Contacts of the helix formed by residues 134 - 163 (chain B) in PDB entry 5OIV
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 GLY 134 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B ALA 3.7 0.4 + - - -
132B THR 3.6 1.6 + - - -
133B ARG* 1.3 80.3 - - - +
135B ARG* 1.3 65.9 + - - -
136B SER 3.5 1.6 - - - -
137B THR 3.3 3.1 + - - -
138B ARG* 3.0 47.0 + - - +
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Residues in contact with ARG 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B GLY* 1.3 72.7 - - - -
136B SER* 1.3 64.8 + - - +
138B ARG* 3.3 42.1 + - - +
139B ALA* 3.0 35.7 + - - +
142B GLU* 3.2 28.3 + - - -
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Residues in contact with SER 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B GLY 3.5 0.4 - - - -
135B ARG* 1.3 79.7 - - - +
137B THR* 1.3 66.2 + - - +
139B ALA* 3.3 8.7 + - - +
140B VAL* 3.2 25.6 + - - +
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Residues in contact with THR 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B VAL* 3.6 36.7 - - + +
130B ALA* 3.8 9.3 - - - +
133B ARG* 3.7 36.0 + - + +
134B GLY 3.3 4.2 + - - -
135B ARG 3.3 0.4 - - - -
136B SER* 1.3 77.0 + - - +
138B ARG* 1.3 66.1 + - - +
140B VAL* 3.2 17.4 + - + +
141B ALA* 3.2 9.5 + - - +
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Residues in contact with ARG 138 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B ALA* 3.3 28.0 - - - +
131B ARG* 3.0 41.5 + - + +
134B GLY* 3.0 26.8 + - - +
135B ARG* 3.5 47.8 - - - +
137B THR* 1.3 75.2 - - - +
139B ALA* 1.3 57.8 + - - +
141B ALA* 3.2 2.1 + - - +
142B GLU* 2.8 44.8 + - - +
273B TYR* 6.1 0.2 - - - -
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Residues in contact with ALA 139 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B ARG* 3.0 30.6 + - - +
136B SER* 3.5 11.9 - - - +
137B THR 3.2 0.2 - - - -
138B ARG* 1.3 76.0 - - - +
140B VAL* 1.3 57.7 + - - +
142B GLU* 3.7 4.8 - - - +
143B ALA* 2.8 33.0 + - - +
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Residues in contact with VAL 140 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B VAL* 4.1 15.3 - - + -
57B GLU* 3.8 45.5 - - + +
60B VAL* 4.5 12.8 - - + +
136B SER* 3.2 15.9 + - - +
137B THR* 3.2 11.8 + - + +
139B ALA* 1.3 77.6 - - - +
141B ALA* 1.3 63.3 + - - +
143B ALA* 3.3 7.0 + - - +
144B PHE* 3.1 21.1 + - - +
147B ARG* 5.1 1.0 + - - -
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Residues in contact with ALA 141 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B VAL* 4.4 2.0 - - + -
60B VAL* 4.6 4.3 - - - -
126B ILE* 4.3 15.3 - - + -
127B LEU* 3.9 20.3 - - + +
130B ALA* 3.8 28.7 - - + -
137B THR 3.2 3.4 + - - +
138B ARG* 3.9 4.0 - - - +
140B VAL* 1.3 79.8 - - - +
142B GLU* 1.3 62.6 + - + +
144B PHE* 3.4 11.1 + - - +
145B LEU* 3.2 23.9 + - - +
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Residues in contact with GLU 142 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B LEU* 5.4 1.1 - - + -
135B ARG* 3.2 24.7 + - - -
138B ARG* 2.8 32.8 + - - +
139B ALA* 3.9 4.0 - - - +
141B ALA* 1.3 75.3 - - + +
143B ALA* 1.3 64.7 + - - +
145B LEU* 3.3 9.8 + - - +
146B ASP* 3.0 28.6 + - - +
273B TYR* 3.7 36.8 + - + +
