Contacts of the helix formed by residues 189 - 211 (chain C) in PDB entry 2QW4
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 GLU 189 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98C GLU 5.4 0.3 - - - +
99C LEU* 5.1 2.9 - - + -
100C SER* 4.4 20.5 + - - +
103C ASP* 2.9 13.2 + - - +
187C LEU* 4.9 0.2 - - - -
188C GLN* 1.3 87.8 - - + +
190C PRO* 1.4 64.0 - - - +
191C ARG 3.2 3.1 - - - -
192C ARG* 3.0 55.7 + - + +
193C VAL* 3.3 11.7 + - + +
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Residues in contact with PRO 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C ASP* 4.9 14.3 - - - +
187C LEU* 2.9 35.9 - - + +
188C GLN 3.2 4.5 - - - +
189C GLU* 1.4 90.3 - - - +
191C ARG* 1.3 82.8 + - - +
192C ARG 3.2 0.5 + - - -
193C VAL* 3.2 5.4 + - - +
194C GLU* 3.0 26.5 + - - +
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Residues in contact with ARG 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C ASP* 5.2 6.5 + - - -
189C GLU 3.1 1.4 + - - -
190C PRO* 1.3 100.9 + - - +
192C ARG* 1.3 57.1 + - - +
194C GLU* 3.1 45.1 + - + +
195C GLU* 3.1 25.3 + - - +
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Residues in contact with ARG 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C GLY* 5.7 0.6 + - - -
98C GLU* 3.9 34.0 + - - +
99C LEU* 3.7 22.0 - - + +
189C GLU* 3.2 46.3 + - + +
191C ARG* 1.3 75.7 - - - +
193C VAL* 1.3 67.5 + - - +
194C GLU 3.1 1.1 - - - -
195C GLU* 3.4 6.4 + - - +
196C LEU* 3.1 22.9 + - - +
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Residues in contact with VAL 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LEU* 4.2 20.9 - - + -
103C ASP* 4.7 4.7 - - + +
107C LEU* 4.1 16.2 - - + -
181C ILE* 3.5 20.2 - - + +
182C THR 3.7 28.0 - - - +
183C ASP* 4.8 1.1 - - - +
187C LEU* 4.0 26.0 - - + -
189C GLU* 3.5 15.5 - - + +
190C PRO 3.5 6.1 - - - +
192C ARG* 1.3 74.5 - - - +
194C GLU* 1.3 57.2 + - - +
196C LEU* 3.3 3.3 + - - -
197C GLN* 2.9 28.9 + - - +
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Residues in contact with GLU 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C ASP* 5.5 3.5 - - - +
190C PRO 3.0 13.4 + - - +
191C ARG* 3.1 48.8 + - + +
193C VAL* 1.3 74.2 - - - +
195C GLU* 1.3 67.3 + - - +
197C GLN* 3.3 12.9 + - - +
198C ASN* 2.9 39.1 + - - +
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Residues in contact with GLU 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C ARG 3.1 14.0 + - - +
192C ARG* 3.4 7.1 + - - +
194C GLU* 1.3 77.2 - - - +
196C LEU* 1.3 69.7 + - - +
198C ASN* 3.0 17.0 + - + +
199C ARG* 3.1 54.5 + - - +
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Residues in contact with LEU 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C LEU* 5.2 3.4 - - + -
93C ILE* 5.2 0.2 - - + -
94C PRO 3.4 27.4 - - - +
95C GLY* 3.7 23.8 - - - +
96C PHE* 3.8 4.0 - - - +
99C LEU* 4.8 10.1 - - + -
181C ILE* 3.8 26.5 - - + -
192C ARG 3.1 14.0 + - - +
193C VAL* 3.3 9.2 + - - +
195C GLU* 1.3 85.5 + - - +
197C GLN* 1.3 61.8 + - - +
199C ARG* 3.0 32.2 + - + +
200C ILE* 3.1 26.9 + - + +
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Residues in contact with GLN 197 (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* 3.8 19.8 - - + +
181C ILE* 2.9 32.3 - - - +
182C THR* 3.6 20.2 + - - +
183C ASP* 5.1 3.2 - - - +
193C VAL 2.9 16.7 + - - +
194C GLU* 3.5 11.6 + - - +
196C LEU* 1.3 76.9 - - - +
198C ASN* 1.3 61.3 + - - +
200C ILE* 3.3 7.9 + - - +
201C ALA* 2.7 34.5 + - + +
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Residues in contact with ASN 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194C GLU* 2.9 32.1 + - - +
195C GLU* 3.0 12.6 + - + +
197C GLN* 1.3 81.6 + - - +
199C ARG* 1.3 61.0 + - - +
201C ALA* 3.6 8.1 - - - +
202C SER* 2.9 32.6 + - - -
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Residues in contact with ARG 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C PRO* 6.4 1.8 - - - -
33C LEU* 3.9 30.4 - - + +
94C PRO* 4.8 9.1 + - - +
95C GLY* 5.7 2.8 - - - -
195C GLU* 3.1 45.1 + - - +
196C LEU* 3.0 32.3 + - - +
198C ASN* 1.3 72.5 - - - +
200C ILE* 1.3 60.9 + - - +
202C SER* 3.5 5.6 + - - -
203C CYS* 2.9 30.8 + - - +
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Residues in contact with ILE 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C LEU* 4.4 10.1 - - + -
37C LEU* 4.0 22.4 - - + -
93C ILE* 4.5 8.1 - - + -
174C CYS* 3.9 24.5 - - - +
177C ALA* 3.9 20.9 - - + -
178C LEU* 4.0 11.9 - - + -
