FMODB

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

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: Z68RN

Calculation Name: 4F15-G-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4F15

Chain ID: G

ChEMBL ID:

UniProt ID: C5MQE6

Base Structure: X-ray

Registration Date: 2023-09-19

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:

Apendix: None


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 225
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2767057.051615
FMO2-HF: Nuclear repulsion 2677770.172994
FMO2-HF: Total energy -89286.878622
FMO2-MP2: Total energy -89547.870896


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(G:43:LYS)


Summations of interaction energy for fragment #1(G:43:LYS)
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.
9.72311.035-0.015-0.557-0.7390.001
Interaction energy analysis for fragmet #1(G:43:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.987 / q_NPA : 0.966
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].
3G45ARG10.9650.9793.85329.42530.737-0.015-0.557-0.7390.001
4G46GLY00.0270.0146.706-0.074-0.0740.0000.0000.0000.000
5G47VAL00.0220.0119.192-0.454-0.4540.0000.0000.0000.000
6G48ALA00.0290.03310.7871.1231.1230.0000.0000.0000.000
7G49PRO0-0.026-0.01713.3800.0450.0450.0000.0000.0000.000
8G50LEU00.0060.00516.611-0.437-0.4370.0000.0000.0000.000
9G51HIS00.0550.02412.3810.5620.5620.0000.0000.0000.000
10G52LEU00.0220.00717.6750.6830.6830.0000.0000.0000.000
11G53GLY0-0.021-0.02819.366-0.160-0.1600.0000.0000.0000.000
12G54LYN0-0.065-0.02620.3640.0900.0900.0000.0000.0000.000
13G55CYS0-0.129-0.03922.8750.0820.0820.0000.0000.0000.000
14G56ASN00.0950.06221.810-0.230-0.2300.0000.0000.0000.000
15G57ILE00.0500.00020.5400.6220.6220.0000.0000.0000.000
16G58ALA0-0.0120.00624.2070.5010.5010.0000.0000.0000.000
17G59GLY00.0570.01926.7480.4540.4540.0000.0000.0000.000
18G60TRP0-0.026-0.02925.4580.3690.3690.0000.0000.0000.000
19G61ILE00.0000.00827.4930.3880.3880.0000.0000.0000.000
20G62LEU00.0040.01529.4710.4410.4410.0000.0000.0000.000
21G63GLY0-0.008-0.00831.0280.3590.3590.0000.0000.0000.000
22G64ASN0-0.037-0.05629.7130.5690.5690.0000.0000.0000.000
23G65PRO0-0.015-0.01131.267-0.192-0.1920.0000.0000.0000.000
24G66GLU-1-0.906-0.93327.818-10.770-10.7700.0000.0000.0000.000
25G68GLU-1-0.839-0.90628.769-9.109-9.1090.0000.0000.0000.000
26G69SER00.0220.00624.172-0.220-0.2200.0000.0000.0000.000
27G70LEU0-0.049-0.01119.7990.2620.2620.0000.0000.0000.000
28G71SER00.0020.00823.781-0.045-0.0450.0000.0000.0000.000
29G72THR00.0360.00725.942-0.048-0.0480.0000.0000.0000.000
30G73ALA0-0.012-0.00128.6560.2400.2400.0000.0000.0000.000
31G74SER0-0.061-0.03224.200-0.121-0.1210.0000.0000.0000.000
