Contacts of the helix formed by residues 131 - 157 (chain A) in PDB entry 1U2Q
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 131 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A ARG* 4.7 5.8 - - - +
130A GLY* 1.3 75.4 - - - +
132A HIS* 1.3 96.2 + - + +
133A SER* 3.3 17.0 + - - -
134A ASP* 2.6 49.8 + - - +
135A PHE* 3.3 12.8 - - - -
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Residues in contact with HIS 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A ARG* 4.8 11.7 - - + +
61A VAL* 4.0 6.0 - - + +
131A ASP* 1.3 98.6 + - + +
133A SER* 1.3 78.2 + - - -
135A PHE* 2.9 20.4 + - - +
136A GLU* 2.9 19.4 + - + +
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Residues in contact with SER 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A ASP* 3.3 19.4 + - - -
132A HIS* 1.3 90.3 - - - +
134A ASP* 1.3 63.2 + - - +
136A GLU* 3.1 11.9 + - - +
137A GLU* 2.8 29.6 + - - +
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Residues in contact with ASP 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A PRO* 4.0 19.0 - - + +
130A GLY* 3.2 12.2 - - - -
131A ASP* 2.6 44.3 + - - +
133A SER* 1.3 83.9 + - - +
135A PHE* 1.3 58.4 + - - +
137A GLU* 3.2 17.4 + - - +
138A VAL* 2.9 30.8 + - - +
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Residues in contact with PHE 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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16A CYS* 4.0 17.9 - - + -
20A MET* 3.8 12.1 - - + +
55A ASP* 4.1 2.2 - - - -
57A ARG* 3.6 45.3 - - + +
58A ALA* 3.4 40.4 - - + -
61A VAL* 3.6 17.5 - - + -
127A PRO* 3.2 44.9 - - + -
131A ASP 3.3 14.8 - - - -
132A HIS 2.9 7.9 + - - +
134A ASP* 1.3 74.7 - - - +
136A GLU* 1.3 60.5 + - - +
138A VAL* 3.1 7.6 + - - +
139A PHE* 2.8 29.8 + - - +
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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
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61A VAL* 3.5 28.8 - - + +
64A ALA* 4.4 8.3 - - - +
65A HIS* 3.1 28.7 + - - -
132A HIS* 2.9 20.8 + - + +
133A SER* 3.2 16.2 - - - +
135A PHE* 1.3 75.6 - - - +
137A GLU* 1.3 63.3 + - - +
139A PHE* 3.2 5.7 + - - +
140A ALA* 3.0 21.4 + - - +
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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
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133A SER 2.8 12.6 + - - +
134A ASP* 3.3 22.8 - - - +
135A PHE 3.1 0.2 - - - -
136A GLU* 1.3 77.7 - - - +
138A VAL* 1.3 63.6 + - + +
140A ALA* 2.9 12.1 + - + +
141A VAL* 2.9 34.8 + - + +
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Residues in contact with VAL 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ARG* 4.1 11.7 - - + -
20A MET* 4.4 11.0 - - - -
124A VAL* 4.1 14.4 - - + -
125A GLU* 3.8 10.5 - - + +
127A PRO* 3.5 33.0 - - + -
134A ASP 2.9 19.5 + - - +
135A PHE* 3.1 8.9 + - - +
137A GLU* 1.3 75.8 - - + +
139A PHE* 1.3 57.3 + - - +
141A VAL* 3.6 7.8 - - - +
142A ILE* 2.8 50.9 + - + +
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Residues in contact with PHE 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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20A MET* 4.1 9.9 - - + -
24A MET* 3.5 34.7 - - + +
61A VAL* 3.8 24.5 - - + -
62A LEU* 5.0 3.6 - - + -
65A HIS* 3.5 42.0 - + + -
67A TYR* 3.6 31.9 - + - -
135A PHE 2.8 14.2 + - - +
136A GLU* 3.2 10.8 - - - +
138A VAL* 1.3 75.6 - - - +
140A ALA* 1.3 59.1 + - - +
142A ILE* 3.3 2.0 + - - -
143A GLU* 2.8 64.4 + - + +
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Residues in contact with ALA 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 GLU 3.0 11.5 + - - +
137A GLU* 2.9 14.7 + - + +
139A PHE* 1.3 83.1 - - + +
141A VAL* 1.3 63.6 + - + +
143A GLU* 3.4 9.2 + - - +
