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: K2913

Calculation Name: 1AOA-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1AOA

Chain ID: A

ChEMBL ID:

UniProt ID: P13797

Base Structure: X-ray

Registration Date: 2023-09-27

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 247
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3099974.593261
FMO2-HF: Nuclear repulsion 3002485.063432
FMO2-HF: Total energy -97489.529829
FMO2-MP2: Total energy -97773.544363


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:121:TYR)


Summations of interaction energy for fragment #1(A:121:TYR)
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.
-55.61-50.91936.572-16.787-24.474-0.055
Interaction energy analysis for fragmet #1(A:121:TYR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.062 / q_NPA : -0.067
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].
3A123GLU-1-0.768-0.8631.546-41.913-47.92525.233-11.390-7.832-0.086
4A124GLU-1-0.830-0.9103.425-3.988-3.9710.0160.239-0.2720.000
5A125GLU-1-0.825-0.8964.817-0.536-0.5360.0000.0000.0000.000
6A126LYS10.8320.9212.2158.36410.3551.512-1.035-2.4670.005
7A127TYR0-0.010-0.0104.9151.1781.268-0.001-0.009-0.0790.000
8A128ALA0-0.0010.0027.2400.6090.6090.0000.0000.0000.000
9A129PHE00.007-0.0177.5890.3220.3220.0000.0000.0000.000
10A130VAL0-0.0030.0187.9130.2910.2910.0000.0000.0000.000
11A131ASN0-0.006-0.01010.4000.3260.3260.0000.0000.0000.000
12A132TRP00.0410.04412.8840.1030.1030.0000.0000.0000.000
13A133ILE00.011-0.00911.7050.1170.1170.0000.0000.0000.000
14A134ASN0-0.0030.00313.6270.1610.1610.0000.0000.0000.000
15A135LYS10.8270.90316.2790.3830.3830.0000.0000.0000.000
16A136ALA00.0010.00118.1310.0490.0490.0000.0000.0000.000
17A137LEU00.007-0.01417.5560.0490.0490.0000.0000.0000.000
18A138GLU-1-0.853-0.88720.441-0.269-0.2690.0000.0000.0000.000
19A139ASN0-0.071-0.04621.5700.0210.0210.0000.0000.0000.000
20A140ASP-1-0.736-0.86822.558-0.001-0.0010.0000.0000.0000.000
21A141PRO0-0.089-0.06424.1350.0000.0000.0000.0000.0000.000
22A142ASP-1-0.864-0.90524.5160.0530.0530.0000.0000.0000.000
23A143CYS0-0.004-0.00719.5160.0370.0370.0000.0000.0000.000
24A144ARG10.9510.98420.1920.0540.0540.0000.0000.0000.000
25A145HIS0-0.095-0.03920.106-0.054-0.0540.0000.0000.0000.000
26A146VAL0-0.030-0.01915.2600.0270.0270.0000.0000.0000.000
27A147ILE0-0.0110.03115.640-0.043-0.0430.0000.0000.0000.000
28A148PRO0-0.059-0.04016.5600.0160.0160.0000.0000.0000.000
29A149MET00.0010.00711.4110.0800.0800.0000.0000.0000.000
30A150ASN00.020-0.00910.806-0.365-0.3650.0000.0000.0000.000
31A151PRO00.0430.0118.552-0.010-0.0100.0000.0000.0000.000
32A152ASN0-0.047-0.0386.992-0.980-0.9800.0000.0000.0000.000
