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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: X6GKZ

Calculation Name: 3SNS-A-Xray34

Preferred Name:

Target Type:

Ligand Name: chloride ion

ligand 3-letter code: CL

PDB ID: 3SNS

Chain ID: A

ChEMBL ID:

UniProt ID: P0A903

Base Structure: X-ray

Registration Date: 2018-09-07

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 189
LigandCharge CL-=-1
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1106906.145876
FMO2-HF: Nuclear repulsion 1055424.375442
FMO2-HF: Total energy -51481.770434
FMO2-MP2: Total energy -51626.859625


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:224:ALA)


Summations of interaction energy for fragment #1(A:224:ALA)
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.
-104.566-102.701-0.018-0.885-0.963-0.002
Interaction energy analysis for fragmet #1(A:224:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.844 / q_NPA : 0.908
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].
3A226THR00.0620.0263.794-2.588-0.856-0.020-0.827-0.886-0.002
4A227THR00.0060.0395.5434.3734.3730.0000.0000.0000.000
5A228MET0-0.035-0.0146.559-2.461-2.4610.0000.0000.0000.000
6A229ASP-1-0.816-0.8889.052-20.436-20.4360.0000.0000.0000.000
7A230VAL0-0.027-0.01810.6330.9640.9640.0000.0000.0000.000
8A231GLN0-0.068-0.03413.9770.9410.9410.0000.0000.0000.000
9A232SER00.0180.01417.3040.1520.1520.0000.0000.0000.000
10A233ALA0-0.027-0.01621.073-0.121-0.1210.0000.0000.0000.000
11A234ALA00.0270.01223.2780.2320.2320.0000.0000.0000.000
12A235ASP-1-0.715-0.84526.450-10.048-10.0480.0000.0000.0000.000
13A236ASP-1-0.868-0.93628.114-9.512-9.5120.0000.0000.0000.000
14A237THR0-0.108-0.05130.8660.4050.4050.0000.0000.0000.000
15A238GLY0-0.017-0.01531.1090.2580.2580.0000.0000.0000.000
16A239LEU0-0.063-0.01130.776-0.015-0.0150.0000.0000.0000.000
17A240PRO0-0.0020.01026.995-0.357-0.3570.0000.0000.0000.000
18A241MET0-0.027-0.00323.1260.1830.1830.0000.0000.0000.000
19A242LEU00.0210.02819.085-0.286-0.2860.0000.0000.0000.000
20A243VAL0-0.008-0.01116.9300.2780.2780.0000.0000.0000.000
21A244VAL00.0320.01313.462-0.738-0.7380.0000.0000.0000.000
22A245ARG10.9470.97010.63421.46521.4650.0000.0000.0000.000
23A246GLY00.023-0.00710.973-2.534-2.5340.0000.0000.0000.000
24A247PRO00.0290.03113.2010.9320.9320.0000.0000.0000.000
25A248PHE00.0680.03316.540-0.542-0.5420.0000.0000.0000.000
26A249ASN0-0.030-0.00417.0240.6950.6950.0000.0000.0000.000
27A250VAL0-0.012-0.00912.114-0.145-0.1450.0000.0000.0000.000
28A251VAL00.0400.01214.642-0.307-0.3070.0000.0000.0000.000
29A252TRP0-0.036-0.04316.4880.1330.1330.0000.0000.0000.000
30A253GLN00.0370.01417.2350.4640.4640.0000.0000.0000.000
31A254ARG10.8670.9189.08426.83026.8300.0000.0000.0000.000
32A255LEU00.0160.01816.548-0.095-0.0950.0000.0000.0000.000
33A256PRO0-0.0010.02119.0420.0700.0700.0000.0000.0000.000
34A257ALA00.0740.03318.1650.3370.3370.0000.0000.0000.000
35A258ALA00.0130.01016.048-0.051-0.0510.0000.0000.0000.000
36A259LEU0-0.009-0.01817.8170.2770.2770.0000.0000.0000.000
