Contacts of the helix formed by residues 159 - 183 (chain P) in PDB entry 1HI0
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 ASP 159 (chain P).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157P SER* 3.3 4.2 + - - +
158P ASN* 1.3 76.4 - - - +
160P MET* 1.3 68.4 + - - +
161P GLY* 2.9 16.2 + - - -
162P THR* 3.0 28.4 + - - +
163P LYS* 2.8 23.5 + - - +
541P LYS* 4.8 5.8 - - - +
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Residues in contact with MET 160 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145P ILE* 3.6 28.7 - - + +
146P ARG 3.8 4.5 - - - +
147P LYS* 3.6 34.5 - - + -
158P ASN 3.3 5.5 + - - -
159P ASP* 1.3 73.0 + - - +
161P GLY* 1.3 63.7 + - - +
163P LYS* 4.0 11.7 - - - +
164P ILE* 2.9 51.6 + - + +
541P LYS* 5.4 4.2 - - - +
647P HIS* 3.4 41.3 - - + -
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Residues in contact with GLY 161 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159P ASP* 2.9 13.9 + - - -
160P MET* 1.3 82.6 - - - +
162P THR* 1.3 60.3 + - - +
164P ILE* 3.3 7.5 + - - +
165P GLU* 3.2 30.2 + - - +
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Residues in contact with THR 162 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155P TYR* 5.9 2.5 - - + -
157P SER* 3.4 24.9 + - - +
159P ASP* 3.0 23.1 + - - +
161P GLY* 1.3 71.0 - - - +
163P LYS* 1.3 67.9 + - - +
165P GLU* 3.2 16.3 + - + +
166P ILE* 2.8 40.7 + - + +
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Residues in contact with LYS 163 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145P ILE* 3.4 23.3 - - + -
146P ARG 3.5 9.3 + - - -
148P GLY 3.5 8.9 - - - +
149P SER* 3.0 40.9 + - - +
150P SER 5.0 0.2 - - - -
151P THR* 3.6 27.6 - - + +
157P SER* 4.3 2.2 - - - +
158P ASN 3.2 23.1 + - - -
159P ASP 2.8 18.5 + - - +
160P MET* 3.6 21.9 - - - +
162P THR* 1.3 76.9 - - - +
164P ILE* 1.3 65.3 + - - +
166P ILE* 3.1 7.5 + - - +
167P ALA* 2.9 22.7 + - - +
277P PHE* 3.8 13.9 - - + -
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Residues in contact with ILE 164 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145P ILE* 3.9 13.5 - - + -
160P MET* 2.9 43.5 + - + +
161P GLY* 3.5 8.5 - - - +
163P LYS* 1.3 76.0 - - - +
165P GLU* 1.3 64.2 + - + +
167P ALA* 3.3 5.3 + - - +
168P GLU* 2.9 48.8 + - + +
647P HIS* 3.7 17.9 - - + +
648P GLY 3.5 24.2 - - - +
649P VAL* 4.5 5.6 - - + -
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Residues in contact with GLU 165 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161P GLY* 3.4 20.1 - - - +
162P THR* 3.2 16.0 + - + +
164P ILE* 1.3 80.8 - - + +
166P ILE* 1.3 66.0 + - + +
168P GLU* 3.7 7.2 - - - +
169P ARG* 2.8 27.9 + - - +
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Residues in contact with ILE 166 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151P THR* 4.0 25.6 - - + +
155P TYR* 3.8 34.1 - - + -
157P SER* 5.1 0.4 - - - -
162P THR* 2.8 29.9 + - + +
163P LYS 3.3 7.2 - - - +
165P GLU* 1.3 77.1 - - + +
167P ALA* 1.3 58.7 + - - +
169P ARG* 3.5 6.2 - - - +
170P ALA* 2.9 26.9 + - - +
277P PHE* 3.3 29.4 - - + -
278P ALA* 4.4 15.6 - - + +
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Residues in contact with ALA 167 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143P LEU* 4.2 23.3 - - + -
145P ILE* 4.4 2.7 - - + -
163P LYS 2.9 15.5 + - - +
164P ILE 3.6 6.7 - - - +
166P ILE* 1.3 73.9 - - - +
168P GLU* 1.3 67.4 + - - +
