Contacts of the helix formed by residues 137 - 162 (chain A) in PDB entry 3AXJ
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 137 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A TYR* 4.2 7.6 + - + +
86A TYR* 2.6 39.7 + - + +
93A THR* 6.3 0.2 - - + -
135A HIS* 3.8 12.9 + - - +
136A LEU* 1.3 79.4 - - - +
138A VAL* 1.3 65.0 + - - +
139A GLU* 2.7 42.0 + - - +
140A ASP* 3.1 31.4 + - + +
141A TYR 3.1 8.8 + - - -
44B LYS* 4.5 5.1 + - - -
112B GLN* 4.5 4.9 + - - -
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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
----------------------------------------------------------
117A ARG* 3.9 16.3 - - + +
136A LEU 3.5 4.2 + - - -
137A ASP* 1.3 74.8 + - - +
139A GLU* 1.3 61.9 + - + +
141A TYR* 3.3 8.2 + - + +
142A LEU* 2.9 35.0 + - + +
37B TYR* 3.9 34.8 - - + +
40B GLU* 3.6 32.5 - - + +
41B LEU* 3.9 22.9 - - + -
44B LYS* 5.5 2.9 - - + +
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Residues in contact with GLU 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ASP* 2.7 19.7 + - - +
138A VAL* 1.3 69.5 - - + +
140A ASP* 1.3 58.8 + - - +
142A LEU* 3.3 7.2 + - - +
143A LEU* 2.9 41.7 + - + +
190A ASP* 4.5 9.2 - - - +
192A LEU* 4.1 19.5 - - + +
41B LEU* 3.8 22.7 - - + +
44B LYS* 2.6 36.9 + - - +
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Residues in contact with ASP 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A TYR* 5.1 3.3 + - - -
92A TRP* 5.0 3.6 - - - -
93A THR* 3.4 35.8 - - - +
96A THR* 4.1 10.9 + - + +
97A GLN* 3.0 38.5 + - + +
100A ILE* 3.4 12.2 - - + +
136A LEU* 4.3 10.1 - - + -
137A ASP* 3.1 25.7 + - + +
139A GLU* 1.3 75.7 - - - +
141A TYR* 1.3 59.9 + - - +
143A LEU* 4.7 1.0 - - - +
144A GLY 3.0 22.9 + - - -
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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
----------------------------------------------------------
100A ILE* 3.6 23.1 - - + +
114A LEU* 3.8 16.6 - - - +
115A VAL* 2.6 27.8 + - + -
116A THR* 3.7 2.9 - - - -
117A ARG* 3.4 49.1 - - + -
120A VAL* 4.2 11.4 - - + -
136A LEU* 4.4 3.1 - - + -
137A ASP 3.1 9.1 + - - +
138A VAL* 3.5 7.9 - - + +
139A GLU 3.2 0.2 - - - -
140A ASP* 1.3 77.0 - - - +
142A LEU* 1.3 74.5 + - + +
144A GLY* 3.2 2.1 + - - -
145A ILE* 3.1 51.2 + - + +
33B GLN* 5.6 0.3 + - - -
37B TYR* 3.6 32.6 + + - -
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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
----------------------------------------------------------
138A VAL* 2.9 31.5 + - + +
139A GLU 3.3 3.8 + - - +
141A TYR* 1.3 94.1 - - + +
143A LEU* 1.3 61.4 + - - +
145A ILE* 3.4 6.7 - - + +
146A LEU* 3.2 26.7 + - - +
182A PHE* 3.6 13.1 - - + -
185A LEU* 3.9 10.3 - - + -
192A LEU* 3.9 22.7 - - + -
34B PHE* 3.9 28.0 - - + -
37B TYR* 4.2 10.5 - - + -
41B LEU* 3.8 32.1 - - + -
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Residues in contact with LEU 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A GLN* 3.2 39.0 - - - +
139A GLU* 2.9 28.6 + - + +
140A ASP* 4.0 1.3 - - - +
142A LEU* 1.3 75.4 - - - +
144A GLY* 1.3 62.1 + - - +
146A LEU* 3.6 13.3 + - + +
147A GLN* 3.6 16.8 + - - +
191A GLY 4.7 0.9 - - - +
192A LEU* 3.6 28.5 - - + +
195A ARG* 3.7 56.7 + - + +
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Residues in contact with GLY 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A GLN* 3.4 27.3 - - - +
100A ILE* 3.9 9.6 - - - -
101A PHE* 3.6 11.3 - - - +
140A ASP 3.0 15.5 + - - -
141A TYR 3.2 3.5 + - - -
143A LEU* 1.3 77.0 - - - +
145A ILE* 1.3 60.7 + - - +
147A GLN* 3.1 23.3 + - - +
148A LEU 3.9 0.7 + - - -
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Residues in contact with ILE 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A ILE* 4.1 9.0 - - + -
104A ALA* 4.2 11.4 - - + -
114A LEU* 4.0 19.3 - - + -
