Contacts of the helix formed by residues 152 - 188 (chain A) in PDB entry 5AM8
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 152 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A SER* 3.2 12.5 + - - -
151A ARG* 1.3 76.0 - - - +
153A TYR* 1.3 66.8 + - - +
154A ALA* 3.6 5.7 + - - +
155A MET* 3.2 21.8 + - - +
156A LEU* 3.0 23.2 + - - +
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Residues in contact with TYR 153 (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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151A ARG 3.6 5.1 + - - -
152A SER* 1.3 71.3 + - - +
154A ALA* 1.3 56.3 + - - +
156A LEU* 3.3 8.8 + - - +
157A LEU* 3.0 31.1 + - + +
237A TYR* 4.1 23.1 - + + -
241A TYR* 3.5 49.7 - + + -
249A PRO* 4.2 0.6 - - + +
251A HIS* 3.3 32.7 + + - -
252A LEU* 3.9 18.2 - - + -
476A PRO* 4.2 2.6 + - - +
601A PRO* 3.2 34.0 - - - +
602A PRO 4.1 2.7 + - - -
604A PRO* 3.6 30.7 - - + -
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Residues in contact with ALA 154 (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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152A SER* 3.1 5.6 + - - +
153A TYR* 1.3 75.5 - - - +
155A MET* 1.3 60.2 + - - +
157A LEU* 3.2 5.3 + - - +
158A PHE* 3.0 27.9 + - - +
604A PRO* 4.3 27.4 - - + -
607A TYR* 3.8 12.4 - - + -
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Residues in contact with MET 155 (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 TRP* 3.7 26.9 - - + -
146A ILE* 3.9 17.7 - - + -
150A SER* 3.9 13.2 - - - +
152A SER* 3.1 23.9 + - - +
154A ALA* 1.3 75.7 - - - +
156A LEU* 1.3 66.8 + - - +
158A PHE* 3.3 32.6 + - + -
159A ALA* 3.0 22.5 + - - +
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Residues in contact with LEU 156 (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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146A ILE* 3.4 21.8 - - + +
147A LEU* 3.7 22.3 - - + +
150A SER* 3.3 33.2 - - - +
152A SER 3.0 19.1 + - - +
153A TYR 3.5 6.7 - - - +
155A MET* 1.3 76.7 - - - +
157A LEU* 1.3 56.5 + - - +
159A ALA* 3.3 6.2 + - - +
160A TRP* 2.8 31.5 + - - +
237A TYR* 3.8 13.2 - - - +
251A HIS* 3.6 24.7 - - + +
252A LEU* 3.8 26.9 - - + -
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Residues in contact with LEU 157 (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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153A TYR* 3.0 19.8 + - + +
154A ALA* 3.4 10.1 - - - +
155A MET 3.2 0.2 - - - -
156A LEU* 1.3 74.4 - - - +
158A PHE* 1.3 56.6 + - - +
160A TRP* 4.5 1.1 - - + -
161A GLU* 2.8 39.5 + - + +
251A HIS* 3.6 8.5 - - + +
476A PRO* 3.3 42.2 - - + +
477A VAL* 3.9 23.3 - - + -
603A LEU* 4.3 2.5 - - + -
604A PRO* 3.6 31.4 - - + -
607A TYR* 3.5 25.8 - - + +
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Residues in contact with PHE 158 (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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127A VAL* 3.6 24.2 - - + +
128A CYS 3.5 23.6 - - - -
129A LEU* 4.0 15.7 - - + -
137A TRP* 3.7 18.2 - + - -
154A ALA 3.0 12.7 + - - +
155A MET* 3.5 29.4 - - + +
157A LEU* 1.3 76.1 - - - +
159A ALA* 1.3 57.3 + - - +
161A GLU* 4.0 1.9 - - - +
162A GLY* 2.8 30.8 + - - -
607A TYR* 3.2 20.6 + - + +
608A PRO* 5.1 16.6 - - + -
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Residues in contact with ALA 159 (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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127A VAL* 5.3 0.9 - - - -
