Contacts of the helix formed by residues 82 - 111 (chain C) in PDB entry 3E1J
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 ASP 82 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C TRP* 4.3 4.9 - - - -
81C GLU* 1.3 78.3 - - - +
83C VAL* 1.3 65.0 + - - +
84C GLU* 3.5 9.2 + - - +
85C GLU* 3.0 38.9 + - - +
86C MET* 2.8 26.7 + - - +
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Residues in contact with VAL 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C PHE* 4.0 16.6 - - + -
35C TRP* 4.4 6.9 - - + -
37C LEU* 3.9 17.7 - - + -
40C LEU* 4.1 3.8 - - + -
82C ASP* 1.3 72.3 - - - +
84C GLU* 1.3 53.6 + - - +
86C MET* 3.0 11.6 + - - +
87C LEU* 2.7 54.5 + - + +
141C ILE* 4.3 3.8 - - + -
146C LEU* 5.0 7.4 - - + -
149C TYR* 4.0 21.3 - - + -
150C LEU* 3.9 24.0 - - + -
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Residues in contact with GLU 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ASP* 3.4 8.1 + - - +
83C VAL* 1.3 78.2 - - - +
85C GLU* 1.3 57.4 + - - +
87C LEU* 3.1 2.1 + - - +
88C ARG* 2.6 69.8 + - - +
138C LEU* 3.9 21.7 - - + +
141C ILE* 4.3 20.7 - - + +
142C GLN* 3.9 20.5 + - - -
146C LEU* 5.8 3.0 - - + +
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Residues in contact with GLU 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C GLY* 4.0 11.9 - - - -
81C GLU* 3.7 31.1 + - - +
82C ASP* 3.0 38.0 + - - +
84C GLU* 1.3 75.7 - - - +
86C MET* 1.3 58.3 + - - +
88C ARG* 3.7 8.0 - - - +
89C SER* 3.0 29.1 + - - -
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Residues in contact with MET 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C HIS* 3.2 56.7 - - + +
31C MET* 3.7 44.9 - - + -
32C PHE* 3.4 30.3 - - + -
35C TRP* 3.7 17.3 - - + -
79C ILE 3.3 10.1 - - - +
80C GLY* 4.6 2.7 - - - +
82C ASP 2.8 26.0 + - - +
83C VAL* 3.0 12.1 + - - +
85C GLU* 1.3 76.0 - - - +
87C LEU* 1.3 64.4 + - - +
89C SER* 3.2 1.7 + - - -
90C ASP* 3.1 17.5 + - - +
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Residues in contact with LEU 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C PHE* 3.9 24.0 - - + -
40C LEU* 5.1 3.4 - - + -
44C GLU* 3.8 22.7 - - - +
83C VAL* 2.7 36.0 + - + +
86C MET* 1.3 73.2 - - - +
88C ARG* 1.3 63.5 + - - +
90C ASP* 3.2 7.5 + - - +
91C LEU* 3.0 22.2 + - - +
133C TRP* 4.7 6.7 - - + -
134C LEU* 4.1 16.3 - - + +
137C GLU* 4.1 15.7 - - + -
138C LEU* 3.7 19.1 - - + -
141C ILE* 4.2 11.7 - - + -
149C TYR* 3.9 17.9 - - - +
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Residues in contact with ARG 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C GLU* 2.6 52.0 + - - +
85C GLU* 3.7 8.1 - - - +
87C LEU* 1.3 75.3 - - - +
89C SER* 1.3 57.6 + - - +
91C LEU* 3.3 10.1 + - + +
92C ALA* 2.9 28.2 + - - +
138C LEU* 4.0 35.1 + - + +
142C GLN* 5.1 9.5 - - - +
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Residues in contact with SER 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C GLN* 3.1 10.3 + - - -
28C HIS* 4.7 0.2 - - - -
78C ASN* 2.6 53.4 + - - +
79C ILE 4.7 1.1 - - - -
