Contacts of the helix formed by residues 126 - 155 (chain A) in PDB entry 2NS8
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 SER 126 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121A THR* 4.0 0.2 - - - -
124A GLY 3.9 1.8 + - - -
125A PHE* 1.3 75.1 - - - +
127A LEU* 1.3 69.1 + - - +
128A GLU* 3.8 8.5 + - - +
129A ASN* 3.1 35.7 + - - +
130A ALA* 2.9 21.8 + - - +
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Residues in contact with LEU 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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117A LEU* 4.0 40.8 - - + -
121A THR* 3.6 21.5 - - + +
126A SER* 1.3 74.2 - - - +
128A GLU* 1.3 65.2 - - + +
130A ALA* 3.2 3.5 + - + +
131A LEU* 2.9 38.6 + - + +
169B LEU* 4.2 9.4 - - + +
172B GLN* 3.3 45.5 - - + +
173B ALA 4.1 3.1 - - - +
176B LEU* 5.6 5.8 - - + -
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Residues in contact with GLU 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A SER* 4.0 7.8 - - - +
127A LEU* 1.3 81.5 - - + +
129A ASN* 1.3 65.8 + - - +
131A LEU* 3.1 28.3 - - - +
132A TYR* 2.9 48.7 + - + +
176B LEU* 4.8 17.5 - - + +
180B GLN* 4.1 10.5 + - - -
188B HIS* 4.6 5.4 + - - -
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Residues in contact with ASN 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 PHE* 3.9 16.5 - - + -
126A SER* 3.1 25.6 + - - +
128A GLU* 1.3 78.2 - - - +
130A ALA* 1.3 66.9 - - - +
132A TYR* 3.3 22.4 + - - +
133A ALA* 3.1 22.0 + - - +
197A PHE* 4.2 9.8 - - + -
200A GLN* 6.2 1.0 - - - +
188B HIS* 4.3 10.4 + - - -
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Residues in contact with ALA 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A LEU* 4.7 9.4 - - + -
120A LEU* 3.7 32.7 - - + +
121A THR* 4.6 5.2 - - + -
125A PHE* 3.8 13.1 - - + -
126A SER 2.9 13.4 + - - +
127A LEU* 3.2 13.0 - - - +
129A ASN* 1.3 76.9 - - - +
131A LEU* 1.3 62.4 + - - +
133A ALA* 3.1 4.9 + - - +
134A LEU* 3.0 28.6 + - - +
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Residues in contact with LEU 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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117A LEU* 4.5 6.1 - - + -
127A LEU* 2.9 28.5 + - + +
128A GLU* 3.1 14.8 - - - +
130A ALA* 1.3 78.0 - - - +
132A TYR* 1.3 64.9 + - + +
134A LEU* 3.4 6.4 + - - +
135A SER* 2.8 31.4 + - - -
173B ALA* 3.5 32.5 - - + +
176B LEU* 4.6 9.6 - - + -
177B PHE* 3.2 38.8 - - + -
3H TRP* 3.6 24.0 - - + +
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Residues in contact with TYR 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 GLU* 2.9 52.3 + - + +
129A ASN* 3.7 13.7 - - - +
130A ALA 3.2 0.4 - - - -
131A LEU* 1.3 83.2 - - + +
133A ALA* 1.3 57.5 + - - +
135A SER* 3.9 4.1 - - - -
136A ALA* 2.8 31.2 + - - +
197A PHE* 3.7 9.4 - + + -
176B LEU* 4.3 4.3 - - + +
177B PHE* 5.9 6.3 - + - -
180B GLN* 2.9 27.4 + - - -
184B PRO* 3.9 5.3 - - + +
185B ALA* 3.7 34.9 - - + +
188B HIS* 3.3 53.2 - + + -
189B GLY* 5.3 0.9 - - - -
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Residues in contact with ALA 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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79A LEU* 4.5 18.6 - - + -
120A LEU* 5.4 2.5 - - + -
125A PHE* 4.4 10.8 - - + -
129A ASN 3.1 11.4 + - - +
130A ALA* 3.1 9.0 + - - +
132A TYR* 1.3 74.3 - - - +
134A LEU* 1.3 62.2 + - - +
136A ALA* 3.9 0.3 - - - +
137A VAL* 2.8 38.4 + - + +
197A PHE* 3.5 33.4 - - + -
