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: 72V8K

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 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 227
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2373752.468513
FMO2-HF: Nuclear repulsion 2284426.769437
FMO2-HF: Total energy -89325.699076
FMO2-MP2: Total energy -89583.045767


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.
-5.37-1.771-0.038-1.829-1.7320.001
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 : -0.001 / q_NPA : -0.011
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].
3A281THR00.0400.0173.723-3.635-0.036-0.038-1.829-1.7320.001
4A282ARG10.9820.9875.365-1.538-1.5380.0000.0000.0000.000
5A283PRO00.0420.0185.708-0.153-0.1530.0000.0000.0000.000
6A284ILE00.0450.0357.547-0.215-0.2150.0000.0000.0000.000
7A285ILE0-0.034-0.0099.562-0.255-0.2550.0000.0000.0000.000
8A286GLU-1-0.898-0.94811.0880.1120.1120.0000.0000.0000.000
9A287LEU0-0.017-0.01712.057-0.104-0.1040.0000.0000.0000.000
10A288SER0-0.028-0.02113.623-0.059-0.0590.0000.0000.0000.000
11A289ASN00.0320.01215.285-0.049-0.0490.0000.0000.0000.000
12A290THR0-0.030-0.01516.691-0.077-0.0770.0000.0000.0000.000
13A291PHE0-0.030-0.03116.865-0.045-0.0450.0000.0000.0000.000
14A292ASP-1-0.886-0.93219.8250.4120.4120.0000.0000.0000.000
15A293LYS10.9020.95120.538-0.251-0.2510.0000.0000.0000.000
16A294ILE0-0.032-0.02422.253-0.025-0.0250.0000.0000.0000.000
17A295ALA0-0.047-0.02024.317-0.021-0.0210.0000.0000.0000.000
18A296GLU-1-0.942-0.96126.1770.2160.2160.0000.0000.0000.000
19A297GLY00.0200.01928.092-0.017-0.0170.0000.0000.0000.000
20A298ASN00.000-0.00225.454-0.026-0.0260.0000.0000.0000.000
21A299LEU0-0.017-0.00926.0560.0150.0150.0000.0000.0000.000
22A300GLU-1-0.803-0.87927.6890.0820.0820.0000.0000.0000.000
23A301ALA0-0.088-0.03022.606-0.011-0.0110.0000.0000.0000.000
24A302GLU-1-0.934-0.96618.8320.0430.0430.0000.0000.0000.000
25A303VAL0-0.024-0.00217.7830.0320.0320.0000.0000.0000.000
26A304PRO00.0830.05314.160-0.039-0.0390.0000.0000.0000.000
27A305HIS0-0.017-0.0279.8450.0120.0120.0000.0000.0000.000
28A306GLN00.011-0.00913.0790.0160.0160.0000.0000.0000.000
29A307ASN0-0.069-0.03614.865-0.006-0.0060.0000.0000.0000.000
30A308ARG10.8270.8745.630-0.593-0.5930.0000.0000.0000.000
31A309ALA0-0.026-0.01911.5890.0930.0930.0000.0000.0000.000
32A310ASP-1-0.725-0.8107.3190.4380.4380.0000.0000.0000.000
33A311GLU-1-0.878-0.9589.6370.6750.6750.0000.0000.0000.000
34A312ILE00.001-0.0047.021-0.002-0.0020.0000.0000.0000.000
35A313GLY00.0440.03810.828-0.088-0.0880.0000.0000.0000.000
36A314ILE0-0.058-0.03113.073-0.050-0.0500.0000.0000.0000.000
37A315LEU00.0180.01313.517-0.044-0.0440.0000.0000.0000.000
