Contacts of the helix formed by residues 155 - 188 (chain A) in PDB entry 1LMU
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 PHE 155 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A GLN* 2.7 35.0 - - + +
131A ARG* 3.5 38.1 - - + -
133A LEU* 4.3 6.1 - - + -
150A ARG* 3.5 44.2 - - + -
151A ALA 3.3 24.2 - - - -
152A ASN* 2.9 9.7 + - - +
154A ASP* 1.3 81.4 - - + +
156A VAL* 1.4 62.9 + - - +
157A PRO* 3.2 4.3 - - - -
158A LEU* 2.8 30.4 + - + +
159A CYS 3.3 3.5 + - - -
379A ASP* 5.1 8.3 - - - -
380A ALA* 4.6 10.1 - - + -
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Residues in contact with VAL 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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109A GLN* 5.9 0.2 - - - +
113A ASP* 6.1 0.7 - - - +
152A ASN* 4.6 3.6 - - - +
153A SER* 3.1 27.8 - - - +
155A PHE* 1.4 75.1 - - - +
157A PRO* 1.3 80.5 - - + +
159A CYS* 3.0 14.2 + - + +
160A VAL* 2.9 24.2 + - - +
584A LYS* 6.0 1.8 - - - +
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Residues in contact with PRO 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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154A ASP 3.6 12.1 - - - +
155A PHE 3.4 3.4 - - - -
156A VAL* 1.3 104.1 - - + +
158A LEU* 1.3 54.0 + - - +
160A VAL* 2.9 22.0 - - + +
161A SER* 2.8 26.5 + - - -
581A ILE 3.6 11.2 - - - +
582A SER* 3.5 21.5 - - - +
584A LYS* 3.2 35.4 - - + +
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Residues in contact with LEU 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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104A PRO 4.9 3.4 - - - +
105A ASP* 2.8 34.8 - - - +
106A ARG* 3.1 43.0 - - + +
109A GLN* 3.1 18.6 - - + -
131A ARG* 5.3 0.4 - - - +
155A PHE* 2.8 22.6 + - + +
157A PRO* 1.3 76.7 - - - +
159A CYS* 1.4 64.1 + - - +
161A SER* 3.3 4.0 + - - -
162A ALA 3.0 17.5 + - - -
380A ALA* 5.3 4.0 - - + -
582A SER* 4.4 13.6 + - - +
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Residues in contact with CYS 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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109A GLN* 2.9 33.0 - - - -
110A LEU* 2.9 24.6 - - + +
113A ASP* 2.9 39.9 - - + -
155A PHE 3.3 2.4 + - - -
156A VAL* 3.0 17.1 + - + +
158A LEU* 1.4 78.9 - - - +
160A VAL* 1.3 62.4 + - - +
162A ALA 3.0 1.7 + - - -
163A LEU* 2.8 20.0 + - - +
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Residues in contact with VAL 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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156A VAL* 2.9 9.1 + - + +
157A PRO* 2.9 31.4 - - + +
159A CYS* 1.3 76.6 - - - +
161A SER* 1.3 56.6 + - - +
163A LEU* 3.2 11.3 + - + +
164A ALA* 2.8 29.1 + - - +
581A ILE* 2.9 21.1 - - + -
588A TYR* 4.0 31.9 - - + +
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Residues in contact with SER 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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106A ARG* 4.1 11.7 - - - -
157A PRO 2.8 13.5 + - - -
158A LEU 3.5 5.2 - - - -
160A VAL* 1.3 83.3 - - - +
162A ALA* 1.3 61.9 + - - +
164A ALA 3.3 0.5 + - - -
165A ARG* 3.0 19.6 + - - +
578A LEU* 3.0 27.9 - - - +
581A ILE* 3.2 10.5 - - - -
582A SER* 2.7 40.5 + - - -
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Residues in contact with ALA 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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106A ARG* 3.1 39.9 - - + +
107A GLU* 4.6 2.9 - - - +
110A LEU* 2.9 34.9 - - + +
158A LEU 3.0 2.5 + - - +
159A CYS 3.0 2.8 + - - +
161A SER* 1.3 80.2 - - - +
163A LEU* 1.3 59.6 + - - +
165A ARG* 3.0 10.7 - - + +
166A ALA* 3.0 21.0 + - - +
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Residues in contact with LEU 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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48A GLN* 4.4 11.9 - - - +
75A LEU* 6.0 5.6 - - + -
110A LEU* 2.9 19.4 - - + +
