Contacts of the helix formed by residues 178 - 199 (chain A) in PDB entry 6CJH
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 178 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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174A ARG* 3.9 4.0 - - - +
176A HIS* 5.6 0.9 - - - -
177A PHE* 1.3 74.6 - - - +
179A GLU* 1.3 61.1 + - + +
180A LEU* 2.8 28.1 + - - +
181A GLU* 2.9 36.5 + - - +
182A ALA* 2.9 29.8 + - - +
289A LEU* 4.4 2.0 - - - -
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Residues in contact with GLU 179 (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 ASN* 1.3 77.2 + - + +
180A LEU* 1.3 58.5 + - + +
182A ALA 3.1 2.1 + - - -
183A SER* 2.7 37.3 + - - -
289A LEU* 4.2 10.7 - - + +
336A HIS 4.6 2.1 - - - +
337A ILE* 3.7 17.8 - - + +
338A SER* 3.0 39.3 + - - -
341A ALA* 3.7 3.8 - - - +
367A TRP* 2.8 45.5 + - + +
371A CYS 4.7 4.3 - - - +
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Residues in contact with LEU 180 (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 ASN* 2.8 17.6 + - - +
179A GLU* 1.3 76.7 - - + +
181A GLU* 1.3 60.2 + - + +
183A SER* 2.4 24.2 + - - -
184A VAL* 3.0 14.8 - - - +
371A CYS* 4.1 26.0 + - + +
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Residues in contact with GLU 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ARG* 2.7 47.2 + - - -
177A PHE* 3.3 11.9 - - + +
178A ASN* 2.9 37.8 + - - +
180A LEU* 1.3 79.1 - - + +
182A ALA* 1.3 66.2 + - - +
183A SER 3.0 1.6 + - - -
184A VAL* 3.1 15.5 + - - +
185A VAL* 3.2 16.1 + - - +
219A VAL* 3.6 25.5 + - + +
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Residues in contact with ALA 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A PHE* 4.9 6.7 - - + -
178A ASN 2.9 13.9 + - - +
179A GLU 3.7 2.9 - - - +
181A GLU* 1.3 79.9 - - + +
183A SER* 1.3 62.0 + - - +
185A VAL* 3.3 10.5 - - - +
186A VAL* 3.0 28.4 + - - +
285A LEU* 4.4 3.4 - - + -
288A LEU* 4.2 21.5 - - + -
289A LEU* 4.2 14.8 - - + -
367A TRP* 3.7 12.6 - - + -
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Residues in contact with SER 183 (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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179A GLU 2.7 15.9 + - - -
180A LEU* 2.4 32.7 + - - -
182A ALA* 1.3 72.1 - - - +
184A VAL* 1.3 52.8 + - - +
186A VAL* 2.9 5.5 + - - +
187A GLN* 2.7 35.4 + - - +
367A TRP* 3.4 39.4 - - - -
368A VAL* 4.4 4.6 - - - +
371A CYS* 3.6 24.4 - - - -
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Residues in contact with VAL 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A ARG* 5.9 1.3 - - - +
180A LEU 3.0 20.6 - - - +
181A GLU* 3.3 8.1 - - - +
183A SER* 1.3 74.2 + - - +
185A VAL* 1.3 53.4 + - - +
187A GLN* 3.2 19.5 + - - +
188A ASP* 2.7 45.0 + - - +
220A SER* 3.4 28.5 - - - +
221A PRO* 5.3 0.4 - - + -
371A CYS* 4.3 12.5 - - + -
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Residues in contact with VAL 185 (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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167A ILE* 4.4 15.7 - - + -
181A GLU 3.2 19.7 - - - +
182A ALA* 3.3 11.0 - - - +
184A VAL* 1.3 70.9 - - - +
186A VAL* 1.3 62.9 + - + +
188A ASP* 3.2 8.0 + - - +
189A VAL* 2.8 42.7 + - + +
211A ILE* 5.4 3.6 - - + -
219A VAL* 4.1 25.4 - - + +
220A SER* 4.2 13.9 - - - -
222A VAL* 4.6 8.3 - - + -
