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

tag_button

FMODB ID: P8G8Y

Calculation Name: 1W4S-A-Xray41

Preferred Name:

Target Type:

Ligand Name: chloride ion

ligand 3-letter code: CL

PDB ID: 1W4S

Chain ID: A

ChEMBL ID:

UniProt ID: Q90941

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 226
LigandCharge CL-=-1
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1724005.23178
FMO2-HF: Nuclear repulsion 1656554.807625
FMO2-HF: Total energy -67450.424155
FMO2-MP2: Total energy -67642.216352


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:954:ACE)


Summations of interaction energy for fragment #1(A:954: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.
-1.3610.2750.02-0.783-0.872-0.002
Interaction energy analysis for fragmet #1(A:954:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.004 / q_NPA : -0.015
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].
3A956TYR00.0200.0083.840-0.0031.419-0.014-0.700-0.708-0.002
4A957HIS00.0040.0045.1850.7070.7070.0000.0000.0000.000
5A958VAL00.0240.0018.106-0.020-0.0200.0000.0000.0000.000
6A959GLY0-0.0150.00211.543-0.035-0.0350.0000.0000.0000.000
7A960ASP-1-0.740-0.8659.307-0.625-0.6250.0000.0000.0000.000
8A961TYR0-0.043-0.01612.7900.0690.0690.0000.0000.0000.000
9A962VAL0-0.021-0.01610.840-0.068-0.0680.0000.0000.0000.000
10A963TYR0-0.002-0.02314.2810.0670.0670.0000.0000.0000.000
11A964VAL0-0.024-0.00614.574-0.021-0.0210.0000.0000.0000.000
12A965GLU-1-0.896-0.95816.408-0.075-0.0750.0000.0000.0000.000
13A966PRO0-0.049-0.01418.7640.0170.0170.0000.0000.0000.000
14A967ALA0-0.012-0.01322.0870.0020.0020.0000.0000.0000.000
15A968GLU-1-0.878-0.88723.841-0.021-0.0210.0000.0000.0000.000
16A969ALA00.0430.00724.169-0.007-0.0070.0000.0000.0000.000
17A970ASN0-0.021-0.01824.515-0.001-0.0010.0000.0000.0000.000
18A971LEU00.0120.03525.993-0.001-0.0010.0000.0000.0000.000
19A972GLN00.008-0.01024.670-0.002-0.0020.0000.0000.0000.000
20A973PRO00.0600.02919.3690.0080.0080.0000.0000.0000.000
21A974HIS0-0.053-0.01119.7410.0070.0070.0000.0000.0000.000
22A975ILE00.0230.01818.825-0.019-0.0190.0000.0000.0000.000
23A976VAL0-0.017-0.01015.9630.0220.0220.0000.0000.0000.000
24A977CYS0-0.057-0.00315.939-0.026-0.0260.0000.0000.0000.000
25A978ILE00.0110.0039.6980.0420.0420.0000.0000.0000.000
26A979GLU-1-0.909-0.96713.7200.0010.0010.0000.0000.0000.000
27A980ARG10.9190.95913.325-0.113-0.1130.0000.0000.0000.000
28A981LEU00.0300.0127.114-0.050-0.0500.0000.0000.0000.000
29A982TRP0-0.084-0.03310.228-0.004-0.0040.0000.0000.0000.000
30A983GLU-1-0.834-0.9138.9521.0041.0040.0000.0000.0000.000
31A984ASP-1-0.773-0.86711.1000.2480.2480.0000.0000.0000.000
32A985SER00.0630.04813.9410.0350.0350.0000.0000.0000.000
33A986ALA0-0.079-0.02315.821-0.005-0.0050.0000.0000.0000.000
34A987GLY00.0280.02411.881-0.007-0.0070.0000.0000.0000.000
35A988GLU-1-0.900-0.89810.4020.2730.2730.0000.0000.0000.000
