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: P2L1R

Calculation Name: 4WTX-A-Xray40

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4WTX

Chain ID: A

ChEMBL ID:

UniProt ID: P16144

Base Structure: X-ray

Registration Date: 2019-02-15

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 202
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -902565.557085
FMO2-HF: Nuclear repulsion 857725.482875
FMO2-HF: Total energy -44840.07421
FMO2-MP2: Total energy -44967.7612


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:1569:ACE)


Summations of interaction energy for fragment #1(A:1569: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.
-0.0440.95-0.012-0.421-0.56-0.001
Interaction energy analysis for fragmet #1(A:1569:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.037 / q_NPA : 0.008
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].
3A1571MET00.0170.0113.8220.8021.796-0.012-0.421-0.560-0.001
4A1572SER00.0780.0726.0480.1310.1310.0000.0000.0000.000
5A1573ALA0-0.0220.0046.9700.1610.1610.0000.0000.0000.000
6A1574PRO00.0490.0338.8470.0740.0740.0000.0000.0000.000
7A1575GLY00.0320.0278.788-0.096-0.0960.0000.0000.0000.000
8A1576PRO0-0.089-0.0587.871-0.050-0.0500.0000.0000.0000.000
9A1577LEU00.0200.03510.1100.0120.0120.0000.0000.0000.000
10A1578VAL0-0.0020.01713.5370.0360.0360.0000.0000.0000.000
11A1579PHE00.001-0.00115.643-0.019-0.0190.0000.0000.0000.000
12A1580THR00.0090.02019.4590.0200.0200.0000.0000.0000.000
13A1581ALA00.0380.01922.889-0.009-0.0090.0000.0000.0000.000
14A1582LEU0-0.031-0.01225.4590.0050.0050.0000.0000.0000.000
15A1583SER0-0.009-0.01128.6510.0020.0020.0000.0000.0000.000
16A1584PRO00.0710.03429.399-0.001-0.0010.0000.0000.0000.000
17A1585ASP-1-0.778-0.83829.897-0.024-0.0240.0000.0000.0000.000
18A1586SER0-0.037-0.01827.617-0.006-0.0060.0000.0000.0000.000
19A1587LEU00.0320.02921.5880.0060.0060.0000.0000.0000.000
20A1588GLN0-0.014-0.00722.198-0.002-0.0020.0000.0000.0000.000
21A1589LEU0-0.0200.00716.2610.0040.0040.0000.0000.0000.000
22A1590SER00.0500.01417.458-0.002-0.0020.0000.0000.0000.000
23A1591TRP0-0.017-0.00613.2970.0000.0000.0000.0000.0000.000
24A1592GLU-1-0.833-0.91212.4830.0760.0760.0000.0000.0000.000
25A1593ARG10.8910.95512.8420.0430.0430.0000.0000.0000.000
26A1594PRO0-0.035-0.00310.3230.0360.0360.0000.0000.0000.000
27A1595ARG10.9470.9746.940-0.393-0.3930.0000.0000.0000.000
28A1596ARG10.8680.9239.0790.5540.5540.0000.0000.0000.000
29A1597PRO00.0280.02110.638-0.136-0.1360.0000.0000.0000.000
30A1598ASN0-0.050-0.00812.550-0.017-0.0170.0000.0000.0000.000
31A1599GLY00.1100.05414.160-0.002-0.0020.0000.0000.0000.000
