Contacts of the helix formed by residues 141 - 165 (chain I) in PDB entry 1L8I
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 141 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ARG* 4.4 10.7 - - - +
21I VAL* 5.5 5.5 - - + +
25I GLU* 4.2 13.1 + - + -
29I THR* 3.8 15.8 + - - +
83I ARG* 2.6 34.7 + - - -
87I LEU* 4.1 9.8 - - + +
139I ALA* 3.4 1.7 - - - +
140I LYS* 1.3 77.0 - - - +
142I ASP* 1.3 69.2 + - - +
143I ASP* 3.4 4.2 + - - +
144I THR* 2.7 26.7 + - - +
145I ALA* 2.9 22.3 + - - +
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Residues in contact with ASP 142 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ARG* 4.2 9.5 - - + +
136A ILE* 4.0 41.1 - - + +
137A GLY* 4.4 9.5 + - - -
149A THR* 4.3 5.4 - - + +
140I LYS 3.3 8.0 + - - +
141I ASP* 1.3 73.4 + - - +
143I ASP* 1.3 64.4 + - - +
145I ALA* 3.1 17.7 + - - +
146I ASP* 3.1 13.3 + - - +
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Residues in contact with ASP 143 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ARG* 4.2 2.9 - - - -
136A ILE* 3.5 17.4 - - - +
149A THR* 3.5 19.0 - - - +
152A SER* 2.9 27.9 + - - -
153A ARG* 3.6 21.3 + - - +
156A ASP* 3.4 6.2 - - - +
83I ARG* 3.0 40.7 + - - +
141I ASP* 3.3 2.9 + - - -
142I ASP* 1.3 77.1 - - - +
144I THR* 1.3 61.2 + - - +
146I ASP* 3.0 6.9 + - - +
147I ILE* 3.0 26.0 + - - +
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Residues in contact with THR 144 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29I THR* 3.3 23.8 - - + +
32I LEU* 5.2 2.5 - - + -
33I LEU* 3.5 32.3 - - + -
83I ARG* 3.6 9.0 + - + +
139I ALA* 4.5 7.2 - - + -
141I ASP* 2.7 34.3 + - - -
143I ASP* 1.3 78.4 - - - +
145I ALA* 1.3 62.9 - - - +
147I ILE* 3.2 11.3 + - + +
148I LEU* 3.0 33.3 + - + +
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Residues in contact with ALA 145 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136I ILE* 3.8 23.6 - - + +
139I ALA* 4.1 17.4 - - - +
141I ASP 2.9 12.0 + - - +
142I ASP* 3.3 12.8 - - - +
144I THR* 1.3 75.5 - - - +
146I ASP* 1.3 53.6 + - - +
148I LEU* 3.3 6.6 + - - +
149I THR* 2.7 36.4 + - - +
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Residues in contact with ASP 146 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ASP* 4.1 5.2 - - - +
149A THR* 3.8 25.0 - - + +
150A ALA 5.5 0.2 + - - -
153A ARG* 3.2 19.0 + - - +
301A TRS 2.6 49.0 + - - -
146E ASP* 4.1 5.2 - - - +
142I ASP 3.1 5.7 + - - +
143I ASP 3.0 10.2 + - - +
145I ALA* 1.3 74.6 - - - +
147I ILE* 1.3 67.5 + - - +
149I THR* 2.8 19.3 + - - -
150I ALA* 2.9 13.7 + - - +
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Residues in contact with ILE 147 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A ARG* 3.4 41.7 - - + +
33I LEU* 5.1 2.2 - - + -
76I HIS* 4.7 3.5 + - - +
79I THR* 4.1 18.8 - - + +
80I MET* 3.6 31.4 - - + -
83I ARG* 3.5 42.6 - - + -
143I ASP 3.0 17.2 + - - +
144I THR* 3.4 10.3 - - + +
146I ASP* 1.3 74.1 + - - +
148I LEU* 1.3 59.9 + - + +
150I ALA* 3.5 3.8 + - - +
151I ALA* 3.1 25.6 + - - +
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Residues in contact with LEU 148 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32I LEU* 4.4 7.6 - - + -
33I LEU* 4.6 7.0 - - + -
36I GLN* 4.1 13.0 - - + -
80I MET* 4.0 23.1 - - - -
132I VAL* 4.0 21.8 - - + +
135I ALA* 3.9 28.7 - - + +
136I ILE* 3.9 15.1 - - + +
139I ALA* 3.9 15.5 - - + -
144I THR* 3.0 28.8 + - + +
145I ALA 3.5 7.2 - - - +
147I ILE* 1.3 74.8 - - + +
149I THR* 1.3 55.0 + - - +
151I ALA* 3.4 3.9 + - - +
152I SER* 2.7 35.3 + - - -
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Residues in contact with THR 149 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A TRS 5.8 0.2 - - - -
142E ASP* 4.5 4.6 - - + +
143E ASP* 3.6 19.6 - - - +
146E ASP* 3.8 37.2 - - + +
136I ILE* 3.4 23.9 - - + +
