Contacts of the helix formed by residues 136 - 169 (chain A) in PDB entry 6KJV
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 SER 136 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A PRO* 1.3 74.8 - - - +
138A GLU* 4.7 0.7 - - - -
139A GLU* 3.6 25.5 - - - +
140A GLN* 3.4 19.8 + - - +
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Residues in contact with PRO 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A SER* 1.3 86.0 - - - +
138A GLU* 1.3 73.4 + - + +
140A GLN* 3.1 15.9 + - + +
141A LEU* 3.1 12.8 + - - +
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Residues in contact with GLU 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A SER* 5.9 0.4 - - - -
137A PRO* 1.3 84.5 - - + +
139A GLU* 1.3 62.3 + - - +
141A LEU* 3.3 7.4 + - - +
142A LEU* 3.0 23.9 + - - +
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Residues in contact with GLU 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A SER* 3.6 25.5 + - - +
137A PRO 3.2 0.6 - - - -
138A GLU* 1.3 78.7 - - - +
140A GLN* 1.3 61.7 + - - +
142A LEU* 3.3 7.1 + - - +
143A PHE* 3.0 26.7 + - - +
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Residues in contact with GLN 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A SER 3.4 11.7 + - - +
137A PRO* 3.1 11.9 + - + +
139A GLU* 1.3 78.6 - - - +
141A LEU* 1.3 64.6 + - - +
142A LEU 3.3 0.2 + - - -
143A PHE* 3.9 4.2 - - - +
144A LEU* 3.1 36.0 + - + +
382A ILE* 5.3 19.3 - - + -
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Residues in contact with LEU 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A PRO 3.1 10.1 + - - +
138A GLU* 3.8 9.0 - - - +
140A GLN* 1.3 79.7 - - - +
142A LEU* 1.3 63.0 + - - +
144A LEU* 3.5 6.8 + - - +
145A TYR* 3.0 22.5 + - - +
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Residues in contact with LEU 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A GLU 3.0 16.6 + - - +
139A GLU* 3.7 6.7 - - - +
141A LEU* 1.3 76.5 - - - +
143A PHE* 1.3 63.6 + - - +
145A TYR* 3.1 11.9 + - - +
146A ILE* 3.0 26.4 + - + +
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Residues in contact with PHE 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A GLU 3.0 18.3 + - - +
140A GLN* 4.0 4.5 - - - +
142A LEU* 1.3 76.0 - - - +
144A LEU* 1.3 69.1 + - + +
146A ILE* 3.0 24.4 + - + +
147A ILE* 3.1 32.1 + - + +
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Residues in contact with LEU 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A GLN* 3.1 26.3 + - + +
141A LEU* 3.9 5.8 - - - +
143A PHE* 1.3 80.4 - - + +
145A TYR* 1.3 63.1 + - - +
147A ILE* 3.1 24.0 - - + +
148A TYR* 3.0 24.7 + - - +
382A ILE* 4.8 17.9 - - + +
385A PHE* 3.8 42.4 - - + +
386A THR* 5.3 7.9 - - + +
388A LEU* 5.4 9.5 - - + +
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Residues in contact with TYR 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A LEU 3.0 14.8 + - - +
142A LEU* 3.1 13.0 + - - +
144A LEU* 1.3 76.8 - - - +
146A ILE* 1.3 79.5 + - + +
148A TYR* 3.3 9.5 + + + +
149A THR* 3.0 48.6 + - + +
198A ASP* 2.8 37.8 + - + -
201A LEU* 5.6 5.8 - - + -
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Residues in contact with ILE 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LEU* 3.0 20.2 + - + +
143A PHE* 3.0 18.8 + - + +
145A TYR* 1.3 96.8 - - + +
147A ILE* 1.3 66.9 + - + +
149A THR* 3.1 5.9 + - - +
150A VAL* 3.0 38.4 + - + +
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Residues in contact with ILE 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A PHE* 3.1 37.5 + - + +
144A LEU* 3.1 33.2 - - + +
146A ILE* 1.3 78.8 - - + +
148A TYR* 1.3 71.6 + - + +
150A VAL* 3.3 11.1 - - + +
151A GLY* 2.9 26.9 + - - -
388A LEU* 4.8 2.2 - - + -
389A SER* 3.6 39.0 - - - +
392A SER* 4.0 0.5 + - - -
393A PHE* 3.9 11.6 - - + -
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Residues in contact with TYR 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A LEU 3.0 17.9 + - - +
145A TYR* 3.5 9.4 - + - +
146A ILE 3.1 0.2 - - - -
147A ILE* 1.3 81.1 - - + +
149A THR* 1.3 72.7 + - + +
151A GLY 3.2 1.6 + - - -
152A TYR* 3.0 63.8 + + - -
194A VAL* 3.7 26.7 - - + +
233A MET* 4.9 5.2 - - - +
388A LEU* 3.5 49.6 - - + -
391A THR* 4.3 5.2 - - - -