32A1600ASP-1-0.835-0.92017.266-0.144-0.1440.0000.0000.0000.000
33A1601ILE0-0.001-0.01714.680-0.007-0.0070.0000.0000.0000.000
34A1602VAL0-0.0050.00319.1130.0230.0230.0000.0000.0000.000
35A1603GLY00.0150.01820.3010.0210.0210.0000.0000.0000.000
36A1604TYR0-0.040-0.02014.667-0.042-0.0420.0000.0000.0000.000
37A1605LEU0-0.046-0.00818.0110.0290.0290.0000.0000.0000.000
38A1606VAL00.0250.01417.697-0.029-0.0290.0000.0000.0000.000
39A1607THR0-0.019-0.01518.5250.0230.0230.0000.0000.0000.000
40A1608CYS0-0.0270.00719.155-0.007-0.0070.0000.0000.0000.000
41A1609GLU-1-0.724-0.78420.565-0.139-0.1390.0000.0000.0000.000
42A1610MET00.0210.02221.9040.0010.0010.0000.0000.0000.000
43A1611ALA00.020-0.00719.874-0.010-0.0100.0000.0000.0000.000
44A1612GLN0-0.065-0.03221.259-0.006-0.0060.0000.0000.0000.000
45A1613GLY0-0.022-0.00223.635-0.001-0.0010.0000.0000.0000.000
46A1614GLY0-0.008-0.01224.4640.0080.0080.0000.0000.0000.000
47A1615GLY00.0020.00626.6330.0050.0050.0000.0000.0000.000
48A1616PRO0-0.042-0.01027.099-0.008-0.0080.0000.0000.0000.000
49A1617ALA00.0420.03223.9970.0000.0000.0000.0000.0000.000
50A1618THR0-0.028-0.00724.5950.0070.0070.0000.0000.0000.000
51A1619ALA0-0.0010.00223.178-0.010-0.0100.0000.0000.0000.000
52A1620PHE0-0.005-0.00422.7440.0110.0110.0000.0000.0000.000
53A1621ARG10.9350.96222.3670.0870.0870.0000.0000.0000.000
54A1622VAL0-0.0070.00420.9340.0120.0120.0000.0000.0000.000
55A1623ASP-1-0.859-0.88422.796-0.107-0.1070.0000.0000.0000.000
56A1624GLY00.0720.03123.7440.0110.0110.0000.0000.0000.000
57A1625ASP-1-0.738-0.83618.337-0.154-0.1540.0000.0000.0000.000
58A1626SER00.0190.02319.4230.0190.0190.0000.0000.0000.000
59A1627PRO0-0.0290.00217.857-0.015-0.0150.0000.0000.0000.000
60A1628GLU-1-0.847-0.92016.6300.0010.0010.0000.0000.0000.000
61A1629SER0-0.030-0.01717.8430.0040.0040.0000.0000.0000.000
62A1630ARG10.9210.96119.0410.0290.0290.0000.0000.0000.000
63A1631LEU0-0.0200.01821.485-0.006-0.0060.0000.0000.0000.000
64A1632THR00.0370.02623.0220.0040.0040.0000.0000.0000.000
65A1633VAL0-0.0380.00122.230-0.007-0.0070.0000.0000.0000.000
66A1634PRO00.0010.00825.5600.0060.0060.0000.0000.0000.000
67A1635GLY00.0220.00128.120-0.006-0.0060.0000.0000.0000.000
68A1636LEU0-0.063-0.02124.616-0.003-0.0030.0000.0000.0000.000
69A1637SER00.0170.02828.0800.0010.0010.0000.0000.0000.000
70A1638GLU-1-0.696-0.80228.057-0.004-0.0040.0000.0000.0000.000
71A1639ASN0-0.064-0.02627.909-0.004-0.0040.0000.0000.0000.000
72A1640VAL0-0.043-0.01025.799-0.001-0.0010.0000.0000.0000.000
73A1641PRO00.0050.03521.408-0.003-0.0030.0000.0000.0000.000
74A1642TYR00.013-0.02021.668-0.012-0.0120.0000.0000.0000.000