143A LEU* 3.8 25.5 - - + +
146A ILE* 3.9 14.6 - - + -
147A LEU* 3.5 24.2 - - + -
155A MET* 3.0 14.2 + - + +
156A LEU 3.6 4.9 - - - +
158A PHE* 1.3 79.4 - - - +
160A TRP* 1.3 58.7 + - - +
162A GLY* 5.1 0.2 - - - -
163A TRP* 3.0 33.4 + - - +
256A MET* 3.7 4.0 - - - +
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Residues in contact with TRP 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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147A LEU* 4.3 5.3 - - + +
156A LEU 2.8 20.9 + - - +
157A LEU* 3.8 2.9 - - - +
159A ALA* 1.3 72.6 - - - +
161A GLU* 1.3 73.5 + - + +
163A TRP* 4.1 0.2 - - - +
164A HIS* 2.9 60.2 + + - -
250A ALA* 3.8 12.7 + - + +
251A HIS* 3.6 29.4 - - + -
256A MET* 3.6 30.8 + - - -
464A TRP* 3.7 35.9 - + - -
467A ARG* 4.7 2.2 - - - +
475A PRO* 3.9 5.8 - - + -
476A PRO* 3.7 33.0 - - + -
477A VAL* 4.1 16.4 - - + -
479A ARG* 4.1 18.6 - - - -
485A ASP* 4.6 0.2 - - - -
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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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157A LEU* 2.8 20.8 + - + +
158A PHE* 4.0 2.8 - - - +
160A TRP* 1.3 88.6 - - + +
162A GLY* 1.3 63.9 + - - +
164A HIS* 3.4 1.6 + - - +
165A ASN* 3.0 50.1 + - - +
477A VAL* 3.8 30.3 - - + +
479A ARG* 4.5 3.2 + - - +
607A TYR* 2.5 39.8 + - - +
608A PRO* 5.4 1.4 - - - +
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Residues in contact with GLY 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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127A VAL* 3.3 21.3 - - - +
158A PHE* 2.8 20.9 + - - -
161A GLU* 1.3 79.5 - - - +
163A TRP* 1.3 55.4 + - - +
165A ASN* 3.4 5.3 + - - +
166A ALA* 3.0 31.4 + - - +
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Residues in contact with TRP 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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122A TYR* 3.4 36.6 - + - -
125A ALA* 3.4 37.0 - - + -
127A VAL* 3.4 7.8 - - + +
139A LEU* 3.5 43.1 - - + +
143A LEU* 3.8 19.1 - - + -
159A ALA 3.0 18.6 + - - +
162A GLY* 1.3 76.4 - - - +
164A HIS* 1.3 59.9 + - - +
166A ALA* 5.0 0.9 - - + -
167A ALA* 3.0 43.3 + - + +
256A MET* 3.5 37.5 - - + -
257A TRP* 4.3 2.2 - - - -
488A ALA* 3.0 29.9 + - + +
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Residues in contact with HIS 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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160A TRP* 2.9 65.1 + + + +
161A GLU 4.0 1.3 - - - +
163A TRP* 1.3 80.1 - + - +
165A ASN* 1.3 58.8 + - - +
168A GLY* 3.0 28.2 + - - -
169A ILE* 4.1 1.7 + - - +
256A MET* 3.7 28.3 + - + -
257A TRP* 4.4 9.5 - + - -
463A TRP* 5.9 1.2 + - - -
464A TRP* 5.6 0.2 - - - -
467A ARG* 4.7 6.9 + - - -
479A ARG* 3.7 10.7 + - - +
484A PHE 5.3 0.7 + - - -
485A ASP* 3.6 41.8 + - + +
488A ALA* 3.7 24.0 - - + +
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Residues in contact with ASN 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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161A GLU* 3.0 39.1 + - - +
162A GLY* 3.7 4.8 - - - +
164A HIS* 1.3 78.3 - - - +
166A ALA* 1.3 61.9 + - - +
169A ILE* 3.3 41.1 + - + +
170A PRO* 3.8 0.9 - - - +
479A ARG* 2.9 30.4 + - - +
483A HIS* 3.2 14.4 + - - -
