Contacts of the helix formed by residues 190 - 212 (chain A) in PDB entry 1K3X
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 190 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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188A ASP 3.8 1.2 + - - -
189A LEU* 1.3 75.9 - - - +
191A ALA* 1.3 58.9 + - - +
192A ALA* 3.1 11.5 + - - +
193A GLN* 2.9 49.9 + - - +
194A LEU* 2.9 27.8 + - - +
553A SO4 3.2 27.4 - - - +
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Residues in contact with ALA 191 (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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140A LYS* 5.1 0.7 + - - +
190A ASN* 1.3 71.7 - - - +
192A ALA* 1.3 61.7 + - - +
194A LEU* 3.8 9.5 - - - +
195A ASP* 3.0 25.5 + - - +
552A SO4 3.6 26.8 + - - +
553A SO4 3.0 25.2 + - - +
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Residues in contact with ALA 192 (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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190A ASN* 3.1 10.4 + - - +
191A ALA* 1.3 77.6 - - - +
193A GLN* 1.4 59.0 + - + +
195A ASP* 3.4 6.0 + - - +
196A ALA* 2.9 28.5 + - - +
553A SO4 4.5 1.6 + - - -
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Residues in contact with GLN 193 (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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178A VAL* 5.2 7.6 + - + +
180A LEU* 3.9 27.2 - - + +
188A ASP 4.5 1.6 - - - +
189A LEU* 3.5 23.7 - - + +
190A ASN* 2.9 52.2 + - - +
192A ALA* 1.4 75.1 - - + +
194A LEU* 1.3 60.1 + - - +
196A ALA* 3.3 6.4 + - - +
197A LEU* 2.9 30.5 + - - +
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Residues in contact with LEU 194 (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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140A LYS* 3.5 22.7 - - + -
143A LEU* 4.1 16.3 - - + +
144A LEU* 3.4 38.6 - - + -
186A ALA* 4.0 35.7 - - + +
189A LEU* 4.0 17.2 - - + +
190A ASN 2.9 17.2 + - - +
191A ALA* 3.8 8.3 - - - +
193A GLN* 1.3 77.5 - - - +
195A ASP* 1.3 57.0 + - - +
197A LEU* 3.3 2.1 + - - +
198A ALA* 2.9 29.5 + - - +
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Residues in contact with ASP 195 (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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136A PRO* 5.8 0.2 - - - +
140A LYS* 2.6 35.3 + - - +
191A ALA 3.0 17.7 + - - +
192A ALA* 3.7 6.7 - - - +
194A LEU* 1.3 78.3 - - - +
196A ALA* 1.3 62.6 + - - +
198A ALA* 3.4 0.7 + - - +
199A HIS* 3.0 43.7 + - - -
512A GOL 2.3 40.4 + - - -
552A SO4 3.5 10.8 + - - +
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Residues in contact with ALA 196 (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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178A VAL* 3.6 18.6 - - + +
192A ALA 2.9 16.9 + - - +
193A GLN* 3.3 8.3 + - - +
195A ASP* 1.3 77.9 + - - +
197A LEU* 1.3 58.9 + - - +
199A HIS* 3.4 5.4 + - - +
200A ALA* 2.9 30.1 + - - +
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Residues in contact with LEU 197 (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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143A LEU* 4.1 17.3 - - + -
153A PHE* 3.5 41.7 - - + -
157A LEU* 4.9 8.3 - - + -
174A ILE* 3.8 26.0 - - + -
175A LEU* 5.1 5.2 - - + -
178A VAL* 3.9 22.8 - - + +
180A LEU* 4.9 0.7 - - + -
189A LEU* 4.0 9.6 - - + -
193A GLN 2.9 17.4 + - - +
194A LEU* 3.7 3.4 - - - +
196A ALA* 1.3 77.3 - - - +
198A ALA* 1.3 63.9 + - - +
200A ALA* 3.2 0.9 + - - -
201A LEU* 2.9 42.8 + - + +
