Contacts of the helix formed by residues 152 - 169 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A ASN* 4.8 4.9 - - - +
155A GLU* 2.7 43.5 + - - +
158A ARG* 3.7 11.9 - - - +
176A ASP* 3.7 12.4 - - - +
178A GLN* 5.9 0.8 + - - -
143B ILE* 6.1 0.2 - - - +
145B TYR* 4.7 1.2 - - - -
151B ARG* 1.3 73.8 - - - +
153B PHE* 1.3 61.1 + - - +
154B SER* 3.1 13.5 + - - -
155B GLU* 3.1 35.0 + - + +
156B ILE* 3.4 15.8 + - - +
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Residues in contact with PHE 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ALA* 5.3 1.8 - - + -
176A ASP* 3.8 6.5 + - - -
33B VAL* 5.6 2.5 - - + -
35B PHE* 4.0 26.0 - + + -
48B GLU* 3.9 26.0 - - + -
51B ARG* 4.4 11.7 - - + +
52B VAL* 3.7 34.5 - - + -
55B LEU* 3.7 24.5 - - + -
59B PHE* 4.5 11.8 - + + -
66B LEU* 5.9 0.9 - - + -
130B VAL* 5.0 2.0 - - + -
151B ARG* 3.9 37.9 - - + -
152B ASN* 1.3 71.3 + - - +
154B SER* 1.3 63.1 + - - +
156B ILE* 3.0 35.6 + - + +
157B LEU* 3.1 27.4 + - - +
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Residues in contact with SER 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ASP* 4.6 5.9 + - - -
51B ARG* 4.4 16.5 + - - +
55B LEU* 4.9 2.0 - - - +
152B ASN* 3.1 10.6 + - - -
153B PHE* 1.3 74.8 - - - +
155B GLU* 1.3 60.3 + - - +
157B LEU* 3.1 14.0 + - - +
158B ARG* 2.8 28.6 + - - +
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Residues in contact with GLU 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A TYR* 2.9 27.6 + - - +
152A ASN* 2.7 37.6 + - - +
155A GLU* 4.8 10.5 - - + -
145B TYR* 5.9 0.7 - - - +
152B ASN* 3.1 33.6 + - + +
154B SER* 1.3 77.0 - - - +
156B ILE* 1.3 64.8 + - + +
158B ARG* 2.7 43.5 + - - -
159B VAL* 3.0 24.4 + - + +
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Residues in contact with ILE 156 (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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33B VAL* 4.6 13.2 - - + -
59B PHE* 4.0 14.4 - - + -
130B VAL* 4.4 22.2 - - + -
132B ILE* 4.6 12.1 - - + -
143B ILE* 4.9 7.2 - - + -
151B ARG* 4.7 4.9 - - + -
152B ASN 3.4 19.4 + - - +
153B PHE* 3.0 47.3 - - + +
154B SER 3.2 0.8 - - - -
155B GLU* 1.3 75.4 - - + +
157B LEU* 1.3 63.9 + - - +
159B VAL* 3.1 12.7 - - + +
160B ILE* 3.0 37.3 + - + +
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Residues in contact with LEU 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B LEU* 4.4 19.5 - - + -
58B ASP* 4.0 28.7 - - + +
59B PHE* 4.0 26.2 - - + -
62B ARG* 3.7 42.1 + - - +
153B PHE 3.1 17.8 + - - +
154B SER* 3.1 13.8 + - - +
156B ILE* 1.3 76.1 - - - +
158B ARG* 1.3 61.7 + - - +
160B ILE* 3.2 7.5 + - + +
161B ASP* 3.0 29.3 + - - +
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Residues in contact with ARG 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A TYR* 4.1 0.6 - - - -
149A THR* 5.4 2.0 - - - +
150A GLY 3.1 26.5 + - - -
151A ARG 3.7 1.3 - - - -
152A ASN* 3.5 21.6 - - - +
154B SER 2.8 16.8 + - - +
155B GLU* 2.7 46.7 + - - +
157B LEU* 1.3 71.5 - - - +
159B VAL* 1.3 74.0 + - - +
161B ASP* 3.2 12.4 + - - +
162B SER* 3.0 18.2 + - - -
173B THR* 5.0 2.0 + - - -
176B ASP* 4.2 3.3 - - - +
177B TRP* 3.0 59.7 + - + +
178B GLN* 3.4 27.8 - - - +
179B PRO* 4.9 3.4 - - + -
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Residues in contact with VAL 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A TYR* 3.6 24.5 - - + +
149A THR* 4.1 6.5 - - + -
132B ILE* 3.9 11.9 - - + -
141B LEU* 3.7 27.1 - - + -
155B GLU* 3.0 39.9 + - + +
156B ILE* 3.1 24.0 - - + +
158B ARG* 1.3 82.1 - - - +
160B ILE* 1.4 57.1 + - - +
162B SER* 3.2 8.0 + - - -
163B LEU* 2.9 34.1 + - - +
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Residues in contact with ILE 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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31B TRP* 5.7 2.7 - - + -
33B VAL* 4.1 11.4 - - + -
59B PHE* 3.8 33.4 - - + -
62B ARG* 4.0 14.8 - - - -
64B VAL* 4.0 11.9 - - + -
132B ILE* 4.2 22.4 - - + -
156B ILE* 3.0 29.4 + - + +
157B LEU* 3.2 10.5 + - + +
159B VAL* 1.4 71.7 - - - +
