Contacts of the helix formed by residues 163 - 186 (chain A) in PDB entry 6TXC
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 ASN 163 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A LEU 3.5 11.7 - - - +
145A ARG 3.1 17.1 + - - +
146A TYR* 4.6 0.9 - - - -
147A ILE 3.3 14.7 + - - +
148A LYS* 3.4 25.3 - - - +
149A GLN* 3.9 6.3 - - - +
161A SER 3.5 9.0 + - - +
162A HIS* 1.3 77.7 - - - +
164A ARG* 1.3 65.7 + - - +
165A PHE 3.3 1.1 + - - -
166A GLU* 3.4 28.1 + - - +
167A HIS* 3.7 6.6 + - - +
148B LYS* 6.2 0.6 - - - +
154B TYR* 3.0 26.0 + - - +
161B SER* 3.8 9.3 + - - +
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Residues in contact with ARG 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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144A LEU* 3.8 26.7 - - + +
147A ILE* 3.0 25.9 + - + +
149A GLN* 2.8 54.2 + - - +
163A ASN* 1.3 70.8 - - - +
165A PHE* 1.3 54.5 + - - +
167A HIS* 3.3 13.0 + - - +
168A SER* 2.8 37.4 + - - -
207A ASP* 2.8 39.5 + - - -
210A HIS* 3.3 33.8 + - + -
214A SER* 3.0 22.7 + - - +
215A HIS* 3.9 14.1 + - - -
315A TYR* 6.3 0.4 - - - -
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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
----------------------------------------------------------
118A ILE* 5.5 3.4 - - + -
136A ILE* 4.3 7.9 - - + -
141A PHE* 3.5 38.5 - + - -
142A GLN* 3.6 22.4 - - - -
144A LEU* 3.1 14.6 + - - +
145A ARG* 3.3 68.4 - - + +
163A ASN 3.3 0.2 - - - -
164A ARG* 1.3 77.3 - - - +
166A GLU* 1.3 73.8 + - - +
168A SER* 3.1 5.6 + - - -
169A LEU* 3.0 49.6 + - + +
154B TYR* 4.2 0.4 - - - -
158B PRO* 3.9 12.3 - - + -
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Residues in contact with GLU 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A ASP* 4.2 4.9 - - - +
162A HIS* 3.6 6.6 - - + +
163A ASN* 3.4 33.9 + - - +
165A PHE* 1.3 81.3 - - - +
167A HIS* 1.3 63.6 + - - +
169A LEU* 3.5 9.1 + - - +
170A GLY 3.2 15.8 + - - -
318A ARG* 3.4 33.6 + - - +
322A HIS* 5.2 1.4 + - + -
154B TYR* 2.6 26.9 + - - -
158B PRO* 3.4 35.5 - - + +
159B GLY* 4.3 2.8 - - - +
161B SER* 3.6 20.6 + - - -
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Residues in contact with HIS 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A GLN* 3.3 36.9 + - - +
163A ASN 3.7 2.2 + - - +
164A ARG* 3.3 16.7 + - - +
166A GLU* 1.3 78.1 - - - +
168A SER* 1.3 67.8 + - - +
170A GLY 3.0 2.1 + - - -
171A VAL* 2.9 35.5 + - + +
206A HIS* 3.3 7.1 + + - -
207A ASP* 3.0 25.2 + - + -
311A ASP* 2.8 38.3 + - - -
314A ASP* 2.7 28.7 + - - +
315A TYR* 3.9 11.1 - + + +
318A ARG* 3.6 9.5 - - - +
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Residues in contact with SER 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A PHE* 3.9 6.1 - - - -
144A LEU* 3.4 23.6 - - - +
164A ARG 2.8 20.0 + - - -
165A PHE 3.4 5.2 - - - -
167A HIS* 1.3 75.5 - - - +
169A LEU* 1.3 63.1 + - - +
171A VAL* 3.3 1.7 + - - +
172A GLY 3.1 16.8 + - - -
204A LEU* 3.3 33.4 + - - -
206A HIS* 4.3 6.0 + - - -
207A ASP* 3.8 21.1 + - - +
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Residues in contact with LEU 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ILE* 3.9 27.6 - - + -
120A ASP* 5.6 4.9 - - + +
126A ILE* 4.5 11.7 - - + +
128A LEU* 4.7 10.4 - - + +
136A ILE* 3.5 34.8 - - + -
141A PHE* 4.3 7.2 - - + -
165A PHE* 3.0 42.1 + - + +
166A GLU* 3.7 7.9 - - - +
167A HIS 3.3 0.4 - - - -
168A SER* 1.3 74.7 - - - +
170A GLY* 1.3 58.3 + - - +
172A GLY* 3.2 3.1 + - - -
173A TYR* 2.9 27.7 + - - +
204A LEU* 3.7 13.7 - - + +
158B PRO* 4.3 11.7 - - + -
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Residues in contact with GLY 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A ASP* 5.6 0.9 - - - -