33A153THR0-0.052-0.0136.335-0.256-0.2560.0000.0000.0000.000
34A154ASP-1-0.817-0.9194.5360.7711.051-0.001-0.016-0.2630.000
35A155ASP-1-0.835-0.9175.712-0.0280.035-0.0010.000-0.0610.000
36A156LEU00.0540.0386.5660.1330.1330.0000.0000.0000.000
37A157PHE0-0.022-0.0332.788-3.291-0.6362.109-1.091-3.6730.016
38A158LYS10.7990.8998.616-1.090-1.0900.0000.0000.0000.000
39A159ALA00.002-0.00111.563-0.067-0.0670.0000.0000.0000.000
40A160VAL00.0120.00711.352-0.070-0.0700.0000.0000.0000.000
41A161GLY0-0.0040.00413.937-0.029-0.0290.0000.0000.0000.000
42A162ASP-1-0.816-0.91315.6170.2510.2510.0000.0000.0000.000
43A163GLY0-0.002-0.01217.681-0.041-0.0410.0000.0000.0000.000
44A164ILE0-0.025-0.00418.996-0.032-0.0320.0000.0000.0000.000
45A165VAL00.0550.02514.831-0.029-0.0290.0000.0000.0000.000
46A166LEU00.0090.00313.114-0.037-0.0370.0000.0000.0000.000
47A167CYS0-0.028-0.01317.134-0.026-0.0260.0000.0000.0000.000
48A168LYS10.7920.85720.287-0.057-0.0570.0000.0000.0000.000
49A169MET0-0.011-0.00315.436-0.043-0.0430.0000.0000.0000.000
50A170ILE0-0.015-0.00118.404-0.021-0.0210.0000.0000.0000.000
51A171ASN00.0080.00520.525-0.003-0.0030.0000.0000.0000.000
52A172LEU0-0.034-0.01320.103-0.017-0.0170.0000.0000.0000.000
53A173SER0-0.061-0.04418.896-0.029-0.0290.0000.0000.0000.000
54A174VAL0-0.033-0.02121.988-0.004-0.0040.0000.0000.0000.000
55A175PRO00.0050.01524.8980.0230.0230.0000.0000.0000.000
56A176ASP-1-0.943-0.96627.5790.0150.0150.0000.0000.0000.000
57A177THR0-0.026-0.01123.9680.0170.0170.0000.0000.0000.000
58A178ILE0-0.075-0.04822.3040.0210.0210.0000.0000.0000.000
59A179ASP-1-0.772-0.87326.8030.0510.0510.0000.0000.0000.000
60A180GLU-1-0.706-0.85226.5060.0620.0620.0000.0000.0000.000
61A181ARG10.7820.88929.248-0.073-0.0730.0000.0000.0000.000
62A182ALA0-0.065-0.04028.6280.0060.0060.0000.0000.0000.000
63A183ILE0-0.0040.02223.9810.0230.0230.0000.0000.0000.000
64A184ASN0-0.051-0.03526.085-0.030-0.0300.0000.0000.0000.000
65A185LYS10.8840.93025.502-0.052-0.0520.0000.0000.0000.000
66A186LYS10.9270.96126.387-0.082-0.0820.0000.0000.0000.000
67A187LYS10.8860.92028.848-0.096-0.0960.0000.0000.0000.000
68A188LEU00.0760.05122.9090.0030.0030.0000.0000.0000.000
69A189THR00.0230.01825.3170.0190.0190.0000.0000.0000.000
70A190PRO00.0680.00523.5760.0060.0060.0000.0000.0000.000
71A191PHE00.0150.01624.1760.0210.0210.0000.0000.0000.000
72A192ILE00.0070.01226.1560.0050.0050.0000.0000.0000.000
73A193ILE00.0360.02620.2270.0010.0010.0000.0000.0000.000
74A194GLN0-0.019-0.01421.0480.0080.0080.0000.0000.0000.000
75A195GLU-1-0.929-0.94322.5460.2700.2700.0000.0000.0000.000
76A196ASN0-0.008-0.00821.821-0.026-0.0260.0000.0000.0000.000
77A197LEU0-0.044-0.03016.541-0.003-0.0030.0000.0000.0000.000
