Contacts of the helix formed by residues 207 - 229 (chain A) in PDB entry 1FQY
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 SER 207 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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205A ASN 3.9 2.6 + - - -
206A PHE* 1.3 76.8 - - - +
208A ASN* 1.3 60.0 + - - +
210A TRP* 4.1 5.4 + - - +
211A ILE* 3.2 37.1 + - - +
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Residues in contact with ASN 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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130A ALA* 3.6 8.7 - - + +
135A SER 5.4 4.6 - - - +
138A GLY* 5.3 4.0 - - - -
139A LEU* 3.5 28.7 - - - +
187A THR* 4.6 8.7 - - - +
206A PHE* 2.6 27.6 - - + -
207A SER* 1.3 76.2 + - - +
209A HIS* 1.3 54.4 + - - +
210A TRP 2.3 21.2 + - - -
211A ILE* 2.5 16.3 + - - +
212A PHE* 2.7 44.4 + - - -
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Residues in contact with HIS 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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129A LEU* 5.7 0.9 - - + -
130A ALA* 3.8 8.1 - - + +
196A SER* 3.6 23.8 + - - +
199A SER* 6.2 0.2 - - - +
200A ALA* 4.0 15.5 - - + +
204A HIS* 3.6 40.1 + - + +
206A PHE* 2.7 34.4 + - - +
208A ASN* 1.3 74.7 - - - +
210A TRP* 1.3 98.2 + + - +
212A PHE* 2.8 42.7 - - + +
213A TRP* 3.8 1.7 + - - +
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Residues in contact with TRP 210 (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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102A CYS* 5.5 8.3 - - - -
193A PRO* 4.7 22.9 - - + -
196A SER* 4.6 2.8 - - - -
197A PHE* 3.4 41.2 - + - +
207A SER 4.1 4.6 + - - +
208A ASN 2.3 15.8 + - - -
209A HIS* 1.3 116.4 + + - +
211A ILE* 1.3 61.4 + - - +
212A PHE 2.5 6.3 - - - -
213A TRP* 2.8 57.9 + + + +
214A VAL* 3.1 16.0 + - - +
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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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139A LEU* 3.3 43.4 - - + +
142A GLU* 4.4 1.4 - - - +
143A ILE* 5.8 0.2 - - - +
207A SER* 3.2 34.9 + - - +
208A ASN* 2.5 12.1 + - - +
210A TRP* 1.3 74.4 - - - +
212A PHE* 1.3 62.0 + - - +
214A VAL* 3.3 15.6 - - + +
215A GLY* 3.2 17.7 + - - -
218A ILE* 5.6 0.2 - - - +
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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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129A LEU* 3.6 16.4 - - + -
130A ALA* 3.3 41.3 - - + -
138A GLY 5.2 8.1 - - - -
139A LEU* 5.4 1.6 - - + -
142A GLU* 3.3 24.2 - - - +
187A THR* 4.6 13.0 - - - -
195A ARG* 3.5 23.6 - - - +
196A SER* 4.2 0.7 - - - -
208A ASN* 2.7 44.1 + - - -
209A HIS* 2.8 36.1 - - + +
210A TRP 2.5 2.0 - - - -
211A ILE 1.3 77.1 - - - +
213A TRP* 1.3 53.8 + - - +
215A GLY* 3.0 2.6 + - - -
216A PRO* 2.4 38.6 - - - +
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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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77A PRO* 3.8 27.0 - - + +
78A ALA* 4.1 13.7 - - - -
81A LEU* 4.1 17.9 - - + -
98A ILE* 5.0 10.9 - - + +
193A PRO* 4.1 19.4 - - + +
195A ARG* 5.6 0.9 - - - +
209A HIS 3.8 0.8 + - - +
210A TRP* 2.8 57.8 + + + +
212A PHE* 1.3 75.8 - - - +
214A VAL* 1.3 60.1 + - + +
215A GLY 2.5 13.9 + - - -
216A PRO* 2.8 19.8 - - + -
217A PHE* 3.1 50.5 - + + -
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Residues in contact with VAL 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 TRP 3.1 16.8 + - - +
