Contacts of the helix formed by residues 181 - 197 (chain B) in PDB entry 2BWJ
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 THR 181 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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180B GLY* 1.3 73.1 - - - +
182B PRO* 1.3 74.2 - - + +
183B GLU* 3.6 10.8 - - - +
184B ASP* 2.6 42.7 + - - +
185B VAL* 3.0 20.4 + - - +
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Residues in contact with PRO 182 (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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26B THR* 5.8 5.4 - - + -
27B GLN* 3.0 32.9 + - - +
30B LYS* 4.5 9.1 - - + -
180B GLY 3.6 4.0 - - - +
181B THR* 1.3 86.2 - - - +
183B GLU* 1.3 57.3 + - - +
185B VAL* 3.4 2.1 + - + -
186B PHE* 3.0 20.6 + - - +
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Residues in contact with GLU 183 (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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30B LYS* 5.5 3.1 - - - +
181B THR* 3.6 10.3 - - - +
182B PRO* 1.3 79.1 - - - +
184B ASP* 1.3 68.1 + - - +
186B PHE* 3.6 7.6 + - - +
187B LEU* 3.3 33.1 + - + +
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Residues in contact with ASP 184 (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 GLY* 4.9 4.8 - - - -
181B THR* 2.6 40.3 + - - +
183B GLU* 1.3 83.4 - - - +
185B VAL* 1.3 65.0 + - - +
187B LEU* 3.4 17.2 + - - +
188B GLN* 3.3 25.4 + - - +
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Residues in contact with VAL 185 (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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27B GLN* 3.7 17.7 - - + +
121B MET* 3.8 29.2 - - + -
176B ILE* 4.1 15.7 - - + +
177B ASN 3.6 18.6 - - - +
178B ALA* 4.0 11.4 - - - +
180B GLY* 3.7 18.2 - - - +
181B THR 3.0 14.8 + - - +
182B PRO* 3.7 1.8 - - + +
184B ASP* 1.3 76.1 - - + +
186B PHE* 1.3 56.3 + - - +
188B GLN* 3.1 10.2 + - - +
189B LEU* 3.0 28.9 + - + +
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Residues in contact with PHE 186 (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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27B GLN* 3.3 23.4 + - - +
30B LYS* 3.4 60.6 - - + -
31B LEU* 3.7 21.3 - - + -
34B LYS* 3.8 18.6 - - + -
182B PRO 3.0 15.2 + - - +
183B GLU* 3.8 6.5 - - - +
185B VAL* 1.3 76.9 - - - +
187B LEU* 1.3 60.4 + - + +
189B LEU* 3.2 5.8 + - + +
190B CYS* 2.9 52.5 + - - -
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Residues in contact with LEU 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B GLU* 3.3 22.9 + - + +
184B ASP* 3.6 21.1 - - - +
185B VAL 3.3 0.4 - - - -
186B PHE* 1.3 80.5 - - + +
188B GLN* 1.3 58.2 + - - +
190B CYS* 3.3 9.5 + - + +
191B THR* 2.9 35.5 + - - +
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Residues in contact with GLN 188 (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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175B LYS 4.4 2.9 - - - +
176B ILE* 3.7 19.5 - - + +
177B ASN* 3.2 50.9 + - - +
184B ASP 3.3 11.8 + - - +
185B VAL* 3.1 10.8 + - - +
187B LEU* 1.3 80.3 - - - +
189B LEU* 1.3 56.3 + - - +
191B THR* 3.3 8.5 + - - -
192B ALA* 3.0 28.1 + - - +
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Residues in contact with LEU 189 (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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16B ILE* 4.2 7.6 - - + -
27B GLN* 3.5 47.6 - - + +
31B LEU* 4.2 23.3 - - + -
119B ILE* 3.5 30.2 - - + +
121B MET* 4.5 4.7 - - - -
176B ILE* 3.3 31.0 - - + -
185B VAL* 3.0 16.7 + - + +
186B PHE* 3.3 7.6 - - + +
188B GLN* 1.3 73.4 - - - +
