Contacts of the helix formed by residues 82 - 112 (chain V) 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 V).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143E LYS* 6.6 0.2 - - - -
35V TRP* 4.2 5.2 - - - -
80V GLY 3.5 0.2 - - - -
81V GLU* 1.3 80.0 - - - +
83V THR* 1.3 58.5 + - - +
84V GLN* 3.4 10.0 + - - +
85V GLU* 3.0 36.7 + - - +
86V MET* 2.8 39.4 + - - +
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Residues in contact with THR 83 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32V TRP* 2.8 36.0 + - + +
35V TRP* 4.4 4.0 - - - -
37V LEU* 3.6 13.9 - - - +
40V LEU* 3.9 11.4 - - + -
82V ASN* 1.3 75.5 - - - +
84V GLN* 1.3 58.5 + - - +
86V MET* 3.1 4.1 + - - +
87V LEU* 2.9 47.1 + - + +
141V ILE* 4.8 2.7 - - + -
146V LEU* 5.4 2.9 - - + -
149V TYR* 4.3 6.7 - - + -
150V LEU* 3.7 26.2 - - + +
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Residues in contact with GLN 84 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82V ASN* 3.3 9.6 + - - +
83V THR* 1.3 82.0 - - - +
85V GLU* 1.3 60.7 + - + +
87V LEU* 3.5 3.8 + - - +
88V GLN* 3.2 23.2 + - + +
138V LEU* 4.4 14.2 + - + +
141V ILE* 4.1 34.1 - - + +
142V GLN* 3.8 23.3 + - - +
146V LEU* 4.6 16.0 - - + +
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Residues in contact with GLU 85 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80V GLY* 3.6 10.6 - - - -
81V GLU* 3.2 37.3 + - - +
82V ASN* 3.0 31.3 + - - +
84V GLN* 1.3 74.9 - - + +
86V MET* 1.3 61.7 + - - +
88V GLN* 3.8 6.4 - - - +
89V CYS* 2.8 39.6 + - - -
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Residues in contact with MET 86 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28V HIS* 3.6 55.8 - - + +
31V MET* 3.8 22.2 - - + -
32V TRP* 3.5 38.1 - - + +
35V TRP* 3.4 27.1 - - + -
80V GLY* 3.8 12.1 - - - +
82V ASN* 2.8 31.7 + - - +
83V THR 3.5 3.6 - - - +
85V GLU* 1.3 75.0 - - - +
87V LEU* 1.3 63.5 + - - +
89V CYS* 3.3 1.0 + - - +
90V ASP* 3.1 29.1 + - - +
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Residues in contact with LEU 87 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32V TRP* 4.3 18.2 - - + -
40V LEU* 5.0 2.0 - - + -
44V GLU* 6.0 0.4 - - - +
83V THR* 2.9 36.9 + - + +
84V GLN 3.9 0.7 - - - +
86V MET* 1.3 77.2 - - - +
88V GLN* 1.3 56.8 + - - +
90V ASP* 3.3 7.2 + - - +
91V LEU* 2.9 28.2 + - - +
133V TYR* 4.6 7.6 - - + +
134V LEU* 3.8 27.6 - - + +
137V GLN* 4.1 30.1 - - + -
138V LEU* 3.8 19.7 - - + -
141V ILE* 4.1 20.4 - - + -
149V TYR* 4.2 6.7 - - - +
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Residues in contact with GLN 88 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84V GLN* 3.2 15.9 + - + +
85V GLU* 3.8 7.4 - - - +
86V MET 3.3 0.2 - - - -
87V LEU* 1.3 77.0 - - - +
89V CYS* 1.3 60.6 + - - +
91V LEU* 3.1 19.3 + - - +
92V ASN* 2.6 62.6 + - - +
95V LEU* 5.8 0.6 - - - +
138V LEU* 4.1 19.0 - - + +
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Residues in contact with CYS 89 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24V GLN* 3.4 7.6 + - - +
28V HIS* 4.3 1.8 - - + -
78V LEU* 3.3 46.0 - - + +
79V ILE 4.1 1.1 - - - -
80V GLY* 3.7 19.1 - - - -
85V GLU* 2.8 31.9 + - - +
86V MET 3.7 4.0 - - - +
88V GLN* 1.3 73.4 - - - +
