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: 7M99K

Calculation Name: 1GO4-G-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1GO4

Chain ID: G

ChEMBL ID:

UniProt ID: Q9Y6D9

Base Structure: X-ray

Registration Date: 2025-07-10

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

DOI:

Apendix: None


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
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 194
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -506740.60392
FMO2-HF: Nuclear repulsion 465263.242062
FMO2-HF: Total energy -41477.361857
FMO2-MP2: Total energy -41595.973041


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(G:485:SER)


Summations of interaction energy for fragment #1(G:485:SER)
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.
-2.875-0.1720.614-1.528-1.7870.009
Interaction energy analysis for fragmet #1(G:485:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.118 / q_NPA : 0.036
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].
4G486SER0-0.0110.0594.6611.0461.262-0.001-0.082-0.1330.000
5G487ALA00.189-0.0583.866-0.5810.615-0.012-0.709-0.4750.002
6G487ALA0-0.0460.1258.093-0.028-0.0280.0000.0000.0000.000
7G488GLU0-0.013-0.1376.7400.0240.0240.0000.0000.0000.000
8G488GLU-1-0.911-0.8297.3540.6950.6950.0000.0000.0000.000
9G489GLN00.144-0.0773.529-1.420-1.2960.051-0.010-0.1650.001
10G489GLN0-0.0790.1022.707-1.453-0.3960.579-0.714-0.9220.006
11G490SER00.059-0.0894.661-0.370-0.294-0.002-0.008-0.0650.000
12G490SER0-0.0560.0764.381-0.269-0.235-0.001-0.005-0.0270.000
13G491PHE00.067-0.0655.606-0.139-0.1390.0000.0000.0000.000
14G491PHE0-0.0990.0819.446-0.046-0.0460.0000.0000.0000.000
15G492LEU00.004-0.0997.528-0.303-0.3030.0000.0000.0000.000
16G492LEU0-0.0710.0857.280-0.022-0.0220.0000.0000.0000.000
17G493PHE00.192-0.0546.725-0.209-0.2090.0000.0000.0000.000
18G493PHE0-0.0890.1026.0340.0430.0430.0000.0000.0000.000
19G494SER00.048-0.1027.967-0.119-0.1190.0000.0000.0000.000
20G494SER0-0.0690.0439.068-0.064-0.0640.0000.0000.0000.000
21G495ARG00.008-0.05710.536-0.100-0.1000.0000.0000.0000.000
22G495ARG10.7960.99711.500-0.615-0.6150.0000.0000.0000.000
23G496GLU00.174-0.08011.455-0.111-0.1110.0000.0000.0000.000
24G496GLU-1-1.034-0.8539.5650.9710.9710.0000.0000.0000.000
25G497GLU00.117-0.10611.485-0.054-0.0540.0000.0000.0000.000
26G497GLU-1-1.011-0.84211.0630.2200.2200.0000.0000.0000.000
27G498ALA00.103-0.10712.921-0.056-0.0560.0000.0000.0000.000
28G498ALA0-0.1000.10015.231-0.003-0.0030.0000.0000.0000.000
29G499ASP00.026-0.12115.720-0.051-0.0510.0000.0000.0000.000
30G499ASP-1-0.907-0.79716.3330.3300.3300.0000.0000.0000.000
31G500THR00.037-0.08816.035-0.037-0.0370.0000.0000.0000.000
32G500THR0-0.0660.04714.9710.0000.0000.0000.0000.0000.000
33G501LEU00.048-0.11116.935-0.025-0.0250.0000.0000.0000.000
34G501LEU0-0.0890.10115.730-0.007-0.0070.0000.0000.0000.000
35G502ARG00.083-0.08518.673-0.028-0.0280.0000.0000.0000.000
36G502ARG10.7180.98719.127-0.220-0.2200.0000.0000.0000.000
37G503LEU00.122-0.08820.828-0.023-0.0230.0000.0000.0000.000
38G503LEU0-0.0890.09919.8560.0020.0020.0000.0000.0000.000
