Contacts of the helix formed by residues 150 - 172 (chain B) in PDB entry 4HHM
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 ASP 150 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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274A LEU* 5.9 0.7 - - - +
335A LEU* 4.1 9.3 - - + +
338A LEU* 3.7 16.3 - - + +
146B GLY 5.6 0.2 - - - -
149B LYS* 1.3 69.7 - - - +
151B VAL* 1.3 59.1 + - - +
152B ARG* 3.2 29.8 + - - +
153B ALA* 2.8 36.1 + - + +
154B ALA* 2.9 25.1 + - - +
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Residues in contact with VAL 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A PRO 5.7 0.2 - - - -
230A HIS* 3.5 48.7 - - + +
233A ALA* 3.4 23.7 - - + +
234A GLN* 5.5 0.2 - - + -
149B LYS* 3.1 9.8 + - + +
150B ASP* 1.3 71.9 + - - +
152B ARG* 1.3 57.0 + - - +
154B ALA* 3.6 6.5 - - - +
155B LEU* 2.8 47.6 + - + +
192B LEU* 3.9 24.7 - - + -
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Residues in contact with ARG 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A ALA* 3.7 26.4 - - + +
236A LEU* 4.6 14.6 - - - -
237A TRP* 3.7 21.9 - - + +
274A LEU* 3.7 17.6 - - - +
277A SER* 3.7 25.1 + - - -
278A ALA* 3.7 30.3 + - - +
150B ASP* 3.2 23.3 + - - +
151B VAL* 1.3 76.2 - - - +
153B ALA* 1.3 61.8 + - - +
155B LEU* 3.4 2.9 + - - -
156B ASP* 3.1 29.2 + - - +
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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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335A LEU 5.8 0.2 - - - +
338A LEU* 3.7 26.9 - - + +
339A ALA* 4.3 15.9 - - + +
150B ASP* 2.8 26.8 + - + +
152B ARG* 1.3 69.9 - - - +
154B ALA* 1.3 61.5 + - - +
156B ASP* 3.2 12.5 + - - +
157B ARG* 3.0 34.9 + - - +
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Residues in contact with ALA 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A LEU* 4.2 9.1 - - + +
105B THR* 3.4 13.6 - - - +
149B LYS* 4.1 19.3 - - + -
150B ASP 2.9 12.4 + - - +
151B VAL* 3.6 10.8 - - - +
153B ALA* 1.3 78.2 - - - +
155B LEU* 1.3 58.6 + - - +
157B ARG* 3.2 1.8 + - - +
158B MET* 2.7 29.3 + - - +
192B LEU* 3.6 25.8 - - + -
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Residues in contact with LEU 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A ALA 4.5 0.2 - - - +
234A GLN* 3.8 36.6 - - + +
237A TRP* 3.5 36.3 - - + +
151B VAL* 2.8 36.4 + - + +
152B ARG 3.8 0.9 - - - +
154B ALA* 1.3 74.7 - - + +
156B ASP* 1.3 57.1 + - - +
158B MET* 3.5 28.8 - - + +
159B LYS* 2.7 37.2 + - - +
192B LEU* 4.9 6.5 - - + -
193B LEU* 4.5 10.5 - - + +
202B PHE* 4.1 12.8 - - + -
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Residues in contact with ASP 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237A TRP* 2.9 23.5 + - - +
152B ARG* 3.1 20.8 + - - +
153B ALA* 3.2 13.8 + - - +
155B LEU* 1.3 76.2 - - - +
157B ARG* 1.3 85.0 + - - +
159B LYS* 3.6 5.3 + - - +
160B GLU* 3.2 22.9 + - - +
205B ARG* 5.1 3.5 + - - -
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Residues in contact with ARG 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A LEU* 2.7 51.8 + - + +
339A ALA* 3.4 20.2 + - - +
340A GLU 3.4 20.4 + - - -
341A PRO* 4.0 12.3 - - - +
342A THR* 3.8 5.7 + - - +
104B PHE 3.7 19.1 - - - +
105B THR* 4.6 1.6 - - - -
112B ARG* 3.5 20.0 - - - +
153B ALA* 3.0 24.4 + - - +
154B ALA* 3.5 7.6 - - - +
156B ASP* 1.3 98.5 + - - +
158B MET* 1.3 67.4 + - - +
160B GLU* 3.1 24.7 + - - +
