Contacts of the helix formed by residues 202 - 220 (chain B) in PDB entry 4OG2
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 ASP 202 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B LEU* 4.3 8.3 - - - +
133B GLN* 3.7 19.4 + - - +
199B ALA 3.3 6.9 + - - +
200B GLN 3.4 0.4 - - - -
201B ASN* 1.3 80.4 - - - +
203B ALA* 1.3 66.7 + - - +
204B PHE* 3.4 14.8 + - - +
205B SER* 2.8 40.0 + - - +
206B LYS* 3.1 25.9 + - - -
231B THR* 4.1 17.0 - - + -
256B LEU* 4.1 20.5 - - - +
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Residues in contact with ALA 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B GLN* 2.8 36.6 + - - +
136B PHE* 4.0 25.1 - - + -
156B ALA* 4.4 2.8 - - - +
202B ASP* 1.3 74.5 + - - +
204B PHE* 1.3 63.3 + - - +
206B LYS* 3.4 13.2 + - - +
207B SER* 3.0 23.0 + - - -
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Residues in contact with PHE 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B SER* 4.0 7.1 - - - +
133B GLN 4.8 0.2 - - - +
155B THR* 3.3 27.4 - - - -
156B ALA* 4.0 11.0 - - - -
173B VAL* 3.8 9.4 - - + -
202B ASP* 3.3 14.3 + - - +
203B ALA* 1.3 78.8 - - - +
205B SER* 1.3 71.8 + - - +
207B SER* 3.1 1.6 + - - -
208B GLU* 2.7 66.7 + - + +
255B GLY 3.9 13.5 - - - -
256B LEU* 4.1 5.4 - - + -
280B ASP* 3.5 17.9 - - + -
281B GLY* 3.6 16.2 - - - -
501B LEU* 3.1 42.2 - - - +
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Residues in contact with SER 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198B PHE* 4.1 1.7 - - - +
199B ALA* 3.4 23.6 - - - +
202B ASP* 2.8 27.5 + - - +
204B PHE* 1.3 84.2 - - - +
206B LYS* 1.3 57.1 + - - +
208B GLU* 4.5 0.2 - - - -
209B THR* 2.9 32.4 + - - -
254B SER* 3.5 26.1 - - - -
255B GLY* 3.4 22.0 - - - -
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Residues in contact with LYS 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A GLU 4.2 16.4 + - - -
162A ILE 5.0 4.8 + - - -
163A GLY* 6.0 1.0 - - - -
133B GLN* 5.3 1.4 + - - -
198B PHE* 3.8 24.2 - - + -
199B ALA 4.0 1.3 - - - +
200B GLN* 2.8 29.5 + - + +
201B ASN* 4.2 6.9 + - - +
202B ASP 3.1 26.8 + - - +
203B ALA* 3.8 9.8 - - - +
205B SER* 1.3 73.4 - - - +
207B SER* 1.3 64.3 + - - +
209B THR* 3.3 8.4 - - - +
210B GLU* 3.3 29.1 + - + +
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Residues in contact with SER 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B ALA* 3.9 16.2 - - - -
157B LYS* 2.9 31.7 + - - +
173B VAL* 3.5 9.6 - - - +
203B ALA 3.0 17.7 + - - -
204B PHE 3.6 3.8 - - - -
206B LYS* 1.3 75.4 - - - +
208B GLU* 1.3 64.0 + - - +
210B GLU* 3.3 15.4 + - - +
211B ILE* 3.4 15.4 + - - +
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Residues in contact with GLU 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B VAL* 3.7 26.2 - - + +
176B VAL* 6.2 0.2 - - - +
177B ALA* 4.3 8.5 - - + +
204B PHE* 2.7 41.6 + - + +
205B SER 3.9 1.6 - - - +
207B SER* 1.3 73.8 - - - +
209B THR* 1.3 62.7 + - - +
211B ILE* 3.1 5.7 + - - +
212B PHE* 3.0 40.8 + - + -
254B SER* 2.7 27.4 + - - +
279B GLY* 3.3 13.6 - - - -
280B ASP* 2.9 23.7 + - - +
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Residues in contact with THR 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B VAL* 3.2 20.1 - - - +
197B PHE 4.4 0.3 + - - -
198B PHE* 3.5 34.4 - - + +
205B SER 2.9 16.6 + - - +
206B LYS* 3.3 15.5 - - - +
208B GLU* 1.3 76.7 - - - +
210B GLU* 1.3 67.4 + - - +
212B PHE* 3.7 4.4 - - - -
213B GLN* 2.8 62.0 + - - +
254B SER* 3.7 8.4 + - - -
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Residues in contact with GLU 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198B PHE* 6.1 0.7 - - - -
206B LYS 3.3 16.4 + - - +
207B SER* 3.6 9.0 - - - +
208B GLU 3.2 0.2 - - - -
209B THR* 1.3 85.3 - - - +
211B ILE* 1.3 60.0 + - + +
213B GLN* 3.9 14.7 + - - +
214B GLN* 3.0 30.8 + - - +
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Residues in contact with ILE 211 (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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173B VAL* 3.6 29.2 - - + +