80C GLY* 5.9 0.2 - - - -
85C GLU 3.0 19.2 + - - -
86C MET* 3.6 7.6 - - - -
87C LEU 3.1 0.4 - - - -
88C ARG* 1.3 75.3 - - - +
90C ASP* 1.3 64.0 + - - +
92C ALA* 3.4 8.2 + - - +
93C LEU* 3.1 18.7 + - - +
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Residues in contact with ASP 90 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C GLN* 2.9 31.3 + - - +
25C TYR* 3.5 31.3 - - + +
28C HIS* 2.7 30.1 + - - -
44C GLU* 2.9 21.0 - - - +
86C MET 3.1 8.5 + - - +
87C LEU* 3.2 8.8 + - - +
89C SER* 1.3 75.2 - - - +
91C LEU* 1.3 57.0 + - - +
93C LEU* 3.2 6.9 + - - +
94C GLU* 3.0 31.9 + - - +
134C LEU* 4.3 10.3 - - + -
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Residues in contact with LEU 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C LEU 3.0 13.1 + - - +
88C ARG* 3.5 14.1 - - + +
90C ASP* 1.3 72.6 - - - +
92C ALA* 1.3 66.1 + - - +
94C GLU* 3.2 2.7 + - - +
95C LEU* 3.0 43.6 + - + +
131C ILE* 4.0 28.0 - - + -
134C LEU* 4.1 20.1 - - + +
135C GLU* 4.1 23.6 - - + +
138C LEU* 3.8 24.2 - - + -
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Residues in contact with ALA 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C ARG 2.9 16.9 + - - +
89C SER* 3.4 7.4 + - - +
91C LEU* 1.3 75.3 - - - +
93C LEU* 1.3 56.1 + - - +
95C LEU* 3.3 10.7 + - - +
96C ASP* 3.0 36.3 + - - +
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Residues in contact with LEU 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ASN* 5.2 7.7 - - + +
20C VAL* 3.7 34.8 - - + -
21C ALA* 3.8 27.1 - - + +
24C GLN* 4.0 20.6 - - + +
25C TYR* 6.1 1.8 - - + -
76C LYS 5.0 5.6 - - - +
89C SER 3.1 12.9 + - - +
90C ASP* 3.4 11.2 - - - +
91C LEU 3.1 0.2 - - - -
92C ALA* 1.3 78.8 - - - +
94C GLU* 1.3 62.3 + - + +
96C ASP* 3.3 8.7 + - + +
97C GLY* 3.0 19.6 + - - -
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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
----------------------------------------------------------
21C ALA* 6.0 1.8 - - - -
25C TYR* 2.4 37.3 + - + +
51C GLU* 3.6 3.0 - - - +
90C ASP 3.0 20.2 + - - +
91C LEU* 3.7 3.8 - - - +
93C LEU* 1.3 72.8 - - + +
95C LEU* 1.3 60.4 + - - +
97C GLY* 3.2 2.1 + - - +
98C ALA* 2.8 31.5 + - - +
127C GLU* 2.6 37.5 - - - +
130C HIS* 3.0 25.5 + - - -
131C ILE* 3.6 22.0 - - + +
134C LEU* 4.1 9.4 - - + -
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Residues in contact with LEU 95 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 4.6 14.4 - - + -
91C LEU* 3.0 38.2 + - + +
92C ALA* 3.5 8.5 - - - +
94C GLU* 1.3 77.9 - - - +
96C ASP* 1.3 64.2 + - - +
98C ALA* 3.4 4.8 + - + +
99C LYS* 3.2 31.7 + - - +
131C ILE* 3.6 34.3 - - + -
135C GLU* 5.3 2.5 - - - +
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Residues in contact with ASP 96 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ASN* 5.0 0.7 - - - +
92C ALA* 3.0 21.4 + - - +
93C LEU* 3.3 10.8 + - + +
94C GLU 3.3 0.2 - - - -
95C LEU* 1.3 76.9 - - - +
97C GLY* 1.3 61.9 + - - +
99C LYS* 3.4 27.3 + - - +
100C ASN* 3.2 28.8 + - - +
