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: 9QZZ2

Calculation Name: 1C1K-A-Xray549

Preferred Name:

Target Type:

Ligand Name: iridium ion

Ligand 3-letter code: IR

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1C1K

Chain ID: A

ChEMBL ID:

UniProt ID: P13342

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 217
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230712
Total energy (hartree)
FMO2-HF: Electronic energy -2854236.841366
FMO2-HF: Nuclear repulsion 2763938.810754
FMO2-HF: Total energy -90298.030612
FMO2-MP2: Total energy -90563.897277


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:1:MET)


Summations of interaction energy for fragment #1(A:1: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.
155.769165.2515.363-7.592-17.254-0.03
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.836 / q_NPA : 0.926
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].
3A3LYS10.9440.9693.80734.37936.322-0.020-0.971-0.953-0.002
109A109ILE00.0180.0103.571-0.957-0.6480.007-0.058-0.2580.000
110A110LYS10.8830.9482.53435.24033.2377.656-1.776-3.8770.015
111A111PHE00.0670.0293.5770.6980.7620.0040.127-0.1950.000
113A113PHE00.016-0.0012.485-1.443-0.1160.725-0.525-1.527-0.007
114A114GLU-1-0.885-0.9585.053-24.964-24.832-0.001-0.005-0.1260.000
163A163LEU0-0.051-0.0262.497-4.831-4.0231.723-0.484-2.047-0.007
199A199ILE00.036-0.0053.840-9.578-9.3500.001-0.081-0.1480.000
200A200ASP-1-0.845-0.9032.152-51.181-50.0261.751-1.409-1.497-0.006
201A201SER00.076-0.0023.545-6.560-5.7500.015-0.322-0.504-0.002
203A203LYS10.8440.8952.61153.76155.9531.173-1.044-2.322-0.009
204A204ALA0-0.012-0.0013.0650.0912.4811.396-1.468-2.319-0.012
205A205LYS10.9830.9973.64425.97525.6200.0210.610-0.276-0.001
207A207VAL00.0140.0103.0891.0081.4930.913-0.182-1.2160.001
208A208PHE00.0330.0256.0861.9941.990-0.001-0.0040.0110.000
4A4LEU00.0700.0506.1591.8481.8480.0000.0000.0000.000
5A5ARG10.8200.9079.94328.09428.0940.0000.0000.0000.000
6A6MET0-0.027-0.01011.9040.6830.6830.0000.0000.0000.000
7A7PRO00.0140.00914.9610.2600.2600.0000.0000.0000.000
8A8ALA00.0510.02818.251-0.295-0.2950.0000.0000.0000.000
9A9GLY00.0520.02519.2950.8120.8120.0000.0000.0000.000
10A10GLY00.0450.01218.4980.6360.6360.0000.0000.0000.000
11A11GLU-1-0.743-0.84618.524-16.180-16.1800.0000.0000.0000.000
12A12ARG10.8760.94721.44313.77913.7790.0000.0000.0000.000
13A13TYR00.0710.04424.350-0.484-0.4840.0000.0000.0000.000
14A14ILE0-0.042-0.02525.6160.0610.0610.0000.0000.0000.000
15A15ASP-1-0.735-0.84328.930-9.789-9.7890.0000.0000.0000.000
16A16GLY00.0920.03630.851-0.315-0.3150.0000.0000.0000.000
17A17LYS10.8550.91832.0718.6838.6830.0000.0000.0000.000
18A18SER0-0.060-0.06428.886-0.171-0.1710.0000.0000.0000.000
19A19VAL0-0.0140.00127.047-0.482-0.4820.0000.0000.0000.000