161B ASP* 1.3 62.6 + - - +
163B LEU* 3.7 6.6 - - - +
164B GLN* 2.8 58.9 + - + +
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Residues in contact with ASP 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ARG* 2.7 49.9 + - - +
157B LEU* 3.0 12.4 + - - +
158B ARG* 3.4 9.4 - - - +
160B ILE* 1.3 76.6 - - - +
162B SER* 1.3 61.0 + - - +
164B GLN* 4.0 6.6 - - - +
165B LEU* 3.1 24.6 + - - +
177B TRP* 3.9 17.6 - - + -
179B PRO* 3.5 21.9 - - + +
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Residues in contact with SER 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A THR 3.8 3.3 + - - -
149A THR* 2.8 28.1 + - - -
158B ARG* 3.0 10.1 + - - -
159B VAL* 3.5 7.4 - - - -
160B ILE 3.2 0.2 - - - -
161B ASP* 1.3 74.8 - - - +
163B LEU* 1.3 66.7 + - - +
164B GLN 3.2 0.2 + - - -
165B LEU* 3.2 1.7 + - - +
166B THR* 2.9 27.8 + - - +
173B THR* 3.0 34.7 + - - +
177B TRP* 3.6 15.8 - - - -
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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
----------------------------------------------------------
146A PRO* 3.7 23.1 - - + -
148A THR* 4.0 4.0 - - - +
149A THR* 3.7 16.8 - - - +
31B TRP* 3.8 21.7 - - + -
132B ILE* 4.0 37.7 - - + -
140B LYS* 4.2 13.7 - - + +
141B LEU* 4.1 15.7 - - + -
159B VAL 2.9 25.4 + - - +
160B ILE* 3.7 5.6 - - - +
162B SER* 1.3 72.9 - - - +
164B GLN* 1.3 63.1 + - - +
166B THR* 3.4 4.4 + - - +
167B ALA* 3.1 24.6 + - - +
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Residues in contact with GLN 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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31B TRP* 3.5 48.5 - - + +
62B ARG* 2.7 39.1 + - - +
64B VAL* 3.8 9.1 - - - +
160B ILE* 2.8 31.3 + - + +
161B ASP* 4.1 7.4 - - - +
162B SER 3.2 0.2 - - - -
163B LEU* 1.3 79.8 - - - +
165B LEU* 1.3 60.0 + - - +
167B ALA* 3.6 8.7 + - - +
168B GLN* 3.2 29.6 + - - +
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Residues in contact with LEU 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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161B ASP 3.1 17.3 + - - +
162B SER 3.6 2.7 - - - +
164B GLN* 1.3 74.8 - - - +
166B THR* 1.3 62.5 + - + +
168B GLN* 3.1 20.0 + - + +
169B LYS* 3.2 29.5 + - + +
171B VAL* 4.1 9.4 - - + -
173B THR* 4.2 7.2 - - + -
177B TRP* 3.9 15.7 - - + -
183B CYS* 3.9 14.6 - - - -
218B GLN* 3.6 45.3 - - + +
219B PRO* 4.3 13.5 - - + +
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Residues in contact with THR 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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148A THR* 3.3 52.7 + - - +
162B SER* 2.9 30.9 + - - +
163B LEU* 3.4 6.4 + - - +
165B LEU* 1.3 73.9 - - + +
167B ALA* 1.3 63.4 + - - +
168B GLN 3.3 0.2 - - - -
169B LYS 3.4 17.0 - - - +
171B VAL* 3.4 25.6 - - + +
172B ALA* 3.8 5.8 - - - -
173B THR* 4.1 8.5 - - + -
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Residues in contact with ALA 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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31B TRP* 4.7 12.8 - - + -
163B LEU 3.1 19.0 + - - +
164B GLN* 3.8 8.1 - - - +
165B LEU 3.2 0.6 - - - -
166B THR* 1.3 78.6 + - - +
168B GLN* 1.3 60.6 + - + +
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Residues in contact with GLN 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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164B GLN* 3.2 25.1 + - - +
165B LEU* 3.1 9.1 + - + +
167B ALA* 1.3 81.9 - - + +
169B LYS* 1.3 82.0 + - + +
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Residues in contact with LYS 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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165B LEU* 3.2 18.4 + - + +
166B THR* 3.4 20.3 - - - +
167B ALA 3.8 0.2 - - - -
168B GLN* 1.3 95.6 + - + +
170B LYS* 1.3 61.2 + - - +
171B VAL* 3.1 15.7 + - + +
197B LEU* 6.5 1.1 - - + -
198B PHE* 5.6 2.7 - - + -
219B PRO* 3.6 44.4 - - + -
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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