FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: N6NMQ

Calculation Name: 4V6W-A-Other547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 4V6W

Chain ID: A

ChEMBL ID:

UniProt ID: P13060

Base Structure: ElectronMicroscopy

Registration Date: 2025-10-06

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
Remarks
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE.
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 203
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2295680.780165
FMO2-HF: Nuclear repulsion 2212085.543231
FMO2-HF: Total energy -83595.236934
FMO2-MP2: Total energy -83842.526866


3D Structure Molmil
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:2:GLY)


Summations of interaction energy for fragment #1(A:2:GLY)
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.
507.594510.3760.186-1.099-1.868-0.008
Interaction energy analysis for fragmet #1(A:2:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.899 / q_NPA : 0.938
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].
3A4TYR0-0.006-0.0223.8446.5837.675-0.007-0.445-0.639-0.002
4A5ARG10.9770.9932.86265.71467.1810.194-0.624-1.037-0.006
5A6TYR00.1400.0794.6492.9653.188-0.001-0.030-0.1920.000
6A7MET0-0.008-0.0027.9985.2945.2940.0000.0000.0000.000
7A8GLN0-0.094-0.0587.1526.3466.3460.0000.0000.0000.000
8A9GLU-1-0.915-0.95810.964-24.382-24.3820.0000.0000.0000.000
9A10LEU00.0690.04111.6152.1772.1770.0000.0000.0000.000
10A11TYR00.000-0.02312.9311.5201.5200.0000.0000.0000.000
11A12ARG10.9050.95512.29124.31524.3150.0000.0000.0000.000
12A13LYS11.0231.03016.17319.21219.2120.0000.0000.0000.000
13A14LYS0-0.0040.00819.2460.0500.0500.0000.0000.0000.000
14A15GLN0-0.017-0.02321.8880.7740.7740.0000.0000.0000.000
15A16SER00.0510.03620.3610.2690.2690.0000.0000.0000.000
16A17ASP-1-0.804-0.89922.664-12.454-12.4540.0000.0000.0000.000
17A18VAL00.0250.01218.1720.1830.1830.0000.0000.0000.000
18A19MET0-0.042-0.02318.899-0.210-0.2100.0000.0000.0000.000
19A20ARG10.9420.97221.69312.15712.1570.0000.0000.0000.000
20A21TYR00.0730.03724.9260.5920.5920.0000.0000.0000.000
21A22LEU00.0160.01019.5000.1390.1390.0000.0000.0000.000
22A23LEU0-0.092-0.05922.4650.1470.1470.0000.0000.0000.000
23A24ARG11.0021.01225.06011.11111.1110.0000.0000.0000.000
24A25ILE00.0870.05625.8080.3060.3060.0000.0000.0000.000
25A26ARG10.9030.95218.46015.94115.9410.0000.0000.0000.000
26A27VAL0-0.063-0.04526.0560.1340.1340.0000.0000.0000.000
27A28TRP00.0600.00629.1210.3830.3830.0000.0000.0000.000
28A29GLN00.0700.05026.225-0.048-0.0480.0000.0000.0000.000
29A30TYR0-0.012-0.01627.0900.1960.1960.0000.0000.0000.000
30A31ARG10.8750.95430.5529.1849.1840.0000.0000.0000.000
31A32GLN00.0760.04833.8400.2080.2080.0000.0000.0000.000
32A33LEU00.0230.03230.6470.1860.1860.0000.0000.0000.000
33A34THR00.0430.01633.6090.0490.0490.0000.0000.0000.000
34A35LYS10.8280.91433.2428.4798.4790.0000.0000.0000.000
35A36LEU0-0.025-0.01231.664-0.278-0.2780.0000.0000.0000.000
36A37HIS00.1080.05329.8390.0060.0060.0000.0000.0000.000
37A38ARG10.9991.00026.86110.05810.0580.0000.0000.0000.000
38A39SER0-0.034-0.04322.2920.2650.2650.0000.0000.0000.000
39A40PRO00.0200.00922.573-0.210-0.2100.0000.0000.0000.000
40A41ARG10.9870.99117.23615.91715.9170.0000.0000.0000.000