39G504LYS00.128-0.06321.251-0.014-0.0140.0000.0000.0000.000
40G504LYS10.7641.00921.041-0.103-0.1030.0000.0000.0000.000
41G505VAL00.047-0.12822.799-0.015-0.0150.0000.0000.0000.000
42G505VAL0-0.0950.09622.711-0.002-0.0020.0000.0000.0000.000
43G506GLU00.068-0.12224.853-0.016-0.0160.0000.0000.0000.000
44G506GLU-1-0.961-0.84224.7070.1570.1570.0000.0000.0000.000
45G507GLU00.116-0.10125.975-0.010-0.0100.0000.0000.0000.000
46G507GLU-1-0.952-0.80725.6460.1170.1170.0000.0000.0000.000
47G508LEU00.041-0.11726.885-0.008-0.0080.0000.0000.0000.000
48G508LEU0-0.1030.08925.165-0.002-0.0020.0000.0000.0000.000
49G509GLU00.042-0.13528.587-0.011-0.0110.0000.0000.0000.000
50G509GLU-1-0.911-0.77729.0030.0690.0690.0000.0000.0000.000
51G510GLY00.022-0.09530.571-0.006-0.0060.0000.0000.0000.000
52G511GLU00.059-0.01531.285-0.003-0.0030.0000.0000.0000.000
53G511GLU-1-0.942-0.80930.4610.0690.0690.0000.0000.0000.000
54G512ARG00.103-0.10732.540-0.005-0.0050.0000.0000.0000.000
55G512ARG10.6930.96832.143-0.055-0.0550.0000.0000.0000.000
56G513SER00.042-0.09934.485-0.006-0.0060.0000.0000.0000.000
57G513SER0-0.0020.08835.5890.0010.0010.0000.0000.0000.000
58G514ARG0-0.011-0.09236.147-0.002-0.0020.0000.0000.0000.000
59G514ARG10.7531.00032.146-0.068-0.0680.0000.0000.0000.000
60G515LEU00.168-0.06336.995-0.003-0.0030.0000.0000.0000.000
61G515LEU0-0.1110.08434.747-0.001-0.0010.0000.0000.0000.000
62G516GLU00.031-0.16338.517-0.004-0.0040.0000.0000.0000.000
63G516GLU-1-0.897-0.78537.2990.0450.0450.0000.0000.0000.000
64G517GLU00.041-0.11040.426-0.004-0.0040.0000.0000.0000.000
65G517GLU-1-0.983-0.82941.7700.0460.0460.0000.0000.0000.000
66G518GLU00.066-0.10541.892-0.002-0.0020.0000.0000.0000.000
67G518GLU-1-0.977-0.83939.5940.0410.0410.0000.0000.0000.000
68G519LYS00.087-0.09342.696-0.002-0.0020.0000.0000.0000.000
69G519LYS10.7310.98342.624-0.024-0.0240.0000.0000.0000.000
70G520ARG00.068-0.12344.350-0.003-0.0030.0000.0000.0000.000
71G520ARG10.7821.02240.917-0.038-0.0380.0000.0000.0000.000
72G521MET00.089-0.09546.339-0.002-0.0020.0000.0000.0000.000
73G521MET0-0.0870.10847.2180.0000.0000.0000.0000.0000.000
74G522LEU00.076-0.12147.291-0.001-0.0010.0000.0000.0000.000
75G522LEU0-0.1020.10546.6350.0000.0000.0000.0000.0000.000
76G523GLU00.085-0.11248.468-0.002-0.0020.0000.0000.0000.000
77G523GLU-1-0.868-0.76547.0860.0240.0240.0000.0000.0000.000
78G524ALA00.136-0.10650.308-0.002-0.0020.0000.0000.0000.000
79G524ALA0-0.0700.12451.1240.0000.0000.0000.0000.0000.000
80G525GLN0-0.036-0.11052.1690.0000.0000.0000.0000.0000.000
81G525GLN0-0.0510.09450.850-0.001-0.0010.0000.0000.0000.000
82G526LEU00.093-0.09553.186-0.001-0.0010.0000.0000.0000.000
83G526LEU0-0.0870.11151.9010.0000.0000.0000.0000.0000.000
84G527GLU00.157-0.09154.598-0.001-0.0010.0000.0000.0000.000
85G527GLU-1-1.027-0.84955.0950.0170.0170.0000.0000.0000.000
86G528ARG00.016-0.08156.616-0.001-0.0010.0000.0000.0000.000
87G528ARG10.7680.99353.730-0.023-0.0230.0000.0000.0000.000
88G529ARG00.027-0.12858.6140.0000.0000.0000.0000.0000.000
89G529ARG10.8081.03755.105-0.018-0.0180.0000.0000.0000.000
90G530ALA00.145-0.05760.0480.0000.0000.0000.0000.0000.000
