Contacts of the helix formed by residues 164 - 185 (chain C) in PDB entry 1Z6Z
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 TRP 164 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C LEU* 4.9 5.2 - - + -
104C VAL* 3.6 24.4 - - + +
156C CYS* 3.4 32.1 - - - -
161C PHE* 3.1 29.0 + + + +
162C LYS 3.6 10.6 + - - -
163C GLY* 1.3 85.9 - - - +
165C ALA* 1.3 63.1 + - - +
166C LEU 3.4 2.9 + - - -
167C TYR* 3.4 15.5 + + + -
168C CYS* 2.9 29.9 + - - -
203C GLN* 5.9 3.4 - - - -
206C ALA* 3.7 28.5 - - + -
210C SER* 3.1 25.0 + - - -
215C MET* 4.1 18.2 - - + +
219C LEU* 4.0 18.2 - - + -
406C CL 4.4 10.5 - - + -
180D VAL* 4.3 0.2 - - - -
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Residues in contact with ALA 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C PHE* 3.9 19.7 - - + -
111C LEU* 4.0 15.7 - - + +
163C GLY 3.4 4.4 + - - -
164C TRP* 1.3 76.1 - - - +
166C LEU* 1.3 58.7 + - - +
168C CYS* 4.0 0.9 - - - +
169C ALA* 2.9 32.7 + - - +
177D LEU* 3.6 18.5 - - + +
180D VAL* 3.8 26.8 - - + +
184D GLU* 4.9 2.7 - - - +
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Residues in contact with LEU 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C LEU 5.0 3.1 - - - +
102C GLY* 5.1 7.0 - - - -
103C ASP 5.3 4.7 - - - +
111C LEU* 4.1 26.2 - - + +
116C GLN* 5.0 7.2 - - + +
117C VAL* 4.1 15.7 - - + -
120C TYR* 3.3 48.6 - - + -
121C TRP* 3.7 24.3 - - + -
164C TRP 3.4 0.4 - - - -
165C ALA* 1.3 77.8 - - - +
167C TYR* 1.3 58.6 + - - +
169C ALA* 3.9 1.0 - - - +
170C GLY 2.9 24.8 + - - -
129D LEU* 3.6 31.0 - - + -
177D LEU* 4.8 0.2 - - + -
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Residues in contact with TYR 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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100C SER 3.5 22.9 - - - -
101C LEU* 3.7 32.0 + - + +
120C TYR* 3.3 8.8 + - - -
124C ASN* 5.9 0.2 - - - -
154C SER* 3.9 3.5 - - - -
156C CYS* 3.7 31.6 - - + -
164C TRP* 3.4 16.1 + + + +
165C ALA 3.3 0.2 - - - -
166C LEU* 1.3 80.3 - - - +
168C CYS* 1.3 56.9 + - - +
170C GLY* 3.2 2.1 + - - -
171C LYS* 2.9 49.5 + - + +
202C MET* 4.1 12.4 - - - -
406C CL 3.3 31.2 - - + +
803C NAP 2.7 41.5 + - - -
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Residues in contact with CYS 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C CYS* 3.5 31.2 - - - +
159C GLN 3.7 21.5 - - - -
161C PHE* 3.8 17.7 - - - -
164C TRP* 2.9 30.2 + - - +
167C TYR* 1.3 75.3 - - - +
169C ALA* 1.3 57.7 + - - +
171C LYS 3.3 1.0 + - - -
172C ALA* 2.9 25.8 + - - +
176D MET* 3.5 24.4 - - + +
180D VAL* 3.9 11.2 - - + -
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Residues in contact with ALA 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C TRP* 3.9 11.4 - - + -
165C ALA 2.9 19.3 + - - +
166C LEU 3.9 2.9 - - - +
168C CYS* 1.3 75.3 - - - +
170C GLY* 1.3 58.5 - - - +
172C ALA* 3.4 1.7 + - - +
173C ALA* 3.0 28.6 + - - +
173D ALA* 3.6 17.1 - - + +
176D MET* 3.6 12.2 - - - +
177D LEU* 3.6 29.8 - - + +
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Residues in contact with GLY 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C TYR* 4.8 6.1 - - - -
121C TRP* 4.0 10.4 - - - -
124C ASN* 5.4 2.9 - - - -
125C LEU* 3.5 16.4 - - - +
166C LEU 2.9 18.3 + - - -
167C TYR 3.7 0.9 - - - -
169C ALA* 1.3 76.4 - - - +
171C LYS* 1.3 56.5 + - - +
173C ALA* 3.3 1.1 + - - -
174C ARG* 2.9 39.0 + - - +
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Residues in contact with LYS 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C GLY* 5.4 2.8 - - - -
