Contacts of the helix formed by residues 181 - 194 (chain B) in PDB entry 1ORZ
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 181 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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166B SER* 4.3 2.9 - - - -
172B TYR* 4.3 7.9 - - - -
179B TYR* 3.1 25.6 - - - -
180B LEU* 1.3 79.9 - - - +
182B PRO* 1.3 75.4 - - - +
183B ALA 3.4 2.5 - - - -
184B VAL* 2.8 19.7 - - - +
185B LEU* 3.1 10.2 + - - +
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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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165B CYS* 3.8 7.9 - - - -
166B SER* 4.2 13.2 - - - -
169B CYS* 3.8 28.7 - - + -
179B TYR* 3.9 11.4 - - + +
181B GLY* 1.3 86.8 - - - +
183B ALA* 1.3 63.1 + - - +
185B LEU* 3.3 2.4 + - - +
186B MET* 3.0 26.5 + - - +
222B CYS* 3.8 26.2 - - + -
232B PRO* 3.6 24.4 - - + +
236B ILE* 4.7 8.1 - - + -
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Residues in contact with ALA 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B PHE* 3.3 39.0 - - + -
124B TYR* 5.4 0.7 - - + -
159B CYS* 4.5 18.5 - - - -
161B LEU* 5.1 1.1 - - + -
163B ALA* 5.6 1.1 - - - +
165B CYS* 3.7 17.5 - - - -
166B SER* 5.0 1.2 - - - -
181B GLY 3.4 0.4 - - - -
182B PRO* 1.3 76.8 - - - +
184B VAL* 1.3 63.9 + - - +
186B MET* 3.2 9.3 + - - +
187B GLN* 3.0 26.2 + - - +
232B PRO* 5.3 0.4 - - - -
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Residues in contact with VAL 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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120B PHE* 5.1 3.2 - - + +
123B GLN* 3.0 26.0 - - + +
124B TYR* 3.5 10.8 - - - +
127B ILE* 2.9 42.4 - - + -
180B LEU* 2.9 40.8 + - + +
181B GLY 2.8 24.9 - - - +
183B ALA* 1.3 80.1 - - - +
185B LEU* 1.3 50.5 + - - +
187B GLN* 3.0 7.8 + - - +
188B ALA* 2.7 31.9 + - - +
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Residues in contact with LEU 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179B TYR* 3.6 26.0 - - + +
180B LEU* 3.6 30.3 - - + -
181B GLY 3.1 13.5 + - - +
182B PRO 3.9 3.6 - - - +
184B VAL* 1.3 78.9 - - - +
186B MET* 1.3 66.4 + - - +
188B ALA* 3.0 6.0 + - + +
189B TYR* 2.8 24.4 + - - +
207B LEU* 4.4 2.0 - - + -
212B SER 4.3 0.2 - - - +
213B LEU* 3.0 39.5 - - + -
235B ALA* 5.1 0.7 - - - -
236B ILE* 3.5 35.7 - - + -
239B ILE* 3.6 13.7 - - + +
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Residues in contact with MET 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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155B GLY* 3.2 30.5 - - - +
156B LEU* 2.8 46.5 - - + +
159B CYS* 5.8 5.2 - - + -
182B PRO 3.0 8.5 + - - +
183B ALA* 3.6 9.4 - - - +
184B VAL 3.2 0.2 - - - -
185B LEU* 1.3 76.5 - - - +
187B GLN* 1.3 58.1 + - + +
189B TYR 3.2 0.7 + - - -
190B ARG* 2.9 9.4 + - - -
230B LEU* 3.6 22.9 - - + -
231B ASN 3.9 13.5 - - - +
232B PRO* 3.1 52.7 - - + -
235B ALA* 4.1 12.8 - - + +
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Residues in contact with GLN 187 (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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165A HIS* 6.0 0.2 + - - -
124B TYR* 2.9 46.9 + - + -
127B ILE* 4.1 8.5 - - + -
129B PRO* 4.8 0.6 + - - +
156B LEU 4.0 8.3 - - - +
157B TYR 5.0 2.9 - - - +
159B CYS* 3.9 24.9 - - + +
161B LEU* 5.2 3.3 - - + +
183B ALA 3.0 16.4 + - - +
184B VAL 3.0 9.7 + - - +
186B MET* 1.3 76.3 - - - +
188B ALA* 1.3 65.9 + - - +
190B ARG* 2.9 51.0 - - - +
191B TRP* 2.9 19.8 - - - +
