Contacts of the helix formed by residues 142 - 172 (chain D) in PDB entry 6C3P
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 CYS 142 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93D ILE* 5.1 0.9 - - + -
97D HIS* 3.3 17.7 - - - -
110D CYS* 2.0 56.1 - - + +
139D THR 3.8 3.6 + - - +
140D GLU 3.0 3.4 + - - -
141D GLU* 1.3 87.1 - - - +
143D PRO* 1.3 69.1 - - - +
144D LEU* 3.2 3.1 - - + +
145D ALA* 2.9 21.0 + - + +
146D ILE* 3.2 13.9 + - - +
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Residues in contact with PRO 143 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140D GLU 4.2 5.5 - - - +
141D GLU 4.0 4.9 - - - +
142D CYS* 1.3 85.4 - - - +
144D LEU* 1.3 63.8 + - + +
146D ILE* 2.9 22.0 + - + +
147D LEU* 2.9 20.6 + - - +
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Residues in contact with LEU 144 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93D ILE* 3.7 31.2 - - + -
142D CYS* 3.2 4.0 - - + -
143D PRO* 1.3 81.8 - - + +
145D ALA* 1.3 57.4 + - - +
147D LEU* 3.1 25.6 + - + +
148D ILE* 2.9 35.7 + - + +
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Residues in contact with ALA 145 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90D TRP* 3.1 32.2 - - + -
93D ILE* 4.5 8.8 - - + +
110D CYS* 4.1 19.5 - - + +
138D VAL* 4.8 6.9 - - + +
142D CYS* 2.9 28.7 + - + +
144D LEU* 1.3 76.6 - - - +
146D ILE* 1.3 59.0 + - - +
148D ILE* 3.2 4.4 + - - -
149D LEU* 2.9 24.8 + - - +
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Residues in contact with ILE 146 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118C SER* 3.3 27.6 - - - +
121C PHE* 4.0 31.9 - - + -
122C LEU* 4.0 24.2 - - + -
125C ILE* 5.1 0.9 - - + -
138D VAL* 4.6 2.5 - - + -
139D THR 4.5 6.1 - - - +
140D GLU* 4.6 9.0 - - - +
142D CYS 3.2 8.6 + - - +
143D PRO* 2.9 24.8 + - + +
145D ALA* 1.3 76.8 - - - +
147D LEU* 1.3 63.8 + - - +
149D LEU* 3.2 8.6 + - + +
150D ILE* 2.9 26.8 + - + +
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Residues in contact with LEU 147 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143D PRO 2.9 10.9 + - - +
144D LEU* 3.3 28.7 - - + +
146D ILE* 1.3 77.2 - - - +
148D ILE* 1.3 66.2 + - + +
150D ILE* 3.2 16.4 + - + +
151D VAL* 2.9 43.3 + - + +
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Residues in contact with ILE 148 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86D PHE* 4.5 11.4 - - + -
89D ALA* 4.5 22.2 - - + -
90D TRP* 3.4 35.9 - - + +
93D ILE* 4.6 10.8 - - + -
144D LEU* 2.9 33.5 + - + +
145D ALA* 3.2 8.7 + - - +
147D LEU* 1.3 79.9 - - + +
149D LEU* 1.3 57.4 - - - +
151D VAL* 3.3 11.6 + - + +
152D GLN* 2.9 28.2 + - - +
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Residues in contact with LEU 149 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122C LEU* 4.1 25.8 - - + +
125C ILE* 4.1 22.4 - - + -
126C GLU* 5.9 2.9 - - + -
131C ILE* 4.9 4.7 - - + -
133C PHE* 5.3 7.4 - - + -
90D TRP* 3.5 14.7 - - + -
127D VAL* 3.6 31.9 - - + -
138D VAL* 4.2 15.7 - - + -
145D ALA 2.9 13.9 + - - +
146D ILE* 3.2 10.1 + - - +
148D ILE* 1.3 76.4 - - - +
150D ILE* 1.3 63.1 + - - +
152D GLN* 3.2 2.1 + - - -
153D ASN* 2.9 47.5 + - - +
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Residues in contact with ILE 150 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80C LEU* 4.0 18.2 - - + -
