Contacts of the helix formed by residues 154 - 180 (chain B) in PDB entry 2Q7N
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 ASP 154 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A THR* 3.9 18.6 + - - +
209A GLN* 3.1 50.3 + - - +
210A ASP* 4.0 7.4 - - - -
276A GLY 5.2 0.2 - - - +
152B GLY 3.2 3.6 + - - -
153B LYS* 1.3 94.9 + - - +
155B VAL* 1.3 71.2 + - - +
156B PHE* 2.7 7.0 + - + +
157B GLN* 2.8 39.4 + - + +
158B LYS* 3.0 8.4 + - - +
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Residues in contact with VAL 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A GLN* 4.2 3.8 - - - +
210A ASP* 2.7 26.9 + - - +
278A VAL* 3.2 37.9 - - + +
280A PHE* 4.2 20.2 - - + -
104B LEU* 4.3 22.5 - - + +
153B LYS 3.4 4.8 + - - -
154B ASP* 1.3 74.4 - - - +
156B PHE* 1.3 74.1 + - - +
158B LYS* 2.8 18.9 + - - +
159B LYS* 3.1 12.6 + - - +
13D ALA* 3.5 27.0 - - + +
14D ILE* 4.9 4.5 - - + -
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Residues in contact with PHE 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A GLN* 4.2 4.7 - - - +
265A ASN* 4.7 7.2 - - + -
267A ILE* 3.5 26.0 - - + -
274A VAL* 4.5 9.0 - - + -
275A TYR 4.4 1.3 - - - -
276A GLY* 3.0 51.1 - - - +
277A THR* 3.8 4.5 - - - -
278A VAL* 3.6 24.2 - - + +
52B PHE* 4.3 15.0 - + - -
59B LEU* 3.7 29.2 - - + -
154B ASP* 2.7 6.0 + - + -
155B VAL* 1.3 77.8 - - - +
157B GLN* 1.3 72.1 + - - +
159B LYS* 2.6 36.8 + - + +
160B LYS* 3.1 11.5 + - + -
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Residues in contact with GLN 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A GLU* 5.9 6.8 + - - +
204A THR* 5.8 3.8 - - - +
205A ASN* 5.7 2.6 + - - -
274A VAL 5.5 3.4 + - - -
275A TYR* 5.6 4.0 - - - +
276A GLY 4.7 5.9 + - - +
152B GLY 3.6 17.0 - - - +
154B ASP* 2.8 35.5 + - + +
156B PHE* 1.3 95.1 - - - +
158B LYS* 1.3 54.3 + - - +
160B LYS* 2.7 22.2 + - - +
161B LEU* 2.6 49.7 + - + +
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Residues in contact with LYS 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B TYR* 3.5 7.3 + - - -
97B ILE* 4.9 2.1 - - - +
100B ASP* 2.7 47.3 + - + +
101B GLN* 5.3 1.6 + - - -
104B LEU* 6.0 3.4 - - + -
149B ASP* 3.9 16.5 + - - +
151B SER* 3.9 14.8 - - - +
152B GLY* 4.7 5.8 - - - -
153B LYS 3.7 19.1 - - - +
154B ASP 3.0 4.9 + - - +
155B VAL* 2.8 14.4 + - - +
157B GLN* 1.3 76.5 - - - +
159B LYS* 1.3 59.9 + - + +
161B LEU* 4.5 6.6 - - - +
162B GLY* 3.4 14.9 + - - -
9D ASN* 3.1 33.6 + - - +
11D THR* 3.8 14.6 - - - -
14D ILE* 3.6 20.0 - - + -
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Residues in contact with LYS 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A SER* 2.6 41.4 + - - -
263A GLY 3.8 1.6 + - - -
265A ASN* 2.7 25.3 + - - +
278A VAL* 3.8 12.8 - - - -
44B TYR* 3.4 11.2 + - - -
48B GLN* 2.7 47.1 + - + +
52B PHE* 3.8 17.3 - - + -
101B GLN* 5.2 1.1 - - - +
104B LEU* 4.5 13.5 - - + -
155B VAL 3.6 7.9 - - - +
156B PHE* 2.6 21.2 + - - +
158B LYS* 1.3 70.6 - - - +
160B LYS* 1.3 51.0 + - - +
162B GLY 3.1 1.7 + - - -
