Contacts of the helix formed by residues 144 - 172 (chain A) in PDB entry 5TWV
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 LEU 144 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A ILE* 5.3 11.2 - - + -
142A CYS* 2.9 6.0 + - + -
143A PRO* 1.3 79.1 - - + +
145A ALA* 1.3 63.3 + - - +
146A ILE 3.3 1.3 - - - -
147A LEU* 3.1 27.2 - - + +
148A ILE* 3.1 28.2 - - + +
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Residues in contact with ALA 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A TRP* 3.4 10.2 - - + -
93A ILE* 3.6 34.3 - - + -
110A CYS* 4.2 3.6 - - - -
111A VAL* 5.7 1.3 - - + -
142A CYS* 3.2 28.4 + - - -
144A LEU* 1.3 77.8 - - - +
146A ILE* 1.3 60.3 + - + +
148A ILE* 3.5 8.7 - - - +
149A LEU* 2.9 28.9 + - - +
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Residues in contact with ILE 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A CYS* 5.4 0.7 - - - -
138A VAL* 4.6 12.8 - - + -
139A THR 4.2 18.4 - - - +
140A GLU* 5.7 2.2 - - - -
142A CYS 3.9 10.1 - - - +
143A PRO* 3.6 32.5 - - + +
145A ALA* 1.3 76.6 - - + +
147A LEU* 1.3 67.9 + - + +
149A LEU* 3.6 10.0 + - - +
150A ILE* 3.1 29.4 + - + +
118C SER* 4.1 20.0 - - - +
122C LEU* 6.3 2.5 - - + -
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Residues in contact with LEU 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A PRO 3.3 22.4 - - - +
144A LEU* 3.1 29.2 - - + +
146A ILE* 1.3 82.8 - - + +
148A ILE* 1.3 74.0 + - + +
150A ILE* 3.4 15.1 + - + +
151A VAL* 3.2 32.0 + - + +
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Residues in contact with ILE 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 6.6 0.2 - - + -
89A VAL* 4.4 25.8 - - + +
90A TRP* 3.6 21.3 - - + -
93A ILE* 5.6 4.7 - - + -
144A LEU* 3.1 30.2 + - + +
145A ALA* 3.5 11.0 - - - +
146A ILE 3.2 0.4 - - - -
147A LEU* 1.3 87.6 - - + +
149A LEU* 1.3 60.1 + - - +
150A ILE 3.1 1.8 - - - -
151A VAL* 3.1 12.6 + - + +
152A GLN* 3.0 27.1 + - + +
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Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A TRP* 3.5 31.4 - - + -
123A PHE* 4.1 13.5 - - + -
127A VAL* 4.6 18.5 - - + +
138A VAL* 4.8 16.4 - - + -
145A ALA 2.9 15.5 + - - +
146A ILE* 3.7 11.2 - - - +
147A LEU 3.3 0.4 - - - -
148A ILE* 1.3 78.2 - - - +
150A ILE* 1.3 59.7 + - + +
152A GLN* 3.4 4.9 + - - +
153A ASN* 3.1 25.2 + - + +
125C ILE* 5.2 9.6 - - + -
131C ILE* 4.8 14.8 - - + -
133C PHE* 4.7 13.7 - - + -
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Residues in contact with ILE 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ILE* 3.1 22.4 - - + +
147A LEU* 3.4 16.1 + - - +
148A ILE 3.1 0.4 - - - -
149A LEU* 1.3 82.9 - - + +
151A VAL* 1.3 63.2 + - + +
153A ASN* 3.5 4.9 + - - +
154A ILE* 3.2 29.9 + - + +
80C LEU* 4.7 16.4 - - + -
83C TRP* 3.6 30.9 - - + -
121C PHE* 4.0 28.9 - - + -
125C ILE* 5.0 7.9 - - + -
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Residues in contact with VAL 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 4.6 3.0 - - + -
147A LEU* 3.2 26.0 - - + +
148A ILE* 3.1 14.7 + - + +
150A ILE* 1.3 78.7 - - + +
