Contacts of the helix formed by residues 151 - 176 (chain A) in PDB entry 6J8G
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 TRP 151 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A PHE* 4.5 12.6 - + - -
149A PRO* 3.3 39.9 - - + +
150A ASP* 1.3 79.3 - - - +
152A THR* 1.3 81.0 + - - +
153A LYS 3.0 1.6 + - - -
154A ASN* 3.3 20.8 + - - +
155A VAL* 3.7 21.7 + - + +
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Residues in contact with THR 152 (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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142A PHE* 3.3 30.7 - - - -
145A MET* 5.7 0.6 - - - +
148A PRO* 3.2 27.1 - - + +
149A PRO* 2.4 38.8 + - - +
151A TRP* 1.3 98.2 - - - +
153A LYS* 1.3 67.7 + - - +
154A ASN 3.2 0.4 - - - -
155A VAL* 3.0 12.8 + - - +
156A GLU* 3.1 13.4 + - - +
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Residues in contact with LYS 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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150A ASP* 3.0 17.8 + - - +
151A TRP 3.0 1.0 - - - -
152A THR* 1.3 83.0 - - + +
154A ASN* 1.3 70.2 + - - +
156A GLU* 2.9 35.2 + - - +
157A TYR* 2.7 45.1 + - + +
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Residues in contact with ASN 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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150A ASP 5.6 0.2 + - - -
151A TRP* 3.3 12.1 + - - +
152A THR 3.2 0.6 - - - -
153A LYS* 1.3 82.3 - - - +
155A VAL* 1.3 64.4 + - + +
157A TYR* 3.0 39.5 + - + +
158A THR* 3.4 9.8 + - - -
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Residues in contact with VAL 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A PHE* 3.8 24.9 - - + -
151A TRP* 3.7 31.0 - - + +
152A THR 3.0 8.7 + - - +
154A ASN* 1.3 77.9 - - + +
156A GLU* 1.3 62.9 + - - +
158A THR* 3.2 18.8 + - - -
159A PHE* 3.4 38.8 + - + -
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Residues in contact with GLU 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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152A THR* 3.1 9.2 + - - +
153A LYS* 2.9 32.0 + - - +
155A VAL* 1.3 79.0 - - - +
157A TYR* 1.3 66.2 + - + +
159A PHE* 3.4 14.5 + - + +
160A THR* 3.4 18.2 + - - -
214A ARG* 5.8 3.9 + - - -
217A ARG* 3.2 36.3 + - - +
220A ARG* 4.6 3.7 + - - +
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Residues in contact with TYR 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 LYS* 2.7 48.4 + - + -
154A ASN* 3.0 28.3 + - + +
156A GLU* 1.3 83.3 - - + +
158A THR* 1.3 57.8 + - - +
160A THR* 2.1 39.9 - - + +
161A GLY* 2.9 5.0 + - - -
203A GLU* 5.8 3.9 + - - -
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Residues in contact with THR 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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154A ASN 3.4 8.3 + - - -
155A VAL* 3.2 14.0 + - - -
157A TYR* 1.3 74.2 - - - +
159A PHE* 1.3 69.9 + - + +
161A GLY* 2.9 3.5 + - - +
162A ILE* 2.8 42.2 + - + +
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Residues in contact with PHE 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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135A THR* 3.5 34.1 - - + -
138A THR* 4.2 13.9 - - + -
139A ASN* 3.8 43.7 - - - +
142A PHE* 4.1 17.9 - + + -
155A VAL* 3.4 37.3 + - + -
156A GLU* 3.7 12.6 - - + +
157A TYR 3.3 0.6 - - - -
158A THR* 1.3 84.0 - - + +
160A THR* 1.3 57.3 - - - +
162A ILE* 3.3 3.9 + - - +
163A TYR* 2.6 49.5 + - + -
220A ARG* 4.4 4.0 - - - +
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Residues in contact with THR 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 GLU 3.4 7.8 + - - -
