Contacts of the helix formed by residues 117 - 154 (chain A) in PDB entry 1ENV
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 TRP 117 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ILE* 4.9 2.7 - - + -
66A GLN* 2.3 58.4 + - + +
118A MET* 1.3 72.9 + - - +
119A GLU* 3.0 4.8 + - - +
120A TRP* 3.0 68.0 + + + +
121A ASP* 3.3 26.6 + - - +
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Residues in contact with MET 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A TRP* 1.3 79.9 - - - +
119A GLU* 1.4 66.3 + - + +
121A ASP* 3.0 15.2 + - - +
122A ARG* 3.0 53.9 + - - +
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Residues in contact with GLU 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A TRP 3.0 3.8 + - - -
118A MET* 1.4 79.6 - - + +
120A TRP* 1.3 60.2 + - - +
122A ARG* 2.8 46.6 + - - +
123A GLU* 2.9 41.8 + - - +
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Residues in contact with TRP 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A VAL* 4.5 7.4 - - + -
62A ILE* 3.8 30.7 - - + -
63A LYS* 3.8 17.3 - - + -
66A GLN* 3.7 15.7 - - - -
117A TRP* 3.0 53.5 + + + +
119A GLU* 1.3 78.5 - - - +
121A ASP* 1.3 82.3 - - - +
123A GLU* 4.1 6.5 - - - +
124A ILE* 3.0 60.7 + - + +
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Residues in contact with ASP 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LYS* 3.4 25.9 + - - +
117A TRP* 3.3 32.0 + - - +
118A MET* 3.0 15.7 + - - +
120A TRP* 1.3 98.3 - - - +
122A ARG* 1.3 57.8 + - + +
124A ILE* 3.9 3.6 - - - +
125A ASN* 3.1 37.0 + - - +
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Residues in contact with ARG 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A MET* 3.0 50.1 + - - +
119A GLU* 2.8 33.8 + - - +
121A ASP* 1.3 73.9 - - + +
123A GLU* 1.3 66.9 + - + +
125A ASN* 2.9 9.8 + - - +
126A ASN* 2.9 34.0 + - - +
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Residues in contact with GLU 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A GLU* 2.9 44.0 + - - +
120A TRP* 4.2 5.3 - - - +
122A ARG* 1.3 73.6 - - + +
124A ILE* 1.3 63.3 + - + +
126A ASN* 3.8 9.6 - - - +
127A TYR* 3.0 51.1 + - + -
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Residues in contact with ILE 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A GLN* 5.9 0.4 - - - +
59A VAL* 3.7 36.1 - - + -
63A LYS* 4.5 6.7 - - - +
120A TRP* 3.0 63.6 + - + +
121A ASP* 3.9 3.6 - - - +
123A GLU* 1.3 78.5 - - + +
125A ASN* 1.3 62.2 + - - +
127A TYR* 4.1 3.3 - - - +
128A THR* 2.8 44.2 + - - +
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Residues in contact with ASN 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LYS* 5.3 4.0 + - - -
121A ASP* 3.1 20.6 + - - +
122A ARG* 2.9 10.5 + - - +
124A ILE* 1.3 80.4 - - - +
126A ASN* 1.3 61.8 + - - +
128A THR* 3.3 7.1 + - - +
129A SER* 3.0 31.5 + - - -
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Residues in contact with ASN 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A ARG* 2.9 25.3 + - - +
123A GLU* 3.8 9.1 - - - +
125A ASN* 1.3 75.2 - - - +
127A TYR* 1.3 65.3 + - + +
129A SER* 2.8 25.5 + - - -
130A LEU* 3.1 13.1 + - - +
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Residues in contact with TYR 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A GLU* 3.0 45.4 + - + +
124A ILE* 4.4 2.9 - - - +
126A ASN* 1.3 81.9 - - + +
128A THR* 1.3 61.8 + - - +
130A LEU* 3.5 24.4 + - + +
131A ILE* 3.1 38.7 + - + +
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Residues in contact with THR 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A GLN* 4.4 7.8 + - - +
56A GLN* 3.3 34.7 + - - +
59A VAL* 6.0 0.7 - - - +
124A ILE* 2.8 29.5 + - - +
125A ASN* 3.5 7.9 - - - +
126A ASN 3.0 0.2 - - - -
127A TYR* 1.3 78.0 - - - +
129A SER* 1.3 62.3 + - - +
131A ILE* 3.6 3.9 + - - +
132A HIS* 3.2 41.8 + - + +
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Residues in contact with SER 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A ASN 3.0 15.1 + - - -
126A ASN* 2.8 13.0 + - - -
128A THR* 1.3 77.4 - - - +
130A LEU* 1.3 62.1 + - - -
132A HIS* 3.0 18.6 + - - +
133A SER* 3.1 15.6 + - - -
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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
----------------------------------------------------------
126A ASN 3.1 10.6 + - - +