211A ILE* 3.3 28.3 - - + +
213A TRP* 1.3 77.5 - - + +
215A GLY* 1.3 48.6 + - - +
217A PHE* 3.4 9.2 - - + +
218A ILE* 2.7 53.8 + - + +
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Residues in contact with GLY 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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142A GLU* 4.3 0.2 - - - -
143A ILE* 3.9 19.0 - - - +
211A ILE 3.2 12.4 + - - -
212A PHE 3.0 4.6 + - - -
213A TRP 2.5 6.3 + - - -
214A VAL* 1.3 71.5 - - - +
216A PRO* 1.4 59.9 - - - -
218A ILE* 2.8 18.7 - - - +
219A GLY* 2.6 32.9 + - - -
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Residues in contact with PRO 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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78A ALA* 4.0 17.7 - - + +
142A GLU* 3.2 32.1 - - + +
143A ILE* 4.9 1.1 - - - -
146A THR* 3.8 25.0 - - + +
190A GLY 4.7 2.7 - - - +
191A ILE 4.8 10.3 - - - +
192A ASN 5.0 1.6 - - - +
193A PRO* 5.2 6.1 - - + -
195A ARG* 5.4 2.0 - - - +
212A PHE 2.4 30.3 - - - +
213A TRP* 2.8 16.9 - - + +
215A GLY* 1.4 71.9 - - - +
217A PHE* 1.3 52.5 + - - +
219A GLY* 3.6 1.2 - - - +
220A GLY* 2.6 33.3 + - - -
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Residues in contact with PHE 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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78A ALA* 4.9 3.4 - - - +
81A LEU* 3.6 34.3 - - + -
85A LEU* 5.4 11.9 - - + -
213A TRP* 3.1 41.2 + + + -
214A VAL* 3.4 11.9 - - - +
215A GLY 2.9 1.0 + - - -
216A PRO* 1.3 77.5 - - - +
218A ILE* 1.3 66.6 + - + +
220A GLY* 2.9 4.9 + - - -
221A ALA* 2.3 51.0 + - + +
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Residues in contact with ILE 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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143A ILE* 4.9 14.4 - - + -
214A VAL* 2.7 45.2 + - + +
215A GLY* 2.8 20.5 + - - +
217A PHE* 1.3 82.8 - - + +
219A GLY* 1.3 64.4 + - - +
221A ALA* 2.9 16.5 + - + +
222A LEU* 3.0 26.7 + - + +
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Residues in contact with GLY 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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143A ILE* 3.2 31.0 - - - -
146A THR* 5.2 0.4 - - - -
147A LEU* 3.0 37.3 - - - +
215A GLY 2.6 18.2 + - - -
216A PRO* 3.7 2.2 - - - -
218A ILE* 1.3 73.8 - - - +
220A GLY* 1.3 56.0 + - - +
222A LEU* 3.7 2.4 + - - +
223A ALA* 3.0 9.4 + - - +
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Residues in contact with GLY 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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78A ALA* 5.5 3.8 - - - -
82A GLY* 5.1 2.9 - - - -
85A LEU* 5.4 0.6 - - - +
146A THR* 4.4 1.4 - - - +
150A VAL* 4.1 19.5 - - - +
216A PRO 2.6 18.9 + - - -
217A PHE* 3.0 5.2 - - - -
219A GLY* 1.3 73.2 - - - +
221A ALA* 1.3 59.3 + - - +
223A ALA* 3.0 24.1 + - - +
224A VAL* 3.1 18.0 + - - +
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Residues in contact with ALA 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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85A LEU* 5.2 11.9 - - - +
217A PHE* 2.3 43.6 + - + +
218A ILE* 2.9 20.8 + - + +
220A GLY* 1.3 68.4 - - - +
222A LEU* 1.3 63.6 + - + +
223A ALA 2.9 4.4 + - - -
224A VAL* 3.6 2.1 + - - +
225A LEU* 3.4 18.9 + - - +
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Residues in contact with LEU 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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143A ILE* 6.6 0.4 - - + -
