Contacts of the helix formed by residues 158 - 179 (chain A) in PDB entry 2Z4U
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 THR 158 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A PHE* 1.3 82.1 - - - +
159A ASP* 1.3 65.5 + - - +
160A LYS* 3.5 8.8 + - - +
161A THR* 3.1 28.9 + - - +
162A GLU* 3.0 21.7 + - - +
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Residues in contact with ASP 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A LYS* 5.2 6.6 + - - -
118A TYR* 3.9 26.5 + - + -
128A LYS* 4.2 21.7 + - + +
157A PHE 5.1 1.7 - - - +
158A THR* 1.3 74.8 - - - +
160A LYS* 1.3 57.0 + - - +
162A GLU* 3.3 10.8 + - - +
163A ALA* 2.8 32.4 + - - +
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Residues in contact with LYS 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128A LYS 3.3 17.6 + - - +
129A ALA 3.5 23.8 - - - +
130A GLY* 5.2 3.4 - - - -
158A THR* 3.2 9.2 + - - +
159A ASP* 1.3 78.3 - - - +
161A THR* 1.3 63.1 + - - +
163A ALA* 3.8 0.5 - - - +
164A GLU* 2.7 62.2 + - - +
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Residues in contact with THR 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A ASP* 5.6 1.8 - - - +
150A LYS* 3.7 39.5 - - + +
151A ILE* 4.1 13.5 - - + -
157A PHE* 4.2 10.3 - - + +
158A THR* 3.1 27.8 + - - +
160A LYS* 1.3 76.1 - - - +
162A GLU* 1.3 63.5 + - - +
164A GLU* 3.5 13.3 + - - +
165A PHE* 3.1 22.0 + - - +
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Residues in contact with GLU 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76A TYR* 2.7 36.1 + - + +
87A HIS* 4.1 4.0 - - - -
114A LYS* 4.4 6.2 + - - -
115A ALA 4.8 0.5 - - - +
116A ILE* 3.8 23.0 - - - +
118A TYR* 2.7 33.6 + - - +
151A ILE* 4.1 9.9 - - + -
157A PHE* 3.7 17.6 - - + -
158A THR 3.0 13.7 + - - +
159A ASP* 3.7 10.4 - - - +
161A THR* 1.3 78.0 - - - +
163A ALA* 1.3 57.3 + - - +
165A PHE* 3.2 4.3 + - - +
166A LEU* 2.9 38.9 + - + +
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Residues in contact with ALA 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118A TYR* 3.6 9.6 + - + +
125A LEU* 3.6 19.6 - - + +
128A LYS* 3.6 25.6 - - + -
129A ALA* 3.8 7.2 - - - +
159A ASP 2.8 20.9 + - - +
160A LYS 4.0 0.4 - - - +
162A GLU* 1.3 70.8 - - - +
164A GLU* 1.3 61.2 + - - +
166A LEU* 3.7 6.9 - - - +
167A LEU* 2.9 34.9 + - - +
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Residues in contact with GLU 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129A ALA* 4.1 18.6 - - + +
137A VAL* 4.9 15.0 - - + +
147A ASP* 4.0 11.3 - - - +
150A LYS* 4.7 12.0 + - - -
160A LYS* 2.7 57.4 + - - +
161A THR* 3.8 13.3 + - - +
163A ALA* 1.3 73.1 - - - +
165A PHE* 1.3 67.8 + - - +
167A LEU* 3.3 6.2 + - - +
168A VAL* 3.0 28.3 + - + +
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Residues in contact with PHE 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54A LEU* 4.5 4.7 - - + -
62A ILE* 3.8 35.7 - - + -
64A LEU* 4.1 15.0 - - + -
76A TYR* 4.6 9.2 - + - -
144A LEU* 4.0 9.4 - - + -
147A ASP* 3.8 35.7 + - + -
148A ILE* 3.9 21.5 - - + -
151A ILE* 3.5 31.9 - - + -
161A THR 3.1 9.2 + - - +
162A GLU 3.5 4.3 - - - +
164A GLU* 1.3 75.5 - - - +
166A LEU* 1.3 75.6 + - + +
168A VAL* 3.2 1.7 + - - +
169A ALA* 2.8 49.0 + - + +
