Contacts of the helix formed by residues 141 - 164 (chain G) 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 G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21G VAL* 4.8 9.0 - - + +
25G GLU* 3.5 9.2 + - - +
29G THR* 3.8 17.1 + - - +
83G ARG* 2.7 35.1 + - - -
87G LEU* 4.2 7.5 - - - +
139G ALA* 4.4 1.1 - - - +
140G LYS* 1.3 77.5 - - - +
142G ASP* 1.3 68.1 + - - +
143G ASP* 3.8 2.4 + - - +
144G THR* 2.5 34.2 + - - +
145G ALA* 2.9 21.8 + - - +
133I ARG* 4.3 11.6 - - - +
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Residues in contact with ASP 142 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140G LYS 3.3 8.9 + - - +
141G ASP* 1.3 72.4 + - - +
143G ASP* 1.3 65.2 + - - +
145G ALA* 3.0 11.3 + - - +
146G ASP* 2.9 22.3 + - - +
133I ARG* 4.4 7.9 - - + +
136I ILE* 3.8 41.5 - - + +
137I GLY* 4.3 10.5 + - - -
149I THR* 4.3 4.3 - - - +
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Residues in contact with ASP 143 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83G ARG* 3.2 34.0 + - - +
141G ASP* 3.3 1.2 + - - -
142G ASP* 1.3 78.5 - - - +
144G THR* 1.3 57.0 + - - +
146G ASP* 3.2 4.7 + - - +
147G ILE* 3.0 32.7 + - - +
133I ARG* 3.9 5.1 - - - -
136I ILE* 3.4 17.8 - - - +
149I THR* 3.5 15.3 - - - +
152I SER* 2.6 34.8 + - - -
153I ARG* 3.7 16.1 + - - +
156I ASP* 3.4 8.0 - - - +
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Residues in contact with THR 144 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29G THR* 3.2 22.5 - - + +
32G LEU* 5.1 4.0 - - + -
33G LEU* 3.5 29.6 - - + -
83G ARG* 3.6 10.0 + - - +
139G ALA* 4.4 8.3 - - + -
141G ASP* 2.5 33.3 + - - -
143G ASP* 1.3 74.9 - - - +
145G ALA* 1.3 66.2 + - - +
147G ILE* 3.1 10.1 + - - +
148G LEU* 2.9 35.2 + - + +
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Residues in contact with ALA 145 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136G ILE* 4.0 23.7 - - + +
139G ALA* 3.9 17.0 - - + +
141G ASP 2.9 12.9 + - - +
142G ASP* 3.3 12.3 - - - +
144G THR* 1.3 76.1 - - - +
146G ASP* 1.3 53.7 + - - +
148G LEU* 3.3 5.2 + - - +
149G THR* 2.6 39.2 + - - +
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Residues in contact with ASP 146 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142G ASP 2.9 5.7 + - - +
143G ASP 3.3 9.2 - - - +
145G ALA* 1.3 76.9 - - - +
147G ILE* 1.3 63.2 + - - +
149G THR* 3.0 9.0 + - - -
150G ALA* 3.0 22.9 + - - +
607G TRS 2.6 42.8 + - - -
146I ASP* 4.3 6.5 - - - +
149I THR* 3.6 28.1 - - + +
150I ALA 5.2 0.9 + - - -
153I ARG* 3.0 21.8 + - - +
146K ASP* 4.5 5.0 - - - +
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Residues in contact with ILE 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G LEU* 5.2 1.8 - - + -
76G HIS* 4.7 2.8 + - - +
79G THR* 3.8 24.7 - - + +
80G MET* 3.6 31.4 - - + -
83G ARG* 3.6 39.7 - - + -
143G ASP 3.0 18.7 + - - +
144G THR* 3.1 8.7 + - - +
146G ASP* 1.3 76.7 - - - +
148G LEU* 1.3 64.1 + - + +
150G ALA* 3.3 4.4 + - - +
151G ALA* 3.1 21.9 + - + +
153I ARG* 3.4 36.6 - - + +
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Residues in contact with LEU 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G LEU* 4.3 8.1 - - + -
33G LEU* 4.6 5.8 - - + -
36G GLN* 3.9 11.2 - - + -
80G MET* 3.8 29.2 - - + -
132G VAL* 3.9 19.6 - - + +
135G ALA* 3.8 34.3 - - + +
136G ILE* 3.9 13.5 - - + +
139G ALA* 4.2 7.0 - - + -
144G THR* 2.9 35.5 + - + +
145G ALA 3.7 3.8 - - - +
147G ILE* 1.3 72.8 - - + +
