Contacts of the helix formed by residues 148 - 162 (chain i) 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 ARG 148 (chain i).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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127V PHE* 3.3 23.9 - - + +
114i ILE* 6.1 0.9 - - - -
136i LEU* 3.8 33.0 - - + +
140i LEU* 5.5 6.6 - - + +
146i SER* 4.6 1.5 - - - -
147i ASN* 1.4 71.9 - - - +
149i GLU* 1.3 66.0 + - - +
150i GLY 2.9 3.1 - - - -
151i HIS* 3.4 10.8 - - + -
152i SER* 2.9 23.8 + - - -
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Residues in contact with GLU 149 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110i ILE* 4.9 18.6 - - + +
113i LYS* 6.6 0.2 - - + -
114i ILE* 5.7 5.6 - - - -
147i ASN* 3.3 3.9 - - - +
148i ARG* 1.3 77.3 - - - +
150i GLY* 1.3 56.0 + - - +
152i SER* 3.8 6.3 + - - -
153i ALA* 3.0 23.4 + - - +
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Residues in contact with GLY 150 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125V SER* 2.9 34.8 - - - +
147i ASN 4.3 3.2 + - - -
148i ARG* 2.9 1.0 - - - +
149i GLU* 1.3 77.0 - - - +
151i HIS* 1.3 54.9 + - - +
152i SER 3.2 2.2 - - - -
153i ALA* 3.2 10.7 - - - +
154i ARG* 2.6 31.5 + - - +
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Residues in contact with HIS 151 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125V SER 2.7 11.2 + - - -
126V PHE* 3.4 24.2 - - + -
127V PHE* 3.7 9.4 - - + +
133i ILE* 5.7 1.9 - - - -
136i LEU* 4.7 9.0 - - + -
148i ARG* 2.9 13.9 + - + +
150i GLY* 1.3 74.8 - - - +
152i SER* 1.3 60.0 + - - +
154i ARG* 4.9 2.4 - - - +
155i ILE* 3.5 22.7 + - - +
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Residues in contact with SER 152 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114i ILE* 4.3 27.6 - - - -
117i GLN* 5.0 6.2 - - - +
133i ILE* 4.5 25.0 - - - +
136i LEU* 5.1 3.9 - - - +
148i ARG* 2.9 15.6 + - - +
149i GLU* 3.8 4.9 - - - -
151i HIS* 1.3 75.4 - - - +
153i ALA* 1.3 52.7 + - - +
155i ILE* 4.0 0.8 - - - +
156i TYR* 2.7 40.1 + - - +
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Residues in contact with ALA 153 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125V SER* 5.3 1.1 - - - -
149i GLU 3.0 19.5 + - - +
150i GLY* 2.9 13.9 + - - +
152i SER* 1.3 74.4 - - - +
154i ARG* 1.3 59.1 + - - +
156i TYR* 3.1 3.9 + - - +
157i PHE* 2.8 35.1 + - - +
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Residues in contact with ARG 154 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124V CYS 4.8 12.1 - - - +
125V SER* 4.8 3.1 - - - +
150i GLY 2.6 18.8 + - - +
151i HIS* 4.9 2.0 - - - +
153i ALA* 1.3 72.2 - - - +
155i ILE* 1.3 57.0 + - - +
157i PHE* 4.3 2.6 - - - +
158i ASN* 2.9 33.0 + - - +
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Residues in contact with ILE 155 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129i LYS* 4.7 19.3 - - + +
132i SER* 5.7 5.8 - - - -
133i ILE* 5.7 4.5 - - + +
151i HIS 3.5 19.6 + - - +
152i SER* 4.4 2.5 - - - +
153i ALA 3.3 0.4 - - - -
154i ARG* 1.3 79.3 - - - +
156i TYR* 1.3 58.4 + - - +
158i ASN* 3.9 4.4 - - - +
159i THR* 2.9 29.6 + - - -
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Residues in contact with TYR 156 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117i GLN* 4.6 19.3 - - + +
152i SER 2.7 24.2 + - - +
153i ALA* 3.1 4.9 + - - +
155i ILE* 1.3 75.1 - - - +
157i PHE* 1.3 59.7 + - - +
159i THR* 3.3 5.3 + - - -
160i LEU* 2.9 30.9 + - - +
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Residues in contact with PHE 157 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153i ALA 2.8 19.7 + - - +
154i ARG* 4.3 2.7 - - - +
156i TYR* 1.3 71.1 - - - +
158i ASN* 1.3 60.2 + - - +
160i LEU* 4.4 4.9 - - - -
161i PHE* 2.9 31.9 + - + +
162i GLY 3.7 4.4 + - - +
165i PHE* 4.8 9.9 - - + +
166i THR* 5.6 7.0 - - - -
167i ARG* 5.8 4.0 - - + +
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Residues in contact with ASN 158 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154i ARG 2.9 21.8 + - - +
155i ILE* 4.1 4.5 - - - +
157i PHE* 1.3 76.6 - - - +
159i THR* 1.3 62.5 + - - +
162i GLY* 3.1 34.8 + - - +
163i ASN* 3.6 15.5 + - + +
165i PHE 5.0 4.0 + - - +
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Residues in contact with THR 159 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121i LEU* 5.6 7.9 - - - -
126i PHE* 5.5 7.2 - - - -
129i LYS* 4.3 18.8 - - - -
155i ILE 2.9 22.1 + - - -
156i TYR* 3.7 5.2 - - - -
157i PHE 3.2 0.2 - - - -
158i ASN* 1.3 77.3 - - - +
160i LEU* 1.3 67.3 + - - +
162i GLY* 4.2 1.7 + - - -
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Residues in contact with LEU 160 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156i TYR 2.9 18.1 + - - +
157i PHE* 3.9 5.4 - - - +
159i THR* 1.3 80.3 - - - +
161i PHE* 1.3 62.9 + - + +
227i ASP* 5.4 7.4 - - + +
231i TYR* 4.6 23.7 - - + +
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Residues in contact with PHE 161 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157i PHE* 2.9 10.6 + - + +
160i LEU* 1.3 78.6 - - + +
162i GLY* 1.3 59.2 + - - +
164i ASP* 6.1 0.2 - - - +
165i PHE* 3.6 26.7 + - + +
173i ILE* 5.8 8.5 - - + -
234i ARG* 6.1 4.3 - - + -
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Residues in contact with GLY 162 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158i ASN* 3.1 29.5 + - - -
159i THR 4.2 1.5 + - - -
160i LEU 3.4 2.8 + - - -
161i PHE* 1.3 79.6 - - - +
163i ASN* 1.3 66.2 + - - -
164i ASP* 3.2 3.4 - - - -
165i PHE* 3.2 14.4 + - - +
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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