Contacts of the helix formed by residues 141 - 164 (chain E) in PDB entry 1F33
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 141 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133C ARG* 4.3 12.0 - - - +
21E VAL* 4.7 10.1 - - + +
25E GLU* 3.4 9.3 + - - +
29E THR* 3.8 18.5 + - - +
83E ARG* 2.7 34.8 + - - -
87E LEU* 4.2 6.2 - - - +
139E ALA* 4.4 1.1 - - - +
140E LYS* 1.3 77.3 - - - +
142E ASP* 1.3 69.5 + - - +
143E ASP* 3.9 2.3 + - - +
144E THR* 2.6 33.7 + - - +
145E ALA* 2.9 21.6 + - - +
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Residues in contact with ASP 142 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133C ARG* 4.4 8.1 - - + +
136C ILE* 3.8 41.1 - - + +
137C GLY* 4.3 9.6 + - - -
149C THR* 4.2 5.0 - - + +
140E LYS 3.3 8.3 + - - +
141E ASP* 1.3 72.8 + - - +
143E ASP* 1.3 65.2 + - - +
145E ALA* 3.0 10.5 + - - +
146E ASP* 2.9 22.3 + - - +
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Residues in contact with ASP 143 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C ARG* 4.0 3.5 - - - -
136C ILE* 3.4 7.7 - - - +
149C THR* 3.3 28.5 - - - +
152C SER* 2.6 31.2 + - - -
153C ARG* 3.7 18.5 + - - +
156C ASP* 3.5 7.1 - - - +
83E ARG* 3.3 35.0 + - - +
141E ASP* 3.3 2.5 + - - -
142E ASP* 1.3 78.5 - - - +
144E THR* 1.3 57.6 + - - +
146E ASP* 3.2 4.7 + - - +
147E ILE* 3.0 32.4 + - - +
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Residues in contact with THR 144 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29E THR* 3.1 22.5 - - + +
32E LEU* 5.0 4.0 - - + -
33E LEU* 3.5 28.9 - - + -
83E ARG* 3.6 9.6 + - - +
139E ALA* 4.3 7.9 - - + -
141E ASP* 2.6 34.2 + - - -
143E ASP* 1.3 75.2 - - - +
145E ALA* 1.3 67.6 + - - +
147E ILE* 3.2 9.6 + - - +
148E LEU* 2.9 35.6 + - + +
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Residues in contact with ALA 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136E ILE* 4.0 24.1 - - + +
139E ALA* 4.0 15.4 - - + +
141E ASP 2.9 12.3 + - - +
142E ASP* 3.0 13.2 + - - +
144E THR* 1.3 76.2 - - - +
146E ASP* 1.3 54.2 + - - +
148E LEU* 3.4 4.3 + - - +
149E THR* 2.6 38.2 + - - -
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Residues in contact with ASP 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B ASP* 4.2 2.8 - - - +
146C ASP* 4.3 1.0 - - - +
149C THR* 3.7 21.4 - - + +
150C ALA 5.2 0.5 + - - -
153C ARG* 3.0 19.6 + - - +
603C TRS 2.6 53.2 + - - -
142E ASP 2.9 11.0 + - - +
143E ASP 3.3 9.9 - - - +
145E ALA* 1.3 74.6 - - - +
147E ILE* 1.3 66.9 + - - +
149E THR* 2.9 9.0 + - - -
150E ALA* 2.9 22.7 + - - +
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Residues in contact with ILE 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153C ARG* 3.5 35.9 - - + +
33E LEU* 5.1 2.2 - - + -
76E HIS* 4.7 4.0 + - - +
79E THR* 3.8 24.2 - - + +
80E MET* 3.6 31.4 - - + -
83E ARG* 3.6 40.2 - - + -
143E ASP 3.0 14.5 + - - +
144E THR* 3.5 9.2 - - + +
146E ASP* 1.3 77.5 - - - +
148E LEU* 1.3 62.9 + - + +
150E ALA* 3.3 4.6 + - - +
151E ALA* 3.0 21.5 + - + +
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Residues in contact with LEU 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32E LEU* 4.2 8.5 - - + -
33E LEU* 4.6 7.2 - - + -
36E GLN* 3.9 11.9 - - + -
80E MET* 3.8 28.5 - - + -
132E VAL* 3.9 20.0 - - + +
135E ALA* 3.9 33.2 - - + +
136E ILE* 3.9 14.0 - - + +
139E ALA* 4.1 7.0 - - + -
144E THR* 2.9 35.6 + - + +
145E ALA 3.8 3.4 - - - +
147E ILE* 1.3 73.6 - - - +
149E THR* 1.3 60.8 + - - +
151E ALA* 3.3 3.2 + - - +
152E SER* 2.7 31.0 + - - -