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Residues in contact with ALA 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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121A ILE* 4.9 0.9 - - - +
125A ALA* 4.2 17.1 - - + +
126A LYS 3.5 25.6 - - - +
127A VAL* 4.7 0.7 - - + -
162A GLY 3.0 18.9 + - - +
163A TRP* 3.8 4.7 - - + +
165A ASN* 1.3 75.7 - - - +
167A ALA* 1.3 59.6 + - - +
170A PRO* 3.3 23.9 - - - +
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Residues in contact with ALA 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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121A ILE* 3.9 5.1 - - - +
122A TYR* 4.5 9.9 - - + -
125A ALA* 4.1 8.3 - - + -
163A TRP* 3.0 48.6 + - + +
166A ALA* 1.3 77.0 - - - +
168A GLY* 1.3 64.2 + - - +
170A PRO* 3.7 4.9 - - - +
171A LEU* 3.1 27.3 - - - +
488A ALA* 4.1 12.6 - - - -
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Residues in contact with GLY 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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164A HIS 3.0 14.8 + - - -
167A ALA* 1.3 79.1 - - - +
169A ILE* 1.3 66.0 - - - +
171A LEU* 3.1 11.7 + - - +
484A PHE* 3.3 46.4 - - - +
487A GLY 4.3 2.0 - - - -
488A ALA* 4.2 8.8 - - - +
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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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164A HIS 4.1 0.8 + - - +
165A ASN* 3.3 30.2 + - + +
168A GLY* 1.3 76.0 - - - +
170A PRO* 1.3 71.5 - - + +
171A LEU 3.3 0.2 + - - -
172A LYS* 3.4 12.0 + - - +
173A PRO* 3.9 7.3 - - - +
482A THR* 3.8 39.1 - - + +
483A HIS* 3.9 28.0 - - + +
484A PHE* 4.8 1.1 - - - -
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Residues in contact with PRO 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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121A ILE* 4.1 25.9 - - + +
165A ASN 3.8 1.6 - - - +
166A ALA 3.3 25.6 - - - +
167A ALA 3.7 1.1 - - - +
168A GLY 3.6 2.2 - - - -
169A ILE* 1.3 97.8 - - + +
171A LEU* 1.3 60.5 + - - +
172A LYS 3.4 0.3 + - - -
173A PRO* 3.5 11.9 - - + +
174A LEU* 3.6 14.7 - - - +
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Residues in contact with LEU 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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118A MET* 3.7 42.3 - - + +
121A ILE* 3.6 23.8 - - + -
122A TYR* 4.7 5.8 - - + -
167A ALA 3.1 20.2 - - - +
168A GLY 3.1 8.7 + - - +
170A PRO* 1.3 78.1 - - - +
172A LYS* 1.3 64.9 - - - +
174A LEU* 3.1 6.7 + - + +
175A TYR* 2.9 22.7 + - + +
484A PHE* 3.9 11.2 - - + -
487A GLY* 3.1 32.3 - - - +
493A PRO* 3.7 16.4 - - + -
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Residues in contact with LYS 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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168A GLY 3.5 2.2 + - - -
169A ILE 3.4 8.8 + - - +
170A PRO 3.3 0.6 - - - -
171A LEU* 1.3 76.3 - - - +
173A PRO* 1.4 71.8 - - + +
175A TYR* 3.1 3.6 + - - +
176A GLU* 3.1 42.9 + - - +
456A PRO* 2.9 30.5 + - - -
457A SER* 4.8 1.2 - - - +
459A TYR* 3.8 24.6 - - + -
481A GLU* 2.9 41.5 + - - +
482A THR* 4.8 4.9 - - - +
483A HIS 4.7 0.8 + - - +
484A PHE* 3.6 28.5 - - + -
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Residues in contact with PRO 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 3.9 5.8 - - - +
170A PRO* 3.5 16.4 - - + +
172A LYS* 1.4 96.6 - - + +
174A LEU* 1.3 66.3 + - + +
176A GLU* 3.5 14.3 + - + +
