Contacts of the helix formed by residues 133 - 157 (chain C) in PDB entry 1O9R
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 133 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C LEU* 3.4 30.5 - - + +
14C ALA* 5.3 0.2 - - + -
18C VAL* 3.6 20.1 - - + +
72C ARG* 3.0 23.4 + - - -
76C LEU* 3.8 2.1 - - - +
128C SER 3.1 18.3 + - - +
129C ASP* 3.9 1.2 + - - -
131C ALA 5.0 1.1 - - - +
132C GLY* 1.3 79.8 - - - +
134C PRO* 1.3 62.6 - - - +
135C THR* 3.4 4.3 + - - -
136C THR* 2.5 32.1 + - - -
137C ALA* 3.0 17.7 + - - +
122E ARG* 5.7 0.3 + - - -
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Residues in contact with PRO 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C ASP* 3.9 21.5 - - - +
132C GLY* 3.3 10.5 - - - +
133C ASP* 1.3 89.5 - - - +
135C THR* 1.3 57.9 + - - +
137C ALA* 3.6 5.0 - - + +
138C ASP* 2.9 28.2 + - - +
122E ARG* 5.7 5.4 - - + +
125E ILE* 3.9 27.8 - - + -
126E ASP* 3.6 24.9 - - - +
141E THR* 4.0 6.5 - - - +
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Residues in contact with THR 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ARG* 3.4 34.5 - - - +
133C ASP* 3.1 3.0 + - - -
134C PRO* 1.3 78.5 - - - +
136C THR* 1.4 62.3 + - - +
138C ASP* 3.2 12.3 + - - +
139C ILE* 3.3 14.1 + - + +
122E ARG* 4.9 4.9 + - - +
125E ILE* 3.5 14.9 - - - +
141E THR* 4.2 8.0 - - - +
144E SER* 2.8 29.8 + - - +
145E ARG* 3.6 29.4 - - + +
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Residues in contact with THR 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C VAL* 3.4 23.4 - - + +
22C LEU* 3.9 13.5 - - + -
72C ARG* 2.8 26.6 + - + +
128C SER* 3.5 13.5 - - - +
133C ASP* 2.5 35.1 + - - -
135C THR* 1.4 72.8 - - - +
137C ALA* 1.3 66.3 + - - +
139C ILE* 3.0 17.1 + - + +
140C PHE* 3.1 24.9 + - + -
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Residues in contact with ALA 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C ILE* 3.6 31.1 - - + +
128C SER* 3.8 9.3 - - - -
129C ASP* 3.9 15.3 - - + +
133C ASP 3.0 15.4 + - - +
134C PRO* 3.3 13.2 + - + +
136C THR* 1.3 74.6 - - - +
138C ASP* 1.3 57.5 - - - +
140C PHE* 3.2 4.8 + - - +
141C THR* 2.9 31.4 + - - +
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Residues in contact with ASP 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ASP* 4.1 3.5 - - - +
134C PRO 2.9 7.7 + - - +
135C THR 3.5 6.7 - - - +
136C THR 3.1 0.4 - - - -
137C ALA* 1.3 74.2 - - - +
139C ILE* 1.3 64.2 + - - +
141C THR* 3.5 7.5 - - - -
142C ALA* 2.9 23.6 + - - +
138E ASP* 4.1 1.7 - - - +
141E THR* 3.4 30.0 - - + +
145E ARG* 2.9 24.3 + - - -
1164E TRS 2.6 50.0 + - - -
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Residues in contact with ILE 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C LEU* 5.0 5.2 - - + -
65C HIS* 4.7 3.2 + - - +
68C THR* 3.6 26.2 - - + +
69C ILE* 4.0 27.4 - - + +
72C ARG* 3.7 41.1 - - + +
75C GLN* 5.4 1.8 - - - +
135C THR* 3.3 11.9 + - + +
136C THR* 3.0 8.6 + - - +
138C ASP* 1.3 79.0 - - - +
140C PHE* 1.4 62.3 + - + +
142C ALA* 3.4 3.4 + - - +
143C ALA* 3.1 21.1 + - - +
145E ARG* 3.6 35.7 - - + +
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Residues in contact with PHE 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ILE* 3.8 14.8 - - + -
22C LEU* 3.6 23.8 - - + -
25C SER* 3.6 25.1 - - - -
69C ILE* 4.1 16.4 - - + -
121C ILE* 3.2 26.3 - - + +
124C ALA* 3.7 24.9 - - + -
125C ILE* 3.7 18.2 - - + +
128C SER* 3.4 28.0 - - - -
136C THR* 3.1 32.4 + - + -
137C ALA 3.6 5.8 - - - +
139C ILE* 1.4 77.7 - - + +
141C THR* 1.3 57.1 + - - +
143C ALA* 3.3 2.1 + - + -
144C SER* 2.8 25.5 + - - -
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Residues in contact with THR 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A PRO* 4.1 11.6 - - - +