83C TRP* 3.9 15.0 - - + -
121C PHE* 3.6 29.2 - - + -
125C ILE* 3.8 19.7 - - + -
146D ILE* 2.9 23.2 + - + +
147D LEU* 3.6 17.3 - - + +
149D LEU* 1.3 74.6 - - - +
151D VAL* 1.3 64.9 + - + +
153D ASN* 3.3 7.0 + - - +
154D ILE* 3.0 42.7 + - + +
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Residues in contact with VAL 151 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86D PHE* 3.7 19.7 - - + -
147D LEU* 2.9 39.0 + - + +
148D ILE* 3.6 12.8 - - + +
149D LEU 3.2 0.2 - - - -
150D ILE* 1.3 79.5 - - + +
152D GLN* 1.3 57.2 + - - +
154D ILE* 3.3 6.2 + - + +
155D VAL* 2.9 41.1 + - + +
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Residues in contact with GLN 152 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82D SER 4.6 0.8 + - - -
83D TRP* 4.9 0.4 + - - +
86D PHE* 3.3 44.3 - - + +
90D TRP* 2.8 30.0 + - - -
124D SER* 3.2 28.3 + - - -
127D VAL* 4.0 18.2 - - + +
128D GLN* 3.3 27.6 + - + +
148D ILE 2.9 16.6 + - - +
149D LEU* 3.9 3.4 - - - +
151D VAL* 1.3 77.5 - - - +
153D ASN* 1.3 58.5 + - - +
155D VAL* 3.9 0.5 - - - +
156D GLY* 2.8 26.7 + - - -
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Residues in contact with ASN 153 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83C TRP* 3.9 15.9 - - + -
125C ILE* 3.5 20.6 - - - +
129C VAL* 3.6 25.7 - - + +
131C ILE* 3.6 4.1 - - - +
127D VAL* 3.6 21.0 - - - +
128D GLN* 5.2 2.2 - - - +
149D LEU* 2.9 45.2 + - - +
150D ILE* 3.7 4.6 - - - +
152D GLN* 1.3 77.7 - - - +
154D ILE* 1.3 62.6 + - - +
156D GLY* 3.2 1.5 + - - -
157D LEU* 2.9 31.5 + - + +
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Residues in contact with ILE 154 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72C LEU* 5.1 1.3 - - + -
76C THR* 3.5 40.6 - - + -
79C PHE* 4.9 9.0 - - + -
80C LEU* 3.7 28.7 - - + -
83C TRP* 4.4 13.5 - - + -
150D ILE* 3.0 26.4 + - + +
151D VAL* 3.8 6.3 - - + +
153D ASN* 1.3 76.4 - - - +
155D VAL* 1.3 66.2 + - + +
157D LEU* 3.2 7.9 + - - +
158D MET* 2.9 32.4 + - + +
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Residues in contact with VAL 155 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82D SER* 4.3 11.7 - - - +
86D PHE* 4.0 28.9 - - + -
151D VAL* 2.9 28.4 + - + +
152D GLN 3.9 2.5 - - - +
154D ILE* 1.3 79.9 - - + +
156D GLY* 1.3 58.6 + - - +
158D MET* 3.3 6.0 + - - +
159D ILE* 2.9 36.8 + - + +
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Residues in contact with GLY 156 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128D GLN* 3.7 33.4 - - - +
152D GLN 2.8 18.0 + - - -
153D ASN* 3.7 1.8 - - - -
155D VAL* 1.3 77.6 - - - +
157D LEU* 1.3 59.0 + - - +
159D ILE* 3.1 2.5 - - - +
160D ASN* 2.9 32.8 + - - +
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Residues in contact with LEU 157 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79C PHE* 3.5 43.1 - - + -
83C TRP* 4.9 10.1 - - + -
129C VAL* 5.3 15.9 - - + -
160C ASN* 4.9 18.4 - - - +
153D ASN 2.9 22.1 + - - +
154D ILE 3.8 3.1 - - - +
156D GLY* 1.3 76.2 - - - +
158D MET* 1.3 68.0 + - + +
160D ASN* 3.3 11.5 + - + +
161D ALA* 2.9 25.8 + - - +
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Residues in contact with MET 158 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C LEU* 3.7 32.5 - - + -
75C PHE* 4.2 30.7 - - + -
76C THR 5.6 0.7 - - - +
79C PHE* 4.7 17.7 - - + -
163C MET* 5.5 3.6 - - + -
