Contacts of the helix formed by residues 110 - 143 (chain D) in PDB entry 2VT4
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 GLY 110 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B GLN* 4.1 11.9 + - - +
41B GLU* 3.6 14.6 - - - -
107D TRP* 2.8 26.1 + - - +
108D LEU 3.7 1.6 - - - -
109D TRP* 1.3 80.0 - - - +
111D SER* 1.3 63.6 + - - -
112D PHE 3.4 3.5 + - - -
113D LEU 3.5 0.8 + - - -
114D CYS 3.2 7.4 + - - -
196D PRO* 4.4 9.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 111 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B GLU* 3.1 26.9 + - - -
104B ARG* 3.2 27.7 + - - +
110D GLY* 1.3 72.9 - - - -
112D PHE* 1.3 57.7 + - - +
114D CYS* 3.2 10.5 - - - +
115D GLU* 3.0 32.9 + - - +
193D TYR 5.3 6.1 - - - -
194D GLN 6.1 0.4 - - - -
196D PRO* 4.2 16.3 - - - +
198D CYS 6.2 0.4 - - - -
401D NA 4.6 8.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 112 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B GLU* 4.5 2.5 + - - +
104B ARG* 4.0 21.0 - - - +
110D GLY 3.4 0.8 - - - -
111D SER* 1.3 78.6 + - - +
113D LEU* 1.3 74.3 + - + +
115D GLU* 3.1 1.9 + - - +
116D LEU* 2.8 50.4 + - + +
403D SOG 3.6 55.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 113 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97D PHE* 5.5 5.8 - - + -
107D TRP* 3.8 3.9 - - + -
109D TRP* 3.6 48.9 + - + +
110D GLY 3.5 2.4 + - - +
112D PHE* 1.3 87.9 - - + +
114D CYS* 1.3 57.1 + - - +
116D LEU* 3.8 23.7 - - + +
117D TRP* 2.8 32.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 114 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107D TRP* 3.6 22.8 - - + +
110D GLY 3.2 7.4 + - - +
111D SER* 3.2 15.3 - - - +
112D PHE 3.1 0.4 - - - -
113D LEU* 1.3 77.4 - - - +
115D GLU* 1.3 63.5 + - - +
117D TRP* 3.6 2.4 - - - +
118D THR* 2.9 33.5 + - - -
198D CYS 4.3 4.9 - - - +
199D CYS* 2.0 57.1 - - - -
200D ASP 5.8 0.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 115 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B ARG* 2.7 43.8 + - - +
108B LEU* 4.9 1.0 - - - +
111D SER* 3.0 13.9 + - - +
112D PHE 3.1 2.7 + - - +
114D CYS* 1.3 80.5 - - - +
116D LEU* 1.3 64.0 + - - +
118D THR* 3.7 6.0 + - - -
119D SER* 3.1 26.7 + - - -
177D ILE* 4.0 10.1 - - + +
180D HIS* 4.7 0.2 - - - -
182D TRP* 4.5 15.3 - - + -
183D ARG* 3.2 30.7 + - - -
403D SOG 3.4 30.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 116 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112D PHE* 2.8 31.7 + - + +
113D LEU* 3.8 23.8 - - + +
115D GLU* 1.3 74.5 - - - +
117D TRP* 1.3 59.6 + - - +
119D SER* 2.9 22.4 - - - -
120D LEU* 2.9 35.3 + - + +
174D PHE* 5.0 2.0 - - + -
403D SOG 3.5 36.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 117 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93D LEU 4.0 7.4 - - - -
94D VAL* 2.9 41.9 + - + +
97D PHE* 4.1 8.7 - + + -
98D GLY* 3.5 26.5 - - - +
101D LEU* 4.0 20.6 - - + -
107D TRP* 3.7 19.5 - + + -
113D LEU 2.8 22.7 + - - +
114D CYS 3.6 1.3 - - - +
116D LEU* 1.3 70.4 - - - +
118D THR* 1.3 71.3 + - - +
120D LEU* 3.3 9.6 + - + +
121D ASP* 2.9 29.6 + - - +
199D CYS* 3.6 34.1 - - - -
333D TYR* 4.3 13.7 - + - -
400D P32 3.7 28.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 118 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114D CYS* 2.9 18.1 + - - -
115D GLU* 3.9 6.4 - - - -
117D TRP* 1.3 87.7 - - - +
119D SER* 1.3 58.6 + - - +
121D ASP* 3.3 7.4 + - - +
122D VAL* 2.9 35.5 + - + +
