Contacts of the helix formed by residues 152 - 180 (chain A) in PDB entry 3ZVU
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 152 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A MET* 3.8 3.1 - - - -
150A GLY 4.4 0.4 + - - -
151A ASN* 1.3 73.8 - - - +
153A GLU* 1.3 63.8 + - - +
154A ASP* 3.6 9.1 + - - +
155A ASP* 3.2 29.6 + - - -
156A THR* 2.9 28.2 + - - -
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Residues in contact with GLU 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU* 6.5 0.7 - - - -
29A SER 5.0 2.9 - - - +
30A CYS* 3.7 15.8 - - + +
147A MET* 3.6 27.4 - - + +
152A SER* 1.3 75.8 - - - +
154A ASP* 1.3 65.1 + - - +
156A THR* 3.2 3.1 + - - -
157A ARG* 2.9 59.0 + - - +
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Residues in contact with ASP 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A SER* 3.2 7.9 + - - +
153A GLU* 1.3 83.9 - - - +
155A ASP* 1.3 66.4 + - - +
157A ARG* 4.1 15.7 + - - +
158A MET* 3.0 26.6 + - - +
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Residues in contact with ASP 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A GLY 4.5 2.3 - - - +
151A ASN* 3.0 28.7 - - + +
152A SER* 3.2 33.9 + - - +
154A ASP* 1.3 79.6 - - - +
156A THR* 1.3 57.7 + - - +
158A MET* 3.4 0.7 + - - -
159A PHE* 3.0 28.6 + - - +
381B LYS* 4.6 10.4 + - - +
383B ILE* 3.7 38.1 - - + +
384B GLN* 5.2 1.2 + - - +
385B TRP* 4.2 2.1 - - + -
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Residues in contact with THR 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A CYS* 3.7 11.7 - - - -
117A LEU* 4.9 3.8 - - + -
145A VAL* 3.6 29.2 - - + -
146A ASP 4.0 4.0 - - - +
147A MET* 3.4 5.4 - - - +
148A PRO* 3.3 32.9 - - + +
151A ASN* 4.1 2.4 - - - +
152A SER 2.9 16.8 + - - -
153A GLU 3.2 4.5 + - - -
155A ASP* 1.3 74.9 - - - +
157A ARG* 1.3 60.5 + - - +
159A PHE* 3.3 3.3 + - - +
160A ALA* 2.9 28.8 + - + +
385B TRP* 4.0 12.8 - - + -
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Residues in contact with ARG 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 5.2 11.7 - - - +
30A CYS* 3.8 17.0 - - + -
31A SER 3.1 22.3 + - - +
32A SER* 3.6 19.9 + - - +
143A TYR* 3.4 16.2 - - - +
153A GLU* 2.9 51.2 + - - +
154A ASP* 4.1 12.6 + - - +
156A THR* 1.3 77.3 - - - +
158A MET* 1.3 58.9 + - - +
161A ASP* 2.7 41.2 + - - +
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Residues in contact with MET 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ASP 3.0 19.8 + - - +
155A ASP 3.7 2.0 - - - +
156A THR 3.2 0.2 - - - -
157A ARG* 1.3 75.7 - - - +
159A PHE* 1.3 60.3 + - - +
161A ASP* 4.1 5.3 - - + +
162A THR* 2.7 35.3 + - - +
381B LYS* 3.4 34.1 - - + -
383B ILE* 2.6 40.6 - - + -
391B PHE* 3.4 40.8 - - + -
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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
----------------------------------------------------------
87A LEU* 6.4 0.4 - - + -
88A PRO* 3.8 8.1 - - + -
117A LEU* 4.3 16.4 - - + -
155A ASP 3.0 14.2 + - - +
156A THR 3.6 6.3 - - - +
158A MET* 1.3 78.8 - - - +
160A ALA* 1.3 68.6 + - - +
162A THR* 3.4 3.6 + - - -
163A VAL* 3.4 26.5 + - + +
192A A8S 3.1 43.7 - - + -
383B ILE* 4.5 2.2 - - + +
385B TRP* 3.6 46.9 - + + -
391B PHE 3.7 11.1 + - - +
392B GLY* 3.3 36.3 - - - -
393B VAL* 4.1 11.2 - - + +
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Residues in contact with ALA 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A LEU* 5.5 3.1 - - + -
120A TYR* 4.4 14.8 - - + -
143A TYR* 3.4 33.7 - - + +
145A VAL* 5.3 3.1 - - + -
156A THR* 2.9 17.5 + - + +
159A PHE* 1.3 82.1 - - + +
161A ASP* 1.3 57.2 + - - +
163A VAL* 3.1 3.8 + - - +
164A VAL* 2.9 31.9 + - + +
192A A8S 4.5 10.5 - - + -
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Residues in contact with ASP 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A SER* 3.0 13.3 + - - -
34A HIS* 2.9 36.8 + - + +
143A TYR* 2.5 25.9 + - - -
157A ARG* 2.7 35.1 + - - +