37A260GLU-1-0.968-0.97221.195-12.833-12.8330.0000.0000.0000.000
38A261LYS10.8260.92914.68320.75220.7520.0000.0000.0000.000
39A262VAL00.0020.01019.5370.1280.1280.0000.0000.0000.000
40A263GLY00.0440.03522.3140.4930.4930.0000.0000.0000.000
41A264MET0-0.085-0.03523.9400.5100.5100.0000.0000.0000.000
42A265LYS10.9420.97724.9619.5239.5230.0000.0000.0000.000
43A266VAL00.0370.00424.6840.3120.3120.0000.0000.0000.000
44A267THR0-0.094-0.03427.6820.2480.2480.0000.0000.0000.000
45A268ASP-1-0.813-0.89930.510-9.019-9.0190.0000.0000.0000.000
46A269SER0-0.046-0.00927.278-0.194-0.1940.0000.0000.0000.000
47A270THR00.0070.00929.4200.1840.1840.0000.0000.0000.000
48A271ARG10.9390.94521.31113.23413.2340.0000.0000.0000.000
49A272SER0-0.037-0.02727.413-0.042-0.0420.0000.0000.0000.000
50A273GLN0-0.003-0.00829.8160.0890.0890.0000.0000.0000.000
51A274GLY00.0050.02626.234-0.019-0.0190.0000.0000.0000.000
52A275ASN0-0.031-0.01826.514-0.158-0.1580.0000.0000.0000.000
53A276MET00.001-0.00122.481-0.019-0.0190.0000.0000.0000.000
54A277ALA00.0090.01827.8770.0820.0820.0000.0000.0000.000
55A278VAL0-0.011-0.01225.723-0.199-0.1990.0000.0000.0000.000
56A279THR00.014-0.00529.1110.3470.3470.0000.0000.0000.000
57A280TYR0-0.072-0.04726.294-0.384-0.3840.0000.0000.0000.000
58A281LYS10.9380.98028.99510.53310.5330.0000.0000.0000.000
59A282PRO00.0050.00828.257-0.367-0.3670.0000.0000.0000.000
60A283LEU00.0130.00723.1480.2640.2640.0000.0000.0000.000
61A284SER0-0.014-0.01427.8150.1740.1740.0000.0000.0000.000
62A285ASP-1-0.814-0.90527.893-10.437-10.4370.0000.0000.0000.000
63A286SER0-0.0340.00127.140-0.258-0.2580.0000.0000.0000.000
64A287ASP-1-0.787-0.87124.831-12.492-12.4920.0000.0000.0000.000
65A288TRP0-0.041-0.01622.568-0.873-0.8730.0000.0000.0000.000
66A289GLN0-0.039-0.03322.181-0.307-0.3070.0000.0000.0000.000
67A290GLU-1-0.995-0.98721.212-14.243-14.2430.0000.0000.0000.000
68A291LEU0-0.078-0.02217.862-0.924-0.9240.0000.0000.0000.000
69A292GLY0-0.006-0.00117.336-1.168-1.1680.0000.0000.0000.000
70A293ALA0-0.061-0.03718.476-0.483-0.4830.0000.0000.0000.000
71A294SER00.0170.01120.9520.2030.2030.0000.0000.0000.000
72A295ASP-1-0.772-0.84824.482-10.847-10.8470.0000.0000.0000.000
73A296PRO00.0190.02424.2250.2420.2420.0000.0000.0000.000
74A297GLY00.0100.00626.2170.1880.1880.0000.0000.0000.000
75A298LEU0-0.0100.01226.4760.3000.3000.0000.0000.0000.000
76A299ALA00.0320.03629.9880.0440.0440.0000.0000.0000.000
77A300SER00.0280.02932.055-0.204-0.2040.0000.0000.0000.000
78A301GLY0-0.016-0.00232.7360.2790.2790.0000.0000.0000.000
79A302ASP-1-0.836-0.90832.148-9.208-9.2080.0000.0000.0000.000
80A303TYR0-0.012-0.02929.1110.0800.0800.0000.0000.0000.000
81A304LYS10.8680.93630.1059.1039.1030.0000.0000.0000.000
82A305LEU00.0130.01322.281-0.118-0.1180.0000.0000.0000.000
83A306GLN0-0.0020.00626.5880.2000.2000.0000.0000.0000.000
84A307VAL0-0.015-0.02520.825-0.383-0.3830.0000.0000.0000.000
85A308GLY00.0150.01222.8550.3900.3900.0000.0000.0000.000
86A309ASP-1-0.866-0.94921.578-13.806-13.8060.0000.0000.0000.000
87A310LEU0-0.019-0.00919.9490.4750.4750.0000.0000.0000.000
