FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: NN1MQ

Calculation Name: 2G7L-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2G7L

Chain ID: A

ChEMBL ID:

UniProt ID: Q93JG8

Base Structure: X-ray

Registration Date: 2023-09-21

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

DOI:


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
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. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1983839.066515
FMO2-HF: Nuclear repulsion 1907953.97768
FMO2-HF: Total energy -75885.088835
FMO2-MP2: Total energy -76110.224715


3D Structure
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:16:LYS)


Summations of interaction energy for fragment #1(A:16: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.
-37.723-36.914-0.001-0.325-0.4830.001
Interaction energy analysis for fragmet #1(A:16:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.968 / q_NPA : 0.962
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].
3A18ALA00.0180.0103.915-1.440-0.631-0.001-0.325-0.4830.001
4A19LEU00.0150.0176.2172.6622.6620.0000.0000.0000.000
5A20SER00.017-0.0018.3151.0451.0450.0000.0000.0000.000
6A21ARG11.0190.99811.93813.27013.2700.0000.0000.0000.000
7A22ARG10.9340.95912.55016.90916.9090.0000.0000.0000.000
8A23TRP0-0.0140.0096.2260.1910.1910.0000.0000.0000.000
9A24ILE00.0410.03012.0720.4220.4220.0000.0000.0000.000
10A25VAL0-0.0020.00114.0670.5040.5040.0000.0000.0000.000
11A26ASP-1-0.824-0.90915.845-13.633-13.6330.0000.0000.0000.000
12A27THR0-0.019-0.02213.6400.2670.2670.0000.0000.0000.000
13A28ALA0-0.031-0.01316.0560.4570.4570.0000.0000.0000.000
14A29VAL00.0140.00818.8750.5120.5120.0000.0000.0000.000
15A30ALA0-0.027-0.01318.0050.5130.5130.0000.0000.0000.000
16A31LEU00.025-0.00118.0580.3400.3400.0000.0000.0000.000
17A32MET0-0.032-0.01720.4320.4030.4030.0000.0000.0000.000
18A33ARG10.9000.95523.70410.55010.5500.0000.0000.0000.000
19A34ALA0-0.0140.01821.9550.2940.2940.0000.0000.0000.000
20A35GLU-1-0.868-0.93521.063-12.003-12.0030.0000.0000.0000.000
21A36GLY0-0.0090.01225.0450.1790.1790.0000.0000.0000.000
22A37LEU00.021-0.01424.9890.0510.0510.0000.0000.0000.000
23A38GLU-1-0.895-0.94325.710-9.796-9.7960.0000.0000.0000.000
24A39LYS10.9010.94723.03810.21710.2170.0000.0000.0000.000
25A40VAL00.0210.03420.221-0.610-0.6100.0000.0000.0000.000
26A41THR0-0.024-0.00220.6930.0650.0650.0000.0000.0000.000
27A42MET00.0770.02417.334-0.372-0.3720.0000.0000.0000.000
28A43ARG10.9290.96716.51312.22312.2230.0000.0000.0000.000
29A44ARG10.7670.87116.50813.08113.0810.0000.0000.0000.000
30A45LEU00.0390.02314.889-0.306-0.3060.0000.0000.0000.000
31A46ALA0-0.013-0.01412.296-0.694-0.6940.0000.0000.0000.000
32A47GLN0-0.027-0.01211.417-0.522-0.5220.0000.0000.0000.000
33A48GLU-1-0.902-0.95311.990-16.401-16.4010.0000.0000.0000.000
34A49LEU0-0.071-0.0298.912-0.404-0.4040.0000.0000.0000.000
35A50ASP-1-0.937-0.9486.479-25.677-25.6770.0000.0000.0000.000
36A51THR0-0.020-0.0197.062-2.457-2.4570.0000.0000.0000.000
37A52GLY00.0190.0078.9761.7621.7620.0000.0000.0000.000
38A53PRO00.008-0.02712.432-0.170-0.1700.0000.0000.0000.000
39A54ALA0-0.004-0.00314.6640.3890.3890.0000.0000.0000.000
40A55SER00.0040.00010.0120.3860.3860.0000.0000.0000.000
41A56LEU00.0010.00011.8120.1650.1650.0000.0000.0000.000