32G75SER0-0.006-0.02524.5710.2800.2800.0000.0000.0000.000
33G76TRP0-0.067-0.03919.504-0.184-0.1840.0000.0000.0000.000
34G77SER00.0070.00216.1550.1900.1900.0000.0000.0000.000
35G78TYR0-0.036-0.04710.552-0.358-0.3580.0000.0000.0000.000
36G79ILE00.0210.02517.1250.1590.1590.0000.0000.0000.000
37G80VAL0-0.0190.00012.705-1.049-1.0490.0000.0000.0000.000
38G81GLU-1-0.775-0.87215.698-13.721-13.7210.0000.0000.0000.000
39G82THR0-0.0120.00616.642-0.841-0.8410.0000.0000.0000.000
40G83SER00.0360.00817.3740.1550.1550.0000.0000.0000.000
41G84SER00.0050.00519.1960.4540.4540.0000.0000.0000.000
42G85SER0-0.008-0.03422.2280.3560.3560.0000.0000.0000.000
43G86ASP-1-0.917-0.93422.900-13.066-13.0660.0000.0000.0000.000
44G87ASN0-0.047-0.03125.5730.1570.1570.0000.0000.0000.000
45G88GLY00.0370.04626.5790.4550.4550.0000.0000.0000.000
46G89THR0-0.033-0.01227.4860.1200.1200.0000.0000.0000.000
47G90CYS0-0.045-0.01030.955-0.116-0.1160.0000.0000.0000.000
48G91TYR00.012-0.02733.1760.1720.1720.0000.0000.0000.000
49G92PRO00.0020.01234.407-0.182-0.1820.0000.0000.0000.000
50G93GLY00.016-0.01234.1140.3540.3540.0000.0000.0000.000
51G94ASP-1-0.896-0.92932.280-9.759-9.7590.0000.0000.0000.000
52G95PHE0-0.018-0.02029.4410.2600.2600.0000.0000.0000.000
53G96ILE0-0.022-0.01230.483-0.260-0.2600.0000.0000.0000.000
54G97ASP-1-0.824-0.93530.351-9.187-9.1870.0000.0000.0000.000
55G98TYR0-0.0030.01222.827-0.013-0.0130.0000.0000.0000.000
56G99GLU-1-0.804-0.91021.214-14.154-14.1540.0000.0000.0000.000
57G100GLU-1-0.928-0.95423.607-10.391-10.3910.0000.0000.0000.000
58G101LEU0-0.037-0.01025.758-0.069-0.0690.0000.0000.0000.000
59G102ARG10.8020.86217.57815.11115.1110.0000.0000.0000.000
60G103GLU-1-0.946-0.95919.693-14.448-14.4480.0000.0000.0000.000
61G104GLN0-0.050-0.01022.254-0.124-0.1240.0000.0000.0000.000
62G105LEU0-0.006-0.01023.7760.1490.1490.0000.0000.0000.000
63G106SER00.0040.00019.279-0.307-0.3070.0000.0000.0000.000
64G107SER0-0.008-0.02220.464-0.342-0.3420.0000.0000.0000.000
65G108VAL0-0.0170.00821.9650.4900.4900.0000.0000.0000.000
66G109SER00.013-0.02224.608-0.195-0.1950.0000.0000.0000.000
67G110SER0-0.021-0.00726.9720.2390.2390.0000.0000.0000.000
68G111PHE00.0220.00227.534-0.077-0.0770.0000.0000.0000.000
69G112GLU-1-0.838-0.88829.676-8.058-8.0580.0000.0000.0000.000
70G113ARG10.9350.98032.8008.7708.7700.0000.0000.0000.000
71G114PHE00.0270.02334.8850.1750.1750.0000.0000.0000.000
72G115GLU-1-0.767-0.86938.696-7.282-7.2820.0000.0000.0000.000
73G116ILE0-0.032-0.00140.3190.2000.2000.0000.0000.0000.000
74G117PHE0-0.033-0.01842.3810.2170.2170.0000.0000.0000.000
75G118PRO00.0420.02544.281-0.078-0.0780.0000.0000.0000.000
76G119LYS10.8820.94744.5356.7166.7160.0000.0000.0000.000
77G120THR00.0110.01046.5150.0690.0690.0000.0000.0000.000