91G530ALA0-0.1080.07764.3420.0000.0000.0000.0000.0000.000
92G531LEU00.057-0.09061.6880.0000.0000.0000.0000.0000.000
93G531LEU0-0.0930.08259.2520.0000.0000.0000.0000.0000.000
94G532GLN00.012-0.14558.9590.0010.0010.0000.0000.0000.000
95G532GLN0-0.0680.09258.0460.0000.0000.0000.0000.0000.000
96G533GLY0-0.026-0.11057.656-0.001-0.0010.0000.0000.0000.000
97G534ASP00.055-0.02653.876-0.001-0.0010.0000.0000.0000.000
98G534ASP-1-0.934-0.82153.0190.0130.0130.0000.0000.0000.000
99G535TYR00.008-0.10652.3480.0010.0010.0000.0000.0000.000
100G535TYR0-0.0780.08152.9960.0000.0000.0000.0000.0000.000
101G536ASP00.106-0.08548.3330.0000.0000.0000.0000.0000.000
102G536ASP-1-0.845-0.76446.8210.0050.0050.0000.0000.0000.000
103G537GLN00.098-0.09549.682-0.001-0.0010.0000.0000.0000.000
104G537GLN0-0.0920.08850.6630.0000.0000.0000.0000.0000.000
105G538SER0-0.026-0.10345.618-0.002-0.0020.0000.0000.0000.000
106G538SER0-0.0440.04644.7900.0000.0000.0000.0000.0000.000
107G539ARG00.063-0.06845.725-0.002-0.0020.0000.0000.0000.000
108G539ARG10.8511.05944.1080.0010.0010.0000.0000.0000.000
109G540THR0-0.140-0.13246.883-0.001-0.0010.0000.0000.0000.000
110G540THR0-0.0300.03348.9660.0000.0000.0000.0000.0000.000
111G541LYS00.154-0.05050.6100.0000.0000.0000.0000.0000.000
112G541LYS10.8981.06152.5620.0060.0060.0000.0000.0000.000
113G542VAL00.074-0.10554.0610.0000.0000.0000.0000.0000.000
114G542VAL0-0.0320.13156.7490.0000.0000.0000.0000.0000.000
115G543LEU00.001-0.13057.768-0.001-0.0010.0000.0000.0000.000
116G543LEU0-0.0260.10556.4020.0000.0000.0000.0000.0000.000
117G544HIS00.026-0.08160.2540.0010.0010.0000.0000.0000.000
118G544HIS0-0.0370.07064.0910.0000.0000.0000.0000.0000.000
119G545MET00.087-0.10663.937-0.001-0.0010.0000.0000.0000.000
120G545MET0-0.0390.13666.2550.0000.0000.0000.0000.0000.000
121G546SER00.055-0.04166.8580.0010.0010.0000.0000.0000.000
122G546SER0-0.0040.06767.6070.0000.0000.0000.0000.0000.000
123G547LEU00.040-0.10868.6550.0010.0010.0000.0000.0000.000
124G547LEU0-0.0610.13571.7400.0000.0000.0000.0000.0000.000
125G548ASN00.092-0.05770.6530.0000.0000.0000.0000.0000.000
126G548ASN0-0.0510.06069.1030.0010.0010.0000.0000.0000.000
127G549PRO00.048-0.09671.9230.0000.0000.0000.0000.0000.000
128G550THR00.0410.05072.5240.0000.0000.0000.0000.0000.000
129G550THR0-0.0170.06571.2830.0000.0000.0000.0000.0000.000
130G551SER00.072-0.05372.8020.0000.0000.0000.0000.0000.000
131G551SER0-0.0510.04671.8370.0000.0000.0000.0000.0000.000
132G552VAL00.085-0.09273.8420.0000.0000.0000.0000.0000.000
133G552VAL0-0.1080.08975.3890.0000.0000.0000.0000.0000.000
134G553ALA00.136-0.09276.9630.0000.0000.0000.0000.0000.000
135G553ALA0-0.0660.10977.2110.0000.0000.0000.0000.0000.000
136G554ARG00.040-0.08676.4510.0000.0000.0000.0000.0000.000
137G554ARG10.8701.04871.903-0.002-0.0020.0000.0000.0000.000
138G555GLN00.079-0.08777.7410.0000.0000.0000.0000.0000.000
139G555GLN0-0.1050.07577.5300.0000.0000.0000.0000.0000.000
140G556ARG00.094-0.08979.1290.0000.0000.0000.0000.0000.000
141G556ARG10.8931.07581.4810.0010.0010.0000.0000.0000.000
142G557LEU00.184-0.04981.4260.0000.0000.0000.0000.0000.000