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Residues in contact with THR 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B ASP* 4.3 4.8 - - + +
143B ASP* 3.4 19.9 - - - +
146B ASP* 3.6 37.7 - - + +
136E ILE* 3.4 25.7 - - + +
145E ALA 2.6 21.1 + - - -
146E ASP* 2.9 10.8 + - - -
148E LEU* 1.3 75.7 - - - +
150E ALA* 1.3 57.2 + - - +
153E ARG* 2.8 30.8 + - - +
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Residues in contact with ALA 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B ASP* 5.2 5.1 + - - -
153C ARG* 4.9 10.5 - - - +
603C TRS 5.2 12.6 - - - +
76E HIS* 3.4 20.1 + - + +
146E ASP 2.9 11.4 + - - +
147E ILE* 3.6 10.8 - - - +
149E THR* 1.3 79.2 - - - +
151E ALA* 1.3 62.1 + - - +
153E ARG* 3.5 8.1 - - - +
154E ASP* 3.4 16.5 + - - +
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Residues in contact with ALA 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40E PHE* 3.9 21.1 - - + -
76E HIS* 3.4 33.1 - - + +
80E MET* 4.9 5.6 - - - -
132E VAL* 4.7 2.5 - - + -
147E ILE* 3.0 16.1 + - + +
148E LEU* 3.7 7.2 - - - +
150E ALA* 1.3 75.1 - - - +
152E SER* 1.3 65.6 + - - +
154E ASP* 3.1 4.5 + - - +
155E LEU* 3.0 28.9 + - - +
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Residues in contact with SER 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143B ASP* 2.5 33.6 + - - -
132E VAL* 4.0 21.4 - - - +
133E ARG* 3.7 19.2 - - - +
136E ILE* 3.7 8.7 - - - -
148E LEU 2.7 21.9 + - - -
149E THR 3.5 0.2 - - - -
151E ALA* 1.3 71.7 - - - +
153E ARG* 1.3 65.5 + - - +
155E LEU* 3.0 2.7 + - - +
156E ASP* 2.9 28.8 + - - +
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Residues in contact with ARG 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79B THR* 3.6 19.0 - - - +
83B ARG* 5.2 2.6 + - - +
86B GLN* 4.4 3.5 - - - +
143B ASP* 3.7 26.6 + - + +
146B ASP* 3.0 27.2 + - - -
147B ILE* 3.4 45.3 - - + +
150B ALA* 4.8 9.7 - - - +
603C TRS 4.5 7.5 + - - -
149E THR 2.8 17.6 + - - +
150E ALA* 3.5 9.7 - - - +
152E SER* 1.3 76.7 - - - +
154E ASP* 1.3 63.2 + - - +
156E ASP* 3.7 4.5 + - - +
157E LYS* 3.4 18.9 + - - +
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Residues in contact with ASP 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72E ALA* 4.2 8.3 - - - +
76E HIS* 2.7 32.0 + - + +
150E ALA 3.4 3.5 + - - -
151E ALA 3.1 8.5 + - - +
152E SER 3.1 0.8 - - - -
153E ARG* 1.3 79.2 - - - +
155E LEU* 1.3 61.6 + - + +
157E LYS* 3.0 11.6 + - - +
158E PHE* 2.8 59.1 + - + -
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Residues in contact with LEU 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40E PHE* 3.2 38.4 - - + -
43E LEU* 3.9 16.8 - - + -
73E LEU* 4.2 14.4 - - + -
76E HIS* 5.5 0.9 - - + -
125E TYR* 4.2 9.7 - - + +
128E VAL* 3.5 30.3 - - + -
129E ALA* 3.8 26.8 - - + +
132E VAL* 4.7 2.0 - - + -
151E ALA* 3.0 24.8 + - + +
152E SER* 3.0 5.1 + - - +
154E ASP* 1.3 78.6 - - + +
156E ASP* 1.3 58.0 + - - +
158E PHE* 3.2 7.2 + - + +
159E LEU* 2.8 30.8 + - - +
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Residues in contact with ASP 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19B ASN* 3.4 15.8 + - - +
83B ARG* 2.7 41.4 + - - +
86B GLN* 3.7 9.1 - - + +
143B ASP* 3.4 5.5 - - - +
129E ALA* 3.7 12.0 - - - +
133E ARG* 2.6 33.0 + - - -
152E SER* 2.9 19.6 + - - +
153E ARG 4.0 1.6 - - - +
155E LEU* 1.3 76.5 - - - +
157E LYS* 1.3 61.9 + - - +
159E LEU* 3.8 6.2 - - - +
160E TRP* 3.1 22.9 + - - +
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Residues in contact with LYS 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82B GLU* 4.0 20.3 + - - +
