Contacts of the strand formed by residues 162 - 170 (chain C) in PDB entry 4EN0
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 162 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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149C LEU* 3.6 54.5 - - + -
161C THR* 1.3 80.7 - - - +
163C THR* 1.3 65.1 + - - +
164C HIS* 3.9 4.8 + - + +
182C SER 3.5 2.3 - - - +
183C GLN* 3.3 3.9 - - - -
184C GLN* 2.9 37.8 + - + +
186C PRO* 3.6 24.0 - - + -
197C TRP* 4.3 0.7 - - + -
201C SER* 5.9 0.7 - - - -
219C VAL* 4.0 16.6 - - + -
220C LEU* 4.3 10.5 - - - +
221C ASP* 5.4 0.9 - - + +
224C LEU* 3.9 26.7 - - + -
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Residues in contact with THR 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A ARG* 5.0 4.7 - - - +
161C THR* 5.4 0.7 - - - -
162C ILE* 1.3 74.1 + - - +
164C HIS* 1.3 62.0 + - - +
165C GLY 4.3 0.2 - - - -
167C TYR* 4.4 13.5 - - - +
178C GLU* 5.3 1.1 - - - +
181C VAL* 3.7 26.9 - - + -
182C SER 3.4 4.3 - - - +
183C GLN* 4.0 20.0 + - + +
218C ARG 3.8 0.4 - - - +
219C VAL* 3.1 6.8 - - - +
220C LEU* 2.7 58.8 + - - +
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Residues in contact with HIS 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C SER* 3.1 48.3 + - - -
147C VAL* 3.4 25.4 - - + +
162C ILE* 3.9 5.4 + - + -
163C THR* 1.3 77.1 - - - +
165C GLY* 1.3 62.6 + - - +
166C LEU* 4.8 0.6 - - - +
181C VAL* 4.7 0.4 - - - -
182C SER 2.9 32.1 + - - +
201C SER* 3.0 43.9 + - - +
203C LEU* 3.1 22.5 - - + +
217C VAL* 3.9 8.4 - - + +
218C ARG 3.5 2.9 - - - -
219C VAL* 3.8 15.9 - - + -
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Residues in contact with GLY 165 (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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163C THR 4.3 0.2 - - - -
164C HIS* 1.3 76.8 - - - +
166C LEU* 1.3 66.5 + - - +
167C TYR* 3.2 18.1 + - - -
180C LEU 3.2 11.0 - - - -
181C VAL* 4.3 4.5 - - - -
203C LEU* 3.7 2.7 - - - -
217C VAL* 3.5 5.0 - - - +
218C ARG 2.9 35.2 + - - -
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Residues in contact with LEU 166 (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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143C ILE* 3.6 40.2 - - + -
144C TYR* 4.1 17.5 - - - +
145C SER* 3.5 16.2 - - - +
164C HIS* 4.8 1.6 - - - +
165C GLY* 1.3 76.5 - - - -
167C TYR* 1.3 62.1 + - - +
178C GLU* 3.8 0.3 - - - -
179C LEU* 2.9 30.3 + - + +
180C LEU* 2.9 29.8 + - + +
203C LEU* 4.6 5.4 - - + -
215C VAL* 4.3 7.6 - - + -
216C VAL 3.4 3.6 - - - +
217C VAL* 3.5 33.0 - - + -
235C PHE* 4.3 7.4 - - + -
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Residues in contact with TYR 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163C THR* 4.4 16.8 - - - +
165C GLY* 3.2 34.4 - - - -
166C LEU* 1.3 73.7 - - - +
168C LYS* 1.3 60.6 + - - +
169C ARG 4.0 0.6 + - - -
176C GLU* 3.5 33.4 - - + +
177C LEU 3.4 5.8 - - - +
178C GLU* 3.4 44.6 + - + -
179C LEU* 4.4 2.5 - - - -
181C VAL* 4.8 0.9 - - + +
214C GLU 3.8 0.3 - - - +
215C VAL* 3.3 5.1 - - - +
216C VAL* 2.9 41.7 + - + +
218C ARG* 3.5 42.1 + - + +
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Residues in contact with LYS 168 (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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120A LEU* 5.8 6.2 - - + +
167C TYR* 1.3 72.3 - - - +
169C ARG* 1.3 66.5 + - - +
170C THR* 3.9 13.8 + - + +
175C GLU 3.7 1.6 - - - +
176C GLU* 3.3 3.0 - - - -
177C LEU* 3.0 31.0 + - + +
179C LEU* 3.6 30.9 - - + +
207C VAL* 5.9 0.7 - - + -
208C HIS* 3.2 20.8 + - - +
209C LEU* 3.7 17.4 - - + +
210C GLU* 5.7 0.6 - - - +
213C GLU* 2.8 45.2 + - + -
214C GLU 3.3 11.2 - - - +
215C VAL* 4.6 1.6 - - + +
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Residues in contact with ARG 169 (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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111C PRO* 4.2 17.7 - - - +
130C ASP 5.3 4.0 + - - -
132C ALA* 5.0 5.5 - - - +
167C TYR 4.8 0.2 - - - -
168C LYS* 1.3 74.7 - - - +
170C THR* 1.3 61.1 + - - +
171C PRO* 4.6 0.7 - - - +
175C GLU 3.6 8.5 - - - +
176C GLU* 3.6 44.1 + - + -
213C GLU* 4.3 4.2 - - - -
214C GLU* 2.9 45.4 + - + +
216C VAL* 3.6 36.0 - - - +
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Residues in contact with THR 170 (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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168C LYS* 4.7 13.2 - - + +
169C ARG* 1.3 76.0 - - - +
171C PRO* 1.3 68.5 - - - +
172C ARG* 3.3 18.6 + - + +
173C TYR* 2.7 49.1 - - + +
174C PRO* 3.4 7.4 - - - +
175C GLU* 3.5 8.8 + - + +
177C LEU* 6.2 1.6 - - + +
213C GLU* 3.8 16.7 + - - -
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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