Contacts of the helix formed by residues 145 - 169 (chain A) in PDB entry 5HKZ
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 145 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139A ARG* 2.8 33.1 + - - -
142A GLU* 3.0 19.2 + - - +
143A GLU 3.4 0.8 - - - -
144A ASN* 1.3 79.9 - - - +
146A GLN* 1.3 65.5 + - - +
147A PRO* 3.5 7.7 - - - +
148A ARG 3.1 14.9 + - - -
149A ARG* 2.9 22.4 + - - +
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Residues in contact with GLN 146 (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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144A ASN 4.0 0.4 + - - -
145A SER* 1.3 71.8 - - - +
147A PRO* 1.3 68.1 - - + +
149A ARG* 3.3 6.7 + - - +
150A ASN* 2.9 39.9 + - - +
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Residues in contact with PRO 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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132A LEU* 3.5 32.0 - - + +
136A GLY* 4.0 19.7 - - - -
139A ARG* 4.2 14.4 - - + -
140A MET* 3.5 23.7 - - + +
145A SER* 3.5 13.9 - - - +
146A GLN* 1.3 94.6 - - + +
148A ARG* 1.3 53.9 + - - +
150A ASN* 3.3 1.2 + - - +
151A LEU* 2.9 28.1 + - - +
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Residues in contact with ARG 148 (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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75A LEU* 3.5 28.2 + - - +
76A ALA 4.5 5.9 + - - -
77A LEU* 3.9 24.3 - - - +
78A LYS* 5.5 1.8 - - - +
140A MET* 2.9 59.6 + - + +
141A TYR 4.1 12.1 + - - -
142A GLU 3.3 12.9 + - - +
143A GLU* 3.4 34.4 + - - +
145A SER* 3.1 11.4 + - - +
147A PRO* 1.3 75.0 - - - +
149A ARG* 1.3 66.2 + - - +
151A LEU* 3.2 10.1 + - - +
152A THR* 3.0 28.1 + - - -
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Residues in contact with ARG 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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143A GLU 5.1 0.9 - - - +
144A ASN* 4.0 19.3 - - + +
145A SER 2.9 21.0 + - - +
146A GLN* 3.7 6.1 - - - +
148A ARG* 1.3 76.4 - - - +
150A ASN* 1.3 66.0 + - - +
152A THR* 3.2 8.4 + - - -
153A LYS* 3.0 21.7 + - - +
276A GLU* 5.3 8.1 - - - +
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Residues in contact with ASN 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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132A LEU* 3.7 28.8 - - + +
146A GLN* 2.9 29.5 + - - +
147A PRO* 3.6 5.8 - - - +
148A ARG 3.3 0.2 - - - -
149A ARG* 1.3 78.7 - - - +
151A LEU* 1.3 56.9 + - - +
153A LYS* 3.3 8.1 + - - +
154A LEU* 2.9 34.2 + - + +
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Residues in contact with LEU 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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70A CYS* 4.6 2.0 - - - -
77A LEU* 4.1 32.5 - - + -
84A ILE* 4.0 17.5 - - + -
129A THR* 3.8 28.5 - - + -
132A LEU* 3.6 9.8 - - + +
133A PHE* 4.2 18.2 - - + -
140A MET* 3.9 22.2 - - + -
147A PRO 2.9 17.4 + - - +
148A ARG* 3.5 9.6 - - - +
149A ARG 3.2 0.4 - - - -
150A ASN* 1.3 72.9 - - - +
152A THR* 1.3 61.7 + - - +
154A LEU* 3.4 3.2 + - + -
155A SER* 2.8 35.9 + - - +
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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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82A PRO* 4.8 0.8 - - + +
148A ARG* 3.0 14.5 + - - -
149A ARG* 3.6 9.3 - - - -
151A LEU* 1.3 76.3 - - - +
153A LYS* 1.3 65.5 + - - +
155A SER* 3.1 8.9 + - - -
156A LEU* 3.0 22.0 + - - +
271A PHE 6.0 0.4 - - - +
273A THR* 3.7 18.6 - - + +
276A GLU* 3.6 36.7 + - + +
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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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149A ARG 3.0 13.3 + - - +
150A ASN* 3.7 11.0 - - - +
152A THR* 1.3 75.8 - - - +
154A LEU* 1.3 59.5 + - + +
156A LEU* 3.2 10.4 + - - +
157A ILE* 3.0 47.6 + - + +
232A CYS* 4.0 6.4 - - - -
271A PHE* 3.6 55.8 - - + +
