Contacts of the helix formed by residues 147 - 159 (chain A) in PDB entry 2C2R
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 ASN 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1A MET* 4.2 7.0 - - + -
3A VAL* 4.2 6.9 - - - +
145A SER* 4.4 1.2 + - - -
146A LYS* 1.3 93.6 - - - +
148A LYS* 1.3 66.0 + - - +
149A VAL* 3.4 8.0 + - - +
150A PHE* 3.1 36.9 + - - -
151A ALA* 3.1 12.8 + - - +
171A VAL* 6.0 1.6 - - - +
228A LEU* 4.8 0.8 - - - +
231A ASP* 5.4 4.6 + - - +
233A TYR* 3.2 46.2 - - + +
234A ASN* 3.8 13.3 - - + +
235A GLU 4.8 0.4 - - - +
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Residues in contact with LYS 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3A VAL* 4.1 6.5 - - + +
100A GLU* 2.7 41.7 + - - +
108A TYR* 3.2 52.4 - - + -
147A ASN* 1.3 73.9 - - - +
149A VAL* 1.3 63.9 + - + +
151A ALA* 3.4 0.6 + - - +
152A LYS* 3.0 20.7 + - - +
233A TYR* 4.4 8.9 - - + +
235A GLU* 3.5 38.0 + - - +
236A PRO 3.6 15.1 + - - +
237A ILE* 3.7 21.3 - - + -
240A ARG* 3.9 4.6 - - - +
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Residues in contact with VAL 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A ASN* 3.1 9.9 + - - +
148A LYS* 1.3 78.1 - - + +
150A PHE* 1.3 59.5 + - + +
152A LYS* 3.6 6.0 - - - +
153A ILE* 2.9 44.6 + - + +
184A PRO* 3.8 11.5 - - + +
224A TYR* 3.4 30.1 - - + +
228A LEU* 3.7 24.2 - - + -
233A TYR* 3.4 34.5 - - + +
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Residues in contact with PHE 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A SER* 3.8 20.4 - - - +
147A ASN* 3.1 23.9 + - - +
149A VAL* 1.3 78.6 - - + +
151A ALA* 1.3 61.3 + - - +
152A LYS 3.1 1.1 - - - -
153A ILE* 3.5 15.7 - - + -
154A ALA* 2.8 23.2 + - - +
166A ILE* 3.1 35.2 - - + +
171A VAL* 3.7 41.3 - - + -
174A LEU* 3.3 39.3 - - + -
175A ILE* 4.1 14.4 - - + -
178A LEU* 5.3 0.9 - - + -
202A LEU* 4.5 9.4 - - + -
228A LEU* 4.4 17.3 - - + -
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Residues in contact with ALA 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3A VAL* 3.7 23.1 - - + +
5A PHE* 3.5 23.5 - - + +
143A GLY* 3.1 34.1 - - - +
144A ILE 3.9 4.0 - - - +
145A SER* 4.0 6.4 - - - +
147A ASN 3.1 13.6 + - - +
148A LYS 3.9 3.1 - - - +
150A PHE* 1.3 76.4 - - - +
152A LYS* 1.3 65.0 + - - +
154A ALA* 3.0 10.1 + - - -
155A ALA 3.1 1.9 + - - -
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Residues in contact with LYS 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5A PHE* 3.4 35.2 - - + +
106A GLU* 2.6 34.6 + - - -
108A TYR* 3.5 18.8 + - + +
148A LYS 3.0 18.9 + - - +
149A VAL* 3.6 4.7 - - - +
151A ALA* 1.3 79.5 - - - +
153A ILE* 1.3 61.0 + - - +
155A ALA* 3.3 3.3 + - - +
156A ASP* 3.2 38.0 + - - +
184A PRO* 3.4 34.3 - - + -
13P C 5.2 4.5 + - - -
14P DOC 3.2 25.5 + - - -
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Residues in contact with ILE 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A VAL* 2.9 31.1 + - + +