170P ALA* 2.9 13.5 + - - +
171P LEU* 2.9 18.5 + - - +
277P PHE* 4.0 15.9 - - + -
281P ALA* 4.2 10.3 - - + -
649P VAL* 4.4 11.0 - - + -
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Residues in contact with GLU 168 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164P ILE* 2.9 39.5 + - + +
165P GLU* 3.7 6.9 - - - +
167P ALA* 1.3 71.5 - - - +
169P ARG* 1.3 62.7 + - - +
171P LEU* 3.4 9.9 + - - +
172P GLU* 3.1 28.6 + - - +
649P VAL* 3.2 33.4 - - + +
650P SER* 3.8 6.9 + - - -
653P LYS* 3.2 43.4 + - + +
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Residues in contact with ARG 169 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165P GLU 2.8 21.9 + - - +
166P ILE* 3.5 7.2 - - - +
168P GLU* 1.3 72.0 - - - +
170P ALA* 1.3 65.5 + - - +
172P GLU* 2.9 22.5 + - - +
173P LYS* 2.8 61.2 + - + +
192P LEU 5.3 3.4 + - - -
193P HIS* 4.7 12.4 + - + +
194P GLN* 5.8 4.0 - - - +
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Residues in contact with ALA 170 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166P ILE 2.9 14.2 + - - +
167P ALA 2.9 10.1 + - - +
169P ARG* 1.3 75.7 - - - +
171P LEU* 1.3 57.8 + - - +
172P GLU 2.9 0.7 + - - -
173P LYS* 3.0 1.1 + - - -
174P ALA* 2.6 36.0 + - - +
195P MET* 3.6 13.0 - - + -
278P ALA* 3.3 32.1 - - + +
281P ALA* 3.9 14.6 - - + -
282P PRO* 4.1 2.0 - - + -
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Residues in contact with LEU 171 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143P LEU* 4.7 10.1 - - + -
167P ALA 2.9 20.1 + - - +
168P GLU* 3.8 10.3 - - - +
170P ALA* 1.3 73.4 - - - +
172P GLU* 1.3 61.1 + - + +
174P ALA* 4.3 2.1 + - - +
175P GLU* 5.2 1.0 + - - +
281P ALA* 4.2 3.8 - - + +
282P PRO* 3.7 27.6 - - + -
285P ALA* 4.1 6.3 - - + -
649P VAL* 5.4 2.7 - - + -
653P LYS* 4.0 9.4 - - + +
654P THR* 3.8 42.6 - - + +
657P PHE* 3.2 54.6 - - + +
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Residues in contact with GLU 172 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168P GLU 3.1 17.7 + - - +
169P ARG* 2.9 24.8 + - - +
171P LEU* 1.3 80.1 - - - +
173P LYS* 1.3 68.3 + - + +
174P ALA 3.5 0.6 + - - -
175P GLU* 4.8 6.1 + - - +
176P GLU* 5.4 0.3 + - - +
653P LYS* 3.6 26.7 + - - +
656P ARG* 5.1 16.3 + - - +
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Residues in contact with LYS 173 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169P ARG* 2.8 56.3 + - + +
170P ALA* 3.5 0.7 - - - +
172P GLU* 1.3 82.9 - - + +
174P ALA* 1.3 65.2 + - - +
175P GLU 3.2 2.7 - - - -
176P GLU* 3.1 35.8 + - + +
177P ALA* 2.9 22.7 + - - +
193P HIS* 3.3 28.3 - - + +
195P MET* 4.2 3.8 - - + -
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Residues in contact with ALA 174 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170P ALA 2.6 21.5 + - - +
171P LEU 4.4 0.7 - - - +
172P GLU 3.5 1.4 - - - -
173P LYS* 1.3 71.3 - - - +
175P GLU* 1.3 58.3 + - - +
177P ALA* 3.1 3.6 + - - +
178P GLY 2.8 26.3 + - - -
195P MET* 3.4 15.9 - - + -
282P PRO* 3.8 17.9 - - + -
352P TRP* 3.9 3.1 - - + -
356P LEU* 3.7 13.2 - - + +
657P PHE* 3.8 27.1 - - + -
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Residues in contact with GLU 175 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171P LEU 5.2 0.8 + - - -
172P GLU 4.8 5.8 + - - +
173P LYS 3.2 0.6 - - - -
174P ALA* 1.3 80.5 - - - +
176P GLU* 1.3 64.1 + - - +
177P ALA 3.2 0.2 + - - -
