Contacts of the helix formed by residues 82 - 111 (chain C) in PDB entry 3BVI
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 GLY 82 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TRP* 3.5 20.5 - - - -
80C PHE 3.7 1.8 - - - -
81C GLU* 1.3 80.1 - - - +
83C LEU* 1.3 66.8 + - - -
84C THR 3.3 3.3 + - - -
85C GLN* 3.4 4.8 + - - +
86C ILE* 3.1 24.1 + - - +
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Residues in contact with LEU 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TRP* 4.3 5.1 - - - -
31C CYS* 4.4 9.2 - - - -
36C LEU* 3.7 21.6 - - + +
39C ALA* 3.8 18.4 - - + -
82C GLY* 1.3 71.9 - - - -
84C THR* 1.3 65.4 + - - +
86C ILE* 3.3 4.3 + - + +
87C PHE* 3.2 65.4 + - + -
141C ILE* 3.9 24.9 - - + -
146C ASN* 6.0 0.7 - - - +
151C LEU* 3.9 29.9 - - + +
154C ALA* 4.3 13.7 - - + -
155C ASP* 4.9 7.0 - - - +
158C VAL* 5.6 1.6 - - + -
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Residues in contact with THR 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C GLY* 3.3 1.2 - - - -
83C LEU* 1.3 77.7 - - - +
85C GLN* 1.3 58.9 + - - +
87C PHE* 3.3 2.1 + - - +
88C GLN* 2.9 48.9 + - + +
138C LEU* 4.2 4.5 - - + +
141C ILE* 3.5 24.1 - - + +
142C GLU* 3.3 27.8 - - - +
146C ASN* 4.0 20.8 + - - +
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Residues in contact with GLN 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C LYS 5.6 0.4 + - - -
80C PHE* 3.4 20.3 - - - +
81C GLU* 2.9 60.7 + - + +
82C GLY* 3.4 13.7 + - - +
83C LEU 3.4 0.4 - - - -
84C THR* 1.3 79.1 - - - +
86C ILE* 1.3 56.3 + - - +
88C GLN* 3.6 14.3 - - + +
89C LYS* 2.9 56.7 + - + +
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Residues in contact with ILE 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C MET* 3.5 36.4 - - + +
30C TRP* 3.5 37.7 - - + -
31C CYS* 3.9 13.5 - - - -
43C LEU* 4.0 21.5 - - + -
80C PHE* 3.7 29.6 - - + -
82C GLY 3.1 15.3 + - - +
83C LEU* 3.7 8.5 - - + +
84C THR 3.3 0.2 - - - -
85C GLN* 1.3 75.8 - - - +
87C PHE* 1.3 68.4 + - + +
89C LYS* 4.6 0.7 - - - -
90C ALA* 2.8 26.9 + - + +
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Residues in contact with PHE 87 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ALA* 4.1 7.6 - - + -
42C PHE* 3.9 18.6 - + - -
43C LEU* 4.1 23.3 - - + -
83C LEU* 3.2 46.4 + - + +
84C THR 4.1 2.0 - - - +
86C ILE* 1.3 77.7 - - + +
88C GLN* 1.3 60.5 + - - +
90C ALA* 3.7 3.4 - - + +
91C TYR* 2.8 31.4 + - - +
134C PHE* 3.8 35.4 - + - +
137C ILE* 3.6 26.2 - - + -
138C LEU* 3.9 15.7 - - + +
141C ILE* 3.6 19.3 - - + -
158C VAL* 4.4 9.9 - - + -
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Residues in contact with GLN 88 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C THR* 2.9 26.7 + - - +
85C GLN* 3.6 18.2 - - + +
87C PHE* 1.3 76.8 - - - +
89C LYS* 1.3 62.4 + - + +
91C TYR* 3.7 2.3 - - - +
92C GLU* 3.0 38.5 + - - +
138C LEU* 3.7 26.2 - - + +
142C GLU* 3.8 17.8 + - - -
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Residues in contact with LYS 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C LEU* 5.8 0.2 - - - +
27C MET* 3.8 10.1 - - + -
77C GLU* 2.7 30.8 + - - +
79C LYS 4.5 5.9 + - - -
80C PHE* 4.1 24.5 - - + -
85C GLN* 2.9 46.7 + - + +
86C ILE 3.6 4.0 - - - +
88C GLN* 1.3 76.3 - - + +
90C ALA* 1.3 58.5 + - - +
92C GLU* 3.4 13.5 + - - +
93C HIS* 2.9 29.0 + - - +
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Residues in contact with ALA 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TYR* 3.4 17.8 + - + -
27C MET* 3.9 9.1 - - - +
43C LEU* 5.1 1.3 - - + -
86C ILE 2.8 18.4 + - - +
87C PHE* 3.7 5.8 - - + +
89C LYS* 1.3 74.0 - - - +
91C TYR* 1.3 60.5 + - - +
93C HIS* 3.1 5.8 + - - +
94C GLU* 2.9 32.6 + - - +
134C PHE* 3.4 32.5 - - + -
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Residues in contact with TYR 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C PHE 2.8 22.5 + - - +
88C GLN 3.7 3.6 - - - +
90C ALA* 1.3 72.4 - - - +
92C GLU* 1.3 63.9 + - + +
94C GLU* 3.3 2.8 + - + +
95C GLN* 3.1 49.8 + - + +
131C GLU* 3.7 35.8 + - + -