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Residues in contact with ALA 198 (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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136A PRO* 3.7 26.7 - - + +
139A VAL* 3.9 16.2 - - + +
140A LYS* 3.9 22.7 - - + +
143A LEU* 4.2 2.4 - - + +
194A LEU 2.9 18.4 + - - +
195A ASP* 3.8 5.6 - - - +
197A LEU* 1.3 76.9 - - - +
199A HIS* 1.4 64.1 + - + +
201A LEU* 3.6 10.4 + - - +
202A LEU* 3.7 16.8 + - - +
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Residues in contact with HIS 199 (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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136A PRO* 3.6 35.6 - - + +
137A GLU* 5.7 2.3 + - - -
195A ASP* 3.0 47.4 + - - +
196A ALA* 3.7 6.1 - - - +
198A ALA* 1.4 79.3 - - + +
200A ALA* 1.3 57.6 + - - +
202A LEU* 3.2 4.0 + - - +
203A GLU* 2.8 63.2 + - - +
512A GOL 3.3 39.5 + - - -
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Residues in contact with ALA 200 (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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174A ILE* 3.7 16.9 - - + +
177A GLN* 4.4 6.7 - - + -
178A VAL* 3.9 17.5 - - + -
196A ALA 2.9 18.3 + - - +
197A LEU 3.2 3.1 + - - +
199A HIS* 1.3 76.5 - - - +
201A LEU* 1.3 63.6 + - - +
203A GLU* 4.2 6.5 - - - +
204A ILE* 3.1 39.9 + - + +
205A PRO* 3.5 4.3 - - - +
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Residues in contact with LEU 201 (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 VAL* 3.5 14.0 - - - +
139A VAL* 3.7 22.9 - - + -
143A LEU* 4.0 10.5 - - + -
157A LEU* 4.0 22.4 - - + -
162A PHE* 4.2 7.9 - - + -
163A LEU* 4.0 17.7 - - + -
166A LEU* 3.7 29.7 - - + +
174A ILE* 4.0 16.2 - - + -
197A LEU* 2.9 38.6 + - + +
198A ALA 3.7 5.2 - - - +
199A HIS 3.2 0.2 - - - -
200A ALA* 1.3 76.4 - - - +
202A LEU* 1.3 59.7 + - + +
205A PRO* 3.2 19.3 - - - +
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Residues in contact with LEU 202 (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 VAL* 3.7 23.8 - - + +
134A LEU* 3.6 40.2 - - + +
135A THR 3.5 10.8 - - - +
136A PRO* 3.5 38.1 - - + -
139A VAL* 3.9 11.0 - - + -
163A LEU* 5.1 0.2 - - + -
198A ALA 3.7 7.6 + - - +
199A HIS* 3.2 5.5 + - - +
200A ALA 3.1 0.2 - - - -
201A LEU* 1.3 82.3 - - + +
203A GLU* 1.3 67.8 + - + +
204A ILE 3.4 0.9 - - - -
205A PRO* 3.3 3.7 - - - +
206A ARG* 3.0 46.6 + - - +
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Residues in contact with GLU 203 (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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136A PRO* 4.9 3.4 - - + +
199A HIS* 2.8 60.5 + - - +
200A ALA* 4.5 3.2 - - - -
202A LEU* 1.3 77.1 - - + +
204A ILE* 1.3 59.4 + - + +
206A ARG* 3.8 9.4 - - - +
207A PHE* 2.9 31.4 + - - +
512A GOL 5.1 0.7 + - - -
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Residues in contact with ILE 204 (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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170A LEU* 3.9 17.9 - - + -
173A GLU* 3.8 24.7 - - + +
174A ILE* 3.9 13.2 - - + -
177A GLN* 3.6 37.7 - - + +
200A ALA* 3.1 15.4 + - + +
203A GLU* 1.3 78.0 - - + +
205A PRO* 1.3 70.2 - - + +
207A PHE* 3.2 7.3 + - + +
208A SER* 2.9 22.7 + - - -
225A PHE* 4.2 17.6 - - + -
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Residues in contact with PRO 205 (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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4A PRO* 3.5 12.3 - - + +
