Contacts of the helix formed by residues 87 - 116 (chain C) in PDB entry 3KWO
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 THR 87 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C VAL* 4.0 1.6 - - - -
29C LYS* 3.7 3.4 - - + +
86C PHE* 1.3 76.9 - - - +
88C PRO* 1.3 75.6 - - + +
89C LEU* 3.5 7.0 + - - +
90C GLU* 2.9 45.2 + - - +
91C VAL* 3.1 21.5 + - - +
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Residues in contact with PRO 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C VAL* 3.9 16.1 - - + -
29C LYS 3.1 18.8 - - - +
30C GLY* 4.4 4.5 - - - -
32C GLN* 3.4 42.6 - - + +
36C ILE* 3.9 18.1 - - + +
87C THR* 1.3 89.4 - - - +
89C LEU* 1.3 65.2 + - + +
91C VAL* 3.3 3.6 + - + +
92C ILE* 3.1 30.4 + - + +
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Residues in contact with LEU 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C THR* 3.2 6.7 + - - +
88C PRO* 1.3 82.3 - - + +
90C GLU* 1.3 62.4 + - + +
92C ILE* 3.2 14.5 + - + +
93C GLU* 3.0 37.0 + - - +
142C THR* 4.6 12.6 - - + +
143C LEU* 4.0 23.2 - - + +
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Residues in contact with GLU 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C LYS* 3.9 21.3 + - - -
86C PHE* 3.4 16.3 - - + -
87C THR* 2.9 47.9 + - - +
89C LEU* 1.3 74.6 - - - +
91C VAL* 1.3 57.6 + - - +
93C GLU* 3.3 16.8 + - - +
94C LEU* 2.9 38.5 + - + +
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Residues in contact with VAL 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TYR* 3.9 23.6 - - + -
28C VAL* 4.1 17.3 - - + -
36C ILE* 3.6 25.4 - - + -
40C THR* 4.2 0.2 - - + -
86C PHE* 3.4 32.5 - - + -
87C THR 3.1 6.6 + - - +
88C PRO 3.5 7.9 - - - +
90C GLU* 1.3 76.4 - - - +
92C ILE* 1.3 57.4 + - - +
94C LEU* 3.3 7.8 + - - +
95C ILE* 2.8 47.8 + - + +
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Residues in contact with ILE 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C ILE* 4.0 22.4 - - + -
88C PRO* 3.1 22.6 + - + +
89C LEU* 3.8 15.7 - - + +
91C VAL* 1.3 74.2 - - + +
93C GLU* 1.3 61.2 + - - +
95C ILE* 3.8 8.6 - - + +
96C LYS* 3.0 27.2 + - - +
139C ILE* 4.0 19.2 - - + +
142C THR* 4.1 27.1 - - + -
143C LEU* 3.8 21.8 - - + -
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Residues in contact with GLU 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C LEU* 3.0 33.5 + - - +
90C GLU* 3.5 16.4 + - - +
92C ILE* 1.3 77.4 - - - +
94C LEU* 1.3 64.5 + - + +
96C LYS* 3.2 7.2 + - + +
97C GLN* 3.1 34.6 + - - +
143C LEU* 3.8 26.4 - - + +
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Residues in contact with LEU 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TYR* 3.5 23.3 - - + +
81C VAL* 4.4 17.0 - - + -
83C LYS* 5.6 3.6 - - + -
86C PHE* 3.5 37.7 - - + -
90C GLU* 2.9 24.8 + - + +
91C VAL* 3.7 4.0 - - - +
93C GLU* 1.3 76.5 - - + +
95C ILE* 1.3 56.2 + - - +
97C GLN* 3.2 22.4 + - + +
98C ASP* 2.9 34.2 + - - +
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Residues in contact with ILE 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C PHE* 4.7 7.2 - - + -