163B CYS* 2.6 38.4 + - - +
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Residues in contact with LYS 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A ASP* 3.5 24.0 + - - -
274A VAL* 4.1 20.0 + - - +
52B PHE* 4.3 1.4 - - - -
58B LYS 4.4 11.6 + - - -
59B LEU* 3.5 42.0 - - + +
156B PHE* 3.1 10.7 + - + +
157B GLN* 2.7 31.2 + - - +
159B LYS* 1.3 72.9 - - - +
161B LEU* 1.3 54.2 + - + +
163B CYS* 2.9 7.8 + - - +
164B GLN* 2.6 64.2 + - - +
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Residues in contact with LEU 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B VAL* 4.6 16.6 - - + +
97B ILE* 4.5 6.4 - - + +
148B PRO* 5.1 16.5 - - + +
149B ASP* 4.6 17.3 - - - +
152B GLY* 4.5 17.7 - - - +
157B GLN* 2.6 38.1 + - + +
158B LYS* 4.5 4.9 - - - +
160B LYS* 1.3 74.3 - - + +
162B GLY* 1.3 56.4 + - - +
164B GLN* 4.1 18.2 - - - +
165B LEU* 3.2 26.7 + - - +
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Residues in contact with GLY 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B TYR* 3.5 10.9 - - - -
97B ILE* 3.7 32.3 - - - +
158B LYS 3.4 6.2 + - - -
159B LYS 3.1 6.5 + - - -
161B LEU* 1.3 75.9 - - - +
163B CYS* 1.3 60.3 + - - +
164B GLN 3.2 2.0 - - - -
165B LEU* 4.0 1.3 - - - +
166B LEU* 3.2 35.0 + - - +
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Residues in contact with CYS 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B PHE* 3.5 6.7 - - - -
44B TYR* 3.4 14.8 - - + -
45B TYR* 3.7 22.4 - - - -
48B GLN* 5.3 0.2 - - - -
52B PHE* 4.0 8.7 - - + -
60B CYS* 2.0 64.0 - - - +
159B LYS 2.6 21.3 + - - +
160B LYS* 3.4 9.0 - - - +
162B GLY* 1.3 72.7 - - - +
164B GLN* 1.3 63.4 + - - +
166B LEU* 4.8 1.1 - - - -
167B GLY 3.3 12.3 + - - -
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Residues in contact with GLN 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B LYS 4.9 1.7 - - - +
59B LEU 3.7 13.3 - - - +
60B CYS* 4.4 1.3 - - - +
61B GLY* 3.2 28.3 + - - +
63B ASN* 4.5 8.3 + - - +
64B VAL* 4.1 31.0 - - + +
160B LYS* 2.6 48.6 + - - +
161B LEU* 4.1 18.6 - - - +
163B CYS* 1.3 73.1 - - - +
165B LEU* 1.3 57.4 + - - +
167B GLY* 2.7 21.7 + - - -
168B LYS* 3.0 13.5 + - - +
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Residues in contact with LEU 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B VAL* 3.9 19.0 - - + +
67B PHE* 5.1 2.6 - - + -
89B TYR* 4.5 11.7 - - + -
90B LEU* 4.3 25.2 - - + +
93B SER* 3.8 32.1 - - - +
94B LEU* 4.4 7.4 - - + +
97B ILE* 3.5 31.6 - - + -
148B PRO* 4.5 9.6 - - + -
161B LEU 3.2 16.9 + - - +
162B GLY 4.2 1.6 - - - +
164B GLN* 1.3 79.5 - - - +
166B LEU* 1.3 75.4 + - + +
167B GLY 3.1 0.3 + - - -
168B LYS* 3.2 2.6 + - - +
169B TYR* 2.9 21.4 + - + +
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Residues in contact with LEU 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B LEU* 3.8 35.4 - - + +
41B PHE* 3.6 18.8 - - + +
44B TYR* 3.4 37.9 - - + -
94B LEU* 4.5 17.0 - - + -
97B ILE* 5.2 4.3 - - + -
115B LEU* 5.0 5.4 - - + -
162B GLY 3.2 17.0 + - - +