90V ASP* 1.3 63.8 + - - +
92V ASN* 3.3 8.8 + - - +
93V LEU* 3.0 19.8 + - - +
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Residues in contact with ASP 90 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24V GLN* 3.0 17.8 + - - +
25V TYR* 3.2 21.8 + - + -
28V HIS* 2.9 23.8 + - - -
32V TRP* 4.7 4.5 - - - -
44V GLU* 2.4 32.7 - - - +
86V MET 3.1 12.8 + - - +
87V LEU* 3.6 7.7 - - - +
89V CYS* 1.3 78.8 - - - +
91V LEU* 1.3 63.6 + - - +
93V LEU* 3.4 2.5 + - - +
94V GLU* 3.0 26.9 + - - +
130V HIS* 4.5 0.9 + - + -
134V LEU* 4.0 21.9 - - + +
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Residues in contact with LEU 91 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87V LEU 2.9 14.6 + - - +
88V GLN* 3.1 22.0 + - - +
90V ASP* 1.3 77.1 - - - +
92V ASN* 1.3 64.8 + - - +
94V GLU* 3.1 3.6 + - - +
95V LEU* 2.8 41.1 + - + +
131V ILE* 4.0 34.3 - - + -
134V LEU* 4.1 19.9 - - + +
135V GLU* 4.2 19.7 - - + +
138V LEU* 4.1 20.4 - - + -
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Residues in contact with ASN 92 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78V LEU* 4.1 14.3 - - + +
88V GLN* 2.6 54.3 + - - +
89V CYS* 3.3 10.1 + - - +
91V LEU* 1.3 73.0 - - - +
93V LEU* 1.3 62.2 + - - +
95V LEU* 3.2 13.5 + - - +
96V LYS* 3.1 22.2 + - - +
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Residues in contact with LEU 93 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17V ASN* 4.9 6.7 - - + +
20V ILE* 3.7 30.1 - - + -
21V ALA* 3.6 37.5 - - + +
24V GLN* 3.6 26.7 - - - +
25V TYR* 4.2 8.1 - - + +
76V LYS 5.0 0.9 - - - +
78V LEU* 4.1 13.3 - - + +
89V CYS 3.0 17.9 + - - +
90V ASP 3.7 4.5 - - - +
91V LEU 3.2 0.2 - - - -
92V ASN* 1.3 74.7 - - - +
94V GLU* 1.3 62.4 + - - +
96V LYS* 3.2 14.2 + - + +
97V ALA* 3.0 24.2 + - + +
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Residues in contact with GLU 94 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21V ALA* 4.8 1.9 - - - +
25V TYR* 2.4 30.3 + - - +
51V GLU* 3.3 11.3 - - - +
90V ASP 3.0 15.8 + - - +
91V LEU* 3.6 5.8 - - - +
93V LEU* 1.3 78.3 - - - +
95V LEU* 1.3 58.5 + - - +
97V ALA* 3.9 7.1 - - - +
98V THR* 2.9 32.4 + - - -
127V GLU* 2.6 44.6 - - - +
130V HIS* 3.4 21.4 + - + +
131V ILE* 3.7 20.0 - - + -
134V LEU* 4.1 6.7 - - + -
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Residues in contact with LEU 95 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88V GLN* 5.8 0.4 - - - +
91V LEU* 2.8 48.6 + - + +
92V ASN* 3.2 12.3 + - - +
94V GLU* 1.3 70.8 - - - +
96V LYS* 1.3 63.9 + - - +
98V THR* 3.7 9.6 - - + +
99V LYS* 3.2 21.7 + - - +
131V ILE* 4.1 21.1 - - + -
135V GLU* 5.3 3.4 - - - +
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Residues in contact with LYS 96 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13V LYS* 4.1 11.7 - - - +
17V ASN* 3.7 17.2 + - - +
20V ILE* 6.5 0.7 - - - -
92V ASN 3.1 11.8 + - - +
93V LEU* 3.2 15.5 + - + +
95V LEU* 1.3 77.7 - - - +
97V ALA* 1.3 64.0 + - - +
99V LYS* 3.2 6.9 + - + +
100V ASP* 2.3 61.7 + - - +
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Residues in contact with ALA 97 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14V ILE* 4.9 0.5 - - - +
17V ASN* 3.7 31.1 + - + +