75A1643LYS10.8640.93915.8890.1750.1750.0000.0000.0000.000
76A1644PHE00.023-0.00116.772-0.006-0.0060.0000.0000.0000.000
77A1645LYS10.8760.93314.3360.2780.2780.0000.0000.0000.000
78A1646VAL00.0070.00213.6280.0200.0200.0000.0000.0000.000
79A1647GLN00.0040.01512.953-0.039-0.0390.0000.0000.0000.000
80A1648ALA00.0470.01813.9060.0570.0570.0000.0000.0000.000
81A1649ARG10.8540.92115.7120.1340.1340.0000.0000.0000.000
82A1650THR0-0.023-0.01916.7130.0110.0110.0000.0000.0000.000
83A1651THR0-0.004-0.00119.614-0.002-0.0020.0000.0000.0000.000
84A1652GLU-1-0.933-0.95920.094-0.193-0.1930.0000.0000.0000.000
85A1653GLY00.0020.00719.7420.0000.0000.0000.0000.0000.000
86A1654PHE0-0.056-0.01516.7140.0120.0120.0000.0000.0000.000
87A1655GLY00.0120.01213.240-0.025-0.0250.0000.0000.0000.000
88A1656PRO0-0.094-0.0328.8370.0310.0310.0000.0000.0000.000
89A1657GLU-1-0.823-0.91510.926-0.534-0.5340.0000.0000.0000.000
90A1658ARG10.8030.9275.2080.0390.0390.0000.0000.0000.000
91A1659GLU-1-0.791-0.8699.965-0.200-0.2000.0000.0000.0000.000
92A1660GLY0-0.031-0.01711.1620.0210.0210.0000.0000.0000.000
93A1661ILE0-0.015-0.00413.798-0.012-0.0120.0000.0000.0000.000
94A1662ILE0-0.0150.00616.9350.0200.0200.0000.0000.0000.000
95A1663THR00.0310.01719.786-0.012-0.0120.0000.0000.0000.000
96A1664ILE0-0.038-0.00923.2800.0070.0070.0000.0000.0000.000
97A1665GLU-1-0.786-0.87725.9580.0090.0090.0000.0000.0000.000
98A1666SER-1-0.912-0.92828.7200.0120.0120.0000.0000.0000.000
99A1701HOH0-0.096-0.09425.068-0.001-0.0010.0000.0000.0000.000
100A1702HOH0-0.058-0.06820.290-0.010-0.0100.0000.0000.0000.000
101A1703HOH0-0.018-0.04133.407-0.001-0.0010.0000.0000.0000.000
102A1704HOH0-0.047-0.04923.365-0.003-0.0030.0000.0000.0000.000
103A1705HOH0-0.006-0.00724.5900.0010.0010.0000.0000.0000.000
104A1706HOH00.0310.02616.6200.0040.0040.0000.0000.0000.000
105A1707HOH0-0.001-0.01732.025-0.002-0.0020.0000.0000.0000.000
106A1708HOH0-0.019-0.00332.8960.0010.0010.0000.0000.0000.000
107A1709HOH00.0210.03423.714-0.001-0.0010.0000.0000.0000.000
108A1710HOH0-0.043-0.03919.630-0.004-0.0040.0000.0000.0000.000
109A1711HOH0-0.047-0.04234.3270.0000.0000.0000.0000.0000.000
110A1712HOH0-0.028-0.03022.0030.0060.0060.0000.0000.0000.000
111A1713HOH0-0.054-0.05923.483-0.001-0.0010.0000.0000.0000.000
112A1714HOH00.0290.03119.585-0.003-0.0030.0000.0000.0000.000
113A1715HOH0-0.054-0.04334.3160.0010.0010.0000.0000.0000.000
114A1716HOH0-0.048-0.03431.1730.0000.0000.0000.0000.0000.000
115A1717HOH0-0.040-0.03319.8440.0070.0070.0000.0000.0000.000
116A1718HOH0-0.009-0.01417.3690.0100.0100.0000.0000.0000.000
117A1719HOH0-0.011-0.01921.927-0.003-0.0030.0000.0000.0000.000
