Contacts of the helix formed by residues 173 - 195 (chain C) in PDB entry 3QN3
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 SER 173 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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171C PHE* 3.5 5.3 - - - +
172C THR* 1.3 83.9 + - - +
174C PHE* 1.3 65.9 + - - +
175C LYS* 3.8 2.9 + - - +
176C GLU* 3.3 31.1 + - - +
177C ALA* 3.2 19.8 + - - +
403C GLU* 4.0 9.9 - - - -
407C ASP* 5.2 4.3 - - - -
409C TYR* 3.9 8.2 - - - -
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Residues in contact with PHE 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C LEU* 3.6 25.7 - - + +
142C PRO 3.7 24.5 - - - -
144C PRO* 4.6 14.4 - - + -
173C SER* 1.3 72.6 - - - +
175C LYS* 1.3 60.7 + - - +
177C ALA* 3.1 4.3 + - + +
178C LEU* 2.8 51.9 + - + +
396C TYR* 4.2 6.1 - + - -
399C LEU* 3.6 46.9 - - + -
400C LEU* 3.8 20.4 - - + -
403C GLU* 3.3 21.2 + - - +
407C ASP 5.1 0.6 + - - -
409C TYR* 3.7 25.5 - + + +
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Residues in contact with LYS 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173C SER* 3.3 3.3 - - - +
174C PHE* 1.3 76.3 - - - +
176C GLU* 1.3 64.3 + - + +
178C LEU* 3.4 3.6 + - + +
179C ARG* 2.9 28.1 + - + +
400C LEU* 3.8 23.1 - - + -
403C GLU* 3.0 25.8 + - - +
404C PHE* 6.3 3.2 - - + -
11D GLU* 2.6 51.4 + - - +
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Residues in contact with GLU 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C PHE* 4.0 18.5 - - + -
172C THR 5.9 0.2 - - - +
173C SER* 3.3 20.9 + - - +
174C PHE 3.2 0.6 - - - -
175C LYS* 1.3 80.9 - - + +
177C ALA* 1.3 65.7 + - - +
179C ARG* 3.0 48.3 + - - +
180C SER* 3.0 22.7 + - - -
230C TYR* 5.1 0.9 + - - -
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Residues in contact with ALA 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C PRO* 5.4 1.1 - - + -
168C PRO* 3.6 20.7 - - + +
171C PHE* 3.7 20.1 - - + -
173C SER 3.2 12.7 + - - +
174C PHE* 3.1 10.0 + - + +
176C GLU* 1.3 77.3 - - - +
178C LEU* 1.3 61.4 + - - +
180C SER* 2.7 21.5 + - - -
181C VAL* 3.3 4.7 + - - +
409C TYR* 3.5 28.9 - - + +
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Residues in contact with LEU 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C PRO* 5.5 4.0 - - + +
168C PRO* 5.5 0.2 - - - -
174C PHE* 2.8 30.5 + - + +
175C LYS* 3.6 5.4 - - + +
177C ALA* 1.3 74.4 - - - +
179C ARG* 1.3 65.5 + - - +
181C VAL* 3.1 11.4 - - + +
182C CYS* 3.0 26.3 + - - -
387C LEU* 4.0 16.4 - - + -
396C TYR* 3.6 37.9 - - + -
400C LEU* 3.6 40.8 - - + -
13D LEU* 4.2 15.3 - - + -
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Residues in contact with ARG 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C LYS* 2.9 18.3 + - + +
176C GLU* 3.0 45.6 + - - +
178C LEU* 1.3 76.0 - - - +
180C SER* 1.3 57.7 + - - +
182C CYS* 3.2 7.8 + - + +
183C GLU* 2.7 75.6 + - + +
230C TYR* 3.7 12.6 + - - -
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Residues in contact with SER 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168C PRO* 3.6 6.2 - - - +
171C PHE* 3.3 36.0 - - - -
176C GLU 3.0 8.4 + - - -
177C ALA 2.7 19.0 + - - -
