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: G7281

Calculation Name: 1FT5-A-Xray549

Preferred Name:

Target Type:

Ligand Name: protoporphyrin ix containing fe | phosphate ion

Ligand 3-letter code: HEM | PO4

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1FT5

Chain ID: A

ChEMBL ID:

UniProt ID: Q57142

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 211
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2381070.947961
FMO2-HF: Nuclear repulsion 2296672.876893
FMO2-HF: Total energy -84398.071068
FMO2-MP2: Total energy -84638.941874


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:ALA)


Summations of interaction energy for fragment #1(A:1:ALA)
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.
162.361163.594-0.014-0.494-0.7230.002
Interaction energy analysis for fragmet #1(A:1:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.856 / q_NPA : 0.914
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].
3A3ALA00.0300.0233.818-0.2780.904-0.013-0.491-0.6770.002
71A71LYS10.8410.9054.79744.48344.534-0.001-0.003-0.0460.000
4A4PRO0-0.053-0.0376.2062.0552.0550.0000.0000.0000.000
5A5PHE00.0410.0258.8400.9150.9150.0000.0000.0000.000
6A6GLU-1-0.806-0.87212.567-18.925-18.9250.0000.0000.0000.000
7A7GLY0-0.003-0.00115.3861.1491.1490.0000.0000.0000.000
8A8ARG10.8710.92818.61012.87712.8770.0000.0000.0000.000
9A9LYS10.9550.98121.18212.81112.8110.0000.0000.0000.000
10A10LYS10.8980.93217.22016.94416.9440.0000.0000.0000.000
11A11CYS00.0760.04718.5980.2680.2680.0000.0000.0000.000
12A12SER00.030-0.00921.3830.5460.5460.0000.0000.0000.000
13A13SER0-0.116-0.06123.6880.5230.5230.0000.0000.0000.000
14A14CYS0-0.018-0.00923.5000.3930.3930.0000.0000.0000.000
15A15HIS0-0.0040.01121.4610.8460.8460.0000.0000.0000.000
16A16LYS10.9520.97626.30710.33810.3380.0000.0000.0000.000
17A17ALA00.0200.03429.4080.1890.1890.0000.0000.0000.000
18A18GLN00.0760.03326.2780.3320.3320.0000.0000.0000.000
19A19ALA00.0140.00326.4180.0480.0480.0000.0000.0000.000
20A20GLN00.006-0.00527.8940.3320.3320.0000.0000.0000.000
21A21SER00.0120.03030.7510.3330.3330.0000.0000.0000.000
22A22TRP00.0460.02324.8160.3090.3090.0000.0000.0000.000
23A23LYS10.9150.97028.8559.7079.7070.0000.0000.0000.000
24A24ASP-1-0.888-0.94730.608-9.026-9.0260.0000.0000.0000.000
25A25THR0-0.0030.00429.1430.1650.1650.0000.0000.0000.000
26A26ALA00.003-0.01930.9200.0330.0330.0000.0000.0000.000
27A27HIS0-0.002-0.00525.518-0.204-0.2040.0000.0000.0000.000
28A28ALA0-0.0050.00526.766-0.271-0.2710.0000.0000.0000.000
29A29LYS10.8330.91528.1939.3359.3350.0000.0000.0000.000
30A30ALA00.0350.03126.5140.2870.2870.0000.0000.0000.000
31A31MET00.0580.03725.8970.3040.3040.0000.0000.0000.000