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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
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125A LYS* 3.9 35.2 - - + +
128A GLN* 4.1 18.4 - - + +
129A THR* 3.6 33.2 - - + +
132A LEU* 3.8 22.9 - - + -
150A ASN* 2.9 22.3 + - + +
151A LEU* 3.7 7.2 - - + +
152A THR 3.3 0.2 - - - -
153A LYS* 1.3 74.3 - - + +
155A SER* 1.3 61.3 + - - +
157A ILE* 3.1 11.6 + - + +
158A PHE* 2.8 40.5 + - + -
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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
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82A PRO* 3.6 26.8 + - - +
84A ILE* 3.7 27.1 + - - +
87A LEU* 3.3 12.9 - - - +
151A LEU* 2.8 28.6 + - - +
152A THR* 3.1 9.1 + - - -
154A LEU* 1.3 77.9 - - - +
156A LEU* 1.3 61.1 + - - +
158A PHE* 3.3 9.9 + - - +
159A SER 3.0 17.7 + - - -
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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
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82A PRO* 3.9 17.8 - - + +
152A THR* 3.0 12.5 + - + +
153A LYS* 3.5 10.5 - - - +
155A SER* 1.3 77.9 - - - +
157A ILE* 1.3 61.0 + - - +
159A SER* 3.1 5.1 + - - -
160A HIS* 3.0 46.2 + - + +
271A PHE* 3.4 51.6 - - + +
272A LEU 3.8 9.6 - - - +
273A THR* 4.3 10.3 - - + -
295A LEU 5.9 1.3 - - - +
297A CYS* 3.7 30.1 - - + -
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Residues in contact with ILE 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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125A LYS* 3.8 32.8 - - + -
153A LYS* 3.0 43.3 + - + +
154A LEU* 3.6 14.6 - - + +
156A LEU* 1.3 76.0 - - - +
158A PHE* 1.3 62.1 + - - +
160A HIS* 3.2 3.0 + - - +
161A MET* 2.9 31.9 + - - +
230A LEU 4.2 9.6 - - - +
231A THR 3.8 17.5 - - - +
232A CYS* 3.7 27.1 - - + -
271A PHE* 4.5 4.9 - - + -
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Residues in contact with PHE 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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84A ILE* 4.0 25.4 - - + -
87A LEU* 4.3 17.2 - - + +
88A LEU* 3.8 23.1 - - + -
91A THR* 4.9 4.2 + - - +
122A LEU* 3.9 26.2 - - + -
125A LYS* 3.8 32.3 - - + -
126A THR* 3.9 9.6 - - - -
129A THR* 3.5 25.8 - - - -
154A LEU* 2.8 36.3 + - + +
155A SER* 3.3 5.4 + - - +
157A ILE* 1.3 72.1 - - + +
159A SER* 1.3 57.6 + - - +
161A MET* 3.4 12.8 + - + +
162A LEU* 3.0 30.1 + - - +
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Residues in contact with SER 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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82A PRO* 4.0 10.8 - - - +
87A LEU* 3.7 26.8 - - - +
155A SER 3.0 13.2 + - - -
156A LEU* 3.1 10.5 + - - -
158A PHE* 1.3 78.1 - - - +
160A HIS* 1.3 64.5 + - - +
162A LEU* 3.4 3.5 + - - +
163A ALA* 3.1 23.2 + - - +
297A CYS* 3.8 26.7 + - - -
298A THR* 5.7 0.3 - - - +
300A LEU* 5.7 0.2 - - - -
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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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156A LEU* 3.0 43.6 + - + +
157A ILE 3.6 5.2 - - - +
159A SER* 1.3 79.4 + - - +
161A MET* 1.3 55.9 + - - +
163A ALA* 3.4 2.6 + - - +
164A GLU* 3.0 29.3 + - - +
230A LEU* 3.4 57.7 - - + +
231A THR* 4.1 4.2 - - + +
239A PHE* 4.5 3.3 - - - -
271A PHE* 4.2 12.9 - + - -
295A LEU* 5.1 6.3 - - + +
296A SER 5.3 0.4 - - - -
297A CYS* 4.7 9.1 + - + -
300A LEU* 3.9 34.4 - - + +
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Residues in contact with MET 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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118A PHE* 3.4 32.6 - - + +
121A ASN* 3.6 23.8 - - + +
122A LEU* 3.6 47.6 - - + +
125A LYS* 4.5 4.9 - - - -
157A ILE* 2.9 32.9 + - + +
158A PHE* 3.6 17.7 - - + +
160A HIS* 1.3 76.2 - - - +
162A LEU* 1.3 56.6 + - - +
164A GLU* 3.3 2.4 + - - +
165A LEU* 2.9 25.1 + - - +
231A THR* 3.7 27.6 - - + -
