Contacts of the helix formed by residues 141 - 166 (chain E) in PDB entry 2UX1
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 E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E SER* 3.7 19.3 + - - +
79E ARG* 3.1 24.4 + - - -
83E LEU* 3.6 19.0 - - - +
136E SER* 2.9 13.7 + - - +
139E GLU* 3.2 8.0 - - + +
140E GLY* 1.3 72.4 - - - +
142E SER* 1.3 62.1 + - - +
143E VAL 3.8 0.9 + - - -
144E THR* 2.7 26.1 + - - -
145E ASN* 3.0 20.4 + - - +
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Residues in contact with SER 142 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140E GLY 3.3 7.0 + - - -
141E ASP* 1.3 73.1 + - - +
143E VAL* 1.3 62.5 + - - +
145E ASN* 3.4 11.2 - - - +
146E ASP* 2.9 22.9 + - - +
130I GLN* 5.2 4.3 + - - -
133I PHE* 3.3 39.6 - - - -
149I ASN* 2.6 35.0 + - - -
152I LYS* 5.1 6.1 - - - +
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Residues in contact with VAL 143 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79E ARG* 3.3 45.5 - - - +
141E ASP* 3.3 1.4 + - - +
142E SER* 1.3 77.6 + - - +
144E THR* 1.3 62.4 + - - +
146E ASP* 3.1 7.6 + - - +
147E ILE* 3.1 28.5 + - + +
149I ASN* 4.0 15.9 - - - +
152I LYS* 4.3 12.3 - - + -
153I ALA* 3.6 45.3 - - + +
156I GLU* 4.0 6.7 - - - +
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Residues in contact with THR 144 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E SER* 4.2 5.6 - - - +
29E LEU* 3.9 21.5 - - + -
79E ARG* 3.2 21.1 + - - +
83E LEU* 3.7 2.8 - - - +
136E SER* 4.1 9.4 - - - -
141E ASP* 2.7 32.0 + - - +
143E VAL* 1.3 73.8 - - - +
145E ASN* 1.3 65.8 + - - +
147E ILE* 3.1 11.1 + - + +
148E PHE* 3.1 48.1 + - + -
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Residues in contact with ASN 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133E PHE* 3.0 67.4 + - - -
136E SER* 3.1 17.9 + - - +
137E ASP* 3.8 13.4 - - - +
141E ASP 3.0 12.6 + - - +
142E SER* 3.4 16.1 - - - +
144E THR* 1.3 76.9 - - - +
146E ASP* 1.3 57.7 + - - +
148E PHE* 3.3 2.9 + - - +
149E ASN* 2.9 27.5 + - - +
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Residues in contact with ASP 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142E SER 2.9 14.0 + - - +
143E VAL* 3.1 10.3 + - - +
145E ASN* 1.3 75.8 - - - +
147E ILE* 1.3 67.1 + - + +
149E ASN* 3.7 6.6 - - - +
150E VAL* 3.0 34.5 + - + +
146I ASP* 6.1 0.2 - - - +
149I ASN* 3.5 16.8 - - - +
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Residues in contact with ILE 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29E LEU* 5.2 3.4 - - + -
72E TYR* 5.6 0.7 - - + -
75E GLU* 4.2 38.0 - - + +
76E MET* 3.7 33.2 - - + -
79E ARG* 3.7 40.4 - - + -
143E VAL* 3.1 19.6 + - + +
144E THR* 3.1 9.4 + - - +
146E ASP* 1.3 76.7 - - + +
148E PHE* 1.3 66.0 + - + +
150E VAL* 3.8 4.8 - - - +
151E ALA* 3.1 23.0 + - - +
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Residues in contact with PHE 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E VAL* 3.8 27.8 - - + -
29E LEU* 3.9 22.4 - - + -
32E ALA* 4.3 5.8 - - + -
76E MET* 3.8 22.7 - - + -
128E LEU* 4.7 0.9 - - + -
129E PHE* 3.6 51.4 - + - +
132E GLY* 3.5 27.8 - - - -
133E PHE* 3.9 6.7 - - - +
144E THR* 3.1 43.3 + - + -
145E ASN 3.7 5.2 - - - +
147E ILE* 1.3 80.1 - - + +
149E ASN* 1.3 56.8 + - - +
151E ALA* 4.0 0.2 - - - +
152E LYS* 3.0 30.3 + - - +
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Residues in contact with ASN 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A SER* 2.7 52.5 + - - -
143A VAL* 3.6 8.9 + - - +
146A ASP* 3.9 19.6 - - - +
133E PHE* 3.8 14.5 - - + -
145E ASN* 2.9 18.6 + - - +
146E ASP* 3.7 8.5 - - - +
147E ILE 3.3 0.2 - - - -
148E PHE* 1.3 75.6 - - - +
150E VAL* 1.3 66.0 + - + +
152E LYS* 3.5 5.8 + - - +
153E ALA* 3.2 23.7 + - - +
