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: 245ZR

Calculation Name: 1JB7-B-Xray547

Preferred Name:

Target Type:

Ligand Name: chloride ion

Ligand 3-letter code: CL

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1JB7

Chain ID: B

ChEMBL ID:

UniProt ID: P29549

Base Structure: X-ray

Registration Date: 2025-10-03

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 216
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2405711.573287
FMO2-HF: Nuclear repulsion 2321785.370633
FMO2-HF: Total energy -83926.202654
FMO2-MP2: Total energy -84177.473402


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:9:GLN)


Summations of interaction energy for fragment #1(A:9:GLN)
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.
36.69638.434-0.01-0.598-1.130
Interaction energy analysis for fragmet #1(A:9:GLN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.867 / q_NPA : 0.927
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].
3A11GLN00.0310.0233.8245.2406.874-0.009-0.596-1.0290.000
4A12SER0-0.052-0.0325.3814.8464.950-0.001-0.002-0.1010.000
5A13ALA00.0610.0248.835-1.437-1.4370.0000.0000.0000.000
6A14PHE00.012-0.00310.0640.4240.4240.0000.0000.0000.000
7A15LYS10.8340.8879.19030.41830.4180.0000.0000.0000.000
8A16GLN0-0.041-0.0175.952-2.775-2.7750.0000.0000.0000.000
9A17LEU0-0.0080.0008.7031.4731.4730.0000.0000.0000.000
10A18TYR00.0270.00312.0151.3221.3220.0000.0000.0000.000
11A19THR0-0.008-0.01710.0121.4501.4500.0000.0000.0000.000
12A20GLU-1-0.814-0.8938.551-27.863-27.8630.0000.0000.0000.000
13A21LEU0-0.0260.00412.2471.2831.2830.0000.0000.0000.000
14A22PHE00.004-0.01015.5401.0621.0620.0000.0000.0000.000
15A23ASN0-0.004-0.01111.9191.9711.9710.0000.0000.0000.000
16A24ASN0-0.066-0.02613.7021.0841.0840.0000.0000.0000.000
17A25GLU-1-0.847-0.92317.222-12.607-12.6070.0000.0000.0000.000
18A26GLY00.004-0.00319.2580.7840.7840.0000.0000.0000.000
19A27ASP-1-0.845-0.89520.326-12.985-12.9850.0000.0000.0000.000
20A28PHE00.0380.00517.236-0.665-0.6650.0000.0000.0000.000
21A29SER0-0.093-0.07219.177-0.420-0.4200.0000.0000.0000.000
22A30LYS10.8390.91417.75413.45313.4530.0000.0000.0000.000
23A31VAL0-0.0370.00812.652-0.846-0.8460.0000.0000.0000.000
24A32SER00.009-0.02910.7451.0951.0950.0000.0000.0000.000
25A33SER00.0310.00813.006-0.367-0.3670.0000.0000.0000.000
26A34ASN00.0070.0019.4521.5391.5390.0000.0000.0000.000
27A35LEU0-0.059-0.0308.285-1.040-1.0400.0000.0000.0000.000
28A36LYS10.8360.93912.18216.55416.5540.0000.0000.0000.000
29A37LYS10.9650.9879.98724.34324.3430.0000.0000.0000.000
30A38PRO00.025-0.00116.329-0.280-0.2800.0000.0000.0000.000
31A39LEU0-0.0170.00714.327-0.983-0.9830.0000.0000.0000.000
32A40LYS10.8420.90916.55316.16116.1610.0000.0000.0000.000