177D ILE* 3.8 9.0 - - + -
199D CYS* 4.3 6.1 + - - -
201D PHE* 3.5 51.0 - - + +
400D P32 4.1 14.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 119 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115D GLU 3.1 9.6 + - - -
116D LEU* 2.9 17.0 - - - -
118D THR* 1.3 76.7 - - - +
120D LEU* 1.3 57.4 + - - -
122D VAL* 3.1 5.4 + - - +
123D LEU* 2.8 29.3 + - - +
173D SER* 4.5 3.2 + - - -
174D PHE* 3.5 29.9 - - - -
177D ILE* 3.5 19.4 - - - +
403D SOG 3.0 25.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 120 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89D VAL* 4.8 12.3 - - + -
93D LEU* 4.3 29.8 - - + -
94D VAL* 4.1 13.0 - - + -
116D LEU* 2.9 41.4 + - + +
117D TRP* 3.3 10.7 + - + +
119D SER* 1.3 71.8 - - - +
121D ASP* 1.3 66.9 + - - +
123D LEU* 3.4 12.4 + - + +
124D CYS* 3.1 29.5 + - - -
174D PHE* 3.9 23.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 121 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94D VAL* 3.8 22.6 - - + +
117D TRP* 2.9 20.3 + - + +
118D THR* 3.5 7.9 - - - +
120D LEU* 1.3 79.2 - - - +
122D VAL* 1.3 60.5 + - - +
124D CYS* 3.7 2.2 + - - +
125D VAL* 3.4 22.3 + - - +
333D TYR* 2.5 33.8 + - - -
400D P32 2.5 44.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 122 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118D THR* 2.9 29.9 + - + +
119D SER* 3.6 5.8 - - - +
121D ASP* 1.3 75.8 - - - +
123D LEU* 1.3 63.4 + - - +
124D CYS 3.4 0.2 + - - -
125D VAL 3.6 0.2 + - - -
126D THR* 2.8 31.9 + - - +
172D VAL 4.9 1.3 - - - +
173D SER* 3.5 26.9 - - - +
177D ILE* 5.2 2.7 - - + -
201D PHE* 4.5 11.0 - - + -
207D TYR* 4.8 8.1 - - - +
211D SER* 6.2 0.4 - - - -
215D SER* 4.6 2.2 - - - +
400D P32 3.7 48.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 123 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89D VAL* 5.8 2.0 - - + -
119D SER 2.8 17.0 + - - +
120D LEU* 3.4 19.5 - - + +
122D VAL* 1.3 73.4 - - - +
124D CYS* 1.3 55.7 + - - +
126D THR* 3.2 4.1 + - - -
127D ALA* 2.7 37.0 + - - +
166D TRP* 3.9 29.6 - - + +
169D SER* 3.8 8.7 - - - -
170D ALA* 3.5 28.3 - - + +
173D SER* 3.5 21.9 - - - +
174D PHE* 3.6 24.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 124 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86D ALA* 3.5 28.2 - - - +
89D VAL* 3.5 27.6 - - - -
90D VAL* 3.6 24.9 - - + -
94D VAL* 4.9 1.1 - - - -
120D LEU 3.1 18.1 + - - +
121D ASP* 4.2 4.0 - - - +
123D LEU* 1.3 83.8 - - - +
125D VAL* 1.3 65.7 + - + +
127D ALA* 3.9 5.2 - - - +
128D SER* 2.8 31.5 + - - -
166D TRP* 5.1 2.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 125 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90D VAL* 6.5 0.2 - - + -
121D ASP* 3.4 17.6 + - - +
122D VAL 4.1 0.7 - - - +
124D CYS* 1.3 77.1 - - + +
126D THR* 1.3 63.8 + - - +
128D SER* 3.6 5.3 - - - -
129D ILE* 3.2 26.7 + - + +
215D SER 5.6 1.6 - - - +
216D PHE* 4.7 4.7 - - + -
299D PHE* 4.3 9.1 - - + -
303D TRP* 3.6 44.6 - - + +
307D PHE* 4.1 28.9 - - + -
400D P32 3.9 21.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 126 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122D VAL* 2.8 19.5 + - - +
123D LEU* 3.2 10.4 + - - -
125D VAL* 1.3 76.3 - - - +
127D ALA* 1.3 65.5 + - - +
129D ILE* 3.2 9.5 - - - +
130D GLU* 3.1 43.8 + - - +
169D SER* 3.7 13.0 - - - +
172D VAL* 3.9 20.9 - - + -
173D SER* 4.6 1.3 - - - -
215D SER* 3.1 32.4 + - - +
400D P32 4.1 1.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 127 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86D ALA* 4.9 2.0 - - + -
