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: JLQ49

Calculation Name: 1FS0-G-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1FS0

Chain ID: G

ChEMBL ID:

UniProt ID: P0A6E6

Base Structure: X-ray

Registration Date: 2023-06-22

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 223
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2623704.458035
FMO2-HF: Nuclear repulsion 2534567.452586
FMO2-HF: Total energy -89137.005449
FMO2-MP2: Total energy -89390.579216


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(G:19:LYS)


Summations of interaction energy for fragment #1(G:19:LYS)
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.
98.921102.0850.255-1.357-2.062-0.003
Interaction energy analysis for fragmet #1(G:19:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 1.018 / q_NPA : 0.987
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].
3G21THR00.0480.0273.200-1.9550.1850.024-0.997-1.167-0.002
4G22LYS10.9150.9472.77932.39333.1420.232-0.260-0.721-0.001
5G23ALA00.0240.0094.1553.1113.386-0.001-0.100-0.1740.000
6G24MET00.0030.0066.0713.4443.4440.0000.0000.0000.000
7G25GLU-1-0.822-0.9136.631-25.917-25.9170.0000.0000.0000.000
8G26MET00.0020.0028.0282.5822.5820.0000.0000.0000.000
9G27VAL0-0.0180.00810.0121.9591.9590.0000.0000.0000.000
10G28ALA00.0180.00312.0121.5451.5450.0000.0000.0000.000
11G29ALA00.0180.00112.8871.2571.2570.0000.0000.0000.000
12G30SER0-0.049-0.02813.6981.0551.0550.0000.0000.0000.000
13G31LYS10.8430.91916.09015.50915.5090.0000.0000.0000.000
14G32MET0-0.0210.01417.4720.6710.6710.0000.0000.0000.000
15G33ARG10.9700.97413.86918.58218.5820.0000.0000.0000.000
16G34LYS10.9951.00920.26912.91612.9160.0000.0000.0000.000
17G35SER0-0.019-0.03822.1550.7320.7320.0000.0000.0000.000
18G36GLN0-0.004-0.01720.7290.0710.0710.0000.0000.0000.000
19G37ASP-1-0.875-0.93423.828-11.943-11.9430.0000.0000.0000.000
20G38ARG10.8370.92025.79711.30111.3010.0000.0000.0000.000
21G39MET0-0.0180.00725.3710.4500.4500.0000.0000.0000.000
22G40ALA00.0090.01728.5950.3910.3910.0000.0000.0000.000
23G41ALA00.005-0.00730.2870.3380.3380.0000.0000.0000.000
24G42SER0-0.041-0.02532.2780.3720.3720.0000.0000.0000.000
25G43ARG10.8670.90633.3108.7898.7890.0000.0000.0000.000
26G44PRO00.0180.00935.3320.2610.2610.0000.0000.0000.000
27G45TYR00.0270.02838.3460.2620.2620.0000.0000.0000.000
28G46ALA00.0580.03638.5950.2160.2160.0000.0000.0000.000
29G47GLU-1-0.820-0.89037.606-7.801-7.8010.0000.0000.0000.000
30G48THR0-0.058-0.05241.6400.2200.2200.0000.0000.0000.000
31G49MET00.0260.03143.6810.1820.1820.0000.0000.0000.000
32G50ARG10.9230.96744.1086.5806.5800.0000.0000.0000.000
33G51LYS10.9070.96042.9697.2047.2040.0000.0000.0000.000
