Contacts of the helix formed by residues 144 - 169 (chain A) in PDB entry 2O98
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 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143A THR* 1.3 79.2 - - - +
145A ALA* 1.3 60.4 + - - +
146A GLU 4.4 1.2 - - - +
147A ARG* 3.5 4.7 + - - +
148A LYS* 3.1 26.5 + - - +
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Residues in contact with ALA 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A GLY* 1.3 68.4 - - - +
146A GLU* 1.3 66.4 + - + +
147A ARG 3.1 1.6 - - - -
148A LYS* 3.3 8.0 + - - +
149A GLU* 3.0 32.3 + - - +
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Residues in contact with GLU 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LYS* 3.2 50.3 + - + +
143A THR* 4.6 4.7 - - - +
144A GLY 3.5 1.2 - - - +
145A ALA* 1.3 79.7 - - + +
147A ARG* 1.3 59.4 + - - +
149A GLU* 3.1 27.2 + - - +
150A ALA* 3.2 22.7 + - - +
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Residues in contact with ARG 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A ALA* 3.5 27.6 + - + +
140A GLU* 5.1 4.8 + - - +
142A LYS* 3.4 21.9 + - - +
143A THR 3.1 29.5 - - - +
144A GLY 3.5 5.5 + - - +
145A ALA 3.1 0.2 - - - -
146A GLU* 1.3 76.3 - - - +
148A LYS* 1.3 53.9 + - - +
150A ALA* 3.0 5.6 + - - +
151A ALA* 2.7 39.8 + - + +
189A GLU 4.1 6.1 + - - -
190A ILE* 3.0 44.7 + - - +
191A LEU* 6.0 0.4 - - - +
192A ASN* 4.8 8.2 - - - +
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Residues in contact with LYS 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A GLY 3.1 14.7 + - - +
145A ALA* 3.3 10.5 + - - +
147A ARG* 1.3 76.3 - - - +
149A GLU* 1.3 59.4 + - - +
151A ALA* 3.8 6.0 - - + +
152A GLU* 2.7 74.7 + - + +
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Residues in contact with GLU 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A ALA* 3.0 22.7 + - - +
146A GLU* 3.1 26.2 - - - +
148A LYS* 1.3 79.5 - - - +
150A ALA* 1.3 59.2 + - - +
152A GLU* 3.3 13.5 + - - +
153A SER* 2.8 34.4 + - - +
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Residues in contact with ALA 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135A HIS* 3.5 30.6 - - - +
138A LEU* 4.1 13.5 - - + -
139A ALA* 3.9 16.2 - - + +
142A LYS* 5.1 0.9 - - + -
146A GLU 3.2 12.9 + - - +
147A ARG 3.0 7.0 + - - +
149A GLU* 1.3 78.6 - - - +
151A ALA* 1.3 56.6 + - - +
153A SER* 3.2 2.8 + - - -
154A THR* 2.9 33.7 + - - -
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Residues in contact with ALA 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A ALA* 4.4 3.7 - - - +
147A ARG* 2.7 24.8 + - + +
148A LYS* 3.8 6.3 - - + +
150A ALA* 1.3 72.4 - - - +
152A GLU* 1.3 56.8 + - - +
154A THR* 3.4 0.7 + - - -
155A LEU* 3.0 27.7 + - - +
186A PHE* 3.5 20.9 - - + -
190A ILE* 4.2 20.0 - - + -
191A LEU* 4.3 10.3 - - + -
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Residues in contact with GLU 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A LYS* 2.7 56.7 + - + +
149A GLU* 3.3 12.8 - - - +
151A ALA* 1.3 73.8 - - - +
153A SER* 1.3 60.6 + - - +
155A LEU* 3.3 4.5 + - - +
156A THR* 2.7 33.8 + - + +
