Contacts of the helix formed by residues 95 - 128 (chain B) in PDB entry 2GS4
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASN 95 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36B SER* 3.8 12.8 - - - -
93B GLU* 2.9 38.0 + - - +
94B LYS* 1.3 74.8 - - - +
96B GLU* 1.3 80.9 + - - +
97B VAL* 3.0 29.3 + - - +
98B ARG* 3.1 8.9 + - - +
99B ASP* 3.1 21.7 + - - +
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Residues in contact with GLU 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B SER* 4.4 7.5 + - - -
37B ASN* 5.9 0.7 + - - -
95B ASN* 1.3 88.1 - - + +
97B VAL* 1.3 61.2 + - + +
99B ASP* 3.7 12.7 - - - +
100B ALA* 3.0 28.6 + - - +
157B ASN* 4.5 18.2 - - - +
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Residues in contact with VAL 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B THR* 4.0 19.3 - - + -
93B GLU 5.8 0.4 - - - +
95B ASN* 3.0 22.3 + - - +
96B GLU* 1.3 77.5 - - + +
98B ARG* 1.3 64.6 + - - +
100B ALA* 3.8 5.0 - - - +
101B ALA* 3.1 23.9 + - + +
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Residues in contact with ARG 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B ALA* 3.0 35.7 + - - +
35B THR* 4.9 1.3 - - - +
88B VAL* 3.9 5.6 - - + +
89B ILE* 3.3 33.5 + - - +
92B THR* 2.9 49.1 + - - +
93B GLU* 3.4 13.2 + - - +
94B LYS* 3.5 28.3 - - - +
95B ASN* 3.1 11.4 + - - +
97B VAL* 1.3 81.1 - - - +
99B ASP* 1.3 52.3 + - - +
101B ALA* 3.2 2.3 + - - +
102B LEU* 2.7 58.0 + - + +
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Residues in contact with ASP 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B THR* 2.6 31.7 + - - -
36B SER* 3.2 15.9 + - - -
37B ASN* 3.2 25.5 + - - +
40B LEU* 3.9 12.3 - - + -
95B ASN 3.1 12.6 + - - +
96B GLU* 3.7 15.0 - - - +
98B ARG* 1.3 78.6 - - - +
100B ALA* 1.3 63.4 + - - +
102B LEU* 3.2 2.3 + - - +
103B ILE* 2.9 31.1 + - - +
157B ASN* 4.1 14.1 - - - +
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Residues in contact with ALA 100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B GLU 3.0 18.3 + - - +
97B VAL* 3.8 5.4 - - - +
99B ASP* 1.3 75.8 - - - +
101B ALA* 1.3 62.9 + - - +
103B ILE* 3.4 7.6 + - - +
104B ALA* 3.2 20.6 + - - +
154B ALA* 6.5 0.9 - - - -
157B ASN* 4.4 8.4 + - - +
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Residues in contact with ALA 101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B VAL* 3.4 34.4 - - + +
92B THR* 5.1 3.6 - - + -
97B VAL* 3.1 17.3 + - + +
98B ARG* 4.7 0.2 - - - -
100B ALA* 1.3 74.1 - - - +
102B LEU* 1.3 61.1 + - - +
104B ALA* 3.2 7.9 + - - +
105B ALA* 2.9 27.9 + - - +
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Residues in contact with LEU 102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31B LEU* 3.7 30.4 - - + +
34B ALA* 4.6 8.5 - - + -
35B THR* 4.5 13.5 - - - -
40B LEU* 4.8 0.4 - - + -
44B PHE* 4.3 22.4 - - + -
85B ALA* 3.7 26.4 - - + +
88B VAL* 3.8 11.7 - - + -
89B ILE* 4.1 5.6 - - + -
98B ARG* 2.7 51.0 + - + +
99B ASP* 3.8 5.2 - - - +
101B ALA* 1.3 73.2 - - - +
103B ILE* 1.3 57.7 + - - +
105B ALA* 3.3 3.9 + - - +
106B ALA* 2.7 31.1 + - - +
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Residues in contact with ILE 103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B LEU* 3.8 31.0 - - + -
44B PHE* 5.3 0.4 - - - -
99B ASP 2.9 20.5 + - - +
100B ALA* 3.8 6.5 - - - +
101B ALA 3.2 0.2 - - - -
102B LEU* 1.3 77.3 - - - +
104B ALA* 1.3 57.2 + - - +
106B ALA* 3.3 6.7 + - - +
107B GLN* 2.9 36.0 + - + +
150B LEU* 3.7 32.1 - - + +
