Contacts of the helix formed by residues 134 - 157 (chain B) in PDB entry 2AXT
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 134 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133B LEU* 1.3 67.5 - - - +
135B LEU* 1.3 58.8 + - - +
136B PRO* 3.3 7.7 - - - +
137B LYS* 2.7 28.5 + - - +
138B MET* 2.8 29.4 + - - +
220B ARG* 2.5 46.9 + - - -
525B CLA 5.8 0.3 - - - +
14H LEU 4.3 3.8 - - - +
15H ASN* 2.9 20.0 - - - +
16H SER 4.8 0.2 - - - +
17H GLU 3.6 7.4 - - - -
18H TYR* 3.2 25.3 - - - +
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Residues in contact with LEU 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B LEU* 2.8 24.5 + - + +
134B ASP* 1.3 71.2 - - - +
136B PRO* 1.3 59.2 - - + +
138B MET* 2.9 27.2 + - + +
139B PHE* 2.6 37.4 + - - +
232B GLY* 3.3 43.7 - - - +
233B ASN 4.3 1.1 - - - +
234B ILE* 3.8 26.5 - - + +
237B VAL* 3.7 23.8 - - + -
520B CLA 3.6 23.5 - - + +
18H TYR* 5.2 0.2 - - + -
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Residues in contact with PRO 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B ASP* 3.3 17.0 - - - +
135B LEU* 1.3 97.2 - - + +
137B LYS* 1.3 58.1 + - - +
139B PHE* 3.8 4.2 - - + +
140B GLY* 3.3 15.2 + - - -
216B HIS* 3.6 17.7 - - + +
219B VAL 6.0 0.4 - - - +
220B ARG* 4.4 7.4 - - - +
221B PRO* 4.2 32.8 - - + -
226B TYR* 4.5 10.8 - - + -
231B MET* 4.4 9.2 - - + -
232B GLY 5.4 0.4 - - - +
519B CLA 5.8 4.3 - - - -
520B CLA 3.6 19.7 - - + -
18H TYR 5.1 0.4 - - - +
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Residues in contact with LYS 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134B ASP* 2.7 34.9 + - - +
135B LEU 3.3 0.2 - - - -
136B PRO* 1.3 77.8 - - - +
138B MET* 1.3 66.3 + - - +
140B GLY* 3.4 1.0 + - - -
141B ILE* 3.0 37.4 + - + +
216B HIS 4.2 7.6 - - - +
217B ILE* 4.1 22.8 - - + +
220B ARG* 3.3 14.8 - - - +
13H PRO 4.6 2.7 - - - +
14H LEU* 2.4 58.2 + - + +
16H SER* 3.6 2.2 + - - +
17H GLU* 3.1 43.2 - - - +
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Residues in contact with MET 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B LEU* 3.6 36.8 - - + -
134B ASP 2.8 13.8 + - - +
135B LEU* 3.0 38.1 - - + +
137B LYS* 1.3 80.7 - - - +
139B PHE* 1.3 65.5 + - - +
141B ILE* 3.2 17.2 + - - +
142B HIS* 3.2 27.0 + - + -
234B ILE* 5.5 0.2 - - + -
520B CLA 4.2 18.4 - - + -
525B CLA 3.3 55.6 - - + -
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Residues in contact with PHE 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B LEU 2.6 18.0 + - - +
136B PRO* 3.8 6.7 - - + +
138B MET* 1.3 70.7 - - - +
140B GLY* 1.3 67.1 + - - +
142B HIS* 2.9 8.2 + - - +
143B LEU* 2.8 45.1 + - + -
216B HIS* 3.8 22.2 - + + -
519B CLA 3.4 70.4 - + + -
520B CLA 3.5 65.6 - + + +
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Residues in contact with GLY 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B PRO 3.3 9.4 + - - -
137B LYS 3.4 3.5 + - - -
139B PHE* 1.3 79.3 - - - +
141B ILE* 1.3 60.9 + - - +
143B LEU* 4.6 2.0 - - - -
144B PHE* 3.1 23.6 + - - +
213B GLY* 3.5 11.1 - - - +
216B HIS* 3.6 25.1 - - - -
217B ILE* 3.4 13.3 - - - +
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Residues in contact with ILE 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B LYS* 3.0 24.4 + - + +
138B MET* 3.4 6.7 - - - +
139B PHE 2.9 1.0 + - - -
140B GLY* 1.3 74.6 - - - +
142B HIS* 1.3 65.7 + - + +
144B PHE* 3.1 7.7 - - + +