33A41CYS0-0.055-0.02316.496-0.881-0.8810.0000.0000.0000.000
34A42TYR0-0.029-0.02618.4680.7130.7130.0000.0000.0000.000
35A43VAL0-0.006-0.00120.469-0.517-0.5170.0000.0000.0000.000
36A44LYS10.8490.93221.86213.32813.3280.0000.0000.0000.000
37A45GLU-1-0.853-0.92523.766-11.622-11.6220.0000.0000.0000.000
38A46SER0-0.042-0.02626.745-0.365-0.3650.0000.0000.0000.000
39A47TYR00.0670.02829.4720.1720.1720.0000.0000.0000.000
40A48PRO0-0.012-0.00632.134-0.078-0.0780.0000.0000.0000.000
41A49HIS00.0190.00528.329-0.095-0.0950.0000.0000.0000.000
42A50PHE00.0120.00525.064-0.117-0.1170.0000.0000.0000.000
43A51LEU0-0.046-0.02423.136-0.395-0.3950.0000.0000.0000.000
44A52VAL00.0200.00619.6280.0760.0760.0000.0000.0000.000
45A53THR0-0.028-0.03617.075-0.788-0.7880.0000.0000.0000.000
46A54ASP-1-0.724-0.83812.109-24.282-24.2820.0000.0000.0000.000
47A55GLY00.0280.01612.389-1.440-1.4400.0000.0000.0000.000
48A56TYR0-0.053-0.0397.7780.0650.0650.0000.0000.0000.000
49A57PHE0-0.009-0.01711.2900.6260.6260.0000.0000.0000.000
50A58PHE00.0230.00215.6520.2570.2570.0000.0000.0000.000
51A59VAL0-0.022-0.01017.466-0.167-0.1670.0000.0000.0000.000
52A60ALA00.0590.03320.3700.3210.3210.0000.0000.0000.000
53A61PRO0-0.092-0.01922.745-0.283-0.2830.0000.0000.0000.000
54A62TYR0-0.025-0.05223.9680.7070.7070.0000.0000.0000.000
55A63PHE00.0090.00426.499-0.104-0.1040.0000.0000.0000.000
56A64THR00.0320.03128.8070.3930.3930.0000.0000.0000.000
57A65LYS10.9700.98131.1397.9927.9920.0000.0000.0000.000
58A66GLU-1-0.850-0.94332.799-8.839-8.8390.0000.0000.0000.000
59A67ALA00.0090.01929.0700.0690.0690.0000.0000.0000.000
60A68VAL0-0.002-0.01131.071-0.033-0.0330.0000.0000.0000.000
61A69ASN0-0.0210.00133.1340.1900.1900.0000.0000.0000.000
62A70GLU-1-0.789-0.85630.207-10.038-10.0380.0000.0000.0000.000
63A71PHE00.010-0.00428.8820.0860.0860.0000.0000.0000.000
64A72HIS10.8430.89032.7048.7738.7730.0000.0000.0000.000
65A73ALA0-0.0100.01136.3290.2000.2000.0000.0000.0000.000
66A74LYS10.8390.91130.9589.8279.8270.0000.0000.0000.000
67A75PHE0-0.036-0.02730.228-0.091-0.0910.0000.0000.0000.000
68A76PRO00.0600.03035.214-0.048-0.0480.0000.0000.0000.000
69A77ASN0-0.045-0.01737.6520.1770.1770.0000.0000.0000.000
70A78VAL0-0.048-0.02431.945-0.117-0.1170.0000.0000.0000.000
71A79ASN00.0280.02835.3890.0960.0960.0000.0000.0000.000
72A80ILE00.000-0.02630.138-0.278-0.2780.0000.0000.0000.000
73A81VAL00.003-0.01631.269-0.382-0.3820.0000.0000.0000.000
74A82ASP-1-0.834-0.88633.126-8.780-8.7800.0000.0000.0000.000
75A83LEU0-0.084-0.04127.975-0.139-0.1390.0000.0000.0000.000
76A84THR00.027-0.00727.623-0.521-0.5210.0000.0000.0000.000
77A85ASP-1-0.801-0.84425.617-11.429-11.4290.0000.0000.0000.000