152A GLN* 1.3 62.5 + - - +
154A ILE* 3.4 10.3 - - + +
155A VAL* 3.3 31.5 - - + +
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Residues in contact with GLN 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 3.8 25.1 - - + -
90A TRP* 5.1 8.3 - - + -
127A VAL* 4.9 8.1 - - + -
128A GLN* 2.6 35.7 + - - +
148A ILE* 3.0 16.7 + - + +
149A LEU* 3.6 9.9 - - - +
151A VAL* 1.3 80.2 - - - +
153A ASN* 1.3 56.5 + - - +
156A GLY 3.2 12.6 + - - -
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Residues in contact with ASN 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A VAL* 3.4 36.1 + - + +
128A GLN* 4.4 4.0 - - - +
149A LEU* 3.1 15.9 + - + +
150A ILE* 4.0 5.8 - - - +
151A VAL 3.3 0.2 - - - -
152A GLN* 1.3 80.1 - - - +
154A ILE* 1.3 58.8 - - - +
156A GLY 3.9 0.7 - - - -
157A LEU* 3.0 30.5 + - - +
83C TRP* 5.5 6.5 - - + -
125C ILE* 5.7 3.4 - - + -
129C VAL* 3.1 42.0 - - - +
131C ILE* 3.8 13.8 - - - +
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Residues in contact with ILE 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ILE* 3.2 23.3 + - + +
151A VAL* 3.4 15.9 - - + +
153A ASN* 1.3 74.4 - - - +
155A VAL* 1.3 69.9 + - + +
157A LEU* 4.0 7.4 - - + +
158A MET* 3.2 33.7 + - + +
75C PHE 4.6 8.7 - - - +
76C THR* 4.1 26.2 - - + +
79C PHE* 4.3 32.8 - - + -
83C TRP* 4.8 12.5 - - + -
163C MET* 5.8 2.9 - - + -
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Residues in contact with VAL 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A SER* 6.2 0.2 - - - +
86A PHE* 4.5 17.0 - - + -
151A VAL* 3.3 27.4 + - + +
152A GLN 4.5 1.1 - - - +
153A ASN 3.4 0.2 - - - -
154A ILE* 1.3 85.2 - - + +
156A GLY* 1.3 57.2 + - - +
157A LEU 3.2 2.2 - - - -
158A MET* 3.4 6.9 + - + +
159A ILE* 3.2 37.0 + - + +
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Residues in contact with GLY 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A PHE* 5.6 1.2 - - - -
86A PHE* 4.9 2.2 - - - -
128A GLN* 3.0 38.6 - - - +
152A GLN 3.2 10.3 + - - -
153A ASN 3.9 0.7 - - - -
154A ILE 3.4 0.2 - - - -
155A VAL* 1.3 76.8 - - - +
157A LEU* 1.3 60.6 + - - +
159A ILE* 3.7 18.8 - - - +
160A ASN* 3.6 17.2 - - - +
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Residues in contact with LEU 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A GLN 5.8 2.2 - - - +
153A ASN* 3.0 25.8 + - - +
154A ILE* 4.0 9.2 - - + +
156A GLY* 1.3 77.4 - - - +
158A MET* 1.3 63.6 + - - +
159A ILE 3.5 0.2 - - - -
160A ASN* 3.7 15.0 + - - +
161A ALA* 3.4 20.9 + - + +
79C PHE* 4.5 13.7 - - + -
129C VAL* 5.2 12.6 - - + -
160C ASN* 3.3 32.5 - - - +
163C MET* 4.0 17.9 - - + -
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Residues in contact with MET 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ILE* 3.2 28.8 + - + +
155A VAL* 3.6 10.1 - - + +
156A GLY 3.3 0.4 - - - -
157A LEU* 1.3 76.8 - - - +
159A ILE* 1.3 59.6 + - + +
160A ASN 3.2 1.8 - - - -
161A ALA* 3.4 3.6 + - - +
162A ILE* 3.0 51.6 + - + +
72C LEU* 4.3 29.6 - - + +
75C PHE* 4.3 20.2 - - + -
76C THR* 5.6 2.5 - - + -
163C MET* 3.9 33.9 - - + -
167C ILE* 4.7 12.6 - - + -