145B LEU* 3.1 26.5 + - + +
217B ILE* 3.9 19.3 - - + -
525B CLA 3.5 66.6 - - + -
14H LEU* 4.2 23.8 - - + -
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Residues in contact with HIS 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138B MET* 3.2 23.1 + - + -
139B PHE 2.9 5.4 + - - +
141B ILE* 1.3 78.5 - - + +
143B LEU* 1.3 53.2 + - - +
145B LEU* 3.1 10.6 + - + +
146B ALA* 2.7 35.8 + - - +
520B CLA 2.9 66.7 + - + +
525B CLA 3.1 77.1 + + + -
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Residues in contact with LEU 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139B PHE* 2.8 54.9 + - + +
140B GLY* 4.1 3.4 - - - +
142B HIS* 1.3 74.4 - - - +
144B PHE* 1.3 61.4 + - - +
146B ALA* 4.0 4.7 - - + -
147B GLY 3.0 18.4 + - - -
209B GLY* 3.3 19.3 - - - +
212B ALA* 4.1 24.0 - - + +
213B GLY* 4.1 3.6 - - - -
216B HIS* 4.6 1.8 - - + +
515B CLA 4.0 23.6 - - + -
519B CLA 3.7 34.3 - - + -
520B CLA 4.0 5.9 + - - -
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Residues in contact with PHE 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140B GLY 3.1 15.2 + - - +
141B ILE* 3.1 13.2 - - + +
142B HIS 3.0 0.4 - - - -
143B LEU* 1.3 77.8 - - - +
145B LEU* 1.3 69.1 + - + +
147B GLY* 3.4 0.7 + - - -
148B LEU* 2.8 56.2 + - + +
209B GLY 4.3 2.2 - - - -
210B ILE* 3.7 33.9 - - + +
213B GLY* 4.0 7.8 - - - -
214B LEU* 3.7 32.5 - - + -
217B ILE* 4.1 13.0 - - + -
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Residues in contact with LEU 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141B ILE* 3.1 20.6 + - + +
142B HIS* 3.5 13.0 - - - +
144B PHE* 1.3 89.8 - - + +
146B ALA* 1.3 53.5 + - - +
148B LEU* 2.9 18.5 + - + +
149B LEU* 2.7 38.0 + - - +
514B CLA 3.9 26.0 - - + +
520B CLA 4.3 13.0 - - + -
525B CLA 3.3 51.6 - - + -
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Residues in contact with ALA 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B HIS 2.7 21.2 + - - +
143B LEU* 3.6 10.1 - - - +
145B LEU* 1.3 73.0 - - - +
147B GLY* 1.3 51.2 + - - +
149B LEU* 3.1 6.5 + - - +
150B CYS* 2.6 34.7 + - - +
513B CLA 3.4 12.6 - - + +
514B CLA 6.2 0.2 - - - -
515B CLA 4.2 24.0 - - + -
520B CLA 3.8 26.1 - - + +
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Residues in contact with GLY 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143B LEU 3.0 11.5 + - - -
144B PHE 3.8 2.2 - - - -
146B ALA* 1.3 76.0 - - - +
148B LEU* 1.3 66.4 + - - +
150B CYS* 3.5 0.6 - - - +
151B PHE* 2.8 25.8 + - - +
206B GLY 3.4 21.5 - - - +
209B GLY 4.1 4.5 - - - -
210B ILE* 3.8 0.9 - - - -
515B CLA 3.6 19.2 - - - +
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Residues in contact with LEU 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B PHE* 2.8 45.8 + - + +
145B LEU* 3.1 17.3 - - + +
147B GLY* 1.3 71.8 - - - +
149B LEU* 1.3 63.2 + - - +
151B PHE* 3.4 6.4 - - + +
152B GLY* 3.1 17.7 + - - -
210B ILE* 3.7 25.1 - - + +
514B CLA 3.8 20.0 - - + -
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Residues in contact with LEU 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145B LEU 2.7 15.9 + - - +
146B ALA* 3.4 10.1 - - - +
148B LEU* 1.3 72.4 - - - +
150B CYS* 1.3 64.3 + - - +
152B GLY* 3.1 2.3 + - - +
153B PHE 2.9 20.1 + - - -
513B CLA 3.2 24.8 - - + +
514B CLA 3.7 68.4 - - + +
516B CLA 4.0 40.6 - - + -
520B CLA 5.7 1.8 - - + -
526B CLA 5.6 3.6 - - + -
