Contacts of the helix formed by residues 150 - 168 (chain B) in PDB entry 1ZQ1
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 LYS 150 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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314A PRO* 5.0 1.1 - - - -
315A GLY* 4.5 14.4 - - - +
345A ASP* 4.8 17.9 + - + +
148B ASP* 5.0 5.8 - - + +
149B MSE 1.3 82.3 - - - +
151B PRO* 1.3 66.9 - - + +
152B LYS* 3.2 30.4 - - + +
153B HIS* 2.7 47.9 + - + +
154B TRP* 3.5 10.5 + - - +
305B GLU* 5.2 6.1 - - - -
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Residues in contact with PRO 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A PRO 4.7 0.9 - - - +
315A GLY* 4.6 13.0 - - - -
150B LYS* 1.3 86.0 - - + +
152B LYS* 1.3 63.2 - - - +
153B HIS 2.8 6.7 + - - -
154B TRP* 2.8 39.0 + - + +
155B VAL* 3.2 15.9 + - - +
303B ILE* 3.6 14.9 - - + +
305B GLU* 3.8 18.8 - - + +
399B TYR* 4.9 3.1 - - - +
403B MSE 3.2 38.8 - - + -
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Residues in contact with LYS 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B LYS* 4.0 29.7 - - + +
151B PRO* 1.3 79.3 - - - +
153B HIS* 1.3 93.5 + - + +
155B VAL* 3.6 9.8 - - - +
156B LYS* 3.1 50.2 + - - +
303B ILE* 5.7 0.2 - - - -
305B GLU* 4.4 12.8 + - - +
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Residues in contact with HIS 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B PHE* 3.8 26.7 - + + -
144B ILE* 3.2 31.3 - - + +
148B ASP 4.7 2.8 + - - -
149B MSE 3.9 24.8 - - + +
150B LYS* 2.7 49.7 + - + +
152B LYS* 1.3 105.8 - - + +
154B TRP* 1.3 54.3 + - - +
155B VAL 2.8 11.2 + - - -
156B LYS* 3.0 9.7 + - - +
157B ILE* 2.8 30.2 + - - +
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Residues in contact with TRP 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A PRO* 3.9 23.6 - - + -
149B MSE 3.8 19.9 - - + +
150B LYS 3.9 5.1 + - - -
151B PRO* 2.8 42.1 + - + +
153B HIS* 1.3 77.6 - - - +
155B VAL* 1.3 57.7 + - - +
157B ILE* 4.0 8.3 - - + -
158B ALA* 3.4 13.2 + - - +
180B THR* 4.6 0.6 - - - +
183B TYR* 4.1 13.0 - - + -
184B THR* 3.5 32.2 + - + -
187B ALA* 3.5 28.5 - - + -
188B LEU* 3.7 6.1 - - + +
191B MSE 2.9 30.3 - - + +
399B TYR* 4.3 12.8 - + - -
400B VAL* 3.6 35.4 - - + -
403B MSE 4.1 11.2 - - + -
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Residues in contact with VAL 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B PRO 3.2 14.1 + - - +
152B LYS* 3.6 11.2 - - - +
153B HIS 2.8 0.6 - - - -
154B TRP* 1.3 79.0 - - - +
156B LYS* 1.3 68.6 + - + +
157B ILE 3.1 1.7 + - - -
158B ALA* 3.3 2.6 + - - +
159B HIS* 3.0 31.5 + - + +
191B MSE 3.9 22.0 - - + -
299B VAL* 5.8 0.7 - - + -
301B ASP* 3.3 43.5 - - + +
303B ILE* 4.4 8.1 - - + -
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Residues in contact with LYS 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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141B LEU* 3.5 10.0 - - + +
142B PHE* 3.8 29.4 - - + -
152B LYS* 3.1 51.1 - - - +
153B HIS* 3.0 11.5 + - - +
155B VAL* 1.3 78.1 - - + +
157B ILE* 1.3 56.9 + - - +
159B HIS* 3.8 6.5 + - - +
160B GLU* 3.1 31.4 + - - +
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Residues in contact with ILE 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B ILE* 4.7 3.4 - - + -
99B THR* 3.0 31.6 - - + +
141B LEU* 3.5 13.5 - - + -
142B PHE* 3.4 22.0 - - + -
149B MSE 5.5 2.7 - - - -
153B HIS* 2.8 29.9 + - + +
154B TRP* 4.3 2.2 - - - +
156B LYS* 1.3 76.2 - - - +
158B ALA* 1.3 57.2 + - - +
159B HIS 3.1 0.2 + - - -
160B GLU* 3.1 2.6 + - - +
161B VAL* 2.7 44.5 + - + +
174B VAL* 4.4 13.0 - - + -
176B HIS* 6.1 0.2 - - + -
184B THR* 5.3 8.5 - - + -
188B LEU* 3.7 32.5 - - + -
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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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154B TRP 3.4 17.3 + - - +
155B VAL 3.3 4.2 + - - +
157B ILE* 1.3 80.0 - - - +
159B HIS* 1.3 62.7 + - - +
161B VAL* 3.5 3.0 + - - +
162B ALA 3.1 17.5 + - - -
188B LEU* 4.1 10.7 - - + +
191B MSE 4.0 26.2 - - + -
192B LEU* 3.5 24.2 - - + +
299B VAL* 3.5 13.5 - - + +
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Residues in contact with HIS 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 VAL* 3.0 28.2 + - + +
