Contacts of the helix formed by residues 82 - 111 (chain E) 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 E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35E TRP* 3.9 7.4 - - - -
80E GLY 3.5 0.6 - - - -
81E GLU* 1.3 79.6 - - - +
83E THR* 1.3 63.8 + - - +
84E GLN* 3.2 12.2 + - - +
85E GLU* 2.9 37.8 + - - +
86E MET* 3.0 25.5 + - - +
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Residues in contact with THR 83 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32E TRP* 2.9 34.8 + - + +
35E TRP* 4.3 4.7 - - - -
37E LEU* 3.8 4.7 - - - +
40E LEU* 4.0 11.0 - - + -
82E ASN* 1.3 73.7 - - - +
84E GLN* 1.3 65.0 + - - +
86E MET* 3.2 4.2 + - - +
87E LEU* 3.0 42.8 + - + +
141E ILE* 4.8 3.4 - - + -
146E LEU* 5.1 3.4 - - + -
149E TYR* 4.2 7.0 - - + -
150E LEU* 3.5 34.4 - - + +
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Residues in contact with GLN 84 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82E ASN* 3.4 11.0 - - - +
83E THR* 1.3 77.4 - - - +
85E GLU* 1.3 63.6 + - + +
87E LEU* 3.6 4.3 + - - +
88E GLN* 3.3 22.4 + - + +
138E LEU* 4.2 15.3 + - + +
141E ILE* 3.9 43.4 - - + +
142E GLN* 4.0 13.8 + - - +
146E LEU* 4.3 19.2 - - + +
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Residues in contact with GLU 85 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80E GLY* 3.9 7.1 - - - -
81E GLU* 3.1 34.4 + - - +
82E ASN* 2.9 29.7 + - - +
84E GLN* 1.3 78.6 - - + +
86E MET* 1.3 61.3 + - - +
88E GLN* 3.8 6.0 - - - +
89E CYS* 3.0 35.6 + - - -
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Residues in contact with MET 86 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E HIS* 3.6 49.1 - - + +
31E MET* 3.9 21.8 - - + -
32E TRP* 3.4 42.8 - - + +
35E TRP* 3.4 26.2 - - + -
80E GLY* 3.9 13.9 - - - -
82E ASN 3.0 26.4 + - - +
83E THR 3.6 3.8 - - - +
85E GLU* 1.3 76.1 - - - +
87E LEU* 1.3 61.7 + - - +
89E CYS* 3.4 3.1 + - - +
90E ASP* 3.1 28.3 + - - +
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Residues in contact with LEU 87 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32E TRP* 4.1 19.3 - - + -
40E LEU* 4.7 5.4 - - + -
44E GLU* 5.7 0.4 - - - +
83E THR* 3.0 36.5 + - + +
84E GLN 3.9 3.6 - - - +
86E MET* 1.3 75.3 - - - +
88E GLN* 1.3 57.4 + - - +
90E ASP* 3.2 8.4 + - - +
91E LEU* 2.8 29.5 + - - +
133E TYR* 4.7 5.4 - - + -
134E LEU* 3.8 26.7 - - + +
137E GLN* 4.2 28.7 - - + -
138E LEU* 4.0 16.4 - - + -
141E ILE* 4.2 19.1 - - + -
149E TYR* 4.4 5.2 - - - +
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Residues in contact with GLN 88 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E GLN 3.3 15.5 + - - +
85E GLU* 3.8 7.4 - - - +
87E LEU* 1.3 78.1 - - - +
89E CYS* 1.3 58.0 + - - +
91E LEU* 3.1 20.6 + - - +
92E ASN* 2.8 63.9 + - - +
95E LEU* 6.1 0.6 - - - +
138E LEU* 3.7 22.0 - - + +
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Residues in contact with CYS 89 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24E GLN* 3.4 8.5 + - - +
28E HIS* 4.3 1.1 - - + -
78E LEU* 3.4 46.9 - - + +
79E ILE 4.2 2.2 - - - -