86B GLN* 3.8 17.9 + - - +
153E ARG 3.4 11.6 + - - +
154E ASP* 3.0 18.3 + - - +
156E ASP* 1.3 77.6 - - - +
158E PHE* 1.3 74.1 + - + +
160E TRP* 3.2 17.1 + - + +
161E PHE* 2.9 56.5 + - + +
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Residues in contact with PHE 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68E GLY 5.6 0.4 - - - -
69E PHE* 3.4 60.1 - + + -
72E ALA* 3.5 33.4 - - + -
73E LEU* 4.1 13.5 - - + -
76E HIS* 5.7 0.2 - + - -
125E TYR* 3.8 19.5 - + + -
154E ASP* 2.8 45.7 + - + +
155E LEU* 3.7 5.2 - - - +
157E LYS* 1.3 90.2 - - + +
159E LEU* 1.3 54.9 + - - +
161E PHE* 3.0 2.3 + + - +
162E ILE* 2.8 40.6 + - - +
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Residues in contact with LEU 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17B THR* 4.5 1.8 - - - +
18B ARG* 4.2 2.0 - - + -
19B ASN* 3.8 39.7 - - + +
122E ALA* 3.5 29.2 - - - +
125E TYR* 4.2 10.0 - - + -
126E ALA* 3.9 23.1 - - + +
129E ALA* 4.4 9.6 - - + -
130E ASN* 5.3 0.2 - - - +
155E LEU 2.8 17.6 + - - +
156E ASP* 3.8 5.8 - - - +
158E PHE* 1.3 73.8 - - - +
160E TRP* 1.3 58.3 + - - +
162E ILE* 3.2 7.6 + - + +
163E GLU* 2.9 56.9 + - + +
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Residues in contact with TRP 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52A TRP* 3.9 20.6 + - - -
54A MET 5.2 2.0 + - - -
55A ARG* 4.1 14.8 - - - +
59A PHE* 4.2 14.7 - + - -
63A HIS* 3.9 13.0 - + - -
17B THR* 5.8 0.9 - - - -
82B GLU* 3.8 32.1 - - + -
85B VAL* 3.3 30.8 - - + +
86B GLN* 3.5 41.5 - - + +
156E ASP 3.1 11.2 + - - +
157E LYS* 3.3 10.1 - - + +
158E PHE 3.1 0.2 - - - -
159E LEU* 1.3 81.1 - - - +
161E PHE* 1.3 86.6 + + - +
163E GLU* 3.4 8.7 + - - +
164E SER* 2.7 64.0 + - - -
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Residues in contact with PHE 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59A PHE* 3.8 13.2 - + - -
60A ILE* 3.5 29.6 - - + -
63A HIS* 3.9 20.4 - + - -
64A GLU* 4.9 4.3 - - + -
82B GLU* 5.6 0.9 - - - -
65E MET* 3.9 6.5 - - + -
69E PHE* 3.7 29.8 - + + -
157E LYS* 2.9 39.1 + - + +
158E PHE 3.0 7.6 + - - +
160E TRP* 1.3 111.3 - + - +
162E ILE* 1.3 62.5 + - - +
164E SER* 3.5 2.1 + - - -
165E ASN* 2.7 34.0 + - - -
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Residues in contact with ILE 162 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65E MET* 4.4 10.5 - - + -
66E LEU* 4.8 5.4 - - + -
69E PHE* 3.7 14.8 - - + -
118E LEU* 3.3 39.7 - - + +
121E LEU* 4.2 9.4 - - + +
122E ALA* 3.9 12.3 - - + +
125E TYR* 3.5 54.1 - - + -
158E PHE 2.8 18.7 + - - +
159E LEU* 3.5 6.3 - - - +
161E PHE* 1.3 71.6 - - - +
163E GLU* 1.3 65.7 + - - +
165E ASN* 3.0 18.2 + - - +
166E ILE* 3.6 7.0 + - + +
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Residues in contact with GLU 163 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55A ARG* 4.8 12.7 + - - +
16B TYR* 4.3 2.6 - - - +
17B THR* 2.8 31.3 + - - -
18B ARG* 2.8 60.8 + - - +
122E ALA* 4.3 4.3 - - + -
159E LEU* 2.9 32.4 + - + +
160E TRP* 3.8 7.0 - - - +
162E ILE* 1.3 76.8 - - - +
164E SER* 1.3 58.4 + - - +
166E ILE* 2.9 37.8 + - + +
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Residues in contact with SER 164 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55A ARG* 3.7 22.6 + - - +
56A GLY 2.8 26.2 + - - -
59A PHE* 3.0 41.2 - - - +
160E TRP* 2.7 50.7 + - - -
161E PHE 3.9 0.7 - - - -
162E ILE 3.2 0.4 - - - -
163E GLU* 1.3 71.9 - - - +
165E ASN* 1.3 57.0 + - - +
166E ILE 3.4 0.4 - - - -
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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