Contacts of the helix formed by residues 191 - 199 (chain C) in PDB entry 2C10
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 ALA 191 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187C GLU 4.1 0.4 + - - -
188C LEU 3.0 10.7 + - - +
190C GLN* 1.3 76.4 - - - +
192C SER* 1.3 65.3 + - - +
194C LEU* 3.0 16.0 + - + -
195C LEU* 3.0 30.5 + - + +
245C LEU* 6.2 0.4 - - + -
274C LEU* 4.1 33.4 - - + +
277C LEU* 5.1 1.1 - - + -
278C GLU* 3.2 18.8 - - + +
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Residues in contact with SER 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C LEU 3.4 5.0 + - - -
189C PRO* 3.1 22.6 + - - -
190C GLN 3.4 1.4 + - - -
191C ALA* 1.3 75.6 - - - +
193C GLY* 1.3 58.1 + - - +
195C LEU* 3.9 1.1 - - - +
196C HIS* 2.9 54.1 + - - -
201C TYR* 3.8 14.8 - - - -
203C HIS* 6.0 1.0 - - - +
278C GLU* 4.4 0.4 - - - +
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Residues in contact with GLY 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C ALA 3.1 1.2 + - - -
192C SER* 1.3 78.9 - - - +
194C LEU* 1.3 61.1 + - - +
196C HIS* 3.5 7.7 - - - +
197C HIS* 3.3 21.5 + - - +
278C GLU* 3.3 16.8 + - - -
281C PHE* 3.6 10.8 - - - -
282C GLU* 5.1 1.1 - - - -
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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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191C ALA* 3.0 8.5 + - + +
193C GLY* 1.3 71.9 - - - +
195C LEU* 1.3 67.6 + - + +
197C HIS* 2.9 5.5 + - - +
198C CYS* 2.9 29.3 + - - +
245C LEU* 5.8 1.1 - - + -
266C TYR* 3.9 31.0 - - + +
277C LEU* 3.8 35.0 - - + -
278C GLU* 3.0 19.0 + - - +
281C PHE* 3.6 39.9 - - + -
286C VAL* 4.6 2.9 - - + -
288C VAL* 3.6 21.3 - - + -
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Residues in contact with LEU 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C LEU* 3.5 51.4 - - + +
191C ALA* 3.0 20.0 + - + +
194C LEU* 1.3 80.6 - - + +
196C HIS* 1.3 58.0 + - - +
198C CYS* 3.7 16.2 - - - -
199C CYS* 2.9 36.7 + - + -
201C TYR* 3.4 40.6 + - + +
208C LEU* 4.5 9.6 - - + -
243C VAL* 5.4 1.1 - - + -
245C LEU* 4.1 23.3 - - + -
266C TYR* 5.8 0.7 - - + -
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Residues in contact with HIS 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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192C SER* 2.9 42.4 + - - +
193C GLY* 3.5 8.2 - - - +
195C LEU* 1.3 78.3 - - - +
197C HIS* 1.3 58.6 + - - +
200C PHE* 4.2 10.4 + - - -
201C TYR* 3.1 37.9 + + - +
202C LYS* 4.4 12.9 - - - +
203C HIS* 4.5 14.7 + - + -
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Residues in contact with HIS 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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193C GLY 3.3 10.3 + - - +
194C LEU 2.9 9.4 + - - +
196C HIS* 1.3 80.9 - - - +
198C CYS* 1.3 59.9 + - - +
200C PHE 5.3 0.2 - - - -
281C PHE* 3.7 26.0 - + + -
288C VAL* 4.0 27.0 + - + +
290C LEU* 3.5 24.2 - - + +
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Residues in contact with CYS 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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194C LEU* 2.9 19.5 + - + +
195C LEU* 3.7 12.8 - - - -
197C HIS* 1.3 77.7 - - - +
199C CYS* 1.3 101.3 - - - +
200C PHE* 3.8 6.8 - - - -
231C TYR* 3.2 11.8 + - - -
266C TYR* 3.3 30.3 - - - +
267C GLN* 5.2 0.9 - - - +
288C VAL* 3.6 16.6 - - + -
289C VAL 4.9 3.4 - - - +
290C LEU* 4.3 6.4 - - - +
291C ILE* 4.0 13.9 + - - +
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Residues in contact with CYS 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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195C LEU* 2.9 20.5 + - + +
198C CYS* 1.3 121.9 - - - +
200C PHE* 1.3 62.0 + - - +
201C TYR* 3.0 3.6 + - + +
207C ASN* 2.7 31.4 + - - -
208C LEU* 4.1 7.7 - - + +
231C TYR* 3.4 14.4 - - + +
243C VAL* 3.9 37.7 - - + -
266C TYR* 5.2 0.2 - - - -
291C ILE* 6.1 1.6 - - - -
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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