Contacts of the helix formed by residues 161 - 180 (chain K) in PDB entry 3A2C
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 161 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159K THR* 2.8 11.3 - - - +
160K GLU* 1.3 79.5 - - - +
162K GLU* 1.3 60.7 - - + +
163K ALA 3.4 0.2 - - - -
164K SER* 3.9 1.9 - - - -
165K GLU* 3.0 48.6 + - + +
328K SER* 4.5 1.5 + - - +
329K THR* 3.4 48.5 + - - +
331K VAL* 3.2 32.9 + - + -
332K PRO 3.7 8.0 + - - +
333K GLN* 2.9 43.6 + - + +
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Residues in contact with GLU 162 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153K ARG* 2.8 48.8 + - - -
157K ALA 3.9 3.6 - - - +
158K PHE* 3.4 21.4 - - + -
159K THR* 2.9 27.9 + - - +
161K ARG* 1.3 76.3 - - + +
163K ALA* 1.3 58.8 + - - +
165K GLU* 3.6 12.0 - - - +
166K ILE* 2.8 37.9 + - + +
333K GLN* 5.3 2.5 - - - +
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Residues in contact with ALA 163 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158K PHE* 3.6 20.0 - - + -
159K THR 3.0 7.6 + - - +
160K GLU* 3.7 14.4 - - - -
162K GLU* 1.3 77.2 - - - +
164K SER* 1.3 57.1 + - - +
166K ILE* 3.4 2.1 + - - +
167K MET* 3.0 34.3 + - + +
256K LEU* 3.8 9.1 - - + +
257K LEU* 3.3 33.9 - - + -
324K TRP* 3.8 4.3 - - + -
336K LEU* 4.1 0.4 - - + -
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Residues in contact with SER 164 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160K GLU 3.5 11.5 + - - -
161K ARG 3.7 4.6 + - - -
162K GLU 3.2 0.2 - - - -
163K ALA* 1.3 76.8 - - - +
165K GLU* 1.3 68.2 + - - +
167K MET* 3.5 1.4 + - - +
168K LYS* 3.0 20.8 + - - +
324K TRP* 2.4 58.9 + - - -
325K ILE* 3.8 3.8 - - - +
328K SER* 3.8 10.7 + - - -
331K VAL* 4.2 10.1 - - - +
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Residues in contact with GLU 165 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161K ARG* 3.0 43.4 + - - +
162K GLU* 3.3 11.7 + - - +
164K SER* 1.3 73.9 + - - +
166K ILE* 1.3 68.3 + - + +
168K LYS* 2.8 20.4 + - - +
169K SER* 2.8 13.1 + - - -
328K SER* 3.6 17.9 - - - +
329K THR* 5.7 2.3 + - - +
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Residues in contact with ILE 166 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146K LEU* 3.9 24.7 - - + -
150K ILE* 3.9 13.0 - - + -
158K PHE* 3.5 31.6 - - + -
162K GLU* 2.8 25.2 + - + +
163K ALA 3.5 3.1 - - - +
165K GLU* 1.3 73.2 - - + +
167K MET* 1.3 64.8 + - - +
169K SER* 2.8 25.7 - - - -
170K ILE* 2.9 15.4 + - + +
194K TYR* 4.4 13.0 - - - +
203K LEU* 4.4 5.4 - - + -
256K LEU* 3.5 19.3 - - + -
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Residues in contact with MET 167 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163K ALA 3.0 22.2 + - - +
164K SER 3.8 3.6 - - - +
166K ILE* 1.3 71.7 - - - +
168K LYS* 1.3 69.8 + - - +
170K ILE* 2.7 12.2 + - + +
171K GLY* 2.7 22.2 + - - -
249K LEU* 3.7 42.2 - - + +
252K ILE* 4.1 8.7 - - + -
253K MET* 3.2 51.4 - - + +
256K LEU* 3.4 24.5 - - + -
319K PHE* 4.1 6.9 - - + -
