Contacts of the helix formed by residues 202 - 219 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131A LEU* 4.3 8.5 - - - +
133A GLN* 3.7 21.2 + - - +
199A ALA 3.3 5.8 + - - +
200A GLN 3.4 0.8 - - - -
201A ASN* 1.3 79.6 - - - +
203A ALA* 1.3 64.6 + - - +
204A PHE* 3.4 15.7 + - - +
205A SER* 2.9 40.4 + - - +
206A LYS* 3.1 25.2 + - - -
231A THR* 3.9 19.3 - - + -
256A LEU* 4.2 20.1 - - - +
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Residues in contact with ALA 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A GLN* 2.8 35.2 + - - +
136A PHE* 4.0 25.1 - - + -
156A ALA* 4.4 2.5 - - - +
202A ASP* 1.3 74.3 + - - +
204A PHE* 1.3 62.9 + - - +
206A LYS* 3.4 12.4 + - - +
207A SER* 3.1 22.3 + - - -
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Residues in contact with PHE 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A SER* 3.9 8.5 - - - +
133A GLN 4.7 0.2 - - - +
155A THR* 3.3 27.6 - - - -
156A ALA* 4.0 11.7 - - + -
173A VAL* 3.8 9.4 - - + -
202A ASP* 3.3 12.9 + - - +
203A ALA* 1.3 78.9 - - - +
205A SER* 1.3 64.9 + - - +
207A SER* 3.1 1.6 + - - -
208A GLU* 2.8 66.2 + - + +
255A GLY 3.9 13.5 - - - -
256A LEU* 4.2 5.6 - - + -
280A ASP* 3.5 17.7 - - + -
281A GLY* 3.7 16.4 - - - -
501A LEU* 3.2 41.7 - - - +
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Residues in contact with SER 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A PHE* 4.2 1.5 - - - +
199A ALA* 3.5 20.7 - - - +
202A ASP* 2.9 27.9 + - - +
204A PHE* 1.3 84.3 - - - +
206A LYS* 1.3 57.5 + - - +
208A GLU* 4.4 0.4 - - - -
209A THR* 2.9 31.9 + - - -
254A SER* 3.4 34.1 + - - -
255A GLY* 3.5 16.6 + - - -
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Residues in contact with LYS 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A GLN* 5.3 1.6 + - - -
198A PHE* 3.6 25.1 - - + -
199A ALA 4.0 1.8 - - - +
200A GLN* 2.8 29.6 + - + +
201A ASN* 4.2 7.1 - - - +
202A ASP 3.1 29.0 + - - +
203A ALA* 3.8 9.1 - - - +
205A SER* 1.3 73.7 - - - +
207A SER* 1.3 64.0 + - - +
209A THR* 3.3 21.0 - - - +
210A GLU* 3.3 9.7 + - - +
161B GLU 4.1 17.7 + - - +
162B ILE 4.9 5.5 + - - -
163B GLY* 5.9 1.4 - - - -
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Residues in contact with SER 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ALA* 4.0 16.2 - - - -
157A LYS* 3.0 32.2 + - - +
173A VAL* 3.5 10.1 - - - +
203A ALA 3.1 17.4 + - - -
204A PHE 3.1 4.0 + - - -
206A LYS* 1.3 74.8 - - - +
208A GLU* 1.3 63.4 + - - +
210A GLU* 3.4 24.8 + - - +
211A ILE* 3.4 12.5 + - - +
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Residues in contact with GLU 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173A VAL* 3.7 26.1 - - + +
176A VAL* 6.0 1.7 - - - +
177A ALA* 4.4 8.1 - - + +
204A PHE* 2.8 41.5 + - + +
205A SER 3.9 1.3 - - - +
207A SER* 1.3 75.3 - - - +
209A THR* 1.3 62.9 + - - +
211A ILE* 3.1 5.2 + - - +
212A PHE* 3.0 39.4 + - + -
254A SER* 2.7 28.4 + - - +
279A GLY* 3.3 15.0 - - - -
280A ASP* 2.9 24.6 + - - +
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Residues in contact with THR 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A VAL* 3.2 20.6 - - - +
197A PHE 4.5 0.3 + - - -
198A PHE* 3.6 34.0 - - + +
205A SER 2.9 16.4 + - - +
206A LYS* 3.3 15.7 - - + +
208A GLU* 1.3 77.7 - - - +
210A GLU* 1.3 60.3 + - - +
212A PHE* 3.7 4.2 - - - +
213A GLN* 2.8 61.1 + - - +
254A SER* 3.8 8.2 + - - -
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Residues in contact with GLU 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A LYS* 5.0 19.7 + - - +
206A LYS 3.3 8.2 + - - +
207A SER* 3.4 17.3 + - - +
209A THR* 1.3 85.0 - - + +
211A ILE* 1.3 72.5 + - + +
213A GLN* 3.9 6.9 - - - +
214A GLN* 3.0 29.7 + - + +