163B CYS* 4.6 0.9 - - - -
165B LEU* 1.3 92.4 - - + +
167B GLY* 1.3 61.8 + - - +
169B TYR* 3.4 14.7 - - + +
170B LYS* 3.0 24.9 + - - +
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Residues in contact with GLY 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B PHE* 3.4 20.8 - - - -
60B CYS 4.3 7.0 - - - -
62B PRO* 4.0 13.6 - - - +
163B CYS 3.3 6.8 + - - -
164B GLN 2.7 10.5 + - - -
166B LEU* 1.3 77.3 - - - +
168B LYS* 1.3 64.0 + - - -
170B LYS* 3.3 6.7 - - - +
171B GLN* 3.0 20.6 + - - +
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Residues in contact with LYS 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B PRO* 3.7 30.3 + - - +
63B ASN* 4.5 7.7 + - - +
64B VAL* 4.7 13.2 - - + +
67B PHE* 3.5 48.5 - - + -
164B GLN 3.0 9.7 + - - +
165B LEU 3.8 5.6 - - - +
167B GLY* 1.3 70.0 - - - +
169B TYR* 1.3 59.6 + - - +
171B GLN* 2.6 48.8 + - - +
172B ILE* 2.7 22.2 + - + +
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Residues in contact with TYR 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B LEU* 3.2 35.9 + - + +
36B SER* 3.8 0.3 + - - -
37B ALA* 3.9 24.5 - - + -
40B LEU* 4.0 21.8 - - + -
41B PHE* 6.2 0.2 - - + -
67B PHE* 5.1 0.4 - - - -
90B LEU* 3.8 41.5 - - + +
94B LEU* 6.4 1.6 - - + -
118B THR* 3.2 25.5 - - + +
122B LEU* 5.5 2.5 - - + -
165B LEU 2.9 17.5 + - - +
166B LEU* 3.4 20.9 - - + +
168B LYS* 1.3 69.2 - - - +
170B LYS* 1.3 74.7 + - + +
172B ILE* 2.9 18.1 + - + +
173B ILE* 2.9 41.2 + - + +
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Residues in contact with LYS 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B ASN* 4.9 0.2 + - - -
37B ALA* 4.4 5.8 - - + +
38B ASN* 3.4 47.0 - - + +
41B PHE* 4.5 23.9 - - + -
62B PRO* 6.6 0.4 - - + -
166B LEU 3.0 9.8 + - - +
167B GLY* 3.3 11.0 - - - +
169B TYR* 1.3 86.3 - - + +
171B GLN* 1.3 64.0 + - - +
173B ILE* 3.6 17.4 - - - +
174B ALA* 3.9 9.7 - - - +
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Residues in contact with GLN 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B PRO* 4.1 24.7 + - + +
167B GLY 3.0 12.3 + - - +
168B LYS* 2.6 41.6 + - - +
170B LYS* 1.3 77.6 - - - +
172B ILE* 1.3 65.2 + - - +
174B ALA* 4.2 7.3 - - - +
175B VAL* 3.6 15.8 - - - +
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Residues in contact with ILE 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B PHE* 3.8 26.2 - - + -
70B PHE* 5.1 14.8 - - + -
86B ILE* 4.2 18.8 - - + -
90B LEU* 5.5 3.1 - - + -
168B LYS* 2.7 27.4 + - + +
169B TYR* 2.9 5.4 + - + +
171B GLN* 1.3 83.7 - - - +
173B ILE* 1.3 70.6 + - + +
174B ALA 3.0 2.2 - - - -
175B VAL* 3.0 29.7 + - + +
176B LEU* 3.0 33.5 + - + +
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Residues in contact with ILE 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B LEU* 4.2 9.6 - - + +
33B LEU* 3.6 33.7 - - + -
34B ASN* 2.9 43.3 - - + +
37B ALA* 4.2 11.9 - - + -
90B LEU* 5.8 2.7 - - + -
122B LEU* 5.8 2.0 - - + -
169B TYR* 2.9 30.1 + - + +
170B LYS 3.6 13.9 - - - +
172B ILE* 1.3 78.5 - - + +
