Contacts of the helix formed by residues 152 - 169 (chain A) in PDB entry 2V32
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 152 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A TYR* 4.7 1.4 - - - -
151A ARG* 1.3 73.9 - - - +
153A PHE* 1.3 59.9 + - - +
154A SER* 2.8 27.1 + - - -
155A GLU* 3.3 25.6 + - + +
156A ILE* 3.4 13.8 - - - +
152B ASN* 4.8 5.1 - - - +
155B GLU* 2.7 42.1 + - - +
158B ARG* 3.5 14.0 - - - +
176B ASP* 3.7 12.7 - - - +
178B GLN* 5.7 1.2 + - - -
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Residues in contact with PHE 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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33A VAL* 6.0 2.2 - - + -
35A PHE* 4.3 16.6 - + + -
48A GLU* 3.9 24.7 - - + -
51A ARG* 4.3 17.9 - - + -
52A VAL* 3.8 29.8 - - + -
55A LEU* 3.6 24.5 - - + -
59A PHE* 4.8 10.1 - + + -
66A LEU* 6.3 1.3 - - + -
130A VAL* 5.0 3.1 - - + -
151A ARG* 3.7 46.7 - - + -
152A ASN* 1.3 69.4 + - - +
154A SER* 1.3 65.6 + - - +
155A GLU 3.3 0.2 - - - -
156A ILE* 3.3 29.9 + - + +
157A LEU* 3.3 25.1 + - - +
175B ALA* 4.9 2.2 - - + -
176B ASP* 3.5 5.6 + - - +
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Residues in contact with SER 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ARG* 5.4 10.4 - - - +
55A LEU* 4.9 3.2 - - - +
152A ASN* 2.8 21.0 + - - -
153A PHE* 1.3 78.9 - - - +
155A GLU* 1.3 54.2 + - - +
157A LEU* 3.4 12.9 + - - +
158A ARG* 2.9 28.3 + - - +
176B ASP* 4.5 5.4 + - - -
181C ASP* 5.5 4.4 + - - -
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Residues in contact with GLU 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A TYR* 5.9 0.4 - - - +
152A ASN* 3.3 35.2 + - + +
154A SER* 1.3 74.8 + - - +
156A ILE* 1.3 60.4 + - + +
158A ARG* 2.7 42.7 + - - +
159A VAL* 2.9 30.8 + - + +
145B TYR* 2.7 29.0 + - - +
152B ASN* 2.7 37.7 + - - +
155B GLU* 4.8 11.0 - - + +
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Residues in contact with ILE 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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33A VAL* 4.6 8.3 - - + -
59A PHE* 4.2 13.7 - - + -
130A VAL* 4.2 29.6 - - + -
132A ILE* 4.3 11.9 - - + -
141A LEU* 6.3 1.6 - - + -
143A ILE* 4.4 14.1 - - + -
151A ARG* 4.6 4.5 - - + -
152A ASN 3.4 21.0 + - - +
153A PHE* 3.3 37.6 + - + +
154A SER 3.2 0.6 - - - -
155A GLU* 1.3 81.1 - - + +
157A LEU* 1.3 55.0 + - - +
159A VAL* 3.4 10.3 - - + +
160A ILE* 2.8 43.4 + - + +
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Residues in contact with LEU 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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55A LEU* 4.0 20.4 - - + -
58A ASP* 4.0 24.0 - - + +
59A PHE* 3.9 33.4 - - + -
62A ARG* 3.7 42.2 + - - +
153A PHE 3.3 13.5 + - - +
154A SER* 3.6 11.2 - - - +
156A ILE* 1.3 73.1 - - - +
158A ARG* 1.3 59.4 + - - +
160A ILE* 3.3 5.5 + - + +
161A ASP* 2.9 36.1 + - - +
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Residues in contact with ARG 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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154A SER 2.9 17.8 + - - +
155A GLU* 2.7 48.6 + - - +
157A LEU* 1.3 69.8 - - - +
159A VAL* 1.3 75.4 + - - +
161A ASP* 3.1 13.6 + - - +
162A SER* 3.1 17.2 + - - -
173A THR* 5.1 2.0 + - - -
176A ASP* 4.5 2.9 - - - +
177A TRP* 2.9 57.3 + - + +
178A GLN* 3.9 26.2 - - - +
179A PRO* 4.5 6.5 - - + -
145B TYR* 4.2 0.6 - - - -
149B THR* 5.6 1.4 - - - +
150B GLY 3.2 26.3 + - - -
151B ARG 3.9 2.9 - - - -
152B ASN* 3.7 18.0 - - - +
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Residues in contact with VAL 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A ILE* 4.0 10.3 - - + -
141A LEU* 3.5 30.3 - - + -
155A GLU* 2.9 41.7 + - - +
156A ILE* 3.4 15.0 - - + +
158A ARG* 1.3 89.1 - - - +
160A ILE* 1.3 63.3 + - - +
162A SER* 3.2 5.8 + - - +
163A LEU* 2.9 28.9 + - - +
145B TYR* 3.8 16.4 - - + +
149B THR* 4.0 9.4 - - + -
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Residues in contact with ILE 160 (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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31A TRP* 5.7 2.9 - - + -
33A VAL* 3.9 15.0 - - + -
59A PHE* 3.4 37.7 - - + -
62A ARG* 3.8 17.0 - - - -
64A VAL* 4.0 14.4 - - + -
132A ILE* 3.9 21.5 - - + -
156A ILE* 2.8 29.2 + - + +
157A LEU* 3.3 8.5 + - + +
