Contacts of the helix formed by residues 205 - 224 (chain B) in PDB entry 2FGY
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 205 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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199B TYR* 3.4 29.2 + - + +
204B PHE* 1.3 73.4 - - - +
206B ILE* 1.3 59.9 + - - +
207B GLU* 3.3 10.4 + - - +
208B ASP* 3.1 31.6 + - + +
209B ASP* 3.0 34.1 + - - +
427B GLU* 5.7 4.9 - - - +
428B ASN* 4.9 11.3 + - - +
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Residues in contact with ILE 206 (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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468A ARG* 3.7 39.6 - - - +
204B PHE* 3.4 21.4 + - + +
205B ASP* 1.3 70.7 + - - +
207B GLU* 1.3 60.9 + - - +
209B ASP* 3.3 7.0 + - - +
210B LEU* 2.8 27.1 + - + +
270B GLN* 3.7 26.7 - - - +
273B LYS* 3.6 32.3 - - + +
274B PHE* 4.1 12.3 - - - -
277B ALA* 3.9 23.1 - - + -
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Residues in contact with GLU 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465A SER* 4.8 6.9 + - - +
468A ARG* 2.9 48.3 + - + +
469A THR* 5.5 1.2 + - - -
205B ASP* 3.3 8.1 + - - +
206B ILE* 1.3 75.5 - - - +
208B ASP* 1.3 57.4 + - - +
210B LEU* 3.4 21.7 + - - +
211B ALA* 3.1 26.2 + - - +
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Residues in contact with ASP 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B LYS* 4.6 4.7 + - - +
199B TYR* 4.6 0.5 + - - -
205B ASP* 3.1 33.9 + - + +
207B GLU* 1.3 77.2 - - - +
209B ASP* 1.3 63.6 + - - +
211B ALA* 3.2 9.3 + - - +
212B GLN* 3.0 26.5 + - - +
421B HIS* 3.6 26.7 - - - -
423B ASP* 4.4 12.0 - - - +
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Residues in contact with ASP 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169B ASP* 4.0 4.3 - - - +
197B LYS* 2.8 29.4 + - - +
199B TYR* 5.4 2.1 + - - -
204B PHE* 2.9 19.4 - - - +
205B ASP* 3.0 20.9 + - - +
206B ILE* 3.6 2.2 - - - +
208B ASP* 1.3 76.2 - - - +
210B LEU* 1.3 58.2 + - - +
212B GLN* 3.3 6.7 + - - +
213B TRP* 2.9 28.2 + - - +
235B TYR* 4.6 1.2 + - - -
237B LYS* 2.7 30.2 + - - -
274B PHE* 3.5 27.9 - - + -
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Residues in contact with LEU 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A LYS* 6.5 0.4 - - - -
462A VAL* 5.8 2.0 - - + -
468A ARG* 6.1 0.9 - - - +
206B ILE* 2.8 17.4 + - + +
207B GLU* 3.4 25.6 - - - +
208B ASP 3.3 0.2 - - - -
209B ASP* 1.3 72.3 - - - +
211B ALA* 1.3 58.2 + - - +
213B TRP* 3.3 4.5 + - + +
214B GLU* 3.0 42.1 + - + +
274B PHE* 3.6 6.7 - - + -
277B ALA* 4.4 19.7 - - + -
278B VAL* 4.2 17.9 - - + -
281B ALA* 4.0 18.8 - - + -
282B HIS* 3.3 33.2 - - + +
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Residues in contact with ALA 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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211A ALA* 5.8 8.3 - - + -
214A GLU* 5.5 0.3 - - - +
207B GLU 3.1 11.3 + - - +
208B ASP* 3.2 12.7 + - - +
210B LEU* 1.3 78.1 - - - +
212B GLN* 1.3 65.6 + - - +
214B GLU* 3.4 14.4 + - - +
215B LYS* 3.0 24.5 + - - +
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Residues in contact with GLN 212 (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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195B TYR* 3.6 27.7 + - + -
197B LYS* 4.6 11.7 + - - +
208B ASP 3.0 12.9 + - - +
209B ASP* 3.6 10.8 - - - +
211B ALA* 1.3 72.5 - - - +
213B TRP* 1.3 67.1 + - - +
215B LYS* 3.2 23.0 + - - +
216B ASN* 2.6 52.9 + - - +
235B TYR* 3.2 22.2 - - - +
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Residues in contact with TRP 213 (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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218A LEU* 4.0 11.2 - - + -
222A ARG* 4.3 12.1 - - - -
166B HIS* 5.0 1.0 + - - -
209B ASP 2.9 14.8 + - - +
210B LEU* 3.3 11.4 + - + +
212B GLN* 1.3 75.9 - - - +
214B GLU* 1.3 68.5 + - + +
216B ASN* 3.4 1.6 + - - +
217B GLU* 2.9 64.2 + - + +
235B TYR* 3.3 48.2 - + + +
274B PHE* 4.6 2.9 - - + -
278B VAL* 3.7 22.2 - - + -
282B HIS* 3.7 33.4 - + - -
286B ALA* 4.0 22.9 - - + -
287B SER 3.9 9.5 + - - -
288B ILE* 3.7 17.6 - - + +
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Residues in contact with GLU 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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211A ALA 5.5 0.2 - - - +
214A GLU* 5.8 3.8 - - + +
215A LYS* 3.9 42.0 - - - +
218A LEU* 3.8 14.8 - - + +
210B LEU* 3.0 28.0 + - - +
211B ALA* 3.6 15.7 - - - +
212B GLN 3.2 0.2 - - - -
213B TRP* 1.3 83.8 - - + +
215B LYS* 1.3 57.0 + - - +
217B GLU* 3.3 1.6 + - - +
218B LEU* 2.9 30.3 + - - +
281B ALA* 5.3 0.3 - - - +
282B HIS* 2.7 43.8 + - + +
