Contacts of the helix formed by residues 164 - 180 (chain A) in PDB entry 2C56
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 GLY 164 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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48A LEU* 3.6 20.2 - - - +
161A SER 5.0 1.4 + - - -
162A ARG 3.2 5.5 + - - -
163A ILE* 1.3 78.4 - - - +
165A TRP* 1.3 65.8 + - - +
166A ASP* 3.3 12.8 + - - -
167A ARG* 3.5 15.7 + - - +
168A PHE* 3.7 4.0 + - - +
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Residues in contact with TRP 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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26A PHE* 5.2 0.9 - + - -
48A LEU* 3.6 26.7 - - + +
49A LEU* 4.6 16.6 - - + -
52A TYR* 4.0 28.9 - + + -
68A VAL* 4.3 6.3 - - + -
69A PHE* 3.8 24.2 - + - -
148A THR 3.2 13.7 - - - +
149A THR* 3.7 16.4 - - + +
150A LEU* 3.5 47.6 - - + +
151A THR* 2.8 32.4 + - + +
160A HIS 4.5 0.8 + - - -
161A SER 5.7 1.2 + - - -
163A ILE* 3.5 24.0 - - + +
164A GLY* 1.3 76.7 - - - +
166A ASP* 1.3 54.0 + - - +
168A PHE* 3.1 15.5 + + - +
169A VAL* 2.8 36.0 + - - +
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Residues in contact with ASP 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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148A THR* 3.1 29.3 + - - +
149A THR* 5.0 4.6 + - - +
161A SER 5.0 10.2 + - - +
164A GLY* 3.7 14.6 + - - -
165A TRP* 1.3 73.4 + - - +
167A ARG* 1.3 68.0 + - - +
169A VAL* 4.1 1.0 - - - +
170A GLY* 2.9 24.4 + - - -
191A HIS* 5.7 5.6 - - + -
195A ALA* 6.1 3.7 - - + +
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Residues in contact with ARG 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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39A GLU* 3.0 24.5 + - - -
42A ASN* 3.3 26.7 - - - +
44A LEU* 3.7 35.1 + - - +
45A THR* 3.1 33.6 + - - +
48A LEU* 4.5 3.6 - - - +
164A GLY* 3.5 7.2 + - - +
165A TRP 3.2 0.4 - - - -
166A ASP* 1.3 86.1 + - - +
168A PHE* 1.3 84.3 + - - +
170A GLY* 3.3 1.2 + - - -
171A GLY* 2.8 27.9 + - - -
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Residues in contact with PHE 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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22A PHE* 4.2 14.6 - + - -
36A MET* 3.8 23.8 - - + -
39A GLU* 3.7 31.1 - - + +
40A LEU* 4.7 2.9 - - + -
45A THR* 3.9 27.8 - - + -
48A LEU* 3.6 18.4 - - + -
49A LEU* 6.2 0.7 - - + -
69A PHE* 3.9 25.4 - + - -
71A TRP* 5.0 4.3 - + - -
150A LEU* 5.0 0.4 - - + -
164A GLY 3.7 1.2 + - - -
165A TRP* 3.1 19.4 + + - +
167A ARG* 1.3 97.5 - - - +
169A VAL* 1.3 71.3 + - + +
171A GLY* 3.2 3.1 + - - -
172A VAL* 3.1 41.3 + - + +
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Residues in contact with VAL 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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71A TRP* 5.5 2.2 - - + -
146A LEU* 3.8 16.2 - - + -
147A ASN 3.7 27.1 - - - +
148A THR* 3.7 20.2 - - + +
150A LEU* 3.9 25.8 - - + -
165A TRP 2.8 21.9 + - - +
166A ASP 4.1 1.8 - - - +
168A PHE* 1.3 79.9 - - + +
170A GLY* 1.3 64.2 + - - +
172A VAL* 3.2 6.8 + - - +
173A ILE* 2.9 41.1 + - + +
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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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166A ASP 2.9 18.9 + - - -
167A ARG* 3.3 2.0 + - - -
169A VAL* 1.3 79.3 - - - +
171A GLY* 1.3 57.2 + - - +
173A ILE* 3.3 10.0 + - - +
174A ARG* 2.8 41.8 + - - +
195A ALA 5.4 4.5 - - - -
196A ILE* 5.4 7.9 - - - -
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Residues in contact with GLY 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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39A GLU* 3.4 22.4 - - - -
167A ARG* 2.8 15.2 + - - -
168A PHE 3.6 2.2 - - - -
169A VAL 3.1 0.2 - - - -
170A GLY* 1.3 73.7 - - - +
172A VAL* 1.3 65.1 + - - +
174A ARG* 3.2 11.1 + - - +
175A ARG* 2.9 29.0 + - - +