78A198ASN00.008-0.00419.4500.0490.0490.0000.0000.0000.000
79A199LEU00.0010.02221.683-0.008-0.0080.0000.0000.0000.000
80A200ALA00.0280.02418.198-0.023-0.0230.0000.0000.0000.000
81A201LEU0-0.019-0.01615.458-0.011-0.0110.0000.0000.0000.000
82A202ASN0-0.058-0.04619.019-0.013-0.0130.0000.0000.0000.000
83A203SER00.011-0.00522.108-0.025-0.0250.0000.0000.0000.000
84A204ALA00.0420.01217.570-0.024-0.0240.0000.0000.0000.000
85A205SER0-0.045-0.01319.718-0.015-0.0150.0000.0000.0000.000
86A206ALA0-0.030-0.01720.794-0.019-0.0190.0000.0000.0000.000
87A207ILE0-0.0070.01719.851-0.017-0.0170.0000.0000.0000.000
88A208GLY00.000-0.00121.483-0.028-0.0280.0000.0000.0000.000
89A209CYS0-0.088-0.02416.077-0.007-0.0070.0000.0000.0000.000
90A210HIS0-0.030-0.02915.7630.0040.0040.0000.0000.0000.000
91A211VAL00.018-0.00914.3120.0750.0750.0000.0000.0000.000
92A212VAL00.0160.00516.2030.0390.0390.0000.0000.0000.000
93A213ASN0-0.083-0.03713.747-0.040-0.0400.0000.0000.0000.000
94A214ILE0-0.033-0.01211.7920.1620.1620.0000.0000.0000.000
95A215GLY00.0710.04814.675-0.116-0.1160.0000.0000.0000.000
96A216ALA00.0410.00915.5590.0890.0890.0000.0000.0000.000
97A217GLU-1-0.805-0.90416.2420.6630.6630.0000.0000.0000.000
98A218ASP-1-0.801-0.88811.4291.3311.3310.0000.0000.0000.000
99A219LEU0-0.010-0.00111.3180.2250.2250.0000.0000.0000.000
100A220ARG10.8130.89813.042-0.571-0.5710.0000.0000.0000.000
101A221ALA0-0.063-0.02611.972-0.042-0.0420.0000.0000.0000.000
102A222GLY00.0210.0189.7210.1770.1770.0000.0000.0000.000
103A223LYS10.8370.8977.149-1.137-1.1370.0000.0000.0000.000
104A224PRO00.0300.0242.507-2.838-1.3653.272-1.137-3.6080.008
105A225HIS00.0470.0102.634-9.432-5.8332.411-1.735-4.2740.002
106A226LEU0-0.033-0.0074.256-0.885-0.8570.002-0.0320.0020.000
107A227VAL00.0350.0266.852-0.441-0.4410.0000.0000.0000.000
108A228LEU0-0.014-0.0052.308-1.448-0.9412.020-0.581-1.9470.000
109A229GLY00.0030.0086.235-0.356-0.3560.0000.0000.0000.000
110A230LEU0-0.008-0.0138.285-0.180-0.1800.0000.0000.0000.000
111A231LEU00.0250.0058.783-0.127-0.1270.0000.0000.0000.000
112A232TRP00.0170.0069.889-0.129-0.1290.0000.0000.0000.000
113A233GLN0-0.0070.00311.587-0.064-0.0640.0000.0000.0000.000
114A234ILE00.0630.03314.170-0.011-0.0110.0000.0000.0000.000
115A235ILE0-0.0220.01412.166-0.036-0.0360.0000.0000.0000.000
116A236LYS10.8260.92415.4650.1310.1310.0000.0000.0000.000
117A237ILE0-0.023-0.00717.163-0.006-0.0060.0000.0000.0000.000
118A238GLY00.0600.02119.4410.0060.0060.0000.0000.0000.000
119A239LEU0-0.071-0.01916.988-0.020-0.0200.0000.0000.0000.000
120A240PHE00.013-0.01319.837-0.001-0.0010.0000.0000.0000.000
121A241ALA00.0250.02822.9690.0120.0120.0000.0000.0000.000
