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: 8KVZY

Calculation Name: 1IGN-A-Xray549

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1IGN

Chain ID: A

ChEMBL ID:

UniProt ID: P11938

Base Structure: X-ray

Registration Date: 2025-10-11

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 OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 204
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230712
Total energy (hartree)
FMO2-HF: Electronic energy -2243739.847503
FMO2-HF: Nuclear repulsion 2160632.900929
FMO2-HF: Total energy -83106.946574
FMO2-MP2: Total energy -83355.759503


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:360:LYS)


Summations of interaction energy for fragment #1(A:360: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.
141.054142.826-0.017-0.826-0.93-0.003
Interaction energy analysis for fragmet #1(A:360:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 2 / q_Mulliken : 1.813 / q_NPA : 1.888
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].
3A362SER00.0130.0053.850-3.603-1.918-0.016-0.825-0.844-0.003
39A398HIS10.7230.8525.18754.21054.297-0.001-0.001-0.0860.000
4A363PHE0-0.047-0.0205.9330.1210.1210.0000.0000.0000.000
5A364THR00.012-0.0018.8121.8891.8890.0000.0000.0000.000
6A365ASP-1-0.832-0.91712.154-32.065-32.0650.0000.0000.0000.000
7A366GLU-1-0.824-0.91915.581-33.645-33.6450.0000.0000.0000.000
8A367GLU-1-0.790-0.88210.588-52.100-52.1000.0000.0000.0000.000
9A368ASP-1-0.769-0.86512.754-42.843-42.8430.0000.0000.0000.000
10A369GLU-1-0.810-0.91915.044-27.600-27.6000.0000.0000.0000.000
11A370PHE00.0000.02016.1901.3281.3280.0000.0000.0000.000
12A371ILE0-0.036-0.03012.4620.6260.6260.0000.0000.0000.000
13A372LEU0-0.046-0.01717.0801.2511.2510.0000.0000.0000.000
14A373ASP-1-0.794-0.88119.870-23.237-23.2370.0000.0000.0000.000
15A374VAL00.0470.02419.6361.2161.2160.0000.0000.0000.000
16A375VAL0-0.031-0.01919.2321.0761.0760.0000.0000.0000.000
17A376ARG10.8130.91322.17126.62026.6200.0000.0000.0000.000
18A377LYS10.8670.92324.85624.31524.3150.0000.0000.0000.000
19A378ASN0-0.037-0.01223.6371.0331.0330.0000.0000.0000.000
20A379PRO00.0820.05925.086-0.733-0.7330.0000.0000.0000.000
21A380THR0-0.016-0.00926.111-0.622-0.6220.0000.0000.0000.000
22A381ARG10.7670.83222.32626.47326.4730.0000.0000.0000.000
23A382ARG10.9010.96821.54221.45821.4580.0000.0000.0000.000
24A383THR00.0070.01220.001-1.296-1.2960.0000.0000.0000.000
25A384THR0-0.080-0.03419.918-0.870-0.8700.0000.0000.0000.000
26A385HIS00.0430.01514.515-2.016-2.0160.0000.0000.0000.000
27A386THR00.0530.02617.011-1.219-1.2190.0000.0000.0000.000
28A387LEU00.0260.03018.936-0.276-0.2760.0000.0000.0000.000
