Contacts of the helix formed by residues 150 - 165 (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 ASP 150 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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219A SER 5.7 0.9 - - - +
148C PHE 3.9 0.2 + - - -
149C GLY* 1.3 69.7 - - - -
151C TRP* 1.3 66.6 + - - +
153C ASP* 3.2 24.6 + - - +
154C SER* 3.6 7.1 + - - -
237C GLN* 4.8 2.9 - - - +
241C ARG* 5.3 0.4 - - - +
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Residues in contact with TRP 151 (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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75C PHE* 3.8 24.5 - + - -
79C LEU* 5.3 0.9 - - + -
113C LEU* 4.8 11.7 - - + -
116C PHE* 4.8 11.0 - + - -
117C ILE* 3.7 29.8 - - + +
148C PHE* 3.3 46.6 + + + +
149C GLY 2.9 0.6 + - - -
150C ASP* 1.3 73.7 - - - +
152C ILE* 1.3 54.4 + - - +
154C SER* 2.5 33.9 + - - -
155C ILE* 3.0 28.7 + - + +
234C LEU* 3.1 19.2 + - - +
237C GLN* 3.5 36.0 + - + +
238C GLY* 3.5 29.4 - - - +
241C ARG* 4.4 9.9 - - + -
242C ILE* 5.6 0.7 - - + -
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Residues in contact with ILE 152 (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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120C LEU* 4.7 2.7 - - + -
131C LEU* 3.6 39.3 - - + -
133C PHE* 5.2 0.2 - - + -
141C ARG* 4.0 11.9 - - + +
144C CYS* 3.6 15.9 - - + -
145C ALA* 3.9 22.0 - - + -
148C PHE* 3.5 39.7 - - + +
149C GLY 3.1 15.9 + - - +
151C TRP* 1.3 78.0 - - - +
153C ASP* 1.3 69.6 + - - +
155C ILE* 3.1 13.6 + - + +
156C LEU* 2.8 28.7 + - + +
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Residues in contact with ASP 153 (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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218A ALA* 5.2 5.7 - - - -
141C ARG* 3.2 50.7 + - - +
150C ASP* 3.2 18.2 + - - +
151C TRP 2.9 1.6 + - - -
152C ILE* 1.3 84.5 - - - +
154C SER* 1.3 57.3 + - - +
156C LEU* 3.2 7.2 + - - +
157C ALA* 2.9 28.8 + - - +
160C ARG* 5.4 0.7 + - - -
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Residues in contact with SER 154 (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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150C ASP 3.6 3.1 + - - -
151C TRP* 2.5 18.6 + - - -
153C ASP* 1.3 70.7 - - - +
155C ILE* 1.3 62.3 - - - -
157C ALA* 3.4 8.5 - - - +
158C PHE* 3.1 17.5 + - - +
234C LEU* 3.4 17.9 - - - +
237C GLN* 2.7 40.8 + - - -
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Residues in contact with ILE 155 (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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116C PHE* 6.0 0.4 - - + -
117C ILE* 4.5 20.6 - - + +
120C LEU* 4.5 21.3 - - + -
121C ALA* 4.6 16.1 - - + +
131C LEU* 4.8 9.9 - - + -
148C PHE* 3.9 22.7 - - + -
151C TRP* 3.0 53.6 + - + +
152C ILE* 3.3 13.2 - - + +
154C SER* 1.3 78.2 - - - +
156C LEU* 1.3 58.1 + - - +
158C PHE* 3.2 4.7 + - - +
159C SER* 2.8 25.7 + - - -
234C LEU* 4.4 7.6 - - + -
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Residues in contact with LEU 156 (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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124C SER* 4.8 3.4 - - - -
126C PRO* 3.8 36.4 - - + +
129C GLY* 5.2 4.0 - - - -
130C LYS 4.7 4.7 - - - +
131C LEU* 3.9 31.6 - - + -
141C ARG* 3.6 37.9 - - + -
152C ILE 2.8 19.1 + - - +
153C ASP* 3.2 8.2 + - - +
155C ILE* 1.3 75.3 - - + +
157C ALA* 1.3 65.2 + - - +
159C SER* 3.5 9.6 - - - -
160C ARG* 2.8 38.0 + - - +
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Residues in contact with ALA 157 (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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153C ASP 2.9 13.5 + - - +
154C SER* 3.4 13.7 - - - +
156C LEU* 1.3 75.7 - - - +
158C PHE* 1.3 64.2 + - - +
