Contacts of the helix formed by residues 160 - 188 (chain A) in PDB entry 4XK8
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 SER 160 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A TYR* 4.8 1.7 - - - -
107A GLU* 3.7 9.0 - - - -
158A ILE* 3.6 17.3 - - - +
159A THR* 1.3 85.9 + - - +
161A GLU* 1.3 63.0 + - - +
162A LEU* 3.5 11.7 + - - +
163A GLN* 3.3 31.9 + - - +
164A LEU* 3.7 7.4 + - - +
240A LYS* 5.7 4.7 - - - +
244A LEU* 6.1 1.8 - - - +
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Residues in contact with GLU 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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100A GLY 5.1 2.5 - - - +
101A ALA* 3.3 36.5 - - + +
104A SER* 5.2 7.6 + - - +
106A TYR* 5.7 3.0 + - + -
107A GLU* 3.2 35.7 + - + +
160A SER* 1.3 72.5 - - - +
162A LEU* 1.3 59.5 + - - +
164A LEU* 3.2 7.3 + - + -
165A TYR* 2.9 42.1 + - + -
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Residues in contact with LEU 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A SER* 3.2 11.5 + - - +
161A GLU* 1.3 79.8 - - - +
163A GLN* 1.3 59.5 + - + +
165A TYR* 3.1 18.6 + - + +
166A CYS* 2.9 40.9 + - - -
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Residues in contact with GLN 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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157A GLY 5.1 2.2 + - - -
158A ILE* 3.4 20.6 - - + +
159A THR* 2.9 37.3 + - - -
160A SER* 3.3 16.6 + - - +
161A GLU 3.3 0.4 - - - -
162A LEU* 1.3 78.5 - - + +
164A LEU* 1.3 57.8 + - - +
166A CYS* 3.3 8.9 + - - +
167A THR* 2.8 34.1 + - - +
244A LEU* 4.5 9.9 - - - +
245A PRO* 3.8 32.5 - - - +
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Residues in contact with LEU 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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97A TYR* 3.6 28.6 - - + +
100A GLY 3.3 31.0 - - - +
101A ALA* 3.6 12.6 - - + +
106A TYR* 4.0 22.7 - - + -
153A TRP* 3.6 33.0 - - + -
158A ILE* 3.8 21.1 - - + -
160A SER 3.7 11.6 + - - +
161A GLU* 3.2 10.0 + - - +
163A GLN* 1.3 75.3 - - - +
165A TYR* 1.3 59.7 + - - +
167A THR* 3.3 3.3 + - - -
168A ALA* 2.9 28.2 + - - +
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Residues in contact with TYR 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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98A PHE* 3.5 35.7 - + - -
101A ALA* 3.6 24.6 + - + +
102A ARG* 3.3 30.9 - - + +
161A GLU* 2.9 36.5 + - + -
162A LEU* 3.2 19.3 - - + +
164A LEU* 1.3 77.5 - - - +
166A CYS* 1.3 58.6 + - - +
168A ALA* 3.0 7.9 + - - +
169A ILE* 2.9 39.7 + - + +
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Residues in contact with CYS 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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162A LEU* 2.9 33.4 + - - -
163A GLN* 3.6 10.8 - - - +
164A LEU 3.3 0.2 - - - -
165A TYR* 1.3 77.3 - - - +
167A THR* 1.3 57.9 + - - +
169A ILE* 3.2 10.2 + - - +
170A GLY* 2.9 25.6 + - - -
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Residues in contact with THR 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A TYR* 3.5 46.9 - - + +
158A ILE* 4.8 5.9 - - - +
163A GLN* 2.8 18.9 + - - +
164A LEU* 3.7 0.6 - - - -
166A CYS* 1.3 76.0 - - - +
168A ALA* 1.3 57.0 + - - +
170A GLY* 3.4 2.2 + - - +
171A ALA* 2.9 28.9 + - + +
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Residues in contact with ALA 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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94A SER* 3.0 35.1 + - - +
97A TYR* 4.0 5.6 - - - +
98A PHE* 3.7 25.8 - - + +
164A LEU 2.9 14.1 + - - +
165A TYR* 3.0 11.4 + - - +
167A THR* 1.3 74.3 - - - +
169A ILE* 1.3 62.2 + - + +
171A ALA* 3.2 1.2 + - - +
172A LEU* 2.9 26.0 + - - +
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Residues in contact with ILE 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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98A PHE* 6.0 4.5 - - + -
