Contacts of the helix formed by residues 151 - 179 (chain A) in PDB entry 5X11
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 ASP 151 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A LEU* 4.2 23.3 - - + +
145A MET* 4.1 7.1 - - + +
149A SER* 3.0 11.3 + - - +
150A PRO* 1.3 90.2 - - - +
152A PHE* 1.3 64.2 + - - +
153A GLY 3.3 2.7 - - - -
154A HIS* 3.3 15.5 + - + +
155A TYR* 3.0 22.7 + - - +
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Residues in contact with PHE 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A MET* 4.0 7.9 - - - -
146A SER 3.2 26.5 - - - +
147A PHE* 3.8 28.9 - + - +
149A SER* 3.0 16.9 + - - +
150A PRO 3.5 1.2 - - - -
151A ASP* 1.3 76.9 - - - +
153A GLY* 1.3 58.0 + - - +
155A TYR* 3.2 26.0 + + - +
156A LEU* 2.9 48.8 + - + +
105B ILE* 3.8 42.4 - - + -
175B ILE* 4.1 11.2 - - + -
178B MET* 4.0 25.4 - - + -
179B ILE* 4.3 6.3 - - + -
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Residues in contact with GLY 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A PRO 5.2 1.0 + - - -
151A ASP* 3.3 0.8 - - - +
152A PHE* 1.3 78.9 - - - +
154A HIS* 1.3 61.3 + - - +
156A LEU* 3.0 14.3 + - - +
157A VAL* 3.0 17.7 + - - +
102B ALA 3.9 13.7 - - - -
103B TYR* 3.8 26.9 - - - -
105B ILE* 3.8 7.3 - - - +
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Residues in contact with HIS 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A GLU* 3.0 45.7 + - + +
134A SER 5.3 0.6 + - - -
138A LEU* 3.9 22.8 - - + +
151A ASP* 3.3 23.7 + - + +
153A GLY* 1.3 73.9 - - - +
155A TYR* 1.3 62.9 + - - +
157A VAL* 3.2 8.9 - - - +
158A LEU* 3.0 46.9 + - + +
103B TYR* 4.2 7.6 - - + -
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Residues in contact with TYR 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A TYR* 4.2 11.0 + + - -
138A LEU* 3.8 10.7 - - + +
139A MET* 3.5 33.4 - - + +
145A MET* 3.7 35.4 - - + -
151A ASP 3.0 13.2 + - - +
152A PHE* 3.2 21.5 - + - +
154A HIS* 1.3 77.9 - - - +
156A LEU* 1.3 64.7 + - + +
158A LEU* 3.8 0.9 - - - +
159A THR* 2.9 57.5 + - + +
175B ILE* 4.9 5.7 - - + +
178B MET* 3.9 29.7 - - + +
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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
----------------------------------------------------------
152A PHE* 2.9 44.5 + - + +
153A GLY* 3.0 6.2 + - - +
155A TYR* 1.3 79.5 - - + +
157A VAL* 1.3 61.3 + - - +
159A THR* 2.9 17.0 + - - -
160A LYS* 3.1 14.9 + - - +
99B MET* 4.0 2.2 - - - -
102B ALA* 3.5 39.5 - - + +
105B ILE* 4.0 25.8 - - + -
117B PHE* 4.1 6.3 - - + -
171B TRP* 3.5 9.8 - - + -
175B ILE* 3.4 35.2 - - + -
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Residues in contact with VAL 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A GLU* 3.7 37.5 - - + +
30A LEU* 5.1 5.2 - - + -
32A GLN* 5.1 0.5 - - - +
33A PHE* 3.4 19.3 - - + -
153A GLY 3.0 9.9 + - - +
154A HIS 3.2 14.6 - - - +
156A LEU* 1.3 76.7 - - - +
158A LEU* 1.3 57.1 + - - +
161A ALA* 3.0 30.5 + - - +
99B MET* 4.0 24.9 - - + +
103B TYR* 3.7 36.1 - - + +
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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
