Contacts of the helix formed by residues 149 - 162 (chain A) in PDB entry 1E0W
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 149 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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102A ARG* 3.1 35.0 + - - -
146A SER 4.6 0.3 - - - +
147A GLY* 3.6 9.2 - - - -
148A ASN* 1.3 70.0 - - - +
150A TRP* 1.4 63.0 + - - -
151A ILE 3.2 3.1 + - - -
152A GLU* 3.3 20.0 + - - +
153A VAL* 3.0 30.1 + - + +
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Residues in contact with TRP 150 (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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84A ALA* 4.2 16.2 - - + -
85A TRP* 5.3 1.6 - - - -
86A HIS 5.8 0.7 - - - -
102A ARG* 3.7 20.6 - - - +
105A MET* 3.8 17.5 - - - +
126A VAL* 3.7 29.8 - - + -
127A ASN 5.2 3.1 - - - -
129A ALA* 3.9 18.8 - - + -
138A ARG* 3.9 4.7 - - - +
141A SER* 5.0 4.0 - - - -
143A LEU* 3.5 57.7 - - + +
144A GLN* 3.0 30.9 + - + +
146A SER* 4.0 2.0 - - - +
147A GLY 3.2 26.6 + - - +
148A ASN 3.2 0.6 - - - -
149A ASP* 1.4 78.6 + - - +
151A ILE* 1.3 80.0 + - + +
153A VAL* 3.5 2.7 + - - +
154A ALA* 3.1 22.5 + - - +
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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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126A VAL* 4.1 12.8 - - + -
129A ALA* 3.7 26.7 - - + -
130A PHE* 5.4 0.4 - - + -
138A ARG* 3.6 33.2 - - - +
148A ASN 5.0 1.3 - - - +
149A ASP 3.2 0.8 - - - -
150A TRP* 1.3 102.3 - - + +
152A GLU* 1.3 66.8 + - - +
154A ALA* 3.2 4.2 + - - +
155A PHE* 3.1 46.7 + - + -
169A TYR* 4.8 2.2 - - + -
188A MET* 4.0 16.4 - - - -
192A PHE* 3.8 20.9 - - + -
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Residues in contact with GLU 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 ASN 5.4 0.2 + - - -
149A ASP* 3.3 21.4 + - - +
151A ILE* 1.3 78.2 - - - +
153A VAL* 1.3 65.8 + - + +
155A PHE* 3.3 2.6 + - - +
156A ARG* 2.9 60.5 + - - +
192A PHE* 4.0 12.6 - - + -
195A ARG* 3.0 32.8 + - - -
197A VAL* 3.7 27.0 - - + +
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Residues in contact with VAL 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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102A ARG* 3.8 29.6 - - - +
105A MET* 4.0 16.2 - - + -
106A ILE* 4.0 18.2 - - + -
149A ASP* 3.0 25.0 + - + +
150A TRP 3.8 5.2 - - - +
152A GLU* 1.3 79.3 - - + +
154A ALA* 1.3 62.2 + - - +
156A ARG* 3.4 6.8 + - - +
157A THR* 2.8 32.8 + - - +
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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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84A ALA* 4.7 2.9 - - + -
105A MET* 4.0 12.3 - - + +
109A ILE* 3.9 25.1 - - + +
125A VAL* 3.8 7.8 - - + +
126A VAL* 3.8 22.9 - - + -
150A TRP* 3.1 14.2 + - + +
151A ILE 3.2 8.5 + - - +
153A VAL* 1.3 76.9 - - - +
155A PHE* 1.3 57.0 + - - +
157A THR* 3.4 3.0 + - - -
158A ALA* 3.0 28.2 + - - +
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Residues in contact with PHE 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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125A VAL* 3.9 15.7 - - + -
126A VAL* 4.0 14.8 - - + -
151A ILE* 3.1 45.0 + - + -
152A GLU 3.3 5.8 + - - +
154A ALA* 1.3 73.8 - - - +
156A ARG* 1.4 63.9 + - - +
158A ALA* 3.3 1.8 + - - -
159A ARG* 3.0 24.6 + - - +
167A LEU* 3.8 28.2 - - + +
168A CYS 3.6 35.4 - - - -