141A TYR* 3.1 53.8 + - + +
142A LEU* 3.4 15.7 - - + +
144A GLY* 1.3 73.0 - - - +
146A LEU* 1.3 59.7 + - - +
148A LEU* 3.0 33.7 - - + +
178A LEU* 3.7 32.4 - - + +
182A PHE* 3.7 15.9 - - + -
34B PHE* 3.8 14.1 - - + -
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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
----------------------------------------------------------
142A LEU 3.2 16.9 + - - +
143A LEU* 3.7 11.7 - - + +
144A GLY 3.2 0.2 - - - -
145A ILE* 1.3 78.7 - - - +
147A GLN* 1.3 59.4 + - - +
148A LEU 3.3 0.7 + - - -
149A ALA* 3.4 17.0 + - - +
150A SER* 4.3 3.6 + - - -
178A LEU* 5.0 3.1 - - + -
182A PHE* 3.5 36.8 - - + -
192A LEU* 4.3 12.3 - - + -
195A ARG* 4.1 17.3 - - + +
196A PHE* 3.9 33.7 - - - +
199A LEU* 4.3 27.2 - - + +
202A ASP* 5.4 0.5 - - - +
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Residues in contact with GLN 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A PHE* 5.3 6.7 + - - -
97A GLN* 3.8 34.3 + - - +
98A ARG* 2.7 45.0 + - - +
101A PHE* 3.6 27.3 - - + +
143A LEU 3.7 12.4 + - - +
144A GLY 3.1 10.6 + - - +
146A LEU* 1.3 73.8 - - + +
148A LEU* 1.3 64.8 + - - +
149A ALA 3.3 0.9 + - - -
150A SER* 3.3 19.7 + - - -
151A GLU* 3.5 6.8 + - - +
195A ARG* 5.5 3.0 - - - +
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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
----------------------------------------------------------
101A PHE* 3.7 12.9 - - + -
104A ALA* 3.9 24.9 - - + +
105A LEU* 3.8 43.7 - - + +
108A TYR* 5.2 0.9 - - + -
114A LEU* 4.2 10.5 - - + -
145A ILE* 3.0 21.0 + - + +
147A GLN* 1.3 77.9 - - - +
149A ALA* 1.3 56.9 + - - +
151A GLU* 3.2 2.4 + - - +
152A LEU* 2.8 46.7 + - + +
174A PHE* 3.6 31.2 - - + -
175A ILE* 4.7 3.8 - - + -
178A LEU* 4.8 4.0 - - + -
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Residues in contact with ALA 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ILE 4.2 0.6 + - - -
146A LEU 3.4 8.0 + - - +
147A GLN 3.3 1.2 - - - -
148A LEU* 1.3 78.5 - - - +
150A SER* 1.3 58.3 + - - +
152A LEU* 3.8 0.3 - - - +
153A SER* 2.9 30.3 + - - -
175A ILE* 4.0 21.7 - - + +
178A LEU* 5.4 0.4 - - + -
199A LEU* 3.3 34.5 - - + -
202A ASP* 3.7 20.4 - - + +
206A ILE* 4.3 2.1 - - + +
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Residues in contact with SER 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A LEU 4.3 2.6 + - - -
147A GLN* 3.3 16.5 + - - -
149A ALA* 1.3 76.1 - - - +
151A GLU* 1.3 61.5 + - - +
153A SER* 3.0 19.2 + - - -
154A ARG* 3.2 11.4 + - - +
202A ASP* 3.6 18.7 + - - -
205A LYS* 5.1 0.9 + - - -
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Residues in contact with GLU 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU 5.1 1.6 - - - +
46A GLN* 3.8 16.2 + - - -
48A ILE* 4.4 6.0 - - + +
49A HIS* 2.5 34.2 + - + +
101A PHE* 3.6 40.7 - - + -
105A LEU* 4.0 23.2 - - + +
147A GLN 3.5 2.4 + - - +
148A LEU 3.2 4.1 + - - +
150A SER* 1.3 78.0 - - - +
152A LEU* 1.3 59.8 + - - +
154A ARG* 3.2 13.3 + - - +
155A PHE* 3.0 25.1 + - - +
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Residues in contact with LEU 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LEU* 3.8 18.4 - - + -
108A TYR* 3.7 33.7 - - + -
148A LEU* 2.8 29.9 + - + +
149A ALA 4.2 2.0 - - - +
151A GLU* 1.3 79.7 - - - +
153A SER* 1.3 55.5 + - - +
155A PHE* 3.6 18.1 - - + +
156A ALA* 2.8 30.0 + - - +
171A ILE* 3.6 21.3 - - + +
174A PHE* 3.6 38.1 - - + -
175A ILE* 3.8 13.7 - - + -
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Residues in contact with SER 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A ALA 2.9 16.9 + - - -
150A SER* 3.0 13.9 + - - -
152A LEU* 1.3 73.0 - - - +
154A ARG* 1.3 66.4 + - - +
156A ALA* 3.8 2.5 - - - +
157A THR* 3.3 23.2 + - - -
202A ASP* 3.6 21.0 + - - -
205A LYS* 3.7 28.5 + - - +
206A ILE* 3.7 26.8 - - - +
