Contacts of the helix formed by residues 158 - 175 (chain B) in PDB entry 2WA2
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 158 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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13B TRP* 5.6 1.2 - - - -
14B LYS* 3.0 26.0 + - - +
150B GLU 4.4 0.4 - - - +
151B SER* 3.3 13.9 + - - -
152B ASN* 2.9 45.7 + - + +
154B THR 3.2 3.5 + - - +
155B ALA* 3.2 12.5 + - - +
157B VAL* 1.3 78.0 - - - +
159B ALA* 1.3 53.4 + - - +
161B ARG* 3.5 5.0 + - - +
162B THR* 2.7 38.4 + - - -
186B LEU* 3.6 31.2 - - + +
187B ASN* 3.9 12.7 + - + +
189B TYR* 4.4 5.4 + - - -
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Residues in contact with ALA 159 (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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155B ALA 2.8 16.1 + - - +
156B ALA* 3.7 10.1 - - - +
158B GLU* 1.3 76.1 - - - +
160B SER* 1.3 56.3 + - - +
162B THR* 3.2 3.3 + - - -
163B LEU* 2.9 38.5 + - + +
187B ASN* 3.7 9.5 - - - +
190B SER* 3.7 29.8 - - - +
193B VAL* 3.9 3.5 - - + +
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Residues in contact with SER 160 (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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156B ALA 3.1 13.5 + - - -
157B VAL* 2.9 19.1 + - - +
159B ALA* 1.3 71.5 - - - +
161B ARG* 1.3 61.2 + - - +
163B LEU* 3.3 10.1 + - - +
164B THR* 2.9 35.1 + - - -
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Residues in contact with ARG 161 (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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21A ASP* 5.1 4.8 + - - -
149B GLY* 5.3 2.7 - - - -
150B GLU* 3.1 35.0 + - - +
151B SER 4.5 1.0 + - - -
152B ASN* 3.9 20.8 - - - +
157B VAL* 3.1 42.1 + - + +
158B GLU* 3.7 6.7 - - - +
160B SER* 1.3 78.1 + - - +
162B THR* 1.3 62.3 + - - +
164B THR* 3.4 6.8 + - - -
165B VAL* 3.1 28.1 + - + +
186B LEU* 4.8 5.8 - - + -
1269B SO4 3.3 42.8 + - - +
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Residues in contact with THR 162 (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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158B GLU 2.7 22.7 + - - -
159B ALA 3.2 5.1 + - - -
161B ARG* 1.3 75.2 - - - +
163B LEU* 1.3 58.8 + - - +
165B VAL* 3.2 8.1 + - - +
166B LEU* 2.9 31.9 + - + +
184B LYS 5.1 1.6 - - - +
185B VAL* 3.5 35.4 - - + -
186B LEU* 3.5 16.0 - - - +
187B ASN 3.1 19.6 + - - +
193B VAL* 3.8 20.0 - - + -
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Residues in contact with LEU 163 (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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159B ALA* 2.9 26.7 + - + +
160B SER* 3.7 8.1 - - - +
162B THR* 1.3 74.5 - - - +
164B THR* 1.3 64.7 + - - +
166B LEU* 3.3 4.8 + - + +
167B ASN* 3.0 37.9 + - - +
192B ASP* 3.6 48.5 - - + +
193B VAL* 3.7 16.8 - - + -
196B ALA* 3.9 15.9 - - + -
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Residues in contact with THR 164 (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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134B THR* 3.6 32.8 - - + -
160B SER* 2.9 20.7 + - - -
161B ARG* 3.6 7.8 - - - -
163B LEU* 1.3 77.2 - - - +
165B VAL* 1.3 63.4 + - + +
167B ASN* 3.3 7.8 + - - +
168B VAL* 3.1 28.3 + - + +
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Residues in contact with VAL 165 (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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134B THR* 6.1 1.3 - - + -
146B CYS* 3.8 24.2 - - - -
148B ILE* 3.6 42.6 - - + +
149B GLY* 5.6 0.4 - - - -
161B ARG 3.1 17.8 + - - +
162B THR* 3.2 10.1 + - - +
164B THR* 1.3 76.8 - - + +
166B LEU* 1.3 59.9 + - + +
168B VAL* 3.3 9.0 + - - +
169B ILE* 2.8 29.3 + - + +
183B VAL* 3.9 20.0 - - + -
184B LYS 4.1 10.1 - - - +
1269B SO4 5.5 0.4 - - - +
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Residues in contact with LEU 166 (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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162B THR* 2.9 24.8 + - + +
163B LEU* 3.3 6.2 + - - +
165B VAL* 1.3 77.9 - - + +
167B ASN* 1.3 58.5 + - - +
169B ILE* 3.4 1.7 + - - -
170B SER* 2.9 33.9 + - - -
183B VAL* 4.5 15.3 - - + -
184B LYS 5.1 0.9 - - - +
185B VAL* 4.4 12.8 - - + -
193B VAL* 3.9 28.0 - - + -
196B ALA* 4.1 20.6 - - + -