145I ALA* 2.7 20.9 + - - +
146I ASP* 2.8 12.5 + - - -
148I LEU* 1.3 74.5 - - - +
150I ALA* 1.3 60.6 + - - +
152I SER 3.1 0.2 + - - -
153I ARG* 2.8 32.6 + - - +
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Residues in contact with ALA 150 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A ARG* 4.9 7.2 - - - +
301A TRS 4.2 25.3 + - - +
146E ASP* 5.5 0.2 - - - -
76I HIS* 3.4 18.5 - - + +
146I ASP 2.9 10.6 + - - +
147I ILE* 3.7 9.9 - - - +
149I THR* 1.3 77.0 - - - +
151I ALA* 1.3 63.1 + - - +
153I ARG* 3.5 8.2 + - - +
154I ASP* 3.3 18.0 + - - +
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Residues in contact with ALA 151 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40I PHE* 4.2 16.4 - - + -
76I HIS* 3.4 32.7 - - + +
80I MET* 4.9 6.3 - - + -
132I VAL* 4.7 3.8 - - + -
147I ILE* 3.1 18.2 + - + +
148I LEU* 3.6 7.9 - - - +
150I ALA* 1.3 77.4 - - - +
152I SER* 1.3 63.7 + - - +
154I ASP* 3.2 4.5 + - - +
155I LEU* 3.0 27.8 + - - +
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Residues in contact with SER 152 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143E ASP* 3.0 25.1 + - - -
132I VAL* 3.9 21.5 - - - +
133I ARG* 3.6 19.5 - - - +
136I ILE* 3.7 9.9 - - - -
148I LEU 2.7 22.2 + - - -
149I THR 3.7 0.2 - - - -
151I ALA* 1.3 71.6 - - - +
153I ARG* 1.3 65.9 + - - +
155I LEU* 3.0 3.0 + - - +
156I ASP* 2.9 31.0 + - - +
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Residues in contact with ARG 153 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A TRS 4.4 8.2 + - - -
79E THR* 3.6 20.6 - - - +
83E ARG* 5.2 3.1 - - - +
86E GLN* 4.7 4.8 + - - +
143E ASP* 3.7 29.1 + - + +
146E ASP* 3.1 26.3 + - - -
147E ILE* 3.6 44.5 - - + +
150E ALA* 4.8 10.5 - - - +
149I THR 2.8 19.3 + - - +
150I ALA* 3.6 9.6 - - - +
152I SER* 1.3 73.9 - - - +
154I ASP* 1.3 61.9 - - - +
156I ASP* 3.8 3.5 + - - +
157I LYS* 3.5 17.8 + - - +
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Residues in contact with ASP 154 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72I ALA* 4.0 10.6 - - - +
76I HIS* 2.7 36.4 + - + +
150I ALA 3.3 4.8 + - - +
151I ALA 3.2 4.4 + - - +
152I SER 3.0 0.6 - - - -
153I ARG* 1.3 79.5 - - - +
155I LEU* 1.3 60.9 + - + +
157I LYS* 3.0 11.9 + - - +
158I PHE* 2.9 53.9 + - + -
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Residues in contact with LEU 155 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40I PHE* 3.5 31.6 - - + -
43I LEU* 4.1 16.2 - - + -
73I LEU* 4.2 15.5 - - + -
76I HIS* 5.1 1.3 - - + -
125I TYR* 4.3 8.8 - - + +
128I VAL* 3.6 31.4 - - + +
129I ALA* 3.8 26.3 - - + +
132I VAL* 4.9 0.9 - - + -
151I ALA* 3.0 25.6 + - - +
152I SER* 3.0 8.8 + - - +
154I ASP* 1.3 79.3 - - + +
156I ASP* 1.3 58.9 + - - +
158I PHE* 3.6 7.9 - - + +
159I LEU* 2.9 31.2 + - - +
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Residues in contact with ASP 156 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19E ASN* 3.5 18.6 + - - +
83E ARG* 2.8 37.5 + - - +
86E GLN* 3.9 11.0 - - - +
143E ASP* 3.4 7.7 - - - +
129I ALA* 3.7 12.1 - - - +
133I ARG* 2.7 35.2 + - - -
152I SER* 2.9 19.9 + - - +
153I ARG 4.2 1.1 - - - +
155I LEU* 1.3 76.2 - - - +
157I LYS* 1.3 61.0 + - - +
159I LEU* 3.8 6.6 + - - +
160I TRP* 3.2 21.5 + - - +
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Residues in contact with LYS 157 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82E GLU* 4.1 15.1 + - - -
86E GLN* 3.7 21.7 - - - +
207E K 3.7 13.0 - - - -
153I ARG 3.5 10.7 + - - +
154I ASP* 3.0 16.4 + - - +
156I ASP* 1.3 78.4 - - - +
158I PHE* 1.3 76.0 + - + +
160I TRP* 3.2 14.4 + - + +
161I PHE* 2.9 54.7 + - + +
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Residues in contact with PHE 158 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68I GLY 5.1 0.7 - - - -