324K TRP* 4.1 4.5 - - + -
325K ILE* 3.8 7.4 - - + -
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Residues in contact with LYS 168 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164K SER 3.0 13.4 + - - +
165K GLU* 2.8 17.1 + - - +
167K MET* 1.3 70.3 - - - +
169K SER* 1.3 65.0 + - - +
171K GLY* 3.0 13.2 + - - +
172K GLU* 3.0 35.2 + - - +
319K PHE* 5.2 0.4 - - - -
320K MET* 4.0 7.3 - - + +
325K ILE* 3.4 38.7 + - + +
326K MET* 3.6 33.6 + - + +
328K SER* 4.7 11.0 - - - +
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Residues in contact with SER 169 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116K HIS* 2.9 47.1 + - - +
165K GLU 2.8 11.2 + - - -
166K ILE* 2.8 22.4 - - - -
168K LYS* 1.3 77.6 - - - +
170K ILE* 1.3 59.2 + - - +
172K GLU* 3.4 15.0 + - - +
173K ALA 3.7 1.4 + - - -
202K ILE* 5.0 0.2 - - - +
203K LEU* 4.3 18.1 + - - +
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Residues in contact with ILE 170 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116K HIS* 6.0 0.2 - - - -
146K LEU* 4.5 0.7 - - + -
166K ILE* 2.9 27.7 + - + +
167K MET* 2.7 20.3 + - + +
169K SER* 1.3 68.7 - - - +
171K GLY* 1.3 62.2 + - - +
172K GLU 3.0 2.5 - - - -
173K ALA* 3.0 20.2 + - + +
174K ILE* 3.2 15.3 + - + +
187K VAL* 4.7 6.7 - - + -
192K LEU* 3.4 41.7 - - + -
203K LEU* 4.3 15.3 - - + -
205K LEU* 5.9 0.9 - - + -
249K LEU* 3.6 26.0 - - + -
252K ILE* 4.2 17.7 - - + -
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Residues in contact with GLY 171 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167K MET 2.7 16.9 + - - -
168K LYS 3.0 3.6 + - - -
170K ILE* 1.3 73.7 - - - +
172K GLU* 1.3 55.9 + - - +
174K ILE 3.8 1.1 - - - -
175K GLN* 2.9 29.8 + - - +
249K LEU* 4.5 6.0 - - - +
316K ILE* 3.4 14.7 - - - +
319K PHE* 4.3 7.6 - - - -
320K MET* 3.4 20.8 - - - +
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Residues in contact with GLU 172 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114K CYS* 4.3 3.5 - - - -
115K PRO* 5.6 1.0 - - - +
116K HIS* 3.5 27.0 + - + -
168K LYS* 3.0 37.2 + - - +
169K SER* 3.5 8.7 - - - +
170K ILE 3.0 1.0 - - - -
171K GLY* 1.3 77.1 - - - +
173K ALA* 1.3 64.2 + - - +
175K GLN* 3.8 5.9 - - - +
176K TYR* 3.1 23.4 + - - +
320K MET* 3.2 21.2 - - + +
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Residues in contact with ALA 173 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114K CYS* 4.1 12.1 - - - -
116K HIS* 3.9 23.6 - - + +
117K ILE* 4.1 15.8 - - + +
169K SER 3.7 2.2 + - - +
170K ILE* 3.0 14.2 + - + +
172K GLU* 1.3 80.6 - - - +
174K ILE* 1.3 63.2 + - + +
176K TYR* 3.6 2.3 + - - +
177K LEU* 3.1 28.9 + - - +
205K LEU* 4.5 15.9 - - + -
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Residues in contact with ILE 174 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170K ILE* 3.2 15.3 + - + +
171K GLY 4.0 5.6 - - - +
173K ALA* 1.3 74.9 - - + +
175K GLN* 1.3 60.7 + - - +
177K LEU* 3.5 8.9 + - + -
178K HIS* 2.9 59.5 + - + +