36A989LYS10.9770.9733.023-3.430-3.2160.034-0.083-0.1640.000
37A990TRP0-0.017-0.0079.184-0.181-0.1810.0000.0000.0000.000
38A991LEU00.0050.01110.4410.0710.0710.0000.0000.0000.000
39A992TYR00.008-0.01212.078-0.022-0.0220.0000.0000.0000.000
40A993GLY00.025-0.00415.191-0.003-0.0030.0000.0000.0000.000
41A994CYS0-0.0260.01917.2730.0030.0030.0000.0000.0000.000
42A995TRP00.0520.02018.105-0.016-0.0160.0000.0000.0000.000
43A996PHE00.005-0.01620.6420.0070.0070.0000.0000.0000.000
44A997TYR0-0.0070.00323.506-0.004-0.0040.0000.0000.0000.000
45A998ARG10.8880.93622.5410.1010.1010.0000.0000.0000.000
46A999PRO00.0370.00828.0510.0070.0070.0000.0000.0000.000
47A1000ASN00.0020.01230.2130.0040.0040.0000.0000.0000.000
48A1001GLU-1-0.713-0.81526.260-0.054-0.0540.0000.0000.0000.000
49A1002THR0-0.121-0.05430.5380.0050.0050.0000.0000.0000.000
50A1003PHE00.0200.01033.0270.0000.0000.0000.0000.0000.000
51A1004HIS10.9150.95735.7060.0330.0330.0000.0000.0000.000
52A1005LEU00.0450.00638.6590.0010.0010.0000.0000.0000.000
53A1006ALA00.0400.03441.106-0.002-0.0020.0000.0000.0000.000
54A1007THR00.017-0.01542.683-0.002-0.0020.0000.0000.0000.000
55A1008ARG10.7640.88735.6890.0320.0320.0000.0000.0000.000
56A1009LYS10.9630.97239.3220.0340.0340.0000.0000.0000.000
57A1010PHE0-0.010-0.01333.7750.0010.0010.0000.0000.0000.000
58A1011LEU00.0030.01332.3710.0010.0010.0000.0000.0000.000
59A1012GLU-1-0.898-0.93931.293-0.082-0.0820.0000.0000.0000.000
60A1013LYS10.8220.92325.2480.1210.1210.0000.0000.0000.000
61A1014GLU-1-0.776-0.86227.560-0.055-0.0550.0000.0000.0000.000
62A1015VAL00.0040.01024.1400.0000.0000.0000.0000.0000.000
63A1016PHE0-0.040-0.02627.4420.0040.0040.0000.0000.0000.000
64A1017LYS10.9060.96023.4350.0210.0210.0000.0000.0000.000
65A1018SER00.007-0.00524.6720.0090.0090.0000.0000.0000.000
66A1019ASP-1-0.796-0.88225.790-0.002-0.0020.0000.0000.0000.000
67A1020TYR00.0470.04222.5390.0090.0090.0000.0000.0000.000
68A1021TYR0-0.002-0.00120.494-0.013-0.0130.0000.0000.0000.000
69A1022ASN0-0.0110.00419.8490.0170.0170.0000.0000.0000.000
70A1023LYS10.9380.95016.236-0.137-0.1370.0000.0000.0000.000
71A1024VAL0-0.006-0.00413.918-0.013-0.0130.0000.0000.0000.000
72A1025PRO00.0280.01912.5220.0210.0210.0000.0000.0000.000
73A1026VAL0-0.012-0.0216.329-0.056-0.0560.0000.0000.0000.000
74A1027SER0-0.058-0.0509.766-0.119-0.1190.0000.0000.0000.000
75A1028LYS10.9891.01011.332-0.052-0.0520.0000.0000.0000.000
76A1029ILE0-0.069-0.0299.044-0.006-0.0060.0000.0000.0000.000
77A1030LEU00.0270.00912.583-0.026-0.0260.0000.0000.0000.000
78A1031GLY00.0070.00912.844-0.028-0.0280.0000.0000.0000.000
79A1032LYS10.8810.9548.0681.1531.1530.0000.0000.0000.000
80A1033CYS0-0.0410.00213.8680.0350.0350.0000.0000.0000.000
81A1034VAL00.0370.02816.429-0.014-0.0140.0000.0000.0000.000
82A1035VAL0-0.0100.01118.9130.0180.0180.0000.0000.0000.000
83A1036MET0-0.0020.03621.445-0.002-0.0020.0000.0000.0000.000
84A1037PHE0-0.024-0.00823.9450.0120.0120.0000.0000.0000.000
