Contacts of the helix formed by residues 136 - 160 (chain C) in PDB entry 1O9I
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 ASN 136 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B LEU* 3.7 23.6 - - + +
157B ARG* 4.7 0.4 - - - +
134C SER* 3.0 15.7 + - - +
135C GLY* 1.3 78.3 - - - +
137C LEU* 1.3 57.9 + - - +
138C VAL* 2.9 23.1 + - - +
139C ALA* 2.9 15.2 + - + +
140C ASP* 2.9 24.1 + - - -
200C VAL* 4.3 5.7 - - - +
201C PRO* 4.3 9.1 - - - +
262D HIS 2.9 25.2 + - - +
264D HIS* 3.7 26.2 + - - +
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Residues in contact with LEU 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C GLN* 4.2 12.3 - - + +
49C SER* 4.0 14.1 - - - +
55C TYR* 4.2 20.0 - - + -
59C LEU* 4.0 25.6 - - + -
135C GLY* 5.4 2.0 - - - -
136C ASN* 1.3 72.1 - - - +
138C VAL* 1.3 60.6 + - - +
139C ALA 3.3 0.2 - - - -
140C ASP* 3.6 22.4 - - + +
141C MET* 2.9 37.4 + - + +
192C LEU* 3.5 14.7 - - + +
264D HIS 2.9 13.4 + - - +
265D GLN* 3.8 37.5 - - + +
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Residues in contact with VAL 138 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ASN* 2.9 12.5 + - - +
137C LEU* 1.3 77.9 - - - +
139C ALA* 1.3 63.5 + - - +
141C MET* 4.2 1.8 - - - +
142C ARG* 3.2 29.4 + - - +
189C GLN* 4.6 3.5 - - + +
192C LEU* 3.9 25.4 - - + +
193C GLU* 3.9 28.5 - - + +
196C TYR* 3.9 28.7 - - + -
197C GLY 4.3 5.8 - - - +
200C VAL* 3.4 23.6 - - + -
264D HIS* 3.9 7.4 + - + +
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Residues in contact with ALA 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B VAL* 4.7 2.6 - - - +
149B SER* 4.4 14.3 - - - +
150B GLU* 3.4 29.5 - - - +
153B LEU* 4.7 2.2 - - + -
134C SER* 4.3 2.7 - - - +
136C ASN* 2.9 19.4 + - + +
138C VAL* 1.3 77.4 - - - +
140C ASP* 1.3 59.1 + - - +
142C ARG* 3.2 8.0 + - - +
143C PHE* 3.0 21.1 + - - +
200C VAL* 4.0 21.9 - - + +
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Residues in contact with ASP 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B GLU* 2.7 26.7 - - - +
45C GLN* 3.8 27.2 - - - +
132C THR* 3.6 5.4 - - - +
133C SER* 3.5 7.3 + - - -
134C SER* 2.7 40.1 + - - -
135C GLY 3.8 3.3 + - - -
136C ASN 2.9 19.6 + - - +
137C LEU* 3.5 11.4 + - + +
138C VAL 3.3 0.2 - - - -
139C ALA* 1.3 74.7 - - - +
141C MET* 1.3 59.1 + - - +
143C PHE* 3.1 6.1 + - - +
144C ASN* 2.8 34.2 + - - +
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Residues in contact with MET 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C TYR* 4.0 23.3 - - + -
58C LEU* 4.4 8.7 - - + -
59C LEU* 3.9 27.4 - - + -
137C LEU* 2.9 28.4 + - + +
138C VAL 4.2 0.2 - - - +
140C ASP* 1.3 73.6 - - - +
142C ARG* 1.3 65.6 + - - +
144C ASN* 3.2 10.1 + - - +
145C VAL* 2.9 28.3 + - - +
185C PHE* 3.5 28.3 - - - +
188C ALA* 3.9 22.2 - - + -
189C GLN* 4.0 21.1 - - + -
192C LEU* 3.8 12.8 - - + -
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Residues in contact with ARG 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B VAL* 3.8 13.0 - - + +
