Contacts of the helix formed by residues 82 - 112 (chain R) in PDB entry 3IS7
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 82 (chain R).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35R TRP* 4.0 8.1 - - - -
81R GLU* 1.3 80.5 - - - +
83R THR* 1.3 58.3 + - - +
84R GLN* 2.9 30.0 + - - +
85R GLU* 3.0 34.8 + - - +
86R MET* 2.8 35.4 + - - +
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Residues in contact with THR 83 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32R TRP* 3.0 30.8 + - + +
35R TRP* 4.4 3.7 - - - -
37R LEU* 3.9 3.6 - - - +
40R LEU* 4.1 8.5 - - + -
82R ASN* 1.3 75.4 - - - +
84R GLN* 1.3 69.5 + - - +
86R MET* 3.2 10.2 + - - +
87R LEU* 3.0 41.5 + - + +
141R ILE* 4.8 3.4 - - + -
146R LEU* 5.4 0.7 - - - -
149R TYR* 4.3 7.0 - - + -
150R LEU* 3.3 33.1 - - + +
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Residues in contact with GLN 84 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82R ASN* 2.9 29.2 + - - +
83R THR* 1.3 80.0 + - - +
85R GLU* 1.3 63.4 + - + +
87R LEU* 3.9 4.2 - - - +
88R GLN* 3.2 23.4 + - - +
138R LEU* 4.3 7.7 - - + +
141R ILE* 4.1 22.7 - - + -
146R LEU* 3.8 43.5 - - + +
150R LEU* 5.8 0.7 - - - +
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Residues in contact with GLU 85 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80R GLY* 3.8 12.1 - - - -
81R GLU* 3.1 42.4 + - - +
82R ASN* 3.0 31.7 + - - +
84R GLN* 1.3 79.4 - - + +
86R MET* 1.3 52.1 + - - +
88R GLN* 3.3 6.6 + - - +
89R CYS* 2.8 39.6 + - - -
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Residues in contact with MET 86 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28R HIS* 3.5 44.4 - - + +
31R MET* 3.8 22.0 - - + -
32R TRP* 3.5 37.7 - - + +
35R TRP* 3.5 22.9 - - + -
80R GLY* 3.7 15.3 - - - +
82R ASN* 2.8 34.4 + - - +
83R THR* 3.5 8.1 - - - +
85R GLU* 1.3 77.5 - - - +
87R LEU* 1.3 57.2 + - - +
89R CYS 3.3 0.7 + - - +
90R ASP* 3.0 35.5 + - - +
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Residues in contact with LEU 87 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32R TRP* 3.9 19.5 - - + -
40R LEU* 4.8 4.9 - - + -
44R GLU* 5.8 0.9 - - - +
83R THR* 3.0 36.1 + - + +
84R GLN 3.9 0.4 - - - +
86R MET* 1.3 77.4 - - - +
88R GLN* 1.3 57.4 + - - +
90R ASP* 3.4 7.5 + - - +
91R LEU* 2.9 28.6 + - - +
133R TYR* 4.7 5.6 - - + -
134R LEU* 3.8 24.8 - - + +
137R GLN* 3.9 32.5 - - + -
138R LEU* 3.7 27.5 - - + +
141R ILE* 4.1 10.8 - - + -
149R TYR* 4.2 4.7 - - - +
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Residues in contact with GLN 88 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84R GLN 3.2 15.1 + - - +
85R GLU* 3.7 6.1 - - - +
87R LEU* 1.3 76.0 - - - +
89R CYS* 1.3 59.7 + - - +
91R LEU* 3.2 20.0 + - - +
92R ASN* 2.8 65.5 + - - +
95R LEU* 5.6 1.2 - - - +
138R LEU* 3.9 20.3 - - + +
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Residues in contact with CYS 89 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24R GLN* 3.2 7.8 + - - +
28R HIS* 4.2 1.3 - - + -
78R LEU* 3.1 47.1 - - + +
79R ILE 4.0 1.6 - - - -
80R GLY* 3.7 18.6 - - - -
85R GLU* 2.8 25.9 + - - +
86R MET 3.3 5.4 + - - +
88R GLN* 1.3 68.6 - - - +
90R ASP* 1.4 66.8 + - - +
92R ASN* 3.4 8.6 + - - +