156B LYS* 4.0 5.4 - - - +
158B ALA* 1.3 72.9 - - - +
160B GLU* 1.3 69.0 + - - +
161B VAL 2.9 2.3 + - - -
162B ALA* 3.0 3.7 + - - +
163B LYS* 2.9 24.9 + - - +
299B VAL* 3.2 36.5 - - + +
301B ASP* 2.4 32.0 + - - -
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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
----------------------------------------------------------
97B ILE* 3.8 18.1 - - + +
139B LYS* 2.7 44.0 + - + +
141B LEU* 3.6 37.0 - - + +
156B LYS 3.1 16.6 + - - +
157B ILE 3.1 4.4 + - - +
159B HIS* 1.3 78.2 - - - +
161B VAL* 1.3 63.5 + - - +
163B LYS* 3.5 17.4 + - - +
164B ALA* 3.2 21.1 + - - +
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Residues in contact with VAL 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B ILE* 3.5 21.1 - - + -
157B ILE* 2.7 37.0 + - + +
158B ALA* 3.5 8.1 - - - +
159B HIS 2.9 0.8 + - - -
160B GLU* 1.3 73.3 - - - +
162B ALA* 1.3 51.9 + - - +
164B ALA* 3.1 5.2 + - - +
165B LEU* 2.6 51.7 + - + +
172B VAL* 4.1 11.0 - - + +
174B VAL* 4.2 12.1 - - + -
188B LEU* 4.6 3.4 - - + -
192B LEU* 3.8 22.9 - - + -
199B VAL* 3.9 15.3 - - + -
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Residues in contact with ALA 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 ALA 3.1 12.8 + - - +
159B HIS* 3.0 4.6 + - - +
161B VAL* 1.3 76.3 - - - +
163B LYS* 1.3 58.5 + - - +
165B LEU* 3.9 7.6 - - - -
166B ASN* 2.6 53.6 + - - +
192B LEU* 4.7 0.9 - - + -
297B VAL* 4.5 17.7 - - + +
299B VAL* 3.7 20.0 - - + -
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Residues in contact with LYS 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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139B LYS* 3.0 26.3 - - - +
159B HIS 2.9 11.5 + - - +
160B GLU* 3.5 24.8 + - - +
162B ALA* 1.3 77.9 - - - +
164B ALA* 1.3 55.0 + - - +
166B ASN* 3.5 2.4 - - - +
167B SER* 2.6 44.5 + - - +
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Residues in contact with ALA 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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95B THR* 3.9 23.3 - - + +
97B ILE* 5.3 1.8 - - + -
139B LYS* 6.4 1.3 - - + -
160B GLU 3.2 8.6 + - - +
161B VAL* 3.1 8.1 + - - +
163B LYS* 1.3 79.7 - - - +
165B LEU* 1.3 64.0 + - - +
167B SER* 3.2 14.0 + - - -
168B GLY 3.3 0.3 + - - -
169B ASP* 2.6 42.0 + - - +
172B VAL* 4.2 6.7 - - + -
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Residues in contact with LEU 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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161B VAL* 2.6 27.3 + - + +
162B ALA* 3.6 7.4 - - - +
164B ALA* 1.3 74.9 - - - +
166B ASN* 1.3 61.3 + - - +
168B GLY 3.5 1.4 + - - -
169B ASP* 3.7 3.2 - - + +
171B GLY* 4.0 6.1 - - - -
172B VAL* 3.2 33.0 - - + +
192B LEU* 5.6 0.2 - - + -
195B LEU* 3.4 32.8 - - + -
197B LYS* 3.1 56.9 + - + -
198B PRO 4.4 0.7 - - - +
199B VAL* 4.1 14.6 - - + -
297B VAL* 3.6 16.6 - - + -
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Residues in contact with ASN 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 ALA* 2.6 34.2 + - - +
163B LYS* 3.8 2.7 - - - +
165B LEU* 1.3 70.6 - - - +
167B SER* 1.3 66.1 + - - +
168B GLY* 2.8 3.9 + - - -
197B LYS* 5.3 0.2 - - - +
296B GLU* 3.7 31.5 - - - +
297B VAL* 3.2 45.7 + - - +
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Residues in contact with SER 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B LYS* 2.6 40.9 + - - +
164B ALA* 3.2 12.1 + - - -
166B ASN* 1.3 72.2 - - - +
168B GLY* 1.3 58.6 + - - +
169B ASP* 4.5 4.7 - - - -
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Residues in contact with GLY 168 (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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93B GLU* 4.6 8.2 - - - +
164B ALA 3.3 0.6 + - - -
165B LEU 3.5 4.7 + - - -
166B ASN 2.8 6.1 - - - -
167B SER* 1.3 81.5 - - - +
169B ASP* 1.3 68.5 + - - +
170B TYR* 3.7 1.2 + - - -
197B LYS* 3.8 8.8 + - - -
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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
------------------------------------------------------------
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