Contacts of the helix formed by residues 145 - 166 (chain B) in PDB entry 3QNQ
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 145 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81B ALA* 3.6 6.3 - - - -
111B PHE* 4.1 0.6 - - - -
139B ALA 4.9 0.6 + - - -
140B LEU* 4.1 15.9 + - - -
142B GLY 2.9 9.1 + - - -
144B GLN* 1.3 80.4 - - - +
146B LEU* 1.3 57.8 + - - +
147B PHE 2.9 6.3 - - - -
148B VAL* 2.8 24.5 + - - +
149B ALA* 2.8 23.2 + - - +
213B HIS* 6.2 1.6 - - - -
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Residues in contact with LEU 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B LEU* 4.7 15.7 - - + -
32B THR* 6.2 0.9 - - + -
80B MET* 3.1 35.9 - - + -
81B ALA* 3.3 17.2 - - + +
84B ALA* 4.7 6.3 - - + -
143B SER 3.4 18.4 - - - +
145B GLY* 1.3 76.3 - - - +
147B PHE* 1.3 59.4 + - - +
148B VAL 3.4 0.2 - - - -
149B ALA* 3.4 14.4 - - + -
150B MET* 3.3 30.0 + - - +
221B GLN* 4.7 3.1 - - - +
261B PRO* 3.4 37.1 - - + +
264B LEU* 3.3 15.3 - - + -
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Residues in contact with PHE 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B GLN 5.3 1.1 - - - +
145B GLY 2.8 1.4 + - - -
146B LEU* 1.3 81.7 - - - +
148B VAL* 1.3 60.8 + - - +
150B MET* 3.9 19.0 - - + +
151B ILE* 3.0 28.7 + - + +
216B VAL* 4.2 12.1 - - + +
220B LEU* 4.3 28.0 - - + -
221B GLN* 3.1 41.5 - - + +
224B LEU* 3.9 31.4 - - + -
261B PRO* 4.0 23.3 - - + -
262B ILE* 3.9 28.0 - - + -
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Residues in contact with VAL 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111B PHE* 3.6 16.8 - - + -
114B ALA* 5.0 4.5 - - + -
115B THR* 5.0 6.3 - - + -
140B LEU 5.3 0.4 - - - +
145B GLY* 2.8 32.0 + - - +
147B PHE* 1.3 76.9 - - - +
149B ALA* 1.3 66.1 + - - +
150B MET 3.3 0.2 - - - -
151B ILE* 3.9 6.3 - - + -
152B ILE* 2.9 46.6 + - + +
212B ILE* 3.6 31.0 - - + -
213B HIS* 4.8 17.3 - - + +
216B VAL* 4.2 13.4 - - + +
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Residues in contact with ALA 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ALA* 3.5 25.4 - - + +
84B ALA* 4.8 2.9 - - + -
85B VAL* 3.6 17.2 - - + +
88B ILE* 5.1 2.5 - - + -
111B PHE* 3.8 10.5 - - + -
145B GLY 2.8 7.1 + - - +
146B LEU* 3.4 24.9 - - + +
148B VAL* 1.3 77.8 - - - +
150B MET* 1.3 66.3 + - - +
153B ALA* 2.9 27.2 + - - +
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Residues in contact with MET 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B ILE* 3.5 44.4 - - + -
29B LEU* 5.9 0.9 - - + -
88B ILE* 3.8 16.1 - - + +
146B LEU 3.3 20.3 + - - +
147B PHE* 3.9 22.4 - - + +
149B ALA* 1.3 82.7 - - - +
151B ILE* 1.3 70.2 + - + +
153B ALA* 4.7 0.2 - - - -
154B ILE* 2.9 28.8 + - + +
261B PRO* 3.7 29.4 - - + -
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Residues in contact with ILE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B PHE* 3.0 22.5 + - + +
148B VAL* 3.6 8.9 + - + +
150B MET* 1.3 82.0 - - + +
152B ILE* 1.3 64.0 + - + +
154B ILE* 3.9 4.8 - - - +
155B ILE* 2.8 55.0 + - + +
212B ILE* 6.4 0.4 - - + -
216B VAL* 4.8 15.7 - - + -
220B LEU* 4.1 23.1 - - + -
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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
----------------------------------------------------------
85B VAL* 3.5 24.2 - - + -
