Contacts of the helix formed by residues 82 - 111 (chain M) 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 M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35M TRP* 4.1 7.6 - - + -
80M GLY 3.7 0.2 - - - -
81M GLU* 1.3 81.0 - - - +
83M THR* 1.3 65.1 + - - +
84M GLN* 3.3 25.2 + - - +
85M GLU* 2.9 37.7 + - - +
86M MET* 2.8 28.0 + - - +
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Residues in contact with THR 83 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32M TRP* 2.9 33.3 + - + +
35M TRP* 4.4 4.0 - - - -
37M LEU* 3.6 8.1 - - - +
40M LEU* 3.8 13.0 - - + -
82M ASN* 1.3 73.0 - - - +
84M GLN* 1.3 69.7 + - - +
86M MET* 3.1 4.1 + - - +
87M LEU* 3.0 40.2 + - + +
141M ILE* 4.9 2.5 - - + -
146M LEU* 5.4 0.2 - - - -
149M TYR* 4.3 5.2 - - + -
150M LEU* 3.5 34.9 - - + +
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Residues in contact with GLN 84 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82M ASN* 3.3 28.0 - - - +
83M THR* 1.3 78.6 + - - +
85M GLU* 1.3 64.2 + - + +
87M LEU* 3.5 3.6 + - - +
88M GLN* 3.1 23.0 + - - +
138M LEU* 4.3 7.8 - - + +
141M ILE* 4.4 20.4 - - + -
146M LEU* 3.7 43.1 - - + +
150M LEU* 5.6 1.2 - - - +
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Residues in contact with GLU 85 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80M GLY* 4.0 8.6 - - - -
81M GLU* 2.8 38.9 + - - +
82M ASN* 2.9 27.8 + - - +
84M GLN* 1.3 83.2 - - + +
86M MET* 1.3 56.5 + - - +
88M GLN* 3.4 5.8 + - - +
89M CYS* 2.8 35.7 + - - -
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Residues in contact with MET 86 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28M HIS* 3.5 64.4 - - + +
31M MET* 3.9 19.3 - - + -
32M TRP* 3.6 31.0 - - + +
35M TRP* 3.6 25.6 - - + -
80M GLY* 3.7 14.6 - - - -
82M ASN* 2.8 24.6 + - - +
83M THR 3.7 3.1 - - - +
85M GLU* 1.3 76.3 - - - +
87M LEU* 1.3 58.3 + - - +
89M CYS* 3.4 1.8 + - - +
90M ASP* 2.9 36.2 + - - +
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Residues in contact with LEU 87 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32M TRP* 4.0 20.4 - - + -
40M LEU* 4.8 6.1 - - + -
44M GLU* 6.0 0.4 - - - +
83M THR* 3.0 35.2 + - + +
84M GLN 3.9 0.2 - - - +
86M MET* 1.3 77.6 - - - +
88M GLN* 1.4 56.6 + - - +
90M ASP* 3.3 5.5 + - - +
91M LEU* 2.9 28.3 + - - +
133M TYR* 4.7 4.7 - - + -
134M LEU* 3.8 29.2 - - + +
137M GLN* 4.1 26.9 - - + -
138M LEU* 3.7 19.1 - - + -
141M ILE* 4.0 21.5 - - + -
149M TYR* 4.2 5.6 - - - +
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Residues in contact with GLN 88 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84M GLN 3.1 17.4 + - - +
85M GLU* 3.4 6.3 + - - +
87M LEU* 1.4 76.2 - - - +
89M CYS* 1.3 54.6 + - - +
91M LEU* 3.1 20.2 + - - +
92M ASN* 2.6 66.9 + - - +
95M LEU* 5.6 1.8 - - - +
138M LEU* 4.1 19.4 - - + +
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Residues in contact with CYS 89 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24M GLN* 3.2 9.2 + - - +
28M HIS* 4.2 1.3 - - + -
78M LEU* 3.2 42.8 - - + +
79M ILE 4.2 1.8 - - - -
