Contacts of the helix formed by residues 173 - 188 (chain A) in PDB entry 2QUK
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 HIS 173 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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162A ARG* 3.3 31.6 + - - +
169A MET* 3.5 28.7 - - + +
170A HIS* 3.2 62.4 + + - +
171A VAL 3.1 0.4 - - - -
172A GLY* 1.3 76.0 - - - +
174A LEU* 1.3 52.9 + - - +
175A ILE 3.7 0.2 - - - -
176A PRO* 3.9 5.5 - - - +
177A PHE* 2.6 41.4 - - + -
352A ALA* 5.6 5.3 - - + +
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Residues in contact with LEU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A MET* 5.1 5.4 - - + -
170A HIS 4.0 6.1 - - - +
171A VAL* 2.9 19.7 + - + +
172A GLY 2.7 3.4 + - - -
173A HIS* 1.3 82.2 - - - +
175A ILE* 1.3 65.1 + - - +
176A PRO 3.3 2.5 - - - -
177A PHE* 3.1 5.4 + - + -
178A ILE* 2.6 47.1 + - + +
225A CYS* 4.1 25.6 - - - -
361A LEU* 3.8 38.6 - - + -
406A PHE* 4.7 2.9 - - + -
441A LEU* 4.4 20.9 - - + -
445A HIS* 4.8 4.5 - - + -
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Residues in contact with ILE 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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131A PHE* 3.8 19.6 - - + -
136A ILE* 4.4 3.6 - - + -
137A PHE* 4.2 15.3 - - + -
171A VAL 4.2 1.8 - - - +
172A GLY* 3.0 12.7 + - - +
174A LEU* 1.3 77.1 - - - +
176A PRO* 1.4 69.9 - - + +
178A ILE* 3.0 3.1 + - + +
179A PHE* 3.0 21.4 + - - +
337A SER* 4.9 7.6 - - - +
338A THR 5.8 1.1 - - - +
340A PHE* 3.7 32.1 - - + -
405A PHE* 3.4 41.1 - - + -
406A PHE* 4.0 17.5 - - + -
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Residues in contact with PRO 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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137A PHE* 4.6 14.8 - - + -
160A THR* 4.7 17.3 - - + -
172A GLY 3.6 6.7 - - - +
173A HIS* 3.9 14.6 - - - +
175A ILE* 1.4 94.1 - - + +
177A PHE* 1.3 69.5 + - + +
178A ILE 3.1 0.3 + - - -
179A PHE* 3.2 2.1 + - - +
180A THR* 2.6 34.1 + - - +
308A PRO* 5.0 7.9 - - + +
309A CYS* 5.6 3.8 - - - -
337A SER* 5.8 2.5 - - - +
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Residues in contact with PHE 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A THR* 5.3 12.8 - - + -
161A GLY 3.9 22.0 - - - -
162A ARG* 3.9 22.7 - - + -
169A MET* 4.8 9.0 - - + -
173A HIS* 2.6 31.2 - - + +
174A LEU* 3.1 7.7 + - + +
176A PRO* 1.3 86.2 - - + +
178A ILE* 1.3 61.5 + - - +
180A THR* 4.3 2.9 - - - -
181A LYS* 3.2 18.2 + - - +
193A ILE* 4.9 8.7 - - + -
222A ILE* 3.6 44.2 - - + -
225A CYS* 4.4 16.8 - - - +
227A PHE* 3.2 27.3 - + + -
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Residues in contact with ILE 178 (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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129A HIS* 3.9 16.8 + - + +
130A HIS* 5.6 1.1 - - + +
131A PHE* 3.5 23.1 - - + -
174A LEU* 2.6 52.0 + - + +
175A ILE* 3.5 4.0 - - - +
177A PHE* 1.3 71.7 - - - +
179A PHE* 1.3 66.7 + - - +
181A LYS* 3.0 17.7 + - - +
182A TRP* 3.1 11.3 + - - +
225A CYS* 6.0 4.7 - - + -
406A PHE* 4.4 21.1 - - + -
441A LEU* 5.3 6.1 - - + -
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Residues in contact with PHE 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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129A HIS* 4.2 8.7 - + + -
131A PHE* 4.0 15.3 - + + -
132A LEU* 3.8 33.0 - - + -
137A PHE* 3.2 61.2 - + + -
175A ILE 3.0 8.0 + - - +
176A PRO 3.8 6.1 - - - +
178A ILE* 1.3 78.4 - - - +
180A THR* 1.3 58.6 + - - +
182A TRP* 3.3 32.8 + + - +
183A LEU* 3.0 46.2 + - + +
308A PRO* 4.2 4.5 - - + -
335A LEU* 3.9 21.8 - - + -
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Residues in contact with THR 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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158A LEU* 4.0 11.1 - - + +
160A THR* 3.7 14.4 + - - +
176A PRO 2.6 23.9 + - - -
177A PHE* 4.0 5.6 - - - -
179A PHE* 1.3 74.0 - - - +
181A LYS* 1.3 61.3 + - - +
183A LEU* 4.0 7.3 - - - +
184A GLN* 3.0 27.2 + - - +
191A LEU* 3.5 36.8 - - + -
227A PHE* 4.0 5.9 - - - -
308A PRO* 3.2 25.1 - - + +