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Residues in contact with ALA 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B ALA 2.8 18.0 + - - +
140B VAL* 3.3 6.9 + - - +
142B GLU* 1.3 76.5 - - - +
144B PHE* 1.3 57.0 + - - +
146B ASP* 3.3 11.8 + - - +
147B ARG* 3.0 43.1 + - - +
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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
----------------------------------------------------------
60B VAL* 3.6 41.3 - - + -
63B LEU* 3.8 37.0 - - + -
64B ASP* 3.7 15.5 - - - -
67B LEU* 4.3 7.0 - - + -
123B VAL* 3.9 31.2 - - + -
126B ILE* 5.6 4.7 - - + -
127B LEU* 6.5 0.2 - - + -
140B VAL 3.1 12.7 + - - +
141B ALA* 3.4 11.0 - - + +
143B ALA* 1.3 76.3 - - - +
145B LEU* 1.3 66.7 + - + +
147B ARG* 3.1 10.3 + - - +
148B ARG* 2.8 56.4 + - + +
152B LEU* 4.5 6.5 - - + -
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Residues in contact with LEU 145 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B VAL* 4.1 18.2 - - + -
127B LEU* 4.2 15.0 - - + -
141B ALA 3.2 11.4 + - - +
142B GLU* 3.3 9.8 + - - +
144B PHE* 1.3 85.1 - - + +
146B ASP* 1.3 61.4 + - - +
149B TRP* 2.8 54.6 + - + +
152B LEU* 5.0 5.8 - - + -
266B LEU* 5.7 0.4 - - + -
269B ILE* 3.9 22.4 - - + -
273B TYR* 3.5 47.1 - - + -
275B ARG* 4.5 7.2 - - - +
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Residues in contact with ASP 146 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B GLU* 3.0 18.4 + - - +
143B ALA* 3.4 13.1 - - - +
145B LEU* 1.3 78.8 - - - +
147B ARG* 1.3 61.2 + - + +
149B TRP* 4.4 1.2 + - - +
150B GLY 5.4 1.2 + - - -
275B ARG* 3.0 31.8 + - - +
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Residues in contact with ARG 147 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B VAL* 3.3 20.4 - - - +
64B ASP* 2.7 38.7 + - - -
140B VAL* 5.1 1.4 + - - +
143B ALA* 3.0 43.6 + - - +
144B PHE* 3.1 12.4 + - - +
146B ASP* 1.3 78.6 - - - +
148B ARG* 1.3 76.9 + - + +
150B GLY 5.2 1.1 + - - -
151B ASP* 4.4 6.2 + - - +
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Residues in contact with ARG 148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASP* 2.8 52.7 + - - +
67B LEU* 3.7 36.9 + - + +
68B SER* 4.2 11.3 - - - +
144B PHE* 2.8 40.4 + - + +
147B ARG* 1.3 91.2 + - + +
149B TRP* 1.3 64.2 + - - +
150B GLY 3.2 2.7 - - - -
151B ASP* 2.8 29.4 + - - +
152B LEU* 2.9 27.1 + - + +
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Residues in contact with TRP 149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B LEU* 2.8 41.8 + - + +
146B ASP 4.4 0.6 + - - +
147B ARG 3.8 0.2 - - - -
148B ARG* 1.3 71.7 - - - +
150B GLY* 1.3 58.8 + - - +
152B LEU* 3.3 8.2 + - + +
153B MET* 2.9 48.6 + - + +
266B LEU* 3.4 49.1 - - + -
269B ILE* 4.3 4.9 - - + -
270B GLY* 3.5 19.7 - - - -
275B ARG* 3.3 55.9 - - + +
276B PRO* 4.0 2.0 - - + +
279B ASP* 2.8 32.8 + - + -
280B VAL* 4.8 2.7 - - + -
283B LEU* 3.8 14.4 - - + -
501B GOL 4.0 7.6 - - - -
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Residues in contact with GLY 150 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B ASP 5.4 1.2 + - - -
147B ARG 5.2 1.2 + - - -
148B ARG* 3.2 1.2 - - - +
149B TRP* 1.3 80.8 - - - +
151B ASP* 1.3 57.0 + - - +
153B MET* 3.3 2.8 + - - +