146B VAL* 3.4 15.5 - - + +
149B SER* 2.9 31.1 + - - -
182B GLN* 3.3 16.8 + - - -
186B MET* 3.6 18.2 - - - +
138C VAL* 3.2 17.7 + - - +
139C ALA 3.2 7.7 + - - +
141C MET* 1.3 78.0 - - - +
143C PHE* 1.3 62.7 + - - +
145C VAL* 3.2 5.0 + - - +
146C VAL* 3.0 24.9 + - - +
189C GLN* 3.5 25.5 + - - +
193C GLU* 2.7 33.3 + - - +
198C ILE* 2.7 26.5 + - - +
200C VAL* 3.4 14.6 - - - +
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Residues in contact with PHE 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B TRP* 3.9 18.4 - + - -
146B VAL* 3.5 18.9 - - + +
150B GLU* 4.4 4.0 - - - +
33C TRP* 3.7 32.3 - + - -
37C THR* 4.7 0.7 - - + -
41C SER* 3.5 25.6 - - - -
45C GLN* 4.0 6.7 - - - -
130C TYR 3.8 21.1 - - - -
132C THR* 3.7 31.9 - - + -
139C ALA 3.0 13.5 + - - +
140C ASP* 3.3 10.8 - - - +
142C ARG* 1.3 75.2 - - - +
144C ASN* 1.3 70.7 + - - +
146C VAL* 3.1 5.0 + - + +
147C ARG* 2.8 35.7 + - + -
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Residues in contact with ASN 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C PHE* 3.2 23.6 - - + -
45C GLN* 2.8 40.8 + - - -
59C LEU* 3.4 19.6 - - - +
140C ASP 2.8 17.5 + - - +
141C MET* 3.2 17.0 + - - +
143C PHE* 1.3 83.9 - - - +
145C VAL* 1.3 60.9 + - - +
147C ARG* 3.3 2.6 + - - +
148C GLU* 3.0 28.6 + - - +
185C PHE* 3.6 23.0 - - + -
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Residues in contact with VAL 145 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B ARG* 3.8 34.3 - - + +
189B GLN* 6.1 0.4 - - - +
141C MET 2.9 19.5 + - - +
142C ARG* 3.6 6.7 - - - +
144C ASN* 1.3 76.4 - - - +
146C VAL* 1.3 53.8 + - - +
148C GLU* 3.3 6.3 + - - +
149C SER* 2.7 35.8 + - - +
182C GLN* 4.0 5.8 - - + +
185C PHE* 3.6 22.6 - - + +
186C MET* 3.6 32.1 - - + +
189C GLN* 3.7 15.3 - - - +
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Residues in contact with VAL 146 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B ALA 4.8 1.3 - - - +
142B ARG* 3.4 43.1 - - + +
143B PHE* 3.4 19.1 - - + +
146B VAL* 3.6 7.9 - - + -
33C TRP* 3.7 24.2 - - + -
142C ARG 3.0 14.7 + - - +
143C PHE* 3.1 10.3 + - + +
145C VAL* 1.3 73.2 - - - +
147C ARG* 1.3 67.0 + - - +
149C SER* 3.1 6.6 + - - -
150C GLU* 2.8 36.7 + - + +
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Residues in contact with ARG 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C TRP* 2.8 63.7 + - + -
34C GLY 2.9 19.1 + - - -
35C GLU* 2.9 19.6 + - - +
37C THR* 4.0 13.0 - - + -
38C GLY* 3.7 18.4 - - - +
41C SER* 5.3 0.2 - - - +
42C PHE* 4.2 5.8 - - + -
66C GLU* 3.2 24.5 + - - -
143C PHE* 2.8 25.2 + - + +
144C ASN* 3.3 12.1 + - - +
146C VAL* 1.3 71.7 - - - +
148C GLU* 1.3 86.6 + - - +
150C GLU* 4.1 1.2 - - - +
151C ALA* 2.9 37.7 + - - +
178C GLU* 5.5 1.2 + - - +
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Residues in contact with GLU 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C PHE* 3.3 13.4 - - + -
66C GLU* 2.9 22.3 - - - +
144C ASN 3.0 18.0 + - - +