88A311ASP-1-0.883-0.92819.747-15.108-15.1080.0000.0000.0000.000
89A312ASN00.004-0.00814.3150.2890.2890.0000.0000.0000.000
90A313ARG10.8660.93814.61313.89013.8900.0000.0000.0000.000
91A314SER00.0200.00816.5970.8560.8560.0000.0000.0000.000
92A315SER0-0.010-0.00518.489-0.459-0.4590.0000.0000.0000.000
93A316LEU0-0.0060.00318.242-0.055-0.0550.0000.0000.0000.000
94A317GLN0-0.042-0.02022.0860.1330.1330.0000.0000.0000.000
95A318PHE00.0070.00022.5470.1420.1420.0000.0000.0000.000
96A319ILE00.0130.00627.4620.1630.1630.0000.0000.0000.000
97A320ASP-1-0.669-0.85431.225-8.728-8.7280.0000.0000.0000.000
98A321PRO0-0.076-0.05333.8980.0700.0700.0000.0000.0000.000
99A322LYN0-0.085-0.03236.5530.1350.1350.0000.0000.0000.000
100A323GLY0-0.034-0.00935.4190.1540.1540.0000.0000.0000.000
101A324HIS0-0.095-0.04235.0060.0460.0460.0000.0000.0000.000
102A325THR00.0290.03030.485-0.134-0.1340.0000.0000.0000.000
103A326LEU00.0020.00326.1440.1760.1760.0000.0000.0000.000
104A327THR00.0160.03230.1390.0110.0110.0000.0000.0000.000
105A328GLN00.0740.01827.744-0.242-0.2420.0000.0000.0000.000
106A329SER00.0130.01226.868-0.445-0.4450.0000.0000.0000.000
107A330GLN0-0.016-0.00426.702-0.318-0.3180.0000.0000.0000.000
108A331ASN0-0.028-0.02823.550-0.534-0.5340.0000.0000.0000.000
109A332ASP-1-0.861-0.94822.814-12.597-12.5970.0000.0000.0000.000
110A333ALA0-0.040-0.01821.859-0.679-0.6790.0000.0000.0000.000
111A334LEU00.0160.00821.485-0.428-0.4280.0000.0000.0000.000
112A335VAL0-0.0080.00716.597-0.721-0.7210.0000.0000.0000.000
113A336ALA00.0230.00416.617-1.115-1.1150.0000.0000.0000.000
114A337VAL00.0190.02516.806-0.884-0.8840.0000.0000.0000.000
115A338PHE00.0390.00616.363-0.459-0.4590.0000.0000.0000.000
116A339GLN00.0020.00011.318-1.693-1.6930.0000.0000.0000.000
117A340ALA00.0180.02612.475-1.793-1.7930.0000.0000.0000.000
118A341ALA00.0010.00414.311-0.809-0.8090.0000.0000.0000.000
119A342PHE0-0.050-0.05011.283-0.239-0.2390.0000.0000.0000.000
120A343SER-1-0.894-0.9429.896-29.654-29.6540.0000.0000.0000.000
121A2CL--1-0.938-0.96832.301-9.996-9.9960.0000.0000.0000.000
122A3CL--1-0.772-0.79626.011-12.098-12.0980.0000.0000.0000.000
123A1HOH0-0.040-0.03131.6530.0610.0610.0000.0000.0000.000
124A4HOH00.001-0.00624.940-0.043-0.0430.0000.0000.0000.000
125A5HOH0-0.008-0.00520.448-0.318-0.3180.0000.0000.0000.000
126A6HOH00.0200.01418.863-0.180-0.1800.0000.0000.0000.000
127A7HOH0-0.048-0.02919.332-0.128-0.1280.0000.0000.0000.000
128A8HOH00.0030.00219.029-0.086-0.0860.0000.0000.0000.000
129A9HOH0-0.028-0.02723.6280.2170.2170.0000.0000.0000.000
130A10HOH0-0.016-0.01827.9630.0680.0680.0000.0000.0000.000
131A11HOH0-0.023-0.02028.0460.0250.0250.0000.0000.0000.000
132A13HOH0-0.024-0.01217.289-0.362-0.3620.0000.0000.0000.000
133A14HOH0-0.006-0.01022.003-0.079-0.0790.0000.0000.0000.000
134A15HOH0-0.034-0.02720.073-0.270-0.2700.0000.0000.0000.000
135A17HOH00.0310.01831.7970.0290.0290.0000.0000.0000.000
136A18HOH0-0.055-0.03534.0240.0930.0930.0000.0000.0000.000
137A19HOH0-0.020-0.02232.142-0.099-0.0990.0000.0000.0000.000
138A20HOH0-0.052-0.03020.4100.0490.0490.0000.0000.0000.000
