Contacts of the helix formed by residues 147 - 162 (chain A) in PDB entry 2PWZ
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 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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121A VAL* 4.7 0.4 - - + -
145A GLY 3.2 13.5 + - - +
146A VAL* 1.3 74.3 - - - +
148A THR* 1.3 60.0 + - - +
149A LEU 2.8 10.9 + - - -
150A ASP* 2.9 24.4 + - - +
151A ILE* 3.7 9.2 - - - +
173A VAL* 6.0 0.7 - - - -
176A GLY 4.8 2.7 - - - +
177A HIS* 3.8 33.9 - - + +
234A PHE* 6.0 0.2 - - - -
251A CYS 3.1 21.8 + - - -
252A ALA* 3.6 2.3 - - - +
253A TYR* 3.9 13.0 - - + -
265A SER* 3.4 25.4 + - - +
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Residues in contact with THR 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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146A VAL* 3.5 5.7 - - - +
147A THR* 1.3 77.3 + - - +
149A LEU* 1.3 56.3 + - - +
150A ASP 3.2 0.2 - - - -
151A ILE* 3.1 13.6 + - + +
152A ILE* 3.0 29.0 + - + +
230A ALA* 3.3 32.3 - - + +
233A ARG* 3.6 36.6 - - + +
234A PHE* 3.6 27.0 - - - +
250A GLU* 4.5 4.9 - - - +
251A CYS 4.4 5.0 + - - -
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Residues in contact with LEU 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 THR 2.8 4.4 + - - -
148A THR* 1.3 74.3 - - - +
150A ASP* 1.3 57.1 + - - +
152A ILE* 3.9 9.6 - - + -
153A ARG* 3.0 76.3 + - + +
177A HIS* 4.7 9.9 - - + +
223A ALA* 4.7 4.9 - - + -
226A SER* 3.6 39.5 - - - +
227A MET* 3.7 37.3 - - + +
230A ALA* 3.6 13.8 - - + +
48C HIS* 5.1 0.4 - - + -
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Residues in contact with ASP 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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147A THR* 2.9 11.9 + - - +
149A LEU* 1.3 78.4 - - - +
151A ILE* 1.3 53.1 + - + +
153A ARG* 3.7 16.8 + - - +
154A SER* 2.8 36.8 + - - -
173A VAL* 4.1 20.8 - - + +
176A GLY 4.1 3.1 - - - +
177A HIS* 2.5 44.9 + - - +
182A ILE* 3.6 30.6 - - + +
206A ILE* 4.3 6.9 - - + +
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Residues in contact with ILE 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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147A THR* 3.7 21.8 - - - +
148A THR* 3.1 14.3 + - + +
150A ASP* 1.3 76.2 - - + +
152A ILE* 1.3 61.2 + - - +
154A SER* 3.1 3.5 + - - -
155A ASN* 2.7 43.6 + - - +
170A GLU* 3.4 25.1 - - - +
171A VAL 3.8 17.3 - - - +
173A VAL* 3.8 25.8 - - + +
233A ARG* 3.9 15.3 - - - +
250A GLU* 5.8 1.3 - - - +
251A CYS* 3.8 31.0 - - + +
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Residues in contact with ILE 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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148A THR* 3.0 21.2 + - + +
149A LEU* 3.6 18.6 - - + +
151A ILE* 1.3 73.8 - - - +
153A ARG* 1.3 55.2 + - - +
155A ASN* 3.6 7.3 - - - +
156A THR* 2.8 37.1 + - - -
226A SER 3.8 22.2 - - - +
229A GLN* 4.5 11.7 - - + -
230A ALA* 3.9 13.9 - - + +
233A ARG* 4.1 34.3 - - - +
48C HIS 3.8 11.4 - - - +
49C ILE* 4.5 5.4 - - + -
50C PRO* 3.6 24.2 - - + +
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Residues in contact with ARG 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 LEU* 3.0 59.2 + - + +
150A ASP* 3.7 18.9 + - - +
152A ILE* 1.3 74.2 - - - +
154A SER* 1.3 60.4 + - - +
156A THR* 3.1 4.4 + - - -
157A PHE* 2.9 48.1 + - + -
177A HIS* 5.8 1.6 - - - -
182A ILE* 6.2 0.4 - - - +
206A ILE* 4.9 8.1 + - + -
209A ALA* 3.6 14.0 + - - +
210A GLY* 3.5 37.1 - - - +
213A VAL* 4.9 0.4 - - - +
223A ALA* 3.9 16.4 - - - +
48C HIS* 3.3 41.9 + - + +
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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
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150A ASP 2.8 22.8 + - - -
151A ILE 3.4 4.5 - - - -
153A ARG* 1.3 73.6 - - - +
155A ASN* 1.3 65.3 + - - +