127A TYR* 3.7 31.2 - - + +
129A SER* 1.3 75.4 - - - +
131A ILE* 1.3 58.1 + - + +
133A SER* 2.7 30.9 + - - +
134A LEU* 2.9 37.5 + - + +
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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
----------------------------------------------------------
48A ILE* 5.6 4.5 - - + -
52A GLN* 3.5 41.5 - - + +
55A LEU* 5.3 6.1 - - + -
127A TYR* 3.1 25.2 + - + +
128A THR* 3.9 4.5 - - - +
130A LEU* 1.3 80.0 - - + +
132A HIS* 1.3 57.8 + - - +
134A LEU* 4.0 10.7 - - + +
135A ILE* 2.9 51.4 + - + +
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Residues in contact with HIS 132 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A GLN* 4.1 23.7 + - + +
56A GLN* 4.1 9.7 + - + +
128A THR* 3.2 36.1 + - + +
129A SER* 3.0 11.5 + - - +
130A LEU 3.0 0.8 - - - -
131A ILE* 1.3 78.5 - - - +
133A SER* 1.3 64.3 + - - +
135A ILE* 3.6 10.2 + - + +
136A GLU* 3.0 24.9 + - - +
----------------------------------------------------------
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Residues in contact with SER 133 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A SER 3.1 10.8 + - - -
130A LEU* 2.7 13.9 + - - -
132A HIS* 1.3 74.0 - - - +
134A LEU* 1.3 61.4 + - - -
136A GLU* 2.7 34.0 + - - +
137A GLU* 2.9 28.6 + - - +
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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
----------------------------------------------------------
130A LEU* 2.9 46.2 + - + +
131A ILE* 4.2 9.0 - - + +
133A SER* 1.3 78.5 - - - +
135A ILE* 1.3 53.8 + - + +
137A GLU* 3.6 22.9 + - - +
138A SER* 2.7 39.1 + - - +
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Residues in contact with ILE 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU* 4.6 6.1 - - + -
48A ILE* 4.5 15.5 - - + -
49A GLU* 3.9 35.0 - - + -
52A GLN* 4.3 19.7 - - + -
131A ILE* 2.9 41.0 + - + +
132A HIS* 3.9 11.7 - - + +
133A SER 3.0 1.2 - - - -
134A LEU* 1.3 75.9 - - + +
136A GLU* 1.3 65.4 + - - +
138A SER* 3.3 5.7 + - - -
139A GLN* 2.9 44.1 + - + +
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Residues in contact with GLU 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A HIS 3.0 14.1 + - - +
133A SER* 2.7 19.1 + - - +
135A ILE* 1.3 71.8 - - - +
137A GLU* 1.3 64.8 + - + +
139A GLN* 3.0 27.7 + - - +
140A ASN* 3.0 26.6 + - - +
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Residues in contact with GLU 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A SER* 2.9 30.9 + - - +
134A LEU* 3.8 20.6 - - - +
136A GLU* 1.3 78.2 - - + +
138A SER* 1.3 55.5 + - - +
140A ASN* 3.1 12.0 + - - +
141A GLN* 2.8 34.6 + - + +
----------------------------------------------------------
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Residues in contact with SER 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU* 3.6 30.8 - - - +
134A LEU* 2.7 26.1 + - - +
135A ILE* 3.7 2.5 - - - -
136A GLU 3.3 0.2 - - - -
137A GLU* 1.3 76.4 - - - +
139A GLN* 1.3 57.1 + - - +
141A GLN* 4.0 7.3 - - - +
142A GLN* 3.1 27.2 + - - +
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Residues in contact with GLN 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU* 4.0 16.4 - - + -
49A GLU* 3.6 29.1 + - - +
135A ILE* 2.9 31.1 + - + +
136A GLU* 3.0 22.2 + - - +
138A SER* 1.3 74.6 - - - +
140A ASN* 1.3 71.5 + - - +
142A GLN* 3.2 5.1 + - - +
143A GLU* 3.1 27.1 + - - +
----------------------------------------------------------
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Residues in contact with ASN 140 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLU* 3.0 25.2 + - - +
137A GLU* 3.1 14.0 + - - +
139A GLN* 1.3 76.7 - - - +
141A GLN* 1.3 65.0 + - - +
143A GLU* 2.8 28.5 + - - +
144A LYS* 3.2 24.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 141 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLU* 2.8 20.9 + - + +
138A SER* 4.0 7.9 - - - +
140A ASN* 1.3 71.8 - - - +
142A GLN* 1.3 61.4 + - - +
144A LYS* 3.8 22.1 + - + +
145A ASN* 3.1 52.5 + - - +
----------------------------------------------------------
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Residues in contact with GLN 142 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A VAL* 3.0 26.9 + - - +
41A GLN* 3.8 22.2 - - - +
42A ASN* 3.2 30.4 + - - +
45A LEU* 4.5 7.0 - - + +
138A SER 3.1 18.8 + - - +
139A GLN* 3.5 7.9 - - - +