135A THR* 4.3 8.5 - - - +
138A ASP* 3.4 40.8 - - + +
125C ILE* 3.4 25.2 - - - +
137C ALA 2.9 17.8 + - - -
138C ASP* 3.1 11.5 + - - -
140C PHE* 1.3 72.3 - - - +
142C ALA* 1.3 61.8 + - - +
144C SER* 3.2 2.8 + - - -
145C ARG* 2.9 29.1 + - - +
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Residues in contact with ALA 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C HIS* 3.5 18.5 - - + +
138C ASP 2.9 15.3 + - - +
139C ILE* 3.8 4.7 - - - +
141C THR* 1.3 78.0 - - - +
143C ALA* 1.4 61.1 + - - +
145C ARG* 3.3 14.9 + - - +
146C ASP* 3.4 11.3 + - - +
145E ARG* 4.3 15.9 - - - +
1164E TRS 4.4 18.5 + - - +
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Residues in contact with ALA 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C HIS* 3.4 36.6 + - + +
69C ILE* 5.1 6.1 - - + -
121C ILE* 4.1 14.8 - - + -
139C ILE 3.1 12.8 + - - +
140C PHE* 3.6 9.2 - - - +
142C ALA* 1.4 76.5 - - - +
144C SER* 1.4 59.0 + - - +
146C ASP* 3.2 3.8 + - - +
147C LEU* 2.8 39.0 + - + +
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Residues in contact with SER 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A THR* 2.8 28.3 + - - +
118C ALA 5.1 1.2 + - - -
121C ILE* 3.7 13.2 - - - +
122C ARG* 4.2 10.8 + - - +
125C ILE* 3.8 11.3 - - - +
140C PHE 2.8 17.9 + - - -
141C THR 3.5 5.4 - - - -
143C ALA* 1.4 74.3 - - - +
145C ARG* 1.3 61.7 + - - +
147C LEU* 4.4 4.5 - - - -
148C ASP* 2.8 40.8 + - - +
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Residues in contact with ARG 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A THR* 3.5 25.1 + - - +
75A GLN* 4.6 3.3 - - - +
135A THR* 3.6 26.5 - - + +
138A ASP* 3.0 39.9 + - - -
139A ILE* 3.5 27.6 - - + +
142A ALA* 4.4 9.5 - - - +
141C THR 2.9 13.1 + - - +
142C ALA* 3.7 9.4 - - - +
143C ALA 3.3 0.2 - - - -
144C SER* 1.3 77.3 - - - +
146C ASP* 1.3 65.7 + - - +
148C ASP* 4.1 2.5 - - - +
149C LYS* 3.1 24.3 + - - +
1164E TRS 3.8 14.3 + - - -
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Residues in contact with ASP 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C GLN* 3.7 32.3 + - + +
65C HIS* 2.7 38.6 + - + +
142C ALA 3.4 4.7 + - - +
143C ALA 3.2 3.4 + - - +
145C ARG* 1.3 80.7 - - - +
147C LEU* 1.4 58.0 + - + +
149C LYS* 3.3 9.1 + - - +
150C SER* 2.8 34.0 + - - -
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Residues in contact with LEU 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C VAL* 5.4 2.5 - - + -
32C LEU* 4.1 16.8 - - + -
62C LEU* 4.1 15.0 - - + -
65C HIS* 6.0 3.4 - - + -
114C TYR* 4.3 15.6 - - + +
117C VAL* 4.0 24.7 - - + +
118C ALA* 4.0 18.4 - - + +
121C ILE* 3.5 36.8 - - + -
143C ALA* 2.8 30.5 + - + +
144C SER* 3.9 3.8 - - - +
146C ASP* 1.4 72.6 - - + +
148C ASP* 1.3 59.9 + - - +
150C SER* 3.3 3.5 + - - +
151C LEU* 2.8 30.7 + - - +
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Residues in contact with ASP 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ASN* 3.1 13.6 - - - +
72A ARG* 2.7 34.6 + - - +
75A GLN* 3.7 9.2 - - + +
118C ALA* 3.6 11.1 - - - +
122C ARG* 2.8 41.3 + - - -
144C SER* 2.8 28.5 + - - +
145C ARG* 4.1 2.0 - - - +
147C LEU* 1.3 72.1 - - - +
149C LYS* 1.3 57.8 + - - +
151C LEU* 3.5 8.0 + - - +
152C TRP* 3.1 26.7 + - - +
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Residues in contact with LYS 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A GLU* 3.0 36.8 + - - +
75A GLN* 3.9 16.7 + - - +
1163A FE 4.3 3.0 - - - -
145C ARG 3.1 18.6 + - - +
146C ASP* 3.7 9.2 - - - +
148C ASP* 1.3 73.2 - - - +
150C SER* 1.3 61.3 + - - +
152C TRP* 3.3 12.6 + - + +
153C PHE* 2.9 59.3 + - + -
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Residues in contact with SER 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C PHE* 3.5 36.5 - - - +