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Residues in contact with VAL 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ASP* 5.0 12.1 - - - +
72E TYR* 4.2 9.6 + - + +
75E GLU* 6.1 0.9 - - - +
146E ASP* 3.0 24.4 + - + +
147E ILE* 3.8 4.7 - - - +
149E ASN* 1.3 73.8 - - + +
151E ALA* 1.3 67.4 + - - +
153E ALA* 3.4 8.6 + - - +
154E SER* 3.4 18.4 + - - -
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Residues in contact with ALA 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72E TYR* 3.6 33.8 + - + -
76E MET* 4.0 10.1 - - + -
129E PHE* 3.7 24.7 - - + -
147E ILE 3.1 15.4 + - - +
148E PHE 4.0 2.2 - - - +
150E VAL* 1.3 80.0 - - - +
152E LYS* 1.3 62.1 + - - +
154E SER* 3.3 4.0 + - - -
155E ILE* 3.1 26.5 + - - +
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Residues in contact with LYS 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A ARG* 5.9 0.4 - - - +
142A SER* 5.2 4.9 - - - +
143A VAL* 4.3 12.3 - - + -
126E ALA* 2.9 41.1 + - + +
127E ALA* 4.8 0.4 - - - +
129E PHE* 3.8 14.5 - - + -
130E GLN* 3.3 40.5 - - - +
133E PHE* 5.9 2.9 - - + -
148E PHE 3.0 20.0 + - - +
149E ASN* 3.8 6.1 - - - +
150E VAL 3.3 0.2 - - - -
151E ALA* 1.3 76.0 - - - +
153E ALA* 1.3 63.5 + - - +
155E ILE* 4.0 2.4 - - - +
156E GLU* 2.8 62.3 + - + +
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Residues in contact with ALA 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A ARG* 4.9 2.3 + - - -
143A VAL* 3.6 33.5 - - + +
147A ILE* 6.4 0.4 - - + -
149E ASN 3.2 10.3 + - - +
150E VAL* 3.6 12.1 - - - +
151E ALA 3.3 0.2 - - - -
152E LYS* 1.3 78.1 - - - +
154E SER* 1.3 61.6 + - - +
156E GLU* 4.0 3.5 - - - +
157E LYS* 3.1 22.9 + - - +
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Residues in contact with SER 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68E GLU* 2.4 33.8 + - - -
72E TYR* 3.1 14.6 - - - -
150E VAL 3.4 5.2 + - - -
151E ALA 3.3 1.8 + - - -
152E LYS 3.3 0.4 - - - -
153E ALA* 1.3 77.1 - - - +
155E ILE* 1.3 65.3 + - - +
157E LYS* 3.2 9.4 + - - +
158E HIS* 3.0 29.5 + - - -
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Residues in contact with ILE 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68E GLU* 4.3 5.8 - - - +
69E ILE* 3.9 27.8 - - + -
72E TYR* 4.3 11.9 - - + -
122E PHE* 3.3 51.6 - - + +
125E LEU* 4.6 7.9 - - + -
126E ALA* 4.4 10.3 - - + +
129E PHE* 3.8 18.6 - - + -
151E ALA 3.1 16.9 + - - +
152E LYS* 4.1 4.5 - - - +
154E SER* 1.3 73.9 - - - +
156E GLU* 1.3 62.7 + - - +
158E HIS* 3.2 12.4 + - + +
159E ILE* 3.0 21.6 + - + +
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Residues in contact with GLU 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A ARG* 2.7 48.2 + - - +
82A THR* 3.4 10.8 - - + +
143A VAL* 4.5 1.7 - - - +
126E ALA* 4.1 15.7 - - + +
152E LYS* 2.8 57.6 + - - +
153E ALA 4.0 1.3 - - - +
155E ILE* 1.3 76.4 - - - +
157E LYS* 1.3 61.5 + - - +
159E ILE* 3.2 10.7 + - + +
160E TRP 3.1 18.4 + - - -
172E LEU* 3.6 29.8 - - + +
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Residues in contact with LYS 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75A GLU* 5.0 10.5 + - - +
78A GLU* 2.7 34.9 + - - +
79A ARG* 5.4 0.4 - - - +
82A THR* 4.3 10.0 - - - +
153E ALA 3.1 14.5 + - - +
154E SER* 3.2 13.2 + - - +
156E GLU* 1.3 76.5 - - - +
158E HIS* 1.3 69.0 + - + +
160E TRP* 3.2 22.6 + - + +
161E MET* 3.2 40.6 + - + +
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Residues in contact with HIS 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65E TYR* 3.7 36.0 + + + +
68E GLU* 2.8 32.4 + - - -
122E PHE* 3.8 23.1 - + + -
154E SER* 3.0 29.3 + - - -
155E ILE* 3.2 13.2 + - + +
157E LYS* 1.3 79.3 - - + +
159E ILE* 1.3 60.8 + - - +
161E MET* 3.1 14.7 + - - +
162E LEU* 2.8 34.1 + - - +
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Residues in contact with ILE 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119E VAL* 4.0 9.0 - - + +