154B ARG* 2.9 35.5 + - - +
275B ARG* 5.2 0.8 - - - +
501B GOL 4.2 26.4 + - - -
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Residues in contact with ASP 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B LEU* 4.3 13.7 - - + -
70B GLN* 3.0 29.7 + - - +
147B ARG 4.4 4.5 + - - +
148B ARG* 2.8 45.8 + - - +
150B GLY* 1.3 73.4 - - - +
152B LEU* 1.3 65.8 + - - +
154B ARG* 2.9 22.1 + - - +
155B TRP* 2.9 19.9 + - - +
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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
----------------------------------------------------------
67B LEU* 4.4 21.8 - - + -
119B HIS* 4.6 20.9 - - + -
120B ALA 5.3 2.5 - - - +
123B VAL* 4.2 24.2 - - + -
144B PHE* 4.5 12.1 - - + -
145B LEU* 5.0 7.6 - - + -
148B ARG* 2.9 24.5 + - + +
149B TRP* 3.6 11.2 - - + +
151B ASP* 1.3 75.6 - - - +
153B MET* 1.3 61.3 + - - +
155B TRP* 3.3 14.5 + - + +
156B HIS* 3.1 29.5 + - - +
266B LEU* 4.1 30.5 - - + -
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Residues in contact with MET 153 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B TRP* 2.9 39.9 + - + +
150B GLY 3.6 8.3 - - - +
152B LEU* 1.3 76.1 - - - +
154B ARG* 1.3 57.9 + - - +
156B HIS* 3.3 3.6 + - - +
157B ARG* 2.8 51.8 + - - +
266B LEU* 4.5 3.1 - - - -
279B ASP* 3.7 37.5 - - + +
282B ASP* 4.6 2.5 - - + +
283B LEU* 3.7 30.3 - - + -
286B TRP* 4.1 23.3 - - + -
501B GOL 3.8 13.5 - - - +
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Residues in contact with ARG 154 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B GLN* 3.1 19.9 + - - +
71B TRP 2.9 27.7 + - - -
72B ARG* 3.8 14.8 + - - +
73B ASN 4.3 2.3 - - - +
74B GLY* 3.5 17.3 - - - +
150B GLY 2.9 19.5 + - - +
151B ASP* 2.9 29.9 + - - +
153B MET* 1.3 76.2 - - - +
155B TRP* 1.3 58.1 + - - +
157B ARG* 3.9 10.8 - - - +
158B TRP* 2.9 29.8 + - - +
501B GOL 3.7 18.8 - - - +
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Residues in contact with TRP 155 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B SER* 5.8 0.2 - - - -
70B GLN* 3.5 8.4 - - - +
74B GLY 3.3 11.9 - - - -
76B ILE* 3.4 46.2 - - + -
114B THR* 3.1 27.8 - - - -
115B GLN 3.4 20.4 - - - -
117B PRO* 3.6 28.1 - - + +
119B HIS* 3.1 29.7 + + + +
151B ASP 2.9 12.2 + - - +
152B LEU* 3.4 17.7 - - + +
153B MET 3.2 0.2 - - - -
154B ARG* 1.3 73.6 - - - +
156B HIS* 1.3 82.9 + + - +
158B TRP* 3.2 12.2 + + - +
159B LEU* 3.1 42.0 + - + +
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Residues in contact with HIS 156 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B PRO* 4.7 3.4 + - + +
120B ALA* 4.4 8.8 + - + +
152B LEU* 3.1 21.5 + - - +
153B MET 3.9 3.4 - - - +
155B TRP* 1.3 100.5 + + - +
157B ARG* 1.3 58.0 + - - +
159B LEU 3.3 0.9 + - - -
160B ALA* 2.9 25.6 + - - +
259B PHE* 3.2 28.0 - + + -
262B ALA* 3.7 42.3 - - + +
263B CYS* 3.5 18.0 - - - -
266B LEU* 3.8 17.5 - - + +
283B LEU* 3.6 12.4 - - + +
286B TRP* 3.9 15.7 - - + -
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Residues in contact with ARG 157 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B MET* 2.8 41.2 + - - +
154B ARG* 4.0 18.8 - - - +
156B HIS* 1.3 72.1 - - - +
158B TRP* 1.3 57.2 + - - +
160B ALA 4.4 0.2 - - - +
161B GLU* 2.9 60.7 + - + +