32A32GLU-1-0.830-0.90428.881-9.301-9.3010.0000.0000.0000.000
33A33SER0-0.035-0.01931.2150.3770.3770.0000.0000.0000.000
34A34LEU00.0060.01227.3000.2040.2040.0000.0000.0000.000
35A35LYS10.8520.92231.8439.5389.5380.0000.0000.0000.000
36A36PRO00.0470.03434.6260.0770.0770.0000.0000.0000.000
37A37ASN0-0.019-0.02237.8300.1980.1980.0000.0000.0000.000
38A38VAL0-0.0090.02136.1300.2050.2050.0000.0000.0000.000
39A39LYS10.9230.94333.4099.3289.3280.0000.0000.0000.000
40A40LYS10.9040.95538.6187.3387.3380.0000.0000.0000.000
41A41GLU-1-0.859-0.91441.035-7.380-7.3800.0000.0000.0000.000
42A42ALA0-0.016-0.01537.007-0.017-0.0170.0000.0000.0000.000
43A43LYS10.8670.94334.7128.8678.8670.0000.0000.0000.000
44A44GLN00.0460.01437.977-0.005-0.0050.0000.0000.0000.000
45A45LYS10.8190.90639.8227.9037.9030.0000.0000.0000.000
46A46ALA00.004-0.00335.2430.0350.0350.0000.0000.0000.000
47A47LYS10.9050.96336.6527.3627.3620.0000.0000.0000.000
48A48LEU0-0.0060.01433.145-0.086-0.0860.0000.0000.0000.000
49A49ASP-1-0.796-0.90037.116-7.710-7.7100.0000.0000.0000.000
50A50PRO0-0.040-0.03438.041-0.176-0.1760.0000.0000.0000.000
51A51ALA0-0.012-0.02240.186-0.016-0.0160.0000.0000.0000.000
52A52LYS10.8780.94632.7799.4189.4180.0000.0000.0000.000
53A53ASP-1-0.855-0.90833.363-9.632-9.6320.0000.0000.0000.000
54A54TYR00.040-0.00130.6800.0130.0130.0000.0000.0000.000
55A55THR0-0.084-0.07829.234-0.481-0.4810.0000.0000.0000.000
56A56GLN0-0.011-0.01427.465-0.577-0.5770.0000.0000.0000.000
57A57ASP-1-0.816-0.89827.710-10.660-10.6600.0000.0000.0000.000
58A58LYS10.9690.97323.59911.70411.7040.0000.0000.0000.000
59A59ASP-1-0.908-0.94423.977-12.046-12.0460.0000.0000.0000.000
60A60CYS0-0.061-0.02326.4140.2360.2360.0000.0000.0000.000
61A61VAL00.004-0.01822.674-0.331-0.3310.0000.0000.0000.000
62A62GLY0-0.003-0.00820.648-0.324-0.3240.0000.0000.0000.000
63A63CYS0-0.0080.00920.333-0.715-0.7150.0000.0000.0000.000
64A64HIS0-0.061-0.05622.8580.3590.3590.0000.0000.0000.000
65A65VAL0-0.067-0.02819.7770.4120.4120.0000.0000.0000.000
66A66ASP-1-0.805-0.88117.615-16.568-16.5680.0000.0000.0000.000
67A67GLY00.027-0.00514.547-0.036-0.0360.0000.0000.0000.000
68A68PHE00.0200.02114.695-0.728-0.7280.0000.0000.0000.000
69A69GLY00.0380.02114.976-0.673-0.6730.0000.0000.0000.000
70A70GLN0-0.039-0.00910.541-3.544-3.5440.0000.0000.0000.000
72A72GLY00.0210.00010.384-0.981-0.9810.0000.0000.0000.000
73A73GLY0-0.025-0.00613.0811.0621.0620.0000.0000.0000.000
74A74TYR0-0.029-0.01415.3490.5450.5450.0000.0000.0000.000
75A75THR0-0.006-0.00717.883-0.211-0.2110.0000.0000.0000.000
76A76ILE00.022-0.00620.2790.3070.3070.0000.0000.0000.000
77A77GLU-1-0.902-0.93622.888-12.405-12.4050.0000.0000.0000.000
78A78SER0-0.043-0.02021.3940.3120.3120.0000.0000.0000.000