18V GLU* 6.0 1.8 - - - +
93V LEU* 3.0 21.5 + - + +
94V GLU* 3.4 15.9 + - - +
96V LYS* 1.3 74.1 - - - +
98V THR* 1.3 57.0 + - - +
100V ASP* 3.3 3.1 + - - +
101V LEU* 2.9 40.0 + - + +
127V GLU* 5.1 5.8 - - + +
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Residues in contact with THR 98 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94V GLU 2.9 16.3 + - - +
95V LEU* 3.7 15.3 - - + +
97V ALA* 1.3 77.4 - - - +
99V LYS* 1.3 66.0 + - - +
101V LEU* 3.3 9.8 + - - +
102V ARG* 3.1 52.1 + - - +
124V LEU* 3.8 11.0 - - - +
127V GLU* 3.8 21.5 - - - +
128V GLU* 4.6 2.1 + - + +
131V ILE* 3.9 14.9 - - + +
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Residues in contact with LYS 99 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95V LEU 3.2 9.0 + - - +
96V LYS* 3.2 12.7 + - + +
98V THR* 1.3 83.3 - - + +
100V ASP* 1.3 65.6 + - - +
101V LEU 3.2 0.5 + - - -
102V ARG* 3.3 9.7 + - + +
103V GLU* 3.2 39.7 + - + +
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Residues in contact with ASP 100 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10V HIS* 4.9 2.3 + - - -
13V LYS* 3.6 25.3 + - + -
14V ILE* 3.7 11.0 - - + +
17V ASN* 2.8 24.6 + - - +
96V LYS* 2.3 48.9 + - - +
97V ALA 3.9 0.7 - - - +
99V LYS* 1.3 79.9 - - - +
101V LEU* 1.3 56.9 + - - +
103V GLU* 3.5 13.5 + - - +
104V ALA* 3.0 28.4 + - - +
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Residues in contact with LEU 101 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14V ILE* 3.4 41.0 - - + +
18V GLU* 5.5 0.9 - - - +
97V ALA* 2.9 28.4 + - + +
98V THR* 3.6 9.0 - - - +
99V LYS 3.2 0.2 - - - -
100V ASP* 1.3 75.6 - - - +
102V ARG* 1.3 66.1 + - - +
104V ALA* 3.3 2.0 + - - +
105V ILE* 2.9 31.0 + - + +
120V LEU* 4.0 28.0 - - + +
123V ILE* 4.1 14.1 - - + -
124V LEU* 4.2 16.8 - - + -
127V GLU* 3.9 28.0 - - + -
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Residues in contact with ARG 102 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111R VAL 5.3 0.4 - - - -
112R HIS* 2.8 55.3 + - + +
113R ASP* 4.1 8.7 + - - +
114R TYR* 4.0 16.3 - - + +
98V THR* 3.1 36.5 + - - +
99V LYS* 3.3 9.7 + - - +
101V LEU* 1.3 75.9 - - - +
103V GLU* 1.3 59.2 + - + +
105V ILE* 3.2 3.3 + - - +
106V VAL* 2.9 33.7 + - - +
124V LEU* 3.7 19.6 - - + +
128V GLU* 3.0 30.3 + - - +
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Residues in contact with GLU 103 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112R HIS* 6.1 0.2 - - - -
10V HIS* 4.1 15.6 + - + -
13V LYS* 5.5 4.4 + - - -
99V LYS* 3.2 31.3 + - + +
100V ASP* 3.9 14.0 - - - +
101V LEU 3.3 0.2 - - - -
102V ARG* 1.3 74.4 - - + +
104V ALA* 1.3 65.2 + - - +
106V VAL* 3.4 10.1 + - - +
107V HIS* 3.2 21.0 + - - +
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Residues in contact with ALA 104 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10V HIS* 3.7 34.8 + - + +
14V ILE* 4.4 11.7 - - + -
100V ASP 3.0 19.0 + - - +
101V LEU 3.7 3.1 - - - +
103V GLU* 1.3 76.3 - - - +
105V ILE* 1.3 58.4 + - - +
107V HIS* 3.1 3.6 + - - +
108V CYS* 2.9 31.2 + - - -
120V LEU* 3.5 22.2 - - + -
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Residues in contact with ILE 105 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114R TYR* 3.5 46.4 - - + -
