Contacts of the helix formed by residues 144 - 167 (chain B) in PDB entry 2HXO
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 HIS 144 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140B VAL* 3.7 19.1 - - + -
141B PRO* 2.8 21.5 + - + +
143B ALA* 1.3 98.2 - - + +
145B TRP* 1.3 57.8 + - - +
146B PHE 3.3 3.1 - - - -
147B THR* 3.2 19.0 + - + -
148B ALA* 2.8 32.9 + - - +
231B LEU* 3.7 33.4 - - + +
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Residues in contact with TRP 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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200A PHE* 3.6 23.2 - + + -
203A ALA* 4.2 20.2 - - + -
204A VAL* 4.0 20.2 - - + -
207A GLN* 5.8 1.1 - - - -
135B VAL* 3.9 21.0 - - + +
136B GLN* 4.0 36.5 - - + +
140B VAL* 2.5 31.0 + - + -
141B PRO 3.4 3.8 - - - -
142B GLU* 3.3 39.3 + - + +
144B HIS* 1.3 77.8 - - - +
146B PHE* 1.3 61.6 + - - +
148B ALA* 4.2 0.7 - - - +
149B SER* 2.9 31.7 + - - -
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Residues in contact with PHE 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A TRP* 4.7 4.3 - + - -
204A VAL* 3.4 31.0 - - + +
207A GLN* 3.8 20.9 + - + +
208A VAL* 4.1 28.7 - - + -
211A HIS* 3.1 50.3 - + + -
216A GLN* 4.1 2.9 - - - -
128B PHE* 3.3 32.3 - + - -
143B ALA 5.9 0.7 - - - +
144B HIS 3.3 0.4 - - - -
145B TRP* 1.3 76.4 - - - +
147B THR* 1.3 64.3 + - - +
149B SER* 3.4 0.9 + - - -
150B SER* 2.8 48.5 + - - -
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Residues in contact with THR 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A GLN* 3.2 28.9 + - - +
219A ALA* 3.7 31.0 - - + -
223A LEU* 4.8 10.3 - - + -
143B ALA 4.6 4.0 + - - -
144B HIS* 3.2 24.9 + - + -
146B PHE* 1.3 81.6 - - - +
148B ALA* 1.3 62.6 + - - +
151B ALA* 3.0 21.1 + - - +
231B LEU* 6.2 1.3 - - + -
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Residues in contact with ALA 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A LEU* 4.3 9.2 - - - -
135B VAL* 3.9 21.3 - - + -
140B VAL* 4.7 4.3 - - + -
144B HIS* 2.8 20.0 + - - +
147B THR* 1.3 73.8 - - - +
149B SER* 1.3 63.5 + - - +
151B ALA* 3.4 3.1 + - - +
152B LEU* 3.2 27.4 + - - +
228B ILE* 3.7 31.6 - - + +
231B LEU* 4.8 5.6 - - + +
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Residues in contact with SER 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A PHE* 3.4 2.7 - - - -
128B PHE* 3.5 28.2 - - - -
131B LEU* 4.1 8.1 - - - +
132B GLY* 3.4 30.5 + - - -
135B VAL* 3.8 10.0 - - - +
145B TRP 2.9 23.2 + - - -
148B ALA* 1.3 77.2 - - - +
150B SER* 1.3 57.7 + - - +
152B LEU* 3.3 7.7 + - - +
153B MSE 3.0 27.2 + - - +
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Residues in contact with SER 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A HIS* 5.0 1.3 + - - -
216A GLN* 3.7 25.8 - - - -
128B PHE* 3.7 9.7 - - - -
146B PHE* 2.8 42.1 + - - -
149B SER* 1.3 73.3 - - - +
151B ALA* 1.3 59.7 + - - +
153B MSE 3.5 6.5 - - - +
154B HIS* 2.8 44.4 + - - -
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Residues in contact with ALA 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A TYR* 4.1 13.3 - - + -
216A GLN* 3.9 4.2 - - - +
220A GLY* 4.1 18.2 - - - +
223A LEU* 3.9 21.3 - - + -
147B THR 3.0 17.7 + - - +
148B ALA 3.6 5.2 - - - +
149B SER 3.2 0.2 - - - -
150B SER* 1.3 75.4 - - - +
152B LEU* 1.3 59.3 + - - +
154B HIS* 3.4 2.1 + - - +
155B TYR* 2.9 31.4 + - - +
224B VAL* 4.7 9.3 - - + +
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Residues in contact with LEU 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B VAL* 4.0 35.0 - - + -
131B LEU* 4.2 18.8 - - + -