79A79PRO00.0340.04021.927-0.736-0.7360.0000.0000.0000.000
80A80LYS10.9880.98318.12016.13316.1330.0000.0000.0000.000
81A81PRO00.0840.04423.237-0.314-0.3140.0000.0000.0000.000
82A82MET0-0.153-0.06219.4620.2200.2200.0000.0000.0000.000
83A83LEU00.0000.01016.919-0.400-0.4000.0000.0000.0000.000
84A84THR00.0200.01521.047-0.090-0.0900.0000.0000.0000.000
85A85GLY00.0150.02424.2560.3410.3410.0000.0000.0000.000
86A86VAL00.0180.01521.542-0.563-0.5630.0000.0000.0000.000
87A87GLY00.0400.00421.3200.5280.5280.0000.0000.0000.000
88A88CYS0-0.064-0.04719.755-0.137-0.1370.0000.0000.0000.000
89A89GLU-1-0.675-0.83614.434-20.848-20.8480.0000.0000.0000.000
90A90SER0-0.025-0.02815.706-1.205-1.2050.0000.0000.0000.000
91A91CYS0-0.0170.00317.400-0.360-0.3600.0000.0000.0000.000
92A92HIS00.008-0.00317.140-1.126-1.1260.0000.0000.0000.000
93A93GLY00.0610.04313.055-1.059-1.0590.0000.0000.0000.000
94A94PRO0-0.073-0.0319.2761.6131.6130.0000.0000.0000.000
95A95GLY00.0930.02611.085-1.426-1.4260.0000.0000.0000.000
96A96ARG10.7730.89010.10923.50823.5080.0000.0000.0000.000
97A97ASN00.004-0.0125.8383.7583.7580.0000.0000.0000.000
98A98PHE00.0780.05510.2201.7291.7290.0000.0000.0000.000
99A99ARG10.8400.88712.80720.73520.7350.0000.0000.0000.000
100A100GLY0-0.026-0.00914.5941.2911.2910.0000.0000.0000.000
101A101ASP-1-0.740-0.85813.615-20.786-20.7860.0000.0000.0000.000
102A102HIS0-0.0050.00016.3951.7701.7700.0000.0000.0000.000
103A103ARG10.8800.93719.06714.35414.3540.0000.0000.0000.000
104A104LYS00.0080.01718.3730.8410.8410.0000.0000.0000.000
105A105SER00.0320.01318.8630.4810.4810.0000.0000.0000.000
106A106GLY00.0310.02421.4870.5800.5800.0000.0000.0000.000
107A107GLN0-0.002-0.01123.5930.1660.1660.0000.0000.0000.000
108A108ALA00.0400.01423.7400.5160.5160.0000.0000.0000.000
109A109PHE00.0130.02325.4230.4120.4120.0000.0000.0000.000
110A110GLU-1-0.869-0.92427.257-10.011-10.0110.0000.0000.0000.000
111A111LYS10.7620.87128.37511.07411.0740.0000.0000.0000.000
112A112SER0-0.046-0.03528.0510.1190.1190.0000.0000.0000.000
113A113GLY00.0480.03630.1280.0880.0880.0000.0000.0000.000
114A114LYS10.9020.94924.17712.13512.1350.0000.0000.0000.000
115A115LYS10.9190.97524.13711.22011.2200.0000.0000.0000.000
116A116THR0-0.004-0.01217.6520.0720.0720.0000.0000.0000.000
117A117PRO00.0250.01317.0780.2040.2040.0000.0000.0000.000
118A118ARG10.8870.95116.88913.90113.9010.0000.0000.0000.000
119A119LYS10.9800.99313.18817.42217.4220.0000.0000.0000.000
120A120ASP-1-0.898-0.94812.196-22.645-22.6450.0000.0000.0000.000
121A121LEU0-0.040-0.02111.661-2.150-2.1500.0000.0000.0000.000
122A122ALA00.0140.01811.428-1.807-1.8070.0000.0000.0000.000
123A123LYS10.9150.9557.81726.36126.3610.0000.0000.0000.000