34G52VAL0-0.0080.00947.6530.1370.1370.0000.0000.0000.000
35G53ILE00.0190.00847.1660.1290.1290.0000.0000.0000.000
36G54GLY0-0.041-0.02149.9180.1070.1070.0000.0000.0000.000
37G55HIS0-0.010-0.00851.5310.0000.0000.0000.0000.0000.000
38G56LEU0-0.008-0.01053.5610.1030.1030.0000.0000.0000.000
39G57ALA0-0.030-0.01653.7480.1050.1050.0000.0000.0000.000
40G58HIS0-0.067-0.02155.6330.0590.0590.0000.0000.0000.000
41G59GLY00.0260.01557.7960.0860.0860.0000.0000.0000.000
42G60ASN0-0.044-0.02159.1030.0710.0710.0000.0000.0000.000
43G61LEU00.0240.00960.797-0.009-0.0090.0000.0000.0000.000
44G62GLU-1-0.921-0.95363.905-4.550-4.5500.0000.0000.0000.000
45G63TYR0-0.023-0.03059.9060.0090.0090.0000.0000.0000.000
46G64LYS10.9250.97856.7635.2925.2920.0000.0000.0000.000
47G65HIS00.026-0.01054.4410.0330.0330.0000.0000.0000.000
48G66PRO00.0800.02656.531-0.066-0.0660.0000.0000.0000.000
49G67TYR0-0.070-0.04650.136-0.111-0.1110.0000.0000.0000.000
50G68LEU0-0.055-0.02952.047-0.128-0.1280.0000.0000.0000.000
51G69GLU-1-0.914-0.96554.362-5.104-5.1040.0000.0000.0000.000
52G70ASP-1-0.815-0.89353.919-5.725-5.7250.0000.0000.0000.000
53G71ARG10.8010.88555.6555.5545.5540.0000.0000.0000.000
54G72ASP-1-0.851-0.91956.854-5.120-5.1200.0000.0000.0000.000
55G73VAL0-0.026-0.01452.402-0.038-0.0380.0000.0000.0000.000
56G74LYS10.9040.94655.6804.9924.9920.0000.0000.0000.000
57G75ARG10.7350.81651.9105.6885.6880.0000.0000.0000.000
58G76VAL00.0150.01348.100-0.016-0.0160.0000.0000.0000.000
59G77GLY00.0430.02146.8520.0060.0060.0000.0000.0000.000
60G78TYR0-0.004-0.01241.486-0.029-0.0290.0000.0000.0000.000
61G79LEU00.0150.01039.863-0.028-0.0280.0000.0000.0000.000
62G80VAL0-0.032-0.03336.232-0.121-0.1210.0000.0000.0000.000
63G81VAL0-0.0090.00931.622-0.109-0.1090.0000.0000.0000.000
64G82SER0-0.036-0.02331.077-0.046-0.0460.0000.0000.0000.000
65G83THR0-0.024-0.01925.586-0.004-0.0040.0000.0000.0000.000
66G84ASP-1-0.700-0.82327.851-9.306-9.3060.0000.0000.0000.000
67G85ARG10.7510.84822.58211.99911.9990.0000.0000.0000.000
68G86GLY00.0450.02824.3280.1920.1920.0000.0000.0000.000
69G87LEU00.0310.01017.821-0.246-0.2460.0000.0000.0000.000
70G88CYS00.0260.01220.210-0.346-0.3460.0000.0000.0000.000
71G89GLY00.0640.03322.2010.1740.1740.0000.0000.0000.000
72G90GLY00.010-0.00323.3530.2480.2480.0000.0000.0000.000
73G91LEU0-0.0170.01724.3290.3370.3370.0000.0000.0000.000
74G92ASN00.0480.01127.0390.3080.3080.0000.0000.0000.000
75G93ILE00.0300.02328.5860.2460.2460.0000.0000.0000.000
76G94ASN00.001-0.02028.7780.4770.4770.0000.0000.0000.000
77G95LEU0-0.0120.02231.7730.2230.2230.0000.0000.0000.000
78G96PHE00.0100.00032.8700.1760.1760.0000.0000.0000.000
79G97LYS10.9630.99233.9068.2828.2820.0000.0000.0000.000
80G98LYS10.8240.91236.0077.6877.6870.0000.0000.0000.000
