FMODB

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

Last updated: 2024-07-23

All entries: 37478

Number of unique PDB entries: 7783

tag_button

FMODB ID: P3JYL

Calculation Name: 3LAX-A-Xray25

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3LAX

Chain ID: A

ChEMBL ID:

UniProt ID: A6L0Y5

Base Structure: X-ray

Registration Date: 2018-07-25

Reference:

DOI:

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement Missing residues were capped by ACE, NME. Missing atoms were corrected by Structure prepareation by MOE.
Water Apo structure with with a 3 angstrom solvent shell.
Procedure Auto-FMO protocol ver. 1.20180227
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 176
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1020730.242438
FMO2-HF: Nuclear repulsion 972802.547853
FMO2-HF: Total energy -47927.694585
FMO2-MP2: Total energy -48067.330731


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:324:SER)


Summations of interaction energy for fragment #1(A:324:SER)
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.
-16.476-19.45526.824-10.418-13.4250.015
Interaction energy analysis for fragmet #1(A:324:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.064 / q_NPA : 0.033
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].
3A326ALA00.0390.0212.094-5.974-3.5277.267-4.540-5.1740.037
4A327ASP-1-0.837-0.8743.570-8.480-7.5060.040-0.042-0.9710.001
5A328ASP-1-0.907-0.9385.184-2.277-2.167-0.001-0.010-0.0980.000
6A329MET0-0.0020.0327.9240.5080.5080.0000.0000.0000.000
7A330ILE00.0240.0229.6690.0010.0010.0000.0000.0000.000
8A331ILE00.0140.00112.362-0.005-0.0050.0000.0000.0000.000
9A332LEU00.0160.00716.0230.0240.0240.0000.0000.0000.000
10A333LYN00.0320.01917.787-0.005-0.0050.0000.0000.0000.000
11A334GLY0-0.020-0.00820.9500.0000.0000.0000.0000.0000.000
12A335VAL0-0.017-0.00117.787-0.022-0.0220.0000.0000.0000.000
13A336ASN0-0.034-0.03915.8950.0530.0530.0000.0000.0000.000
14A337ILE0-0.0030.00111.5840.0200.0200.0000.0000.0000.000
15A338PHE00.0260.0069.762-0.013-0.0130.0000.0000.0000.000
16A339PRO00.0050.0105.8600.1180.1180.0000.0000.0000.000
17A340ILE00.0390.0245.9380.3210.3210.0000.0000.0000.000
18A341GLN0-0.001-0.0297.0000.0330.0330.0000.0000.0000.000
19A342ILE0-0.005-0.0089.3410.0060.0060.0000.0000.0000.000
20A343GLU-1-0.860-0.8974.3610.4260.508-0.001-0.012-0.0690.000
21A344THR00.0390.0088.447-0.091-0.0910.0000.0000.0000.000
22A345ILE0-0.0380.00510.8570.0060.0060.0000.0000.0000.000
23A346LEU0-0.029-0.02410.277-0.026-0.0260.0000.0000.0000.000
24A347LEU0-0.005-0.0119.132-0.002-0.0020.0000.0000.0000.000
25A348GLN0-0.043-0.00112.796-0.026-0.0260.0000.0000.0000.000
26A349PHE0-0.055-0.01116.051-0.028-0.0280.0000.0000.0000.000
27A350LYS10.9760.98917.391-0.133-0.1330.0000.0000.0000.000
28A351GLU-1-0.907-0.96119.8610.1970.1970.0000.0000.0000.000
29A352LEU0-0.042-0.00915.2220.0040.0040.0000.0000.0000.000
