Contacts of the helix formed by residues 174 - 192 (chain B) in PDB entry 3G33
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 174 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170B LEU* 6.0 8.4 - - + +
171B PRO* 3.1 22.4 + - + +
173B ASP* 1.3 85.5 - - + +
175B GLN* 1.3 66.7 + - - +
176B ALA 3.1 5.0 + - - +
177B LEU* 3.6 12.1 + - - +
178B VAL* 3.8 15.9 - - + +
59D MET* 6.5 0.7 - - - -
62D TYR* 4.5 18.8 - - + -
254D SER 4.6 25.7 + - - -
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Residues in contact with GLN 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B LEU* 3.8 53.6 + - + +
166B HIS* 4.5 12.6 - - - +
170B LEU* 4.2 20.4 + - + +
171B PRO 3.4 14.5 + - - +
172B ARG* 3.4 33.1 + - + +
174B ARG* 1.3 77.7 - - - +
176B ALA* 1.3 63.2 + - - +
178B VAL* 4.0 8.1 - - - +
179B LYS* 3.0 30.4 + - + +
66D GLU* 4.9 3.1 - - - +
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Residues in contact with ALA 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B ARG 4.6 2.4 + - - +
173B ASP 5.8 0.2 - - - +
174B ARG 3.1 1.0 + - - -
175B GLN* 1.3 80.0 - - - +
177B LEU* 1.3 63.4 + - - +
179B LYS* 3.9 4.9 - - - +
180B LYS* 3.2 21.0 + - - +
62D TYR* 4.0 19.5 - - + +
65D LEU* 3.9 24.8 - - + +
66D GLU* 3.8 30.1 + - + +
69D GLU* 5.4 4.2 - - + +
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Residues in contact with LEU 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ARG 3.6 4.8 + - - +
175B GLN 3.4 0.4 - - - -
176B ALA* 1.3 76.6 - - - +
178B VAL* 1.3 67.9 + - + +
180B LYS* 3.3 6.8 + - + +
181B HIS* 3.0 25.9 + - + +
215B LEU* 4.3 10.8 - - + -
62D TYR* 3.3 38.3 - - + +
65D LEU* 4.0 17.9 - - + -
184D THR* 4.1 27.4 - - - +
187D ALA* 4.7 3.4 - - + -
188D LEU* 4.4 22.0 - - + +
191D THR* 4.3 11.9 - - + +
251D LEU* 5.5 5.2 - - + -
254D SER* 4.4 12.8 - - - +
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Residues in contact with VAL 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B LEU* 4.3 17.5 - - + -
170B LEU* 4.4 18.6 - - + -
174B ARG* 3.8 16.4 - - + +
175B GLN* 3.5 7.6 + - - +
176B ALA 3.4 0.4 - - - -
177B LEU* 1.3 77.4 - - + +
179B LYS* 1.3 60.0 + - - +
181B HIS* 3.4 1.6 + - - +
182B ALA* 3.0 28.6 + - - +
208B ILE* 5.2 3.4 - - + -
211B ALA* 4.1 3.1 - - + +
212B VAL* 3.6 31.4 - - + +
215B LEU* 3.5 27.8 - - + -
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Residues in contact with LYS 179 (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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158B HIS* 5.2 2.9 - - - -
161B LEU* 4.2 21.7 - - + +
162B ALA* 6.2 2.2 - - - +
165B LEU* 4.2 22.2 - - + +
175B GLN* 3.0 22.2 + - + +
176B ALA* 3.9 4.9 - - - +
178B VAL* 1.3 78.4 - - - +
180B LYS* 1.3 60.6 + - - +
182B ALA* 3.4 7.9 + - - +
183B GLN* 3.3 41.5 + - - +
70D GLU* 5.0 13.9 + - - -
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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
----------------------------------------------------------
75B GLU* 6.0 0.9 - - - +
176B ALA 3.2 14.6 + - - +
177B LEU* 3.7 9.0 - - + +
179B LYS* 1.3 76.2 - - - +
181B HIS* 1.3 66.3 + - - +
183B GLN* 3.0 28.6 + - - +
