Contacts of the helix formed by residues 150 - 172 (chain G) 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 G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146G GLY 5.5 0.4 - - - -
147G ALA 5.1 0.2 + - - -
149G LYS* 1.3 70.7 - - - +
151G VAL* 1.3 63.7 + - - +
152G ARG* 3.3 11.0 + - - +
153G ALA* 2.6 43.1 + - + +
154G ALA* 2.8 20.8 + - - +
274H LEU* 5.5 6.6 - - - +
321H ARG* 5.9 0.9 + - - -
335H LEU* 3.9 9.9 - - + +
338H LEU* 3.6 12.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 151 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149G LYS* 3.1 10.1 + - + +
150G ASP* 1.3 71.8 - - - +
152G ARG* 1.3 57.7 + - - +
154G ALA* 3.2 7.2 + - - +
155G LEU* 2.9 41.8 + - + +
192G LEU* 4.2 19.3 - - + -
229H PRO 5.2 0.2 - - - +
230H HIS* 3.4 51.8 - - + +
233H ALA* 3.4 24.9 - - + -
234H GLN* 4.7 0.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 152 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340C GLU* 2.8 44.4 + - - -
341C PRO* 4.7 7.3 - - - +
150G ASP* 3.1 10.5 + - - +
151G VAL* 1.3 75.2 - - - +
153G ALA* 1.3 64.6 + - - +
155G LEU* 3.1 7.3 + - - +
156G ASP* 3.1 27.4 + - - +
233H ALA* 3.6 25.1 - - + +
236H LEU* 4.0 16.4 + - - +
237H TRP* 3.7 34.8 - - + +
274H LEU* 4.7 10.4 - - + +
277H SER 4.8 1.2 + - - -
278H ALA* 3.8 28.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 153 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150G ASP* 2.6 32.6 + - + +
152G ARG* 1.3 72.9 - - - +
154G ALA* 1.3 61.7 + - - +
156G ASP* 3.2 23.3 + - - +
157G ARG* 3.2 20.0 + - - +
338H LEU* 4.0 15.0 - - + -
339H ALA* 4.5 20.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 154 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105G THR* 3.2 21.2 - - - +
149G LYS* 3.9 21.3 - - + -
150G ASP 2.8 12.6 + - - +
151G VAL* 3.5 9.6 - - - +
153G ALA* 1.3 79.5 - - - +
155G LEU* 1.3 56.7 + - - +
157G ARG* 3.4 1.7 + - - +
158G MET* 2.9 22.1 + - - +
192G LEU* 3.7 24.9 - - + -
338H LEU* 4.2 10.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 155 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151G VAL* 2.9 28.5 + - + +
152G ARG 3.1 7.1 + - - +
154G ALA* 1.3 73.6 - - - +
156G ASP* 1.3 61.1 + - - +
158G MET* 3.6 12.8 - - + +
159G LYS* 2.9 31.2 + - - +
192G LEU* 5.4 5.4 - - + -
193G LEU* 4.3 17.0 - - + -
202G PHE* 4.0 27.5 - - + -
233H ALA 4.6 0.2 - - - +
234H GLN* 3.7 31.2 - - + +
237H TRP* 3.5 41.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 156 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152G ARG* 3.1 18.7 + - - +
153G ALA* 3.2 15.4 + - - +
155G LEU* 1.3 77.3 - - - +
157G ARG* 1.3 78.4 + - - +
159G LYS* 3.6 7.0 - - - +
160G GLU* 2.9 29.3 + - - +
237H TRP* 2.8 23.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 157 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104G PHE 3.5 19.9 - - - +
105G THR* 4.4 2.9 - - - -
112G ARG* 3.4 20.9 - - - +
153G ALA* 3.2 17.5 + - - +
154G ALA 3.6 5.8 - - - +
156G ASP* 1.3 98.4 + - - +
158G MET* 1.3 55.6 + - - +
160G GLU* 3.1 28.4 + - - +
161G ALA* 2.9 30.1 + - - +
