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: NN7VQ

Calculation Name: 1I1Q-B-Xray372

Preferred Name: Anthranilate synthase component 1

Target Type: SINGLE PROTEIN

Ligand Name:

ligand 3-letter code:

PDB ID: 1I1Q

Chain ID: B

ChEMBL ID: CHEMBL1075109

UniProt ID: P00898

Base Structure: X-ray

Registration Date: 2023-09-23

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 192
LigandCharge CYM=-1
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2078867.364009
FMO2-HF: Nuclear repulsion 2005475.479451
FMO2-HF: Total energy -73391.884558
FMO2-MP2: Total energy -73603.713852


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(B:1:ALA)


Summations of interaction energy for fragment #1(B: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.
-23.221-19.26113.19-7.059-10.0930.018
Interaction energy analysis for fragmet #1(B:1:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.041 / q_NPA : 0.024
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].
3B3ILE00.008-0.0052.852-0.3601.3990.188-0.621-1.3260.001
4B4LEU0-0.024-0.0065.4430.1450.1450.0000.0000.0000.000
5B5LEU0-0.019-0.0199.1960.0840.0840.0000.0000.0000.000
6B6LEU00.009-0.00810.771-0.026-0.0260.0000.0000.0000.000
7B7ASP-1-0.765-0.86814.3030.0970.0970.0000.0000.0000.000
8B8ASN0-0.043-0.03816.729-0.046-0.0460.0000.0000.0000.000
9B9ILE0-0.042-0.02819.6880.0020.0020.0000.0000.0000.000
10B10ASP-1-0.742-0.88219.4230.1350.1350.0000.0000.0000.000
11B11SER0-0.109-0.05220.785-0.004-0.0040.0000.0000.0000.000
12B12PHE0-0.020-0.00918.7930.0100.0100.0000.0000.0000.000
13B13THR00.012-0.01714.7170.0470.0470.0000.0000.0000.000
14B14TRP00.026-0.01314.2250.0440.0440.0000.0000.0000.000
15B15ASN00.0180.03214.8450.0410.0410.0000.0000.0000.000
16B16LEU00.0030.00111.3650.0800.0800.0000.0000.0000.000
17B17ALA0-0.028-0.02110.3430.1490.1490.0000.0000.0000.000
18B18ASP-1-0.921-0.95710.5450.6020.6020.0000.0000.0000.000
19B19GLN00.0210.01011.3400.0950.0950.0000.0000.0000.000
20B20LEU0-0.020-0.0055.4450.2380.2380.0000.0000.0000.000
21B21ARG10.8930.9247.3830.3770.3770.0000.0000.0000.000
22B22THR0-0.0070.0139.122-0.032-0.0320.0000.0000.0000.000
23B23ASN0-0.109-0.0607.756-0.357-0.3570.0000.0000.0000.000
24B24GLY0-0.014-0.0026.4290.6550.6550.0000.0000.0000.000
25B25HIS10.7540.8562.026-23.124-24.1068.728-3.552-4.1940.035
26B26ASN0-0.012-0.0013.502-1.481-0.8560.002-0.167-0.4610.000
27B27VAL00.0090.0005.489-0.425-0.4250.0000.0000.0000.000
28B28VAL0-0.045-0.0187.9330.0140.0140.0000.0000.0000.000
29B29ILE00.0030.01111.0440.0070.0070.0000.0000.0000.000
30B30TYR0-0.012-0.00313.529-0.039-0.0390.0000.0000.0000.000
31B31ARG10.8870.93716.317-0.005-0.0050.0000.0000.0000.000
32B32ASN00.0150.00519.248-0.026-0.0260.0000.0000.0000.000
33B33HIS00.0650.02820.3260.0040.0040.0000.0000.0000.000
34B34ILE0-0.068-0.02719.035-0.007-0.0070.0000.0000.0000.000
35B35PRO00.0370.01121.7310.0000.0000.0000.0000.0000.000
36B36ALA00.1130.06119.1170.0070.0070.0000.0000.0000.000
37B37GLN0-0.022-0.00518.440-0.011-0.0110.0000.0000.0000.000
38B38THR00.0320.01019.250-0.016-0.0160.0000.0000.0000.000
