Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: 2J3ZR

Calculation Name: 4CTI-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4CTI

Chain ID: A

ChEMBL ID:

UniProt ID: P0AEJ4

Base Structure: X-ray

Registration Date: 2023-09-19

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 OptHSide
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 227
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2375282.182118
FMO2-HF: Nuclear repulsion 2285954.889538
FMO2-HF: Total energy -89327.29258
FMO2-MP2: Total energy -89584.579493


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:279:THR)


Summations of interaction energy for fragment #1(A:279:THR)
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.
-4.088-0.627-0.036-1.749-1.6760.001
Interaction energy analysis for fragmet #1(A:279:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.005 / q_NPA : -0.010
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].
3A281THR00.0380.0153.732-2.8290.632-0.036-1.749-1.6760.001
4A282ARG10.9310.9595.370-1.324-1.3240.0000.0000.0000.000
5A283PRO00.0210.0165.668-0.114-0.1140.0000.0000.0000.000
6A284ILE00.0410.0317.337-0.170-0.1700.0000.0000.0000.000
7A285ILE0-0.0120.0049.300-0.208-0.2080.0000.0000.0000.000
8A286GLU-1-0.792-0.88311.034-0.006-0.0060.0000.0000.0000.000
9A287LEU0-0.015-0.00512.427-0.085-0.0850.0000.0000.0000.000
10A288SER0-0.032-0.02113.651-0.040-0.0400.0000.0000.0000.000
11A289ASN0-0.014-0.00415.664-0.060-0.0600.0000.0000.0000.000
12A290THR0-0.061-0.03616.563-0.070-0.0700.0000.0000.0000.000
13A291PHE0-0.018-0.02416.710-0.039-0.0390.0000.0000.0000.000
14A292ASP-1-0.855-0.92519.5260.3810.3810.0000.0000.0000.000
15A293LYS10.9340.96519.936-0.225-0.2250.0000.0000.0000.000
16A294ILE0-0.037-0.02521.817-0.021-0.0210.0000.0000.0000.000
17A295ALA0-0.045-0.01824.319-0.017-0.0170.0000.0000.0000.000
18A296GLU-1-0.947-0.96226.1770.1900.1900.0000.0000.0000.000
19A297GLY00.0170.01628.080-0.015-0.0150.0000.0000.0000.000
20A298ASN0-0.015-0.01026.143-0.024-0.0240.0000.0000.0000.000
21A299LEU00.002-0.00626.0560.0110.0110.0000.0000.0000.000
22A300GLU-1-0.802-0.88827.6890.0470.0470.0000.0000.0000.000
23A301ALA0-0.077-0.01822.675-0.013-0.0130.0000.0000.0000.000
24A302GLU-1-0.947-0.97318.839-0.046-0.0460.0000.0000.0000.000
25A303VAL0-0.0080.00117.7560.0280.0280.0000.0000.0000.000
26A304PRO00.0580.04014.056-0.044-0.0440.0000.0000.0000.000
27A305HIS0-0.033-0.0559.366-0.032-0.0320.0000.0000.0000.000
28A306GLN00.0690.01812.8820.0210.0210.0000.0000.0000.000
29A307ASN0-0.044-0.00814.7640.0210.0210.0000.0000.0000.000
30A308ARG10.8220.8895.9220.0570.0570.0000.0000.0000.000
31A309ALA0-0.002-0.01211.8970.1130.1130.0000.0000.0000.000
32A310ASP-1-0.738-0.8247.5680.0070.0070.0000.0000.0000.000
