Contacts of the helix formed by residues 150 - 172 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149C LYS* 1.3 70.6 - - - +
151C VAL* 1.3 66.6 + - - +
152C ARG* 3.4 30.9 + - - +
153C ALA* 2.8 54.2 + - + +
154C ALA* 2.8 12.1 + - - +
274D LEU* 5.3 3.5 - - - +
321D ARG* 6.0 0.3 + - - -
335D LEU* 4.2 7.4 - - + +
338D LEU* 3.7 10.2 - - + +
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Residues in contact with VAL 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C LYS* 3.4 9.3 + - + +
150C ASP* 1.3 71.3 - - - +
152C ARG* 1.3 54.1 + - - +
154C ALA* 2.9 8.4 + - - +
155C LEU* 2.7 54.6 + - + +
192C LEU* 4.1 20.0 - - + -
229D PRO 5.0 0.2 - - - +
230D HIS* 3.5 45.1 - - + +
233D ALA* 3.2 28.9 - - + +
234D GLN* 5.2 0.4 - - + -
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Residues in contact with ARG 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150C ASP* 3.3 21.5 + - - +
151C VAL* 1.3 78.2 - - - +
153C ALA* 1.3 62.0 + - - +
155C LEU* 3.4 1.3 + - - -
156C ASP* 3.1 29.4 + - - +
233D ALA* 3.7 22.8 - - + +
236D LEU* 4.3 16.8 - - - -
237D TRP* 3.7 26.3 - - + +
274D LEU* 3.7 26.4 - - - +
277D SER* 3.9 19.4 + - - -
278D ALA* 3.8 29.7 + - - +
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Residues in contact with ALA 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C ASP* 2.8 27.7 + - + +
152C ARG* 1.3 69.1 - - - +
154C ALA* 1.3 67.1 + - - +
156C ASP* 3.2 12.2 + - - +
157C ARG* 3.1 28.4 + - - +
338D LEU* 3.8 27.1 - - + +
339D ALA* 4.4 15.3 - - + +
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Residues in contact with ALA 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105C THR* 3.5 15.9 - - - +
149C LYS* 4.2 18.2 - - + -
150C ASP 2.8 11.4 + - - +
151C VAL* 2.9 11.6 + - - +
153C ALA* 1.3 77.4 - - - +
155C LEU* 1.3 57.9 + - - +
157C ARG* 3.3 2.8 + - - +
158C MET* 2.9 27.4 + - - +
192C LEU* 3.6 25.6 - - + -
338D LEU* 4.2 11.1 - - - +
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Residues in contact with LEU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151C VAL* 2.7 37.8 + - + +
152C ARG 3.8 2.0 - - - +
154C ALA* 1.3 74.6 - - + +
156C ASP* 1.3 56.0 + - - +
158C MET* 3.2 12.9 + - - +
159C LYS* 2.8 30.0 + - - +
192C LEU* 4.7 12.3 - - + -
193C LEU* 4.1 25.1 - - + +
202C PHE* 3.8 11.4 - - + -
233D ALA 4.8 0.2 - - - +
234D GLN* 3.8 39.7 - - + +
237D TRP* 3.6 36.1 - - + -
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Residues in contact with ASP 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C ARG* 3.1 25.3 + - - +
153C ALA* 3.2 10.7 + - - +
155C LEU* 1.3 75.0 - - - +
157C ARG* 1.3 79.6 + - - +
159C LYS* 3.3 8.9 + - - +
160C GLU* 3.0 28.6 + - - +
237D TRP* 2.7 27.2 + - - +
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Residues in contact with ARG 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C PHE 3.7 19.3 - - - +
105C THR* 4.7 1.6 - - - -
112C ARG* 3.3 22.0 - - - +
153C ALA* 3.1 15.4 + - - +
154C ALA* 3.6 7.4 - - - +
156C ASP* 1.3 97.2 + - - +
158C MET* 1.3 57.9 + - - +
160C GLU* 3.1 24.3 + - - +
161C ALA* 3.0 29.3 + - - +
338D LEU* 3.0 34.7 + - + +
339D ALA* 3.5 18.2 + - - +
340D GLU 3.2 23.3 + - - -
