Contacts of the helix formed by residues 159 - 180 (chain H) in PDB entry 3KC3
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 THR 159 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157H ALA* 3.5 10.7 + - + +
158H PHE* 1.3 76.9 - - - +
160H GLU* 1.3 66.1 + - - +
161H ARG* 3.9 4.0 + - - +
162H GLU* 2.9 40.4 + - - +
163H ALA* 3.2 9.9 + - - +
333H GLN* 3.0 49.8 + - + +
334H THR 3.1 7.9 - - - +
335H PRO* 4.3 5.4 - - + -
336H LEU* 3.9 4.1 - - - +
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Residues in contact with GLU 160 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159H THR* 1.3 69.2 - - - +
161H ARG* 1.3 61.9 + - - +
163H ALA* 3.3 6.0 - - - +
164H SER 3.2 16.1 + - - -
257H LEU* 4.9 5.6 - - + -
293H GLU 4.6 8.9 - - - +
294H VAL* 5.3 5.3 - - - +
295H SER* 5.0 9.9 + - - -
298H VAL* 3.7 14.5 - - - +
324H TRP* 3.4 27.6 + - + +
331H VAL* 3.8 12.9 - - + +
332H PRO* 3.6 24.6 - - - +
334H THR* 2.7 37.7 + - - +
336H LEU* 3.5 22.1 - - + +
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Residues in contact with ARG 161 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159H THR* 3.0 7.5 + - - +
160H GLU* 1.3 76.3 - - - +
162H GLU* 1.3 67.4 + - + +
164H SER* 3.0 12.6 + - - -
165H GLU* 3.0 28.8 + - - +
328H SER 3.5 20.2 - - - +
329H THR* 3.2 34.9 + - - +
330H LYS* 4.3 2.4 - - - +
331H VAL* 3.0 31.4 + - + -
332H PRO* 3.2 17.2 + - - +
333H GLN* 2.5 44.4 + - + +
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Residues in contact with GLU 162 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153H ARG* 3.2 24.9 + - - +
157H ALA 3.2 9.5 - - - +
158H PHE* 3.1 44.7 - - + -
159H THR* 2.9 21.0 + - - +
161H ARG* 1.3 78.2 - - + +
163H ALA* 1.3 61.7 + - - +
165H GLU* 3.3 16.9 + - - +
166H ILE* 3.0 32.8 + - + +
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Residues in contact with ALA 163 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158H PHE* 4.0 21.8 - - + -
159H THR 3.2 5.9 + - - +
160H GLU* 3.3 12.8 - - - +
162H GLU* 1.3 77.2 - - - +
164H SER* 1.3 58.9 + - - +
166H ILE* 3.7 4.6 - - - +
167H MET* 2.9 34.3 + - - +
256H LEU* 4.2 10.0 - - + +
257H LEU* 3.7 27.1 - - + -
324H TRP* 3.9 4.7 - - + -
336H LEU* 4.4 0.2 - - + -
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Residues in contact with SER 164 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H GLU 3.2 7.0 + - - -
161H ARG 3.0 10.3 + - - -
163H ALA* 1.3 75.0 - - - +
165H GLU* 1.3 57.7 + - - +
167H MET* 3.1 1.7 + - - +
168H LYS* 2.8 30.0 + - - +
324H TRP* 2.7 56.1 + - - -
325H ILE* 4.1 3.1 - - - +
328H SER* 3.2 17.1 + - - -
331H VAL* 4.1 10.3 - - - -
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Residues in contact with GLU 165 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161H ARG* 3.0 34.9 + - - +
162H GLU* 3.7 22.5 + - - +
163H ALA 3.3 0.2 - - - -
164H SER* 1.3 75.0 - - - +
166H ILE* 1.3 62.2 + - + +
168H LYS* 3.4 6.5 + - + +
169H SER* 3.1 21.5 + - - -
328H SER* 3.9 21.1 - - - -
329H THR* 4.4 14.5 + - - +
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Residues in contact with ILE 166 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146H LEU* 4.1 7.9 - - + -
150H ILE* 4.1 13.7 - - + -
153H ARG* 5.1 3.6 - - - +
158H PHE* 3.9 29.4 - - + -
162H GLU* 3.0 25.2 + - + +
163H ALA* 3.7 3.1 - - - +