93R LEU* 3.0 19.6 + - - +
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Residues in contact with ASP 90 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24R GLN* 3.0 17.2 + - - +
25R TYR* 3.3 19.1 + - + -
28R HIS* 2.8 23.0 + - - -
32R TRP* 4.6 3.3 - - - -
44R GLU* 2.5 32.4 - - - +
86R MET 3.0 16.8 + - - +
87R LEU* 3.6 9.1 - - - +
89R CYS* 1.4 75.3 - - - +
91R LEU* 1.3 62.9 + - - +
93R LEU* 3.2 4.9 + - - +
94R GLU* 3.1 25.3 + - - +
130R HIS* 4.5 0.9 + - + -
134R LEU* 3.9 22.1 - - + +
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Residues in contact with LEU 91 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87R LEU 2.9 17.9 + - - +
88R GLN* 3.5 18.8 - - - +
89R CYS 3.2 0.2 - - - -
90R ASP* 1.3 74.2 - - - +
92R ASN* 1.3 60.3 + - - +
94R GLU* 3.2 2.0 + - - -
95R LEU* 2.9 51.0 + - + +
131R ILE* 4.2 28.9 - - + -
134R LEU* 3.7 16.4 - - + -
135R GLU* 4.2 24.9 - - + +
138R LEU* 4.0 21.8 - - + -
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Residues in contact with ASN 92 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78R LEU* 4.1 13.0 - - + +
88R GLN* 2.8 51.7 + - - +
89R CYS* 3.7 9.7 - - - +
91R LEU* 1.3 72.1 - - - +
93R LEU* 1.3 62.5 + - - +
95R LEU* 3.4 13.9 + - - +
96R LYS* 3.2 22.0 + - - +
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Residues in contact with LEU 93 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17R ASN* 4.8 7.0 - - + +
20R ILE* 3.8 24.9 - - + -
21R ALA* 3.6 41.1 - - + +
24R GLN* 3.8 22.0 - - - +
25R TYR* 4.0 7.0 - - - +
76R LYS 4.9 1.6 - - - +
78R LEU* 4.1 17.0 - - + +
89R CYS 3.0 13.8 + - - +
90R ASP 3.5 8.3 - - - +
92R ASN* 1.3 78.4 - - - +
94R GLU* 1.3 56.4 + - - +
96R LYS* 3.3 15.6 + - + +
97R ALA* 2.8 30.3 + - + +
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Residues in contact with GLU 94 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21R ALA* 4.9 0.9 - - - +
25R TYR* 2.6 27.6 + - - +
51R GLU* 3.1 7.8 - - - +
90R ASP 3.1 11.8 + - - +
91R LEU* 3.7 6.3 - - - +
93R LEU* 1.3 75.1 - - - +
95R LEU* 1.3 66.6 + - - +
97R ALA* 3.8 8.5 - - - +
98R THR* 2.9 29.2 + - - -
127R GLU* 2.5 48.4 - - - +
130R HIS* 3.1 21.5 + - + +
131R ILE* 3.5 23.8 - - + -
134R LEU* 4.2 6.7 - - + -
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Residues in contact with LEU 95 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88R GLN* 5.6 1.1 - - - +
91R LEU* 2.9 47.8 + - + +
92R ASN* 3.7 13.7 - - - +
94R GLU* 1.3 75.0 - - - +
96R LYS* 1.3 62.9 + - - +
98R THR* 3.6 10.0 + - + +
99R LYS* 3.2 22.0 + - - +
131R ILE* 4.5 14.6 - - + -
135R GLU* 5.5 3.6 - - - +
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Residues in contact with LYS 96 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13R LYS* 4.1 13.5 - - - +
17R ASN* 4.1 14.8 + - - +
20R ILE* 6.4 1.6 - - - -
92R ASN 3.2 10.6 + - - +
93R LEU* 3.5 17.5 - - + +
94R GLU 3.2 0.2 - - - -
95R LEU* 1.3 79.9 - - - +
97R ALA* 1.4 63.8 + - - +
99R LYS* 3.3 15.9 + - - +
100R ASP* 2.7 56.6 + - - +
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Residues in contact with ALA 97 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14R ILE* 4.6 0.9 - - - +
17R ASN* 3.7 28.6 + - + +
18R GLU* 6.1 0.7 - - - +
