Contacts of the helix formed by residues 157 - 174 (chain B) in PDB entry 2C8U
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 157 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83B HIS 5.4 1.1 - - - +
84B MET* 3.1 22.7 - - - +
86B GLY* 4.1 9.2 - - - +
91B GLU* 6.1 0.4 - - - +
95B VAL* 3.8 23.2 - - + +
152B VAL* 4.1 17.8 + - + +
155B LYS 3.8 9.6 - - - +
156B VAL* 1.3 82.1 - - - +
158B LEU* 1.3 66.3 + - - +
159B ALA* 3.5 19.9 + - - +
160B ASP* 3.0 29.5 + - - +
161B LEU* 3.7 8.3 + - - +
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Residues in contact with LEU 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B SER* 4.5 4.7 - - - +
23B THR* 3.5 24.5 - - - +
72B LEU* 4.7 3.8 - - + +
75B ALA* 3.9 14.4 - - + +
76B ARG* 3.5 47.3 - - + +
79B ALA* 4.0 5.2 - - + -
84B MET* 2.8 11.0 + - - +
85B MET* 3.8 16.2 - - - -
99B ILE* 3.7 17.7 - - + -
157B THR* 1.3 72.6 - - - +
159B ALA* 1.3 63.7 + - - +
161B LEU* 3.0 11.8 + - + -
162B VAL* 2.9 39.7 + - + +
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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
----------------------------------------------------------
95B VAL* 3.7 30.8 - - + +
98B LEU* 3.9 21.8 - - + +
99B ILE* 4.0 12.3 - - - +
151B ALA* 4.2 11.5 - - + +
152B VAL* 4.6 1.6 - - + -
157B THR* 3.1 12.9 + - - +
158B LEU* 1.3 78.7 - - - +
160B ASP* 1.3 62.5 + - - +
162B VAL* 4.0 1.3 - - - +
163B LEU* 3.0 24.9 + - - +
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Residues in contact with ASP 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B LEU* 3.6 14.1 - - - +
151B ALA* 3.1 20.5 + - - +
152B VAL 4.9 0.7 + - - -
155B LYS 3.9 1.0 - - - +
156B VAL* 3.5 8.0 - - - -
157B THR* 3.0 33.6 + - - +
159B ALA* 1.3 78.2 - - - +
161B LEU* 1.3 59.1 + - + +
163B LEU 3.4 0.9 + - - -
164B ILE* 3.2 25.6 + - - +
188B HIS* 2.4 44.8 + - - +
192B LEU* 3.7 22.8 - - + +
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Residues in contact with LEU 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B SER* 4.8 4.9 - - - +
22B MET* 3.6 25.2 - - + +
23B THR* 3.5 41.3 - - + +
26B ALA* 4.3 8.7 - - + -
84B MET* 5.0 3.1 - - - -
156B VAL* 4.2 17.9 - - + -
157B THR 3.8 12.3 - - - +
158B LEU* 3.0 13.8 + - + +
160B ASP* 1.3 76.0 - - - +
162B VAL* 1.3 66.1 + - - +
164B ILE* 3.3 9.6 - - - +
165B ALA* 3.2 24.4 + - - +
192B LEU* 4.1 4.3 - - + -
199B LEU* 3.7 31.4 - - + -
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Residues in contact with VAL 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B SER* 3.8 18.8 - - - +
72B LEU* 3.9 17.3 - - + -
99B ILE* 4.2 26.7 - - + +
102B ALA* 3.6 23.3 - - + -
103B GLU* 5.0 5.6 - - + +
158B LEU* 2.9 39.6 + - + +
159B ALA 4.1 2.9 - - - +
161B LEU* 1.3 76.2 - - - +
163B LEU* 1.3 62.8 + - - +
165B ALA* 3.5 2.0 + - - +
166B VAL* 3.1 32.1 + - + +
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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
----------------------------------------------------------
98B LEU* 5.1 8.1 - - + -
102B ALA* 4.5 13.2 - - + +
105B LEU* 5.8 0.2 - - + -
139B ILE* 3.7 36.6 - - + -
143B LEU* 3.8 29.6 - - + -
151B ALA* 5.2 0.7 - - + -
159B ALA 3.0 20.9 + - - +
160B ASP 3.6 5.8 - - - +
161B LEU 3.2 0.4 - - - -
162B VAL* 1.3 77.4 - - - +
164B ILE* 1.3 63.8 + - + +
166B VAL* 3.2 4.1 + - + -
167B ILE* 3.0 46.3 + - + +
185B ILE* 5.3 4.3 - - + -
188B HIS* 3.7 25.1 - - + +
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Residues in contact with ILE 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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22B MET* 3.6 23.8 - - + -
160B ASP 3.2 8.7 + - - +
161B LEU* 3.3 14.8 - - - +
163B LEU* 1.3 77.8 - - + +
165B ALA* 1.3 61.6 + - - +
167B ILE* 3.4 4.6 + - + +
168B ASP* 3.1 29.2 + - - +
188B HIS* 4.2 13.2 - - + +
189B ARG* 3.5 38.5 + - + +
192B LEU* 3.7 30.3 - - + -
193B LEU* 6.4 0.2 - - + -
199B LEU* 3.8 4.9 - - + -
203B LEU* 3.6 28.9 - - + -
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Residues in contact with ALA 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B GLU* 3.7 31.7 - - + +
19B SER* 4.5 9.6 - - - +
