Contacts of the helix formed by residues 206 - 225 (chain A) in PDB entry 6EBT
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 VAL 206 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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202A GLU* 2.9 36.6 + - + +
204A HIS 3.7 0.2 - - - -
205A GLU* 1.3 89.1 - - + +
207A LEU* 1.3 65.5 + - - +
208A LEU 3.6 0.9 - - - -
209A PRO* 3.7 1.0 - - - +
210A GLY* 3.1 18.0 + - - -
420A ALA 4.1 8.7 - - - +
421A ARG* 4.2 14.8 - - - -
424A GLY* 3.6 17.7 - - - -
425A ASP* 3.8 22.9 - - - +
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Residues in contact with LEU 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A GLU 3.1 3.8 + - - +
203A VAL* 3.6 22.4 - - + +
206A VAL* 1.3 80.8 - - - +
208A LEU* 1.3 63.4 + - - +
210A GLY* 3.7 0.5 - - - -
211A LEU* 3.0 38.0 + - + +
262A ILE* 3.5 38.4 - - + -
328A MET* 3.9 25.8 - - + -
420A ALA* 3.8 15.3 - - + +
423A LEU* 3.5 36.3 - - + -
424A GLY* 3.9 8.8 - - - +
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Residues in contact with LEU 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A VAL* 2.9 40.3 + - + +
204A HIS* 4.4 21.1 - - + +
207A LEU* 1.3 72.4 - - - +
209A PRO* 1.3 63.6 - - + +
211A LEU* 3.2 2.7 + - + +
212A GLN* 2.8 30.7 + - - +
259A MET* 3.5 47.3 - - + +
262A ILE* 4.0 21.8 - - + -
263A LYS* 4.1 24.7 - - + -
266A MET* 6.0 0.2 - - + -
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Residues in contact with PRO 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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203A VAL 3.8 1.1 - - - +
204A HIS 3.2 28.9 - - - +
205A GLU* 3.4 17.9 - - - +
206A VAL 3.6 11.7 - - - +
208A LEU* 1.3 92.0 - - + +
210A GLY* 1.3 59.5 + - - +
212A GLN* 3.5 7.5 + - + +
213A LYS* 3.2 31.6 + - + +
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Residues in contact with GLY 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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206A VAL 3.1 17.1 + - - -
207A LEU 3.7 2.9 - - - -
208A LEU 3.2 0.2 - - - -
209A PRO* 1.3 73.9 - - - +
211A LEU* 1.3 64.4 + - - +
213A LYS* 3.3 5.6 + - - +
214A LEU 3.1 17.7 + - - -
424A GLY 3.9 7.0 - - - -
427A SER* 3.4 16.0 - - - -
428A VAL* 3.9 25.1 - - - +
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Residues in contact with LEU 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 LEU* 3.0 31.9 + - + +
208A LEU* 3.8 5.2 - - - +
210A GLY* 1.3 75.3 - - - +
212A GLN* 1.3 57.8 + - - +
214A LEU* 3.2 3.1 + - + +
215A HIS* 2.8 30.7 + - - +
255A VAL* 3.4 16.2 - - + +
258A ALA* 4.6 5.2 - - + -
259A MET* 3.8 23.8 - - + -
262A ILE* 3.4 33.9 - - + -
331A THR* 4.0 22.4 - - + -
335A LEU* 4.3 11.4 - - + -
423A LEU* 5.1 0.9 - - + +
427A SER* 3.5 20.1 - - - +
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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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208A LEU 2.8 16.7 + - - +
209A PRO* 3.7 8.7 - - + +
210A GLY 3.2 0.2 - - - -
211A LEU* 1.3 77.6 - - - +
213A LYS* 1.3 57.8 + - + +
215A HIS* 3.3 16.5 + - - +
216A ASP* 2.9 67.2 + - - +
259A MET* 3.2 27.3 - - + +
263A LYS* 5.7 0.9 + - - -
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Residues in contact with LYS 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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209A PRO* 3.2 22.5 + - + +
210A GLY* 3.3 7.2 + - - +
212A GLN* 1.3 76.4 - - + +
214A LEU* 1.3 62.5 + - - +
216A ASP* 3.3 8.5 + - - +
217A ALA* 3.0 25.6 + - - +
428A VAL* 4.3 23.6 - - + -
431A THR* 3.8 15.8 - - + +
432A GLU* 4.4 17.9 - - - -
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Residues in contact with LEU 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 GLY 3.1 12.5 + - - +
211A LEU* 3.2 7.6 + - + +
213A LYS* 1.3 76.7 - - - +
215A HIS* 1.3 64.6 + - - +
217A ALA 3.4 0.5 + - - -
218A LEU* 2.9 51.5 + - + +
255A VAL* 4.2 11.0 - - + -
335A LEU* 3.4 32.8 - - + -
338A ILE* 5.4 1.1 - - + -
380A MET* 5.0 0.9 - - + -
427A SER* 4.2 16.8 - - - +
430A PHE* 3.6 32.3 - - + -
431A THR* 3.1 25.5 + - - +
435A VAL* 4.0 8.7 - - + -
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Residues in contact with HIS 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 LEU 2.8 21.8 + - - +
212A GLN* 3.4 16.7 + - - +
214A LEU* 1.3 73.7 - - - +
216A ASP* 1.3 72.7 + - - +
218A LEU* 3.2 4.4 + - - +