338H LEU* 2.8 40.9 + - + +
339H ALA* 3.4 18.0 + - - +
340H GLU 3.3 18.1 + - - -
341H PRO* 3.8 15.2 - - - +
342H THR* 3.6 6.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 158 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104G PHE* 4.6 4.5 - - + -
105G THR* 3.6 25.4 - - + -
141G GLU* 3.9 15.3 - - + +
154G ALA 2.9 17.5 + - - +
155G LEU* 3.6 11.4 - - + +
157G ARG* 1.3 78.0 - - - +
159G LYS* 1.3 57.7 + - - +
161G ALA* 3.3 5.9 + - - +
162G PHE* 3.0 50.4 + - + -
192G LEU* 3.6 35.4 - - + +
193G LEU* 3.5 30.7 - - + -
202G PHE* 3.8 17.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 159 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155G LEU 2.9 17.1 + - - +
156G ASP* 3.6 6.3 - - - +
158G MET* 1.3 73.3 - - - +
160G GLU* 1.3 61.4 + - - +
162G PHE 3.4 0.2 + - - -
163G ASP* 2.9 59.1 + - - +
202G PHE* 3.7 13.4 - - + -
205G ARG* 2.8 33.9 + - - +
206G LEU* 3.8 11.9 - - + +
207G GLU* 3.6 12.9 - - - +
237H TRP* 4.0 23.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 160 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156G ASP 2.9 16.6 + - - +
157G ARG* 3.1 23.7 + - - +
159G LYS* 1.3 79.5 - - - +
161G ALA* 1.3 61.7 + - - +
163G ASP* 3.4 6.8 + - - +
164G LEU* 3.0 38.5 + - + +
341H PRO* 3.6 10.1 - - - +
342H THR* 2.7 35.9 + - - -
343H ALA* 2.9 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 161 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104G PHE* 3.4 42.0 - - + +
116G LEU* 3.5 20.1 - - + +
157G ARG 2.9 16.6 + - - +
158G MET 3.5 4.9 - - - +
160G GLU* 1.3 76.5 - - - +
162G PHE* 1.3 62.0 + - - +
164G LEU* 3.2 5.7 + - - +
165G LEU* 3.0 25.6 + - - +
342H THR* 5.7 2.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 162 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104G PHE* 3.9 23.1 - + - -
136G ALA* 3.8 31.2 - - + -
158G MET* 3.0 47.2 + - + +
161G ALA* 1.3 73.2 - - - +
163G ASP* 1.3 58.1 + - - +
165G LEU* 3.0 17.0 + - + +
166G GLY 2.9 16.1 + - - -
178G PHE* 5.1 6.5 - + + -
180G ILE* 3.9 23.1 - - + -
202G PHE* 3.9 17.9 - + - -
206G LEU* 4.0 13.9 - - + -
212G TYR* 2.5 50.3 + + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 163 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159G LYS* 2.9 52.5 + - - +
160G GLU* 3.7 7.2 + - - +
162G PHE* 1.3 76.3 - - - +
164G LEU* 1.3 58.0 + - + +
166G GLY* 3.2 1.2 + - - -
167G GLU* 2.9 30.0 + - - +
206G LEU* 3.5 13.5 - - - +
207G GLU* 3.1 44.9 + - - +
208G ARG* 4.8 1.2 + - - -
212G TYR* 3.6 5.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 164 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116G LEU* 3.6 33.0 - - + -
120G ILE* 5.8 1.6 - - + -
160G GLU* 3.0 34.5 + - + +
161G ALA 3.4 6.5 - - - +
162G PHE 3.2 0.2 - - - -
163G ASP* 1.3 77.1 - - + +
165G LEU* 1.3 58.7 + - - +
167G GLU* 3.2 14.1 + - - +
168G TYR* 2.9 28.5 + - - +
342H THR* 4.8 0.7 - - + -
343H ALA* 3.9 26.0 - - + +
346H GLY* 4.7 2.5 - - - -
347H LEU* 4.2 39.3 - - + +
350H LEU* 4.4 6.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 165 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104G PHE* 3.8 30.5 - - + -