----------------------------------------------------------
29A GLU* 4.6 10.3 - - + -
32A GLN* 6.2 0.9 - - + -
131A LEU* 4.1 37.5 - - + +
134A SER* 3.7 32.3 - - - +
135A TYR* 3.9 14.6 - - + +
138A LEU* 3.8 13.7 - - + -
154A HIS* 3.0 45.3 + - + +
155A TYR* 3.8 4.5 - - - +
157A VAL* 1.3 74.9 - - - +
159A THR* 1.3 65.4 + - - +
161A ALA* 3.4 4.1 + - + +
162A LEU* 2.9 28.8 + - - +
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Residues in contact with THR 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A TYR* 4.3 13.2 - - + +
155A TYR* 2.9 58.3 + - + +
156A LEU* 2.9 16.8 + - - -
158A LEU* 1.3 71.8 - - - +
160A LYS* 1.3 54.4 + - - +
162A LEU* 3.2 9.9 + - + +
163A GLU* 2.8 37.0 + - - +
171B TRP* 3.0 20.3 + - - -
175B ILE* 4.9 2.0 - - + +
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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
----------------------------------------------------------
33A PHE* 3.5 20.8 - - + -
156A LEU 3.1 19.0 + - - +
157A VAL 3.9 0.7 - - - +
159A THR* 1.3 76.5 + - - +
161A ALA* 1.3 57.9 + - - +
163A GLU* 3.4 6.3 + - + +
164A ARG* 2.9 38.5 + - + +
99B MET* 3.5 20.9 - - + -
164B ARG 5.4 1.2 + - - -
167B ASN* 5.2 4.2 - - - +
168B TYR* 3.4 62.9 - - - +
171B TRP* 3.5 33.8 - - + +
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Residues in contact with ALA 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLN* 3.8 36.1 - - + +
33A PHE* 3.7 7.8 - - + -
131A LEU* 3.9 15.0 - - + -
157A VAL 3.0 18.6 + - - +
158A LEU* 3.7 5.6 - - + +
159A THR 3.4 0.2 - - - -
160A LYS* 1.3 76.8 - - - +
162A LEU* 1.3 61.5 + - - +
164A ARG* 3.3 8.7 + - - +
165A GLU* 3.1 28.8 + - - +
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Residues in contact with LEU 162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU* 3.7 27.4 - - + +
131A LEU* 4.2 15.2 - - + +
132A GLN* 4.0 35.0 - - - +
135A TYR* 3.6 45.3 - - + -
158A LEU* 2.9 16.6 + - + +
159A THR* 3.4 10.3 - - + +
161A ALA* 1.3 74.0 - - - +
163A GLU* 1.3 67.3 + - + +
165A GLU* 3.2 2.3 + - - -
166A LYS* 2.9 41.3 + - - +
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Residues in contact with GLU 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A THR* 2.8 30.0 + - - +
160A LYS* 3.7 8.7 - - + +
162A LEU* 1.3 72.7 - - - +
164A ARG* 1.3 56.5 + - - +
166A LYS* 3.9 24.6 + - - +
167A ASN* 3.0 32.4 + - - +
167B ASN* 5.1 13.9 - - + +
170B SER* 4.9 6.6 + - - -
171B TRP* 3.9 38.0 - - + +
174B SER* 5.8 0.2 + - - -
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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
----------------------------------------------------------
32A GLN* 2.8 51.3 + - - +
33A PHE* 3.0 33.5 - - - -
124A ARG* 6.2 0.2 - - - +
127A LYS* 4.3 4.6 - - - +
160A LYS* 2.9 27.3 + - - +
161A ALA* 3.3 6.8 - - - +
162A LEU 3.1 0.2 - - - -
163A GLU* 1.3 77.2 - - - +
165A GLU* 1.3 69.4 + - - +
167A ASN* 3.9 3.7 - - - +
168A TYR* 3.0 33.7 + - + +
92B GLU 4.3 4.8 + - - -
94B VAL* 3.4 34.0 + - - +
160B LYS* 5.6 0.7 + - - -
167B ASN* 6.2 1.3 - - - -
