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: 1NZLZ

Calculation Name: 4N7R-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4N7R

Chain ID: A

ChEMBL ID:

UniProt ID: Q9LU39

Base Structure: X-ray

Registration Date: 2023-09-24

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 405
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -6374508.30826
FMO2-HF: Nuclear repulsion 6215180.20979
FMO2-HF: Total energy -159328.098471
FMO2-MP2: Total energy -159782.863565


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:94:ARG)


Summations of interaction energy for fragment #1(A:94:ARG)
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.
-14.905-11.6770.009-1.689-1.5460
Interaction energy analysis for fragmet #1(A:94:ARG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 1.004 / q_NPA : 0.995
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].
3A96SER0-0.039-0.0183.447-2.357-0.206-0.006-1.159-0.9860.004
4A97ILE00.0300.0225.8281.6381.6380.0000.0000.0000.000
5A98VAL0-0.039-0.0228.883-0.030-0.0300.0000.0000.0000.000
6A99VAL00.0030.02111.8260.5910.5910.0000.0000.0000.000
7A100ILE0-0.001-0.01014.995-0.069-0.0690.0000.0000.0000.000
8A101GLY00.0290.00818.0680.2970.2970.0000.0000.0000.000
9A102LEU0-0.0240.00521.6700.0600.0600.0000.0000.0000.000
10A103SER00.0410.00825.1150.1640.1640.0000.0000.0000.000
11A104ILE00.0250.00926.9170.0850.0850.0000.0000.0000.000
12A105HIS10.8230.88726.71810.27910.2790.0000.0000.0000.000
13A106THR00.0200.02425.3130.2010.2010.0000.0000.0000.000
14A107ALA00.0000.00228.618-0.027-0.0270.0000.0000.0000.000
15A108PRO00.0410.04330.5640.0350.0350.0000.0000.0000.000
16A109VAL00.0840.02733.168-0.263-0.2630.0000.0000.0000.000
17A110GLU-1-0.799-0.88134.829-7.966-7.9660.0000.0000.0000.000
18A111MET0-0.125-0.03728.806-0.070-0.0700.0000.0000.0000.000
19A112ARG10.7870.84329.0548.9698.9690.0000.0000.0000.000
20A113GLU-1-0.781-0.88230.617-8.253-8.2530.0000.0000.0000.000
21A114LYS10.9370.97932.0638.8238.8230.0000.0000.0000.000
22A115LEU0-0.035-0.02325.237-0.190-0.1900.0000.0000.0000.000
23A116ALA0-0.0140.01327.740-0.360-0.3600.0000.0000.0000.000
24A117ILE00.0210.00425.082-0.016-0.0160.0000.0000.0000.000
25A118PRO00.0610.03828.602-0.172-0.1720.0000.0000.0000.000
26A119GLU-1-0.841-0.93128.987-9.428-9.4280.0000.0000.0000.000
27A120ALA0-0.013-0.00729.187-0.255-0.2550.0000.0000.0000.000
28A121GLU-1-0.851-0.91029.454-9.645-9.6450.0000.0000.0000.000
29A122TRP0-0.041-0.03124.749-0.432-0.4320.0000.0000.0000.000
30A123PRO00.0260.00024.352-0.510-0.5100.0000.0000.0000.000
31A124ARG10.8230.90124.21610.24610.2460.0000.0000.0000.000
32A125ALA00.0370.01523.639-0.307-0.3070.0000.0000.0000.000
33A126ILE0-0.035-0.01319.019-0.564-0.5640.0000.0000.0000.000