78G121SER00.0330.00850.068-0.031-0.0310.0000.0000.0000.000
79G122SER0-0.043-0.02848.0600.0830.0830.0000.0000.0000.000
80G123TRP00.0740.00945.7730.0720.0720.0000.0000.0000.000
81G124PRO00.0140.00351.8780.0320.0320.0000.0000.0000.000
82G125ASN0-0.036-0.01955.1930.0550.0550.0000.0000.0000.000
83G126HIS00.0280.01851.8540.0590.0590.0000.0000.0000.000
84G127ASP-1-0.845-0.90851.689-6.062-6.0620.0000.0000.0000.000
85G128SER00.005-0.00849.165-0.115-0.1150.0000.0000.0000.000
86G129ASN0-0.056-0.04247.370-0.179-0.1790.0000.0000.0000.000
87G130LYS10.9030.93948.4356.1796.1790.0000.0000.0000.000
88G131GLY00.0250.02444.431-0.037-0.0370.0000.0000.0000.000
89G132VAL0-0.0660.00142.509-0.164-0.1640.0000.0000.0000.000
90G133THR00.036-0.00439.5920.1600.1600.0000.0000.0000.000
91G134ALA00.028-0.00440.341-0.134-0.1340.0000.0000.0000.000
92G135ALA00.0010.01237.208-0.134-0.1340.0000.0000.0000.000
93G137PRO00.0390.02235.2320.2330.2330.0000.0000.0000.000
94G138HIS00.0580.01135.582-0.286-0.2860.0000.0000.0000.000
95G139ALA00.0180.01736.4410.0880.0880.0000.0000.0000.000
96G140GLY0-0.011-0.01438.1690.1670.1670.0000.0000.0000.000
97G141ALA0-0.030-0.00641.788-0.013-0.0130.0000.0000.0000.000
98G142LYS10.9000.95840.9376.7256.7250.0000.0000.0000.000
99G143SER00.0210.01538.4570.2240.2240.0000.0000.0000.000
100G144PHE00.024-0.00738.6040.0510.0510.0000.0000.0000.000
101G145TYR00.019-0.00132.448-0.206-0.2060.0000.0000.0000.000
102G146LYS10.8270.90834.1689.0389.0380.0000.0000.0000.000
103G147ASN0-0.048-0.03632.4860.3500.3500.0000.0000.0000.000
104G148LEU0-0.0050.01535.5810.0930.0930.0000.0000.0000.000
105G149ILE0-0.030-0.02239.4290.0860.0860.0000.0000.0000.000
106G150TRP0-0.020-0.01141.849-0.041-0.0410.0000.0000.0000.000
107G151LEU0-0.031-0.00444.1920.1100.1100.0000.0000.0000.000
108G152VAL00.000-0.00647.826-0.038-0.0380.0000.0000.0000.000
109G153LYN0-0.023-0.00850.6120.0780.0780.0000.0000.0000.000
110G154LYS10.8750.94954.4485.4565.4560.0000.0000.0000.000
111G155GLY0-0.026-0.01556.5220.0730.0730.0000.0000.0000.000
112G156ASN00.0070.00658.7560.0260.0260.0000.0000.0000.000
113G157SER00.0210.00858.5870.0930.0930.0000.0000.0000.000
114G158TYR00.0070.02048.640-0.068-0.0680.0000.0000.0000.000
115G159PRO0-0.009-0.00555.6910.0070.0070.0000.0000.0000.000
116G160LYS10.8890.94154.4995.6245.6240.0000.0000.0000.000
117G161LEU0-0.0360.00648.6190.0590.0590.0000.0000.0000.000
118G162SER00.025-0.00351.198-0.045-0.0450.0000.0000.0000.000
119G163LYS10.9010.97347.5486.2846.2840.0000.0000.0000.000
120G164SER0-0.023-0.02947.159-0.002-0.0020.0000.0000.0000.000
121G165TYR0-0.0050.01141.3430.0180.0180.0000.0000.0000.000
122G166ILE00.018-0.00244.376-0.083-0.0830.0000.0000.0000.000
