Contacts of the helix formed by residues 129 - 156 (chain A) in PDB entry 2IAG
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 129 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125A LYS* 3.3 52.5 - - + +
126A LEU* 3.2 16.2 + - + +
127A THR 3.5 0.2 - - - -
128A LEU* 1.3 85.6 - - - +
130A HIS* 1.3 100.9 + - + +
131A ARG 3.3 0.2 + - - -
132A GLU* 3.3 13.9 + - - +
133A LEU* 3.3 11.8 + - + +
442A LEU 5.4 1.3 - - - +
445A SER* 4.4 18.4 - - - +
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Residues in contact with HIS 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU* 4.4 20.9 + - + +
129A LEU* 1.3 102.1 + - + +
131A ARG* 1.3 67.0 + - + +
133A LEU* 3.3 10.8 + - - +
134A GLN* 3.1 21.5 + - - +
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Residues in contact with ARG 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A HIS* 1.3 79.8 - - + +
132A GLU* 1.3 69.3 + - + +
134A GLN* 3.4 9.0 + - - +
135A ALA* 3.1 21.3 + - - +
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Residues in contact with GLU 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU 4.4 4.5 - - - +
127A THR* 3.5 27.8 - - - +
129A LEU 3.3 7.2 + - - +
131A ARG* 1.3 78.5 - - + +
133A LEU* 1.3 59.6 + - - +
135A ALA* 3.2 13.0 + - - +
136A LEU* 2.8 33.9 + - + +
254A LYS* 3.4 40.3 + - + +
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Residues in contact with LEU 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU 3.6 14.1 - - - +
129A LEU* 3.3 23.2 + - + +
130A HIS 3.3 13.1 + - - +
132A GLU* 1.3 76.5 - - - +
134A GLN* 1.3 52.4 + - - +
136A LEU* 3.0 10.7 + - + +
137A THR* 2.5 57.4 + - - +
445A SER* 3.6 23.6 - - - +
446A TYR* 3.6 40.4 - - + +
449A ASN* 4.2 7.4 - - - +
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Residues in contact with GLN 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A HIS 3.1 12.9 + - - +
131A ARG* 3.6 11.9 - - - +
132A GLU 3.3 0.2 - - - -
133A LEU* 1.3 76.8 - - - +
135A ALA* 1.3 57.5 + - - +
137A THR* 3.4 10.7 + - - +
138A GLU* 3.0 63.5 + - - +
332A GLN* 4.3 17.9 + - - +
335A LEU* 6.1 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
----------------------------------------------------------
131A ARG 3.1 13.9 + - - +
132A GLU* 3.2 18.4 + - - +
134A GLN* 1.3 76.8 - - - +
136A LEU* 1.3 57.0 + - + +
138A GLU* 3.8 6.9 - - - +
139A ALA* 2.9 30.5 + - - +
251A HIS* 5.1 10.6 + - - +
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Residues in contact with LEU 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A THR 4.0 20.2 - - - +
128A LEU* 4.0 21.8 - - + -
132A GLU* 2.8 18.8 + - + +
133A LEU* 3.4 13.5 - - - +
135A ALA* 1.3 69.7 - - + +
137A THR* 1.3 56.7 + - - +
139A ALA* 3.3 1.5 + - + -
140A MET* 2.6 38.8 + - - +
179A THR* 3.6 17.4 - - + +
180A LEU* 3.6 27.8 - - + -
253A SER* 3.8 20.2 - - - -
255A TRP* 5.2 1.1 - - + -
446A TYR* 4.2 21.5 - - + -
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Residues in contact with THR 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A LEU* 2.5 38.0 + - - +
134A GLN* 3.8 14.3 - - - +
136A LEU* 1.3 74.0 - - - +
138A GLU* 1.3 60.3 - - + +
140A MET* 3.5 5.1 + - - +
141A TYR* 3.2 11.1 + - - +
332A GLN* 5.7 0.2 - - - +
335A LEU* 3.8 23.8 - - + -
446A TYR* 4.9 3.8 - - - -
449A ASN* 3.4 27.4 + - + +
453A GLN* 3.0 37.4 - - - +
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Residues in contact with GLU 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A GLN* 3.0 50.0 + - - +
135A ALA* 3.8 5.7 + - - +
137A THR* 1.3 74.2 - - + +
139A ALA* 1.3 62.3 + - - +
141A TYR* 3.4 6.6 + - - +
142A THR* 3.0 29.1 + - + +
329A THR* 5.6 8.6 - - + +
