Contacts of the helix formed by residues 119 - 143 (chain A) in PDB entry 1Q6X
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 119 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117A PHE* 3.3 5.3 - - - +
118A GLN* 1.3 85.7 - - - +
120A THR* 1.3 63.2 - - - +
121A ASN* 3.3 14.2 + - - +
122A ASP* 3.0 35.6 + - - +
123A GLN* 3.5 6.6 + - - +
125A ARG* 4.8 0.7 + - - -
324A ARG* 3.3 15.9 - - - +
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Residues in contact with THR 120 (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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119A ASP* 1.3 73.3 - - - +
121A ASN* 1.3 63.7 + - - +
123A GLN* 3.0 14.8 + - - +
124A LEU* 2.9 48.0 + - + +
229A VAL* 4.6 17.0 - - + -
324A ARG* 3.6 26.1 + - - +
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Residues in contact with ASN 121 (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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119A ASP* 3.1 14.7 + - - +
120A THR* 1.3 83.6 - - - +
122A ASP* 1.3 58.4 + - - +
124A LEU* 3.4 8.3 + - - +
125A ARG* 3.0 56.6 + - - +
222A PHE* 3.7 26.6 - - + -
226A ARG* 3.8 28.2 + - - +
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Residues in contact with ASP 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A HIS 4.6 3.1 - - - +
117A PHE* 3.9 23.7 - - + -
118A GLN* 3.2 27.3 + - - +
119A ASP* 3.0 24.7 + - - +
121A ASN* 1.3 72.6 - - - +
123A GLN* 1.3 66.3 + - - +
125A ARG* 3.1 24.4 + - - +
126A PHE* 3.0 22.9 + - - +
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Residues in contact with GLN 123 (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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117A PHE* 3.6 27.2 - - + -
119A ASP 3.5 4.0 + - - +
120A THR* 3.0 21.9 + - - +
122A ASP* 1.3 79.5 - - - +
124A LEU* 1.3 66.8 + - + +
126A PHE* 3.3 4.2 + - - +
127A ALA* 3.0 25.8 + - - +
229A VAL* 5.7 1.2 - - - +
282A LEU* 4.0 16.3 - - + +
283A ASP 3.8 7.1 + - - -
322A VAL* 2.9 36.6 + - + +
323A GLY 4.2 0.4 - - - +
324A ARG* 3.4 37.4 - - - +
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Residues in contact with LEU 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A THR* 2.9 32.8 + - + +
121A ASN* 4.5 3.1 - - - +
123A GLN* 1.3 85.4 - - - +
125A ARG* 1.3 59.5 + - - +
127A ALA* 3.4 3.4 + - - +
128A ALA* 2.8 30.0 + - - +
222A PHE* 3.7 22.8 - - + -
225A LEU* 3.8 15.7 - - + +
226A ARG* 3.9 39.7 - - + +
229A VAL* 3.9 23.8 - - + -
282A LEU* 4.1 20.6 - - + -
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Residues in contact with ARG 125 (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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119A ASP* 4.8 0.6 + - - -
121A ASN* 3.0 52.2 + - - +
122A ASP* 3.1 30.9 + - - +
124A LEU* 1.3 72.7 - - - +
126A PHE* 1.3 61.3 + - - +
128A ALA* 3.3 6.4 + - - +
129A CYS* 2.8 31.6 + - - +
218A GLU* 4.2 4.2 - - - +
222A PHE* 3.9 24.8 - - + -
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Residues in contact with PHE 126 (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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112A PHE* 4.9 9.9 - + - -
115A GLN* 3.4 38.1 - - + -
117A PHE* 3.7 19.7 - + + -
122A ASP 3.0 13.0 + - - +
123A GLN 3.5 8.7 - - - +
125A ARG* 1.3 76.6 - - - +
127A ALA* 1.3 58.8 + - - +
129A CYS* 3.1 7.6 + - - +
130A LEU* 2.8 45.5 + - + +
322A VAL* 3.9 17.0 - - + -
328A CYS* 4.1 17.9 - - + -
350A LEU* 5.1 4.9 - - + -
353A MET* 3.6 27.6 - - + +
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Residues in contact with ALA 127 (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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123A GLN 3.0 16.7 + - - +
124A LEU* 3.7 6.1 - - - +
125A ARG 3.3 0.2 - - - -
126A PHE* 1.3 77.9 - - - +
128A ALA* 1.3 62.0 + - - +
