Contacts of the helix formed by residues 113 - 149 (chain D) in PDB entry 3IZ0
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 LYS 113 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40D PRO* 4.2 1.6 - - - -
105D GLU* 4.9 6.3 + - - +
107D ALA* 4.0 19.4 + - - +
108D ASP* 4.9 5.7 + - - +
111D CYS* 2.7 34.1 + - - +
112D PRO* 1.3 74.4 - - + +
114D ALA* 1.3 59.8 + - - +
115D LYS* 3.5 1.3 - - + +
116D ARG* 4.4 31.1 - - + +
117D THR* 2.7 37.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 114 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11D VAL* 5.8 1.0 - - - +
36D LEU 4.5 4.4 - - - +
37D TYR* 4.0 26.9 - - + -
38D PRO* 3.6 23.2 + - + +
40D PRO* 4.1 12.0 - - - +
113D LYS* 1.3 73.0 - - - +
115D LYS* 1.3 63.0 + - + +
117D THR* 3.4 4.8 + - - -
118D SER* 3.0 30.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 115 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7D PRO* 5.0 2.1 - - - +
37D TYR* 6.4 1.3 - - + -
113D LYS* 3.5 1.4 - - + +
114D ALA* 1.3 81.0 - - + +
116D ARG* 1.3 67.6 + - + +
118D SER* 3.2 9.1 + - - -
119D ARG* 2.9 23.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 116 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4D LEU* 5.9 1.8 - - - +
103D ASP* 2.9 47.0 + - - +
105D GLU* 3.8 17.4 + - - +
108D ASP* 3.1 34.0 + - - +
113D LYS* 3.6 28.7 + - + +
114D ALA 3.4 0.2 - - - -
115D LYS* 1.3 77.1 - - + +
117D THR* 1.3 64.5 + - + +
119D ARG* 3.0 21.8 + - - +
120D PHE* 3.0 38.3 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 117 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36D LEU* 4.8 2.8 + - - +
40D PRO* 3.7 14.6 - - - +
45D LEU* 3.7 32.3 - - + +
49D TYR* 3.8 13.5 - - - +
108D ASP* 4.3 9.6 - - + +
112D PRO* 3.8 11.2 - - + -
113D LYS 2.7 29.6 + - - +
114D ALA 3.4 5.2 + - - -
116D ARG* 1.3 79.3 - - + +
118D SER* 1.3 57.6 + - - +
120D PHE* 3.7 11.9 - - + +
121D LEU* 3.0 35.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 118 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7D PRO* 4.1 13.4 - - - +
9D TYR 4.6 2.0 + - - -
10D ASN* 5.7 0.6 - - - -
11D VAL* 4.7 15.3 - - - -
14D ILE* 3.6 23.5 - - - +
114D ALA 3.0 17.5 + - - -
115D LYS* 3.3 10.2 + - - -
117D THR* 1.3 76.1 - - - +
119D ARG* 1.3 63.8 + - - +
121D LEU* 4.5 3.6 - - - +
122D SER* 3.2 27.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 119 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4D LEU* 3.4 42.9 - - - +
5D SER 4.7 8.7 - - - +
7D PRO* 3.9 24.2 - - + -
101D VAL* 4.1 12.7 - - + +
103D ASP* 2.3 45.5 + - - -
115D LYS 2.9 13.1 + - - +
116D ARG* 3.0 29.3 + - - +
118D SER* 1.3 74.9 + - - +
120D PHE* 1.3 89.3 + - + +
122D SER* 3.4 4.0 + - - -
123D GLY* 3.1 18.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 120 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49D TYR* 3.5 31.4 - + + +
96D LEU* 4.9 6.5 - - + +
101D VAL* 3.4 34.3 - - + +
104D PHE* 3.7 20.4 - + - -
108D ASP* 3.4 37.0 - - + -
116D ARG* 3.0 33.6 + - + -
117D THR* 3.7 8.1 - - + +
119D ARG* 1.3 106.3 - - - +
121D LEU* 1.3 63.2 + - - +
123D GLY* 3.0 12.8 + - - -
124D ILE* 3.0 18.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 121 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14D ILE* 3.7 31.4 - - + -
18D ILE* 3.9 11.7 - - + -
22D ILE* 6.0 0.7 - - + -
36D LEU* 3.9 26.9 - - + -
45D LEU* 4.2 9.2 - - + -
48D ILE* 3.7 29.6 - - + -
49D TYR* 4.0 20.2 - - + +
117D THR 3.0 23.1 + - - +
118D SER* 4.2 4.0 - - - +
120D PHE* 1.3 75.2 - - - +
122D SER* 1.3 57.9 + - - +
124D ILE* 3.8 8.9 - - + +
