Contacts of the helix formed by residues 149 - 172 (chain A) in PDB entry 2Q9Q
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 THR 149 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A MET* 5.6 2.9 - - - +
89A SER 4.5 0.3 + - - -
90A PRO* 2.6 37.7 + - - +
91A TYR* 4.5 0.9 - - - -
92A TYR* 4.2 18.8 - - + -
93A MET* 5.9 0.4 - - + -
94A GLU* 5.6 0.9 - - - +
121A TRP* 5.2 0.2 - - + -
124A ARG* 4.6 1.6 - - - -
147A ASN 3.7 0.6 + - - -
148A LEU* 1.3 74.8 - - - +
150A LEU* 1.3 56.6 + - - +
151A MET* 3.3 13.0 - - + +
152A GLU* 2.8 52.6 + - + +
153A ILE* 3.0 31.7 + - - +
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Residues in contact with LEU 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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1A MET* 4.3 12.8 - - - -
6A VAL* 3.8 29.2 - - + -
9A LEU* 4.3 24.2 - - + -
90A PRO 4.4 1.9 + - - +
91A TYR* 4.4 19.7 - - + +
149A THR* 1.3 77.5 + - - +
151A MET* 1.3 57.9 + - - +
153A ILE* 4.4 14.1 - - + -
154A ASN* 2.9 42.5 + - + +
35B MET* 4.5 9.2 - - + -
39B PHE* 5.8 2.9 - - + -
203B GLN* 5.7 1.2 + - - -
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Residues in contact with MET 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A ALA* 3.3 35.9 - - + +
6A VAL* 3.8 26.7 - - + +
90A PRO 5.5 0.2 + - - -
93A MET* 4.7 6.5 - - + -
94A GLU* 3.5 23.6 + - + +
121A TRP* 3.9 19.7 - - + -
149A THR* 3.3 10.8 - - + +
150A LEU* 1.3 78.5 - - - +
152A GLU* 1.3 55.3 + - - +
154A ASN* 4.0 1.5 - - - -
155A THR* 2.7 41.7 + - - -
186D PHE* 3.6 10.3 - - + -
189D TRP* 3.3 35.2 - - + -
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Residues in contact with GLU 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A TYR* 2.8 22.6 + - - -
121A TRP* 3.6 25.1 - - + -
124A ARG* 2.7 50.9 + - - +
125A ILE* 4.4 12.2 - - + +
128A LEU* 4.2 6.6 - - + +
148A LEU* 3.8 12.9 - - + +
149A THR* 2.8 36.0 + - + +
151A MET* 1.3 74.8 - - - +
153A ILE* 1.3 66.5 + - - +
155A THR* 3.3 9.9 + - - -
156A SER* 3.4 17.5 + - - -
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Residues in contact with ILE 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU* 5.5 3.8 - - - -
145A LEU* 3.8 17.0 - - + -
148A LEU* 3.8 19.3 - - + -
149A THR 3.0 24.2 + - - +
150A LEU* 3.8 15.0 - - + +
152A GLU* 1.3 74.7 - - - +
154A ASN* 1.3 60.1 + - - +
157A GLY* 2.8 34.2 + - - +
172B PHE* 3.7 41.1 - - + -
203B GLN* 3.5 29.4 - - - +
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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
----------------------------------------------------------
1A MET* 2.9 52.9 + - - +
2A ASP* 3.9 5.4 - - - -
3A ALA* 4.3 1.6 + - - -
6A VAL* 3.9 15.3 - - + +
150A LEU* 2.9 24.5 + - + +
151A MET* 4.1 3.5 - - - +
153A ILE* 1.3 80.6 - - - +
155A THR* 1.3 60.1 - - - +
156A SER 3.7 0.2 + - - -
157A GLY* 4.2 2.6 + - - -
158A THR* 4.4 14.9 + - - -
39B PHE* 4.2 15.0 - - - -
182D GLY* 5.5 1.9 - - - -
185D ASP* 5.3 0.3 - - - +
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Residues in contact with THR 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A ALA* 5.6 0.7 - - - +
121A TRP* 3.7 23.6 - - + -
125A ILE* 5.2 5.2 - - + -
151A MET* 2.7 26.1 + - - -
152A GLU 3.3 4.2 + - - -
154A ASN* 1.3 79.0 - - - +
156A SER* 1.3 62.9 + - - +
158A THR 5.4 0.2 - - - -
154D GLN* 4.7 3.4 + - - +
179D GLY* 4.9 2.4 - - - +
182D GLY* 3.6 40.0 + - - +
183D LEU* 4.1 12.7 + - + -
186D PHE* 3.8 23.0 - - + +
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Residues in contact with SER 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A ILE* 4.7 8.8 - - - +
128A LEU* 3.3 28.7 - - - +
152A GLU 3.4 4.7 + - - -
155A THR* 1.3 77.7 - - - +
157A GLY* 1.3 63.5 + - - +
158A THR 3.4 2.9 - - - +
159A PHE* 3.4 11.2 + - - +
160A LEU* 3.4 19.4 + - - +
150D MET* 4.5 11.9 - - - +
