Contacts of the helix formed by residues 205 - 224 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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199A TYR* 3.3 30.5 + - + +
204A PHE* 1.3 73.6 - - - +
206A ILE* 1.3 59.5 + - - +
207A GLU* 3.3 9.9 + - - +
208A ASP* 3.2 30.9 + - + +
209A ASP* 2.9 34.1 + - - +
427A GLU* 5.7 5.2 - - - +
428A ASN* 4.9 12.1 + - - +
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Residues in contact with ILE 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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204A PHE* 3.3 18.5 + - + -
205A ASP* 1.3 73.8 + - - +
207A GLU* 1.3 59.2 + - - +
209A ASP* 3.4 5.7 + - - +
210A LEU* 2.9 28.0 + - + +
270A GLN* 3.7 30.1 - - - +
273A LYS* 3.5 34.1 - - + +
274A PHE* 4.0 12.3 - - + -
277A ALA* 4.0 18.6 - - + -
468B ARG* 3.7 41.6 - - - +
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Residues in contact with GLU 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A ASP* 3.3 7.7 + - - +
206A ILE* 1.3 75.7 - - - +
208A ASP* 1.3 58.1 + - - +
210A LEU* 3.4 22.0 + - - +
211A ALA* 3.1 26.0 + - - +
465B SER* 4.8 7.4 + - - +
468B ARG* 2.8 48.9 + - + +
469B THR* 5.6 0.7 + - - -
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Residues in contact with ASP 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A LYS* 4.7 4.0 + - - +
199A TYR* 4.6 0.9 + - - +
205A ASP* 3.2 30.4 + - + +
207A GLU* 1.3 77.7 - - - +
209A ASP* 1.3 69.9 + - - +
211A ALA* 3.1 10.0 + - - +
212A GLN* 3.0 21.7 + - - +
421A HIS* 3.7 26.1 - - - -
423A ASP* 4.5 11.7 - - - +
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Residues in contact with ASP 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A ASP* 3.9 4.3 - - - +
197A LYS* 2.6 33.2 + - - +
199A TYR* 5.2 2.1 + - - -
204A PHE* 3.0 16.1 - - - +
205A ASP 2.9 21.6 + - - +
206A ILE* 3.8 2.2 - - - +
208A ASP* 1.3 76.5 - - - +
210A LEU* 1.3 58.2 + - - +
212A GLN* 3.3 8.0 + - - +
213A TRP* 2.9 28.2 + - - +
235A TYR* 4.5 1.6 + - - -
237A LYS* 2.6 31.2 + - - +
274A PHE* 3.5 26.8 - - + -
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Residues in contact with LEU 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A ILE 2.9 13.1 + - - +
207A GLU* 3.4 26.7 - - - +
209A ASP* 1.3 74.5 - - - +
211A ALA* 1.3 57.5 + - - +
213A TRP* 3.2 5.7 + - + +
214A GLU* 3.0 42.7 + - + +
274A PHE* 3.5 7.5 - - + -
277A ALA* 4.3 20.6 - - + -
278A VAL* 4.1 18.8 - - + +
281A ALA* 4.2 16.8 - - + -
282A HIS* 3.4 33.7 - - + +
462B VAL* 5.8 2.5 - - + -
468B ARG* 6.1 0.7 - - - +
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Residues in contact with ALA 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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207A GLU 3.1 13.6 + - - +
208A ASP* 3.1 13.6 + - - +
210A LEU* 1.3 73.9 - - - +
212A GLN* 1.3 58.3 + - - +
214A GLU* 3.3 15.3 + - - +
215A LYS* 3.0 28.7 + - - +
211B ALA* 5.8 7.9 - - + -
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Residues in contact with GLN 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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169A ASP* 4.7 1.6 - - - +
195A TYR* 3.6 27.4 + - + -
197A LYS* 4.7 8.5 + - - +
208A ASP* 3.0 12.3 + - - +
209A ASP* 3.3 11.4 + - - +
211A ALA* 1.3 73.4 - - - +
213A TRP* 1.3 65.9 + - - +
215A LYS* 3.2 23.1 + - - +
216A ASN* 2.6 54.8 + - - +
235A TYR* 3.2 20.9 - - - +
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Residues in contact with TRP 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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166A HIS* 5.0 2.1 + - - -
209A ASP 2.9 14.1 + - - +
210A LEU* 3.2 13.0 + - + +
212A GLN* 1.3 75.6 - - - +
214A GLU* 1.3 69.2 + - + +
216A ASN* 3.3 1.6 + - - +
217A GLU* 2.8 64.3 + - + +
235A TYR* 3.4 44.6 - + + +
274A PHE* 4.6 2.5 - - + -
278A VAL* 3.8 22.0 - - + -
282A HIS* 3.7 28.9 - + - -
286A ALA* 4.0 23.8 - - + -
287A SER 4.0 8.4 + - - -
288A ILE* 3.7 21.1 - - + +
218B LEU* 4.0 15.5 - - + -
222B ARG* 4.3 11.9 - - - -
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Residues in contact with GLU 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 LEU* 3.0 31.9 + - - +
211A ALA* 3.5 15.2 - - - +
213A TRP* 1.3 82.0 - - + +
215A LYS* 1.3 57.2 + - - +
217A GLU 3.4 0.2 + - - -
218A LEU* 2.9 30.5 + - - +
281A ALA* 5.3 0.5 - - - +
282A HIS* 2.8 43.0 + - + +
211B ALA 5.5 0.3 - - - +
214B GLU* 5.8 3.8 - - + +
215B LYS* 3.8 41.7 - - + +
218B LEU* 3.7 14.6 - - + +
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Residues in contact with LYS 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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211A ALA 3.0 17.1 + - - +