392A SER* 3.5 9.0 - - - -
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Residues in contact with THR 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A TYR* 3.0 54.3 + - + +
146A ILE* 3.1 14.2 + - - +
148A TYR* 1.3 85.0 - - + +
150A VAL* 1.3 61.6 + - - +
152A TYR* 3.4 5.8 + - - +
153A ALA* 2.9 26.9 + - - +
194A VAL* 5.8 4.9 - - + -
195A PHE* 4.3 11.7 - - + -
198A ASP* 4.3 10.8 - - + +
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Residues in contact with VAL 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ILE* 3.0 35.5 + - + +
147A ILE* 3.3 15.3 - - + +
149A THR* 1.3 77.6 - - - +
151A GLY* 1.3 64.1 + - - +
153A ALA* 4.0 7.2 - - + -
154A LEU* 2.9 42.8 + - + +
393A PHE* 4.5 9.6 - - + -
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Residues in contact with GLY 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A ILE 2.9 16.6 + - - -
148A TYR 3.2 3.6 + - - -
150A VAL* 1.3 78.5 - - - +
152A TYR* 1.3 57.1 + - - +
154A LEU* 3.5 1.9 + - - +
155A SER* 2.9 32.4 + - - -
392A SER* 3.6 13.0 - - - -
393A PHE* 3.7 27.3 - - - -
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Residues in contact with TYR 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A TYR* 3.0 64.1 + + - +
149A THR* 4.0 3.4 - - - +
150A VAL 3.3 0.2 - - - -
151A GLY* 1.3 76.8 - - - +
153A ALA* 1.3 57.0 + - - +
155A SER* 3.8 6.0 - - - -
156A PHE* 2.8 32.1 + - - +
187A PHE* 5.5 1.1 - + - -
190A ARG* 3.4 36.3 + - + -
191A ALA* 3.8 24.3 - - + +
194A VAL* 3.8 24.7 - - + +
195A PHE* 3.5 19.4 - - + -
233A MET* 4.4 1.6 - - - +
391A THR* 3.3 22.0 + - - -
392A SER* 3.5 19.5 - - - -
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Residues in contact with ALA 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A THR 2.9 17.8 + - - +
150A VAL* 3.7 9.4 - - + +
151A GLY 3.3 0.2 - - - -
152A TYR* 1.3 74.7 - - - +
154A LEU* 1.3 69.5 + - + +
156A PHE* 3.3 2.2 + - - +
157A SER* 3.0 31.4 + - - +
195A PHE* 3.8 13.0 - - + -
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Residues in contact with LEU 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A VAL* 2.9 27.5 + - + +
151A GLY 4.0 2.7 - - - +
153A ALA* 1.3 81.7 - - + +
155A SER* 1.3 58.0 + - - +
157A SER* 4.0 4.6 - - - -
158A ALA* 2.9 33.4 + - - +
393A PHE* 4.0 22.0 - - + -
396A LEU* 4.3 22.2 - - + +
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Residues in contact with SER 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A GLY 2.9 23.3 + - - -
152A TYR* 3.8 9.2 - - - -
154A LEU* 1.3 74.4 - - - +
156A PHE* 1.3 60.1 + - - +
158A ALA* 3.8 0.3 - - - +
159A LEU* 2.8 40.2 + - - +
191A ALA* 5.8 1.3 - - - -
392A SER 2.9 17.8 + - - -
393A PHE* 3.8 0.3 - - - -
395A GLY* 3.9 7.9 - - - -
396A LEU* 2.9 36.2 + - - +
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Residues in contact with PHE 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A TYR 2.8 22.1 + - - +
153A ALA 3.8 3.6 - - - +
155A SER* 1.3 73.9 - - - +
157A SER* 1.3 69.5 + - - +
159A LEU* 3.9 5.1 - - - +
160A VAL* 3.0 47.0 + - + +
188A ILE* 3.7 24.0 - - + -
191A ALA* 4.0 22.1 - - + +
192A LEU* 3.5 30.7 - - + -
195A PHE* 3.9 18.4 - + + -
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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
----------------------------------------------------------
153A ALA* 3.0 17.4 + - - +
154A LEU* 4.0 4.3 - - - -
156A PHE* 1.3 84.8 - - - +
158A ALA* 1.3 57.6 + - - +
160A VAL* 3.4 3.4 + - - +
161A ILE* 2.9 43.7 + - - +
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Residues in contact with ALA 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A LEU 2.9 19.9 + - - +
155A SER 3.9 2.5 - - - +
157A SER* 1.3 76.1 - - - +
159A LEU* 1.3 58.5 + - - +
161A ILE* 3.4 4.4 + - - -
162A ALA* 2.8 31.2 + - - +
396A LEU* 3.7 24.2 - - + -
399A ALA* 3.9 13.7 - - + -
404A PHE* 3.6 16.5 - - + -
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Residues in contact with LEU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A SER* 2.8 26.2 + - - +
156A PHE* 3.9 2.0 - - - +
158A ALA* 1.3 73.6 - - - +
160A VAL* 1.3 60.6 + - - +
162A ALA* 3.9 1.2 - - - +
163A SER* 2.7 31.9 + - - -
184A PHE* 3.6 37.7 - - + -
187A PHE* 3.6 34.5 - - + +