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Residues in contact with VAL 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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32A TRP* 4.2 25.8 - - + -
35A LEU* 4.0 21.2 - - + +
36A MET* 4.2 12.1 - - + -
39A GLU* 3.9 16.1 + - + -
71A TRP* 4.3 16.4 - - + -
144A LEU* 6.5 0.7 - - + -
146A LEU* 5.5 3.8 - - + -
168A PHE* 3.1 33.1 + - + +
169A VAL* 3.2 8.0 + - - +
171A GLY* 1.3 75.2 - - - +
173A ILE* 1.3 66.3 + - + +
175A ARG* 3.3 3.0 + - - +
176A LEU* 2.9 21.7 + - + +
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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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83A VAL* 4.9 4.9 - - + -
85A ILE* 3.6 29.6 - - + -
144A LEU* 5.5 2.5 - - + -
146A LEU* 3.8 17.9 - - + -
169A VAL* 2.9 35.0 + - + +
170A GLY* 3.7 7.0 - - - +
172A VAL* 1.3 77.0 - - - +
174A ARG* 1.3 64.0 + - + +
176A LEU* 3.3 10.1 + - + +
177A ALA* 2.9 23.1 + - + +
185A PHE* 3.8 30.0 - - + -
196A ILE* 3.8 26.5 - - + -
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Residues in contact with ARG 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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170A GLY* 2.8 28.4 + - - +
171A GLY* 3.6 9.0 - - - +
173A ILE* 1.3 76.9 - - + +
175A ARG* 1.3 63.4 + - + +
177A ALA* 3.2 7.2 + - - +
178A ALA* 3.1 22.7 + - - +
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Residues in contact with ARG 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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34A PRO 4.6 1.6 - - - +
35A LEU* 3.6 33.5 + - + +
38A PRO* 3.5 40.8 + - - +
39A GLU* 2.7 33.5 + - - -
171A GLY* 2.9 13.6 + - - +
172A VAL 3.8 3.4 - - - +
174A ARG* 1.3 76.7 - - + +
176A LEU* 1.3 63.3 + - - +
178A ALA* 3.3 7.3 + - - +
179A ARG* 3.1 24.4 + - - +
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Residues in contact with LEU 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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32A TRP* 4.7 4.3 - - + -
35A LEU* 3.3 27.0 - - + +
77A PRO* 3.7 26.7 - - + +
80A VAL* 4.1 17.7 - - + -
83A VAL* 4.3 4.9 - - + -
144A LEU* 3.9 28.3 - - + -
172A VAL* 2.9 14.7 + - + +
173A ILE* 3.6 11.4 - - + +
175A ARG* 1.3 76.8 - - - +
177A ALA* 1.3 58.1 + - - +
179A ARG* 3.3 2.8 + - - +
180A ARG* 2.8 53.3 + - + +
183A LEU* 4.2 11.9 - - + -
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Residues in contact with ALA 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 17.9 + - + +
174A ARG* 3.2 7.4 + - - +
176A LEU* 1.3 78.5 - - - +
178A ALA* 1.3 59.4 + - - +
180A ARG 3.2 18.0 + - - +
181A PRO* 4.2 0.9 - - - +
183A LEU* 4.0 8.9 - - - +
185A PHE* 4.2 16.6 - - + -
198A PRO* 5.7 2.9 - - + -
202A VAL* 5.0 1.7 - - - +
203A HIS* 3.3 28.8 + - + +
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Residues in contact with ALA 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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174A ARG 3.1 15.7 + - - +
175A ARG* 3.3 7.6 + - - +
177A ALA* 1.3 74.9 - - - +
179A ARG* 1.3 64.1 + - - +
181A PRO* 4.9 6.1 - - - +
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Residues in contact with ARG 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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31A ALA 5.6 1.2 + - - -
34A PRO* 4.0 22.0 - - - +
35A LEU* 3.6 33.2 - - + +
77A PRO* 4.3 6.1 - - - +
78A ASP* 2.8 38.2 + - - -
175A ARG 3.1 16.2 + - - +
176A LEU* 3.6 5.8 - - - +
178A ALA* 1.3 79.0 - - - +
180A ARG* 1.3 79.4 + - + +
181A PRO* 3.4 9.3 - - - +
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Residues in contact with ARG 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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77A PRO 3.6 21.1 - - - -
78A ASP* 3.6 39.5 + - - +
80A VAL 4.1 12.4 + - - -
176A LEU* 2.8 29.5 + - + +
177A ALA 3.2 5.3 - - - +
178A ALA 3.3 0.2 - - - -
179A ARG* 1.3 95.3 + - - +
181A PRO* 1.3 73.4 + - - +
183A LEU* 3.5 20.0 - - + +
203A HIS* 2.8 22.2 - - - -
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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