24C TYR* 3.8 16.8 - - + -
36C ILE* 6.4 0.4 - - + -
39C TYR* 3.8 30.1 - - + -
40C THR* 4.0 11.9 - - + -
43C ALA* 5.6 3.4 - - + -
91C VAL* 2.8 40.8 + - + +
92C ILE* 3.8 9.2 - - + +
94C LEU* 1.3 70.1 - - - +
96C LYS* 1.3 56.1 + - - +
98C ASP* 3.2 7.2 + - - +
99C TYR* 2.7 66.6 + - + +
139C ILE* 3.9 11.4 - - + -
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Residues in contact with LYS 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C ILE 3.0 16.5 + - - +
93C GLU* 3.3 10.8 - - - +
95C ILE* 1.3 75.1 - - - +
97C GLN* 1.3 61.3 + - + +
99C TYR* 3.2 0.6 + - - -
100C GLU* 2.9 60.4 + - - +
136C LEU* 3.6 18.0 - - + +
139C ILE* 3.6 18.8 - - + -
140C GLY* 5.1 10.1 - - - +
143C LEU* 3.7 22.2 - - + -
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Residues in contact with GLN 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C PRO* 4.2 20.2 - - + +
93C GLU* 3.1 29.2 + - - +
94C LEU* 3.6 21.8 - - + +
95C ILE 3.2 0.2 - - - -
96C LYS* 1.3 80.8 - - + +
98C ASP* 1.3 62.9 + - - +
100C GLU* 3.5 16.2 + - - +
101C TYR* 3.1 22.3 + - - +
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Residues in contact with ASP 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C LEU* 3.5 17.2 - - + +
20C LYS* 2.5 28.7 + - - -
21C PHE* 3.3 25.8 - - + -
24C TYR* 2.8 26.1 + - - -
79C PRO* 3.6 13.9 - - - +
94C LEU 2.9 16.4 + - - +
95C ILE* 3.2 6.4 + - - +
97C GLN* 1.3 76.5 - - - +
99C TYR* 1.3 57.9 + - - +
101C TYR* 3.2 9.8 + - - +
102C LEU* 2.9 29.5 + - - +
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Residues in contact with TYR 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C PHE* 3.8 25.5 - + - -
39C TYR* 3.6 24.6 + - - -
43C ALA* 3.6 25.6 - - - +
46C GLU* 4.4 7.8 + - - -
47C MSE 5.3 1.9 - - + +
95C ILE* 2.7 31.0 + - + +
98C ASP* 1.3 73.7 - - - +
100C GLU* 1.3 56.0 + - - +
102C LEU* 3.7 11.3 - - + +
103C LEU* 2.8 35.5 + - - +
132C TYR* 3.7 39.2 + + + +
135C SER* 4.3 11.9 - - - -
136C LEU* 3.7 21.7 - - + +
139C ILE* 3.7 18.6 - - + -
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Residues in contact with GLU 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C LYS* 2.9 57.2 + - - +
97C GLN* 3.7 17.0 - - - +
98C ASP 3.3 0.2 - - - -
99C TYR* 1.3 72.7 - - - +
101C TYR* 1.3 66.6 + - - +
103C LEU* 3.8 4.5 - - + +
104C ALA* 3.0 24.8 + - - +
136C LEU* 3.8 20.3 - - + +
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Residues in contact with TYR 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C GLN* 4.0 2.3 + - - +
13C ASP* 2.6 39.2 + - + -
17C LEU* 5.0 0.4 - - + -
77C LYS* 3.3 33.7 - - + +
78C SER* 3.7 24.7 - - - -
79C PRO* 4.0 17.0 - - + -
97C GLN 3.1 13.6 + - - +
98C ASP 3.2 9.2 + - - +
100C GLU* 1.3 78.5 - - - +
102C LEU* 1.3 73.8 + - + +
104C ALA* 3.2 5.9 + - + +
105C GLU* 3.0 51.8 + - + +
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Residues in contact with LEU 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C MSE 3.8 24.5 - - + -
