Contacts of the strand formed by residues 191 - 199 (chain C) in PDB entry 3QS1
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 GLN 191 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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184C LEU* 3.1 26.5 - - - +
185C ASN* 2.8 35.4 + - - +
186C HIS* 3.2 28.2 + - - +
188C LEU* 4.0 13.5 - - - +
189C TYR* 2.6 44.8 + - + +
190C TRP* 1.3 73.2 - - - +
192C VAL* 1.3 60.4 + - - +
211C THR* 4.9 10.0 + - - +
212C ALA 3.5 7.2 - - - +
213C ILE* 4.1 20.1 - - + +
298C THR* 5.9 2.2 - - - +
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Residues in contact with VAL 192 (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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182C GLU* 3.8 33.4 - - + +
183C LYS 3.5 26.9 - - - +
185C ASN* 3.1 7.0 - - - -
190C TRP 5.1 0.7 - - - +
191C GLN* 1.3 75.9 - - - +
193C ASP* 1.3 74.6 + - - +
194C LEU* 3.9 16.2 - - + -
211C THR* 3.3 3.1 - - - -
212C ALA* 2.8 36.5 + - + +
214C VAL* 6.2 2.5 - - + -
320C VAL* 4.2 17.5 - - + -
322C PHE* 5.6 6.1 - - + -
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Residues in contact with ASP 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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182C GLU* 5.4 1.6 - - - +
183C LYS 4.5 5.3 + - - +
185C ASN* 3.2 28.0 + - + +
192C VAL* 1.3 83.6 - - - +
194C LEU* 1.3 61.8 + - - +
209C LYS* 3.2 49.0 - - + +
210C ALA 3.1 14.9 - - - +
211C THR* 4.3 5.5 - - - +
262C SER* 4.7 8.1 - - - -
296C LYS* 5.6 0.7 - - - -
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Residues in contact with LEU 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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182C GLU* 5.8 0.7 - - + -
192C VAL* 3.9 13.2 - - + -
193C ASP* 1.3 78.1 + - - +
195C ASP* 1.3 63.5 + - - +
197C LEU* 3.3 9.0 + - + +
209C LYS* 4.1 1.7 - - - +
210C ALA* 2.7 42.5 + - - +
212C ALA* 3.8 25.8 - - + -
260C PHE* 4.0 30.5 - - + +
261C ARG 3.0 35.4 - - - +
262C SER* 4.1 8.3 - - - +
267C TYR* 5.1 7.9 - - + -
301C LEU* 4.4 7.0 - - + -
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Residues in contact with ASP 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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194C LEU* 1.3 68.2 - - - +
197C LEU* 1.3 61.9 + - - +
198C HIS 3.7 1.2 + - - -
208C GLU* 3.5 18.9 - - - +
209C LYS* 2.7 34.2 + - - +
260C PHE* 3.9 2.3 - - - -
261C ARG* 2.9 70.0 + - + +
262C SER* 5.0 2.1 - - - +
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Residues in contact with LEU 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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194C LEU* 3.3 12.7 + - + +
195C ASP* 1.3 71.5 - - - +
198C HIS* 1.3 61.4 - - - +
199C PHE* 4.3 16.8 - - + +
205C LEU 3.9 0.7 - - - +
206C THR* 3.0 6.1 - - - -
207C VAL* 2.9 44.4 + - + +
208C GLU* 4.8 0.4 - - - +
210C ALA* 3.8 11.9 - - + -
212C ALA* 4.8 5.2 - - + -
227C PHE* 5.1 2.0 - - + -
259C GLU 3.8 1.3 - - - -
260C PHE* 3.5 33.9 - - + -
261C ARG* 4.2 2.1 - - - +
299C PHE* 3.4 57.0 - - + -
301C LEU* 6.1 0.2 - - + -
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Residues in contact with HIS 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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195C ASP 3.7 0.6 + - - -
197C LEU* 1.3 72.0 - - - +
199C PHE* 1.3 70.1 + - - +
201C GLY 3.3 13.3 + - - -
203C ASN* 2.9 25.1 + - - -
205C LEU 3.7 0.9 - - - -
206C THR* 3.1 21.0 - - + +
258C LEU* 3.9 0.5 - - - +
259C GLU* 2.5 65.6 + - + +
260C PHE* 5.3 0.2 - - - -
261C ARG* 2.7 39.2 + - - +
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Residues in contact with PHE 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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197C LEU* 4.3 15.9 - - + -
198C HIS* 1.3 83.6 - - - +
201C GLY* 1.3 62.3 + - - +
203C ASN 3.0 2.3 + - - -
205C LEU 3.1 16.2 + - - +
221C ILE* 6.3 1.8 - - + -
227C PHE* 3.9 24.7 - + + -
228C LEU* 5.0 9.9 - - + -
231C PHE* 2.7 74.0 - + + -
232C PHE* 5.5 1.3 - + - -
256C PRO* 4.7 0.4 - - + -
257C THR 4.8 2.2 - - - -
258C LEU* 3.2 49.6 - - + -
259C GLU* 4.6 2.4 + - - +
260C PHE* 5.4 1.8 - + - -
274C TYR* 5.6 1.1 - + - -
286C ILE* 4.2 19.1 - - + -
299C PHE* 5.4 4.3 - + - -
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Residues in contact with GLY 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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198C HIS* 3.3 19.9 + - - -
199C PHE* 1.3 67.3 - - - +
203C ASN* 1.3 63.6 - - - -
231C PHE* 3.4 14.7 - - - -
256C PRO* 4.1 21.1 - - - +
257C THR 4.4 3.6 + - - -
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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