Contacts of the helix formed by residues 147 - 162 (chain r) in PDB entry 6QXT
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 ASN 147 (chain r).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144r ASP* 3.7 17.9 + - - +
145r PRO 3.4 4.0 - - - +
146r SER* 1.3 79.8 - - - +
148r ARG* 1.3 59.0 + - - +
149r GLU* 3.2 3.9 + - - -
150r GLY* 3.4 6.9 + - - +
151r HIS* 3.1 24.9 + - - +
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Residues in contact with ARG 148 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114r ILE* 6.1 0.2 - - - +
136r LEU* 3.7 36.4 - - + +
139r GLY 5.2 1.8 - - - -
140r LEU* 4.9 12.6 - - + +
146r SER* 3.2 14.1 - - - -
147r ASN* 1.3 74.6 - - - +
149r GLU* 1.3 59.8 + - - +
151r HIS* 3.7 9.2 - - - +
152r SER* 2.9 28.8 + - - -
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Residues in contact with GLU 149 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110r ILE* 5.2 14.8 - - + +
114r ILE* 6.0 5.2 - - + -
147r ASN* 3.2 1.9 - - - -
148r ARG* 1.3 77.2 - - - +
150r GLY* 1.3 60.3 + - - +
152r SER* 3.2 6.0 + - - -
153r ALA* 2.9 27.9 + - - +
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Residues in contact with GLY 150 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147r ASN* 3.4 10.9 + - - +
149r GLU* 1.3 77.4 - - - +
151r HIS* 1.3 60.4 + - - +
153r ALA* 3.5 18.5 + - - +
154r ARG* 3.8 8.0 + - - +
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Residues in contact with HIS 151 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136r LEU* 5.9 2.9 - - + -
146r SER 5.5 1.3 - - - +
147r ASN 3.1 17.0 + - - +
148r ARG* 3.9 9.4 - - - +
149r GLU 3.2 0.2 - - - -
150r GLY* 1.3 76.9 - - - +
152r SER* 1.3 61.5 + - - +
153r ALA 3.6 0.2 + - - -
154r ARG* 3.9 4.7 + - - +
155r ILE* 3.8 16.3 + - - +
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Residues in contact with SER 152 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114r ILE* 5.1 14.4 - - - -
117r GLN* 5.9 3.7 - - - +
133r ILE* 4.7 17.9 - - - +
136r LEU* 4.7 13.4 - - - +
148r ARG 2.9 19.2 + - - -
149r GLU* 3.2 6.5 + - - -
151r HIS* 1.3 74.6 - - - +
153r ALA* 1.3 64.6 + - - +
155r ILE* 3.3 7.8 + - - +
156r TYR* 2.9 24.8 + - - +
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Residues in contact with ALA 153 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149r GLU 2.9 12.3 + - - +
150r GLY* 3.5 15.3 - - - +
151r HIS 3.3 0.2 - - - -
152r SER* 1.3 75.6 - - - +
154r ARG* 1.3 65.8 + - - +
156r TYR* 2.9 7.2 + - - +
157r PHE* 2.9 26.9 + - - +
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Residues in contact with ARG 154 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150r GLY 3.8 7.7 + - - +
151r HIS* 3.9 6.5 + - - +
152r SER 3.5 0.2 - - - -
153r ALA* 1.3 79.0 - - - +
155r ILE* 1.3 56.7 + - - +
157r PHE* 4.9 3.6 - - - -
158r ASN* 2.8 35.9 + - + +
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Residues in contact with ILE 155 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129r LYS* 4.8 18.0 - - + +
132r SER* 5.7 6.3 - - - -
133r ILE* 5.6 5.8 - - + -
151r HIS 3.8 10.9 + - - +
152r SER* 3.3 10.3 + - - +
153r ALA 3.1 0.6 - - - -
154r ARG* 1.3 79.7 - - - +
156r TYR* 1.3 57.8 + - - +
158r ASN* 3.9 3.0 - - - +
159r THR* 2.9 31.9 + - - -
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Residues in contact with TYR 156 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117r GLN* 4.6 21.8 - - + +
152r SER 2.9 16.5 + - - +
153r ALA* 2.9 7.0 + - - +
155r ILE* 1.3 77.9 - - - +
157r PHE* 1.3 57.3 + - - +
159r THR* 3.3 5.1 + - - -
160r LEU* 2.9 29.9 + - - +
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Residues in contact with PHE 157 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153r ALA 2.9 13.9 + - - +
154r ARG* 4.5 3.1 - - - +
156r TYR* 1.3 76.7 - - - +
158r ASN* 1.3 59.4 + - - +
160r LEU* 4.4 4.9 - - - -
161r PHE* 2.9 33.2 + - + +
162r GLY 3.7 3.7 + - - +
165r PHE* 4.9 9.5 - - + +
166r THR* 5.6 6.7 - - - -
167r ARG* 5.8 4.5 - - + +
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Residues in contact with ASN 158 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154r ARG 2.8 22.6 + - - +
155r ILE* 4.1 3.6 - - - +
157r PHE* 1.3 77.8 - - - +
159r THR* 1.3 61.9 + - - +
162r GLY* 3.1 36.0 + - - +
163r ASN* 3.6 15.8 + - + +
165r PHE 5.0 4.0 + - - +
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Residues in contact with THR 159 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121r LEU* 5.5 7.6 - - - -
126r PHE* 5.5 7.2 - - - -
129r LYS* 4.3 20.0 - - - -
155r ILE 2.9 20.8 + - - -
156r TYR* 3.6 5.6 - - - -
158r ASN* 1.3 78.3 - - - +
160r LEU* 1.3 67.1 + - - +
162r GLY* 4.2 1.9 + - - -
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Residues in contact with LEU 160 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156r TYR 2.9 16.5 + - - +
157r PHE* 3.8 5.8 - - - +
159r THR* 1.3 80.3 - - - +
161r PHE* 1.3 62.1 + - + +
162r GLY 3.7 0.3 + - - -
227r ASP* 5.4 7.4 - - + +
231r TYR* 4.7 22.3 - - + +
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Residues in contact with PHE 161 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157r PHE* 2.9 9.7 + - + +
160r LEU* 1.3 77.7 - - + +
162r GLY* 1.3 59.4 + - - +
165r PHE* 3.6 26.0 + - + +
173r ILE* 5.8 8.3 - - + -
234r ARG* 6.1 4.7 - - + -
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Residues in contact with GLY 162 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158r ASN* 3.1 29.5 + - - -
159r THR 4.2 1.0 + - - -
160r LEU 3.4 3.0 + - - -
161r PHE* 1.3 80.7 - - - +
163r ASN* 1.3 65.9 + - - -
164r ASP* 3.2 3.8 - - - -
165r PHE* 3.2 14.1 + - - +
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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