Contacts of the helix formed by residues 209 - 226 (chain A) in PDB entry 4BHT
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 GLU 209 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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206A ILE* 3.0 36.3 + - - +
208A PRO* 1.3 87.9 - - - +
210A ALA* 1.3 58.4 + - - +
211A THR 3.5 1.1 - - - -
212A GLY 3.5 3.3 + - - -
213A TYR* 2.9 64.5 + - + +
246A TYR* 3.4 41.6 + - + +
249A GLU* 4.5 1.6 - - - +
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Residues in contact with ALA 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 ILE 2.8 14.1 + - - +
207A ARG* 3.2 12.9 + - + +
208A PRO 3.3 0.4 - - - -
209A GLU* 1.3 77.1 - - - +
211A THR* 1.3 57.4 + - - +
213A TYR* 3.4 1.4 + - - +
214A GLY* 2.9 28.9 + - - -
375A GLY* 3.6 11.1 - - - +
376A GLY* 3.9 6.5 - - - +
379A THR* 3.4 35.4 - - + +
402A LEU* 3.8 13.6 - - + +
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Residues in contact with THR 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 ARG 4.8 1.1 + - - -
208A PRO 4.9 1.2 + - - -
209A GLU 3.5 0.2 - - - -
210A ALA* 1.3 76.5 - - - +
212A GLY* 1.3 57.1 + - - +
214A GLY* 3.4 0.5 + - - -
215A LEU* 3.0 29.1 + - - +
242A ASN* 4.8 7.5 + - - +
243A VAL* 3.7 36.4 - - + +
346A GLY* 3.9 11.4 - - - +
372A ALA 4.6 1.9 - - - +
373A ASN* 3.6 22.0 + - + +
375A GLY* 4.4 1.6 - - - -
376A GLY* 3.3 24.3 - - - +
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Residues in contact with GLY 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 PRO 5.5 0.4 + - - -
209A GLU 3.5 3.8 + - - -
210A ALA 3.4 0.4 - - - -
211A THR* 1.3 76.8 - - - +
213A TYR* 1.3 64.3 + - - +
215A LEU* 3.3 6.1 + - - +
216A VAL* 3.2 26.7 + - - +
242A ASN* 5.2 0.4 + - - +
243A VAL* 3.5 28.4 + - - +
246A TYR* 3.9 3.3 - - - +
247A ALA* 3.5 18.4 - - - -
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Residues in contact with TYR 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A ILE* 4.1 16.9 - - + +
209A GLU* 2.9 45.9 + - + +
210A ALA 3.7 3.1 - - - +
212A GLY* 1.3 74.4 - - - +
214A GLY* 1.3 51.7 + - - +
216A VAL* 3.2 5.2 + - - +
217A TYR* 2.8 43.2 + - + -
246A TYR* 3.5 21.5 - - + -
249A GLU* 2.3 37.1 + - + +
250A LYS* 3.6 39.4 + - + +
253A GLU* 5.0 0.5 + - - -
399A ASP* 3.4 25.8 - - - -
402A LEU* 4.0 9.9 - - + -
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Residues in contact with GLY 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 ALA 2.9 16.6 + - - -
211A THR 3.8 0.9 - - - -
213A TYR* 1.3 73.9 - - - +
215A LEU* 1.3 57.1 + - - +
217A TYR* 3.5 5.5 - - - +
218A PHE* 2.7 36.7 + - - +
372A ALA 3.9 5.2 - - - -
375A GLY* 4.6 3.4 - - - -
402A LEU* 4.4 2.0 - - - +
406A MET* 3.5 28.5 - - - +
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Residues in contact with LEU 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 THR 3.0 18.3 + - - +
212A GLY 3.5 4.7 - - - +
214A GLY* 1.3 76.5 - - - +
216A VAL* 1.3 59.6 + - - +
218A PHE* 3.6 1.6 - - - +
219A THR* 2.9 35.4 + - - +
243A VAL* 5.1 1.1 - - + -
247A ALA* 4.1 15.5 - - + -
319A LEU* 4.1 19.1 - - + -
321A CYS* 3.9 17.7 - - - -
344A ALA* 3.7 26.2 - - + -
345A GLU 3.7 22.4 - - - +
346A GLY* 3.7 21.1 - - - +
372A ALA* 3.3 20.0 + - + +
373A ASN* 5.3 0.2 - - - -
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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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212A GLY 3.2 10.1 + - - +
213A TYR 3.2 7.7 + - - +
215A LEU* 1.3 73.2 - - + +
217A TYR* 1.3 66.8 + - - +
219A THR* 4.4 0.7 - - - -
220A GLU* 2.9 27.4 + - - +
230A PHE* 3.8 21.6 - - + -
247A ALA* 3.4 31.4 - - + +
250A LYS* 3.6 22.7 - - + -
251A ALA* 3.9 18.8 - - + +
254A PHE* 3.6 19.7 - - + -
319A LEU* 4.7 5.8 - - + -
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Residues in contact with TYR 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 TYR* 2.8 32.0 + - + -
214A GLY* 3.5 10.3 - - - +
216A VAL* 1.3 74.2 - - - +
218A PHE* 1.3 63.0 + - - +
220A GLU* 3.4 5.3 + - - +
221A ALA* 3.3 18.9 + - - +
250A LYS* 3.3 25.6 + - + -
254A PHE* 3.7 24.5 - + - -
399A ASP* 2.5 41.4 + - - -
402A LEU* 4.1 5.6 - - + -
403A HIS* 3.4 68.3 + + + -
406A MET* 4.0 11.0 - - + -
