Contacts of the helix formed by residues 141 - 169 (chain C) in PDB entry 2BWJ
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 PRO 141 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C SER 4.7 0.9 - - - +
140C LEU* 1.3 92.4 - - + +
142C VAL* 1.3 66.9 + - - +
143C ASP* 3.2 4.3 - - + +
144C ASP* 3.1 28.8 + - - +
145C THR* 3.0 19.9 + - - -
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Residues in contact with VAL 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C LEU* 4.2 23.1 - - + -
140C LEU 3.8 0.6 + - - -
141C PRO* 1.3 72.6 - - + +
143C ASP* 1.3 69.2 + - - +
145C THR* 3.6 5.8 - - - -
146C THR* 2.6 49.3 + - - +
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Residues in contact with ASP 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C PRO* 3.1 3.6 + - + +
142C VAL* 1.3 91.7 - - - +
144C ASP* 1.3 66.5 + - - +
146C THR* 3.6 5.0 + - - -
147C LYS* 3.0 32.4 + - + +
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Residues in contact with ASP 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C LEU* 4.3 21.6 - - + +
141C PRO* 3.1 35.3 + - - +
143C ASP* 1.3 78.4 - - - +
145C THR* 1.3 66.3 + - - +
147C LYS* 3.2 19.3 + - - +
148C THR* 3.2 16.9 + - - -
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Residues in contact with THR 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C LEU* 3.9 17.9 - - + -
136C SER* 3.6 8.5 - - - +
138C SER* 2.6 31.4 + - - -
140C LEU* 3.1 8.7 + - - +
141C PRO 3.0 13.2 + - - -
142C VAL* 3.6 11.6 - - - -
144C ASP* 1.3 77.7 - - - +
146C THR* 1.3 55.8 + - - +
148C THR* 3.4 5.9 + - - -
149C ILE* 3.0 27.5 + - + +
55F GLU* 3.3 30.6 - - + +
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Residues in contact with THR 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C THR* 4.2 22.6 - - + +
133C LEU* 3.8 11.5 - - + +
142C VAL* 2.6 39.7 + - - +
143C ASP* 3.9 5.8 - - - -
145C THR* 1.3 71.4 - - - +
147C LYS* 1.3 59.1 + - - +
149C ILE* 3.7 8.9 - - - +
150C ALA* 3.0 27.5 + - + +
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Residues in contact with LYS 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C ASP* 3.0 26.7 + - + +
144C ASP* 3.2 9.1 + - - +
146C THR* 1.3 75.5 - - - +
148C THR* 1.3 62.4 + - - +
150C ALA* 3.3 9.5 + - - +
151C LYS* 3.1 32.7 + - - +
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Residues in contact with THR 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C ASP 3.2 10.9 + - - -
145C THR* 3.6 8.9 - - - -
146C THR 3.2 0.4 - - - -
147C LYS* 1.3 78.2 - - - +
149C ILE* 1.3 63.4 + - - +
151C LYS* 2.9 29.3 + - + +
152C ARG* 3.0 12.4 + - + +
55F GLU* 3.5 41.7 - - + +
56F ARG* 3.7 13.2 + - + +
59F LEU* 4.5 12.6 - - + -
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Residues in contact with ILE 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C THR* 4.0 27.8 - - + +
132C LEU* 3.8 26.5 - - + -
133C LEU* 3.3 50.9 - - + +
145C THR* 3.0 21.5 + - + +
146C THR* 3.7 8.7 - - - +
147C LYS 3.4 0.2 - - - -
148C THR* 1.3 76.1 - - - +
150C ALA* 1.3 62.7 + - - +
152C ARG* 3.0 21.0 + - - +
153C LEU* 3.0 16.1 + - + +
55F GLU* 3.4 24.2 - - - +
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Residues in contact with ALA 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C THR* 5.7 1.8 - - - +
146C THR* 3.0 16.5 + - + +
147C LYS* 3.5 12.3 - - - +
148C THR 3.2 0.4 - - - -
149C ILE* 1.3 75.6 - - - +
151C LYS* 1.3 57.1 + - + +
153C LEU* 3.4 10.3 + - - +
154C GLU* 3.1 28.6 + - - +
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Residues in contact with LYS 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C LYS* 3.1 24.9 + - - +
148C THR* 2.9 22.2 + - - +