165A TYR* 2.9 29.6 + - + +
166A CYS* 3.6 9.2 - - - +
168A ALA* 1.3 77.0 - - + +
170A GLY* 1.3 58.4 + - - +
172A LEU* 3.2 14.1 + - + +
173A VAL* 2.9 38.7 + - + +
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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
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166A CYS 2.9 14.3 + - - -
167A THR* 3.7 4.0 - - - -
168A ALA 3.2 0.2 - - - -
169A ILE* 1.3 76.5 - - - +
171A ALA* 1.3 57.3 + - - +
173A VAL* 3.3 8.4 + - - +
174A PHE* 2.9 40.6 + - - -
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Residues in contact with ALA 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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90A PHE* 3.5 38.6 - - + +
93A LEU* 4.4 7.0 - - + -
94A SER* 3.6 19.1 - - - +
97A TYR* 5.8 1.1 - - + -
167A THR* 2.9 19.2 + - + +
168A ALA 3.2 0.4 + - - +
170A GLY* 1.3 75.8 - - - +
172A LEU* 1.3 57.4 + - - +
174A PHE* 3.3 6.8 + - - +
175A ALA* 2.9 23.7 + - - +
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Residues in contact with LEU 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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91A LEU* 3.7 29.2 - - + -
94A SER* 3.7 10.2 + - - +
168A ALA 2.9 13.4 + - - +
169A ILE* 3.5 17.9 - - + +
171A ALA* 1.3 73.8 - - - +
173A VAL* 1.3 66.3 + - + +
175A ALA* 3.1 9.2 + - + +
176A GLY* 3.0 18.7 + - - -
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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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169A ILE* 2.9 29.0 + - + +
170A GLY* 3.4 10.5 - - - +
172A LEU* 1.3 75.7 - - + +
174A PHE* 1.3 62.9 + - + +
176A GLY* 3.0 5.0 + - - -
177A LEU* 2.9 47.2 + - + +
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Residues in contact with PHE 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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90A PHE* 3.6 46.2 - + + -
170A GLY* 2.9 31.0 + - - +
171A ALA* 3.6 0.7 - - - +
172A LEU 3.3 0.2 - - - -
173A VAL* 1.3 80.8 - - + +
175A ALA* 1.3 57.2 + - - +
177A LEU* 3.7 20.1 - - + +
178A MET* 2.9 42.1 + - + +
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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
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87A SER* 3.0 33.8 + - - +
90A PHE* 3.7 10.9 - - + +
91A LEU* 3.9 14.1 - - + +
171A ALA 2.9 14.0 + - - +
172A LEU* 3.1 17.7 + - + +
174A PHE* 1.3 75.5 - - - +
176A GLY* 1.3 62.7 + - - +
178A MET 3.3 0.9 + - - -
179A LEU* 3.0 20.8 + - - +
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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
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172A LEU 3.0 13.1 + - - -
173A VAL* 3.4 4.3 - - - -
175A ALA* 1.3 77.6 - - - +
177A LEU* 1.3 57.7 + - - +
179A LEU* 3.4 7.7 + - - +
180A PHE* 2.9 31.8 + - - +
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Residues in contact with LEU 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 VAL* 2.9 37.4 + - + +
174A PHE* 3.7 28.7 - - + +
175A ALA 3.2 0.4 - - - -
176A GLY* 1.3 77.4 - - - +
178A MET* 1.3 60.4 + - + +
180A PHE* 3.6 10.7 + - + +
181A ALA* 2.9 29.3 + - - +
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Residues in contact with MET 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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83A PHE* 3.5 40.3 - - + +
86A LEU* 4.0 23.1 - - + -
87A SER* 3.7 21.1 - - - +
90A PHE* 3.7 33.0 - - + -
174A PHE* 2.9 29.5 + - + +
177A LEU* 1.3 74.4 - - + +
179A LEU* 1.3 60.6 + - - +
181A ALA* 3.2 5.1 + - - +
182A GLY 2.9 23.2 + - - -
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Residues in contact with LEU 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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83A PHE 5.0 1.3 - - - -
84A GLY* 5.0 9.4 - - - -
87A SER* 3.7 19.0 - - - +