118A1720HOH0-0.004-0.00819.5260.0000.0000.0000.0000.0000.000
119A1721HOH0-0.049-0.06826.1490.0020.0020.0000.0000.0000.000
120A1722HOH0-0.027-0.02331.788-0.001-0.0010.0000.0000.0000.000
121A1723HOH00.001-0.00618.370-0.004-0.0040.0000.0000.0000.000
122A1724HOH0-0.024-0.02522.9910.0020.0020.0000.0000.0000.000
123A1725HOH0-0.023-0.02019.8680.0050.0050.0000.0000.0000.000
124A1726HOH0-0.026-0.02313.4550.0150.0150.0000.0000.0000.000
125A1727HOH00.0380.03016.464-0.009-0.0090.0000.0000.0000.000
126A1728HOH0-0.013-0.01110.1390.0120.0120.0000.0000.0000.000
127A1729HOH00.0170.00725.5210.0020.0020.0000.0000.0000.000
128A1730HOH0-0.015-0.01527.323-0.003-0.0030.0000.0000.0000.000
129A1731HOH0-0.015-0.01728.800-0.001-0.0010.0000.0000.0000.000
130A1732HOH0-0.027-0.02914.2960.0050.0050.0000.0000.0000.000
131A1733HOH0-0.015-0.01523.2760.0030.0030.0000.0000.0000.000
132A1734HOH0-0.040-0.02731.4720.0000.0000.0000.0000.0000.000
133A1735HOH00.0360.02126.8530.0000.0000.0000.0000.0000.000
134A1736HOH0-0.011-0.01612.4000.0050.0050.0000.0000.0000.000
135A1737HOH00.0580.04125.975-0.003-0.0030.0000.0000.0000.000
136A1738HOH0-0.028-0.01521.6590.0000.0000.0000.0000.0000.000
137A1739HOH00.000-0.00113.1540.0010.0010.0000.0000.0000.000
138A1740HOH0-0.045-0.02625.2670.0020.0020.0000.0000.0000.000
139A1741HOH0-0.032-0.02925.395-0.001-0.0010.0000.0000.0000.000
140A1743HOH0-0.046-0.02519.576-0.009-0.0090.0000.0000.0000.000
141A1744HOH00.0650.0398.624-0.041-0.0410.0000.0000.0000.000
142A1746HOH00.0070.00231.815-0.001-0.0010.0000.0000.0000.000
143A1748HOH0-0.038-0.02223.0290.0040.0040.0000.0000.0000.000
144A1749HOH0-0.026-0.05613.0790.0120.0120.0000.0000.0000.000
145A1750HOH00.0300.03532.561-0.002-0.0020.0000.0000.0000.000
146A1753HOH0-0.004-0.00523.1150.0000.0000.0000.0000.0000.000
147A1756HOH0-0.028-0.03631.533-0.001-0.0010.0000.0000.0000.000
148A1757HOH0-0.012-0.00624.4770.0010.0010.0000.0000.0000.000
149A1761HOH0-0.004-0.01411.7500.0520.0520.0000.0000.0000.000
150A1762HOH00.002-0.02126.493-0.001-0.0010.0000.0000.0000.000
151A1763HOH0-0.003-0.02212.187-0.017-0.0170.0000.0000.0000.000
152A1764HOH0-0.0030.01916.258-0.005-0.0050.0000.0000.0000.000
153A1765HOH0-0.024-0.04025.5970.0030.0030.0000.0000.0000.000
154A1766HOH00.0050.00519.7570.0000.0000.0000.0000.0000.000
155A1767HOH00.009-0.01324.305-0.003-0.0030.0000.0000.0000.000
156A1768HOH0-0.0090.00617.942-0.004-0.0040.0000.0000.0000.000
157A1769HOH00.0580.0328.487-0.038-0.0380.0000.0000.0000.000
158A1770HOH0-0.006-0.0129.3170.0460.0460.0000.0000.0000.000
159A1772HOH00.0490.02621.525-0.005-0.0050.0000.0000.0000.000