157A TYR* 2.1 45.0 + - + +
159A PHE* 1.3 80.7 - - - +
161A GLY* 1.3 54.9 + - - +
163A TYR* 3.6 4.6 + - - +
164A THR* 2.8 36.3 + - - +
199A ALA* 3.5 24.0 - - - +
200A TYR* 3.9 16.5 - - + +
220A ARG* 4.1 12.9 - - - +
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Residues in contact with GLY 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 TYR 2.9 5.6 + - - -
158A THR* 2.9 5.9 + - - -
160A THR* 1.3 84.5 - - - +
162A ILE* 1.3 65.3 + - - +
164A THR* 3.0 21.9 + - - -
165A PHE* 3.1 11.4 + - - +
200A TYR* 5.3 0.7 - - - -
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Residues in contact with ILE 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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131A LEU* 4.4 20.0 - - + -
132A ILE* 4.3 17.0 - - + -
135A THR* 4.1 39.5 - - + +
158A THR* 2.8 35.2 + - + +
159A PHE 3.3 4.2 + - - +
161A GLY* 1.3 72.5 - - - +
163A TYR* 1.3 60.8 + - + +
165A PHE* 3.3 11.8 + - + +
166A GLU* 2.8 28.1 + - - +
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Residues in contact with TYR 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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132A ILE* 5.1 4.0 - - + -
135A THR* 4.4 12.4 + - + +
136A ILE* 3.6 33.3 + - + +
139A ASN* 3.3 18.6 + - - +
159A PHE* 2.6 33.7 + - + +
160A THR* 4.0 4.7 - - - +
161A GLY 3.3 0.2 - - - -
162A ILE* 1.3 76.6 - - + +
164A THR* 1.3 55.4 + - + +
166A GLU* 2.8 23.0 - - + +
167A SER* 2.6 39.1 + - - +
192A ASP* 5.5 2.0 - - - +
195A VAL* 5.2 7.6 - - + -
196A ILE* 5.0 12.3 - - + -
220A ARG* 3.8 36.9 - - + +
223A LYS* 3.9 26.5 - - + +
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Residues in contact with THR 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 THR 2.8 24.7 + - - +
161A GLY* 3.0 11.5 + - - -
163A TYR* 1.3 75.9 - - + +
165A PHE* 1.3 59.1 + - - +
167A SER* 4.0 5.6 - - - -
168A LEU* 2.4 43.2 + - - +
196A ILE* 5.0 7.4 - - + -
200A TYR* 2.6 45.5 + - + +
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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
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122A ILE* 5.2 10.8 - - + -
128A PHE* 4.2 21.8 - + - -
131A LEU* 6.0 3.1 - - + -
161A GLY 3.1 13.5 + - - +
162A ILE* 3.7 12.6 - - + +
164A THR* 1.3 83.5 + - - +
166A GLU* 1.3 64.4 + - + +
168A LEU* 4.3 14.1 - - + -
169A VAL* 3.0 50.1 + - + +
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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
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128A PHE* 3.6 17.4 - - + -
132A ILE* 2.4 53.2 - - + +
162A ILE* 2.8 13.2 + - + +
163A TYR* 2.8 38.2 - - - +
165A PHE* 1.3 77.1 - - + +
167A SER* 1.3 59.8 + - - +
169A VAL* 3.2 17.8 - - - +
170A LYS* 3.6 24.9 + - - +
192A ASP* 3.1 10.6 - - - +
223A LYS* 2.7 33.4 + - - -
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Residues in contact with SER 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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163A TYR* 2.6 23.9 + - - -
164A THR* 3.6 3.6 - - - -
166A GLU* 1.3 74.7 + - - +
168A LEU* 1.3 62.3 + - - +
170A LYS* 3.6 5.3 + - - +
171A ILE* 2.8 34.4 + - - +
183A PHE* 3.8 6.1 - - - -
192A ASP* 3.3 31.9 + - - +
196A ILE* 3.7 19.9 - - - +
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Residues in contact with LEU 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 THR* 2.4 34.2 + - - +
165A PHE* 3.8 13.5 - - + +
167A SER* 1.3 67.3 - - - +
169A VAL* 1.3 96.4 + - + +
171A ILE* 3.0 14.0 - - + +
172A LEU* 2.8 44.8 + - + +