281A LEU* 6.5 0.4 - - + -
284A ILE* 6.0 1.6 - - + -
288A LEU* 4.2 20.4 - - + -
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Residues in contact with VAL 186 (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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182A ALA 3.0 15.9 + - - +
183A SER 2.9 6.7 + - - +
185A VAL* 1.3 71.8 - - + +
187A GLN* 1.3 66.6 + - - +
189A VAL* 3.7 5.3 - - - +
190A ALA* 2.7 28.2 + - - +
281A LEU* 3.9 30.7 - - + -
285A LEU* 4.0 37.2 - - + -
288A LEU* 4.7 7.6 - - + -
344A LEU* 4.8 2.7 - - + -
348A LEU* 5.8 1.1 - - + -
362A VAL* 4.3 16.6 - - + -
367A TRP* 4.2 5.6 - - + -
368A VAL* 4.4 9.2 - - + -
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Residues in contact with GLN 187 (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 ARG* 5.8 4.3 - - - +
183A SER 2.7 15.1 + - - +
184A VAL* 3.2 26.0 + - - +
186A VAL* 1.3 77.0 - - - +
188A ASP* 1.3 55.6 + - - +
190A ALA* 4.5 0.2 - - - -
191A SER* 2.4 36.9 + - - +
363A LEU* 3.4 15.9 - - + +
368A VAL* 3.8 35.7 - - + +
369A GLN* 4.6 10.2 + - - +
371A CYS* 4.5 10.9 - - - -
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Residues in contact with ASP 188 (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 ARG* 2.7 26.9 + - - -
141A ASN* 2.5 55.0 + - - +
184A VAL* 2.7 28.6 + - - +
185A VAL* 3.4 5.6 - - - +
187A GLN* 1.3 74.7 - - - +
189A VAL* 1.3 62.6 + - - +
191A SER* 3.8 3.5 + - - -
192A ALA 3.6 3.5 + - - -
220A SER* 4.2 1.2 - - - -
221A PRO* 3.2 30.3 - - - +
222A VAL* 3.4 15.7 + - + -
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Residues in contact with VAL 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A VAL* 2.8 28.4 + - + +
186A VAL* 3.8 2.9 - - - +
188A ASP* 1.3 70.0 - - - +
190A ALA* 1.3 61.3 - - - +
192A ALA* 2.8 23.5 + - - +
193A LEU* 3.0 35.8 + - + +
206A LEU* 4.6 15.7 - - + -
211A ILE* 4.6 21.3 - - + -
222A VAL* 4.1 17.5 - - + -
224A ILE* 4.9 11.2 - - + -
281A LEU* 4.0 21.1 - - + -
284A ILE* 6.5 0.4 - - + -
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Residues in contact with ALA 190 (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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186A VAL 2.7 21.7 + - - +
187A GLN* 3.5 3.8 - - - +
189A VAL* 1.3 72.6 - - - +
191A SER* 1.3 55.8 + - - +
192A ALA 2.9 0.3 + - - -
193A LEU* 3.0 12.2 + - - +
194A ASP* 2.7 38.7 + - - +
281A LEU* 4.4 4.6 - - + +
359A ALA* 4.3 8.8 - - - +
362A VAL* 4.1 21.3 - - + -
363A LEU* 3.6 20.9 - - + -
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Residues in contact with SER 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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139A HIS* 2.9 32.8 - - - -
140A ARG* 5.6 1.0 + - - -
141A ASN* 3.8 11.3 + - - -
187A GLN* 2.4 31.5 + - - +
188A ASP* 3.8 2.9 + - - -
190A ALA* 1.3 74.2 - - - +
192A ALA* 1.3 57.0 + - - +
194A ASP* 3.7 9.1 - - - +
195A PHE 3.2 13.7 + - - -
363A LEU* 3.4 17.1 - - - +
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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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139A HIS* 4.1 3.6 - - - -
141A ASN* 3.7 27.8 - - + +
142A VAL* 4.4 5.8 - - + -
188A ASP 3.6 1.3 + - - +
189A VAL* 2.8 12.3 + - - +
191A SER* 1.3 77.8 - - - +
193A LEU* 1.3 55.0 + - - +
194A ASP 3.1 1.3 - - - -
195A PHE* 2.9 8.6 + - - +