145C VAL 3.8 0.7 - - - +
147C ARG* 1.3 93.0 + - - +
149C SER* 1.3 57.6 + - - +
151C ALA* 3.9 2.8 - - - +
152C ARG* 3.0 29.8 + - - +
178C GLU* 3.4 26.3 - - - +
181C HIS* 3.3 32.7 + - + +
182C GLN* 3.3 26.6 + - + +
185C PHE* 4.0 9.0 - - + -
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Residues in contact with SER 149 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B ALA* 4.3 12.1 - - - -
142B ARG* 2.9 30.3 + - - -
200B VAL* 3.5 20.6 - - - +
145C VAL 2.7 23.5 + - - -
146C VAL* 3.5 8.1 - - - -
148C GLU* 1.3 75.8 - - - +
150C GLU* 1.3 65.3 + - - +
152C ARG* 3.4 1.0 + - - +
153C LEU* 3.0 24.1 + - - +
182C GLN* 3.5 11.6 - - - +
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Residues in contact with GLU 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B THR* 3.5 15.6 - - - +
134B SER* 3.2 24.9 - - - -
139B ALA* 3.4 23.7 - - + +
140B ASP* 2.8 23.0 - - - +
143B PHE* 4.4 3.3 - - - +
33C TRP* 3.5 40.9 + - + -
146C VAL* 2.8 26.3 + - + +
147C ARG 4.1 0.2 - - - +
149C SER* 1.3 74.3 - - - +
151C ALA* 1.3 63.2 + - - +
153C LEU* 3.4 7.2 + - - +
154C GLN* 3.0 30.7 + - - +
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Residues in contact with ALA 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C TRP* 3.6 10.2 - - - +
34C GLY* 5.5 0.4 - - - -
35C GLU* 4.4 2.7 - - - +
147C ARG* 2.9 45.3 + - - +
148C GLU* 4.0 4.0 - - - +
150C GLU* 1.3 77.0 - - - +
152C ARG* 1.3 57.6 + - - +
154C GLN* 3.1 8.5 + - - +
155C VAL* 2.9 32.0 + - + +
178C GLU* 3.9 16.2 - - - +
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Residues in contact with ARG 152 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199B ILE* 3.4 9.5 - - - +
200B VAL 3.1 21.9 + - - +
201B PRO* 2.9 34.4 + - - +
204B MET* 3.8 26.8 + - - +
205B LYS* 4.5 1.2 - - - +
208B GLU* 2.8 28.7 + - - +
148C GLU 3.0 20.4 + - - +
149C SER 4.0 0.4 - - - +
151C ALA* 1.3 72.9 - - - +
153C LEU* 1.3 59.5 + - - +
155C VAL* 3.8 0.8 - - - +
156C SER* 2.8 34.1 + - - -
175C LEU* 2.9 34.0 + - + +
178C GLU* 3.1 25.3 + - + +
179C THR* 3.1 13.2 + - - +
182C GLN* 3.6 10.3 - - - +
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Residues in contact with LEU 153 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B SER* 3.5 34.1 - - - +
136B ASN* 3.7 31.0 - - + +
139B ALA* 4.8 2.7 - - + -
200B VAL* 4.3 4.9 - - + -
201B PRO* 3.9 19.4 - - + +
149C SER 3.0 17.2 + - - +
150C GLU* 3.5 11.2 - - - +
152C ARG* 1.3 76.7 - - - +
154C GLN* 1.3 63.7 + - + +
156C SER* 3.3 3.9 + - - -
157C ARG* 3.0 60.5 + - + +
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Residues in contact with GLN 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 3.5 27.9 - - + +
111A VAL* 4.0 27.0 + - - +
27C GLU* 3.5 31.1 + - + +
28C SER* 5.3 4.5 + - - +
32C GLN* 6.0 0.4 - - - +
33C TRP* 4.2 36.7 - - - +
34C GLY* 5.3 0.5 - - - -
150C GLU* 3.0 19.3 + - - +
151C ALA* 3.1 8.8 + - - +
153C LEU* 1.3 80.4 - - + +
155C VAL* 1.3 57.4 + - + +
157C ARG* 3.2 6.2 + - - +