20A20TYR00.0030.00427.718-0.275-0.2750.0000.0000.0000.000
21A21LYS10.9160.95628.86510.00610.0060.0000.0000.0000.000
22A22LEU0-0.0020.01021.634-0.252-0.2520.0000.0000.0000.000
23A23TYR00.0690.03024.457-0.274-0.2740.0000.0000.0000.000
24A24LEU0-0.0050.00025.568-0.223-0.2230.0000.0000.0000.000
25A25MET0-0.044-0.01922.813-0.074-0.0740.0000.0000.0000.000
26A26ILE00.0030.00719.888-0.395-0.3950.0000.0000.0000.000
27A27LYS10.9710.99122.20910.53410.5340.0000.0000.0000.000
28A28GLN0-0.012-0.01924.6220.3690.3690.0000.0000.0000.000
29A29HIS0-0.023-0.00417.3370.7760.7760.0000.0000.0000.000
30A30MET0-0.043-0.01716.613-0.516-0.5160.0000.0000.0000.000
31A31ASN0-0.065-0.03220.9460.2380.2380.0000.0000.0000.000
32A32GLY00.0270.01122.8350.4570.4570.0000.0000.0000.000
33A33LYS10.9280.96623.97610.98910.9890.0000.0000.0000.000
34A34TYR0-0.043-0.05324.3380.5350.5350.0000.0000.0000.000
35A35ASP-1-0.777-0.87720.108-16.673-16.6730.0000.0000.0000.000
36A36VAL00.012-0.01018.1770.3470.3470.0000.0000.0000.000
37A37ILE0-0.0300.00515.125-0.224-0.2240.0000.0000.0000.000
38A38LYS10.9340.97118.53412.90512.9050.0000.0000.0000.000
39A39TYR0-0.020-0.01221.5910.5880.5880.0000.0000.0000.000
40A40ASN00.0080.00119.842-0.301-0.3010.0000.0000.0000.000
41A41TRP00.027-0.00515.6800.6970.6970.0000.0000.0000.000
42A42CYS0-0.0250.00721.9170.6160.6160.0000.0000.0000.000
43A43MET0-0.0070.01425.687-0.154-0.1540.0000.0000.0000.000
44A44ARG10.9260.97328.37410.04110.0410.0000.0000.0000.000
45A45VAL00.0420.01531.366-0.105-0.1050.0000.0000.0000.000
46A46SER00.0430.02333.9790.2520.2520.0000.0000.0000.000
47A47ASP-1-0.793-0.89637.587-8.367-8.3670.0000.0000.0000.000
48A48ALA00.0670.03539.1460.0500.0500.0000.0000.0000.000
49A49ALA0-0.005-0.00137.2020.1340.1340.0000.0000.0000.000
50A50TYR00.0360.01234.927-0.099-0.0990.0000.0000.0000.000
51A51GLN00.036-0.01037.6630.0560.0560.0000.0000.0000.000
52A52LYS10.8920.94840.3967.6517.6510.0000.0000.0000.000
53A53ARG10.6940.83932.2329.5799.5790.0000.0000.0000.000
54A54ARG11.0291.01038.0788.0898.0890.0000.0000.0000.000
55A55ASP-1-0.711-0.80433.431-9.355-9.3550.0000.0000.0000.000
56A56LYS10.8110.90535.0567.8867.8860.0000.0000.0000.000
57A57TYR00.0800.03935.012-0.216-0.2160.0000.0000.0000.000
58A58PHE00.0460.03827.408-0.134-0.1340.0000.0000.0000.000
59A59PHE00.007-0.01429.160-0.291-0.2910.0000.0000.0000.000
60A60GLN0-0.018-0.01331.070-0.289-0.2890.0000.0000.0000.000
61A61LYS10.8910.93932.7949.0029.0020.0000.0000.0000.000
62A62LEU0-0.034-0.01526.372-0.243-0.2430.0000.0000.0000.000
63A63SER0-0.088-0.06128.292-0.238-0.2380.0000.0000.0000.000
64A64GLU-1-0.802-0.87329.901-9.229-9.2290.0000.0000.0000.000
65A65LYS10.9290.98027.00311.46811.4680.0000.0000.0000.000
66A66TYR0-0.035-0.01623.712-0.324-0.3240.0000.0000.0000.000