34A127ALA00.001-0.00119.521-0.710-0.7100.0000.0000.0000.000
35A128GLU-1-0.799-0.87920.279-12.245-12.2450.0000.0000.0000.000
36A129LEU0-0.031-0.01117.613-0.561-0.5610.0000.0000.0000.000
37A130CYS0-0.051-0.01515.010-0.669-0.6690.0000.0000.0000.000
38A131GLY0-0.0080.01915.978-0.542-0.5420.0000.0000.0000.000
39A132LEU0-0.082-0.03215.7920.0600.0600.0000.0000.0000.000
40A133ASN0-0.033-0.02613.858-0.378-0.3780.0000.0000.0000.000
41A134HIS0-0.082-0.0659.135-3.090-3.0900.0000.0000.0000.000
42A135ILE0-0.072-0.0229.985-2.089-2.0890.0000.0000.0000.000
43A136GLU-1-0.863-0.9268.239-25.610-25.6100.0000.0000.0000.000
44A137GLU-1-0.836-0.92210.918-19.637-19.6370.0000.0000.0000.000
45A138ALA00.0170.00113.557-0.402-0.4020.0000.0000.0000.000
46A139ALA0-0.008-0.00616.3110.5960.5960.0000.0000.0000.000
47A140VAL00.0000.00018.773-0.334-0.3340.0000.0000.0000.000
48A141LEU0-0.0050.01321.5930.4390.4390.0000.0000.0000.000
49A142SER00.0250.01623.210-0.076-0.0760.0000.0000.0000.000
50A143THR0-0.029-0.01426.6140.3860.3860.0000.0000.0000.000
51A144CYS00.0550.02629.296-0.104-0.1040.0000.0000.0000.000
52A145ASN00.0100.00629.4580.2750.2750.0000.0000.0000.000
53A146ARG10.7540.85323.28110.89310.8930.0000.0000.0000.000
54A147MET00.0290.04524.533-0.003-0.0030.0000.0000.0000.000
55A148GLU-1-0.774-0.87220.115-12.854-12.8540.0000.0000.0000.000
56A149ILE00.0190.00817.5450.1520.1520.0000.0000.0000.000
57A150TYR0-0.025-0.03814.898-0.577-0.5770.0000.0000.0000.000
58A151VAL00.016-0.00412.2860.3120.3120.0000.0000.0000.000
59A152LEU0-0.0360.0006.523-1.167-1.1670.0000.0000.0000.000
60A153ALA00.0410.0058.3860.9410.9410.0000.0000.0000.000
61A154LEU00.0090.0095.226-4.120-4.1200.0000.0000.0000.000
62A155SER0-0.042-0.0195.072-4.309-4.279-0.001-0.003-0.0260.000
63A156GLN00.0710.0337.7001.1541.1540.0000.0000.0000.000
64A157HIS00.0370.0119.5941.7741.7740.0000.0000.0000.000
65A158ARG10.9440.97110.17327.22427.2240.0000.0000.0000.000
66A159GLY00.0800.05111.3841.2671.2670.0000.0000.0000.000
67A160VAL00.0200.01012.5571.5371.5370.0000.0000.0000.000
68A161LYS10.7820.89015.28317.19217.1920.0000.0000.0000.000
69A162GLU-1-0.770-0.86714.185-19.512-19.5120.0000.0000.0000.000
70A163VAL00.0660.02515.6971.0111.0110.0000.0000.0000.000
71A164THR0-0.027-0.03018.2270.9980.9980.0000.0000.0000.000
72A165GLU-1-0.825-0.89920.467-14.182-14.1820.0000.0000.0000.000
73A166TRP0-0.021-0.01820.8960.5660.5660.0000.0000.0000.000
74A167MET00.0210.01621.9620.3830.3830.0000.0000.0000.000
75A168SER0-0.070-0.03524.3230.5480.5480.0000.0000.0000.000
76A169LYS10.8560.92324.79412.29312.2930.0000.0000.0000.000
77A170THR0-0.063-0.04525.7180.4000.4000.0000.0000.0000.000
78A171SER0-0.009-0.00628.1250.3700.3700.0000.0000.0000.000
