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: P9872

Calculation Name: 1G2R-A-Xray17

Preferred Name:

Target Type:

Ligand Name: sulfate ion

ligand 3-letter code: SO4

PDB ID: 1G2R

Chain ID: A

ChEMBL ID:

UniProt ID: A0A0H2

Base Structure: X-ray

Registration Date: 2018-06-01

Reference:

DOI:


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 184
LigandResidueName
LigandFragmentNumber 0
LigandCharge SO4=-2
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -934030.652053
FMO2-HF: Nuclear repulsion 887820.551543
FMO2-HF: Total energy -46210.10051
FMO2-MP2: Total energy -46341.467425


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:3:ACE)


Summations of interaction energy for fragment #1(A:3:ACE)
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.
3.8830.66.851-1.076-2.493-0.017
Interaction energy analysis for fragmet #1(A:3:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.058 / q_NPA : 0.006
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].
3A5LYS10.9991.0163.5810.9632.269-0.005-0.626-0.6750.000
4A6ILE00.0120.0145.6630.1650.1650.0000.0000.0000.000
5A7PRO00.0510.0337.9090.1650.1650.0000.0000.0000.000
6A8LEU0-0.031-0.00610.118-0.010-0.0100.0000.0000.0000.000
7A9ARG10.8400.87813.0720.1880.1880.0000.0000.0000.000
8A10LYS10.9210.97516.6500.0800.0800.0000.0000.0000.000
9A11SER0-0.001-0.02019.940-0.010-0.0100.0000.0000.0000.000
10A12VAL0-0.021-0.01322.3110.0050.0050.0000.0000.0000.000
11A13VAL0-0.0290.01025.4020.0040.0040.0000.0000.0000.000
12A14SER00.035-0.00323.7320.0020.0020.0000.0000.0000.000
13A15ASN0-0.056-0.00224.385-0.001-0.0010.0000.0000.0000.000
14A16GLU-1-0.838-0.90721.0620.0160.0160.0000.0000.0000.000
15A17VAL0-0.007-0.01015.278-0.013-0.0130.0000.0000.0000.000
16A18ILE00.0200.03216.0880.0200.0200.0000.0000.0000.000
17A19ASP-1-0.844-0.89213.1490.0690.0690.0000.0000.0000.000
18A20LYS10.9570.9717.7070.2780.2780.0000.0000.0000.000
19A21ARG10.7450.84611.623-0.095-0.0950.0000.0000.0000.000
20A22ASP-1-0.735-0.84413.3770.0300.0300.0000.0000.0000.000
21A23LEU0-0.069-0.00714.437-0.004-0.0040.0000.0000.0000.000
22A24LEU00.0220.02316.703-0.007-0.0070.0000.0000.0000.000
23A25ARG10.7620.85219.6370.1590.1590.0000.0000.0000.000
24A26ILE0-0.0080.00621.3730.0050.0050.0000.0000.0000.000
25A27VAL0-0.016-0.01124.251-0.006-0.0060.0000.0000.0000.000
26A28LYS10.9420.99026.6780.0670.0670.0000.0000.0000.000
27A29ASN0-0.017-0.01029.816-0.004-0.0040.0000.0000.0000.000
28A30LYN00.015-0.01430.7990.0050.0050.0000.0000.0000.000
29A31GLU-1-0.925-0.95134.535-0.063-0.0630.0000.0000.0000.000
30A32GLY0-0.032-0.00535.3460.0040.0040.0000.0000.0000.000
31A33GLN00.0220.01333.710-0.001-0.0010.0000.0000.0000.000
32A34VAL00.0150.00130.100-0.006-0.0060.0000.0000.0000.000
33A35PHE0-0.047-0.02526.3370.0040.0040.0000.0000.0000.000
34A36ILE00.0730.04324.312-0.006-0.0060.0000.0000.0000.000
35A37ASP-1-0.782-0.89821.990-0.145-0.1450.0000.0000.0000.000
36A38PRO00.0220.00620.653-0.015-0.0150.0000.0000.0000.000