38A316ALA00.0680.03514.337-0.040-0.0400.0000.0000.0000.000
39A317LYS10.9060.95515.942-0.124-0.1240.0000.0000.0000.000
40A318SER0-0.095-0.05318.670-0.037-0.0370.0000.0000.0000.000
41A319ILE00.0160.01916.901-0.021-0.0210.0000.0000.0000.000
42A320GLU-1-0.789-0.87020.3600.0980.0980.0000.0000.0000.000
43A321ARG10.8910.93721.730-0.177-0.1770.0000.0000.0000.000
44A322LEU00.0000.00423.921-0.015-0.0150.0000.0000.0000.000
45A323ARG10.8610.89623.764-0.132-0.1320.0000.0000.0000.000
46A324ARG10.9380.96424.496-0.087-0.0870.0000.0000.0000.000
47A325SER0-0.036-0.01028.336-0.011-0.0110.0000.0000.0000.000
48A326LEU00.017-0.00327.279-0.007-0.0070.0000.0000.0000.000
49A327LYS10.8700.91130.154-0.094-0.0940.0000.0000.0000.000
50A328GLN0-0.046-0.01931.900-0.009-0.0090.0000.0000.0000.000
51A329LEU0-0.029-0.02732.798-0.004-0.0040.0000.0000.0000.000
52A330ALA0-0.060-0.03033.881-0.002-0.0020.0000.0000.0000.000
53A331ASP-1-0.863-0.93535.8180.0740.0740.0000.0000.0000.000
54A332ASP-1-0.896-0.93138.0630.0620.0620.0000.0000.0000.000
55A333ARG10.9270.96433.840-0.118-0.1180.0000.0000.0000.000
56A334THR00.0040.00240.674-0.002-0.0020.0000.0000.0000.000
57A335LEU0-0.009-0.01242.831-0.003-0.0030.0000.0000.0000.000
58A336LEU00.0190.02043.737-0.003-0.0030.0000.0000.0000.000
59A337MET00.0310.01746.375-0.004-0.0040.0000.0000.0000.000
60A338ALA00.0070.00748.042-0.003-0.0030.0000.0000.0000.000
61A339GLY00.0100.00949.080-0.004-0.0040.0000.0000.0000.000
62A340VAL00.0100.00350.415-0.003-0.0030.0000.0000.0000.000
63A341SER0-0.001-0.00252.547-0.003-0.0030.0000.0000.0000.000
64A342HIS0-0.054-0.03153.656-0.002-0.0020.0000.0000.0000.000
65A343ASP-1-0.894-0.95554.4750.0400.0400.0000.0000.0000.000
66A344LEU0-0.060-0.03256.319-0.002-0.0020.0000.0000.0000.000
67A345ARG10.9961.00954.868-0.041-0.0410.0000.0000.0000.000
68A346THR00.0210.03860.134-0.002-0.0020.0000.0000.0000.000
69A347PRO0-0.084-0.04661.206-0.002-0.0020.0000.0000.0000.000
70A348LEU00.0970.04860.710-0.001-0.0010.0000.0000.0000.000
71A349THR0-0.010-0.02663.594-0.001-0.0010.0000.0000.0000.000
72A350ARG10.9060.93964.567-0.031-0.0310.0000.0000.0000.000
73A351ILE00.0000.01166.165-0.001-0.0010.0000.0000.0000.000
74A352ARG10.9190.96265.049-0.034-0.0340.0000.0000.0000.000
75A353LEU0-0.036-0.01869.707-0.001-0.0010.0000.0000.0000.000
76A354ALA0-0.015-0.01072.127-0.001-0.0010.0000.0000.0000.000
77A355THR0-0.034-0.04171.9430.0000.0000.0000.0000.0000.000
78A356GLU-1-0.910-0.95174.2760.0250.0250.0000.0000.0000.000
79A357MET0-0.117-0.03476.601-0.001-0.0010.0000.0000.0000.000
80A358MET0-0.059-0.00876.5720.0000.0000.0000.0000.0000.000
81A359SER0-0.003-0.00479.9610.0000.0000.0000.0000.0000.000
