Contacts of the helix formed by residues 146 - 161 (chain A) in PDB entry 2QQ6
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 GLY 146 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144A GLU* 3.9 2.8 + - - -
145A GLU* 1.3 85.0 - - - +
147A SER* 1.3 53.6 + - - +
149A GLU* 2.8 23.6 - - - +
150A GLU* 2.8 35.0 + - - +
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Residues in contact with SER 147 (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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128A ALA* 4.4 8.3 - - - +
140A GLY* 4.1 4.7 - - - -
141A GLY 3.3 29.5 + - - -
142A LEU 5.4 1.1 - - - -
144A GLU* 3.6 26.1 + - - +
145A GLU 2.9 3.8 - - - +
146A GLY* 1.3 77.3 - - - +
148A ASN* 1.3 65.1 + - - +
150A GLU* 3.4 13.9 + - - +
151A TYR* 3.1 28.1 + - - -
197A ARG* 4.0 9.7 + - - -
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Residues in contact with ASN 148 (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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142A LEU* 5.4 3.1 - - - +
145A GLU 4.3 3.0 + - - +
146A GLY 3.3 0.2 - - - -
147A SER* 1.3 75.6 - - - +
149A GLU* 1.3 74.0 + - - +
151A TYR* 2.8 18.8 + - - +
152A ILE* 2.9 25.3 + - + +
193A ALA 5.2 0.8 + - - -
196A ALA* 3.8 8.1 + - - +
197A ARG* 3.0 60.6 + - - +
200A ALA* 4.0 9.0 - - + +
201A VAL* 5.3 0.8 - - + +
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Residues in contact with GLU 149 (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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145A GLU* 3.3 10.9 - - - +
146A GLY* 2.8 30.5 - - - +
148A ASN* 1.3 74.5 + - - +
150A GLU* 1.3 68.9 + - - +
151A TYR 3.0 0.3 + - - -
152A ILE* 3.1 18.2 + - + +
153A ALA* 2.8 25.4 + - - +
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Residues in contact with GLU 150 (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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127A ASN 4.8 2.2 - - - +
128A ALA* 2.8 36.9 - - - +
129A GLY* 3.9 5.3 + - - -
146A GLY 2.8 21.1 + - - +
147A SER* 3.4 15.5 + - - +
149A GLU* 1.3 78.0 - - - +
151A TYR* 1.3 59.4 + - - +
153A ALA* 3.3 7.6 - - - +
154A VAL* 3.0 29.8 + - + +
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Residues in contact with TYR 151 (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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126A CYS* 3.1 35.4 - - + +
127A ASN 4.3 3.4 - - - -
128A ALA* 3.4 34.2 + - + +
137A HIS* 3.6 7.3 + - - -
147A SER 3.1 20.0 + - - -
148A ASN* 2.8 10.1 + - - +
150A GLU* 1.3 74.8 - - - +
152A ILE* 1.3 67.4 + - - +
153A ALA 3.0 1.3 - - - -
154A VAL* 2.9 19.1 + - - +
155A ALA* 2.9 13.1 + - - +
168A LEU* 4.1 21.3 - - + -
169A ASP* 3.2 21.9 + - - -
197A ARG* 3.2 50.3 + - - -
201A VAL* 4.5 13.5 - - + -
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Residues in contact with ILE 152 (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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148A ASN* 2.9 21.2 + - + +
149A GLU* 3.6 19.5 - - + +
151A TYR* 1.3 71.5 - - - +
153A ALA* 1.3 57.0 + - - +
155A ALA* 3.5 8.4 - - + +
156A ARG* 2.9 43.6 + - - +
200A ALA* 4.1 23.8 - - + +
201A VAL* 4.2 20.6 - - + +
204A ALA* 3.2 31.0 - - + -
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Residues in contact with ALA 153 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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149A GLU 2.8 11.5 + - - +
150A GLU* 3.3 13.9 - - - +
152A ILE* 1.3 75.1 - - - +
154A VAL* 1.3 68.4 + - + +