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Residues in contact with LYS 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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214A GLU* 3.8 38.1 - - - +
282A HIS* 5.4 5.8 - - + -
211B ALA 3.0 16.7 + - - +
212B GLN* 3.6 22.2 + - - +
214B GLU* 1.3 73.5 - - - +
216B ASN* 1.3 68.0 + - - +
218B LEU* 3.4 6.4 + - - +
219B ARG* 3.1 22.0 + - - +
502B GLN* 5.9 1.4 + - - -
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Residues in contact with ASN 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B HIS* 4.9 8.6 + - + +
167B ALA* 3.6 24.0 - - - +
193B PHE* 4.2 13.7 - - - -
195B TYR* 3.0 22.9 + - - -
212B GLN* 2.6 43.4 + - - +
213B TRP 3.8 3.4 - - - +
215B LYS* 1.3 76.0 - - - +
217B GLU* 1.3 62.2 + - - +
219B ARG* 3.1 17.2 + - - +
220B ARG* 3.2 18.7 + - + +
225B VAL 4.6 0.9 - - - +
226B PRO* 5.7 2.0 - - + +
235B TYR* 4.1 14.6 - - + -
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Residues in contact with GLU 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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218A LEU* 3.9 22.0 - - + -
222A ARG* 4.4 6.5 + - - -
166B HIS* 3.5 18.2 + - - -
213B TRP* 2.9 48.5 + - + +
214B GLU 3.8 3.6 - - - +
216B ASN* 1.3 74.3 - - - +
218B LEU* 1.3 66.8 + - - +
220B ARG* 3.0 43.0 + - - +
221B TYR* 3.2 32.6 + - + -
229B ALA* 5.4 1.4 - - - +
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Residues in contact with LEU 218 (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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213A TRP* 4.0 20.4 - - + -
214A GLU* 3.7 36.1 - - + +
217A GLU* 4.0 4.0 - - + -
218A LEU* 3.8 27.7 - - + +
221A TYR* 3.8 21.3 - - + -
282A HIS* 4.5 7.4 - - + +
214B GLU 2.9 17.4 + - - +
215B LYS* 3.7 6.5 - - - +
217B GLU* 1.3 77.7 - - - +
219B ARG* 1.3 63.1 + - - +
221B TYR* 3.1 3.1 + - - +
222B ARG* 2.9 47.1 + - + +
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Residues in contact with ARG 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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192B ALA* 5.8 2.6 - - - +
193B PHE* 3.8 26.6 - - - -
215B LYS 3.1 14.2 + - - +
216B ASN* 3.1 11.4 + - - +
218B LEU* 1.3 79.1 - - - +
220B ARG* 1.3 55.7 + - - +
222B ARG* 4.6 3.1 - - - +
223B GLU* 2.6 66.1 + - + +
224B GLY 3.1 5.2 + - - -
225B VAL* 3.7 29.8 + - - +
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Residues in contact with ARG 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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166B HIS* 3.5 32.6 + - - -
216B ASN 3.2 12.2 + - - +
217B GLU* 3.0 44.7 + - - +
218B LEU 3.2 0.6 - - - -
219B ARG* 1.3 74.2 - - - +
221B TYR* 1.3 60.0 + - - +
224B GLY* 2.9 24.5 + - - +
225B VAL 3.9 9.6 - - - +
226B PRO* 4.3 3.6 - - + -
227B ASN* 2.8 35.7 + - - +
228B THR* 3.1 17.8 + - - +
229B ALA* 3.7 34.5 + - + +
231B GLN 3.1 26.9 + - - -
233B THR* 3.1 14.3 + - - +
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Residues in contact with TYR 221 (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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218A LEU* 3.8 13.2 - - + -
221A TYR* 3.6 54.8 + + + -
222A ARG* 3.7 37.8 + - + +
217B GLU* 3.2 31.7 + - + -
218B LEU* 3.1 7.3 + - - +
220B ARG* 1.3 81.6 - - - +
222B ARG* 1.3 60.4 + - - +
224B GLY 4.8 0.5 + - - -
229B ALA* 3.6 29.8 + - + +
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Residues in contact with ARG 222 (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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213A TRP* 4.3 11.5 - - - -
217A GLU* 4.5 6.3 + - - -
221A TYR* 3.7 32.4 + - + +
282A HIS* 3.5 20.7 + - - +
283A CYS* 2.9 38.5 + - - +
284A CYS* 3.5 36.0 + - - +
286A ALA* 3.7 20.2 - - - +
218B LEU* 2.9 46.9 + - + +
219B ARG* 4.6 2.7 - - - +
221B TYR* 1.3 73.5 - - - +
223B GLU* 1.3 59.4 + - + +
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Residues in contact with GLU 223 (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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283A CYS* 3.4 33.9 + - + +
284A CYS* 4.9 3.6 - - - -
219B ARG* 2.6 61.8 + - + +
222B ARG* 1.3 76.1 - - + +
224B GLY* 1.3 64.2 + - - +
225B VAL* 3.7 17.3 - - + +
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Residues in contact with GLY 224 (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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219B ARG 3.1 0.4 + - - -
220B ARG 2.9 22.0 + - - -
221B TYR 4.8 0.2 + - - -
222B ARG 3.8 0.6 - - - -
223B GLU* 1.3 77.5 - - - +
225B VAL* 1.3 59.1 + - - +
226B PRO 3.6 2.4 - - - +
227B ASN* 3.1 29.1 + - - +
228B THR* 4.0 15.0 + - - +
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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