80E GLY* 4.0 13.5 - - - -
85E GLU* 3.0 26.8 + - - +
86E MET 3.5 5.4 - - - +
88E GLN* 1.3 73.4 - - - +
90E ASP* 1.3 60.9 + - - +
92E ASN* 3.3 11.1 + - - +
93E LEU* 2.9 25.1 + - - +
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Residues in contact with ASP 90 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24E GLN* 2.8 28.9 + - - +
25E TYR* 3.2 22.1 - - + -
28E HIS* 3.1 16.2 + - - -
32E TRP* 4.8 2.4 - - - -
44E GLU* 2.4 31.2 - - - +
86E MET 3.1 13.2 + - - +
87E LEU* 3.5 8.8 - - - +
89E CYS* 1.3 79.4 - - - +
91E LEU* 1.3 63.6 + - - +
93E LEU* 3.3 1.9 + - - +
94E GLU* 2.9 27.5 + - - +
130E HIS* 4.7 1.7 + - + -
134E LEU* 4.1 21.2 - - + +
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Residues in contact with LEU 91 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87E LEU 2.8 14.5 + - - +
88E GLN* 3.4 23.3 - - - +
90E ASP* 1.3 77.2 - - - +
92E ASN* 1.3 57.3 + - - +
94E GLU* 3.1 1.5 + - - +
95E LEU* 2.9 51.5 + - + +
131E ILE* 4.1 31.4 - - + -
134E LEU* 4.0 17.0 - - + +
135E GLU* 4.1 25.1 - - + +
138E LEU* 3.9 24.5 - - + -
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Residues in contact with ASN 92 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78E LEU* 4.1 12.7 - - + +
88E GLN* 2.8 54.6 + - - +
89E CYS* 3.3 10.2 + - - +
91E LEU* 1.3 73.0 - - - +
93E LEU* 1.3 63.8 + - - +
95E LEU* 3.3 11.8 + - - +
96E LYS* 3.2 21.7 + - - +
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Residues in contact with LEU 93 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E ASN* 5.0 5.6 - - + +
20E ILE* 3.8 27.8 - - + -
21E ALA* 3.7 37.7 - - + -
24E GLN* 3.6 25.6 - - - +
25E TYR* 3.8 9.2 - - - +
76E LYS 5.0 1.6 - - - +
78E LEU* 4.1 12.5 - - + +
89E CYS 2.9 17.1 + - - +
90E ASP 3.5 4.7 - - - +
92E ASN* 1.3 78.6 - - - +
94E GLU* 1.3 57.9 + - - +
96E LYS* 3.3 12.7 + - + +
97E ALA* 2.9 28.6 + - + +
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Residues in contact with GLU 94 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21E ALA* 5.2 1.1 - - - +
25E TYR* 2.7 26.7 + - - +
51E GLU* 3.2 7.0 - - - +
90E ASP 2.9 16.8 + - - +
91E LEU* 3.8 3.8 - - - +
93E LEU* 1.3 77.3 - - - +
95E LEU* 1.3 63.1 + - - +
97E ALA* 3.3 9.6 + - - +
98E THR* 3.1 27.5 + - - -
127E GLU* 2.7 43.9 - - - +
130E HIS* 2.8 31.1 + - + +
131E ILE* 3.8 21.1 - - + -
134E LEU* 4.3 4.5 - - + -
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Residues in contact with LEU 95 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88E GLN* 6.1 0.2 - - - +
91E LEU* 2.9 38.7 + - + +
92E ASN* 3.8 11.9 - - - +
93E LEU 3.2 0.2 - - - -
94E GLU* 1.3 75.8 - - - +
96E LYS* 1.3 63.4 + - - +
98E THR* 3.5 11.0 - - + +
99E LYS* 3.3 21.4 + - - +
131E ILE* 4.2 20.9 - - + -
135E GLU* 5.9 2.0 - - - +
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Residues in contact with LYS 96 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13E LYS* 4.6 9.1 - - - +
17E ASN* 4.6 11.7 + - - +
92E ASN 3.2 12.6 + - - +
93E LEU* 3.5 15.5 - - + +
95E LEU* 1.3 76.3 - - - +
97E ALA* 1.3 63.5 + - - +
98E THR 3.1 0.3 + - - -