190B CYS* 1.3 60.4 + - - +
192B ALA* 3.4 3.6 + - - +
193B ILE* 2.9 34.4 + - - +
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Residues in contact with CYS 190 (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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31B LEU* 4.5 0.7 - - - -
34B LYS* 3.6 28.9 - - - -
35B TYR* 3.2 27.6 - - - +
186B PHE* 2.9 42.6 + - - +
187B LEU* 3.7 9.9 - - + +
189B LEU* 1.3 74.6 - - - +
191B THR* 1.3 60.1 + - - +
193B ILE* 4.4 0.7 - - - -
194B ASP* 2.8 41.0 + - - +
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Residues in contact with THR 191 (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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187B LEU* 2.9 25.7 + - - +
188B GLN* 3.5 9.6 - - - -
189B LEU 3.2 0.4 - - - -
190B CYS* 1.3 76.0 - - - +
192B ALA* 1.3 62.1 + - - +
194B ASP* 4.1 3.7 - - - +
195B SER* 3.1 26.6 + - - -
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Residues in contact with ALA 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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117B LEU* 3.9 8.2 - - + +
119B ILE* 5.1 2.2 - - + -
174B HIS* 3.5 30.1 - - + +
176B ILE* 4.3 14.1 - - + -
188B GLN 3.0 13.5 + - - +
189B LEU 3.5 8.1 - - - +
191B THR* 1.3 74.5 - - - +
193B ILE* 1.3 63.2 + - - +
195B SER* 2.7 24.0 + - - -
196B ILE* 3.3 13.2 - - - +
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Residues in contact with ILE 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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14B ILE* 4.2 7.0 - - + -
31B LEU* 3.4 39.0 - - + -
35B TYR* 3.7 31.0 - - + +
37B PHE* 4.2 18.6 - - + -
94B LEU* 6.0 0.2 - - + -
117B LEU* 4.0 20.4 - - + -
119B ILE* 4.1 11.9 - - + -
189B LEU 2.9 22.8 + - - +
190B CYS 4.0 2.9 - - - +
192B ALA* 1.3 75.3 - - - +
194B ASP* 1.3 63.4 + - - +
195B SER 3.3 0.2 + - - -
196B ILE 3.3 1.0 + - - -
197B PHE* 3.1 43.6 + - + +
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Residues in contact with ASP 194 (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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34B LYS* 5.0 5.2 + - - -
35B TYR* 2.9 31.4 + - - -
190B CYS* 2.8 31.5 + - - +
191B THR* 4.1 4.6 - - - +
193B ILE* 1.3 73.7 - - - +
195B SER* 1.3 60.0 + - - +
196B ILE 3.5 0.3 + - - -
197B PHE 3.5 6.9 + - - +
198B LEU* 3.1 31.6 - - + +
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Residues in contact with SER 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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174B HIS* 3.8 7.2 - - - -
191B THR* 3.1 17.5 + - - -
192B ALA* 2.7 22.9 + - - -
194B ASP* 1.3 77.4 - - - +
196B ILE* 1.3 69.1 + - - +
198B LEU* 5.1 2.3 - - - +
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Residues in contact with ILE 196 (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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116B GLN* 3.8 27.6 - - + +
117B LEU* 3.9 10.1 - - + -
174B HIS* 3.6 21.8 - - - +
192B ALA 3.3 8.7 - - - +
193B ILE 3.3 2.0 + - - +
194B ASP 3.3 0.2 - - - -
195B SER* 1.3 106.6 - - - +
197B PHE* 1.3 98.6 + - + +
198B LEU* 3.6 7.7 + - - +
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Residues in contact with PHE 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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12B LYS* 3.5 52.1 - - + +
14B ILE* 3.7 34.5 - - + -
116B GLN* 3.4 45.1 - - + -
117B LEU* 4.3 9.9 - - + -
193B ILE* 3.1 36.5 + - + +
194B ASP* 3.5 5.9 + - - +
196B ILE* 1.3 90.5 - - + +
198B LEU* 1.3 60.8 + - - +
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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