144A SER* 2.9 24.5 + - - -
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Residues in contact with VAL 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A ARG* 3.5 50.9 + - + +
114A ASP* 4.7 0.9 - - - +
124A VAL* 4.3 19.1 - - + -
125A GLU 6.3 0.4 - - - +
137A GLU* 2.9 30.6 + - + +
138A VAL* 3.6 9.6 - - - +
140A ALA* 1.3 76.8 - - + +
142A ILE* 1.3 62.8 + - - +
144A SER* 3.2 9.8 + - - -
145A ALA* 3.1 19.1 + - + +
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Residues in contact with ILE 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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17A ARG* 3.9 22.4 - - - +
20A MET* 4.1 14.4 - - + -
21A ALA* 4.1 15.5 - - + +
24A MET* 3.6 20.6 - - + -
89A LEU* 4.8 2.9 - - + -
110A LEU* 3.9 25.6 - - + -
124A VAL* 4.6 6.3 - - + -
138A VAL* 2.8 41.7 + - + +
139A PHE* 3.7 3.1 - - - +
141A VAL* 1.3 72.9 - - - +
143A GLU* 1.3 58.9 + - - +
145A ALA* 2.7 21.7 + - - +
146A LEU* 3.0 27.7 + - + +
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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
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24A MET* 3.6 14.3 - - + +
28A GLN* 5.4 9.7 + - - +
67A TYR* 5.1 4.0 + - - -
139A PHE* 2.8 46.3 + - + +
140A ALA* 3.7 8.1 - - - +
142A ILE* 1.3 74.1 - - - +
144A SER* 1.3 60.9 + - - +
146A LEU* 3.8 6.8 + - - +
147A PRO* 3.2 19.1 - - - +
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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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111A ARG* 6.3 0.7 - - - -
114A ASP* 2.8 36.5 + - - +
115A PRO* 3.5 14.0 - - - +
116A ARG* 3.5 18.3 + - - -
140A ALA 2.9 13.6 + - - -
141A VAL* 3.2 15.0 - - - -
142A ILE 3.0 0.2 - - - -
143A GLU* 1.3 79.3 - - - +
145A ALA* 1.3 57.2 + - - +
147A PRO* 3.5 4.8 - - - +
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Residues in contact with ALA 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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110A LEU* 3.6 41.1 - - + +
111A ARG* 4.1 11.7 - - + -
113A PHE* 3.1 28.8 - - - +
114A ASP* 3.9 9.0 - - + +
141A VAL 3.1 9.4 + - - +
142A ILE 2.7 9.4 + - - +
144A SER* 1.3 77.8 - - - +
146A LEU* 1.3 63.9 + - - +
147A PRO* 3.2 4.5 - - - -
148A GLY 3.3 1.2 + - - -
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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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9A PHE* 4.1 21.1 - - + -
21A ALA 4.7 1.1 - - - +
24A MET* 3.9 31.4 - - + -
25A PHE* 3.8 24.0 - - + +
28A GLN* 3.4 32.3 - - - +
110A LEU* 4.1 13.2 - - + -
142A ILE* 3.0 30.6 + - + +
143A GLU* 4.2 3.8 - - - +
145A ALA* 1.3 73.4 - - - +
147A PRO* 1.3 72.4 - - + +
149A LEU* 2.7 21.5 + - + +
150A HIS* 3.1 12.8 + - - -
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Residues in contact with PRO 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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28A GLN* 6.0 0.7 - - - +
115A PRO* 3.9 16.8 - - + -
143A GLU 3.2 18.4 - - - +
144A SER* 3.5 15.9 - - - +
145A ALA 3.2 2.0 - - - +
146A LEU* 1.3 88.8 - - + +
148A GLY* 1.3 58.0 + - - +
150A HIS* 2.9 33.2 + - + +
151A ASP* 3.2 13.1 + - - +
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Residues in contact with GLY 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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113A PHE* 3.0 41.0 + - - -
115A PRO* 5.0 1.9 - - - +
145A ALA 3.3 0.2 + - - -
146A LEU 3.0 1.2 + - - -
147A PRO* 1.3 78.9 - - - +
149A LEU* 1.3 60.9 + - - +
151A ASP* 3.1 25.2 + - - +
152A TRP* 3.2 9.7 + - - +
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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
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7A VAL* 4.4 4.3 - - + -
