Contacts of the helix formed by residues 152 - 167 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143C ILE* 6.1 0.4 - - - +
145C TYR* 4.7 1.0 - - - -
151C ARG* 1.3 74.0 - - - +
153C PHE* 1.3 62.0 + - - +
154C SER* 2.9 23.4 + - - -
155C GLU* 3.1 28.5 + - + +
156C ILE* 3.6 10.0 - - - +
152D ASN* 5.2 4.0 - - - +
155D GLU* 2.9 40.8 + - - +
158D ARG* 3.7 13.5 - - - +
176D ASP* 3.6 13.8 - - - +
178D GLN* 5.5 2.0 + - - -
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Residues in contact with PHE 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C VAL* 6.3 1.6 - - + -
35C PHE* 4.6 14.8 - + + -
48C GLU* 3.9 30.1 - - + -
51C ARG* 4.2 18.4 - - + -
52C VAL* 3.8 26.9 - - + -
55C LEU* 3.6 24.7 - - + -
59C PHE* 4.6 9.3 - + + -
66C LEU* 6.6 0.2 - - + -
130C VAL* 4.9 3.1 - - + -
151C ARG* 3.7 46.7 - - + -
152C ASN* 1.3 69.3 + - - +
154C SER* 1.3 64.6 + - - +
155C GLU 3.2 1.6 - - - -
156C ILE* 3.3 29.6 + - + +
157C LEU* 3.3 25.6 + - - +
175D ALA* 4.7 1.3 - - + -
176D ASP* 3.6 4.8 + - - -
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Residues in contact with SER 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A ASP* 4.8 8.3 + - - -
51C ARG* 4.3 16.5 + - - +
55C LEU* 4.9 3.4 - - - +
152C ASN* 2.9 11.2 + - - -
153C PHE* 1.3 78.9 - - - +
155C GLU* 1.3 58.4 + - - +
157C LEU* 3.3 11.5 + - - +
158C ARG* 2.9 28.5 + - - +
176D ASP* 4.4 5.4 + - - -
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Residues in contact with GLU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C TYR* 5.8 0.7 - - - +
152C ASN* 3.1 32.1 + - + +
154C SER* 1.3 78.3 - - - +
156C ILE* 1.3 59.3 + - + +
158C ARG* 3.0 37.9 + - - +
159C VAL* 3.0 29.0 + - + +
145D TYR* 2.6 29.9 + - - +
152D ASN* 2.8 36.9 + - - +
155D GLU* 4.6 13.5 - - + -
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Residues in contact with ILE 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C VAL* 4.7 6.3 - - + -
59C PHE* 4.1 14.1 - - + -
130C VAL* 4.2 33.4 - - + -
132C ILE* 4.5 9.0 - - + -
141C LEU* 6.3 1.6 - - + -
143C ILE* 4.6 14.8 - - + -
151C ARG* 4.8 2.9 - - + -
152C ASN 3.6 17.2 + - - +
153C PHE* 3.3 39.2 + - + +
154C SER 3.2 0.4 - - - -
155C GLU* 1.3 77.4 - - + +
157C LEU* 1.3 58.6 + - - +
159C VAL* 3.3 10.7 - - + +
160C ILE* 3.0 46.1 + - + +
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Residues in contact with LEU 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C LEU* 4.1 21.8 - - + -
58C ASP* 3.8 23.8 - - + -
59C PHE* 3.5 41.3 - - + -
62C ARG* 4.1 33.5 + - - +
153C PHE 3.3 13.7 + - - +
154C SER* 3.6 11.4 - - - +
156C ILE* 1.3 74.8 - - - +
158C ARG* 1.3 65.0 + - - +
160C ILE* 3.3 5.9 + - + +
161C ASP* 3.0 29.7 + - - +
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Residues in contact with ARG 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154C SER 2.9 14.9 + - - +
155C GLU* 3.0 47.0 + - - +
157C LEU* 1.3 77.0 - - - +
159C VAL* 1.3 70.4 + - - +
161C ASP* 3.3 12.1 + - - +
162C SER* 3.1 21.6 + - - -
173C THR* 5.0 2.4 + - - -
174C PRO 4.6 0.2 + - - -
176C ASP* 4.0 4.5 - - - +
177C TRP* 2.8 65.7 + - + +
178C GLN* 4.0 26.0 - - - +
179C PRO* 4.5 7.4 - - + -
145D TYR* 4.2 0.6 - - - -
149D THR* 5.0 0.6 - - - +
150D GLY 3.2 26.1 + - - -
151D ARG 4.1 0.2 - - - -
152D ASN* 3.9 18.1 - - - +
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Residues in contact with VAL 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C ILE* 3.8 11.7 - - + -
141C LEU* 3.7 28.7 - - + -
155C GLU* 3.0 36.4 + - + +
156C ILE* 3.3 20.4 - - + +
158C ARG* 1.3 89.0 - - - +
160C ILE* 1.3 55.3 + - - +
162C SER* 3.1 6.0 + - - -
163C LEU* 2.7 40.0 + - - +