175A ALA 3.0 17.6 + - - +
176A GLY* 3.7 7.2 - - - +
178A MET* 1.3 76.8 - - - +
180A PHE* 1.3 62.8 + - - +
182A GLY* 3.0 12.2 + - - -
183A TRP* 3.0 14.3 + - + +
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Residues in contact with PHE 180 (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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176A GLY 2.9 18.3 + - - +
177A LEU* 3.8 12.1 - - + +
179A LEU* 1.3 75.9 - - - +
181A ALA* 1.3 61.3 + - - +
183A TRP* 3.4 37.6 + + - +
184A PHE* 2.8 49.0 + + + +
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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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83A PHE* 3.6 29.1 - - + -
177A LEU 2.9 19.4 + - - +
178A MET* 3.4 7.9 - - - +
179A LEU 3.1 0.4 - - - -
180A PHE* 1.3 79.8 - - + +
182A GLY* 1.3 58.6 + - - +
184A PHE* 4.2 6.1 - - - -
185A HIS* 2.9 40.3 + - + +
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Residues in contact with GLY 182 (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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80A SER* 2.5 35.1 + - - -
83A PHE* 3.5 21.7 - - - +
84A GLY 5.3 0.2 - - - -
178A MET 2.9 11.5 + - - -
179A LEU* 3.0 4.4 + - - -
181A ALA* 1.3 74.6 - - - +
183A TRP* 1.3 65.8 + - - +
186A TYR* 3.0 9.9 + - - +
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Residues in contact with TRP 183 (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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29A THR* 3.2 33.6 + - + +
179A LEU 3.0 11.6 + - - +
180A PHE* 3.6 43.3 - + - +
182A GLY* 1.3 74.8 - - - +
184A PHE* 1.3 78.5 + + - +
187A HIS* 2.9 57.8 + + + +
188A LYS* 3.5 39.7 - - + -
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Residues in contact with PHE 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 PHE* 2.8 44.1 + + + +
181A ALA* 3.7 5.2 - - - +
183A TRP* 1.3 88.5 - + + +
185A HIS* 1.3 90.6 + + - +
186A TYR 3.1 0.7 + - - -
188A LYS* 2.9 33.1 + - + -
189A ALA* 2.8 47.9 + - + -
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Residues in contact with HIS 185 (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 ARG* 4.9 4.5 - - - +
79A PHE* 4.0 27.8 - + + -
80A SER* 3.6 6.3 + - - +
83A PHE* 3.6 24.9 - + + -
181A ALA* 2.9 27.4 + - + +
182A GLY 4.4 0.4 - - - +
184A PHE* 1.3 100.7 - + - +
186A TYR* 1.3 58.8 + - - +
189A ALA* 3.1 20.5 + - + +
190A ALA* 3.5 18.1 - - - +
191A PRO* 3.8 11.3 - - + +
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Residues in contact with TYR 186 (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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26A PRO* 3.9 14.2 - - - +
27A ILE* 3.8 42.3 - - + +
73A GLU* 4.6 6.6 + - + +
76A ARG* 3.9 28.2 - - + -
77A LYS* 3.3 52.7 - - + -
80A SER* 3.0 20.0 - - - +
182A GLY 3.0 8.4 + - - +
185A HIS* 1.3 80.5 - - - +
187A HIS* 1.3 87.4 + + + +
188A LYS 3.8 0.4 - - - -
190A ALA* 3.9 7.8 - - - +
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Residues in contact with HIS 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A ASP* 3.2 26.5 - - - +
26A PRO* 3.3 4.2 - - - +
27A ILE* 3.3 43.9 + - + +
28A LYS 4.5 0.4 - - - -
29A THR* 3.1 36.9 + - + +
183A TRP* 2.9 42.4 + + + +
186A TYR* 1.3 99.7 - + + +
188A LYS* 1.3 62.5 + - + +
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Residues in contact with LYS 188 (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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24A ARG* 3.4 8.8 - - - +
25A ASP* 2.8 54.3 + - - +
26A PRO* 4.4 0.2 - - - -
183A TRP* 3.5 39.0 + - + -
184A PHE* 2.9 33.0 + - + +
187A HIS* 1.3 80.7 - - + +
189A ALA* 1.3 59.8 + - - +
190A ALA 4.0 0.9 - - - -
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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
------------------------------------------------------------
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