Contacts of the helix formed by residues 195 - 208 (chain C) in PDB entry 2PWZ
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 THR 195 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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194C PHE* 1.3 76.3 - - - +
196C GLU* 1.3 56.5 + - - +
197C GLN* 3.3 23.8 - - + +
198C GLU* 3.0 32.8 + - + +
199C VAL* 2.8 33.7 + - - +
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Residues in contact with GLU 196 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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194C PHE 4.0 0.8 + - - +
195C THR* 1.3 69.2 - - - +
197C GLN* 1.3 60.5 + - - +
199C VAL* 3.4 9.7 + - + +
200C ALA* 2.9 30.4 + - - +
287C PHE* 5.5 2.5 - - + -
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Residues in contact with GLN 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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195C THR* 3.3 13.2 - - + +
196C GLU* 1.3 77.2 - - - +
198C GLU* 1.3 56.6 + - + +
200C ALA* 3.3 8.5 + - - +
201C ASP* 2.9 70.4 + - - +
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Residues in contact with GLU 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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161C LEU* 4.0 32.9 - - + +
162C LYS* 3.2 29.5 + - - -
194C PHE* 3.6 6.8 - - + -
195C THR* 3.0 41.0 + - + +
197C GLN* 1.3 74.0 - - + +
199C VAL* 1.3 57.7 + - - +
201C ASP* 4.5 5.2 - - - -
202C LEU* 2.8 40.9 + - - +
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Residues in contact with VAL 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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186C LEU* 3.9 21.7 - - + +
187C SER 6.0 0.7 - - - +
194C PHE* 3.6 22.0 - - + +
195C THR 2.8 24.8 + - - +
196C GLU* 3.6 9.0 - - + +
198C GLU* 1.3 73.0 - - - +
200C ALA* 1.3 56.9 + - - +
203C THR* 2.7 39.5 + - - +
287C PHE* 3.4 42.4 - - + -
288C GLU* 6.1 1.8 - - + +
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Residues in contact with ALA 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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196C GLU 2.9 17.3 + - - +
197C GLN* 3.7 12.6 - - - +
199C VAL* 1.3 75.6 - - - +
201C ASP* 1.3 61.6 + - - +
203C THR* 4.0 1.0 - - - -
204C LYS* 3.1 30.0 + - - +
287C PHE* 4.3 19.7 - - + -
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Residues in contact with ASP 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 GLN* 2.9 50.1 + - - +
198C GLU* 3.9 4.8 - - - +
200C ALA* 1.3 76.6 - - - +
202C LEU* 1.3 59.6 + - - +
204C LYS* 3.5 3.9 + - - +
205C ARG* 2.9 30.0 + - - +
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Residues in contact with LEU 202 (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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157C PHE* 3.5 40.2 - - + +
158C VAL* 3.8 17.7 - - + -
161C LEU* 3.9 18.8 - - + -
186C LEU* 3.8 16.8 - - + -
194C PHE* 3.6 34.1 - - + -
198C GLU 2.8 20.6 + - - +
201C ASP* 1.3 70.8 - - - +
203C THR* 1.3 60.3 + - - +
205C ARG* 3.3 7.4 + - + +
206C ILE* 2.9 40.4 + - + +
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Residues in contact with THR 203 (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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183C LEU* 5.5 3.5 - - + +
184C PRO* 4.3 24.9 + - + +
186C LEU* 3.8 11.6 - - - +
199C VAL* 2.7 24.6 + - - +
200C ALA 4.0 3.4 - - - -
201C ASP 3.3 0.2 - - - -
202C LEU* 1.3 77.3 - - - +
204C LYS* 1.3 57.4 + - - +
206C ILE* 3.3 2.1 + - - +
207C GLN* 2.9 58.6 + - + +
287C PHE* 3.7 28.5 - - + -
291C ALA* 5.9 1.6 - - + -
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Residues in contact with LYS 204 (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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200C ALA 3.1 19.6 + - - +
201C ASP* 4.0 4.7 - - - +
203C THR* 1.3 72.4 - - - +
205C ARG* 1.3 66.2 + - - +
207C GLN* 3.4 12.5 + - - +
208C ASN* 2.7 54.0 + - - +
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Residues in contact with ARG 205 (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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47A SER* 5.5 1.6 + - - -
48A HIS* 4.4 1.8 + - - -
157C PHE* 3.3 48.2 - - + +
160C GLU* 3.7 18.0 + - - -
201C ASP 2.9 18.8 + - - +
202C LEU* 3.7 8.9 - - - +
204C LYS* 1.3 76.2 - - - +
206C ILE* 1.3 63.3 + - - +
208C ASN* 3.3 3.8 + - - -
209C ALA* 3.0 24.9 + - - +
212C GLU* 2.8 41.1 + - - +
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Residues in contact with ILE 206 (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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150C ASP* 4.1 14.0 - - - +
153C ARG* 4.9 6.6 + - + -
154C SER* 3.3 39.3 - - - +
157C PHE* 3.6 25.8 - - + -
173C VAL* 5.5 0.2 - - + -
182C ILE* 4.1 26.9 - - + +
184C PRO* 3.6 25.8 - - + -
186C LEU* 4.4 11.7 - - + -
202C LEU* 2.9 29.5 + - + +
203C THR 3.7 3.6 - - - +
205C ARG* 1.3 77.4 - - - +
207C GLN* 1.3 61.2 + - - +
208C ASN 3.3 0.7 + - - -
209C ALA* 3.4 12.7 + - - +
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Residues in contact with GLN 207 (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 GLY* 3.2 39.0 + - - +
180C VAL* 3.5 31.3 + - - +
182C ILE* 2.9 36.4 + - + +
183C LEU* 5.2 0.8 - - - +
184C PRO* 5.3 0.4 - - + -
203C THR* 2.9 39.8 + - + +
204C LYS* 3.9 16.1 - - - +
206C ILE* 1.3 76.1 - - + +
208C ASN* 1.3 67.6 + - - +
209C ALA 3.5 0.2 - - - -
210C GLY 5.3 0.7 + - - -
291C ALA* 5.8 5.3 - - - +
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Residues in contact with ASN 208 (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 GLY* 5.4 3.1 - - - -
204C LYS* 2.7 59.9 + - - +
205C ARG* 3.5 4.3 - - - +
207C GLN* 1.3 86.2 - - - +
209C ALA* 1.3 61.7 + - - +
210C GLY 3.3 2.9 - - - -
211C THR* 3.2 19.7 + - - -
212C GLU* 3.1 18.5 + - - +
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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