130A LEU* 3.1 7.8 + - - +
131A ILE* 2.9 29.1 + - - +
225A LEU* 4.0 12.3 - - + -
280A VAL* 4.5 8.3 - - + -
282A LEU* 4.3 15.7 - - + -
322A VAL* 4.2 23.3 - - + -
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Residues in contact with ALA 128 (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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124A LEU 2.8 21.0 + - - +
125A ARG* 3.6 6.7 - - - +
127A ALA* 1.3 73.5 - - - +
129A CYS* 1.3 63.9 + - - +
131A ILE* 3.4 1.5 + - - -
132A SER* 3.1 23.2 + - - -
218A GLU* 3.8 28.6 - - + +
221A LEU* 3.7 13.9 - - + +
222A PHE* 3.9 18.6 - - + +
225A LEU* 3.8 7.3 - - + +
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Residues in contact with CYS 129 (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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125A ARG 2.8 15.9 + - - +
126A PHE* 3.5 5.4 - - - +
128A ALA* 1.3 76.8 - - - +
130A LEU* 1.3 62.6 + - - +
132A SER* 3.4 3.9 + - - -
133A GLY* 3.0 19.2 + - - -
218A GLU* 3.0 32.5 + - - +
352A HIS 5.2 0.7 - - - -
353A MET* 3.7 46.2 - - + +
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Residues in contact with LEU 130 (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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112A PHE* 4.6 12.8 - - + -
126A PHE* 2.8 32.5 + - + +
127A ALA* 3.4 10.8 - - - +
129A CYS* 1.3 74.3 - - - +
131A ILE* 1.3 73.8 + - + +
133A GLY* 3.1 2.9 + - - -
134A VAL* 3.1 31.0 + - + +
280A VAL* 5.0 4.5 - - + -
320A PHE* 3.8 47.8 - - + -
321A VAL 6.0 0.2 - - - +
322A VAL* 4.6 10.8 - - + -
329A GLY 5.9 0.2 - - - +
349A LEU* 5.0 5.5 - - + +
350A LEU* 5.9 0.4 - - + -
353A MET* 3.8 20.3 - - + +
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Residues in contact with ILE 131 (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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127A ALA 2.9 20.5 + - - +
128A ALA* 3.8 4.0 - - - +
130A LEU* 1.3 79.0 - - + +
132A SER* 1.3 64.3 + - - +
134A VAL* 3.0 17.7 + - + +
135A LEU* 3.0 23.2 + - + +
196A VAL* 4.4 22.0 - - + -
198A VAL* 5.1 0.2 - - + -
207A LEU* 4.1 23.1 - - + -
209A VAL* 4.5 2.2 - - + -
221A LEU* 4.0 22.7 - - + -
225A LEU* 4.6 16.6 - - + -
278A CYS* 6.3 0.4 - - - -
280A VAL* 3.9 36.1 - - + -
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Residues in contact with SER 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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128A ALA 3.1 16.5 + - - -
129A CYS* 3.5 8.3 - - - -
131A ILE* 1.3 78.8 - - - +
133A GLY* 1.3 62.1 + - - +
135A LEU* 3.2 6.2 + - - -
136A SER* 3.1 8.4 + - - -
215A ARG* 3.0 35.0 + - - +
216A LEU 5.5 2.1 + - - -
218A GLU* 4.7 19.6 + - - +
221A LEU* 4.0 14.3 - - - +
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Residues in contact with GLY 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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129A CYS 3.0 15.5 + - - -
130A LEU* 3.1 4.6 + - - -
132A SER* 1.3 76.0 - - - +
134A VAL* 1.3 56.6 + - - +
136A SER* 3.4 7.6 + - - -
137A TYR* 2.9 23.7 + - - +
348A HIS* 5.7 0.5 + - - -
349A LEU* 3.1 25.2 - - - +
352A HIS* 5.7 8.1 - - - -
353A MET* 5.6 2.7 - - - -
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Residues in contact with VAL 134 (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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130A LEU* 3.4 19.7 - - + +
131A ILE* 3.0 12.0 + - + +
133A GLY* 1.3 73.6 - - - +
135A LEU* 1.3 63.5 + - + +
137A TYR* 3.8 2.1 - - - +
138A LYS* 2.8 29.4 + - + +
169A PHE* 3.7 26.4 - - + -
196A VAL* 6.1 1.6 - - + -
277A ILE* 4.1 19.1 - - + -
278A CYS* 4.6 9.4 - - - -
320A PHE* 4.0 17.0 - - + -
349A LEU* 3.7 29.4 - - + -
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Residues in contact with LEU 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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131A ILE* 3.0 22.6 + - + +