30A353GLY0-0.020-0.00314.579-0.027-0.0270.0000.0000.0000.000
31A354SER00.0040.0289.8560.0570.0570.0000.0000.0000.000
32A355ASP-1-0.818-0.8878.6361.2301.2300.0000.0000.0000.000
33A356TYR0-0.014-0.0554.5260.2550.289-0.001-0.005-0.0280.000
34A357LEU0-0.035-0.0117.8930.3430.3430.0000.0000.0000.000
35A358ILE00.0110.0187.495-0.235-0.2350.0000.0000.0000.000
36A359THR00.000-0.02510.0270.0250.0250.0000.0000.0000.000
37A360LEU0-0.024-0.00211.971-0.033-0.0330.0000.0000.0000.000
38A361GLU-1-0.905-0.94414.7210.1960.1960.0000.0000.0000.000
39A362THR00.0230.01418.086-0.010-0.0100.0000.0000.0000.000
40A363ALA0-0.0140.01621.6030.0030.0030.0000.0000.0000.000
41A364GLU-1-0.964-0.99724.1040.0520.0520.0000.0000.0000.000
42A365SER0-0.079-0.03027.042-0.008-0.0080.0000.0000.0000.000
43A366ASN00.0220.00224.879-0.005-0.0050.0000.0000.0000.000
44A367ASP-1-0.791-0.89219.2690.0310.0310.0000.0000.0000.000
45A368GLU-1-0.979-0.98719.6470.1330.1330.0000.0000.0000.000
46A369MET0-0.014-0.00313.3290.0390.0390.0000.0000.0000.000
47A370THR0-0.012-0.01115.324-0.031-0.0310.0000.0000.0000.000
48A371VAL0-0.003-0.00611.7040.0710.0710.0000.0000.0000.000
49A372GLU-1-0.863-0.91612.9030.3800.3800.0000.0000.0000.000
50A373VAL00.0370.00712.2880.1320.1320.0000.0000.0000.000
51A374GLU-1-0.735-0.86413.4970.4850.4850.0000.0000.0000.000
52A375LEU00.0040.01815.490-0.007-0.0070.0000.0000.0000.000
53A376SER00.019-0.00417.9770.0220.0220.0000.0000.0000.000
54A377GLN00.0190.01418.9840.0020.0020.0000.0000.0000.000
55A378LEU0-0.038-0.01221.560-0.022-0.0220.0000.0000.0000.000
56A379PHE0-0.0020.01722.534-0.017-0.0170.0000.0000.0000.000
57A380THR0-0.048-0.03024.1850.0060.0060.0000.0000.0000.000
58A381ASP-1-0.836-0.89327.1020.1250.1250.0000.0000.0000.000
59A382ASP-1-0.789-0.88528.5740.1180.1180.0000.0000.0000.000
60A383TYR00.031-0.01126.9100.0000.0000.0000.0000.0000.000
61A384GLY00.0260.03328.9440.0030.0030.0000.0000.0000.000
62A385ARG10.9580.97227.831-0.105-0.1050.0000.0000.0000.000
63A386LEU00.0300.03322.7840.0050.0050.0000.0000.0000.000
64A387GLN00.0040.00024.3840.0070.0070.0000.0000.0000.000
65A388ALA0-0.0090.00125.7090.0010.0010.0000.0000.0000.000
66A389LEU00.0510.04120.185-0.006-0.0060.0000.0000.0000.000
67A390THR00.0420.02020.9700.0160.0160.0000.0000.0000.000
68A391ARG10.9040.96921.462-0.086-0.0860.0000.0000.0000.000
69A392GLU-1-0.782-0.87521.6710.0970.0970.0000.0000.0000.000
70A393ILE00.0390.03416.481-0.008-0.0080.0000.0000.0000.000
71A394THR0-0.061-0.02918.4210.0040.0040.0000.0000.0000.000
72A395ARG10.7860.88520.101-0.104-0.1040.0000.0000.0000.000
73A396GLN00.0540.03018.361-0.006-0.0060.0000.0000.0000.000
74A397LEU00.0410.02213.681-0.014-0.0140.0000.0000.0000.000
75A398LYS10.9070.96817.032-0.079-0.0790.0000.0000.0000.000
76A399ASP-1-0.898-0.93119.8230.0300.0300.0000.0000.0000.000
77A400GLU-1-0.840-0.86714.554-0.086-0.0860.0000.0000.0000.000
78A401ILE0-0.022-0.02013.374-0.022-0.0220.0000.0000.0000.000