407A LEU* 4.7 5.5 - - - +
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Residues in contact with PHE 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 GLY 2.7 20.1 + - - +
215A LEU 3.6 3.6 - - - +
217A TYR* 1.3 74.3 - - - +
219A THR* 1.3 63.6 + - - +
221A ALA* 3.3 8.6 + - - +
222A MET* 3.1 20.4 + - + +
367A ALA* 3.5 32.5 - - + -
371A ALA* 3.9 25.6 - - + -
372A ALA* 3.9 15.9 - - + -
406A MET* 3.8 35.3 - - + +
409A ILE* 4.0 4.5 - - + -
410A HIS* 3.6 33.1 - + + -
413A CYS* 4.3 2.0 - - - -
425A TYR* 3.9 27.4 - + - -
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Residues in contact with THR 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 LEU* 2.9 25.9 + - - +
218A PHE* 1.3 73.3 - - - +
220A GLU* 1.3 59.8 + - - +
222A MET* 3.4 17.5 + - + +
223A LEU* 2.9 43.1 + - + +
230A PHE* 3.5 31.2 - - + -
317A ILE* 4.5 11.4 - - + -
319A LEU* 4.3 1.5 - - + +
342A ALA* 5.1 1.1 - - + -
344A ALA* 3.0 33.0 - - + +
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Residues in contact with GLU 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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216A VAL 2.9 18.5 + - - +
217A TYR 3.7 4.5 - - - +
219A THR* 1.3 74.7 - - - +
221A ALA* 1.3 58.2 + - - +
223A LEU* 3.3 2.4 + - - +
224A LYS* 2.7 71.3 + - + +
229A GLY* 3.7 3.8 - - - -
230A PHE* 3.0 35.8 + - + -
231A GLU 5.6 0.2 + - - -
254A PHE* 3.8 30.4 - - + +
403A HIS* 6.3 0.4 - - - +
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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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217A TYR 3.3 5.4 + - - +
218A PHE* 3.3 6.8 + - - +
220A GLU* 1.3 76.7 - - - +
222A MET* 1.3 63.1 + - - +
224A LYS* 3.2 7.9 + - - +
225A ARG* 3.0 25.6 + - - +
407A LEU* 3.9 26.8 - - + +
410A HIS* 3.5 34.4 + - + +
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Residues in contact with MET 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 PHE* 3.1 14.4 + - + +
219A THR* 3.6 22.4 - - + +
220A GLU 3.3 0.2 - - - -
221A ALA* 1.3 77.6 - - - +
223A LEU* 1.3 61.5 + - - +
225A ARG* 3.5 0.5 + - - +
226A HIS* 2.7 30.9 + - - +
342A ALA* 4.1 22.0 - - + -
343A VAL 4.1 8.7 - - - +
344A ALA* 4.4 0.7 - - + -
365A LEU* 4.1 16.9 - - + +
366A PHE 4.0 2.2 - - - -
367A ALA* 3.6 39.0 - - + +
410A HIS* 3.3 13.2 + - + +
425A TYR* 3.4 38.8 - - + +
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Residues in contact with LEU 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 THR* 2.9 27.9 + - + +
220A GLU* 3.6 4.5 - - - +
222A MET* 1.3 78.3 - - + +
224A LYS* 1.3 53.0 + - - +
226A HIS* 2.9 16.5 + - - +
227A GLY 3.1 0.7 + - - -
228A MET* 2.8 53.6 + - + +
229A GLY* 3.6 26.0 - - - +
230A PHE* 3.7 17.3 - - + +
233A MET* 6.4 0.4 - - - -
317A ILE* 3.7 25.1 - - + -
341A LYS* 5.7 0.9 - - + -
342A ALA* 3.8 28.9 - - + -
365A LEU* 4.2 10.5 - - + -
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Residues in contact with LYS 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 GLU* 2.7 55.1 + - + +
221A ALA* 3.6 6.5 - - - +
223A LEU* 1.3 70.6 - - - +
225A ARG* 1.3 67.2 + - - +
226A HIS 3.1 0.7 + - - -
227A GLY* 3.1 11.8 + - - -
228A MET 3.1 27.5 + - - +
229A GLY* 4.0 6.4 - - - -
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Residues in contact with ARG 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 3.0 16.4 + - - +
222A MET 3.6 1.1 - - - +
224A LYS* 1.3 77.4 - - - +
226A HIS* 1.3 84.7 + - + +
227A GLY 3.7 1.0 + - - -
410A HIS* 4.3 5.2 - - + -
414A VAL* 3.5 44.7 - - - +
418A GLY 5.0 6.9 + - - -
420A GLY 5.9 1.2 + - - -
423A THR* 2.9 23.2 + - - +
425A TYR* 3.9 2.9 - - - -
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Residues in contact with HIS 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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222A MET 2.7 20.2 + - - +
223A LEU 2.9 10.9 + - - +
225A ARG* 1.3 105.0 + - + +
227A GLY* 1.3 57.5 + - - +
228A MET* 3.5 24.8 - - + +
365A LEU* 3.6 25.8 - - + +
421A GLU 4.0 6.1 - - - -
422A GLN* 3.6 19.1 - - + +
423A THR* 3.4 24.9 + - - -
425A TYR* 3.4 20.9 - + - -
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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