Contacts of the strand formed by residues 173 - 180 (chain C) in PDB entry 1HWG
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 GLU 173 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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172C LEU* 1.3 73.7 - - - +
174C TYR* 1.3 61.0 + - - +
191C PRO* 3.7 28.0 - - + +
192C ILE 3.2 9.2 - - - +
193C LEU* 3.5 18.4 - - + -
214C SER* 3.6 1.6 - - - -
215C LYS* 2.9 53.2 + - + +
216C GLN 4.8 0.4 - - - +
217C ARG* 2.9 39.9 + - - +
218C ASN 4.4 3.6 + - - -
222C TYR* 3.9 10.7 + - - +
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Residues in contact with TYR 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C PRO* 3.7 18.6 - - + -
157C TRP* 3.5 34.8 - + + +
159C ALA* 3.2 31.2 - - + +
160C PRO* 4.7 0.9 - - + -
171C VAL 5.6 0.2 - - - -
172C LEU* 3.5 30.5 - - + +
173C GLU* 1.3 75.3 - - - +
175C GLU* 1.3 61.3 + - - +
176C LEU 4.3 0.2 + - - -
190C ASP 4.3 0.3 - - - +
191C PRO* 3.1 5.3 - - - +
192C ILE* 2.7 42.2 + - - +
193C LEU 4.2 7.0 - - - -
194C THR 3.5 18.2 - - - -
195C THR* 3.8 20.4 - - + +
212C VAL* 4.1 4.5 - - + -
213C ARG 3.4 6.7 - - - +
214C SER* 3.6 26.9 - - - -
222C TYR* 4.9 0.4 - - - -
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Residues in contact with GLU 175 (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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174C TYR* 1.3 74.8 - - - +
176C LEU* 1.3 66.4 + - - +
177C GLN* 3.0 29.6 + - + -
188C MET* 3.4 21.4 - - - +
189C MET 3.6 17.3 - - - +
190C ASP 5.1 0.4 - - - -
191C PRO* 4.6 9.2 - - + +
212C VAL* 3.3 4.1 - - - -
213C ARG* 2.9 51.4 + - + +
222C TYR* 3.1 39.9 + - + +
225C PHE* 4.9 1.2 - - - -
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Residues in contact with LEU 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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155C VAL* 3.9 21.1 - - + -
157C TRP* 3.8 18.6 - - + -
174C TYR 4.2 0.8 + - - -
175C GLU* 1.3 75.4 - - - +
177C GLN* 1.3 98.4 + - - +
178C TYR* 4.3 8.7 - - + +
189C MET* 2.9 47.3 + - + +
190C ASP 5.4 0.4 + - - -
192C ILE* 6.1 1.7 - - + +
197C VAL* 3.3 34.1 - - + -
199C VAL* 4.5 4.7 - - + -
210C VAL* 3.3 20.0 - - + -
211C ARG 3.6 5.2 - - - +
212C VAL* 3.9 8.3 - - + -
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Residues in contact with GLN 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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175C GLU* 3.0 24.8 + - + +
176C LEU* 1.3 89.1 - - - +
178C TYR* 1.3 63.0 + - - +
186C TRP* 3.4 19.6 - - + +
187C LYS 3.0 8.3 - - - +
188C MET* 3.6 31.5 - - + +
211C ARG* 2.7 61.2 + - - +
213C ARG* 4.3 4.8 - - - +
225C PHE* 3.6 23.2 - - + -
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Residues in contact with TYR 178 (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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176C LEU* 4.4 9.0 - - + -
177C GLN* 1.3 77.4 - - - +
179C LYS* 1.3 65.6 + - - +
186C TRP* 3.4 5.3 - - - -
187C LYS* 2.7 68.5 + - + +
188C MET 5.0 0.4 - - - -
189C MET* 4.1 24.2 - - + -
199C VAL* 3.9 31.8 - - + +
200C TYR 4.9 5.0 + - - -
202C LEU* 4.3 13.9 - - + -
208C TYR* 4.7 9.4 - + + -
209C GLU 3.2 14.8 - - - +
210C VAL* 3.9 15.0 - - + -
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Residues in contact with LYS 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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178C TYR* 1.3 87.4 - - - +
180C GLU* 1.3 64.0 + - - +
181C VAL 3.1 11.9 + - - -
183C GLU* 2.9 34.8 + - - +
184C THR 4.5 2.9 - - - -
185C LYS 3.0 29.4 - - - +
186C TRP* 3.4 39.3 - - + +
187C LYS* 4.3 2.5 - - + +
208C TYR* 3.4 8.9 - - - -
209C GLU* 2.5 59.2 + - + +
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Residues in contact with GLU 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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179C LYS* 1.3 78.3 - - - +
181C VAL* 1.3 67.1 + - - +
182C ASN* 4.2 14.0 - - + +
183C GLU* 3.0 43.3 + - + +
203C LYS* 4.0 10.0 + - - -
206C LYS* 2.8 48.4 + - + +
207C GLU 3.6 8.3 - - - +
208C TYR* 4.0 18.1 + - + -
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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