Contacts of the helix formed by residues 182 - 203 (chain C) in PDB entry 2NS8
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 182 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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87C ARG* 4.1 4.9 - - - +
148C ASP* 3.2 36.8 - - - +
181C GLY* 1.3 73.2 - - - -
183C GLU* 1.3 63.9 + - - +
184C PRO 3.5 0.7 - - - -
185C ALA* 3.4 9.9 + - + +
186C PHE* 3.1 20.1 + - - +
5G ALA* 3.9 11.9 - - + +
6G TYR* 3.6 22.8 + - + +
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Residues in contact with GLU 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C ARG* 3.5 30.4 + - - +
180C GLN 5.2 0.9 - - - +
181C GLY 3.5 0.2 - - - -
182C ALA* 1.3 75.7 - - - +
184C PRO* 1.3 70.9 - - + +
186C PHE* 2.9 5.8 + - + +
187C LEU* 2.8 58.7 + - + +
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Residues in contact with PRO 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C GLN* 3.5 37.7 - - + +
181C GLY 3.8 3.4 - - - +
182C ALA 3.6 2.7 - - - -
183C GLU* 1.3 95.2 - - + +
185C ALA* 1.3 59.8 + - - +
187C LEU* 4.1 7.7 - - + +
188C HIS* 3.1 27.2 + - - +
132D TYR* 3.5 23.8 - - + +
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Residues in contact with ALA 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C PHE* 4.6 1.4 - - - -
177C PHE* 5.1 10.1 - - + -
181C GLY 5.0 1.5 + - - +
182C ALA* 3.4 14.9 + - + +
183C GLU 3.1 0.2 - - - -
184C PRO* 1.3 80.2 - - - +
186C PHE* 1.3 58.3 + - - +
188C HIS* 3.8 1.6 - - - +
189C GLY* 2.9 27.5 + - - -
132D TYR* 3.6 32.3 - - + +
135D SER* 4.2 20.1 + - - +
136D ALA* 5.8 0.3 - - - +
3G TRP 5.9 0.2 - - - +
5G ALA* 5.9 1.1 - - + +
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Residues in contact with PHE 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C ALA* 3.9 15.7 - - + -
84C LYS* 4.1 14.4 - - + -
87C ARG* 3.6 35.2 - - - +
140C PHE* 3.4 37.2 - + - -
141C THR* 3.6 39.9 - - + -
144C SER* 4.1 17.3 - - - -
182C ALA 3.1 10.4 + - - +
183C GLU* 2.9 9.3 + - + +
185C ALA* 1.3 79.3 - - - +
187C LEU* 1.3 80.5 + - + +
189C GLY 3.2 0.9 + - - -
190C LEU* 2.8 35.3 + - + +
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Residues in contact with LEU 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C LYS* 3.6 32.8 - - + +
183C GLU* 2.8 44.4 + - - +
184C PRO* 4.1 7.0 - - + +
186C PHE* 1.3 90.5 - - + +
188C HIS* 1.3 56.5 + - - +
190C LEU* 3.3 9.8 - - + +
191C GLU* 3.0 33.3 + - + +
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Residues in contact with HIS 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C PRO 3.1 18.9 + - - +
185C ALA 3.9 1.8 - - - +
187C LEU* 1.3 73.1 - - - +
189C GLY* 1.3 65.7 + - - +
191C GLU* 3.2 7.3 + - - +
192C SER* 3.0 22.2 + - - -
129D ASN* 3.3 33.9 + - - +
132D TYR* 3.3 40.4 - + + -
133D ALA 5.4 0.2 - - - -
197D PHE* 6.0 1.5 - + - -
200D GLN* 3.0 50.4 + - + +
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Residues in contact with GLY 189 (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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140C PHE* 3.7 17.3 - - - -
185C ALA 2.9 16.2 + - - -
186C PHE 3.6 3.1 - - - -
188C HIS* 1.3 75.8 - - - +
