Contacts of the helix formed by residues 179 - 197 (chain B) in PDB entry 3C6G
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 PHE 179 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B PHE* 4.0 6.5 - + - -
169B ILE* 3.3 39.0 - - + -
177B PHE* 3.3 34.3 + + - -
178B ASP* 1.3 73.3 + - - +
180B LYS* 1.3 64.3 + - - +
181B GLN 3.4 0.7 - - - -
182B LEU* 3.2 7.2 + - + +
183B ILE* 3.0 43.2 + - + +
320B ARG* 5.5 1.6 - - + +
323B ILE* 3.6 26.7 - - + -
465B LEU* 4.0 13.9 - - + -
471B LEU* 4.5 4.3 - - + -
494B TYR* 4.7 10.9 + - + +
496B ILE* 3.3 38.1 - - + -
498B ALA* 4.4 7.2 - - + -
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Residues in contact with LYS 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178B ASP* 3.1 18.8 + - - +
179B PHE* 1.3 76.7 - - - +
181B GLN* 1.3 60.2 + - - +
183B ILE* 3.4 2.2 + - - +
184B THR* 2.7 41.3 + - - +
215B SER* 5.1 9.3 + - - -
313B GLU* 5.5 3.1 - - - -
316B THR* 4.4 2.3 - - + +
317B ASN* 6.0 0.2 - - - -
320B ARG* 3.7 40.2 - - - +
484B ARG* 6.2 0.2 - - - +
490B GLN* 3.0 28.0 + - - +
493B PRO* 6.4 2.0 - - + +
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Residues in contact with GLN 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178B ASP 4.3 5.3 + - - +
179B PHE 3.4 1.0 - - - -
180B LYS* 1.3 80.0 - - - +
182B LEU* 1.3 59.5 + - + +
184B THR* 3.4 11.1 - - - +
185B ASN* 2.8 62.4 + - - +
208B GLN* 3.5 39.0 + - - +
212B GLU* 6.0 2.8 - - - +
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Residues in contact with LEU 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B PHE* 3.7 16.6 - - + +
168B ALA* 3.6 38.4 - - + -
169B ILE* 4.2 14.4 - - + -
172B TYR* 4.4 9.0 - - + -
177B PHE* 3.9 27.4 - - + -
178B ASP 5.2 0.6 + - - +
179B PHE* 3.2 9.1 + - + +
181B GLN* 1.3 80.1 - - + +
183B ILE* 1.3 57.5 + - - +
185B ASN* 3.3 10.3 + - - +
186B ALA* 2.9 30.8 + - - +
202B TYR* 3.8 23.8 + - + -
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Residues in contact with ILE 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B PHE* 3.7 26.5 - - + -
179B PHE* 3.0 39.0 + - + +
180B LYS 3.9 2.7 - - - +
182B LEU* 1.3 74.8 - - - +
184B THR* 1.3 57.8 - - - +
186B ALA* 3.4 1.4 + - - +
187B VAL* 2.9 30.9 + - + +
316B THR* 3.6 31.2 - - + +
319B LEU* 4.0 21.8 - - + -
320B ARG* 3.7 22.0 - - + +
323B ILE* 3.5 22.4 - - + -
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Residues in contact with THR 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B LYS* 2.7 31.9 + - - +
181B GLN* 3.4 12.2 - - - +
183B ILE* 1.3 75.0 - - - +
185B ASN* 1.3 68.5 + - - +
187B VAL* 4.1 0.5 - - - +
188B SER* 2.8 31.9 + - - +
208B GLN* 5.9 1.6 - - + -
211B ILE* 3.7 21.3 - - + -
312B THR* 3.5 23.0 - - + +
316B THR* 3.7 20.3 - - - +
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Residues in contact with ASN 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B GLN* 2.8 46.7 + - - +
182B LEU* 3.5 13.2 - - - +
184B THR* 1.3 76.9 - - - +
186B ALA* 1.3 63.5 + - - +
188B SER* 3.0 17.6 + - - -
189B ASN* 3.2 17.5 + - - +
202B TYR* 3.6 42.0 + - + +
208B GLN* 3.4 32.7 + - - +
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Residues in contact with ALA 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161B GLU* 3.5 20.8 - - + +
165B PHE* 3.9 11.4 - - + -
182B LEU 2.9 17.4 + - - +
183B ILE* 3.8 3.4 - - - +
185B ASN* 1.3 76.5 - - - +
187B VAL* 1.3 64.3 + - + +
189B ASN* 3.2 16.8 + - - +
190B ILE* 3.5 4.9 + - - +
202B TYR* 3.6 14.3 - - - +
461B PHE* 3.7 28.5 - - + -
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Residues in contact with VAL 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B ILE* 2.9 28.8 + - + +
184B THR 4.1 0.2 - - - +
186B ALA* 1.3 75.0 - - + +
188B SER* 1.3 63.8 + - - +
190B ILE* 3.1 12.0 + - - +
191B THR* 3.6 6.1 + - - +
311B GLY 3.8 12.3 - - - +
312B THR* 4.0 9.6 - - - -
315B THR* 3.6 29.6 - - + -
316B THR* 3.9 10.3 - - - +
319B LEU* 3.9 27.1 - - + -
457B GLU* 3.2 25.7 - - - +
461B PHE* 4.6 9.4 - - + -
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Residues in contact with SER 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184B THR* 2.8 27.5 + - - +
185B ASN* 3.0 13.9 + - - -
187B VAL* 1.3 72.7 - - - +
189B ASN* 1.3 57.0 + - - +
191B THR* 3.1 9.1 + - - +
192B ASN* 2.8 39.7 + - - +
207B PHE* 4.0 21.0 - - - -