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Residues in contact with LEU 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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78A PHE* 4.5 5.2 - - + -
79A LEU* 4.3 15.9 - - + -
82A ASN* 5.3 5.4 - - - +
116A GLN* 3.4 28.0 - - + +
117A LEU* 3.6 27.6 - - + -
120A LEU* 3.3 32.5 - - + -
130A ALA 3.0 13.1 + - - +
131A LEU* 3.7 3.8 - - - +
133A ALA* 1.3 75.5 - - - +
135A SER* 1.3 59.7 + - - +
137A VAL* 4.0 3.8 - - - +
138A GLY* 2.9 25.6 + - - -
1H TRP 4.3 0.9 - - - +
3H TRP* 3.7 33.7 - - + +
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Residues in contact with SER 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 LEU* 2.8 20.4 + - - -
132A TYR* 3.9 5.8 - - - -
134A LEU* 1.3 77.6 - - - +
136A ALA* 1.3 59.7 + - - +
138A GLY 3.2 0.2 + - - -
139A HIS* 2.8 60.6 + - - +
140B PHE* 5.8 0.3 - - - -
177B PHE* 5.9 1.6 - - - -
185B ALA* 4.0 19.9 - - - +
2H THR 3.3 14.4 - - - -
3H TRP* 4.0 12.0 + - - +
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Residues in contact with ALA 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 TYR 2.8 20.1 + - - +
133A ALA 3.9 3.1 - - - +
135A SER* 1.3 76.4 - - - +
137A VAL* 1.3 65.1 + - - +
140A PHE* 3.1 27.4 + - - +
193A LEU* 3.7 28.7 - - + +
197A PHE* 4.2 5.2 - - + -
140B PHE* 3.8 14.9 - - + -
185B ALA 5.6 1.1 - - - +
189B GLY* 3.9 18.6 - - - -
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Residues in contact with VAL 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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79A LEU* 4.0 29.4 - - + +
82A ASN* 5.5 3.6 - - - +
83A ALA* 3.6 32.1 - - + +
133A ALA* 2.8 21.9 + - + +
134A LEU* 4.1 4.3 - - - +
136A ALA* 1.3 78.1 - - + +
138A GLY* 1.3 62.4 + - - +
140A PHE* 3.8 1.6 - - - +
141A THR* 3.0 27.9 + - - +
190A LEU* 3.9 18.4 - - + -
193A LEU* 4.1 20.9 - - + -
194A ILE* 4.8 4.0 - - + -
197A PHE* 5.7 2.2 - - + -
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Residues in contact with GLY 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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86A PHE* 3.9 10.6 - - - -
134A LEU 2.9 17.5 + - - -
135A SER 3.6 2.0 - - - -
137A VAL* 1.3 77.8 - - - +
139A HIS* 1.3 56.6 + - - +
141A THR* 3.1 5.9 + - - -
142A LEU* 3.0 28.8 + - - +
1H TRP 3.8 19.3 - - - -
2H THR* 4.0 8.3 - - - -
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Residues in contact with HIS 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 SER* 2.8 40.5 + - - +
136A ALA 4.4 1.3 - - - +
138A GLY* 1.3 68.9 - - - -
140A PHE* 1.3 61.2 + - - +
142A LEU* 3.9 2.1 - - - +
143A GLY* 2.9 27.2 + - - -
139B HIS 4.2 0.3 - - - +
140B PHE* 4.4 8.2 - + + -
143B GLY* 3.5 27.9 - - - -
144B SER* 3.6 29.3 - - - +
147B GLU* 3.9 12.1 - - + -
148B ASP* 4.7 0.4 + - - -
185B ALA* 5.8 2.0 - - + -
2H THR* 3.0 30.5 + - - +
4H ASN* 3.1 38.6 + - - +
5H ALA 5.3 0.4 - - - -
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Residues in contact with PHE 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 ALA 3.1 19.8 + - - +
137A VAL 3.8 2.2 - - - +
139A HIS* 1.3 73.8 - - - +
141A THR* 1.3 65.5 + - - +
143A GLY* 3.4 0.3 + - - -
144A SER* 2.9 50.1 + - - -
185A ALA 4.4 2.2 - - - -
186A PHE* 3.5 50.9 - + - -
189A GLY* 3.8 13.2 - - - -
190A LEU* 3.6 14.6 - - + -
193A LEU* 4.0 20.4 - - + -
135B SER* 4.7 0.9 - - - -
136B ALA* 4.0 35.4 - - + -
139B HIS* 4.2 6.5 - + + +
140B PHE* 4.0 23.4 - - + +
193B LEU* 5.7 1.1 - - + -