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Residues in contact with ALA 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A ALA 2.9 19.6 + - - +
136A LEU* 3.7 4.0 - - + +
138A GLU* 1.3 75.0 - - - +
140A MET* 1.3 64.2 + - - +
142A THR* 3.4 8.9 + - - +
143A ASN* 3.0 35.4 + - - +
179A THR* 3.8 17.0 - - + +
188A ARG* 5.2 1.5 + - - +
251A HIS* 4.0 27.3 - - + +
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Residues in contact with MET 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A LEU 2.6 21.6 + - - +
137A THR* 3.7 2.7 - - - +
139A ALA* 1.3 73.6 - - - +
141A TYR* 1.3 57.1 + - - +
143A ASN* 3.4 0.6 + - + -
144A LEU* 2.9 32.2 + - + +
172A LEU* 4.8 2.5 - - + +
175A ALA* 2.7 46.4 - - + +
176A GLY* 3.7 3.6 - - - +
179A THR* 3.4 13.4 - - - +
288A MET* 5.4 1.6 - - - -
446A TYR* 3.3 28.0 - - + -
450A SER* 3.3 26.9 - - - +
453A GLN* 3.5 16.2 - - - +
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Residues in contact with TYR 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A THR 3.2 7.8 + - - +
138A GLU* 3.9 6.5 - - - +
139A ALA 3.3 0.6 - - - -
140A MET* 1.3 79.4 - - - +
142A THR* 1.3 58.4 + - + +
144A LEU* 3.7 2.3 - - - +
145A HIS* 3.0 37.9 + + + +
328A THR* 3.4 35.3 - - - -
329A THR* 3.8 15.4 + - - -
330A LEU* 3.5 37.4 - - + +
331A PRO* 5.4 0.2 - - - +
453A GLN* 3.4 36.0 - - + +
456A PHE* 3.9 13.3 - + - -
457A LEU* 3.7 38.3 - - + +
461A HIS* 4.8 3.3 - - - -
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Residues in contact with THR 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A GLU* 3.0 21.3 - - + +
139A ALA* 3.8 8.5 - - - +
141A TYR* 1.3 76.6 - - + +
143A ASN* 1.3 56.7 + - - +
145A HIS* 3.6 6.6 - - - +
146A ALA* 2.8 32.2 + - - +
188A ARG* 2.9 28.6 + - - +
193A GLN* 5.2 0.5 + - - -
328A THR* 5.2 15.5 - - - +
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Residues in contact with ASN 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 ALA* 3.0 24.1 + - - +
140A MET 4.0 0.9 - - - +
142A THR* 1.3 73.6 - - - +
144A LEU* 1.3 59.3 + - - +
146A ALA* 4.4 3.2 - - - +
147A VAL* 2.8 36.3 + - - +
175A ALA* 3.7 16.2 - - - +
178A LEU* 3.7 19.7 + - + +
179A THR* 2.9 40.9 + - - +
183A ILE* 3.8 13.2 - - - +
188A ARG* 3.7 24.4 + - - +
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Residues in contact with LEU 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 MET* 2.9 28.9 + - + +
141A TYR* 3.7 3.6 - - - +
143A ASN* 1.3 73.9 - - - +
145A HIS* 1.3 58.0 + - - +
147A VAL* 4.0 1.4 - - - +
148A LEU* 2.9 35.2 + - - +
171A PHE* 3.6 14.9 - - + +
172A LEU* 3.8 17.7 - - + -
175A ALA* 3.6 21.6 - - + +
450A SER 3.8 7.6 - - - +
453A GLN* 3.7 20.2 - - + +
454A PHE* 3.7 41.7 - - + +
457A LEU* 3.8 15.0 - - + -
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Residues in contact with HIS 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 TYR* 3.0 27.7 + + + +
142A THR* 3.6 7.2 - - - +
144A LEU* 1.3 76.2 - - - +
146A ALA* 1.3 60.1 + - - +
148A LEU* 4.9 0.7 - - - -
149A LEU* 2.8 72.3 + - + +
328A THR* 4.5 30.6 + - + +
457A LEU* 3.8 26.5 - - + +
461A HIS* 4.5 8.1 + + - -
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Residues in contact with ALA 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 THR* 2.8 22.6 + - - +
143A ASN* 3.9 5.2 - - - +
145A HIS* 1.3 78.1 + - - +
147A VAL* 1.3 60.4 + - + +
150A GLY* 2.9 28.7 + - - +
178A LEU* 6.4 0.7 - - + -
188A ARG* 4.3 8.1 - - - +
193A GLN* 4.2 28.9 - - + +
197A ARG* 3.8 7.1 - - + -
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Residues in contact with VAL 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ASN 2.8 24.6 + - - +
144A LEU* 4.1 2.9 - - - +
146A ALA* 1.3 72.3 - - + +
148A LEU* 1.3 59.7 + - - +
151A ASP* 2.9 34.5 + - - +
