Contacts of the helix formed by residues 146 - 170 (chain A) in PDB entry 5SY1
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 ASN 146 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58A LEU* 5.1 2.4 - - - +
62A GLN* 3.8 23.8 - - - +
144A LEU* 3.7 24.9 + - - +
145A HIS* 1.3 76.4 - - - +
147A LYS* 1.3 64.0 + - - +
148A VAL* 3.7 22.5 - - + +
149A GLY* 3.0 19.4 + - - -
150A TYR* 3.2 25.4 - - - -
204A LEU* 5.4 0.7 - - - -
212A GLU* 3.5 17.7 - - + +
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Residues in contact with LYS 147 (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 ASN* 1.3 73.2 - - - +
148A VAL* 1.3 74.7 + - + +
149A GLY 3.6 0.2 + - - -
151A VAL* 3.3 33.7 + - + +
204A LEU* 4.6 12.6 - - + -
212A GLU* 3.1 20.3 + - - +
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Residues in contact with VAL 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A VAL* 5.1 3.1 - - + -
55A LEU* 5.7 1.8 - - + -
58A LEU* 3.8 31.0 - - + -
144A LEU* 5.9 0.4 - - + -
146A ASN* 3.2 19.4 - - + +
147A LYS* 1.3 89.0 - - + +
149A GLY* 1.3 63.7 + - - +
151A VAL* 4.3 1.3 - - - +
152A LEU* 3.3 42.0 + - + +
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Residues in contact with GLY 149 (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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55A LEU* 6.1 2.9 - - - -
141A CYS* 3.3 34.6 - - - +
144A LEU* 5.4 5.8 - - - -
146A ASN* 3.0 19.2 + - - -
148A VAL* 1.3 79.7 - - - +
150A TYR* 1.3 54.3 + - - +
152A LEU* 3.5 2.1 + - - -
153A GLY* 2.7 28.9 + - - -
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Residues in contact with TYR 150 (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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89A LEU* 6.1 0.4 - - + -
141A CYS* 5.0 10.3 - - + -
142A GLY* 4.7 5.3 + - - -
145A HIS* 2.5 60.4 + - + -
146A ASN 3.2 21.9 + - - -
148A VAL 3.5 0.2 - - - -
149A GLY* 1.3 75.7 - - - +
151A VAL* 1.3 60.6 + - - +
153A GLY* 4.0 2.9 - - - +
154A SER* 2.7 36.1 + - - -
200A TYR* 3.8 36.1 - + - +
203A LEU* 3.3 37.4 - - + +
204A LEU* 3.7 37.0 - - + -
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Residues in contact with VAL 151 (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 LYS* 3.3 31.8 + - + +
148A VAL* 4.3 1.8 - - - +
149A GLY 3.4 0.4 - - - -
150A TYR* 1.3 78.3 - - - +
152A LEU* 1.3 66.5 + - + +
153A GLY 3.4 0.2 + - - -
154A SER* 4.2 3.4 - - - -
155A LEU* 3.5 22.2 + - + +
204A LEU* 3.8 24.9 - - + -
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Residues in contact with LEU 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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51A VAL* 4.6 31.9 - - + -
54A VAL* 4.5 19.1 - - + -
55A LEU* 5.7 4.5 - - + -
141A CYS* 4.4 3.6 - - - -
148A VAL* 3.3 35.5 + - + +
149A GLY* 3.8 4.5 - - - +
151A VAL* 1.3 81.1 - - + +
153A GLY* 1.3 61.4 + - - +
154A SER 3.6 0.3 + - - -
155A LEU* 4.4 7.9 - - + +
156A LEU* 3.3 29.8 + - + +
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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
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138A LEU* 4.3 1.2 - - - +
141A CYS* 3.6 16.2 - - - -
149A GLY 2.7 21.7 + - - -
150A TYR* 3.3 1.8 + - - -
151A VAL 3.2 0.2 - - - -
152A LEU* 1.3 73.8 - - - +
154A SER* 1.3 64.7 + - - +
156A LEU* 3.6 6.1 + - - +
157A SER 3.2 14.6 + - - -
200A TYR* 3.2 28.9 - - - -
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Residues in contact with SER 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 TYR 2.7 26.4 + - - -
151A VAL* 4.2 4.4 - - - -
