Contacts of the helix formed by residues 147 - 167 (chain A) in PDB entry 3WOO
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 ASP 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144A ALA 4.3 3.3 + - - +
145A GLY 3.4 4.0 - - - +
146A ASP* 1.3 77.2 - - - +
148A ALA* 1.3 65.4 + - - +
149A LEU* 3.4 13.2 + - - +
150A ALA* 3.1 32.7 + - + +
151A ARG* 3.1 24.1 + - - +
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Residues in contact with ALA 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 ASP 3.5 4.0 + - - -
147A ASP* 1.3 73.1 + - - +
149A LEU* 1.3 62.7 + - - +
151A ARG* 3.2 16.2 + - - +
152A THR* 3.1 18.0 + - - -
544A THR* 3.5 28.3 - - + +
547A GLY* 3.4 11.3 - - - -
548A GLU* 3.6 30.1 - - + +
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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 ASP* 3.4 11.7 + - - +
148A ALA* 1.3 78.1 - - - +
150A ALA* 1.4 63.3 + - - +
152A THR* 3.3 3.3 + - - -
153A LYS* 3.0 45.3 + - + +
540A GLN* 3.6 37.5 - - - +
543A LYS* 3.7 31.6 - - + -
544A THR* 4.0 25.5 - - + +
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Residues in contact with ALA 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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144A ALA* 3.8 18.4 - - + +
147A ASP* 3.1 27.7 + - + +
149A LEU* 1.4 75.1 - - - +
151A ARG* 1.3 53.5 + - - +
153A LYS* 3.6 8.9 - - - +
154A ALA* 2.7 36.9 + - - +
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Residues in contact with ARG 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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141A ILE* 3.6 39.9 + - + +
144A ALA* 3.6 9.8 - - + +
145A GLY 3.2 18.6 + - - -
146A ASP* 3.1 28.0 + - - +
147A ASP 3.1 10.9 + - - +
148A ALA* 3.4 19.7 - - - +
149A LEU 3.2 0.2 - - - -
150A ALA* 1.3 73.9 - - - +
152A THR* 1.3 66.5 + - - +
154A ALA* 3.2 2.6 + - - +
155A LEU* 3.1 23.4 + - - +
547A GLY 2.8 38.7 + - - +
548A GLU* 4.0 5.7 + - - +
550A LEU* 3.9 15.0 - - + +
551A ALA* 3.8 24.4 - - - +
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Residues in contact with THR 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 ALA 3.1 6.2 + - - -
149A LEU 3.3 7.2 + - - -
151A ARG* 1.3 76.4 - - - +
153A LYS* 1.3 58.6 + - + +
155A LEU* 3.2 3.2 + - - +
156A GLU* 2.8 53.7 + - + +
543A LYS* 2.8 48.0 + - + +
546A ALA* 3.8 7.3 - - + +
547A GLY* 3.1 15.6 + - - -
550A LEU* 4.2 9.3 - - + +
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Residues in contact with LYS 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 48.8 + - + +
150A ALA* 3.2 7.6 + - - +
152A THR* 1.3 75.7 - - + +
154A ALA* 1.3 57.6 + - - +
156A GLU* 3.4 18.3 + - - +
157A ALA* 2.9 30.7 + - - +
540A GLN* 3.7 16.4 + - - -
543A LYS* 5.7 6.4 - - + +
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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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140A ALA* 3.5 28.3 - - + +
141A ILE* 4.6 1.1 - - - -
144A ALA* 3.9 12.8 - - + -
150A ALA 2.7 21.4 + - - +
151A ARG* 3.2 4.9 + - - +
153A LYS* 1.3 68.5 - - - +
155A LEU* 1.3 61.4 + - - +
157A ALA* 3.3 5.8 + - - +
158A PHE* 2.9 29.5 + - - +
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Residues in contact with LEU 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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137A ALA* 4.8 3.6 - - + +
140A ALA* 5.4 0.4 - - - -
141A ILE* 4.2 25.3 - - + +
151A ARG 3.1 9.8 + - - +
152A THR 3.6 7.0 - - - +
154A ALA* 1.3 77.9 - - - +
156A GLU* 1.3 65.9 + - + +
158A PHE* 3.3 22.4 + - + +
159A GLU* 2.8 26.8 + - + +
176A LEU* 4.8 6.7 - - + -
185A TYR* 4.1 24.5 - - + +
550A LEU* 3.7 33.0 - - + -
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Residues in contact with GLU 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 THR* 2.8 34.6 + - + +
153A LYS* 3.6 20.0 - - - +
155A LEU* 1.3 78.1 - - + +
157A ALA* 1.3 57.2 + - - +
159A GLU* 3.3 8.4 + - - +
160A LYS* 2.8 53.0 + - - +
426A GLU* 4.7 4.6 - - - +
427A SER* 6.5 0.7 - - - -
543A LYS* 3.2 36.2 + - - +
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Residues in contact with ALA 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 LYS 2.9 17.9 + - - +
154A ALA* 3.8 5.6 - - - +
156A GLU* 1.3 73.3 - - - +
158A PHE* 1.3 66.1 + - - +
160A LYS* 3.4 10.0 + - - +
