Contacts of the helix formed by residues 191 - 205 (chain B) in PDB entry 4XXH
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 GLY 191 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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180B TYR* 4.5 0.7 + - - -
183B VAL* 3.2 31.3 + - - +
184B PRO 3.5 5.2 - - - -
185B HIS* 4.3 2.2 - - - -
187B ASP* 2.9 15.3 + - - -
190B THR* 1.3 78.5 - - - +
192B LYS* 1.3 64.0 + - - -
195B HIS* 3.2 27.2 + - - +
213B LEU* 5.2 0.2 - - - +
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Residues in contact with LYS 192 (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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185B HIS* 3.6 45.0 - - + +
187B ASP 2.9 8.3 + - - -
188B VAL* 3.4 20.2 - - + +
191B GLY* 1.3 68.7 - - - +
193B ARG* 1.3 64.5 + - + +
195B HIS* 3.8 0.7 - - - +
196B GLU* 2.9 67.6 + - - +
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Residues in contact with ARG 193 (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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147B ARG* 6.4 0.2 - - - +
148B ASP* 5.5 10.1 + - - -
157B TYR 5.7 2.2 + - - -
159B ASP* 4.0 19.8 + - + -
160B GLU* 4.8 8.9 - - + +
188B VAL* 3.0 41.4 + - + +
189B THR* 3.5 26.2 + - - +
192B LYS* 1.3 76.9 - - + +
194B ARG* 1.3 61.8 + - - +
196B GLU* 4.0 6.4 - - - +
197B ALA* 3.1 24.9 + - - +
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Residues in contact with ARG 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B TYR* 5.5 3.2 - - - +
159B ASP* 2.8 36.5 + - + +
162B ALA* 5.8 0.4 - - - +
163B ILE* 3.6 34.8 - - + +
180B TYR* 3.2 17.5 + - - +
189B THR* 3.3 9.7 + - - +
190B THR* 3.4 34.3 + - - +
192B LYS 3.3 0.6 - - - -
193B ARG* 1.3 76.2 - - - +
195B HIS* 1.3 59.7 + - - +
197B ALA 3.4 1.4 + - - -
198B TYR* 3.2 18.2 + - - +
239B ALA* 2.8 37.5 + - - -
264B VAL* 3.8 19.8 - - - +
282B PRO* 5.2 4.9 - - - +
2D G6P 2.8 45.5 + - - -
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Residues in contact with HIS 195 (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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180B TYR* 3.3 36.6 + + + -
185B HIS* 2.8 30.8 + + - +
191B GLY 3.2 20.4 + - - +
192B LYS 4.0 0.2 - - - +
194B ARG* 1.3 74.2 - - - +
196B GLU* 1.3 58.5 + - - +
198B TYR* 3.2 9.7 + + - +
199B LEU* 3.0 52.0 + - + +
211B ALA* 3.6 18.3 - - + +
213B LEU* 3.8 22.8 - - + +
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Residues in contact with GLU 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B HIS* 4.2 17.2 + - + -
192B LYS* 2.9 56.1 + - - +
193B ARG* 4.1 6.4 - - - +
195B HIS* 1.3 75.1 - - - +
197B ALA* 1.3 57.2 + - - +
199B LEU* 3.3 14.1 + - + +
200B ALA* 2.9 30.0 + - - +
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Residues in contact with ALA 197 (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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160B GLU* 3.8 26.2 - - + +
163B ILE* 3.7 22.3 - - + +
164B LYS* 5.0 4.0 + - + +
193B ARG 3.1 18.2 + - - +
194B ARG 3.6 5.2 - - - +
195B HIS 3.3 0.2 - - - -
196B GLU* 1.3 71.5 - - - +
198B TYR* 1.3 64.3 + - - +
200B ALA* 3.4 7.3 + - - +
201B PHE* 3.1 23.4 + - - +
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Residues in contact with TYR 198 (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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163B ILE* 3.5 11.3 - - + +
