Contacts of the helix formed by residues 147 - 162 (chain Z) in PDB entry 6QY3
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 Z).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144Z ASP* 3.5 18.3 + - - +
145Z PRO 3.4 4.7 - - - +
146Z SER* 1.3 79.2 - - - +
148Z ARG* 1.3 63.6 + - - +
149Z GLU* 3.1 3.9 + - - +
150Z GLY* 3.4 6.9 + - - +
151Z HIS* 3.1 22.2 + - - +
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Residues in contact with ARG 148 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136Z LEU* 3.9 35.3 - - + +
139Z GLY 5.2 2.9 - - - +
140Z LEU* 4.9 13.0 - - + +
144Z ASP* 5.7 1.4 - - - +
146Z SER* 3.2 12.2 - - - +
147Z ASN* 1.3 76.9 - - - +
149Z GLU* 1.3 58.7 + - - +
151Z HIS* 3.9 7.7 - - - +
152Z SER* 2.9 29.1 + - - -
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Residues in contact with GLU 149 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110Z ILE* 5.2 15.0 - - + -
114Z ILE* 6.2 2.9 - - - -
144Z ASP* 6.3 2.4 - - + +
147Z ASN* 3.1 1.5 - - - -
148Z ARG* 1.3 76.0 - - - +
150Z GLY* 1.3 60.1 + - - +
152Z SER* 3.2 6.1 + - - -
153Z ALA* 2.9 28.3 + - - +
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Residues in contact with GLY 150 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147Z ASN* 3.4 9.8 + - - +
149Z GLU* 1.3 78.9 - - - +
151Z HIS* 1.3 57.5 + - - +
153Z ALA* 3.3 6.7 + - - +
154Z ARG* 2.9 29.5 + - - +
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Residues in contact with HIS 151 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136Z LEU* 6.1 1.8 - - + -
146Z SER 5.5 1.1 - - - +
147Z ASN 3.1 17.9 + - - +
148Z ARG* 4.0 7.9 - - - +
150Z GLY* 1.3 73.5 - - - +
152Z SER* 1.3 60.2 + - - +
154Z ARG* 3.9 5.9 - - - +
155Z ILE* 2.9 31.7 + - - +
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Residues in contact with SER 152 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114Z ILE* 4.9 17.5 - - - -
117Z GLN* 5.7 4.8 - - - +
133Z ILE* 5.2 15.3 - - - +
136Z LEU* 4.9 11.9 - - - +
148Z ARG 2.9 20.5 + - - -
149Z GLU* 3.2 7.8 + - - -
151Z HIS* 1.3 76.3 - - - +
153Z ALA* 1.3 58.0 + - - +
155Z ILE* 3.9 4.1 - - - +
156Z TYR* 2.9 30.3 + - - +
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Residues in contact with ALA 153 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149Z GLU 2.9 15.2 + - - +
150Z GLY* 3.7 7.4 - - - +
151Z HIS 3.3 0.2 - - - -
152Z SER* 1.3 75.2 - - - +
154Z ARG* 1.3 60.4 + - - +
156Z TYR* 3.6 5.2 - - - +
157Z PHE* 2.9 32.7 + - - +
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Residues in contact with ARG 154 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150Z GLY 2.9 18.3 + - - +
151Z HIS* 3.9 6.5 - - - +
153Z ALA* 1.3 75.0 - - - +
155Z ILE* 1.3 58.6 + - - +
157Z PHE* 4.5 2.2 - - - +
158Z ASN* 2.9 33.9 + - - +
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Residues in contact with ILE 155 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129Z LYS* 5.8 0.2 - - - +
132Z SER* 6.4 1.8 - - - -
133Z ILE* 6.5 0.7 - - + -
151Z HIS 2.9 18.1 + - - +
152Z SER* 4.3 4.5 - - - +
154Z ARG* 1.3 74.9 - - - +
156Z TYR* 1.3 61.0 + - - +
158Z ASN* 4.4 4.0 - - - -
159Z THR* 2.9 32.6 + - - -
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Residues in contact with TYR 156 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117Z GLN* 5.2 14.6 - - + -
152Z SER 2.9 22.1 + - - +
153Z ALA* 3.2 6.9 + - - +
155Z ILE* 1.3 78.1 - - - +
157Z PHE* 1.3 57.2 + - - +
159Z THR* 3.8 2.6 - - - -
160Z LEU* 2.9 31.2 + - - +
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Residues in contact with PHE 157 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153Z ALA 2.9 15.6 + - - +
154Z ARG* 4.5 2.2 - - - +
156Z TYR* 1.3 76.5 - - - +
158Z ASN* 1.3 58.4 + - - +
160Z LEU* 4.5 4.3 - - - +
161Z PHE* 2.9 35.9 + - + +
162Z GLY 4.1 0.7 - - - +
165Z PHE* 4.6 3.8 - - + +
166Z THR* 6.0 3.8 - - - -
167Z ARG* 5.8 10.5 - - + +
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Residues in contact with ASN 158 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154Z ARG 2.9 23.1 + - - +
155Z ILE* 4.3 3.8 - - - +
157Z PHE* 1.3 77.1 - - - +
159Z THR* 1.3 58.5 + - - +
162Z GLY* 3.0 37.7 + - - +
163Z ASN* 3.4 12.4 + - - +
165Z PHE 4.9 8.5 + - - +
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Residues in contact with THR 159 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129Z LYS* 4.6 20.2 - - - -
155Z ILE 2.9 21.3 + - - -
156Z TYR* 3.9 3.4 - - - -
158Z ASN* 1.3 77.5 - - - +
160Z LEU* 1.3 65.3 + - - +
162Z GLY* 4.2 2.8 + - - -
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Residues in contact with LEU 160 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156Z TYR 2.9 18.4 + - - +
157Z PHE* 4.1 4.3 - - - +
159Z THR* 1.3 81.1 - - - +
161Z PHE* 1.3 60.1 + - + +
162Z GLY 3.7 0.3 + - - -
231Z TYR* 5.5 11.7 - - + -
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Residues in contact with PHE 161 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157Z PHE* 2.9 19.4 + - + +
160Z LEU* 1.3 75.1 - - + +
162Z GLY* 1.3 59.1 + - - +
165Z PHE* 3.6 22.1 + - + +
173Z ILE* 6.2 4.3 - - + -
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Residues in contact with GLY 162 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158Z ASN* 3.0 24.8 + - - +
159Z THR 4.2 2.4 + - - -
160Z LEU 3.4 3.0 + - - -
161Z PHE* 1.3 78.1 - - - +
163Z ASN* 1.3 66.3 + - - -
164Z ASP* 3.2 3.1 - - - -
165Z 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