161A LYS* 3.1 24.8 + - - +
423A ALA 6.0 0.4 - - - -
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Residues in contact with PHE 158 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133A VAL* 4.2 9.2 - - + -
136A ASP* 3.8 25.1 - - + -
137A ALA* 3.6 36.3 - - + -
140A ALA* 3.8 24.7 - - + -
154A ALA 2.9 18.6 + - - +
155A LEU* 3.4 14.4 - - + +
157A ALA* 1.3 78.2 - - - +
159A GLU* 1.3 66.7 + - - +
161A LYS* 3.8 3.8 - - - +
162A LEU* 3.0 55.7 + - + +
176A LEU* 4.3 7.4 - - + -
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Residues in contact with GLU 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 LEU* 2.8 24.3 + - - +
156A GLU* 3.5 8.1 - - - +
158A PHE* 1.3 73.9 - - - +
160A LYS* 1.3 68.8 + - + +
161A LYS 3.2 0.2 + - - -
162A LEU* 3.3 4.1 + - - +
163A ILE* 3.0 47.2 + - + +
176A LEU* 3.7 39.3 + - + +
427A SER* 5.3 6.9 + - - -
432A ARG* 5.7 0.7 + - - -
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Residues in contact with LYS 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 GLU* 2.8 45.7 + - - +
157A ALA* 4.0 7.4 - - - +
158A PHE 3.4 0.2 - - - -
159A GLU* 1.3 77.5 - - + +
161A LYS* 1.3 57.6 + - - +
163A ILE* 3.8 5.7 - - - +
164A ALA* 2.8 30.0 + - - +
423A ALA* 3.4 27.9 + - + +
424A GLU* 3.9 4.9 + - - +
425A ARG 2.3 35.2 + - - -
426A GLU* 4.1 3.0 + - - +
427A SER* 4.0 21.0 - - - +
430A GLN* 3.8 24.2 - - - +
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Residues in contact with LYS 161 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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157A ALA 3.1 16.4 + - - +
158A PHE* 3.8 5.2 - - + +
160A LYS* 1.3 74.1 - - - +
162A LEU* 1.3 68.4 + - - +
164A ALA* 3.2 6.3 + - - +
165A ASP* 3.0 51.0 + - - +
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Residues in contact with LEU 162 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133A VAL* 4.0 36.3 - - + -
158A PHE* 3.0 39.4 + - + +
159A GLU 3.7 3.1 - - - +
161A LYS* 1.3 78.3 - - - +
163A ILE* 1.3 57.6 + - + +
165A ASP* 3.3 9.8 + - + +
166A CYS* 2.9 29.7 + - - +
176A LEU* 4.2 10.3 - - + -
187A LEU* 3.9 35.4 - - + -
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Residues in contact with ILE 163 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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159A GLU* 3.0 50.1 + - + +
160A LYS* 3.9 5.2 - - - +
162A LEU* 1.3 72.8 - - + +
164A ALA* 1.3 69.4 + - - +
166A CYS* 3.2 5.9 + - - +
167A GLU* 2.9 48.6 + - + +
174A CYS* 4.3 15.5 - - + +
175A ARG* 4.6 0.7 - - - -
176A LEU* 4.3 11.0 - - + +
187A LEU* 4.5 15.3 - - + -
432A ARG* 3.6 29.2 - - - +
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Residues in contact with ALA 164 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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160A LYS 2.8 19.4 + - - +
161A LYS* 3.2 8.0 + - + +
163A ILE* 1.3 80.1 - - - +
165A ASP* 1.3 66.4 + - - +
167A GLU* 3.3 5.8 + - - +
168A ALA* 3.2 18.9 + - - +
432A ARG* 6.5 0.2 - - - +
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Residues in contact with ASP 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 LYS* 3.0 46.3 + - - +
162A LEU* 3.4 13.6 - - + +
163A ILE 3.2 0.2 - - - -
164A ALA* 1.3 78.3 - - - +
166A CYS* 1.3 63.6 + - - +
168A ALA* 3.3 20.7 + - - +
169A GLU 4.8 0.2 + - - -
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Residues in contact with CYS 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 LEU 2.9 18.0 + - - +
163A ILE* 3.6 3.8 - - - +
165A ASP* 1.3 77.3 - - - +
167A GLU* 1.3 56.4 + - - +
168A ALA 3.4 3.3 + - - -
169A GLU* 3.9 8.0 + - - +
172A PHE* 4.7 0.7 - - - +
174A CYS* 2.1 48.4 - - + -
187A LEU* 4.0 21.3 - - + -
189A LYS* 3.7 36.5 + - - +
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Residues in contact with GLU 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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163A ILE* 2.9 23.1 + - - +
164A ALA* 3.7 6.8 - - - +
166A CYS* 1.3 74.0 - - - +
168A ALA* 1.3 64.8 + - - +
169A GLU 3.2 12.3 + - - +
170A ALA* 4.3 2.1 + - - -
172A PHE 3.5 22.7 - - - +
173A ARG* 3.3 7.1 - - - +
174A CYS* 3.0 28.8 + - + +
432A ARG* 2.7 58.1 + - - +
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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