143G557LEU0-0.1100.09580.2250.0000.0000.0000.0000.0000.000
144G558ARG00.032-0.10981.7650.0000.0000.0000.0000.0000.000
145G558ARG10.8371.01975.1910.0010.0010.0000.0000.0000.000
146G559GLU00.103-0.05782.9570.0000.0000.0000.0000.0000.000
147G559GLU-1-0.914-0.80282.575-0.002-0.0020.0000.0000.0000.000
148G560ASP00.084-0.10285.4490.0000.0000.0000.0000.0000.000
149G560ASP-1-0.977-0.83786.1440.0000.0000.0000.0000.0000.000
150G561HIS00.079-0.09886.2090.0000.0000.0000.0000.0000.000
151G561HIS0-0.1540.04884.8930.0000.0000.0000.0000.0000.000
152G562SER00.056-0.07187.0060.0000.0000.0000.0000.0000.000
153G562SER0-0.0840.03886.5900.0000.0000.0000.0000.0000.000
154G563GLN00.074-0.10688.4840.0000.0000.0000.0000.0000.000
155G563GLN0-0.1180.07888.4840.0000.0000.0000.0000.0000.000
156G564LEU00.142-0.06890.8740.0000.0000.0000.0000.0000.000
157G564LEU0-0.1120.09590.6960.0000.0000.0000.0000.0000.000
158G565GLN00.103-0.09191.0340.0000.0000.0000.0000.0000.000
159G565GLN0-0.1340.06390.3200.0000.0000.0000.0000.0000.000
160G566ALA00.092-0.09892.3210.0000.0000.0000.0000.0000.000
161G566ALA0-0.0650.11092.6820.0000.0000.0000.0000.0000.000
162G567GLU00.101-0.10694.1720.0000.0000.0000.0000.0000.000
163G567GLU-1-0.874-0.74796.4510.0000.0000.0000.0000.0000.000
164G568CYS00.075-0.13195.8280.0000.0000.0000.0000.0000.000
165G568CYS0-0.1450.08795.2700.0000.0000.0000.0000.0000.000
166G569GLU00.053-0.13396.2500.0000.0000.0000.0000.0000.000
167G569GLU-1-0.906-0.76493.616-0.001-0.0010.0000.0000.0000.000
168G570ARG00.077-0.08197.6520.0000.0000.0000.0000.0000.000
169G570ARG10.7380.97298.8830.0010.0010.0000.0000.0000.000
170G571LEU00.108-0.106100.1130.0000.0000.0000.0000.0000.000
171G571LEU0-0.0740.119100.8250.0000.0000.0000.0000.0000.000
172G572ARG00.065-0.102100.5110.0000.0000.0000.0000.0000.000
173G572ARG10.7611.00496.2520.0000.0000.0000.0000.0000.000
174G573GLY0-0.024-0.121101.5600.0000.0000.0000.0000.0000.000
175G574LEU00.1370.007103.1620.0000.0000.0000.0000.0000.000
176G574LEU0-0.1080.108105.0550.0000.0000.0000.0000.0000.000
177G575LEU00.066-0.104105.3620.0000.0000.0000.0000.0000.000
178G575LEU0-0.0830.101104.2630.0000.0000.0000.0000.0000.000
179G576ARG00.119-0.069105.6990.0000.0000.0000.0000.0000.000
180G576ARG10.7390.988104.2160.0000.0000.0000.0000.0000.000
181G577ALA00.083-0.101107.0810.0000.0000.0000.0000.0000.000
182G577ALA0-0.0770.094107.6840.0000.0000.0000.0000.0000.000
183G578MET00.074-0.108109.0890.0000.0000.0000.0000.0000.000
184G578MET0-0.1320.086110.0700.0000.0000.0000.0000.0000.000
185G579GLU00.040-0.111110.5520.0000.0000.0000.0000.0000.000
186G579GLU-1-0.886-0.797108.1730.0000.0000.0000.0000.0000.000
187G580ARG00.097-0.063111.2310.0000.0000.0000.0000.0000.000
188G580ARG10.8521.056109.5390.0010.0010.0000.0000.0000.000
189G581GLY0-0.046-0.119112.7470.0000.0000.0000.0000.0000.000
190G582GLY0-0.008-0.007114.9480.0000.0000.0000.0000.0000.000
191G583THR00.0040.041115.4030.0000.0000.0000.0000.0000.000
192G583THR0-0.0280.042114.4200.0000.0000.0000.0000.0000.000
193G584VAL0-0.109-0.142113.9490.0000.0000.0000.0000.0000.000
194G584VAL00.0430.024112.8710.0000.0000.0000.0000.0000.000