Contacts of the helix formed by residues 152 - 165 (chain G) in PDB entry 4ZZ7
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 VAL 152 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G ILE* 3.9 12.6 - - + -
86G ILE* 3.6 27.1 - - + -
100G GLU* 2.8 11.5 + - - +
101G LEU* 3.8 32.3 - - + -
151G PRO* 1.3 84.9 - - - +
153G MET* 1.3 67.0 + - - +
154G VAL 3.4 0.4 - - - -
155G PRO* 3.5 4.0 - - - +
156G LEU* 3.1 45.2 + - + +
180G SER* 4.0 11.9 - - - +
184G ILE* 4.0 17.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 153 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100G GLU* 3.0 35.7 + - + +
103G ARG* 3.2 51.8 - - + +
104G GLY* 3.9 15.9 - - - +
150G PHE* 3.7 34.8 - - + -
152G VAL* 1.3 77.9 - - - +
154G VAL* 1.3 66.1 + - + +
156G LEU* 3.1 4.5 + - - +
157G TRP* 2.9 63.0 + - + +
280G CYS* 6.2 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 154 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146G THR* 4.1 7.9 - - + -
147G PRO* 3.7 30.5 - - + -
150G PHE* 3.4 34.3 + - + +
153G MET* 1.3 84.6 - - + +
155G PRO* 1.3 74.2 - - + +
157G TRP* 3.1 38.7 - - + +
158G MET* 3.6 7.6 - - + +
223G VAL* 3.7 27.1 - - + -
280G CYS* 5.9 1.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 155 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146G THR* 3.8 31.0 - - + +
150G PHE 3.3 15.5 - - - +
151G PRO 3.3 18.4 - - - +
152G VAL 3.6 8.1 - - - +
154G VAL* 1.3 89.7 - - + +
156G LEU* 1.3 57.2 + - - +
158G MET* 2.8 23.3 + - + +
159G PHE* 3.2 34.9 + - + -
171G LEU* 4.0 11.4 - - + -
181G THR* 4.3 11.2 - - + -
184G ILE* 4.9 2.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 156 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71G PHE* 3.6 20.4 - - + -
75G LEU* 4.4 11.7 - - + -
101G LEU* 4.9 2.9 - - + -
104G GLY* 3.6 38.6 - - - +
105G ILE 4.3 0.9 - - - +
107G ASN* 3.3 15.4 - - - +
108G VAL* 4.1 3.6 - - + -
152G VAL* 3.1 29.5 + - + +
153G MET 3.1 8.5 + - - +
155G PRO* 1.3 75.1 - - - +
157G TRP* 1.3 60.3 + - - +
158G MET 3.1 0.2 - - - -
159G PHE* 3.6 18.6 - - + -
160G PRO* 3.2 38.4 - - + +
161G MET 5.0 0.2 + - - -
184G ILE* 4.2 7.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 157 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103G ARG* 5.3 2.2 - - - -
107G ASN* 3.4 18.2 + - - -
153G MET* 2.9 63.8 + - + +
154G VAL* 3.1 31.6 - - + +
156G LEU* 1.3 77.3 - - - +
158G MET* 1.3 62.9 + - + +
161G MET* 4.6 8.2 - - - +
223G VAL* 4.2 22.4 - - + -
246G LEU* 4.3 1.6 - - + -
280G CYS* 4.9 6.7 - - - -
442G VAL* 5.6 0.2 - - + -
449G PHE* 3.5 50.3 - + - -
462G ALA* 3.9 18.8 - - + -
463G TYR* 3.4 59.4 + + + +
471G TYR* 4.7 2.9 + - - -
----------------------------------------------------------
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
----------------------------------------------------------
144G GLY* 3.7 16.4 - - - -
145G ILE 3.7 15.7 - - - +
146G THR* 4.1 15.0 - - + -
154G VAL* 3.6 12.1 - - + +
155G PRO* 2.8 14.1 + - + +
156G LEU 3.1 0.2 - - - -
157G TRP* 1.3 76.4 - - + +
159G PHE* 1.3 65.2 + - - +
160G PRO 3.4 1.5 - - - -
161G MET 3.5 2.8 + - - -
162G ALA* 3.1 22.0 + - - +
169G PHE* 3.6 11.7 - - + -
171G LEU* 5.0 0.7 - - - -
221G SER* 3.2 43.5 - - - +
223G VAL* 3.8 24.7 - - + -
471G TYR* 3.4 24.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 159 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68G MET* 5.7 0.2 - - + -