116G LEU* 4.1 12.3 - - + -
119G THR* 3.9 16.2 - - + -
120G ILE* 3.8 28.5 - - + -
123G ILE* 3.9 14.6 - - + -
134G TYR* 6.2 0.2 - - + -
161G ALA 3.0 16.6 + - - +
162G PHE* 3.0 23.5 + - + +
164G LEU* 1.3 78.4 - - - +
166G GLY* 1.3 55.8 + - - +
168G TYR* 3.4 4.3 + - - +
169G VAL* 3.1 33.4 + - - +
178G PHE* 3.6 23.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 166 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162G PHE 2.9 10.5 + - - -
163G ASP 3.2 1.8 + - - -
164G LEU 3.2 0.2 - - - -
165G LEU* 1.3 75.2 - - - +
167G GLU* 1.3 60.1 + - - +
169G VAL* 3.2 10.0 - - - +
170G THR* 2.8 34.0 + - - -
178G PHE* 4.1 3.3 - - - -
208G ARG* 4.4 5.3 + - - -
211G LEU* 3.8 12.8 - - - +
212G TYR* 3.4 17.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 167 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163G ASP 2.9 17.4 + - - +
164G LEU* 3.2 14.9 + - - +
166G GLY* 1.3 75.1 - - - +
168G TYR* 1.3 58.8 + - - +
170G THR* 3.5 2.0 + - - -
171G SER* 3.0 32.1 + - - -
207G GLU* 4.8 9.1 - - - +
208G ARG* 4.1 18.3 + - - +
347H LEU* 3.3 34.5 + - + +
348H GLN* 5.3 1.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 168 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120G ILE* 3.4 42.7 - - + +
123G ILE* 4.5 12.1 - - + -
124G ASP* 2.7 36.4 + - - -
164G LEU 2.9 15.5 + - - +
165G LEU* 3.6 7.9 - - - +
166G GLY 3.3 0.2 - - - -
167G GLU* 1.3 75.7 - - - +
169G VAL* 1.3 71.4 + - + +
171G SER* 3.0 17.9 + - - -
172G GLN* 3.1 43.3 + - + +
174G TYR* 4.0 10.5 + + - -
347H LEU* 3.7 25.3 - - + +
348H GLN* 5.8 0.2 - - - -
351H LEU* 4.2 20.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 169 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123G ILE* 4.0 18.2 - - + -
165G LEU 3.1 14.1 + - - +
166G GLY* 3.2 17.9 - - - +
168G TYR* 1.3 76.9 - - + +
170G THR* 1.3 67.5 + - - +
172G GLN 3.3 1.0 + - - -
173G GLY 3.1 3.1 + - - -
174G TYR* 3.0 44.5 + - + +
176G ILE* 3.5 39.0 - - + +
178G PHE* 3.6 20.0 - - + -
211G LEU* 4.3 9.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 170 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166G GLY 2.8 20.8 + - - -
167G GLU* 3.8 5.8 - - - +
168G TYR 3.2 0.2 - - - -
169G VAL* 1.3 81.0 - - - +
171G SER* 1.3 63.1 + - - +
173G GLY* 3.2 13.1 + - - -
174G TYR 5.5 1.1 - - - -
208G ARG* 3.8 25.8 - - - +
211G LEU* 3.7 17.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 171 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167G GLU* 3.0 18.8 + - - -
168G TYR* 3.0 19.1 + - - -
170G THR* 1.3 78.0 - - - +
172G GLN* 1.3 72.4 + - - +
173G GLY 3.3 0.8 + - - -
347H LEU* 4.5 5.0 - - - +
348H GLN* 4.7 9.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 172 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168G TYR* 3.1 51.7 + - + +
169G VAL 3.8 0.7 - - - +
170G THR 3.1 0.2 - - - -
171G SER* 1.3 89.2 + - - +
173G GLY* 1.3 57.3 + - - +
174G TYR* 3.0 50.7 + - + -
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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