69I PHE* 3.4 49.8 - + + -
72I ALA* 3.5 29.6 - - + -
73I LEU* 3.8 28.5 - - + -
76I HIS* 5.7 0.2 - + - -
125I TYR* 3.9 19.1 - + + -
154I ASP* 2.9 41.7 + - + -
155I LEU* 3.6 8.5 - - - +
157I LYS* 1.3 88.5 - - + +
159I LEU* 1.3 67.6 + - - +
161I PHE* 3.0 4.3 + - - +
162I ILE* 2.8 28.1 + - - +
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Residues in contact with LEU 159 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E THR* 4.5 1.6 - - - +
18E ARG 4.3 0.4 - - - -
19E ASN* 3.9 41.1 - - + +
122I ALA* 3.5 28.5 - - - +
125I TYR* 4.3 7.7 - - + -
126I ALA* 4.0 23.8 - - + +
129I ALA* 4.3 12.1 - - + -
130I ASN* 5.0 0.2 - - - +
155I LEU 2.9 16.8 + - - +
156I ASP* 3.9 5.4 - - - +
158I PHE* 1.3 75.8 - - - +
160I TRP* 1.3 53.6 + - - +
162I ILE* 3.3 7.3 + - - +
163I GLU* 2.8 62.5 + - + +
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Residues in contact with TRP 160 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E THR* 5.8 0.7 - - - -
82E GLU* 3.9 42.0 - - + -
85E VAL* 3.5 26.7 - - + +
86E GLN* 3.7 31.0 - - + +
52F TRP* 3.8 22.8 + - - -
54F MET 5.1 1.8 + - - -
55F ARG* 4.3 17.3 - - - +
59F PHE* 4.3 8.2 - + - -
63F HIS* 3.9 15.7 - - - -
156I ASP 3.2 11.7 + - - +
157I LYS* 3.2 12.8 + - + +
158I PHE 3.2 0.2 - - - -
159I LEU* 1.3 81.1 - - - +
161I PHE* 1.3 89.8 + + - +
163I GLU* 3.5 9.6 + - + +
164I SER* 2.9 50.6 + - - -
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Residues in contact with PHE 161 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82E GLU* 5.7 0.7 - - - -
59F PHE* 3.7 16.1 - + - -
60F ILE* 3.6 24.7 - - + -
63F HIS* 3.7 28.0 - + - -
64F GLU* 5.0 4.9 - - + -
65I MET* 3.9 13.7 - - + -
69I PHE* 3.8 22.9 - + + -
157I LYS* 2.9 36.9 + - + +
158I PHE 3.4 7.2 - - - +
160I TRP* 1.3 106.5 - + - +
162I ILE* 1.3 66.7 + - - +
164I SER* 3.3 9.0 + - - -
165I ASN* 2.9 21.6 + - - +
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Residues in contact with ILE 162 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65I MET* 4.4 9.6 - - + -
66I LEU* 5.0 4.7 - - + -
69I PHE* 3.8 16.8 - - + -
118I LEU* 3.5 38.7 - - + +
121I LEU* 4.3 9.2 - - + -
122I ALA* 4.0 11.7 - - + +
125I TYR* 3.5 54.5 - - + -
158I PHE 2.8 20.3 + - - +
159I LEU* 3.6 5.4 - - - +
161I PHE* 1.3 70.3 - - - +
163I GLU* 1.3 65.0 + - - +
165I ASN* 3.1 16.6 + - - +
166I ILE* 3.6 9.6 - - + +
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Residues in contact with GLU 163 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16E TYR* 4.2 4.0 - - - +
17E THR* 2.8 31.7 + - - -
18E ARG* 2.8 60.4 + - - +
55F ARG* 4.9 12.4 + - - +
122I ALA* 4.4 4.5 - - + -
159I LEU* 2.8 35.6 + - + +
160I TRP* 3.8 7.9 - - - +
162I ILE* 1.3 73.0 - - - +
164I SER* 1.3 62.0 + - - +
166I ILE* 3.2 29.0 + - + +
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Residues in contact with SER 164 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54F MET 4.2 0.2 + - - -
55F ARG* 3.7 25.3 + - - +
56F GLY 2.7 32.2 + - - +
59F PHE* 3.3 36.2 - - - +
160I TRP* 2.9 43.1 + - - -
162I ILE 3.2 0.6 - - - -
163I GLU* 1.3 76.5 - - - +
165I ASN* 1.3 56.4 + - - +
166I ILE 3.2 1.1 - - - -
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Residues in contact with ASN 165 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56F GLY 3.8 8.7 - - - +
57F ALA* 4.5 5.2 - - - -
59F PHE* 3.3 13.8 - - - +
60F ILE* 3.2 33.5 - - - +
58I ASN* 3.1 27.7 + - - +
62I VAL* 4.4 6.3 - - + -
65I MET* 3.7 15.1 - - - +
115I GLN* 3.0 17.2 + - - -
118I LEU* 3.5 21.2 - - + +
161I PHE 2.9 18.4 + - - +
162I ILE 3.1 6.6 + - - +
164I SER* 1.3 77.1 - - - +
166I ILE* 1.3 60.3 + - - +
167I GLU 3.6 0.5 + - - -
----------------------------------------------------------
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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