145D TYR* 3.6 17.3 - - + +
149D THR* 4.0 8.1 - - + -
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Residues in contact with ILE 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C TRP* 5.5 3.6 - - + -
33C VAL* 4.2 9.4 - - + -
59C PHE* 3.5 36.1 - - + -
62C ARG* 4.2 11.0 - - - -
64C VAL* 3.8 19.7 - - + -
132C ILE* 4.2 21.3 - - + -
156C ILE* 3.0 32.6 + - + +
157C LEU* 3.3 9.4 + - + +
159C VAL* 1.3 75.8 - - - +
161C ASP* 1.3 57.9 - - - +
163C LEU* 3.2 8.1 + - - +
164C GLN* 2.9 52.6 + - + +
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Residues in contact with ASP 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ARG* 2.8 47.0 + - - +
157C LEU 3.0 17.1 + - - +
158C ARG* 3.4 10.0 - - - +
160C ILE* 1.3 76.0 - - - +
162C SER* 1.3 61.5 + - - +
164C GLN* 4.1 6.7 - - - +
165C LEU* 3.2 23.4 + - - +
177C TRP* 4.1 7.4 - - + -
179C PRO* 3.4 31.3 - - + +
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Residues in contact with SER 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158C ARG* 3.1 13.8 + - - -
159C VAL* 3.1 8.3 + - - -
161C ASP* 1.3 73.2 - - - +
163C LEU* 1.3 68.3 + - - +
164C GLN 3.1 0.3 + - - -
165C LEU* 3.3 1.1 + - - +
166C THR* 2.9 27.4 + - - +
173C THR* 2.8 33.4 + - - +
177C TRP* 3.6 12.9 - - - -
148D THR 3.8 1.9 + - - -
149D THR* 2.7 33.4 + - - -
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Residues in contact with LEU 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31C TRP* 3.8 20.5 - - + -
132C ILE* 3.8 42.0 - - + -
140C LYS* 4.0 20.0 - - + +
141C LEU* 4.3 9.0 - - + -
159C VAL 2.7 24.8 + - - +
160C ILE* 3.6 5.8 - - - +
162C SER* 1.3 72.8 - - - +
164C GLN* 1.3 58.3 + - - +
166C THR* 3.2 5.7 + - - -
167C ALA* 3.0 30.0 + - - +
146D PRO* 3.8 31.2 - - + -
148D THR* 4.2 3.4 - - - +
149D THR* 4.0 7.4 - - - +
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Residues in contact with GLN 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31C TRP* 3.7 47.5 - - + +
62C ARG* 2.8 42.1 + - - +
64C VAL* 3.8 9.1 - - - +
160C ILE* 2.9 27.8 + - + +
161C ASP* 4.2 7.0 - - - +
163C LEU* 1.3 78.9 - - - +
165C LEU* 1.3 60.2 + - - +
167C ALA* 3.7 11.0 + - - +
168C GLN* 3.2 21.3 + - - +
221C SER* 5.5 0.2 - - - -
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Residues in contact with LEU 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161C ASP 3.2 15.3 + - - +
162C SER 3.6 2.5 - - - +
164C GLN* 1.3 74.0 - - - +
166C THR* 1.3 60.8 + - - +
167C ALA 3.1 2.2 - - - -
168C GLN* 2.9 12.2 + - - +
169C LYS* 2.8 36.2 + - + +
171C VAL* 4.1 11.9 - - + -
173C THR* 4.3 7.4 - - + -
177C TRP* 4.1 10.1 - - + -
183C CYS* 4.0 17.3 - - - -
218C GLN* 3.9 33.2 - - + +
219C PRO* 3.8 17.7 - - + +
221C SER* 3.7 28.2 + - - +
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Residues in contact with THR 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162C SER* 2.9 17.6 + - - +
163C LEU* 3.2 7.8 + - - +
165C LEU* 1.3 77.9 - - + +
167C ALA* 1.3 63.0 + - - +
168C GLN 3.1 1.1 + - - -
169C LYS 3.5 18.4 - - - +
171C VAL* 3.4 26.3 - - + +
172C ALA* 4.0 4.7 - - - -
173C THR* 4.0 14.6 - - + -
148D THR* 3.3 50.5 + - - +
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Residues in contact with ALA 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31C TRP* 4.7 12.6 - - + -
163C LEU 3.0 17.4 + - - +
164C GLN* 3.8 10.3 - - - +
165C LEU 3.1 0.4 - - - -
166C THR* 1.3 78.1 + - - +
168C GLN* 1.3 60.6 + - + +
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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
------------------------------------------------------------
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