29A388TYR0-0.005-0.03814.439-0.439-0.4390.0000.0000.0000.000
30A389ASP-1-0.861-0.94614.223-40.480-40.4800.0000.0000.0000.000
31A390GLU-1-0.784-0.83915.243-28.500-28.5000.0000.0000.0000.000
32A391ILE0-0.012-0.00614.0280.1950.1950.0000.0000.0000.000
33A392SER0-0.043-0.04511.267-0.825-0.8250.0000.0000.0000.000
34A393HIS0-0.013-0.00112.768-0.805-0.8050.0000.0000.0000.000
35A394TYR0-0.032-0.01415.3451.1771.1770.0000.0000.0000.000
36A395VAL0-0.032-0.00311.496-0.029-0.0290.0000.0000.0000.000
37A396PRO00.0780.03510.137-4.610-4.6100.0000.0000.0000.000
38A397ASN0-0.0260.0006.657-4.360-4.3600.0000.0000.0000.000
40A399THR00.0990.0626.9894.3174.3170.0000.0000.0000.000
41A400GLY00.1230.0588.987-0.753-0.7530.0000.0000.0000.000
42A401ASN0-0.060-0.0348.5734.7334.7330.0000.0000.0000.000
43A402SER0-0.068-0.0446.353-0.879-0.8790.0000.0000.0000.000
44A403ILE00.0640.0398.0061.1221.1220.0000.0000.0000.000
45A404ARG10.8520.92511.45638.62438.6240.0000.0000.0000.000
46A405HIS0-0.055-0.0277.7414.5484.5480.0000.0000.0000.000
47A406ARG10.8150.8809.77250.38350.3830.0000.0000.0000.000
48A407PHE00.0860.02411.1362.8782.8780.0000.0000.0000.000
49A408ARG10.9160.95013.73738.13038.1300.0000.0000.0000.000
50A409VAL0-0.0270.00811.9812.3482.3480.0000.0000.0000.000
51A410TYR0-0.023-0.0129.678-0.211-0.2110.0000.0000.0000.000
52A411LEU0-0.0150.01114.1272.1312.1310.0000.0000.0000.000
53A412SER0-0.025-0.01517.2882.0762.0760.0000.0000.0000.000
54A413LYS10.8930.93117.27633.68233.6820.0000.0000.0000.000
55A414ARG10.8610.93515.71233.66433.6640.0000.0000.0000.000
56A415LEU0-0.019-0.00521.9390.6060.6060.0000.0000.0000.000
57A416GLU-1-0.913-0.93623.285-21.605-21.6050.0000.0000.0000.000
58A417TYR0-0.069-0.04226.8151.0981.0980.0000.0000.0000.000
59A418VAL0-0.012-0.00926.035-1.022-1.0220.0000.0000.0000.000
60A419TYR00.0550.01526.8870.8400.8400.0000.0000.0000.000
61A420GLU-1-0.912-0.95930.713-17.347-17.3470.0000.0000.0000.000
62A421VAL0-0.024-0.02730.785-0.186-0.1860.0000.0000.0000.000
63A422ASP-1-0.735-0.86433.994-16.736-16.7360.0000.0000.0000.000
64A423LYS10.9020.94135.82814.44214.4420.0000.0000.0000.000
65A424PHE0-0.064-0.03337.2170.1500.1500.0000.0000.0000.000
66A425GLY0-0.058-0.02733.040-0.284-0.2840.0000.0000.0000.000
67A426LYS10.9020.95131.83217.09017.0900.0000.0000.0000.000
68A427LEU0-0.0040.00228.8700.1950.1950.0000.0000.0000.000
69A428VAL0-0.0070.00333.2130.3490.3490.0000.0000.0000.000
70A429ARG10.8110.90434.54016.82416.8240.0000.0000.0000.000
71A430ASP-1-0.800-0.87237.779-15.660-15.6600.0000.0000.0000.000
72A431ASP-1-0.915-0.96340.891-14.147-14.1470.0000.0000.0000.000
73A432ASP-1-0.893-0.93440.297-14.703-14.7030.0000.0000.0000.000