149G THR* 1.3 55.8 + - - +
151G ALA* 3.7 3.5 - - - +
152G SER* 2.7 36.6 + - - -
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Residues in contact with THR 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136G ILE* 3.5 25.4 - - + +
145G ALA* 2.6 24.0 + - - +
146G ASP* 3.0 9.2 + - - -
148G LEU* 1.3 76.9 - - - +
150G ALA* 1.3 58.9 + - - +
153G ARG* 2.8 31.2 + - - +
607G TRS 6.4 0.2 - - - -
142K ASP* 4.3 4.8 - - + +
143K ASP* 3.5 19.8 - - - +
146K ASP* 3.8 35.2 - - + -
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Residues in contact with ALA 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76G HIS* 3.4 19.4 - - + +
146G ASP 3.0 11.0 + - - +
147G ILE* 3.5 11.2 - - - +
149G THR* 1.3 79.7 - - - +
151G ALA* 1.3 61.6 + - - +
153G ARG* 3.4 8.0 + - - +
154G ASP* 3.4 15.9 + - - +
607G TRS 4.4 20.1 + - - +
153I ARG* 4.8 10.8 - - - +
146K ASP* 5.2 0.4 - - - -
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Residues in contact with ALA 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40G PHE* 4.0 22.0 - - + -
76G HIS* 3.4 32.0 - - + +
80G MET* 4.9 6.3 - - - -
132G VAL* 4.7 2.2 - - + -
147G ILE* 3.1 15.3 + - + +
148G LEU* 3.7 8.1 - - - +
150G ALA* 1.3 74.4 - - - +
152G SER* 1.3 66.0 + - - +
154G ASP* 3.1 4.3 + - - +
155G LEU* 3.0 28.3 + - - +
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Residues in contact with SER 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132G VAL* 4.0 21.6 - - - +
133G ARG* 3.7 19.0 - - - +
136G ILE* 3.7 10.3 - - - -
148G LEU 2.7 22.3 + - - -
149G THR 3.6 0.2 - - - -
151G ALA* 1.3 71.9 - - - +
153G ARG* 1.3 64.9 + - - +
155G LEU* 3.1 2.4 + - - +
156G ASP* 2.9 28.6 + - - +
143K ASP* 2.6 32.7 + - - -
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Residues in contact with ARG 153 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149G THR 2.8 14.2 + - - +
150G ALA* 3.4 8.6 - - - +
152G SER* 1.3 79.5 - - - +
154G ASP* 1.3 63.2 + - - +
156G ASP* 3.6 4.2 + - - +
157G LYS* 3.3 19.6 + - - +
607G TRS 3.9 12.1 + - - -
79K THR* 3.7 18.2 - - - +
83K ARG* 5.1 2.9 + - - +
86K GLN* 4.4 3.3 - - - +
143K ASP* 3.8 27.3 + - + +
146K ASP* 2.8 29.0 + - - -
147K ILE* 3.5 44.0 - - + +
150K ALA* 4.8 9.1 - - - +
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Residues in contact with ASP 154 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72G ALA* 4.2 8.1 - - - +
76G HIS* 2.7 32.5 + - + +
150G ALA 3.4 4.6 + - - -
151G ALA 3.1 8.9 + - - +
153G ARG* 1.3 79.7 - - - +
155G LEU* 1.3 62.1 + - + +
157G LYS* 3.1 12.9 + - - +
158G PHE* 2.8 57.6 + - + -
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Residues in contact with LEU 155 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40G PHE* 3.2 38.6 - - + -
43G LEU* 3.8 19.7 - - + -
73G LEU* 4.1 15.7 - - + -
76G HIS* 5.5 1.1 - - + -
125G TYR* 4.2 10.4 - - + +
128G VAL* 3.6 30.7 - - + -
129G ALA* 3.9 23.0 - - + +
132G VAL* 4.8 2.2 - - + -
151G ALA* 3.0 23.0 + - - +
152G SER* 3.8 5.2 - - - +
154G ASP* 1.3 78.4 - - + +
156G ASP* 1.3 60.0 + - - +
158G PHE* 3.3 6.4 + - + +
159G LEU* 2.9 30.0 + - - +
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Residues in contact with ASP 156 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129G ALA* 3.7 11.6 - - - +
133G ARG* 2.6 34.2 + - - -
152G SER* 2.9 19.6 + - - +
153G ARG 3.9 1.8 - - - +
155G LEU* 1.3 77.4 - - - +
157G LYS* 1.3 62.6 + - - +
159G LEU* 3.6 6.5 + - - +
160G TRP* 3.1 23.2 + - - +