85A1038VAL00.0500.00726.705-0.003-0.0030.0000.0000.0000.000
86A1039LYS10.8490.90729.9740.0410.0410.0000.0000.0000.000
87A1040GLU-1-0.874-0.94526.362-0.066-0.0660.0000.0000.0000.000
88A1041TYR0-0.022-0.00826.365-0.006-0.0060.0000.0000.0000.000
89A1042PHE00.027-0.00128.256-0.004-0.0040.0000.0000.0000.000
90A1043LYS10.9400.97030.6460.0590.0590.0000.0000.0000.000
91A1044LEU00.0200.02425.7720.0010.0010.0000.0000.0000.000
92A1045CYS0-0.033-0.01124.8520.0010.0010.0000.0000.0000.000
93A1046PRO00.0110.00219.2920.0020.0020.0000.0000.0000.000
94A1047GLU-1-0.749-0.86419.145-0.217-0.2170.0000.0000.0000.000
95A1048ASN0-0.024-0.01115.942-0.002-0.0020.0000.0000.0000.000
96A1049PHE0-0.0160.00214.425-0.048-0.0480.0000.0000.0000.000
97A1050ARG10.9690.97719.4880.2130.2130.0000.0000.0000.000
98A1051ASP-1-0.755-0.84322.326-0.142-0.1420.0000.0000.0000.000
99A1052GLU-1-0.959-0.98022.928-0.157-0.1570.0000.0000.0000.000
100A1053ASP-1-0.791-0.83719.281-0.222-0.2220.0000.0000.0000.000
101A1054VAL0-0.0060.00320.492-0.013-0.0130.0000.0000.0000.000
102A1055TYR0-0.027-0.03121.3150.0260.0260.0000.0000.0000.000
103A1056VAL00.0130.02324.756-0.001-0.0010.0000.0000.0000.000
104A1057CYS0-0.061-0.01825.9840.0090.0090.0000.0000.0000.000
105A1058GLU-1-0.864-0.95227.824-0.042-0.0420.0000.0000.0000.000
106A1059SER0-0.008-0.03230.8360.0070.0070.0000.0000.0000.000
107A1060ARG10.9210.95427.7480.0120.0120.0000.0000.0000.000
108A1061TYR0-0.003-0.02729.7720.0000.0000.0000.0000.0000.000
109A1062SER0-0.065-0.03430.0380.0010.0010.0000.0000.0000.000
110A1063ALA00.0570.02129.967-0.001-0.0010.0000.0000.0000.000
111A1064LYS10.8780.94630.227-0.014-0.0140.0000.0000.0000.000
112A1065THR00.0310.01133.9510.0000.0000.0000.0000.0000.000
113A1066LYS10.9380.99135.3020.0080.0080.0000.0000.0000.000
114A1067SER0-0.020-0.00435.595-0.001-0.0010.0000.0000.0000.000
115A1068PHE00.0530.01933.089-0.001-0.0010.0000.0000.0000.000
116A1069LYS10.8960.95034.1540.0130.0130.0000.0000.0000.000
117A1070LYS10.9080.97133.5770.0330.0330.0000.0000.0000.000
118A1071ILE0-0.025-0.00127.8230.0050.0050.0000.0000.0000.000
119A1072LYS10.9420.96531.9760.0160.0160.0000.0000.0000.000
120A1073LEU00.0060.00628.733-0.002-0.0020.0000.0000.0000.000
121A1074TRP00.018-0.00121.9250.0120.0120.0000.0000.0000.000
122A1075THR0-0.024-0.02024.269-0.001-0.0010.0000.0000.0000.000
123A1076MET0-0.0210.01619.5390.0150.0150.0000.0000.0000.000
124A1077PRO00.0710.02815.765-0.001-0.0010.0000.0000.0000.000
125A1078VAL00.0070.02017.274-0.020-0.0200.0000.0000.0000.000
126A1079SER00.0140.01713.0910.0080.0080.0000.0000.0000.000
127A1080SER0-0.022-0.02011.7030.0290.0290.0000.0000.0000.000
128A1081VAL0-0.0230.00413.755-0.022-0.0220.0000.0000.0000.000
129A1082ARG10.9050.95216.0330.2770.2770.0000.0000.0000.000
130A1083PHE0-0.0090.00519.034-0.009-0.0090.0000.0000.0000.000
131A1084VAL00.0330.01122.4590.0120.0120.0000.0000.0000.000
132A1085PRO00.014-0.01325.462-0.001-0.0010.0000.0000.0000.000