80M GLY* 3.8 16.4 - - - -
85M GLU* 2.8 29.7 + - - +
86M MET 3.6 5.8 - - - +
88M GLN* 1.3 72.3 - - - +
90M ASP* 1.3 63.9 + - - +
92M ASN* 3.3 11.3 + - - +
93M LEU* 3.0 20.1 + - - +
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Residues in contact with ASP 90 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24M GLN* 3.1 14.2 + - - +
25M TYR* 3.4 18.9 + - + -
28M HIS* 2.9 23.8 + - - -
32M TRP* 4.8 3.1 - - - -
44M GLU* 2.5 32.0 - - - +
86M MET 2.9 17.0 + - - +
87M LEU* 3.5 8.1 - - - +
89M CYS* 1.3 73.4 - - - +
91M LEU* 1.3 66.1 + - - +
93M LEU* 3.4 1.7 + - - +
94M GLU* 2.9 27.7 + - - +
130M HIS* 4.7 0.9 + - + -
134M LEU* 4.0 24.1 - - + +
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Residues in contact with LEU 91 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87M LEU 2.9 16.7 + - - +
88M GLN* 3.1 19.7 + - - +
90M ASP* 1.3 74.7 - - - +
92M ASN* 1.3 65.4 + - - +
94M GLU* 3.0 1.8 + - - -
95M LEU* 2.9 46.4 + - + +
131M ILE* 4.0 35.0 - - + -
134M LEU* 4.2 17.4 - - + +
135M GLU* 4.0 21.8 - - + +
138M LEU* 4.0 22.7 - - + -
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Residues in contact with ASN 92 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78M LEU* 4.0 13.6 - - + +
88M GLN* 2.6 55.6 + - - +
89M CYS* 3.7 10.2 - - - +
91M LEU* 1.3 76.4 - - - +
93M LEU* 1.3 63.1 + - - +
95M LEU* 3.3 18.0 + - - +
96M LYS* 3.3 12.8 + - - +
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Residues in contact with LEU 93 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17M ASN* 4.9 4.0 - - + +
20M ILE* 3.9 26.7 - - + -
21M ALA* 3.8 34.5 - - + -
24M GLN* 3.6 25.6 - - - +
25M TYR* 3.9 9.9 - - + +
76M LYS 4.8 2.2 - - - +
78M LEU* 4.1 15.2 - - + +
89M CYS 3.0 17.6 + - - +
90M ASP 3.6 3.8 - - - +
92M ASN* 1.3 79.1 - - - +
94M GLU* 1.3 57.2 + - - +
96M LYS* 3.2 10.6 + - + +
97M ALA* 2.9 30.8 + - + +
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Residues in contact with GLU 94 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25M TYR* 2.7 23.9 + - - +
51M GLU* 3.7 6.7 - - - +
90M ASP 2.9 20.3 + - - +
91M LEU* 3.0 5.1 + - - +
93M LEU* 1.3 76.8 - - - +
95M LEU* 1.3 57.7 + - - +
97M ALA* 3.6 6.9 - - - +
98M THR* 3.0 32.6 + - - -
127M GLU* 2.5 44.5 - - - +
130M HIS* 2.9 30.4 + - + +
131M ILE* 3.7 20.6 - - + +
134M LEU* 4.2 5.4 - - + -
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Residues in contact with LEU 95 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88M GLN* 5.6 1.3 - - - +
91M LEU* 2.9 42.6 + - + +
92M ASN* 3.7 10.8 - - - +
93M LEU 3.2 0.2 - - - -
94M GLU* 1.3 78.3 - - - +
96M LYS* 1.3 60.7 + - - +
98M THR* 3.3 11.5 - - + +
99M LYS* 3.2 20.3 + - - +
131M ILE* 4.4 19.1 - - + -
135M GLU* 5.8 2.2 - - - +
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Residues in contact with LYS 96 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13M LYS* 4.7 10.3 - - - +
17M ASN* 4.0 13.6 + - - +
92M ASN 3.3 7.8 + - - +
93M LEU* 3.2 14.4 + - + +
95M LEU* 1.3 76.7 - - - +
97M ALA* 1.3 68.2 + - - +
98M THR 3.0 0.2 - - - -
