Contacts of the helix formed by residues 157 - 175 (chain A) in PDB entry 2CWE
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 SER 157 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156A PHE* 1.3 74.4 - - - +
158A ASN* 1.3 61.2 + - - +
159A GLU* 3.6 8.2 + - - +
160A ASP* 3.3 32.6 + - - +
161A ILE* 2.9 29.4 + - - +
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Residues in contact with ASN 158 (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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4A LYS* 4.2 19.6 + - - +
5A VAL* 6.0 0.3 - - - +
30A ARG* 6.2 3.7 - - - +
84A ASP* 3.5 43.6 + - - +
85A VAL* 4.3 14.0 - - + +
157A SER* 1.3 72.6 - - - +
159A GLU* 1.3 61.3 + - - +
160A ASP 3.1 2.2 - - - -
161A ILE* 3.7 8.0 - - - +
162A ILE* 2.9 37.3 + - + +
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Residues in contact with GLU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A SER* 3.4 8.2 + - - +
158A ASN* 1.3 78.2 - - - +
160A ASP* 1.3 64.1 + - - +
162A ILE* 3.6 10.1 + - + +
163A HIS* 3.0 57.4 + - + -
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Residues in contact with ASP 160 (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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156A PHE* 5.0 13.8 - - + -
157A SER* 3.3 27.1 + - - +
158A ASN 3.1 0.2 - - - -
159A GLU* 1.3 85.5 - - - +
161A ILE* 1.3 61.2 - - - +
163A HIS* 3.3 9.7 + - - +
164A ALA* 2.8 29.3 + - - +
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Residues in contact with ILE 161 (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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4A LYS* 5.2 6.3 - - + -
5A VAL* 4.4 15.3 - - + -
85A VAL* 6.3 1.1 - - + -
146A ILE* 4.4 3.8 - - + -
153A LEU* 3.6 43.7 - - + -
156A PHE* 3.7 23.3 - - + +
157A SER 2.9 26.5 + - - +
158A ASN* 3.7 14.6 - - + +
160A ASP* 1.3 75.8 - - - +
162A ILE* 1.3 66.6 + - + +
164A ALA* 2.9 10.3 + - + +
165A ILE* 2.8 40.8 + - + +
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Residues in contact with ILE 162 (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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30A ARG* 4.1 19.5 - - - +
85A VAL* 3.6 30.3 - - + -
87A TYR* 3.6 23.9 + - - +
158A ASN* 2.9 24.0 + - + +
159A GLU* 3.6 8.7 - - + +
161A ILE* 1.3 80.7 - - + +
163A HIS* 1.3 75.2 + - + +
165A ILE* 3.1 4.6 + - + +
166A GLU* 3.1 26.6 + - + +
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Residues in contact with HIS 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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159A GLU* 3.0 50.7 + - + +
160A ASP* 3.8 10.0 + - - +
161A ILE 3.3 0.2 - - - -
162A ILE* 1.3 81.3 - - + +
164A ALA* 1.3 59.6 + - - +
166A GLU* 2.9 41.2 + - - +
167A TRP* 2.9 31.0 - - + +
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Residues in contact with ALA 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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160A ASP 2.8 15.3 + - - +
161A ILE* 2.9 14.3 + - + +
163A HIS* 1.3 73.4 - - - +
165A ILE* 1.3 68.8 + - + +
166A GLU 3.2 0.3 + - - -
167A TRP* 3.2 8.4 + - - +
168A LEU* 3.1 35.0 + - + +
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Residues in contact with ILE 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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5A VAL* 4.8 2.2 - - + -
87A TYR* 3.2 39.7 - - + +
139A THR* 4.1 26.0 - - + +
142A ILE* 3.2 37.8 - - + +
143A SER* 4.3 4.0 - - - -
146A ILE* 4.2 17.9 - - + -
161A ILE* 2.8 34.9 + - + +
162A ILE 3.5 6.3 - - - +
164A ALA* 1.3 76.7 - - + +
166A GLU* 1.3 57.1 + - - +
169A SER* 2.8 33.8 + - - -
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Residues in contact with GLU 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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162A ILE* 3.1 23.0 + - + +