67A67LYS10.8600.91621.46613.95413.9540.0000.0000.0000.000
68A68LEU0-0.031-0.01520.888-0.399-0.3990.0000.0000.0000.000
69A69LYS10.8520.88616.59016.82816.8280.0000.0000.0000.000
70A70GLU-1-0.856-0.92517.792-15.203-15.2030.0000.0000.0000.000
71A71LEU0-0.003-0.00119.864-0.097-0.0970.0000.0000.0000.000
72A72ALA00.0080.00818.0910.0380.0380.0000.0000.0000.000
73A73LEU00.0070.00213.467-0.430-0.4300.0000.0000.0000.000
74A74ILE0-0.0060.02417.517-0.119-0.1190.0000.0000.0000.000
75A75PHE00.0210.00420.4940.2180.2180.0000.0000.0000.000
76A76ILE0-0.002-0.00214.5850.0750.0750.0000.0000.0000.000
77A77SER0-0.024-0.02815.6580.2630.2630.0000.0000.0000.000
78A78ASN0-0.017-0.02116.6340.6560.6560.0000.0000.0000.000
79A79LEU00.006-0.00419.9330.3330.3330.0000.0000.0000.000
80A80VAL0-0.049-0.02213.4690.2100.2100.0000.0000.0000.000
81A81ALA0-0.007-0.00115.2550.3640.3640.0000.0000.0000.000
82A82ASN0-0.047-0.01617.3720.5780.5780.0000.0000.0000.000
83A83GLN00.0340.00120.3630.5640.5640.0000.0000.0000.000
84A84ASP-1-0.843-0.91023.183-10.612-10.6120.0000.0000.0000.000
85A85ALA0-0.064-0.04623.0570.3180.3180.0000.0000.0000.000
86A86TRP0-0.118-0.05718.8530.2360.2360.0000.0000.0000.000
87A87ILE0-0.047-0.02024.4600.1050.1050.0000.0000.0000.000
88A88GLY00.0450.03828.3070.3160.3160.0000.0000.0000.000
89A89ASP-1-0.859-0.92628.536-10.083-10.0830.0000.0000.0000.000
90A90ILE0-0.055-0.04323.915-0.115-0.1150.0000.0000.0000.000
91A91SER0-0.090-0.07927.844-0.197-0.1970.0000.0000.0000.000
92A92ASP-1-0.858-0.92230.860-9.081-9.0810.0000.0000.0000.000
93A93ALA0-0.045-0.01326.031-0.004-0.0040.0000.0000.0000.000
94A94ASP-1-0.835-0.92926.055-11.395-11.3950.0000.0000.0000.000
95A95ALA00.0270.01824.134-0.431-0.4310.0000.0000.0000.000
96A96LEU0-0.030-0.03522.922-0.675-0.6750.0000.0000.0000.000
97A97VAL0-0.0070.01023.537-0.420-0.4200.0000.0000.0000.000
98A98PHE00.0470.03017.616-0.612-0.6120.0000.0000.0000.000
99A99TYR0-0.015-0.01218.057-1.050-1.0500.0000.0000.0000.000
100A100ARG10.9210.95418.04411.38711.3870.0000.0000.0000.000
101A101GLU-1-0.777-0.86417.759-16.096-16.0960.0000.0000.0000.000
102A102TYR0-0.037-0.05011.824-0.480-0.4800.0000.0000.0000.000
103A103ILE0-0.025-0.02113.337-1.846-1.8460.0000.0000.0000.000
104A104GLY00.0010.02113.303-1.197-1.1970.0000.0000.0000.000
105A105ARG10.9090.94511.42915.46715.4670.0000.0000.0000.000
106A106LEU0-0.026-0.0208.790-2.213-2.2130.0000.0000.0000.000
107A107LYS10.8300.9078.17818.23418.2340.0000.0000.0000.000
108A108GLN00.0070.0118.246-0.611-0.6110.0000.0000.0000.000
112A112LYS10.9000.9636.66321.10021.1000.0000.0000.0000.000
115A115GLU-1-0.934-0.9716.881-16.915-16.9150.0000.0000.0000.000
116A116ASP-1-0.719-0.8348.322-19.841-19.8410.0000.0000.0000.000
117A117ILE0-0.067-0.0216.1361.3771.3770.0000.0000.0000.000