123G167ASN0-0.002-0.02338.7430.0680.0680.0000.0000.0000.000
124G168ASP-1-0.879-0.93342.807-6.754-6.7540.0000.0000.0000.000
125G169LYS10.8040.89938.1507.8517.8510.0000.0000.0000.000
126G170GLY00.006-0.00239.480-0.040-0.0400.0000.0000.0000.000
127G171LYS10.7790.87032.3928.7558.7550.0000.0000.0000.000
128G172GLU-1-0.711-0.84130.428-9.654-9.6540.0000.0000.0000.000
129G173VAL0-0.041-0.01634.151-0.145-0.1450.0000.0000.0000.000
130G174LEU0-0.0050.01929.9110.0910.0910.0000.0000.0000.000
131G175VAL0-0.029-0.02534.0610.1020.1020.0000.0000.0000.000
132G176LEU00.0400.00731.140-0.115-0.1150.0000.0000.0000.000
133G177TRP0-0.046-0.02435.7790.1990.1990.0000.0000.0000.000
134G178GLY00.0500.02237.325-0.250-0.2500.0000.0000.0000.000
135G179ILE0-0.044-0.01839.1480.2490.2490.0000.0000.0000.000
136G180HIS00.0440.01840.933-0.043-0.0430.0000.0000.0000.000
137G181HIS0-0.0100.00340.9120.2390.2390.0000.0000.0000.000
138G182PRO0-0.030-0.00944.045-0.128-0.1280.0000.0000.0000.000
139G183SER00.016-0.00246.303-0.079-0.0790.0000.0000.0000.000
140G184THR0-0.008-0.05347.3490.1150.1150.0000.0000.0000.000
141G185SER00.0460.00251.122-0.030-0.0300.0000.0000.0000.000
142G186ALA00.0490.03753.6430.0600.0600.0000.0000.0000.000
143G187ASP-1-0.760-0.83549.089-6.395-6.3950.0000.0000.0000.000
144G188GLN00.0160.00549.905-0.179-0.1790.0000.0000.0000.000
145G189GLN0-0.010-0.00151.6320.0060.0060.0000.0000.0000.000
146G190SER0-0.016-0.03453.5090.0880.0880.0000.0000.0000.000
147G191LEU0-0.041-0.00947.703-0.008-0.0080.0000.0000.0000.000
148G192TYR00.000-0.03246.053-0.035-0.0350.0000.0000.0000.000
149G193GLN0-0.0020.01552.7420.0030.0030.0000.0000.0000.000
150G194ASN0-0.083-0.03954.9500.1970.1970.0000.0000.0000.000
151G195ALA00.0320.00854.403-0.125-0.1250.0000.0000.0000.000
152G196ASP-1-0.946-0.95154.284-5.718-5.7180.0000.0000.0000.000
153G197ALA00.0560.01850.8090.0290.0290.0000.0000.0000.000
154G198TYR0-0.113-0.07849.367-0.033-0.0330.0000.0000.0000.000
155G199VAL00.0590.03744.4950.0260.0260.0000.0000.0000.000
156G200PHE0-0.043-0.03446.280-0.008-0.0080.0000.0000.0000.000
157G201VAL00.0520.02941.032-0.037-0.0370.0000.0000.0000.000
158G202GLY0-0.007-0.00144.4710.1020.1020.0000.0000.0000.000
159G203SER00.0290.01841.940-0.203-0.2030.0000.0000.0000.000
160G204SER0-0.047-0.05342.9160.1400.1400.0000.0000.0000.000
161G205ARG10.9040.95138.1107.4517.4510.0000.0000.0000.000
162G206TYR00.0510.02435.857-0.068-0.0680.0000.0000.0000.000
163G207SER0-0.043-0.01240.6380.2010.2010.0000.0000.0000.000
164G208LYS10.8850.96035.8048.4128.4120.0000.0000.0000.000
165G209LYS10.9370.95842.9666.5886.5880.0000.0000.0000.000
166G210PHE00.0260.02540.505-0.045-0.0450.0000.0000.0000.000
167G211LYS10.8280.88345.9216.4756.4750.0000.0000.0000.000