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Residues in contact with THR 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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83A ALA* 3.6 39.9 - - - +
86A PHE* 3.7 20.6 - - + -
87A ARG* 3.8 20.2 - - + +
90A LEU* 4.4 1.6 - - + -
137A VAL* 3.0 19.4 + - - +
138A GLY 3.6 4.0 - - - -
140A PHE* 1.3 78.2 - - - +
142A LEU* 1.3 62.4 + - - +
144A SER* 3.4 2.4 + - - -
145A VAL* 3.2 24.3 + - - +
186A PHE* 3.6 18.1 - - + -
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Residues in contact with LEU 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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86A PHE* 4.5 7.2 - - + -
90A LEU* 3.8 19.5 - - + +
97A ALA* 3.8 32.1 - - + +
100A HIS* 4.7 5.2 - - + +
101A LEU* 4.6 9.6 - - + +
138A GLY 3.0 15.1 + - - +
139A HIS* 3.9 4.0 - - - +
141A THR* 1.3 75.0 - - - +
143A GLY* 1.3 65.9 + - - +
145A VAL* 3.2 1.2 + - - -
146A LEU* 2.9 37.6 + - + +
143B GLY* 5.6 2.0 - - - +
147B GLU* 3.7 26.2 - - + +
2H THR* 3.6 26.2 - - + -
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Residues in contact with GLY 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 HIS 2.9 20.8 + - - -
142A LEU* 1.3 73.6 - - - +
144A SER* 1.3 61.4 + - - +
146A LEU* 3.5 6.3 + - - +
147A GLU* 3.2 28.4 + - - +
139B HIS* 3.7 13.7 - - - -
142B LEU* 5.0 1.0 - - - +
143B GLY* 3.7 21.4 - - - -
146B LEU* 5.1 2.0 - - - -
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Residues in contact with SER 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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87A ARG* 5.5 1.3 - - - -
140A PHE* 2.9 48.3 + - - -
141A THR 3.6 5.8 - - - -
143A GLY* 1.3 74.0 - - - +
145A VAL* 1.3 60.0 + - - +
147A GLU* 3.8 1.7 - - - +
148A ASP* 2.9 39.7 + - - +
186A PHE* 4.1 18.5 - - - +
139B HIS* 3.7 19.0 + - - +
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Residues in contact with VAL 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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87A ARG* 3.9 32.1 - - + +
90A LEU* 3.8 33.9 - - + -
91A LEU* 3.6 26.0 - - + -
97A ALA* 3.9 2.2 - - + -
141A THR 3.2 17.5 + - - +
142A LEU 3.2 2.7 + - - +
144A SER* 1.3 75.8 - - - +
146A LEU* 1.3 67.6 + - - +
148A ASP* 3.5 6.4 - - - +
149A GLN* 2.9 40.0 + - - +
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Residues in contact with LEU 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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97A ALA* 3.5 13.9 - - + +
98A LYS* 3.5 47.1 - - + +
101A LEU* 4.1 18.8 - - + -
142A LEU* 2.9 37.9 + - + +
143A GLY 3.8 3.6 - - - +
145A VAL* 1.3 76.5 - - - +
147A GLU* 1.3 57.7 + - - +
149A GLN* 3.2 4.2 + - + +
150A GLU* 2.8 31.2 + - - +
101B LEU* 3.9 21.4 - - + +
143B GLY* 5.5 0.2 - - - -
146B LEU* 3.7 25.1 - - + -
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Residues in contact with GLU 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 GLY 3.2 13.4 + - - +
146A LEU* 1.3 77.8 - - - +
148A ASP* 1.3 67.2 + - - +
150A GLU* 4.4 0.7 - - - +
151A HIS* 3.0 51.3 + - - +
100B HIS 4.3 1.4 - - - +
101B LEU* 3.4 14.6 - - + +
102B GLY* 2.7 29.8 + - - -
139B HIS* 3.8 12.3 - - + -
142B LEU* 3.4 27.5 - - + +
1E TRP* 5.4 0.2 - - - -
2E THR* 2.7 26.7 + - + +
4E ASN* 3.6 15.0 - - - +
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Residues in contact with ASP 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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87A ARG* 3.9 14.2 + - - -