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Residues in contact with LEU 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A LEU* 5.3 3.6 - - + -
73A VAL* 5.0 7.2 - - + -
76A TYR* 4.1 24.0 - - + -
89A PHE* 3.8 36.1 - - + -
116A ILE* 4.4 5.6 - - + -
118A TYR* 3.8 19.7 - - + +
125A LEU* 4.2 10.8 - - + -
162A GLU* 2.9 29.7 + - + +
163A ALA* 3.8 4.3 - - - +
164A GLU 3.2 0.2 - - - -
165A PHE* 1.3 86.0 - - + +
167A LEU* 1.3 58.4 + - - +
169A ALA* 4.7 2.0 - - + -
170A ILE* 2.8 51.2 + - + +
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Residues in contact with LEU 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A TYR* 3.7 32.3 - - + -
125A LEU* 3.8 28.5 - - + +
126A GLN* 4.4 8.5 - - + +
129A ALA* 3.9 24.0 - - + -
134A ARG* 4.1 17.9 - - + -
137A VAL* 4.0 26.0 - - + -
163A ALA 2.9 21.1 + - - +
164A GLU* 3.7 4.0 - - - +
166A LEU* 1.3 75.8 - - - +
168A VAL* 1.3 63.6 + - - +
170A ILE* 4.3 1.7 - - - -
171A GLN* 3.0 38.1 + - - +
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Residues in contact with VAL 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A VAL* 4.1 11.4 - - + -
138A GLN 3.6 21.8 - - - +
139A LEU* 3.7 11.9 - - + -
140A GLY 4.4 0.9 - - - +
143A ILE* 3.9 13.9 - - + -
144A LEU* 4.1 20.0 - - + -
147A ASP* 3.8 14.6 - - - +
164A GLU* 3.0 21.5 + - + +
165A PHE 3.8 2.9 - - - +
167A LEU* 1.3 78.3 - - - +
169A ALA* 1.3 58.1 + - - +
171A GLN* 3.9 0.5 - - - +
172A MET* 2.9 58.7 + - - +
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Residues in contact with ALA 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54A LEU* 4.4 3.8 - - + -
64A LEU* 4.2 19.7 - - + -
144A LEU* 4.2 11.9 - - + -
165A PHE* 2.8 47.0 + - + +
166A LEU* 4.2 2.5 - - + +
168A VAL* 1.3 71.5 - - - +
170A ILE* 1.3 66.4 + - + +
172A MET* 4.8 0.9 - - - -
173A VAL* 2.9 32.5 + - - +
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Residues in contact with ILE 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A LEU* 6.1 0.7 - - + -
73A VAL* 3.8 35.9 - - + +
89A PHE* 4.6 9.0 - - + -
122A TYR* 3.7 20.2 - - + +
125A LEU* 3.8 19.5 - - + -
166A LEU* 2.8 35.5 + - + +
167A LEU* 4.3 2.5 - - - +
169A ALA* 1.3 73.0 - - + +
171A GLN* 1.3 58.3 + - - +
174A SER* 2.9 32.8 + - - +
175A GLU* 3.0 11.5 + - + +
178A ARG* 5.2 2.0 - - - +
501A EDO 3.5 29.4 - - - +
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Residues in contact with GLN 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A TYR* 3.4 16.2 - - + +
134A ARG* 3.8 30.8 + - - +
137A VAL* 5.4 1.4 + - - +
139A LEU* 3.8 30.0 - - + +
167A LEU* 3.0 30.5 + - - +
168A VAL 4.0 1.8 - - - +
169A ALA 3.2 0.6 - - - -
170A ILE* 1.3 78.4 - - - +
172A MET* 1.3 57.4 + - - +
175A GLU* 3.5 8.1 - - - +
176A ALA* 3.0 27.9 + - - +
182A ILE* 3.9 7.8 - - + +
196A PRO* 4.2 15.0 - - - +
204A GLU* 2.6 35.6 - - - +
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Residues in contact with MET 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6A PHE* 6.1 0.2 - - + -
16A TYR* 2.7 37.8 + - + +
19A PHE* 4.6 0.3 - - - -
20A MET* 3.7 1.7 - - - +
139A LEU* 4.4 12.6 - - + -
140A GLY* 3.4 48.2 - - - +
141A ILE* 3.9 22.7 - - + +
144A LEU* 4.2 19.7 - - + -
168A VAL* 2.9 33.1 + - + +
169A ALA 4.4 1.1 - - - +
171A GLN* 1.3 76.2 - - - +
173A VAL* 1.3 60.5 + - + +
176A ALA* 3.5 4.2 - - - +
186A VAL* 3.9 30.1 - - + -