13C ASP* 5.1 4.7 - - + -
14C ALA 5.6 0.7 - - - +
17C LEU* 3.8 22.0 - - + -
47C MSE 3.9 22.4 - - + -
50C LEU* 4.2 10.3 - - + -
98C ASP 2.9 14.8 + - - +
99C TYR* 3.7 16.8 - - + +
100C GLU 3.3 0.2 - - - -
101C TYR* 1.3 82.6 - - + +
103C LEU* 1.3 54.3 + - - +
105C GLU* 3.0 4.1 + - - +
106C PHE* 2.7 46.1 + - + -
132C TYR* 3.8 35.2 - - + +
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Residues in contact with LEU 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C TYR 2.8 22.2 + - - +
100C GLU* 3.8 5.8 - - + +
102C LEU* 1.3 73.0 - - - +
104C ALA* 1.3 64.6 + - - +
106C PHE* 3.3 6.0 + - - -
107C LYS* 3.0 48.3 + - - +
129C ILE* 3.8 35.9 - - + +
132C TYR* 4.3 9.8 - - + +
133C GLU* 3.9 18.4 - - + +
136C LEU* 3.9 22.4 - - + -
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Residues in contact with ALA 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C GLU 3.0 17.3 + - - +
101C TYR* 3.7 6.1 - - + +
103C LEU* 1.3 76.9 - - - +
105C GLU* 1.3 61.8 + - - +
107C LYS* 3.3 10.7 + - - +
108C LYS* 3.0 36.9 + - - +
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Residues in contact with GLU 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C GLN* 2.8 42.0 + - - +
9C GLN* 4.2 11.5 - - - +
10C MSE 4.0 17.5 - - + -
13C ASP* 4.5 3.4 - - - +
101C TYR* 3.0 56.7 + - + +
102C LEU 3.0 6.9 + - - +
104C ALA* 1.3 76.9 - - - +
106C PHE* 1.3 60.7 + - - +
108C LYS* 2.9 34.0 + - - -
109C LEU* 2.9 24.1 + - - +
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Residues in contact with PHE 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C MSE 3.6 28.9 - - + -
50C LEU* 3.7 31.9 - - + -
102C LEU* 2.7 37.7 + - + +
103C LEU* 3.8 4.0 - - - +
105C GLU* 1.3 69.6 - - - +
107C LYS* 1.3 61.0 + - - +
109C LEU* 3.3 7.7 + - + +
110C ASN* 2.9 28.9 + - - +
124C PHE* 4.3 9.6 - + - -
125C ALA* 3.6 15.2 - - - +
128C ASN* 3.6 39.3 - - + -
129C ILE* 3.8 20.4 - - + +
132C TYR* 3.6 30.1 - + - -
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Residues in contact with LYS 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C LEU* 3.0 40.5 + - + +
104C ALA* 3.7 10.5 - - - +
106C PHE* 1.3 76.7 - - - +
108C LYS* 1.3 62.9 + - - +
110C ASN* 3.3 2.7 + - - +
111C GLU* 3.1 28.4 + - + +
129C ILE* 3.8 27.2 - - + +
133C GLU* 3.2 26.4 + - - -
117D SER 5.5 4.0 + - - -
119D THR* 5.4 1.6 + - - +
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Residues in contact with LYS 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1C MSE 6.5 0.2 - - + -
6C GLN* 4.1 15.2 + - - +
104C ALA* 3.0 22.5 + - - +
105C GLU* 2.9 43.1 + - - +
107C LYS* 1.3 74.6 - - - +
109C LEU* 1.3 62.8 + - - +
111C GLU* 3.4 7.5 + - - +
112C ALA* 3.0 24.3 + - - +
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Residues in contact with LEU 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C VAL* 4.1 10.8 - - + +
6C GLN* 3.8 25.3 - - + +
7C LEU* 3.7 33.7 - - + -
10C MSE 4.1 15.5 - - - -
105C GLU 2.9 14.4 + - - +
106C PHE* 3.5 11.2 - - + +
107C LYS 3.2 0.2 - - - -
108C LYS* 1.3 76.1 - - - +