33A311GLU-1-0.851-0.9459.6390.4750.4750.0000.0000.0000.000
34A312ILE0-0.009-0.0077.3710.0090.0090.0000.0000.0000.000
35A313GLY00.0650.03211.097-0.064-0.0640.0000.0000.0000.000
36A314ILE0-0.060-0.02413.386-0.023-0.0230.0000.0000.0000.000
37A315LEU00.0110.01013.355-0.027-0.0270.0000.0000.0000.000
38A316ALA00.0700.03614.537-0.024-0.0240.0000.0000.0000.000
39A317LYS10.8140.89415.5090.0080.0080.0000.0000.0000.000
40A318SER0-0.081-0.05218.951-0.027-0.0270.0000.0000.0000.000
41A319ILE00.0220.02316.894-0.013-0.0130.0000.0000.0000.000
42A320GLU-1-0.741-0.81920.6450.0380.0380.0000.0000.0000.000
43A321ARG10.8630.93021.259-0.123-0.1230.0000.0000.0000.000
44A322LEU0-0.0060.00123.845-0.009-0.0090.0000.0000.0000.000
45A323ARG10.8860.91423.663-0.074-0.0740.0000.0000.0000.000
46A324ARG10.8440.89824.604-0.029-0.0290.0000.0000.0000.000
47A325SER0-0.035-0.01228.555-0.007-0.0070.0000.0000.0000.000
48A326LEU00.0200.00027.179-0.004-0.0040.0000.0000.0000.000
49A327LYS10.8560.92030.215-0.058-0.0580.0000.0000.0000.000
50A328GLN0-0.052-0.03331.900-0.008-0.0080.0000.0000.0000.000
51A329LEU0-0.022-0.02332.866-0.002-0.0020.0000.0000.0000.000
52A330ALA0-0.052-0.02933.882-0.001-0.0010.0000.0000.0000.000
53A331ASP-1-0.880-0.94635.8180.0500.0500.0000.0000.0000.000
54A332ASP-1-0.894-0.93038.0630.0430.0430.0000.0000.0000.000
55A333ARG10.9030.96034.174-0.093-0.0930.0000.0000.0000.000
56A334THR0-0.002-0.01440.6740.0000.0000.0000.0000.0000.000
57A335LEU0-0.002-0.00443.279-0.002-0.0020.0000.0000.0000.000
58A336LEU00.0230.02344.059-0.003-0.0030.0000.0000.0000.000
59A337MET00.0350.01546.421-0.003-0.0030.0000.0000.0000.000
60A338ALA00.0100.01148.042-0.002-0.0020.0000.0000.0000.000
61A339GLY00.0170.01049.106-0.003-0.0030.0000.0000.0000.000
62A340VAL00.0160.00450.508-0.002-0.0020.0000.0000.0000.000
63A341SER00.0110.00852.546-0.003-0.0030.0000.0000.0000.000
64A342HIS0-0.048-0.04053.674-0.002-0.0020.0000.0000.0000.000
65A343ASP-1-0.901-0.95454.4140.0310.0310.0000.0000.0000.000
66A344LEU0-0.053-0.02756.091-0.001-0.0010.0000.0000.0000.000
67A345ARG10.9500.98854.552-0.031-0.0310.0000.0000.0000.000
68A346THR00.0260.01860.134-0.002-0.0020.0000.0000.0000.000
69A347PRO0-0.078-0.04161.304-0.001-0.0010.0000.0000.0000.000
70A348LEU00.0890.04660.574-0.001-0.0010.0000.0000.0000.000
71A349THR00.0040.00463.660-0.001-0.0010.0000.0000.0000.000
72A350ARG10.8970.93264.742-0.024-0.0240.0000.0000.0000.000
73A351ILE0-0.0030.00666.075-0.001-0.0010.0000.0000.0000.000
74A352ARG10.8310.89864.833-0.027-0.0270.0000.0000.0000.000
75A353LEU0-0.028-0.02069.707-0.001-0.0010.0000.0000.0000.000
76A354ALA0-0.022-0.01272.123-0.001-0.0010.0000.0000.0000.000
77A355THR00.002-0.01972.3700.0000.0000.0000.0000.0000.000
78A356GLU-1-0.944-0.96173.9880.0210.0210.0000.0000.0000.000