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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
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119A SER* 4.2 8.1 + - - +
122A ILE* 4.1 27.4 - - + -
123A LEU* 5.0 6.7 - - - -
128A PHE* 4.2 19.1 - - + -
165A PHE* 3.0 33.4 + - + +
166A GLU 3.2 15.7 - - - +
168A LEU* 1.3 91.6 - - + +
170A LYS* 1.3 75.6 + - + +
172A LEU* 3.7 5.0 - - - +
173A ALA* 2.9 28.1 + - - +
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Residues in contact with LYS 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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123A LEU* 4.3 30.1 - - + -
128A PHE* 5.7 5.6 - - + -
166A GLU* 3.9 26.2 + - - +
167A SER* 3.6 7.9 + - - +
168A LEU 3.3 0.2 - - - -
169A VAL* 1.3 85.8 - - + +
171A ILE* 1.3 58.5 + - - +
174A ARG* 3.1 39.6 + - + +
183A PHE* 3.7 13.6 - - + -
189A ASN* 3.0 33.2 + - - +
192A ASP* 3.3 22.0 + - - +
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Residues in contact with ILE 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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167A SER* 2.8 15.7 - - - +
168A LEU* 3.0 23.1 - - + +
169A VAL 3.2 0.4 - - - -
170A LYS* 1.3 75.2 - - - +
172A LEU* 1.3 73.5 + - + +
175A GLY* 3.3 20.4 + - - -
176A PHE 4.6 0.2 + - - -
177A CYS 5.6 0.2 + - - -
180A GLU* 4.8 15.2 - - + +
183A PHE* 2.5 59.9 - - + -
193A PHE* 6.2 2.0 - - + -
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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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115A LEU* 4.7 18.2 - - + +
116A ARG* 4.4 6.2 + - + +
119A SER* 4.4 19.3 - - - +
168A LEU* 2.8 35.2 + - + +
169A VAL* 3.2 4.5 + - + +
171A ILE* 1.3 85.3 - - + +
173A ALA* 1.3 62.4 + - - +
176A PHE* 3.6 15.8 + - - -
177A CYS* 4.8 8.7 + - - +
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Residues in contact with ALA 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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116A ARG* 2.6 45.2 + - + +
119A SER* 2.9 24.7 - - - +
120A ILE* 4.1 26.9 - - + +
123A LEU* 4.2 13.5 - - + -
169A VAL 2.9 13.6 + - - +
172A LEU* 1.3 77.4 - - - +
174A ARG* 1.3 55.6 + - - +
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Residues in contact with ARG 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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116A ARG* 3.8 6.9 + - - +
120A ILE* 6.0 2.6 - - + +
123A LEU* 4.5 25.4 - - + +
170A LYS* 3.1 24.3 + - + +
173A ALA* 1.3 76.7 - - - +
175A GLY* 1.3 63.1 + - - +
176A PHE* 4.6 0.5 - - - +
181A PHE* 5.6 0.3 - - - +
182A THR* 2.3 86.2 + - - +
183A PHE* 3.5 15.0 - - + +
186A ASP* 5.2 9.5 + - - -
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Residues in contact with GLY 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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171A ILE 3.3 14.4 + - - -
174A ARG* 1.3 79.2 - - - +
176A PHE* 1.3 58.7 + - - +
177A CYS 2.9 3.4 - - - -
178A VAL* 2.6 38.9 + - - +
180A GLU* 3.4 30.6 - - - +
181A PHE* 4.2 1.4 + - - +
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Residues in contact with PHE 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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116A ARG* 2.6 53.8 - - + +
172A LEU 3.6 9.8 + - - -
174A ARG 4.6 0.4 - - - +
175A GLY* 1.3 76.7 - - - +
177A CYS* 1.3 69.5 + - - +
178A VAL* 2.9 26.4 - - + +
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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
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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