114A GLU* 4.6 12.8 - - + +
159A CYS 2.8 13.1 + - - +
160A VAL* 3.6 14.8 - - + +
162A ALA* 1.3 75.5 - - - +
164A ALA* 1.3 57.9 + - - +
166A ALA* 3.2 5.1 + - + +
167A ARG* 2.9 75.7 + - + +
588A TYR* 5.2 2.7 - - + -
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Residues in contact with ALA 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 VAL 2.8 15.2 + - - +
161A SER 3.6 5.4 - - - +
162A ALA 3.2 0.2 - - - -
163A LEU* 1.3 78.3 - - - +
165A ARG* 1.4 56.5 + - - +
167A ARG* 3.8 1.0 - - - +
168A ALA* 2.8 32.9 + - - +
578A LEU* 3.6 12.8 - - + -
581A ILE* 3.8 12.6 - - + -
588A TYR* 3.6 32.3 - - + -
591A PHE* 3.8 10.1 - - + -
592A MET* 5.4 0.3 - - - +
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Residues in contact with ARG 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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106A ARG* 2.8 41.2 - - - +
161A SER 3.0 7.5 + - - -
162A ALA* 3.0 27.5 + - + +
164A ALA* 1.4 77.3 - - - +
166A ALA* 1.3 58.3 + - + +
168A ALA* 4.4 3.6 - - - -
169A ASP* 2.8 46.6 + - - +
197A ARG* 3.7 10.7 - - - +
198A VAL* 5.6 1.8 - - - +
523A GLY 5.3 0.2 - - - -
524A THR* 3.1 26.5 + - - +
527A THR* 5.5 8.0 + - - +
575A GLU* 2.9 31.1 + - - -
578A LEU* 2.9 45.2 - - + +
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Residues in contact with ALA 166 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A GLN* 4.0 20.6 + - + +
110A LEU* 5.2 4.0 - - + -
114A GLU* 6.1 0.7 - - - +
162A ALA 3.0 13.8 + - - +
163A LEU* 3.2 11.2 + - + +
165A ARG* 1.3 78.8 - - + +
167A ARG* 1.3 56.9 + - - +
169A ASP* 3.4 6.3 + - - +
170A TRP* 2.9 27.7 + - - +
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Residues in contact with ARG 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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48A GLN* 3.8 17.0 - - - +
73A TRP* 2.9 66.2 - - + +
75A LEU* 6.1 2.2 - - - +
163A LEU* 2.9 50.9 + - + +
164A ALA 4.1 1.8 - - - +
166A ALA* 1.3 72.4 - - - +
168A ALA* 1.3 61.2 + - - +
170A TRP* 3.1 8.5 + - - +
171A LEU* 2.8 33.8 + - - +
588A TYR* 2.7 48.8 + - - +
592A MET* 4.5 3.1 - - - -
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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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164A ALA 2.8 22.0 + - - +
165A ARG 3.7 3.4 - - - +
167A ARG* 1.3 72.1 - - - +
169A ASP* 1.3 63.5 + - - +
171A LEU* 3.3 2.5 + - - +
172A TYR* 2.9 27.5 + - - +
197A ARG* 3.8 11.4 - - - +
574A TRP* 6.1 0.2 - - + -
591A PHE* 3.4 30.7 - - + -
592A MET* 4.4 10.7 - - - +
595A LEU* 4.4 13.2 - - + +
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Residues in contact with ASP 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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165A ARG* 2.8 36.4 + - - +
166A ALA* 3.7 6.4 - - - +
168A ALA* 1.3 75.4 - - - +
170A TRP* 1.3 53.7 + - - +
172A TYR* 4.7 3.1 - - - -
173A GLY* 2.6 34.9 + - - +
197A ARG* 3.4 36.8 + - - +
198A VAL* 5.5 2.8 - - - +
527A THR* 6.2 0.2 - - - +
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Residues in contact with TRP 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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48A GLN* 3.7 26.2 + - + +
49A ALA 3.2 27.5 + - - -
50A GLN* 4.9 0.4 - - - +
51A PRO* 3.9 18.8 - - + +
54A TYR* 4.2 9.0 - + - -
68A ILE* 3.5 20.2 - - + -
70A PRO* 3.6 20.6 - - + -
73A TRP* 3.4 13.7 - + + -
166A ALA 2.9 14.6 + - - +
167A ARG* 3.2 11.2 - - - +
169A ASP* 1.3 76.5 - - - +
171A LEU* 1.3 88.2 + - + +
174A ILE* 2.8 71.6 + - + +
175A ASN* 4.8 2.5 - - - -
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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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68A ILE 3.6 13.7 - - - +
69A VAL* 4.1 19.5 - - + -
70A PRO* 3.8 5.6 - - + -
73A TRP* 3.5 20.9 - - + -
167A ARG 2.8 16.0 + - - +
168A ALA 3.9 2.7 - - - +
170A TRP* 1.3 106.6 - - + +
172A TYR* 1.3 65.9 + - - +
175A ASN* 2.7 28.4 + - - +