159A VAL* 1.3 71.6 - - - +
161A ASP* 1.3 56.8 - - - +
163A LEU* 3.8 6.4 - - - +
164A GLN* 2.9 55.3 + - + +
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Residues in contact with ASP 161 (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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62A ARG* 2.9 42.6 + - - +
157A LEU 2.9 19.1 + - - +
158A ARG* 3.1 9.8 + - - +
160A ILE* 1.3 77.3 - - - +
162A SER* 1.3 63.4 + - - +
164A GLN* 3.6 4.8 + - - +
165A LEU* 3.2 23.9 + - - +
177A TRP* 4.0 7.7 - - + -
179A PRO* 3.3 33.3 - - + +
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Residues in contact with SER 162 (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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158A ARG* 3.1 10.2 + - - -
159A VAL* 3.2 3.1 + - - -
161A ASP* 1.3 75.7 - - - +
163A LEU* 1.3 57.9 + - - +
165A LEU* 3.3 1.8 + - - +
166A THR* 2.9 34.7 + - - +
173A THR* 2.7 34.3 + - - +
177A TRP* 3.5 19.5 - - - -
148B THR 3.7 2.9 + - - -
149B THR* 2.8 30.2 + - - -
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Residues in contact with LEU 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A TRP* 3.8 20.7 - - + -
132A ILE* 3.8 39.0 - - + -
140A LYS* 4.1 14.4 - - + +
141A LEU* 4.1 15.3 - - + -
159A VAL 2.9 22.7 + - - +
160A ILE* 3.8 4.0 - - - +
162A SER* 1.3 77.3 - - - +
164A GLN* 1.4 63.0 + - - +
166A THR* 3.4 5.5 + - - +
167A ALA* 3.1 24.6 + - - +
146B PRO* 3.6 34.8 - - + -
148B THR* 4.2 3.4 - - - +
149B THR* 3.7 8.5 - - - +
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Residues in contact with GLN 164 (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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31A TRP* 3.4 48.8 - - + +
62A ARG* 2.7 43.3 + - - +
64A VAL* 3.9 7.1 - - - +
160A ILE* 2.9 30.3 + - + +
161A ASP* 4.3 5.6 - - - +
163A LEU* 1.4 76.1 - - - +
165A LEU* 1.3 59.2 + - - +
167A ALA* 3.4 5.8 - - - +
168A GLN* 3.4 33.4 + - - +
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Residues in contact with LEU 165 (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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161A ASP 3.2 17.7 + - - +
162A SER 3.6 1.6 - - - +
164A GLN* 1.3 78.3 - - - +
166A THR* 1.3 59.0 + - - +
167A ALA 3.1 0.7 - - - -
168A GLN* 3.1 4.5 + - - +
169A LYS* 2.9 40.8 + - + +
171A VAL* 4.1 10.3 - - + -
173A THR* 3.9 10.8 - - + -
177A TRP* 3.8 21.1 - - + -
183A CYS* 3.8 29.4 - - - -
218A GLN* 4.0 13.5 - - + +
219A PRO* 3.9 19.1 - - + +
221A SER* 3.9 23.6 - - - +
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Residues in contact with THR 166 (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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162A SER* 2.9 30.1 + - - +
163A LEU* 3.4 7.4 + - - +
165A LEU* 1.3 70.9 - - + +
167A ALA* 1.3 64.8 + - - +
168A GLN 3.4 0.2 - - - -
169A LYS 3.2 17.9 - - - +
171A VAL* 3.6 24.5 - - + +
172A ALA* 4.0 5.6 - - - -
173A THR* 4.1 8.7 - - + -
148B THR* 3.3 51.9 + - - +
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Residues in contact with ALA 167 (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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31A TRP* 4.5 12.3 - - + -
163A LEU 3.1 19.2 + - - +
164A GLN* 3.4 11.4 - - - +
165A LEU 3.1 0.2 - - - -
166A THR* 1.3 80.3 - - - +
168A GLN* 1.3 61.9 + - + +
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Residues in contact with GLN 168 (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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164A GLN* 3.4 26.3 + - - +
165A LEU 3.1 4.1 + - - +
167A ALA* 1.3 81.4 - - + +
169A LYS* 1.3 75.0 + - + +
170A LYS* 5.7 1.0 - - - +
221A SER* 3.4 33.6 + - - -
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Residues in contact with LYS 169 (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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165A LEU* 2.9 28.8 + - + +
166A THR* 3.2 21.5 - - - +
168A GLN* 1.3 89.1 - - - +
170A LYS* 1.3 61.3 + - - +
171A VAL* 3.1 16.6 + - + +
198A PHE* 6.1 0.2 - - + -
219A PRO* 4.0 28.0 - - + +
220A LYS* 3.1 27.6 + - - +
221A SER* 3.9 15.0 - - - +
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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
------------------------------------------------------------
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