42A57TYR0-0.031-0.01214.1080.7520.7520.0000.0000.0000.000
43A58VAL0-0.0060.02014.1790.7280.7280.0000.0000.0000.000
44A59TYR0-0.047-0.01911.0640.7790.7790.0000.0000.0000.000
45A60VAL00.0050.00116.8970.7780.7780.0000.0000.0000.000
46A61ALA00.0650.03019.254-0.279-0.2790.0000.0000.0000.000
47A62ASN0-0.006-0.01121.6360.2180.2180.0000.0000.0000.000
48A63THR00.0490.00922.851-0.286-0.2860.0000.0000.0000.000
49A64ALA00.0510.04224.248-0.037-0.0370.0000.0000.0000.000
50A65GLU-1-0.864-0.93523.150-10.806-10.8060.0000.0000.0000.000
51A66LEU0-0.045-0.02718.889-0.213-0.2130.0000.0000.0000.000
52A67HIS0-0.003-0.01022.2160.2480.2480.0000.0000.0000.000
53A68ALA00.0830.05425.3790.1310.1310.0000.0000.0000.000
54A69ALA0-0.054-0.02921.3410.1230.1230.0000.0000.0000.000
55A70VAL00.001-0.00621.889-0.026-0.0260.0000.0000.0000.000
56A71LEU0-0.005-0.00323.9530.1880.1880.0000.0000.0000.000
57A72ASP-1-0.823-0.93625.182-10.121-10.1210.0000.0000.0000.000
58A73ALA0-0.015-0.00123.0790.1540.1540.0000.0000.0000.000
59A74LEU0-0.051-0.03625.1420.1150.1150.0000.0000.0000.000
60A75LEU00.0250.01328.1890.3090.3090.0000.0000.0000.000
61A76GLY0-0.049-0.01328.7710.1640.1640.0000.0000.0000.000
62A77GLU-1-1.030-1.01229.725-8.588-8.5880.0000.0000.0000.000
63A78VAL0-0.021-0.00632.1340.1960.1960.0000.0000.0000.000
64A79ASP-1-0.849-0.92035.022-7.588-7.5880.0000.0000.0000.000
65A80LEU0-0.107-0.05034.7150.1720.1720.0000.0000.0000.000
66A81THR0-0.040-0.01938.1640.0440.0440.0000.0000.0000.000
67A82GLY0-0.004-0.01940.6850.1750.1750.0000.0000.0000.000
68A83ALA00.0220.01842.340-0.114-0.1140.0000.0000.0000.000
69A84GLY0-0.030-0.03244.7440.0210.0210.0000.0000.0000.000
70A85ALA0-0.0180.01747.7330.0870.0870.0000.0000.0000.000
71A86GLU-1-0.933-0.97249.223-5.638-5.6380.0000.0000.0000.000
72A87GLU-1-0.989-1.01449.636-6.155-6.1550.0000.0000.0000.000
73A88ASP-1-0.851-0.92051.040-5.631-5.6310.0000.0000.0000.000
74A89TRP00.0180.02348.901-0.072-0.0720.0000.0000.0000.000
75A90ARG10.8080.90148.3725.4805.4800.0000.0000.0000.000
76A91GLU-1-0.915-0.97449.343-5.873-5.8730.0000.0000.0000.000
77A92GLN00.0420.01645.727-0.025-0.0250.0000.0000.0000.000
78A93LEU00.017-0.00643.814-0.145-0.1450.0000.0000.0000.000
79A94ARG10.8030.91244.4775.7675.7670.0000.0000.0000.000
80A95ALA0-0.0090.00444.328-0.083-0.0830.0000.0000.0000.000
81A96VAL00.0470.02239.364-0.114-0.1140.0000.0000.0000.000
82A97LEU0-0.0170.00239.980-0.147-0.1470.0000.0000.0000.000
83A98THR0-0.015-0.01041.097-0.038-0.0380.0000.0000.0000.000
84A99SER00.0190.01338.154-0.066-0.0660.0000.0000.0000.000
85A100TYR0-0.001-0.01134.025-0.251-0.2510.0000.0000.0000.000
86A101THR0-0.013-0.03036.624-0.131-0.1310.0000.0000.0000.000
87A102LEU0-0.040-0.02438.550-0.029-0.0290.0000.0000.0000.000
88A103VAL00.0330.03131.840-0.072-0.0720.0000.0000.0000.000
89A104LEU0-0.027-0.02333.511-0.139-0.1390.0000.0000.0000.000
90A105PHE0-0.030-0.03335.4840.0240.0240.0000.0000.0000.000
91A106ALA0-0.0180.01534.1670.0460.0460.0000.0000.0000.000
92A107HIS0-0.025-0.01429.793-0.172-0.1720.0000.0000.0000.000
93A108PRO00.0700.04932.922-0.185-0.1850.0000.0000.0000.000
94A109GLN0-0.048-0.03330.1430.2040.2040.0000.0000.0000.000
95A110LEU00.010-0.00527.176-0.161-0.1610.0000.0000.0000.000
96A111ALA00.0630.03730.978-0.053-0.0530.0000.0000.0000.000
