Contacts of the helix formed by residues 119 - 143 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117B PHE* 3.3 4.9 - - - +
118B GLN* 1.3 85.0 - - - +
120B THR* 1.3 66.4 + - - +
121B ASN* 3.2 14.0 + - - +
122B ASP* 3.0 35.2 + - - +
123B GLN* 3.5 5.9 + - - +
125B ARG* 4.8 0.7 + - - -
324B ARG* 3.3 16.6 - - - +
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Residues in contact with THR 120 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119B ASP* 1.3 74.2 - - - +
121B ASN* 1.3 63.1 + - - +
123B GLN* 3.0 14.6 + - - +
124B LEU* 2.9 48.4 + - + +
229B VAL* 4.7 16.4 - - + -
324B ARG* 3.6 26.6 + - - +
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Residues in contact with ASN 121 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119B ASP* 3.1 14.1 + - - +
120B THR* 1.3 81.9 - - - +
122B ASP* 1.3 55.7 + - - +
124B LEU* 3.5 7.5 + - - +
125B ARG* 3.0 56.8 + - - +
222B PHE* 3.7 26.2 - - + -
226B ARG* 3.8 27.9 + - - +
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Residues in contact with ASP 122 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116B HIS 4.7 2.7 - - - +
117B PHE* 3.9 23.6 - - + -
118B GLN* 3.2 26.7 + - - +
119B ASP* 3.0 24.2 + - - +
121B ASN* 1.3 73.2 - - - +
123B GLN* 1.3 67.1 + - - +
125B ARG* 3.1 24.1 + - - +
126B PHE* 3.0 23.4 + - - +
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Residues in contact with GLN 123 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B PHE* 3.6 28.1 - - + -
119B ASP 3.5 3.6 + - - +
120B THR* 3.0 22.0 + - - +
122B ASP* 1.3 80.4 - - - +
124B LEU* 1.3 67.2 + - + +
126B PHE* 3.3 4.2 + - - +
127B ALA* 3.0 26.2 + - - +
229B VAL* 5.7 1.0 - - - +
282B LEU* 4.0 15.4 - - + +
283B ASP 3.8 7.5 + - - -
322B VAL* 2.9 37.3 + - + +
323B GLY 4.2 0.4 - - - +
324B ARG* 3.4 37.6 - - - +
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Residues in contact with LEU 124 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B THR* 2.9 34.7 + - + +
121B ASN* 4.5 5.6 - - - +
123B GLN* 1.3 86.7 - - - +
125B ARG* 1.3 59.3 - - - +
127B ALA* 3.7 3.0 - - - +
128B ALA* 2.8 29.8 + - - +
222B PHE* 3.7 19.6 - - + -
225B LEU* 3.8 14.8 - - + +
226B ARG* 3.9 39.9 - - + +
229B VAL* 3.9 23.1 - - + -
282B LEU* 4.1 20.9 - - + -
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Residues in contact with ARG 125 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119B ASP* 4.8 0.6 + - - -
121B ASN* 3.0 53.4 + - - +
122B ASP* 3.1 31.7 + - - +
123B GLN 3.3 0.2 - - - -
124B LEU* 1.3 72.6 - - - +
126B PHE* 1.3 61.8 + - - +
128B ALA* 3.3 5.1 + - - +
129B CYS* 2.8 31.1 + - - +
218B GLU* 4.1 3.5 - - - +
222B PHE* 3.9 25.5 - - + -
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Residues in contact with PHE 126 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112B PHE* 4.9 10.1 - + - -
115B GLN* 3.4 38.8 - - + -
117B PHE* 3.6 17.9 - + + -
122B ASP 3.0 13.6 + - - +
123B GLN 3.5 8.5 - - - +
124B LEU 3.2 0.2 - - - -
125B ARG* 1.3 77.4 - - - +
127B ALA* 1.3 58.1 + - - +
129B CYS* 3.1 7.2 + - - +
130B LEU* 2.9 44.9 + - + +
322B VAL* 3.9 18.2 - - + -
328B CYS* 4.1 18.2 - - + -
350B LEU* 5.1 4.9 - - + -
353B MET* 3.6 28.7 - - + +
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Residues in contact with ALA 127 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123B GLN 3.0 16.5 + - - +
124B LEU* 3.7 5.4 - - - +
125B ARG 3.3 0.2 - - - -
126B PHE* 1.3 78.0 - - - +
128B ALA* 1.3 56.3 + - - +
130B LEU* 3.1 8.1 + - - +
131B ILE* 2.9 34.8 + - + +