161B ALA* 3.0 22.7 + - - +
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Residues in contact with MET 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B PHE* 4.6 4.9 - - + -
105B THR* 3.8 17.8 - - + +
138B GLY* 6.3 0.9 - - - -
141B GLU* 5.1 13.2 - - - +
154B ALA 2.7 18.8 + - - +
155B LEU* 3.5 25.6 - - + +
157B ARG* 1.3 73.5 - - - +
159B LYS* 1.3 62.9 + - - +
161B ALA* 3.2 7.4 + - - +
162B PHE* 3.1 45.9 + - + -
192B LEU* 4.1 16.2 - - + +
193B LEU* 3.5 36.8 - - + -
202B PHE* 3.2 15.7 - - + -
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Residues in contact with LYS 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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237A TRP* 4.0 24.7 - - + -
155B LEU 2.7 21.3 + - - +
156B ASP* 3.8 6.3 - - - +
158B MET* 1.3 73.9 - - - +
160B GLU* 1.3 51.9 + - - +
162B PHE* 3.3 0.9 + - - -
163B ASP* 2.8 61.5 + - - +
202B PHE* 3.7 10.0 - - - -
205B ARG* 2.9 43.2 + - - +
206B LEU* 3.8 12.3 - - + +
207B GLU* 3.8 12.7 + - - +
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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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341A PRO* 3.5 9.5 - - - +
342A THR* 2.8 36.1 + - - -
343A ALA* 3.0 29.2 + - - +
344A ALA* 4.9 0.3 - - - -
156B ASP 3.2 9.8 + - - +
157B ARG* 3.1 23.4 + - - +
159B LYS* 1.3 76.4 - - - +
161B ALA* 1.3 62.1 + - - +
163B ASP* 3.7 7.1 - - - +
164B LEU* 2.8 50.8 + - + +
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Residues in contact with ALA 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342A THR* 6.0 1.6 - - + +
104B PHE* 3.5 37.7 - - + +
116B LEU* 3.7 26.0 - - + +
157B ARG 3.0 11.6 + - - +
158B MET 3.2 8.5 + - - +
160B GLU* 1.3 76.6 - - - +
162B PHE* 1.3 59.0 + - - +
164B LEU* 3.2 4.0 + - - +
165B LEU* 2.9 32.8 + - - +
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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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104B PHE* 4.3 21.3 - + - -
136B ALA* 3.7 28.7 - - + -
158B MET* 3.1 47.1 + - + +
159B LYS 3.8 2.9 - - - +
161B ALA* 1.3 75.7 - - + +
163B ASP* 1.3 56.3 + - - +
165B LEU* 3.2 16.2 + - + +
166B GLY 2.9 16.1 + - - -
178B PHE* 5.1 5.8 - + + -
180B ILE* 3.8 25.8 - - + -
202B PHE* 3.6 20.6 - + - -
206B LEU* 3.9 11.4 - - + -
212B TYR* 2.6 51.2 + + + -
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Residues in contact with ASP 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 LYS* 2.8 53.7 + - - +
160B GLU* 3.7 8.4 - - - +
162B PHE* 1.3 71.8 - - - +
164B LEU* 1.3 58.7 + - + +
166B GLY* 3.2 1.2 + - - -
167B GLU* 2.9 30.0 + - - +
206B LEU* 3.6 10.9 - - - +
207B GLU* 2.9 50.3 + - - +
208B ARG* 5.1 2.3 + - - -
212B TYR* 3.9 4.8 + - - -
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Residues in contact with LEU 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A ALA* 3.8 27.4 - - + +
346A GLY* 4.7 0.9 - - - -
347A LEU* 4.0 44.1 - - + +
350A LEU* 4.4 3.6 - - + -
116B LEU* 3.4 32.8 - - + -
120B ILE* 5.7 2.0 - - + -
160B GLU* 2.8 37.5 + - + +
161B ALA 3.5 3.8 - - - +
163B ASP* 1.3 78.1 - - + +
165B LEU* 1.3 58.0 + - - +
167B GLU* 3.3 13.2 + - - +
168B TYR* 3.0 29.5 + - - +
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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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104B PHE* 4.0 20.9 - - + -
116B LEU* 4.2 12.8 - - + -
