Contacts of the helix formed by residues 152 - 176 (chain A) in PDB entry 1ZK2
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 LEU 152 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93A ALA* 4.6 8.7 - - + -
94A VAL 3.6 17.9 - - - +
95A ASN* 3.7 15.7 - - - +
96A LYS 3.8 1.3 - - - -
144A GLU* 3.6 27.1 - - + +
149A ASP* 3.1 35.3 + - + +
151A SER* 1.3 86.4 - - - +
153A GLY* 1.3 58.7 + - - +
154A ALA 3.5 1.6 - - - -
155A TYR* 3.3 24.9 + - + -
156A ASN* 2.8 34.8 + - - +
189A TYR* 4.8 4.3 - - + +
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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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96A LYS 3.0 14.6 + - - -
97A SER* 4.5 0.4 - - - +
98A VAL* 3.6 34.0 - - - +
106A TRP* 4.9 1.7 - - - -
149A ASP 4.3 2.0 + - - -
150A PRO 5.5 0.4 - - - -
152A LEU* 1.3 75.4 - - - +
154A ALA* 1.3 61.6 + - - +
156A ASN* 3.3 8.2 + - - +
157A ALA* 3.1 20.3 + - - +
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Residues in contact with ALA 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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94A VAL* 5.2 6.9 + - + -
96A LYS 4.8 0.4 + - - -
98A VAL* 5.5 0.2 - - - +
101A THR* 4.5 19.6 + - + +
105A GLU 5.2 0.4 - - - +
106A TRP* 3.7 35.4 - - + +
109A LEU* 3.4 32.9 - - + +
110A LEU* 4.5 1.3 - - + +
152A LEU 3.5 0.2 - - - -
153A GLY* 1.3 70.9 - - - +
155A TYR* 1.3 65.5 + - - +
157A ALA* 3.1 4.0 + - - +
158A SER 2.9 19.2 + - - -
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Residues in contact with TYR 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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91A GLY 5.8 0.9 - - - -
92A ILE 3.3 28.7 - - - -
93A ALA* 3.9 18.2 - - + -
94A VAL 5.1 2.4 + - - +
109A LEU* 3.8 9.1 - - + +
113A ASN* 3.7 5.6 - - - -
141A SER 5.5 0.2 + - - -
142A SER* 3.6 15.3 + - - -
144A GLU* 3.5 38.6 - - + -
152A LEU* 3.3 30.0 + - + +
153A GLY 3.3 0.2 - - - -
154A ALA* 1.3 77.3 - - - +
156A ASN* 1.3 61.9 + - - +
158A SER* 2.8 23.0 + - - -
159A LYS* 3.0 38.0 + - - +
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Residues in contact with ASN 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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144A GLU* 2.9 44.2 + - - +
147A VAL 3.0 20.4 + - - -
148A GLY* 3.5 6.7 - - - -
149A ASP* 2.9 33.2 + - - +
152A LEU* 2.8 19.1 + - - +
153A GLY* 3.5 7.5 - - - +
155A TYR* 1.3 72.9 - - - +
157A ALA* 1.3 62.4 + - - +
159A LYS 3.3 0.5 + - - -
160A GLY* 2.9 22.7 + - - -
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Residues in contact with ALA 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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106A TRP* 3.8 28.9 - - + -
110A LEU* 4.7 5.4 - - + -
114A LEU* 5.8 0.2 - - - -
153A GLY 3.1 9.7 + - - +
154A ALA 3.3 9.6 - - - +
156A ASN* 1.3 78.1 - - - +
158A SER* 1.3 63.9 + - - +
160A GLY* 3.9 0.7 - - - -
161A ALA* 3.0 24.2 + - - +
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Residues in contact with SER 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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109A LEU* 3.7 13.1 - - - +
110A LEU* 4.1 12.3 - - - +
113A ASN* 3.2 47.3 + - - +
114A LEU* 4.6 1.9 - - - +
154A ALA 2.9 6.1 + - - -
155A TYR 2.8 18.1 + - - -
157A ALA* 1.3 77.6 - - - +
159A LYS* 1.3 60.9 + - - +
161A ALA* 3.4 6.1 + - - +
162A VAL* 3.0 33.0 + - - +
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Residues in contact with LYS 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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90A ALA 5.5 1.2 + - - -
91A GLY* 5.1 7.9 - - - -
113A ASN* 4.0 18.4 + - - +
140A MET* 3.6 17.9 + - - +