99M LYS* 3.1 43.2 + - - +
100M ASP* 3.0 37.2 + - - +
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Residues in contact with ALA 97 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17M ASN* 4.0 29.1 + - + +
18M GLU* 5.9 1.8 - - - +
51M GLU* 6.0 0.4 - - - +
93M LEU* 2.9 18.6 + - + +
94M GLU* 3.6 18.6 - - - +
96M LYS* 1.3 77.6 - - - +
98M THR* 1.3 62.5 + - - +
100M ASP* 3.5 2.4 + - - +
101M LEU* 3.1 36.5 + - + +
127M GLU* 5.0 6.1 - - + -
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Residues in contact with THR 98 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94M GLU 3.0 16.0 + - - +
95M LEU* 3.3 22.2 - - + +
97M ALA* 1.3 75.3 - - - +
99M LYS* 1.3 69.4 + - + +
101M LEU* 3.3 4.4 + - - +
102M ARG* 3.1 44.8 + - - +
124M LEU* 3.4 23.4 - - - +
127M GLU* 4.1 9.6 - - - +
128M GLU* 4.5 1.7 - - - +
131M ILE* 3.8 19.7 - - + +
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Residues in contact with LYS 99 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13M LYS* 5.4 1.6 - - - +
95M LEU 3.2 7.3 + - - +
96M LYS* 3.1 33.8 + - - +
98M THR* 1.3 86.8 - - + +
100M ASP* 1.3 79.6 + - - +
102M ARG* 3.2 10.3 + - - +
103M GLU* 3.2 40.5 + - + +
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Residues in contact with ASP 100 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10M HIS* 4.6 2.1 + - - -
13M LYS* 3.8 27.2 + - + +
14M ILE* 3.6 10.3 - - + +
17M ASN* 2.9 30.0 + - - +
96M LYS* 3.0 31.6 + - - +
97M ALA 3.9 0.4 - - - +
99M LYS* 1.3 99.6 + - - +
101M LEU* 1.3 64.8 + - - +
102M ARG 3.2 0.2 - - - -
103M GLU* 3.5 12.2 + - - +
104M ALA* 3.0 23.6 + - - +
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Residues in contact with LEU 101 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14M ILE* 3.5 24.4 - - + +
18M GLU* 5.1 1.6 - - - +
97M ALA* 3.1 33.0 + - + +
98M THR* 3.3 6.5 + - - +
100M ASP* 1.3 74.3 - - - +
102M ARG* 1.3 66.5 + - - +
104M ALA* 3.4 2.6 + - - +
105M ILE* 3.0 30.0 + - + +
120M LEU* 3.3 49.6 - - + +
123M ILE* 4.2 20.2 - - + -
124M LEU* 4.3 17.9 - - + -
127M GLU* 4.2 14.6 - - + -
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Residues in contact with ARG 102 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111K VAL 5.4 0.7 - - - -
112K HIS* 3.0 43.4 + - + +
113K ASP* 4.3 4.2 + - - +
114K TYR* 4.1 20.9 - - + +
98M THR* 3.1 30.0 + - - +
99M LYS* 3.2 9.5 + - - +
101M LEU* 1.3 79.3 - - - +
103M GLU* 1.3 63.6 + - + +
105M ILE* 3.0 3.5 + - - +
106M VAL* 2.9 27.7 + - - +
124M LEU* 3.5 25.7 - - + +
128M GLU* 2.9 32.7 + - - +
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Residues in contact with GLU 103 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10M HIS* 3.8 17.7 - - + -
13M LYS* 4.8 8.5 + - - -
99M LYS* 3.2 37.1 + - + +
100M ASP* 3.7 15.0 - - - +
102M ARG* 1.3 79.1 - - + +
104M ALA* 1.3 60.7 + - - +
106M VAL* 3.4 8.3 + - - +
107M HIS* 3.1 22.2 + - - +
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Residues in contact with ALA 104 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10M HIS* 3.3 35.5 + - + +