140A ASN 3.0 1.2 - - - -
141A GLN* 1.3 75.2 - - - +
143A GLU* 1.3 62.7 + - - +
145A ASN* 4.2 5.4 + - - -
146A GLU* 2.9 67.3 + - - +
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Residues in contact with GLU 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A GLN* 3.1 18.8 + - - +
140A ASN* 2.8 24.2 + - - +
142A GLN* 1.3 70.1 - - + +
144A LYS* 1.3 64.5 + - + +
146A GLU* 3.2 8.5 + - - +
147A GLN* 2.9 24.8 + - - +
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Residues in contact with LYS 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A ASN* 3.2 21.9 + - - +
141A GLN* 3.8 22.4 + - - +
143A GLU* 1.3 77.5 - - + +
145A ASN* 1.3 60.1 + - - +
147A GLN* 2.7 28.2 + - - +
148A GLU* 2.8 30.6 + - - +
----------------------------------------------------------
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Residues in contact with ASN 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A VAL* 4.5 21.7 - - + +
41A GLN* 4.3 15.6 + - - -
141A GLN* 3.1 41.8 + - - +
142A GLN* 4.2 9.6 + - - +
144A LYS* 1.3 75.6 - - - +
146A GLU* 1.3 56.8 + - - +
148A GLU* 4.1 10.1 - - - +
149A LEU* 3.1 29.3 + - - +
----------------------------------------------------------
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Residues in contact with GLU 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A VAL* 3.7 15.2 - - + +
39A GLN* 5.4 1.6 - - - -
42A ASN* 3.8 14.4 + - - +
142A GLN* 2.9 54.0 + - - +
143A GLU* 3.7 7.3 - - - +
144A LYS 3.0 1.2 - - - -
145A ASN* 1.3 76.1 - - - +
147A GLN* 1.3 58.4 + - - +
149A LEU* 3.5 6.8 + - - +
150A LEU* 3.0 28.5 + - - +
----------------------------------------------------------
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Residues in contact with GLN 147 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A GLU 2.9 12.5 + - - +
144A LYS* 2.7 18.6 + - - +
146A GLU* 1.3 69.9 - - - +
148A GLU* 1.3 55.5 + - + +
150A LEU* 3.0 22.9 + - - +
151A GLU* 2.8 60.2 + - + +
----------------------------------------------------------
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Residues in contact with GLU 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A LYS* 2.8 31.9 + - - +
145A ASN* 4.1 9.2 - - - +
147A GLN* 1.3 74.3 - - + +
149A LEU* 1.3 60.4 + - - +
151A GLU* 3.2 13.5 + - + +
152A LEU* 3.1 27.3 + - - +
----------------------------------------------------------
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Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ARG* 5.0 4.7 - - + +
34A LEU* 4.9 13.5 - - + -
35A SER* 3.6 42.6 - - - +
38A VAL* 4.1 23.1 - - + -
145A ASN 3.1 19.7 + - - +
146A GLU* 3.7 5.6 - - + +
147A GLN 3.2 0.2 - - - -
148A GLU* 1.3 77.4 - - - +
150A LEU* 1.3 61.4 + - - +
152A LEU* 3.5 26.7 - - + +
153A ASP* 4.0 5.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A GLU 3.0 15.1 + - - +
147A GLN* 3.2 29.8 - - - +
149A LEU* 1.3 75.3 - - - +
151A GLU* 1.3 63.5 + - - +
152A LEU 3.2 0.7 + - - -
153A ASP* 2.8 41.9 + - - +
----------------------------------------------------------
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Residues in contact with GLU 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A GLN* 2.8 54.2 + - + +
148A GLU* 3.2 13.4 + - + +
150A LEU* 1.3 75.4 - - - +
152A LEU* 1.3 63.6 - - + +
153A ASP 3.3 0.9 + - - -
154A LYS* 3.3 20.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ARG* 6.5 0.7 - - + -
34A LEU* 4.9 13.7 - - + -
148A GLU 3.1 15.5 + - - +
149A LEU* 3.5 26.2 - - + +
150A LEU 3.1 0.2 - - - -
151A GLU* 1.3 79.5 - - + +
153A ASP* 1.3 62.4 + - - +
154A LYS 3.2 9.9 - - - +
----------------------------------------------------------
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Residues in contact with ASP 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A LEU 4.0 3.9 + - - +
150A LEU* 2.8 36.4 + - - +
151A GLU 3.2 1.8 - - - -
152A LEU* 1.3 73.9 - - - +
154A LYS* 1.4 72.3 + - - +
----------------------------------------------------------
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Residues in contact with LYS 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A GLU 3.3 12.6 + - - +
152A LEU 3.2 13.6 - - - +
153A ASP* 1.4 90.1 + - - +
----------------------------------------------------------
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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