37A39THR0-0.0100.01618.238-0.018-0.0180.0000.0000.0000.000
38A40GLY00.0570.02917.231-0.040-0.0400.0000.0000.0000.000
39A41LYS10.8840.95017.5480.2230.2230.0000.0000.0000.000
40A42ALA00.0120.03320.0950.0040.0040.0000.0000.0000.000
41A43ASN0-0.008-0.00623.107-0.021-0.0210.0000.0000.0000.000
42A44GLY00.0410.02125.8010.0100.0100.0000.0000.0000.000
43A45ARG10.9270.98526.0700.0680.0680.0000.0000.0000.000
44A46GLY00.0180.00923.2190.0050.0050.0000.0000.0000.000
45A47ALA00.0080.01524.0540.0030.0030.0000.0000.0000.000
46A48TYR0-0.043-0.05318.327-0.006-0.0060.0000.0000.0000.000
47A49ILE00.0110.00821.6130.0090.0090.0000.0000.0000.000
48A50LYS10.8670.92419.528-0.021-0.0210.0000.0000.0000.000
49A51LEU0-0.082-0.02319.8010.0000.0000.0000.0000.0000.000
50A52ASP-1-0.769-0.86921.4880.0230.0230.0000.0000.0000.000
51A53ASN00.0540.00424.076-0.010-0.0100.0000.0000.0000.000
52A54ALA00.0540.04927.360-0.003-0.0030.0000.0000.0000.000
53A55GLU-1-0.689-0.81223.763-0.023-0.0230.0000.0000.0000.000
54A56ALA00.0290.01827.104-0.005-0.0050.0000.0000.0000.000
55A57LEU00.0140.00028.580-0.002-0.0020.0000.0000.0000.000
56A58GLU-1-0.731-0.80129.912-0.011-0.0110.0000.0000.0000.000
57A59ALA0-0.018-0.01428.798-0.002-0.0020.0000.0000.0000.000
58A60LYS10.8730.92630.8450.0140.0140.0000.0000.0000.000
59A61LYS10.7850.89834.1940.0030.0030.0000.0000.0000.000
60A62LYS10.9040.96533.2450.0110.0110.0000.0000.0000.000
61A63LYS10.9320.96934.8140.0190.0190.0000.0000.0000.000
62A64VAL00.0240.02029.011-0.002-0.0020.0000.0000.0000.000
63A65PHE00.056-0.00326.458-0.003-0.0030.0000.0000.0000.000
64A66ASN0-0.0060.00131.333-0.005-0.0050.0000.0000.0000.000
65A67ARG10.8560.92432.8790.0250.0250.0000.0000.0000.000
66A68SER00.0030.01428.936-0.002-0.0020.0000.0000.0000.000
67A69PHE0-0.017-0.02527.478-0.004-0.0040.0000.0000.0000.000
68A70SER0-0.057-0.01532.5770.0000.0000.0000.0000.0000.000
69A71MET0-0.025-0.00435.148-0.001-0.0010.0000.0000.0000.000
70A72GLU-1-0.885-0.92037.037-0.026-0.0260.0000.0000.0000.000
71A73VAL0-0.025-0.00733.314-0.001-0.0010.0000.0000.0000.000
72A74GLU-1-0.833-0.91136.516-0.027-0.0270.0000.0000.0000.000
73A75GLU-1-0.945-0.98636.672-0.019-0.0190.0000.0000.0000.000
74A76SER00.016-0.00337.1050.0000.0000.0000.0000.0000.000
75A77PHE00.0180.02228.570-0.001-0.0010.0000.0000.0000.000
76A78TYR00.000-0.01432.019-0.001-0.0010.0000.0000.0000.000
77A79ASP-1-0.752-0.85032.883-0.017-0.0170.0000.0000.0000.000
78A80GLU-1-0.803-0.88630.912-0.044-0.0440.0000.0000.0000.000
79A81LEU0-0.057-0.01826.1220.0000.0000.0000.0000.0000.000
80A82ILE0-0.009-0.00228.7380.0020.0020.0000.0000.0000.000
81A83ALA00.0380.03830.2850.0030.0030.0000.0000.0000.000
82A84TYR00.007-0.00322.0220.0010.0010.0000.0000.0000.000
83A85VAL00.029-0.00524.6740.0010.0010.0000.0000.0000.000
84A86ASP-1-0.796-0.86026.1570.0070.0070.0000.0000.0000.000
85A87HIS0-0.053-0.02027.0850.0080.0080.0000.0000.0000.000
86A88LYS10.8310.89720.7700.0430.0430.0000.0000.0000.000