129A VAL* 3.5 22.7 - - + -
130A LEU* 3.9 5.4 - - + -
166A LEU* 3.6 22.2 - - + -
170A LEU* 3.9 23.3 - - + -
174A ILE* 4.4 2.0 - - + -
200A ALA 3.5 3.4 - - - +
201A LEU 3.2 23.3 - - - +
202A LEU 3.3 9.9 - - - +
204A ILE* 1.3 94.4 - - + +
206A ARG* 1.3 56.0 + - - +
208A SER 3.3 0.2 + - - -
209A TYR* 2.9 27.0 + - - +
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Residues in contact with ARG 206 (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 VAL 2.9 25.7 + - - +
130A LEU* 3.9 18.7 - - + +
131A ASP 2.9 27.9 + - - -
132A PRO* 4.2 10.6 + - - +
134A LEU* 2.9 23.2 + - - +
136A PRO* 5.5 3.2 - - - +
202A LEU* 3.0 43.0 + - - +
203A GLU* 3.9 8.8 - - - +
205A PRO* 1.3 74.2 - - - +
207A PHE* 1.3 57.0 + - - +
209A TYR* 3.4 5.2 + - + +
210A ALA* 3.0 30.0 + - - +
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Residues in contact with PHE 207 (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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203A GLU 2.9 19.5 + - - +
204A ILE* 3.6 7.6 - - + +
206A ARG* 1.3 73.2 - - - +
208A SER* 1.3 61.9 + - - +
210A ALA* 3.3 4.0 + - + -
211A THR* 2.9 48.1 + - + -
223A ALA* 3.5 25.8 - - + -
224A LEU* 3.3 10.3 - - - -
225A PHE* 3.3 43.7 - + - -
226A ARG 4.8 1.1 - - - -
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Residues in contact with SER 208 (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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4A PRO* 3.7 5.4 - - - +
5A GLU* 3.6 7.6 + - - -
8A ARG* 4.5 2.9 - - - -
169A TYR* 2.7 29.1 + - - -
170A LEU* 4.9 0.2 - - - -
204A ILE 2.9 17.1 + - - -
205A PRO* 3.6 4.9 - - - -
207A PHE* 1.3 76.5 - - - +
209A TYR* 1.3 62.9 + - - +
212A ARG* 2.9 35.0 + - - +
225A PHE* 3.8 26.5 - - - -
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Residues in contact with TYR 209 (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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4A PRO* 3.7 31.3 - - + +
7A ARG* 3.3 30.6 + - + +
8A ARG* 3.8 24.5 - - + +
11A ASP* 2.5 30.1 + - - -
130A LEU* 4.0 19.5 - - + -
205A PRO 2.9 17.3 + - - +
206A ARG* 3.7 7.6 - - + +
208A SER* 1.3 77.0 - - - +
210A ALA* 1.3 67.8 + - + +
212A ARG 4.7 0.2 + - - -
213A GLY 5.2 0.5 + - - -
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Residues in contact with ALA 210 (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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206A ARG 3.0 17.1 + - - +
207A PHE* 3.8 6.7 - - + +
208A SER 3.2 0.2 - - - -
209A TYR* 1.3 84.0 - - + +
211A THR* 1.3 72.0 + - + +
213A GLY 5.4 0.4 - - - -
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Residues in contact with THR 211 (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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207A PHE* 2.9 35.8 + - + -
210A ALA* 1.3 93.4 - - + +
212A ARG* 1.4 67.1 + - - +
213A GLY 3.2 13.1 - - - +
223A ALA 4.0 8.3 - - - +
224A LEU* 3.8 32.2 - - + +
225A PHE* 2.8 26.5 + - - +
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Residues in contact with ARG 212 (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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5A GLU* 2.9 41.4 + - - +
8A ARG* 3.9 13.8 + - - +
169A TYR* 3.6 13.3 - - - -
208A SER* 2.9 28.3 + - - +
211A THR* 1.4 78.1 + - - +
213A GLY* 1.3 60.3 + - - +
225A PHE* 3.9 27.9 - - + +
227A PHE* 3.5 32.3 - - - -
230A PHE* 6.0 0.4 - - - -
554A SO4 3.8 25.1 + - - -
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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