141A SER* 3.5 34.7 + - - +
142A SER* 3.8 14.4 - - - +
144A GLU 3.5 18.2 - - - +
145A GLY* 3.6 4.5 - - - +
155A TYR* 3.0 58.0 + - + +
158A SER* 1.3 79.8 - - - +
160A GLY* 1.3 60.4 + - - +
162A VAL* 3.5 5.7 + - + +
163A ARG* 3.0 29.1 + - - +
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Residues in contact with GLY 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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145A GLY* 4.1 11.9 - - - -
156A ASN 2.9 16.5 + - - -
157A ALA 3.9 1.1 - - - -
159A LYS* 1.3 75.7 - - - +
161A ALA* 1.3 61.3 + - - +
163A ARG* 3.4 8.5 + - - +
164A ILE* 3.3 26.9 + - - +
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Residues in contact with ALA 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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114A LEU* 3.6 32.5 - - + -
157A ALA 3.0 17.8 + - - +
158A SER 3.5 5.4 - - - +
159A LYS 3.3 0.2 - - - -
160A GLY* 1.3 77.5 - - - +
162A VAL* 1.3 58.3 + - - +
164A ILE* 4.0 1.2 - - - +
165A MET* 2.9 34.5 + - - +
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Residues in contact with VAL 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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113A ASN 3.4 21.3 - - - +
114A LEU* 4.4 9.0 - - + -
117A VAL* 3.9 24.0 - - + -
139A ASN* 3.7 28.7 - - + -
140A MET 4.6 15.9 - - - +
141A SER* 5.0 2.2 - - - +
158A SER 3.0 18.0 + - - +
159A LYS* 4.0 7.9 - - + +
160A GLY 3.4 0.2 - - - -
161A ALA* 1.3 74.8 - - - +
163A ARG* 1.3 63.7 + - - +
165A MET* 4.4 7.4 - - + -
166A SER* 2.8 32.4 + - - +
184A THR* 4.3 5.6 - - + -
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Residues in contact with ARG 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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141A SER* 5.0 0.4 + - - -
145A GLY 3.0 29.2 + - - -
146A PHE* 3.3 38.3 + - - +
159A LYS 3.0 17.7 + - - +
160A GLY* 3.5 6.7 - - - +
161A ALA 3.2 0.2 - - - -
162A VAL* 1.3 78.8 - - - +
164A ILE* 1.3 75.7 - - + +
166A SER* 3.8 3.8 + - - -
167A LYS* 3.6 20.8 + - - +
184A THR* 4.2 13.5 + - - +
186A HIS* 4.3 13.9 - - + -
241A GLU* 2.8 33.9 + - + +
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Residues in contact with ILE 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 GLY 3.3 15.6 + - - +
161A ALA* 4.4 1.6 - - - +
163A ARG* 1.3 101.1 - - + +
165A MET* 1.3 66.9 + - - +
166A SER 3.1 1.1 - - - -
167A LYS* 3.0 32.7 + - + +
168A SER* 3.2 11.1 + - - -
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Residues in contact with MET 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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114A LEU* 4.8 11.2 - - + -
117A VAL* 4.1 17.0 - - + -
118A PHE* 4.0 49.1 - - - +
121A THR* 4.2 16.6 - - + +
139A ASN* 4.7 3.8 - - - +
161A ALA 2.9 19.7 + - - +
162A VAL* 4.1 7.9 - - + +
164A ILE* 1.3 76.5 - - - +
166A SER* 1.3 65.0 + - - +
168A SER* 3.1 11.5 + - - -
169A ALA* 3.1 22.4 + - + +
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Residues in contact with SER 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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139A ASN* 2.9 26.4 + - - +
162A VAL* 2.8 22.5 + - - +
163A ARG 3.8 2.9 - - - -
164A ILE 3.1 0.4 - - - -
165A MET* 1.3 79.1 - - - +
167A LYS* 1.3 58.9 + - - +
169A ALA* 3.3 3.1 + - - +
170A ALA* 2.9 29.7 + - - +
182A VAL* 3.7 22.4 - - - +
183A ASN* 4.9 3.4 - - - -
184A THR* 3.4 23.1 - - - +
239A GLY* 5.3 0.9 - - - -
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Residues in contact with LYS 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 ARG* 3.6 15.9 - - - +
164A ILE* 3.0 29.8 + - + +
166A SER* 1.3 74.7 - - - +
168A SER* 1.3 64.2 + - - +
170A ALA* 3.6 7.2 - - - +