147A LEU* 5.3 7.6 - - + -
218A ILE* 3.0 20.1 + - + +
219A GLY* 4.4 3.1 - - - +
221A ALA* 1.3 80.7 - - + +
223A ALA* 1.3 58.1 + - - +
224A VAL 3.4 0.2 - - - -
225A LEU* 3.7 24.5 - - + -
226A ILE* 2.8 46.1 + - + +
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Residues in contact with ALA 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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147A LEU* 3.2 28.9 - - + +
150A VAL* 4.2 12.3 - - + -
151A LEU* 3.6 7.6 - - + +
219A GLY 3.0 18.9 + - - +
220A GLY* 3.0 20.9 - - - +
221A ALA 2.9 0.6 - - - -
222A LEU* 1.3 79.3 - - - +
224A VAL* 1.3 56.3 + - - +
226A ILE* 3.4 5.0 - - - +
227A TYR* 3.1 25.3 + - - +
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Residues in contact with VAL 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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82A GLY* 3.3 45.5 - - - +
85A LEU* 4.4 23.6 - - + +
150A VAL* 4.5 9.4 - - + -
154A LEU* 4.1 21.1 - - + -
220A GLY 3.1 12.2 + - - +
221A ALA 4.6 1.8 - - - +
223A ALA* 1.3 74.3 - - - +
225A LEU* 1.3 58.0 + - - +
226A ILE 3.2 0.9 - - - -
227A TYR* 3.5 4.7 - - - -
228A ASP* 2.7 37.6 + - + +
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Residues in contact with LEU 225 (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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221A ALA 3.4 16.2 + - - +
222A LEU* 3.7 27.4 - - + +
224A VAL* 1.3 81.4 - - - +
226A ILE* 1.3 63.7 + - + +
228A ASP* 3.9 5.9 - - + +
229A PHE* 3.2 28.0 + - + -
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Residues in contact with ILE 226 (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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147A LEU* 4.1 26.2 - - + -
151A LEU* 4.5 13.9 - - + -
222A LEU* 2.8 36.3 + - + +
223A ALA 3.4 10.1 - - - +
225A LEU* 1.3 82.4 - - + +
227A TYR* 1.3 61.4 + - - +
228A ASP 3.3 0.2 - - - -
229A PHE* 3.3 29.7 - - + -
230A ILE* 3.0 25.5 + - - +
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Residues in contact with TYR 227 (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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151A LEU* 2.9 36.8 - - + -
154A LEU* 4.3 21.8 - - + -
155A ALA* 3.0 36.3 - - + +
158A ASP* 3.6 28.0 + - - -
223A ALA 3.1 18.1 + - - +
224A VAL* 3.3 8.7 + - - +
226A ILE* 1.3 80.6 - - - +
228A ASP* 1.3 60.7 + - - +
230A ILE* 3.2 31.3 - - + +
231A LEU 4.4 1.4 + - - +
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Residues in contact with ASP 228 (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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224A VAL* 2.7 22.6 + - + +
225A LEU* 3.6 8.9 + - + +
226A ILE 3.3 0.4 - - - -
227A TYR* 1.3 74.8 - - - +
229A PHE* 1.3 66.1 + - - +
230A ILE 2.8 6.0 + - - -
231A LEU 3.2 18.0 + - - +
232A ALA* 3.9 1.9 + - - -
233A PRO* 2.9 37.1 - - - +
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Residues in contact with PHE 229 (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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225A LEU* 3.2 26.6 + - + +
226A ILE* 3.3 41.1 - - + -
228A ASP* 1.3 77.9 - - - +
230A ILE* 1.3 76.4 + - + +
231A LEU* 3.1 4.3 + - - +
232A ALA* 4.7 2.5 + - - +
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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
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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