124C ASN* 5.6 2.5 + - - -
151C ASN* 5.9 0.2 - - - +
152C ILE 2.9 27.2 + - - +
153C SER* 4.2 13.5 - - - +
154C SER* 4.0 12.3 - - - -
156C CYS* 4.2 0.7 - - + -
157C ALA* 3.6 27.1 - - + +
167C TYR* 2.9 39.8 + - + +
168C CYS 3.8 1.3 - - - +
170C GLY* 1.3 77.1 - - - +
172C ALA* 1.3 61.4 + - - +
174C ARG* 3.3 26.8 + - + +
175C ASP* 3.0 27.2 + - - +
803C NAP 3.0 39.3 + - - -
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Residues in contact with ALA 172 (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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157C ALA* 3.6 23.7 - - - +
168C CYS 2.9 18.4 + - - +
169C ALA 3.7 4.3 - - - +
171C LYS* 1.3 76.4 - - - +
173C ALA* 1.3 60.7 + - - +
175C ASP* 3.5 4.3 + - - +
176C MET* 3.1 23.6 + - - +
172D ALA* 4.0 17.4 - - + +
176D MET* 3.9 20.9 - - + -
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Residues in contact with ALA 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C LEU* 3.5 27.8 - - + -
169C ALA 3.0 17.8 + - - +
172C ALA* 1.3 73.7 - - - +
174C ARG* 1.3 59.6 + - - +
176C MET* 3.1 3.0 + - - +
177C LEU* 2.9 34.8 + - - +
121D TRP* 5.4 0.2 - - + -
169D ALA* 3.7 32.0 - - + +
173D ALA* 4.0 7.5 - - + +
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Residues in contact with ARG 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C ASN* 3.3 24.5 + - - +
98C ALA 3.8 21.1 + - - -
123C LEU 5.1 0.8 + - - -
124C ASN* 2.8 41.2 + - - +
125C LEU* 3.9 5.8 - - + -
128C MET* 3.6 32.8 - - + +
151C ASN* 2.9 39.8 + - - +
152C ILE 3.5 8.5 + - - -
170C GLY 2.9 23.3 + - - +
171C LYS* 3.7 30.6 - - - +
173C ALA* 1.3 75.1 - - - +
175C ASP* 1.3 63.9 + - - +
177C LEU* 3.4 9.6 + - - +
178C PHE* 3.1 25.8 + - - +
803C NAP 4.5 1.6 + - - -
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Residues in contact with ASP 175 (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 ASN* 3.0 15.2 + - - -
153C SER* 2.6 22.9 + - - -
157C ALA* 3.6 14.5 - - + +
158C LEU* 4.6 5.1 - - + +
171C LYS 3.0 12.4 + - - +
172C ALA* 3.7 5.6 - - - +
174C ARG* 1.3 77.4 - - - +
176C MET* 1.3 57.1 + - - +
178C PHE 3.3 0.3 + - - -
179C GLN* 2.9 40.9 + - - +
192C ASN* 3.4 20.6 + - - +
252C HIS* 2.7 31.8 + - - +
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Residues in contact with MET 176 (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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172C ALA 3.1 17.9 + - - +
173C ALA 3.1 4.2 + - - +
175C ASP* 1.3 74.8 - - - +
177C LEU* 1.3 64.9 + - - +
179C GLN* 3.2 17.9 + - - +
180C VAL* 3.0 22.9 + - - +
156D CYS 3.8 7.0 - - - +
157D ALA 3.6 23.6 - - - +
158D LEU 3.7 24.0 - - - +
159D GLN 3.9 2.0 - - - +
160D PRO* 4.0 21.8 - - + -
168D CYS* 3.5 41.1 - - + +
169D ALA* 3.7 2.5 - - - +
172D ALA* 3.9 9.9 - - + -
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Residues in contact with LEU 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C LEU* 4.7 9.9 - - + +
128C MET* 4.1 22.2 - - - -
129C LEU* 4.1 36.1 - - + -
173C ALA 2.9 22.0 + - - +
174C ARG* 3.6 9.6 - - - +
176C MET* 1.3 71.2 - - - +
178C PHE* 1.3 64.3 + - + +
180C VAL* 3.1 10.5 + - - +
181C LEU 3.0 22.7 + - - -
108D PHE* 3.6 14.5 - - + -
121D TRP* 4.7 10.5 - - + -
165D ALA* 3.7 34.8 - - + +
166D LEU 4.6 0.7 - - - +
169D ALA* 3.7 11.6 - - + +
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Residues in contact with PHE 178 (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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96C ASN* 3.4 24.2 - - - -
128C MET* 3.7 19.3 - - + -
132C THR* 3.5 31.0 - - + -
149C VAL* 3.6 17.5 - - + -