592A MET* 3.6 32.8 - - + -
595A LEU* 4.3 7.0 - - + -
596A VAL* 5.1 4.9 - - + -
599A LEU* 3.5 16.7 - - + +
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Residues in contact with TYR 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 ALA 2.9 17.3 + - - +
169A ASP* 4.0 3.1 - - - +
171A LEU* 1.3 77.0 - - - +
173A GLY* 1.3 59.3 + - - +
175A ASN* 4.3 0.2 - - - +
176A MET* 3.0 42.3 + - + +
195A VAL* 3.7 17.3 - - + +
196A GLY* 3.2 30.3 - - - -
197A ARG* 3.1 24.7 - - + +
200A THR* 4.5 1.7 + - - -
564A MET* 5.5 0.3 - - - +
565A ALA* 3.7 29.1 - - - +
570A MET* 5.5 1.3 - - + +
574A TRP* 3.8 28.5 - + + -
595A LEU* 5.0 2.9 - - + +
599A LEU* 3.5 23.2 - - + +
602A LEU* 3.7 27.7 - - + +
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Residues in contact with GLY 173 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169A ASP 2.6 23.0 + - - -
172A TYR* 1.3 73.1 - - - +
174A ILE* 1.3 61.2 + - - +
177A THR* 2.7 32.5 + - - +
195A VAL 3.7 16.1 - - - +
196A GLY* 4.9 2.0 - - - -
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Residues in contact with ILE 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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50A GLN* 5.4 0.4 - - - -
51A PRO* 3.8 15.9 - - + -
68A ILE* 5.4 0.7 - - + -
170A TRP* 2.8 77.8 + - + +
173A GLY* 1.3 71.2 - - - -
175A ASN* 1.3 61.5 + - - +
177A THR* 2.8 25.3 - - + +
178A ARG* 3.0 46.9 + - - +
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Residues in contact with ASN 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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66A LEU* 3.5 23.4 - - - +
67A PRO* 3.5 12.7 - - + +
68A ILE* 2.8 49.6 + - - +
69A VAL* 5.0 0.2 - - - +
170A TRP* 4.8 1.8 - - - -
171A LEU* 2.7 30.6 + - - +
172A TYR 4.3 0.4 - - - +
173A GLY 3.4 0.2 - - - -
174A ILE* 1.3 77.9 - - - +
176A MET* 1.3 60.6 + - - +
178A ARG 3.3 0.9 + - - -
179A ALA* 3.0 24.6 + - - +
599A LEU* 4.0 10.2 - - + +
603A ILE* 3.7 19.0 - - + +
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Residues in contact with MET 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 TYR* 3.0 31.4 + - + +
175A ASN* 1.3 76.6 - - - +
177A THR* 1.3 62.4 + - - +
179A ALA* 3.2 4.4 + - - +
180A TYR* 2.9 69.3 + - + +
195A VAL* 3.2 32.5 - - + +
561A LEU* 4.5 5.4 - - + -
562A PRO* 5.0 4.0 - - + -
565A ALA* 5.0 1.6 - - + -
599A LEU* 5.3 3.1 - - + -
602A LEU* 3.9 51.4 - - + +
603A ILE* 5.0 8.5 - - - -
606A ALA* 5.1 1.1 - - + -
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Residues in contact with THR 177 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61A TRP* 5.7 8.2 - - + -
173A GLY 2.7 26.7 + - - +
174A ILE* 2.8 23.8 - - + +
176A MET* 1.3 74.5 - - - +
178A ARG* 1.3 58.8 + - + +
181A THR* 2.6 43.2 + - - -
192A VAL* 3.7 9.4 - - - +
193A LEU 3.3 8.7 + - - +
194A SER* 3.3 27.8 + - - -
195A VAL* 4.0 6.8 - - - +
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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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51A PRO* 3.2 29.5 - - - +
58A TYR 4.2 7.4 + - - -
60A ARG 5.1 0.4 + - - -
61A TRP* 3.2 73.2 - - + +
62A ASN 4.5 2.9 - - - +
66A LEU* 3.7 23.1 - - + +
68A ILE* 2.9 35.6 - - - +
174A ILE* 3.0 28.8 + - - +
175A ASN 3.7 4.3 - - - +
177A THR* 1.3 82.8 - - + +
179A ALA* 1.3 62.3 + - - +
181A THR* 3.8 4.6 - - - -
182A ILE* 2.7 36.1 + - + +
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Residues in contact with ALA 179 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A LEU* 4.1 11.4 - - + +
66A LEU* 3.5 16.1 - - + +
175A ASN 3.0 17.1 + - - +
176A MET* 3.6 7.2 - - - +
177A THR 3.2 0.2 - - - -
178A ARG* 1.3 78.3 - - - +
180A TYR* 1.3 59.3 + - + +
182A ILE* 3.3 3.3 + - - +
183A LEU* 3.0 33.1 + - - +
603A ILE* 5.1 8.1 - - + -
606A ALA* 4.1 24.0 - - + -
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Residues in contact with TYR 180 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176A MET* 2.9 69.9 + - + +