97A112ARG10.8160.90633.8857.8427.8420.0000.0000.0000.000
98A113SER0-0.045-0.03929.0880.1040.1040.0000.0000.0000.000
99A114ALA00.0210.02431.411-0.106-0.1060.0000.0000.0000.000
100A115LEU0-0.075-0.03532.3500.0920.0920.0000.0000.0000.000
101A116VAL0-0.075-0.02031.1990.0600.0600.0000.0000.0000.000
102A117ALA0-0.021-0.02328.616-0.053-0.0530.0000.0000.0000.000
103A118ARG10.9480.98730.1368.2258.2250.0000.0000.0000.000
104A119PRO0-0.014-0.01327.785-0.258-0.2580.0000.0000.0000.000
105A120SER0-0.032-0.01326.0750.1310.1310.0000.0000.0000.000
106A121GLY0-0.0110.00325.419-0.245-0.2450.0000.0000.0000.000
107A122GLU-1-0.869-0.96225.602-9.482-9.4820.0000.0000.0000.000
108A123ASN0-0.010-0.00626.5150.4800.4800.0000.0000.0000.000
109A124TYR00.0100.01529.1710.4160.4160.0000.0000.0000.000
110A125LEU00.0260.00029.2220.3280.3280.0000.0000.0000.000
111A126ARG10.9360.98730.6249.2219.2210.0000.0000.0000.000
112A127LEU0-0.0170.00033.3850.2770.2770.0000.0000.0000.000
113A128VAL0-0.014-0.02734.3010.2450.2450.0000.0000.0000.000
114A129GLU-1-0.918-0.94836.023-7.464-7.4640.0000.0000.0000.000
115A130ARG10.9530.99037.7267.2297.2290.0000.0000.0000.000
116A131VAL0-0.047-0.03339.4240.2370.2370.0000.0000.0000.000
117A132LEU0-0.005-0.01539.2220.2280.2280.0000.0000.0000.000
118A133GLU-1-0.891-0.93041.683-6.773-6.7730.0000.0000.0000.000
119A134LEU0-0.007-0.01043.6430.1860.1860.0000.0000.0000.000
120A135LEU0-0.018-0.00645.2660.1740.1740.0000.0000.0000.000
121A136ALA0-0.008-0.01146.5060.1570.1570.0000.0000.0000.000
122A137ARG10.8960.94945.3896.4866.4860.0000.0000.0000.000
123A138SER0-0.074-0.02050.6670.1630.1630.0000.0000.0000.000
124A139GLY00.0060.00352.3260.1260.1260.0000.0000.0000.000
125A140ALA0-0.074-0.03251.7020.0480.0480.0000.0000.0000.000
126A141PRO00.0530.01751.919-0.086-0.0860.0000.0000.0000.000
127A142GLY00.0680.02648.638-0.070-0.0700.0000.0000.0000.000
128A143ALA0-0.008-0.00547.300-0.126-0.1260.0000.0000.0000.000
129A144GLN00.002-0.00947.581-0.070-0.0700.0000.0000.0000.000
130A145VAL00.0000.00345.340-0.066-0.0660.0000.0000.0000.000
131A146ALA00.0320.02543.471-0.125-0.1250.0000.0000.0000.000
132A147TRP0-0.018-0.02942.980-0.079-0.0790.0000.0000.0000.000
133A148GLY00.0470.01044.663-0.046-0.0460.0000.0000.0000.000
134A149VAL00.0260.01540.9660.0060.0060.0000.0000.0000.000
135A150ASP-1-0.878-0.94139.439-7.635-7.6350.0000.0000.0000.000
136A151LYS10.8240.92941.0726.7276.7270.0000.0000.0000.000
137A152LEU00.0220.00143.3420.0240.0240.0000.0000.0000.000
138A153LEU00.0210.02136.754-0.033-0.0330.0000.0000.0000.000
139A154GLN0-0.041-0.01339.4010.0550.0550.0000.0000.0000.000
140A155ASP-1-0.829-0.90940.403-6.486-6.4860.0000.0000.0000.000
141A156ALA00.0330.02640.2850.0270.0270.0000.0000.0000.000
142A157THR0-0.048-0.05135.928-0.124-0.1240.0000.0000.0000.000
143A158ALA0-0.019-0.01438.586-0.083-0.0830.0000.0000.0000.000
144A159THR00.0390.01941.0280.0580.0580.0000.0000.0000.000
145A160ALA00.001-0.00538.0740.0510.0510.0000.0000.0000.000
146A161ALA0-0.032-0.01137.729-0.089-0.0890.0000.0000.0000.000
147A162GLU-1-0.976-0.98238.732-6.575-6.5750.0000.0000.0000.000
148A163GLN0-0.077-0.02639.5580.1970.1970.0000.0000.0000.000
149A164ALA0-0.035-0.02839.361-0.152-0.1520.0000.0000.0000.000
150A165THR00.0150.01134.073-0.062-0.0620.0000.0000.0000.000