122A242ASP-1-0.866-0.92625.071-0.157-0.1570.0000.0000.0000.000
123A243ILE0-0.065-0.03223.7350.0040.0040.0000.0000.0000.000
124A244GLU-1-0.879-0.93226.591-0.046-0.0460.0000.0000.0000.000
125A245LEU0-0.077-0.02029.0210.0080.0080.0000.0000.0000.000
126A246SER0-0.011-0.04730.613-0.004-0.0040.0000.0000.0000.000
127A247ARG10.8730.92830.9430.0710.0710.0000.0000.0000.000
128A248ASN0-0.0450.00234.7900.0020.0020.0000.0000.0000.000
129A249GLU-1-0.903-0.95338.335-0.072-0.0720.0000.0000.0000.000
130A250ALA0-0.064-0.01835.040-0.005-0.0050.0000.0000.0000.000
131A251LEU0-0.028-0.01435.1630.0020.0020.0000.0000.0000.000
132A260THR0-0.027-0.03141.5320.0010.0010.0000.0000.0000.000
133A261LEU00.0640.02739.4900.0000.0000.0000.0000.0000.000
134A262GLU-1-0.782-0.87838.286-0.029-0.0290.0000.0000.0000.000
135A263GLU-1-0.779-0.89637.492-0.068-0.0680.0000.0000.0000.000
136A264LEU0-0.054-0.01935.337-0.002-0.0020.0000.0000.0000.000
137A265MET0-0.015-0.00633.904-0.008-0.0080.0000.0000.0000.000
138A266LYS10.7040.85433.1280.0290.0290.0000.0000.0000.000
139A267LEU0-0.0380.00130.2390.0040.0040.0000.0000.0000.000
140A268SER0-0.004-0.03125.828-0.007-0.0070.0000.0000.0000.000
141A269PRO00.0730.02423.815-0.016-0.0160.0000.0000.0000.000
142A270GLU-1-0.789-0.91120.564-0.160-0.1600.0000.0000.0000.000
143A271GLU-1-0.876-0.90524.240-0.102-0.1020.0000.0000.0000.000
144A272LEU0-0.029-0.02327.482-0.010-0.0100.0000.0000.0000.000
145A273LEU00.0360.02922.795-0.006-0.0060.0000.0000.0000.000
146A274LEU0-0.011-0.00425.806-0.017-0.0170.0000.0000.0000.000
147A275ARG10.7870.88427.9980.1000.1000.0000.0000.0000.000
148A276TRP00.0690.02726.252-0.001-0.0010.0000.0000.0000.000
149A277ALA00.0170.01527.384-0.003-0.0030.0000.0000.0000.000
150A278ASN00.027-0.00829.530-0.012-0.0120.0000.0000.0000.000
151A279PHE00.0190.02832.1280.0060.0060.0000.0000.0000.000
152A280HIS0-0.001-0.00331.7780.0130.0130.0000.0000.0000.000
153A281LEU0-0.027-0.00629.485-0.003-0.0030.0000.0000.0000.000
154A282GLU-1-0.837-0.90433.409-0.146-0.1460.0000.0000.0000.000
155A283ASN0-0.106-0.05236.9460.0120.0120.0000.0000.0000.000
156A284SER0-0.032-0.02235.018-0.001-0.0010.0000.0000.0000.000
157A285GLY0-0.062-0.02537.481-0.003-0.0030.0000.0000.0000.000
158A286TRP0-0.012-0.00231.0480.0010.0010.0000.0000.0000.000
159A287GLN0-0.028-0.02733.4280.0010.0010.0000.0000.0000.000
160A288LYS10.8270.90532.3390.1430.1430.0000.0000.0000.000
161A289ILE0-0.028-0.01025.710-0.008-0.0080.0000.0000.0000.000
162A290ASN0-0.064-0.04227.1690.0350.0350.0000.0000.0000.000
163A291ASN0-0.032-0.02722.176-0.026-0.0260.0000.0000.0000.000
164A292PHE00.0710.03020.518-0.009-0.0090.0000.0000.0000.000
165A293SER00.0260.00318.007-0.044-0.0440.0000.0000.0000.000
