Contacts of the helix formed by residues 155 - 170 (chain A) in PDB entry 2G8I
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 155 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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102A ILE* 4.1 17.3 - - + -
149A LEU* 3.8 25.1 - - + -
150A VAL* 2.6 33.1 + - + +
151A ARG* 3.4 2.9 - - - -
152A ASN* 2.9 28.9 + - - +
154A GLU* 1.3 78.6 - - + +
156A ALA* 1.3 64.4 + - - +
157A LEU 3.3 2.7 - - - -
158A ILE* 3.1 9.2 - - - +
159A TRP* 3.1 29.5 + - - -
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Residues in contact with ALA 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 ASN 3.0 11.3 + - - +
153A GLU* 3.5 17.9 - - - +
154A GLU 3.3 2.2 - - - -
155A THR* 1.3 77.9 - - - +
157A LEU* 1.3 57.7 + - - +
159A TRP* 3.8 4.8 - - - +
160A LYS* 2.9 30.1 + - - +
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Residues in contact with LEU 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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97A ARG* 4.6 14.8 - - - +
99A PRO 5.6 0.9 - - - +
100A ILE* 3.9 22.0 - - + -
101A PRO* 4.1 15.9 - - + -
153A GLU 5.1 0.2 + - - -
154A GLU 4.8 3.6 + - - +
155A THR 3.3 1.0 - - - -
156A ALA* 1.3 76.1 - - - +
158A ILE* 1.3 67.7 + - - +
160A LYS* 3.1 16.8 + - + +
161A LEU* 3.0 37.8 + - + +
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Residues in contact with ILE 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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81A VAL* 4.7 9.4 - - + -
100A ILE* 3.9 26.5 - - + +
102A ILE 3.2 22.8 + - - +
103A GLY* 3.8 18.2 - - - -
107A MET* 3.8 25.4 - - + -
111A LEU* 3.8 26.9 - - + -
149A LEU* 3.9 21.8 - - + -
155A THR 3.1 15.2 - - - +
157A LEU* 1.3 78.8 - - - +
159A TRP* 1.3 61.6 + - - +
161A LEU* 3.3 4.7 + - - +
162A VAL* 2.9 32.7 + - - +
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Residues in contact with TRP 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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107A MET* 3.4 24.1 - - + +
144A LYS* 6.2 1.6 - - - -
145A ALA 4.5 6.5 - - - -
147A SER* 3.5 37.0 - - - -
149A LEU* 3.1 30.5 + - - +
150A VAL 3.5 3.8 + - - -
151A ARG* 3.1 63.3 - - + +
155A THR* 3.1 36.9 + - - +
156A ALA* 3.9 5.4 - - - +
158A ILE* 1.3 79.4 - - + +
160A LYS* 1.3 62.0 + - - +
162A VAL* 3.7 16.4 - - + +
163A ASP* 2.8 40.9 + - - +
166A GLU* 5.4 1.1 - - - -
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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 ALA 2.9 18.5 + - - +
157A LEU* 3.4 18.6 - - + +
159A TRP* 1.3 76.0 - - - +
161A LEU* 1.3 60.4 + - + +
163A ASP* 3.8 5.1 - - - +
164A GLU* 2.6 71.4 + - + +
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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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97A ARG* 4.0 28.0 - - - +
100A ILE* 3.5 35.0 - - + -
111A LEU* 3.5 16.6 - - + +
157A LEU* 3.0 29.4 + - + +
158A ILE* 3.6 5.6 - - - +
160A LYS* 1.3 79.3 - - + +
162A VAL* 1.3 56.7 + - - +
164A GLU* 3.4 17.5 + - - +
165A ALA* 2.9 30.0 + - - +
502A CL 4.1 16.8 - - + -
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Residues in contact with VAL 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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107A MET* 3.8 37.0 - - + -
110A PHE* 4.0 3.3 - - + -
111A LEU* 3.8 19.3 - - + -
145A ALA* 3.6 30.1 - - + -
158A ILE* 2.9 22.1 + - + +
159A TRP* 3.7 24.2 - - + +
160A LYS 3.2 0.2 - - - -
161A LEU* 1.3 75.8 - - - +
163A ASP* 1.3 64.6 + - - +