119B THR* 3.9 28.7 - - + -
120B ILE* 3.5 30.7 - - + -
123B ILE* 4.0 6.1 - - + -
134B TYR* 5.9 0.4 - - + -
161B ALA 2.9 17.4 + - - +
162B PHE* 3.2 21.1 + - + +
164B LEU* 1.3 76.1 - - - +
166B GLY* 1.3 57.0 + - - +
168B TYR* 3.4 4.3 + - - +
169B VAL* 3.0 33.3 + - - +
178B PHE* 3.8 25.6 - - + -
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Residues in contact with GLY 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 2.9 11.3 + - - -
163B ASP 3.7 1.1 - - - -
165B LEU* 1.3 74.0 - - - +
167B GLU* 1.3 59.6 + - - +
169B VAL* 3.1 10.6 - - - +
170B THR* 2.7 34.6 + - - -
178B PHE* 4.0 5.4 - - - -
208B ARG* 4.7 4.3 - - - -
211B LEU* 4.1 9.3 - - - +
212B TYR* 3.4 18.6 + - - -
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Residues in contact with GLU 167 (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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347A LEU* 3.5 34.7 + - + +
348A GLN* 5.6 1.9 - - - +
163B ASP 2.9 15.7 + - - +
164B LEU* 3.3 15.3 + - - +
166B GLY* 1.3 76.5 - - - +
168B TYR* 1.3 59.4 + - - +
170B THR* 3.4 4.4 + - - -
171B SER* 2.9 30.4 + - - -
207B GLU* 5.3 4.6 - - - +
208B ARG* 4.2 19.2 - - - +
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Residues in contact with TYR 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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347A LEU* 4.2 13.9 - - + -
351A LEU* 3.8 31.9 - - + -
120B ILE* 3.5 39.3 - - + +
123B ILE* 4.4 7.2 - - + -
124B ASP* 2.6 36.7 + - - -
164B LEU 3.0 16.6 + - - +
165B LEU* 3.6 6.7 - - - +
167B GLU* 1.3 77.5 - - - +
169B VAL* 1.3 74.0 + - + +
171B SER* 2.8 22.6 + - - -
172B GLN* 3.0 45.9 + - + +
174B TYR* 4.1 6.5 - + - -
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Residues in contact with VAL 169 (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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123B ILE* 4.2 18.8 - - + -
165B LEU 3.0 16.4 + - - +
166B GLY* 3.1 22.9 - - - +
168B TYR* 1.3 75.5 - - + +
170B THR* 1.3 63.4 + - - +
172B GLN 3.5 0.5 + - - -
173B GLY 3.2 2.1 + - - -
174B TYR* 2.9 46.0 + - + +
176B ILE* 3.7 29.8 - - + +
178B PHE* 3.4 26.5 - - + -
211B LEU* 4.4 9.9 - - + -
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Residues in contact with THR 170 (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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166B GLY 2.7 22.3 + - - -
167B GLU* 3.7 6.5 - - - -
169B VAL* 1.3 77.3 - - - +
171B SER* 1.3 66.4 + - - +
173B GLY* 3.1 13.7 + - - -
174B TYR 5.4 0.7 - - - -
208B ARG* 3.9 27.1 + - - +
211B LEU* 4.0 11.6 - - - +
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Residues in contact with SER 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347A LEU* 5.0 6.4 - - - +
167B GLU* 2.9 18.2 + - - -
168B TYR* 2.8 25.6 + - - -
170B THR* 1.3 77.7 - - - +
172B GLN* 1.3 72.7 + - - +
173B GLY 3.1 1.1 + - - -
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Residues in contact with GLN 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124B ASP* 5.6 0.2 - - - -
168B TYR* 3.0 47.4 + - + +
169B VAL 4.1 0.2 - - - +
170B THR 3.2 0.2 - - - -
171B SER* 1.3 90.7 + - - +
173B GLY* 1.3 63.1 + - - +
174B TYR* 3.2 46.5 + - + -
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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
------------------------------------------------------------
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