Contacts of the helix formed by residues 147 - 162 (chain m) 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 m).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144m ASP* 3.6 17.0 + - - +
145m PRO 3.4 4.9 - - - +
146m SER* 1.3 79.0 - - - +
148m ARG* 1.3 60.8 + - - +
149m GLU* 3.1 4.2 + - - +
150m GLY* 3.3 6.9 + - - +
151m HIS* 3.0 26.3 + - - +
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Residues in contact with ARG 148 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136m LEU* 3.9 34.8 - - + +
139m GLY 5.2 2.9 - - - +
140m LEU* 5.0 13.0 - - + +
144m ASP* 5.7 1.8 - - - +
146m SER* 3.2 12.6 - - - +
147m ASN* 1.3 76.6 - - - +
149m GLU* 1.3 57.6 + - - +
151m HIS* 3.9 8.2 - - - +
152m SER* 2.9 29.1 + - - -
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Residues in contact with GLU 149 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110m ILE* 5.2 14.8 - - + -
114m ILE* 6.2 2.2 - - - -
144m ASP* 6.3 3.1 - - + +
147m ASN* 3.1 1.9 - - - +
148m ARG* 1.3 76.0 - - - +
150m GLY* 1.3 59.9 + - - +
152m SER* 3.2 6.4 + - - -
153m ALA* 2.9 27.9 + - - +
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Residues in contact with GLY 150 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147m ASN* 3.3 10.9 + - - +
149m GLU* 1.3 78.7 - - - +
151m HIS* 1.3 57.3 + - - +
153m ALA* 3.3 8.2 + - - +
154m ARG* 2.9 29.5 + - - +
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Residues in contact with HIS 151 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136m LEU* 6.1 1.8 - - + -
146m SER 5.4 1.1 - - - +
147m ASN 3.0 17.2 + - - +
148m ARG* 4.0 8.5 - - - +
150m GLY* 1.3 72.7 - - - +
152m SER* 1.3 62.6 + - - +
154m ARG* 3.9 5.6 - - - +
155m ILE* 2.9 31.9 + - - +
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Residues in contact with SER 152 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114m ILE* 4.9 18.4 - - - -
133m ILE* 5.2 14.2 - - - +
136m LEU* 4.9 12.3 - - - +
148m ARG 2.9 20.7 + - - -
149m GLU* 3.5 7.4 - - - -
151m HIS* 1.3 75.9 - - - +
153m ALA* 1.3 57.6 + - - +
155m ILE* 3.9 3.8 - - - +
156m TYR* 2.9 30.4 + - - +
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Residues in contact with ALA 153 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149m GLU 2.9 17.1 + - - +
150m GLY* 3.7 7.4 - - - +
152m SER* 1.3 75.3 - - - +
154m ARG* 1.3 59.8 + - - +
156m TYR* 3.5 5.2 - - - +
157m PHE* 2.9 32.9 + - - +
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Residues in contact with ARG 154 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150m GLY 2.9 17.0 + - - +
151m HIS* 3.9 6.5 - - - +
153m ALA* 1.3 75.8 - - - +
155m ILE* 1.3 59.1 + - - +
157m PHE* 4.5 1.9 - - - +
158m ASN* 2.9 33.9 + - - +
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Residues in contact with ILE 155 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129m LYS* 5.8 0.3 - - - +
132m SER* 6.4 2.5 - - - -
133m ILE* 6.5 0.7 - - + -
151m HIS 2.9 18.8 + - - +
152m SER* 4.3 4.3 - - - +
154m ARG* 1.3 74.5 - - - +
156m TYR* 1.3 61.0 + - - +
158m ASN* 4.2 4.4 - - - +
159m THR* 2.9 32.9 + - - -
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Residues in contact with TYR 156 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117m GLN* 5.2 13.7 - - + -
152m SER 2.9 21.3 + - - +
153m ALA* 3.2 8.2 + - - +
155m ILE* 1.3 78.4 - - - +
157m PHE* 1.3 57.4 + - - +
159m THR* 3.8 2.6 - - - -
160m LEU* 2.9 31.6 + - - +
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Residues in contact with PHE 157 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153m ALA 2.9 15.2 + - - +
154m ARG* 4.5 2.0 - - - +
156m TYR* 1.3 77.1 - - - +
158m ASN* 1.3 59.0 + - - +
160m LEU* 4.5 4.9 - - - +
161m PHE* 2.9 36.3 + - + +
162m GLY 4.0 0.9 + - - +
165m PHE* 4.6 4.9 - - + +
166m THR* 6.0 3.6 - - - -
167m ARG* 5.8 10.3 - - + +
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Residues in contact with ASN 158 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154m ARG 2.9 22.7 + - - +
155m ILE* 4.2 3.8 - - - +
157m PHE* 1.3 77.3 - - - +
159m THR* 1.3 58.1 + - - +
162m GLY* 2.9 38.4 + - - +
163m ASN* 3.4 12.4 + - + +
165m PHE 4.9 8.1 - - - +
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Residues in contact with THR 159 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129m LYS* 4.6 20.2 - - - -
155m ILE 2.9 21.5 + - - -
156m TYR* 3.9 2.9 - - - -
158m ASN* 1.3 77.8 - - - +
160m LEU* 1.3 65.1 + - - +
162m GLY* 4.2 2.9 + - - -
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Residues in contact with LEU 160 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156m TYR 2.9 18.3 + - - +
157m PHE* 4.1 4.3 - - - +
159m THR* 1.3 79.9 - - - +
161m PHE* 1.3 61.5 + - + +
162m GLY 3.7 0.2 + - - -
231m TYR* 5.5 11.0 - - + -
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Residues in contact with PHE 161 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157m PHE* 2.9 19.4 + - + +
160m LEU* 1.3 75.4 - - + +
162m GLY* 1.3 58.7 + - - +
165m PHE* 3.6 21.7 + - + +
173m ILE* 6.2 4.0 - - + -
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Residues in contact with GLY 162 (chain m).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158m ASN* 2.9 23.0 + - - +
159m THR 4.2 1.9 + - - -
160m LEU 3.4 3.0 + - - -
161m PHE* 1.3 78.6 - - - +
163m ASN* 1.3 65.9 + - - -
164m ASP 3.2 2.9 - - - -
165m PHE* 3.1 17.5 + - - +
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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