184B THR* 3.7 8.6 + - + +
65D LEU* 5.2 4.6 - - + +
69D GLU* 3.2 37.3 + - + +
75D GLU* 2.9 36.4 + - - -
180D LYS* 5.3 5.3 - - - +
183D GLN* 3.2 22.4 + - - -
184D THR* 4.0 23.1 - - + +
187D ALA* 3.8 17.1 - - + +
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Residues in contact with HIS 181 (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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177B LEU* 3.0 17.7 + - + +
178B VAL 3.8 3.4 - - - +
180B LYS* 1.3 76.6 - - - +
182B ALA* 1.3 63.2 - - - +
183B GLN 3.2 0.3 + - - -
184B THR* 3.2 20.6 + - - -
185B PHE* 3.2 40.2 - + - -
210B ALA 4.8 1.8 + - - -
211B ALA* 3.7 24.6 - - + -
214B GLY* 5.2 4.4 - - - -
215B LEU* 4.0 18.6 - - + -
181D HIS* 3.3 37.8 + + - -
184D THR* 4.1 20.7 + - - +
251D LEU* 4.8 15.7 - - + +
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Residues in contact with ALA 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B LEU* 4.6 11.2 - - + -
178B VAL 3.0 17.7 + - - +
179B LYS* 3.6 8.7 - - - +
180B LYS 3.2 0.4 - - - -
181B HIS* 1.3 76.4 - - - +
183B GLN* 1.3 58.1 + - - +
185B PHE* 3.3 10.1 + - - +
186B LEU* 3.1 28.6 + - + +
207B SER* 4.1 2.1 + - - -
208B ILE* 4.3 24.7 - - + -
211B ALA* 3.7 19.0 - - + +
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Residues in contact with GLN 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B GLU* 3.3 28.3 - - - +
158B HIS* 2.8 41.4 + - + -
161B LEU* 4.0 7.6 - - + +
179B LYS* 3.3 34.5 - - - +
180B LYS* 3.0 20.7 + - - +
182B ALA* 1.3 76.5 - - - +
184B THR* 1.3 59.0 + - - +
185B PHE 3.3 0.2 - - - -
186B LEU* 3.4 8.8 + - + +
187B ALA* 2.9 21.8 + - - +
69D GLU* 4.6 3.3 - - - +
72D ARG* 3.9 8.3 + - - +
180D LYS* 3.1 23.1 + - - +
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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
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180B LYS* 3.7 14.6 - - + +
181B HIS* 3.2 11.1 + - - +
183B GLN* 1.3 75.5 - - - +
185B PHE* 1.3 68.9 + - - +
187B ALA* 3.4 0.6 + - - -
188B LEU* 2.8 28.8 + - - +
251B LEU* 5.0 6.6 - - - +
177D LEU* 3.7 11.5 - - - +
180D LYS* 4.0 32.3 - - + +
181D HIS* 3.9 28.3 + - - +
184D THR* 4.0 21.1 - - + -
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Residues in contact with PHE 185 (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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181B HIS* 3.2 57.4 - + - -
182B ALA* 3.3 5.5 + - - +
183B GLN 3.3 0.2 - - - -
184B THR* 1.3 83.0 + - - +
186B LEU* 1.3 57.2 + - - +
188B LEU* 3.2 6.4 + - + +
189B CYS* 2.9 33.3 + - - -
207B SER* 3.3 35.9 - - - -
210B ALA* 4.0 20.0 - - + -
211B ALA* 4.0 8.3 - - - -
247B ILE* 3.6 21.8 - - + +
248B GLU* 4.8 7.9 - - + -
251B LEU* 3.5 39.5 - - + -
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Residues in contact with LEU 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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79B PRO* 4.8 10.9 - - + +
157B ALA* 3.8 29.6 - - + -
158B HIS* 3.6 33.2 - - + +
161B LEU* 3.8 29.4 - - + -
182B ALA 3.1 16.3 + - - +
183B GLN* 3.5 11.0 - - - +
184B THR 3.3 0.2 - - - -
185B PHE* 1.3 77.2 - - - +