178P GLY 3.2 0.3 + - - -
179P ASN* 3.1 40.6 + - - +
352P TRP* 3.2 54.0 + - + +
660P SER* 4.0 12.5 + - - -
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Residues in contact with GLU 176 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173P LYS* 3.1 40.9 + - + +
175P GLU* 1.3 79.4 - - - +
177P ALA* 1.3 60.9 + - - +
179P ASN* 3.7 9.7 + - - +
180P LEU* 3.2 28.7 + - + +
192P LEU* 4.2 10.6 - - - +
193P HIS* 3.1 26.7 + - - +
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Residues in contact with ALA 177 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173P LYS 2.9 12.7 + - - +
174P ALA 3.3 8.5 - - - +
176P GLU* 1.3 76.2 - - - +
178P GLY* 1.3 64.7 + - - +
180P LEU* 2.9 28.4 - - - +
181P MET* 3.0 15.0 + - + +
189P ALA* 4.0 4.6 - - + +
193P HIS* 4.0 15.8 - - + -
195P MET* 3.5 29.6 - - + -
356P LEU* 4.4 1.6 - - + -
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Residues in contact with GLY 178 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174P ALA 2.8 14.3 + - - -
175P GLU 3.7 2.5 - - - -
177P ALA* 1.3 75.9 - - - +
179P ASN* 1.3 56.7 + - - +
181P MET* 2.9 9.0 + - - +
182P LEU* 2.8 29.1 + - - +
352P TRP* 3.6 28.9 - - - -
355P LYS* 4.1 1.5 - - - +
356P LEU* 3.9 11.3 - - - +
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Residues in contact with ASN 179 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175P GLU* 3.1 38.8 + - - +
176P GLU* 4.0 7.7 - - - +
178P GLY* 1.3 74.4 - - - +
180P LEU* 1.3 63.0 + - - +
182P LEU* 3.1 26.9 + - - +
183P GLN* 3.1 25.8 + - + +
351P PRO* 5.7 0.2 - - - +
352P TRP* 3.5 17.3 + - - +
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Residues in contact with LEU 180 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176P GLU* 3.2 22.0 + - + +
177P ALA* 2.9 16.6 + - - +
179P ASN* 1.3 81.2 - - + +
181P MET* 1.3 57.0 - - - +
183P GLN* 3.2 17.5 + - - +
185P LYS* 2.9 65.1 + - + +
188P ASP* 4.1 13.0 - - + +
189P ALA* 4.0 22.4 - - + +
192P LEU* 4.4 11.9 - - + -
193P HIS* 4.3 13.0 - - + +
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Residues in contact with MET 181 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177P ALA 3.0 14.7 + - - +
178P GLY 2.9 8.8 + - - +
180P LEU* 1.3 71.4 - - - +
182P LEU* 1.3 58.6 + - - +
183P GLN 3.1 1.8 - - - -
184P GLY* 2.7 23.5 + - - +
185P LYS 4.3 3.6 - - - +
186P PHE* 3.5 31.4 - - + -
189P ALA* 3.9 10.1 - - + -
195P MET* 4.1 25.8 - - + +
279P LEU* 4.5 5.2 - - + -
355P LYS* 3.6 20.9 - - + -
356P LEU* 2.9 42.4 - - + -
359P THR* 3.5 31.2 - - + -
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Residues in contact with LEU 182 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178P GLY 2.8 12.7 + - - +
179P ASN* 3.1 30.9 + - - +
181P MET* 1.3 76.1 - - - +
183P GLN* 1.3 59.3 + - + +
184P GLY* 3.1 4.0 + - - -
351P PRO* 4.0 16.4 - - + +
352P TRP* 3.7 21.3 - - - +
355P LYS* 3.5 34.4 - - + +
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Residues in contact with GLN 183 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179P ASN* 3.1 21.4 + - - +
180P LEU* 3.5 26.4 - - - +
181P MET 3.1 0.4 - - - -
182P LEU* 1.3 77.5 - - + +
184P GLY* 1.3 61.9 + - - +
185P LYS* 3.2 36.0 + - + +
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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) + - + + + + + -
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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