125D ILE* 2.8 37.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 122 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7D PRO* 3.8 6.5 - - - +
8D ARG* 4.0 16.8 - - - -
9D TYR* 3.3 42.9 + - - -
14D ILE* 3.8 4.1 - - - +
118D SER 3.2 19.2 + - - -
119D ARG 3.7 4.5 - - - -
120D PHE 3.2 0.2 - - - -
121D LEU* 1.3 77.6 - - - +
123D GLY* 1.3 51.8 + - - +
125D ILE* 3.2 1.7 + - - +
126D ASN* 2.7 44.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 123 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233C TYR* 4.8 0.7 + - - -
99D CYS* 3.3 33.0 - - - +
101D VAL* 5.0 3.6 - - - -
119D ARG 3.1 10.5 + - - -
120D PHE 3.0 7.5 + - - -
122D SER* 1.3 75.6 - - - +
124D ILE* 1.3 56.7 + - - +
126D ASN* 3.7 9.8 - - - +
127D PHE* 3.0 22.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 124 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22D ILE* 4.0 25.6 - - + -
48D ILE* 6.1 0.9 - - + -
49D TYR* 3.8 31.4 - - + -
52D ALA* 4.2 12.1 - - + -
92D LEU* 5.3 0.2 - - + -
95D PHE* 3.7 16.6 - - + -
96D LEU* 3.8 22.4 - - + -
99D CYS* 3.7 22.2 - - - +
120D PHE 3.0 14.3 + - - +
121D LEU* 3.8 10.5 - - + +
123D GLY* 1.3 72.6 - - - +
125D ILE* 1.3 58.1 + - - +
127D PHE* 3.1 4.2 + - - +
128D ILE* 2.7 43.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 125 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9D TYR* 3.7 20.2 - - + -
14D ILE* 3.8 15.5 - - + +
17D HIS* 3.5 39.0 - - + +
18D ILE* 3.7 28.0 - - + -
21D LYS* 5.9 3.1 - - + -
22D ILE* 4.5 13.0 - - + -
121D LEU* 2.8 29.2 + - + +
122D SER* 3.8 3.1 - - - +
124D ILE* 1.3 74.2 - - - +
126D ASN* 1.3 62.8 + - - +
128D ILE* 3.3 7.6 + - + +
129D HIS* 3.0 43.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 126 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233C TYR* 3.8 14.4 - - - +
8D ARG* 3.9 23.7 - - - +
9D TYR* 3.4 24.1 + - - -
122D SER* 2.7 34.2 + - - +
123D GLY* 3.7 8.9 - - - +
125D ILE* 1.3 72.2 - - - +
127D PHE* 1.3 65.3 + - - +
129D HIS* 2.9 18.8 + - - +
130D PHE* 3.1 11.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 127 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226C LEU* 4.8 8.5 - - + -
229C THR* 4.0 30.7 - - + -
230C ILE* 5.2 2.2 - - + -
233C TYR* 3.7 43.6 + + + -
56D VAL* 3.7 30.7 - - + -
95D PHE* 3.8 20.6 - + - -
98D ILE* 3.6 22.7 - - + -
99D CYS* 4.0 11.2 - - - -
123D GLY 3.0 14.6 + - - +
124D ILE 3.6 2.9 - - - +
126D ASN* 1.3 78.7 - - - +
128D ILE* 1.3 63.7 + - + +
130D PHE* 3.1 3.3 + - + +
131D ARG* 2.8 38.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 128 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21D LYS* 3.9 34.8 - - + +
22D ILE* 3.7 35.0 - - + -
52D ALA* 4.9 5.2 - - + -
55D ILE* 5.0 11.4 - - + -
56D VAL* 4.4 24.0 - - + -
124D ILE* 2.7 30.1 + - + +
125D ILE* 3.7 7.9 - - + +
126D ASN 3.2 0.2 - - - -
127D PHE* 1.3 75.7 - - + +
129D HIS* 1.3 64.6 + - + +
131D ARG* 3.4 14.0 + - + +
132D GLU* 3.3 25.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 129 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9D TYR* 4.1 7.7 + - - -
17D HIS* 3.0 40.7 + + - -
21D LYS* 4.1 32.7 - - + +
125D ILE* 3.0 30.8 + - + +
126D ASN* 2.9 10.3 + - - +
128D ILE* 1.3 75.3 - - - +
130D PHE* 1.3 62.3 + - - +
132D GLU* 3.3 23.9 - - - +
133D ALA* 3.3 8.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 130 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229C THR* 4.0 6.3 - - + -
232C CYS* 3.6 24.0 - - + -
233C TYR* 3.2 57.0 - + + -
236C PHE* 3.5 39.5 - + + -
243C PHE* 4.0 12.6 - + - -