190C LEU* 1.3 61.1 + - - +
192C SER* 3.2 9.0 + - - -
193C LEU* 3.2 25.1 + - - +
132D TYR* 5.0 2.4 - - - +
136D ALA* 4.2 17.7 - - - -
193D LEU* 4.1 1.9 - - - +
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Residues in contact with LEU 190 (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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79C LEU 4.8 2.2 - - - +
80C ARG* 3.9 33.2 - - + +
83C ALA* 3.6 34.1 - - + -
84C LYS* 4.3 6.5 - - + -
137C VAL* 4.0 20.4 - - + -
140C PHE* 3.7 10.7 - - + -
186C PHE* 2.8 31.5 + - + +
187C LEU* 3.3 15.7 - - + +
189C GLY* 1.3 75.9 - - - +
191C GLU* 1.3 64.6 + - - +
193C LEU* 3.1 9.1 + - + +
194C ILE* 3.1 28.0 + - + +
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Residues in contact with GLU 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C ARG* 2.7 49.1 + - - +
187C LEU* 3.0 22.2 + - + +
188C HIS* 3.2 11.4 + - + +
190C LEU* 1.3 74.5 - - - +
192C SER* 1.3 65.7 + - - +
194C ILE* 3.1 6.2 + - - +
195C ARG* 2.9 41.4 + - + +
200D GLN* 3.5 15.5 - - - +
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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 HIS* 3.0 11.1 + - - -
189C GLY* 3.2 10.7 + - - -
191C GLU* 1.3 74.2 - - - +
193C LEU* 1.3 63.3 + - - +
195C ARG 3.2 0.2 + - - -
196C GLY 2.9 18.5 + - - -
192D SER 3.8 2.7 - - - +
193D LEU* 4.1 9.0 - - - -
196D GLY* 3.1 12.7 - - - -
197D PHE* 3.2 39.2 - - - -
200D GLN* 2.8 31.6 + - - -
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Residues in contact with LEU 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ALA* 3.8 31.9 - - + +
137C VAL* 3.9 19.3 - - + +
140C PHE* 4.0 24.9 - - + -
189C GLY 3.2 13.9 + - - +
190C LEU* 3.1 11.5 + - + +
192C SER* 1.3 75.9 - - - +
194C ILE* 1.3 57.0 + - + +
196C GLY* 3.2 2.4 + - - -
197C PHE* 2.9 52.2 + - + -
140D PHE* 6.0 1.8 - - + -
189D GLY 4.4 4.3 - - - +
192D SER* 4.5 4.9 - - - -
193D LEU* 3.3 37.0 - - + +
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Residues in contact with ILE 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C TRP* 4.6 2.9 - - + -
76C GLN* 3.4 56.5 - - + +
79C LEU* 3.7 27.4 - - + -
80C ARG* 4.3 26.9 - - + +
137C VAL* 5.6 1.6 - - + -
190C LEU* 3.1 20.3 + - + +
191C GLU* 3.1 8.7 + - - +
193C LEU* 1.3 76.9 - - - +
195C ARG* 1.3 66.5 + - - +
197C PHE* 3.1 11.5 + - + +
198C GLU* 2.9 27.4 + - - +
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Residues in contact with ARG 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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76C GLN* 5.2 0.6 - - - +
80C ARG* 3.8 19.1 - - - +
191C GLU* 2.9 32.5 + - - +
192C SER 3.8 3.6 - - - +
194C ILE* 1.3 78.7 - - - +
196C GLY* 1.3 57.1 + - - +
198C GLU* 3.0 44.7 + - - +
199C VAL* 2.8 31.8 + - - +
196D GLY* 3.9 7.2 - - - +
199D VAL* 3.7 37.8 - - + +
200D GLN* 3.2 30.3 - - - +
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Residues in contact with GLY 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 10.9 + - - -
193C LEU 3.5 2.9 - - - -
195C ARG* 1.3 74.2 - - - +
197C PHE* 1.3 66.9 + - - +
199C VAL* 3.3 10.3 + - - +
200C GLN* 3.2 19.8 + - - +
207C ILE* 4.8 2.3 - - - +
192D SER* 3.2 33.8 + - - -
