Contacts of the helix formed by residues 182 - 196 (chain A) in PDB entry 1OE7
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 TYR 182 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133A PRO* 3.7 26.2 + - - +
136A LEU* 3.6 39.3 - - + +
137A ASP* 3.1 25.4 + - - -
140A CYS* 4.6 9.6 - - + -
177A PHE* 4.5 5.8 - + - -
178A LEU* 3.9 20.6 - - + -
181A LYS* 1.3 115.3 + - + +
183A PRO* 1.4 72.8 - - - +
184A GLU* 3.2 6.1 - - - -
185A ILE* 3.0 32.4 + - + -
186A HIS* 3.3 10.7 + - - -
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Residues in contact with PRO 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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180A GLY 5.7 0.4 - - - -
181A LYS* 3.3 6.5 - - - +
182A TYR* 1.4 87.6 - - - +
184A GLU* 1.3 76.8 + - - +
186A HIS* 3.2 13.0 + - + +
187A LYS* 2.8 31.8 + - - +
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Residues in contact with GLU 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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140A CYS* 3.1 31.7 - - - +
143A LEU* 3.8 13.5 - - + +
144A LYS* 3.1 43.8 + - + +
183A PRO* 1.3 94.8 - - - +
185A ILE* 1.3 57.2 + - - +
187A LYS* 3.8 7.1 - - - +
188A HIS* 2.8 28.4 + - - +
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Residues in contact with ILE 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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136A LEU* 3.8 43.7 - - + +
139A ILE* 4.2 13.7 - - + -
140A CYS* 4.7 6.3 - - - -
143A LEU* 4.1 18.2 - - + -
163A LEU* 5.4 3.8 - - + -
167A ILE* 3.9 31.0 - - + -
178A LEU* 4.0 12.3 - - + -
182A TYR* 3.0 27.4 + - + +
184A GLU* 1.3 75.9 - - - +
186A HIS* 1.3 65.6 + - + +
188A HIS* 3.2 12.7 + - - +
189A ARG* 3.2 13.9 + - - +
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Residues in contact with HIS 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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178A LEU* 2.8 44.6 + - + +
179A THR* 5.1 2.9 - - - -
180A GLY* 4.7 2.5 + - - -
181A LYS 3.2 19.3 + - - -
182A TYR* 3.3 15.5 + - + -
183A PRO* 3.2 10.2 + - + +
185A ILE* 1.3 78.8 - - + +
187A LYS* 1.3 63.9 - - - +
189A ARG* 3.2 9.7 + - - +
190A GLU* 3.2 19.6 + - - +
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Residues in contact with LYS 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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183A PRO 2.8 17.3 + - - +
184A GLU* 3.8 8.3 - - - +
185A ILE 3.2 0.2 - - - -
186A HIS* 1.3 73.6 - - - +
188A HIS* 1.4 68.5 + - - +
190A GLU* 2.6 41.7 + - - +
191A ASN* 2.9 49.6 + - - +
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Residues in contact with HIS 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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143A LEU* 3.9 23.1 - - + -
149A LYS 4.8 2.2 - - - -
150A LEU* 4.0 10.6 - - + +
151A ALA* 3.7 16.4 + - - +
160A ASP* 2.6 55.5 + - + -
163A LEU* 3.8 18.8 - - + +
164A ILE* 4.2 11.4 - - + +
184A GLU 2.8 15.8 + - - +
185A ILE* 3.2 11.5 + - - +
187A LYS* 1.4 77.2 - - - +
189A ARG* 1.3 60.8 + - - +
191A ASN* 3.3 6.5 + - - +
192A LEU* 2.8 31.6 + - + +
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Residues in contact with ARG 189 (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* 4.4 30.4 + - + +
167A ILE* 6.2 3.0 - - - +
168A ASP* 3.1 36.5 + - - -
185A ILE 3.2 7.8 + - - +
186A HIS* 3.5 11.2 - - - +
187A LYS 3.2 0.2 - - - -
188A HIS* 1.3 84.0 + - - +
190A GLU* 1.3 64.3 - - - +
192A LEU* 3.3 3.8 + - - +
193A LEU* 3.0 51.5 + - + +
203A LEU* 3.9 32.3 - - - +
206A ARG* 5.4 0.4 - - - +
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Residues in contact with GLU 190 (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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186A HIS 3.2 8.5 + - - +
187A LYS* 2.6 47.2 + - - +
189A ARG* 1.3 80.1 - - - +
191A ASN* 1.3 63.5 + - - +
193A LEU* 3.3 5.2 + - - +
194A ALA* 3.1 24.0 + - - +
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Residues in contact with ASN 191 (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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149A LYS* 3.0 51.9 + - + +
150A LEU* 3.6 6.7 - - + -
187A LYS* 2.9 58.1 + - - +
188A HIS* 3.8 1.5 - - - +
190A GLU* 1.3 77.0 - - - +
192A LEU* 1.4 59.7 + - - +
194A ALA* 3.4 7.3 + - - +
195A SER* 3.0 25.5 + - - +
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Residues in contact with LEU 192 (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 LEU* 3.5 10.2 - - + +
156A VAL* 3.8 30.3 - - + -
160A ASP* 3.9 34.1 - - + +
161A LEU* 4.4 1.1 - - + -
164A ILE* 3.7 29.4 - - + -
188A HIS* 2.8 23.4 + - + +
189A ARG* 3.6 5.4 - - - +
191A ASN* 1.4 72.3 - - - +
193A LEU* 1.3 68.1 + - + +
195A SER* 3.1 2.7 + - - -
196A SER* 3.1 22.0 + - - -
199A LEU* 3.5 31.9 - - + -
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Residues in contact with LEU 193 (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* 5.1 0.4 - - + -
189A ARG* 3.0 46.9 + - + +
190A GLU* 3.3 5.4 + - - +
192A LEU* 1.3 87.3 - - + +
194A ALA* 1.3 57.8 + - - +
196A SER 3.3 21.0 - - - +
197A PRO* 3.8 2.3 - - - +
199A LEU* 4.1 16.4 - - + -
200A ALA* 3.7 28.4 - - + +
203A LEU* 3.4 30.1 - - + -
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Residues in contact with ALA 194 (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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190A GLU 3.1 16.5 + - - +
191A ASN* 3.6 7.6 - - - +
193A LEU* 1.3 75.3 - - - +
195A SER* 1.4 62.1 + - - +
196A SER 3.6 0.3 + - - -
197A PRO* 4.2 8.8 - - - +
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Residues in contact with SER 195 (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 LEU* 3.8 16.7 - - - +
154A ASP 4.5 6.0 + - - -
155A LYS* 5.9 0.9 - - - -
156A VAL* 4.0 22.2 - - - +
191A ASN* 3.0 15.2 + - - +
192A LEU 3.1 7.2 + - - -
194A ALA* 1.4 77.4 - - - +
196A SER* 1.3 57.5 + - - +
197A PRO* 3.7 6.4 - - - +
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Residues in contact with SER 196 (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 ALA* 4.2 15.8 + - - +
156A VAL* 4.4 15.5 - - - -
192A LEU 3.1 11.7 + - - -
193A LEU 3.3 8.2 - - - +
194A ALA 3.4 0.2 - - - -
195A SER* 1.3 76.9 - - - +
197A PRO* 1.4 69.6 - - - +
198A ARG* 3.9 9.4 + - - +
199A LEU* 3.0 29.2 + - - +
200A ALA 3.0 18.2 + - - -
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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