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Residues in contact with GLY 97 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ASN* 3.6 26.8 + - - -
93C LEU 3.0 14.8 + - - -
94C GLU* 3.7 3.1 - - - -
96C ASP* 1.3 74.7 - - - +
98C ALA* 1.3 60.0 + - - +
100C ASN* 3.3 2.6 + - - +
101C LEU* 2.9 36.5 + - - +
127C GLU* 6.1 0.9 - - - -
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Residues in contact with ALA 98 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 5.8 0.2 - - - -
94C GLU 2.8 17.6 + - - +
95C LEU* 3.8 7.0 - - + +
96C ASP 3.3 0.2 - - - -
97C GLY* 1.3 75.9 - - - +
99C LYS* 1.3 56.5 + - - +
101C LEU* 3.2 4.4 + - - +
102C ARG* 2.8 57.4 + - - +
124C LEU* 3.9 18.4 - - + -
127C GLU* 5.4 3.3 - - + +
131C ILE* 4.2 17.0 - - + -
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Residues in contact with LYS 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C LEU* 3.2 19.3 + - - +
96C ASP* 3.4 31.6 + - - +
98C ALA* 1.3 75.8 - - - +
100C ASN* 1.3 65.8 + - - +
102C ARG* 3.2 20.4 + - - +
103C GLU* 3.2 23.0 + - + +
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Residues in contact with ASN 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C TYR* 4.8 3.7 - - + -
13C LYS* 3.5 33.5 + - - +
14C LEU* 3.6 19.6 - - + +
17C ASN* 2.9 24.2 + - - +
96C ASP* 3.2 15.2 + - - +
97C GLY 3.6 4.7 - - - +
99C LYS* 1.3 79.9 - - - +
101C LEU* 1.3 56.4 + - - +
103C GLU* 3.2 20.5 + - - +
104C ALA* 2.9 29.8 + - - +
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Residues in contact with LEU 101 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C LEU* 3.8 19.7 - - + -
18C GLU* 5.2 2.0 - - - +
58C TYR* 3.5 22.2 - - - +
97C GLY 2.9 21.5 + - - +
98C ALA 3.2 5.1 + - - +
100C ASN* 1.3 72.5 - - - +
102C ARG* 1.3 65.9 + - - +
104C ALA* 3.8 1.4 - - - +
105C ILE* 2.9 34.4 + - + +
120C MET* 3.7 31.0 - - + +
123C ILE* 4.1 6.7 - - + -
124C LEU* 3.9 33.4 - - + +
127C GLU* 3.9 19.1 - - + +
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Residues in contact with ARG 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 3.8 18.0 - - - +
111B VAL 5.5 0.7 - - - -
112B HIS* 3.1 47.3 + - + +
113B ASP* 4.7 8.9 + - - +
114B TYR* 3.5 17.7 - - - -
115B VAL* 4.7 1.2 - - - +
98C ALA* 2.8 45.6 + - - +
99C LYS* 3.5 10.2 - - - +
101C LEU* 1.3 76.5 - - - +
103C GLU* 1.4 63.0 + - - +
105C ILE* 4.6 0.2 - - - -
106C GLY 3.3 14.7 + - - -
124C LEU* 4.1 17.6 - - + +
128C GLU* 2.7 36.3 + - - -
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Residues in contact with GLU 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B HIS* 5.4 3.6 - - - -
10C TYR* 3.5 28.1 + - + +
13C LYS* 5.7 2.6 - - - -
99C LYS* 3.2 20.0 + - + +
100C ASN* 3.2 24.0 + - - +
102C ARG* 1.4 72.4 - - - +
104C ALA* 1.3 69.4 + - - +
106C GLY* 3.1 3.9 + - - -
107C TYR* 3.0 21.3 + - - +
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Residues in contact with ALA 104 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C TYR* 3.7 34.8 - - + -
14C LEU* 3.9 11.4 - - + -
100C ASN 2.9 16.9 + - - +