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Residues in contact with LEU 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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87A LEU* 3.9 24.2 - - + +
90A ASP* 3.7 28.5 - - + +
91A THR* 3.6 35.8 + - + +
94A HIS* 4.6 5.4 - - + -
118A PHE* 5.3 1.3 - - - -
158A PHE 3.0 17.1 + - - +
159A SER* 3.7 5.8 - - - +
161A MET* 1.3 75.9 - - - +
163A ALA* 1.3 62.4 + - - +
165A LEU* 3.3 7.7 + - + +
166A LYS* 3.0 54.1 + - + +
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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 SER 3.1 16.2 + - - +
160A HIS 3.7 1.3 - - - +
161A MET 3.3 0.2 - - - -
162A LEU* 1.3 76.7 - - - +
164A GLU* 1.3 58.0 + - - +
166A LYS* 3.3 8.2 + - - +
167A GLY 2.9 23.0 + - - -
239A PHE* 3.6 13.6 - - + -
297A CYS 6.0 0.9 - - - +
300A LEU* 3.6 31.9 - - + -
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Residues in contact with GLU 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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114A TYR* 2.7 35.6 + - + +
118A PHE* 4.0 9.4 - - - -
160A HIS 3.0 17.0 + - - +
161A MET 3.6 3.1 - - - +
163A ALA* 1.3 74.5 - - - +
165A LEU* 1.3 66.1 + - - +
167A GLY* 3.0 2.3 + - - -
168A ILE* 3.0 28.8 + - + +
199A ILE* 5.6 0.7 - - - +
231A THR* 3.9 18.3 + - + +
233A ASN* 5.2 5.5 + - - -
237A SER* 2.6 30.9 + - - +
239A PHE* 3.7 27.4 - - + -
240A GLU* 3.6 17.2 - - - +
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Residues in contact with LEU 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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91A THR* 4.7 7.0 - - + -
94A HIS* 3.7 29.8 - - + -
95A LEU* 4.0 25.1 - - + -
98A ILE* 3.9 15.5 - - + -
114A TYR* 3.4 13.8 + - + +
115A PHE* 4.8 2.7 - - + -
118A PHE* 3.9 36.1 - - + -
161A MET 2.9 18.0 + - - +
162A LEU* 3.6 8.7 - - + +
164A GLU* 1.3 76.3 - - - +
166A LYS* 1.3 57.8 - - - +
168A ILE 3.4 0.3 + - - -
169A PHE* 2.8 43.5 + - + +
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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
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90A ASP* 4.3 17.2 + - - -
94A HIS* 3.9 40.4 - - + +
162A LEU* 3.0 50.6 + - + +
163A ALA* 3.8 6.5 - - - +
165A LEU* 1.3 73.3 - - - +
167A GLY* 1.3 61.9 + - - +
169A PHE 4.2 0.4 - - - -
170A PRO* 3.0 32.1 - - + +
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Residues in contact with GLY 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 ALA 2.9 14.6 + - - -
164A GLU 3.0 4.4 + - - -
166A LYS* 1.3 77.0 - - - +
168A ILE* 1.3 65.0 + - - +
170A PRO* 3.8 9.6 - - - +
175A GLN* 5.3 2.4 - - - +
179A PHE* 3.8 18.0 - - - -
239A PHE* 4.2 16.4 - - - -
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Residues in contact with ILE 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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114A TYR* 3.9 25.6 - - + -
164A GLU* 3.0 19.3 + - + +
165A LEU 4.0 2.0 - - - +
167A GLY* 1.3 79.3 - - - +
169A PHE* 1.3 65.4 + - + +
170A PRO* 3.4 4.0 - - - +
174A PHE* 3.5 34.6 - - + -
175A GLN* 2.8 30.5 + - - -
176A GLY* 4.3 7.4 - - - +
179A PHE* 3.8 26.7 - - + -
198A THR* 3.9 20.4 - - + -
237A SER* 5.6 0.7 - - - -
238A VAL* 4.1 8.3 - - + -
239A PHE* 4.3 7.2 - - + +
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Residues in contact with PHE 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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94A HIS* 2.7 21.5 + - - +
98A ILE* 3.7 23.1 - - + -
102A TYR* 4.1 2.2 - - - -
109A LEU* 3.9 29.8 - - + -
112A ASN* 4.7 1.8 - - - -
114A TYR* 3.8 25.8 - + - -
115A PHE* 4.0 19.5 - + + -
165A LEU* 2.8 30.7 + - + +
166A LYS 3.5 2.7 - - - -
168A ILE* 1.3 81.1 - - + +
170A PRO* 1.3 64.3 - - - +
171A SER 3.3 2.5 - - - -
172A GLY 3.1 19.7 + - - -
173A LEU 3.5 5.6 - - - -
174A PHE* 3.4 43.7 - + + -
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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