Contacts of the helix formed by residues 162 - 177 (chain A) in PDB entry 1QZW
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 162 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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134A VAL* 3.1 11.8 - - - +
160A ASN* 3.6 16.1 + - - +
161A GLN* 1.3 76.7 - - - +
163A PRO* 1.3 88.6 - - - +
164A ILE* 4.2 9.9 - - - +
165A GLU* 2.7 32.1 + - - +
166A ILE* 3.0 15.2 + - - +
159E ASN* 2.6 32.7 + - + +
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Residues in contact with PRO 163 (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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132A ALA* 5.6 10.1 - - + +
133A ASP* 6.5 0.2 - - - -
134A VAL* 4.1 13.2 - - + -
135A TYR* 5.2 10.3 - - + +
162A ASN* 1.3 102.5 - - - +
164A ILE* 1.3 72.5 + - + +
165A GLU* 2.6 20.8 + - - -
166A ILE* 3.0 16.1 + - + +
167A ALA* 5.3 1.6 - - + -
186A THR* 5.3 4.9 - - - +
205A MET* 4.9 24.0 - - + -
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Residues in contact with ILE 164 (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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162A ASN* 4.2 11.9 - - - +
163A PRO* 1.3 90.0 - - + +
165A GLU* 1.3 86.5 + - + +
166A ILE* 4.0 0.4 - - - +
167A ALA* 2.5 22.2 + - - +
168A LYS* 2.6 15.8 + - + -
204A GLU* 4.2 26.5 - - + +
205A MET* 5.6 5.8 - - + +
208A VAL* 5.2 23.6 - - + -
168C LYS* 5.7 7.2 - - - +
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Residues in contact with GLU 165 (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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160A ASN* 5.5 3.3 + - - +
162A ASN* 2.7 44.8 + - - +
163A PRO 2.6 3.4 + - - +
164A ILE* 1.3 89.2 - - + +
166A ILE* 1.3 54.4 + - - +
168A LYS* 2.6 7.3 + - - +
169A LYS* 2.4 58.5 + - - -
165C GLU* 5.8 4.2 - - + +
168C LYS* 6.5 1.3 - - + -
169C LYS* 4.2 22.3 - - - -
159E ASN* 4.5 1.6 + - - -
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Residues in contact with ILE 166 (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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130A VAL* 4.5 7.2 - - + +
131A ALA 4.4 17.7 - - - +
132A ALA* 5.8 3.6 - - - -
134A VAL* 6.2 2.9 - - + -
155A TYR* 3.4 27.7 - - + +
156A GLY* 3.7 13.0 - - - -
157A GLU* 3.5 32.5 - - + +
160A ASN* 4.3 6.5 - - - +
162A ASN 3.0 13.7 - - - +
163A PRO* 3.0 29.6 - - + +
165A GLU* 1.3 77.1 - - - +
167A ALA* 1.3 78.6 + - + +
169A LYS* 2.9 12.1 - - - +
170A GLY* 2.6 20.3 + - - -
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Residues in contact with ALA 167 (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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130A VAL* 5.0 9.4 - - - +
132A ALA* 5.6 9.4 - - + +
163A PRO* 5.3 1.3 - - + -
164A ILE* 2.5 29.3 + - - +
166A ILE* 1.3 83.5 - - + +
168A LYS* 1.3 65.1 + - - +
170A GLY* 2.7 9.2 + - - -
171A VAL* 2.7 19.3 + - + +
184A VAL* 5.6 4.7 - - + -
209A LEU* 6.3 3.8 - - + -
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Residues in contact with LYS 168 (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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164A ILE* 2.6 16.2 + - + +
165A GLU* 2.6 12.8 + - - +
167A ALA* 1.3 74.3 - - - +
169A LYS* 1.3 72.8 + - - +
171A VAL* 2.9 23.8 - - + +
172A ASP* 3.3 29.7 + - - +
208A VAL 5.4 8.8 + - - +
209A LEU* 5.9 5.6 - - - -
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Residues in contact with LYS 169 (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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155A TYR* 3.6 18.4 - - - +
157A GLU* 3.3 25.7 + - - +
160A ASN* 5.2 1.4 + - - -
165A GLU* 2.4 52.4 + - - +
166A ILE* 2.9 18.6 - - + +
168A LYS* 1.3 78.2 - - + +
170A GLY* 1.3 74.6 - - - +
172A ASP* 3.6 2.8 + - - +
173A ILE* 2.7 18.8 - - + +
165C GLU* 3.9 30.7 + - + -