163A HIS* 2.9 38.5 + - - +
164A ALA 3.1 0.4 - - - -
165A ILE* 1.3 77.1 - - - +
167A TRP* 1.3 54.1 + - + +
169A SER* 3.2 6.2 + - - -
170A THR* 2.5 44.9 + - - +
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Residues in contact with TRP 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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163A HIS* 2.9 32.2 + - + +
164A ALA* 3.2 9.0 + - - +
166A GLU* 1.3 79.6 - - + +
168A LEU* 1.3 59.3 + - + +
170A THR* 2.7 16.1 + - + -
171A ALA* 2.6 35.8 + - - +
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Residues in contact with LEU 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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142A ILE* 3.8 35.6 - - + +
145A TYR* 6.0 4.5 - - + -
146A ILE* 4.8 11.7 - - + -
164A ALA* 3.1 20.6 + - + +
165A ILE 4.0 2.7 - - - +
167A TRP* 1.3 80.1 - - + +
169A SER* 1.3 58.0 + - - +
171A ALA* 3.1 10.9 + - + +
172A GLU* 2.8 28.6 + - - +
175A ARG* 5.0 0.9 + - - -
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Residues in contact with SER 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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135A GLU* 4.1 1.7 + - - -
138A ALA* 3.8 4.0 - - - +
139A THR* 2.7 43.7 + - - -
142A ILE* 3.8 10.7 - - - +
165A ILE 2.8 22.6 + - - -
166A GLU* 3.3 6.5 - - - -
168A LEU* 1.3 77.6 - - - +
170A THR* 1.3 56.1 + - - +
172A GLU* 3.1 6.9 + - - +
173A LEU* 2.9 35.2 + - - +
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Residues in contact with THR 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 GLU* 2.5 29.3 + - - +
167A TRP* 2.7 21.1 + - + -
169A SER* 1.3 71.6 - - - +
171A ALA* 1.3 55.1 + - - -
173A LEU* 3.2 15.2 + - + +
174A ALA* 2.8 28.4 + - + +
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Residues in contact with ALA 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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167A TRP 2.6 16.0 + - - +
168A LEU* 3.4 14.1 - - + +
170A THR* 1.3 70.2 - - - +
172A GLU* 1.3 66.9 + - - +
174A ALA* 3.1 18.5 + - - +
175A ARG* 3.3 27.8 + - - +
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Residues in contact with GLU 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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138A ALA* 4.0 18.5 - - + +
141A ARG* 3.4 46.2 + - - +
142A ILE* 4.1 19.3 - - + -
168A LEU 2.8 9.7 + - - +
169A SER* 3.1 11.6 + - - +
171A ALA* 1.3 75.3 - - - +
173A LEU* 1.3 63.1 + - - +
175A ARG* 3.0 49.7 + - - +
176A ASP* 3.9 5.7 + - - +
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Residues in contact with LEU 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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134A LYS* 3.5 35.0 - - + +
135A GLU* 4.0 20.4 - - + +
138A ALA* 4.0 7.0 - - + -
169A SER* 2.9 20.7 + - - +
170A THR* 3.4 17.0 - - + +
172A GLU* 1.3 74.3 - - - +
174A ALA* 1.3 58.7 + - - +
175A ARG 2.8 11.4 + - - -
176A ASP* 3.0 21.6 + - + +
179A TYR* 3.6 56.8 - - + +
180A LEU* 4.0 0.3 - - - +
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Residues in contact with ALA 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 THR* 2.8 18.3 + - + +
171A ALA* 3.1 12.1 + - - +
173A LEU* 1.3 74.5 - - - +
175A ARG* 1.3 61.4 + - + +
176A ASP 3.4 0.8 + - - -
179A TYR* 4.8 0.9 - - - -
180A LEU* 3.9 27.2 - - + +
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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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141A ARG* 5.7 0.8 - - - +
168A LEU 5.0 0.8 + - - -
171A ALA* 3.3 19.8 + - - +
172A GLU* 3.0 53.0 + - - +
173A LEU 2.8 2.0 + - - -
174A ALA* 1.3 83.1 - - + +
176A ASP* 1.3 58.7 + - - +
177A GLU* 3.8 5.3 + - - +
180A LEU* 5.9 0.4 - - - -
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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