14M ILE* 4.3 11.2 - - + -
100M ASP 3.0 16.0 + - - +
101M LEU 3.7 4.0 - - - +
102M ARG 3.2 0.2 - - - -
103M GLU* 1.3 78.5 - - - +
105M ILE* 1.3 57.9 + - - +
107M HIS* 3.3 2.3 + - - +
108M CYS* 2.9 33.8 + - - -
120M LEU* 3.5 22.7 - - + -
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Residues in contact with ILE 105 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114K TYR* 3.6 32.8 - - + -
101M LEU* 3.0 22.8 + - + +
102M ARG 3.0 4.0 + - - +
104M ALA* 1.3 75.4 - - - +
106M VAL* 1.3 68.2 + - - +
108M CYS* 3.1 6.5 + - - +
109M GLU* 2.9 22.5 + - - +
117M ARG* 3.9 33.5 + - + +
120M LEU* 3.7 26.9 - - + +
121M LYS* 4.0 23.8 - - + +
124M LEU* 4.0 23.3 - - + -
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Residues in contact with VAL 106 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112K HIS* 3.1 31.9 - - + +
114K TYR* 3.0 24.7 - - - +
102M ARG 2.9 14.5 + - - +
103M GLU* 3.6 10.8 - - - +
105M ILE* 1.3 77.9 - - - +
107M HIS* 1.3 64.8 + - - +
109M GLU* 3.2 7.2 + - - +
110M GLN* 3.1 23.4 + - + +
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Residues in contact with HIS 107 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4M ASP* 2.8 24.5 + - - -
6M LYS* 3.4 37.7 - - + +
7M VAL* 3.5 28.4 - - + +
10M HIS* 4.0 19.2 + + + +
103M GLU 3.1 13.1 + - - +
104M ALA 3.8 6.7 - - - +
106M VAL* 1.3 81.6 - - + +
108M CYS* 1.3 63.0 + - - +
110M GLN* 3.2 21.0 + - - +
111M VAL* 3.1 37.4 + - + +
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Residues in contact with CYS 108 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7M VAL* 4.2 18.6 - - - -
10M HIS* 6.0 1.8 - - - -
11M LEU* 5.6 0.4 - - - -
104M ALA* 2.9 26.1 + - - +
105M ILE 3.1 4.5 + - - +
107M HIS* 1.3 76.4 - - - +
109M GLU* 1.3 62.5 + - - +
111M VAL* 3.5 7.6 + - - -
112M HIS* 3.1 4.2 + - - -
113M ASP* 2.9 42.7 + - - +
116M SER* 3.9 21.8 - - - -
117M ARG* 3.8 11.9 - - + -
120M LEU* 3.9 20.2 - - - -
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Residues in contact with GLU 109 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109K GLU* 4.0 8.0 - - - +
114K TYR* 6.1 0.2 - - - +
105M ILE 2.9 12.3 + - - +
106M VAL* 3.3 11.9 - - - +
107M HIS 3.1 0.2 - - - -
108M CYS* 1.3 75.6 - - - +
110M GLN* 1.3 62.9 + - - +
112M HIS* 3.0 22.5 + - - -
114M TYR* 3.7 15.6 + - - -
117M ARG* 2.8 45.0 + - - +
109T GLU* 4.3 8.1 - - - +
117T ARG* 2.4 34.1 + - - -
----------------------------------------------------------
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Residues in contact with GLN 110 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106M VAL* 3.1 13.1 + - + +
107M HIS* 3.5 23.2 + - - +
109M GLU* 1.3 78.5 - - - +
111M VAL* 1.3 71.2 + - - +
112M HIS* 3.7 12.8 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4M ASP* 4.1 17.0 - - + +
7M VAL* 3.6 28.9 - - + -
107M HIS* 3.1 35.2 + - + +
108M CYS 3.8 5.2 - - - +
110M GLN* 1.3 87.5 - - - +
112M HIS* 1.3 72.7 + - - +
113M ASP* 3.5 5.0 + - + +
102T ARG* 5.3 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