87A89VAL00.004-0.00123.2590.0060.0060.0000.0000.0000.000
88A90LYS10.9901.01324.514-0.004-0.0040.0000.0000.0000.000
89A91ARG10.8210.87323.1650.0070.0070.0000.0000.0000.000
90A92ARG10.8660.93116.1980.0040.0040.0000.0000.0000.000
91A93GLU-1-0.916-0.94721.9940.0630.0630.0000.0000.0000.000
92A94LEU0-0.107-0.04624.3290.0050.0050.0000.0000.0000.000
93A95GLY0-0.0100.00221.5730.0030.0030.0000.0000.0000.000
94A96LEU0-0.087-0.05321.9720.0010.0010.0000.0000.0000.000
95A97GLU-2-1.644-1.76117.9050.0190.0190.0000.0000.0000.000
96A101SO4-2-1.805-1.89037.393-0.005-0.0050.0000.0000.0000.000
97A102SO4-2-1.671-1.76618.717-0.251-0.2510.0000.0000.0000.000
98A103SO4-2-1.638-1.72919.450-0.339-0.3390.0000.0000.0000.000
99A201HOH00.0060.00530.9290.0010.0010.0000.0000.0000.000
100A202HOH0-0.021-0.01931.222-0.002-0.0020.0000.0000.0000.000
101A203HOH00.0390.02014.122-0.019-0.0190.0000.0000.0000.000
102A204HOH0-0.016-0.01829.1980.0000.0000.0000.0000.0000.000
103A205HOH00.0150.00217.478-0.008-0.0080.0000.0000.0000.000
104A206HOH0-0.039-0.03311.699-0.004-0.0040.0000.0000.0000.000
105A207HOH0-0.013-0.01223.9960.0020.0020.0000.0000.0000.000
106A208HOH0-0.058-0.05116.6340.0100.0100.0000.0000.0000.000
107A209HOH0-0.047-0.03930.7480.0010.0010.0000.0000.0000.000
108A210HOH0-0.048-0.0327.3680.0100.0100.0000.0000.0000.000
109A211HOH0-0.017-0.0178.814-0.035-0.0350.0000.0000.0000.000
110A212HOH0-0.021-0.01928.4480.0020.0020.0000.0000.0000.000
111A213HOH00.0060.00612.310-0.012-0.0120.0000.0000.0000.000
112A214HOH0-0.012-0.01234.6930.0010.0010.0000.0000.0000.000
113A215HOH00.0220.00818.3790.0070.0070.0000.0000.0000.000
114A216HOH00.0450.03828.531-0.002-0.0020.0000.0000.0000.000
115A219HOH0-0.0030.00118.140-0.012-0.0120.0000.0000.0000.000
116A220HOH0-0.012-0.00514.2310.0190.0190.0000.0000.0000.000
117A221HOH0-0.034-0.02930.7370.0000.0000.0000.0000.0000.000
118A222HOH0-0.009-0.03222.4160.0000.0000.0000.0000.0000.000
119A223HOH0-0.037-0.02617.9240.0030.0030.0000.0000.0000.000
120A225HOH0-0.027-0.02538.3990.0000.0000.0000.0000.0000.000
121A227HOH0-0.030-0.02236.3230.0000.0000.0000.0000.0000.000
122A228HOH00.0110.00623.553-0.002-0.0020.0000.0000.0000.000
123A229HOH00.0090.02230.0330.0000.0000.0000.0000.0000.000
124A230HOH0-0.015-0.01333.6190.0000.0000.0000.0000.0000.000
125A231HOH00.0390.01910.728-0.022-0.0220.0000.0000.0000.000
126A232HOH0-0.025-0.02120.9420.0030.0030.0000.0000.0000.000
127A233HOH0-0.019-0.01337.5310.0010.0010.0000.0000.0000.000
128A234HOH0-0.035-0.02416.1060.0010.0010.0000.0000.0000.000
129A235HOH0-0.035-0.05133.1370.0000.0000.0000.0000.0000.000
130A237HOH0-0.037-0.03418.6470.0000.0000.0000.0000.0000.000
131A238HOH00.0460.02823.4640.0040.0040.0000.0000.0000.000
132A239HOH0-0.053-0.04422.1950.0040.0040.0000.0000.0000.000
133A240HOH0-0.034-0.03023.7110.0030.0030.0000.0000.0000.000
134A241HOH00.0180.00919.6250.0040.0040.0000.0000.0000.000
135A244HOH00.0170.00629.644-0.003-0.0030.0000.0000.0000.000