9A PHE* 3.5 38.1 - - + -
25A PHE* 3.5 27.4 - - + -
85A LEU* 3.5 32.3 - - + -
87A VAL* 4.2 9.0 - - + -
110A LEU* 4.9 4.7 - - + -
113A PHE* 3.5 30.3 - - + +
146A LEU* 2.7 24.2 + - + +
148A GLY* 1.3 72.8 - - - +
150A HIS* 1.3 55.7 + - - +
152A TRP* 3.3 7.6 + - + +
153A VAL* 3.1 31.4 + - + +
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Residues in contact with HIS 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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25A PHE* 3.6 10.9 - + - -
28A GLN* 2.8 51.0 - - + +
29A LEU* 3.6 24.0 - - + +
32A ARG* 2.9 42.8 - - - +
146A LEU 3.1 20.4 + - - -
147A PRO* 2.9 16.3 + - + +
149A LEU* 1.3 76.5 - - - +
151A ASP* 1.3 62.9 + - - +
153A VAL* 3.3 4.1 + - + +
154A ASP* 2.5 33.2 + - - +
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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 PRO* 3.2 9.0 + - - +
148A GLY* 3.1 21.7 + - - +
150A HIS* 1.3 79.3 - - - +
152A TRP* 1.3 61.9 + - - +
154A ASP* 3.4 7.8 + - - +
155A GLU* 3.1 26.4 + - - +
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Residues in contact with TRP 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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5A LEU* 3.7 24.2 - - + -
7A VAL* 3.7 17.5 - - + -
84A ASP* 4.2 16.2 - - + -
85A LEU* 3.5 47.0 - - + +
108A ARG* 4.6 9.5 - - - +
113A PHE* 4.1 17.0 - + + -
148A GLY 3.2 8.7 + - - +
149A LEU* 3.4 9.4 - - + +
150A HIS 3.2 0.2 - - - -
151A ASP* 1.3 80.1 - - - +
153A VAL* 1.3 74.6 + - + +
155A GLU* 3.4 12.7 + - - +
156A ARG* 3.1 69.9 + - + +
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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
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5A LEU* 4.2 4.7 - - + -
7A VAL* 4.8 3.6 - - + -
25A PHE* 3.7 25.6 - - + -
29A LEU* 5.0 3.6 - - + -
32A ARG* 5.3 0.9 - - - +
34A LEU* 4.6 6.7 - - + -
38A VAL* 3.6 21.3 - - + -
149A LEU* 3.1 15.3 + - + +
150A HIS* 3.3 8.0 + - - +
152A TRP* 1.3 93.9 - - + +
154A ASP* 1.3 69.7 + - - +
156A ARG* 3.0 3.8 + - - +
157A LEU* 2.9 46.2 + - + +
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Residues in contact with ASP 154 (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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32A ARG* 2.7 39.7 + - - -
34A LEU* 4.4 3.1 - - - +
150A HIS 2.5 25.9 + - - +
151A ASP* 3.6 9.0 - - - +
153A VAL* 1.3 78.0 - - - +
155A GLU* 1.3 63.6 + - - +
157A LEU* 3.4 9.1 + - - +
158A ALA* 3.2 21.1 + - - +
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Residues in contact with GLU 155 (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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151A ASP 3.1 11.3 + - - +
152A TRP* 3.5 16.0 - - + +
153A VAL 3.2 0.2 - - - -
154A ASP* 1.3 79.3 - - - +
156A ARG* 1.3 65.5 + - + +
158A ALA* 3.1 23.7 + - - +
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Residues in contact with ARG 156 (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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5A LEU* 3.6 22.2 - - + +
84A ASP* 4.2 28.9 + - - +
152A TRP* 3.1 60.2 - - + +
153A VAL 3.0 5.3 + - - +
155A GLU* 1.3 74.9 - - - +
157A LEU* 1.3 55.5 + - - +
158A ALA 2.8 20.3 + - - -
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Residues in contact with LEU 157 (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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5A LEU* 4.4 14.4 - - + +
34A LEU* 3.9 31.9 - - + -
37A ALA* 3.9 31.9 - - + +
38A VAL* 4.4 2.0 - - + -
153A VAL* 2.9 41.0 + - + +
154A ASP* 3.8 7.6 - - - +
156A ARG* 1.3 73.8 - - - +
158A ALA* 1.3 56.4 + - - +
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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