101C LEU 3.8 2.5 - - - +
103C GLU* 1.3 78.1 - - - +
105C ILE* 1.3 56.4 + - - +
107C TYR* 3.2 3.3 + - - +
108C ALA* 2.9 30.7 + - - +
120C MET* 3.6 23.8 - - + +
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Residues in contact with ILE 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B TYR* 3.6 24.0 - - + -
101C LEU* 2.9 24.2 + - + +
102C ARG 3.8 3.8 - - - +
103C GLU 3.2 0.2 - - - -
104C ALA* 1.3 73.1 - - - +
106C GLY* 1.3 63.9 + - - +
108C ALA* 3.5 1.0 + - - +
109C ASP 3.2 17.7 + - - -
117C ARG* 3.3 38.5 + - + +
120C MET* 3.6 39.5 - - + +
121C ILE* 4.0 18.2 - - + -
124C LEU* 3.9 28.0 - - + -
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Residues in contact with GLY 106 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B HIS* 4.9 5.6 - - - -
114B TYR* 3.5 18.6 + - - -
102C ARG 3.3 5.9 + - - -
103C GLU 3.1 6.9 + - - -
105C ILE* 1.3 78.6 - - - +
107C TYR* 1.3 62.2 + - - +
109C ASP* 3.5 5.9 + - - +
110C SER* 3.3 20.3 + - - -
117C ARG* 4.3 3.6 - - - -
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Residues in contact with TYR 107 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ASP* 2.9 37.3 + - - -
6C LYS* 3.4 30.8 - - + +
7C VAL* 3.7 15.3 - - + -
10C TYR* 3.7 33.7 - + + +
103C GLU 3.0 9.6 + - - +
104C ALA 3.7 5.8 - - - +
106C GLY* 1.3 75.2 - - - +
108C ALA* 1.3 62.8 + - - +
110C SER* 2.8 32.6 + - - -
111C VAL* 3.1 28.9 + - + +
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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
----------------------------------------------------------
7C VAL* 4.4 7.4 - - + -
104C ALA 2.9 16.7 + - - +
105C ILE 3.8 3.4 - - - +
106C GLY 3.5 0.2 - - - -
107C TYR* 1.3 78.2 - - - +
109C ASP* 1.3 61.1 + - - +
111C VAL* 3.4 9.4 + - - +
112C HIS 3.0 3.8 + - - -
113C ASP* 2.8 50.1 + - + +
116C SER* 4.7 1.6 - - - -
117C ARG* 4.0 4.9 - - + +
120C MET* 3.6 20.9 - - + -
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Residues in contact with ASP 109 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B ASP* 5.5 4.3 - - - +
105C ILE 3.2 4.8 + - - -
106C GLY* 3.5 9.0 - - - +
108C ALA* 1.3 75.8 - - - +
110C SER* 1.3 64.0 + - - +
112C HIS* 3.2 14.6 + - - -
114C TYR* 3.3 21.1 + - - -
117C ARG* 3.2 33.8 + - - +
109H ASP* 5.4 3.4 - - - +
117H ARG* 2.6 35.8 + - - -
----------------------------------------------------------
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Residues in contact with SER 110 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C GLY 3.3 8.6 + - - -
107C TYR* 2.8 35.0 + - - -
109C ASP* 1.3 83.5 - - - +
111C VAL* 1.3 60.8 + - - +
112C HIS* 3.4 14.1 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ASP* 3.8 18.2 - - + +
7C VAL* 3.7 27.8 - - + -
107C TYR* 3.1 44.2 + - + +
108C ALA 3.6 7.4 - - - +
110C SER* 1.3 79.0 - - - +
112C HIS* 1.3 71.9 + - - +
113C ASP* 3.3 6.0 + - + +
102H ARG* 5.4 0.7 - - - -
----------------------------------------------------------
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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