Contacts of the strand formed by residues 175 - 182 (chain A) in PDB entry 6CCY
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 175 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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153A LEU* 3.5 28.8 - - + +
166A LEU* 4.2 16.8 - - + -
167A VAL 3.2 15.9 - - - +
168A LYS* 3.6 23.8 + - + +
173A GLY 3.6 17.0 - - - -
174A ARG* 1.3 72.9 - - - +
176A TYR* 1.3 76.5 + - - +
229A TYR* 3.9 13.5 + - + +
432A GLU* 3.3 50.5 - - + -
433A VAL* 3.7 20.5 - - + +
483A GLY* 5.4 0.9 - - - +
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Residues in contact with TYR 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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150A PHE* 4.2 9.9 - + - -
166A LEU* 3.6 6.8 - - - +
167A VAL* 2.8 39.6 + - + +
169A GLU* 4.1 20.6 + - + -
174A ARG* 3.6 32.5 - - + +
175A TYR* 1.3 82.4 - - - +
177A ALA* 1.4 57.8 + - - +
214A LYS* 3.7 31.2 + - + -
215A TYR* 4.5 5.2 - + - -
226A VAL* 3.5 28.0 - - + -
227A MET 3.2 18.8 - - - +
228A GLU* 4.5 5.2 - - - -
229A TYR* 3.7 9.4 - - - -
481A TRP* 5.1 2.7 - + - -
483A GLY* 2.5 41.2 + - - -
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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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156A LEU* 4.5 2.5 - - + -
164A VAL* 4.2 7.6 - - + -
165A ILE 3.5 6.5 - - - +
166A LEU* 4.6 0.4 - - - +
176A TYR* 1.4 71.9 - - - +
178A MET* 1.3 63.1 + - - +
179A LYS 3.7 0.7 + - - -
225A PHE 3.5 0.9 - - - +
227A MET* 2.9 34.6 + - - +
229A TYR* 4.0 6.0 - - + +
501A EX4 3.4 51.7 - - + +
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Residues in contact with MET 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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147A MET* 4.0 5.6 - - - -
150A PHE* 3.6 34.1 - - + -
152A TYR* 3.4 29.8 - - + +
163A LYS 3.7 0.9 - - - +
164A VAL* 3.3 4.3 - - - -
165A ILE* 2.8 32.6 + - - +
167A VAL* 3.9 18.2 - - + -
176A TYR 3.9 1.2 + - - -
177A ALA* 1.3 72.7 - - - +
179A LYS* 1.3 64.6 + - - +
180A ILE* 3.5 35.2 + - + +
217A PHE* 4.0 7.6 - - + -
224A CYS* 4.1 13.0 - - + -
225A PHE 3.2 13.9 - - - +
226A VAL* 4.2 8.7 - - + +
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Residues in contact with LYS 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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163A LYS 3.6 3.6 - - - -
164A VAL* 4.2 12.6 - - + -
177A ALA 3.7 1.2 + - - -
178A MET* 1.3 72.9 - - - +
180A ILE* 1.3 58.5 + - - +
181A LEU* 4.3 17.5 - - + -
198A GLU* 2.7 39.5 + - - -
223A LEU 3.5 2.1 - - - +
224A CYS* 3.4 4.2 - - - -
225A PHE* 2.8 60.8 + - + +
227A MET* 5.1 1.3 - - + -
292A ASP* 3.9 18.4 + - - -
501A EX4 3.7 48.7 - - + -
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Residues in contact with ILE 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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147A MET* 3.9 13.5 - - + -
152A TYR* 4.2 7.6 - - + -
162A GLY* 3.2 5.9 - - - -
163A LYS* 2.9 47.3 + - + +
165A ILE* 3.8 26.5 - - + -
178A MET* 3.5 36.8 - - + +
179A LYS* 1.3 70.8 - - - +
181A LEU* 1.3 64.9 + - - +
182A LYS* 5.3 1.5 - - + +
222A ARG* 3.7 41.1 - - + +
223A LEU 3.4 3.4 - - - +
224A CYS* 4.1 7.9 - - - -
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Residues in contact with LEU 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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161A PHE* 3.3 22.9 - - + +
179A LYS* 4.3 15.0 - - + -
180A ILE* 1.3 76.9 - - - +
182A LYS* 1.3 59.7 + - - +
183A LYS 3.2 5.9 + - - -
186A ILE* 3.9 28.0 - - + -
195A THR* 4.3 10.8 - - + +
198A GLU* 5.2 2.7 - - - +
222A ARG* 3.4 6.1 - - - -
223A LEU* 2.7 51.3 + - + +
225A PHE* 4.2 22.9 - - + -
501A EX4 3.3 33.4 - - - -
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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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160A THR 5.5 0.9 - - - +
161A PHE 3.0 15.3 + - - +
162A GLY* 4.9 7.2 - - - -
180A ILE* 4.3 1.8 - - + +
181A LEU* 1.3 67.5 - - - +
183A LYS* 1.4 66.3 + - - +
184A GLU* 3.1 29.3 + - + -
185A VAL* 2.9 33.1 + - + +
186A ILE* 3.3 12.7 + - - +
221A ASP* 3.8 11.0 - - - +
222A ARG* 3.9 31.7 - - + +
450A THR* 3.4 35.4 + - - +
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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