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: ZNZRN

Calculation Name: 1U9P-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1U9P

Chain ID: A

ChEMBL ID:

UniProt ID: P03050

Base Structure: X-ray

Registration Date: 2025-07-08

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 OptH
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 184
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -779914.557132
FMO2-HF: Nuclear repulsion 739667.897727
FMO2-HF: Total energy -40246.659405
FMO2-MP2: Total energy -40363.947173


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:7:MET)


Summations of interaction energy for fragment #1(A:7:MET)
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.
-8.546-7.8063.371-1.855-2.2580.003
Interaction energy analysis for fragmet #1(A:7:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.079 / q_NPA : -0.044
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].
4A9GLN00.086-0.0203.824-4.073-2.814-0.007-0.765-0.4870.004
5A9GLN0-0.0530.1155.1730.3940.3940.0000.0000.0000.000
6A10PHE00.086-0.0976.6040.7030.7030.0000.0000.0000.000
7A10PHE0-0.0710.0999.4800.0590.0590.0000.0000.0000.000
8A11ASN00.101-0.0759.893-0.181-0.1810.0000.0000.0000.000
9A11ASN0-0.1430.04413.277-0.027-0.0270.0000.0000.0000.000
10A12LEU00.138-0.09812.8820.1630.1630.0000.0000.0000.000
11A12LEU0-0.1160.11113.548-0.023-0.0230.0000.0000.0000.000
12A13ARG00.096-0.10214.656-0.001-0.0010.0000.0000.0000.000
13A13ARG10.8651.05618.2100.5760.5760.0000.0000.0000.000
14A14TRP00.107-0.08618.2790.0260.0260.0000.0000.0000.000
15A14TRP0-0.1190.08217.981-0.031-0.0310.0000.0000.0000.000
16A15PRO0-0.041-0.11320.4710.0310.0310.0000.0000.0000.000
17A16GLY00.0470.01823.7290.0010.0010.0000.0000.0000.000
18A17GLY0-0.024-0.00225.4070.0080.0080.0000.0000.0000.000
19A18GLY00.0120.01823.3610.0110.0110.0000.0000.0000.000
20A19PRO0-0.041-0.02720.017-0.012-0.0120.0000.0000.0000.000
21A20GLN00.108-0.01617.5190.0020.0020.0000.0000.0000.000
22A20GLN0-0.0520.13816.799-0.030-0.0300.0000.0000.0000.000
23A21PHE00.052-0.09914.2960.0340.0340.0000.0000.0000.000
24A21PHE0-0.0800.09513.5960.0010.0010.0000.0000.0000.000
25A22ASN00.175-0.05111.026-0.009-0.0090.0000.0000.0000.000
26A22ASN0-0.1150.0679.542-0.335-0.3350.0000.0000.0000.000
27A23LEU00.011-0.1598.417-0.075-0.0750.0000.0000.0000.000
28A23LEU0-0.0640.1368.6500.0480.0480.0000.0000.0000.000
29A24ARG00.076-0.0844.5050.2000.219-0.002-0.007-0.0100.000
30A24ARG10.8601.0763.9573.2743.3430.000-0.001-0.0690.000
31A25TRP00.114-0.0984.321-1.201-1.0330.006-0.038-0.1360.000
32A25TRP0-0.0580.1256.1880.4010.4010.0000.0000.0000.000
33A26PRO00.073-0.0643.483-1.827-2.3350.0160.791-0.300-0.002
34A27ARG00.0910.0064.679-0.527-0.494-0.002-0.007-0.0240.000
35A27ARG10.9451.0912.059-9.583-9.8833.360-1.828-1.2320.001
36A28GLU00.060-0.1135.854-0.249-0.2490.0000.0000.0000.000
37A28GLU-1-0.910-0.8146.8490.9500.9500.0000.0000.0000.000