126D ASN 3.1 7.9 + - - +
127D PHE* 3.1 8.3 + + - +
129D HIS* 1.3 75.3 - - - +
131D ARG* 1.3 66.6 + - - +
133D ALA* 3.0 21.6 + - + +
134D CYS* 3.0 33.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 131 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215C THR* 3.8 5.9 + - - +
217C ASP* 3.3 31.3 + - - -
219C ILE* 3.6 18.8 - - - +
222C ASN* 4.2 0.8 + - - -
225C PHE* 3.5 22.2 - - + -
226C LEU* 5.7 1.8 - - - +
229C THR* 3.4 29.8 - - + -
55D ILE* 3.5 30.6 + - - +
56D VAL* 3.6 27.4 + - - +
127D PHE* 2.8 39.6 + - + +
128D ILE* 3.4 19.0 + - + +
130D PHE* 1.3 72.8 - - - +
132D GLU* 1.3 58.3 + - - +
134D CYS* 3.1 2.5 + - - +
135D ARG* 2.6 37.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 132 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C ASP* 5.7 2.0 - - - +
21D LYS* 3.0 45.6 + - - +
128D ILE* 3.3 17.8 + - + +
129D HIS* 3.3 17.2 - - - +
130D PHE 3.1 0.2 - - - -
131D ARG* 1.3 83.5 - - - +
133D ALA* 1.3 61.2 + - - +
135D ARG* 3.2 38.3 + - - +
136D GLU* 3.2 13.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 133 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129D HIS 3.3 8.7 + - - +
130D PHE* 3.0 19.5 + - + +
132D GLU* 1.3 78.5 - - - +
134D CYS* 1.3 63.6 + - - +
136D GLU* 3.5 8.3 + - - +
137D THR* 3.5 20.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 134 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225C PHE* 3.6 3.4 - - + -
228C TYR* 3.9 10.8 - - + -
229C THR* 3.9 24.7 - - - +
232C CYS* 4.1 16.6 - - - -
243C PHE* 6.5 0.2 - - - -
130D PHE* 3.0 49.1 + - - -
131D ARG* 3.4 7.9 - - - +
133D ALA* 1.3 75.9 - - - +
135D ARG* 1.3 58.4 + - - +
137D THR* 3.2 6.6 + - - +
138D TYR* 2.8 30.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 135 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C ASP* 3.5 33.0 + - - +
219C ILE* 3.5 40.2 - - + -
225C PHE* 3.5 9.8 - - + -
131D ARG* 2.6 19.2 + - - +
132D GLU* 3.2 34.7 + - - +
134D CYS* 1.3 71.3 - - - +
136D GLU* 1.3 66.0 + - - +
138D TYR* 3.1 0.6 + - + -
139D MET* 2.8 57.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 136 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132D GLU 3.2 8.4 + - - +
133D ALA* 3.7 10.1 - - - +
134D CYS 3.3 0.2 - - - -
135D ARG* 1.3 82.3 - - - +
137D THR* 1.3 65.6 + - - +
139D MET* 4.0 4.3 - - - +
140D GLU* 3.1 29.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 137 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228C TYR* 3.1 26.5 - - - +
247C ASN* 3.8 8.7 - - - +
133D ALA 3.5 11.5 + - - -
134D CYS* 3.2 7.3 + - - -
136D GLU* 1.3 80.3 - - - +
138D TYR* 1.3 62.6 + - - +
140D GLU* 3.3 12.8 + - - +
141D PHE* 3.2 41.7 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 138 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219C ILE* 4.5 7.6 - - + -
220C MET 2.9 28.8 + - - -
221C HIS* 3.4 17.0 + - - +
224C LEU* 3.9 9.3 - - + +
225C PHE* 3.5 47.8 - + + -
228C TYR* 4.3 6.1 - + + -
250C LEU* 3.7 43.3 - - + -
254C LEU* 5.3 2.7 - - + -
134D CYS 2.8 21.3 + - - +
135D ARG 3.6 2.5 - - - +
137D THR* 1.3 74.6 - - - +
139D MET* 1.3 62.6 + - + +
141D PHE* 3.1 5.5 + - - +
142D LEU* 2.8 56.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 139 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C ASP 4.8 1.3 - - - +
218C GLY* 3.5 29.2 - - - +
219C ILE* 4.5 5.8 - - - -
135D ARG* 2.8 63.6 + - + +
136D GLU* 4.1 4.0 - - - +
138D TYR* 1.3 79.2 - - + +
140D GLU* 1.3 57.1 + - - +
142D LEU* 3.8 15.3 - - - +
