Contacts of the helix formed by residues 150 - 172 (chain A) in PDB entry 5WIU
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 ARG 150 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A GLY* 3.3 9.4 - - - +
149A SER* 1.3 80.0 - - - +
151A ARG* 1.3 63.7 + - - +
152A GLN* 3.1 7.4 - - - +
153A LEU* 3.1 39.5 + - + +
154A LEU* 3.2 17.9 + - + +
1202A PO4 4.3 2.6 + - - -
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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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132A ASP* 4.9 4.4 + - - +
135A VAL* 3.7 29.8 - - - +
136A ALA* 4.7 4.8 - - - +
139A VAL* 5.0 4.2 + - - +
141A LEU* 4.2 23.2 - - - +
143A TYR* 4.1 11.4 + - - -
149A SER* 3.1 18.9 - - - +
150A ARG* 1.3 78.6 - - - +
152A GLN* 1.3 73.5 + - - +
153A LEU 3.3 0.2 - - - -
154A LEU* 3.5 14.2 + - + +
155A LEU* 3.0 28.8 + - - +
1202A PO4 2.8 16.7 + - - +
1223A GOL 3.2 26.0 + - - -
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Residues in contact with GLN 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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68A PRO* 3.8 22.7 - - + +
71A SER* 3.4 20.0 - - - +
72A PHE* 3.5 22.4 - - + -
132A ASP* 2.7 31.9 + - - +
150A ARG* 3.1 3.4 - - - -
151A ARG* 1.3 84.6 + - - +
153A LEU* 1.3 60.5 + - + +
155A LEU* 3.2 2.7 + - - +
156A ILE* 2.8 36.1 + - - +
1202A PO4 2.9 41.2 + - - -
1223A GOL 3.9 6.5 + - - -
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Residues in contact with LEU 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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71A SER* 5.3 2.9 - - - -
150A ARG* 3.1 35.9 + - + +
152A GLN* 1.3 78.3 - - + +
154A LEU* 1.3 60.6 + - + +
156A ILE* 3.3 7.9 + - + +
157A GLY* 2.9 25.8 + - - -
1205A OLA 3.6 42.6 - - + -
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Residues in contact with LEU 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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149A SER 5.0 4.5 - - - +
150A ARG* 3.2 17.4 + - + +
151A ARG* 3.8 15.3 - - + +
153A LEU* 1.3 77.6 - - + +
155A LEU* 1.3 64.5 + - - +
157A GLY* 3.3 3.0 + - - -
158A ALA* 3.0 21.5 + - - +
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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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72A PHE* 3.8 14.4 - - + -
128A ALA* 3.6 39.7 - - + +
131A VAL* 4.7 13.0 - - + -
132A ASP* 4.3 11.9 - - + +
151A ARG 3.0 18.3 + - - +
152A GLN* 3.6 4.9 - - - +
154A LEU* 1.3 76.5 - - - +
156A ILE* 1.3 56.9 + - - +
158A ALA* 3.1 13.7 + - + +
159A THR* 2.9 32.0 + - - +
1208A OLA 5.7 6.7 - - + -
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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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71A SER* 3.4 47.3 - - - +
72A PHE* 3.5 22.4 - - + +
75A SER* 3.6 22.2 - - - +
125A ASN* 4.1 4.3 - - - +
152A GLN 2.8 25.3 + - - +
153A LEU* 3.6 8.1 - - + +
155A LEU* 1.3 71.9 - - - +
157A GLY* 1.3 62.5 + - - +
159A THR* 3.1 16.7 + - - -
160A TRP* 3.1 23.6 + - + +
1205A OLA 4.1 24.2 - - + -
1221A PEG 5.3 1.3 - - - +
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Residues in contact with GLY 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 LEU 2.9 14.6 + - - -
154A LEU* 3.3 3.8 + - - -
155A LEU 3.3 0.2 - - - -
156A ILE* 1.3 76.3 - - - +