132A SER* 3.2 11.4 + - - +
134A VAL* 1.3 78.2 - - + +
136A SER* 1.3 58.4 + - - +
138A LYS* 3.5 7.5 + - + +
139A THR* 2.9 30.7 + - - -
194A GLU* 5.7 1.8 - - - +
196A VAL* 5.3 1.3 - - + -
209A VAL* 3.8 46.7 - - + +
215A ARG* 3.7 34.3 - - + +
216A LEU 4.8 6.3 - - - +
221A LEU* 4.9 4.7 - - + -
277A ILE* 4.0 16.4 - - + -
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Residues in contact with SER 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 SER* 3.1 7.7 + - - -
133A GLY* 3.6 10.0 - - - -
135A LEU* 1.3 74.9 - - - +
137A TYR* 1.3 65.6 + - - +
139A THR* 3.0 15.8 + - - +
140A LEU* 3.1 18.5 + - - +
215A ARG* 2.9 30.2 + - - +
348A HIS* 5.9 1.8 - - - -
352A HIS* 5.6 8.1 - - - -
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Residues in contact with TYR 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 GLY 2.9 17.6 + - - +
134A VAL* 3.8 4.3 - - - +
136A SER* 1.3 74.7 - - - +
138A LYS* 1.3 62.5 + - - +
140A LEU* 3.1 20.1 + - + +
141A LEU* 3.2 23.4 + - + +
146A LEU* 3.9 20.6 - - + +
165A TYR* 3.4 29.6 - - - -
168A LEU* 3.9 13.2 - - + -
169A PHE* 3.7 20.4 - + + -
344A GLN 4.8 0.7 - - - -
345A CYS* 3.9 26.9 + - - -
348A HIS* 3.3 52.4 - + + +
349A LEU* 3.8 13.7 - - + -
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Residues in contact with LYS 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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134A VAL* 2.8 19.4 + - + +
135A LEU* 3.8 9.2 - - + +
137A TYR* 1.3 76.9 - - - +
139A THR* 1.3 53.9 + - - +
141A LEU* 3.4 6.0 + - + +
142A ASP* 2.7 65.8 + - - +
169A PHE* 4.1 33.9 - - + -
170A SER* 6.5 0.7 - - - -
194A GLU* 3.3 28.9 + - - +
277A ILE* 4.1 38.1 - - + -
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Residues in contact with THR 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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135A LEU 2.9 18.7 + - - -
136A SER* 3.0 15.6 + - - +
138A LYS* 1.3 76.1 - - - +
140A LEU* 1.3 68.2 + - + +
142A ASP* 3.6 6.8 + - - +
143A SER* 3.2 25.7 + - - +
215A ARG* 4.2 10.9 + - - +
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Residues in contact with LEU 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 SER 3.1 15.3 + - - +
137A TYR* 3.1 13.1 + - + +
139A THR* 1.3 80.3 - - + +
141A LEU* 1.3 60.5 + - + +
143A SER* 3.5 3.3 + - - -
144A HIS 3.3 2.4 + - - -
145A SER* 2.8 49.7 + - - +
146A LEU* 3.7 20.5 + - + +
147A PRO* 6.3 0.9 - - + -
348A HIS* 3.7 32.3 - - + +
352A HIS* 5.7 2.0 - - + -
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Residues in contact with LEU 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 TYR* 3.2 23.6 + - + +
138A LYS* 3.6 9.4 - - + +
139A THR 3.2 0.2 - - - -
140A LEU* 1.3 77.0 - - + +
142A ASP* 1.3 62.4 + - - +
143A SER 3.0 1.6 - - - -
144A HIS* 2.7 28.9 + - - +
146A LEU* 4.1 21.8 - - + -
165A TYR* 3.4 40.2 - - + +
166A TYR* 3.6 39.6 - - + -
169A PHE* 4.0 31.4 - - + +
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Residues in contact with ASP 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A LYS* 2.7 56.4 + - - +
139A THR* 3.6 7.2 + - - +
141A LEU* 1.3 80.7 - - - +
143A SER* 1.3 57.5 + - - +
144A HIS* 3.3 14.4 + - - -
166A TYR* 5.9 0.4 - - - -
194A GLU* 5.4 0.7 - - - +
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Residues in contact with SER 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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18A TRP* 5.4 1.4 - - - -
139A THR* 3.2 18.9 + - - +
140A LEU* 3.5 2.1 + - - +
141A LEU 3.0 0.6 - - - -
142A ASP* 1.3 76.9 - - - +
144A HIS* 1.3 71.8 + - - +
145A SER* 2.7 27.6 + - - -
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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