153B LEU* 4.2 3.8 - - + -
154B ALA* 3.9 33.2 - - + +
157B ASN* 3.9 23.3 - - - +
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Residues in contact with ALA 104 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100B ALA 3.2 13.8 + - - +
101B ALA* 3.6 10.8 - - - +
103B ILE* 1.3 72.3 - - - +
105B ALA* 1.3 67.8 + - - +
107B GLN* 3.1 25.8 + - - +
108B LYS* 3.2 19.2 + - - +
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Residues in contact with ALA 105 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81B LEU 5.2 2.5 - - - +
84B GLU* 4.5 12.1 - - + +
85B ALA* 4.2 34.1 - - + +
88B VAL* 4.8 3.6 - - + -
101B ALA 2.9 16.5 + - - +
102B LEU* 3.7 5.2 - - - +
104B ALA* 1.3 77.6 - - - +
106B ALA* 1.3 61.6 + - - +
108B LYS* 3.0 22.4 + - - +
109B VAL* 3.2 15.7 + - - +
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Residues in contact with ALA 106 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B LEU* 5.6 4.0 - - + -
44B PHE* 3.9 22.9 - - + -
102B LEU 2.7 20.8 + - - +
103B ILE* 3.7 7.4 - - - +
105B ALA* 1.3 73.6 - - - +
107B GLN* 1.3 56.9 + - - +
109B VAL* 3.2 11.7 + - - +
110B GLU* 2.9 30.1 + - - +
150B LEU* 3.7 19.5 - - + -
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Residues in contact with GLN 107 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B ILE* 2.9 30.7 + - + +
104B ALA* 3.1 20.1 + - - +
106B ALA* 1.3 74.4 - - - +
108B LYS* 1.3 60.9 + - + +
110B GLU* 3.3 1.7 + - - +
111B HIS* 2.8 28.4 + - - +
147B ASP* 3.9 22.6 + - - +
150B LEU* 4.7 5.4 - - + -
151B THR* 3.4 31.3 + - - +
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Residues in contact with LYS 108 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74A LYS* 6.3 0.2 - - - +
76A VAL* 3.8 26.5 - - + +
79A GLU* 3.0 34.3 + - - +
83A GLU* 5.8 0.7 - - - -
81B LEU* 4.0 11.6 - - + +
84B GLU* 3.9 18.8 - - - +
104B ALA* 3.2 16.9 + - - +
105B ALA* 3.0 10.9 + - - +
107B GLN* 1.3 74.2 - - + +
109B VAL* 1.3 66.6 + - + +
111B HIS* 3.2 7.3 + - + +
112B TYR* 3.1 22.9 + - - +
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Residues in contact with VAL 109 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24B LEU* 3.9 22.2 - - + -
47B HIS* 6.2 0.2 - - + -
78B MSE 3.9 28.0 - - + -
81B LEU* 3.9 36.1 - - + +
82B ILE* 4.9 2.5 - - + +
105B ALA 3.2 11.1 + - - +
106B ALA* 3.4 12.6 - - - +
108B LYS* 1.3 81.1 - - - +
110B GLU* 1.3 73.4 + - - +
112B TYR* 3.3 3.8 + - - +
113B GLU* 3.0 24.1 + - + +
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Residues in contact with GLU 110 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24B LEU* 5.0 0.2 - - - +
47B HIS* 3.1 26.9 + - - -
106B ALA 2.9 17.2 + - - +
107B GLN 3.7 2.2 - - - +
109B VAL* 1.3 86.0 - - - +
111B HIS* 1.3 66.4 + - - +
113B GLU* 4.5 1.6 - - - +
114B ILE* 2.8 33.2 + - + +
143B GLU* 2.6 44.2 - - - +
146B THR* 4.0 6.9 - - - +
147B ASP* 3.4 37.0 - - + +
150B LEU* 3.9 14.2 - - + +
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Residues in contact with HIS 111 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A ASP* 5.9 3.1 - - - -
74A LYS 4.3 11.0 + - - -
76A VAL* 3.4 34.9 - - + +
107B GLN 2.8 14.6 + - - +
108B LYS* 3.2 12.1 + - + +
110B GLU* 1.3 75.5 - - - +
112B TYR* 1.3 66.8 + - - +
114B ILE* 3.9 5.6 - - - +
115B ALA* 3.1 30.9 + - + +
147B ASP* 4.8 2.4 + - - -
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Residues in contact with TYR 112 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76A VAL* 4.9 3.1 - - + -