134C PHE* 4.2 15.0 - - + +
135C LYS* 3.7 38.6 - - + +
138C LEU* 4.0 23.6 - - + -
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Residues in contact with GLU 92 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C GLN* 3.0 28.6 + - - +
89C LYS* 3.7 13.1 - - - +
91C TYR* 1.3 74.5 - - + +
93C HIS* 1.3 64.9 + - - +
95C GLN* 3.3 19.0 + - - +
96C HIS* 3.2 20.3 + - - +
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Residues in contact with HIS 93 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C LYS 5.2 0.7 - - - -
19C ASN* 4.5 13.7 - - - -
20C SER* 2.7 33.3 + - - -
23C LEU* 4.0 22.6 - - + +
24C TYR* 3.5 27.8 - + - +
89C LYS 2.9 16.2 + - - +
90C ALA* 3.4 9.9 - - - +
92C GLU* 1.3 77.0 - - - +
94C GLU* 1.3 57.7 + - - +
96C HIS* 3.1 19.0 + + - +
97C ILE* 3.0 44.7 + - + +
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Residues in contact with GLU 94 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TYR* 2.6 32.1 + - - +
46C HIS* 2.9 21.8 + - - -
50C GLU* 3.9 1.9 - - - +
90C ALA 2.9 14.8 + - - +
91C TYR* 3.3 6.7 + - - +
93C HIS* 1.3 78.1 - - - +
95C GLN* 1.3 57.4 + - - +
97C ILE* 3.3 4.3 + - - +
98C SER* 2.9 25.9 + - - -
127C GLN* 2.8 34.1 + - - +
130C GLU* 4.4 2.2 - - - +
131C GLU* 4.2 16.6 - - + -
134C PHE* 3.9 21.5 - - + -
1007C FE 2.3 26.3 - - - -
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Residues in contact with GLN 95 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C TYR* 3.1 60.2 + - + +
92C GLU* 3.5 19.0 - - - +
93C HIS 3.3 0.2 - - - -
94C GLU* 1.3 74.9 - - - +
96C HIS* 1.3 58.0 + - - +
98C SER* 3.2 4.4 + - - -
99C GLU* 2.9 28.9 + - - +
131C GLU* 3.5 24.9 - - - +
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Residues in contact with HIS 96 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C LYS* 3.8 35.9 + - + -
92C GLU 3.2 9.2 + - - +
93C HIS* 3.1 19.5 + + - +
95C GLN* 1.3 77.6 - - - +
97C ILE* 1.3 68.7 + - + +
99C GLU* 3.3 20.4 + - - +
100C SER* 3.0 29.4 + - - -
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Residues in contact with ILE 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C GLN* 4.1 5.8 - - - +
16C LYS* 4.5 23.6 - - + +
17C GLU* 3.9 18.8 - - - +
20C SER* 3.9 11.0 - - - +
50C GLU* 5.0 1.3 - - - +
93C HIS* 3.0 50.7 + - + +
94C GLU* 3.3 11.6 + - - +
96C HIS* 1.3 82.2 - - + +
98C SER* 1.3 65.0 + - - +
100C SER* 3.1 6.2 + - - -
101C ILE* 3.1 34.9 + - + +
127C GLN* 3.7 24.0 - - - +
1006C FE 4.1 1.1 - - - -
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Residues in contact with SER 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C GLU 2.9 11.4 + - - -
95C GLN* 3.4 8.5 - - - -
97C ILE* 1.3 78.0 - - - +
99C GLU* 1.3 61.7 + - - +
101C ILE* 3.3 4.9 + - - +
102C ASN* 3.0 34.2 + - - -
127C GLN* 3.2 24.1 + - - +
128C HIS* 5.1 0.5 + - - -
131C GLU* 2.5 30.5 + - - -
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Residues in contact with GLU 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C GLN 2.9 12.9 + - - +
96C HIS* 3.5 25.7 - - - +
98C SER* 1.3 76.5 - - - +
100C SER* 1.3 62.1 + - - +
102C ASN* 3.6 10.0 + - - +
103C ASN* 3.1 22.7 + - + +
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Residues in contact with SER 100 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C GLN* 3.2 24.3 + - - -
16C LYS* 3.8 24.3 - - - +
96C HIS* 3.0 17.5 + - - -
97C ILE* 3.1 13.7 + - - -
99C GLU* 1.3 75.1 - - - +
101C ILE* 1.3 63.7 + - - +
103C ASN* 3.5 8.9 + - - +
104C ILE* 3.2 25.5 + - - +
----------------------------------------------------------
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Residues in contact with ILE 101 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C GLN* 3.6 15.3 - - - +
97C ILE* 3.1 17.9 + - + +
98C SER* 3.7 4.3 - - - +
100C SER* 1.3 73.6 - - - +
102C ASN* 1.3 67.8 + - - +
104C ILE* 2.9 12.0 + - + +
105C VAL* 2.9 29.0 + - + +
120C LEU* 5.2 4.0 - - + +
123C TYR* 3.6 39.0 - - + +
124C VAL* 3.9 29.2 - - + -
127C GLN* 3.6 38.6 - - + -