195D ARG* 4.3 0.9 - - - -
196D GLY* 3.6 6.8 - - - -
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Residues in contact with PHE 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C TRP* 3.8 16.4 - + + -
79C LEU* 4.0 18.2 - - + -
125C PHE* 3.6 14.7 - + + -
132C TYR 4.9 0.4 - - - -
133C ALA* 3.4 47.6 - - + -
136C ALA* 4.1 9.4 - - + -
137C VAL* 3.6 21.3 - - + -
193C LEU* 2.9 42.5 + - + -
194C ILE* 3.1 14.8 + - + +
196C GLY* 1.3 71.1 - - - +
198C GLU* 1.3 61.2 - - - +
200C GLN* 3.1 8.9 + - - +
201C LEU 2.9 23.7 + - - -
188D HIS* 5.7 3.4 - + - -
192D SER* 4.0 22.7 - - - -
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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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75C TRP* 3.7 19.3 - - + -
76C GLN* 2.9 24.2 + - - +
194C ILE* 2.9 16.7 + - - +
195C ARG* 3.1 50.6 + - - +
197C PHE* 1.3 75.3 - - - +
199C VAL* 1.3 57.8 + - + +
201C LEU* 3.0 9.8 + - + +
202C THR* 2.7 39.0 + - + +
199D VAL* 5.8 0.5 - - - +
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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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195C ARG 2.8 17.8 + - - +
196C GLY 3.4 9.4 - - - +
197C PHE 3.2 0.4 - - - -
198C GLU* 1.3 77.8 - - + +
200C GLN* 1.3 57.5 + - - +
202C THR* 3.2 6.6 + - - -
203C ALA* 2.9 28.5 + - + +
207C ILE* 4.8 7.6 - - + -
195D ARG* 3.7 53.4 - - + +
199D VAL* 3.7 26.5 - - + -
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Residues in contact with GLN 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C PHE* 4.7 8.5 - - + -
129C ASN* 2.9 33.3 + - + +
196C GLY 3.2 9.2 + - - +
197C PHE* 3.1 12.1 + - - +
199C VAL* 1.3 74.8 - - - +
201C LEU* 1.3 68.5 + - - +
202C THR 3.1 0.6 + - - -
203C ALA* 3.3 13.0 + - - +
205C LEU 3.1 19.2 - - - +
206C GLN* 2.8 45.0 + - - +
207C ILE* 3.8 9.6 - - + -
188D HIS* 3.1 22.6 - - + +
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Residues in contact with LEU 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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75C TRP* 4.0 27.6 - - + +
123C GLN 3.8 16.4 - - - +
124C GLY* 3.8 31.0 - - - +
125C PHE* 3.8 28.0 - - + +
197C PHE 2.9 9.8 + - - +
198C GLU* 3.0 12.3 + - + +
200C GLN* 1.3 77.6 - - - +
202C THR* 1.3 66.1 + - + +
203C ALA 3.7 3.8 + - - +
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Residues in contact with THR 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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198C GLU* 2.7 25.1 + - + +
199C VAL* 3.2 11.6 + - - -
201C LEU* 1.3 81.8 - - + +
203C ALA* 1.3 59.4 + - - +
204C LEU* 3.9 3.6 + - - +
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Residues in contact with ALA 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199C VAL* 2.9 26.5 + - + +
200C GLN* 3.3 15.9 + - - +
201C LEU 4.0 3.3 - - - +
202C THR* 1.3 74.2 - - - +
204C LEU* 1.3 63.8 + - - +
205C LEU* 3.3 24.0 + - + +
207C ILE* 4.7 10.5 - - + -
195D ARG* 6.0 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
------------------------------------------------------------
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