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Residues in contact with GLU 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ARG* 3.2 49.1 + - - +
127A LYS* 3.5 32.9 + - + +
128A LEU* 3.9 23.6 - - + +
131A LEU* 3.6 27.8 - - + -
161A ALA 3.1 6.5 + - - +
164A ARG* 1.3 90.6 + - - +
166A LYS* 1.3 56.0 + - - +
168A TYR* 3.0 2.3 + - - +
169A VAL* 2.7 40.8 + - - +
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Residues in contact with LYS 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU* 3.8 18.3 - - + +
132A GLN* 4.4 18.7 - - - +
162A LEU* 2.9 41.2 + - - +
163A GLU* 3.9 23.9 + - - +
165A GLU* 1.3 75.2 - - - +
167A ASN* 1.3 59.4 + - - +
169A VAL* 3.4 5.7 + - - +
170A SER* 2.9 31.8 + - - -
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Residues in contact with ASN 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A GLU 3.0 19.3 + - - +
164A ARG* 4.0 4.0 - - - +
166A LYS* 1.3 75.0 - - - +
168A TYR* 1.3 60.2 + - - +
170A SER* 4.1 5.4 - - - -
171A TRP* 3.1 28.6 + - - +
160B LYS* 5.1 3.2 + - - +
163B GLU* 5.6 11.0 - - + +
164B ARG* 6.3 1.1 - - - -
167B ASN* 4.5 18.6 - - + -
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Residues in contact with TYR 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A ASP* 2.5 34.2 + - - -
98A PHE* 3.4 27.6 - + - +
99A MET* 3.7 4.3 - - - +
120A GLN* 4.5 0.2 - - - -
124A ARG* 3.4 51.9 + - - -
164A ARG* 3.0 24.7 + - + +
165A GLU* 3.0 8.8 + - - +
167A ASN* 1.3 73.2 - - - +
169A VAL* 1.3 62.3 + - - +
171A TRP* 3.3 5.0 + + - +
172A LEU* 3.0 51.7 + - + +
160B LYS* 3.5 35.4 - - - +
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Residues in contact with VAL 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A LEU* 4.9 5.2 - - + +
124A ARG* 3.8 37.7 - - + +
125A LYS* 4.0 21.3 - - + +
128A LEU* 4.4 13.0 - - + -
165A GLU 2.7 25.5 + - - +
166A LYS* 3.8 4.9 - - - +
168A TYR* 1.3 73.0 - - - +
170A SER* 1.3 57.7 + - - +
172A LEU* 3.4 8.2 + - - +
173A GLU* 3.0 49.1 + - + +
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Residues in contact with SER 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A LYS 2.9 19.9 + - - -
167A ASN* 4.1 6.1 - - - -
169A VAL* 1.3 76.4 - - - +
171A TRP* 1.3 61.8 + - - +
173A GLU* 3.6 14.7 + - - +
174A SER* 3.2 25.3 + - - -
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Residues in contact with TRP 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A PHE* 4.0 6.3 - + - -
99A MET* 3.8 26.7 - - + -
102A ALA* 4.9 0.4 - - + -
117A PHE* 4.1 18.4 - + - -
167A ASN 3.1 20.6 + - - +
168A TYR* 3.6 4.5 - + - +
169A VAL 3.2 0.2 - - - -
170A SER* 1.3 75.3 - - - +
172A LEU* 1.3 103.1 + - + +
174A SER* 3.0 9.6 + - - -
175A ILE* 3.0 48.9 + - + +
156B LEU* 3.5 28.9 - - + -
159B THR* 3.3 20.9 + - - -
160B LYS* 3.5 32.1 - - + +
163B GLU* 4.3 24.7 - - + -
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Residues in contact with LEU 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A PHE* 3.7 32.5 - - + -
117A PHE* 3.8 16.7 - - + +
120A GLN* 3.8 33.0 - - + +
121A LEU* 3.9 18.8 - - + +
124A ARG* 4.0 7.0 - - + -