158C LEU* 2.8 35.8 + - + +
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Residues in contact with VAL 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C SER* 4.7 14.4 - - - +
35C GLU* 6.4 0.7 - - - -
151C ALA* 2.9 20.3 + - + +
152C ARG 3.9 1.8 - - - +
154C GLN* 1.3 77.6 - - + +
156C SER* 1.3 62.9 + - - +
158C LEU* 3.2 11.5 + - + +
159C TYR* 2.9 22.2 + - - +
171C LEU* 3.6 37.0 - - + +
174C LEU* 4.4 10.1 - - + -
175C LEU* 3.6 21.1 - - + +
178C GLU* 3.6 26.7 - - - +
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Residues in contact with SER 156 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201B PRO* 3.3 27.8 - - - +
204B MET* 3.4 29.1 - - - +
152C ARG 2.8 24.4 + - - -
153C LEU* 3.5 5.6 - - - -
155C VAL* 1.3 78.2 - - - +
157C ARG* 1.3 63.2 + - - +
159C TYR* 3.3 16.1 + - - +
160C SER* 3.6 7.8 + - - -
175C LEU* 3.3 14.0 - - - +
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Residues in contact with ARG 157 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 5.6 2.0 - - + -
109A SER 3.7 9.2 + - - -
110A LEU* 3.0 35.2 + - + -
111A VAL 3.1 11.1 + - - -
113A GLY* 3.4 23.3 - - - +
134B SER 2.7 30.7 + - - -
135B GLY* 4.2 8.1 - - - -
136B ASN* 4.4 1.0 - - - +
153C LEU* 3.0 49.3 + - + +
154C GLN* 3.2 7.8 + - - +
156C SER* 1.3 73.5 - - - +
158C LEU* 1.3 66.2 + - - +
160C SER* 2.9 17.9 + - - -
161C MET* 3.3 25.5 + - + +
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Residues in contact with LEU 158 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 3.8 21.8 - - + -
21C MET* 3.7 20.8 - - + +
24C ARG* 3.8 33.0 - - + +
25C LEU* 3.8 16.8 - - + -
27C GLU* 5.9 0.4 - - + -
28C SER* 3.6 24.2 - - - +
154C GLN* 2.8 25.8 + - + +
155C VAL* 3.5 15.3 - - + +
157C ARG* 1.3 72.4 - - - +
159C TYR* 1.3 58.5 + - - +
161C MET* 2.9 28.9 + - - +
162C THR* 3.6 6.6 + - - +
171C LEU* 3.9 15.9 - - + -
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Residues in contact with TYR 159 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204B MET* 4.3 16.4 - - + -
207B ILE* 3.6 38.8 - - + +
155C VAL 2.9 11.9 + - - +
156C SER* 3.3 12.6 - - - +
157C ARG 3.1 0.4 - - - -
158C LEU* 1.3 76.4 - - - +
160C SER* 1.3 63.7 + - - +
161C MET 3.3 0.2 - - - -
162C THR* 3.2 7.0 - - - +
165C GLU* 5.2 1.0 + - - -
168C ARG* 2.9 91.0 + - + +
171C LEU* 3.7 15.0 - - + +
172C LYS* 3.7 26.6 + - + -
175C LEU* 5.0 2.9 - - + -
----------------------------------------------------------
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Residues in contact with SER 160 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 4.7 16.1 - - - -
87A GLY* 3.7 7.3 - - - -
88A PRO* 3.5 14.3 - - - +
89A GLU 5.4 0.7 + - - -
156C SER 3.6 7.5 + - - -
157C ARG* 2.9 12.4 + - - -
159C TYR* 1.3 82.1 - - - +
161C MET* 1.3 60.5 + - - +
162C THR 3.5 2.0 - - - -
168C ARG* 4.5 6.1 + - - +
----------------------------------------------------------
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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