154D GLN* 2.9 33.7 + - - +
179D GLY* 6.2 1.1 - - - -
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Residues in contact with GLY 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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128A LEU* 5.9 0.2 - - - +
152A GLU 4.5 0.2 + - - -
153A ILE* 2.8 22.8 + - - -
154A ASN* 4.2 0.6 + - - -
155A THR 3.7 0.6 - - - -
156A SER* 1.3 74.9 + - - +
158A THR* 1.3 60.3 + - - +
159A PHE 3.1 2.0 - - - -
160A LEU* 3.9 3.3 - - - -
161A THR* 3.0 36.4 + - - +
172B PHE* 3.8 20.1 - - - -
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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
----------------------------------------------------------
153A ILE 4.6 0.2 + - - -
154A ASN* 4.4 15.1 + - - -
155A THR 6.2 0.4 - - - -
156A SER* 3.4 0.8 - - - +
157A GLY* 1.3 75.0 - - - +
159A PHE* 1.3 62.2 + - - +
161A THR* 3.3 6.9 + - - +
162A GLN* 3.0 46.0 + - + +
178D THR* 3.4 22.4 - - + -
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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
----------------------------------------------------------
156A SER* 3.4 14.3 + - - +
157A GLY 3.1 0.4 - - - -
158A THR* 1.3 78.4 - - - +
160A LEU* 1.3 70.7 + - - +
162A GLN* 3.4 3.6 + - - +
163A ALA* 3.0 22.3 + - + +
146D PHE* 3.6 23.6 - + - -
149D ILE* 3.9 13.0 - - + -
150D MET* 3.4 52.0 - - + -
153D SER* 3.6 15.5 - - - -
154D GLN* 5.5 1.6 - - + +
175D LEU* 3.3 46.5 - - + +
178D THR* 3.8 7.0 - - - +
179D GLY* 3.6 22.9 - - - -
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Residues in contact with LEU 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU* 5.5 9.9 - - + -
132A ALA* 4.1 22.2 - - + +
135A PHE* 5.1 5.8 - - + -
136A VAL* 4.4 3.8 - - + -
156A SER 3.4 9.8 + - - +
157A GLY* 3.5 7.6 + - - +
158A THR 3.4 0.2 - - - -
159A PHE* 1.3 87.4 - - + +
161A THR* 1.3 57.1 + - + +
163A ALA* 3.3 1.9 + - - +
164A LEU* 2.9 57.0 + - + +
172B PHE* 4.7 9.9 - - + -
205B LEU* 4.0 21.1 - - + -
146D PHE* 4.0 24.5 - - + -
150D MET* 5.1 4.9 - - + -
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Residues in contact with THR 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 GLY 3.0 19.4 + - - +
158A THR* 3.3 11.3 + - - +
160A LEU* 1.3 72.8 - - - +
162A GLN* 1.3 67.6 + - - +
164A LEU* 3.8 6.5 - - - +
165A ASN* 2.9 39.2 + - - +
170B TYR* 3.7 35.2 + - + +
171B VAL* 4.7 0.2 - - - -
172B PHE* 3.4 27.6 - - + -
205B LEU* 4.1 6.3 - - + -
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Residues in contact with GLN 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 THR* 3.0 39.4 + - + +
159A PHE* 3.8 0.4 - - - +
161A THR* 1.3 81.8 + - - +
163A ALA* 1.3 62.6 + - - +
165A ASN* 3.4 21.6 + - - +
166A HIS* 3.2 44.1 + - + -
175D LEU* 3.7 20.0 - - + -
178D THR* 4.6 9.9 - - - +
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Residues in contact with ALA 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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159A PHE* 3.0 18.2 + - + +
160A LEU* 3.6 5.6 - - + +
161A THR 3.2 0.2 - - - -
162A GLN* 1.3 77.8 - - - +
164A LEU* 1.3 63.3 + - + +
166A HIS* 3.3 1.6 + - - -
167A MET* 3.0 29.8 + - - +
142D PHE* 3.6 18.4 - - + -
146D PHE* 3.6 32.5 - - + -
175D LEU* 3.8 11.4 - - + +
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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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135A PHE* 3.5 39.7 - - + -
136A VAL* 4.2 18.6 - - + -
140A GLU 4.9 2.5 - - - +
160A LEU* 2.9 30.2 + - + +
161A THR 3.8 2.7 - - - +
162A GLN 3.3 0.2 - - - -
163A ALA* 1.3 74.8 - - - +
165A ASN* 1.3 65.0 + - - +
167A MET* 3.3 13.6 + - + +
168A TYR* 2.9 24.8 + - - +
170B TYR* 3.6 38.7 + - + -
205B LEU* 3.8 24.9 - - + -
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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 THR* 2.9 27.2 + - - +