82A360GLU-1-0.891-0.95481.9830.0230.0230.0000.0000.0000.000
83A361GLN0-0.091-0.04883.5420.0000.0000.0000.0000.0000.000
84A362ASP-1-0.917-0.95579.5360.0260.0260.0000.0000.0000.000
85A363GLY00.0770.03478.8330.0010.0010.0000.0000.0000.000
86A364TYR00.015-0.00477.3650.0010.0010.0000.0000.0000.000
87A365LEU0-0.0060.00375.4810.0010.0010.0000.0000.0000.000
88A366ALA00.0400.02673.8700.0010.0010.0000.0000.0000.000
89A367GLU-1-0.965-0.97872.7460.0310.0310.0000.0000.0000.000
90A368SER0-0.027-0.02971.1310.0010.0010.0000.0000.0000.000
91A369ILE00.0310.02069.1240.0010.0010.0000.0000.0000.000
92A370ASN00.001-0.01067.9880.0020.0020.0000.0000.0000.000
93A371LYS10.9380.96466.994-0.035-0.0350.0000.0000.0000.000
94A372ASP-1-0.845-0.91265.1990.0410.0410.0000.0000.0000.000
95A373ILE0-0.082-0.04263.4360.0020.0020.0000.0000.0000.000
96A374GLU-1-0.889-0.94562.2140.0390.0390.0000.0000.0000.000
97A375GLU-1-0.941-0.96260.3970.0490.0490.0000.0000.0000.000
98A376CYS0-0.072-0.04359.0020.0030.0030.0000.0000.0000.000
99A377ASN0-0.027-0.01857.4490.0030.0030.0000.0000.0000.000
100A378ALA00.0310.02356.5680.0020.0020.0000.0000.0000.000
101A379ILE0-0.016-0.00654.0270.0030.0030.0000.0000.0000.000
102A380ILE0-0.041-0.02952.7740.0030.0030.0000.0000.0000.000
103A381GLU-1-0.940-0.97551.6850.0490.0490.0000.0000.0000.000
104A382GLN00.0030.00750.9130.0020.0020.0000.0000.0000.000
105A383PHE00.000-0.01345.6570.0040.0040.0000.0000.0000.000
106A384ILE0-0.025-0.01747.0600.0040.0040.0000.0000.0000.000
107A385ASP-1-0.893-0.94946.3510.0620.0620.0000.0000.0000.000
108A386TYR0-0.019-0.02041.1280.0040.0040.0000.0000.0000.000
109A387LEU0-0.034-0.01042.1930.0060.0060.0000.0000.0000.000
110A388ARG10.9360.97441.625-0.056-0.0560.0000.0000.0000.000
111A389THR0-0.091-0.06340.9080.0020.0020.0000.0000.0000.000
112A390GLY0-0.0010.01337.6350.0050.0050.0000.0000.0000.000
113A391GLN0-0.088-0.03936.3000.0040.0040.0000.0000.0000.000
114A392GLU-1-0.801-0.89135.4490.0920.0920.0000.0000.0000.000
115A393MET0-0.012-0.02335.5430.0030.0030.0000.0000.0000.000
116A394PRO0-0.0100.00732.097-0.007-0.0070.0000.0000.0000.000
117A395MET0-0.040-0.01134.5700.0000.0000.0000.0000.0000.000
118A396GLU-1-0.863-0.92736.1290.0540.0540.0000.0000.0000.000
119A397MET0-0.026-0.04138.1960.0060.0060.0000.0000.0000.000
120A398ALA00.0250.00940.101-0.005-0.0050.0000.0000.0000.000
121A399ASP-1-0.805-0.91343.7230.0400.0400.0000.0000.0000.000
122A400LEU00.0670.03745.7230.0000.0000.0000.0000.0000.000
123A401ASN00.029-0.01147.7940.0000.0000.0000.0000.0000.000
124A402ALA00.0150.03649.319-0.002-0.0020.0000.0000.0000.000
125A403VAL00.0190.00147.297-0.001-0.0010.0000.0000.0000.000
126A404LEU0-0.029-0.01250.0420.0000.0000.0000.0000.0000.000