79A172GLY00.0120.00829.9970.3920.3920.0000.0000.0000.000
80A173ILE0-0.085-0.03229.3840.2190.2190.0000.0000.0000.000
81A174PRO00.0700.05729.194-0.456-0.4560.0000.0000.0000.000
82A175VAL00.0770.01923.937-0.116-0.1160.0000.0000.0000.000
83A176SER00.0150.01026.010-0.306-0.3060.0000.0000.0000.000
84A177GLU-1-0.857-0.93128.067-9.464-9.4640.0000.0000.0000.000
85A178ILE00.0190.00123.956-0.075-0.0750.0000.0000.0000.000
86A179CYS0-0.099-0.06623.500-0.492-0.4920.0000.0000.0000.000
87A180GLN0-0.032-0.00824.7380.0020.0020.0000.0000.0000.000
88A181HIS10.8450.91527.14010.11110.1110.0000.0000.0000.000
89A182ARG10.9030.96519.55314.63214.6320.0000.0000.0000.000
90A183PHE0-0.0320.00019.416-0.031-0.0310.0000.0000.0000.000
91A184LEU0-0.007-0.02715.697-0.346-0.3460.0000.0000.0000.000
92A185LEU00.0180.02615.0920.0940.0940.0000.0000.0000.000
93A186TYR00.026-0.0049.670-0.506-0.5060.0000.0000.0000.000
94A187ASN00.009-0.0265.9870.3290.3290.0000.0000.0000.000
95A188LYS11.0291.0249.30618.47418.4740.0000.0000.0000.000
96A189ASP-1-0.888-0.93411.763-16.368-16.3680.0000.0000.0000.000
97A190ALA0-0.021-0.01012.3681.0451.0450.0000.0000.0000.000
98A191THR0-0.050-0.03311.7261.0881.0880.0000.0000.0000.000
99A192GLN00.006-0.00614.6270.3950.3950.0000.0000.0000.000
100A193HIS0-0.006-0.01817.0640.7100.7100.0000.0000.0000.000
101A194ILE00.0080.00116.6730.7100.7100.0000.0000.0000.000
102A195PHE0-0.011-0.00416.4180.5980.5980.0000.0000.0000.000
103A196GLU-1-0.796-0.88220.532-11.237-11.2370.0000.0000.0000.000
104A197VAL0-0.057-0.03222.2320.6030.6030.0000.0000.0000.000
105A198SER0-0.079-0.05521.9710.4630.4630.0000.0000.0000.000
106A199ALA0-0.048-0.01924.5580.4010.4010.0000.0000.0000.000
107A200GLY0-0.041-0.00826.4540.3490.3490.0000.0000.0000.000
108A201LEU00.022-0.00325.9480.3250.3250.0000.0000.0000.000
109A202ASP-1-0.813-0.85425.703-10.333-10.3330.0000.0000.0000.000
110A203SER0-0.080-0.02827.8480.1730.1730.0000.0000.0000.000
111A204LEU00.005-0.00231.486-0.099-0.0990.0000.0000.0000.000
112A205VAL00.0310.01631.290-0.231-0.2310.0000.0000.0000.000
113A206LEU0-0.013-0.02030.1240.2250.2250.0000.0000.0000.000
114A207GLY00.0320.00633.6800.1580.1580.0000.0000.0000.000
115A208GLU-1-0.786-0.87034.694-7.971-7.9710.0000.0000.0000.000
116A209GLY00.0120.01032.713-0.022-0.0220.0000.0000.0000.000
117A210GLN0-0.016-0.01531.887-0.238-0.2380.0000.0000.0000.000
118A211ILE00.1400.08226.110-0.167-0.1670.0000.0000.0000.000
119A212LEU00.0440.03826.409-0.263-0.2630.0000.0000.0000.000
120A213ALA0-0.083-0.05727.545-0.166-0.1660.0000.0000.0000.000
121A214GLN0-0.019-0.00226.8200.1620.1620.0000.0000.0000.000
122A215VAL00.0610.02921.955-0.175-0.1750.0000.0000.0000.000
123A216LYS10.9000.94224.0758.8798.8790.0000.0000.0000.000