101V LEU 2.9 22.0 + - - +
102V ARG 3.5 4.0 - - - +
104V ALA* 1.3 75.9 - - - +
106V VAL* 1.3 67.0 - - - +
108V CYS* 3.2 7.6 + - - +
109V GLU* 3.0 23.2 + - - +
117V ARG* 3.9 28.0 + - + +
120V LEU* 3.7 23.3 - - + +
121V LYS* 4.1 20.9 - - + +
124V LEU* 4.0 18.2 - - + -
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Residues in contact with VAL 106 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112R HIS* 3.4 30.5 - - + +
114R TYR* 3.1 22.7 - - - +
102V ARG 2.9 18.1 + - - +
103V GLU* 3.6 10.8 - - - +
105V ILE* 1.3 77.3 - - - +
107V HIS* 1.3 65.5 + - - +
109V GLU* 3.4 7.0 + - - +
110V GLN* 3.2 28.0 + - + +
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Residues in contact with HIS 107 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4V ASP* 3.1 21.9 + - - -
6V LYS* 3.3 31.0 - - + +
7V VAL* 3.5 27.4 - - + -
10V HIS* 3.9 19.8 + + + +
103V GLU 3.2 8.5 + - - +
104V ALA 3.1 8.5 + - - +
106V VAL* 1.3 79.3 - - + +
108V CYS* 1.3 66.6 + - - +
110V GLN* 3.2 21.0 + - - +
111V VAL* 3.0 40.3 + - + +
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Residues in contact with CYS 108 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7V VAL* 4.2 27.1 - - - -
10V HIS* 6.0 1.8 - - - -
11V LEU* 5.4 1.1 - - - -
104V ALA* 2.9 17.1 + - - +
105V ILE 3.2 7.6 + - - +
107V HIS* 1.3 75.8 - - - +
109V GLU* 1.3 63.2 + - - +
111V VAL* 3.3 1.1 + - - -
112V HIS 3.0 18.9 + - - -
113V ASP* 3.0 27.0 + - - +
116V SER* 3.8 26.2 - - - -
117V ARG* 4.0 11.4 - - + +
120V LEU* 3.9 16.2 - - - -
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Residues in contact with GLU 109 (chain V).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109R GLU* 4.1 8.3 - - - +
109S GLU* 4.3 9.0 - - - +
117S ARG* 2.7 27.0 + - - -
105V ILE 3.0 12.9 + - - +
106V VAL* 3.5 11.7 - - - +
108V CYS* 1.3 75.8 - - - +
110V GLN* 1.3 63.7 + - - +
112V HIS* 3.1 23.2 + - - -
114V TYR* 3.5 25.5 + - - -
117V ARG* 2.9 41.4 + - - +
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Residues in contact with GLN 110 (chain V).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106V VAL* 3.2 18.2 + - + +
107V HIS* 3.2 22.2 + - - +
109V GLU* 1.3 82.0 - - - +
111V VAL* 1.3 74.5 + - - +
112V HIS* 3.3 13.2 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain V).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102S ARG* 5.4 0.3 - - - -
4V ASP* 4.0 22.2 - - + +
7V VAL* 3.6 31.2 - - + -
107V HIS* 3.0 37.8 + - + +
108V CYS 4.0 3.6 - - - +
110V GLN* 1.3 87.0 - - - +
112V HIS* 1.3 71.8 + - - +
113V ASP* 3.5 6.4 + - + +
----------------------------------------------------------
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Residues in contact with HIS 112 (chain V).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102S ARG* 2.9 40.7 + - + +
103S GLU* 6.5 0.2 - - - -
106S VAL* 3.2 23.3 - - + +
108V CYS 3.0 3.4 + - - -
109V GLU 3.1 15.8 + - - -
110V GLN 3.9 9.9 + - - -
111V VAL* 1.3 82.1 + - - +
113V ASP* 1.3 58.8 + - - +
114V TYR* 3.2 44.2 + + + -
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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).
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