168A TYR* 3.0 41.6 + - + +
169A VAL* 3.8 5.6 - - - +
171A TRP* 1.3 88.9 - - + +
173A GLU* 1.3 57.2 + - - +
175A ILE* 4.0 2.9 - - - +
176A LEU* 2.9 34.9 + - + +
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Residues in contact with GLU 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A LEU* 5.8 6.3 - - + -
125A LYS* 5.3 6.2 - - - +
169A VAL* 3.0 37.3 + - + +
170A SER* 3.7 14.1 - - - +
171A TRP 3.2 0.2 - - - -
172A LEU* 1.3 74.1 - - + +
174A SER* 1.3 64.6 + - - +
176A LEU* 3.2 9.9 + - + +
177A ALA* 3.0 25.6 + - - +
----------------------------------------------------------
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Residues in contact with SER 174 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A SER* 3.2 12.0 + - - -
171A TRP* 3.0 12.9 + - - -
173A GLU* 1.3 79.7 - - - +
175A ILE* 1.3 69.2 + - - +
177A ALA* 3.6 6.2 + - - +
178A MET* 3.3 24.6 + - - +
----------------------------------------------------------
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Residues in contact with ILE 175 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ILE* 5.9 0.2 - - + -
117A PHE* 3.6 33.0 - - + -
171A TRP* 3.0 51.5 + - + +
172A LEU* 4.1 4.9 - - - +
174A SER* 1.3 81.8 - - - +
176A LEU* 1.3 65.9 + - - +
178A MET* 3.1 30.9 + - - +
179A ILE* 3.4 10.4 + - + +
152B PHE* 4.5 9.7 - - + -
155B TYR* 5.1 3.6 - - + -
156B LEU* 3.6 30.3 - - + -
159B THR* 4.7 4.7 - - - +
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Residues in contact with LEU 176 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A SER* 3.9 21.1 - - - +
117A PHE* 4.0 19.7 - - + +
118A THR* 3.6 39.5 - - + +
121A LEU* 4.3 12.3 - - + -
172A LEU 2.9 22.3 + - - +
173A GLU* 3.2 8.3 + - + +
175A ILE* 1.3 77.6 - - - +
177A ALA* 1.3 56.0 + - - +
179A ILE* 3.0 32.7 + - + +
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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
----------------------------------------------------------
173A GLU 3.0 15.9 + - - +
174A SER* 3.9 7.0 - - - +
175A ILE 3.3 0.2 - - - -
176A LEU* 1.3 75.8 - - - +
178A MET* 1.3 60.5 + - + +
179A ILE 3.2 4.7 + - - +
----------------------------------------------------------
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Residues in contact with MET 178 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ARG* 4.9 4.7 + - - -
174A SER* 3.3 16.4 - - - +
175A ILE* 3.1 18.8 + - - +
177A ALA* 1.3 77.1 - - + +
179A ILE* 1.3 58.6 + - - +
145B MET* 3.4 32.3 - - + +
146B SER* 4.6 4.5 - - - -
147B PHE* 4.3 16.0 + - - +
152B PHE* 4.5 17.9 - - + -
155B TYR* 3.9 36.3 - - + +
----------------------------------------------------------
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Residues in contact with ILE 179 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ARG* 5.2 21.8 - - + +
113A ALA* 5.9 2.5 - - + -
114A SER* 5.6 11.9 - - - +
175A ILE* 3.9 11.4 - - + +
176A LEU* 3.0 24.1 + - + +
177A ALA 4.1 4.3 - - - +
178A MET* 1.3 82.7 - - + +
147B PHE* 4.5 25.6 - - + -
152B PHE* 5.7 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