165A ALA* 3.2 3.7 + - - +
166A GLU* 3.0 27.8 + - - +
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Residues in contact with ASP 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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151A ARG* 3.0 33.6 + - - -
159A TRP* 2.8 26.3 + - - +
160A LYS* 3.9 5.4 - - - +
162A VAL* 1.3 72.0 - - - +
164A GLU* 1.3 58.8 + - + +
166A GLU* 3.2 9.6 + - - +
167A GLU* 2.9 27.8 + - - +
403A MN 2.2 36.3 + - - +
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Residues in contact with GLU 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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118A ARG* 4.7 7.1 + - - +
160A LYS* 2.6 64.3 + - + +
161A LEU* 3.8 21.7 - - + +
163A ASP* 1.3 73.7 - - + +
165A ALA* 1.3 59.8 + - - +
167A GLU* 3.3 8.7 + - - +
168A TRP* 3.0 28.4 + - - +
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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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110A PHE* 3.7 18.4 - - + -
111A LEU* 3.9 11.2 - - + -
114A VAL* 3.9 22.8 - - + +
118A ARG* 5.2 3.6 - - - +
161A LEU 2.9 18.6 + - - +
162A VAL 3.2 5.6 + - - +
164A GLU* 1.3 77.8 - - - +
166A GLU* 1.3 62.4 + - - +
168A TRP* 3.2 5.7 + - - +
169A LEU* 3.0 28.4 + - - +
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Residues in contact with GLU 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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110A PHE* 4.0 16.1 - - + -
143A LYS 4.1 12.1 - - - +
144A LYS* 3.6 13.2 - - - +
145A ALA* 2.8 33.9 + - - +
159A TRP* 5.4 0.2 - - - -
162A VAL* 3.0 19.9 + - - +
163A ASP* 3.2 12.2 - - - +
165A ALA* 1.3 75.8 - - - +
167A GLU* 1.3 63.1 + - - +
169A LEU* 3.1 11.0 + - - +
170A ASN* 3.0 32.3 + - - +
403A MN 2.1 36.4 + - - -
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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 ASP 2.9 14.1 + - - +
164A GLU* 3.4 14.1 - - - +
166A GLU* 1.3 77.5 - - - +
168A TRP* 1.3 60.8 + - - +
170A ASN* 3.4 6.6 + - - +
171A THR* 2.8 52.2 + - - +
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Residues in contact with TRP 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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114A VAL* 4.3 2.7 - - + -
117A LEU* 4.1 10.3 - - + -
118A ARG* 3.3 75.7 - - + +
121A LYS* 3.8 30.3 - - + -
164A GLU 3.0 13.3 + - - +
165A ALA 3.5 7.9 - - - +
166A GLU 3.2 0.2 - - - -
167A GLU* 1.3 77.5 - - - +
169A LEU* 1.3 77.1 + - + +
171A THR* 3.0 9.1 + - - -
172A HIS* 2.9 66.7 + + + +
174A TYR* 3.9 29.6 - + + -
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Residues in contact with LEU 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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110A PHE* 3.9 20.6 - - + -
114A VAL* 3.8 24.0 - - + -
117A LEU* 3.7 22.9 - - + -
140A VAL* 4.2 9.2 - - + +
143A LYS* 2.9 52.1 + - + +
165A ALA 3.0 16.7 + - - +
166A GLU* 3.1 7.6 + - - +
168A TRP* 1.3 87.7 - - + +
170A ASN* 1.3 58.1 + - - +
172A HIS 3.3 15.2 - - - +
174A TYR* 3.4 24.2 - - + +
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Residues in contact with ASN 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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143A LYS* 3.3 43.5 + - - +
166A GLU* 3.0 25.3 + - - +
167A GLU* 4.0 7.0 - - - +
168A TRP 3.2 0.4 - - - -
169A LEU* 1.3 76.0 - - - +
171A THR* 1.3 63.2 + - + +
172A HIS 3.7 0.9 - - - -
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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