118A118ARG10.9430.9689.50221.39721.3970.0000.0000.0000.000
119A119ASN0-0.0020.00112.5991.4541.4540.0000.0000.0000.000
120A120ILE0-0.023-0.01210.7680.8740.8740.0000.0000.0000.000
121A121TYR0-0.014-0.00414.1620.9160.9160.0000.0000.0000.000
122A122TYR00.0660.02315.9960.8970.8970.0000.0000.0000.000
123A123PHE0-0.013-0.00217.6710.6530.6530.0000.0000.0000.000
124A124SER0-0.071-0.06718.3820.5560.5560.0000.0000.0000.000
125A125LYS10.9300.97020.20212.44712.4470.0000.0000.0000.000
126A126LYS10.9540.98622.32211.00711.0070.0000.0000.0000.000
127A127VAL0-0.043-0.02522.2140.3140.3140.0000.0000.0000.000
128A128GLU-1-0.965-0.96924.987-9.223-9.2230.0000.0000.0000.000
129A129VAL0-0.051-0.01321.1480.0460.0460.0000.0000.0000.000
130A130SER0-0.063-0.05024.6000.0930.0930.0000.0000.0000.000
131A131ALA00.001-0.01722.857-0.149-0.1490.0000.0000.0000.000
132A132PHE00.007-0.00313.895-0.183-0.1830.0000.0000.0000.000
133A133LYS11.0090.99318.46811.41511.4150.0000.0000.0000.000
134A134GLU-1-0.790-0.86519.517-11.318-11.3180.0000.0000.0000.000
135A135ILE0-0.033-0.00316.4010.2360.2360.0000.0000.0000.000
136A136PHE0-0.006-0.02612.612-0.387-0.3870.0000.0000.0000.000
137A137GLU-1-0.848-0.91617.273-14.120-14.1200.0000.0000.0000.000
138A138TYR00.0130.03320.5040.2310.2310.0000.0000.0000.000
139A139ASN00.0180.00022.5430.6090.6090.0000.0000.0000.000
140A140PRO00.0440.00125.8200.1200.1200.0000.0000.0000.000
141A141LYS10.9140.96628.7508.9258.9250.0000.0000.0000.000
142A142VAL0-0.029-0.01626.2720.2250.2250.0000.0000.0000.000
143A143GLN00.0140.02827.238-0.297-0.2970.0000.0000.0000.000
144A144SER00.0030.00623.057-0.333-0.3330.0000.0000.0000.000
145A145SER00.0610.01019.2650.0700.0700.0000.0000.0000.000
146A146TYR00.0040.00019.889-0.027-0.0270.0000.0000.0000.000
147A147ILE00.0110.01312.623-0.202-0.2020.0000.0000.0000.000
148A148PHE0-0.0100.00416.081-0.459-0.4590.0000.0000.0000.000
149A149LYS10.9870.99218.13711.25111.2510.0000.0000.0000.000
150A150LEU00.0040.01315.5540.1410.1410.0000.0000.0000.000
151A151LEU0-0.030-0.00513.340-0.258-0.2580.0000.0000.0000.000
152A152GLN0-0.067-0.04016.2490.1840.1840.0000.0000.0000.000
153A153SER0-0.028-0.02419.4460.5250.5250.0000.0000.0000.000
154A154ASN0-0.077-0.03416.715-0.324-0.3240.0000.0000.0000.000
155A155ILE00.0020.01915.102-0.259-0.2590.0000.0000.0000.000
156A156ILE0-0.040-0.01711.183-0.789-0.7890.0000.0000.0000.000
157A157SER0-0.014-0.0309.1860.3100.3100.0000.0000.0000.000
158A158PHE00.0720.01110.596-0.496-0.4960.0000.0000.0000.000
159A159GLU-1-0.789-0.8336.152-25.136-25.1360.0000.0000.0000.000
160A160THR0-0.021-0.0346.308-3.864-3.8640.0000.0000.0000.000
161A161PHE00.0350.0187.299-0.563-0.5630.0000.0000.0000.000
162A162ILE00.0130.0028.5660.3190.3190.0000.0000.0000.000
164A164LEU0-0.0010.0195.828-0.269-0.2690.0000.0000.0000.000