41A42PRO0-0.008-0.00615.8650.4970.4970.0000.0000.0000.000
42A43THR0-0.061-0.04717.002-0.533-0.5330.0000.0000.0000.000
43A44ARG10.8710.90615.39516.17716.1770.0000.0000.0000.000
44A45PRO00.0650.05110.5700.6780.6780.0000.0000.0000.000
45A46ASP-1-0.784-0.9268.204-36.301-36.3010.0000.0000.0000.000
46A47LYS10.8320.92511.16919.01719.0170.0000.0000.0000.000
47A48ALA00.0270.03714.3661.2911.2910.0000.0000.0000.000
48A49ARG10.9750.9826.85435.02135.0210.0000.0000.0000.000
49A50ARG10.9120.95510.23827.95127.9510.0000.0000.0000.000
50A51LEU0-0.049-0.01814.0701.0931.0930.0000.0000.0000.000
51A52GLY00.028-0.00116.8900.9900.9900.0000.0000.0000.000
52A53TYR0-0.026-0.02116.7560.3020.3020.0000.0000.0000.000
53A54ARG10.9240.95915.78815.57915.5790.0000.0000.0000.000
54A55ALA0-0.0070.00415.3600.8460.8460.0000.0000.0000.000
55A56LYS10.9250.95717.08115.02415.0240.0000.0000.0000.000
56A57GLN00.0460.03419.9930.3430.3430.0000.0000.0000.000
57A58GLY00.0170.00323.5730.1210.1210.0000.0000.0000.000
58A59PHE00.003-0.00920.9160.0670.0670.0000.0000.0000.000
59A60VAL00.0370.01922.750-0.194-0.1940.0000.0000.0000.000
60A61ILE0-0.0130.00919.756-0.240-0.2400.0000.0000.0000.000
61A62TYR00.0210.01423.9710.4800.4800.0000.0000.0000.000
62A63ARG10.8890.95522.49012.60912.6090.0000.0000.0000.000
63A64ILE0-0.025-0.01627.1880.5000.5000.0000.0000.0000.000
64A65ARG10.8850.96529.3329.0819.0810.0000.0000.0000.000
65A66VAL0-0.071-0.05631.9570.3830.3830.0000.0000.0000.000
66A67ARG10.9930.99034.0877.6317.6310.0000.0000.0000.000
67A68ARG10.8990.95932.0759.7389.7380.0000.0000.0000.000
68A69GLY00.0390.02636.3750.1900.1900.0000.0000.0000.000
69A70GLY00.0160.00938.856-0.085-0.0850.0000.0000.0000.000
70A71ARG10.8920.94338.1568.1028.1020.0000.0000.0000.000
71A72LYS10.9880.99843.4526.9806.9800.0000.0000.0000.000
72A73ARG10.9270.97546.9326.3056.3050.0000.0000.0000.000
73A74PRO00.0040.01048.9180.0350.0350.0000.0000.0000.000
74A75VAL00.005-0.00451.4300.0680.0680.0000.0000.0000.000
75A76PRO00.0460.03354.693-0.058-0.0580.0000.0000.0000.000
76A77LYS10.9410.96055.7765.8385.8380.0000.0000.0000.000
77A78GLY00.0680.05258.4340.0460.0460.0000.0000.0000.000
78A79CYS0-0.013-0.01758.977-0.110-0.1100.0000.0000.0000.000
79A80THR0-0.052-0.04254.858-0.013-0.0130.0000.0000.0000.000
80A81TYR00.0890.04258.290-0.001-0.0010.0000.0000.0000.000
81A82GLY00.0450.02460.1770.0010.0010.0000.0000.0000.000
82A83LYS10.9931.00759.1085.3415.3410.0000.0000.0000.000
83A84PRO00.1670.08258.317-0.133-0.1330.0000.0000.0000.000
84A85LYS10.9570.98754.1935.8115.8110.0000.0000.0000.000
85A86SER0-0.125-0.07453.689-0.145-0.1450.0000.0000.0000.000
86A87HIS00.0730.03154.050-0.127-0.1270.0000.0000.0000.000
87A88GLY00.0030.02551.190-0.029-0.0290.0000.0000.0000.000
88A89VAL00.0360.00150.362-0.055-0.0550.0000.0000.0000.000
89A90ASN00.007-0.02847.857-0.212-0.2120.0000.0000.0000.000
90A91GLN00.0290.02045.657-0.204-0.2040.0000.0000.0000.000
91A92LEU0-0.0100.02145.199-0.141-0.1410.0000.0000.0000.000
92A93LYS10.9590.96940.2517.4907.4900.0000.0000.0000.000
93A94PRO0-0.066-0.03837.5270.0990.0990.0000.0000.0000.000
94A95TYR00.0520.04238.602-0.170-0.1700.0000.0000.0000.000
95A96ARG10.8040.87335.0848.7528.7520.0000.0000.0000.000
96A97GLY00.0680.04432.2260.0640.0640.0000.0000.0000.000