22B MET* 4.6 9.2 - - + -
106B GLU* 5.9 0.7 - - - +
161B LEU 3.2 16.5 + - - +
162B VAL 3.7 4.5 - - - +
164B ILE* 1.3 79.6 - - - +
166B VAL* 1.3 63.0 + - + +
168B ASP* 3.5 6.6 + - - +
169B HIS* 3.3 30.1 + - + -
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Residues in contact with VAL 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102B ALA* 3.5 39.3 - - + +
103B GLU* 5.4 0.2 - - - -
105B LEU* 3.5 28.0 - - + -
106B GLU* 3.6 30.5 - - + +
109B TYR* 5.9 0.9 - - + -
162B VAL* 3.1 23.2 + - + +
163B LEU* 3.2 4.7 + - + +
165B ALA* 1.3 76.4 - - + +
167B ILE* 1.3 64.0 + - - +
169B HIS* 3.1 16.9 + - + +
170B VAL* 3.1 12.2 + - + +
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Residues in contact with ILE 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B LEU* 4.3 8.5 - - + -
136B LEU* 3.7 29.2 - - + -
139B ILE* 5.2 0.4 - - + -
163B LEU* 3.0 43.0 + - + +
164B ILE* 3.9 6.1 - - + +
165B ALA 3.4 0.2 - - - -
166B VAL* 1.3 74.8 - - - +
168B ASP* 1.3 58.1 + - - +
170B VAL* 2.9 20.1 + - + +
171B THR* 2.9 19.4 + - + -
178B LEU* 3.8 23.3 - - + -
185B ILE* 4.0 25.4 - - + -
189B ARG* 4.4 14.1 - - - +
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Residues in contact with ASP 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B GLU* 5.9 3.1 - - - +
22B MET* 5.8 2.4 - - - +
164B ILE* 3.1 15.3 + - - +
165B ALA* 3.8 7.5 - - - +
166B VAL 3.2 0.4 - - - -
167B ILE* 1.3 77.3 - - - +
169B HIS* 1.3 58.8 + - + +
171B THR* 3.2 11.8 + - - -
172B ASP* 2.9 36.7 + - - +
189B ARG* 2.7 37.7 + - - -
203B LEU* 5.3 7.8 - - - +
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Residues in contact with HIS 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B ARG* 2.7 32.7 + - + +
15B GLY* 4.8 5.8 - - - -
18B GLU* 3.7 10.7 + - - -
106B GLU* 2.7 38.0 + - - +
109B TYR* 3.4 47.3 + + + -
110B TYR* 5.6 0.4 - + - -
165B ALA* 3.3 19.0 + - + -
166B VAL 3.1 7.7 + - - +
168B ASP* 1.3 74.8 - - + +
170B VAL* 1.3 68.8 + - - +
172B ASP* 3.0 29.3 + - - +
173B LEU* 3.3 11.3 + - - +
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Residues in contact with VAL 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B LEU* 3.8 41.1 - - + +
109B TYR* 5.6 4.0 - - + -
128B LEU* 4.8 3.8 - - + +
132B VAL* 4.3 13.7 - - + -
136B LEU* 4.7 4.5 - - + -
166B VAL* 3.1 11.5 + - + +
167B ILE* 2.9 12.3 + - - +
169B HIS* 1.3 75.7 - - + +
171B THR* 1.3 57.4 + - - +
173B LEU* 2.9 32.1 + - + +
174B ASP* 3.2 9.5 + - - +
177B PHE* 4.2 20.4 - - + -
178B LEU* 3.6 24.9 - - + -
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Residues in contact with THR 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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167B ILE* 2.9 20.9 + - + +
168B ASP* 3.2 21.7 + - - -
170B VAL* 1.3 70.1 - - - +
172B ASP* 1.3 64.2 + - - +
173B LEU 3.1 0.2 - - - -
174B ASP 3.4 8.1 - - - +
175B LYS* 3.1 50.8 + - - +
178B LEU* 3.5 27.6 - - + -
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Residues in contact with ASP 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B ARG* 5.0 11.9 - - - +
109B TYR* 4.5 10.3 + - + -
168B ASP* 2.9 26.5 + - - +
169B HIS* 3.0 32.4 + - - +
171B THR* 1.3 76.7 + - - +
173B LEU* 1.3 59.0 + - + +
175B LYS* 5.4 4.0 - - - +
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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
----------------------------------------------------------
109B TYR* 4.0 25.1 - - + -
112B THR* 3.5 22.9 - - + +
120B LYS* 4.5 7.4 - - - +
124B ILE* 3.8 46.7 - - + +
127B ILE* 3.7 29.6 - - + -
128B LEU* 4.7 9.6 - - + -
132B VAL* 5.7 1.1 - - + -
169B HIS 3.5 11.9 - - - +
170B VAL* 2.9 16.8 + - + +
172B ASP* 1.3 81.0 - - + +
174B ASP* 1.3 61.5 + - + +
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Residues in contact with ASP 174 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B LEU* 3.8 21.1 - - + +
170B VAL 3.2 2.6 + - - +
171B THR* 3.2 14.6 - - - +
173B LEU* 1.3 79.5 - - - +
175B LYS* 1.3 62.7 + - - +
176B GLU* 3.3 17.4 + - - +
177B PHE* 3.0 47.3 + - + +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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