122E PHE* 3.8 22.7 - - + +
123E ARG* 3.8 43.5 - - + +
126E ALA* 4.5 5.6 - - + -
155E ILE* 3.0 21.3 + - + +
156E GLU* 3.2 10.9 + - - +
158E HIS* 1.3 71.2 - - - +
160E TRP* 1.3 68.5 + - - +
162E LEU* 4.5 6.5 - - - -
163E GLN* 2.9 37.0 + - + +
170E PRO 3.8 22.2 - - - +
172E LEU* 4.0 21.3 - - + -
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Residues in contact with TRP 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A GLU* 3.3 35.2 - - + -
81A ILE* 3.4 36.0 - - + +
82A THR* 3.3 33.2 - - + +
47C HIS 4.9 0.2 - - - -
48C TRP 4.6 6.3 + - - -
50C MET 5.5 0.8 + - - -
51C ARG* 6.4 0.2 - - - -
55C PHE* 4.0 18.8 - + - -
59C HIS* 3.7 24.7 - + - -
107C TYR* 6.0 0.2 - - - -
156E GLU 3.1 9.0 + - - +
157E LYS* 3.2 46.4 - - + +
158E HIS 3.2 0.2 - - - -
159E ILE* 1.3 77.7 - - - +
161E MET* 1.3 67.7 + - + +
163E GLN* 3.6 1.9 - - - +
164E ALA* 2.9 31.6 + - + +
168E GLN 5.0 0.3 - - - +
170E PRO* 4.1 23.1 - - + +
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Residues in contact with MET 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A GLU* 4.9 0.2 - - - +
55C PHE* 3.6 26.5 - - + -
56C MET* 3.7 27.5 - - + +
59C HIS* 3.2 37.7 - - + +
65E TYR* 5.5 0.9 - - - +
157E LYS* 3.2 28.9 + - - +
158E HIS* 3.1 17.5 + - - +
160E TRP* 1.3 98.3 - - + +
162E LEU* 1.3 58.9 + - + +
164E ALA* 3.3 3.1 + - - +
165E GLU* 3.0 25.5 + - - +
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Residues in contact with LEU 162 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58E TRP* 3.6 31.4 - - + -
65E TYR* 3.7 15.0 - - + +
115E LEU* 4.0 27.4 - - + +
118E VAL* 3.9 16.8 - - + -
119E VAL* 3.5 22.9 - - + -
122E PHE* 3.8 31.0 - - + -
158E HIS 2.8 22.0 + - - +
159E ILE 3.9 1.6 - - - +
161E MET* 1.3 69.3 - - - +
163E GLN* 1.3 66.5 + - - +
165E GLU* 3.2 8.0 + - - +
166E LEU* 3.0 26.5 + - - +
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Residues in contact with GLN 163 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116E ALA* 5.8 0.2 - - - -
119E VAL* 3.6 21.1 - - + +
123E ARG* 3.5 17.6 - - - +
159E ILE* 2.9 29.2 + - + +
160E TRP 3.6 2.9 - - - +
162E LEU* 1.3 76.4 - - - +
164E ALA* 1.3 57.5 + - - +
166E LEU* 2.9 25.9 + - - +
167E GLY 3.0 0.3 + - - -
168E GLN* 2.9 55.5 + - - +
169E ALA 2.7 34.5 + - - +
170E PRO* 3.9 11.0 - - + +
171E LYS* 3.7 3.8 - - - +
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Residues in contact with ALA 164 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C MET 3.8 9.2 - - - +
51C ARG* 3.5 9.0 - - + +
52C GLY 2.6 32.0 + - - -
55C PHE* 3.7 31.4 - - + -
160E TRP* 2.9 24.6 + - + +
161E MET 3.5 5.4 - - - +
163E GLN* 1.3 73.6 - - - +
165E GLU* 1.3 60.0 + - - +
167E GLY 3.0 4.2 + - - -
168E GLN 3.5 8.4 + - - +
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Residues in contact with GLU 165 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C GLY 3.7 5.4 - - - -
53C ARG* 2.9 47.8 + - - +
54C GLY* 2.9 24.8 + - - -
55C PHE* 3.3 5.6 + - + +
56C MET* 2.9 35.0 + - - +
57E ILE* 4.9 0.8 - - - +
58E TRP* 3.5 33.6 + - + -
115E LEU* 3.8 14.6 - - + -
161E MET 3.0 13.7 + - - +
162E LEU 3.2 10.1 + - - +
164E ALA* 1.3 75.4 - - - +
166E LEU* 1.3 57.4 + - - +
167E GLY 3.2 3.2 + - - -
173E EPE 4.8 2.8 + - - -
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Residues in contact with LEU 166 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C ARG* 5.1 1.1 - - - +
112E GLU* 3.6 48.0 - - + +
115E LEU* 4.0 18.4 - - + +
116E ALA* 3.8 32.1 - - + +
119E VAL* 4.6 2.7 - - + -
162E LEU 3.0 15.4 + - - +
163E GLN* 2.9 27.8 + - - +
165E GLU* 1.3 75.9 - - - +
167E GLY* 1.3 60.2 + - - +
168E GLN* 3.3 26.7 + - - +
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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