Contacts of the helix formed by residues 146 - 161 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144B GLU* 2.7 8.5 + - - -
145B GLU* 1.3 84.1 - - - +
147B SER* 1.3 56.0 + - - -
148B ASN* 3.2 10.5 - - - -
149B GLU* 3.4 25.9 - - - +
150B GLU* 2.3 26.0 - - - +
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Residues in contact with SER 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141B GLY 4.2 1.1 + - - -
142B LEU 2.9 27.9 + - - -
144B GLU* 3.0 30.2 + - - +
145B GLU 4.0 0.6 - - - -
146B GLY* 1.3 69.6 - - - +
148B ASN* 1.3 70.3 + - - +
149B GLU 2.9 2.5 - - - -
150B GLU* 2.7 23.9 + - - +
151B TYR* 2.9 25.9 - - - -
197B ARG* 3.3 10.3 - - - -
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Residues in contact with ASN 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B LEU* 5.8 0.7 - - - +
144B GLU 5.6 1.6 + - - -
145B GLU 5.5 0.6 + - - -
146B GLY* 4.5 6.6 - - - -
147B SER* 1.3 83.6 - - - +
149B GLU* 1.3 62.5 + - + +
151B TYR* 3.3 2.7 + - - +
152B ILE* 3.0 31.9 + - + +
193B ALA 5.4 0.3 - - - +
196B ALA* 4.2 6.8 - - - +
197B ARG* 3.5 43.4 + - - +
200B ALA* 4.2 17.4 - - + +
201B VAL* 5.6 0.2 - - - +
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Residues in contact with GLU 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145B GLU* 5.3 5.0 - - - +
146B GLY* 3.4 23.2 + - - +
147B SER 2.8 0.8 + - - -
148B ASN* 1.3 78.3 - - + +
150B GLU* 1.3 74.9 + - - +
152B ILE* 2.9 21.4 + - - +
153B ALA* 3.0 12.3 + - - +
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Residues in contact with GLU 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B GLU* 4.4 8.0 - - - +
146B GLY 2.3 30.2 - - - +
147B SER* 2.7 20.7 + - - +
149B GLU* 1.3 86.5 - - - +
151B TYR* 1.3 67.8 + - + +
153B ALA* 3.3 10.0 - - - +
154B VAL* 3.2 26.1 + - - +
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Residues in contact with TYR 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126B CYS* 3.9 12.4 - - + +
127B ASN* 3.8 30.9 + - - -
130B THR* 4.4 13.1 + - - +
137B HIS* 5.4 1.7 - - - -
141B GLY* 5.2 3.3 - - - -
142B LEU 5.1 6.8 + - - -
147B SER* 2.9 34.7 + - - -
148B ASN 3.8 5.4 - - - +
150B GLU* 1.3 82.2 - - + +
152B ILE* 1.3 61.0 + - - +
154B VAL* 3.2 6.7 + - + +
155B ALA* 2.9 28.9 + - - +
168B LEU* 3.7 24.0 - - + +
197B ARG* 3.4 48.6 + - - -
201B VAL* 4.7 7.3 - - + +
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Residues in contact with ILE 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B ASN* 3.0 18.1 + - + +
149B GLU* 2.9 9.9 + - - +
151B TYR* 1.3 72.1 - - - +
153B ALA* 1.3 66.5 + - - +
155B ALA* 3.5 7.2 - - + +
156B ARG* 3.0 45.5 + - + +
200B ALA* 3.4 38.4 - - + +
201B VAL* 4.6 6.3 - - + -
204B ALA* 3.3 26.7 - - + -
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Residues in contact with ALA 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149B GLU 3.0 11.0 + - - +
150B GLU* 3.3 14.8 - - - +
151B TYR 3.1 0.2 - - - -
152B ILE* 1.3 78.8 - - - +
154B VAL* 1.3 60.5 + - + +
156B ARG* 3.3 7.9 + - - +
157B GLU* 2.8 27.7 + - - +