169A TYR* 3.7 16.2 - - + -
192A PHE* 4.4 11.9 - + - -
197A VAL* 4.2 7.9 - - + -
198A PRO* 3.2 29.1 - - - +
199A ILE* 4.1 9.4 - - + -
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Residues in contact with ARG 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 GLU* 2.9 51.4 + - + +
153A VAL* 4.0 7.2 - - - +
155A PHE* 1.4 76.0 - - - +
157A THR* 1.3 63.4 + - - +
159A ARG* 3.5 2.9 + - - +
160A ALA* 3.4 20.1 + - - +
195A ARG* 3.7 18.0 + - - +
196A GLY 3.5 16.9 + - - -
197A VAL* 3.7 16.6 - - - +
198A PRO* 3.9 18.4 - - + +
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Residues in contact with THR 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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106A ILE* 3.9 28.5 - - + +
109A ILE* 3.8 21.5 - - + -
110A ASN* 3.7 29.3 + - - +
153A VAL* 2.8 24.1 + - - +
154A ALA* 3.6 4.9 - - - -
156A ARG* 1.3 77.0 - - - +
158A ALA* 1.3 63.2 + - - +
160A ALA* 3.4 7.0 + - - +
161A ALA* 3.1 20.3 + - - +
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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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109A ILE* 4.1 4.9 - - + +
113A MET* 3.5 34.0 - - - +
125A VAL* 4.1 16.6 - - + -
154A ALA 3.0 17.3 + - - +
155A PHE 3.8 3.4 - - - +
157A THR* 1.3 77.2 - - - +
159A ARG* 1.3 62.7 + - - +
161A ALA 3.2 0.9 + - - -
162A ASP 3.2 20.1 + - - +
167A LEU* 4.0 19.2 - - + +
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Residues in contact with ARG 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 PHE 3.0 17.1 + - - +
156A ARG 3.9 3.8 - - - +
157A THR 3.4 0.2 - - - -
158A ALA* 1.3 75.7 - - - +
160A ALA* 1.3 62.6 + - - +
162A ASP 4.7 1.8 + - - -
163A PRO* 3.3 45.3 + - - +
165A ALA 3.9 8.3 + - - -
167A LEU* 3.6 25.0 - - + +
198A PRO* 3.6 40.8 - - + +
199A ILE 4.5 0.4 - - - +
200A ASP* 2.9 43.4 + - - -
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Residues in contact with ALA 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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110A ASN* 6.2 0.2 - - - +
117A LYS* 5.7 1.0 + - - -
156A ARG 3.4 9.4 + - - +
157A THR* 3.4 9.5 + - - +
158A ALA 3.3 0.4 - - - -
159A ARG* 1.3 80.1 - - - +
161A ALA* 1.3 64.1 + - - +
163A PRO* 4.0 10.3 - - - +
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Residues in contact with ALA 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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109A ILE* 5.1 0.2 - - + -
110A ASN* 3.7 24.2 - - - +
113A MET* 4.0 28.7 - - + +
114A ALA* 5.5 1.8 + - - +
117A LYS* 3.6 22.9 + - - +
157A THR 3.1 15.1 + - - +
158A ALA* 3.2 5.5 + - - +
160A ALA* 1.3 79.4 - - - +
162A ASP* 1.3 61.3 + - - +
163A PRO* 4.0 0.2 - - - -
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Residues in contact with ASP 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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113A MET* 3.8 20.9 - - + +
116A TYR 4.1 2.6 - - - +
117A LYS* 3.6 16.8 - - + +
118A GLY* 2.9 27.9 + - - -
119A LYS 4.7 0.3 + - - -
120A ILE 4.8 3.6 - - - +
123A TRP* 5.3 3.1 + - - -
158A ALA 3.2 10.8 + - - +
159A ARG* 3.6 6.0 - - - +
161A ALA* 1.3 78.9 - - - +
163A PRO* 1.3 66.5 - - - +
164A SER* 2.7 29.3 + - - -
165A ALA* 3.3 24.3 + - - +
167A LEU* 5.1 1.2 - - - +
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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