160A1773HOH0-0.003-0.01714.156-0.035-0.0350.0000.0000.0000.000
161A1774HOH0-0.014-0.02112.2380.0290.0290.0000.0000.0000.000
162A1775HOH0-0.003-0.0037.0100.0960.0960.0000.0000.0000.000
163A1776HOH0-0.025-0.02620.5040.0060.0060.0000.0000.0000.000
164A1777HOH0-0.046-0.04610.554-0.002-0.0020.0000.0000.0000.000
165A1778HOH0-0.014-0.02323.0930.0010.0010.0000.0000.0000.000
166A1779HOH0-0.020-0.0156.543-0.180-0.1800.0000.0000.0000.000
167A1780HOH0-0.0060.0059.8930.0470.0470.0000.0000.0000.000
168A1781HOH0-0.022-0.01618.704-0.002-0.0020.0000.0000.0000.000
169A1782HOH00.0130.00524.1290.0030.0030.0000.0000.0000.000
170A1783HOH0-0.059-0.04612.8090.0120.0120.0000.0000.0000.000
171A1784HOH0-0.0050.01422.5770.0050.0050.0000.0000.0000.000
172A1785HOH00.0050.00522.1260.0010.0010.0000.0000.0000.000
173A1786HOH00.0060.01132.847-0.001-0.0010.0000.0000.0000.000
174A1787HOH0-0.036-0.02732.6020.0000.0000.0000.0000.0000.000
175A1788HOH0-0.0190.00924.6030.0040.0040.0000.0000.0000.000
176A1789HOH00.019-0.01922.980-0.005-0.0050.0000.0000.0000.000
177A1790HOH00.0170.02513.8330.0120.0120.0000.0000.0000.000
178A1792HOH00.0070.00215.564-0.007-0.0070.0000.0000.0000.000
179A1793HOH0-0.017-0.04320.711-0.005-0.0050.0000.0000.0000.000
180A1794HOH0-0.048-0.03529.2180.0000.0000.0000.0000.0000.000
181A1795HOH00.0180.01218.5130.0030.0030.0000.0000.0000.000
182A1796HOH00.0160.01316.869-0.008-0.0080.0000.0000.0000.000
183A1797HOH0-0.042-0.03331.289-0.001-0.0010.0000.0000.0000.000
184A1798HOH0-0.051-0.04313.197-0.038-0.0380.0000.0000.0000.000
185A1799HOH00.0360.02627.062-0.001-0.0010.0000.0000.0000.000
186A1800HOH00.0160.00717.6010.0050.0050.0000.0000.0000.000
187A1805HOH00.0290.02126.651-0.002-0.0020.0000.0000.0000.000
188A1806HOH00.002-0.00216.2320.0200.0200.0000.0000.0000.000
189A1807HOH0-0.035-0.03423.1730.0000.0000.0000.0000.0000.000
190A1808HOH0-0.016-0.00917.112-0.002-0.0020.0000.0000.0000.000
191A1809HOH00.0610.05816.119-0.025-0.0250.0000.0000.0000.000
192A1811HOH0-0.019-0.03423.2670.0030.0030.0000.0000.0000.000
193A1812HOH0-0.001-0.00914.0340.0330.0330.0000.0000.0000.000
194A1813HOH0-0.033-0.01326.0320.0020.0020.0000.0000.0000.000
195A1814HOH00.0440.01728.475-0.002-0.0020.0000.0000.0000.000
196A1815HOH00.0130.0196.356-0.437-0.4370.0000.0000.0000.000
197A1816HOH0-0.044-0.0448.100-0.183-0.1830.0000.0000.0000.000
198A1817HOH0-0.012-0.00520.845-0.007-0.0070.0000.0000.0000.000
199A1818HOH0-0.019-0.01418.341-0.006-0.0060.0000.0000.0000.000
200A1820HOH0-0.014-0.00715.276-0.005-0.0050.0000.0000.0000.000
201A1821HOH0-0.046-0.04027.1240.0020.0020.0000.0000.0000.000
202A1822HOH0-0.031-0.03014.7720.0170.0170.0000.0000.0000.000