167C ILE* 4.4 23.5 - - + +
154D ILE* 2.9 27.9 + - + +
155D VAL* 3.8 6.3 - - + +
157D LEU* 1.3 80.2 - - + +
159D ILE* 1.3 63.0 + - - +
161D ALA* 3.3 4.1 + - + +
162D ILE* 3.0 30.9 + - + +
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Residues in contact with ILE 159 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78D SER* 4.0 35.2 - - - +
79D PHE* 4.2 15.3 - - + -
81D CYS* 5.9 0.7 - - - -
82D SER* 4.2 11.0 - - - +
128D GLN* 3.7 11.7 - - - +
155D VAL* 2.9 25.7 + - + +
156D GLY* 3.1 13.7 - - - +
158D MET* 1.3 77.1 - - - +
160D ASN* 1.3 61.1 + - - +
162D ILE* 3.3 5.8 + - - +
163D MET* 2.9 53.0 + - + +
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Residues in contact with ASN 160 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A LEU* 5.0 19.1 - - - +
164C LEU* 5.9 2.0 - - - -
79D PHE* 4.8 13.7 - - + -
156D GLY 2.9 20.7 + - - +
157D LEU* 3.7 13.2 - - + +
159D ILE* 1.3 79.8 - - + +
161D ALA* 1.3 58.1 + - - +
163D MET* 3.3 6.9 + - - +
164D LEU* 2.9 39.4 + - - +
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Residues in contact with ALA 161 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164C LEU* 4.4 26.6 - - + +
167C ILE* 3.7 34.1 - - + +
168C PHE 5.6 0.9 + - - -
171C THR* 5.5 0.2 - - - +
157D LEU 2.9 17.6 + - - +
158D MET* 3.8 5.2 - - + +
160D ASN* 1.3 76.3 - - - +
162D ILE* 1.3 58.5 + - - +
164D LEU* 3.9 5.2 - - - +
165D GLY* 2.9 27.5 + - - -
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Residues in contact with ILE 162 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68C TRP* 5.0 9.2 - - + -
167C ILE* 3.8 21.5 - - + -
171C THR* 4.5 10.5 + - - +
60D PHE* 4.0 37.7 - - + -
158D MET* 3.0 24.5 + - + +
159D ILE* 3.7 6.3 - - + +
160D ASN 3.3 0.2 - - - -
161D ALA* 1.3 76.9 - - - +
163D MET* 1.3 81.8 + - + +
164D LEU 3.2 0.2 + - - -
165D GLY* 3.3 0.7 + - - -
166D CYS* 3.0 29.1 + - - -
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Residues in contact with MET 163 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158A MET* 5.5 2.9 - - + -
75D PHE* 3.3 50.6 - - + -
78D SER* 3.6 19.3 - - - +
79D PHE* 3.8 29.4 - - + -
159D ILE* 2.9 33.5 + - + +
160D ASN* 3.7 4.7 - - - +
162D ILE* 1.3 96.0 - - + +
164D LEU* 1.3 57.2 + - - +
166D CYS* 3.4 0.4 + - - -
167D ILE* 2.9 35.9 + - + +
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Residues in contact with LEU 164 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160A ASN* 5.9 1.8 - - - -
161A ALA* 4.4 24.9 - - + +
164A LEU* 4.0 36.6 - - + -
165A GLY 6.1 0.2 - - - +
164C LEU* 4.1 33.2 - - + -
168C PHE* 5.8 2.2 - - + -
160D ASN* 2.9 27.8 + - - +
161D ALA* 3.9 5.2 - - - +
162D ILE 3.2 0.2 - - - -
163D MET* 1.3 76.5 - - - +
165D GLY* 1.3 62.1 + - - +
167D ILE* 3.8 5.1 - - - +
168D PHE* 2.9 31.5 + - + +
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Residues in contact with GLY 165 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164C LEU* 6.1 0.2 - - - +
168C PHE* 3.4 28.0 - - - -
171C THR* 4.3 7.6 - - - -
161D ALA 2.9 16.9 + - - -
162D ILE 3.8 0.9 - - - -
164D LEU* 1.3 77.9 - - - +
166D CYS* 1.3 56.1 + - - +
168D PHE 3.3 0.5 + - - -
169D MET* 2.9 40.4 + - - +
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Residues in contact with CYS 166 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171C THR* 4.5 6.0 - - - +
60D PHE* 4.4 18.2 - - - -