123A HIS* 3.8 15.2 + - - -
126A ILE* 5.2 2.0 - - - -
166A GLU 3.2 7.2 + - - -
167A HIS 3.0 7.7 + - - -
169A LEU* 1.3 79.6 - - - +
171A VAL* 1.3 56.7 + - - +
173A TYR* 3.3 4.6 + - - +
174A LEU* 3.0 34.3 + - - +
314A ASP* 3.6 19.7 - - - -
318A ARG* 4.1 1.1 - - - -
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Residues in contact with VAL 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A HIS* 2.9 46.5 + - + +
168A SER 3.8 0.7 - - - +
170A GLY* 1.3 72.2 - - - +
172A GLY* 1.3 60.6 + - - +
174A LEU* 4.7 1.1 - - - -
175A ALA* 2.8 29.6 + - - +
203A GLY* 3.4 29.6 - - - +
206A HIS* 3.5 17.7 - - + +
301A VAL* 4.5 4.5 - - + -
310A VAL* 3.7 19.6 - - + +
311A ASP* 3.7 17.3 - - - +
314A ASP* 3.9 8.3 - - + -
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Residues in contact with GLY 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A LEU* 6.3 1.3 - - - -
168A SER 3.1 11.3 + - - -
169A LEU 3.5 4.0 - - - -
171A VAL* 1.3 78.2 - - - +
173A TYR* 1.3 60.3 + - - +
175A ALA* 3.5 3.2 + - - +
176A GLY 3.2 16.8 + - - -
200A GLN* 3.7 22.6 - - - +
203A GLY* 3.7 2.8 - - - -
204A LEU* 3.6 25.4 - - - -
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Residues in contact with TYR 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A HIS* 3.8 35.0 + + + -
125A HIS 5.4 1.9 + - - -
126A ILE* 3.5 43.5 - - + -
127A GLU 5.1 6.7 - - - -
128A LEU* 6.2 2.2 - - + +
169A LEU 2.9 13.0 + - - +
170A GLY 3.6 6.3 - - - +
171A VAL 3.2 0.2 - - - -
172A GLY* 1.3 77.0 - - - +
174A LEU* 1.3 75.2 + - + +
176A GLY* 3.1 5.2 + - - -
177A CYS* 3.0 51.5 + - - -
200A GLN* 5.2 6.8 + - - +
331A TYR* 4.4 5.6 + - - -
336C LYS* 6.3 0.9 - - - -
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Residues in contact with LEU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A HIS* 3.6 22.0 - - + -
170A GLY 3.0 17.0 + - - +
171A VAL 4.0 1.1 - - - +
173A TYR* 1.3 85.9 - - + +
175A ALA* 1.3 66.2 + - - +
177A CYS* 3.1 7.3 + - + +
178A LEU* 3.1 24.9 + - - +
310A VAL* 3.8 23.6 - - + +
313A TRP* 3.9 15.7 - - + -
314A ASP* 3.7 31.4 - - + +
331A TYR* 3.4 41.7 - - + +
335A ILE* 5.1 1.7 - - + +
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Residues in contact with ALA 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A VAL 2.8 20.0 + - - +
172A GLY* 3.5 7.4 - - - +
174A LEU* 1.3 77.3 - - - +
176A GLY* 1.3 61.2 + - - +
179A VAL* 3.2 25.8 + - - +
199A VAL* 3.7 35.5 - - + +
200A GLN* 4.4 0.2 - - - -
203A GLY* 4.5 0.2 - - - -
300A ILE* 3.8 18.8 - - + +
301A VAL* 4.0 9.6 - - + -
310A VAL* 3.7 4.4 - - + +
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Residues in contact with GLY 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A GLY 3.2 4.4 + - - -
173A TYR 3.1 9.1 + - - -
175A ALA* 1.3 80.7 - - - +
177A CYS* 1.3 60.6 + - - +
179A VAL* 3.5 6.9 - - - +
180A HIS* 2.9 29.6 + - - +
196A VAL* 4.8 3.0 - - - +
200A GLN* 3.7 27.2 - - - +
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Residues in contact with CYS 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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173A TYR* 3.0 59.6 + - - -
174A LEU* 3.1 12.9 + - + +
176A GLY* 1.3 75.5 - - - +
178A LEU* 1.3 59.1 + - - +
180A HIS* 3.9 3.7 - - - +
181A ALA* 3.0 31.2 + - - +
331A TYR* 5.6 2.5 - - + -
335A ILE* 4.3 15.4 - - + +
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Residues in contact with LEU 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A LEU 3.1 15.0 + - - +
175A ALA 4.0 2.7 - - - +
177A CYS* 1.3 73.8 - - - +
179A VAL* 1.3 66.3 + - - +
181A ALA* 3.3 3.0 + - + +
182A LEU* 3.0 49.5 + - + +
299A GLU 5.2 1.3 - - - +
300A ILE* 4.0 24.0 - - + -
309A ASP* 6.4 0.9 - - - -