124A124LYS10.7670.8716.91819.04719.0470.0000.0000.0000.000
125A125GLY00.0210.0008.5290.1030.1030.0000.0000.0000.000
126A126GLN0-0.0160.0069.1471.4291.4290.0000.0000.0000.000
127A127ASP-1-0.794-0.89712.719-22.090-22.0900.0000.0000.0000.000
128A128PHE0-0.019-0.03214.5511.2741.2740.0000.0000.0000.000
129A129HIS0-0.015-0.00516.5000.4490.4490.0000.0000.0000.000
130A130PHE00.028-0.00817.1871.0711.0710.0000.0000.0000.000
131A131GLU-1-0.893-0.92718.607-13.995-13.9950.0000.0000.0000.000
132A132GLU-1-0.818-0.89714.523-17.896-17.8960.0000.0000.0000.000
133A133ARG10.8570.91810.56724.93824.9380.0000.0000.0000.000
134A134CYS0-0.057-0.02317.2460.6920.6920.0000.0000.0000.000
135A135SER00.006-0.01119.9240.8740.8740.0000.0000.0000.000
136A136ALA0-0.019-0.01317.1300.4240.4240.0000.0000.0000.000
137A137CYS0-0.059-0.02419.2240.1270.1270.0000.0000.0000.000
138A138HIS0-0.035-0.02522.3050.7880.7880.0000.0000.0000.000
139A139LEU0-0.023-0.00323.4580.5750.5750.0000.0000.0000.000
140A140ASN00.0500.04721.597-0.462-0.4620.0000.0000.0000.000
141A141TYR00.019-0.00723.6740.2820.2820.0000.0000.0000.000
142A142GLU-1-0.882-0.94326.680-10.613-10.6130.0000.0000.0000.000
143A143GLY00.005-0.00528.6310.2400.2400.0000.0000.0000.000
144A144SER0-0.059-0.02425.1580.1860.1860.0000.0000.0000.000
145A145PRO0-0.029-0.01726.545-0.160-0.1600.0000.0000.0000.000
146A146TRP0-0.064-0.02617.089-0.072-0.0720.0000.0000.0000.000
147A147LYS10.9760.96620.99812.22912.2290.0000.0000.0000.000
148A148GLY00.0390.03718.148-0.348-0.3480.0000.0000.0000.000
149A149ALA0-0.033-0.00718.833-0.378-0.3780.0000.0000.0000.000
150A150LYS10.8110.90217.96116.53916.5390.0000.0000.0000.000
151A151ALA00.0320.03622.357-0.043-0.0430.0000.0000.0000.000
152A152PRO0-0.018-0.01121.755-0.547-0.5470.0000.0000.0000.000
153A153TYR00.0270.00423.785-0.602-0.6020.0000.0000.0000.000
154A154THR0-0.0050.00226.2840.2530.2530.0000.0000.0000.000
155A155PRO00.002-0.00827.8330.2080.2080.0000.0000.0000.000
156A156PHE0-0.070-0.02830.7100.4200.4200.0000.0000.0000.000
157A157THR00.0820.03430.622-0.257-0.2570.0000.0000.0000.000
158A158PRO0-0.003-0.02731.5510.2630.2630.0000.0000.0000.000
159A159GLU-1-0.925-0.94734.767-8.732-8.7320.0000.0000.0000.000
160A160VAL0-0.0400.00435.7870.2760.2760.0000.0000.0000.000
161A161ASP-1-0.853-0.96036.684-7.857-7.8570.0000.0000.0000.000
162A162ALA00.0880.06736.186-0.282-0.2820.0000.0000.0000.000
163A163LYS10.9020.96836.0828.1108.1100.0000.0000.0000.000
164A164TYR0-0.065-0.03432.126-0.144-0.1440.0000.0000.0000.000
165A165THR0-0.037-0.02531.370-0.347-0.3470.0000.0000.0000.000
166A166PHE00.0330.00724.3810.0260.0260.0000.0000.0000.000
167A167LYS10.9590.96628.73810.05010.0500.0000.0000.0000.000