123D LEU 2.7 19.8 + - - +
124D CYS 4.1 3.1 - - - +
126D THR* 1.3 74.1 - - - +
128D SER* 1.3 56.7 + - - +
130D GLU* 3.5 2.6 + - - +
131D THR* 2.9 35.6 + - - +
165D VAL* 4.2 2.9 - - + +
166D TRP* 4.0 43.3 - - + +
169D SER* 3.4 17.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 128 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83D LEU* 3.8 20.7 - - - +
86D ALA* 3.6 15.9 - - - +
87D ASP* 4.4 7.6 + - - -
90D VAL* 6.1 0.5 - - - +
124D CYS* 2.8 22.0 + - - +
125D VAL* 3.6 6.2 - - - -
126D THR 3.2 0.2 - - - -
127D ALA* 1.3 76.6 - - - +
129D ILE* 1.3 57.8 + - - +
131D THR* 3.2 4.3 + - - -
132D LEU* 2.9 33.3 + - - +
299D PHE* 3.8 20.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 129 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125D VAL* 3.2 15.9 - - + +
126D THR 3.2 6.5 - - - +
128D SER* 1.3 75.1 - - - +
130D GLU* 1.3 66.5 + - - +
132D LEU* 4.3 2.5 - - + -
133D CYS* 3.1 18.5 + - - +
215D SER 3.2 24.5 - - - +
216D PHE* 4.2 10.5 - - + +
219D PRO* 3.5 20.2 - - + +
220D LEU* 4.0 23.6 - - + +
223D MET* 4.0 25.4 - - - -
299D PHE* 3.6 31.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 130 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406C D10 4.0 32.2 - - + +
126D THR* 3.1 33.2 + - + +
127D ALA 3.8 2.7 - - - +
129D ILE* 1.3 76.1 - - - +
131D THR* 1.3 65.9 + - - +
133D CYS* 3.0 18.7 + - - +
134D VAL* 3.0 17.8 + - - +
165D VAL* 3.4 26.1 - - + +
168D ILE* 3.8 24.5 - - - +
169D SER* 3.3 18.3 + - - -
172D VAL* 4.9 2.6 - - - +
214D ILE 4.7 6.4 - - - +
219D PRO* 4.5 12.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 131 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79D PHE* 3.5 32.1 - - + +
82D SER* 3.8 21.5 + - - -
83D LEU* 4.3 13.9 + - + -
127D ALA* 2.9 27.5 + - - +
128D SER 3.5 4.7 - - - -
130D GLU* 1.3 72.8 - - - +
132D LEU* 1.3 57.8 + - - +
134D VAL* 3.4 8.8 + - + +
135D ILE* 3.0 36.1 + - + +
162D ILE* 6.2 0.2 - - + -
165D VAL* 3.8 14.0 - - - +
166D TRP* 5.0 0.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 132 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83D LEU* 3.5 28.0 - - + -
128D SER 2.9 18.9 + - - +
129D ILE* 3.7 4.5 - - - +
130D GLU 3.2 0.4 - - - -
131D THR* 1.3 72.6 - - - +
133D CYS* 1.3 64.0 + - - +
135D ILE* 3.3 11.5 + - + +
136D ALA* 3.1 19.8 + - - +
223D MET* 3.6 23.1 - - - +
295D ILE* 3.8 20.2 - - + +
296D MET* 3.7 23.3 - - + +
299D PHE* 3.6 48.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 133 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406C D10 5.0 13.5 - - + -
129D ILE 3.1 10.5 + - - +
130D GLU* 3.0 12.7 + - - +
132D LEU* 1.3 77.4 - - - +
134D VAL* 1.3 62.8 + - + +
136D ALA* 3.2 5.4 + - - +
137D ILE* 3.0 29.4 + - + +
219D PRO* 2.9 40.8 - - - -
222D ILE* 3.7 17.6 - - + +
223D MET* 3.7 21.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 134 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406C D10 5.8 6.5 - - + -
79D PHE* 3.8 36.6 - - + -
130D GLU 3.0 11.7 + - - +
131D THR* 3.7 9.0 - - + +
133D CYS* 1.3 80.2 - - + +
135D ILE* 1.3 58.1 + - - +
137D ILE* 3.3 10.0 + - + +
138D ASP* 2.9 30.2 + - + +
161D ILE* 4.0 17.5 - - + -
165D VAL* 3.8 26.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 135 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76D THR* 4.8 8.1 - - + +
79D PHE* 3.4 38.8 - - + -
80D ILE* 4.3 11.7 - - + -
83D LEU* 4.1 18.8 - - + -
131D THR* 3.0 30.3 + - + +