79A357MET0-0.108-0.03776.601-0.001-0.0010.0000.0000.0000.000
80A358MET0-0.062-0.01176.6430.0000.0000.0000.0000.0000.000
81A359SER0-0.059-0.05479.961-0.001-0.0010.0000.0000.0000.000
82A360GLU-1-0.878-0.95181.9830.0190.0190.0000.0000.0000.000
83A361GLN0-0.104-0.04983.5420.0000.0000.0000.0000.0000.000
84A362ASP-1-0.871-0.91479.7200.0210.0210.0000.0000.0000.000
85A363GLY00.0970.04678.8330.0000.0000.0000.0000.0000.000
86A364TYR00.010-0.00977.3650.0010.0010.0000.0000.0000.000
87A365LEU0-0.0130.00275.4820.0010.0010.0000.0000.0000.000
88A366ALA00.0580.03473.8700.0010.0010.0000.0000.0000.000
89A367GLU-1-0.885-0.93472.7460.0270.0270.0000.0000.0000.000
90A368SER0-0.025-0.02170.7930.0010.0010.0000.0000.0000.000
91A369ILE00.0240.01769.1220.0010.0010.0000.0000.0000.000
92A370ASN0-0.010-0.01467.9880.0010.0010.0000.0000.0000.000
93A371LYS10.8690.92966.994-0.029-0.0290.0000.0000.0000.000
94A372ASP-1-0.839-0.91365.2100.0350.0350.0000.0000.0000.000
95A373ILE0-0.056-0.02763.4360.0020.0020.0000.0000.0000.000
96A374GLU-1-0.802-0.87862.2140.0310.0310.0000.0000.0000.000
97A375GLU-1-0.950-0.96560.3140.0430.0430.0000.0000.0000.000
98A376CYS0-0.078-0.05158.9910.0020.0020.0000.0000.0000.000
99A377ASN0-0.049-0.03057.4490.0020.0020.0000.0000.0000.000
100A378ALA00.0260.01756.5680.0010.0010.0000.0000.0000.000
101A379ILE0-0.014-0.00454.1460.0030.0030.0000.0000.0000.000
102A380ILE0-0.040-0.02852.8450.0030.0030.0000.0000.0000.000
103A381GLU-1-0.940-0.96951.6850.0390.0390.0000.0000.0000.000
104A382GLN0-0.0030.00251.0150.0010.0010.0000.0000.0000.000
105A383PHE00.006-0.01145.5070.0040.0040.0000.0000.0000.000
106A384ILE0-0.017-0.01447.0600.0030.0030.0000.0000.0000.000
107A385ASP-1-0.804-0.91746.3510.0500.0500.0000.0000.0000.000
108A386TYR0-0.048-0.02641.4520.0030.0030.0000.0000.0000.000
109A387LEU0-0.049-0.01742.5220.0050.0050.0000.0000.0000.000
110A388ARG10.8990.94841.625-0.044-0.0440.0000.0000.0000.000
111A389THR0-0.084-0.05140.9040.0020.0020.0000.0000.0000.000
112A390GLY0-0.0010.00737.6360.0040.0040.0000.0000.0000.000
113A391GLN0-0.084-0.02436.3000.0030.0030.0000.0000.0000.000
114A392GLU-1-0.782-0.88335.6950.0720.0720.0000.0000.0000.000
115A393MET0-0.017-0.01835.6660.0010.0010.0000.0000.0000.000
116A394PRO0-0.003-0.00632.077-0.005-0.0050.0000.0000.0000.000
117A395MET0-0.041-0.00134.734-0.002-0.0020.0000.0000.0000.000
118A396GLU-1-0.847-0.91836.1740.0370.0370.0000.0000.0000.000
119A397MET0-0.035-0.04438.0980.0060.0060.0000.0000.0000.000
120A398ALA00.0230.00840.009-0.005-0.0050.0000.0000.0000.000
121A399ASP-1-0.765-0.88343.6900.0300.0300.0000.0000.0000.000
122A400LEU00.0400.02545.5770.0000.0000.0000.0000.0000.000
123A401ASN00.027-0.01347.7990.0000.0000.0000.0000.0000.000
124A402ALA0-0.0030.02349.322-0.001-0.0010.0000.0000.0000.000
