Contacts of the helix formed by residues 192 - 201 (chain C) in PDB entry 2ZU6
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 PHE 192 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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417B LEU 3.8 5.8 - - - -
418B ASP 3.4 25.4 - - - -
420B PRO* 3.5 22.7 - - + -
108C PRO 3.6 22.0 - - - -
158C THR* 4.1 5.4 - - - -
159C PRO* 3.4 40.6 - - + -
160C GLY* 3.5 20.9 - - - -
187C MET* 3.0 33.2 + - + +
188C LEU 3.7 0.8 + - - -
190C ARG* 3.9 17.7 - - + -
191C GLY* 1.3 77.1 - - - +
193C LYS* 1.3 69.1 + - - +
194C ASP 3.5 1.8 - - - -
195C GLN* 3.2 14.2 + - - +
196C ILE* 3.1 22.3 + - + +
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Residues in contact with LYS 193 (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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188C LEU* 3.7 28.6 - - + +
191C GLY* 3.4 4.5 - - - -
192C PHE* 1.3 77.8 - - - +
194C ASP* 1.3 77.7 + - - +
196C ILE* 2.9 13.4 + - - +
197C TYR* 3.2 35.1 + - + -
219C ASP* 4.0 19.9 + - - +
222C GLU* 4.0 21.7 + - - -
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Residues in contact with ASP 194 (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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191C GLY 5.2 1.8 + - - -
192C PHE 3.5 0.4 - - - -
193C LYS* 1.3 82.8 - - - +
195C GLN* 1.3 64.1 + - - +
197C TYR* 2.9 12.6 + - - +
198C ASP* 2.8 45.1 + - - +
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Residues in contact with GLN 195 (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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416B ASN 5.8 1.0 + - - -
417B LEU* 5.0 3.2 + - - +
420B PRO* 5.2 5.9 - - - +
159C PRO* 3.7 20.6 - - + +
160C GLY* 3.9 24.8 - - - -
163C PHE* 4.3 16.4 - - + -
191C GLY 4.0 12.9 - - - +
192C PHE* 3.2 18.6 + - - +
194C ASP* 1.3 89.6 - - - +
196C ILE* 1.3 57.0 + - - +
198C ASP* 3.9 7.9 - - - +
199C ILE* 3.0 34.9 + - - +
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Residues in contact with ILE 196 (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* 4.5 11.4 - - + -
159C PRO* 4.1 15.3 - - + -
179C PHE* 4.6 1.8 - - + -
181C LEU* 3.5 30.1 - - + -
187C MET* 4.3 14.4 - - + -
188C LEU* 3.9 26.9 - - + -
192C PHE* 3.2 32.5 - - + +
193C LYS* 2.9 8.3 + - - +
195C GLN* 1.3 76.2 - - - +
197C TYR* 1.3 68.3 + - + +
199C ILE* 3.5 6.5 + - - +
200C PHE* 3.4 15.1 + - - +
223C VAL* 5.2 8.5 - - + -
227C PHE* 3.6 17.7 - - + -
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Residues in contact with TYR 197 (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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188C LEU* 6.1 0.4 - - + -
193C LYS* 3.2 47.7 + - + -
194C ASP* 2.9 8.4 + - - +
196C ILE* 1.3 77.4 - - + +
198C ASP* 1.3 68.8 + - - +
200C PHE* 3.2 4.9 + - - +
201C GLN* 3.2 38.1 + - - +
219C ASP 4.6 0.2 + - - -
222C GLU* 3.7 21.7 + - - +
223C VAL* 3.1 36.8 - - + +
226C LYS* 4.8 10.9 - - + +
227C PHE* 3.3 32.4 - + - -
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Residues in contact with ASP 198 (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 PHE* 3.7 33.1 - - + -
194C ASP* 2.8 32.2 + - - +
195C GLN* 3.9 6.5 - - - +
197C TYR* 1.3 76.0 - - - +
199C ILE* 1.3 62.0 + - - +
200C PHE 3.3 0.9 + - - -
201C GLN* 3.4 27.8 + - - +
202C LYS* 3.4 16.5 + - - +
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Residues in contact with ILE 199 (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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104C LEU* 3.7 25.8 - - + -
106C LEU* 4.4 7.6 - - + -
159C PRO* 3.3 32.3 - - + +
162C VAL* 3.8 11.9 - - + -
163C PHE* 3.5 24.2 - - + +
166C LEU* 3.9 18.1 - - + +
179C PHE* 3.8 18.8 - - + -
195C GLN 3.0 19.9 + - - +
196C ILE* 3.9 3.1 - - - +
197C TYR 3.2 0.4 - - - -
198C ASP* 1.3 76.6 - - - +
200C PHE* 1.3 61.8 + - - +
202C LYS* 3.3 18.0 - - - +
203C LEU* 3.8 10.9 + - + +
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Residues in contact with PHE 200 (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 PHE* 4.0 14.4 - + + -
196C ILE 3.4 2.6 + - - +
197C TYR 3.2 3.6 + - - +
199C ILE* 1.3 77.4 - - - +
201C GLN* 1.3 58.9 + - + +
202C LYS 2.6 5.9 + - - -
203C LEU* 2.6 38.8 + - + +
204C ASN 4.5 9.4 - - - -
205C SER* 5.0 11.4 - - - -
207C THR* 4.1 16.8 - - - -
209C VAL* 3.7 23.6 - - + -
226C LYS 5.4 2.2 - - - -
227C PHE* 3.2 69.1 - + + -
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Residues in contact with GLN 201 (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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197C TYR* 3.2 27.8 + - - +
198C ASP* 3.4 22.6 + - - +
200C PHE* 1.3 80.1 - - + +
202C LYS* 1.3 57.7 + - - +
203C LEU 3.5 1.6 - - - -
227C PHE* 6.1 1.3 - - + -
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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