135B VAL* 4.2 16.4 - - + -
148B ALA 3.2 12.3 + - - +
149B SER* 3.6 7.4 - - - +
151B ALA* 1.3 78.7 - - - +
153B MSE 1.3 58.8 + - - +
155B TYR* 3.5 4.0 - - - +
156B ILE* 2.9 37.8 + - + +
221B ILE* 4.7 12.6 - - + -
224B VAL* 3.6 23.8 - - + -
225B LEU* 4.3 14.1 - - + -
228B ILE* 3.8 22.0 - - + -
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Residues in contact with MSE 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A TRP* 6.4 0.4 - - - -
115B LEU* 4.6 25.6 - - + -
124B ALA* 4.6 6.5 - - - +
127B ILE* 3.2 40.2 - - + -
128B PHE* 3.3 47.1 - - + +
131B LEU* 3.7 11.6 - - + +
149B SER 3.0 10.7 + - - +
150B SER* 3.5 10.5 - - - +
151B ALA 3.2 0.2 - - - -
152B LEU* 1.3 74.4 - - - +
154B HIS* 1.3 70.2 + - + +
156B ILE* 3.1 7.3 + - - +
157B LEU* 3.0 41.7 + - + +
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Residues in contact with HIS 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A TRP* 6.5 0.2 - + - -
155A TYR* 4.1 17.9 + - + +
158A GLY* 3.6 13.0 - - - -
159A ALA* 3.9 31.3 - - + +
162A GLN* 4.8 20.2 - - + +
211A HIS* 5.6 3.8 - + - -
216A GLN* 4.0 27.4 - - + +
217A PHE 5.8 0.2 + - - -
115B LEU* 5.7 5.3 - - + +
150B SER* 2.8 31.2 + - - +
151B ALA 3.9 3.1 + - - +
153B MSE 1.3 79.8 - - + +
155B TYR* 1.3 63.4 + - - +
157B LEU* 3.5 6.8 + - + +
158B GLY* 3.1 18.2 + - - -
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Residues in contact with TYR 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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151A ALA* 4.2 17.3 - - + -
154A HIS* 4.3 13.2 + - + +
155A TYR* 4.3 28.9 - - + +
224A VAL* 5.6 0.7 - - + -
151B ALA 2.9 19.7 + - - +
152B LEU* 3.5 4.3 - - - +
154B HIS* 1.3 76.3 - - - +
156B ILE* 1.3 63.9 + - + +
158B GLY* 3.2 2.9 + - - -
159B ALA* 3.1 26.8 + - + +
216B GLN* 3.6 9.4 + - - -
217B PHE* 2.9 37.3 + + - -
220B GLY* 3.0 23.8 - - - -
221B ILE* 3.4 40.6 - - + -
224B VAL* 4.1 21.3 - - + -
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Residues in contact with ILE 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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90B VAL* 6.0 0.9 - - + -
93B VAL* 6.5 0.4 - - + -
94B ALA* 3.4 19.1 - - + +
97B LEU* 3.9 38.8 - - + -
131B LEU* 5.2 7.9 - - + -
152B LEU* 2.9 32.8 + - + +
153B MSE 3.5 8.7 - - - +
155B TYR* 1.3 77.2 - - - +
157B LEU* 1.3 60.8 + - + +
160B ALA* 2.8 44.8 + - + +
217B PHE* 3.9 15.8 - - + -
221B ILE* 3.2 34.8 - - + -
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Residues in contact with LEU 157 (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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158A GLY* 4.5 8.3 - - - +
162A GLN* 4.8 8.7 - - + +
97B LEU* 5.4 5.2 - - + -
108B ALA* 5.0 4.0 - - - +
111B LEU* 3.9 42.2 - - + -
112B ALA* 4.6 3.6 - - + +
115B LEU* 4.4 21.1 - - + -
127B ILE* 5.9 3.6 - - + -
153B MSE 3.0 33.0 + - + +
154B HIS* 3.9 8.3 - - + +
156B ILE* 1.3 86.7 - - + +
158B GLY* 1.3 58.0 + - - +
160B ALA* 4.7 2.2 - - + -
161B GLY* 2.7 28.8 + - - +
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Residues in contact with GLY 158 (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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154A HIS* 3.6 15.1 - - - +
157A LEU* 4.5 2.4 - - - +
158A GLY* 3.3 26.0 - - - -
154B HIS 3.1 11.3 + - - -
155B TYR 3.7 0.7 - - - -
157B LEU* 1.3 75.0 - - - +
159B ALA* 1.3 63.2 + - - +
162B GLN* 3.2 30.5 + - - +
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Residues in contact with ALA 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A HIS* 4.1 32.5 + - + +
98B TRP* 3.6 6.9 - - + -
155B TYR* 3.1 20.3 + - + +