77A ALA* 4.1 20.9 - - + -
112A TYR* 5.3 3.2 - + - -
16B ASP* 3.4 9.7 + - - -
17B THR* 6.1 0.9 - - - -
20B ALA* 4.6 5.4 - - + -
75B CYS* 3.2 31.1 - - - -
77B ALA* 3.6 23.3 - - + +
78B MSE 4.5 8.7 - - + -
81B LEU* 3.5 31.6 - - + -
108B LYS 3.1 3.6 + - - +
109B VAL 3.6 3.1 - - - +
111B HIS* 1.3 86.4 + - - +
113B GLU* 1.3 79.2 + - - +
115B ALA* 3.7 5.5 - - + +
116B SER* 3.0 46.2 + - - -
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Residues in contact with GLU 113 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17B THR* 4.5 4.6 + - - +
20B ALA* 3.8 8.2 - - - +
21B GLU* 3.2 36.4 - - - +
24B LEU* 4.8 2.9 - - + -
78B MSE 3.5 29.5 - - + +
109B VAL* 3.0 24.4 + - + +
110B GLU* 4.0 2.7 - - - +
112B TYR* 1.3 90.4 - - + +
114B ILE* 1.3 65.3 + - - +
116B SER* 3.3 5.2 + - - -
117B TYR* 3.0 38.9 + - + -
143B GLU* 4.0 26.0 - - + +
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Residues in contact with ILE 114 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110B GLU* 2.8 26.1 + - + +
111B HIS* 3.9 4.9 - - - +
113B GLU* 1.3 71.8 - - - +
115B ALA* 1.3 60.1 + - - +
117B TYR* 3.4 0.6 + - - -
118B GLY* 2.9 24.9 + - - -
140B LEU* 3.5 23.0 - - + +
143B GLU* 3.8 35.7 - - + +
144B LYS* 4.1 26.5 - - + +
147B ASP* 3.7 25.1 - - + +
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Residues in contact with ALA 115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12A HIS* 4.5 20.4 + - + +
111B HIS* 3.1 27.4 + - + +
112B TYR* 3.7 6.1 - - + +
114B ILE* 1.3 79.3 - - - +
116B SER* 1.3 61.2 + - - +
118B GLY* 3.4 1.4 + - - -
119B THR* 3.1 27.7 + - - -
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Residues in contact with SER 116 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17B THR* 3.8 20.9 + - - -
112B TYR* 3.0 41.5 + - - -
113B GLU* 3.6 10.8 - - - -
114B ILE 3.3 0.2 - - - -
115B ALA* 1.3 77.7 - - - +
117B TYR* 1.3 59.1 + - - +
119B THR* 3.3 6.1 + - - -
120B LEU* 2.9 32.8 + - - +
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Residues in contact with TYR 117 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B THR* 3.4 28.7 - - + +
21B GLU* 2.9 28.2 + - - -
54B GLN* 4.5 3.3 + - - +
58B ILE* 3.5 20.5 - - + +
113B GLU* 3.0 34.5 + - - +
114B ILE* 4.0 2.9 - - - +
116B SER* 1.3 75.8 - - - +
118B GLY* 1.3 64.4 + - - +
120B LEU* 3.9 7.2 - - + +
121B ALA* 2.9 26.7 + - - +
136B LEU* 3.8 37.8 - - + +
139B THR* 3.3 34.4 - - + +
140B LEU* 4.2 20.5 - - + +
143B GLU* 4.6 8.1 - - + -
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Residues in contact with GLY 118 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3A MSE 6.5 0.4 - - - -
114B ILE 2.9 17.3 + - - -
115B ALA* 3.4 2.2 + - - -
116B SER 3.3 0.2 - - - -
117B TYR* 1.3 75.5 - - - +
119B THR* 1.3 61.9 - - - +
121B ALA* 3.4 5.4 + - - +
122B THR* 3.1 28.6 + - - -
140B LEU* 4.1 13.9 - - - +
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Residues in contact with THR 119 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A VAL* 3.6 30.5 - - + +
12A HIS* 4.0 20.8 + - - -
13A LEU* 4.9 7.8 - - + +
13B LEU* 4.0 25.4 - - + -
115B ALA 3.1 17.0 + - - -
116B SER* 3.6 6.3 - - - -
118B GLY* 1.3 75.1 - - - +
120B LEU* 1.3 60.3 + - - +
122B THR* 3.5 5.6 + - - -
123B LEU* 3.0 30.3 + - + +
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Residues in contact with LEU 120 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10B PHE* 3.4 26.3 - - + +
13B LEU* 3.6 18.6 - - + -
14B LEU* 3.5 41.5 - - + +
17B THR* 3.6 31.9 - - + +
