Contacts of the helix formed by residues 206 - 216 (chain C) in PDB entry 2UZ3
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 ASN 206 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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75A PRO* 3.2 43.5 + - - +
78A LEU* 3.3 22.3 - - - +
79A ASN* 3.1 29.4 - - - +
82A MET* 4.1 2.1 - - - +
204C ASN* 3.0 6.3 + - - +
205C SER* 1.3 80.7 + - - +
207C SER* 1.3 59.8 + - - +
208C GLU 3.6 1.3 - - - -
209C GLU* 3.4 23.0 - - - +
210C PHE* 3.1 27.2 + - - +
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Residues in contact with SER 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A LEU* 4.6 6.6 - - - +
107A GLU* 2.8 23.0 + - - +
111A ILE* 3.6 25.8 - - - +
202C TYR* 3.8 15.7 - - - -
204C ASN* 3.1 19.5 + - - +
205C SER 3.4 0.6 - - - -
206C ASN* 1.3 74.6 - - - +
208C GLU* 1.3 67.1 + - - +
210C PHE* 3.0 9.9 + - - +
211C ILE* 3.0 26.5 + - - +
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Residues in contact with GLU 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202C TYR* 3.5 42.8 - - + +
204C ASN 5.5 0.7 - - - +
205C SER 4.9 4.6 + - - +
206C ASN 3.6 0.2 - - - -
207C SER* 1.3 74.9 - - - +
209C GLU* 1.3 62.7 + - - +
211C ILE* 3.3 12.9 + - + +
212C LYS* 3.0 30.9 + - + +
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Residues in contact with GLU 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A ASN* 4.5 1.9 + - - -
82A MET* 3.8 25.7 - - - +
205C SER 5.1 2.6 + - - +
206C ASN* 3.4 24.0 + - - +
208C GLU* 1.3 77.8 - - - +
210C PHE* 1.3 57.3 + - - +
212C LYS* 3.3 8.1 + - + +
213C PHE* 2.9 32.8 + - + +
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Residues in contact with PHE 210 (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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78A LEU* 3.4 39.0 - - + -
81A ILE* 3.7 17.9 - - + -
82A MET* 3.8 26.6 - - + -
111A ILE* 3.7 21.8 - - + -
112A LEU* 4.2 13.9 - - + -
115A ASN* 3.7 26.9 - - + -
117A PHE* 4.5 3.6 - + - -
206C ASN 3.1 12.8 + - - +
207C SER 3.0 10.1 + - - +
209C GLU* 1.3 73.8 - - - +
211C ILE* 1.3 65.8 + - - +
213C PHE* 3.4 2.9 - - - +
214C PHE* 3.0 57.2 + + - +
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Residues in contact with ILE 211 (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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111A ILE* 4.5 10.1 - - + -
114A GLU* 5.5 2.0 - - - +
115A ASN* 4.5 25.4 - - - +
200C ARG* 4.6 7.0 - - - +
202C TYR* 3.6 38.4 - - + +
207C SER 3.0 13.4 + - - +
208C GLU* 3.3 10.5 + - - +
210C PHE* 1.3 78.0 - - - +
212C LYS* 1.3 58.0 + - + +
214C PHE* 3.5 1.6 + - - +
215C LYS* 3.0 36.9 + - + +
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Residues in contact with LYS 212 (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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208C GLU* 3.0 17.0 + - + +
209C GLU* 3.4 11.2 - - - +
211C ILE* 1.3 73.4 - - + +
213C PHE* 1.3 67.2 + - - +
214C PHE 3.0 1.4 + - - -
215C LYS* 3.0 35.9 + - - +
216C ASN* 3.2 17.9 + - - +
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Residues in contact with PHE 213 (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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81A ILE 4.5 4.3 - - - -
82A MET* 3.2 63.0 - - + -
209C GLU* 2.9 22.2 + - + +
210C PHE 3.4 7.4 - - - +
212C LYS* 1.3 72.0 - - - +
214C PHE* 1.3 73.2 + + - +
216C ASN* 3.1 31.1 - - - +
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Residues in contact with PHE 214 (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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81A ILE* 3.6 25.4 - - + -
86A PHE* 4.6 7.6 - + - -
88A ASP* 5.8 2.2 - - - -
115A ASN* 4.4 25.4 - - + +
117A PHE* 3.5 38.6 - + - -
210C PHE* 3.0 37.0 + + + +
211C ILE 4.2 2.2 - - - +
212C LYS 3.1 0.2 - - - -
213C PHE* 1.3 92.0 - + - +
215C LYS* 1.3 62.8 + - - +
216C ASN 3.0 8.9 + - - +
217C LYS* 3.4 16.1 - - - +
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Residues in contact with LYS 215 (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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115A ASN* 5.6 0.4 + - - -
211C ILE* 3.0 26.1 + - + +
212C LYS* 3.0 28.0 + - - +
214C PHE* 1.3 75.2 - - - +
216C ASN* 1.3 59.9 + - - +
217C LYS* 3.3 27.8 - - + +
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Residues in contact with ASN 216 (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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212C LYS* 3.2 17.2 + - - +
213C PHE* 3.1 21.0 - - - +
214C PHE* 3.0 7.4 - - - +
215C LYS* 1.3 75.8 - - - +
217C LYS* 1.3 61.4 + - - +
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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