209A VAL* 5.4 0.5 - - - +
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Residues in contact with ARG 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLN* 2.9 33.3 + - - +
49A HIS* 3.3 39.2 + - + +
150A SER 3.2 9.3 + - - +
151A GLU* 3.2 17.1 + - - +
153A SER* 1.3 81.0 + - - +
155A PHE* 1.3 54.6 + - - +
157A THR* 3.3 7.3 + - - -
158A ASN* 3.1 40.7 + - - +
205A LYS* 4.1 12.5 - - - +
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Residues in contact with PHE 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ILE* 3.3 48.0 - - + -
49A HIS* 3.7 13.2 - - + -
52A LEU* 3.8 8.1 - - + -
55A ILE* 4.0 20.9 - - + -
108A TYR* 4.6 0.9 - + - -
109A LEU* 3.8 18.4 - - + -
151A GLU 3.0 15.6 + - - +
152A LEU* 3.6 18.8 - - + +
153A SER 3.3 0.2 - - - -
154A ARG* 1.3 73.3 - - - +
156A ALA* 1.3 58.5 + - - +
158A ASN* 4.5 0.7 - - + +
159A SER* 2.8 46.6 + - - -
167A ARG* 3.4 36.8 - - - -
171A ILE* 3.8 16.4 - - + -
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Residues in contact with ALA 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A LEU 2.8 21.3 + - - +
153A SER* 3.8 8.7 - - - +
155A PHE* 1.3 73.7 - - - +
157A THR* 1.3 63.4 + - - +
159A SER* 3.5 5.2 + - - -
160A VAL* 3.3 24.4 + - - +
168A PRO* 4.0 20.2 - - + +
171A ILE* 3.7 18.8 - - + +
206A ILE* 4.6 12.3 - - + -
209A VAL* 4.4 11.7 - - + -
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Residues in contact with THR 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A SER 3.3 10.5 + - - -
154A ARG* 3.3 10.9 + - - -
155A PHE 3.3 0.6 - - - -
156A ALA* 1.3 76.8 - - - +
158A ASN* 1.3 70.2 + - - +
160A VAL* 3.2 7.6 + - - +
161A THR* 3.1 27.9 + - - +
205A LYS* 3.9 14.9 - - - +
209A VAL* 3.7 22.3 - - + +
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Residues in contact with ASN 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ILE 5.1 0.2 - - - +
49A HIS* 3.0 54.6 + - - +
154A ARG* 3.1 24.7 + - - +
155A PHE* 3.3 3.8 + - - +
157A THR* 1.3 80.0 - - - +
159A SER* 1.3 66.3 + - - +
161A THR* 3.3 13.5 + - - +
162A MSE 3.0 33.4 + - + +
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Residues in contact with SER 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 4.3 3.5 - - - +
155A PHE* 2.8 42.3 + - - -
156A ALA 3.6 5.2 - - - -
157A THR 3.3 0.2 - - - -
158A ASN* 1.3 76.9 - - - +
160A VAL* 1.3 60.3 + - - +
162A MSE 3.2 12.4 + - - +
163A GLY 3.1 4.9 + - - -
164A ASP* 2.8 33.8 + - - +
167A ARG* 3.5 32.8 - - - +
168A PRO* 5.0 0.2 - - - -
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Residues in contact with VAL 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ALA 3.3 6.2 + - - +
157A THR* 3.2 8.3 + - - +
159A SER* 1.3 74.1 - - - +
161A THR* 1.3 67.9 + - - +
163A GLY* 2.8 15.9 + - - +
164A ASP 4.1 7.2 - - - +
165A TYR* 3.9 24.5 + - + -
168A PRO* 3.5 32.3 - - + -
209A VAL* 3.7 13.0 - - + -
213A VAL* 3.9 14.6 - - + -
218A LEU* 5.4 2.9 - - + -
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Residues in contact with THR 161 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A THR* 3.1 18.8 + - - +
158A ASN* 3.4 17.0 + - - +
160A VAL* 1.3 80.0 - - - +
162A MSE 1.3 63.2 + - + +
163A GLY 3.5 0.9 + - - -
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Residues in contact with MSE 162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ILE 3.4 25.6 - - - +
49A HIS 3.7 11.4 - - - +
50A SER* 3.3 35.7 - - - +
51A ASP* 3.6 3.1 - - - -
52A LEU* 3.4 37.9 - - + +
158A ASN* 3.0 35.3 + - + +
159A SER* 3.5 6.5 - - - +
160A VAL 3.0 0.4 - - - -
161A THR* 1.3 82.1 - - + +
163A GLY* 1.3 59.1 + - - +
164A ASP 3.5 0.8 + - - -
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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
------------------------------------------------------------
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