150C VAL 3.7 4.0 - - - -
151C ASN* 3.6 33.0 - - + -
174C ARG 3.1 10.9 + - - +
177C LEU* 1.3 82.1 - - + +
179C GLN* 1.3 60.3 + - - +
181C LEU* 3.4 7.7 + - + +
182C ALA* 2.9 25.1 + - - +
190C VAL* 3.4 32.2 - - + +
191C LEU 4.1 2.2 - - - -
192C ASN* 3.4 22.2 - - - +
250C GLY* 5.1 0.2 - - - -
108D PHE* 4.7 5.6 - + - -
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Residues in contact with GLN 179 (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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175C ASP* 2.9 32.0 + - - +
176C MET* 3.2 25.2 + - - +
178C PHE* 1.3 76.5 - - - +
180C VAL* 1.3 60.4 + - - +
182C ALA* 3.5 8.5 + - - +
183C LEU* 3.4 23.9 + - - +
192C ASN* 4.4 2.2 - - - +
250C GLY* 3.7 22.2 - - - +
158D LEU 5.0 2.6 + - - +
160D PRO* 4.0 28.7 - - + +
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Residues in contact with VAL 180 (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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176C MET* 3.0 19.8 + - - +
177C LEU 3.1 7.8 + - - +
179C GLN* 1.3 75.0 - - - +
181C LEU* 1.3 65.2 + - - +
183C LEU* 3.1 7.9 + - - +
184C GLU* 3.0 41.6 + - - +
108D PHE* 4.9 0.7 - - + -
160D PRO* 3.8 22.0 - - + -
161D PHE 3.6 20.2 - - - +
165D ALA* 3.8 26.0 - - + +
168D CYS* 4.1 22.7 - - + -
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Residues in contact with LEU 181 (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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132C THR* 3.9 20.2 - - + -
136C LEU* 3.9 13.2 - - + -
149C VAL* 3.7 30.3 - - + -
177C LEU 3.0 12.7 + - - +
178C PHE* 3.7 13.0 - - + +
180C VAL* 1.3 77.4 - - - +
182C ALA* 1.3 56.3 + - - +
184C GLU* 4.4 3.4 - - + -
185C GLU* 2.8 57.0 + - + +
188C VAL* 4.9 0.7 - - + -
190C VAL* 4.0 8.3 - - + -
108D PHE* 3.6 37.7 - - + -
109D VAL* 5.4 0.4 - - + -
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Residues in contact with ALA 182 (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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178C PHE 2.9 18.4 + - - +
179C GLN 3.7 5.8 - - - +
180C VAL 3.3 0.2 - - - -
181C LEU* 1.3 76.0 - - - +
183C LEU* 1.3 63.2 + - - +
185C GLU 3.8 14.3 - - - +
186C PRO* 4.0 7.1 - - - +
190C VAL* 3.8 11.6 - - + +
249C SER* 3.7 23.3 + - - +
250C GLY* 3.6 25.8 - - - +
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Residues in contact with LEU 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C GLN 3.4 8.2 + - - +
180C VAL 3.1 9.2 + - - +
182C ALA* 1.3 80.1 - - + +
184C GLU* 1.3 64.0 + - - +
186C PRO* 4.2 10.4 - - - +
160D PRO* 3.6 41.5 - - + +
161D PHE* 4.4 7.4 - - - +
162D LYS* 3.8 32.6 - - + +
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Residues in contact with GLU 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C VAL* 3.0 29.6 + - - +
181C LEU* 3.8 5.6 - - - +
183C LEU* 1.3 78.5 - - - +
185C GLU* 1.3 75.8 + - + +
186C PRO* 3.2 9.2 - - - +
107D GLY* 3.6 8.0 - - - -
108D PHE* 2.9 38.3 + - + +
162D LYS* 4.0 16.1 - - + +
163D GLY* 3.0 37.6 + - - +
165D ALA* 4.8 1.0 - - - +
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Residues in contact with GLU 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C LEU* 5.2 1.1 - - + -
147C ARG* 3.8 18.5 + - - -
181C LEU* 2.8 33.0 + - + +
182C ALA* 3.8 7.3 - - - +
184C GLU* 1.3 90.6 - - + +
186C PRO* 1.3 61.3 - - - +
187C ASN* 3.1 5.7 + - - +
188C VAL* 2.9 41.9 + - + +
108D PHE* 5.8 0.9 - - + -
109D VAL* 3.9 25.2 - - + +
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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