91A LEU* 5.0 10.9 - - + +
144A SER* 2.9 27.5 + - - +
145A VAL* 3.5 9.7 - - - +
147A GLU* 1.3 75.4 - - - +
149A GLN* 1.3 59.1 + - + +
151A HIS 4.1 0.2 - - - -
152A GLN* 3.0 36.5 + - - +
182A ALA* 3.2 31.4 - - - +
139B HIS* 4.7 0.3 + - - -
4E ASN* 2.7 36.0 + - - +
6E TYR* 3.8 12.8 + - + -
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Residues in contact with GLN 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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90A LEU 3.1 23.8 + - - -
91A LEU* 3.8 16.9 + - + +
93A HIS 3.5 15.0 + - - -
94A ARG* 5.3 0.2 - - - +
95A ASP* 3.7 12.8 - - - +
96A GLY 3.3 7.9 + - - -
97A ALA* 2.9 31.0 + - - +
98A LYS* 4.4 0.9 + - - +
145A VAL* 2.9 26.1 + - + +
146A LEU* 3.7 3.0 - - - +
148A ASP* 1.3 76.4 - - + +
150A GLU* 1.3 65.3 + - - +
152A GLN* 3.2 10.0 - - - +
153A VAL* 3.2 25.2 + - + +
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Residues in contact with GLU 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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98A LYS* 2.8 38.1 + - - -
146A LEU* 2.8 16.8 + - - +
147A GLU 3.3 2.0 + - - +
149A GLN* 1.3 74.5 - - - +
151A HIS* 1.3 55.6 + - - +
153A VAL* 3.1 14.1 + - - +
154A ALA* 2.7 41.3 + - + +
49B ARG* 5.2 7.4 + - - +
101B LEU* 3.8 26.3 - - + +
102B GLY* 3.8 22.7 - - - +
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Residues in contact with HIS 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 GLU* 3.0 48.2 + - - +
148A ASP 4.3 0.2 - - - +
150A GLU* 1.3 77.5 - - - +
152A GLN* 1.3 62.8 + - - +
154A ALA* 4.4 2.9 - - - -
155A LYS* 2.9 29.7 + - + +
158A ARG* 3.5 23.3 - - - -
102B GLY* 3.7 13.0 - - - -
103B THR 3.3 29.6 + - - -
1E TRP* 4.6 0.9 - - - -
2E THR* 4.4 2.0 - - - -
4E ASN* 3.5 18.8 + - + +
6E TYR* 3.9 17.7 - - + +
7E ALA* 3.6 30.2 - - + +
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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
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148A ASP* 3.0 27.1 + - - +
149A GLN* 3.2 16.8 - - - +
150A GLU 3.1 0.4 - - - -
151A HIS* 1.3 78.8 - - - +
153A VAL* 1.3 59.8 + - + +
155A LYS* 3.4 46.0 - - - +
156A GLU* 3.8 6.4 - - - +
6E TYR* 3.3 48.5 - - - +
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Residues in contact with VAL 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A ARG* 5.7 9.9 - - + +
95A ASP* 4.6 14.8 - - - +
149A GLN 3.2 14.5 + - - +
150A GLU* 3.1 15.5 + - - +
152A GLN* 1.3 77.6 - - + +
154A ALA* 1.3 67.2 + - - +
155A LYS 3.2 0.2 - - - -
156A GLU* 3.2 22.5 + - - +
157A GLU* 3.9 9.7 + - + +
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Residues in contact with ALA 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A GLU* 2.7 27.7 + - + +
151A HIS* 4.4 1.6 - - - +
153A VAL* 1.3 76.1 - - - +
155A LYS* 1.3 61.5 + - - +
156A GLU 3.1 0.2 - - - -
157A GLU* 3.1 19.9 + - - +
158A ARG* 3.1 45.7 + - - +
49B ARG* 5.8 7.9 - - + +
102B GLY 4.1 7.0 - - - +
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Residues in contact with LYS 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A HIS* 2.9 17.5 + - + +
152A GLN* 3.4 42.4 - - - +
153A VAL 3.2 0.4 + - - -
154A ALA* 1.3 76.7 - - - +
156A GLU* 1.3 89.9 + - - +
158A ARG* 3.2 25.1 + - - +
104B ARG* 4.9 2.9 + - - +
6E TYR* 4.7 3.8 - - - +
9E ALA* 3.7 43.4 - - + +
10E ALA 4.6 2.0 - - - +
11E PRO* 3.2 29.8 - - + +
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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