132D LEU* 3.6 10.8 - - + +
133D CYS 3.3 0.2 - - - -
134D VAL* 1.3 75.3 - - - +
136D ALA* 1.3 60.3 + - - +
138D ASP* 3.7 6.0 - - - +
139D ARG* 3.1 24.8 + - - +
292D LEU* 4.2 27.4 - - + -
296D MET* 3.9 14.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 136 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132D LEU 3.1 13.7 + - - +
133D CYS* 3.2 8.7 + - - +
135D ILE* 1.3 74.6 - - - +
137D ILE* 1.3 59.6 + - - +
139D ARG* 3.3 3.2 + - - +
140D TYR* 2.9 30.3 + - - +
223D MET* 4.3 13.9 - - + +
226D VAL* 3.4 24.1 - - + +
227D ALA* 4.4 4.0 - - - +
230D VAL* 3.9 2.1 - - - +
296D MET* 3.9 16.4 - - + +
405D SOG 4.5 8.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 137 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406C D10 5.8 6.5 - - + -
133D CYS* 3.0 25.9 + - + +
134D VAL* 3.9 7.4 - - + +
136D ALA* 1.3 75.5 - - - +
138D ASP* 1.3 57.8 + - - +
140D TYR* 3.8 4.8 - - + +
141D LEU* 3.0 50.0 + - + +
222D ILE* 4.5 15.9 - - + -
226D VAL* 4.0 22.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 138 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75D LEU* 4.9 0.9 - - - +
76D THR* 3.4 11.4 + - - +
79D PHE* 3.6 30.4 - - + -
134D VAL* 2.9 19.2 + - + +
135D ILE* 3.7 4.6 - - - +
137D ILE* 1.3 78.2 - - - +
139D ARG* 1.3 80.0 + - - +
141D LEU* 3.3 4.8 + - - -
142D ALA* 2.9 28.1 + - - +
149D TYR* 2.8 34.7 + - - -
153D MET* 4.3 13.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 139 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75D LEU* 5.4 1.2 - - - +
76D THR* 3.1 26.0 + - - +
135D ILE* 3.1 18.6 + - + +
136D ALA* 3.8 4.7 - - - +
138D ASP* 1.3 87.0 + - - +
140D TYR* 1.3 67.0 + - - +
142D ALA* 3.0 37.0 + - - +
143D ILE* 3.3 16.5 + - - +
149D TYR* 3.1 28.3 + - - -
230D VAL* 4.5 9.2 - - + -
285D GLU* 5.6 3.8 + - - -
289D LEU* 4.0 24.8 - - + +
292D LEU* 3.7 25.6 - - + -
405D SOG 5.5 3.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 140 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136D ALA 2.9 16.6 + - - +
137D ILE* 3.8 5.4 - - + +
139D ARG* 1.3 72.6 - - - +
141D LEU* 1.3 83.4 + - + +
143D ILE* 3.2 16.8 - - + +
144D THR* 3.1 41.7 + - + +
226D VAL* 4.2 9.4 - - + -
229D ARG* 4.1 26.2 - - + -
230D VAL* 3.2 32.1 - - + +
233D GLU* 4.6 8.5 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 141 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137D ILE* 3.0 39.1 + - + +
138D ASP* 3.8 4.7 - - - +
140D TYR* 1.3 95.4 - - + +
142D ALA* 1.3 59.8 + - - +
143D ILE 2.9 10.1 + - - -
144D THR* 4.2 5.4 - - - +
145D SER* 3.4 33.3 + - - +
149D TYR* 3.9 13.3 - - + +
153D MET* 6.3 2.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 142 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138D ASP 2.9 12.0 + - - +
139D ARG* 3.0 42.0 + - - +
141D LEU* 1.3 74.9 - - - +
143D ILE* 1.3 59.7 + - - +
144D THR 3.7 0.4 - - - -
146D PRO* 3.9 19.5 - - - +
149D TYR* 3.4 27.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 143 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139D ARG* 3.4 11.9 - - + +
140D TYR* 3.2 21.1 - - + +
141D LEU 2.9 0.8 - - - -
142D ALA* 1.3 81.5 - - - +
144D THR* 1.3 69.9 + - + +
145D SER 3.8 0.2 - - - -
146D PRO* 4.4 4.9 - - - -
230D VAL* 4.8 6.1 - - + +
233D GLU* 4.0 16.6 - - + +
234D ALA* 4.5 14.8 - - - +
237D GLN* 3.9 34.6 + - - +
289D LEU* 4.3 23.6 - - + -
----------------------------------------------------------
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