150A PHE* 3.6 25.4 - - + +
151A ALA 3.2 0.2 - - - -
152A LYS* 1.3 76.0 - - - +
154A ALA* 1.3 63.7 + - - +
156A ASP* 3.4 10.8 + - + +
157A MET* 3.0 38.8 + - + +
166A ILE* 4.2 2.9 - - + -
174A LEU* 4.0 21.3 - - + -
178A LEU* 3.6 33.0 - - + -
182A ASP* 4.5 5.4 - - + +
183A VAL* 5.0 2.0 - - + -
184A PRO* 3.6 24.2 - - + -
202A LEU* 5.8 0.9 - - + -
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Residues in contact with ALA 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143A GLY* 3.5 14.1 - - - -
144A ILE 3.8 4.7 - - - +
150A PHE 2.8 14.1 + - - +
151A ALA 3.1 11.0 - - - +
153A ILE* 1.3 77.1 - - - +
155A ALA* 1.3 62.1 + - - +
157A MET* 3.2 9.8 + - - +
158A ALA* 3.2 21.0 + - - +
164A LYS* 3.8 19.2 - - + +
166A ILE* 3.4 26.0 - - + +
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Residues in contact with ALA 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5A PHE* 3.6 35.7 - - + -
7A ASP* 4.6 4.3 - - + -
141A THR* 3.4 29.4 - - + +
142A VAL 4.0 3.8 - - - -
143A GLY* 3.8 8.9 - - - +
151A ALA 3.1 2.4 + - - -
154A ALA* 1.3 75.2 - - - +
156A ASP* 1.3 60.0 + - - +
157A MET 2.8 11.2 + - - -
158A ALA 2.8 11.8 + - - -
159A LYS* 3.0 14.6 + - - +
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Residues in contact with ASP 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5A PHE* 5.1 1.4 - - - -
7A ASP* 5.0 8.0 - - - +
152A LYS* 3.2 39.5 + - - +
153A ILE* 3.4 10.9 + - + +
155A ALA* 1.3 76.8 - - - +
157A MET* 1.3 60.0 + - + +
159A LYS* 3.7 30.0 - - - +
182A ASP 5.1 4.3 - - - +
184A PRO* 4.9 3.8 - - - +
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Residues in contact with MET 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A ILE* 3.0 26.5 - - + +
154A ALA 3.2 8.5 + - - +
155A ALA 2.9 0.6 - - - -
156A ASP* 1.3 81.4 - - + +
158A ALA* 1.3 59.5 + - - +
159A LYS 3.5 1.9 - - - +
164A LYS* 3.1 41.5 - - + -
166A ILE* 3.7 24.2 - - + -
170A GLU* 4.5 3.8 - - - +
174A LEU* 4.3 18.8 - - + -
178A LEU* 5.6 4.3 - - + -
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Residues in contact with ALA 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A THR* 3.8 10.5 - - + -
154A ALA 3.2 12.5 + - - +
155A ALA 2.8 1.6 + - - -
157A MET* 1.3 78.5 - - - +
159A LYS* 1.3 66.6 + - - +
160A PRO 3.6 8.7 - - - +
162A GLY* 3.8 5.5 - - - -
163A ILE 3.7 37.5 - - - +
164A LYS* 3.9 5.4 - - + +
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Residues in contact with LYS 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7A ASP* 5.6 3.8 - - - +
9A ASP* 3.7 3.1 - - - +
48A TYR* 3.2 17.4 - - + +
51A ARG* 3.8 11.9 - - - +
141A THR* 3.4 17.6 - - - +
155A ALA 3.0 9.8 + - - +
156A ASP* 3.7 30.3 - - - +
157A MET 3.5 2.0 - - - +
158A ALA* 1.3 79.9 - - - +
160A PRO* 1.3 70.4 - - + +
1342A DCT 2.6 34.2 + - - +
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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