196A LEU* 2.7 38.9 + - - +
224A ILE* 3.6 25.1 - - + -
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Residues in contact with LEU 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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189A VAL* 3.0 45.1 + - + +
190A ALA* 3.8 7.9 - - - +
192A ALA* 1.3 74.1 - - - +
194A ASP* 1.3 53.3 + - - +
196A LEU* 3.1 11.9 + - + +
197A HIS* 2.7 52.1 + - + +
203A HIS* 4.8 7.4 - - + -
206A LEU* 4.2 20.4 - - + -
224A ILE* 5.0 6.3 - - + -
277A ASP* 3.6 39.7 - - + +
278A LEU* 5.0 7.0 - - + -
281A LEU* 4.1 13.9 - - + -
359A ALA* 4.5 4.0 - - + -
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Residues in contact with ASP 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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190A ALA 2.7 20.3 + - - +
191A SER* 3.7 8.2 - - - +
193A LEU* 1.3 75.3 - - - +
195A PHE* 1.3 51.5 + - - +
197A HIS* 3.2 2.3 + - - +
198A ASN* 2.6 60.1 + - - +
359A ALA* 3.6 15.1 - - + +
360A ALA* 3.5 31.8 + - - +
363A LEU* 4.3 9.4 - - + +
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Residues in contact with PHE 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 CYS* 3.3 33.9 - - - -
137A GLN 4.0 7.9 - - - -
138A GLY 4.4 7.6 - - - -
139A HIS* 3.1 40.4 - - + +
142A VAL* 3.8 16.4 - - + -
191A SER 3.2 5.8 + - - +
192A ALA 2.9 10.1 + - - +
194A ASP* 1.3 79.6 - - - +
196A LEU* 1.3 71.3 + - + +
198A ASN* 3.8 9.1 + - - +
199A LYS* 3.4 54.8 + - - -
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Residues in contact with LEU 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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136A CYS* 3.6 38.1 - - + -
142A VAL* 4.8 4.0 - - + -
192A ALA* 2.7 20.7 + - + +
193A LEU* 3.1 13.9 + - + +
195A PHE* 1.3 80.0 - - + +
197A HIS* 1.3 66.5 + - + +
199A LYS* 3.2 11.9 + - - +
200A GLY 3.2 0.3 + - - -
201A ILE* 2.8 40.2 + - + +
203A HIS* 5.0 14.1 - - + +
224A ILE* 3.6 28.5 - - + -
227A PHE* 4.1 18.2 - - + -
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Residues in contact with HIS 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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193A LEU* 2.7 43.1 + - + +
194A ASP* 3.7 4.5 - - - +
196A LEU* 1.3 73.2 - - + +
198A ASN* 1.3 56.1 + - - +
200A GLY* 2.4 29.8 + - - -
201A ILE 3.0 27.4 - - - +
202A ALA* 3.9 0.9 - - - -
203A HIS 4.8 0.2 + - - -
274A LYS* 3.2 53.9 + - + +
277A ASP* 3.2 16.5 + - + -
278A LEU* 3.7 16.4 - - + -
359A ALA* 3.7 12.9 + - + +
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Residues in contact with ASN 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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194A ASP* 2.6 53.5 + - - +
195A PHE* 3.8 9.2 - - - +
197A HIS* 1.3 76.2 - - - +
199A LYS* 1.3 57.4 + - - +
200A GLY* 2.9 5.0 + - - -
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Residues in contact with LYS 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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135A GLN* 3.3 39.0 - - + +
136A CYS* 4.4 2.9 - - - +
195A PHE* 3.4 48.9 + - - +
196A LEU* 3.2 9.7 + - - +
197A HIS 3.1 1.4 - - - -
198A ASN* 1.3 76.4 - - - +
200A GLY* 1.3 64.0 + - - +
201A ILE* 3.7 14.7 - - + +
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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