81G99LEU00.0280.01237.7300.1600.1600.0000.0000.0000.000
82G100LEU00.014-0.00338.8990.1690.1690.0000.0000.0000.000
83G101ALA0-0.0080.00940.9580.1770.1770.0000.0000.0000.000
84G102GLU-1-0.816-0.90241.030-6.924-6.9240.0000.0000.0000.000
85G103MET00.0050.00443.2420.0930.0930.0000.0000.0000.000
86G104LYS10.8480.91745.3376.0846.0840.0000.0000.0000.000
87G105THR0-0.063-0.04346.6680.1440.1440.0000.0000.0000.000
88G106TRP00.0380.01247.2770.2240.2240.0000.0000.0000.000
89G107THR00.0460.01049.1750.0790.0790.0000.0000.0000.000
90G108ASP-1-0.846-0.89950.901-5.726-5.7260.0000.0000.0000.000
91G109LYS10.8280.92852.5685.7455.7450.0000.0000.0000.000
92G110GLY00.0120.01455.0340.0840.0840.0000.0000.0000.000
93G111VAL0-0.050-0.00752.0310.0150.0150.0000.0000.0000.000
94G112GLN00.0420.01951.797-0.163-0.1630.0000.0000.0000.000
95G113CYS0-0.033-0.00746.653-0.050-0.0500.0000.0000.0000.000
96G114ASP-1-0.759-0.82947.535-6.006-6.0060.0000.0000.0000.000
97G115LEU0-0.040-0.04141.772-0.122-0.1220.0000.0000.0000.000
98G116ALA00.0430.01742.3120.0460.0460.0000.0000.0000.000
99G117MET0-0.0520.00737.112-0.231-0.2310.0000.0000.0000.000
100G118ILE00.0340.01033.975-0.025-0.0250.0000.0000.0000.000
101G119GLY00.0270.03132.272-0.203-0.2030.0000.0000.0000.000
102G120SER00.000-0.05931.0220.2220.2220.0000.0000.0000.000
103G121LYS10.8470.93927.5949.9579.9570.0000.0000.0000.000
104G122GLY00.1090.04831.9070.1580.1580.0000.0000.0000.000
105G123VAL00.0280.00834.8560.2010.2010.0000.0000.0000.000
106G124SER0-0.095-0.04933.7170.1070.1070.0000.0000.0000.000
107G125PHE00.011-0.00334.6610.1070.1070.0000.0000.0000.000
108G126PHE00.044-0.00636.5640.1250.1250.0000.0000.0000.000
109G127ASN0-0.050-0.02339.6070.3160.3160.0000.0000.0000.000
110G128SER0-0.049-0.01138.5860.0880.0880.0000.0000.0000.000
111G129VAL0-0.070-0.03039.2510.0720.0720.0000.0000.0000.000
112G130GLY00.0220.03442.0350.1580.1580.0000.0000.0000.000
113G131GLY00.027-0.01443.568-0.106-0.1060.0000.0000.0000.000
114G132ASN0-0.034-0.02345.363-0.005-0.0050.0000.0000.0000.000
115G133VAL0-0.015-0.01241.832-0.036-0.0360.0000.0000.0000.000
116G134VAL00.0050.01744.7120.0260.0260.0000.0000.0000.000
117G135ALA00.0020.00144.1380.0430.0430.0000.0000.0000.000
118G136GLN0-0.006-0.01539.271-0.048-0.0480.0000.0000.0000.000
119G137VAL00.0060.01136.0570.0570.0570.0000.0000.0000.000
120G138THR0-0.023-0.01433.881-0.050-0.0500.0000.0000.0000.000
121G139GLY00.007-0.00430.7910.0970.0970.0000.0000.0000.000
122G140MET00.0150.03630.437-0.138-0.1380.0000.0000.0000.000
123G141GLY0-0.008-0.00926.493-0.325-0.3250.0000.0000.0000.000
124G142ASP-1-0.813-0.89621.831-13.022-13.0220.0000.0000.0000.000
125G143ASN0-0.073-0.04124.901-0.226-0.2260.0000.0000.0000.000