158A MET* 4.1 5.2 - - + +
160A ALA* 1.3 71.4 - - - +
162A THR* 1.3 56.0 + - - +
164A VAL* 4.4 0.7 - - - +
165A LYS* 2.8 47.8 + - + +
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Residues in contact with THR 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A PHE* 5.1 1.5 - - + -
158A MET* 2.7 24.0 + - - +
159A PHE 3.6 5.2 - - - -
161A ASP* 1.3 76.2 - - - +
163A VAL* 1.3 62.8 + - - +
165A LYS* 4.3 8.9 - - - +
166A LEU* 3.3 21.3 + - - +
391B PHE* 3.6 38.1 - - + +
393B VAL* 4.3 13.2 - - + -
404B TYR* 4.1 25.7 - - + -
405B LEU* 4.9 0.9 - - + -
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Residues in contact with VAL 163 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A PHE* 3.9 28.7 - - + -
159A PHE* 3.4 23.3 + - + +
160A ALA 3.1 8.0 + - - +
162A THR* 1.3 78.5 - - - +
164A VAL* 1.3 63.3 + - - +
166A LEU* 3.2 3.5 + - - +
167A ASN* 3.0 35.0 + - - +
192A A8S 3.5 59.2 - - + +
393B VAL* 4.9 7.2 - - + -
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Residues in contact with VAL 164 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A HIS* 3.6 27.1 - - + -
120A TYR* 3.5 24.5 - - - +
141A GLU* 3.7 28.0 - - + +
143A TYR* 4.1 12.1 - - + -
160A ALA 2.9 22.4 + - - +
161A ASP 4.1 1.6 - - - +
163A VAL* 1.3 72.2 - - - +
165A LYS* 1.3 58.4 + - - +
167A ASN* 3.1 8.8 + - - +
168A LEU* 2.8 44.2 + - + +
192A A8S 4.3 10.3 - - + +
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Residues in contact with LYS 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A HIS* 3.7 33.9 - - + +
36A GLN* 4.9 0.3 - - - +
161A ASP* 2.8 33.5 + - + +
162A THR* 4.3 7.0 - - - +
164A VAL* 1.3 72.5 - - - +
166A LEU* 1.3 58.1 + - - +
168A LEU* 3.3 6.3 + - - +
169A GLN* 2.9 41.1 + - + +
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Residues in contact with LEU 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A PRO* 3.7 16.6 - - + +
61A PHE* 4.1 10.5 - - + -
162A THR 3.3 15.2 + - - +
163A VAL* 3.2 6.9 + - - +
165A LYS* 1.3 74.9 - - - +
167A ASN* 1.3 66.0 + - - +
169A GLN* 3.4 22.7 + - + +
170A LYS* 3.0 23.7 + - - +
323B GLU* 4.0 14.4 - - + +
324B THR* 3.6 32.1 - - + -
404B TYR* 3.7 41.5 - - + -
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Residues in contact with ASN 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A TYR* 3.5 27.3 - - + +
59A LYS* 3.5 17.8 - - - +
60A PRO* 3.5 18.4 - - - +
61A PHE* 4.8 4.2 - - - -
141A GLU* 5.3 5.0 + - - +
163A VAL* 3.0 29.2 + - - +
164A VAL* 3.5 9.6 - - + +
166A LEU* 1.3 74.1 - - - +
168A LEU* 1.3 60.7 + - + +
170A LYS 3.3 1.2 + - - -
171A LEU* 2.9 27.9 + - - +
192A A8S 3.4 36.6 + - - +
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Residues in contact with LEU 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A HIS* 3.8 34.5 - - + +
35A ALA 4.6 1.6 - - - +
36A GLN* 3.5 32.9 - - + +
58A TYR* 5.7 3.1 - - + -
124A THR* 5.2 0.7 - - + -
139A VAL* 3.5 31.9 - - + -
141A GLU* 4.2 24.5 - - + +
164A VAL* 2.8 28.6 + - + +
165A LYS* 3.9 5.2 - - - +
167A ASN* 1.3 80.2 - - + +
169A GLN* 1.3 62.0 + - - +
171A LEU* 3.2 14.9 + - + +
172A ALA 3.0 18.5 + - - -
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Residues in contact with GLN 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A GLN* 4.0 17.4 + - - +
165A LYS* 2.9 29.5 + - + +
166A LEU* 3.4 25.6 + - + +
168A LEU* 1.3 74.4 - - - +
170A LYS* 1.3 57.5 + - - +
172A ALA* 3.3 5.4 + - - +
173A THR* 3.0 31.2 + - - +
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Residues in contact with LYS 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A GLN 5.7 1.3 - - - -
57A THR 4.4 9.6 - - - -
58A TYR* 3.3 31.9 - - - +
60A PRO* 4.1 21.1 - - + +
166A LEU 3.0 15.7 + - - +
169A GLN* 1.3 73.2 - - - +
171A LEU* 1.3 60.9 + - - +
173A THR* 3.1 10.8 + - + -
174A VAL* 2.7 47.0 + - + +
322B SER* 4.0 16.8 - - - +
323B GLU* 3.1 33.7 + - - +
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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