74A433GLY0-0.067-0.03238.009-0.313-0.3130.0000.0000.0000.000
75A434ASN0-0.067-0.05035.501-1.072-1.0720.0000.0000.0000.000
76A435LEU0-0.039-0.03230.407-0.099-0.0990.0000.0000.0000.000
77A436ILE00.0620.04434.458-0.024-0.0240.0000.0000.0000.000
78A437LYS10.8850.95030.17419.38919.3890.0000.0000.0000.000
79A438THR00.0500.02432.0720.5640.5640.0000.0000.0000.000
80A439LYS10.9180.93530.21819.40919.4090.0000.0000.0000.000
81A440VAL0-0.0240.00531.158-0.341-0.3410.0000.0000.0000.000
82A441LEU0-0.006-0.00626.214-0.246-0.2460.0000.0000.0000.000
83A442PRO00.0690.05029.2240.4740.4740.0000.0000.0000.000
84A443PRO00.0190.00429.875-0.736-0.7360.0000.0000.0000.000
85A444SER00.003-0.00426.515-0.429-0.4290.0000.0000.0000.000
86A445ILE0-0.006-0.00925.4120.6170.6170.0000.0000.0000.000
87A446LYS10.8960.94626.61522.24722.2470.0000.0000.0000.000
88A447ARG10.9310.96528.98016.59316.5930.0000.0000.0000.000
89A448LYS10.8500.91327.90820.57720.5770.0000.0000.0000.000
90A449PHE0-0.010-0.01531.5920.2400.2400.0000.0000.0000.000
91A450SER00.0270.01434.481-0.213-0.2130.0000.0000.0000.000
92A451ALA00.1220.06137.1280.1270.1270.0000.0000.0000.000
93A452ASP00.0510.01839.8620.2990.2990.0000.0000.0000.000
94A453GLU-1-0.842-0.87137.573-16.146-16.1460.0000.0000.0000.000
95A454ASP-1-0.753-0.84838.080-16.056-16.0560.0000.0000.0000.000
96A455TYR00.0600.04241.2280.2000.2000.0000.0000.0000.000
97A456THR00.008-0.01344.5050.3770.3770.0000.0000.0000.000
98A457LEU0-0.072-0.03941.4160.2100.2100.0000.0000.0000.000
99A458ALA0-0.005-0.00544.9320.2300.2300.0000.0000.0000.000
100A459ILE00.0690.03846.5680.2720.2720.0000.0000.0000.000
101A460ALA0-0.0020.00648.3650.2830.2830.0000.0000.0000.000
102A461VAL0-0.039-0.02446.8190.1980.1980.0000.0000.0000.000
103A462LYS10.9050.97549.97611.94411.9440.0000.0000.0000.000
104A463LYS10.8970.93652.30011.55711.5570.0000.0000.0000.000
105A464GLN0-0.078-0.03952.5730.1390.1390.0000.0000.0000.000
106A465PHE0-0.021-0.03249.7060.1480.1480.0000.0000.0000.000
107A466TYR00.0160.01155.1730.0720.0720.0000.0000.0000.000
108A467ARG10.9120.96254.88511.32711.3270.0000.0000.0000.000
109A468ASP-1-0.873-0.93755.612-11.170-11.1700.0000.0000.0000.000
110A469LEU0-0.070-0.04157.1940.1090.1090.0000.0000.0000.000
111A470PHE0-0.003-0.00960.6330.0970.0970.0000.0000.0000.000
112A471GLN00.0010.02262.2360.1930.1930.0000.0000.0000.000
113A472ILE00.0140.02363.2690.1340.1340.0000.0000.0000.000
114A473ASP-1-0.815-0.90961.171-10.460-10.4600.0000.0000.0000.000
115A474PRO0-0.086-0.05757.5300.0610.0610.0000.0000.0000.000
116A475ASP-1-0.866-0.91557.948-10.966-10.9660.0000.0000.0000.000
117A476THR0-0.064-0.05860.7710.1440.1440.0000.0000.0000.000
