Contacts of the strand formed by residues 175 - 181 (chain C) in PDB entry 1C7G
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 175 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115C GLN* 4.6 3.8 + - - -
116C TYR* 3.4 16.4 - - + +
118C ALA 5.0 3.8 - - - +
163C LEU* 5.5 0.9 - - + -
166C LEU* 4.1 26.9 - - + +
167C ILE* 3.7 29.4 - - + +
170C LYS* 5.3 2.0 - - + -
171C GLY 4.0 10.8 - - - +
172C ALA* 3.2 13.7 + - - +
173C GLU 3.3 1.1 - - - +
174C ASN* 1.3 80.1 - - - +
176C ALA* 1.3 66.8 + - - +
177C TYR* 3.9 13.6 - - - +
178C ILE* 4.8 5.6 - - + -
209C ILE* 3.7 46.1 - - + +
210C LYS 5.3 0.2 + - - -
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Residues in contact with ALA 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110C ALA* 3.5 24.5 - - - +
111C ILE* 3.9 7.4 - - + -
115C GLN* 3.6 24.7 - - + +
116C TYR 2.7 15.8 + - - +
117C VAL* 3.9 11.2 - - + -
174C ASN 3.8 3.2 + - - -
175C ILE* 1.3 73.9 - - - +
177C TYR* 1.3 74.7 + - + +
210C LYS* 3.9 11.4 + - - +
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Residues in contact with TYR 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106C LEU* 4.1 18.6 - - + +
107C SER* 3.8 11.6 + - - -
110C ALA* 3.8 22.2 - - + -
111C ILE* 3.8 22.4 - - + +
117C VAL* 3.6 17.3 - - + -
118C ALA 3.5 17.7 + - - -
130C GLN* 3.7 20.4 + - - +
175C ILE* 3.3 7.2 - - - +
176C ALA* 1.3 90.8 - - + +
178C ILE* 1.3 75.8 + - - +
179C CYS* 3.9 23.1 + - + -
209C ILE* 4.3 2.9 - - - -
210C LYS* 3.1 26.7 - - + +
212C PHE* 3.6 22.4 - + + -
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Residues in contact with ILE 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C ALA* 3.3 16.6 - - + +
140C ILE* 4.8 2.5 - - + -
158C ILE* 4.1 25.4 - - + -
163C LEU* 3.9 33.4 - - + -
167C ILE* 5.8 0.2 - - + -
175C ILE* 4.8 3.1 - - + -
177C TYR* 1.3 78.2 - - - +
179C CYS* 1.3 61.8 + - - +
180C LEU* 3.7 8.1 + - + +
200C VAL* 4.4 10.5 - - + -
204C ALA* 3.8 28.3 - - + -
209C ILE* 3.9 17.7 - - + -
210C LYS 2.6 11.4 + - - +
211C ILE* 3.6 10.2 - - + +
212C PHE 3.0 26.2 + - - +
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Residues in contact with CYS 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106C LEU* 6.6 0.2 - - - -
117C VAL* 4.3 4.0 - - + -
118C ALA 2.6 14.4 + - - +
119C GLY* 3.1 23.1 - - - -
120C ASN* 3.3 5.7 + - - +
121C MET 5.1 1.7 - - - +
126C THR* 4.7 9.2 - - - -
130C GLN* 4.0 19.5 - - - +
137C PHE* 5.9 1.8 - - + -
177C TYR* 3.9 18.8 + - + -
178C ILE* 1.3 72.8 - - - +
180C LEU* 1.3 58.1 + - - +
181C ALA* 3.7 2.3 + - - +
212C PHE* 3.4 11.0 - - - -
213C TYR 5.3 0.2 - - - -
214C ASP* 4.3 20.9 - - - -
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Residues in contact with LEU 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C ASN* 3.4 8.3 - - - +
158C ILE* 3.8 28.0 - - + -
178C ILE* 3.7 4.7 + - + -
179C CYS* 1.3 70.6 - - - +
181C ALA* 1.3 63.0 + - - +
182C VAL* 3.7 25.8 - - + -
192C VAL* 4.0 12.6 - - + -
196C ASN* 4.9 0.7 - - - +
197C MET* 4.0 27.8 - - + +
200C VAL* 4.2 23.6 - - + -
211C ILE* 4.9 2.9 - - + -
212C PHE 3.4 5.7 + - - -
213C TYR* 3.1 35.1 - - + +
214C ASP* 2.9 21.6 + - - -
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Residues in contact with ALA 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C ASN* 2.9 36.7 + - - +
121C MET 5.9 1.1 - - - +
122C TYR* 6.5 0.7 - - - -
179C CYS* 3.7 3.8 + - - +
180C LEU* 1.3 73.0 - - - +
182C VAL* 1.3 67.3 + - - +
183C THR 3.5 15.4 - - - +
184C VAL* 4.9 3.4 - - + -
185C ASN 5.7 0.4 - - - +
192C VAL* 3.4 5.2 - - - +
214C ASP* 3.5 25.6 - - + +
1000C PLP 5.2 5.6 - - + -
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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