168A168PHE00.0490.02822.1770.0510.0510.0000.0000.0000.000
169A169ASP-1-0.801-0.90626.277-12.034-12.0340.0000.0000.0000.000
170A170GLU-1-0.889-0.93328.222-9.423-9.4230.0000.0000.0000.000
171A171MET0-0.013-0.01228.452-0.094-0.0940.0000.0000.0000.000
172A172VAL0-0.035-0.01524.104-0.143-0.1430.0000.0000.0000.000
173A173LYS10.8080.87927.01410.25210.2520.0000.0000.0000.000
174A174GLU-1-0.855-0.88730.182-9.051-9.0510.0000.0000.0000.000
175A175VAL00.005-0.00930.585-0.282-0.2820.0000.0000.0000.000
176A176LYS0-0.028-0.03231.574-0.232-0.2320.0000.0000.0000.000
177A177ALA0-0.039-0.02029.366-0.009-0.0090.0000.0000.0000.000
178A178MET0-0.071-0.01125.558-0.712-0.7120.0000.0000.0000.000
179A179HIS0-0.062-0.06625.379-0.722-0.7220.0000.0000.0000.000
180A180GLU-1-0.802-0.88429.430-9.437-9.4370.0000.0000.0000.000
181A181HIS00.0230.02126.685-0.523-0.5230.0000.0000.0000.000
182A182TYR0-0.008-0.02029.7380.5920.5920.0000.0000.0000.000
183A183LYS10.8530.92129.8579.5779.5770.0000.0000.0000.000
184A184LEU0-0.038-0.01724.992-0.235-0.2350.0000.0000.0000.000
185A185GLU-1-0.905-0.95628.984-9.812-9.8120.0000.0000.0000.000
186A186GLY0-0.0120.00326.7580.1030.1030.0000.0000.0000.000
187A187VAL0-0.029-0.01522.583-0.104-0.1040.0000.0000.0000.000
188A188PHE0-0.009-0.00918.297-0.380-0.3800.0000.0000.0000.000
189A189GLU-1-0.899-0.95921.733-12.214-12.2140.0000.0000.0000.000
190A190GLY00.015-0.00120.733-0.808-0.8080.0000.0000.0000.000
191A191GLU-1-0.815-0.89119.016-15.060-15.0600.0000.0000.0000.000
192A192PRO0-0.066-0.04414.230-0.608-0.6080.0000.0000.0000.000
193A193LYS10.8310.87917.53512.18712.1870.0000.0000.0000.000
194A194PHE00.0150.01920.5580.1200.1200.0000.0000.0000.000
195A195LYS10.8590.91621.99213.23113.2310.0000.0000.0000.000
196A196PHE00.0550.03624.8510.4220.4220.0000.0000.0000.000
197A197HIS0-0.041-0.02523.627-0.079-0.0790.0000.0000.0000.000
198A198ASP-1-0.782-0.88526.239-11.485-11.4850.0000.0000.0000.000
199A199GLU-1-0.800-0.87029.418-9.893-9.8930.0000.0000.0000.000
200A200PHE00.0220.00026.2190.2450.2450.0000.0000.0000.000
201A201GLN00.002-0.02228.0230.5690.5690.0000.0000.0000.000
202A202ALA0-0.0060.01230.9680.2350.2350.0000.0000.0000.000
203A203SER0-0.0020.00533.8410.2770.2770.0000.0000.0000.000
204A204ALA0-0.0320.00331.5930.1210.1210.0000.0000.0000.000
205A205LYS10.8110.89933.7149.3409.3400.0000.0000.0000.000
206A206PRO00.0630.01534.467-0.316-0.3160.0000.0000.0000.000
207A207ALA00.0140.00933.537-0.104-0.1040.0000.0000.0000.000
208A208LYS10.9721.00134.4559.1909.1900.0000.0000.0000.000
209A209LYS10.8910.91834.4558.7928.7920.0000.0000.0000.000
210A210GLY0-0.061-0.04232.704-0.323-0.3230.0000.0000.0000.000
211A211LYS00.0720.05729.9481.1681.1680.0000.0000.0000.000