341D PRO* 3.7 19.8 - - - +
342D THR* 3.7 6.2 + - - +
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Residues in contact with MET 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C PHE* 4.8 7.4 - - + -
105C THR* 3.6 24.9 - - + -
138C GLY* 5.6 2.0 - - - -
141C GLU* 3.7 27.1 - - + -
154C ALA 2.9 16.8 + - - +
155C LEU* 3.5 15.0 - - - +
157C ARG* 1.3 76.7 - - - +
159C LYS* 1.3 64.4 + - - +
161C ALA* 3.6 3.8 + - - +
162C PHE* 2.9 48.0 + - + -
192C LEU* 4.4 10.1 - - + +
193C LEU* 3.8 33.0 - - + -
202C PHE* 3.5 14.6 - - + -
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Residues in contact with LYS 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155C LEU 2.8 16.9 + - - +
156C ASP* 3.6 7.4 - - - +
158C MET* 1.3 73.6 - - - +
160C GLU* 1.3 60.7 + - - +
162C PHE* 3.3 2.3 + - - +
163C ASP* 2.8 54.2 + - - +
202C PHE* 3.6 12.8 - - + -
205C ARG* 2.8 28.1 + - + +
206C LEU* 3.6 8.9 - - + -
207C GLU* 3.4 16.8 - - - +
237D TRP* 4.0 21.3 - - + -
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Residues in contact with GLU 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156C ASP 3.0 15.3 + - - +
157C ARG* 3.1 22.5 + - - +
159C LYS* 1.3 78.1 - - - +
161C ALA* 1.3 64.3 + - - +
163C ASP* 3.1 8.4 + - - +
164C LEU* 2.8 40.0 + - + +
341D PRO* 3.6 10.2 - - - +
342D THR* 2.7 34.1 + - - -
343D ALA* 2.8 30.4 + - - +
344D ALA* 4.0 0.7 + - - -
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Residues in contact with ALA 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C PHE* 3.6 37.7 - - + +
116C LEU* 3.7 21.2 - - + +
157C ARG 3.0 17.5 + - - +
158C MET 4.0 2.2 - - - +
160C GLU* 1.3 77.3 - - - +
162C PHE* 1.3 57.6 + - - +
164C LEU* 3.2 7.9 + - - +
165C LEU* 2.9 32.8 + - - +
342D THR* 5.6 3.1 + - + +
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Residues in contact with PHE 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C PHE* 4.3 19.5 - + - -
136C ALA* 3.8 32.1 - - + -
158C MET* 2.9 49.0 + - + +
161C ALA* 1.3 75.7 - - - +
163C ASP* 1.3 56.4 + - - +
165C LEU* 3.4 15.0 + - + +
166C GLY 3.0 14.0 + - - -
178C PHE* 5.2 5.4 - + + -
180C ILE* 3.9 24.9 - - + -
202C PHE* 3.7 18.6 - + - -
206C LEU* 3.8 17.7 - - + -
212C TYR* 2.4 49.1 + + + -
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Residues in contact with ASP 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159C LYS* 2.8 50.8 + - - +
160C GLU* 3.5 7.3 + - - +
162C PHE* 1.3 73.3 - - - +
164C LEU* 1.3 61.6 + - + +
166C GLY* 3.1 1.7 + - - -
167C GLU* 2.8 30.3 + - - +
206C LEU* 3.9 8.5 - - - +
207C GLU* 2.9 47.6 + - - +
208C ARG* 3.8 5.7 + - - +
212C TYR* 3.8 4.9 + - - -
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Residues in contact with LEU 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116C LEU* 3.6 30.3 - - + -
120C ILE* 6.0 1.3 - - + -
160C GLU* 2.8 38.5 + - + +
161C ALA 3.5 3.8 - - - +
163C ASP* 1.3 78.7 - - + +
165C LEU* 1.3 58.0 + - + +
167C GLU* 3.2 20.9 + - - +
168C TYR* 2.9 28.8 + - - +
343D ALA* 3.9 26.2 - - + +
346D GLY* 4.9 0.4 - - - -
347D LEU* 4.0 36.5 - - + +
350D LEU* 4.5 1.3 - - + -
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Residues in contact with LEU 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C PHE* 3.7 30.7 - - + -