127A405GLY00.0060.00052.352-0.001-0.0010.0000.0000.0000.000
128A406GLU-1-0.989-1.00051.4340.0360.0360.0000.0000.0000.000
129A407VAL0-0.079-0.04752.026-0.001-0.0010.0000.0000.0000.000
130A408ILE0-0.0420.01054.9440.0000.0000.0000.0000.0000.000
131A409ALA0-0.0190.00158.3040.0000.0000.0000.0000.0000.000
132A417GLU-1-0.971-0.99265.8600.0320.0320.0000.0000.0000.000
133A418ILE00.003-0.00459.9320.0010.0010.0000.0000.0000.000
134A419GLU-1-0.827-0.89462.4400.0330.0330.0000.0000.0000.000
135A420THR0-0.022-0.02459.0190.0010.0010.0000.0000.0000.000
136A421ALA0-0.052-0.02958.321-0.002-0.0020.0000.0000.0000.000
137A422LEU00.0130.00454.2180.0020.0020.0000.0000.0000.000
138A423TYR00.0220.02351.117-0.001-0.0010.0000.0000.0000.000
139A424PRO0-0.059-0.02552.881-0.002-0.0020.0000.0000.0000.000
140A425GLY00.023-0.00849.9910.0030.0030.0000.0000.0000.000
141A426SER0-0.035-0.01548.914-0.002-0.0020.0000.0000.0000.000
142A427ILE0-0.076-0.02942.123-0.001-0.0010.0000.0000.0000.000
143A428GLU-1-0.899-0.95643.5170.0490.0490.0000.0000.0000.000
144A429VAL00.014-0.00639.7760.0030.0030.0000.0000.0000.000
145A430LYS10.8180.91433.702-0.080-0.0800.0000.0000.0000.000
146A431MET0-0.023-0.00637.8310.0050.0050.0000.0000.0000.000
147A432HIS00.0450.02738.226-0.006-0.0060.0000.0000.0000.000
148A433PRO00.0270.01741.0710.0010.0010.0000.0000.0000.000
149A434LEU0-0.010-0.01144.124-0.001-0.0010.0000.0000.0000.000
150A435SER0-0.038-0.01040.954-0.002-0.0020.0000.0000.0000.000
151A436ILE00.0770.04042.3540.0010.0010.0000.0000.0000.000
152A437LYS10.9150.96345.816-0.045-0.0450.0000.0000.0000.000
153A438ARG10.8980.96043.284-0.071-0.0710.0000.0000.0000.000
154A439ALA00.0210.01046.1890.0000.0000.0000.0000.0000.000
155A440VAL00.0600.02148.2950.0000.0000.0000.0000.0000.000
156A441ALA00.0000.00951.279-0.001-0.0010.0000.0000.0000.000
157A442ASN0-0.037-0.03549.8720.0020.0020.0000.0000.0000.000
158A443MET0-0.0090.00448.343-0.001-0.0010.0000.0000.0000.000
159A444VAL00.0510.02853.321-0.001-0.0010.0000.0000.0000.000
160A445VAL0-0.019-0.00355.595-0.001-0.0010.0000.0000.0000.000
161A446ASN0-0.052-0.03955.018-0.001-0.0010.0000.0000.0000.000
162A447ALA00.001-0.00957.022-0.001-0.0010.0000.0000.0000.000
163A448ALA00.0300.03158.942-0.001-0.0010.0000.0000.0000.000
164A449ARG10.8670.93557.252-0.051-0.0510.0000.0000.0000.000
165A450TYR0-0.061-0.03959.4040.0000.0000.0000.0000.0000.000
166A451GLY00.0680.00362.1400.0000.0000.0000.0000.0000.000
167A452ASN0-0.115-0.07063.327-0.002-0.0020.0000.0000.0000.000
168A453GLY0-0.004-0.00766.010-0.001-0.0010.0000.0000.0000.000
169A454TRP0-0.0260.00763.2860.0000.0000.0000.0000.0000.000
170A455ILE00.0210.01159.0900.0020.0020.0000.0000.0000.000