158A ALA* 1.3 61.8 + - - +
160A TRP* 3.3 3.6 + - - +
161A LEU* 3.1 30.4 + - - +
1221A PEG 4.3 20.4 - - - -
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Residues in contact with ALA 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 LEU 3.0 13.3 + - - +
155A LEU* 3.4 16.6 - - + +
157A GLY* 1.3 75.4 - - - +
159A THR* 1.3 57.5 + - - +
161A LEU* 3.3 8.5 + - - +
162A LEU* 2.9 43.3 + - + +
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Residues in contact with THR 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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121A ALA* 4.0 1.6 - - - +
124A PHE* 3.6 23.8 + - + -
125A ASN* 3.1 36.3 - - - +
128A ALA* 3.7 21.1 - - - +
155A LEU* 2.9 15.6 + - - +
156A ILE* 3.2 12.1 - - - +
158A ALA* 1.3 78.1 - - - +
160A TRP* 1.3 53.5 + - - +
162A LEU* 3.5 9.9 + - - +
163A SER* 2.7 36.5 + - - +
1208A OLA 4.4 7.1 - - - +
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Residues in contact with TRP 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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75A SER* 2.9 40.4 + - - -
79A ALA* 3.8 30.5 - - + -
82A LEU* 4.2 9.4 - - + -
117A MET* 4.6 14.8 - - + +
118A LEU* 3.9 18.4 - - + -
121A ALA* 3.8 23.1 - - + -
125A ASN* 3.8 7.2 - - - +
156A ILE* 3.1 36.6 + - + +
157A GLY 3.9 6.1 - - - +
159A THR* 1.3 74.1 - - - +
161A LEU* 1.3 66.3 + - - +
163A SER* 3.4 4.5 + - - -
164A ALA* 3.0 22.5 + - - +
1205A OLA 3.7 44.4 - - + +
1221A PEG 3.8 27.0 - - - +
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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 GLY 3.1 22.0 + - - +
158A ALA* 3.7 7.2 - - - +
160A TRP* 1.3 77.0 - - - +
162A LEU* 1.3 56.4 + - + +
164A ALA* 3.3 6.6 + - + +
165A ALA* 2.9 27.4 + - - +
1221A PEG 3.9 27.6 - - - +
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Residues in contact with LEU 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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124A PHE* 3.9 13.5 - - + -
158A ALA* 2.9 28.9 + - + +
159A THR* 3.7 4.7 - - - +
161A LEU* 1.3 77.3 - - + +
163A SER* 1.3 61.6 + - - +
165A ALA* 3.1 11.1 + - + +
166A VAL* 3.1 26.2 + - - +
1208A OLA 3.6 50.2 - - + +
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Residues in contact with SER 163 (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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117A MET* 3.7 30.5 - - - +
120A THR* 4.0 12.8 - - - +
121A ALA* 3.1 28.0 + - - +
124A PHE* 3.5 8.5 - - - -
159A THR 2.7 22.9 + - - -
160A TRP* 3.6 5.2 - - - -
161A LEU 3.3 0.2 - - - -
162A LEU* 1.3 75.6 - - - +
164A ALA* 1.3 62.7 + - - +
166A VAL* 3.3 4.5 + - - +
167A ALA* 3.1 23.0 + - - +
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Residues in contact with ALA 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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117A MET* 3.9 15.8 - - - +
160A TRP 3.0 14.7 + - - +
161A LEU* 3.5 10.1 - - + +
163A SER* 1.3 76.2 - - - +
165A ALA* 1.3 57.9 + - - +
167A ALA* 3.7 0.8 - - - +
168A ALA* 2.8 33.4 + - - +
1216A PEG 3.9 20.7 - - - +
1221A PEG 3.9 17.9 - - - +
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Residues in contact with ALA 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 LEU 2.9 14.0 + - - +
162A LEU* 3.1 16.8 + - + +
164A ALA* 1.3 78.4 - - - +