139A21HOH0-0.033-0.01720.5060.2080.2080.0000.0000.0000.000
140A22HOH0-0.057-0.02913.8990.1570.1570.0000.0000.0000.000
141A23HOH0-0.021-0.02928.915-0.157-0.1570.0000.0000.0000.000
142A24HOH00.0190.01031.967-0.024-0.0240.0000.0000.0000.000
143A25HOH0-0.002-0.01032.1800.1140.1140.0000.0000.0000.000
144A26HOH00.0320.02326.228-0.098-0.0980.0000.0000.0000.000
145A27HOH0-0.007-0.00733.008-0.018-0.0180.0000.0000.0000.000
146A28HOH0-0.007-0.01135.0250.0900.0900.0000.0000.0000.000
147A29HOH0-0.045-0.02926.888-0.102-0.1020.0000.0000.0000.000
148A30HOH0-0.038-0.02221.8670.2290.2290.0000.0000.0000.000
149A31HOH00.0350.02032.813-0.087-0.0870.0000.0000.0000.000
150A34HOH0-0.0040.00836.849-0.080-0.0800.0000.0000.0000.000
151A35HOH0-0.062-0.04521.854-0.085-0.0850.0000.0000.0000.000
152A37HOH00.0220.0088.5910.4090.4090.0000.0000.0000.000
153A38HOH0-0.056-0.03432.110-0.029-0.0290.0000.0000.0000.000
154A39HOH0-0.041-0.02427.9590.1680.1680.0000.0000.0000.000
155A40HOH0-0.039-0.0143.619-1.331-1.1980.002-0.058-0.0770.000
156A41HOH0-0.042-0.03437.131-0.029-0.0290.0000.0000.0000.000
157A42HOH0-0.019-0.01525.7970.2190.2190.0000.0000.0000.000
158A44HOH00.001-0.00222.309-0.205-0.2050.0000.0000.0000.000
159A45HOH0-0.034-0.02226.3440.0020.0020.0000.0000.0000.000
160A46HOH0-0.0040.01211.7430.3860.3860.0000.0000.0000.000
161A47HOH0-0.014-0.02531.8000.0790.0790.0000.0000.0000.000
162A48HOH00.0230.01025.3250.0270.0270.0000.0000.0000.000
163A50HOH00.0330.0277.2391.4861.4860.0000.0000.0000.000
164A53HOH0-0.059-0.04613.7330.4890.4890.0000.0000.0000.000
165A54HOH0-0.042-0.02219.9770.1760.1760.0000.0000.0000.000
166A55HOH0-0.038-0.02315.587-0.424-0.4240.0000.0000.0000.000
167A58HOH0-0.0010.00533.8800.0510.0510.0000.0000.0000.000
168A62HOH0-0.045-0.02428.1290.0760.0760.0000.0000.0000.000
169A63HOH0-0.034-0.01832.8410.0550.0550.0000.0000.0000.000
170A64HOH0-0.037-0.02322.650-0.111-0.1110.0000.0000.0000.000
171A65HOH00.0380.02432.051-0.132-0.1320.0000.0000.0000.000
172A68HOH0-0.061-0.05112.9420.3400.3400.0000.0000.0000.000
173A70HOH00.0510.02928.8090.0650.0650.0000.0000.0000.000
174A71HOH0-0.036-0.02833.0990.0190.0190.0000.0000.0000.000
175A72HOH00.0070.01230.487-0.016-0.0160.0000.0000.0000.000
176A74HOH0-0.039-0.02229.9190.0020.0020.0000.0000.0000.000
177A76HOH00.0310.02229.9440.0780.0780.0000.0000.0000.000
178A77HOH0-0.077-0.10424.117-0.152-0.1520.0000.0000.0000.000
179A79HOH0-0.012-0.02731.7110.0880.0880.0000.0000.0000.000
180A80HOH0-0.035-0.01625.1640.1810.1810.0000.0000.0000.000
181A84HOH0-0.019-0.0128.180-1.176-1.1760.0000.0000.0000.000
182A87HOH0-0.043-0.04328.154-0.038-0.0380.0000.0000.0000.000
183A88HOH0-0.034-0.02629.365-0.145-0.1450.0000.0000.0000.000
184A89HOH0-0.004-0.01225.8700.1090.1090.0000.0000.0000.000
185A92HOH00.0240.02114.2490.2880.2880.0000.0000.0000.000
186A97HOH0-0.026-0.01731.8380.0990.0990.0000.0000.0000.000
187A98HOH0-0.029-0.05130.1860.1120.1120.0000.0000.0000.000
188A344HOH0-0.055-0.04431.8360.0720.0720.0000.0000.0000.000
189A345HOH00.0090.01328.0270.0000.0000.0000.0000.0000.000