Contacts of the helix formed by residues 150 - 158 (chain H) in PDB entry 2OCP
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 ILE 150 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146H SER* 2.8 37.5 + - - +
149H TYR* 1.3 75.8 - - - +
151H PHE* 1.3 83.0 + - + +
154H ASN* 3.1 28.3 + - - +
222H LEU* 4.0 13.4 - - + +
225H GLN* 3.7 13.2 - - + +
226H HIS* 3.5 68.6 - - + +
229H TRP* 3.9 14.6 - - + -
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Residues in contact with PHE 151 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46H ASN* 6.4 0.2 - - - -
47H ILE* 4.8 2.5 - - + -
111H GLN* 3.8 0.9 - - - +
118H ARG* 4.7 0.9 - - - -
142H ARG* 3.8 36.3 - - - -
146H SER 3.3 8.9 + - - -
147H ASP 4.0 0.4 - - - +
150H ILE* 1.3 97.8 - - + +
152H ALA* 1.3 58.4 + - - +
154H ASN* 3.0 3.9 + - - +
155H LEU* 2.6 41.6 + - + +
218H TYR* 4.5 7.4 - - - -
222H LEU* 4.0 30.5 - - + -
226H HIS* 5.6 0.9 - + - -
301H DTP 3.1 86.8 - + + +
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Residues in contact with ALA 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111H GLN* 3.7 17.3 - - + -
147H ASP 3.0 23.2 + - - +
148H ARG 3.7 2.0 - - - +
151H PHE* 1.3 73.6 - - - +
153H LYS* 1.3 65.8 + - - +
155H LEU* 3.0 3.4 + - - +
156H PHE* 2.9 18.9 + - - +
161H LEU* 3.7 10.7 - - + +
166H TRP* 3.6 11.0 - - + -
169H TYR* 3.5 34.1 - - + -
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Residues in contact with LYS 153 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148H ARG 2.9 22.5 + - - +
149H TYR* 3.8 20.2 - - + +
152H ALA* 1.3 72.1 - - - +
154H ASN* 1.3 63.8 + - - +
156H PHE* 3.0 5.4 + - + +
157H GLU* 2.6 57.4 + - + +
166H TRP* 3.5 23.5 - - + -
225H GLN* 2.7 25.2 + - - +
228H ALA* 5.6 2.6 - - - +
235H THR* 4.0 32.8 + - + +
236H LYS 5.8 0.7 - - - +
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Residues in contact with ASN 154 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150H ILE 3.1 19.8 + - - +
151H PHE 3.0 3.2 + - - +
153H LYS* 1.3 80.2 - - - +
155H LEU* 1.3 65.2 + - - +
157H GLU* 3.1 5.5 + - - +
158H ASN* 2.9 24.5 + - - +
218H TYR* 3.9 13.3 + - - -
221H GLN* 3.0 43.1 + - - +
222H LEU* 3.5 22.0 - - + +
225H GLN* 3.2 28.3 + - + +
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Residues in contact with LEU 155 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99H MET* 4.4 10.8 - - + -
103H PRO* 5.3 0.9 - - + -
107H SER* 3.8 21.5 - - - +
110H PHE* 6.0 0.2 - - + -
111H GLN* 3.1 32.8 - - + +
151H PHE* 2.6 23.4 + - - +
152H ALA* 3.4 4.7 - - - +
154H ASN* 1.3 74.0 - - - +
156H PHE* 1.3 58.4 + - - +
158H ASN* 2.9 12.3 + - - +
160H SER* 2.8 53.3 + - - +
161H LEU* 3.0 16.3 + - + -
218H TYR* 4.2 20.0 - - + +
301H DTP 4.5 10.1 - - + -
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Residues in contact with PHE 156 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152H ALA 2.9 10.8 + - - +
153H LYS* 3.0 7.2 + - + +
155H LEU* 1.3 76.1 - - - +
157H GLU* 1.3 78.1 + - + +
159H GLY* 2.9 15.8 + - - -
161H LEU* 3.5 26.3 - - + +
162H SER 4.1 0.2 - - - -
163H ASP* 3.8 28.7 - - - -
166H TRP* 3.4 56.8 - + + -
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Residues in contact with GLU 157 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153H LYS* 2.6 51.2 + - + +
154H ASN* 3.7 7.4 - - - +
156H PHE* 1.3 90.1 - - + +
158H ASN* 1.3 57.9 + - - +
159H GLY 3.3 0.7 + - - -
225H GLN* 2.8 23.5 + - - -
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Residues in contact with ASN 158 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154H ASN* 2.9 15.2 + - - +
155H LEU* 2.9 12.2 + - - +
157H GLU* 1.3 75.4 - - - +
159H GLY* 1.3 57.1 + - - +
160H SER* 2.7 35.9 + - - +
218H TYR* 4.0 15.8 - - - -
221H GLN* 3.3 37.3 + - - +
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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