118A477GLY00.0310.01964.1980.1320.1320.0000.0000.0000.000
119A478ARG10.9040.96565.3029.6329.6320.0000.0000.0000.000
120A479SER0-0.001-0.01166.281-0.153-0.1530.0000.0000.0000.000
121A480LEU0-0.116-0.08261.991-0.060-0.0600.0000.0000.0000.000
122A481ILE-1-0.866-0.90466.314-9.145-9.1450.0000.0000.0000.000
123A513ARG10.8870.95054.41511.22011.2200.0000.0000.0000.000
124A514THR00.0460.02452.850-0.113-0.1130.0000.0000.0000.000
125A515GLN0-0.101-0.08251.2110.2940.2940.0000.0000.0000.000
126A516SER00.0620.02850.436-0.122-0.1220.0000.0000.0000.000
127A517ARG10.9000.98250.84611.40711.4070.0000.0000.0000.000
128A518ARG10.9850.97142.64313.76113.7610.0000.0000.0000.000
129A519GLY0-0.013-0.00248.406-0.254-0.2540.0000.0000.0000.000
130A520PRO00.0230.01451.0820.1130.1130.0000.0000.0000.000
131A521ILE0-0.002-0.00147.6350.0280.0280.0000.0000.0000.000
132A522ALA00.0380.02951.0020.0620.0620.0000.0000.0000.000
133A523ARG10.9480.95251.49311.23111.2310.0000.0000.0000.000
134A524GLU-1-0.807-0.88349.817-11.989-11.9890.0000.0000.0000.000
135A525PHE00.0260.02647.039-0.128-0.1280.0000.0000.0000.000
136A526PHE00.027-0.01144.114-0.141-0.1410.0000.0000.0000.000
137A527LYS10.8890.96045.42112.56112.5610.0000.0000.0000.000
138A528HIS10.8790.89646.91112.14912.1490.0000.0000.0000.000
139A529PHE00.0430.02543.475-0.019-0.0190.0000.0000.0000.000
140A530ALA0-0.053-0.04142.786-0.198-0.1980.0000.0000.0000.000
141A531GLU-1-0.886-0.92744.355-12.833-12.8330.0000.0000.0000.000
142A532GLU-1-0.868-0.92646.912-12.557-12.5570.0000.0000.0000.000
143A533HIS10.8160.91943.60913.24213.2420.0000.0000.0000.000
144A534ALA00.0820.03542.205-0.394-0.3940.0000.0000.0000.000
145A535ALA0-0.0220.00138.413-0.397-0.3970.0000.0000.0000.000
146A536HIS10.7440.85634.57816.38716.3870.0000.0000.0000.000
147A537THR00.0940.05037.0400.3560.3560.0000.0000.0000.000
148A538GLU-1-0.798-0.90939.474-14.132-14.1320.0000.0000.0000.000
149A539ASN0-0.023-0.02937.2760.1920.1920.0000.0000.0000.000
150A540ALA0-0.069-0.03235.734-0.341-0.3410.0000.0000.0000.000
151A541TRP00.0660.03737.130-0.220-0.2200.0000.0000.0000.000
152A542ARG10.9981.00940.28914.64814.6480.0000.0000.0000.000
153A543ASP-1-0.883-0.94835.348-17.082-17.0820.0000.0000.0000.000
154A544ARG10.7610.86933.89916.94016.9400.0000.0000.0000.000
155A545PHE00.0640.02437.962-0.046-0.0460.0000.0000.0000.000
156A546ARG10.8640.93038.55115.69115.6910.0000.0000.0000.000
157A547LYS10.8090.90134.57317.43917.4390.0000.0000.0000.000
158A548PHE00.0080.00131.855-0.503-0.5030.0000.0000.0000.000
159A549LEU00.0710.03237.7540.1620.1620.0000.0000.0000.000
160A550LEU0-0.069-0.03841.4740.2520.2520.0000.0000.0000.000
161A551ALA0-0.069-0.02138.5400.1270.1270.0000.0000.0000.000