78A86LYS10.9300.97926.19110.12110.1210.0000.0000.0000.000
79A87VAL00.0080.00520.604-0.540-0.5400.0000.0000.0000.000
80A88ILE0-0.0020.00522.2060.6490.6490.0000.0000.0000.000
81A89VAL0-0.009-0.01220.012-0.867-0.8670.0000.0000.0000.000
82A90ILE00.0210.01320.1210.7520.7520.0000.0000.0000.000
83A91ASN0-0.012-0.02120.439-1.001-1.0010.0000.0000.0000.000
84A92ASN0-0.004-0.00222.050-0.495-0.4950.0000.0000.0000.000
85A93TRP00.009-0.00815.3550.1720.1720.0000.0000.0000.000
86A94SER00.0150.01921.0460.0210.0210.0000.0000.0000.000
87A95LEU0-0.023-0.00315.716-0.179-0.1790.0000.0000.0000.000
88A96GLU-1-0.889-0.95620.409-11.199-11.1990.0000.0000.0000.000
89A97LEU00.0140.00820.329-0.342-0.3420.0000.0000.0000.000
90A98ARG10.8750.92923.40311.16811.1680.0000.0000.0000.000
91A99ARG10.8910.94226.0699.7189.7180.0000.0000.0000.000
92A100VAL0-0.051-0.02527.1830.2640.2640.0000.0000.0000.000
93A101ASN00.0380.00929.970-0.328-0.3280.0000.0000.0000.000
94A102SER0-0.016-0.03726.936-0.152-0.1520.0000.0000.0000.000
95A103ALA0-0.049-0.01429.063-0.222-0.2220.0000.0000.0000.000
96A104GLU-1-0.909-0.92931.758-8.924-8.9240.0000.0000.0000.000
97A105VAL0-0.004-0.00226.740-0.075-0.0750.0000.0000.0000.000
98A106PHE00.0220.02025.582-0.504-0.5040.0000.0000.0000.000
99A107THR0-0.050-0.02323.271-0.491-0.4910.0000.0000.0000.000
100A108SER00.001-0.00523.305-0.136-0.1360.0000.0000.0000.000
101A109TYR0-0.024-0.03521.2040.1650.1650.0000.0000.0000.000
102A110ALA00.0060.00523.795-0.051-0.0510.0000.0000.0000.000
103A111ASN00.0270.01025.954-0.048-0.0480.0000.0000.0000.000
104A112LEU0-0.0170.00123.3330.2060.2060.0000.0000.0000.000
105A113GLU-1-0.717-0.83222.919-12.639-12.6390.0000.0000.0000.000
106A114ALA0-0.0280.00318.8140.1560.1560.0000.0000.0000.000
107A115ARG10.8390.91020.79911.31711.3170.0000.0000.0000.000
108A116LEU00.0390.02318.548-0.231-0.2310.0000.0000.0000.000
109A117ILE0-0.0110.00421.1600.5160.5160.0000.0000.0000.000
110A118VAL0-0.015-0.01223.271-0.379-0.3790.0000.0000.0000.000
111A119HIS00.0180.00024.9610.8150.8150.0000.0000.0000.000
112A120SER0-0.055-0.05725.9050.3170.3170.0000.0000.0000.000
113A121PHE0-0.023-0.02724.849-0.686-0.6860.0000.0000.0000.000
114A122LYS10.9230.97525.24011.84311.8430.0000.0000.0000.000
115A123PRO00.0250.03125.533-0.574-0.5740.0000.0000.0000.000
116A124ASN0-0.045-0.04022.8850.6850.6850.0000.0000.0000.000
117A125LEU00.010-0.00726.304-0.188-0.1880.0000.0000.0000.000
118A126GLN0-0.022-0.00928.4220.2110.2110.0000.0000.0000.000
119A127GLU-1-0.774-0.84421.004-13.984-13.9840.0000.0000.0000.000
120A128ARG10.7970.85923.23011.85111.8510.0000.0000.0000.000
121A129LEU00.0090.00716.789-0.224-0.2240.0000.0000.0000.000
122A130ASN00.005-0.00715.3530.4260.4260.0000.0000.0000.000