166A294ALA0-0.034-0.02319.558-0.039-0.0390.0000.0000.0000.000
167A295ASP-1-0.764-0.88721.906-0.293-0.2930.0000.0000.0000.000
168A296ILE0-0.0210.00219.4160.0140.0140.0000.0000.0000.000
169A297LYS10.8340.93518.0480.6540.6540.0000.0000.0000.000
170A298ASP-1-0.749-0.86022.203-0.420-0.4200.0000.0000.0000.000
171A299SER0-0.012-0.01523.2680.0030.0030.0000.0000.0000.000
172A300LYS10.8510.93725.1980.3590.3590.0000.0000.0000.000
173A301ALA00.0360.02626.7120.0190.0190.0000.0000.0000.000
174A302TYR00.031-0.03219.5310.0450.0450.0000.0000.0000.000
175A303PHE0-0.008-0.00926.1500.0090.0090.0000.0000.0000.000
176A304HIS00.0100.00928.8370.0160.0160.0000.0000.0000.000
177A305LEU00.0080.01626.0520.0170.0170.0000.0000.0000.000
178A306LEU00.0140.00825.1960.0170.0170.0000.0000.0000.000
179A307ASN0-0.036-0.02529.1490.0150.0150.0000.0000.0000.000
180A308GLN0-0.050-0.03132.5490.0130.0130.0000.0000.0000.000
181A309ILE0-0.0090.00128.3200.0160.0160.0000.0000.0000.000
182A310ALA0-0.0180.01731.8380.0040.0040.0000.0000.0000.000
183A311PRO00.0780.05232.0670.0140.0140.0000.0000.0000.000
184A312LYS10.8250.88335.2260.2050.2050.0000.0000.0000.000
185A313GLY0-0.0250.00638.5840.0070.0070.0000.0000.0000.000
186A314GLN0-0.063-0.02740.4060.0050.0050.0000.0000.0000.000
187A315LYS10.9280.94235.8900.1340.1340.0000.0000.0000.000
188A316GLU-1-0.899-0.93438.759-0.112-0.1120.0000.0000.0000.000
189A317GLY00.010-0.00639.9480.0060.0060.0000.0000.0000.000
190A318GLU-1-0.927-0.94535.613-0.181-0.1810.0000.0000.0000.000
191A319PRO00.001-0.01736.3860.0030.0030.0000.0000.0000.000
192A320ARG10.8260.88636.5180.1710.1710.0000.0000.0000.000
193A321ILE0-0.0060.00131.599-0.005-0.0050.0000.0000.0000.000
194A322ASP-1-0.813-0.85534.810-0.200-0.2000.0000.0000.0000.000
195A323ILE0-0.012-0.01430.191-0.012-0.0120.0000.0000.0000.000
196A324ASN0-0.0040.00731.7750.0260.0260.0000.0000.0000.000
197A325MET00.0680.02831.546-0.027-0.0270.0000.0000.0000.000
198A326SER0-0.077-0.04133.508-0.002-0.0020.0000.0000.0000.000
199A327GLY00.0790.02229.658-0.014-0.0140.0000.0000.0000.000
200A328PHE0-0.0010.00229.806-0.018-0.0180.0000.0000.0000.000
201A329ASN0-0.035-0.04231.181-0.001-0.0010.0000.0000.0000.000
202A330GLU-1-0.838-0.92228.339-0.402-0.4020.0000.0000.0000.000
203A331THR0-0.075-0.01830.192-0.001-0.0010.0000.0000.0000.000
204A332ASP-1-0.890-0.94524.626-0.582-0.5820.0000.0000.0000.000
205A333ASP-1-0.799-0.90823.890-0.481-0.4810.0000.0000.0000.000
206A334LEU00.0090.00218.009-0.027-0.0270.0000.0000.0000.000
207A335LYS10.8470.92521.9380.4290.4290.0000.0000.0000.000
208A336ARG10.7270.85824.4950.4600.4600.0000.0000.0000.000
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