174B ALA* 1.3 59.3 + - - +
176B LEU* 4.1 16.2 - - + -
177B ALA* 2.9 35.3 + - + +
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Residues in contact with ALA 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B ASN* 3.2 20.4 - - - +
170B LYS 3.9 13.7 - - - +
171B GLN* 4.2 7.4 - - - +
172B ILE 3.0 0.4 - - - -
173B ILE* 1.3 77.8 - - - +
175B VAL* 1.3 66.0 + - + +
177B ALA* 4.9 1.1 - - - +
178B GLN* 3.9 15.9 + - - +
----------------------------------------------------------
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Residues in contact with VAL 175 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B PHE* 5.0 15.7 - - + -
72B ALA* 6.2 3.8 - - + -
171B GLN* 3.6 17.5 - - - +
172B ILE* 3.0 23.3 + - + +
174B ALA* 1.3 75.9 - - + +
176B LEU* 1.3 71.2 + - + +
177B ALA 2.6 0.3 + - - -
178B GLN* 2.5 31.8 + - - +
179B ALA* 3.5 7.0 + - + -
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Residues in contact with LEU 176 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B LEU* 3.6 21.1 - - + +
70B PHE* 3.5 44.0 - - + -
83B LEU* 3.8 26.0 - - + -
86B ILE* 4.1 17.9 - - + -
87B VAL* 5.9 0.2 - - + -
90B LEU* 6.1 0.2 - - + -
172B ILE* 3.0 34.4 + - + +
173B ILE* 3.5 21.8 - - + +
175B VAL* 1.3 77.7 - - + +
177B ALA* 1.3 59.4 + - - +
178B GLN 3.1 4.7 + - - -
179B ALA* 3.1 20.0 + - - +
180B PHE* 3.7 7.9 + - + +
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Residues in contact with ALA 177 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B ARG* 5.4 5.4 - - - +
30B LEU* 3.8 16.8 - - + +
31B ALA* 3.5 45.2 - - + +
34B ASN* 4.5 8.5 - - + -
173B ILE* 2.9 16.6 + - + +
174B ALA 4.9 1.6 - - - +
175B VAL 2.6 4.4 + - - -
176B LEU* 1.3 70.6 - - - +
178B GLN* 1.3 55.7 + - - -
180B PHE 4.5 5.6 - - - +
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Residues in contact with GLN 178 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ALA 3.9 12.7 + - - +
175B VAL* 2.5 24.4 + - + +
177B ALA* 1.3 74.5 - - - +
179B ALA* 1.3 63.8 + - - +
180B PHE* 3.4 2.4 + - - -
----------------------------------------------------------
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Residues in contact with ALA 179 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B PHE* 4.1 21.8 - - + -
72B ALA* 4.3 13.9 - - - +
79B LYS* 4.4 9.4 + - + +
175B VAL* 3.5 7.3 + - + +
176B LEU* 3.1 11.2 + - - +
178B GLN* 1.3 83.0 - - - +
180B PHE* 1.3 69.8 + - + +
----------------------------------------------------------
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Residues in contact with PHE 180 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B MET* 4.4 10.5 - - + +
26B ILE* 4.1 20.2 - - + +
27B ARG* 3.5 46.8 + - - +
30B LEU* 3.9 22.8 - - + +
70B PHE* 4.1 19.5 - + - -
79B LYS* 3.7 40.2 - - + +
80B LEU* 3.4 32.3 - - + -
83B LEU* 3.6 32.3 - - + -
176B LEU* 3.7 21.8 - - + +
177B ALA 4.5 7.1 - - - +
178B GLN 3.4 2.1 - - - -
179B ALA* 1.3 85.2 - - + +
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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