133A1086ARG10.8000.90126.9330.1070.1070.0000.0000.0000.000
134A1087ASP-1-0.867-0.92630.216-0.092-0.0920.0000.0000.0000.000
135A1088VAL0-0.054-0.03332.2980.0070.0070.0000.0000.0000.000
136A1089PRO0-0.004-0.00432.961-0.004-0.0040.0000.0000.0000.000
137A1090LEU00.0250.02829.4340.0020.0020.0000.0000.0000.000
138A1091PRO00.003-0.00833.8110.0040.0040.0000.0000.0000.000
139A1092VAL0-0.029-0.00635.500-0.002-0.0020.0000.0000.0000.000
140A1093VAL00.0390.02236.3330.0040.0040.0000.0000.0000.000
141A1094ARG10.8970.93535.7650.0440.0440.0000.0000.0000.000
142A1095VAL00.0160.00736.9030.0030.0030.0000.0000.0000.000
143A1096ALA0-0.017-0.00638.162-0.001-0.0010.0000.0000.0000.000
144A1097SER0-0.027-0.02637.360-0.001-0.0010.0000.0000.0000.000
145A1098VAL0-0.0100.00239.3680.0020.0020.0000.0000.0000.000
146A1099PHE0-0.029-0.01740.513-0.001-0.0010.0000.0000.0000.000
147A1100ALA0-0.009-0.00743.6430.0000.0000.0000.0000.0000.000
148A1101NME00.0360.03145.5770.0010.0010.0000.0000.0000.000
149A2101CL--1-0.848-0.89239.712-0.025-0.0250.0000.0000.0000.000
150A2014HOH0-0.018-0.01615.2870.0050.0050.0000.0000.0000.000
151A2015HOH00.0110.01111.981-0.008-0.0080.0000.0000.0000.000
152A2016HOH0-0.010-0.01710.1490.0120.0120.0000.0000.0000.000
153A2017HOH00.024-0.00219.1290.0030.0030.0000.0000.0000.000
154A2018HOH0-0.033-0.02119.9830.0060.0060.0000.0000.0000.000
155A2021HOH0-0.037-0.05530.614-0.002-0.0020.0000.0000.0000.000
156A2022HOH0-0.056-0.04728.786-0.001-0.0010.0000.0000.0000.000
157A2023HOH00.0590.04522.0150.0020.0020.0000.0000.0000.000
158A2024HOH0-0.048-0.03822.814-0.006-0.0060.0000.0000.0000.000
159A2026HOH00.0250.01628.528-0.002-0.0020.0000.0000.0000.000
160A2027HOH0-0.0140.00124.2490.0000.0000.0000.0000.0000.000
161A2028HOH0-0.016-0.01414.2630.0180.0180.0000.0000.0000.000
162A2030HOH0-0.062-0.03812.824-0.027-0.0270.0000.0000.0000.000
163A2031HOH0-0.030-0.05219.7430.0000.0000.0000.0000.0000.000
164A2032HOH0-0.088-0.08616.109-0.006-0.0060.0000.0000.0000.000
165A2033HOH0-0.003-0.00510.534-0.006-0.0060.0000.0000.0000.000
166A2034HOH00.0160.0149.4260.0600.0600.0000.0000.0000.000
167A2035HOH0-0.027-0.02023.304-0.005-0.0050.0000.0000.0000.000
168A2036HOH00.0080.00725.101-0.001-0.0010.0000.0000.0000.000
169A2038HOH0-0.018-0.00427.3990.0000.0000.0000.0000.0000.000
170A2039HOH0-0.031-0.01533.4630.0010.0010.0000.0000.0000.000
171A2040HOH00.0220.01130.3450.0010.0010.0000.0000.0000.000
172A2042HOH0-0.022-0.03128.0420.0000.0000.0000.0000.0000.000
173A2043HOH0-0.017-0.03424.068-0.003-0.0030.0000.0000.0000.000
174A2044HOH0-0.027-0.01835.508-0.001-0.0010.0000.0000.0000.000
175A2045HOH0-0.074-0.05837.9600.0000.0000.0000.0000.0000.000
176A2046HOH0-0.018-0.01741.102-0.001-0.0010.0000.0000.0000.000
177A2047HOH00.0350.03247.131-0.001-0.0010.0000.0000.0000.000
178A2048HOH0-0.020-0.01443.229-0.001-0.0010.0000.0000.0000.000
179A2049HOH0-0.010-0.00939.854-0.001-0.0010.0000.0000.0000.000