165H GLU* 1.3 72.3 - - + +
167H MET* 1.3 62.1 + - - +
169H SER* 2.5 23.6 + - - -
170H ILE* 2.8 31.4 + - + +
194H TYR* 3.7 23.1 - - - +
203H LEU* 3.9 11.2 - - + -
256H LEU* 3.6 20.2 - - + -
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Residues in contact with MET 167 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163H ALA 2.9 20.9 + - - +
164H SER 3.6 3.6 - - - +
166H ILE* 1.3 76.6 - - - +
168H LYS* 1.3 57.7 - - - +
170H ILE* 3.3 13.8 + - + +
171H GLY* 2.8 25.1 + - - -
249H LEU* 4.6 8.9 - - + +
252H ILE* 3.2 28.5 - - + -
253H MET* 3.2 45.5 - - + +
256H LEU* 2.9 31.2 - - + -
319H PHE* 3.9 10.1 - - + -
324H TRP* 4.0 7.4 - - + -
325H ILE* 3.8 17.9 - - + -
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Residues in contact with LYS 168 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164H SER 2.8 16.8 + - - +
165H GLU* 3.6 7.2 - - + +
167H MET* 1.3 76.9 - - - +
169H SER* 1.3 58.8 + - - +
171H GLY* 2.9 15.4 + - - -
172H GLU* 3.0 39.3 + - + +
320H MET* 4.1 6.3 - - - +
325H ILE* 3.4 42.1 - - + +
326H MET* 4.2 12.3 - - - +
328H SER* 3.7 14.4 - - - +
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Residues in contact with SER 169 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116H HIS* 3.7 43.5 - - - +
165H GLU 3.1 9.4 + - - -
166H ILE* 2.5 28.1 + - - -
168H LYS* 1.3 77.0 - - - +
170H ILE* 1.3 64.2 + - - +
171H GLY 3.1 0.3 + - - -
172H GLU* 3.3 12.0 + - - +
173H ALA* 3.5 7.4 + - - +
203H LEU* 3.8 19.5 - - - +
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Residues in contact with ILE 170 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146H LEU* 4.5 2.2 - - + -
166H ILE* 2.8 39.2 + - + +
167H MET* 3.9 12.1 - - + +
169H SER* 1.3 71.5 + - - +
171H GLY* 1.3 62.1 + - - +
173H ALA* 3.3 8.0 + - + +
174H ILE* 3.1 24.9 + - + +
187H VAL* 4.6 11.2 - - + -
192H LEU* 3.8 38.4 - - + -
203H LEU* 4.0 9.9 - - + -
205H LEU* 6.0 0.7 - - + -
249H LEU* 3.8 23.8 - - + -
252H ILE* 3.8 27.8 - - + -
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Residues in contact with GLY 171 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167H MET 2.8 11.8 + - - -
168H LYS 2.9 7.4 + - - -
170H ILE* 1.3 76.2 - - - +
172H GLU* 1.3 49.3 + - - -
174H ILE* 2.9 6.6 + - - +
175H GLN* 2.7 34.7 + - - +
249H LEU* 4.9 2.8 - - - +
316H ILE* 3.9 5.8 - - - +
319H PHE* 4.4 5.6 - - - -
320H MET* 3.4 28.0 - - - -
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Residues in contact with GLU 172 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114H CYS* 4.3 5.5 - - - -
115H PRO* 4.9 5.5 - - - +
116H HIS* 3.0 36.6 + - + -
168H LYS* 3.0 36.0 + - + +
169H SER* 3.3 2.4 + - - +
171H GLY* 1.3 74.1 - - - +
173H ALA* 1.3 57.9 + - - +
175H GLN* 3.0 12.6 + - - +
176H TYR* 2.7 32.2 + - - +
320H MET* 4.5 8.2 - - - +
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Residues in contact with ALA 173 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114H CYS* 4.2 11.7 - - - -
116H HIS* 3.8 26.8 - - + +
117H ILE* 3.8 12.3 - - + +
169H SER 3.5 4.4 + - - +
170H ILE* 3.3 11.4 + - + +
171H GLY 3.2 0.4 - - - -
172H GLU* 1.3 77.8 - - - +
174H ILE* 1.3 66.0 + - - +
176H TYR* 4.0 0.2 - - - -
177H LEU* 3.1 28.5 + - - +
205H LEU* 4.2 18.2 - - + -