143D TRP* 2.9 30.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 140 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136D GLU* 3.1 26.0 + - + +
137D THR* 3.5 12.0 - - - +
139D MET* 1.3 78.5 - - - +
141D PHE* 1.3 62.8 + - + +
143D TRP* 3.7 6.8 + - + +
144D GLN* 3.2 39.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 141 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247C ASN* 3.7 35.2 - - + -
250C LEU* 3.6 21.1 - - + -
251C GLN* 3.5 42.6 - - + -
254C LEU* 3.7 18.4 - - + -
137D THR* 3.2 29.7 + - + -
138D TYR 3.1 7.4 + - - +
140D GLU* 1.3 76.7 - - + +
142D LEU* 1.3 62.9 + - - +
144D GLN* 3.0 16.7 + - - +
145D TYR* 3.0 35.2 + + - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 142 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218C GLY 5.9 0.4 - - - +
220C MET* 4.1 27.8 - - + +
221C HIS* 4.0 18.6 - - + +
254C LEU* 3.9 27.1 - - + +
258C PHE* 4.4 12.6 - - + -
138D TYR* 2.8 40.1 + - + +
139D MET* 3.8 15.0 - - - +
141D PHE* 1.3 77.6 - - - +
143D TRP* 1.3 57.2 + - - +
145D TYR* 3.2 2.6 + - - +
146D LYS* 3.0 44.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 143 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139D MET 2.9 19.1 + - - +
140D GLU* 3.9 8.5 - - + +
141D PHE 3.3 0.2 - - - -
142D LEU* 1.3 74.8 - - - +
144D GLN* 1.3 67.1 + - + +
146D LYS* 4.1 21.6 - - + +
147D SER* 2.9 46.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 144 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251C GLN* 5.7 2.6 - - - +
140D GLU* 3.2 29.4 + - + +
141D PHE* 3.0 28.4 + - - +
143D TRP* 1.3 86.1 - - + +
145D TYR* 1.3 67.8 + - + +
147D SER* 4.1 2.7 - - - -
148D SER* 3.0 28.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 145 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251C GLN* 3.4 42.7 + - + +
254C LEU* 3.7 31.6 - - + +
255C LYS* 3.3 46.0 + - + -
258C PHE* 3.6 26.1 - - + +
260C VAL* 3.8 20.8 - - + +
261C ASP* 5.9 0.7 - - - -
141D PHE* 3.0 32.8 + + - +
142D LEU 3.2 0.9 + - - +
144D GLN* 1.3 87.0 - - + +
146D LYS* 1.3 59.6 + - - +
147D SER 3.2 2.0 - - - -
148D SER* 3.4 4.3 + - - -
149D ALA* 3.0 27.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 146 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258C PHE* 4.2 21.4 - - + -
142D LEU* 3.0 31.5 + - + +
143D TRP* 4.1 24.3 - - + +
145D TYR* 1.3 75.7 - - - +
147D SER* 1.3 60.7 + - - +
149D ALA* 3.9 9.4 - - - +
150D ASP* 2.8 48.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 147 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143D TRP* 2.9 41.0 + - - -
144D GLN* 4.1 4.3 - - - -
145D TYR 3.2 0.4 - - - -
146D LYS* 1.3 80.0 - - - +
148D SER* 1.3 59.3 + - - +
149D ALA 3.3 0.4 - - - -
150D ASP* 3.5 9.6 + - - +
151D LYS* 3.1 28.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 148 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C VAL* 3.4 28.0 - - - +
265C LEU* 3.7 18.6 - - - +
144D GLN 3.0 18.4 + - - -
145D TYR* 3.4 5.8 + - - -
147D SER* 1.3 74.1 - - - +
149D ALA* 1.3 62.6 + - - +
150D ASP 3.2 2.0 - - - -
151D LYS* 3.9 6.5 - - - +
152D MET* 3.4 24.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 149 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258C PHE* 3.8 27.6 - - + -
259C ASN 5.7 0.9 - - - +
260C VAL* 4.6 2.4 - - - +
145D TYR 3.0 16.8 + - - +
146D LYS* 4.1 8.7 - - - +
147D SER 3.3 0.4 - - - -
148D SER* 1.3 77.6 - - - +
150D ASP* 1.3 63.7 + - - +
152D MET* 3.4 19.6 - - - +
153D GLN* 3.6 13.0 + - - +
----------------------------------------------------------
Back to top of page
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