19K ASN* 3.5 16.1 + - - +
83K ARG* 2.8 38.5 + - - +
86K GLN* 3.8 8.3 - - + +
143K ASP* 3.3 9.0 - - - +
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Residues in contact with LYS 157 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153G ARG 3.3 11.6 + - - +
154G ASP* 3.1 16.3 + - - +
156G ASP* 1.3 80.2 - - - +
158G PHE* 1.3 70.1 + - + +
160G TRP* 3.3 11.0 + - + +
161G PHE* 2.9 57.6 + - + +
82K GLU* 4.0 19.9 + - - +
86K GLN* 3.8 24.6 + - - +
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Residues in contact with PHE 158 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68G GLY 5.3 0.4 - - - -
69G PHE* 3.4 60.1 - + + -
72G ALA* 3.5 33.2 - - + -
73G LEU* 4.1 14.4 - - + -
76G HIS* 5.7 0.2 - + - -
125G TYR* 3.7 20.6 - + + -
154G ASP* 2.8 44.4 + - + +
155G LEU* 3.7 4.7 - - - +
157G LYS* 1.3 89.4 - - + +
159G LEU* 1.3 56.3 + - - +
161G PHE* 2.9 2.3 + - - +
162G ILE* 2.7 40.4 + - - +
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Residues in contact with LEU 159 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122G ALA* 3.4 29.2 - - - +
125G TYR* 4.1 12.9 - - + -
126G ALA* 3.9 24.2 - - + +
129G ALA* 4.4 10.8 - - + -
130G ASN* 5.2 0.2 - - - +
155G LEU 2.9 17.4 + - - +
156G ASP* 3.7 5.8 - - - +
158G PHE* 1.3 75.9 - - - +
160G TRP* 1.3 58.9 + - - +
162G ILE* 3.2 4.1 + - - +
163G GLU* 2.9 57.6 + - + +
17K THR* 4.6 0.7 - - - +
18K ARG 4.3 0.4 - - - -
19K ASN* 3.8 39.5 - - + +
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Residues in contact with TRP 160 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156G ASP 3.1 11.2 + - - +
157G LYS* 3.4 10.5 - - + +
158G PHE 3.1 0.2 - - - -
159G LEU* 1.3 80.7 - - - +
161G PHE* 1.3 88.5 + + - +
163G GLU* 3.5 9.7 + - + +
164G SER* 2.7 65.5 + - - -
17K THR* 5.7 1.1 - - - -
82K GLU* 3.8 32.8 - - + -
85K VAL* 3.3 37.7 - - + +
86K GLN* 3.4 45.8 - - + +
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Residues in contact with PHE 161 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G MET* 3.9 15.5 - - + -
69G PHE* 3.6 30.5 - + + -
157G LYS* 2.9 39.4 + - + +
158G PHE 2.9 6.9 + - - +
160G TRP* 1.3 116.6 - + - +
162G ILE* 1.3 62.6 + - - +
164G SER* 3.5 9.1 + - - -
165G ASN* 2.8 25.8 + - - -
82K GLU* 5.6 2.5 - - - -
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Residues in contact with ILE 162 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G MET* 4.4 10.8 - - + -
66G LEU* 4.8 5.8 - - + -
69G PHE* 3.7 15.9 - - + -
118G LEU* 3.3 39.8 - - + +
121G LEU* 4.1 10.1 - - + -
122G ALA* 3.8 11.7 - - + +
125G TYR* 3.5 54.1 - - + -
158G PHE 2.7 18.3 + - - +
159G LEU* 3.5 6.1 - - - +
161G PHE* 1.3 71.2 - - - +
163G GLU* 1.3 65.3 + - - +
165G ASN* 2.9 19.6 + - - +
166G ILE* 3.6 7.2 + - + +
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Residues in contact with GLU 163 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122G ALA* 4.3 4.3 - - + -
159G LEU* 2.9 35.2 + - + +
160G TRP* 3.9 7.6 - - + +
162G ILE* 1.3 74.6 - - - +
164G SER* 1.3 58.2 + - - +
166G ILE* 2.9 35.8 + - + +
16K TYR* 4.4 3.0 - - - +
17K THR* 2.7 31.0 + - - -
18K ARG* 2.8 60.0 + - - +
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Residues in contact with SER 164 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160G TRP* 2.7 53.7 + - - -
161G PHE* 3.8 8.3 - - - -
162G ILE 3.2 0.6 - - - -
163G GLU* 1.3 72.9 - - - +
165G ASN* 1.3 62.2 + - - +
166G ILE 3.4 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