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Residues in contact with SER 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A LYS* 5.3 5.5 - - - -
135A HIS* 3.3 42.8 + - - -
149A GLU* 2.8 22.9 + - - +
150A ALA 3.2 0.9 + - - -
152A GLU* 1.3 74.0 - - - +
154A THR* 1.3 60.0 + - - +
156A THR* 3.5 8.0 + - - +
157A ALA* 3.1 23.9 + - - +
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Residues in contact with THR 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132A GLY* 3.7 12.3 - - - +
135A HIS* 3.1 6.8 + - - +
136A ARG* 3.1 26.7 + - + -
150A ALA 2.9 17.3 + - - -
151A ALA* 3.5 5.7 - - - -
153A SER* 1.3 71.9 - - - +
155A LEU* 1.3 68.3 + - - +
157A ALA* 3.4 1.2 + - - +
158A TYR* 3.0 52.7 + - + +
186A PHE* 3.5 26.7 - - + -
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Residues in contact with LEU 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A ALA 3.0 16.7 + - - +
152A GLU* 3.8 4.9 - - - +
154A THR* 1.3 77.6 - - - +
156A THR* 1.3 60.4 + - + +
158A TYR* 4.8 0.7 - - - -
159A LYS* 2.8 65.7 + - + +
183A PHE* 3.6 34.5 - - + -
186A PHE* 3.7 16.8 - - + -
187A TYR* 4.0 10.8 - - + +
191A LEU* 5.5 4.5 - - + -
196A ARG* 4.8 5.8 - - - +
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Residues in contact with THR 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A GLU* 2.7 36.1 + - + +
153A SER* 3.9 7.9 + - - +
155A LEU* 1.3 76.8 - - + +
157A ALA* 1.3 61.4 + - - +
159A LYS* 4.1 5.5 - - - +
160A ALA* 3.2 22.9 + - - +
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Residues in contact with ALA 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128A LEU* 3.6 28.7 - - + +
131A LYS* 4.1 19.5 - - + +
132A GLY* 3.7 15.9 - - - +
153A SER 3.1 17.4 + - - +
154A THR 3.9 0.2 - - - +
156A THR* 1.3 75.5 + - - +
158A TYR* 1.3 62.0 + - - +
160A ALA* 3.1 5.8 + - - +
161A ALA* 2.8 29.3 + - - +
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Residues in contact with TYR 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129A LYS* 3.7 19.5 - - + -
132A GLY* 3.4 23.3 - - - -
133A ASP* 2.5 30.2 + - - -
136A ARG* 3.1 16.5 + - - -
154A THR* 3.0 35.5 + - + +
155A LEU 4.0 0.2 - - - +
157A ALA* 1.3 72.7 - - - +
159A LYS* 1.3 60.4 + - - +
161A ALA* 3.7 4.1 - - - +
162A GLN* 2.8 32.7 + - - +
179A LEU* 3.6 19.4 - - + +
182A ASN* 3.7 12.6 - - + +
183A PHE* 3.7 43.8 - + + -
186A PHE* 3.9 17.0 - + + -
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Residues in contact with LYS 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A LEU* 2.8 56.5 + - + +
156A THR* 4.2 4.9 - - - +
158A TYR* 1.3 72.2 - - - +
160A ALA* 1.3 58.3 + - - +
162A GLN* 3.5 5.8 + - - +
163A ASP* 2.8 45.6 + - - +
183A PHE* 4.1 14.5 - - + -
187A TYR* 4.6 3.8 - - - -
196A ARG* 4.3 13.5 - - - +
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Residues in contact with ALA 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128A LEU* 4.1 19.1 - - + -
156A THR 3.2 19.1 + - - +
157A ALA* 3.1 7.5 + - - +
159A LYS* 1.3 74.2 - - - +
161A ALA* 1.3 64.2 + - - +
163A ASP* 3.5 7.3 + - - +
164A ILE* 3.4 26.7 + - + +
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Residues in contact with ALA 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125A VAL* 3.6 18.3 - - + +
128A LEU* 3.8 24.1 - - + +