212A GLN* 3.7 22.7 + - - +
214A GLU* 1.3 75.3 - - - +
216A ASN* 1.3 64.3 + - - +
218A LEU* 3.5 6.0 + - - +
219A ARG* 3.1 23.0 + - - +
502A GLN* 5.9 1.4 + - - -
210B LEU* 6.5 0.4 - - - -
214B GLU* 3.9 39.2 - - - +
282B HIS* 5.4 5.1 - - + -
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Residues in contact with ASN 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A HIS* 4.9 8.1 + - + -
167A ALA* 3.8 22.0 - - - +
193A PHE* 4.1 14.9 - - - -
195A TYR* 2.8 24.0 + - - -
212A GLN* 2.6 42.9 + - - +
213A TRP 3.7 3.4 - - - +
215A LYS* 1.3 78.4 - - - +
217A GLU* 1.3 63.8 + - - +
219A ARG* 3.3 9.0 + - - +
220A ARG* 3.2 25.9 + - - +
225A VAL 4.6 1.0 - - - +
226A PRO* 5.6 0.5 - - - +
235A TYR* 4.1 13.9 - - + -
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Residues in contact with GLU 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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166A HIS* 3.4 19.0 + - - -
213A TRP* 2.8 47.8 + - + +
214A GLU 3.8 3.6 - - - +
216A ASN* 1.3 75.6 - - - +
218A LEU* 1.3 65.2 + - - +
220A ARG* 3.1 35.5 + - - +
221A TYR* 3.2 40.6 + - + -
229A ALA* 5.3 0.7 - - - +
218B LEU* 4.0 20.2 - - + -
222B ARG* 4.5 6.2 + - - -
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Residues in contact with LEU 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 GLU 2.9 17.4 + - - +
215A LYS* 3.8 6.5 - - - +
217A GLU* 1.3 76.0 - - - +
219A ARG* 1.3 58.0 + - - +
221A TYR* 3.1 3.7 + - + +
222A ARG* 2.8 52.3 + - + +
213B TRP* 4.0 19.3 - - + -
214B GLU* 3.8 37.0 - - + +
217B GLU* 3.9 5.2 - - + -
218B LEU* 3.8 33.4 - - + +
221B TYR* 3.8 16.6 - - + -
282B HIS* 4.4 7.6 - - + +
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Residues in contact with ARG 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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192A ALA* 5.8 2.0 - - - +
193A PHE* 3.8 27.4 - - - -
215A LYS 3.1 13.7 + - - +
216A ASN* 3.5 11.4 - - - +
217A GLU 3.2 0.4 - - - -
218A LEU* 1.3 78.5 - - - +
220A ARG* 1.3 56.0 + - - +
222A ARG* 4.5 2.7 - - - +
223A GLU* 2.7 67.1 + - + +
224A GLY 3.1 5.7 + - - -
225A VAL* 3.7 28.7 + - - +
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Residues in contact with ARG 220 (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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166A HIS* 3.5 32.8 + - + -
216A ASN 3.2 11.9 + - - +
217A GLU* 3.1 45.5 + - - +
218A LEU 3.2 0.4 - - - -
219A ARG* 1.3 77.0 - - - +
221A TYR* 1.3 59.6 + - - +
224A GLY* 3.0 23.3 + - - +
225A VAL 3.9 10.1 - - - +
226A PRO* 4.3 3.8 - - + -
227A ASN* 2.8 34.5 + - - +
228A THR* 3.1 18.7 + - - +
229A ALA* 3.6 36.1 + - + +
231A GLN 3.1 26.5 + - - -
233A THR* 3.2 14.6 + - - +
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Residues in contact with TYR 221 (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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217A GLU* 3.2 33.1 + - + -
218A LEU* 3.1 7.3 + - - +
220A ARG* 1.3 81.4 - - - +
222A ARG* 1.3 62.1 + - - +
224A GLY 4.8 0.5 + - - -
229A ALA* 3.6 29.2 + - + +
218B LEU* 3.8 13.5 - - + -
221B TYR* 3.6 55.9 + + + -
222B ARG* 3.7 39.0 + - + +
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Residues in contact with ARG 222 (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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218A LEU* 2.8 53.8 + - + +
219A ARG* 4.6 2.9 - - - +
221A TYR* 1.3 74.5 - - - +
223A GLU* 1.3 59.4 + - + +
213B TRP* 4.3 9.2 - - - -
217B GLU* 4.4 9.6 + - - -
221B TYR* 3.7 25.5 + - + +
282B HIS* 3.6 20.3 + - - +
283B CYS* 2.9 38.7 + - - +
284B CYS* 3.5 34.8 + - - +
285B GLY 4.3 0.4 - - - -
286B ALA* 3.7 19.4 - - - +
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Residues in contact with GLU 223 (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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219A ARG* 2.7 61.5 + - + +
222A ARG* 1.3 76.6 - - + +
224A GLY* 1.3 64.5 + - - +
225A VAL* 3.7 17.9 - - + +
283B CYS* 3.4 36.3 + - + +
284B CYS* 5.0 3.4 - - - -
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Residues in contact with GLY 224 (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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219A ARG 3.1 0.6 + - - -
220A ARG 3.0 21.9 + - - -
221A TYR 4.6 0.2 - - - -
222A ARG 3.8 0.4 - - - -
223A GLU* 1.3 79.5 - - - +
225A VAL* 1.3 59.4 + - - +
226A PRO 3.7 2.3 - - - +
227A ASN* 3.2 29.7 + - - -
228A THR* 4.0 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