169C LYS* 4.9 8.3 - - - +
157G GLU* 5.8 2.6 + - - +
158G PRO* 5.6 9.6 - - + -
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Residues in contact with GLY 170 (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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130A VAL* 4.1 4.5 - - - -
155A TYR* 3.3 29.8 - - - -
166A ILE 2.6 15.2 + - - -
167A ALA 2.7 2.6 + - - -
169A LYS* 1.3 81.6 - - - +
171A VAL* 1.3 66.6 + - - +
173A ILE* 2.4 16.4 + - - +
174A PHE* 2.9 13.9 - - - -
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Residues in contact with VAL 171 (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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98A ILE* 6.0 5.8 - - + -
130A VAL* 4.6 3.0 - - - +
167A ALA* 2.7 29.8 + - + +
168A LYS* 2.9 18.6 - - + +
170A GLY* 1.3 70.1 - - - -
172A ASP* 1.3 73.5 + - - +
173A ILE 2.3 16.5 + - - -
174A PHE* 2.4 32.3 - - - -
175A VAL* 2.9 14.5 - - + +
182A ILE* 5.2 9.6 - - + +
184A VAL* 6.2 3.6 - - + +
209A LEU* 5.4 18.4 - - + -
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Residues in contact with ASP 172 (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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168A LYS* 3.3 37.4 - - - +
169A LYS 4.2 4.9 - - - +
170A GLY 2.8 1.4 + - - -
171A VAL* 1.3 88.6 - - - +
173A ILE* 1.3 55.6 + - + +
175A VAL* 2.9 18.6 - - + +
176A LYS* 2.3 39.5 + - + +
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Residues in contact with ILE 173 (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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155A TYR* 4.7 9.2 - - + -
169A LYS* 2.7 29.2 - - - +
170A GLY* 2.4 28.5 + - - +
171A VAL 2.3 11.5 + - - -
172A ASP* 1.3 69.3 - - + +
174A PHE* 1.3 81.4 + - + +
176A LYS* 2.3 33.9 + - + +
177A ASN* 2.8 25.7 + - - +
144G LEU* 4.3 8.3 - - + -
158G PRO* 4.9 19.5 - - + -
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Residues in contact with PHE 174 (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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127A VAL 4.8 0.9 - - - +
128A GLY* 4.4 11.4 - - - -
129A LEU 4.1 13.9 - - - -
130A VAL* 3.3 27.1 - - + -
153A GLN* 6.5 0.7 - - - -
154A VAL* 5.1 3.1 - - - -
155A TYR* 4.2 13.7 - + + -
170A GLY* 2.9 35.4 - - - -
171A VAL* 2.4 29.2 - - - -
173A ILE* 1.3 83.6 - - + +
175A VAL* 1.3 49.5 + - - +
177A ASN* 2.5 23.1 + - - +
178A LYS 2.3 32.6 + - - -
179A MET* 2.9 26.9 + - + -
182A ILE* 3.7 28.0 - - + -
144G LEU* 5.5 2.2 - - + -
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Residues in contact with VAL 175 (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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96A PRO* 5.0 19.7 - - + -
171A VAL* 2.9 31.0 - - + +
172A ASP* 2.9 26.0 - - + +
174A PHE* 1.3 79.0 - - + +
176A LYS* 1.3 53.2 + - - +
178A LYS* 2.3 34.5 + - - +
179A MET 4.4 2.7 - - - +
182A ILE* 5.2 7.6 - - + +
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Residues in contact with LYS 176 (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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172A ASP 2.3 17.1 + - - +
173A ILE* 2.3 24.1 + - + +
175A VAL* 1.3 66.4 - - - +
177A ASN* 1.3 68.7 + - - +
178A LYS* 2.5 43.5 + - - +
138G ALA* 6.4 0.2 - - - +
141G ASP* 4.4 26.4 - - - +
142G GLN 5.8 0.2 - - - +
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Residues in contact with ASN 177 (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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173A ILE* 2.9 10.6 - - - +
174A PHE* 2.5 40.6 + - - +
176A LYS* 1.3 90.7 - - - +
178A LYS* 1.3 68.4 + - - +
179A MET* 3.0 32.5 - - - +
141G ASP* 4.5 4.3 - - - -
144G LEU* 2.8 46.8 - - + +
145G GLN* 4.1 10.4 + - - +
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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