38A29VAL00.083-0.0918.2860.1110.1110.0000.0000.0000.000
39A29VAL0-0.0740.0848.188-0.054-0.0540.0000.0000.0000.000
40A30LEU00.128-0.0978.3100.1270.1270.0000.0000.0000.000
41A30LEU0-0.1170.0977.797-0.057-0.0570.0000.0000.0000.000
42A31ASP00.091-0.1539.745-0.017-0.0170.0000.0000.0000.000
43A31ASP-1-0.994-0.81110.424-0.009-0.0090.0000.0000.0000.000
44A32LEU00.069-0.12011.6320.0700.0700.0000.0000.0000.000
45A32LEU0-0.0850.12913.5320.0050.0050.0000.0000.0000.000
46A33VAL00.042-0.10013.0740.0910.0910.0000.0000.0000.000
47A33VAL0-0.0880.07012.325-0.029-0.0290.0000.0000.0000.000
48A34ARG00.041-0.09914.0330.0160.0160.0000.0000.0000.000
49A34ARG10.8481.05410.2710.7130.7130.0000.0000.0000.000
50A35LYS00.154-0.04115.7270.0220.0220.0000.0000.0000.000
51A35LYS10.8641.06517.0660.0620.0620.0000.0000.0000.000
52A36VAL00.090-0.07317.9070.0390.0390.0000.0000.0000.000
53A36VAL0-0.1030.07818.440-0.006-0.0060.0000.0000.0000.000
54A37ALA00.127-0.06418.6220.0300.0300.0000.0000.0000.000
55A37ALA0-0.1110.05918.383-0.015-0.0150.0000.0000.0000.000
56A38GLU00.035-0.14220.0270.0030.0030.0000.0000.0000.000
57A38GLU-1-1.034-0.85120.469-0.145-0.1450.0000.0000.0000.000
58A39GLU00.080-0.09421.9350.0160.0160.0000.0000.0000.000
59A39GLU-1-1.038-0.85222.857-0.189-0.1890.0000.0000.0000.000
60A40ASN00.053-0.10023.5290.0220.0220.0000.0000.0000.000
61A40ASN0-0.1530.04922.6040.0200.0200.0000.0000.0000.000
62A41GLY00.026-0.08024.9230.0020.0020.0000.0000.0000.000
63A42ARG00.002-0.05123.0120.0040.0040.0000.0000.0000.000
64A42ARG10.8511.05322.2450.3020.3020.0000.0000.0000.000
65A43SER00.089-0.01220.6550.0050.0050.0000.0000.0000.000
66A43SER0-0.0400.04920.273-0.015-0.0150.0000.0000.0000.000
67A44VAL00.159-0.08915.8610.0260.0260.0000.0000.0000.000
68A44VAL0-0.0500.11613.735-0.009-0.0090.0000.0000.0000.000
69A45ASN00.078-0.08116.698-0.068-0.0680.0000.0000.0000.000
70A45ASN0-0.1590.06516.949-0.076-0.0760.0000.0000.0000.000
71A46SER00.073-0.07617.793-0.039-0.0390.0000.0000.0000.000
72A46SER0-0.0550.06621.8190.0080.0080.0000.0000.0000.000
73A47GLU00.089-0.08718.9580.0170.0170.0000.0000.0000.000
74A47GLU-1-0.798-0.74317.972-0.384-0.3840.0000.0000.0000.000
75A48ILE00.028-0.10115.7480.0400.0400.0000.0000.0000.000
76A48ILE0-0.0590.08012.851-0.037-0.0370.0000.0000.0000.000
77A49TYR00.082-0.08116.959-0.016-0.0160.0000.0000.0000.000
78A49TYR0-0.0710.08520.0720.0050.0050.0000.0000.0000.000
79A50GLN00.023-0.11619.8060.0090.0090.0000.0000.0000.000
80A50GLN0-0.0500.11321.7780.0200.0200.0000.0000.0000.000
81A51ARG00.155-0.05119.0440.0470.0470.0000.0000.0000.000
82A51ARG10.7490.99717.5840.3950.3950.0000.0000.0000.000
83A52VAL00.103-0.09719.2300.0280.0280.0000.0000.0000.000
84A52VAL0-0.0750.09317.310-0.011-0.0110.0000.0000.0000.000
85A53MET00.091-0.09319.9080.0210.0210.0000.0000.0000.000
86A53MET0-0.1290.09523.5570.0120.0120.0000.0000.0000.000