180A2050HOH0-0.018-0.00934.7480.0020.0020.0000.0000.0000.000
181A2051HOH00.0290.01840.703-0.001-0.0010.0000.0000.0000.000
182A2052HOH0-0.010-0.04131.125-0.001-0.0010.0000.0000.0000.000
183A2053HOH00.0420.02327.991-0.001-0.0010.0000.0000.0000.000
184A2054HOH00.0640.04227.469-0.003-0.0030.0000.0000.0000.000
185A2055HOH0-0.011-0.01328.827-0.002-0.0020.0000.0000.0000.000
186A2056HOH0-0.004-0.01329.9740.0010.0010.0000.0000.0000.000
187A2057HOH0-0.021-0.01725.215-0.002-0.0020.0000.0000.0000.000
188A2058HOH0-0.042-0.02426.1630.0000.0000.0000.0000.0000.000
189A2059HOH0-0.047-0.04231.3840.0020.0020.0000.0000.0000.000
190A2061HOH00.0290.01619.7490.0000.0000.0000.0000.0000.000
191A2062HOH0-0.0060.00213.312-0.008-0.0080.0000.0000.0000.000
192A2063HOH00.0300.01712.682-0.013-0.0130.0000.0000.0000.000
193A2064HOH0-0.036-0.03316.513-0.012-0.0120.0000.0000.0000.000
194A2065HOH00.010-0.00413.9200.0210.0210.0000.0000.0000.000
195A2066HOH0-0.049-0.04320.416-0.003-0.0030.0000.0000.0000.000
196A2068HOH0-0.022-0.01831.676-0.001-0.0010.0000.0000.0000.000
197A2069HOH00.0570.04432.1630.0000.0000.0000.0000.0000.000
198A2070HOH00.002-0.01526.360-0.001-0.0010.0000.0000.0000.000
199A2071HOH00.0140.00016.868-0.002-0.0020.0000.0000.0000.000
200A2072HOH0-0.050-0.04720.295-0.003-0.0030.0000.0000.0000.000
201A2073HOH0-0.046-0.02722.765-0.001-0.0010.0000.0000.0000.000
202A2074HOH0-0.035-0.01614.735-0.034-0.0340.0000.0000.0000.000
203A2075HOH0-0.101-0.09423.7640.0020.0020.0000.0000.0000.000
204A2076HOH00.0340.01826.006-0.005-0.0050.0000.0000.0000.000
205A2077HOH0-0.023-0.02617.9450.0050.0050.0000.0000.0000.000
206A2078HOH0-0.038-0.02020.8290.0000.0000.0000.0000.0000.000
207A2079HOH0-0.045-0.03732.655-0.001-0.0010.0000.0000.0000.000
208A2080HOH0-0.001-0.00235.5790.0000.0000.0000.0000.0000.000
209A2081HOH00.0080.01433.8850.0020.0020.0000.0000.0000.000
210A2082HOH0-0.005-0.00928.349-0.001-0.0010.0000.0000.0000.000
211A2083HOH00.000-0.00533.1260.0000.0000.0000.0000.0000.000
212A2084HOH00.0090.01429.5950.0000.0000.0000.0000.0000.000
213A2085HOH00.0410.03932.6550.0000.0000.0000.0000.0000.000
214A2086HOH00.0310.01833.9600.0000.0000.0000.0000.0000.000
215A2087HOH00.0290.02041.1950.0000.0000.0000.0000.0000.000
216A2090HOH00.0290.01938.3600.0000.0000.0000.0000.0000.000
217A2094HOH0-0.016-0.01320.2060.0010.0010.0000.0000.0000.000
218A2095HOH0-0.048-0.03816.6210.0030.0030.0000.0000.0000.000
219A2097HOH0-0.017-0.01315.257-0.001-0.0010.0000.0000.0000.000
220A2098HOH0-0.055-0.02917.1920.0090.0090.0000.0000.0000.000
221A2099HOH0-0.023-0.01617.643-0.002-0.0020.0000.0000.0000.000
222A2100HOH00.0450.03117.484-0.002-0.0020.0000.0000.0000.000
223A2106HOH0-0.015-0.01125.7160.0020.0020.0000.0000.0000.000
224A2102HOH0-0.006-0.00126.1500.0020.0020.0000.0000.0000.000
225A2103HOH00.0000.00930.498-0.002-0.0020.0000.0000.0000.000
226A2104HOH00.0320.01837.9500.0010.0010.0000.0000.0000.000