39B39LEU00.0100.00914.993-0.032-0.0320.0000.0000.0000.000
40B40ILE00.0100.00414.543-0.068-0.0680.0000.0000.0000.000
41B41ASP-1-0.838-0.90415.106-0.286-0.2860.0000.0000.0000.000
42B42ARG10.9180.96612.4400.4340.4340.0000.0000.0000.000
43B43LEU00.028-0.0119.397-0.100-0.1000.0000.0000.0000.000
44B44ALA0-0.085-0.02710.875-0.126-0.1260.0000.0000.0000.000
45B45THR0-0.044-0.02712.5570.0290.0290.0000.0000.0000.000
46B46MET0-0.099-0.0437.0170.0200.0200.0000.0000.0000.000
47B47LYS10.9560.9766.1681.1021.1020.0000.0000.0000.000
48B48ASN0-0.092-0.0402.3040.2870.6871.425-0.898-0.9270.001
49B49PRO00.0240.0043.602-1.281-0.7660.017-0.306-0.226-0.002
50B50VAL00.0260.0182.856-0.2030.2670.216-0.158-0.528-0.001
51B51LEU0-0.0140.0035.577-0.022-0.0220.0000.0000.0000.000
52B52MET0-0.0040.0026.9590.1060.1060.0000.0000.0000.000
53B53LEU0-0.021-0.02910.114-0.044-0.0440.0000.0000.0000.000
54B54SER00.0240.01413.8420.0270.0270.0000.0000.0000.000
55B55PRO00.0530.03815.316-0.023-0.0230.0000.0000.0000.000
56B56GLY00.0280.01118.703-0.010-0.0100.0000.0000.0000.000
57B57PRO0-0.025-0.00121.8980.0020.0020.0000.0000.0000.000
58B58GLY00.0240.00825.288-0.006-0.0060.0000.0000.0000.000
59B59VAL00.0330.01326.4740.0070.0070.0000.0000.0000.000
60B60PRO00.0140.00522.540-0.006-0.0060.0000.0000.0000.000
61B61SER0-0.003-0.00823.968-0.008-0.0080.0000.0000.0000.000
62B62GLU-1-0.993-0.98726.5510.0020.0020.0000.0000.0000.000
63B63ALA00.0270.01822.0410.0040.0040.0000.0000.0000.000
64B64GLY00.011-0.00922.050-0.007-0.0070.0000.0000.0000.000
65B65CYS0-0.076-0.04119.8850.0000.0000.0000.0000.0000.000
66B66MET00.0250.02717.462-0.012-0.0120.0000.0000.0000.000
67B67PRO00.0460.03219.212-0.011-0.0110.0000.0000.0000.000
68B68GLU-1-0.862-0.93521.163-0.110-0.1100.0000.0000.0000.000
69B69LEU0-0.013-0.00714.497-0.019-0.0190.0000.0000.0000.000
70B70LEU00.0100.00315.536-0.022-0.0220.0000.0000.0000.000
71B71THR0-0.049-0.02317.780-0.004-0.0040.0000.0000.0000.000
72B72ARG10.8140.88919.0970.1390.1390.0000.0000.0000.000
73B73LEU0-0.050-0.01812.996-0.037-0.0370.0000.0000.0000.000
74B74ARG10.8920.96214.7850.0300.0300.0000.0000.0000.000
75B75GLY00.0320.01814.6560.0050.0050.0000.0000.0000.000
76B76LYS10.8740.94513.0510.3350.3350.0000.0000.0000.000
77B77LEU0-0.047-0.0268.271-0.069-0.0690.0000.0000.0000.000
78B78PRO00.0320.0286.3690.0560.0560.0000.0000.0000.000
79B79ILE0-0.015-0.0198.620-0.055-0.0550.0000.0000.0000.000
80B80ILE00.007-0.0057.3010.0620.0620.0000.0000.0000.000
81B81GLY00.0100.01111.176-0.016-0.0160.0000.0000.0000.000
82B82ILE0-0.024-0.02412.2340.0320.0320.0000.0000.0000.000
83B83CYM-1-0.825-0.90516.0140.1000.1000.0000.0000.0000.000
84B84LEU00.0400.02519.808-0.011-0.0110.0000.0000.0000.000
85B85GLY0-0.002-0.01516.722-0.018-0.0180.0000.0000.0000.000
86B86HIS0-0.065-0.04617.731-0.004-0.0040.0000.0000.0000.000
87B87GLN0-0.002-0.00718.687-0.019-0.0190.0000.0000.0000.000
88B88ALA00.0470.03618.987-0.010-0.0100.0000.0000.0000.000
89B89ILE0-0.048-0.02314.582-0.013-0.0130.0000.0000.0000.000
90B90VAL0-0.001-0.00319.060-0.008-0.0080.0000.0000.0000.000