165A165ASP-1-0.763-0.8658.829-20.496-20.4960.0000.0000.0000.000
166A166SER0-0.056-0.0426.882-0.217-0.2170.0000.0000.0000.000
167A167PHE0-0.022-0.0106.9160.0690.0690.0000.0000.0000.000
168A168LEU0-0.038-0.01010.4701.4781.4780.0000.0000.0000.000
169A169ASN0-0.0140.00313.2560.9300.9300.0000.0000.0000.000
170A170ILE00.0210.00512.4520.9830.9830.0000.0000.0000.000
171A171ILE0-0.036-0.03113.0010.8540.8540.0000.0000.0000.000
172A172ASP-1-0.787-0.86716.767-16.373-16.3730.0000.0000.0000.000
173A173LYS10.8820.94518.62415.19715.1970.0000.0000.0000.000
174A174HIS0-0.0110.00118.6700.9490.9490.0000.0000.0000.000
175A175ASP-1-0.749-0.81621.108-13.570-13.5700.0000.0000.0000.000
176A176GLU-1-0.945-0.96423.049-12.658-12.6580.0000.0000.0000.000
177A177GLN0-0.036-0.01923.7230.1130.1130.0000.0000.0000.000
178A178THR0-0.085-0.06224.4890.4450.4450.0000.0000.0000.000
179A179ASP-1-0.842-0.90126.533-10.136-10.1360.0000.0000.0000.000
180A180ASN0-0.037-0.02726.297-0.137-0.1370.0000.0000.0000.000
181A181LEU00.0410.01226.203-0.453-0.4530.0000.0000.0000.000
182A182VAL0-0.015-0.01224.186-0.306-0.3060.0000.0000.0000.000
183A183TRP0-0.002-0.01216.826-0.682-0.6820.0000.0000.0000.000
184A184ASN00.0320.01221.655-0.801-0.8010.0000.0000.0000.000
185A185ASN0-0.019-0.01922.580-0.448-0.4480.0000.0000.0000.000
186A186TYR00.0260.01117.520-0.204-0.2040.0000.0000.0000.000
187A187SER0-0.004-0.03718.220-1.229-1.2290.0000.0000.0000.000
188A188ILE0-0.036-0.00518.749-0.671-0.6710.0000.0000.0000.000
189A189LYS10.9130.97117.47213.02513.0250.0000.0000.0000.000
190A190LEU0-0.0010.00313.132-1.264-1.2640.0000.0000.0000.000
191A191LYS10.8390.89814.20613.23213.2320.0000.0000.0000.000
192A192ALA0-0.0120.00316.130-0.760-0.7600.0000.0000.0000.000
193A193TYR0-0.012-0.05510.721-1.270-1.2700.0000.0000.0000.000
194A194ARG10.7810.85011.12317.99417.9940.0000.0000.0000.000
195A195LYS10.8950.95412.19514.97114.9710.0000.0000.0000.000
196A196ILE0-0.0140.00213.469-0.490-0.4900.0000.0000.0000.000
197A197LEU0-0.0070.0127.914-2.350-2.3500.0000.0000.0000.000
198A198ASN0-0.053-0.0296.8912.1452.1450.0000.0000.0000.000
202A202GLN0-0.0150.0086.0103.0723.0720.0000.0000.0000.000
206A206ASN00.0100.0046.3203.5983.5980.0000.0000.0000.000
209A209ILE00.010-0.0028.3601.7511.7510.0000.0000.0000.000
210A210GLU-1-0.829-0.9049.745-17.780-17.7800.0000.0000.0000.000
211A211THR0-0.019-0.0118.2011.0791.0790.0000.0000.0000.000
212A212VAL00.0230.01110.8131.2781.2780.0000.0000.0000.000
213A213LYS10.8120.90213.41117.41917.4190.0000.0000.0000.000
214A214SER0-0.027-0.02213.2730.6090.6090.0000.0000.0000.000
215A215CYS0-0.036-0.01413.8970.2350.2350.0000.0000.0000.000
216A216LYS10.8270.91916.79414.61314.6130.0000.0000.0000.000
217A217TYR-1-0.892-0.93019.101-12.819-12.8190.0000.0000.0000.000