124A217GLN0-0.036-0.03526.209-0.140-0.1400.0000.0000.0000.000
125A218VAL0-0.0180.01021.329-0.057-0.0570.0000.0000.0000.000
126A219VAL0-0.002-0.00720.915-0.280-0.2800.0000.0000.0000.000
127A220LYS10.8850.94723.1109.3319.3310.0000.0000.0000.000
128A221VAL00.008-0.00125.9590.0690.0690.0000.0000.0000.000
129A222GLY00.0260.00822.122-0.095-0.0950.0000.0000.0000.000
130A223GLN0-0.092-0.04922.191-0.556-0.5560.0000.0000.0000.000
131A224GLY0-0.0150.00323.439-0.143-0.1430.0000.0000.0000.000
132A225VAL0-0.028-0.00921.326-0.184-0.1840.0000.0000.0000.000
133A226ASN00.004-0.00519.152-0.877-0.8770.0000.0000.0000.000
134A227GLY00.0990.03717.096-0.539-0.5390.0000.0000.0000.000
135A228PHE0-0.0090.01316.309-0.779-0.7790.0000.0000.0000.000
136A229GLY00.0350.01413.8390.2900.2900.0000.0000.0000.000
137A230ARG10.9500.96812.19417.96917.9690.0000.0000.0000.000
138A231ASN0-0.011-0.0278.0470.0120.0120.0000.0000.0000.000
139A232ILE00.0390.01411.3860.6980.6980.0000.0000.0000.000
140A233SER00.0070.01913.9671.1391.1390.0000.0000.0000.000
141A234GLY0-0.019-0.01714.7730.7840.7840.0000.0000.0000.000
142A235LEU00.0100.01912.9150.6220.6220.0000.0000.0000.000
143A236PHE00.030-0.00515.1080.8850.8850.0000.0000.0000.000
144A237LYS10.8620.93418.55913.61413.6140.0000.0000.0000.000
145A238HIS00.0120.00117.1260.1770.1770.0000.0000.0000.000
146A239ALA00.0400.02618.9610.4250.4250.0000.0000.0000.000
147A240ILE0-0.064-0.03420.5060.6820.6820.0000.0000.0000.000
148A241THR0-0.053-0.03722.0690.5900.5900.0000.0000.0000.000
149A242VAL00.0900.05520.6170.4250.4250.0000.0000.0000.000
150A243GLY00.0240.00923.6390.3530.3530.0000.0000.0000.000
151A244LYS10.8240.90726.25510.14010.1400.0000.0000.0000.000
152A245ARG10.7620.86824.30910.58510.5850.0000.0000.0000.000
153A246VAL00.0340.01426.3030.2800.2800.0000.0000.0000.000
154A247ARG10.7490.84928.9968.3918.3910.0000.0000.0000.000
155A248THR0-0.015-0.02131.6740.2050.2050.0000.0000.0000.000
156A249GLU-1-0.903-0.91929.492-9.097-9.0970.0000.0000.0000.000
157A250THR0-0.011-0.02531.285-0.148-0.1480.0000.0000.0000.000
158A251ASN0-0.0200.00133.6680.1670.1670.0000.0000.0000.000
159A252ILE00.0360.00830.8140.1750.1750.0000.0000.0000.000
160A253ALA0-0.020-0.01233.9750.0200.0200.0000.0000.0000.000
161A254SER0-0.071-0.01635.3390.1680.1680.0000.0000.0000.000
162A255GLY00.0410.02238.7490.1190.1190.0000.0000.0000.000
163A256ALA0-0.020-0.01135.139-0.115-0.1150.0000.0000.0000.000
164A257VAL00.0020.00536.9110.1050.1050.0000.0000.0000.000
165A258SER0-0.014-0.01735.800-0.227-0.2270.0000.0000.0000.000
166A259VAL00.0650.00734.7080.1500.1500.0000.0000.0000.000
167A260SER00.014-0.00537.5850.0660.0660.0000.0000.0000.000
168A261SER00.0380.02740.6750.0930.0930.0000.0000.0000.000