162A GLN* 3.4 28.9 + - - +
163A ALA 3.3 0.2 - - - -
164A LEU* 1.3 75.9 - - - +
166A HIS* 1.3 67.8 + - + +
168A TYR* 3.2 9.4 + - - +
169A LYS* 3.2 29.7 + - - +
166B ASP* 6.0 1.1 - - - +
168B ASP 3.7 5.5 - - - +
169B SER* 3.3 24.1 + - - -
170B TYR* 2.8 32.6 + - - +
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Residues in contact with HIS 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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162A GLN* 3.2 31.5 + - - -
163A ALA 3.6 5.8 - - - +
164A LEU 3.3 0.2 - - - -
165A ASN* 1.3 81.0 - - + +
167A MET* 1.3 57.9 + - - +
169A LYS* 3.2 7.2 + - + +
170A LEU* 2.9 33.6 + - + +
13D LEU* 3.7 29.0 - - + +
142D PHE* 4.4 7.4 - - + -
171D MET* 3.7 35.3 - - + +
175D LEU* 4.3 22.9 - - + +
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Residues in contact with MET 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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136A VAL* 3.5 56.8 - - + +
139A GLN* 4.4 12.3 - - + +
163A ALA* 3.0 19.0 + - - +
164A LEU* 3.3 15.7 + - + +
166A HIS* 1.3 76.5 - - - +
168A TYR* 1.3 52.7 + - - +
170A LEU* 3.6 2.8 - - - +
171A ARG* 2.7 38.1 + - - +
139D LEU* 3.9 16.5 - - + +
142D PHE* 3.4 30.5 - - + -
143D ILE* 3.9 16.2 - - + -
146D PHE* 5.5 0.4 - - - -
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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
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164A LEU 2.9 13.2 + - - +
165A ASN* 3.3 11.7 - - - +
167A MET* 1.3 78.6 - - - +
169A LYS* 1.3 69.5 + - + +
171A ARG* 3.4 4.7 + - + +
172A THR* 2.8 44.4 + - + +
168B ASP* 3.5 40.5 + - + +
170B TYR* 4.2 18.2 - + + +
186B PRO 3.3 26.7 - - - -
187B ASP* 3.9 17.5 + - + -
188B THR* 5.1 4.2 - - - +
207B ARG* 3.6 34.4 + - - -
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Residues in contact with LYS 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A ASN* 3.2 19.5 + - - +
166A HIS* 3.5 9.4 - - + +
168A TYR* 1.3 85.5 - - + +
170A LEU* 1.3 57.1 + - - +
172A THR* 3.1 8.1 + - - +
173A ASN* 3.0 30.0 + - - +
166B ASP* 2.9 35.9 + - - -
168B ASP* 4.6 14.7 + - - +
13D LEU* 3.5 34.0 - - + +
14D GLY* 4.5 18.0 - - - -
15D PRO* 5.9 2.6 - - + +
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Residues in contact with LEU 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A HIS* 2.9 23.1 + - + +
167A MET 3.8 3.8 - - - +
169A LYS* 1.3 75.8 - - - +
171A ARG* 1.3 60.4 + - - +
172A THR 3.4 0.3 + - - -
173A ASN* 3.4 29.8 + - - +
13D LEU* 4.2 16.2 - - + -
117D TYR* 4.3 11.4 - - + -
121D SER* 4.0 20.6 - - - +
135D SER* 4.0 5.7 + - - +
138D LEU* 4.2 20.6 - - + +
139D LEU* 3.8 30.9 - - + +
142D PHE* 4.2 30.3 - - + -
171D MET* 4.8 5.4 - - + -
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Residues in contact with ARG 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A GLN* 2.8 46.8 + - - +
167A MET 2.7 22.5 + - - +
168A TYR* 3.8 7.6 - - + +
169A LYS 3.2 0.2 - - - -
170A LEU* 1.3 73.5 - - - +
172A THR* 1.3 59.1 + - + +
173A ASN* 3.7 0.4 - - - -
174A LEU 5.4 0.2 + - - -
186B PRO 5.4 1.6 - - - +
187B ASP* 2.8 34.0 + - + +
188B THR* 5.5 0.7 + - - -
189B ASP* 5.7 2.2 + - - +
192B ARG* 3.4 32.3 - - - +
139D LEU* 4.0 17.2 - - + +
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Residues in contact with THR 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A TYR* 2.8 38.1 + - + +
169A LYS* 3.1 8.4 + - - +
171A ARG* 1.3 84.5 - - + +
173A ASN* 1.3 61.7 + - - +
174A LEU 3.2 4.5 + - - +
175A GLN* 3.4 18.6 + - - +
187B ASP* 3.8 26.7 - - + -
188B THR* 3.9 26.5 - - + +
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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
------------------------------------------------------------
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