177A ASP* 3.3 28.5 + - - +
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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
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114A LEU* 3.9 23.5 - - + +
117A GLN* 3.6 31.0 - - + -
118A MET* 3.8 28.0 - - + +
121A ILE* 3.9 15.7 - - + -
170A PRO 3.6 21.1 - - - +
171A LEU* 3.1 5.5 + - + +
173A PRO* 1.3 82.0 - - + +
175A TYR* 1.3 62.0 + - - +
177A ASP* 3.1 5.3 + - - +
178A PHE* 2.8 30.1 + - - +
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Residues in contact with TYR 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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118A MET* 3.8 20.1 - - - -
171A LEU* 2.9 15.7 + - + +
172A LYS 3.7 4.3 - - - +
174A LEU* 1.3 78.4 - - - +
176A GLU* 1.3 62.1 + - - +
178A PHE* 3.3 25.0 + + - +
179A THR* 3.0 46.1 + - - -
445A TRP* 4.1 16.7 - + - -
446A ARG* 3.3 33.4 - - - +
449A VAL* 4.3 8.1 - - + +
450A PHE* 4.6 1.7 - - - -
459A TYR* 3.7 13.2 - + + -
484A PHE* 3.7 25.1 - + + -
492A VAL* 3.5 37.0 + - + +
493A PRO* 4.9 0.9 - - + -
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Residues in contact with GLU 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 LYS* 3.1 32.2 + - - +
173A PRO* 3.6 13.6 - - - +
175A TYR* 1.3 77.6 - - - +
177A ASP* 1.3 66.2 + - - +
179A THR* 3.4 2.9 + - - -
180A ALA* 3.3 22.3 + - - +
456A PRO* 3.5 34.1 - - + +
459A TYR* 3.4 23.3 - - + +
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Residues in contact with ASP 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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110A GLN* 4.5 14.2 + - - +
114A LEU* 3.8 22.7 - - + +
173A PRO* 3.4 14.0 - - - +
174A LEU* 3.1 9.0 + - - +
176A GLU* 1.3 80.3 - - - +
178A PHE* 1.3 65.9 + - - +
180A ALA* 3.4 6.5 + - - +
181A LEU* 3.3 27.2 + - - +
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Residues in contact with PHE 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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111A TYR* 3.9 31.9 - + - -
114A LEU* 3.8 15.0 - - + +
115A LEU* 4.2 6.5 - - + -
118A MET* 3.7 22.2 - - + -
174A LEU 2.8 19.2 + - - +
175A TYR* 3.3 39.0 + + - +
177A ASP* 1.3 73.6 - - - +
179A THR* 1.3 68.5 - - - +
180A ALA 3.3 0.2 + - - -
181A LEU* 3.3 3.6 + - - +
182A SER* 2.9 40.2 + - - -
198A TRP* 5.2 0.7 - + - -
450A PHE* 4.1 17.9 - + - -
495A VAL* 3.4 37.2 - - + -
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Residues in contact with THR 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 TYR* 3.0 39.0 + - - -
176A GLU 3.7 5.2 - - - -
177A ASP 3.3 0.2 - - - -
178A PHE* 1.3 84.0 - - - +
180A ALA* 1.3 65.4 + - - +
182A SER* 3.5 1.4 + - - -
183A ASN* 3.0 33.6 + - - +
449A VAL* 3.8 28.8 - - + +
450A PHE* 3.8 21.0 - - + -
459A TYR* 4.5 2.9 - - - +
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Residues in contact with ALA 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 GLU 3.3 13.9 + - - +
177A ASP* 3.9 6.3 - - - +
178A PHE 3.2 0.8 - - - -
179A THR* 1.3 80.5 - - - +
181A LEU* 1.3 58.1 + - + +
183A ASN* 3.4 6.0 + - - +
184A GLU* 3.0 29.0 + - - +
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Residues in contact with LEU 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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103A LEU* 3.7 10.3 - - + +
107A LYS* 3.9 41.3 - - + +
110A GLN* 3.8 24.2 - - + +
111A TYR* 3.9 28.5 - - + +