169A262ALA0-0.0220.00039.6240.1380.1380.0000.0000.0000.000
170A263ALA00.0490.02041.5740.1090.1090.0000.0000.0000.000
171A264VAL0-0.030-0.01243.1770.1360.1360.0000.0000.0000.000
172A265GLU-1-0.775-0.86944.583-6.240-6.2400.0000.0000.0000.000
173A266LEU00.0030.00743.3230.1030.1030.0000.0000.0000.000
174A267ALA00.003-0.00646.2580.1130.1130.0000.0000.0000.000
175A268LEU0-0.037-0.03448.9670.1250.1250.0000.0000.0000.000
176A269MET0-0.086-0.02945.9150.0610.0610.0000.0000.0000.000
177A270LYS10.8110.90347.1756.3946.3940.0000.0000.0000.000
178A271LEU0-0.0500.00651.7310.0990.0990.0000.0000.0000.000
179A272PRO00.0050.00254.8820.0020.0020.0000.0000.0000.000
180A273GLN0-0.011-0.00255.784-0.024-0.0240.0000.0000.0000.000
181A274SER00.004-0.01358.7110.1330.1330.0000.0000.0000.000
182A275SER0-0.022-0.00458.218-0.102-0.1020.0000.0000.0000.000
183A276ASN0-0.024-0.02555.5550.0690.0690.0000.0000.0000.000
184A277VAL00.0600.03556.511-0.074-0.0740.0000.0000.0000.000
185A278SER0-0.028-0.00658.9330.0040.0040.0000.0000.0000.000
186A279ALA0-0.0090.01456.2150.0300.0300.0000.0000.0000.000
187A280ARG10.8310.88857.2085.0485.0480.0000.0000.0000.000
188A281MET00.0410.02252.375-0.123-0.1230.0000.0000.0000.000
189A282CYS0-0.019-0.00252.2690.0390.0390.0000.0000.0000.000
190A283VAL0-0.020-0.00346.358-0.125-0.1250.0000.0000.0000.000
191A284ILE00.0460.02946.8510.0550.0550.0000.0000.0000.000
192A285GLY00.0480.02344.171-0.177-0.1770.0000.0000.0000.000
193A286ALA00.001-0.00944.842-0.024-0.0240.0000.0000.0000.000
194A287GLY0-0.033-0.01141.081-0.025-0.0250.0000.0000.0000.000
195A288LYS10.9290.94134.4068.2538.2530.0000.0000.0000.000
196A289MET00.0560.03736.1950.0230.0230.0000.0000.0000.000
197A290GLY00.1460.08639.7940.0780.0780.0000.0000.0000.000
198A291LYS10.7890.87742.7426.7606.7600.0000.0000.0000.000
199A292LEU0-0.059-0.03438.3760.0980.0980.0000.0000.0000.000
200A293VAL00.0160.00942.6870.0620.0620.0000.0000.0000.000
201A294ILE00.0370.02144.7610.1070.1070.0000.0000.0000.000
202A295LYS10.9460.97241.8956.8966.8960.0000.0000.0000.000
203A296HIS0-0.031-0.03944.6180.0250.0250.0000.0000.0000.000
204A297LEU00.0110.00446.7380.0810.0810.0000.0000.0000.000
205A298MET0-0.0230.00049.8550.1190.1190.0000.0000.0000.000
206A299ALA0-0.052-0.02148.1590.0850.0850.0000.0000.0000.000
207A300LYS10.7590.86847.7506.1926.1920.0000.0000.0000.000
208A301GLY0-0.0070.00651.8310.0730.0730.0000.0000.0000.000
209A302CYS0-0.0100.01653.3440.1000.1000.0000.0000.0000.000
210A303THR00.0400.01055.116-0.043-0.0430.0000.0000.0000.000
211A304LYS10.8490.91256.8315.0465.0460.0000.0000.0000.000
212A305VAL0-0.018-0.00651.145-0.060-0.0600.0000.0000.0000.000
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