187K VAL* 3.7 29.6 - - + -
205K LEU* 3.8 19.1 - - + -
245K ASP* 3.9 12.8 - - + +
246K MET* 4.5 3.6 - - - -
249K LEU* 4.0 20.6 - - + -
316K ILE* 4.0 15.5 - - + -
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Residues in contact with GLN 175 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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281J MET* 3.7 15.0 - - + +
283J GLN* 4.7 8.5 - - - +
171K GLY 2.9 18.3 + - - +
172K GLU* 3.8 7.2 - - - +
173K ALA 3.2 0.4 - - - -
174K ILE* 1.3 74.5 - - - +
176K TYR* 1.3 66.0 + - - +
178K HIS 3.4 0.2 + - - -
179K SER* 3.0 24.0 + - - -
316K ILE* 3.5 16.1 - - + +
317K THR* 4.2 18.2 + - - +
320K MET* 3.4 41.2 - - + +
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Residues in contact with TYR 176 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130I GLY* 5.5 2.1 + - - -
110K ARG 3.4 17.6 + - - -
111K ALA* 3.9 10.1 - - - -
113K GLN* 3.1 29.2 + - + -
114K CYS* 3.5 34.8 - - + -
117K ILE* 4.8 1.8 - - + -
172K GLU 3.1 16.6 + - - +
173K ALA 4.0 2.7 - - - +
175K GLN* 1.3 74.4 - - - +
177K LEU* 1.3 70.5 + - - +
179K SER* 2.9 24.8 + - - -
180K ILE* 3.1 46.7 + - + +
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Residues in contact with LEU 177 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111K ALA* 3.3 34.8 - - + -
117K ILE* 3.7 8.3 - - + -
173K ALA 3.1 19.1 + - - +
174K ILE* 3.6 10.3 - - + +
176K TYR* 1.3 81.4 - - + +
178K HIS* 1.3 63.3 + - + +
180K ILE* 3.1 9.1 + - + +
181K ASN 3.0 5.5 + - - -
182K ILE* 2.8 54.4 + - + +
184K HIS* 4.0 21.5 - - + +
205K LEU* 3.9 27.4 - - + -
208K PHE* 3.9 4.0 - - + -
245K ASP* 5.2 0.2 - - - +
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Residues in contact with HIS 178 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281J MET* 3.5 9.8 - - - +
174K ILE* 2.9 35.1 + - + +
175K GLN 4.0 1.1 - - - +
177K LEU* 1.3 78.6 - - + +
179K SER* 1.3 61.2 + - - +
181K ASN* 3.1 9.4 + - - -
182K ILE 3.3 16.2 - - - -
183K ALA* 4.2 0.2 - - - -
242K LYS* 3.2 74.3 + - + +
245K ASP* 2.6 25.9 + - + +
246K MET* 4.5 8.3 - - + -
316K ILE* 3.6 27.2 + - + +
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Residues in contact with SER 179 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129I ALA 5.3 1.6 - - - +
277J THR* 3.6 29.8 + - - +
281J MET* 3.5 25.0 - - - +
283J GLN* 5.0 3.8 - - - -
175K GLN* 3.0 16.4 + - - -
176K TYR* 2.9 22.8 + - - -
178K HIS* 1.3 78.1 - - - +
180K ILE* 1.3 66.2 + - - +
181K ASN* 3.3 5.6 + - - +
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Residues in contact with ILE 180 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129I ALA 5.1 2.2 - - - -
130I GLY* 3.7 31.8 - - - +
110K ARG* 3.6 33.9 + - + +
111K ALA* 4.2 2.0 - - - +
176K TYR* 3.1 56.0 + - + +
177K LEU* 3.2 13.7 - - - +
179K SER* 1.3 83.8 + - - +
181K ASN* 1.3 67.8 + - - +
182K ILE* 3.6 28.8 - - + +
213K GLU* 5.1 0.3 - - - +
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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