197B LEU* 4.0 26.7 - - + -
200B MET* 3.7 28.1 - - + +
223B PHE* 5.1 1.6 - - + -
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Residues in contact with ASN 167 (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 LEU* 3.0 28.9 + - - +
164B THR* 3.6 7.4 - - - +
166B LEU* 1.3 76.7 - - - +
168B VAL* 1.3 65.6 + - + +
170B SER* 3.4 20.2 + - - -
171B ARG* 3.6 13.1 + - - +
196B ALA* 5.4 6.4 - - - +
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Residues in contact with VAL 168 (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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81B LEU* 4.8 8.3 - - + -
133B VAL* 3.8 23.1 - - + +
134B THR* 3.9 35.0 - - + +
136B MET 5.2 2.7 - - - +
164B THR* 3.1 16.7 + - + +
165B VAL* 3.4 9.0 - - - +
167B ASN* 1.3 75.7 - - + +
169B ILE* 1.3 64.7 + - + +
171B ARG* 3.1 23.9 + - - +
172B TRP* 3.3 29.3 + - + +
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Residues in contact with ILE 169 (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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81B LEU* 3.9 13.7 - - + -
144B VAL* 3.8 23.6 - - + -
146B CYS* 3.6 24.7 - - + -
165B VAL* 2.8 28.0 + - + +
166B LEU* 3.8 5.2 - - - +
168B VAL* 1.3 72.0 - - + +
170B SER* 1.3 66.7 + - - +
172B TRP* 3.0 5.8 + - + +
173B LEU* 2.9 45.9 + - + +
183B VAL* 3.8 34.3 - - + -
200B MET* 3.8 11.9 - - + -
223B PHE* 5.2 0.4 - - + -
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Residues in contact with SER 170 (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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166B LEU 2.9 17.3 + - - -
167B ASN* 3.4 15.1 + - - -
168B VAL 3.3 0.4 - - - -
169B ILE* 1.3 75.4 - - - +
171B ARG* 1.3 58.5 + - - +
173B LEU* 3.4 0.4 + - - -
174B GLU* 2.9 30.0 + - - +
200B MET* 3.5 13.1 - - - +
203B ARG* 2.9 37.2 + - - -
204B PHE* 3.7 13.7 - - - -
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Residues in contact with ARG 171 (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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136B MET 5.5 2.1 + - - -
137B GLU* 2.7 39.5 + - - -
138B PRO* 3.7 17.9 - - + +
167B ASN 3.8 14.6 - - - +
168B VAL* 3.1 13.8 + - - +
170B SER* 1.3 74.9 - - - +
172B TRP* 1.3 60.4 + - + +
174B GLU* 3.7 5.5 - - - +
175B TYR* 2.9 31.5 + - - +
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Residues in contact with TRP 172 (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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79B VAL* 3.8 31.0 - - + -
81B LEU* 3.6 30.7 - - + +
133B VAL 5.3 0.2 + - - -
136B MET* 4.0 26.5 + - + +
137B GLU 3.9 7.0 - - - -
138B PRO* 3.6 29.2 - - + +
139B PHE* 3.4 53.2 - + - -
141B ALA* 4.3 1.1 - - + -
144B VAL* 4.1 20.1 - - + +
168B VAL* 3.3 34.4 + - + +
169B ILE* 3.0 9.3 + - - +
171B ARG* 1.3 78.6 - - - +
173B LEU* 1.3 58.8 + - + +
176B ASN* 3.0 51.9 + - - +
179B CYS* 4.6 0.2 - - - -
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Residues in contact with LEU 173 (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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144B VAL* 4.5 7.9 - - + -
169B ILE* 2.9 38.6 + - + +
172B TRP* 1.3 74.7 - - + +
174B GLU* 1.3 66.7 + - - +
176B ASN 3.4 16.8 - - - +
177B GLN* 4.0 4.0 + - - -
178B GLY 5.2 0.2 + - - -
179B CYS* 3.6 26.4 - - - -
181B PHE* 3.7 35.0 - - + -
200B MET* 4.4 1.3 - - + -
204B PHE* 3.6 49.5 - - + -
223B PHE* 4.0 15.7 - - + -
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Residues in contact with GLU 174 (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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170B SER 2.9 18.1 + - - +
171B ARG* 3.7 6.7 - - - +
173B LEU* 1.3 79.9 - - - +
175B TYR* 1.3 61.9 + - - +
176B ASN 3.4 0.2 + - - -
177B GLN* 4.1 17.2 + - - +
203B ARG* 4.4 14.5 + - - +
204B PHE* 3.6 21.8 - - + -
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Residues in contact with TYR 175 (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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138B PRO* 3.9 28.8 + - + -
139B PHE* 3.4 30.3 - - - +
140B GLN* 3.6 10.3 + - + +
171B ARG 2.9 18.2 + - - +
172B TRP 3.7 4.3 - - - +
174B GLU* 1.3 78.6 - - - +
176B ASN* 1.3 74.1 + - - +
177B GLN* 3.6 4.9 + - - +
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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