156A ARG* 3.0 13.0 + - - +
157A GLU* 2.9 22.7 + - - +
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Residues in contact with VAL 154 (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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126A CYS* 3.9 28.9 - - + -
127A ASN* 3.8 23.6 - - - +
150A GLU* 3.0 20.9 - - + +
151A TYR* 2.9 6.5 + - - +
153A ALA* 1.3 74.6 - - + +
155A ALA* 1.3 63.8 + - - +
157A GLU* 3.3 10.7 + - - +
158A ALA* 2.9 21.3 + - - +
345A ILE* 4.0 26.5 - - + +
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Residues in contact with ALA 155 (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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126A CYS* 4.0 15.7 - - + -
151A TYR 2.9 10.6 + - - +
152A ILE* 3.5 13.7 - - - +
154A VAL* 1.3 76.2 - - - +
156A ARG* 1.3 55.4 + - - +
158A ALA* 2.7 25.8 + - - +
159A VAL* 3.0 16.9 + - - +
166A ILE* 4.4 14.1 - - + -
201A VAL* 4.4 8.1 - - + -
205A VAL* 4.1 21.1 - - + -
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Residues in contact with ARG 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 ILE* 2.9 31.5 + - + +
153A ALA* 3.3 12.3 - - - +
155A ALA* 1.3 76.8 - - + +
157A GLU* 1.3 57.5 + - - +
159A VAL* 3.3 14.0 - - - +
160A GLU* 2.9 33.3 + - - +
204A ALA* 3.4 43.9 + - + +
205A VAL* 5.3 3.1 - - + +
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Residues in contact with GLU 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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153A ALA 2.9 12.8 + - - +
154A VAL* 3.6 11.9 - - - +
156A ARG* 1.3 77.6 - - - +
158A ALA* 1.3 53.3 + - - +
160A GLU* 3.1 20.0 - - - +
161A ARG* 2.7 48.7 + - + +
345A ILE* 3.8 27.0 - - + +
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Residues in contact with ALA 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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124A ALA* 4.4 19.5 - - + -
126A CYS* 4.6 3.8 - - - -
154A VAL 2.9 13.1 + - - +
155A ALA* 2.7 20.1 + - - +
157A GLU* 1.3 68.4 - - - +
159A VAL* 1.3 60.4 + - - +
160A GLU 3.4 0.2 + - - -
161A ARG 3.4 5.0 + - - -
163A PHE* 3.0 32.6 + - + +
166A ILE* 4.1 20.2 - - + -
345A ILE* 4.2 14.3 - - + +
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Residues in contact with VAL 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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155A ALA 3.0 18.4 + - - +
156A ARG* 3.3 13.0 - - - +
158A ALA* 1.3 74.6 - - + +
160A GLU* 1.3 70.4 + - + +
162A GLY* 3.0 14.6 + - - -
163A PHE 3.3 19.8 + - - +
166A ILE* 5.0 5.2 - - + -
205A VAL* 4.5 25.4 - - + -
209A VAL* 4.9 8.3 - - + -
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Residues in contact with GLU 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 ARG* 2.9 12.8 + - - +
157A GLU* 3.1 27.9 - - - +
159A VAL* 1.3 81.7 - - + +
161A ARG* 1.3 57.3 + - + +
162A GLY* 2.9 11.0 + - - -
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Residues in contact with ARG 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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157A GLU* 2.7 31.8 + - + +
158A ALA 4.0 4.3 - - - +
159A VAL 3.3 0.6 - - - -
160A GLU* 1.3 71.8 - - + +
162A GLY* 1.3 58.3 + - - +
163A PHE* 3.6 15.6 + - + -
342A TRP* 4.1 30.1 - - - -
345A ILE* 3.9 18.4 - - + +
362A ILE* 4.7 23.4 + - - +
363A ARG* 6.2 0.2 - - - +
364A GLU* 4.7 4.2 + - - +
365A GLY 4.2 9.0 + - - -
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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