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Residues in contact with ASN 102 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C SER* 3.0 28.8 + - - +
99C GLU* 3.7 9.0 - - - +
101C ILE* 1.3 75.7 - - - +
103C ASN* 1.3 52.8 + - - +
105C VAL* 3.4 8.0 + - - +
106C ASP* 2.8 36.4 + - - +
124C VAL* 4.8 14.4 - - - +
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Residues in contact with ASN 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C LEU* 3.8 23.0 - - - +
99C GLU* 3.1 15.8 + - + +
100C SER* 3.5 12.8 - - - +
101C ILE 3.2 0.2 - - - -
102C ASN* 1.3 73.9 - - - +
104C ILE* 1.3 64.3 + - - +
106C ASP* 3.5 10.0 + - - +
107C HIS* 3.0 24.1 + - - +
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Residues in contact with ILE 104 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C ILE* 4.2 12.8 - - + +
9C LEU* 3.9 37.2 - - + +
10C LEU* 4.1 20.2 - - + -
13C GLN* 3.5 43.5 - - + +
100C SER 3.2 12.2 + - - +
101C ILE* 2.9 11.1 + - + +
103C ASN* 1.3 75.1 - - - +
105C VAL* 1.3 58.5 + - - +
107C HIS* 3.2 4.3 + - - +
108C ALA* 2.9 26.5 + - - +
116C THR* 4.9 0.4 - - + -
120C LEU* 3.6 25.8 - - + -
123C TYR* 5.6 0.7 - - + -
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Residues in contact with VAL 105 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C ILE* 2.9 20.4 + - + +
102C ASN* 3.7 9.6 - - - +
104C ILE* 1.3 76.1 - - - +
106C ASP* 1.3 61.5 + - - +
108C ALA* 3.2 8.7 + - - +
109C ILE* 3.1 24.7 + - + +
117C PHE* 3.4 33.7 - - + -
120C LEU* 3.8 21.5 - - + -
121C GLN* 4.4 6.3 - - - +
124C VAL* 3.8 27.4 - - + -
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Residues in contact with ASP 106 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C ASN 2.8 21.6 + - - +
103C ASN* 3.8 12.7 + - - +
104C ILE 3.3 0.2 - - - -
105C VAL* 1.3 74.6 - - - +
107C HIS* 1.3 57.2 + - - +
109C ILE* 3.3 16.6 + - - +
110C LYS* 2.7 59.8 + - - +
----------------------------------------------------------
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Residues in contact with HIS 107 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C SER* 5.0 1.2 + - - -
5C ASP* 3.5 32.8 + - + +
6C ILE* 3.7 19.4 + - + +
9C LEU* 3.7 22.1 - - + +
103C ASN* 3.0 17.6 + - - +
104C ILE 3.2 7.4 + - - +
106C ASP* 1.3 74.1 + - - +
108C ALA* 1.3 59.7 + - - +
110C LYS* 3.7 16.0 - - + +
111C SER* 2.9 49.8 + - - -
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Residues in contact with ALA 108 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C ILE* 4.0 17.4 - - + +
104C ILE 2.9 13.3 + - - +
105C VAL* 3.2 12.8 + - - +
107C HIS* 1.3 75.5 - - - +
109C ILE* 1.3 57.1 + - - +
111C SER* 4.0 1.6 - - - -
112C LYS* 3.0 6.6 + - - -
113C ASP* 2.7 48.5 + - - +
114C HIS* 5.5 0.2 - - - -
116C THR* 4.4 5.4 - - + -
117C PHE* 4.0 20.6 - - + +
120C LEU* 5.2 0.2 - - + -
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Residues in contact with ILE 109 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A ASP* 4.4 8.1 - - - +
109A ILE* 4.2 31.2 - - + -
105C VAL* 3.1 16.8 + - + +
106C ASP* 3.5 16.4 - - - +
108C ALA* 1.3 73.5 - - - +
110C LYS* 1.3 67.6 + - + +
112C LYS* 3.0 18.0 + - - +
114C HIS* 4.6 11.8 + - + -
117C PHE* 3.5 34.5 - - + -
----------------------------------------------------------
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Residues in contact with LYS 110 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C ASP* 2.7 47.6 + - - +
107C HIS* 3.3 19.5 + - + +
109C ILE* 1.3 77.5 - - + +
111C SER* 1.3 59.1 + - - +
112C LYS* 3.3 5.8 + - - +
----------------------------------------------------------
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Residues in contact with SER 111 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C SER* 4.8 8.0 + - - -
6C ILE* 4.3 4.2 - - - +
107C HIS* 2.9 41.1 + - - -
108C ALA* 3.7 6.6 + - - -
110C LYS* 1.3 75.9 - - - +
112C LYS* 1.3 71.7 + - - +
113C ASP* 3.2 10.4 + - - +
----------------------------------------------------------
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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