310A VAL* 4.0 13.2 - - + -
313A TRP* 4.0 22.0 - - + -
334A PHE* 5.3 2.9 - - + -
335A ILE* 4.1 29.4 - - + +
338A ALA* 4.5 16.4 - - + -
349A ILE* 4.4 11.4 - - + -
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Residues in contact with VAL 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ALA 3.2 14.8 + - - +
176A GLY* 3.5 11.9 - - - +
178A LEU* 1.3 80.3 - - - +
180A HIS* 1.3 65.8 + - - +
182A LEU* 3.4 6.6 + - - +
183A GLY* 3.2 17.0 + - - -
191A ILE* 3.8 25.3 - - + +
195A ASP 5.1 0.2 - - - +
196A VAL* 4.0 23.3 - - + +
199A VAL* 4.1 14.4 - - + -
296A PHE* 5.3 0.7 - - + -
297A LEU* 3.5 31.0 - - + -
300A ILE* 3.7 17.9 - - + +
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Residues in contact with HIS 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A GLY 2.9 21.5 + - - +
177A CYS* 4.0 3.8 - - - +
179A VAL* 1.3 79.2 - - + +
181A ALA* 1.3 63.1 + - - +
183A GLY* 3.3 3.2 + - - -
184A GLU* 3.1 51.4 + - + +
191A ILE* 5.9 0.4 - - - -
196A VAL* 4.9 18.3 - - + +
184C GLU* 5.8 4.0 + - - -
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Residues in contact with ALA 181 (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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177A CYS 3.0 19.1 + - - +
178A LEU* 3.6 3.8 - - + +
180A HIS* 1.3 75.9 - - - +
182A LEU* 1.3 66.8 + - + +
183A GLY 3.2 0.2 + - - -
184A GLU* 3.3 7.7 + - - +
185A LYS* 3.1 24.5 + - - +
335A ILE* 3.8 26.5 - - + +
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Residues in contact with LEU 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A LEU* 3.0 32.4 + - + +
179A VAL* 3.8 9.2 - - - +
180A HIS 3.4 0.2 - - - -
181A ALA* 1.3 76.3 - - + +
183A GLY* 1.3 57.6 + - - +
185A LYS* 3.6 4.9 + - + +
186A GLN* 3.0 34.8 + - - +
189A LEU* 4.2 5.4 - - + +
191A ILE* 4.2 10.1 - - + -
296A PHE* 4.3 11.4 - - + -
300A ILE* 4.7 2.7 - - + -
335A ILE 5.9 0.2 - - - +
338A ALA* 4.2 15.5 - - + +
339A ARG* 4.0 27.4 - - - +
340A VAL* 4.0 19.3 - - + +
349A ILE* 4.0 30.1 - - + -
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Residues in contact with GLY 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A VAL 3.2 9.9 + - - -
180A HIS* 3.6 4.3 - - - -
181A ALA 3.1 0.8 - - - -
182A LEU* 1.3 76.9 - - - +
184A GLU* 1.3 66.0 + - - +
186A GLN 3.5 17.7 - - - +
187A PRO* 3.5 8.3 - - - +
191A ILE* 3.7 23.5 - - - +
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Residues in contact with GLU 184 (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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180A HIS* 3.1 49.0 + - + +
181A ALA* 3.3 7.8 + - - +
183A GLY* 1.3 77.3 - - - +
185A LYS* 1.3 62.9 + - - +
186A GLN 3.4 0.3 + - - -
187A PRO* 3.7 11.3 - - - +
180C HIS* 5.8 4.7 + - - -
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Residues in contact with LYS 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A ALA 3.1 13.1 + - - +
182A LEU* 4.1 4.7 - - + +
184A GLU* 1.3 79.0 - - - +
186A GLN* 1.3 67.9 + - + +
187A PRO* 3.8 4.8 - - - +
188A GLU* 4.9 0.2 - - - +
338A ALA 5.5 6.5 - - - +
339A ARG* 4.6 11.7 + - + +
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Residues in contact with GLN 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 3.0 17.1 + - - +
183A GLY* 3.5 8.9 - - - +
185A LYS* 1.3 86.0 - - + +
187A PRO* 1.3 68.2 - - - +
188A GLU* 3.1 33.7 + - - +
189A LEU* 3.3 29.1 + - + +
190A GLN 4.6 0.3 + - - -
339A ARG* 3.5 36.4 - - - +
340A VAL* 2.7 52.1 + - - +
527A ASN* 4.3 2.2 + - - -
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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) + - + + + + + -
------------------------------------------------------------
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