99E LYS* 3.2 26.6 + - - +
100E ASP* 3.0 51.5 + - - +
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Residues in contact with ALA 97 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E ASN* 4.0 26.7 + - + +
18E GLU* 5.9 2.0 - - - +
93E LEU* 2.9 18.9 + - + +
94E GLU* 3.3 22.6 + - - +
96E LYS* 1.3 72.4 - - - +
98E THR* 1.3 57.4 + - - +
100E ASP* 3.4 4.3 + - - +
101E LEU* 3.0 41.6 + - + +
127E GLU* 4.9 6.1 - - + -
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Residues in contact with THR 98 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94E GLU 3.1 14.7 + - - +
95E LEU* 3.5 19.7 - - + +
97E ALA* 1.3 73.0 - - - +
99E LYS* 1.3 63.2 + - - +
101E LEU* 3.3 9.1 + - - +
102E ARG* 3.0 54.7 + - - +
124E LEU* 3.7 17.2 - - - +
127E GLU* 4.0 11.1 - - - +
128E GLU* 4.4 3.6 - - - +
131E ILE* 3.8 20.6 - - + +
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Residues in contact with LYS 99 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95E LEU 3.3 8.2 + - - +
96E LYS* 3.2 29.7 + - - +
98E THR* 1.3 83.9 - - + +
100E ASP* 1.3 72.6 + - - +
102E ARG* 3.3 9.2 + - - +
103E GLU* 3.2 41.1 + - + +
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Residues in contact with ASP 100 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10E HIS* 4.9 1.9 + - - -
13E LYS* 3.8 29.3 + - + -
14E ILE* 3.7 11.2 - - + +
17E ASN* 2.8 32.6 + - - +
96E LYS* 3.0 37.7 + - - +
97E ALA 3.8 2.7 - - - +
99E LYS* 1.3 88.5 + - - +
101E LEU* 1.3 56.8 + - - +
103E GLU* 3.2 12.1 + - - +
104E ALA* 2.8 30.8 + - - +
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Residues in contact with LEU 101 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14E ILE* 3.5 35.6 - - + +
18E GLU* 5.3 1.1 - - - +
97E ALA* 3.0 36.4 + - + +
98E THR* 3.6 8.5 - - - +
99E LYS 3.3 0.4 - - - -
100E ASP* 1.3 75.1 - - - +
102E ARG* 1.3 60.2 + - - +
104E ALA* 3.2 3.0 + - - +
105E ILE* 2.8 35.6 + - + +
120E LEU* 3.7 39.5 - - + +
123E ILE* 4.0 19.5 - - + -
124E LEU* 4.1 17.3 - - + -
127E GLU* 4.3 13.5 - - + -
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Residues in contact with ARG 102 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98E THR* 3.0 41.0 + - - +
99E LYS* 3.6 8.0 - - - +
101E LEU* 1.3 77.6 - - - +
103E GLU* 1.3 63.3 + - + +
105E ILE* 3.2 4.0 + - - +
106E VAL* 3.0 27.6 + - - +
124E LEU* 3.6 21.0 - - + +
128E GLU* 2.7 33.1 + - - +
111U VAL 5.3 0.9 - - - -
112U HIS* 2.9 44.2 + - + +
113U ASP* 4.2 4.2 - - - +
114U TYR* 4.0 18.9 - - + +
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Residues in contact with GLU 103 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10E HIS* 4.1 16.3 - - + -
13E LYS* 4.8 10.6 + - - -
99E LYS* 3.2 40.2 + - + +
100E ASP* 3.2 13.4 + - - +
102E ARG* 1.3 74.2 - - + +
104E ALA* 1.3 63.6 + - - +
106E VAL* 3.3 10.6 + - - +
107E HIS* 3.1 21.7 + - - +
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Residues in contact with ALA 104 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10E HIS* 3.7 32.2 + - + +
14E ILE* 4.2 12.6 - - + -
100E ASP 2.8 18.1 + - - +