157A PHE 3.3 0.6 + - - +
158A VAL* 3.0 30.2 + - - +
171A VAL* 3.8 26.0 - - - -
173A VAL* 3.7 10.6 - - - +
184A PRO* 4.0 1.0 - - - +
206A ILE* 3.2 36.6 - - - +
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Residues in contact with ASN 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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151A ILE* 2.7 32.7 + - - +
152A ILE* 3.6 13.0 - - - +
154A SER* 1.3 70.3 - - - +
156A THR* 1.3 58.1 + - - +
159A ALA* 3.0 32.2 + - - +
166A PRO 4.4 1.7 + - - +
169A VAL* 3.1 30.6 + - - +
170A GLU* 3.1 22.8 + - - -
171A VAL* 2.8 28.4 + - - +
233A ARG* 4.0 6.7 - - - +
50C PRO* 4.1 16.3 - - + +
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Residues in contact with THR 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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152A ILE 2.8 18.8 + - - -
153A ARG* 3.1 8.9 + - - -
155A ASN* 1.3 77.3 - - - +
157A PHE* 1.3 73.3 + - + +
159A ALA* 3.9 4.1 - - - +
160A GLU* 3.2 27.3 + - + +
166A PRO* 5.5 1.8 - - + -
47C SER 3.4 24.5 - - - +
48C HIS* 2.9 17.8 + - - -
49C ILE 4.6 3.4 - - - +
50C PRO* 3.1 21.4 - - + +
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Residues in contact with PHE 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 ARG* 2.9 33.9 + - + +
154A SER* 4.2 2.5 - - - +
156A THR* 1.3 84.0 - - + +
158A VAL* 1.3 57.5 + - - +
160A GLU* 3.6 10.1 + - - +
161A LEU* 3.1 29.1 + - - +
202A LEU* 3.7 22.4 - - + +
205A ARG* 3.4 55.2 - - + +
206A ILE* 3.7 23.1 - - + -
209A ALA* 3.9 24.0 - - + -
212A GLU* 4.3 0.4 - - - -
48C HIS* 3.8 34.8 - + - -
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Residues in contact with VAL 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* 3.0 20.9 + - - +
157A PHE* 1.3 74.5 - - - +
159A ALA* 1.3 66.8 + - - +
161A LEU* 3.2 4.3 + - - -
162A LYS* 2.9 31.0 + - + +
164A LYS* 5.8 0.7 - - + -
169A VAL* 3.7 24.2 - - + -
171A VAL* 4.0 6.3 - - + -
186A LEU* 3.6 31.9 - - + -
189A VAL* 4.2 10.5 - - + -
192A VAL* 5.1 1.1 - - + -
194A PHE* 4.0 19.3 - - + -
202A LEU* 3.8 15.3 - - + -
206A ILE* 5.5 0.9 - - + -
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Residues in contact with ALA 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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155A ASN 3.0 20.9 + - - +
156A THR 3.9 3.8 - - - +
158A VAL* 1.3 77.2 - - - +
160A GLU* 1.3 56.7 + - - +
163A GLY* 3.0 12.0 + - - -
164A LYS* 2.8 45.1 + - - +
166A PRO* 3.6 27.6 - - + -
169A VAL* 3.8 16.1 - - + +
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Residues in contact with GLU 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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156A THR* 3.2 20.6 + - + +
157A PHE* 3.8 10.3 - - - +
159A ALA* 1.3 80.4 - - - +
161A LEU* 1.3 61.2 + - - +
163A GLY* 3.8 5.8 + - - -
205A ARG* 3.6 24.7 + - - -
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Residues in contact with LEU 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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157A PHE 3.1 18.5 + - - +
158A VAL* 3.8 4.3 - - - +
160A GLU* 1.3 77.3 - - - +
162A LYS* 1.3 80.0 + - + +
163A GLY 3.4 0.7 + - - -
194A PHE* 4.2 2.2 - - + -
198A GLU* 4.0 31.6 - - + +
202A LEU* 3.9 31.9 - - + -
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Residues in contact with LYS 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 VAL* 2.9 18.9 + - + +
161A LEU* 1.3 91.6 - - + +
163A GLY* 1.3 54.1 + - - +
164A LYS* 2.7 40.9 + - + -
192A VAL* 3.7 35.9 - - + +
193A SER 2.6 29.5 + - - +
194A PHE* 3.8 26.2 - - + -
198A GLU* 3.8 13.6 + - - -
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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
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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