93R LEU* 2.8 22.1 + - + +
94R GLU* 3.3 19.7 + - - +
96R LYS* 1.4 73.3 - - - +
98R THR* 1.3 57.8 + - - +
100R ASP* 3.4 3.3 + - - +
101R LEU* 2.9 38.6 + - + +
127R GLU* 5.2 4.7 - - + -
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Residues in contact with THR 98 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94R GLU 2.9 17.0 + - - +
95R LEU* 3.7 14.1 - - + +
97R ALA* 1.3 74.0 - - - +
99R LYS* 1.3 65.1 + - - +
101R LEU* 3.5 8.1 + - - +
102R ARG* 3.2 55.0 + - - +
124R LEU* 3.9 13.9 - - - +
127R GLU* 4.1 11.3 - - - +
128R GLU* 4.7 1.9 - - - +
131R ILE* 3.6 20.4 - - + +
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Residues in contact with LYS 99 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13R LYS* 5.4 2.6 - - - +
95R LEU 3.2 13.7 + - - +
96R LYS* 3.3 19.1 + - - +
98R THR* 1.3 78.5 - - + +
100R ASP* 1.3 84.6 + - - +
102R ARG* 3.4 11.5 + - + +
103R GLU* 3.2 45.8 + - + +
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Residues in contact with ASP 100 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10R HIS* 4.9 1.6 + - - -
13R LYS* 3.8 22.5 + - + -
14R ILE* 3.7 10.7 - - + +
17R ASN* 2.8 27.3 + - - +
96R LYS* 2.7 39.5 + - - +
97R ALA 3.7 2.9 - - - +
99R LYS* 1.3 98.4 + - - +
101R LEU* 1.3 58.4 + - - +
103R GLU* 3.2 9.0 + - - +
104R ALA* 2.8 29.6 + - - +
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Residues in contact with LEU 101 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14R ILE* 3.3 37.1 - - + +
18R GLU* 5.5 0.4 - - - +
97R ALA* 2.9 24.9 + - + +
98R THR* 3.7 6.1 - - - +
99R LYS 3.3 0.2 - - - -
100R ASP* 1.3 75.1 - - - +
102R ARG* 1.3 57.4 + - - +
104R ALA* 3.2 2.9 + - - +
105R ILE* 2.9 36.4 + - + +
120R LEU* 3.6 26.9 - - + +
123R ILE* 4.0 11.4 - - + -
124R LEU* 3.8 42.8 - - + -
127R GLU* 3.9 20.4 - - + -
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Residues in contact with ARG 102 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98R THR* 3.2 37.6 + - - +
99R LYS* 3.6 11.8 - - + +
101R LEU* 1.3 74.8 - - - +
103R GLU* 1.3 67.9 + - + +
105R ILE* 3.1 2.8 + - - +
106R VAL* 3.0 27.8 + - - +
124R LEU* 3.9 17.5 - - + +
128R GLU* 3.1 31.5 + - - +
111S VAL 5.3 0.7 - - - -
112S HIS* 3.0 43.5 + - + +
113S ASP* 4.2 9.3 + - - +
114S TYR* 4.1 17.5 - - + +
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Residues in contact with GLU 103 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10R HIS* 3.9 19.8 - - + -
99R LYS* 3.2 46.4 + - + +
100R ASP* 3.2 9.6 + - - +
102R ARG* 1.3 78.6 - - + +
104R ALA* 1.3 63.6 + - - +
106R VAL* 3.5 8.0 + - - +
107R HIS* 3.2 18.0 + - - +
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Residues in contact with ALA 104 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10R HIS* 3.5 34.9 + - + +
14R ILE* 4.3 14.6 - - + -
100R ASP 2.8 16.6 + - - +
101R LEU* 3.7 4.9 - - - +
103R GLU* 1.3 77.3 - - - +
105R ILE* 1.3 63.2 + - - +
107R HIS* 3.3 3.3 + - - +
108R CYS* 3.2 24.8 + - - -
120R LEU* 3.8 19.1 - - + -
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Residues in contact with ILE 105 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101R LEU* 2.9 21.5 + - + +
102R ARG 3.7 4.0 - - - +
104R ALA* 1.3 74.5 - - - +