225B LEU* 4.0 13.5 - - + -
280B VAL* 4.5 8.5 - - + -
282B LEU* 4.3 14.8 - - + -
322B VAL* 4.2 23.1 - - + -
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Residues in contact with ALA 128 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B LEU 2.8 18.9 + - - +
125B ARG* 3.6 7.0 - - - +
127B ALA* 1.3 75.5 - - - +
129B CYS* 1.3 63.1 + - - +
131B ILE* 3.4 2.1 + - - -
132B SER* 3.1 24.4 + - - -
218B GLU* 3.7 28.7 - - + +
221B LEU* 3.7 13.8 - - + +
222B PHE* 3.9 17.9 - - + +
225B LEU* 3.8 8.2 - - + +
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Residues in contact with CYS 129 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125B ARG 2.8 15.4 + - - +
126B PHE* 3.5 6.7 - - - +
128B ALA* 1.3 76.6 - - - +
130B LEU* 1.3 57.7 - - - +
132B SER* 3.5 3.5 + - - -
133B GLY* 3.0 23.4 + - - -
218B GLU* 3.1 32.2 + - - +
352B HIS 5.2 0.4 - - - -
353B MET* 3.7 46.7 - - + +
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Residues in contact with LEU 130 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B PHE* 4.6 13.2 - - + -
126B PHE* 2.9 32.1 + - + +
127B ALA* 3.1 10.5 + - - +
129B CYS* 1.3 74.9 - - - +
131B ILE* 1.3 74.2 + - + +
133B GLY* 3.1 3.5 + - - +
134B VAL* 3.1 31.3 + - + +
280B VAL* 5.1 4.0 - - + -
320B PHE* 3.8 47.6 - - + -
321B VAL 6.0 0.2 - - - +
322B VAL* 4.5 10.5 - - + -
329B GLY 6.0 0.2 - - - +
349B LEU* 5.0 5.3 - - + +
350B LEU* 6.0 0.4 - - + -
353B MET* 3.8 21.5 - - + +
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Residues in contact with ILE 131 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B ALA 2.9 20.3 + - - +
128B ALA* 3.4 4.4 + - - +
130B LEU* 1.3 80.4 - - + +
132B SER* 1.3 63.5 + - - +
134B VAL* 3.0 16.3 + - + +
135B LEU* 3.0 24.2 + - + +
196B VAL* 4.4 21.8 - - + -
198B VAL* 5.1 0.2 - - + -
207B LEU* 4.1 22.9 - - + -
209B VAL* 4.6 2.0 - - + -
221B LEU* 4.0 23.8 - - + -
225B LEU* 4.6 16.2 - - + -
280B VAL* 3.9 35.7 - - + -
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Residues in contact with SER 132 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128B ALA 3.1 17.6 + - - -
129B CYS* 3.5 8.5 - - - -
131B ILE* 1.3 77.9 - - - +
133B GLY* 1.3 61.4 + - - +
135B LEU* 3.2 6.0 + - - -
136B SER* 3.1 8.8 + - - -
215B ARG* 3.0 34.7 + - - +
216B LEU 5.5 1.4 + - - -
217B SER 5.5 0.2 - - - -
218B GLU* 4.6 19.9 + - - +
221B LEU* 4.1 13.0 - - - +
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Residues in contact with GLY 133 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129B CYS 3.0 14.9 + - - -
130B LEU* 3.1 4.7 + - - -
132B SER* 1.3 78.5 - - - +
134B VAL* 1.3 54.8 + - - +
136B SER* 3.4 7.4 + - - -
137B TYR* 2.9 24.1 + - - +
348B HIS* 5.7 0.7 + - - -
349B LEU* 3.1 25.3 - - - +
352B HIS* 5.7 7.4 - - - -
353B MET* 5.6 2.7 - - - -
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Residues in contact with VAL 134 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B LEU* 3.1 19.5 + - + +
131B ILE* 3.0 11.8 + - + +
133B GLY* 1.3 74.0 - - - +
135B LEU* 1.3 64.4 + - + +
137B TYR* 3.4 2.6 + - - +
138B LYS* 2.8 28.5 + - + +
169B PHE* 3.7 25.9 - - + -
196B VAL* 6.1 2.0 - - + -
277B ILE* 4.1 18.8 - - + -
278B CYS* 4.6 9.4 - - - -
320B PHE* 4.1 17.5 - - + -
349B LEU* 3.7 28.7 - - + -
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Residues in contact with LEU 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B ILE* 3.0 22.3 + - + +
132B SER* 3.2 11.0 + - - +
134B VAL* 1.3 79.9 - - + +
136B SER* 1.3 58.4 + - - +
138B LYS* 3.4 8.0 + - + +