152A LEU 3.4 0.2 - - - -
153A GLY* 1.3 72.6 - - - +
155A LEU* 1.3 51.1 + - - +
157A SER* 2.6 25.5 + - - -
158A TRP* 2.7 40.0 + - - -
200A TYR* 3.4 7.0 + - - +
201A PRO* 3.4 33.3 - - - +
204A LEU* 5.1 3.3 - - - +
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Residues in contact with LEU 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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151A VAL 3.5 15.0 + - - +
152A LEU* 4.4 8.3 - - + +
153A GLY 3.4 0.6 - - - -
154A SER* 1.3 78.3 - - - +
156A LEU* 1.3 57.3 + - + +
158A TRP* 3.5 18.0 + - + +
159A THR* 2.5 43.4 + - - +
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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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44A ILE* 6.6 0.2 - - + -
47A ILE* 3.7 30.3 - - + -
48A SER* 5.9 1.6 - - - +
51A VAL* 4.3 18.2 - - + -
137A PRO* 4.2 28.7 - - + +
138A LEU* 3.8 21.1 - - + -
152A LEU* 3.3 19.3 - - + +
153A GLY* 3.6 4.5 + - - +
154A SER 3.2 0.8 - - - -
155A LEU* 1.3 82.8 - - + +
157A SER* 1.3 59.1 + - - +
159A THR* 3.1 7.8 + - + +
160A HIS* 3.0 47.8 + - + +
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Residues in contact with SER 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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138A LEU* 4.2 9.3 - - - +
153A GLY 3.2 8.7 + - - -
154A SER* 2.6 27.1 + - - -
156A LEU* 1.3 75.4 - - - +
158A TRP* 1.3 64.4 + - - +
160A HIS* 4.8 3.1 - - - +
161A PHE* 3.3 23.8 + - - +
193A LEU* 4.7 6.2 - - - +
196A LEU* 3.6 44.1 + - - -
197A SER* 4.1 7.5 - - - -
200A TYR* 4.3 4.4 - - - -
201A PRO* 5.2 0.3 - - - +
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Residues in contact with TRP 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 SER* 2.7 48.7 + - - -
155A LEU* 3.6 20.0 - - + +
156A LEU 3.2 0.2 - - - -
157A SER* 1.3 75.4 + - - +
159A THR* 1.3 52.8 + - - +
161A PHE* 3.5 15.8 + + - +
162A GLY* 2.8 31.2 + - - -
197A SER* 4.6 24.9 - - - -
198A PHE* 5.7 5.6 - + - -
201A PRO* 4.3 19.8 - - + +
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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
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44A ILE* 3.8 28.3 - - + -
155A LEU* 2.5 30.2 + - - +
156A LEU* 3.1 12.8 + - + +
158A TRP* 1.3 74.6 - - - +
160A HIS* 1.3 63.0 + - - +
162A GLY* 3.0 1.8 + - - -
163A ILE* 2.9 42.8 + - + +
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Residues in contact with HIS 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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44A ILE* 3.5 37.1 - - + +
134A LEU* 3.7 21.0 - - + +
135A TYR* 4.1 22.4 - + + +
138A LEU* 4.7 16.4 - - + +
156A LEU* 3.0 38.5 + - + +
157A SER* 4.9 1.6 - - - +
159A THR* 1.3 79.7 - - - +
161A PHE* 1.3 60.1 + - - +
163A ILE* 4.3 6.8 - - + +
164A LEU* 3.3 25.5 + - - +
193A LEU* 3.7 24.5 - - + +
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Residues in contact with PHE 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 SER 3.3 21.3 + - - +
158A TRP* 3.8 18.6 - + - +
159A THR 3.3 0.4 - - - -
160A HIS* 1.3 78.1 - - - +
162A GLY* 1.3 62.5 + - - +
164A LEU* 4.5 2.0 - - + +
165A VAL* 3.3 47.9 + - + +
190A ILE* 4.1 30.5 - - + -
193A LEU* 4.0 18.9 - - + +
194A ALA* 4.2 22.7 - - + -
197A SER* 5.2 9.0 - - - -
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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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158A TRP 2.8 16.2 + - - -
159A THR* 3.0 5.1 + - - -
161A PHE* 1.3 79.5 - - - +
163A ILE* 1.3 64.4 + - - +
165A VAL* 4.3 1.8 - - - +