91B91GLU-1-0.896-0.95322.4180.0080.0080.0000.0000.0000.000
92B92ALA0-0.041-0.00120.337-0.008-0.0080.0000.0000.0000.000
93B93TYR0-0.177-0.13217.616-0.009-0.0090.0000.0000.0000.000
94B94GLY0-0.030-0.01423.3070.0010.0010.0000.0000.0000.000
95B95GLY00.024-0.00526.7380.0040.0040.0000.0000.0000.000
96B96TYR0-0.039-0.01127.573-0.002-0.0020.0000.0000.0000.000
97B97VAL00.039-0.00526.3220.0080.0080.0000.0000.0000.000
98B98GLY00.0170.02729.167-0.005-0.0050.0000.0000.0000.000
99B99GLN00.0240.00330.6020.0070.0070.0000.0000.0000.000
100B100ALA0-0.0240.01432.2870.0010.0010.0000.0000.0000.000
101B101GLY00.0080.00833.693-0.005-0.0050.0000.0000.0000.000
102B102GLU-1-0.935-0.97134.7110.0740.0740.0000.0000.0000.000
103B103ILE0-0.085-0.03529.8160.0050.0050.0000.0000.0000.000
104B104LEU00.0060.00831.291-0.003-0.0030.0000.0000.0000.000
105B105HIS0-0.0120.00028.7820.0070.0070.0000.0000.0000.000
106B106GLY00.0250.02027.810-0.005-0.0050.0000.0000.0000.000
107B107LYS10.8590.90727.987-0.105-0.1050.0000.0000.0000.000
108B108ALA00.0120.01726.4980.0040.0040.0000.0000.0000.000
109B109THR0-0.026-0.00926.736-0.014-0.0140.0000.0000.0000.000
110B110SER0-0.018-0.01326.4180.0130.0130.0000.0000.0000.000
111B111ILE0-0.039-0.00221.530-0.013-0.0130.0000.0000.0000.000
112B112GLU-1-0.875-0.92725.7080.1090.1090.0000.0000.0000.000
113B113HIS0-0.023-0.01721.563-0.004-0.0040.0000.0000.0000.000
114B114ASP-1-0.782-0.89421.1040.1460.1460.0000.0000.0000.000
115B115GLY00.0040.01421.499-0.008-0.0080.0000.0000.0000.000
116B116GLN0-0.060-0.04219.659-0.007-0.0070.0000.0000.0000.000
117B117ALA0-0.018-0.02014.8860.0170.0170.0000.0000.0000.000
118B118MET00.0160.02112.630-0.001-0.0010.0000.0000.0000.000
119B119PHE00.0120.00014.1290.0430.0430.0000.0000.0000.000
120B120ALA0-0.0180.00917.047-0.020-0.0200.0000.0000.0000.000
121B121GLY0-0.015-0.01417.6960.0350.0350.0000.0000.0000.000
122B122LEU0-0.054-0.01716.6220.0070.0070.0000.0000.0000.000
123B123ALA00.0100.00220.772-0.021-0.0210.0000.0000.0000.000
124B124ASN00.0260.00624.0580.0090.0090.0000.0000.0000.000
125B125PRO00.0100.02725.4030.0030.0030.0000.0000.0000.000
126B126LEU00.0350.00619.4160.0050.0050.0000.0000.0000.000
127B127PRO0-0.008-0.00724.140-0.006-0.0060.0000.0000.0000.000
128B128VAL0-0.0090.00020.7630.0230.0230.0000.0000.0000.000
129B129ALA0-0.014-0.00821.792-0.023-0.0230.0000.0000.0000.000
130B130ARG10.9500.97222.640-0.105-0.1050.0000.0000.0000.000
131B131TYR00.016-0.01823.488-0.008-0.0080.0000.0000.0000.000
132B132HIS00.0630.03724.560-0.003-0.0030.0000.0000.0000.000
133B133SER0-0.001-0.01126.679-0.007-0.0070.0000.0000.0000.000
134B134LEU00.0240.00026.042-0.001-0.0010.0000.0000.0000.000
135B135VAL00.004-0.00529.3490.0050.0050.0000.0000.0000.000
136B136GLY00.0020.01227.487-0.006-0.0060.0000.0000.0000.000
137B137SER0-0.045-0.03527.5920.0070.0070.0000.0000.0000.000
138B138ASN0-0.045-0.02229.142-0.003-0.0030.0000.0000.0000.000
139B139VAL00.0530.02724.247-0.003-0.0030.0000.0000.0000.000
140B140PRO00.0130.02525.5640.0000.0000.0000.0000.0000.000
141B141ALA00.0140.01226.3930.0060.0060.0000.0000.0000.000