87A54GLU00.029-0.16923.2900.0280.0280.0000.0000.0000.000
88A54GLU-1-0.957-0.82523.247-0.326-0.3260.0000.0000.0000.000
89A55SER0-0.028-0.08621.6590.0430.0430.0000.0000.0000.000
90A55SER0-0.0480.05120.963-0.018-0.0180.0000.0000.0000.000
91A56PHE00.084-0.10123.0920.0210.0210.0000.0000.0000.000
92A56PHE0-0.0970.09321.1910.0010.0010.0000.0000.0000.000
93A57LYS00.106-0.08025.2830.0230.0230.0000.0000.0000.000
94A57LYS10.8841.07227.5840.2540.2540.0000.0000.0000.000
95A58LYS00.052-0.09226.5470.0260.0260.0000.0000.0000.000
96A58LYS10.8471.05624.8030.2560.2560.0000.0000.0000.000
97A59GLU0-0.033-0.13726.8360.0260.0260.0000.0000.0000.000
98A59GLU-1-0.916-0.80924.330-0.367-0.3670.0000.0000.0000.000
99A60GLY00.033-0.09128.0860.0080.0080.0000.0000.0000.000
100A61ARG00.0490.00928.4380.0170.0170.0000.0000.0000.000
101A61ARG10.8311.03324.4830.3160.3160.0000.0000.0000.000
102A62ILE00.092-0.05029.405-0.008-0.0080.0000.0000.0000.000
103A62ILE0-0.1500.02526.589-0.001-0.0010.0000.0000.0000.000
104A63GLY00.034-0.07830.2720.0120.0120.0000.0000.0000.000
105A64GLY00.007-0.00233.452-0.008-0.0080.0000.0000.0000.000
106A65THR00.0170.01434.8790.0140.0140.0000.0000.0000.000
107A65THR0-0.0600.05433.2310.0030.0030.0000.0000.0000.000
108A66GLY00.014-0.08836.1820.0050.0050.0000.0000.0000.000
109A67GLY00.003-0.01936.041-0.001-0.0010.0000.0000.0000.000
110A68SER00.0430.01234.9210.0090.0090.0000.0000.0000.000
111A68SER0-0.0380.08735.382-0.001-0.0010.0000.0000.0000.000
112A69GLY0-0.005-0.07531.093-0.013-0.0130.0000.0000.0000.000
113A70GLY00.0370.00429.4890.0060.0060.0000.0000.0000.000
114A71GLY00.005-0.00625.517-0.015-0.0150.0000.0000.0000.000
115A72ARG00.105-0.00825.201-0.040-0.0400.0000.0000.0000.000
116A72ARG10.9111.11127.3210.3300.3300.0000.0000.0000.000
117A73GLU00.116-0.10026.836-0.018-0.0180.0000.0000.0000.000
118A73GLU-1-0.923-0.77428.725-0.265-0.2650.0000.0000.0000.000
119A74VAL00.126-0.09324.3010.0060.0060.0000.0000.0000.000
120A74VAL0-0.0640.09922.266-0.005-0.0050.0000.0000.0000.000
121A75LEU00.075-0.11322.231-0.033-0.0330.0000.0000.0000.000
122A75LEU0-0.1210.07521.077-0.008-0.0080.0000.0000.0000.000
123A76ASP00.124-0.12723.025-0.045-0.0450.0000.0000.0000.000
124A76ASP-1-0.980-0.82526.876-0.348-0.3480.0000.0000.0000.000
125A77LEU00.013-0.14125.1450.0030.0030.0000.0000.0000.000
126A77LEU0-0.0910.12524.878-0.002-0.0020.0000.0000.0000.000
127A78VAL00.093-0.09520.3100.0170.0170.0000.0000.0000.000
128A78VAL0-0.1130.08219.314-0.019-0.0190.0000.0000.0000.000
129A79ARG00.042-0.10320.801-0.042-0.0420.0000.0000.0000.000
130A79ARG10.8481.04520.1700.5460.5460.0000.0000.0000.000
131A80LYS00.151-0.03522.093-0.014-0.0140.0000.0000.0000.000
132A80LYS10.8401.06225.8530.2770.2770.0000.0000.0000.000
133A81VAL00.107-0.06022.9260.0160.0160.0000.0000.0000.000
134A81VAL0-0.1040.07621.2960.0000.0000.0000.0000.0000.000
135A82ALA00.089-0.09719.2090.0210.0210.0000.0000.0000.000