107B SER* 3.7 4.5 - - - +
110B THR* 3.9 12.3 - - + -
111B PHE* 3.7 37.0 - - + +
114B ALA* 4.5 13.7 - - + -
148B VAL* 2.9 45.5 + - + +
149B ALA 3.8 0.4 - - - +
150B MET 2.9 1.0 + - - -
151B ILE* 1.3 77.3 - - + +
153B ALA* 1.3 61.0 + - - +
155B ILE* 4.2 8.5 - - + -
156B SER* 2.6 40.6 + - - +
197B VAL* 4.8 7.9 - - + -
212B ILE* 4.9 8.5 - - + -
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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
----------------------------------------------------------
85B VAL* 3.8 27.4 - - + +
88B ILE* 4.1 10.8 - - + -
89B ALA* 4.0 16.6 - - + +
107B SER* 3.7 9.6 - - - -
149B ALA 2.9 18.8 + - - +
150B MET 2.9 2.8 + - - +
152B ILE* 1.3 79.1 - - - +
154B ILE* 1.3 57.5 + - - +
157B THR* 3.0 36.4 + - - -
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Residues in contact with ILE 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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21B HIS* 4.1 40.8 - - + +
24B ALA* 5.4 1.3 - - + -
25B ILE* 3.8 31.9 - - + -
88B ILE* 4.4 14.8 - - + -
92B LEU* 4.3 10.4 - - + +
150B MET* 2.9 21.1 + - + +
151B ILE* 3.9 4.9 - - - +
153B ALA* 1.3 74.1 - - - +
155B ILE* 1.3 64.2 + - + +
158B GLU* 2.9 34.2 + - + +
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Residues in contact with ILE 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B ILE* 2.8 52.2 + - + +
152B ILE* 3.3 10.3 + - + +
154B ILE* 1.3 73.6 - - + +
156B SER* 1.3 69.1 + - - +
158B GLU* 3.9 2.5 - - - +
159B ILE* 3.1 39.2 + - + +
196B VAL* 5.1 1.8 - - + -
197B VAL* 5.7 4.9 - - + -
200B ILE* 4.6 25.8 - - + -
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Residues in contact with SER 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106B LEU* 4.3 5.4 - - - -
107B SER* 3.5 16.6 - - - -
110B THR* 3.1 29.9 + - - +
152B ILE 2.6 28.4 + - - -
155B ILE* 1.3 70.9 - - - +
157B THR* 1.3 56.0 + - - +
159B ILE* 3.0 5.8 + - - +
160B TYR* 2.7 36.1 + - - +
193B VAL* 3.8 24.4 - - - +
197B VAL* 4.2 3.0 - - - +
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Residues in contact with THR 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89B ALA* 3.0 46.8 - - - +
92B LEU* 3.8 22.7 - - + +
93B GLY* 3.9 10.1 - - - +
96B TYR* 5.3 2.2 - - + -
98B VAL* 5.1 2.7 - - + -
103B SER* 3.6 20.7 + - - +
106B LEU* 5.1 0.6 - - - +
107B SER* 3.5 2.4 + - - -
153B ALA 3.0 12.4 + - - -
156B SER* 1.3 75.8 - - - +
158B GLU* 1.3 56.1 + - - +
160B TYR* 3.5 8.9 - - + +
161B ARG* 2.9 29.9 + - + +
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Residues in contact with GLU 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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21B HIS* 2.6 36.4 + - + +
92B LEU* 4.0 4.6 - - + +
96B TYR* 2.6 40.5 + - - -
154B ILE* 2.9 26.0 + - + +
155B ILE* 3.9 4.3 - - - +
157B THR* 1.3 78.0 - - - +
159B ILE* 1.3 61.8 + - + +
161B ARG* 2.8 27.2 + - - +
162B PHE* 3.3 23.0 + - - +
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Residues in contact with ILE 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 ILE* 3.1 28.1 + - + +
156B SER* 3.0 5.2 + - - +
158B GLU* 1.3 74.7 - - + +
160B TYR* 1.3 64.4 + - - +
162B PHE* 3.5 8.6 + - + +
163B LEU* 3.3 35.9 + - + +
192B ILE* 4.4 9.0 - - + -
193B VAL* 4.1 18.8 - - + -
196B VAL* 3.8 35.2 - - + -