139B THR* 2.9 31.9 + - - -
194B GLU* 5.7 1.3 - - - +
196B VAL* 5.3 1.6 - - + -
209B VAL* 3.9 46.7 - - + +
215B ARG* 3.7 35.9 - - + +
216B LEU 4.8 6.1 - - - +
221B LEU* 4.9 5.2 - - + -
277B ILE* 4.0 15.9 - - + -
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Residues in contact with SER 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132B SER* 3.1 7.9 + - - -
133B GLY* 3.6 11.3 - - - -
135B LEU* 1.3 74.3 - - - +
137B TYR* 1.3 65.4 + - - +
139B THR* 3.0 15.0 + - - +
140B LEU* 3.1 17.3 + - - +
215B ARG* 2.9 30.7 + - - +
348B HIS* 5.9 1.8 - - - -
352B HIS* 5.6 8.1 - - - -
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Residues in contact with TYR 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133B GLY 2.9 17.9 + - - +
134B VAL* 3.8 4.3 - - - +
136B SER* 1.3 76.1 - - - +
138B LYS* 1.3 62.3 + - - +
140B LEU* 3.1 22.1 + - + +
141B LEU* 3.2 23.3 + - + +
146B LEU* 3.9 20.5 - - + +
165B TYR* 3.4 29.9 - + - -
168B LEU* 3.9 13.2 - - + -
169B PHE* 3.7 20.4 - + + -
344B GLN 4.8 0.9 + - - -
345B CYS* 3.9 27.3 + - - -
348B HIS* 3.3 51.8 - + + +
349B LEU* 3.8 13.2 - - + -
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Residues in contact with LYS 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134B VAL* 2.8 19.0 + - + +
135B LEU* 3.7 9.6 - - + +
136B SER 3.2 0.2 - - - -
137B TYR* 1.3 76.4 - - - +
139B THR* 1.3 54.7 + - - +
141B LEU* 3.4 6.2 + - + +
142B ASP* 2.7 66.3 + - - +
169B PHE* 4.1 34.3 - - + -
170B SER* 6.5 0.7 - - - -
194B GLU* 3.3 29.0 + - - +
277B ILE* 4.1 37.9 - - + -
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Residues in contact with THR 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135B LEU 2.9 18.2 + - - -
136B SER* 3.0 14.1 + - - +
138B LYS* 1.3 75.1 - - - +
140B LEU* 1.3 68.5 + - + +
141B LEU 3.3 0.2 + - - -
142B ASP* 3.6 7.4 + - - +
143B SER* 3.2 25.7 + - - +
215B ARG* 4.2 11.1 + - - +
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Residues in contact with LEU 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136B SER 3.1 15.9 + - - +
137B TYR* 3.1 10.7 + - + +
139B THR* 1.3 79.5 - - + +
141B LEU* 1.3 60.8 + - - +
143B SER* 3.5 3.7 + - - +
144B HIS 3.3 2.1 + - - -
145B SER* 2.8 48.5 + - - +
146B LEU* 3.7 24.5 + - + +
147B PRO* 6.3 0.9 - - + -
348B HIS* 3.7 31.9 - - + +
352B HIS* 5.7 2.0 - - + -
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Residues in contact with LEU 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B TYR* 3.2 22.4 + - + +
138B LYS* 3.6 8.3 - - + +
139B THR 3.2 0.2 - - - -
140B LEU* 1.3 76.8 - - - +
142B ASP* 1.3 62.4 + - - +
143B SER 3.0 1.6 - - - -
144B HIS* 2.7 28.2 + - - +
146B LEU* 4.1 21.1 - - + -
165B TYR* 3.4 41.5 - - + +
166B TYR* 3.6 39.9 - - + -
169B PHE* 4.0 31.4 - - + +
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Residues in contact with ASP 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B LYS* 2.7 55.8 + - - +
139B THR* 4.1 6.8 - - - +
141B LEU* 1.3 81.0 - - - +
143B SER* 1.3 58.7 + - - +
144B HIS* 3.6 13.2 + - - -
166B TYR* 5.7 0.9 - - - -
194B GLU* 5.4 0.9 - - - +
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Residues in contact with SER 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B TRP* 5.4 1.6 - - - -
139B THR* 3.2 18.4 + - - +
140B LEU* 3.5 2.1 + - - -
141B LEU 3.0 0.8 - - - -
142B ASP* 1.3 76.8 - - - +
144B HIS* 1.3 71.3 + - - +
145B SER* 2.7 27.5 + - - -
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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