150C ALA* 1.3 73.7 - - - +
152C ARG* 1.3 60.9 + - - +
154C GLU* 3.5 6.9 + - - +
155C ALA* 3.0 29.3 + - - +
59F LEU* 3.8 27.3 - - + +
74F ILE* 6.4 1.3 - - + +
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Residues in contact with ARG 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C PRO* 3.6 27.0 - - + +
132C LEU* 3.9 25.1 + - + +
148C THR 3.0 10.2 + - - +
149C ILE* 3.0 20.1 + - - +
151C LYS* 1.3 75.8 - - - +
153C LEU* 1.3 59.9 + - + +
155C ALA* 3.5 2.6 + - - +
156C TYR* 3.0 26.3 + - - +
55F GLU* 2.9 31.2 + - - -
58F LYS* 3.6 26.5 - - - +
59F LEU* 3.7 36.6 - - + +
62F ASP* 2.8 38.3 + - - +
66F ARG* 5.3 1.0 + - - -
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Residues in contact with LEU 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C PRO* 3.9 19.3 - - + +
125C ALA* 3.6 31.9 - - + +
128C MET* 3.8 34.3 - - + -
129C THR* 3.5 24.9 - - - +
132C LEU* 4.1 9.0 - - + -
149C ILE* 3.0 18.7 + - + +
150C ALA* 3.9 7.6 - - - +
151C LYS 3.3 0.2 - - - -
152C ARG* 1.3 73.6 - - - +
154C GLU* 1.3 58.9 + - - +
156C TYR* 3.2 6.5 + - + +
157C TYR* 2.8 48.0 + - + -
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Residues in contact with GLU 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C ALA 3.1 17.3 + - - +
151C LYS* 3.8 7.4 - - - +
153C LEU* 1.3 76.7 - - - +
155C ALA* 1.3 60.8 + - - +
157C TYR* 3.2 18.1 + - - +
158C ARG* 3.0 54.4 + - - +
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Residues in contact with ALA 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C LYS 3.0 17.9 + - - +
152C ARG 3.7 4.9 - - - +
154C GLU* 1.3 72.7 - - - +
156C TYR* 1.3 65.7 + - - +
158C ARG* 3.5 7.0 + - - +
159C ALA* 3.2 23.0 + - - +
59F LEU* 4.4 13.2 - - + -
62F ASP* 6.0 0.2 - - + -
63F ILE* 4.8 7.0 - - + -
66F ARG* 3.5 21.7 + - - +
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Residues in contact with TYR 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ILE* 3.6 13.6 - - + +
18C GLY* 3.3 36.0 - - - -
19C GLY* 3.2 25.7 + - - -
20C PRO* 3.7 14.6 - - + -
120C CYS* 4.9 2.3 - - - -
121C MET 4.3 6.2 + - - -
128C MET* 5.0 6.1 - - + -
152C ARG 3.0 14.9 + - - +
153C LEU* 3.2 8.3 + - - +
155C ALA* 1.3 78.3 - - - +
157C TYR* 1.3 82.4 + + - +
159C ALA* 3.2 3.2 + - + +
160C SER* 2.9 56.7 + - - -
164C ILE* 4.6 5.4 - - - +
66F ARG* 4.2 17.6 - - - +
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Residues in contact with TYR 157 (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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123C CYS 4.3 3.6 + - - -
125C ALA* 3.6 22.9 + - + +
128C MET* 3.3 26.8 - - + +
153C LEU* 2.8 38.2 + - + +
154C GLU* 3.2 19.0 + - - +
156C TYR* 1.3 95.6 - + - +
158C ARG* 1.3 58.1 + - + +
160C SER* 3.7 4.3 - - - -
161C ILE* 3.0 57.4 + - + +
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Residues in contact with ARG 158 (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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100C ARG 5.1 0.2 - - - +
154C GLU* 3.0 50.0 + - - +
155C ALA* 3.9 6.9 - - - +
156C TYR 3.3 0.2 - - - -
157C TYR* 1.3 75.7 - - + +
159C ALA* 1.3 62.0 + - - +
162C PRO* 3.2 23.0 - - - +
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Residues in contact with ALA 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C PRO 4.7 1.1 - - - +
100C ARG* 3.5 21.5 - - - +
155C ALA 3.2 17.6 + - - +
156C TYR* 3.7 5.6 - - + +
158C ARG* 1.3 79.4 - - - +
160C SER* 1.3 58.8 + - - +
162C PRO* 4.1 2.6 - - - +
163C VAL* 3.3 24.1 - - - +
66F ARG* 3.9 30.5 - - - +
68F ASP* 4.8 3.4 - - - +
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Residues in contact with SER 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ILE* 4.0 13.7 - - - -