171A456LYS10.8490.92259.455-0.039-0.0390.0000.0000.0000.000
172A457VAL00.0050.00354.4280.0020.0020.0000.0000.0000.000
173A458SER0-0.036-0.02154.955-0.002-0.0020.0000.0000.0000.000
174A459SER00.014-0.00351.0070.0030.0030.0000.0000.0000.000
175A460GLY00.013-0.01850.525-0.002-0.0020.0000.0000.0000.000
176A461THR00.0150.01546.3840.0030.0030.0000.0000.0000.000
177A462GLU-1-0.793-0.88245.8870.0650.0650.0000.0000.0000.000
178A463PRO00.3711.00241.1840.0000.0000.0000.0000.0000.000
179A464ASN0-0.091-0.54441.4000.0040.0040.0000.0000.0000.000
180A465ARG10.5650.49742.469-0.061-0.0610.0000.0000.0000.000
181A466ALA0-0.116-0.12942.4510.0010.0010.0000.0000.0000.000
182A467TRP0-0.094-0.03744.811-0.003-0.0030.0000.0000.0000.000
183A468PHE00.0330.02745.988-0.003-0.0030.0000.0000.0000.000
184A469GLN00.0750.03949.5930.0050.0050.0000.0000.0000.000
185A470VAL0-0.0180.00052.295-0.003-0.0030.0000.0000.0000.000
186A471GLU-1-0.979-0.98355.1280.0480.0480.0000.0000.0000.000
187A472ASP-1-0.745-0.82658.0780.0440.0440.0000.0000.0000.000
188A473ASP-1-0.902-0.93760.9930.0410.0410.0000.0000.0000.000
189A474GLY0-0.0060.01162.695-0.001-0.0010.0000.0000.0000.000
190A475PRO0-0.083-0.04261.7060.0010.0010.0000.0000.0000.000
191A499SER0-0.015-0.02251.8950.0000.0000.0000.0000.0000.000
192A500GLY00.0960.04253.599-0.002-0.0020.0000.0000.0000.000
193A501THR00.0220.01653.3690.0020.0020.0000.0000.0000.000
194A502GLY00.0520.02851.4940.0010.0010.0000.0000.0000.000
195A503LEU0-0.010-0.00147.6480.0040.0040.0000.0000.0000.000
196A504GLY00.0540.02948.4480.0020.0020.0000.0000.0000.000
197A505LEU00.0150.00248.9250.0010.0010.0000.0000.0000.000
198A506ALA0-0.0110.00545.1840.0030.0030.0000.0000.0000.000
199A507ILE0-0.026-0.00644.2680.0050.0050.0000.0000.0000.000
200A508VAL00.0040.00344.3860.0020.0020.0000.0000.0000.000
201A509GLN0-0.035-0.01841.434-0.002-0.0020.0000.0000.0000.000
202A510ARG10.8390.91337.386-0.113-0.1130.0000.0000.0000.000
203A511ILE00.0030.00639.6460.0030.0030.0000.0000.0000.000
204A512VAL0-0.024-0.00740.3700.0010.0010.0000.0000.0000.000
205A513ASP-1-0.797-0.89137.3340.1200.1200.0000.0000.0000.000
206A514ASN0-0.085-0.04035.8550.0140.0140.0000.0000.0000.000
207A515HIS0-0.076-0.05435.331-0.002-0.0020.0000.0000.0000.000
208A516ASN0-0.055-0.02032.1570.0020.0020.0000.0000.0000.000
209A517GLY00.0290.02535.781-0.002-0.0020.0000.0000.0000.000
210A518MET0-0.034-0.01939.2150.0060.0060.0000.0000.0000.000
211A519LEU0-0.009-0.00741.797-0.006-0.0060.0000.0000.0000.000
212A520GLU-1-0.857-0.92445.1720.0740.0740.0000.0000.0000.000
213A521LEU0-0.008-0.01148.083-0.003-0.0030.0000.0000.0000.000
214A522GLY00.007-0.00451.4120.0010.0010.0000.0000.0000.000
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