136A245HOH0-0.040-0.03120.157-0.006-0.0060.0000.0000.0000.000
137A246HOH0-0.015-0.01525.9160.0020.0020.0000.0000.0000.000
138A247HOH0-0.044-0.02734.1740.0000.0000.0000.0000.0000.000
139A248HOH0-0.015-0.01026.5960.0000.0000.0000.0000.0000.000
140A249HOH0-0.055-0.03936.1600.0010.0010.0000.0000.0000.000
141A250HOH00.0020.00340.9390.0000.0000.0000.0000.0000.000
142A252HOH0-0.063-0.04817.147-0.008-0.0080.0000.0000.0000.000
143A255HOH0-0.011-0.01123.0070.0020.0020.0000.0000.0000.000
144A256HOH0-0.027-0.03024.709-0.002-0.0020.0000.0000.0000.000
145A257HOH0-0.056-0.04724.9320.0000.0000.0000.0000.0000.000
146A258HOH0-0.128-0.14131.9740.0000.0000.0000.0000.0000.000
147A260HOH0-0.066-0.06124.8630.0020.0020.0000.0000.0000.000
148A261HOH0-0.058-0.03728.015-0.001-0.0010.0000.0000.0000.000
149A262HOH0-0.018-0.02720.4670.0050.0050.0000.0000.0000.000
150A263HOH0-0.031-0.03241.2730.0000.0000.0000.0000.0000.000
151A264HOH0-0.042-0.02628.8220.0010.0010.0000.0000.0000.000
152A266HOH00.0450.02740.749-0.001-0.0010.0000.0000.0000.000
153A267HOH00.0070.00529.4090.0000.0000.0000.0000.0000.000
154A269HOH00.0190.01526.886-0.004-0.0040.0000.0000.0000.000
155A270HOH00.0030.0057.441-0.014-0.0140.0000.0000.0000.000
156A271HOH0-0.057-0.04531.3110.0000.0000.0000.0000.0000.000
157A272HOH0-0.012-0.01412.964-0.024-0.0240.0000.0000.0000.000
158A275HOH00.0290.02241.4760.0000.0000.0000.0000.0000.000
159A278HOH0-0.039-0.02632.0520.0000.0000.0000.0000.0000.000
160A279HOH0-0.010-0.0104.448-0.300-0.297-0.001-0.0020.0000.000
161A280HOH0-0.025-0.00733.226-0.001-0.0010.0000.0000.0000.000
162A281HOH0-0.012-0.01527.533-0.001-0.0010.0000.0000.0000.000
163A282HOH0-0.052-0.03526.8380.0000.0000.0000.0000.0000.000
164A283HOH0-0.045-0.03716.7980.0060.0060.0000.0000.0000.000
165A284HOH0-0.042-0.02839.0190.0000.0000.0000.0000.0000.000
166A285HOH0-0.020-0.01839.053-0.001-0.0010.0000.0000.0000.000
167A289HOH0-0.021-0.02521.631-0.003-0.0030.0000.0000.0000.000
168A292HOH00.0280.01725.7820.0020.0020.0000.0000.0000.000
169A294HOH00.0190.0212.2161.869-2.4286.109-0.728-1.084-0.009
170A295HOH00.0400.03936.4780.0000.0000.0000.0000.0000.000
171A298HOH0-0.041-0.02722.320-0.002-0.0020.0000.0000.0000.000
172A299HOH0-0.0030.0042.8260.9140.6190.7480.280-0.734-0.008
173A300HOH0-0.063-0.04016.176-0.002-0.0020.0000.0000.0000.000
174A302HOH0-0.029-0.01335.7420.0010.0010.0000.0000.0000.000
175A304HOH0-0.042-0.02138.0430.0000.0000.0000.0000.0000.000
176A306HOH00.0030.00840.9770.0000.0000.0000.0000.0000.000
177A308HOH00.0190.00732.880-0.001-0.0010.0000.0000.0000.000
178A313HOH00.0250.02228.7340.0000.0000.0000.0000.0000.000
179A314HOH0-0.051-0.03912.436-0.002-0.0020.0000.0000.0000.000
180A316HOH0-0.032-0.02214.896-0.021-0.0210.0000.0000.0000.000
181A317HOH0-0.038-0.02014.985-0.001-0.0010.0000.0000.0000.000
182A324HOH0-0.023-0.01437.853-0.001-0.0010.0000.0000.0000.000
183A325HOH0-0.021-0.02023.744-0.001-0.0010.0000.0000.0000.000
184A327HOH00.0370.02418.3840.0010.0010.0000.0000.0000.000