188A ILE* 3.7 20.7 - - + +
191A ALA* 6.2 0.7 - - + -
395A GLY* 3.3 33.4 - - - +
398A VAL* 4.5 2.9 - - + -
399A ALA* 3.9 11.4 - - + +
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Residues in contact with VAL 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PHE* 3.0 45.5 + - + +
157A SER* 4.0 4.0 - - - +
159A LEU* 1.3 74.6 - - - +
161A ILE* 1.3 61.1 + - + +
163A SER* 2.9 8.8 + - - +
164A ALA* 2.9 31.1 + - + +
188A ILE* 3.9 18.4 - - + -
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Residues in contact with ILE 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A SER* 2.9 29.5 + - - +
158A ALA* 3.8 6.3 - - - +
160A VAL* 1.3 78.0 - - + +
162A ALA* 1.3 57.7 + - - +
164A ALA* 3.2 8.4 + - - +
165A ILE* 2.9 37.2 + - + +
404A PHE* 4.0 20.6 - - + -
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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
----------------------------------------------------------
158A ALA 2.8 18.6 + - - +
159A LEU* 3.9 3.1 - - - +
161A ILE* 1.3 74.7 - - - +
163A SER* 1.3 61.2 + - - +
165A ILE* 3.1 4.3 + - - +
166A LEU* 2.9 33.1 + - - +
184A PHE* 4.5 8.7 - - + -
399A ALA* 4.1 10.5 - - + -
403A CYS* 3.6 33.6 - - + -
404A PHE* 3.9 9.2 - - + -
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Residues in contact with SER 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A LEU 2.7 23.1 + - - -
160A VAL* 2.9 18.0 + - - +
162A ALA* 1.3 75.8 - - - +
164A ALA* 1.3 56.4 + - - +
166A LEU* 3.3 1.1 + - - +
167A LEU* 2.9 40.7 + - - +
181A LEU* 3.7 25.1 - - - -
184A PHE* 4.3 12.7 - - - -
188A ILE* 4.4 7.3 - - - +
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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
----------------------------------------------------------
160A VAL* 2.9 21.7 + - + +
161A ILE* 3.4 9.4 - - - +
163A SER* 1.3 78.4 + - - +
165A ILE* 1.3 57.3 + - + +
167A LEU* 4.2 5.7 - - - +
168A GLY* 2.8 27.7 + - - -
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Residues in contact with ILE 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A ILE* 2.9 28.1 + - + +
162A ALA 3.1 6.3 + - - +
164A ALA* 1.3 74.3 - - + +
166A LEU* 1.3 64.2 + - - +
167A LEU 3.2 0.3 + - - -
168A GLY* 3.3 8.7 + - - -
169A PHE* 3.3 41.1 + - + -
172A LEU* 3.6 11.0 - - + +
403A CYS* 4.1 17.7 - - - -
404A PHE* 4.0 26.5 - - + -
409A VAL* 4.3 4.5 - - + -
413A PHE* 3.6 33.9 - - + -
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Residues in contact with LEU 166 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A ALA 2.9 18.0 + - - +
163A SER 3.8 3.6 - - - +
165A ILE* 1.3 76.9 - - - +
167A LEU* 1.3 61.2 + - - +
169A PHE 3.6 11.6 - - - +
172A LEU* 3.8 25.0 - - + +
173A HIS* 3.8 6.9 + - - -
177A ASN* 3.9 49.6 - - + +
180A HIS* 4.1 8.7 - - + -
181A LEU* 4.1 14.7 - - + +
184A PHE* 3.5 30.3 - - + -
402A TYR 5.0 6.1 - - - +
403A CYS* 4.4 8.3 - - - -
406A ASN* 5.8 0.4 - - - +
409A VAL* 4.3 13.7 - - + -
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Residues in contact with LEU 167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A SER* 2.9 25.6 + - - +
164A ALA* 4.2 4.7 - - - +
166A LEU* 1.3 77.9 - - - +
168A GLY* 1.3 61.6 + - - +
173A HIS* 3.0 31.8 + - + +
178A TYR* 5.4 6.5 - - + -
181A LEU* 3.6 31.6 - - + -
----------------------------------------------------------
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Residues in contact with GLY 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A ALA 2.8 19.7 + - - -
165A ILE* 3.3 1.1 + - - -
167A LEU* 1.3 80.6 - - - +
169A PHE* 1.3 63.3 + - - +
170A ARG* 3.5 3.5 + - - +
173A HIS* 4.8 0.2 - - - -
----------------------------------------------------------
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Residues in contact with PHE 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A ILE* 3.3 47.6 + - + -
166A LEU 3.6 5.0 - - - +
168A GLY* 1.3 74.2 - - - +
170A ARG* 1.3 62.2 + - - +
171A HIS 4.5 0.4 - - - +
172A LEU* 3.4 25.1 + - + +
173A HIS* 3.0 17.8 + - - -
412A GLU* 3.7 43.1 - - + +
413A PHE* 3.9 32.5 - + - -
416A SER* 4.6 13.0 - - - -
----------------------------------------------------------
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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