116B SER* 2.9 19.4 + - - +
117B TYR* 3.9 20.4 - - + +
118B GLY 3.4 0.2 - - - -
119B THR* 1.3 75.9 - - - +
121B ALA* 1.3 56.6 + - - +
123B LEU* 3.7 2.9 - - + +
124B ALA* 2.9 30.7 + - - +
136B LEU* 3.8 14.1 - - + -
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Residues in contact with ALA 121 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B TYR 2.9 18.7 + - - +
118B GLY* 3.6 6.7 - - - +
120B LEU* 1.3 74.2 - - - +
122B THR* 1.3 66.0 + - - +
124B ALA* 3.3 3.4 + - - +
125B GLU* 3.0 27.1 + - - +
133B ALA* 4.4 5.1 - - - +
136B LEU* 4.1 21.2 - - + +
137B LYS* 4.3 26.0 - - + +
140B LEU* 5.2 4.0 - - + -
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Residues in contact with THR 122 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A MSE 3.5 20.1 + - - +
4A LYS* 3.6 35.2 - - - +
5A THR 4.0 2.2 - - - +
6A ILE* 5.6 0.2 - - + -
9A VAL* 3.7 24.9 - - + +
118B GLY 3.1 16.2 + - - -
119B THR* 3.8 4.0 - - - -
121B ALA* 1.3 78.2 - - - +
123B LEU* 1.3 58.6 + - - +
125B GLU* 2.8 30.2 + - - +
126B GLN* 2.9 17.3 + - + +
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Residues in contact with LEU 123 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ILE* 4.0 22.0 - - + -
9A VAL* 4.8 12.1 - - + -
123A LEU* 4.8 14.6 - - + -
6B ILE* 4.2 15.5 - - + -
9B VAL* 4.3 6.3 - - + -
10B PHE* 3.8 29.2 - - + -
13B LEU* 3.7 30.7 - - + -
119B THR* 3.0 28.1 + - + +
120B LEU* 3.7 5.2 - - - +
122B THR* 1.3 77.3 - - - +
124B ALA* 1.3 58.0 + - - +
126B GLN* 3.1 5.3 + - - +
127B LEU* 2.8 36.6 + - + +
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Residues in contact with ALA 124 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B PHE* 3.9 10.5 - - + -
120B LEU 2.9 18.7 + - - +
121B ALA 3.5 6.1 - - - +
123B LEU* 1.3 78.1 - - - +
125B GLU* 1.3 59.6 + - - +
127B LEU* 3.3 3.9 + - - -
128B GLY 3.2 3.3 + - - -
129B TYR* 2.9 41.8 + - + +
132B ALA* 4.3 1.1 - - + -
133B ALA 3.8 17.7 - - - +
136B LEU* 3.7 19.1 - - + -
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Residues in contact with GLU 125 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A MSE 4.4 2.1 - - - +
4A LYS* 4.2 16.8 - - - +
121B ALA* 3.0 13.8 + - - +
122B THR* 2.8 48.8 + - + +
124B ALA* 1.3 75.3 - - - +
126B GLN* 1.3 70.6 + - + +
128B GLY* 3.2 12.5 + - - +
129B TYR 4.9 1.3 - - - +
133B ALA* 4.3 12.5 - - + +
137B LYS* 3.3 27.4 + - - -
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Residues in contact with GLN 126 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A LYS* 2.6 35.0 + - - +
5A THR* 3.9 11.5 - - - +
6A ILE* 3.4 40.6 + - + +
6B ILE* 5.8 1.3 - - + -
122B THR* 2.9 21.6 + - + +
123B LEU 3.1 3.1 + - - +
125B GLU* 1.3 80.6 - - - +
127B LEU* 1.3 61.0 + - + +
128B GLY 3.6 0.2 + - - -
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Residues in contact with LEU 127 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B ILE* 3.5 30.3 - - + -
7B GLU* 4.0 19.7 - - + +
10B PHE* 3.7 30.3 - - + -
123B LEU 2.8 20.1 + - - +
124B ALA 3.6 5.2 - - - +
125B GLU 3.1 0.4 - - - -
126B GLN* 1.3 76.5 - - - +
128B GLY* 1.3 60.9 + - - +
129B TYR* 3.6 44.1 + - + +
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Residues in contact with GLY 128 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B GLU* 4.7 2.3 - - - +
124B ALA 3.2 2.6 + - - -
125B GLU* 3.2 12.2 + - - -
126B GLN 3.3 1.2 + - - -
127B LEU* 1.3 79.6 - - - +
129B TYR* 1.3 63.0 + - - +
130B ARG* 3.0 11.6 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il