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Residues in contact with TYR 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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98B VAL* 4.3 17.5 - - + -
99B ASP* 3.7 29.5 + - - +
102B ALA* 3.5 20.5 - - + +
103B SER* 3.8 22.9 - - - -
106B LEU* 4.0 21.5 - - + -
156B SER 2.7 16.2 + - - +
157B THR* 3.2 8.3 + - - +
159B ILE* 1.3 79.5 - - - +
161B ARG* 1.3 62.8 + - - +
163B LEU* 3.4 9.2 + - - +
164B VAL* 3.4 23.3 + - + +
186B ALA* 4.0 17.7 - - + +
189B PRO* 3.4 30.5 - - + -
190B GLY* 4.3 9.0 - - - -
193B VAL* 4.1 6.7 - - + -
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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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20B ARG* 6.1 0.4 - - - +
96B TYR* 3.3 45.7 + - + -
98B VAL* 3.4 25.6 - - + -
157B THR* 2.9 15.6 + - + +
158B GLU* 2.8 38.4 + - - +
160B TYR* 1.3 72.9 - - - +
162B PHE* 1.3 94.1 + - - +
163B LEU 3.0 5.1 + - - -
164B VAL* 3.0 10.5 - - - +
165B GLN* 2.8 59.6 + - - +
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Residues in contact with PHE 162 (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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158B GLU 3.3 14.7 + - - +
159B ILE* 3.8 8.3 - - + +
160B TYR 3.4 0.2 - - - -
161B ARG* 1.3 104.2 - - - +
163B LEU* 1.3 76.5 + - + +
165B GLN* 4.0 3.4 - - - +
166B LYS* 3.1 59.9 + - + +
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Residues in contact with LEU 163 (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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159B ILE* 3.3 23.1 + - + +
160B TYR 3.8 4.7 - - - +
161B ARG 3.0 1.0 - - - -
162B PHE* 1.3 98.8 - - + +
164B VAL* 1.3 63.1 + - - +
166B LYS* 3.4 5.0 + - + +
168B MET* 3.0 62.2 + - + +
188B ILE* 5.8 0.9 - - + -
189B PRO* 3.9 25.4 - - + +
192B ILE* 3.4 45.3 - - + -
193B VAL* 5.2 0.2 - - + -
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Residues in contact with VAL 164 (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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98B VAL* 3.6 27.4 - - + -
160B TYR* 3.4 26.1 + - + +
161B ARG 3.0 17.7 - - - +
163B LEU* 1.3 76.9 - - - +
165B GLN* 1.3 57.2 + - + +
167B LYS* 2.8 31.4 + - - +
169B ILE* 3.4 33.8 - - + +
185B ALA* 5.6 1.8 - - + -
189B PRO* 3.9 12.1 - - + -
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Residues in contact with GLN 165 (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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96B TYR* 3.5 31.5 + - - +
97B LYS 5.6 0.2 + - - -
98B VAL* 5.0 2.5 - - + -
161B ARG* 2.8 55.5 + - - +
162B PHE* 4.2 4.5 - - + +
164B VAL* 1.3 78.5 - - + +
166B LYS* 1.3 62.0 + - - +
167B LYS* 2.9 13.0 + - - +
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Residues in contact with LYS 166 (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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162B PHE* 3.1 55.9 + - + +
163B LEU* 3.8 7.9 - - + +
164B VAL 3.2 0.8 - - - -
165B GLN* 1.3 78.3 - - - +
167B LYS* 1.3 62.9 + - - +
168B MET* 2.8 26.2 + - + +
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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
------------------------------------------------------------
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