116C LEU* 4.2 14.1 - - + -
119C THR* 3.9 27.4 - - + -
120C ILE* 3.9 24.2 - - + -
123C ILE* 4.2 5.5 - - + +
161C ALA 2.9 20.3 + - - +
162C PHE* 3.6 20.6 - - + +
163C ASP 3.2 0.2 - - - -
164C LEU* 1.3 76.6 - - - +
166C GLY* 1.3 61.6 + - - +
168C TYR* 3.2 6.5 + - - +
169C VAL* 3.1 26.7 + - - +
178C PHE* 3.8 21.7 - - + -
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Residues in contact with GLY 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162C PHE 3.0 11.5 + - - -
163C ASP 3.1 1.1 + - - -
165C LEU* 1.3 73.2 - - - +
167C GLU* 1.3 63.9 + - - +
169C VAL* 3.0 19.4 - - - +
170C THR* 2.9 21.7 + - - -
178C PHE* 4.0 5.6 - - - -
208C ARG* 4.1 6.7 - - - -
211C LEU* 4.3 7.4 - - - +
212C TYR* 3.3 19.5 - - - -
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Residues in contact with GLU 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163C ASP 2.8 15.9 + - - +
164C LEU* 3.4 18.5 - - - +
166C GLY* 1.3 76.0 - - - +
168C TYR* 1.3 58.5 + - - +
170C THR* 3.3 3.8 + - - -
171C SER* 2.9 32.3 + - - -
207C GLU* 5.6 1.5 - - - +
208C ARG* 3.7 24.1 - - - +
347D LEU* 3.6 32.0 + - + +
348D GLN* 5.6 1.9 + - - -
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Residues in contact with TYR 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C ILE* 3.6 34.2 - - + +
123C ILE* 4.3 14.8 - - + -
124C ASP* 2.5 37.0 + - - -
164C LEU 2.9 13.0 + - - +
165C LEU* 3.5 10.8 - - - +
166C GLY 3.2 0.2 - - - -
167C GLU* 1.3 74.0 - - - +
169C VAL* 1.3 71.7 + - + +
171C SER* 3.0 22.3 + - - -
172C GLN* 3.1 44.3 + - + +
174C TYR* 3.6 12.3 + + - -
347D LEU* 4.3 13.7 - - + +
351D LEU* 4.0 30.7 - - + -
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Residues in contact with VAL 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123C ILE* 4.2 18.4 - - + -
165C LEU 3.1 12.5 + - - +
166C GLY* 3.0 23.3 - - - +
168C TYR* 1.3 75.8 - - + +
170C THR* 1.3 58.3 + - - +
172C GLN 3.5 0.3 + - - -
173C GLY* 3.0 5.5 + - - -
174C TYR* 2.8 46.0 + - + +
176C ILE* 3.4 37.7 - - + +
178C PHE* 3.9 17.9 - - + -
211C LEU* 4.5 10.8 - - + -
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Residues in contact with THR 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166C GLY 2.9 21.6 + - - -
167C GLU* 3.5 7.2 - - - -
168C TYR 3.1 0.6 - - - -
169C VAL* 1.3 74.3 - - - +
171C SER* 1.3 58.2 + - - +
172C GLN 2.9 4.0 - - - -
173C GLY* 2.6 25.8 + - - +
208C ARG* 4.2 15.9 + - - +
211C LEU* 4.1 14.2 - - - +
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Residues in contact with SER 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C GLU* 2.9 17.6 + - - -
168C TYR* 3.0 20.6 + - - -
170C THR* 1.3 77.0 - - - +
172C GLN* 1.3 72.1 + - - +
347D LEU* 5.1 1.9 - - - +
348D GLN* 4.9 14.3 + - - -
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Residues in contact with GLN 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168C TYR* 3.1 49.9 + - + +
170C THR 2.9 0.8 - - - -
171C SER* 1.3 88.5 + - - +
173C GLY* 1.3 64.0 + - - +
174C TYR* 3.2 45.9 + - + -
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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