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Residues in contact with CYS 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B ALA 2.6 14.2 + - - +
147B GLY 3.5 5.2 - - - +
149B LEU* 1.3 73.1 - - - +
151B PHE* 1.3 62.4 + - - +
153B PHE* 3.4 3.5 + - - +
154B GLY 3.2 17.2 + - - -
202B HIS* 3.2 47.6 - - - +
205B ALA* 4.4 2.9 - - - -
206B GLY* 3.9 10.8 - - - -
513B CLA 3.4 43.4 - - + +
515B CLA 3.9 11.7 - - + -
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Residues in contact with PHE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B GLY 2.8 12.1 + - - +
148B LEU* 3.4 12.1 - - + +
150B CYS* 1.3 74.7 - - - +
152B GLY* 1.3 59.0 + - - +
154B GLY* 3.0 3.3 + - - -
155B ALA* 2.7 57.2 + - + +
156B PHE* 4.4 13.0 - + - -
202B HIS 3.4 9.5 + - - +
203B ILE* 3.7 32.0 - - + +
206B GLY* 3.9 6.9 - - - -
207B ILE* 3.8 27.1 - - + -
210B ILE* 4.5 11.4 - - + -
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Residues in contact with GLY 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B LEU 3.1 11.1 + - - -
149B LEU* 3.1 3.8 + - - -
151B PHE* 1.3 82.4 - - - +
153B PHE* 1.3 56.6 + - - +
156B PHE* 3.0 46.6 + - - +
157B HIS 3.7 0.2 + - - -
516B CLA 3.0 22.6 - - - +
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Residues in contact with PHE 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B LEU* 4.2 6.3 - - + -
149B LEU 2.9 13.1 + - - +
150B CYS 3.6 6.3 - - - +
152B GLY* 1.3 74.1 - - - +
154B GLY* 1.3 63.8 + - - +
157B HIS* 3.0 44.3 + + + +
158B LEU* 3.1 38.9 + - + +
202B HIS* 3.8 31.0 - + - -
513B CLA 3.5 68.0 - + + -
516B CLA 3.2 34.1 - + + +
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Residues in contact with GLY 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B CYS 3.2 4.9 + - - -
151B PHE 3.0 5.3 + - - -
153B PHE* 1.3 82.7 - - - +
155B ALA* 1.3 58.3 + - - +
158B LEU* 3.8 12.2 - - - +
159B THR* 3.0 25.1 + - - -
199B VAL* 3.7 9.4 - - - +
202B HIS* 3.9 19.7 - - - -
203B ILE* 4.0 11.2 - - - -
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Residues in contact with ALA 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B PHE* 2.7 43.5 + - + +
154B GLY* 1.3 71.3 - - - +
156B PHE* 1.3 81.6 + - + +
159B THR* 2.8 25.4 + - - +
161B LEU* 3.5 14.0 - - + +
203B ILE* 3.8 12.9 - - + +
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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
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151B PHE* 4.4 13.0 - + - -
152B GLY* 3.0 27.8 + - - +
155B ALA* 1.3 85.5 - - + +
157B HIS* 1.3 68.3 + - - +
161B LEU* 3.3 28.1 + - + -
162B PHE* 2.7 48.7 + + + +
516B CLA 3.3 30.1 - - + -
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Residues in contact with HIS 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B LEU* 3.0 36.4 + - + -
152B GLY 3.7 1.2 + - - -
153B PHE* 3.0 36.9 + + + +
156B PHE* 1.3 73.7 - - - +
158B LEU* 1.3 59.7 + - - +
159B THR 3.0 0.7 - - - -
160B GLY 2.7 18.5 + - - -
162B PHE 4.0 4.9 + - - -
163B GLY* 4.7 0.2 - - - -
164B PRO* 2.5 41.9 - - + +
165B GLY 3.5 10.0 + - - -
516B CLA 2.2 68.7 + - + +
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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
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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) + - + + + + + -
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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