151A177SER00.0380.00549.2790.0330.0330.0000.0000.0000.000
152A178ALA00.0340.00150.5290.1040.1040.0000.0000.0000.000
153A179THR00.0460.02450.8210.0870.0870.0000.0000.0000.000
154A180VAL00.0290.01752.6000.0970.0970.0000.0000.0000.000
155A181ARG10.9230.95351.5885.7485.7480.0000.0000.0000.000
156A182ALA00.0720.04056.2990.0800.0800.0000.0000.0000.000
157A183LEU0-0.029-0.01555.6330.0680.0680.0000.0000.0000.000
158A184ARG10.8590.91157.4795.2185.2180.0000.0000.0000.000
159A185ASP-1-0.902-0.92960.784-4.924-4.9240.0000.0000.0000.000
160A186ALA0-0.049-0.01261.8370.0490.0490.0000.0000.0000.000
161A187ASP-1-0.911-0.94263.546-4.525-4.5250.0000.0000.0000.000
162A188GLU-1-0.968-1.01267.336-4.321-4.3210.0000.0000.0000.000
163A189ALA0-0.0130.00469.2280.0150.0150.0000.0000.0000.000
164A190THR0-0.006-0.00566.8640.0400.0400.0000.0000.0000.000
165A191HIS0-0.034-0.02662.416-0.032-0.0320.0000.0000.0000.000
166A192PRO00.1000.07066.011-0.039-0.0390.0000.0000.0000.000
167A193ALA0-0.024-0.01764.448-0.009-0.0090.0000.0000.0000.000
168A194ILE00.0280.00560.278-0.036-0.0360.0000.0000.0000.000
169A195ALA00.0290.02563.258-0.028-0.0280.0000.0000.0000.000
170A196SER0-0.025-0.02065.9710.0070.0070.0000.0000.0000.000
171A197HIS0-0.059-0.03461.9140.0080.0080.0000.0000.0000.000
172A198MET0-0.0260.02660.312-0.142-0.1420.0000.0000.0000.000
173A199PRO00.019-0.00261.5060.0630.0630.0000.0000.0000.000
174A200LEU00.029-0.01359.592-0.097-0.0970.0000.0000.0000.000
175A201LEU0-0.0080.00956.905-0.098-0.0980.0000.0000.0000.000
176A202VAL0-0.036-0.03155.312-0.113-0.1130.0000.0000.0000.000
177A203ALA0-0.0400.00655.314-0.056-0.0560.0000.0000.0000.000
178A204GLY00.0400.02054.514-0.047-0.0470.0000.0000.0000.000
179A205SER0-0.026-0.00550.257-0.107-0.1070.0000.0000.0000.000
180A206ALA00.0890.02545.9810.0290.0290.0000.0000.0000.000
181A207HIS00.0280.01347.703-0.093-0.0930.0000.0000.0000.000
182A208ASP-1-0.859-0.93648.576-5.538-5.5380.0000.0000.0000.000
183A209ARG10.8110.89749.5225.6595.6590.0000.0000.0000.000
184A210LEU00.0710.05343.9520.0150.0150.0000.0000.0000.000
185A211ARG10.9190.95848.2285.6665.6660.0000.0000.0000.000
186A212TRP00.0150.00850.7190.0100.0100.0000.0000.0000.000
187A213SER00.040-0.00147.7310.0610.0610.0000.0000.0000.000
188A214PHE00.0610.04446.700-0.004-0.0040.0000.0000.0000.000
189A215ASP-1-0.813-0.87949.241-5.587-5.5870.0000.0000.0000.000
190A216VAL0-0.043-0.00752.3070.0550.0550.0000.0000.0000.000
191A217LEU00.0130.00846.7250.0470.0470.0000.0000.0000.000
192A218VAL00.0300.01649.0850.0240.0240.0000.0000.0000.000
193A219ASN0-0.045-0.02651.3170.0510.0510.0000.0000.0000.000
194A220GLY0-0.003-0.00453.8350.0700.0700.0000.0000.0000.000
195A221ILE00.0060.01947.5580.0210.0210.0000.0000.0000.000
196A222THR0-0.055-0.04051.6050.0630.0630.0000.0000.0000.000
197A223ARG10.8920.94953.8455.2625.2620.0000.0000.0000.000
198A224THR0-0.045-0.01653.8360.1300.1300.0000.0000.0000.000
199A225PRO00.0100.00653.728-0.107-0.1070.0000.0000.0000.000
200A226VAL0-0.039-0.01149.1610.0010.0010.0000.0000.0000.000
201A227PRO0-0.024-0.00452.4300.0400.0400.0000.0000.0000.000
202A228GLY00.0300.01552.165-0.109-0.1090.0000.0000.0000.000
203A229PRO0-0.016-0.03650.615-0.006-0.0060.0000.0000.0000.000
204A230ALA00.0040.02951.0550.1250.1250.0000.0000.0000.000