181C ILE* 4.1 17.5 - - + -
196C LEU* 3.3 34.1 - - + +
197C GLN* 3.5 6.1 - - - +
199C ARG* 1.3 72.7 - - - +
201C ALA* 1.3 67.9 + - - +
203C CYS* 3.1 7.1 + - - +
204C LEU* 2.9 23.9 + - - +
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Residues in contact with ALA 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C LEU* 4.1 20.4 - - + -
197C GLN* 2.7 23.8 + - + +
198C ASN* 3.6 12.1 - - - +
199C ARG 3.2 0.2 - - - -
200C ILE* 1.3 75.6 - - - +
202C SER* 1.3 59.3 + - - +
204C LEU* 3.4 4.7 + - - +
205C LYS* 3.0 29.9 + - + +
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Residues in contact with SER 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C ASN 2.9 19.9 + - - -
199C ARG* 3.9 5.5 + - - -
201C ALA* 1.3 75.8 - - - +
203C CYS* 1.3 62.4 + - - +
205C LYS* 3.7 22.9 - - - +
206C GLU* 3.5 21.0 + - - +
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Residues in contact with CYS 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C PRO* 4.9 17.3 - - + +
33C LEU* 4.8 5.8 - - + -
34C LEU* 3.8 35.2 - - - +
37C LEU* 4.4 6.7 - - - -
174C CYS* 3.7 19.1 - - - -
199C ARG 2.9 19.7 + - - +
200C ILE* 3.1 3.8 + - - +
202C SER* 1.3 78.0 - - - +
204C LEU* 1.3 60.2 + - - +
206C GLU* 3.2 6.4 + - - +
207C HIS* 2.8 27.2 + - - +
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Residues in contact with LEU 204 (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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171C ALA* 4.2 24.2 - - + +
174C CYS* 3.5 24.7 - - + -
175C LEU* 4.8 9.4 - - + +
178C LEU* 3.7 26.7 - - + -
200C ILE 2.9 8.5 + - - +
201C ALA 3.6 7.4 - - - +
203C CYS* 1.3 77.1 - - - +
205C LYS* 1.3 57.9 + - - +
207C HIS* 2.8 25.7 + - + +
208C VAL* 3.1 35.0 + - + +
221C LEU* 4.0 22.7 - - + -
224C LEU* 5.5 6.1 - - + -
225C LEU* 4.5 9.2 - - + -
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Residues in contact with LYS 205 (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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201C ALA* 3.0 20.6 + - + +
202C SER* 3.7 20.6 - - - +
204C LEU* 1.3 77.9 - - - +
206C GLU* 1.3 59.6 + - - +
208C VAL* 4.1 4.7 - - - +
209C ALA* 3.4 20.4 + - - +
221C LEU* 4.0 31.3 - - + +
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Residues in contact with GLU 206 (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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30C PRO 4.3 14.1 - - - +
202C SER 3.5 15.7 + - - +
203C CYS* 3.2 6.6 + - - +
204C LEU 3.0 0.6 - - - -
205C LYS* 1.3 77.4 - - + +
207C HIS* 1.3 68.4 + - - +
209C ALA* 3.5 6.7 + - + +
210C ALA* 3.3 17.5 + - - +
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Residues in contact with HIS 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C LEU* 4.5 19.5 - - + +
168C ASP* 2.8 28.6 + - - -
170C PRO* 3.5 35.2 - - + +
171C ALA* 4.3 6.1 - - + -
203C CYS 2.8 12.2 + - - +
204C LEU* 2.8 17.8 + - + +
206C GLU* 1.3 70.0 + - - +
208C VAL* 1.3 80.4 + - + +
210C ALA* 2.7 36.3 + - - +
211C VAL* 3.3 22.2 + - + +
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Residues in contact with VAL 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168C ASP* 5.6 0.7 - - - +
171C ALA* 4.2 10.5 - - + -
204C LEU* 3.1 29.7 + - + +
205C LYS 4.1 6.5 - - - +
207C HIS* 1.3 91.6 - - + +
209C ALA* 1.3 59.0 + - + +
210C ALA 3.4 0.4 - - - -
211C VAL* 3.2 28.8 - - + +
220C CYS* 4.9 15.0 - - - -
221C LEU* 4.1 31.0 - - + -
224C LEU* 5.4 5.6 - - + -
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Residues in contact with ALA 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205C LYS 3.4 18.5 + - - +
206C GLU* 3.8 9.2 - - + +
207C HIS 2.8 1.2 + - - -
208C VAL* 1.3 79.2 - - + +
210C ALA* 1.3 63.8 + - - +
211C VAL 3.3 4.1 + - - +
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Residues in contact with ALA 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206C GLU 3.3 11.6 + - - +
207C HIS* 2.7 21.2 + - - +
209C ALA* 1.3 72.1 - - - +
211C VAL* 1.3 60.7 + - + +
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Residues in contact with VAL 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168C ASP* 4.6 8.1 - - - +
207C HIS* 3.3 30.8 + - + +
208C VAL* 3.2 23.8 - - + +
209C ALA 3.3 3.4 - - - +
210C ALA* 1.3 85.1 - - + +
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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
------------------------------------------------------------
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