179C ARG* 1.3 78.0 - - - +
181C VAL* 1.3 58.1 + - - +
183C GLU* 3.2 2.6 + - - +
184C ILE* 2.9 33.8 + - - +
230C TYR* 3.5 30.7 - - - -
234C VAL* 4.0 3.8 - - - +
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Residues in contact with VAL 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144C PRO* 5.3 1.1 - - + -
146C CYS* 4.1 10.8 - - - -
166C ILE* 3.5 32.8 - - + +
168C PRO* 3.8 35.4 - - + -
177C ALA 3.3 4.9 + - - +
178C LEU* 3.1 23.1 - - + +
180C SER* 1.3 78.3 + - - +
182C CYS* 1.3 59.6 + - - +
184C ILE* 3.8 4.0 - - + +
185C TYR* 2.9 30.1 + - - +
234C VAL* 5.0 1.6 - - + -
387C LEU* 3.7 28.8 - - + +
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Residues in contact with CYS 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178C LEU* 3.0 21.4 + - - +
179C ARG* 3.6 10.5 - - - +
181C VAL* 1.3 75.4 - - - +
183C GLU* 1.3 63.5 + - + +
185C TYR* 3.4 5.7 + - - +
186C ALA* 3.1 24.3 + - - +
387C LEU* 3.8 23.1 - - + -
13D LEU* 3.7 40.2 - - + -
17D GLY 4.2 12.9 - - - +
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Residues in contact with GLU 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C ARG* 2.7 54.5 + - + +
180C SER 3.2 3.8 + - - +
182C CYS* 1.3 75.2 - - + +
184C ILE* 1.3 62.0 + - - +
186C ALA* 3.5 6.1 + - - +
187C ILE* 3.2 30.8 + - + +
228C ALA* 4.5 5.9 - - + +
230C TYR* 2.4 38.5 + - + -
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Residues in contact with ILE 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C ILE* 4.5 7.4 - - + -
166C ILE* 3.9 19.7 - - + -
180C SER 2.9 23.0 + - - +
181C VAL* 3.8 4.0 - - - +
183C GLU* 1.3 75.2 - - - +
185C TYR* 1.3 57.1 + - - +
187C ILE* 3.3 5.3 + - - +
188C LEU* 2.9 27.2 + - - +
221C LEU* 4.9 1.3 - - + +
224C CYS* 3.9 26.1 - - + +
225C ILE* 4.0 22.9 - - + +
228C ALA* 3.7 23.8 - - + -
230C TYR* 4.2 6.1 - - + -
234C VAL* 3.8 33.7 - - + -
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Residues in contact with TYR 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C ILE* 3.8 29.6 - - + +
181C VAL 2.9 19.3 + - - +
182C CYS* 3.6 6.5 - - - +
183C GLU 3.3 0.2 - - - -
184C ILE* 1.3 77.7 - - - +
186C ALA* 1.3 60.8 + - - +
188C LEU* 3.2 7.3 + - - +
189C LYS* 3.0 35.8 + - + +
201C LEU* 3.5 15.2 - - - +
205C GLY 2.6 29.5 + - - -
207C PHE* 3.8 24.4 - + - -
386C ALA* 3.9 10.1 - - + -
387C LEU* 4.2 22.2 - - + -
388C ALA* 3.4 27.9 - - + +
16D ARG 4.4 9.6 - - - -
17D GLY* 5.8 0.7 - - - -
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Residues in contact with ALA 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182C CYS 3.1 16.5 + - - +
183C GLU* 3.9 7.2 - - - +
184C ILE 3.4 0.2 - - - -
185C TYR* 1.3 80.7 - - + +
187C ILE* 1.3 64.3 + - + +
189C LYS* 3.4 10.8 + - - +
190C LYS* 3.2 25.5 + - - +
18D ASN* 6.1 3.6 - - - +
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Residues in contact with ILE 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183C GLU* 3.2 12.2 + - + +
184C ILE* 3.7 7.2 - - - +
185C TYR 3.2 0.6 - - - -
186C ALA* 1.3 77.0 - - + +
188C LEU* 1.3 59.6 + - - +
190C LYS* 3.4 7.6 + - + +
191C GLU* 2.9 34.8 + - + +
224C CYS* 3.9 29.4 - - + +
227C LYS* 4.2 17.9 - - + +
228C ALA* 3.5 39.0 - - + +