114A LEU* 3.7 29.8 - - + -
177A ASP 3.3 10.8 + - - +
178A PHE 3.9 2.9 - - - +
180A ALA* 1.3 74.5 - - + +
182A SER* 1.3 60.9 + - - +
184A GLU* 3.4 10.2 + - - +
185A ALA* 3.0 29.1 + - - +
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Residues in contact with SER 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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111A TYR* 4.2 13.2 + - - -
178A PHE* 2.9 40.6 + - - -
179A THR 3.7 3.8 - - - -
181A LEU* 1.3 76.9 - - - +
183A ASN* 1.3 62.9 + - - +
185A ALA* 3.1 7.4 + - - +
186A TYR* 3.1 28.2 + - - -
194A THR* 2.7 37.8 + - - +
450A PHE* 4.0 3.6 - - - -
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Residues in contact with ASN 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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179A THR* 3.0 27.5 + - - +
180A ALA* 3.8 5.7 - - - +
182A SER* 1.3 77.3 - - - +
184A GLU* 1.3 63.8 + - - +
186A TYR* 3.3 0.9 + - - +
187A LYS* 2.9 46.2 + - - +
193A ASP* 3.5 7.8 - - - +
194A THR* 2.9 33.0 + - - +
449A VAL 4.9 0.2 + - - -
450A PHE* 2.8 38.2 + - - +
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Residues in contact with GLU 184 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103A LEU* 4.1 12.8 - - + +
104A PRO* 4.1 8.0 - - - +
107A LYS* 3.0 45.0 + - - +
180A ALA 3.0 18.1 + - - +
181A LEU* 3.6 12.2 - - - +
182A SER 3.3 0.2 - - - -
183A ASN* 1.3 77.0 - - - +
185A ALA* 1.3 63.5 + - - +
187A LYS* 3.6 13.6 + - - +
188A GLN* 3.6 19.0 + - + +
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Residues in contact with ALA 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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99A GLY 3.5 20.6 - - - +
100A SER* 3.7 17.0 - - - +
102A ASN* 2.9 30.4 + - - -
103A LEU* 3.9 13.2 - - + +
111A TYR* 5.9 0.7 - - + -
181A LEU 3.0 14.1 + - - +
182A SER* 3.1 11.2 + - - +
184A GLU* 1.3 77.3 - - - +
186A TYR* 1.3 65.7 + - + +
188A GLN* 3.3 8.0 + - - +
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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
----------------------------------------------------------
97A THR* 4.5 2.7 - - + -
99A GLY* 3.5 25.4 - - - -
100A SER* 4.7 3.6 + - - -
111A TYR* 5.3 7.6 + + - -
182A SER* 3.1 31.9 + - - +
183A ASN 4.3 1.3 - - - +
185A ALA* 1.3 79.5 - - + +
187A LYS* 1.3 65.0 + - - +
188A GLN 3.1 2.5 - - - -
189A ASP* 3.0 27.8 + - - +
190A GLY 3.5 0.2 + - - -
191A PHE* 3.2 23.3 + + + +
194A THR* 3.8 31.6 - - + +
197A TYR* 3.3 57.2 + + + -
198A TRP* 5.3 1.9 + - - -
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Residues in contact with LYS 187 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A ASN* 2.9 41.7 + - - +
184A GLU* 3.9 9.4 - - - +
185A ALA 3.4 0.2 - - - -
186A TYR* 1.3 76.2 - - - +
188A GLN* 1.3 65.1 + - - +
190A GLY* 2.9 20.1 + - - -
191A PHE 3.2 19.0 + - - +
192A THR* 3.2 21.6 + - - +
193A ASP* 4.7 1.0 - - - +
450A PHE 5.7 0.2 + - - -
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Residues in contact with GLN 188 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A LYS* 4.5 12.0 + - - -
96A ARG* 4.9 0.9 + - - -
102A ASN* 3.4 36.5 + - + +
184A GLU* 3.6 18.1 + - + +
185A ALA 3.3 2.4 + - - +
186A TYR 3.1 0.8 - - - -
187A LYS* 1.3 81.8 - - - +
189A ASP* 1.3 61.3 + - - +
190A GLY 3.2 1.1 + - - -
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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