158B GLY* 1.3 72.6 - - - +
160B ALA* 1.3 61.8 + - - +
162B GLN* 3.2 3.8 + - - +
163B ASN* 2.9 27.7 + - - +
217B PHE* 3.5 29.8 - - + -
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Residues in contact with ALA 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B LEU* 5.0 0.4 - - + -
98B TRP* 3.8 29.3 - - + +
101B THR* 3.7 28.3 + - + +
108B ALA* 5.3 0.2 - - - -
156B ILE* 2.8 31.4 + - + +
157B LEU* 4.5 2.2 - - - +
159B ALA* 1.3 73.9 - - - +
161B GLY* 1.3 58.1 + - - +
163B ASN* 3.3 2.6 + - - +
164B ALA* 2.9 29.1 + - - +
217B PHE* 5.1 0.4 - - + -
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Residues in contact with GLY 161 (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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108B ALA* 4.4 16.3 - - - +
157B LEU 2.7 24.4 + - - -
158B GLY 4.0 0.2 - - - -
160B ALA* 1.3 77.7 - - - +
162B GLN* 1.3 63.0 + - - +
164B ALA* 3.3 4.5 + - - +
165B ALA* 3.1 20.8 + - - +
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Residues in contact with GLN 162 (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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112A ALA* 3.3 46.7 + - - +
115A LEU* 3.8 18.1 - - + +
116A SER* 3.6 8.9 + - - -
154A HIS* 4.2 17.5 - - + +
157A LEU* 3.7 28.3 - - + +
158B GLY 3.2 19.6 + - - +
159B ALA 3.7 3.6 - - - +
161B GLY* 1.3 74.7 - - - +
163B ASN* 1.3 66.6 + - - +
165B ALA* 3.1 4.8 + - - +
166B ASN* 3.0 34.6 + - - +
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Residues in contact with ASN 163 (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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98B TRP* 3.2 47.5 + - + +
101B THR* 5.1 1.2 + - - -
102B GLU* 3.4 34.5 + - - +
159B ALA 2.9 11.0 + - - +
160B ALA* 3.5 5.1 + - - +
162B GLN* 1.3 76.5 - - - +
164B ALA* 1.3 57.5 + - - +
166B ASN* 3.1 13.3 + - - +
167B SER* 2.9 37.9 + - - -
213B ASP* 4.0 15.2 - - + +
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Residues in contact with ALA 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101B THR* 3.9 21.8 - - - +
102B GLU* 5.8 0.2 - - - +
105B PRO* 4.4 13.9 - - + +
108B ALA* 3.9 22.4 - - + -
160B ALA 2.9 16.7 + - - +
161B GLY 3.5 5.4 - - - +
163B ASN* 1.3 77.5 - - - +
165B ALA* 1.3 65.0 + - - +
167B SER* 3.1 18.8 + - - -
168B ALA* 3.2 12.5 + - - +
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Residues in contact with ALA 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ALA* 4.8 9.0 - - + +
116A SER* 3.4 24.1 - - - +
117A ARG* 5.7 2.8 - - - +
161B GLY 3.1 13.4 + - - +
162B GLN* 3.1 17.5 + - - +
164B ALA* 1.3 76.1 - - - +
166B ASN* 1.3 61.8 + - - +
168B ALA* 3.2 21.1 + - - +
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Residues in contact with ASN 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A LEU 4.2 1.3 + - - +
116A SER* 2.8 37.8 + - - +
162B GLN* 3.0 21.5 + - - +
163B ASN* 3.4 13.6 + - - +
165B ALA* 1.3 74.3 - - - +
167B SER* 1.3 55.6 + - - +
168B ALA 3.0 16.5 + - - +
178B ASP* 5.2 5.4 - - - +
179B ARG* 3.1 55.1 + - + +
213B ASP* 4.5 4.4 + - - -
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Residues in contact with SER 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101B THR 5.6 0.4 - - - -
102B GLU* 4.8 21.2 + - - +
105B PRO* 5.3 8.8 - - - +
163B ASN* 2.9 27.7 + - - -
164B ALA* 3.1 10.6 + - - -
166B ASN* 1.3 74.5 - - - +
168B ALA* 1.3 62.0 + - - +
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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
------------------------------------------------------------
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