.0000.0000.000
68A89MET0-0.071-0.03918.850-0.019-0.0190.0000.0000.0000.000
69A90LEU00.0400.02712.942-0.207-0.2070.0000.0000.0000.000
70A91ASP-1-0.789-0.87814.458-17.856-17.8560.0000.0000.0000.000
71A92THR00.0580.0109.396-2.168-2.1680.0000.0000.0000.000
72A93ILE00.0420.0227.9372.4232.4230.0000.0000.0000.000
73A94ASN00.0090.0136.199-3.982-3.9820.0000.0000.0000.000
74A95SER00.0480.0242.6190.0700.9570.564-0.531-0.9190.001
75A96ARG10.9160.9624.42723.75023.9620.001-0.027-0.1850.000
76A97HIS0-0.038-0.0185.9542.1702.1700.0000.0000.0000.000
77A98GLN00.0030.0068.4221.3191.3190.0000.0000.0000.000
78A99ARG10.7470.86310.51514.23514.2350.0000.0000.0000.000
79A100VAL0-0.041-0.01912.0521.1091.1090.0000.0000.0000.000
80A101VAL0-0.018-0.00313.576-0.944-0.9440.0000.0000.0000.000
81A102VAL00.001-0.00314.6720.7030.7030.0000.0000.0000.000
82A103GLY00.0210.00016.799-0.363-0.3630.0000.0000.0000.000
83A104VAL00.0100.02419.6110.3030.3030.0000.0000.0000.000
84A105ARG10.8730.95223.08410.24310.2430.0000.0000.0000.000
85A106LEU0-0.056-0.05224.8980.0600.0600.0000.0000.0000.000
86A107GLN00.008-0.00728.4730.2220.2220.0000.0000.0000.000
87A108GLN0-0.0340.00532.3000.1950.1950.0000.0000.0000.000
88A109VAL0-0.017-0.01535.0810.1270.1270.0000.0000.0000.000
89A110ALA00.0500.02237.6540.0660.0660.0000.0000.0000.000
90A111GLY0-0.004-0.00141.117-0.051-0.0510.0000.0000.0000.000
91A112ARG10.8970.93238.4997.8627.8620.0000.0000.0000.000
92A113ASP-1-0.882-0.94538.105-8.059-8.0590.0000.0000.0000.000
93A114ARG10.9580.97336.0348.1498.1490.0000.0000.0000.000
94A115LYS10.9510.99134.6238.3288.3280.0000.0000.0000.000
95A116VAL00.0290.00930.0070.0930.0930.0000.0000.0000.000
96A117ASP-1-0.869-0.92531.807-9.987-9.9870.0000.0000.0000.000
97A118ILE0-0.017-0.01925.169-0.156-0.1560.0000.0000.0000.000
98A119LYS10.9120.97726.87510.36810.3680.0000.0000.0000.000
99A120PRO00.0130.00621.709-0.155-0.1550.0000.0000.0000.000
100A121PHE0-0.023-0.02621.4670.5460.5460.0000.0000.0000.000
101A122ALA0-0.0010.00017.852-0.800-0.8000.0000.0000.0000.000
102A123ILE00.0030.00418.3850.7530.7530.0000.0000.0000.000
103A124GLN00.008-0.01215.756-0.591-0.5910.0000.0000.0000.000
104A125GLY00.0760.02816.8940.6550.6550.0000.0000.0000.000
105A126LEU0-0.0030.02518.4680.4860.4860.0000.0000.0000.000
106A127PRO00.0900.03918.415-0.802-0.8020.0000.0000.0000.000
107A128MET00.008-0.01413.390-0.001-0.0010.0000.0000.0000.000
108A129SER0-0.0090.01418.813-0.124-0.1240.0000.0000.0000.000
109A130VAL00.0080.01921.6960.4100.4100.0000.0000.0000.000
110A131GLN00.0280.01420.627-1.081-1.0810.0000.0000.0000.000
111A132PRO00.0590.01018.8180.5780.5780.0000.0000.0000.000
112A133THR00.0530.02021.7160.3940.3940.0000.0000.0000.000
113A134GLN00.0570.03924.806-0.019-0.0190.0000.0000.0000.000