63D LEU* 3.6 28.7 - - + +
64D VAL* 5.4 1.1 - - - +
75D PHE* 3.4 25.1 - - + -
162D ILE* 3.0 31.5 + - - +
163D MET* 3.7 0.4 - - - +
165D GLY* 1.3 77.4 - - - +
167D ILE* 1.3 57.4 + - - +
169D MET* 3.5 13.9 - - - +
170D LYS* 2.9 32.6 + - - +
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Residues in contact with ILE 167 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A MET* 4.3 20.2 - - + +
161A ALA* 3.6 33.0 - - + +
162A ILE* 3.8 27.1 - - + -
68D TRP* 5.4 7.1 - - + -
71D THR* 5.0 7.2 - - + -
72D LEU* 6.2 1.1 - - - +
75D PHE* 3.4 28.7 - - + -
163D MET 2.9 22.7 + - - +
164D LEU 3.9 3.8 - - - +
166D CYS* 1.3 74.1 - - - +
168D PHE* 1.3 58.5 + - - +
170D LYS* 3.8 9.6 - - + +
171D THR* 2.9 27.8 + - + +
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Residues in contact with PHE 168 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161A ALA 5.5 0.4 + - - -
164A LEU* 5.7 3.1 - - + -
165A GLY* 3.3 38.4 - - - -
168A PHE* 3.1 46.7 - + + -
169A MET* 4.0 14.6 - - + -
168C PHE* 3.1 35.7 - + + -
164D LEU* 2.9 22.9 + - + +
165D GLY 3.6 3.6 - - - +
166D CYS 3.2 0.2 - - - -
167D ILE* 1.3 76.9 - - - +
169D MET* 1.3 61.6 + - - +
170D LYS 2.8 1.1 + - - -
171D THR* 2.8 9.2 + - - +
172D ALA* 2.8 39.6 + - + -
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Residues in contact with MET 169 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168C PHE* 4.0 11.4 - - + -
171C THR* 3.6 38.4 - - + +
172C ALA* 3.6 27.8 - - + +
293C THR 4.9 4.2 - - - +
294C THR* 4.9 11.9 - - + -
60D PHE* 5.2 2.5 - - - +
64D VAL* 3.4 42.2 - - + +
165D GLY 2.9 24.8 + - - +
166D CYS* 3.5 14.1 - - - +
168D PHE* 1.3 82.7 - - - +
170D LYS* 1.3 59.3 + - - +
172D ALA* 4.0 7.9 - - - +
173D GLN* 3.9 11.6 + - - -
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Residues in contact with LYS 170 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A PHE* 5.0 0.2 - - - -
63D LEU* 4.9 1.6 - - + +
64D VAL* 2.8 37.0 + - + +
66D LEU 2.3 34.1 + - - +
68D TRP* 3.4 53.1 - - + +
71D THR* 3.7 32.6 + - + -
166D CYS 2.9 18.9 + - - +
167D ILE* 3.8 8.3 - - + +
168D PHE 2.8 1.0 + - - -
169D MET* 1.3 77.2 - - - +
171D THR* 1.3 58.5 + - - +
172D ALA 3.2 0.2 - - - -
173D GLN* 2.9 31.5 - - + +
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Residues in contact with THR 171 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A PHE* 3.1 59.9 - - - +
161A ALA 5.4 0.2 - - - +
162A ILE* 4.4 10.5 - - + +
165A GLY* 4.2 13.9 - - - -
166A CYS* 4.4 6.9 - - - +
169A MET* 3.6 21.7 - - + +
68D TRP* 4.2 1.3 - - - -
167D ILE* 2.9 18.9 + - + +
168D PHE* 2.8 25.5 + - - +
170D LYS* 1.3 71.8 - - - +
172D ALA* 1.3 57.1 + - - +
173D GLN 3.1 9.5 + - - +
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Residues in contact with ALA 172 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A MET* 3.6 24.2 - - + -
293C THR 5.3 1.0 - - - +
168D PHE* 2.8 28.0 + - + +
169D MET* 4.1 8.5 - - - +
170D LYS 3.2 0.4 - - - -
171D THR* 1.3 74.8 - - - +
173D GLN* 1.3 65.0 + - - +
294D THR* 5.0 10.7 - - + +
296D ILE* 3.4 22.4 - - + +
----------------------------------------------------------
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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) + - + + + + + -
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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