Contacts of the helix formed by residues 131 - 155 (chain A) in PDB entry 1EQR
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 ARG 131 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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110A LEU* 6.0 1.6 - - - -
112A SER* 6.3 3.6 - - - -
121A ARG* 4.2 11.5 - - - +
127A LEU 4.9 1.8 - - - +
128A ASP* 3.2 35.8 + - - +
129A LEU 3.1 1.6 - - - -
130A ARG* 1.3 80.7 - - + +
132A PRO* 1.3 68.3 - - + +
133A GLU* 2.6 40.2 + - - +
134A MET* 3.1 32.0 + - + +
135A ALA* 2.9 28.3 + - - +
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Residues in contact with PRO 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39A ARG* 5.7 6.7 - - - -
130A ARG 3.6 4.9 - - - +
131A ARG* 1.3 82.8 - - + +
133A GLU* 1.3 71.6 + - + +
135A ALA* 4.1 4.2 - - + +
136A GLN* 2.8 29.7 + - - +
139A LYS* 5.1 1.0 + - - +
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Residues in contact with GLU 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ARG* 2.6 37.2 + - - +
132A PRO* 1.3 82.4 - - + +
134A MET* 1.3 59.0 + - - +
136A GLN* 3.6 5.8 + - - +
137A ARG* 2.8 61.7 + - - +
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Residues in contact with MET 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ARG* 3.7 14.8 - - - -
125A ARG* 3.7 32.8 - - - +
128A ASP* 3.2 22.0 - - - +
129A LEU* 3.9 21.1 - - + -
131A ARG* 3.1 42.1 + - + +
132A PRO 3.1 0.4 - - - -
133A GLU* 1.3 72.7 - - - +
135A ALA* 1.3 62.5 - - - +
136A GLN 3.1 1.6 - - - -
137A ARG* 2.9 46.4 + - - +
138A LEU* 3.5 8.7 + - + +
550A ASP* 4.0 18.8 - - - +
552A ILE 5.3 0.2 - - - +
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Residues in contact with ALA 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41A ARG* 6.3 1.6 - - + -
129A LEU 3.6 13.4 + - - +
130A ARG 5.2 1.6 - - - +
131A ARG 2.9 21.3 + - - +
132A PRO* 4.1 3.8 - - + +
134A MET* 1.3 73.8 - - - +
136A GLN* 1.3 57.3 + - - +
138A LEU* 3.5 2.9 + - - +
139A LYS* 3.1 44.7 + - - +
204B SER 5.7 0.4 - - - +
206B PHE* 3.9 23.4 - - + -
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Residues in contact with GLN 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132A PRO 2.8 18.6 + - - +
133A GLU* 3.8 7.0 - - - +
134A MET 3.1 0.4 + - - -
135A ALA* 1.3 74.9 - - - +
137A ARG* 1.3 60.2 + - + +
139A LYS* 3.7 26.5 - - - +
140A THR* 2.9 50.8 + - - +
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Residues in contact with ARG 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A GLU* 2.8 60.6 + - - +
134A MET* 2.9 36.3 + - - +
136A GLN* 1.3 77.8 - - - +
138A LEU* 1.3 58.4 + - + +
140A THR* 3.4 3.1 + - - -
141A ARG* 2.9 26.3 + - - +
539A THR* 4.3 2.3 - - - +
543A THR* 3.9 30.4 + - + +
544A GLY 5.8 0.2 + - - -
545A THR* 2.7 29.3 + - - +
550A ASP* 3.1 43.7 + - - +
551A VAL* 4.5 5.4 - - + -
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Residues in contact with LEU 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129A LEU* 3.7 19.5 - - + -
134A MET* 3.5 8.7 + - + +
135A ALA 3.5 7.4 + - - +
136A GLN 3.3 0.4 - - - -
137A ARG* 1.3 77.2 - - + +
139A LYS* 1.3 57.7 + - - +
141A ARG* 3.1 12.0 + - - +
142A ALA* 2.9 27.0 + - - +
550A ASP 5.1 0.7 - - - +
551A VAL* 3.5 33.7 - - - +
552A ILE 4.1 1.1 - - - +
553A ALA* 3.7 29.8 - - + +
158B LEU* 5.7 0.2 - - - -
159B ASP 4.9 2.1 - - - +
160B ILE* 4.5 18.9 - - + +
206B PHE* 3.6 32.3 - - + -
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Residues in contact with LYS 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41A ARG* 3.6 41.1 + - + +