126G144PRO00.0720.05428.0480.2310.2310.0000.0000.0000.000
127G145SER0-0.026-0.04731.1530.0050.0050.0000.0000.0000.000
128G146LEU00.0530.00734.2390.0760.0760.0000.0000.0000.000
129G147SER00.021-0.00437.2570.1760.1760.0000.0000.0000.000
130G148GLU-1-0.836-0.88334.296-8.703-8.7030.0000.0000.0000.000
131G149LEU0-0.014-0.01034.9800.0540.0540.0000.0000.0000.000
132G150ILE00.0130.01439.1980.1560.1560.0000.0000.0000.000
133G151GLY00.0170.02042.3090.1690.1690.0000.0000.0000.000
134G152PRO00.023-0.00939.7390.1540.1540.0000.0000.0000.000
135G153VAL00.0090.00541.4400.1170.1170.0000.0000.0000.000
136G154LYS10.8920.95244.1036.1586.1580.0000.0000.0000.000
137G155VAL00.0070.00446.6530.1590.1590.0000.0000.0000.000
138G156MET0-0.021-0.00444.5630.1620.1620.0000.0000.0000.000
139G157LEU0-0.014-0.00847.0030.0960.0960.0000.0000.0000.000
140G158GLN00.0240.01249.5780.0130.0130.0000.0000.0000.000
141G159ALA0-0.003-0.00250.7930.1210.1210.0000.0000.0000.000
142G160TYR0-0.044-0.03051.0920.0750.0750.0000.0000.0000.000
143G161ASP-1-0.781-0.85953.077-5.683-5.6830.0000.0000.0000.000
144G162GLU-1-0.826-0.89055.542-5.421-5.4210.0000.0000.0000.000
145G163GLY0-0.0120.00556.7770.0790.0790.0000.0000.0000.000
146G164ARG10.8340.90852.4195.6905.6900.0000.0000.0000.000
147G165LEU0-0.050-0.01948.937-0.091-0.0910.0000.0000.0000.000
148G166ASP-1-0.773-0.87452.934-5.367-5.3670.0000.0000.0000.000
149G167LYS10.8020.89448.9205.7895.7890.0000.0000.0000.000
150G168LEU0-0.0150.00545.182-0.029-0.0290.0000.0000.0000.000
151G169TYR00.0290.01342.553-0.008-0.0080.0000.0000.0000.000
152G170ILE00.0060.01536.769-0.035-0.0350.0000.0000.0000.000
153G171VAL00.0290.00435.9250.0340.0340.0000.0000.0000.000
154G172SER00.0320.00832.660-0.069-0.0690.0000.0000.0000.000
155G173ASN0-0.072-0.05528.5520.1400.1400.0000.0000.0000.000
156G174LYS10.8870.92829.8808.6308.6300.0000.0000.0000.000
157G175PHE0-0.001-0.01221.975-0.260-0.2600.0000.0000.0000.000
158G176ILE0-0.0100.00425.7900.2590.2590.0000.0000.0000.000
159G177ASN00.009-0.00821.688-0.491-0.4910.0000.0000.0000.000
160G178THR00.041-0.00216.8590.3450.3450.0000.0000.0000.000
161G179MET0-0.039-0.01117.423-0.512-0.5120.0000.0000.0000.000
162G180SER0-0.0200.00720.4340.4930.4930.0000.0000.0000.000
163G181GLN0-0.005-0.00821.3760.0180.0180.0000.0000.0000.000
164G182VAL00.0260.01426.3940.1030.1030.0000.0000.0000.000
165G183PRO00.0030.01129.6170.1360.1360.0000.0000.0000.000
166G184THR0-0.040-0.02232.3480.2340.2340.0000.0000.0000.000
167G185ILE0-0.005-0.00335.327-0.062-0.0620.0000.0000.0000.000
168G186SER0-0.058-0.02738.7850.0050.0050.0000.0000.0000.000
169G187GLN0-0.007-0.00741.147-0.032-0.0320.0000.0000.0000.000
170G188LEU0-0.066-0.03241.054-0.080-0.0800.0000.0000.0000.000