----------------------------------------------------------
38A ILE* 3.7 19.3 - - + -
45A VAL* 4.2 5.8 - - + +
48A ILE* 3.7 40.4 - - + -
49A VAL* 3.6 28.0 - - + -
58A TYR* 3.8 22.1 - - + +
124A THR* 5.9 0.2 - - + -
139A VAL* 4.0 12.3 - - + -
167A ASN 2.9 13.8 + - - +
168A LEU* 3.5 23.3 - - + +
170A LYS* 1.3 78.4 - - - +
172A ALA* 1.3 57.1 + - - +
174A VAL* 4.6 1.3 - - - -
175A ALA* 2.9 34.4 + - + +
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Residues in contact with ALA 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A GLN* 4.0 21.5 - - - +
37A ARG 4.3 2.2 - - - +
38A ILE* 3.7 23.4 - - + +
168A LEU 3.0 12.2 + - - +
169A GLN* 3.4 9.4 - - - +
170A LYS 3.2 0.2 - - - -
171A LEU* 1.3 77.0 - - - +
173A THR* 1.3 58.1 + - - +
176A GLU* 2.9 43.5 + - - +
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Residues in contact with THR 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A GLN* 3.0 15.0 + - - +
170A LYS* 3.1 13.4 + - + -
172A ALA* 1.3 76.4 - - - +
174A VAL* 1.3 68.1 + - + +
176A GLU* 4.0 5.7 - - - +
177A ALA* 3.2 24.7 + - + +
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Residues in contact with VAL 174 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ILE* 4.0 24.0 - - + -
57A THR* 3.9 26.5 - - - +
58A TYR* 5.0 0.9 - - + -
170A LYS* 2.7 39.8 + - + +
171A LEU* 4.0 4.5 - - - +
173A THR* 1.3 74.4 - - + +
175A ALA* 1.3 62.2 + - - +
177A ALA* 3.6 6.1 + - - +
178A MET* 3.2 29.1 + - - +
----------------------------------------------------------
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Residues in contact with ALA 175 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A ILE* 3.9 16.6 - - + -
40A ALA* 4.2 4.3 - - + -
44A LEU* 3.7 7.0 - - + +
45A VAL* 4.1 17.9 - - + +
48A ILE* 3.9 22.9 - - + -
171A LEU* 2.9 21.1 + - + +
174A VAL* 1.3 78.9 - - - +
176A GLU* 1.3 55.4 + - - +
178A MET* 3.0 7.6 + - - +
179A ALA* 2.9 25.1 + - - +
----------------------------------------------------------
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Residues in contact with GLU 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ARG 4.4 2.4 - - - +
38A ILE* 3.6 9.3 - - + -
39A HIS* 2.8 65.6 + - + +
40A ALA* 4.5 0.2 - - - -
172A ALA* 2.9 28.1 + - - +
173A THR* 4.1 4.8 - - - +
175A ALA* 1.3 75.7 - - - +
177A ALA* 1.3 61.4 + - - +
179A ALA* 3.1 3.0 + - - +
180A ARG* 3.1 26.9 + - - +
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Residues in contact with ALA 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A THR* 3.2 18.6 + - + +
174A VAL* 3.9 5.6 - - - +
176A GLU* 1.3 75.4 - - - +
178A MET* 1.3 60.2 + - - +
180A ARG* 3.6 7.9 - - - +
181A ASN* 3.3 19.2 + - - +
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Residues in contact with MET 178 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A LEU* 3.5 34.4 - - + +
47A SER* 4.4 4.5 - - - +
48A ILE* 3.9 35.4 - - + -
174A VAL* 3.2 20.6 + - - +
175A ALA 3.0 10.3 + - - +
177A ALA* 1.3 76.8 - - - +
179A ALA* 1.3 63.6 + - - +
181A ASN* 3.3 25.1 + - - +
----------------------------------------------------------
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Residues in contact with ALA 179 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A HIS 4.2 5.4 - - - +
40A ALA* 3.8 25.6 - - + -
41A PRO* 4.2 6.3 - - + -
44A LEU* 3.6 9.1 - - + +
175A ALA 2.9 12.0 + - - +
176A GLU 3.1 8.5 + - - +
178A MET* 1.3 74.8 - - - +
180A ARG* 1.3 52.1 + - - +
181A ASN* 2.5 21.9 + - - +
----------------------------------------------------------
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Residues in contact with ARG 180 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A GLU 3.1 12.8 + - - +
177A ALA* 3.6 6.8 - - - +
179A ALA* 1.3 75.1 - - + +
181A ASN* 1.3 63.2 + - - +
----------------------------------------------------------
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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