211B ILE* 4.9 4.2 - - - +
308B ILE* 5.6 1.6 - - - -
312B THR* 3.3 26.7 + - - -
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Residues in contact with ASN 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B GLU* 3.0 31.7 + - - +
185B ASN* 3.2 15.8 + - - +
186B ALA 3.3 9.9 - - - +
187B VAL 3.1 0.8 - - - -
188B SER* 1.3 78.9 + - - +
190B ILE* 1.3 63.1 + - - +
192B ASN* 3.2 12.7 + - - +
193B LEU* 3.1 28.4 + - - +
199B ARG* 3.1 17.1 - - + +
200B PHE* 2.9 48.0 + - - +
202B TYR* 3.6 4.4 - - - -
207B PHE* 5.8 0.2 - - - -
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Residues in contact with ILE 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B PHE* 3.9 22.7 - - + -
157B LYS 4.1 2.9 - - - +
158B ILE* 3.8 25.6 - - + +
161B GLU* 3.6 32.1 - - + +
186B ALA 3.8 9.4 - - - +
187B VAL 3.1 1.2 + - - -
189B ASN* 1.3 78.0 - - - +
191B THR* 1.3 58.4 + - - +
193B LEU* 3.7 22.1 + - + +
194B ILE* 4.0 11.7 - - - +
453B LEU* 3.9 9.2 - - + -
457B GLU* 3.1 40.4 - - + +
461B PHE* 3.9 15.0 - - + -
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Residues in contact with THR 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B PHE* 4.6 9.6 - - + -
187B VAL* 3.6 6.0 + - - +
188B SER* 3.1 11.8 + - - -
190B ILE* 1.3 77.0 - - - +
192B ASN* 1.3 60.4 + - - +
193B LEU 3.2 0.7 - - - -
194B ILE* 3.0 24.6 + - - +
195B ILE* 3.1 38.1 + - + +
307B LEU 4.2 14.1 - - - +
308B ILE* 4.4 10.3 - - + -
311B GLY* 4.6 10.9 - - - -
312B THR* 5.2 1.9 + - - -
453B LEU* 4.8 6.3 - - - +
457B GLU* 4.9 3.1 + - - -
601B HEM 4.2 14.1 - - + +
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Residues in contact with ASN 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188B SER* 2.8 28.9 + - - +
189B ASN* 3.2 13.8 + - - +
191B THR* 1.3 75.2 - - - +
193B LEU* 1.3 61.4 + - - +
195B ILE* 4.7 0.4 - - - +
196B PHE* 3.0 46.4 + - + +
197B GLY 3.3 3.1 + - - -
198B GLU 3.0 23.5 - - - +
200B PHE* 3.3 32.1 - - + -
207B PHE* 3.4 22.6 - - - -
308B ILE* 4.3 8.1 - - - +
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Residues in contact with LEU 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B PHE* 5.1 5.1 - - - +
154B PHE* 4.4 16.4 - - + -
157B LYS* 3.9 45.8 - - + +
161B GLU* 6.0 1.1 - - - +
189B ASN 3.1 20.1 + - - +
190B ILE* 3.7 24.9 - - + +
191B THR 3.2 0.2 - - - -
192B ASN* 1.3 76.7 - - - +
194B ILE* 1.3 58.3 + - - +
197B GLY* 3.1 27.0 + - - +
198B GLU* 3.8 9.0 - - - +
199B ARG* 3.8 29.8 - - + +
274B GLN 5.2 0.7 - - - +
275B HIS* 4.5 0.9 - - - +
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Residues in contact with ILE 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B SER* 3.6 26.5 - - - +
144B PHE* 3.8 47.8 - - + +
147B PHE* 4.2 10.2 - - + +
148B GLY* 3.9 27.8 - - - -
149B TYR* 5.2 0.9 - - + +
154B PHE* 4.0 14.8 - - + -
190B ILE 4.0 8.7 - - - +
191B THR* 3.0 7.7 + - - +
193B LEU* 1.3 80.3 - - - +
195B ILE* 1.3 59.2 + - + +
275B HIS* 3.3 8.1 - - - +
276B PHE* 3.0 21.4 + - + -
453B LEU* 3.9 17.3 - - + -
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Residues in contact with ILE 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B PHE* 4.7 8.3 - - + -
191B THR* 3.1 40.4 + - + +
194B ILE* 1.3 80.4 - - - +
196B PHE* 1.3 92.4 + - + +
197B GLY 3.6 0.2 - - - -
275B HIS* 3.4 5.8 + - - +
276B PHE* 3.7 20.0 - - + -
277B VAL* 3.3 27.0 + - + +
304B VAL* 4.0 21.1 - - + +
307B LEU* 3.9 26.5 - - + -
308B ILE* 4.0 13.0 - - + -
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Residues in contact with PHE 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B ASN* 3.0 37.9 + - + +
195B ILE* 1.3 96.1 - - + +
197B GLY* 1.3 60.6 + - - +
198B GLU* 3.3 15.5 + - + +
200B PHE* 3.9 23.1 - + + -
207B PHE* 4.6 0.2 - + - -
257B LEU* 5.0 0.9 - - + -
260B LEU* 3.5 40.4 - - + -
261B ILE* 4.5 4.9 - - + -
264B ALA* 3.9 25.7 - - + +
275B HIS* 3.1 21.2 + - - -
277B VAL* 4.2 8.3 - - + -
304B VAL* 4.0 10.1 - - + -
308B ILE* 3.6 22.4 - - + -
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Residues in contact with GLY 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B LYS* 5.5 4.2 + - - -
193B LEU* 3.1 26.6 + - - +
196B PHE* 1.3 76.3 - - - +
198B GLU* 1.3 60.6 + - - +
274B GLN* 4.6 5.4 - - - -
275B HIS* 3.5 17.3 - - - +
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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