171G189LEU0-0.0260.01145.1250.0700.0700.0000.0000.0000.000
172G190PRO00.0720.02748.881-0.040-0.0400.0000.0000.0000.000
173G191LEU00.003-0.00646.527-0.116-0.1160.0000.0000.0000.000
174G192PRO0-0.061-0.01345.0920.1150.1150.0000.0000.0000.000
175G200LYS10.9570.96054.7655.3335.3330.0000.0000.0000.000
176G201HIS00.0380.02854.935-0.135-0.1350.0000.0000.0000.000
177G202LYS10.7930.91252.2245.8625.8620.0000.0000.0000.000
178G203SER0-0.0020.00457.3830.0380.0380.0000.0000.0000.000
179G204TRP00.0640.02253.4660.0340.0340.0000.0000.0000.000
180G205ASP-1-0.776-0.87658.732-5.375-5.3750.0000.0000.0000.000
181G206TYR0-0.060-0.03352.638-0.061-0.0610.0000.0000.0000.000
182G207LEU00.0290.03258.4620.0870.0870.0000.0000.0000.000
183G208TYR0-0.074-0.07256.944-0.155-0.1550.0000.0000.0000.000
184G209GLU-1-0.902-0.92758.735-5.168-5.1680.0000.0000.0000.000
185G210PRO0-0.052-0.03558.009-0.110-0.1100.0000.0000.0000.000
186G211ASP-1-0.762-0.90260.031-5.065-5.0650.0000.0000.0000.000
187G212PRO00.0370.01158.328-0.102-0.1020.0000.0000.0000.000
188G213LYS10.9050.98157.4904.9024.9020.0000.0000.0000.000
189G214ALA0-0.002-0.01057.280-0.097-0.0970.0000.0000.0000.000
190G215LEU0-0.0100.01054.262-0.143-0.1430.0000.0000.0000.000
191G216LEU00.0100.00052.794-0.152-0.1520.0000.0000.0000.000
192G217ASP-1-0.791-0.85652.444-5.837-5.8370.0000.0000.0000.000
193G218THR0-0.006-0.00750.100-0.136-0.1360.0000.0000.0000.000
194G219LEU0-0.030-0.03548.632-0.179-0.1790.0000.0000.0000.000
195G220LEU0-0.006-0.00747.541-0.185-0.1850.0000.0000.0000.000
196G221ARG10.7440.82747.2955.7145.7140.0000.0000.0000.000
197G222ARG10.8750.92844.8556.4546.4540.0000.0000.0000.000
198G223TYR0-0.026-0.01241.752-0.200-0.2000.0000.0000.0000.000
199G224VAL00.0380.01942.343-0.194-0.1940.0000.0000.0000.000
200G225GLU-1-0.833-0.91141.742-6.998-6.9980.0000.0000.0000.000
201G226SER0-0.029-0.01438.666-0.257-0.2570.0000.0000.0000.000
202G227GLN0-0.005-0.00737.633-0.130-0.1300.0000.0000.0000.000
203G228VAL00.0380.02137.259-0.208-0.2080.0000.0000.0000.000
204G229TYR0-0.011-0.00931.762-0.306-0.3060.0000.0000.0000.000
205G230GLN0-0.016-0.02433.330-0.115-0.1150.0000.0000.0000.000
206G231GLY00.0580.03132.393-0.269-0.2690.0000.0000.0000.000
207G232VAL00.005-0.00731.291-0.270-0.2700.0000.0000.0000.000
208G233VAL0-0.035-0.01728.671-0.387-0.3870.0000.0000.0000.000
209G234GLU-1-0.779-0.87627.556-9.559-9.5590.0000.0000.0000.000
210G235ASN00.0600.04927.402-0.226-0.2260.0000.0000.0000.000
211G236LEU0-0.035-0.00124.228-0.331-0.3310.0000.0000.0000.000
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213G238SER0-0.018-0.03222.438-0.501-0.5010.0000.0000.0000.000
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