Contacts of the helix formed by residues 183 - 204 (chain C) in PDB entry 1SHZ
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 ARG 183 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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55C ARG* 3.7 19.0 - - - +
178C TRP* 5.4 0.7 - - - -
180C GLY 4.8 0.9 + - - -
181C ARG 3.7 5.0 + - - +
182C ASP* 1.3 68.5 + - - +
184C ALA* 1.3 58.3 + - + +
185C SER 2.9 4.0 - - - -
186C TYR* 2.8 59.8 + - - +
187C GLU* 3.0 44.3 + - - +
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Residues in contact with ALA 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C ASP* 3.7 6.6 + - - +
183C ARG* 1.3 79.4 - - + +
185C SER* 1.3 59.5 + - - +
187C GLU* 3.8 18.6 + - - +
188C ALA* 3.4 18.0 + - - +
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Residues in contact with SER 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C TRP* 4.2 13.1 - - - -
182C ASP* 3.1 38.4 + - - -
183C ARG 2.8 1.0 + - - -
184C ALA* 1.3 76.7 - - - +
186C TYR* 1.3 65.1 + - - +
188C ALA* 3.0 20.4 - - - +
189C ARG* 3.4 6.8 + - - +
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Residues in contact with TYR 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ARG* 4.4 8.1 - - - -
58C HIS* 4.4 10.7 + - - -
175C LEU* 3.2 43.5 + - + +
176C GLU* 5.3 1.3 - - - +
178C TRP* 3.7 46.2 - + + -
183C ARG* 2.8 34.2 + - - +
185C SER* 1.3 74.6 - - - +
187C GLU* 1.3 66.6 + - - +
188C ALA 2.8 4.9 + - - -
189C ARG* 2.8 21.4 + - - +
190C GLU* 3.2 44.0 + - + +
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Residues in contact with GLU 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ARG* 4.6 8.4 + - - +
183C ARG* 3.0 53.6 + - - +
184C ALA* 3.9 16.2 - - - +
186C TYR* 1.3 75.5 - - - +
188C ALA* 1.3 61.5 + - - +
190C GLU* 3.2 27.6 + - - +
191C ARG* 3.2 23.9 + - + +
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Residues in contact with ALA 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C ALA 3.4 12.0 + - - +
185C SER* 3.0 21.3 + - - +
186C TYR 2.8 0.8 + - - -
187C GLU* 1.3 80.8 - - - +
189C ARG* 1.3 59.2 + - - +
191C ARG* 3.4 35.3 + - - +
192C HIS* 3.1 21.7 + - + +
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Residues in contact with ARG 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C GLN* 3.9 20.2 + - - +
175C LEU* 3.1 29.6 - - - +
178C TRP* 3.5 42.2 - - - +
185C SER 3.4 5.1 + - - +
186C TYR* 2.8 14.7 + - - +
188C ALA* 1.3 73.7 - - - +
190C GLU* 1.3 66.3 + - - +
192C HIS* 3.1 18.0 + - + +
193C VAL* 2.9 32.7 + - + +
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Residues in contact with GLU 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ARG* 3.0 42.0 + - - +
56C PRO* 3.8 25.6 - - + +
57C ALA* 4.3 5.5 - - + +
58C HIS* 4.5 3.5 - - - -
175C LEU* 4.0 21.1 - - + +
186C TYR* 3.2 47.7 + - + +
187C GLU* 3.2 19.1 + - - +
189C ARG* 1.3 76.3 - - - +
191C ARG* 1.3 56.8 + - - +
193C VAL* 3.0 9.5 + - - +
194C ALA* 2.8 30.1 + - - +
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Residues in contact with ARG 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C PRO* 4.9 6.5 - - + -
187C GLU* 3.2 14.5 - - + +
188C ALA* 3.5 31.7 + - - +
190C GLU* 1.3 77.4 - - + +
192C HIS* 1.3 61.6 + - - +
194C ALA* 3.5 7.8 + - - +
195C GLU* 3.1 32.4 + - - +
229C LEU 4.7 6.3 - - - +
230C GLY* 4.0 29.5 + - - +
231C VAL* 4.5 6.6 - - + +
232C ARG* 2.7 52.1 - - - +
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Residues in contact with HIS 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C ALA* 3.1 28.1 + - + +
189C ARG* 3.1 22.3 + - + +
191C ARG* 1.3 78.9 + - - +
193C VAL* 1.3 67.1 + - + +
195C GLU* 3.2 19.1 + - - +
196C ARG* 3.0 28.3 + - - +
232C ARG* 3.9 26.7 - - - -
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Residues in contact with VAL 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C ALA* 4.3 13.2 - - + -
171C GLU* 4.5 21.5 - - + +
172C LEU* 6.3 1.3 - - + -
175C LEU* 4.1 23.6 - - + -
189C ARG* 2.9 27.3 + - + +
190C GLU* 3.4 5.4 - - - +
192C HIS* 1.3 73.9 - - + +
194C ALA* 1.3 66.7 + - - +
196C ARG* 2.9 15.7 + - + +
197C LEU* 2.9 39.6 + - + +
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Residues in contact with ALA 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C PRO* 4.1 24.0 - - + +
57C ALA* 4.6 4.0 - - - +
60C MET* 4.1 14.3 - - + +