123A131PRO00.0190.01117.341-0.195-0.1950.0000.0000.0000.000
124A132THR0-0.0150.00714.115-0.889-0.8890.0000.0000.0000.000
125A133ARG10.8470.92512.67624.11424.1140.0000.0000.0000.000
126A134TYR00.0540.01916.0810.1900.1900.0000.0000.0000.000
127A135PRO0-0.0180.01217.117-0.771-0.7710.0000.0000.0000.000
128A136VAL00.0320.00216.6891.0321.0320.0000.0000.0000.000
129A137ASN00.020-0.00318.145-1.199-1.1990.0000.0000.0000.000
130A138LEU00.0360.03013.619-0.360-0.3600.0000.0000.0000.000
131A139PHE00.0130.01117.194-0.639-0.6390.0000.0000.0000.000
132A140ARG10.7970.87319.13214.51314.5130.0000.0000.0000.000
133A141ASP-1-0.800-0.87913.221-24.679-24.6790.0000.0000.0000.000
134A142ASP-1-0.891-0.93114.966-18.283-18.2830.0000.0000.0000.000
135A143GLU-1-0.794-0.8919.156-33.240-33.2400.0000.0000.0000.000
136A144PHE0-0.022-0.00513.0830.4640.4640.0000.0000.0000.000
137A145LYS10.9460.98114.63315.82115.8210.0000.0000.0000.000
138A146THR00.0010.00715.0951.2561.2560.0000.0000.0000.000
139A147THR0-0.037-0.02613.3670.1440.1440.0000.0000.0000.000
140A148ILE0-0.023-0.00815.7230.9010.9010.0000.0000.0000.000
141A149GLN0-0.002-0.00219.2050.9760.9760.0000.0000.0000.000
142A150HIS00.0400.03016.5741.0391.0390.0000.0000.0000.000
143A151PHE00.0140.01919.1670.7340.7340.0000.0000.0000.000
144A152ARG10.9140.94220.62312.60712.6070.0000.0000.0000.000
145A153HIS0-0.0270.00022.2560.6930.6930.0000.0000.0000.000
146A154THR0-0.013-0.01921.0980.4450.4450.0000.0000.0000.000
147A155ALA0-0.021-0.00223.7450.4600.4600.0000.0000.0000.000
148A156LEU00.0000.00026.5830.5110.5110.0000.0000.0000.000
149A157GLN00.0410.01725.7760.0880.0880.0000.0000.0000.000
150A158ALA00.0010.01227.7840.3430.3430.0000.0000.0000.000
151A159ALA00.006-0.00129.5040.4000.4000.0000.0000.0000.000
152A160ILE00.0150.01031.1200.4140.4140.0000.0000.0000.000
153A161ASN0-0.039-0.02730.6530.5130.5130.0000.0000.0000.000
154A162LYS10.9611.00633.9879.1639.1630.0000.0000.0000.000
155A163THR0-0.068-0.04735.8430.3660.3660.0000.0000.0000.000
156A164VAL0-0.013-0.01537.1490.2960.2960.0000.0000.0000.000
157A165LYS10.8890.94038.3767.7377.7370.0000.0000.0000.000
158A166GLY0-0.007-0.00741.0380.1120.1120.0000.0000.0000.000
159A167ASP-1-0.910-0.94341.170-7.528-7.5280.0000.0000.0000.000
160A168ASN0-0.0100.00243.3610.2500.2500.0000.0000.0000.000
161A169LEU0-0.013-0.00941.774-0.108-0.1080.0000.0000.0000.000
162A170VAL0-0.020-0.01444.5300.1690.1690.0000.0000.0000.000
163A171ASP-1-0.846-0.89646.806-6.091-6.0910.0000.0000.0000.000
164A172ILE00.0790.03149.2060.0240.0240.0000.0000.0000.000
165A173SER0-0.042-0.04250.6150.0540.0540.0000.0000.0000.000
166A174LYS10.9170.95650.6376.2446.2440.0000.0000.0000.000
167A175VAL0-0.019-0.00547.372-0.016-0.0160.0000.0000.0000.000