129A LYS 4.3 1.3 - - - +
157A ALA 2.8 16.0 + - - +
158A TYR 3.7 2.2 - - - +
160A ALA* 1.3 75.3 - - - +
162A GLN* 1.3 51.7 + - - +
164A ILE* 3.0 5.8 + - - +
165A ALA* 2.7 34.7 + - - +
179A LEU* 3.7 28.3 - - + -
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Residues in contact with GLN 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158A TYR 2.8 21.6 + - - +
159A LYS* 3.9 7.5 - - - +
161A ALA* 1.3 74.5 - - - +
163A ASP* 1.3 69.5 + - - +
165A ALA* 4.3 2.5 - - + +
166A THR* 2.8 47.8 + - - +
176A ARG* 6.2 0.2 - - - +
179A LEU* 3.5 16.8 - - + +
183A PHE* 3.9 26.9 - - + -
200A LEU* 4.0 20.8 - - - +
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Residues in contact with ASP 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159A LYS* 2.8 34.6 + - - +
160A ALA* 4.0 6.4 - - - +
161A ALA 3.2 0.6 - - - -
162A GLN* 1.3 89.3 - - - +
164A ILE* 1.3 61.8 + - + +
166A THR* 4.8 3.4 - - - -
167A THR* 3.4 28.4 + - - +
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Residues in contact with ILE 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121A GLY* 3.8 12.8 - - - -
124A LYS* 4.0 33.0 - - + +
125A VAL* 3.6 16.2 - - + +
128A LEU* 4.3 11.2 - - + -
160A ALA* 3.4 14.3 + - + +
161A ALA 3.0 7.6 + - - +
163A ASP* 1.3 78.9 - - + +
165A ALA* 1.3 56.8 - - - +
166A THR 3.3 0.2 - - - -
167A THR* 3.1 4.2 + - - -
168A GLU* 2.7 66.8 + - + +
169A LEU* 5.7 0.2 - - + -
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Residues in contact with ALA 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125A VAL* 3.6 25.8 - - + +
161A ALA 2.7 18.6 + - - +
162A GLN* 4.2 2.7 - - + +
164A ILE* 1.3 72.4 - - - +
166A THR* 1.3 58.8 + - - +
169A LEU* 2.8 47.0 + - + +
176A ARG* 3.4 25.5 - - + -
179A LEU* 4.4 8.3 - - + -
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Residues in contact with THR 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162A GLN* 2.8 34.9 + - + +
163A ASP* 4.8 2.2 - - - +
165A ALA* 1.3 79.3 - - - +
167A THR* 1.3 68.5 + - + +
169A LEU 4.6 3.2 - - - +
176A ARG* 3.9 31.5 + - - +
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Residues in contact with THR 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A ASP* 3.4 21.6 + - - +
164A ILE* 3.1 5.2 + - - -
166A THR* 1.3 92.1 - - + +
168A GLU* 1.3 71.5 + - - +
169A LEU 3.8 0.7 - - - -
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Residues in contact with GLU 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121A GLY* 3.5 26.8 + - - +
124A LYS* 5.5 2.6 - - - -
164A ILE* 2.7 38.1 + - + +
167A THR* 1.3 83.9 + - - +
169A LEU* 1.3 67.3 + - + +
170A ALA 4.5 0.2 + - - -
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Residues in contact with LEU 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121A GLY* 5.3 0.2 - - - -
122A ASP* 2.9 39.9 - - - +
125A VAL* 4.1 26.0 - - + -
165A ALA* 2.8 37.6 + - + +
166A THR 4.6 3.6 - - - +
167A THR 5.2 0.3 - - - -
168A GLU* 1.3 84.9 - - + +
170A ALA* 1.3 64.6 + - - +
171A PRO* 3.8 0.9 - - - +
173A HIS* 3.7 30.1 - - + +
175A ILE* 4.7 0.9 - - + -
176A ARG* 3.1 23.2 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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