110C ASN* 1.3 53.7 + - - +
112C ALA* 3.4 1.8 + - - +
113C ALA* 2.8 32.6 + - - +
121C THR* 3.7 22.2 - - + -
124C PHE* 4.0 24.0 - - + -
125C ALA* 4.1 10.5 - - + -
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Residues in contact with ASN 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C PHE 2.9 16.8 + - - +
107C LYS* 3.6 5.2 - - - +
108C LYS 3.3 0.2 - - - -
109C LEU* 1.3 73.4 - - - +
111C GLU* 1.3 62.1 + - - +
113C ALA* 3.1 3.1 + - - +
114C GLU* 2.8 55.6 + - - +
122C ALA* 3.6 14.6 + - - +
125C ALA* 3.7 11.8 - - + +
126C GLN* 2.8 40.7 + - - +
129C ILE* 4.1 10.5 - - + +
119D THR* 3.9 10.6 - - - +
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Residues in contact with GLU 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C LYS* 3.1 17.9 + - + +
108C LYS* 3.7 9.6 - - - +
110C ASN* 1.3 81.4 - - - +
112C ALA* 1.3 63.8 + - - +
114C GLU* 3.3 22.6 + - - +
115C LYS* 3.0 44.7 + - - +
117D SER* 5.9 2.8 - - - -
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Residues in contact with ALA 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1C MSE 3.8 22.0 - - - +
2C SER* 4.4 1.1 - - - +
3C VAL* 3.6 23.9 - - + +
6C GLN* 5.1 3.1 - - + -
108C LYS 3.0 17.9 + - - +
109C LEU* 3.6 6.1 - - - +
111C GLU* 1.3 77.6 - - - +
113C ALA* 1.3 62.4 + - - +
115C LYS* 3.2 12.4 + - - +
116C GLU* 3.2 20.6 + - - +
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Residues in contact with ALA 113 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C VAL* 3.6 10.9 - - - +
109C LEU 2.8 20.9 + - - +
110C ASN 3.5 4.0 - - - +
112C ALA* 1.3 73.6 - - - +
114C GLU* 1.3 63.0 + - - +
116C GLU* 3.1 3.3 + - - -
117C SER 3.1 3.6 + - - -
118C ASP* 2.9 31.8 + - - +
121C THR* 3.9 13.5 - - + -
122C ALA* 3.4 35.0 - - - +
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Residues in contact with GLU 114 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C ASN* 2.8 47.2 + - - +
111C GLU* 3.5 25.9 - - - +
113C ALA* 1.3 72.8 - - - +
115C LYS* 1.3 64.0 + - + +
117C SER* 3.1 16.0 + - - +
122C ALA* 4.7 7.6 - - + -
126C GLN* 3.7 10.5 + - - +
119D THR* 4.5 6.2 - - - +
----------------------------------------------------------
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Residues in contact with LYS 115 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C GLU* 3.0 38.5 + - - +
112C ALA* 3.6 10.8 - - - +
113C ALA 3.2 0.2 - - - -
114C GLU* 1.3 76.5 - - + +
116C GLU* 1.3 63.9 + - + +
117C SER* 3.5 3.8 + - - -
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Residues in contact with GLU 116 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2C SER* 3.6 13.6 - - - -
3C VAL* 2.9 49.3 + - + +
4C THR* 6.0 0.3 - - - +
61C LEU* 6.0 0.5 - - - +
112C ALA* 3.2 10.8 + - - +
113C ALA 3.1 5.9 + - - +
115C LYS* 1.3 78.6 - - + +
117C SER* 1.3 70.2 + - - +
118C ASP* 3.1 9.5 + - + +
----------------------------------------------------------
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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