160C ARG* 3.1 16.6 + - - +
161C SER* 3.1 19.9 + - - -
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Residues in contact with PHE 158 (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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117C ILE* 4.8 0.2 - - + -
118C LEU* 4.1 19.5 - - + -
121C ALA* 3.9 15.7 - - + -
154C SER 3.1 4.8 + - - +
155C ILE 3.3 7.4 - - - +
157C ALA* 1.3 78.8 - - - +
159C SER* 1.3 56.9 + - - +
161C SER* 2.7 29.0 + - - -
162C LEU* 2.9 22.1 + - + -
227C LYS* 4.1 29.8 - - + -
230C GLU* 4.0 20.4 - - + -
231C LEU* 3.8 47.6 - - + -
234C LEU* 3.5 29.6 - - + -
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Residues in contact with SER 159 (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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121C ALA* 2.3 44.3 + - - -
124C SER* 3.8 9.3 + - - -
126C PRO* 4.0 10.0 - - - +
155C ILE* 2.8 17.9 + - - -
156C LEU* 3.5 16.6 - - - -
158C PHE* 1.3 73.4 - - - +
160C ARG* 1.3 62.8 + - - +
162C LEU* 3.6 5.3 - - - +
163C HIS* 3.3 29.8 + - - -
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Residues in contact with ARG 160 (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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126C PRO* 4.1 30.5 + - + +
127C GLY* 5.7 3.4 - - - +
153C ASP 5.4 0.8 + - - -
156C LEU* 2.8 29.4 + - - +
157C ALA* 3.3 21.4 - - - +
159C SER* 1.3 73.7 - - - +
161C SER* 1.3 66.0 + - - +
163C HIS* 3.0 7.3 + - - +
164C SER* 2.9 22.8 + - - -
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Residues in contact with SER 161 (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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157C ALA 3.1 8.3 + - - -
158C PHE* 2.7 19.3 + - - -
160C ARG* 1.3 72.1 - - - +
162C LEU* 1.3 64.8 + - - +
164C SER* 3.0 27.3 + - - -
165C LEU* 3.4 7.6 + - - +
227C LYS* 2.6 33.0 + - - -
230C GLU* 4.7 2.9 + - - -
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Residues in contact with LEU 162 (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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118C LEU* 4.0 25.6 - - + -
121C ALA* 4.3 11.0 - - + -
122C TYR* 4.0 40.4 - - + +
158C PHE* 2.9 22.4 + - + +
159C SER 3.6 10.1 - - - +
161C SER* 1.3 75.0 - - - +
163C HIS* 1.3 63.3 + - - +
165C LEU* 3.2 19.6 + - - +
166C LEU 3.5 5.9 + - - -
167C VAL* 3.8 37.7 + - + +
172C PHE* 4.5 2.9 - - + -
175C LEU* 6.1 2.2 - - + -
224C LEU* 5.2 2.9 - - + -
227C LYS* 4.6 17.0 - - + +
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Residues in contact with HIS 163 (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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121C ALA 3.8 7.0 - - - -
122C TYR* 3.1 40.5 - + - -
124C SER 3.0 20.8 + - - -
126C PRO* 3.8 20.4 - - + -
159C SER* 3.3 19.8 + - - -
160C ARG* 3.0 8.3 + - - +
162C LEU* 1.3 73.6 - - + +
164C SER* 1.3 60.1 + - - +
166C LEU* 2.9 35.9 + - + +
167C VAL 5.2 0.4 - - - +
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Residues in contact with SER 164 (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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160C ARG* 2.9 13.0 + - - -
161C SER* 3.0 19.8 + - - -
163C HIS* 1.3 77.1 - - - +
165C LEU* 1.3 69.7 + - - +
166C LEU* 3.2 10.8 + - - +
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Residues in contact with LEU 165 (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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161C SER* 3.8 9.6 - - - +
162C LEU* 3.2 7.4 + - - +
164C SER* 1.3 86.9 + - - +
166C LEU* 1.3 67.3 + - - +
167C VAL* 3.3 18.0 + - + +
223C ARG* 3.7 36.1 - - + +
224C LEU* 4.0 15.0 - - + -
227C LYS* 3.8 29.6 - - + +
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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