168G212PRO00.0230.03145.421-0.038-0.0380.0000.0000.0000.000
169G213GLU-1-0.825-0.89045.128-6.902-6.9020.0000.0000.0000.000
170G214ILE0-0.037-0.02046.372-0.170-0.1700.0000.0000.0000.000
171G215ALA00.0120.00745.9960.1180.1180.0000.0000.0000.000
172G216ILE00.0050.00545.458-0.150-0.1500.0000.0000.0000.000
173G217ARG10.8050.90840.6647.2617.2610.0000.0000.0000.000
174G218PRO00.0350.00437.9430.0520.0520.0000.0000.0000.000
175G219LYS10.8190.91739.1687.0527.0520.0000.0000.0000.000
176G220VAL00.0160.01233.990-0.174-0.1740.0000.0000.0000.000
177G221ARG10.8020.89330.2989.9389.9380.0000.0000.0000.000
178G222ASP-1-0.844-0.92437.255-7.174-7.1740.0000.0000.0000.000
179G223GLN0-0.0020.01939.6560.2490.2490.0000.0000.0000.000
180G224GLU-1-0.775-0.88740.387-7.275-7.2750.0000.0000.0000.000
181G225GLY0-0.0010.02142.8540.0370.0370.0000.0000.0000.000
182G226ARG10.8160.88436.7358.1108.1100.0000.0000.0000.000
183G227MET0-0.066-0.03437.9230.3180.3180.0000.0000.0000.000
184G228ASN00.0400.04136.108-0.216-0.2160.0000.0000.0000.000
185G229TYR00.0260.00833.2840.2860.2860.0000.0000.0000.000
186G230TYR00.005-0.00334.461-0.150-0.1500.0000.0000.0000.000
187G231TRP00.021-0.00429.3400.1750.1750.0000.0000.0000.000
188G232THR00.003-0.00234.0530.1060.1060.0000.0000.0000.000
189G233LEU00.0280.01731.369-0.092-0.0920.0000.0000.0000.000
190G234VAL0-0.044-0.01335.3780.2170.2170.0000.0000.0000.000
191G235GLU-1-0.806-0.91635.683-8.515-8.5150.0000.0000.0000.000
192G236PRO0-0.011-0.00837.8830.1870.1870.0000.0000.0000.000
193G237GLY0-0.022-0.00240.9650.1360.1360.0000.0000.0000.000
194G238ASP-1-0.820-0.86942.103-6.903-6.9030.0000.0000.0000.000
195G239LYS10.8680.91244.0666.3186.3180.0000.0000.0000.000
196G240ILE00.0120.03439.9460.0270.0270.0000.0000.0000.000
197G241THR0-0.048-0.04243.6050.0960.0960.0000.0000.0000.000
198G242PHE00.0320.01440.635-0.124-0.1240.0000.0000.0000.000
199G243GLU-1-0.822-0.90246.676-5.765-5.7650.0000.0000.0000.000
200G244ALA0-0.010-0.00848.225-0.154-0.1540.0000.0000.0000.000
201G245THR0-0.0010.00950.2400.0740.0740.0000.0000.0000.000
202G246GLY00.0760.03750.6140.1040.1040.0000.0000.0000.000
203G247ASN0-0.034-0.03546.0450.0590.0590.0000.0000.0000.000
204G248LEU0-0.0170.00443.374-0.187-0.1870.0000.0000.0000.000
205G249VAL0-0.042-0.01540.0530.1110.1110.0000.0000.0000.000
206G250VAL00.0050.00541.436-0.149-0.1490.0000.0000.0000.000
207G251PRO00.0730.03239.405-0.103-0.1030.0000.0000.0000.000
208G252ARG10.7410.86839.5877.6497.6490.0000.0000.0000.000
209G253TYR0-0.064-0.06836.4100.0710.0710.0000.0000.0000.000
210G254ALA0-0.012-0.00136.028-0.070-0.0700.0000.0000.0000.000
211G255PHE00.014-0.01230.972-0.015-0.0150.0000.0000.0000.000
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