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Residues in contact with ILE 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173A VAL* 3.7 36.3 - - + +
174A SER* 3.8 23.3 - - - +
177A ALA* 4.0 4.9 - - + -
178A PRO* 3.8 25.8 - - + -
207A SER 3.7 12.1 - - - +
208A GLU 3.1 7.9 + - - +
210A GLU* 1.3 90.4 - - - +
212A PHE* 1.3 66.7 + - - +
214A GLN* 3.3 7.4 + - + +
215A THR* 2.9 28.7 + - - +
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Residues in contact with PHE 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A ALA* 3.4 25.4 - - + -
178A PRO* 5.5 0.4 - - + -
180A SER* 3.4 22.0 - - - -
181A VAL* 3.7 19.2 - - + +
196A VAL* 5.3 2.7 - - + -
208A GLU* 3.0 42.5 + - + -
209A THR* 3.7 9.6 - - - +
211A ILE* 1.3 76.2 - - - +
213A GLN* 1.3 58.8 + - + +
215A THR* 3.3 4.9 + - - -
216A VAL* 2.9 34.8 + - - +
252A ILE* 3.4 30.3 - - + -
254A SER* 3.5 17.9 - - - -
277A ILE* 3.8 22.2 - - + -
278A GLY 4.7 0.2 - - - -
279A GLY* 4.1 13.9 - - - -
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Residues in contact with GLN 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A VAL* 4.0 16.6 - - + +
198A PHE* 4.6 1.2 - - - -
209A THR* 2.8 47.5 + - - +
210A GLU* 3.9 6.2 - - - +
212A PHE* 1.3 75.8 - - - +
214A GLN* 1.3 62.6 + - - +
216A VAL* 3.4 9.2 + - - +
217A LYS* 3.1 21.8 + - - +
223A LEU* 4.2 22.5 - - + +
226A VAL* 3.7 33.3 - - - +
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Residues in contact with GLN 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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210A GLU* 3.0 19.4 + - + +
211A ILE* 3.8 8.7 - - + +
213A GLN* 1.3 76.9 - - - +
215A THR* 1.3 57.6 + - - +
217A LYS* 3.2 19.8 + - - +
218A ASP* 2.9 68.8 + - - +
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Residues in contact with THR 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178A PRO* 3.6 36.8 - - + +
181A VAL* 3.8 32.5 - - + -
182A LYS* 5.3 2.5 - - - -
211A ILE* 2.9 22.6 + - - +
212A PHE* 3.6 5.8 - - - -
214A GLN* 1.3 74.1 - - - +
216A VAL* 1.3 58.6 + - - +
218A ASP* 3.2 6.9 + - + +
219A GLN* 2.9 47.8 + - + +
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Residues in contact with VAL 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181A VAL* 4.9 7.0 - - + -
194A VAL* 3.9 25.4 - - + -
196A VAL* 4.9 3.1 - - + -
212A PHE 2.9 21.4 + - - +
213A GLN* 3.6 7.2 - - - +
214A GLN 3.3 0.2 - - - -
215A THR* 1.3 77.5 - - - +
217A LYS* 1.3 63.0 + - - +
219A GLN* 3.3 3.7 + - - -
221A LEU* 3.1 59.1 + - + +
223A LEU* 4.4 18.8 - - + +
250A LEU* 5.4 0.2 - - + -
252A ILE* 3.8 25.6 - - + -
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Residues in contact with LYS 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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213A GLN 3.1 13.6 + - - +
214A GLN* 3.2 26.9 + - - +
216A VAL* 1.3 78.4 - - - +
218A ASP* 1.3 61.2 + - - +
220A GLY* 2.9 20.3 + - - -
221A LEU 4.5 7.6 - - - +
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Residues in contact with ASP 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214A GLN* 2.9 51.5 + - - +
215A THR* 3.2 7.7 + - + +
217A LYS* 1.3 79.2 - - - +
219A GLN* 1.3 66.8 + - + +
220A GLY* 3.1 1.1 + - - -
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Residues in contact with GLN 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181A VAL* 4.4 4.3 - - + -
182A LYS* 4.1 29.5 - - + +
185A LEU* 3.6 32.2 - - + +
215A THR* 2.9 31.9 + - + +
216A VAL 3.8 4.5 - - - +
217A LYS 3.2 0.2 - - - -
218A ASP* 1.3 80.9 + - - +
220A GLY* 1.3 60.4 + - - +
221A LEU* 3.3 15.2 + - + +
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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