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Residues in contact with ILE 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A SER 5.0 1.1 - - - +
79A PHE* 3.9 34.1 - - + -
82A SER* 4.1 26.9 - - - +
83A TRP* 5.7 2.5 - - + +
86A PHE* 5.8 0.9 - - + -
155A VAL* 3.2 25.5 + - + +
156A GLY* 3.7 17.3 - - - +
158A MET* 1.3 75.9 - - + +
160A ASN* 1.3 65.8 + - - +
161A ALA 3.2 0.7 - - - -
162A ILE* 3.8 15.1 - - + +
163A MET* 3.3 23.0 + - - +
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Residues in contact with ASN 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A PHE* 4.0 15.2 - - + -
156A GLY 3.6 16.8 - - - +
157A LEU* 3.7 17.5 + - - +
158A MET 3.2 0.4 - - - -
159A ILE* 1.3 82.0 - - - +
161A ALA* 1.3 61.8 + - - +
163A MET* 3.8 5.8 + - - +
164A LEU* 3.2 31.1 + - - +
157G LEU* 3.3 34.6 - - - +
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Residues in contact with ALA 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A LEU* 3.4 16.2 + - + +
158A MET* 3.4 8.5 + - - +
160A ASN* 1.3 79.9 - - - +
162A ILE* 1.3 62.9 + - - +
163A MET 3.1 1.8 - - - -
164A LEU* 3.1 20.3 + - - +
165A GLY 3.5 4.3 + - - -
163C MET* 4.8 10.1 - - + -
164C LEU* 3.2 33.4 - - + +
167C ILE* 3.5 18.1 - - + +
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Residues in contact with ILE 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A PHE* 5.3 16.4 - - + -
75A PHE* 6.3 1.3 - - + -
158A MET* 3.0 42.2 + - + +
159A ILE* 4.1 13.0 - - + +
160A ASN 3.5 0.2 - - - -
161A ALA* 1.3 75.6 - - - +
163A MET* 1.3 61.9 + - - +
165A GLY* 3.6 2.5 + - - -
166A CYS* 3.4 21.0 + - + +
68C TRP* 6.2 6.7 - - + -
72C LEU* 6.4 0.2 - - + -
167C ILE* 4.2 17.9 - - + -
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Residues in contact with MET 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A PHE* 3.8 48.2 - - + +
79A PHE* 3.8 19.3 - - + -
159A ILE 3.3 16.3 + - - +
160A ASN* 3.9 9.9 - - - +
161A ALA 3.1 0.6 - - - -
162A ILE* 1.3 80.7 - - - +
164A LEU* 1.3 64.1 + - + +
166A CYS* 3.3 4.9 + - - +
167A ILE* 3.1 30.1 + - + +
154G ILE* 5.8 3.4 - - + -
157G LEU* 4.0 27.8 - - + +
158G MET* 3.9 28.0 - - + -
161G ALA* 4.8 11.7 - - + -
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Residues in contact with LEU 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A ASN* 3.2 28.7 - - - +
161A ALA* 3.1 6.7 + - - +
163A MET* 1.3 80.7 - - + +
165A GLY* 1.3 58.5 + - - +
167A ILE* 3.2 21.3 - - - +
168A PHE* 3.4 12.5 + - - +
164C LEU* 3.9 34.8 - - + -
161G ALA* 3.2 39.0 - - + +
164G LEU* 3.9 20.4 - - + -
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Residues in contact with GLY 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A ALA 3.5 7.6 + - - -
162A ILE* 3.6 3.9 + - - -
163A MET 3.3 0.4 - - - -
164A LEU* 1.3 79.7 - - - +
166A CYS* 1.3 60.2 + - - +
168A PHE 4.0 0.4 - - - -
169A MET* 3.0 28.4 + - - +
167C ILE* 5.6 2.2 - - - -
168C PHE* 3.3 35.6 - - - -
171C THR* 5.3 7.6 - - - -
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Residues in contact with CYS 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A PHE* 5.2 15.0 - - + -
63A LEU* 3.9 39.0 - - - -
64A VAL* 4.7 9.6 - - - +