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Residues in contact with VAL 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A PHE* 4.1 17.0 - - + -
20A MET* 3.6 8.4 - - - +
23A LEU* 3.8 21.3 - - + -
52A VAL* 4.1 20.6 - - + -
54A LEU* 4.3 17.0 - - + -
64A LEU* 4.1 20.2 - - + -
66A LEU* 4.3 8.7 - - + -
144A LEU* 5.5 2.5 - - + -
169A ALA* 2.9 21.4 + - - +
172A MET* 1.3 83.9 - - + +
174A SER* 1.3 62.0 + - - +
175A GLU 3.6 0.2 - - - -
177A ALA* 3.0 30.0 + - - +
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Residues in contact with SER 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A LEU* 3.5 17.3 - - - +
71A LEU* 2.8 37.3 + - - +
73A VAL* 3.9 9.8 - - - +
170A ILE* 2.9 19.6 + - - -
173A VAL* 1.3 72.6 - - - +
175A GLU* 1.3 66.9 + - - +
177A ALA* 3.2 3.3 + - - +
178A ARG* 3.0 41.2 + - - +
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Residues in contact with GLU 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A TYR* 2.6 41.3 + - - +
170A ILE* 3.0 10.6 + - + +
171A GLN* 3.5 18.2 - - + +
174A SER* 1.3 76.4 - - - +
176A ALA* 1.3 57.4 + - - +
178A ARG* 3.0 39.3 + - - +
179A PHE* 2.9 36.0 + - - +
182A ILE* 3.9 17.3 - - + -
204A GLU* 3.5 35.2 - - - +
501A EDO 5.0 3.3 + - - -
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Residues in contact with ALA 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16A TYR* 3.1 27.6 - - - +
20A MET* 3.5 9.1 - - - +
24A ARG* 2.9 20.6 + - - -
171A GLN 3.0 12.2 + - - +
172A MET 3.5 13.5 - - - +
173A VAL 3.7 0.2 + - - -
174A SER 3.3 0.4 - - - -
175A GLU* 1.3 72.9 - - - +
177A ALA* 1.3 62.7 + - - +
179A PHE 3.0 16.5 - - - +
182A ILE* 3.9 7.6 - - + +
183A GLU* 3.9 12.4 - - - +
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Residues in contact with ALA 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20A MET* 3.4 10.0 - - - -
23A LEU* 3.8 20.2 - - + -
24A ARG* 2.9 29.3 + - + +
71A LEU* 3.7 18.6 - - + -
173A VAL 3.0 19.7 + - - +
174A SER 3.2 4.9 + - - +
176A ALA* 1.3 76.9 - - - +
178A ARG* 1.3 62.3 + - - +
249A GLY* 3.5 7.3 - - - -
250A LEU* 3.7 8.8 - - + +
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Residues in contact with ARG 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A ASN 2.8 23.2 + - - -
71A LEU* 3.4 32.1 + - + +
72A TYR* 3.4 17.5 - - - +
170A ILE* 5.2 3.2 - - - +
174A SER* 3.0 30.4 + - - +
175A GLU* 3.0 42.9 + - - +
177A ALA* 1.3 77.0 - - - +
179A PHE* 1.3 66.2 + - + +
207A TRP* 3.4 54.2 - - + +
248A MET* 3.8 2.1 - - - +
249A GLY 2.8 22.7 + - - -
250A LEU* 3.1 19.7 + - + +
501A EDO 6.0 3.8 - - - -
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Residues in contact with PHE 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175A GLU* 2.9 21.9 + - - +
176A ALA 3.0 15.2 - - - +
177A ALA 3.3 0.2 - - - -
178A ARG* 1.3 84.2 - - + +
180A LYS* 1.3 65.7 + - - +
181A TYR 4.1 0.2 - - - +
182A ILE* 2.9 36.4 + - + +
183A GLU 3.1 4.2 + - - -
203A LEU* 3.1 58.1 - - + -
204A GLU* 4.0 5.6 - - - -
207A TRP* 3.4 34.1 - + + -
210A ILE* 4.2 3.8 - - + -
247A ASP 3.2 16.6 - - - +
248A MET* 3.5 29.6 - - + -
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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
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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