136A82ALA0-0.1070.07718.401-0.016-0.0160.0000.0000.0000.000
137A83GLU00.063-0.12520.080-0.021-0.0210.0000.0000.0000.000
138A83GLU-1-1.025-0.84923.288-0.339-0.3390.0000.0000.0000.000
139A84GLU00.035-0.12622.5840.0140.0140.0000.0000.0000.000
140A84GLU-1-0.971-0.83924.454-0.309-0.3090.0000.0000.0000.000
141A85ASN00.043-0.08020.7620.0340.0340.0000.0000.0000.000
142A85ASN0-0.1740.02220.0990.0330.0330.0000.0000.0000.000
143A86GLY00.036-0.07320.4850.0020.0020.0000.0000.0000.000
144A87ARG00.010-0.04316.645-0.018-0.0180.0000.0000.0000.000
145A87ARG10.8161.03915.2350.5780.5780.0000.0000.0000.000
146A88SER00.097-0.00814.5410.0730.0730.0000.0000.0000.000
147A88SER0-0.0180.05612.667-0.036-0.0360.0000.0000.0000.000
148A89VAL00.172-0.07515.515-0.025-0.0250.0000.0000.0000.000
149A89VAL0-0.0400.11016.3070.0010.0010.0000.0000.0000.000
150A90ASN00.054-0.08111.7500.0590.0590.0000.0000.0000.000
151A90ASN0-0.1200.04810.8370.1820.1820.0000.0000.0000.000
152A91SER00.019-0.09511.448-0.202-0.2020.0000.0000.0000.000
153A91SER0-0.0180.09412.0500.0880.0880.0000.0000.0000.000
154A92GLU00.138-0.09112.428-0.004-0.0040.0000.0000.0000.000
155A92GLU-1-0.838-0.74616.898-0.580-0.5800.0000.0000.0000.000
156A93ILE00.036-0.10814.5430.1030.1030.0000.0000.0000.000
157A93ILE0-0.0670.07913.397-0.008-0.0080.0000.0000.0000.000
158A94TYR00.066-0.09310.7960.1200.1200.0000.0000.0000.000
159A94TYR0-0.0850.0658.365-0.097-0.0970.0000.0000.0000.000
160A95GLN00.071-0.10612.0360.0470.0470.0000.0000.0000.000
161A95GLN0-0.0800.10413.225-0.090-0.0900.0000.0000.0000.000
162A96ARG00.099-0.09714.5950.0890.0890.0000.0000.0000.000
163A96ARG10.7070.98817.0540.4970.4970.0000.0000.0000.000
164A97VAL00.147-0.09914.3680.1230.1230.0000.0000.0000.000
165A97VAL0-0.0960.11313.460-0.018-0.0180.0000.0000.0000.000
166A98MET00.100-0.10313.8200.0930.0930.0000.0000.0000.000
167A98MET0-0.1080.11911.551-0.015-0.0150.0000.0000.0000.000
168A99GLU00.097-0.08814.6190.0890.0890.0000.0000.0000.000
169A99GLU-1-0.948-0.84917.465-0.353-0.3530.0000.0000.0000.000
170A100SER0-0.019-0.09118.1200.0750.0750.0000.0000.0000.000
171A100SER00.0010.06617.6340.0000.0000.0000.0000.0000.000
172A101PHE00.085-0.09316.7260.0540.0540.0000.0000.0000.000
173A101PHE0-0.0550.08413.284-0.002-0.0020.0000.0000.0000.000
174A102LYS00.080-0.08018.1770.0510.0510.0000.0000.0000.000
175A102LYS10.8161.02916.3710.3290.3290.0000.0000.0000.000
176A103LYS00.028-0.08519.6990.0400.0400.0000.0000.0000.000
177A103LYS10.7481.00721.2020.3020.3020.0000.0000.0000.000
178A104GLU00.082-0.09721.7310.0300.0300.0000.0000.0000.000
179A104GLU-1-0.905-0.79021.413-0.297-0.2970.0000.0000.0000.000
180A105GLY0-0.008-0.09622.3080.0200.0200.0000.0000.0000.000
181A106ARG00.055-0.00819.1770.0390.0390.0000.0000.0000.000
182A106ARG10.7971.03318.4890.2050.2050.0000.0000.0000.000
183A107ILE0-0.055-0.11916.3930.0310.0310.0000.0000.0000.000
184A107ILE0-0.0070.01614.586-0.014-0.0140.0000.0000.0000.000