125A403VAL00.001-0.00447.213-0.001-0.0010.0000.0000.0000.000
126A404LEU0-0.027-0.01349.9440.0000.0000.0000.0000.0000.000
127A405GLY00.0080.00452.3570.0000.0000.0000.0000.0000.000
128A406GLU-1-0.866-0.92350.7050.0270.0270.0000.0000.0000.000
129A407VAL0-0.074-0.04551.971-0.001-0.0010.0000.0000.0000.000
130A408ILE0-0.0400.00754.9490.0000.0000.0000.0000.0000.000
131A409ALA0-0.0130.00758.3090.0000.0000.0000.0000.0000.000
132A417GLU-1-0.990-1.00165.9990.0270.0270.0000.0000.0000.000
133A418ILE00.011-0.00159.8840.0010.0010.0000.0000.0000.000
134A419GLU-1-0.835-0.89662.4470.0290.0290.0000.0000.0000.000
135A420THR0-0.016-0.01759.1710.0010.0010.0000.0000.0000.000
136A421ALA0-0.034-0.02158.327-0.001-0.0010.0000.0000.0000.000
137A422LEU00.0130.00654.3410.0020.0020.0000.0000.0000.000
138A423TYR00.0250.01950.537-0.001-0.0010.0000.0000.0000.000
139A424PRO0-0.049-0.01252.571-0.002-0.0020.0000.0000.0000.000
140A425GLY00.0440.00449.8710.0030.0030.0000.0000.0000.000
141A426SER0-0.110-0.06349.182-0.003-0.0030.0000.0000.0000.000
142A427ILE0-0.053-0.02542.238-0.002-0.0020.0000.0000.0000.000
143A428GLU-1-0.870-0.93543.6280.0390.0390.0000.0000.0000.000
144A429VAL00.015-0.00539.8340.0030.0030.0000.0000.0000.000
145A430LYS10.8140.91133.650-0.058-0.0580.0000.0000.0000.000
146A431MET0-0.017-0.00737.8370.0060.0060.0000.0000.0000.000
147A432HIS00.0520.03338.503-0.005-0.0050.0000.0000.0000.000
148A433PRO00.0200.01341.0770.0020.0020.0000.0000.0000.000
149A434LEU0-0.005-0.00444.1830.0000.0000.0000.0000.0000.000
150A435SER0-0.043-0.01841.134-0.001-0.0010.0000.0000.0000.000
151A436ILE00.0690.03542.3310.0010.0010.0000.0000.0000.000
152A437LYS10.8190.89745.820-0.032-0.0320.0000.0000.0000.000
153A438ARG10.8940.96443.163-0.058-0.0580.0000.0000.0000.000
154A439ALA00.0100.00446.1790.0000.0000.0000.0000.0000.000
155A440VAL00.0580.01948.2980.0000.0000.0000.0000.0000.000
156A441ALA00.0030.00951.281-0.001-0.0010.0000.0000.0000.000
157A442ASN0-0.050-0.03950.4630.0010.0010.0000.0000.0000.000
158A443MET0-0.023-0.00248.418-0.001-0.0010.0000.0000.0000.000
159A444VAL00.0430.02253.323-0.001-0.0010.0000.0000.0000.000
160A445VAL0-0.0100.00155.619-0.001-0.0010.0000.0000.0000.000
161A446ASN0-0.051-0.03754.9670.0000.0000.0000.0000.0000.000
162A447ALA0-0.006-0.01457.0220.0000.0000.0000.0000.0000.000
163A448ALA00.0290.03158.942-0.001-0.0010.0000.0000.0000.000
164A449ARG10.8750.93857.365-0.043-0.0430.0000.0000.0000.000
165A450TYR0-0.063-0.03959.6670.0000.0000.0000.0000.0000.000
166A451GLY00.0760.02562.1400.0000.0000.0000.0000.0000.000
167A452ASN0-0.131-0.08963.326-0.002-0.0020.0000.0000.0000.000
168A453GLY0-0.003-0.01066.021-0.001-0.0010.0000.0000.0000.000
169A454TRP0-0.0300.00463.210-0.001-0.0010.0000.0000.0000.000