97A98LEU0-0.003-0.02532.176-0.067-0.0670.0000.0000.0000.000
98A99GLN00.0290.03225.1000.2520.2520.0000.0000.0000.000
99A100SER00.005-0.00129.4900.1060.1060.0000.0000.0000.000
100A101ILE0-0.030-0.01931.9310.1870.1870.0000.0000.0000.000
101A102ALA00.0130.00229.7540.2240.2240.0000.0000.0000.000
102A103GLU-1-0.748-0.84927.293-11.251-11.2510.0000.0000.0000.000
103A104GLU-1-0.830-0.91530.975-8.557-8.5570.0000.0000.0000.000
104A105ARG10.8470.93434.2218.8158.8150.0000.0000.0000.000
105A106VAL00.0370.02729.7000.1680.1680.0000.0000.0000.000
106A107GLY00.0620.03033.1770.1090.1090.0000.0000.0000.000
107A108ARG10.8350.89734.0628.3738.3730.0000.0000.0000.000
108A109ARG10.9700.99635.8678.5958.5950.0000.0000.0000.000
109A110LEU00.0060.00631.0630.0310.0310.0000.0000.0000.000
110A111GLY00.0440.01733.427-0.242-0.2420.0000.0000.0000.000
111A112GLY0-0.0070.01335.0430.0670.0670.0000.0000.0000.000
112A113LEU0-0.055-0.01028.735-0.193-0.1930.0000.0000.0000.000
113A114ARG10.8270.92029.4669.8309.8300.0000.0000.0000.000
114A115VAL00.0250.01626.891-0.458-0.4580.0000.0000.0000.000
115A116LEU0-0.053-0.02821.6600.1740.1740.0000.0000.0000.000
116A117ASN0-0.0020.00221.1050.6210.6210.0000.0000.0000.000
117A118SER00.031-0.00424.2150.0750.0750.0000.0000.0000.000
118A119TYR0-0.011-0.00420.041-0.129-0.1290.0000.0000.0000.000
119A120TRP00.0480.01522.1960.5400.5400.0000.0000.0000.000
120A121ILE0-0.0230.00720.841-0.885-0.8850.0000.0000.0000.000
121A122ALA00.0420.01022.494-0.300-0.3000.0000.0000.0000.000
122A123GLN00.013-0.01325.4840.7340.7340.0000.0000.0000.000
123A124ASP-1-0.782-0.85829.180-10.456-10.4560.0000.0000.0000.000
124A125ALA0-0.013-0.02732.3810.1220.1220.0000.0000.0000.000
125A126SER00.0240.02335.9260.0950.0950.0000.0000.0000.000
126A127TYR0-0.030-0.02532.6030.0800.0800.0000.0000.0000.000
127A128LYS10.8050.90529.34510.26010.2600.0000.0000.0000.000
128A129TYR00.0690.03223.9850.2390.2390.0000.0000.0000.000
129A130PHE0-0.030-0.03324.954-0.390-0.3900.0000.0000.0000.000
130A131GLU-1-0.691-0.79820.295-15.235-15.2350.0000.0000.0000.000
131A132VAL0-0.066-0.04623.334-0.212-0.2120.0000.0000.0000.000
132A133ILE0-0.018-0.00119.4750.0880.0880.0000.0000.0000.000
133A134LEU00.0070.00623.3860.4000.4000.0000.0000.0000.000
134A135ILE00.0070.00423.824-0.491-0.4910.0000.0000.0000.000
135A136ASP-1-0.741-0.89326.223-10.680-10.6800.0000.0000.0000.000
136A137THR0-0.075-0.04528.773-0.016-0.0160.0000.0000.0000.000
137A138HIS00.025-0.00230.5250.1880.1880.0000.0000.0000.000
138A139HIS00.0610.04727.7150.2290.2290.0000.0000.0000.000
139A140SER00.003-0.00229.321-0.308-0.3080.0000.0000.0000.000
140A141ALA00.0790.05324.348-0.041-0.0410.0000.0000.0000.000
141A142ILE0-0.040-0.02024.510-0.324-0.3240.0000.0000.0000.000
142A143ARG10.9290.94126.4609.3949.3940.0000.0000.0000.000
143A144ARG10.9170.96727.04410.64010.6400.0000.0000.0000.000
144A145ASP-1-0.788-0.88122.358-13.783-13.7830.0000.0000.0000.000
145A146PRO00.0900.03123.912-0.326-0.3260.0000.0000.0000.000
146A147LYS10.8870.94318.18816.18916.1890.0000.0000.0000.000
147A148ILE0-0.045-0.02820.437-0.194-0.1940.0000.0000.0000.000
148A149ASN00.1090.06824.488-0.004-0.0040.0000.0000.0000.000
149A150TRP00.0110.00126.1790.6450.6450.0000.0000.0000.000