79A402LEU0-0.0050.00716.565-0.016-0.0160.0000.0000.0000.000
80A403VAL00.0070.00617.464-0.006-0.0060.0000.0000.0000.000
81A404THR0-0.060-0.04618.9020.0130.0130.0000.0000.0000.000
82A405PRO00.0510.05215.999-0.007-0.0070.0000.0000.0000.000
83A406ARG10.9480.97818.038-0.205-0.2050.0000.0000.0000.000
84A407VAL00.0320.01416.6380.0410.0410.0000.0000.0000.000
85A408LYS10.8840.95617.137-0.293-0.2930.0000.0000.0000.000
86A409LEU00.0200.02517.0880.0470.0470.0000.0000.0000.000
87A410VAL00.0170.02315.653-0.042-0.0420.0000.0000.0000.000
88A411PRO00.0360.01018.4830.0140.0140.0000.0000.0000.000
89A412LYS10.9760.99317.230-0.279-0.2790.0000.0000.0000.000
90A413GLY0-0.089-0.04915.959-0.037-0.0370.0000.0000.0000.000
91A414ALA0-0.040-0.01016.5400.0010.0010.0000.0000.0000.000
92A415LEU00.0120.02511.074-0.015-0.0150.0000.0000.0000.000
93A416PRO00.0160.00010.679-0.006-0.0060.0000.0000.0000.000
94A417LYS10.8560.9399.741-0.536-0.5360.0000.0000.0000.000
95A418SER0-0.0160.0119.4130.0940.0940.0000.0000.0000.000
96A419GLU-1-0.763-0.8828.8080.6500.6500.0000.0000.0000.000
97A420GLY0-0.088-0.0227.525-0.015-0.0150.0000.0000.0000.000
98A421LYS10.8470.9275.260-1.088-1.0880.0000.0000.0000.000
99A422ALA00.012-0.0042.0720.543-1.4435.506-1.857-1.6610.001
100A423VAL00.0170.0002.0072.003-4.27112.715-2.963-3.479-0.027
101A424ARG10.8710.9452.371-4.595-3.2551.296-0.885-1.7500.003
102A425VAL00.0170.0244.477-0.562-0.479-0.001-0.011-0.0720.000
103A426LYS10.9120.9577.107-0.664-0.6640.0000.0000.0000.000
104A427ASP-1-0.731-0.83810.1320.0330.0330.0000.0000.0000.000
105A428LEU0-0.050-0.02812.683-0.042-0.0420.0000.0000.0000.000
106A429ARG10.7810.88614.655-0.017-0.0170.0000.0000.0000.000
107A430LYS10.8870.93017.721-0.031-0.0310.0000.0000.0000.000
108A431THR0-0.008-0.00517.3510.0000.0000.0000.0000.0000.000
109A432PHE-1-0.938-0.95119.627-0.086-0.0860.0000.0000.0000.000
110A1HOH0-0.003-0.00921.1970.0070.0070.0000.0000.0000.000
111A2HOH0-0.023-0.00512.639-0.026-0.0260.0000.0000.0000.000
112A3HOH0-0.059-0.03730.315-0.003-0.0030.0000.0000.0000.000
113A4HOH0-0.033-0.03212.218-0.025-0.0250.0000.0000.0000.000
114A5HOH0-0.013-0.01021.5300.0010.0010.0000.0000.0000.000
115A6HOH0-0.049-0.03616.510-0.010-0.0100.0000.0000.0000.000
116A7HOH00.0010.00218.806-0.004-0.0040.0000.0000.0000.000
117A8HOH0-0.045-0.03216.574-0.004-0.0040.0000.0000.0000.000
118A9HOH0-0.035-0.02225.9210.0040.0040.0000.0000.0000.000
119A10HOH00.003-0.0098.9930.1470.1470.0000.0000.0000.000
120A11HOH0-0.006-0.01726.134-0.004-0.0040.0000.0000.0000.000
121A12HOH0-0.026-0.01921.6590.0040.0040.0000.0000.0000.000
122A13HOH00.0140.00921.7230.0090.0090.0000.0000.0000.000
123A14HOH0-0.023-0.01527.795-0.001-0.0010.0000.0000.0000.000
124A15HOH00.0130.01513.7810.0160.0160.0000.0000.0000.000
125A16HOH00.003-0.00321.8280.0100.0100.0000.0000.0000.000
126A17HOH0-0.047-0.0446.8280.1390.1390.0000.0000.0000.000
127A18HOH0-0.051-0.04332.661-0.001-0.0010.0000.0000.0000.000
