Contacts of the helix formed by residues 185 - 205 (chain C) in PDB entry 4K2S
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 SER 185 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154C VAL* 5.3 1.0 - - - +
157C ILE* 3.8 31.6 - - - +
184C TRP* 1.3 82.3 - - - +
186C THR* 1.3 64.0 + - - +
187C GLU* 3.7 8.3 + - - +
188C LYS* 3.2 28.9 + - - +
189C TYR* 3.3 19.8 + - - +
397C LEU* 5.6 0.4 - - - -
398C GLU* 4.0 15.0 + - - -
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Residues in contact with THR 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C TRP* 2.9 29.9 + - - +
185C SER* 1.3 71.9 + - - +
187C GLU* 1.3 72.3 + - - +
189C TYR* 3.1 4.2 + - - +
190C LEU* 2.9 41.1 + - + +
217C ARG 3.5 12.1 + - - -
218C LEU* 3.7 9.8 - - + +
222C GLU* 3.5 35.4 + - - +
397C LEU* 5.3 3.6 - - - +
403C TRP* 4.5 5.0 + - - -
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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
----------------------------------------------------------
185C SER* 3.3 6.1 + - - +
186C THR* 1.3 91.5 + - + +
188C LYS* 1.3 63.0 + - + +
190C LEU* 3.5 9.3 + - + +
191C ASN* 3.3 31.2 + - - +
222C GLU* 4.5 10.7 - - - +
225C ARG* 4.9 5.2 + - - +
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Residues in contact with LYS 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154C VAL* 3.7 15.5 - - + +
155C PRO 4.0 13.2 - - - +
156C GLY* 4.6 11.0 - - - -
157C ILE* 3.9 21.8 - - + -
185C SER* 3.2 21.6 + - - +
187C GLU* 1.3 75.1 - - + +
189C TYR* 1.3 66.4 + - - +
191C ASN* 3.5 7.1 + - - +
192C HIS* 3.2 23.9 + - - +
398C GLU* 4.7 10.6 + - - -
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Residues in contact with TYR 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C GLN* 6.0 0.2 - - - -
154C VAL* 3.8 24.3 - - + +
160C THR* 5.0 2.7 - - - -
184C TRP* 3.3 41.7 - + + -
185C SER 3.3 5.1 + - - +
186C THR 3.1 6.4 + - - +
188C LYS* 1.3 79.0 - - - +
190C LEU* 1.3 62.1 + - + +
192C HIS* 3.1 0.6 + + - -
193C ALA* 2.9 47.2 + - + +
212C HIS* 2.7 40.9 + + - -
213C ASP 5.8 0.2 - - - -
214C VAL* 3.8 16.8 - - + +
218C LEU* 4.2 23.6 - - + -
226C LEU* 3.7 24.8 - - + +
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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
----------------------------------------------------------
186C THR* 2.9 37.2 + - + +
187C GLU* 3.9 6.7 - - + +
188C LYS 3.4 0.2 - - - -
189C TYR* 1.3 82.7 - - + +
191C ASN* 1.3 57.4 + - - +
194C PRO* 3.2 25.6 - - - +
218C LEU* 3.8 19.5 - - + -
222C GLU* 3.9 26.9 - - + +
225C ARG* 3.6 44.0 + - - +
226C LEU* 3.9 32.9 - - + +
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Residues in contact with ASN 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C GLU* 3.3 19.3 + - - +
188C LYS* 4.0 5.9 - - - +
189C TYR 3.2 0.6 - - - -
190C LEU* 1.3 77.8 - - - +
192C HIS* 1.3 61.4 + - + +
194C PRO* 4.1 6.0 - - - +
195C LYS* 3.5 25.4 - - - +
225C ARG* 2.9 22.7 + - - +
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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
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129C THR* 6.2 0.4 - - - -
130C ILE* 3.8 29.2 + - + +
152C SER* 3.8 15.6 + - - -
153C GLY 3.2 27.3 + - - -
154C VAL* 4.2 8.5 - - + -
155C PRO* 3.6 32.2 - - + +
188C LYS 3.2 15.5 + - - +
189C TYR* 3.1 3.5 + - - +
191C ASN* 1.3 79.3 - - - +
193C ALA* 1.3 69.1 + - - +
194C PRO 3.3 1.1 - - - -
195C LYS* 2.9 38.5 + - + +
196C LEU* 3.6 3.8 + - + -
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Residues in contact with ALA 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189C TYR* 2.9 44.9 + - + +
192C HIS* 1.3 79.9 - - - +
194C PRO* 1.3 67.9 - - + +
196C LEU* 3.0 20.8 + - - +
197C PHE* 3.3 26.5 - - + -
212C HIS* 4.7 2.2 - - + +
226C LEU* 4.2 11.4 - - + -
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Residues in contact with PRO 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C LEU 3.2 23.3 - - - +
191C ASN 4.1 5.4 - - - +
192C HIS 3.5 3.4 - - - -
193C ALA* 1.3 92.1 - - + +
195C LYS* 1.3 56.8 + - + +
197C PHE* 3.3 11.2 + - + -
198C ALA* 3.0 28.6 + - - +
226C LEU* 4.2 4.5 - - + -
229C ALA* 4.0 27.8 - - + +
230C VAL* 4.2 11.7 - - + -
233C TYR* 3.6 16.1 - - + +
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Residues in contact with LYS 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C ILE* 3.8 15.7 - - + +
191C ASN* 3.5 25.8 + - - +
192C HIS* 2.9 25.4 + - + +
194C PRO* 1.3 75.5 - - + +
196C LEU* 1.3 63.3 + - - +
198C ALA* 3.8 7.2 - - - +