106R VAL* 1.4 66.6 + - - +
108R CYS* 3.0 8.9 + - - +
109R GLU* 3.0 22.3 + - - +
117R ARG* 3.8 28.1 + - + +
120R LEU* 3.6 24.5 - - + +
121R LYS* 3.8 26.7 - - + +
124R LEU* 4.2 11.2 - - + -
114S TYR* 3.5 46.9 - - + -
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Residues in contact with VAL 106 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102R ARG 3.0 12.0 + - - +
103R GLU* 3.7 10.1 - - - +
105R ILE* 1.4 77.3 - - - +
107R HIS* 1.3 66.1 + - - +
108R CYS 3.2 0.2 + - - -
109R GLU* 3.3 7.2 + - - +
110R GLN* 3.1 26.6 + - + +
112S HIS* 3.5 30.1 - - + +
114S TYR* 3.0 25.6 - - - +
----------------------------------------------------------
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Residues in contact with HIS 107 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4R ASP* 2.8 25.6 + - - -
6R LYS* 3.1 32.1 - - + +
7R VAL* 3.6 30.5 - - + -
10R HIS* 3.9 22.1 + + + +
103R GLU 3.2 7.1 + - - +
104R ALA 3.7 7.4 - - - +
106R VAL* 1.3 80.6 - - - +
108R CYS* 1.3 63.7 + - - +
110R GLN* 3.0 28.9 + - - +
111R VAL* 3.0 38.1 + - + +
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Residues in contact with CYS 108 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7R VAL* 4.4 18.4 - - - -
10R HIS* 6.2 1.1 - - - -
11R LEU* 5.6 0.4 - - - -
104R ALA* 3.2 16.5 + - - -
105R ILE 3.0 9.5 + - - +
107R HIS* 1.3 77.0 - - - +
109R GLU* 1.3 65.7 + - - +
111R VAL* 3.3 7.7 + - - -
112R HIS 3.0 18.0 + - - -
113R ASP* 3.1 25.2 + - - +
116R SER* 3.8 27.4 - - - -
117R ARG* 4.0 13.0 - - + -
120R LEU* 4.0 16.4 - - - -
----------------------------------------------------------
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Residues in contact with GLU 109 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105R ILE 3.0 9.2 + - - +
106R VAL* 3.5 11.2 - - - +
108R CYS* 1.3 78.8 - - - +
110R GLN* 1.3 63.8 + - - +
112R HIS* 3.1 20.7 + - - +
114R TYR* 3.6 21.4 + - - -
117R ARG* 2.9 43.0 + - - +
109S GLU* 4.4 5.5 - - - +
109V GLU* 4.1 11.6 - - - +
117V ARG* 2.6 27.7 + - - -
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Residues in contact with GLN 110 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6R LYS* 6.0 0.6 - - - +
106R VAL* 3.1 14.7 + - + +
107R HIS* 3.0 36.8 + - - +
109R GLU* 1.3 80.1 - - - +
111R VAL* 1.3 66.8 + - + +
112R HIS* 3.5 12.5 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4R ASP* 3.9 20.6 - - + +
7R VAL* 3.8 28.0 - - + -
107R HIS* 3.0 36.9 + - + +
108R CYS* 3.6 6.5 - - - +
109R GLU 3.2 0.2 - - - -
110R GLN* 1.3 85.5 - - + +
112R HIS* 1.3 71.7 + - - +
113R ASP* 3.3 6.3 + - + +
102V ARG* 5.3 0.7 - - - -
----------------------------------------------------------
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Residues in contact with HIS 112 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108R CYS 3.0 6.2 + - - -
109R GLU 3.1 13.5 + - - -
110R GLN 3.6 10.2 + - - -
111R VAL* 1.3 79.8 + - - +
113R ASP* 1.3 59.1 + - - +
114R TYR* 3.0 46.0 + - + -
102V ARG* 2.8 40.6 + - + +
103V GLU* 6.2 0.2 - - - -
106V VAL* 3.4 24.2 - - + +
----------------------------------------------------------
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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