142B142GLY0-0.035-0.02523.769-0.005-0.0050.0000.0000.0000.000
143B143LEU0-0.030-0.01319.4240.0010.0010.0000.0000.0000.000
144B144THR00.0150.00820.7760.0000.0000.0000.0000.0000.000
145B145ILE00.0200.00521.2970.0110.0110.0000.0000.0000.000
146B146ASN0-0.017-0.00717.544-0.013-0.0130.0000.0000.0000.000
147B147ALA00.0310.00621.3830.0150.0150.0000.0000.0000.000
148B148HIS0-0.052-0.02923.297-0.011-0.0110.0000.0000.0000.000
149B149PHE00.0880.02826.3270.0080.0080.0000.0000.0000.000
150B150ASN00.0030.01728.726-0.009-0.0090.0000.0000.0000.000
151B151GLY00.020-0.00131.542-0.004-0.0040.0000.0000.0000.000
152B152MET0-0.086-0.02728.492-0.004-0.0040.0000.0000.0000.000
153B153VAL00.0390.01423.5610.0080.0080.0000.0000.0000.000
154B154MET0-0.046-0.02122.723-0.001-0.0010.0000.0000.0000.000
155B155ALA0-0.018-0.00318.5190.0210.0210.0000.0000.0000.000
156B156VAL00.0010.01118.710-0.018-0.0180.0000.0000.0000.000
157B157ARG10.8380.91316.030-0.107-0.1070.0000.0000.0000.000
158B158HIS00.0790.04116.064-0.012-0.0120.0000.0000.0000.000
159B159ASP-1-0.864-0.95415.6540.0880.0880.0000.0000.0000.000
160B160ALA0-0.046-0.04015.723-0.009-0.0090.0000.0000.0000.000
161B161ASP-1-0.751-0.84615.400-0.063-0.0630.0000.0000.0000.000
162B162ARG10.7570.92210.422-0.099-0.0990.0000.0000.0000.000
163B163VAL00.0290.01811.022-0.001-0.0010.0000.0000.0000.000
164B164CYS0-0.048-0.03012.3190.0310.0310.0000.0000.0000.000
165B165GLY00.0340.03213.8450.0060.0060.0000.0000.0000.000
166B166PHE0-0.008-0.00512.6490.0050.0050.0000.0000.0000.000
167B167GLN00.0320.01417.678-0.006-0.0060.0000.0000.0000.000
168B168PHE0-0.019-0.01417.560-0.010-0.0100.0000.0000.0000.000
169B169HIS00.007-0.01117.990-0.001-0.0010.0000.0000.0000.000
170B170PRO0-0.0250.01114.062-0.004-0.0040.0000.0000.0000.000
171B171GLU-1-0.775-0.91314.6220.3230.3230.0000.0000.0000.000
172B172SER0-0.0200.00716.197-0.022-0.0220.0000.0000.0000.000
173B173ILE00.0560.02019.9890.0160.0160.0000.0000.0000.000
174B174LEU0-0.051-0.03322.030-0.004-0.0040.0000.0000.0000.000
175B175THR0-0.050-0.02118.759-0.022-0.0220.0000.0000.0000.000
176B176THR00.0260.01419.5160.0300.0300.0000.0000.0000.000
177B177GLN0-0.005-0.01518.5460.0170.0170.0000.0000.0000.000
178B178GLY00.0320.02016.2520.0320.0320.0000.0000.0000.000
179B179ALA00.0600.03212.9050.0520.0520.0000.0000.0000.000
180B180ARG10.9380.97311.925-0.315-0.3150.0000.0000.0000.000
181B181LEU00.0230.02412.6020.0600.0600.0000.0000.0000.000
182B182LEU00.0450.0337.9210.0030.0030.0000.0000.0000.000
183B183GLU-1-0.755-0.8636.9192.9652.9650.0000.0000.0000.000
184B184GLN0-0.091-0.0528.0750.0620.0620.0000.0000.0000.000
185B185THR0-0.011-0.0369.596-0.135-0.1350.0000.0000.0000.000
186B186LEU00.0340.0173.391-0.525-0.1810.023-0.080-0.2870.000
187B187ALA0-0.0370.0035.441-0.175-0.1750.0000.0000.0000.000
188B188TRP0-0.004-0.0026.988-0.207-0.2070.0000.0000.0000.000
189B189ALA00.001-0.0116.579-0.125-0.1250.0000.0000.0000.000
190B190GLN0-0.044-0.0312.445-2.089-1.2602.591-1.277-2.144-0.016
191B191GLN0-0.0100.0156.506-0.088-0.0880.0000.0000.0000.000
192B192LYS10.9190.96010.058-0.036-0.0360.0000.0000.0000.000