114A135LEU0-0.051-0.01422.1440.3620.3620.0000.0000.0000.000
115A136VAL00.0270.01125.1370.4000.4000.0000.0000.0000.000
116A137THR0-0.081-0.04227.0340.3860.3860.0000.0000.0000.000
117A138GLU-1-0.861-0.94730.077-8.556-8.5560.0000.0000.0000.000
118A139THR0-0.025-0.02032.6680.1080.1080.0000.0000.0000.000
119A140LEU00.0060.01835.2140.0430.0430.0000.0000.0000.000
120A141ASN00.010-0.00538.392-0.080-0.0800.0000.0000.0000.000
121A142GLU-1-0.867-0.91740.106-6.987-6.9870.0000.0000.0000.000
122A143ARG10.8740.94339.3257.1437.1430.0000.0000.0000.000
123A144GLN00.0210.01737.622-0.021-0.0210.0000.0000.0000.000
124A145ALA0-0.058-0.04332.964-0.040-0.0400.0000.0000.0000.000
125A146ARG10.8710.91734.4038.5838.5830.0000.0000.0000.000
126A147VAL0-0.039-0.02629.560-0.209-0.2090.0000.0000.0000.000
127A148LEU00.0070.02229.8070.2420.2420.0000.0000.0000.000
128A149PRO00.0480.02530.669-0.376-0.3760.0000.0000.0000.000
129A150LEU00.008-0.03026.481-0.046-0.0460.0000.0000.0000.000
130A151ASN0-0.0070.00330.139-0.313-0.3130.0000.0000.0000.000
131A152GLU-1-0.749-0.86032.746-8.584-8.5840.0000.0000.0000.000
132A153LEU0-0.038-0.00224.873-0.104-0.1040.0000.0000.0000.000
133A154LYS10.8790.93028.2499.5739.5730.0000.0000.0000.000
134A155ASP-1-0.864-0.93629.293-8.941-8.9410.0000.0000.0000.000
135A156LYS10.8490.91927.89210.38610.3860.0000.0000.0000.000
136A157LEU0-0.058-0.05223.867-0.212-0.2120.0000.0000.0000.000
137A158GLU-1-0.862-0.91527.050-10.322-10.3220.0000.0000.0000.000
138A159ALA0-0.050-0.02129.2300.0670.0670.0000.0000.0000.000
139A160MET0-0.114-0.04725.797-0.198-0.1980.0000.0000.0000.000
140A161GLU-1-0.857-0.92626.146-10.039-10.0390.0000.0000.0000.000
141A162GLY0-0.012-0.00923.148-0.316-0.3160.0000.0000.0000.000
142A163VAL0-0.069-0.03221.744-0.699-0.6990.0000.0000.0000.000
143A164GLN00.0030.00519.9110.5880.5880.0000.0000.0000.000
144A165PHE00.0280.00921.165-0.567-0.5670.0000.0000.0000.000
145A166LYS10.9220.97120.38513.65513.6550.0000.0000.0000.000
146A167GLN00.0420.01823.115-0.283-0.2830.0000.0000.0000.000
147A168PHE0-0.010-0.00620.5980.0440.0440.0000.0000.0000.000
148A169ASN00.020-0.01125.6350.1770.1770.0000.0000.0000.000
149A170SER00.0370.03925.6720.0580.0580.0000.0000.0000.000
150A171ILE00.0330.00921.214-0.396-0.3960.0000.0000.0000.000
151A172THR00.012-0.00221.386-0.694-0.6940.0000.0000.0000.000
152A173ASP-1-0.893-0.94421.074-12.877-12.8770.0000.0000.0000.000
153A174TYR0-0.102-0.07817.836-0.507-0.5070.0000.0000.0000.000
154A175HIS0-0.021-0.05616.490-0.384-0.3840.0000.0000.0000.000
155A176SER0-0.027-0.00516.280-1.209-1.2090.0000.0000.0000.000
156A177LEU00.0490.04516.386-0.568-0.5680.0000.0000.0000.000
157A178MET00.005-0.00512.735-0.590-0.5900.0000.0000.0000.000
158A179PHE0-0.064-0.02411.464-1.562-1.5620.0000.0000.0000.000