170A455ILE00.0210.00859.1130.0020.0020.0000.0000.0000.000
171A456LYS10.8180.90859.658-0.035-0.0350.0000.0000.0000.000
172A457VAL00.0060.00554.4900.0020.0020.0000.0000.0000.000
173A458SER0-0.018-0.01154.958-0.002-0.0020.0000.0000.0000.000
174A459SER0-0.007-0.01950.9910.0020.0020.0000.0000.0000.000
175A460GLY00.006-0.01050.536-0.001-0.0010.0000.0000.0000.000
176A461THR0-0.011-0.00246.3100.0030.0030.0000.0000.0000.000
177A462GLU-1-0.969-1.03545.3190.0630.0630.0000.0000.0000.000
178A463PRO0-0.4240.10641.5640.0030.0030.0000.0000.0000.000
179A464ASN00.428-0.00440.223-0.002-0.0020.0000.0000.0000.000
180A465ARG10.9270.96040.471-0.054-0.0540.0000.0000.0000.000
181A466ALA0-0.063-0.07242.454-0.002-0.0020.0000.0000.0000.000
182A467TRP0-0.025-0.01444.813-0.002-0.0020.0000.0000.0000.000
183A468PHE00.0270.02445.496-0.003-0.0030.0000.0000.0000.000
184A469GLN00.0450.02449.5940.0050.0050.0000.0000.0000.000
185A470VAL0-0.026-0.00952.296-0.003-0.0030.0000.0000.0000.000
186A471GLU-1-0.953-0.97755.1290.0430.0430.0000.0000.0000.000
187A472ASP-1-0.742-0.85258.0780.0390.0390.0000.0000.0000.000
188A473ASP-1-0.878-0.91860.9930.0370.0370.0000.0000.0000.000
189A474GLY00.0120.03362.684-0.001-0.0010.0000.0000.0000.000
190A475PRO0-0.081-0.03961.8150.0010.0010.0000.0000.0000.000
191A499SER0-0.030-0.03251.7950.0010.0010.0000.0000.0000.000
192A500GLY00.1080.05053.599-0.002-0.0020.0000.0000.0000.000
193A501THR00.0450.02653.3690.0020.0020.0000.0000.0000.000
194A502GLY00.0270.01551.4930.0010.0010.0000.0000.0000.000
195A503LEU0-0.016-0.00247.7520.0040.0040.0000.0000.0000.000
196A504GLY00.0810.03548.4480.0020.0020.0000.0000.0000.000
197A505LEU0-0.002-0.00748.9250.0010.0010.0000.0000.0000.000
198A506ALA0-0.0100.00645.1830.0030.0030.0000.0000.0000.000
199A507ILE0-0.025-0.00744.2680.0040.0040.0000.0000.0000.000
200A508VAL00.0000.00244.3860.0010.0010.0000.0000.0000.000
201A509GLN0-0.043-0.03541.331-0.002-0.0020.0000.0000.0000.000
202A510ARG10.8310.90737.245-0.101-0.1010.0000.0000.0000.000
203A511ILE00.001-0.00339.6460.0030.0030.0000.0000.0000.000
204A512VAL0-0.011-0.01140.3720.0000.0000.0000.0000.0000.000
205A513ASP-1-0.783-0.86037.2910.1090.1090.0000.0000.0000.000
206A514ASN0-0.098-0.05235.8550.0130.0130.0000.0000.0000.000
207A515HIS0-0.058-0.02435.334-0.004-0.0040.0000.0000.0000.000
208A516ASN0-0.065-0.02732.4840.0050.0050.0000.0000.0000.000
209A517GLY00.0360.02835.781-0.001-0.0010.0000.0000.0000.000
210A518MET0-0.039-0.02139.2140.0070.0070.0000.0000.0000.000
211A519LEU0-0.012-0.00641.796-0.006-0.0060.0000.0000.0000.000
212A520GLU-1-0.822-0.89745.1700.0670.0670.0000.0000.0000.000
213A521LEU0-0.005-0.00848.081-0.003-0.0030.0000.0000.0000.000
214A522GLY00.020-0.00251.4090.0020.0020.0000.0000.0000.000
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