199C ALA* 3.1 23.4 + - - +
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Residues in contact with LEU 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C ILE* 3.8 26.5 - - + +
133C CYS* 4.2 21.3 - - + -
134C LEU* 5.1 0.2 - - + -
150C VAL* 3.8 30.1 - - + +
151C GLN* 3.9 0.7 - - - -
152C SER* 3.8 40.8 - - - +
192C HIS* 3.6 3.5 + - + +
193C ALA* 3.0 15.7 + - - +
195C LYS* 1.3 79.2 - - - +
197C PHE* 1.3 70.7 + - + +
199C ALA* 3.2 3.6 + - - +
200C VAL* 3.0 38.5 + - + +
212C HIS* 4.8 3.8 - - + +
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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
----------------------------------------------------------
150C VAL* 3.7 26.7 - - + -
193C ALA* 3.3 28.7 - - + -
194C PRO* 3.3 3.4 + - + +
196C LEU* 1.3 80.0 - - + +
198C ALA* 1.3 65.1 + - - +
200C VAL* 3.3 7.5 + - - +
201C ARG* 3.0 28.6 + - - +
210C VAL* 4.6 1.6 - - + -
212C HIS* 3.3 53.6 - + + -
226C LEU* 5.0 1.8 - - + -
230C VAL* 3.5 35.2 - - + -
233C TYR* 3.7 23.8 - - + -
235C LEU* 4.1 19.7 - - + -
238C LEU* 5.3 0.9 - - + -
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Residues in contact with ALA 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194C PRO 3.0 17.6 + - - +
195C LYS* 3.8 9.2 - - - +
197C PHE* 1.3 78.2 - - - +
199C ALA* 1.3 56.3 + - - +
201C ARG* 3.4 2.3 + - - +
202C GLU* 3.0 28.8 + - - +
233C TYR* 3.6 31.7 - - + +
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Residues in contact with ALA 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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130C ILE* 3.6 24.9 - - + -
134C LEU* 4.0 13.5 - - + +
195C LYS 3.1 18.3 + - - +
196C LEU 3.6 4.3 - - - +
198C ALA* 1.3 74.2 - - - +
200C VAL* 1.3 66.9 + - - +
202C GLU* 3.4 7.3 + - - +
203C ARG* 3.1 25.6 + - - +
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Residues in contact with VAL 200 (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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134C LEU* 3.7 22.0 - - + -
137C VAL* 4.7 3.1 - - + -
150C VAL* 4.2 24.2 - - + -
196C LEU* 3.0 30.8 + - + +
197C PHE* 3.3 8.9 + - - +
199C ALA* 1.3 76.6 - - - +
201C ARG* 1.3 58.1 + - + +
204C PHE* 2.8 43.0 + - + +
205C GLY 4.0 0.8 + - - +
208C LEU* 4.4 9.6 - - + -
210C VAL* 3.8 31.6 - - + -
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Residues in contact with ARG 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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197C PHE 3.0 19.8 + - - +
198C ALA 3.8 4.3 - - - +
200C VAL* 1.3 77.5 - - + +
202C GLU* 1.3 59.8 + - - +
205C GLY* 2.9 51.9 + - - -
206C ASP* 3.6 27.6 + - - +
208C LEU* 2.8 30.9 + - - +
209C HIS* 4.9 0.4 - - - +
210C VAL* 3.8 26.6 - - - +
232C PRO 5.4 0.9 - - - +
233C TYR* 2.9 37.5 + - + -
234C HIS* 3.0 29.8 + - - +
235C LEU* 5.8 0.2 - - - +
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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
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198C ALA 3.0 18.5 + - - +
199C ALA* 3.8 8.6 - - - +
200C VAL 3.3 0.4 - - - -
201C ARG* 1.3 78.3 - - - +
203C ARG* 1.3 69.4 + - - +
205C GLY 4.7 0.7 + - - -
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Residues in contact with ARG 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131C GLU* 3.0 37.6 + - - -
134C LEU* 3.3 31.6 - - + +
135C GLY* 4.8 1.0 - - - +
138C ALA* 6.0 0.7 - - - -
199C ALA 3.1 16.3 + - - +
202C GLU* 1.3 88.0 + - - +
204C PHE* 1.3 91.1 + - + +
205C GLY 3.7 0.4 - - - -
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Residues in contact with PHE 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C LEU* 3.2 38.6 - - + -
137C VAL* 3.4 26.5 - - + -
138C ALA* 3.4 33.2 - - + -
141C VAL* 4.6 11.0 - - + -
200C VAL* 2.8 27.8 + - + +
203C ARG* 1.3 98.7 - - + +
205C GLY* 1.3 65.3 + - - +
207C ASP* 4.9 2.3 + - - +
208C LEU* 4.0 23.7 + - + +
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Residues in contact with GLY 205 (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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200C VAL* 4.7 0.5 - - - +
201C ARG* 2.9 42.2 + - - -
202C GLU 4.6 0.6 + - - -
203C ARG 3.7 1.0 - - - -
204C PHE* 1.3 83.5 - - - +
206C ASP* 1.3 65.6 + - - -
207C ASP 3.6 0.4 + - - -
208C LEU* 4.6 1.0 + - - +
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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) + - + + + + + -
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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