42A GLU* 5.3 4.3 - - - +
132A PRO* 5.1 1.4 + - - +
135A ALA* 3.1 42.4 + - - +
136A GLN* 3.7 29.0 - - - +
138A LEU* 1.3 74.9 - - - +
140A THR* 1.3 59.9 + - - +
142A ALA* 3.4 7.6 + - - +
143A LYS* 3.0 25.3 + - - +
158B LEU* 3.9 34.0 - - + +
206B PHE* 4.7 4.4 - - + -
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Residues in contact with THR 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136A GLN* 2.9 35.3 + - - +
137A ARG 3.9 3.4 - - - -
139A LYS* 1.3 75.8 - - - +
141A ARG* 1.3 57.0 + - - +
143A LYS* 3.4 11.7 - - + +
144A ILE* 2.7 59.4 + - + +
259A VAL* 4.1 21.3 - - + -
542A LEU 4.9 1.3 - - - +
543A THR* 3.9 18.5 - - + +
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Residues in contact with ARG 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A ARG 2.9 14.9 + - - +
138A LEU* 3.1 17.7 + - + +
140A THR* 1.3 78.9 - - - +
142A ALA* 1.3 61.6 + - - +
144A ILE* 3.4 4.5 + - - +
145A THR* 3.2 32.0 + - + +
230A THR* 4.1 3.6 + - - -
535A LEU* 3.7 13.0 - - + +
536A ASP* 2.7 45.3 + - - +
539A THR* 4.0 27.1 + - + +
551A VAL* 2.9 34.6 + - - +
552A ILE* 4.2 5.1 - - - +
159B ASP 5.6 3.6 - - - +
160B ILE* 6.0 1.6 - - - +
161B GLU* 2.6 48.1 + - - +
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Residues in contact with ALA 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A LEU 2.9 13.7 + - - +
139A LYS 3.7 5.8 - - - +
141A ARG* 1.3 74.8 - - - +
143A LYS* 1.3 66.1 + - - +
145A THR* 2.9 21.5 + - - -
146A SER* 3.1 12.0 + - - -
158B LEU* 4.0 24.5 - - + -
159B ASP* 3.5 32.0 + - + +
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Residues in contact with LYS 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A LYS 3.0 15.6 + - - +
140A THR* 3.4 16.2 - - + +
142A ALA* 1.3 77.0 - - - +
144A ILE* 1.3 56.8 + - - +
146A SER* 3.1 9.2 + - - +
147A LEU* 2.9 49.1 + - + +
150A ARG* 5.9 1.1 - - - +
258A GLU* 3.5 25.8 + - - -
259A VAL* 4.5 13.2 + - + +
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Residues in contact with ILE 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140A THR* 2.7 41.6 + - + +
141A ARG* 3.8 4.3 - - - +
142A ALA 3.3 0.2 - - - -
143A LYS* 1.3 72.6 - - - +
145A THR* 1.3 64.4 + - + +
147A LEU* 3.0 9.8 + - - +
148A VAL* 2.9 26.8 + - + +
232A ILE* 5.8 0.2 - - + -
255A LEU* 3.9 24.7 - - + -
259A VAL* 3.9 20.6 - - + -
535A LEU* 4.5 17.0 - - + -
538A LEU* 5.7 2.7 - - + -
539A THR* 4.2 21.8 - - + +
542A LEU* 3.7 28.0 - - + -
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Residues in contact with THR 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A ARG* 3.2 17.6 + - + +
142A ALA* 2.9 17.9 + - - -
144A ILE* 1.3 76.4 - - - +
146A SER* 1.3 56.8 + - - +
148A VAL* 3.3 9.8 + - - +
149A ARG* 2.9 44.8 + - - +
212A ILE* 4.1 16.6 - - + -
535A LEU* 3.6 32.8 - - + -
159B ASP* 4.4 14.9 + - - +
161B GLU* 5.2 2.7 - - + +
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Residues in contact with SER 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A ALA 3.1 11.1 + - - -
143A LYS* 3.3 12.3 - - - -
144A ILE 3.1 0.4 - - - -
145A THR* 1.3 82.8 + - - +
147A LEU* 1.3 61.7 + - - +
149A ARG* 3.6 6.8 + - - +
150A ARG* 3.2 50.1 + - - +
153B ASP* 3.6 26.4 + - - +
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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
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143A LYS* 2.9 34.6 + - + +
144A ILE* 3.6 5.8 - - - +
146A SER* 1.3 76.2 - - - +
148A VAL* 1.3 61.7 + - - +
150A ARG* 3.4 33.0 - - - +
151A PHE* 3.3 21.1 + - - +
254A HIS* 3.9 25.7 + - + +