171A LEU* 3.0 36.2 + - + +
239A GLY* 2.8 34.2 + - - +
240A SER* 4.4 0.4 - - - +
241A GLU* 2.9 39.6 + - - -
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Residues in contact with SER 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 ILE 3.2 9.2 + - - -
165A MET* 3.1 16.9 + - - -
167A LYS* 1.3 75.9 - - - +
169A ALA* 1.3 64.8 + - - +
171A LEU* 3.3 9.2 + - - +
172A ASP* 3.0 24.0 + - - +
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Residues in contact with ALA 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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121A THR* 4.1 13.7 - - + -
125A ILE* 4.0 24.2 - - + -
165A MET* 3.1 10.0 + - + +
166A SER* 3.7 7.6 - - - +
168A SER* 1.3 75.8 - - - +
170A ALA* 1.3 65.3 + - - +
172A ASP* 3.3 6.2 + - - +
173A CYS* 2.9 28.8 + - - -
182A VAL* 4.0 12.3 - - + -
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Residues in contact with ALA 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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166A SER 2.9 18.0 + - - +
167A LYS 3.6 2.9 - - - +
168A SER 3.3 0.2 - - - -
169A ALA* 1.3 77.1 - - - +
171A LEU* 1.3 62.7 + - + +
173A CYS* 3.4 3.6 + - - +
174A ALA* 3.0 25.7 + - - +
180A VAL 4.9 0.2 - - - +
182A VAL* 3.5 13.4 - - - +
238A THR* 3.4 19.3 + - + +
239A GLY* 3.4 36.6 - - - +
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Residues in contact with LEU 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 LYS* 3.0 27.5 + - + +
168A SER* 3.6 7.4 - - - +
170A ALA* 1.3 77.4 - - + +
172A ASP* 1.3 57.1 + - - +
174A ALA* 3.2 6.4 + - + +
175A LEU* 2.9 49.2 + - + +
238A THR* 6.1 2.0 - - + -
239A GLY* 6.3 1.1 - - - -
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Residues in contact with ASP 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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125A ILE* 5.9 1.8 - - + +
168A SER* 3.0 17.5 + - - +
169A ALA* 3.9 5.6 - - - +
171A LEU* 1.3 75.6 - - - +
173A CYS* 1.3 63.7 + - - +
175A LEU* 3.5 8.3 + - - +
176A LYS* 3.1 62.5 + - - +
178A TYR* 4.3 8.8 + - - -
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Residues in contact with CYS 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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125A ILE* 3.7 41.7 - - - -
169A ALA 2.9 21.1 + - - +
170A ALA* 3.8 3.4 - - - +
172A ASP* 1.3 79.3 - - - +
174A ALA* 1.3 59.5 + - - +
177A ASP* 3.2 2.6 + - - -
178A TYR* 3.0 40.8 + - + +
179A ASP 4.5 1.2 + - - -
180A VAL* 3.2 41.7 - - + +
182A VAL* 4.5 2.9 - - + -
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Residues in contact with ALA 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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170A ALA 3.0 18.8 + - - +
171A LEU* 3.6 8.5 - - + +
173A CYS* 1.3 75.0 - - - +
175A LEU* 1.3 67.5 + - + +
177A ASP* 3.1 20.5 + - - +
180A VAL 4.7 2.4 + - - -
238A THR* 4.6 15.0 - - + -
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Residues in contact with LEU 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 LEU* 2.9 37.6 + - + +
172A ASP* 4.0 7.0 - - - +
174A ALA* 1.3 77.6 - - + +
176A LYS* 1.3 61.9 + - + +
177A ASP* 3.4 7.9 + - - +
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Residues in contact with LYS 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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130A ASN* 4.8 1.4 + - - -
172A ASP* 3.1 44.1 + - - +
175A LEU* 1.3 79.7 - - + +
177A ASP* 1.3 72.9 + - - +
178A TYR* 3.2 48.0 + - + +
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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
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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