219A ASP* 2.8 38.3 + - + +
252A VAL* 3.4 43.3 - - + +
255A VAL* 3.7 14.8 - - + +
256A LYS* 3.9 28.3 - - + +
259A MET* 4.8 4.7 - - - -
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Residues in contact with ASP 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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212A GLN* 2.9 53.0 + - - +
213A LYS* 3.8 7.0 - - - +
215A HIS* 1.3 81.0 + - - +
217A ALA* 1.3 57.8 + - - +
219A ASP* 3.3 6.0 + - - +
220A ALA* 2.9 28.1 + - - +
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Residues in contact with ALA 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 LYS 3.0 8.3 + - - +
214A LEU 3.9 2.2 - - - +
216A ASP* 1.3 76.7 - - - +
218A LEU* 1.3 62.6 + - - +
220A ALA* 3.3 6.8 + - - +
221A LYS* 3.1 27.4 + - - +
431A THR* 3.4 33.0 - - + -
435A VAL* 3.8 16.4 - - + -
436A VAL* 3.9 13.9 - - + -
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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 LEU* 2.9 46.1 + - + +
215A HIS* 3.7 3.4 - - - +
217A ALA* 1.3 76.3 - - - +
219A ASP* 1.3 58.4 + - - +
221A LYS* 3.3 4.6 + - - +
222A SER* 2.9 27.9 + - - -
248A PHE* 4.0 27.2 - - + -
251A TYR* 4.2 23.1 - - + +
252A VAL* 3.5 15.3 - - + +
255A VAL* 3.8 21.1 - - + -
338A ILE* 4.5 12.1 - - + -
342A ILE* 4.6 2.5 - - + -
435A VAL* 4.0 21.8 - - + -
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Residues in contact with ASP 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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215A HIS* 2.8 25.5 + - + +
216A ASP* 3.6 8.3 - - - +
218A LEU* 1.3 74.7 - - - +
220A ALA* 1.3 64.2 + - - +
222A SER* 3.2 6.4 + - - -
223A LYS* 3.1 57.2 + - - +
252A VAL* 3.4 26.7 - - + +
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Residues in contact with ALA 220 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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216A ASP 2.9 13.8 + - - +
217A ALA* 3.6 11.0 - - - +
218A LEU 3.3 0.2 - - - -
219A ASP* 1.3 77.6 + - - +
221A LYS* 1.3 60.1 + - + +
223A LYS* 3.4 9.8 + - - +
224A GLU* 2.9 30.4 + - - +
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Residues in contact with LYS 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 ALA 3.1 14.7 + - - +
218A LEU 3.8 6.7 - - - +
219A ASP 3.3 0.2 - - - -
220A ALA* 1.3 75.8 - - - +
222A SER* 1.3 60.5 + - - +
224A GLU* 3.2 28.6 + - - +
225A PHE* 2.8 53.7 + - + -
248A PHE* 4.0 19.1 - - + -
435A VAL* 3.3 24.2 - - + +
436A VAL* 3.1 29.5 + - - +
437A GLY 4.3 0.6 - - - -
438A ILE* 2.7 30.3 + - + +
439A GLN* 5.7 0.4 - - - +
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Residues in contact with SER 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 2.9 14.2 + - - -
219A ASP* 3.2 15.7 + - - -
221A LYS* 1.3 75.6 - - - +
223A LYS* 1.3 62.4 + - - +
226A ALA* 3.1 20.6 + - - +
245A GLY* 2.6 36.1 + - - -
248A PHE* 3.8 16.3 - - - +
249A SER* 3.3 17.7 + - - -
252A VAL* 4.5 1.1 - - - -
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Residues in contact with LYS 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 ASP* 3.1 46.8 + - - +
220A ALA* 3.7 9.0 - - - +
222A SER* 1.3 74.8 - - - +
224A GLU* 1.3 65.4 + - - +
225A PHE 3.2 0.7 + - - -
226A ALA* 3.3 20.3 + - - +
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Residues in contact with GLU 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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220A ALA* 2.9 17.9 + - - +
221A LYS* 3.2 39.8 + - - +
223A LYS* 1.3 76.7 - - - +
225A PHE* 1.3 80.4 + - + +
226A ALA 3.4 0.7 + - - -
227A GLN* 5.1 1.7 + - - +
228A ILE* 4.8 3.6 - - - +
438A ILE 4.5 1.4 - - - +
439A GLN* 5.5 2.1 - - - +
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Residues in contact with PHE 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 LYS* 2.8 41.1 + - + +
222A SER 3.5 2.7 - - - -
224A GLU* 1.3 99.7 - - + +
226A ALA* 1.3 62.9 + - - +
227A GLN 3.2 4.9 + - - -
228A ILE* 3.3 29.5 + - + +
244A LEU* 3.8 30.1 + - + -
245A GLY* 2.9 25.3 + - - +
248A PHE* 4.3 12.8 - + - -
356A LEU* 4.5 0.9 - - + -
438A ILE* 3.8 34.1 - - + -
439A GLN* 4.2 1.3 - - - -
440A ALA* 3.9 26.2 - - + -
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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
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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