166A VAL* 1.3 62.8 + - - +
168A ALA* 3.6 11.3 + - - +
169A PRO* 3.8 8.1 - - - +
195A TYR* 4.5 0.5 + - - -
1208A OLA 4.2 29.9 - - + +
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Residues in contact with VAL 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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116A VAL* 4.5 2.0 - - + -
120A THR* 4.4 6.1 - - + +
124A PHE* 4.1 17.5 - - + -
162A LEU 3.1 14.3 + - - +
163A SER 3.6 6.5 - - - +
164A ALA 3.3 0.2 - - - -
165A ALA* 1.3 75.4 - - - +
167A ALA* 1.3 55.8 + - - +
169A PRO* 3.3 10.7 - - - +
192A TYR* 2.7 26.6 + - - +
195A TYR* 3.9 19.8 - - + +
196A SER* 3.9 17.5 - - - +
199A CYS* 4.8 5.4 - - + -
200A SER* 3.6 21.5 - - - +
1208A OLA 4.1 28.5 - - + -
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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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113A ALA* 3.4 28.6 - - - +
116A VAL* 3.9 6.5 - - + -
117A MET* 3.7 19.3 - - + +
163A SER 3.1 16.4 + - - +
164A ALA 3.2 3.3 + - - +
166A VAL* 1.3 76.5 - - - +
168A ALA* 1.3 64.6 + - - +
169A PRO* 3.3 1.1 - - - -
170A VAL* 3.0 23.6 + - - +
192A TYR* 3.5 7.9 - - - -
1216A PEG 4.3 6.7 - - - -
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Residues in contact with ALA 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 ALA 2.8 18.1 + - - +
165A ALA* 3.9 8.3 - - - +
166A VAL 3.4 0.2 - - - -
167A ALA* 1.3 77.1 - - - +
169A PRO* 1.4 68.7 - - + +
170A VAL 3.1 1.0 + - - -
171A LEU* 3.2 19.5 + - + +
172A CYS* 4.0 7.4 + - - -
1216A PEG 4.0 20.0 - - - +
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Residues in contact with PRO 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 ALA 3.8 7.0 - - - +
166A VAL 3.3 15.0 - - - +
167A ALA 3.4 1.6 - - - -
168A ALA* 1.4 93.4 - - + +
170A VAL* 1.3 62.5 + - - +
172A CYS* 3.0 22.3 + - + +
174A LEU* 3.5 24.6 - - + +
192A TYR* 4.2 21.5 - - + -
195A TYR* 5.3 4.5 - - + -
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Residues in contact with VAL 170 (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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109A ASP* 3.6 17.1 - - - +
112A MET* 3.8 17.0 - - + -
113A ALA* 3.4 28.9 - - + +
116A VAL* 4.5 9.2 - - + -
167A ALA 3.0 10.4 + - - +
169A PRO* 1.3 74.5 - - - +
171A LEU* 1.3 61.4 + - - +
173A GLY* 3.2 13.5 + - - -
174A LEU* 3.9 14.2 + - + -
187A LEU* 4.0 13.7 - - + -
192A TYR* 3.5 39.0 - - + +
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Residues in contact with LEU 171 (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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106A ARG* 2.3 39.7 + - - +
109A ASP* 4.6 1.8 - - - -
110A ALA* 3.8 31.4 - - + +
113A ALA* 3.7 15.0 - - + +
168A ALA 3.2 11.2 + - - +
170A VAL* 1.3 78.9 - - - +
172A CYS* 1.3 55.7 + - - +
173A GLY 3.2 1.1 - - - -
1216A PEG 3.9 43.5 - - - +
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Residues in contact with CYS 172 (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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106A ARG* 3.8 5.7 + - - -
168A ALA 4.1 13.0 - - - -
169A PRO* 3.0 15.8 + - + +
171A LEU* 1.3 78.5 - - - +
173A GLY* 1.3 62.9 + - - +
174A LEU* 5.4 2.2 - - + -
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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