166A TRP* 3.2 25.6 + - - +
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Residues in contact with ILE 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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37A GLU* 4.4 5.4 - - - +
40A PHE* 4.0 38.8 - - + -
44A ILE* 3.8 33.4 - - + -
159A THR* 2.9 26.6 + - + +
160A HIS* 4.4 7.2 - - + +
161A PHE 3.5 0.2 - - - -
162A GLY* 1.3 77.6 - - - +
164A LEU* 1.3 59.0 + - - +
166A TRP* 3.5 8.2 + - + +
167A GLN* 3.0 54.4 + - + +
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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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160A HIS 3.3 16.2 + - - +
161A PHE* 4.5 2.5 - - + +
163A ILE* 1.3 79.9 - - - +
165A VAL* 1.3 63.8 + - + +
167A GLN* 3.2 21.8 + - - +
168A LYS* 3.3 31.2 + - + +
186A SER* 4.7 12.8 - - - +
189A GLN* 3.9 39.0 - - + +
190A ILE* 3.7 31.0 - - + +
193A LEU* 4.3 9.4 - - + -
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Residues in contact with VAL 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 PHE* 3.3 51.8 + - + +
162A GLY* 4.4 2.2 - - - +
164A LEU* 1.3 76.4 - - + +
166A TRP* 1.3 63.7 + - - +
168A LYS* 3.1 6.7 + - - +
169A VAL* 3.1 33.0 + - + +
190A ILE* 4.5 18.4 - - + -
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Residues in contact with TRP 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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32A ASP* 4.7 7.6 - - + -
33A PRO* 3.6 43.9 - - + +
36A ASP* 5.6 2.2 - - + -
40A PHE* 4.2 22.9 - + - -
162A GLY 3.2 19.9 + - - +
163A ILE* 3.9 9.0 - - - +
164A LEU 3.3 0.2 - - - -
165A VAL* 1.3 78.8 - - - +
167A GLN* 1.3 60.4 + - + +
168A LYS 3.4 0.3 + - - -
169A VAL* 3.8 13.0 + - + +
170A ASP* 2.9 25.6 + - - +
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Residues in contact with GLN 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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33A PRO* 3.8 27.3 + - + +
34A THR* 5.7 1.1 - - - +
37A GLU* 2.4 40.0 + - - +
40A PHE* 4.9 1.4 - - - -
163A ILE* 3.0 35.2 + - + +
164A LEU* 3.6 15.1 - - - +
165A VAL 3.2 0.4 - - - -
166A TRP* 1.3 80.3 - - + +
168A LYS* 1.3 73.4 + - - +
170A ASP* 2.9 19.4 - - - +
171A CYS* 3.5 12.5 - - - -
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Residues in contact with LYS 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 LEU* 3.4 26.7 - - + +
165A VAL* 3.1 6.9 + - - +
167A GLN* 1.3 95.9 - - - +
169A VAL* 1.3 64.5 + - - +
170A ASP 3.2 7.0 - - - +
171A CYS* 4.7 11.6 + - - +
172A PRO* 3.9 18.3 + - + +
174A THR* 5.1 2.8 + - - -
182A ALA* 3.5 44.8 + - - +
183A LEU* 4.6 21.7 - - + +
186A SER* 4.7 8.6 + - - +
190A ILE* 4.8 14.4 - - + -
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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
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165A VAL* 3.1 30.6 + - + +
166A TRP* 3.8 12.3 + - + +
167A GLN 3.6 0.4 - - - -
168A LYS* 1.3 79.5 - - - +
170A ASP* 1.3 62.1 + - + +
172A PRO* 4.0 10.4 - - - +
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Residues in contact with ASP 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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31A CYS* 5.7 0.3 - - - -
33A PRO* 3.6 24.3 - - - +
166A TRP* 2.9 28.5 - - - +
167A GLN* 2.9 27.5 - - - +
168A LYS 3.2 3.8 - - - -
169A VAL* 1.3 83.2 - - + +
171A CYS* 1.3 73.2 + - - +
172A PRO* 3.5 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
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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