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Residues in contact with ALA 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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127B ILE* 4.1 25.6 - - + +
184B VAL 2.7 16.2 + - - +
185B LEU* 3.0 13.7 + - + +
187B GLN* 1.3 71.8 - - - +
189B TYR* 1.3 59.3 + - - +
191B TRP* 3.1 11.0 + - - +
192B LEU* 2.9 37.4 + - + +
203B ARG* 4.2 5.7 + - - +
207B LEU* 5.0 13.2 - - + -
239B ILE* 4.8 6.5 - - + -
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Residues in contact with TYR 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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152B LYS* 3.1 27.3 + - - +
156B LEU* 2.9 40.2 - - + -
185B LEU 2.8 12.0 + - - +
186B MET 3.3 8.3 - - - +
188B ALA* 1.3 75.7 - - - +
190B ARG* 1.4 65.0 + - - +
192B LEU* 3.8 13.4 - - + +
193B ILE* 3.0 52.1 + - + +
234B LEU* 5.2 3.3 - - + +
235B ALA* 3.8 28.0 - - + -
238B GLU* 3.2 38.9 - - + +
239B ILE* 4.1 10.3 - - + -
242B SER* 6.0 1.1 - - - -
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Residues in contact with ARG 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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120A GLY 4.0 16.4 + - - -
122A PRO* 4.2 6.8 - - - +
153B LEU* 4.2 20.4 - - - +
156B LEU* 3.4 31.9 - - + +
157B TYR* 3.9 24.7 - - - +
186B MET 2.9 8.0 + - - +
187B GLN* 2.9 53.5 + - - +
189B TYR* 1.4 76.7 - - - +
191B TRP* 1.3 85.9 + - + +
193B ILE* 2.8 23.9 - - - +
194B ASP* 3.2 34.2 + - - +
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Residues in contact with TRP 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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119A TYR 4.8 3.4 - - - -
120A GLY 4.6 9.9 - - - -
166A THR* 6.2 2.2 - - + -
127B ILE* 4.4 2.5 - - + -
128B GLN 3.7 13.9 - - - -
129B PRO* 2.8 42.1 + - + +
130B TYR* 3.5 4.0 - - - -
131B LEU* 3.2 55.4 - - + -
187B GLN* 2.9 35.2 + - - +
188B ALA* 3.1 3.8 + - - +
189B TYR 3.1 0.2 - - - -
190B ARG* 1.3 108.4 - - - +
192B LEU* 1.4 66.0 + - - +
194B ASP* 3.2 13.0 + - + -
197B ASP* 3.4 22.3 - - - +
200B THR* 5.3 0.2 - - - -
203B ARG* 3.5 27.1 - - - +
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Residues in contact with LEU 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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188B ALA* 2.9 26.7 + - + +
189B TYR* 3.1 16.6 + - + +
191B TRP* 1.4 76.9 - - - +
193B ILE* 1.3 65.0 + - + +
194B ASP 4.2 3.8 - - - +
197B ASP 5.4 0.5 - - - +
200B THR* 3.5 27.8 + - - +
203B ARG* 2.9 45.8 - - + +
204B LYS* 4.9 9.0 - - + +
207B LEU* 5.4 4.3 - - + -
239B ILE* 3.7 44.2 - - + -
242B SER* 5.1 10.8 - - - +
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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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149B ASP 5.4 1.6 - - - +
152B LYS* 3.0 78.3 - - + +
153B LEU* 3.9 9.6 - - + +
156B LEU* 3.8 21.8 - - + -
189B TYR* 3.0 38.6 - - + +
190B ARG* 2.8 25.4 - - - +
192B LEU* 1.3 77.5 - - + +
194B ASP* 1.3 64.2 + - - +
195B SER* 3.2 6.2 + - - -
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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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131B LEU* 4.6 2.2 - - + -
145B GLN* 3.0 16.1 - - - +
153B LEU* 4.0 14.7 - - + +
190B ARG* 3.2 35.5 + - - +
191B TRP* 3.2 18.4 + - + +
192B LEU 4.2 2.8 - - - +
193B ILE* 1.3 81.1 - - + +
195B SER* 1.4 81.6 + - - +
196B ARG* 2.8 36.2 + - - +
197B ASP* 3.0 26.6 + - + +
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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