179A ALA* 1.3 73.8 - - + +
181A THR* 1.3 61.6 + - - +
183A LEU* 3.1 19.9 + - + +
184A GLY* 2.8 26.9 + - - -
193A LEU* 3.7 26.8 - - + +
195A VAL* 3.3 12.1 - - + -
557A LEU* 4.3 11.9 - - + -
560A SER* 4.1 15.0 + - - -
561A LEU* 3.5 20.7 - - + +
562A PRO* 3.3 23.9 - - - +
606A ALA* 4.6 15.0 - - + +
609A THR* 5.5 3.4 + - - -
614A PHE* 4.5 10.5 - + - -
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Residues in contact with THR 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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61A TRP* 3.9 26.4 - - + -
177A THR* 2.6 29.7 + - - -
178A ARG 3.8 2.7 - - - -
180A TYR* 1.3 72.1 - - - +
182A ILE* 1.3 57.2 + - + +
184A GLY* 3.2 1.7 + - - -
185A ARG* 2.8 40.0 + - + +
189A TYR* 4.9 0.7 - - - +
191A GLY 4.0 19.0 - - - +
192A VAL* 3.3 18.0 - - + +
193A LEU* 3.3 24.5 + - - +
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Residues in contact with ILE 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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61A TRP* 3.4 47.8 - - + +
62A ASN* 4.3 2.0 - - - +
63A LEU* 4.8 25.1 - - + +
178A ARG* 2.7 33.8 + - + +
179A ALA* 3.4 7.4 - - - +
181A THR* 1.3 74.8 - - + +
183A LEU* 1.3 71.1 + - + +
185A ARG* 3.1 10.6 + - + +
186A ASN* 3.1 34.6 + - - +
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Residues in contact with LEU 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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63A LEU* 4.7 20.2 - - + -
179A ALA 3.0 20.7 + - - +
180A TYR* 3.5 21.3 - - + +
182A ILE* 1.3 85.5 - - + +
184A GLY* 1.3 62.2 + - - +
186A ASN* 3.2 13.1 + - - +
187A ALA* 3.4 3.6 + - - +
606A ALA* 3.2 38.1 - - + +
607A LYS 5.0 1.8 - - - +
609A THR* 4.0 27.4 - - + +
611A VAL* 3.3 29.6 - - + +
614A PHE* 4.2 14.4 - - + -
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Residues in contact with GLY 184 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180A TYR 2.8 14.1 + - - -
181A THR 3.6 3.8 - - - -
183A LEU* 1.3 78.1 - - - +
185A ARG* 1.3 59.0 + - - +
187A ALA* 3.0 12.0 + - - +
189A TYR* 2.9 35.9 + - - +
193A LEU* 4.0 6.7 - - - -
614A PHE* 3.9 19.7 - - - -
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Residues in contact with ARG 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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181A THR* 2.8 27.7 + - + +
182A ILE* 3.1 13.7 + - + +
184A GLY* 1.3 73.4 - - - +
186A ASN* 1.3 67.2 + - - +
188A GLY* 2.9 14.8 + - - -
189A TYR 3.3 16.3 + - - +
190A GLN* 3.6 31.6 + - - +
191A GLY 4.9 1.4 + - - -
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Residues in contact with ASN 186 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A ILE* 3.1 34.9 + - - +
183A LEU* 4.4 4.0 - - - +
184A GLY 3.2 0.4 - - - -
185A ARG* 1.3 76.9 - - - +
187A ALA* 1.3 59.6 + - - +
188A GLY* 3.6 0.3 + - - -
611A VAL* 3.6 32.2 - - + +
615A ARG* 5.8 0.2 - - - -
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Residues in contact with ALA 187 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A LEU 3.4 2.7 + - - +
184A GLY 3.0 13.4 + - - +
186A ASN* 1.3 78.3 - - - +
188A GLY* 1.4 55.9 + - - +
189A TYR 4.4 0.4 - - - +
611A VAL* 3.4 18.1 - - - +
614A PHE* 3.0 33.4 - - + +
615A ARG* 3.0 44.2 - - + +
616A GLY 5.2 0.3 + - - -
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Residues in contact with GLY 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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185A ARG* 2.9 13.7 + - - -
186A ASN 3.3 1.0 + - - -
187A ALA* 1.4 78.4 - - - +
189A TYR* 1.3 63.0 + - - +
190A GLN* 3.3 6.5 + - - +
614A PHE 6.0 0.2 - - - -
615A ARG* 6.2 0.4 - - - -
617A ILE 5.1 3.5 - - - +
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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) + - + + + + + -
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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