71A THR* 6.1 1.5 - - - +
75A PHE* 3.8 29.2 - - + -
162A ILE* 3.4 16.3 + - + +
163A MET 3.3 2.6 + - - +
165A GLY* 1.3 78.0 - - - +
167A ILE* 1.3 64.5 + - - +
169A MET* 3.6 13.9 + - - +
170A LYS* 3.7 10.7 + - - +
171C THR* 6.3 0.2 - - - -
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Residues in contact with ILE 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A TRP* 4.7 16.4 - - + -
71A THR* 6.2 0.9 - - - -
75A PHE* 3.8 27.8 - - + -
163A MET* 3.1 24.9 + - + +
164A LEU* 3.2 15.0 - - + +
166A CYS* 1.3 75.0 - - - +
168A PHE* 1.3 78.9 + - + +
170A LYS* 3.4 8.8 + - - +
171A THR* 3.3 18.7 + - - -
158G MET* 4.7 13.9 - - + -
161G ALA* 3.6 37.0 - - + +
162G ILE* 4.2 15.9 - - + +
165G GLY* 5.4 3.4 - - - +
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Residues in contact with PHE 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A LEU 3.4 15.7 + - - +
165A GLY 3.9 4.9 - - - +
166A CYS 3.3 0.2 - - - -
167A ILE* 1.3 86.6 - - + +
169A MET* 1.3 61.6 + - - +
171A THR* 2.8 30.2 + - - -
172A ALA* 3.3 13.3 + - + +
168C PHE* 3.6 30.5 - + + -
165G GLY* 3.3 43.3 - - - -
168G PHE* 3.6 31.4 - + + -
169G MET* 3.5 25.6 - - + -
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Residues in contact with MET 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A PHE* 6.5 0.7 - - + -
64A VAL* 3.7 35.2 - - + +
165A GLY 3.0 21.7 + - - +
166A CYS* 3.7 6.5 - - - +
167A ILE 3.3 0.2 - - - -
168A PHE* 1.3 80.0 - - - +
170A LYS* 1.3 59.0 + - - +
171A THR 3.3 0.2 - - - -
172A ALA* 3.6 14.0 + - + +
173A GLN* 3.9 7.6 + - - -
168C PHE* 3.5 29.2 - - + -
171C THR* 5.3 9.4 - - - +
172C ALA* 4.6 15.3 - - + -
293C THR 4.9 6.7 - - - +
294C THR* 3.1 39.5 - - + -
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Residues in contact with LYS 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A VAL* 4.7 19.3 - - + +
68A TRP* 4.0 28.9 - - + -
71A THR* 6.1 3.1 - - + -
166A CYS 3.7 8.6 + - - +
167A ILE* 3.4 10.0 + - - +
168A PHE 3.1 1.0 - - - -
169A MET* 1.3 75.8 - - - +
171A THR* 1.3 59.9 + - - +
172A ALA 3.1 5.7 + - - -
173A GLN* 3.7 30.4 + - - +
60G PHE* 4.6 3.8 - - - -
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Residues in contact with THR 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A ILE* 3.3 11.5 + - - -
168A PHE* 2.8 18.1 + - - -
170A LYS* 1.3 78.1 - - - +
172A ALA* 1.3 58.2 + - - +
173A GLN 3.6 1.2 - - - +
294A THR* 5.9 0.3 - - - +
60G PHE* 3.3 56.3 - - - +
165G GLY* 5.3 11.4 - - - -
169G MET* 5.3 10.0 - - - +
----------------------------------------------------------
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Residues in contact with ALA 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A PHE* 3.3 21.8 + - + +
169A MET* 3.6 10.3 + - + +
170A LYS 3.1 1.2 - - - -
171A THR* 1.3 80.2 - - - +
173A GLN* 1.3 62.6 + - - +
174A ALA* 3.3 3.8 + - - +
294A THR* 5.0 6.2 + - + -
296A ILE* 3.5 30.6 - - + +
293C THR 5.3 2.1 - - - +
169G MET* 4.6 19.3 - - + -
----------------------------------------------------------
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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