187B ALA* 1.3 61.3 + - - +
189B CYS* 3.5 7.2 + - - +
190B ALA* 3.3 19.8 + - - +
203B ILE* 4.1 7.7 - - + +
204B ALA* 4.1 5.8 - - - -
207B SER* 3.0 22.2 - - - +
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Residues in contact with ALA 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B LEU* 4.0 23.1 - - + -
75B GLU* 5.5 0.2 - - - +
78B PHE* 3.6 13.6 - - + -
79B PRO* 5.3 2.4 - - + +
183B GLN 2.9 17.4 + - - +
184B THR 3.7 4.5 - - - +
186B LEU* 1.3 72.3 - - - +
188B LEU* 1.3 66.9 + - - +
190B ALA 3.2 6.6 + - - -
191B THR* 3.2 22.5 + - - +
177D LEU* 4.3 9.9 - - + -
180D LYS* 3.8 15.5 - - + +
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Residues in contact with LEU 188 (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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62B TYR* 5.5 0.2 - - - +
184B THR 2.8 15.6 + - - +
185B PHE* 3.2 10.3 - - + +
187B ALA* 1.3 76.4 - - - +
189B CYS* 1.3 63.9 + - - +
191B THR* 2.6 31.4 + - - +
192B ASP* 3.1 17.8 + - + +
195B PHE* 4.9 1.6 - - + -
247B ILE* 3.6 22.7 - - + +
250B ALA* 3.9 15.9 - - + +
251B LEU* 3.5 46.9 - - + +
254B SER* 5.0 4.3 - - - -
177D LEU* 3.8 21.5 - - + +
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Residues in contact with CYS 189 (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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57B ARG* 5.6 0.2 + - - -
185B PHE 2.9 19.5 + - - -
186B LEU 3.7 8.1 - - - +
187B ALA 3.3 0.2 - - - -
188B LEU* 1.3 74.7 - - - +
190B ALA* 1.3 61.0 + - - +
192B ASP 2.9 26.7 + - - +
195B PHE* 3.7 33.6 - - + +
196B ALA* 5.0 0.5 + - - -
203B ILE* 3.5 34.1 - - + -
207B SER* 4.8 0.7 - - - -
247B ILE* 3.8 32.5 - - - -
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Residues in contact with ALA 190 (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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57B ARG* 3.3 24.0 + - - +
78B PHE* 3.4 31.9 - - + -
79B PRO* 4.1 19.5 - - + -
82B MET* 3.7 17.3 - - + +
186B LEU 3.3 10.3 + - - +
187B ALA 3.2 2.6 + - - +
188B LEU 3.2 0.8 - - - -
189B CYS* 1.3 78.4 - - - +
191B THR* 1.3 57.4 + - - +
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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
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57B ARG* 3.3 11.5 + - - -
58B LYS* 3.3 24.1 - - - +
61B ALA* 3.8 17.9 - - + +
62B TYR* 4.0 20.6 + - + -
65B LEU* 4.5 13.0 - - + -
78B PHE* 3.6 21.1 - - + -
187B ALA 3.2 15.5 - - - +
188B LEU* 2.6 27.2 + - - +
190B ALA* 1.3 78.7 - - - +
192B ASP* 1.3 58.6 + - - +
177D LEU* 3.8 11.6 - - + +
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Residues in contact with ASP 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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57B ARG* 3.7 2.4 + - - -
58B LYS* 4.3 13.4 + - - +
188B LEU* 3.1 13.7 + - + +
189B CYS 2.9 17.2 + - - +
191B THR* 1.3 79.1 + - - +
193B TYR* 1.3 68.5 + - - +
194B THR* 3.1 31.3 + - - +
195B PHE* 3.2 24.2 + - + +
196B ALA* 3.9 2.4 + - - -
250B ALA* 3.8 21.3 - - - +
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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