167B MET* 3.6 26.9 - - + -
178B ILE* 2.7 30.4 + - + -
179B SER 4.4 2.0 - - - -
180B TYR* 3.6 46.7 - + + -
194B ARG 3.2 10.6 + - - +
195B HIS* 3.3 18.2 - + - +
197B ALA* 1.3 78.3 - - - +
199B LEU* 1.4 62.6 + - + +
201B PHE* 3.4 5.8 + - - +
202B CYS* 3.1 43.9 + - - -
209B PRO* 3.4 22.3 - - + +
210B VAL 3.2 22.5 + - - -
211B ALA* 4.4 8.3 - - + -
237B LEU* 4.6 0.9 - - + -
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Residues in contact with LEU 199 (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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185B HIS* 5.7 1.6 - - + -
195B HIS* 3.0 48.4 + - + +
196B GLU* 3.6 17.7 - - + +
198B TYR* 1.4 78.6 - - + +
200B ALA* 1.3 59.3 + - - +
202B CYS* 3.3 5.4 + - - +
203B LYS* 3.0 30.4 + - - +
209B PRO* 3.8 31.8 - - + +
211B ALA* 5.9 0.4 - - + -
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Residues in contact with ALA 200 (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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196B GLU 2.9 16.9 + - - +
197B ALA* 3.7 7.9 - - - +
198B TYR 3.4 0.2 - - - -
199B LEU* 1.3 74.6 - - - +
201B PHE* 1.4 55.8 + - - +
203B LYS* 3.5 7.9 + - - +
204B ALA* 3.0 30.5 + - - +
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Residues in contact with PHE 201 (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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164B LYS* 4.1 15.5 - - + -
167B MET* 3.5 55.6 - - + -
168B GLN* 3.4 42.6 - - + -
171B TYR* 4.0 17.7 - + + -
178B ILE* 5.7 0.4 - - + -
197B ALA 3.1 16.1 + - - +
198B TYR 3.7 4.9 - - - +
199B LEU 3.3 0.2 - - - -
200B ALA* 1.4 73.9 - - - +
202B CYS* 1.4 64.3 + - - +
204B ALA* 3.4 2.4 + - - -
205B HIS* 2.8 61.3 + + - +
207B LEU* 4.2 7.4 - - + -
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Residues in contact with CYS 202 (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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167B MET* 4.0 9.0 - - - -
178B ILE* 5.0 2.0 - - - -
198B TYR* 3.1 51.8 + - - +
199B LEU 3.3 7.6 + - - +
201B PHE* 1.4 74.1 - - - +
203B LYS* 1.4 57.2 + - - +
205B HIS 3.4 0.5 + - - -
206B LYS* 3.0 11.3 + - - -
207B LEU* 2.8 58.7 + - - +
208B HIS 4.9 0.7 - - - -
209B PRO* 4.1 19.1 - - + -
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Residues in contact with LYS 203 (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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199B LEU 3.0 17.1 + - - +
200B ALA* 3.6 8.7 - - - +
202B CYS* 1.4 76.8 - - - +
204B ALA* 1.3 61.7 + - - +
205B HIS 3.3 1.0 + - - -
206B LYS* 3.5 10.3 + - - +
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Residues in contact with ALA 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200B ALA 3.0 17.9 + - - +
201B PHE* 3.4 1.5 + - - +
203B LYS* 1.3 75.2 - - - +
205B HIS* 1.4 77.7 + - + +
206B LYS 3.6 0.4 - - - -
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Residues in contact with HIS 205 (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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168B GLN* 3.5 18.1 + - - -
171B TYR* 3.8 43.6 + + + -
201B PHE* 2.8 57.3 + + - +
203B LYS 3.3 0.2 - - - -
204B ALA* 1.4 89.7 - - + +
206B LYS* 1.3 75.9 + - - +
207B LEU* 3.3 20.4 + - + +
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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