61C GLN* 3.5 10.6 + - - -
114C TYR* 3.9 21.7 - - - -
146C ASP 2.8 19.5 + - - -
147C LEU* 3.3 5.4 + - - -
149C LYS* 1.3 78.3 - - - +
151C LEU* 1.3 57.4 + - - +
153C PHE* 3.2 4.4 + - - +
154C LEU* 3.0 33.5 + - - +
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Residues in contact with LEU 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A THR* 4.0 6.1 - - - +
7A LYS* 4.3 0.9 - - + -
8A ASN* 3.7 37.0 - - + +
111C ILE* 4.0 13.0 - - + +
114C TYR* 4.2 10.2 - - + -
115C GLY* 3.8 34.8 - - - +
118C ALA* 4.4 11.0 - - + -
147C LEU 2.8 18.6 + - - +
148C ASP* 3.7 6.7 - - - +
150C SER* 1.3 72.9 - - - +
152C TRP* 1.3 60.2 + - - +
154C LEU* 3.2 8.5 + - + +
155C GLU* 2.8 55.3 + - + +
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Residues in contact with TRP 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A GLU* 3.6 34.5 - - + -
74A VAL* 3.3 40.0 - - + +
75A GLN* 3.6 33.4 - - + +
41B TRP* 3.7 14.2 + - - -
43B LEU 5.3 0.2 + - - -
44B LYS* 4.3 11.1 - - - +
48B PHE* 3.9 18.5 - + - -
52B HIS* 3.8 22.0 - + - -
148C ASP 3.1 14.7 + - - +
149C LYS* 3.6 10.1 - - + +
151C LEU* 1.3 77.6 - - - +
153C PHE* 1.4 76.5 + + - +
155C GLU* 4.4 8.7 - - - +
156C ALA* 2.7 49.2 + - + +
159C GLN* 4.9 4.3 - - - +
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Residues in contact with PHE 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B PHE* 3.5 19.6 - + + -
49B ILE* 3.5 24.2 - - + -
52B HIS* 3.8 24.2 - + - -
53B GLU* 5.3 2.2 - - - -
54C LEU* 3.9 21.1 - - + -
58C PHE* 4.0 16.6 - + + -
149C LYS* 2.9 42.5 + - + +
150C SER 3.2 8.0 + - - +
152C TRP* 1.4 111.8 - + - +
154C LEU* 1.4 60.3 + - - +
156C ALA* 3.6 5.9 + - - +
157C HIS* 2.8 25.3 + - - -
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Residues in contact with LEU 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C VAL* 5.9 1.3 - - + -
54C LEU* 5.4 4.5 - - + -
55C LEU* 4.5 6.3 - - + -
58C PHE* 3.7 20.2 - - + -
107C LEU* 3.8 24.7 - - + +
110C LEU* 4.1 26.7 - - + +
111C ILE* 3.6 21.8 - - + +
114C TYR* 3.6 44.2 - - + -
150C SER 3.0 18.6 + - - +
151C LEU* 3.6 5.2 - - - +
153C PHE* 1.4 75.9 - - - +
155C GLU* 1.3 64.2 + - - +
157C HIS* 3.1 23.6 + - - +
158C VAL* 3.9 2.6 + - - +
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Residues in contact with GLU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A LYS 4.2 1.8 - - - +
6A THR* 2.5 35.3 + - - -
7A LYS* 2.8 38.1 + - - +
75A GLN 5.3 0.5 - - - +
111C ILE* 3.9 24.9 - - + +
151C LEU* 2.8 34.5 + - + +
152C TRP* 3.9 6.3 - - - +
154C LEU* 1.3 72.7 - - - +
156C ALA* 1.3 58.3 + - - +
158C VAL* 2.9 21.2 + - + +
159C GLN* 3.0 33.5 + - + +
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Residues in contact with ALA 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B LEU 4.2 5.2 - - - +
44B LYS* 3.4 5.0 - - + -
45B GLY 2.8 26.1 + - - -
48B PHE* 3.6 36.1 - - + -
152C TRP* 2.7 33.5 + - + +
153C PHE 3.9 1.8 - - - +
154C LEU 3.2 0.2 - - - -
155C GLU* 1.3 73.2 - - - +
157C HIS* 1.3 58.0 + - - +
158C VAL 3.4 0.5 + - - -
159C GLN* 3.3 16.7 + - - +
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Residues in contact with HIS 157 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B GLY* 3.2 23.1 - - - -
46B PRO* 3.3 34.0 + - + +
47B GLN 4.8 0.2 - - - -
48B PHE* 3.8 21.2 + + + +
49B ILE* 3.4 31.8 + - + +
47C GLN* 5.7 0.2 - - + -
50C ALA* 5.9 0.2 - - - +
51C VAL* 4.2 18.9 - - + +
54C LEU* 4.1 15.0 - - + -
107C LEU* 3.8 25.1 - - + +
153C PHE 2.8 25.4 + - - -
154C LEU* 3.1 13.0 + - + +
155C GLU 3.1 1.0 - - - -
156C ALA* 1.3 77.3 - - - +
158C VAL* 1.3 60.9 + - - +
159C GLN 3.7 0.2 - - - -
160C GLU 3.8 3.6 - - - +
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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