101E LEU 3.4 5.4 - - - +
103E GLU* 1.3 77.1 - - - +
105E ILE* 1.3 62.9 + - - +
107E HIS* 3.2 4.0 + - - +
108E CYS* 3.0 24.8 + - - -
120E LEU* 3.6 21.1 - - + -
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Residues in contact with ILE 105 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101E LEU 2.8 23.5 + - - +
102E ARG 3.2 3.6 + - - +
104E ALA* 1.3 69.0 - - - +
106E VAL* 1.3 68.4 + - - +
108E CYS* 3.2 7.8 + - - +
109E GLU* 2.9 24.1 + - - +
117E ARG* 3.8 26.8 - - + +
120E LEU* 3.8 22.7 - - + +
121E LYS* 4.0 26.7 - - + +
124E LEU* 4.1 12.3 - - + -
114U TYR* 3.5 46.4 - - + -
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Residues in contact with VAL 106 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102E ARG 3.0 16.9 + - - +
103E GLU* 3.5 12.1 - - - +
105E ILE* 1.3 77.0 - - - +
107E HIS* 1.3 63.9 + - - +
109E GLU* 3.3 6.1 + - - +
110E GLN* 3.0 27.3 + - + +
112U HIS* 3.5 27.4 - - + +
114U TYR* 3.1 22.0 - - - +
----------------------------------------------------------
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Residues in contact with HIS 107 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4E ASP* 2.9 22.3 + - - -
6E LYS* 3.2 30.2 - - + +
7E VAL* 3.4 34.5 - - + -
10E HIS* 3.9 23.5 + + + +
103E GLU 3.1 5.4 + - - +
104E ALA 3.7 5.8 - - - +
106E VAL* 1.3 79.4 - - - +
108E CYS* 1.3 66.5 + - - +
110E GLN* 3.1 27.2 + - - +
111E VAL* 3.0 42.2 + - + +
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Residues in contact with CYS 108 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7E VAL* 4.1 19.1 - - - -
10E HIS* 6.1 2.2 - - - -
11E LEU* 5.6 0.4 - - - -
104E ALA* 3.0 21.1 + - - +
105E ILE 3.7 6.3 - - - +
107E HIS* 1.3 73.2 - - - +
109E GLU* 1.3 62.4 + - - +
111E VAL* 3.2 7.4 + - - -
112E HIS 2.9 4.3 + - - -
113E ASP* 2.8 42.6 + - - +
116E SER* 3.7 25.4 - - - -
117E ARG* 3.9 11.7 - - + +
120E LEU* 3.9 17.3 - - - -
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Residues in contact with GLU 109 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109D GLU* 4.1 9.8 - - - +
117D ARG* 2.5 33.4 + - - -
105E ILE 2.9 17.5 + - - +
106E VAL* 3.6 6.3 - - - +
108E CYS* 1.3 73.6 - - - +
110E GLN* 1.3 65.2 + - - +
112E HIS* 3.0 22.9 + - - -
114E TYR* 3.8 17.5 + - - -
117E ARG* 2.6 45.6 + - - +
109U GLU* 4.3 7.0 - - - +
----------------------------------------------------------
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Residues in contact with GLN 110 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106E VAL* 3.0 21.3 + - + +
107E HIS* 3.1 34.5 + - - +
109E GLU* 1.3 78.2 - - - +
111E VAL* 1.3 63.7 + - + +
112E HIS* 3.6 13.9 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102D ARG* 5.4 1.2 - - - -
4E ASP* 3.9 19.7 - - + +
7E VAL* 3.7 26.9 - - + -
107E HIS* 3.0 37.3 + - + +
108E CYS* 3.7 4.5 - - - +
110E GLN* 1.3 87.9 - - + +
112E HIS* 1.3 73.1 + - - +
113E ASP* 3.4 6.8 + - + +
----------------------------------------------------------
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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