174B SER* 3.8 29.4 - - - +
177B ALA* 3.9 6.3 - - + -
178B PRO* 3.8 24.9 - - + -
207B SER 3.4 12.3 + - - +
208B GLU 3.1 8.1 + - - +
210B GLU* 1.3 78.9 - - + +
212B PHE* 1.3 60.0 + - - +
214B GLN* 3.3 5.8 + - + +
215B THR* 2.7 35.3 + - - +
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Residues in contact with PHE 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B ALA* 3.4 35.7 - - + -
178B PRO* 5.6 0.2 - - + -
180B SER* 3.5 12.3 - - - -
181B VAL* 3.7 19.7 - - + -
196B VAL* 5.1 4.0 - - + -
208B GLU* 3.0 42.2 + - + -
209B THR* 3.7 9.2 - - - +
211B ILE* 1.3 75.8 - - - +
213B GLN* 1.3 58.4 + - - +
215B THR* 3.3 4.5 + - - -
216B VAL* 2.9 35.6 + - - +
252B ILE* 3.4 30.3 - - + -
254B SER* 3.4 17.3 - - - -
277B ILE* 3.8 22.0 - - + -
278B GLY 4.7 0.2 - - - -
279B GLY* 4.1 13.0 - - - -
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Residues in contact with GLN 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B VAL* 4.0 20.1 - - + +
198B PHE* 4.4 1.4 - - - -
209B THR* 2.8 52.5 + - - +
210B GLU* 3.9 17.3 + - - +
212B PHE* 1.3 73.1 - - - +
214B GLN* 1.3 61.8 + - - +
216B VAL* 3.3 8.3 + - - +
217B LYS* 3.0 31.8 + - - +
223B LEU* 4.1 17.8 - - + +
226B VAL* 3.7 34.7 - - - +
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Residues in contact with GLN 214 (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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210B GLU 3.0 18.5 + - - +
211B ILE* 3.9 7.4 - - + +
213B GLN* 1.3 76.3 - - - +
215B THR* 1.3 53.1 + - - +
217B LYS* 3.4 21.6 + - - +
218B ASP* 2.8 72.2 + - - +
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Residues in contact with THR 215 (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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178B PRO* 3.7 34.7 - - + +
181B VAL* 3.8 32.8 - - + -
182B LYS* 5.4 1.6 - - + -
211B ILE* 2.7 26.7 + - - +
212B PHE* 3.6 5.4 - - - -
214B GLN* 1.3 75.1 - - - +
216B VAL* 1.3 59.4 + - - +
218B ASP* 3.8 5.9 - - + +
219B GLN* 2.9 48.0 + - + +
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Residues in contact with VAL 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B VAL* 4.8 6.3 - - + -
194B VAL* 3.9 26.7 - - + -
196B VAL* 4.8 2.7 - - + -
212B PHE 2.9 19.4 + - - +
213B GLN* 3.3 11.2 + - - +
215B THR* 1.3 78.2 - - - +
217B LYS* 1.3 63.2 + - - +
219B GLN* 3.5 1.4 + - - +
220B GLY 3.4 2.3 + - - -
221B LEU* 3.0 56.1 + - + +
222B GLU 4.1 9.9 - - - +
223B LEU* 4.3 12.1 - - + +
250B LEU* 5.5 0.2 - - + -
252B ILE* 3.9 24.5 - - + -
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Residues in contact with LYS 217 (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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213B GLN* 3.0 22.1 + - - +
214B GLN* 3.7 25.0 + - - +
216B VAL* 1.3 76.0 - - - +
218B ASP* 1.3 57.8 + - - +
220B GLY* 2.9 21.0 + - - -
221B LEU 4.4 7.1 - - - +
223B LEU* 4.0 33.4 - - + -
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Residues in contact with ASP 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B GLN* 2.8 56.4 + - - +
215B THR* 3.3 6.7 + - + +
217B LYS* 1.3 73.0 - - - +
219B GLN* 1.3 63.3 + - + +
220B GLY* 3.3 1.0 + - - -
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Residues in contact with GLN 219 (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 VAL* 4.5 4.3 - - + -
182B LYS* 4.0 32.4 - - - +
185B LEU* 3.2 26.1 - - + +
215B THR* 2.9 36.0 + - + +
216B VAL 3.8 5.2 - - - +
218B ASP* 1.3 77.1 - - + +
220B GLY* 1.3 59.8 + - - +
221B LEU* 4.1 16.7 - - + +
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Residues in contact with GLY 220 (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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217B LYS 2.9 14.2 + - - -
218B ASP 3.1 1.6 - - - -
219B GLN* 1.3 80.0 - - - +
221B LEU* 1.3 65.3 + - - +
222B GLU* 5.8 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
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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