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Residues in contact with ILE 174 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170H ILE* 3.1 14.5 + - + +
171H GLY 2.9 6.9 + - - +
173H ALA* 1.3 81.7 - - + +
175H GLN* 1.3 57.0 + - - +
177H LEU* 3.5 8.5 + - + +
178H HIS* 2.8 61.6 + - + +
187H VAL* 3.9 28.5 - - + -
205H LEU* 3.9 15.7 - - + -
245H ASP* 4.0 8.5 - - + +
246H MET* 3.6 12.8 - - + -
249H LEU* 3.9 20.6 - - + -
316H ILE* 3.8 8.5 - - + -
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Residues in contact with GLN 175 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281F MET* 4.8 4.9 - - - +
283F GLN* 4.5 17.1 + - - +
171H GLY 2.7 20.0 + - - +
172H GLU* 3.0 11.2 + - - +
174H ILE* 1.3 71.7 - - - +
176H TYR* 1.3 58.8 + - - +
178H HIS* 3.8 0.5 - - - +
179H SER* 2.9 32.6 + - - -
316H ILE* 3.9 22.6 - - + +
317H THR* 4.6 15.8 + - - +
320H MET* 3.7 31.6 - - + +
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Residues in contact with TYR 176 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127G LEU* 5.6 1.0 - - - +
130G GLY* 4.1 16.7 - - - -
110H ARG 3.5 22.4 + - - -
111H ALA* 3.7 9.4 - - - -
113H GLN* 2.8 54.7 + - + +
114H CYS* 3.7 30.7 - - + -
117H ILE* 4.6 2.0 - - + -
172H GLU 2.7 19.0 + - - +
173H ALA 4.0 1.1 - - - +
175H GLN* 1.3 67.9 - - - +
177H LEU* 1.3 71.3 + - - +
179H SER* 2.8 25.8 + - - -
180H ILE* 3.2 32.1 + - + +
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Residues in contact with LEU 177 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111H ALA* 3.6 23.1 - - + -
117H ILE* 3.6 20.4 - - + -
173H ALA 3.1 17.9 + - - +
174H ILE* 3.6 9.0 - - + +
176H TYR* 1.3 82.1 - - + +
178H HIS* 1.3 65.7 + - + +
180H ILE* 3.0 9.5 + - + +
182H ILE* 3.0 43.8 + - + +
184H HIS* 3.6 38.6 - - + +
205H LEU* 4.4 7.9 - - + -
208H PHE* 3.9 17.5 - - + -
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Residues in contact with HIS 178 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281F MET* 3.3 17.8 - - + +
174H ILE* 2.8 28.0 + - + +
175H GLN 4.2 0.9 - - - +
177H LEU* 1.3 74.1 - - + +
179H SER* 1.3 61.5 + - - +
180H ILE 3.0 0.2 - - - -
181H ASN* 3.0 16.6 + - - +
182H ILE 3.3 18.6 - - - -
242H LYS* 3.4 48.0 + - + +
245H ASP* 2.9 25.3 + - + +
246H MET* 3.0 28.7 - - + -
316H ILE* 2.7 33.7 - - + +
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Residues in contact with SER 179 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277F THR* 3.4 30.8 + - - +
281F MET* 3.9 26.0 - - - -
283F GLN* 5.8 0.9 - - - -
129G ALA 5.6 0.3 - - - +
131G ARG* 5.4 1.7 + - - -
175H GLN* 2.9 18.8 + - - -
176H TYR* 2.8 25.2 + - - -
178H HIS* 1.3 76.4 - - - +
180H ILE* 1.3 66.1 + - - +
181H ASN* 3.4 3.5 - - - +
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Residues in contact with ILE 180 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129G ALA 4.5 2.9 - - - +
130G GLY* 3.3 34.3 - - - +
131G ARG* 5.8 2.2 - - - +
110H ARG* 3.5 37.7 + - + +
111H ALA* 4.2 1.3 - - - +
176H TYR* 3.2 41.7 + - + +
177H LEU* 3.0 10.3 + - - +
179H SER* 1.3 90.5 - - - +
181H ASN* 1.3 74.8 + - - +
182H ILE* 3.4 28.0 - - + -
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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) + - + + + + + -
------------------------------------------------------------
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