279B ASP* 4.0 3.0 + - - -
282B ASP* 4.8 9.9 + - - -
286B TRP* 3.6 24.1 - - + -
501B GOL 2.6 46.2 + - - -
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Residues in contact with TRP 158 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ASN* 3.4 36.1 - - + +
74B GLY 4.0 4.5 - - - -
75B MET* 3.5 46.7 - - + -
114B THR* 3.9 6.7 - - + -
154B ARG 2.9 18.9 + - - +
155B TRP* 3.2 18.1 + + - +
157B ARG* 1.3 74.5 - - - +
159B LEU* 1.3 97.7 + - + +
161B GLU* 5.1 0.4 - - - -
162B CYS* 2.8 60.0 + - + +
163B ARG* 3.6 38.5 + - + -
239B ASP* 2.8 31.0 + - - -
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Residues in contact with LEU 159 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B THR* 4.6 0.7 - - + -
117B PRO* 3.7 30.1 - - + -
155B TRP* 3.1 41.0 + - + +
156B HIS* 3.6 7.2 - - - +
158B TRP* 1.3 99.5 - - + +
160B ALA* 1.3 62.5 + - - +
163B ARG* 3.1 32.2 + - + +
164B ASP 3.4 6.1 + - - -
171B ILE* 3.7 13.3 - - + +
255B PHE* 3.9 25.4 - - + -
259B PHE* 3.8 19.1 - - + -
----------------------------------------------------------
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Residues in contact with ALA 160 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B HIS 2.9 17.6 + - - +
157B ARG 4.0 2.5 - - - +
159B LEU* 1.3 76.2 - - - +
161B GLU* 1.3 60.9 + - + +
164B ASP* 3.4 26.5 - - - +
167B GLU* 5.7 0.2 - - - +
259B PHE* 4.1 11.2 - - + -
286B TRP* 3.5 43.5 - - + +
289B ARG* 4.6 8.6 + - - +
290B PHE* 4.3 9.2 - - + -
----------------------------------------------------------
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Residues in contact with GLU 161 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B ARG* 2.9 46.9 + - + +
158B TRP* 5.1 0.4 - - - -
160B ALA* 1.3 83.1 - - + +
162B CYS* 1.3 69.9 + - - +
164B ASP 4.3 1.1 - - - +
165B ARG* 3.8 20.1 - - - +
286B TRP* 5.1 5.6 - - + +
289B ARG* 6.3 0.9 - - - +
----------------------------------------------------------
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Residues in contact with CYS 162 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ASN* 5.9 0.9 - - - -
158B TRP* 2.8 56.4 + - + +
161B GLU* 1.3 83.4 - - - +
163B ARG* 1.3 65.1 + - - +
164B ASP 3.5 0.9 - - - -
165B ARG* 3.5 22.4 + - - +
174B TYR* 5.2 2.4 + - - -
239B ASP* 4.0 18.1 - - + +
----------------------------------------------------------
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Residues in contact with ARG 163 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B MET* 4.8 4.9 - - - -
112B GLY 5.5 1.4 + - - -
113B ILE* 5.1 2.4 - - - +
114B THR* 4.0 7.1 - - - +
158B TRP* 3.6 44.8 + - + -
159B LEU* 3.1 15.7 + - + +
162B CYS* 1.3 83.8 - - - +
164B ASP* 1.3 58.0 + - - +
165B ARG* 3.8 1.6 - - - -
170B ARG 3.5 4.0 - - - +
171B ILE* 3.5 21.9 - - + +
172B THR* 2.8 59.3 + - - +
173B LEU* 3.9 4.0 - - - +
174B TYR* 3.6 33.2 - - - +
178B GLU* 2.9 39.8 + - - -
239B ASP* 5.0 4.2 + - - -
242B LEU* 4.8 6.7 - - - +
----------------------------------------------------------
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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
------------------------------------------------------------
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