156C TYR* 2.9 60.9 + - - -
157C TYR* 3.7 6.2 - - - -
159C ALA* 1.3 79.3 - - - +
161C ILE* 1.3 63.5 + - - +
163C VAL* 3.3 6.2 + - - +
164C ILE* 2.8 40.7 + - - +
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Residues in contact with ILE 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C TYR* 3.0 44.0 + - + +
158C ARG* 5.5 0.2 - - - -
160C SER* 1.3 81.1 + - - +
162C PRO* 1.4 64.2 - - + +
164C ILE* 4.0 7.2 - - + +
165C ALA* 3.0 30.9 + - + +
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Residues in contact with PRO 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C GLU* 6.1 1.8 - - - -
102C VAL* 3.2 24.2 - - + +
157C TYR 4.1 0.7 - - - +
158C ARG* 3.2 25.1 - - - +
159C ALA 4.1 2.5 - - - +
160C SER 3.7 0.4 - - - -
161C ILE* 1.4 99.9 - - + +
163C VAL* 1.3 57.9 + - + +
165C ALA* 3.9 6.1 - - + +
166C TYR* 3.1 19.9 + - - +
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Residues in contact with VAL 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ILE* 4.7 15.3 - - + -
99C PRO* 3.7 33.9 - - + +
101C GLU* 3.6 39.3 - - - +
102C VAL* 4.1 5.4 - - - +
118C VAL* 6.0 0.7 - - + -
159C ALA 3.3 19.1 - - - +
160C SER* 3.3 10.5 + - - +
161C ILE 3.2 0.6 - - - -
162C PRO* 1.3 75.4 - - + +
164C ILE* 1.3 66.3 + - + +
166C TYR* 3.2 2.2 + - - +
167C TYR* 3.0 37.2 + - + -
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Residues in contact with ILE 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ILE* 4.4 14.4 - - + -
118C VAL* 5.7 2.7 - - + -
120C CYS* 3.4 31.4 - - + -
156C TYR* 4.6 2.0 - - - +
160C SER* 2.8 42.3 + - - +
161C ILE* 4.1 6.7 - - + +
163C VAL* 1.3 74.8 - - + +
165C ALA* 1.3 63.2 + - - +
167C TYR* 5.0 0.7 - - - -
168C GLU* 3.0 24.7 + - - +
173C LEU* 3.3 25.6 - - + +
175C LYS* 4.1 27.1 - - - +
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Residues in contact with ALA 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161C ILE* 3.0 21.2 + - + +
162C PRO* 3.9 7.4 - - + +
164C ILE* 1.3 78.6 - - - +
166C TYR* 1.3 60.5 + - - +
168C GLU* 3.5 11.4 - - - +
169C THR* 3.4 18.7 - - - +
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Residues in contact with TYR 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C VAL* 3.6 29.6 - - + -
105C GLY 5.1 0.4 - - - -
106C GLU* 3.6 45.0 - - + +
162C PRO 3.1 19.2 + - - +
163C VAL* 3.6 3.1 - - - +
164C ILE 3.2 0.2 - - - -
165C ALA* 1.3 76.6 - - - +
167C TYR* 1.3 102.3 + + - +
169C THR* 2.7 36.6 + - + -
170C LYS* 3.5 26.5 + - + +
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Residues in contact with TYR 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C PHE* 3.4 21.1 - + - -
99C PRO* 3.7 25.5 - - + +
102C VAL* 6.3 0.4 - - - -
105C GLY* 3.2 32.1 + - - -
108C PHE* 5.5 0.2 - - - -
115C PRO* 4.1 18.5 - - + +
118C VAL* 3.8 22.9 - - + -
163C VAL* 3.0 33.5 + - + +
166C TYR* 1.3 101.5 - + - +
168C GLU* 1.3 67.1 + - - +
170C LYS* 3.6 7.6 - - + +
171C THR* 2.9 45.5 + - + +
173C LEU* 3.9 15.9 - - + +
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Residues in contact with GLU 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C ILE* 3.0 13.8 + - - +
165C ALA* 3.5 17.0 - - - +
167C TYR* 1.3 78.1 - - - +
169C THR* 1.3 60.8 + - + +
170C LYS 3.3 0.3 + - - -
171C THR 3.9 8.7 + - - +
173C LEU* 3.6 35.2 - - - +
175C LYS* 4.7 10.6 - - - +
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Residues in contact with THR 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C ALA 3.4 19.1 - - - +
166C TYR* 2.7 23.9 + - - +
168C GLU* 1.3 77.1 - - + +
170C LYS* 1.3 63.6 + - - +
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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