150A151ILE0-0.070-0.04624.2390.3460.3460.0000.0000.0000.000
151A152CYS00.0430.02728.7700.2470.2470.0000.0000.0000.000
152A153LYS10.9881.01631.45010.01510.0150.0000.0000.0000.000
153A154HIS00.0830.01733.875-0.259-0.2590.0000.0000.0000.000
154A155VAL00.0550.03634.3630.0920.0920.0000.0000.0000.000
155A156HIS0-0.0170.01429.891-0.072-0.0720.0000.0000.0000.000
156A157LYS10.9600.99332.9907.8827.8820.0000.0000.0000.000
157A158HIS00.0480.03634.4170.2630.2630.0000.0000.0000.000
158A159ARG10.9060.95725.88211.53611.5360.0000.0000.0000.000
159A160GLU-1-0.825-0.91631.087-9.751-9.7510.0000.0000.0000.000
160A161LEU00.0270.01633.0770.0910.0910.0000.0000.0000.000
161A162ARG10.8910.93336.0558.7668.7660.0000.0000.0000.000
162A163GLY0-0.009-0.00133.2010.0310.0310.0000.0000.0000.000
163A164LEU0-0.040-0.02931.327-0.097-0.0970.0000.0000.0000.000
164A165THR00.011-0.01527.605-0.222-0.2220.0000.0000.0000.000
165A166SER0-0.018-0.02724.0090.3400.3400.0000.0000.0000.000
166A167ALA00.0110.01726.4950.2060.2060.0000.0000.0000.000
167A168GLY00.0070.01128.7790.3800.3800.0000.0000.0000.000
168A169LYS10.9200.96527.04911.75611.7560.0000.0000.0000.000
169A170SER00.0140.00228.6600.3160.3160.0000.0000.0000.000
170A171SER0-0.072-0.04430.7000.3670.3670.0000.0000.0000.000
171A172ARG10.8680.92233.5549.4839.4830.0000.0000.0000.000
172A173GLY00.0440.03434.0010.2540.2540.0000.0000.0000.000
173A174ILE0-0.050-0.01433.3600.1190.1190.0000.0000.0000.000
174A175GLY00.0140.01831.605-0.360-0.3600.0000.0000.0000.000
175A176LYS10.9850.98729.78210.72510.7250.0000.0000.0000.000
176A177GLY00.0600.01932.422-0.280-0.2800.0000.0000.0000.000
177A178TYR00.1210.04335.835-0.044-0.0440.0000.0000.0000.000
178A179ARG10.9670.99934.3499.1349.1340.0000.0000.0000.000
179A180TYR00.0100.01431.4910.0060.0060.0000.0000.0000.000
180A181SER0-0.008-0.01137.9720.1030.1030.0000.0000.0000.000
181A182GLN00.0070.00640.7420.1720.1720.0000.0000.0000.000
182A183THR0-0.047-0.02339.242-0.004-0.0040.0000.0000.0000.000
183A184ILE0-0.0110.00535.152-0.138-0.1380.0000.0000.0000.000
184A185GLY00.001-0.00338.039-0.034-0.0340.0000.0000.0000.000
185A186GLY00.0540.00340.7200.1830.1830.0000.0000.0000.000
186A187SER0-0.060-0.03438.2790.0840.0840.0000.0000.0000.000
187A188ARG11.0000.98537.9698.1678.1670.0000.0000.0000.000
188A189ARG10.9740.98741.4267.3107.3100.0000.0000.0000.000
189A190ALA00.0160.01042.8550.1360.1360.0000.0000.0000.000
190A191ALA00.0270.01743.0030.1070.1070.0000.0000.0000.000
191A192TRP00.0510.01344.9210.0830.0830.0000.0000.0000.000
192A193LYS10.9700.98546.8516.8576.8570.0000.0000.0000.000
193A194ARG10.9660.98543.8867.2647.2640.0000.0000.0000.000
194A195LYS10.8700.95646.0036.9136.9130.0000.0000.0000.000
195A196ASN0-0.0060.00351.3590.0550.0550.0000.0000.0000.000
196A197ARG10.9120.95651.4816.1596.1590.0000.0000.0000.000
197A198GLU-1-0.818-0.89555.709-5.257-5.2570.0000.0000.0000.000
198A199HIS0-0.091-0.05552.620-0.073-0.0730.0000.0000.0000.000
199A200MET00.0140.01657.707-0.004-0.0040.0000.0000.0000.000
200A201HIS00.0260.00756.6590.0450.0450.0000.0000.0000.000
201A202ARG10.9520.96261.4885.1465.1460.0000.0000.0000.000
202A203LYS10.9150.96264.3784.9254.9250.0000.0000.0000.000
203A204ARG00.0980.07564.6190.1290.1290.0000.0000.0000.000