190C GLU 2.8 16.1 + - - +
191C ARG 3.6 6.7 - - - +
193C VAL* 1.3 76.0 - - - +
195C GLU* 1.3 52.6 + - - +
197C LEU* 3.7 2.3 - - - +
198C LEU* 2.7 38.8 + - - +
226C MET* 4.7 0.7 - - - -
231C VAL* 3.8 22.9 - - + -
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Residues in contact with GLU 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C ARG 3.1 18.1 + - - +
192C HIS* 3.3 19.4 + - - +
193C VAL 3.1 0.6 - - - -
194C ALA* 1.3 77.6 - - - +
196C ARG* 1.3 64.0 + - + +
198C LEU* 3.7 2.3 - - - +
199C MET* 3.0 44.9 + - + +
231C VAL* 3.8 21.3 - - + +
232C ARG* 2.7 61.8 + - - +
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Residues in contact with ARG 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C GLU* 5.5 14.1 - - - +
192C HIS* 3.0 15.5 + - - +
193C VAL* 2.9 17.5 + - + +
195C GLU* 1.3 78.5 - - + +
197C LEU* 1.3 62.3 + - + +
199C MET* 3.4 15.6 + - + +
200C HIS* 3.0 29.8 + - - +
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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
----------------------------------------------------------
57C ALA* 4.2 10.5 - - + +
60C MET* 3.8 28.5 - - + -
61C ALA 5.0 0.7 - - - +
168C TRP* 3.4 57.8 + - + +
171C GLU* 4.2 13.7 - - + +
172C LEU* 5.3 4.5 - - + -
193C VAL* 2.9 35.7 + - + +
194C ALA* 3.8 3.4 - - - +
196C ARG* 1.3 78.2 - - + +
198C LEU* 1.3 60.2 + - - +
200C HIS* 3.0 6.4 + - + +
201C LEU* 2.8 33.6 + - - +
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Residues in contact with LEU 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C MET* 3.5 17.4 - - + +
194C ALA 2.7 22.5 + - - +
195C GLU* 3.7 4.5 - - - +
197C LEU* 1.3 72.3 - - - +
199C MET* 1.3 62.1 + - + +
201C LEU* 3.6 5.8 + - + +
202C GLU* 3.2 32.5 + - - +
219C VAL* 5.1 7.2 - - + +
222C ILE* 4.2 25.4 - - + -
223C GLY* 5.0 9.6 - - - +
226C MET* 4.2 14.4 - - + -
231C VAL* 3.7 26.7 - - + -
232C ARG 4.7 2.9 - - - +
233C THR* 4.1 17.5 - - + +
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Residues in contact with MET 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195C GLU* 3.0 44.9 + - + +
196C ARG* 3.6 16.2 - - + +
198C LEU* 1.3 76.8 - - + +
200C HIS* 1.3 63.2 + - - +
201C LEU 3.0 1.6 - - - -
202C GLU* 2.8 24.7 + - - +
203C GLU* 2.9 36.0 + - + +
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Residues in contact with HIS 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168C TRP* 3.5 38.9 - + + -
196C ARG* 3.0 19.7 + - - +
197C LEU* 3.0 9.6 + - + +
199C MET* 1.3 76.8 - - - +
201C LEU* 1.3 60.5 + - - +
202C GLU 3.6 0.2 + - - -
203C GLU* 4.7 7.5 - - - +
204C MET* 3.6 48.2 + - + +
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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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60C MET* 3.7 22.2 - - + -
63C LEU 4.7 2.7 - - - +
64C GLN* 3.5 49.4 - - + +
67C ALA* 5.5 4.7 - - + -
68C LEU* 6.4 2.5 - - + -
168C TRP* 5.8 1.8 - - - +
197C LEU 2.8 15.4 + - - +
198C LEU* 3.9 8.3 - - + +
200C HIS* 1.3 76.2 - - - +
202C GLU* 1.3 61.4 + - - +
204C MET 3.2 16.9 - - - +
205C GLN* 3.4 13.9 - - + +
208C ILE* 5.3 8.5 - - + -
218C VAL* 6.1 0.2 - - + -
219C VAL* 5.2 10.3 - - + -
222C ILE* 4.8 16.8 - - + -
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Residues in contact with GLU 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C LEU* 3.2 25.1 + - - +
199C MET* 2.8 14.0 + - - +
201C LEU* 1.3 77.6 - - - +
203C GLU* 1.3 70.6 + - + +
204C MET 3.0 1.7 + - - -
205C GLN* 3.0 23.7 + - - +
219C VAL* 3.7 34.5 - - + +
233C THR* 5.5 8.1 - - - +
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Residues in contact with GLU 203 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199C MET* 2.9 32.8 + - + +
200C HIS* 4.7 5.6 - - - +
202C GLU* 1.3 75.6 - - + +
204C MET* 1.3 72.0 + - + +
205C GLN* 4.5 0.9 + - - -
206C HIS* 3.5 18.9 + - - -
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Residues in contact with MET 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A GLU* 6.6 0.2 - - - -
280A TRP* 5.8 9.4 - - + -
68C LEU* 6.1 0.2 - - - +
200C HIS* 3.6 41.6 + - + +
201C LEU* 3.2 12.5 - - - +
202C GLU 3.1 1.3 - - - -
203C GLU* 1.3 90.3 - - + +
205C GLN* 1.3 59.8 + - - +
206C HIS* 3.7 16.6 - - + +
207C THR* 6.0 0.2 - - - -
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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