71G PHE* 4.1 17.5 - + - -
155G PRO* 3.2 47.5 + - + -
156G LEU* 3.6 18.6 - - + -
158G MET* 1.3 73.6 - - - +
160G PRO* 1.3 70.2 - - + +
163G ILE* 2.7 47.0 + - + +
169G PHE* 3.6 37.5 - + + -
171G LEU* 4.5 5.6 - - + -
181G THR 6.0 0.2 - - - -
184G ILE* 4.4 13.7 - - + -
185G ALA* 5.2 3.1 - - - -
188G LEU* 3.7 21.1 - - + -
198G MET* 3.4 32.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 160 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68G MET* 3.4 33.0 - - + +
107G ASN 4.4 4.0 - - - +
108G VAL* 4.3 7.6 - - + -
111G ALA* 3.9 13.2 - - + +
156G LEU* 3.2 55.0 - - + +
158G MET 3.5 0.9 - - - -
159G PHE* 1.3 102.1 - - + +
161G MET* 1.3 61.3 - - - +
163G ILE* 5.2 0.2 - - + -
164G VAL* 3.2 24.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 161 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107G ASN 5.3 3.1 + - - +
110G TYR* 3.5 37.7 - - + -
111G ALA* 4.2 13.2 - - + +
114G ALA* 5.9 0.4 - - - -
117G LEU* 3.8 13.0 - - + -
156G LEU 5.0 0.8 + - - -
157G TRP 4.6 5.8 - - - +
158G MET 3.5 6.9 + - - +
159G PHE 3.4 0.2 - - - -
160G PRO* 1.3 80.5 - - - +
162G ALA* 1.3 57.8 + - - +
164G VAL* 3.3 14.2 - - - +
165G CYS* 3.0 36.2 + - - -
463G TYR* 5.7 1.1 - - + -
464G GLY 4.1 5.2 - - - +
467G ALA* 3.8 33.4 - - + -
468G VAL* 3.6 19.3 - - + +
471G TYR* 4.2 5.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 162 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142G VAL* 4.8 0.4 - - + -
158G MET 3.1 16.8 + - - +
159G PHE 3.3 0.9 + - - +
161G MET* 1.3 76.1 - - - +
163G ILE* 1.3 66.2 + - - +
165G CYS 3.4 4.2 + - - -
167G ASN* 3.1 34.5 + - + +
169G PHE* 3.8 24.5 - - + -
471G TYR* 3.6 33.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 163 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G TRP* 2.9 45.4 + - + +
64G ARG* 3.8 0.6 - - - +
67G VAL* 6.4 0.2 - - + -
68G MET* 5.1 10.8 - - - -
159G PHE* 2.7 44.6 + - + +
160G PRO* 4.2 2.7 - - + +
162G ALA* 1.3 75.1 - - - +
164G VAL* 1.3 60.0 + - - +
166G GLY 2.9 16.5 + - - -
167G ASN 3.6 12.1 - - - +
169G PHE* 4.2 12.8 - - + -
188G LEU* 4.0 13.2 - - + -
193G LEU* 3.9 9.4 - - + -
197G VAL* 3.8 12.1 - - + -
198G MET* 3.8 23.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 164 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G TRP* 5.2 0.2 - - - -
61G PRO* 4.9 0.7 - - - +
64G ARG* 2.8 32.1 + - + +
65G ALA* 3.7 28.5 - - - +
68G MET* 4.2 8.3 - - + -
111G ALA* 3.5 17.3 - - + +
114G ALA* 3.4 31.8 - - + +
118G LEU* 4.1 5.5 - - - +
160G PRO 3.2 14.8 + - - +
161G MET* 3.3 26.2 - - - +
162G ALA 3.3 0.2 - - - -
163G ILE* 1.3 81.4 - - - +
165G CYS* 1.3 60.4 + - - +
166G GLY 3.1 0.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 165 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64G ARG* 3.3 10.6 + - - +
114G ALA* 6.1 0.2 - - - -
118G LEU* 3.9 25.9 - - - +
136G PHE 5.5 0.2 - - - +
138G PRO* 3.5 20.3 - - - +
161G MET* 3.0 40.7 + - - +
162G ALA 3.6 6.7 - - - +
163G ILE 3.2 0.6 - - - -
164G VAL* 1.3 78.4 - - - +
166G GLY* 1.3 56.7 + - - +
167G ASN* 3.7 9.9 - - - +
468G VAL* 4.1 20.4 - - - -
471G TYR* 4.1 4.5 - - + +
472G THR* 4.0 16.2 - - + +
----------------------------------------------------------
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