128A19HOH00.006-0.00721.397-0.001-0.0010.0000.0000.0000.000
129A20HOH0-0.028-0.0267.6530.0020.0020.0000.0000.0000.000
130A21HOH0-0.001-0.00613.249-0.017-0.0170.0000.0000.0000.000
131A22HOH0-0.017-0.00932.4250.0030.0030.0000.0000.0000.000
132A23HOH0-0.031-0.0217.145-0.101-0.1010.0000.0000.0000.000
133A24HOH0-0.042-0.03618.562-0.006-0.0060.0000.0000.0000.000
134A27HOH0-0.031-0.04016.617-0.001-0.0010.0000.0000.0000.000
135A28HOH0-0.025-0.03021.1860.0010.0010.0000.0000.0000.000
136A29HOH00.005-0.0049.4990.0830.0830.0000.0000.0000.000
137A30HOH00.0090.01319.493-0.006-0.0060.0000.0000.0000.000
138A32HOH0-0.020-0.0148.417-0.064-0.0640.0000.0000.0000.000
139A34HOH0-0.022-0.01717.5620.0100.0100.0000.0000.0000.000
140A35HOH0-0.047-0.03911.5300.0000.0000.0000.0000.0000.000
141A36HOH0-0.053-0.03721.915-0.010-0.0100.0000.0000.0000.000
142A37HOH0-0.019-0.02025.613-0.003-0.0030.0000.0000.0000.000
143A39HOH0-0.016-0.0188.0770.0780.0780.0000.0000.0000.000
144A40HOH0-0.022-0.02023.880-0.007-0.0070.0000.0000.0000.000
145A41HOH0-0.016-0.03212.4540.0190.0190.0000.0000.0000.000
146A42HOH0-0.035-0.0328.343-0.027-0.0270.0000.0000.0000.000
147A43HOH0-0.037-0.02419.139-0.005-0.0050.0000.0000.0000.000
148A44HOH0-0.0020.00019.475-0.003-0.0030.0000.0000.0000.000
149A45HOH0-0.023-0.03821.567-0.001-0.0010.0000.0000.0000.000
150A46HOH0-0.020-0.0159.4120.0750.0750.0000.0000.0000.000
151A47HOH0-0.054-0.04617.754-0.003-0.0030.0000.0000.0000.000
152A49HOH00.003-0.00427.5770.0050.0050.0000.0000.0000.000
153A50HOH0-0.019-0.0307.4020.2400.2400.0000.0000.0000.000
154A51HOH00.0090.00519.4940.0050.0050.0000.0000.0000.000
155A59HOH0-0.055-0.03111.3220.0210.0210.0000.0000.0000.000
156A60HOH0-0.031-0.02822.0360.0030.0030.0000.0000.0000.000
157A61HOH0-0.009-0.01415.414-0.012-0.0120.0000.0000.0000.000
158A64HOH0-0.017-0.01019.076-0.011-0.0110.0000.0000.0000.000
159A65HOH0-0.012-0.01313.897-0.009-0.0090.0000.0000.0000.000
160A66HOH0-0.027-0.0266.7390.0010.0010.0000.0000.0000.000
161A67HOH0-0.043-0.02814.404-0.001-0.0010.0000.0000.0000.000
162A69HOH0-0.046-0.03420.806-0.008-0.0080.0000.0000.0000.000
163A70HOH0-0.015-0.01210.980-0.039-0.0390.0000.0000.0000.000
164A71HOH0-0.017-0.0175.6430.3470.3470.0000.0000.0000.000
165A72HOH0-0.041-0.0426.7380.1020.1020.0000.0000.0000.000
166A73HOH0-0.007-0.01225.751-0.002-0.0020.0000.0000.0000.000
167A76HOH00.001-0.0013.7950.1480.3590.004-0.093-0.1230.000
168A77HOH0-0.049-0.03820.730-0.007-0.0070.0000.0000.0000.000
169A79HOH00.0260.02124.879-0.006-0.0060.0000.0000.0000.000
170A81HOH00.0250.01428.4130.0000.0000.0000.0000.0000.000
171A82HOH00.0350.02129.9720.0020.0020.0000.0000.0000.000
172A83HOH00.002-0.01519.1680.0000.0000.0000.0000.0000.000
173A85HOH00.002-0.0216.434-0.015-0.0150.0000.0000.0000.000
174A86HOH0-0.038-0.02222.2210.0010.0010.0000.0000.0000.000
175A87HOH0-0.020-0.01131.616-0.003-0.0030.0000.0000.0000.000
176A90HOH0-0.031-0.0167.726-0.002-0.0020.0000.0000.0000.000