255A LEU* 4.0 15.3 - - + -
258A GLU* 3.4 35.7 - - + +
259A VAL* 3.9 21.3 - - + -
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Residues in contact with VAL 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A ILE* 2.9 19.6 + - + +
145A THR* 3.4 11.4 - - - +
147A LEU* 1.3 74.2 - - - +
149A ARG* 1.3 62.2 + - - +
151A PHE* 2.9 6.2 + - - +
152A MET* 2.9 37.9 + - + +
210A TYR* 4.9 1.6 - - + -
212A ILE* 4.0 20.0 - - + -
232A ILE* 3.7 39.0 - - + -
251A LEU* 3.8 24.7 - - + -
255A LEU* 4.0 12.6 - - + -
535A LEU* 6.0 0.2 - - + -
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Residues in contact with ARG 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A THR* 2.9 30.5 + - - +
146A SER* 3.9 6.7 - - - +
148A VAL* 1.3 77.8 - - - +
150A ARG* 1.3 58.9 + - + +
152A MET* 3.3 0.9 + - - +
153A ASP* 2.9 39.0 + - - +
159A ASP* 3.8 12.3 + - - +
210A TYR* 2.9 28.3 + - + +
212A ILE* 3.7 46.7 + - + +
149B ARG* 2.9 57.2 - - + +
159B ASP* 3.5 18.8 + - - -
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Residues in contact with ARG 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143A LYS* 5.2 1.8 + - - +
146A SER* 3.2 35.9 + - - +
147A LEU* 3.4 35.8 - - - +
149A ARG* 1.3 77.6 - - + +
151A PHE* 1.3 57.7 + - - +
153A ASP* 3.4 6.3 + - - +
154A ASP* 2.8 42.9 + - - +
254A HIS* 5.4 3.4 + - - +
150B ARG* 3.7 46.7 - - + +
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Residues in contact with PHE 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A LEU 3.3 14.0 + - - +
148A VAL 2.9 11.2 + - - +
150A ARG* 1.3 75.9 - - - +
152A MET* 1.3 96.4 + - + +
154A ASP* 3.1 5.9 + - - -
155A HIS* 2.9 70.2 + + + -
157A PHE* 5.3 0.2 - + - -
247A VAL* 3.8 19.5 - - + -
250A ALA* 3.9 13.0 - - + -
251A LEU* 3.6 37.2 - - + -
254A HIS* 4.0 24.2 - + + -
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Residues in contact with MET 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A VAL* 2.9 24.4 + - + +
149A ARG 3.8 0.2 - - - +
151A PHE* 1.3 107.6 - - + +
153A ASP* 1.3 64.6 + - - +
155A HIS 3.1 1.4 + - - -
156A GLY 2.9 18.0 + - - -
157A PHE* 2.9 38.6 + - + -
210A TYR* 3.4 53.4 - - + -
232A ILE* 5.5 1.1 - - + -
234A VAL* 4.8 7.2 - - + -
248A MET* 4.1 13.2 - - + -
251A LEU* 3.3 29.2 - - + -
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Residues in contact with ASP 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A ARG* 2.9 24.7 + - - +
150A ARG* 3.6 7.0 - - - +
152A MET* 1.3 73.4 - - - +
154A ASP* 1.3 71.3 + - - +
156A GLY* 2.8 15.5 + - - -
157A PHE 4.0 7.1 - - - +
159A ASP* 5.6 1.0 + - - +
210A TYR* 3.4 22.6 + - - -
146B SER* 2.4 33.5 + - - -
150B ARG* 5.1 6.0 + - - +
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Residues in contact with ASP 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A ARG* 2.8 31.3 + - - +
151A PHE* 3.7 5.6 - - - +
153A ASP* 1.3 75.0 - - - +
155A HIS* 1.3 66.6 + - + +
156A GLY 3.5 0.5 + - - -
150B ARG* 5.0 9.0 + - - -
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Residues in contact with HIS 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A PHE* 2.9 68.2 + + + +
152A MET 3.4 1.1 - - - -
153A ASP 3.0 0.2 - - - -
154A ASP* 1.3 84.9 - - + +
156A GLY* 1.3 58.2 + - - +
157A PHE* 3.5 20.8 - - + -
208A ARG* 2.5 36.1 + - - +
247A VAL* 4.4 12.7 - - + +
250A ALA* 5.4 2.4 - - - +
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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
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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