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Residues in contact with LEU 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148C ILE* 3.8 31.4 - - + +
149C ILE* 3.9 16.2 - - + -
184C ILE 2.9 14.2 + - - +
185C TYR* 3.2 8.7 + - - +
187C ILE* 1.3 75.8 - - - +
189C LYS* 1.3 58.0 + - - +
191C GLU* 3.2 1.1 + - - +
192C LEU* 2.8 35.8 + - + +
207C PHE* 3.4 32.1 - - + -
220C LEU* 3.5 39.7 - - + +
221C LEU* 4.8 1.6 - - + -
224C CYS* 3.6 17.5 - - + -
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Residues in contact with LYS 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185C TYR* 3.0 20.3 + - + +
186C ALA* 3.4 13.9 - - - +
187C ILE 3.3 0.2 - - - -
188C LEU* 1.3 77.7 - - - +
190C LYS* 1.3 58.3 + - - +
192C LEU* 3.3 2.0 + - - +
193C ALA* 3.0 25.3 + - + +
199C THR* 3.5 46.5 + - + +
201C LEU* 6.0 1.3 - - - -
207C PHE* 3.7 25.1 - - + -
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Residues in contact with LYS 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186C ALA 3.2 12.5 + - - +
187C ILE* 3.7 9.4 - - - +
188C LEU 3.3 0.2 - - - -
189C LYS* 1.3 75.1 - - - +
191C GLU* 1.3 68.0 + - + +
193C ALA* 3.3 7.3 + - - +
194C ASN* 2.9 63.5 + - - +
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Residues in contact with GLU 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187C ILE* 2.9 26.3 + - + +
188C LEU* 3.6 6.1 - - - +
190C LYS* 1.3 78.2 - - - +
192C LEU* 1.3 63.1 + - - +
194C ASN* 3.4 12.3 + - - +
195C SER* 3.2 25.3 + - - -
220C LEU* 4.4 18.5 - - + +
223C THR* 4.5 7.8 - - - +
224C CYS* 4.1 16.2 - - - -
227C LYS* 2.7 40.7 + - + +
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Residues in contact with LEU 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149C ILE* 5.8 0.2 - - + -
188C LEU* 2.8 29.9 + - + +
189C LYS 3.7 4.0 - - - +
191C GLU* 1.3 75.9 - - - +
193C ALA* 1.3 61.3 + - - +
195C SER* 3.2 7.1 + - - -
197C HIS* 2.9 47.8 + - + +
198C SER 4.2 10.3 - - - +
199C THR* 4.6 1.3 - - + -
207C PHE* 3.4 50.5 - - + -
209C PRO* 3.7 32.3 - - + -
211C LEU* 5.7 0.7 - - + -
220C LEU* 4.0 16.8 - - + -
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Residues in contact with ALA 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189C LYS* 3.0 17.2 + - + +
190C LYS* 3.8 8.7 - - - +
192C LEU* 1.3 76.9 - - - +
194C ASN* 1.3 64.8 + - - +
196C GLY* 3.1 13.7 + - - -
197C HIS 3.9 10.7 - - - +
199C THR* 3.7 14.8 - - + +
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Residues in contact with ASN 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190C LYS* 2.9 48.6 + - - +
191C GLU* 3.8 12.8 + - - +
193C ALA* 1.3 79.2 - - - +
195C SER* 1.3 59.9 + - - +
196C GLY 3.2 0.8 + - - -
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Residues in contact with SER 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C GLU 3.2 16.4 + - - -
192C LEU* 3.2 0.6 + - - -
194C ASN* 1.3 75.2 - - - +
196C GLY* 1.3 60.7 + - - +
197C HIS* 3.3 27.0 + - - -
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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
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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