168A176ALA0-0.0010.01150.7330.0060.0060.0000.0000.0000.000
169A177ASP-1-0.902-0.96553.276-5.405-5.4050.0000.0000.0000.000
170A178ALA00.0120.00052.8820.0510.0510.0000.0000.0000.000
171A179ALA00.0040.01254.988-0.002-0.0020.0000.0000.0000.000
172A180GLY00.0210.01557.9270.0450.0450.0000.0000.0000.000
173A181LYS10.7910.89755.3065.7465.7460.0000.0000.0000.000
174A182LYS10.9670.98752.0946.0236.0230.0000.0000.0000.000
175A183GLY00.0260.01451.1710.0370.0370.0000.0000.0000.000
176A184LYS10.9180.95349.7376.0996.0990.0000.0000.0000.000
177A185VAL00.0470.00444.280-0.015-0.0150.0000.0000.0000.000
178A186ASP-1-0.882-0.94244.297-6.835-6.8350.0000.0000.0000.000
179A187ALA0-0.023-0.00944.945-0.089-0.0890.0000.0000.0000.000
180A188GLY0-0.0030.00742.603-0.006-0.0060.0000.0000.0000.000
181A189ILE0-0.061-0.02540.001-0.240-0.2400.0000.0000.0000.000
182A190VAL00.0190.01638.4820.1540.1540.0000.0000.0000.000
183A191LYS10.9080.95638.1647.6997.6990.0000.0000.0000.000
184A192ALA00.0350.01033.5200.0270.0270.0000.0000.0000.000
185A193SER00.0110.01934.088-0.222-0.2220.0000.0000.0000.000
186A194ALA00.0030.00236.1900.1900.1900.0000.0000.0000.000
187A195SER0-0.0050.00135.216-0.018-0.0180.0000.0000.0000.000
188A196LYS10.9540.96437.6138.1108.1100.0000.0000.0000.000
189A197GLY00.0210.01139.1720.2080.2080.0000.0000.0000.000
190A198ASP-1-0.936-0.97138.659-8.204-8.2040.0000.0000.0000.000
191A199GLU-1-0.865-0.90731.693-10.146-10.1460.0000.0000.0000.000
192A200PHE0-0.056-0.02428.9110.1640.1640.0000.0000.0000.000
193A201SER0-0.039-0.04931.445-0.197-0.1970.0000.0000.0000.000
194A202ASP-1-0.905-0.94932.136-9.485-9.4850.0000.0000.0000.000
195A203PHE0-0.002-0.01325.356-0.364-0.3640.0000.0000.0000.000
196A204SER00.0170.00725.4640.2430.2430.0000.0000.0000.000
197A205PHE0-0.0100.01224.2810.0560.0560.0000.0000.0000.000
198A206LYS10.9630.98026.19310.82510.8250.0000.0000.0000.000
199A207GLU-1-0.878-0.93727.060-10.816-10.8160.0000.0000.0000.000
200A208GLY0-0.0050.00626.7060.2250.2250.0000.0000.0000.000
201A209ASN0-0.033-0.03027.5630.0770.0770.0000.0000.0000.000
202A210THR00.0380.03227.7270.2660.2660.0000.0000.0000.000
203A211ALA0-0.0110.00330.7620.0520.0520.0000.0000.0000.000
204A212THR0-0.058-0.05329.908-0.304-0.3040.0000.0000.0000.000
205A213LEU00.0050.00332.0920.3020.3020.0000.0000.0000.000
206A214LYS10.9560.98332.5878.1288.1280.0000.0000.0000.000
207A215ILE00.012-0.00730.9730.1360.1360.0000.0000.0000.000
208A216ALA00.0300.01333.8390.1100.1100.0000.0000.0000.000
209A217ASP-1-0.858-0.92737.310-8.240-8.2400.0000.0000.0000.000
210A218ILE0-0.050-0.02733.1010.1590.1590.0000.0000.0000.000
211A219PHE00.0180.01336.8930.0350.0350.0000.0000.0000.000
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