Contacts of the strand formed by residues 175 - 183 (chain A) in PDB entry 2Z82
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 175 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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151A LEU 3.1 19.2 - - - +
152A GLN* 4.6 0.7 - - - -
173A LEU 3.9 0.4 - - - -
174A THR* 1.3 89.0 + - - +
176A LEU* 1.3 64.7 + - - +
197A ILE* 4.8 0.2 - - - -
198A ARG* 4.5 4.9 - - - +
199A ASP* 3.2 25.6 + - - +
201A HIS* 6.1 1.8 - - - -
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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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151A LEU* 3.4 46.7 - - + +
152A GLN* 3.5 9.9 - - - +
153A THR 4.6 0.4 - - - +
154A LEU* 4.6 4.5 - - + -
173A LEU* 3.9 34.1 - - + -
175A SER* 1.3 76.5 - - - +
177A ASN* 1.3 65.2 + - - +
178A GLU 3.3 9.8 + - - +
179A LEU* 3.8 35.0 - - + -
197A ILE* 4.6 11.6 - - + +
199A ASP 2.8 10.9 + - - +
200A ILE* 3.2 7.3 - - + +
201A HIS* 3.0 20.2 + - - -
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Residues in contact with ASN 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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152A GLN* 2.6 48.7 + - + +
153A THR* 4.9 2.7 - - - +
175A SER 4.3 0.4 - - - -
176A LEU* 1.3 72.6 - - - +
178A GLU* 1.3 61.9 + - + +
201A HIS* 3.1 36.2 + - + +
202A HIS* 3.0 23.8 + - - +
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Residues in contact with GLU 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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152A GLN 3.1 4.4 + - - +
153A THR* 3.3 17.5 + - + +
154A LEU 3.0 24.3 + - - +
155A ARG* 2.7 45.4 + - - +
176A LEU* 3.1 6.3 - - - +
177A ASN* 1.3 82.5 - - + +
179A LEU* 1.3 68.6 + - - +
180A GLU* 4.8 0.2 - - - +
200A ILE* 5.0 0.2 - - - -
202A HIS* 3.2 39.7 + - + +
204A THR* 4.1 7.2 + - - +
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Residues in contact with LEU 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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154A LEU* 3.2 42.6 - - + +
156A ILE* 5.2 2.0 - - + -
170A PHE* 4.1 18.8 - - + -
176A LEU* 3.8 14.6 - - + -
178A GLU* 1.3 77.9 - - - +
180A GLU* 1.3 65.2 + - - +
181A ILE* 4.1 13.5 - - + -
194A LEU* 4.1 12.3 - - + -
197A ILE* 4.0 27.1 - - + -
200A ILE* 4.3 14.1 - - + +
202A HIS 3.0 6.6 + - - -
203A LEU* 3.3 16.0 - - + +
204A THR 3.1 21.5 + - - -
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Residues in contact with GLU 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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132A MET* 3.1 35.8 - - - +
154A LEU 2.9 7.0 + - - +
155A ARG* 2.5 48.6 + - + +
156A ILE* 2.9 30.1 + - - +
178A GLU* 4.3 1.6 - - - +
179A LEU* 1.3 74.4 - - - +
181A ILE* 1.3 64.6 + - - +
182A LYS* 4.6 0.3 - - - -
204A THR* 3.3 26.2 + - - +
206A HIS* 3.0 28.4 + - + +
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Residues in contact with ILE 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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156A ILE* 3.6 16.8 - - + -
162A PHE* 4.1 15.7 - - + -
165A ILE* 3.9 25.8 - - + -
170A PHE* 4.0 21.5 - - + -
179A LEU* 4.1 15.9 - - + -
180A GLU* 1.3 77.5 - - - +
182A LYS* 1.3 60.2 + - - +
183A ALA* 3.7 6.5 + - + -
194A LEU* 4.2 22.0 - - + -
203A LEU* 4.4 1.3 - - + -
204A THR 2.9 9.9 + - - +
205A LEU* 3.4 27.8 - - + +
206A HIS* 3.1 24.5 + - - -
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Residues in contact with LYS 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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132A MET* 4.2 27.7 - - + +
133A GLY* 5.8 1.4 - - - +
156A ILE 2.8 17.2 + - - +
157A GLY* 3.2 7.4 - - - -
158A ASN* 3.0 51.9 + - - +
159A VAL* 3.9 18.2 - - + +
162A PHE* 3.5 3.4 - - - -
180A GLU* 4.1 0.6 - - - -
181A ILE* 1.3 71.4 - - - +
183A ALA* 1.3 61.1 + - - +
184A LEU* 4.5 7.4 - - + -
206A HIS* 3.8 40.4 - - + -
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Residues in contact with ALA 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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158A ASN 4.3 1.6 - - - -
162A PHE* 3.6 26.7 - - + -
165A ILE* 4.8 1.1 - - + -
181A ILE* 3.7 10.2 + - + -
182A LYS* 1.3 72.4 - - - +
184A LEU* 1.3 60.6 + - - +
185A SER 3.0 7.9 + - - +
186A LEU* 3.2 39.6 + - + +
206A HIS 3.0 16.3 + - - +
207A LEU* 4.0 11.1 - - + +
208A SER 4.5 0.3 + - - -
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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