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Residues in contact with VAL 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126B CYS* 3.7 36.6 - - + +
150B GLU 3.2 15.1 + - - +
151B TYR* 3.2 8.3 + - + +
153B ALA* 1.3 73.7 - - + +
155B ALA* 1.3 69.3 + - - +
157B GLU* 2.6 25.4 + - + +
158B ALA* 2.8 13.6 + - + +
345B ILE* 4.6 17.7 - - + -
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Residues in contact with ALA 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126B CYS* 4.1 15.1 - - - -
151B TYR 2.9 14.7 + - - +
152B ILE* 3.3 11.0 + - - +
154B VAL* 1.3 77.9 - - - +
156B ARG* 1.3 60.3 + - - +
158B ALA* 3.1 10.0 + - - +
159B VAL* 3.0 21.8 + - - +
166B ILE* 4.3 7.4 - - + +
168B LEU* 5.6 0.7 - - + -
201B VAL* 4.0 16.2 - - + -
205B VAL* 3.7 24.7 - - + -
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Residues in contact with ARG 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152B ILE* 3.0 39.9 + - + +
153B ALA* 3.6 5.6 - - - +
155B ALA* 1.3 75.1 - - + +
157B GLU* 1.3 61.5 + - - +
159B VAL* 3.2 9.4 + - + +
160B GLU* 2.9 41.8 + - - +
204B ALA* 3.8 29.9 + - - +
205B VAL* 5.1 8.1 - - + -
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Residues in contact with GLU 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B ALA 2.8 14.3 + - - +
154B VAL* 2.6 26.5 + - + +
156B ARG* 1.3 72.1 - - - +
158B ALA* 1.3 54.2 + - - +
160B GLU* 3.5 16.1 - - - +
161B ARG* 2.9 59.8 + - - +
345B ILE* 3.8 18.7 - - + +
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Residues in contact with ALA 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B ALA* 4.1 20.0 - - + -
126B CYS* 4.4 4.9 - - - -
154B VAL* 2.8 9.9 + - + +
155B ALA 3.3 10.1 - - - +
157B GLU* 1.3 76.7 - - - +
159B VAL* 1.3 65.7 + - - +
161B ARG* 3.2 10.5 + - - +
162B GLY 3.1 6.4 + - - -
163B PHE* 2.9 23.8 + - + -
166B ILE* 3.9 22.7 - - + -
345B ILE* 5.2 6.5 - - + -
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Residues in contact with VAL 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155B ALA 3.0 20.4 + - - +
156B ARG* 3.2 10.1 + - + +
158B ALA* 1.3 73.1 - - - +
160B GLU* 1.3 63.5 + - - +
162B GLY* 3.0 14.9 + - - -
163B PHE 3.3 18.2 + - - +
164B ASP* 5.7 0.2 - - - -
166B ILE* 4.7 7.0 - - + -
205B VAL* 3.7 26.5 - - + -
209B VAL* 4.5 15.3 - - + -
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Residues in contact with GLU 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156B ARG* 2.9 27.9 + - + +
157B GLU* 3.5 16.2 - - - +
159B VAL* 1.3 73.6 - - - +
161B ARG* 1.3 59.0 + - + +
162B GLY* 2.8 12.3 + - - -
364B GLU* 4.9 3.5 - - - +
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Residues in contact with ARG 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157B GLU* 2.9 46.8 + - - +
158B ALA* 3.2 9.8 + - - +
160B GLU* 1.3 74.9 - - - +
162B GLY* 1.3 57.1 + - - +
163B PHE* 3.7 22.0 - - + -
342B TRP* 3.7 24.8 - - - -
344B ALA 4.7 0.8 + - - -
345B ILE* 3.4 37.3 + - + +
347B MSE 5.7 3.2 + - - -
348B PRO* 6.1 1.8 - - - +
364B GLU* 4.2 15.8 + - - +
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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