171A PHE* 3.6 23.1 - - + +
174A ARG* 3.7 37.5 - - + +
175A ALA* 4.4 10.8 - - + +
178A LEU* 3.8 28.0 - - + -
197A ARG* 3.9 12.7 - - + +
200A SER* 4.6 3.6 - - - +
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Residues in contact with LEU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A LEU* 2.9 20.9 + - + +
145A HIS 4.2 0.7 - - - +
147A VAL* 1.3 77.7 - - - +
149A LEU* 1.3 73.0 + - + +
151A ASP* 3.9 1.9 - - - +
152A ALA* 3.1 25.6 + - - +
167A PHE* 4.3 5.4 - - + -
171A PHE* 3.5 42.5 - - + -
454A PHE* 4.7 10.8 - - + -
457A LEU* 4.2 30.1 - - + +
458A VAL* 4.8 3.4 - - + +
462A LEU* 4.0 33.9 - - + -
496A TYR* 4.8 5.6 - - + -
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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
----------------------------------------------------------
145A HIS* 2.8 59.3 + - + +
146A ALA* 5.5 0.2 - - - -
148A LEU* 1.3 89.8 - - + +
150A GLY* 1.3 56.9 + - - +
152A ALA* 4.0 1.7 - - + +
153A THR* 2.7 42.2 + - - +
457A LEU* 5.4 1.3 - - + -
461A HIS* 3.9 33.7 - - + +
462A LEU* 4.4 2.5 - - + -
498A ILE* 4.2 25.1 - - + -
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Residues in contact with GLY 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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146A ALA* 2.9 23.6 + - - +
149A LEU* 1.3 78.1 - - - +
151A ASP* 1.3 59.2 + - - +
153A THR* 3.9 4.6 - - - -
154A GLU* 3.1 25.3 + - - +
197A ARG* 3.5 19.7 + - - -
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Residues in contact with ASP 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 VAL 2.9 20.1 + - - +
148A LEU 3.9 0.2 - - - +
150A GLY* 1.3 72.3 - - - +
152A ALA* 1.3 61.6 + - - +
154A GLU* 3.6 3.4 + - - +
155A ALA* 3.2 23.9 + - - +
171A PHE* 3.9 18.7 - - + -
174A ARG* 2.8 40.7 + - - -
197A ARG* 3.0 26.5 + - - +
496A TYR* 4.8 4.2 + - - +
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Residues in contact with ALA 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LEU* 3.1 18.5 + - + +
149A LEU* 4.0 1.8 - - + +
150A GLY 3.3 0.2 - - - -
151A ASP* 1.3 74.2 - - - +
153A THR* 1.3 59.2 - - - +
155A ALA 3.3 1.2 + - - -
156A GLY* 2.8 34.0 + - - +
160A HIS* 4.0 7.5 - - + -
462A LEU* 5.4 1.1 - - + -
496A TYR* 4.1 26.9 + - + -
498A ILE* 3.5 33.0 - - + +
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Residues in contact with THR 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A LEU* 2.7 28.5 + - - +
150A GLY* 3.9 4.7 - - - -
152A ALA* 1.3 75.0 - - - +
154A GLU* 1.3 64.1 + - - +
156A GLY* 3.3 12.8 + - - +
498A ILE* 4.2 11.5 - - - +
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Residues in contact with GLU 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A GLY 3.1 17.6 + - - +
151A ASP* 3.9 5.4 - - - +
153A THR* 1.3 78.7 - - - +
155A ALA* 1.3 61.2 + - - +
156A GLY* 4.7 0.2 - - - -
197A ARG* 2.6 41.8 + - - +
198A VAL* 5.9 1.7 - - - +
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Residues in contact with ALA 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A ASP 3.2 16.0 + - - +
154A GLU* 1.3 80.6 - - - +
156A GLY* 1.3 58.9 + - - +
160A HIS* 3.5 34.2 + - + +
496A TYR* 5.7 1.1 - - - +
----------------------------------------------------------
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Residues in contact with GLY 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ALA* 2.8 14.8 + - - +
153A THR* 3.3 12.2 + - - -
154A GLU 4.7 0.2 - - - -
155A ALA* 1.3 79.6 - - - +
157A SER* 1.3 59.6 + - - -
158A GLY 3.4 2.5 - - - -
160A HIS* 2.8 26.9 + - - -
498A ILE* 5.8 2.0 + - - +
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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