162A552TYR0-0.006-0.00138.689-0.029-0.0290.0000.0000.0000.000
163A553GLY00.0630.05041.1820.1950.1950.0000.0000.0000.000
164A554ILE0-0.047-0.04844.922-0.114-0.1140.0000.0000.0000.000
165A555ASP-1-0.740-0.87346.939-12.100-12.1000.0000.0000.0000.000
166A556ASP-1-0.844-0.88945.144-13.035-13.0350.0000.0000.0000.000
167A557TYR0-0.080-0.08840.071-0.131-0.1310.0000.0000.0000.000
168A558ILE0-0.094-0.04444.424-0.046-0.0460.0000.0000.0000.000
169A559SER00.019-0.01047.568-0.007-0.0070.0000.0000.0000.000
170A560TYR0-0.038-0.00939.1140.0090.0090.0000.0000.0000.000
171A561TYR0-0.012-0.04243.218-0.038-0.0380.0000.0000.0000.000
172A562GLU-1-0.969-1.00845.905-11.957-11.9570.0000.0000.0000.000
173A563ALA0-0.0200.00648.3970.2650.2650.0000.0000.0000.000
174A564GLU-1-0.838-0.90943.740-13.879-13.8790.0000.0000.0000.000
175A565LYS0-0.0490.02739.664-0.207-0.2070.0000.0000.0000.000
176A566ALA00.0420.01341.9490.2670.2670.0000.0000.0000.000
177A567GLN00.0120.01439.399-0.060-0.0600.0000.0000.0000.000
178A568ASN0-0.057-0.00837.683-0.213-0.2130.0000.0000.0000.000
179A569ARG10.8530.91035.52214.56014.5600.0000.0000.0000.000
180A570GLU-1-0.822-0.90529.599-20.015-20.0150.0000.0000.0000.000
181A571PRO0-0.051-0.02332.896-0.147-0.1470.0000.0000.0000.000
182A572GLU-1-0.759-0.88834.836-14.735-14.7350.0000.0000.0000.000
183A573PRO0-0.054-0.01333.5900.2640.2640.0000.0000.0000.000
184A574MET00.0190.01935.055-0.331-0.3310.0000.0000.0000.000
185A575LYS10.9450.94626.98920.47120.4710.0000.0000.0000.000
186A576ASN0-0.051-0.02828.260-0.387-0.3870.0000.0000.0000.000
187A577LEU00.1260.09131.1400.2020.2020.0000.0000.0000.000
188A578THR00.0190.01132.529-0.398-0.3980.0000.0000.0000.000
189A579ASN0-0.062-0.04429.0820.3600.3600.0000.0000.0000.000
190A580ARG10.9770.98729.73618.17518.1750.0000.0000.0000.000
191A581PRO00.0030.00226.2310.6060.6060.0000.0000.0000.000
192A582LYS10.8780.93829.42017.63917.6390.0000.0000.0000.000
193A583ARG10.9460.96827.58719.49019.4900.0000.0000.0000.000
194A584PRO00.0160.02224.132-0.531-0.5310.0000.0000.0000.000
195A585GLY00.0350.01120.9070.3710.3710.0000.0000.0000.000
196A586VAL00.0770.01621.467-0.168-0.1680.0000.0000.0000.000
197A587PRO00.0400.03018.479-0.890-0.8900.0000.0000.0000.000
198A588THR0-0.043-0.02415.004-1.186-1.1860.0000.0000.0000.000
199A589PRO0-0.053-0.02117.826-0.385-0.3850.0000.0000.0000.000
200A590GLY0-0.031-0.00916.800-0.255-0.2550.0000.0000.0000.000
201A591ASN00.0000.00411.406-4.600-4.6000.0000.0000.0000.000
202A592TYR00.0090.00612.5192.2602.2600.0000.0000.0000.000
203A593ASN0-0.048-0.0319.425-1.711-1.7110.0000.0000.0000.000
204A594SER-1-0.849-0.9158.026-51.196-51.1960.0000.0000.0000.000