159A180ASP-1-0.880-0.93711.621-18.460-18.4600.0000.0000.0000.000
160A181LEU0-0.083-0.04811.747-0.390-0.3900.0000.0000.0000.000
161A182GLY00.0190.0267.735-0.897-0.8970.0000.0000.0000.000
162A183ILE0-0.024-0.0187.153-3.676-3.6760.0000.0000.0000.000
163A184ILE0-0.016-0.0078.683-2.390-2.3900.0000.0000.0000.000
164A185ALA00.0390.0186.0501.2101.2100.0000.0000.0000.000
165A186ARG10.9180.9758.13225.88125.8810.0000.0000.0000.000
166A187ARG10.9770.97611.34118.92218.9220.0000.0000.0000.000
167A188LEU0-0.032-0.00714.3300.4930.4930.0000.0000.0000.000
168A189ARG10.9910.98617.17415.75115.7510.0000.0000.0000.000
169A190SER00.0220.01820.6540.7700.7700.0000.0000.0000.000
170A191ALA00.0810.01421.403-0.552-0.5520.0000.0000.0000.000
171A192SER0-0.0050.01222.467-0.423-0.4230.0000.0000.0000.000
172A193ASP-1-0.860-0.93717.876-15.839-15.8390.0000.0000.0000.000
173A194ARG10.8890.94317.58812.71412.7140.0000.0000.0000.000
174A195SER00.0630.03418.612-0.271-0.2710.0000.0000.0000.000
175A196LYS10.9270.97016.12615.26715.2670.0000.0000.0000.000
176A197PHE00.011-0.01110.375-0.424-0.4240.0000.0000.0000.000
177A198TYR00.0410.01114.822-1.001-1.0010.0000.0000.0000.000
178A199ARG10.9660.97617.16713.32113.3210.0000.0000.0000.000
179A200LEU0-0.072-0.02011.727-0.021-0.0210.0000.0000.0000.000
180A201ILE00.0140.00911.208-0.697-0.6970.0000.0000.0000.000
181A202GLU-1-0.855-0.93913.849-14.339-14.3390.0000.0000.0000.000
182A203ALA0-0.047-0.02015.4870.3220.3220.0000.0000.0000.000
183A204SER0-0.091-0.04712.073-0.591-0.5910.0000.0000.0000.000
184A205LEU0-0.011-0.01013.529-0.244-0.2440.0000.0000.0000.000
185A206TYR0-0.033-0.01216.0700.9710.9710.0000.0000.0000.000
186A207GLY00.025-0.00318.521-0.394-0.3940.0000.0000.0000.000
187A208GLY0-0.037-0.00919.8210.3530.3530.0000.0000.0000.000
188A209ILE00.0050.01815.4990.1000.1000.0000.0000.0000.000
189A210SER00.1020.03715.525-1.522-1.5220.0000.0000.0000.000
190A211SER0-0.004-0.01911.732-1.251-1.2510.0000.0000.0000.000
191A212ALA00.0410.01710.735-2.526-2.5260.0000.0000.0000.000
192A213ILE00.0290.02910.949-1.768-1.7680.0000.0000.0000.000
193A214THR0-0.013-0.0058.113-2.118-2.1180.0000.0000.0000.000
194A215ARG10.8320.9182.28548.43149.9280.381-0.712-1.1660.005
195A216SER00.0530.0246.002-5.371-5.3710.0000.0000.0000.000
196A217LEU00.0110.0076.885-2.683-2.6830.0000.0000.0000.000
197A218ARG10.9080.9612.62346.00146.2155.605-1.260-4.5580.007
198A219ASP-1-0.942-0.9842.442-66.288-62.9481.701-2.423-2.618-0.028
199A220TYR00.0420.0223.4233.6673.7700.0120.054-0.1690.000
200A221LEU0-0.053-0.0315.7055.2775.2770.0000.0000.0000.000
201A222LEU0-0.085-0.0034.057-8.107-7.819-0.001-0.033-0.2540.000
202A223PRO0-0.008-0.0012.667-15.846-13.5400.783-1.272-1.816-0.013
203A224GLU-1-0.935-0.9692.390-41.466-36.9964.115-3.807-4.778-0.016