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Residues in contact with LYS 181 (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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177A PHE 3.2 14.4 + - - +
178A ILE* 3.0 12.6 + - - +
180A THR* 1.3 72.8 - - - +
182A TRP* 1.3 67.0 + - - +
184A GLN* 3.5 3.2 + - - +
185A ASP* 2.6 65.5 + - - +
225A CYS* 3.3 29.6 - - + +
226A GLY* 3.8 6.3 - - - -
227A PHE* 3.5 40.7 - - + +
228A ASP* 4.5 3.6 - - - +
448A ARG* 5.3 5.2 - - - +
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Residues in contact with TRP 182 (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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120A ILE* 4.3 16.4 - - + -
121A GLU* 6.5 0.4 - - - -
124A THR* 5.5 2.2 - - - -
126A GLN* 5.3 3.2 - - + +
127A ARG 3.6 18.3 + - - -
128A PRO* 3.8 5.6 - - + -
129A HIS* 3.3 53.9 - + + +
132A LEU* 3.6 26.9 - - + -
178A ILE 3.1 10.2 + - - +
179A PHE* 3.4 27.8 - + - +
180A THR 3.3 0.2 - - - -
181A LYS* 1.3 74.8 - - - +
183A LEU* 1.3 95.6 + - + +
185A ASP* 2.8 7.8 + - + +
186A VAL* 2.7 57.1 + - + +
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Residues in contact with LEU 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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120A ILE* 5.7 1.8 - - + -
132A LEU* 5.9 0.4 - - + -
143A MET* 5.2 2.7 - - + -
158A LEU* 4.1 26.7 - - + -
179A PHE* 3.0 40.6 + - + +
180A THR* 4.0 7.4 - - - +
182A TRP* 1.3 102.5 - - + +
184A GLN* 1.3 64.7 + - - +
186A VAL* 4.3 1.6 - - - -
187A PHE* 2.9 52.3 + - + +
189A VAL* 5.1 0.2 - - - +
306A LEU* 4.6 6.3 - - + -
308A PRO* 4.5 7.2 - - + -
335A LEU* 4.1 23.3 - - + -
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Residues in contact with GLN 184 (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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158A LEU* 3.8 13.4 - - + +
180A THR 3.0 15.7 + - - +
181A LYS* 3.6 5.0 + - - +
182A TRP 2.9 0.6 + - - -
183A LEU* 1.3 78.8 - - - +
185A ASP* 1.3 55.8 + - - +
188A ASN* 2.6 39.2 + - - -
189A VAL* 3.3 19.4 + - - +
191A LEU* 3.4 17.5 - - + +
227A PHE* 3.1 44.3 - - - +
228A ASP 4.1 3.5 - - - +
231A LYS* 3.1 47.7 - - + +
232A THR* 3.7 1.8 + - - -
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Residues in contact with ASP 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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181A LYS* 2.6 56.9 + - - +
182A TRP* 2.8 7.7 + - + +
184A GLN* 1.3 79.5 - - - +
186A VAL* 1.3 64.9 + - + +
187A PHE 3.4 0.5 + - - -
188A ASN* 3.4 10.8 + - - +
228A ASP* 5.0 6.1 - - - +
231A LYS* 4.7 13.5 - - - +
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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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124A THR* 3.0 46.4 - - + +
126A GLN* 4.3 25.3 - - + +
150A TYR* 4.9 1.2 + - - -
182A TRP* 2.7 66.9 + - + +
183A LEU* 3.8 1.6 - - - +
185A ASP* 1.3 74.3 - - + +
187A PHE* 1.3 70.8 + - + +
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Residues in contact with PHE 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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120A ILE* 4.0 13.5 - - + -
123A ALA* 4.4 1.8 - - + -
124A THR* 3.4 22.9 - - + -
143A MET* 4.4 8.3 - - + -
147A LEU* 3.9 28.3 - - + -
150A TYR* 2.6 61.6 + + + -
156A PHE* 3.8 22.4 - + + -
183A LEU* 2.9 49.6 + - + +
186A VAL* 1.3 85.5 - - + +
188A ASN* 1.3 73.8 + - - +
189A VAL* 4.0 14.1 - - + -
306A LEU* 5.7 0.2 - - + -
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Residues in contact with ASN 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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150A TYR* 4.7 3.1 - - - +
184A GLN 2.6 17.7 + - - -
185A ASP 3.4 9.7 + - - +
187A PHE* 1.3 83.8 - - - +
189A VAL* 1.3 58.5 + - - +
231A LYS* 2.7 37.7 + - - +
467A SER* 4.3 3.8 - - - +
468A PHE* 3.6 37.9 + - - +
469A ASP* 4.1 1.6 + - - +
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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
------------------------------------------------------------
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