Contacts of the helix formed by residues 141 - 166 (chain L) 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 L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B LYS* 5.4 1.6 + - - +
22L LEU* 3.9 27.8 - - + +
25L SER* 3.9 14.1 - - - +
79L ARG* 3.0 24.9 + - - -
83L LEU* 3.5 16.8 - - - +
136L SER* 2.9 14.9 + - - +
137L ASP* 5.9 0.2 - - - -
140L GLY* 1.3 75.4 - - - +
142L SER* 1.3 56.4 + - - +
143L VAL 3.6 0.9 + - - -
144L THR* 2.5 31.3 + - - -
145L ASN* 2.9 27.8 + - - +
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Residues in contact with SER 142 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B GLN* 4.6 2.8 + - - -
133B PHE* 3.3 38.4 - - - -
149B ASN* 2.8 34.5 + - - -
152B LYS* 4.0 15.2 - - - +
140L GLY 3.5 7.2 + - - -
141L ASP* 1.3 71.8 + - - +
143L VAL* 1.3 58.7 + - - +
145L ASN* 3.4 9.8 - - - +
146L ASP 3.0 21.5 + - - -
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Residues in contact with VAL 143 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B ASN* 3.8 11.9 - - - +
152B LYS* 3.7 31.6 - - - +
153B ALA* 3.6 43.1 - - + +
156B GLU* 4.0 1.6 - - - +
79L ARG* 3.3 38.4 - - - +
141L ASP* 3.3 1.8 + - - -
142L SER* 1.3 74.4 + - - +
144L THR* 1.3 65.6 + - - +
146L ASP* 3.2 5.2 + - - +
147L ILE* 3.1 30.0 + - + +
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Residues in contact with THR 144 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25L SER* 4.5 6.3 - - - -
29L LEU* 3.8 20.6 - - + -
79L ARG* 3.1 18.5 + - - +
83L LEU* 3.8 2.8 - - - +
136L SER* 4.0 10.5 - - - -
141L ASP* 2.5 33.5 + - - +
143L VAL* 1.3 76.2 - - - +
145L ASN* 1.3 65.7 + - - +
147L ILE* 3.1 20.5 + - - +
148L PHE* 3.2 39.4 + - + -
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Residues in contact with ASN 145 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133L PHE* 2.8 67.3 + - - +
136L SER* 3.1 11.3 + - - +
137L ASP* 3.6 16.6 - - - +
141L ASP 2.9 17.7 + - - +
142L SER* 3.4 11.4 - - - +
144L THR* 1.3 77.1 - - - +
146L ASP* 1.3 61.4 + - - +
148L PHE* 3.6 2.3 + - - +
149L ASN* 3.2 22.5 + - - +
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Residues in contact with ASP 146 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B ASP* 4.4 13.5 - - - +
149B ASN* 3.6 16.8 + - - +
150B VAL* 5.2 8.6 - - - +
146G ASP* 4.7 8.1 - - - +
142L SER 3.0 17.5 + - - +
143L VAL* 3.2 5.8 + - - +
145L ASN* 1.3 76.2 + - - +
147L ILE* 1.3 66.8 + - + +
149L ASN* 3.8 9.3 + - - +
150L VAL* 3.0 45.3 + - - +
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Residues in contact with ILE 147 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B ALA* 6.4 0.2 - - + -
29L LEU* 5.3 2.9 - - + -
72L TYR* 5.6 0.5 - - - -
75L GLU* 3.6 37.9 - - + +
76L MET* 3.7 33.2 - - + -
79L ARG* 3.7 39.7 - - + -
143L VAL* 3.1 21.2 + - + +
144L THR* 3.1 10.6 + - + +
146L ASP* 1.3 79.2 - - + +
148L PHE* 1.3 63.0 + - + +
150L VAL* 3.6 4.3 + - - +
151L ALA* 3.1 22.1 + - + +
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Residues in contact with PHE 148 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28L VAL* 4.0 20.2 - - + -
29L LEU* 3.7 23.6 - - + -
32L ALA* 4.4 6.1 - - + -
76L MET* 3.8 21.1 - - + -
128L LEU* 4.7 0.4 - - + -
129L PHE* 3.4 49.0 - + - +
132L GLY* 3.5 32.3 - - - -
133L PHE* 3.9 5.6 - - - +
136L SER* 4.4 0.4 - - - -
144L THR* 3.2 42.4 + - + -
145L ASN 4.0 4.9 - - - +
147L ILE* 1.3 77.6 - - + +
149L ASN* 1.3 58.9 + - - +
151L ALA* 3.3 5.0 + - - +
152L LYS* 2.8 32.8 + - - +
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Residues in contact with ASN 149 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142G SER* 2.6 53.9 + - - -
143G VAL* 3.4 8.2 + - - +
146G ASP* 3.8 18.8 + - - +
133L PHE* 3.7 15.3 - - + -
145L ASN 3.2 16.4 + - - +
146L ASP* 3.8 11.0 + - - +
147L ILE 3.4 0.2 - - - -
148L PHE* 1.3 79.0 - - - +
150L VAL* 1.3 63.3 + - + +
152L LYS* 3.7 5.2 - - - +
153L ALA* 3.0 24.3 + - - +
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Residues in contact with VAL 150 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146G ASP* 5.4 11.0 - - - +
72L TYR* 5.4 7.2 - - + +
146L ASP* 3.0 35.6 + - - +
147L ILE* 4.0 4.7 - - - +
149L ASN* 1.3 77.6 - - + +
151L ALA* 1.3 62.6 + - - +
153L ALA* 3.4 8.2 + - + +
154L SER* 3.3 20.4 + - - -
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Residues in contact with ALA 151 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72L TYR* 3.7 31.1 + - + -
76L MET* 3.9 8.5 - - + -
129L PHE* 3.6 25.8 - - + -
147L ILE 3.1 19.0 + - - +
148L PHE 3.6 3.8 - - - +
150L VAL* 1.3 77.8 - - - +
152L LYS* 1.3 61.4 + - - +
154L SER* 3.2 4.3 + - - -
155L ILE* 3.0 26.5 + - - +
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Residues in contact with LYS 152 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79G ARG* 4.4 4.8 - - - +
141G ASP* 5.3 1.4 + - - +
142G SER* 4.8 9.0 + - - +
143G VAL* 3.7 16.4 - - + +
126L ALA* 3.9 20.6 - - - +
129L PHE* 3.8 13.6 - - + -
130L GLN* 3.2 44.1 + - + +
133L PHE* 5.7 2.7 - - + -
148L PHE 2.8 20.9 + - - +
149L ASN* 3.7 7.4 - - - +
151L ALA* 1.3 72.6 - - - +
153L ALA* 1.3 57.2 + - - +
155L ILE* 3.9 3.8 - - - +
156L GLU* 2.9 71.8 + - + +
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Residues in contact with ALA 153 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79G ARG* 5.1 1.8 + - - +
143G VAL* 3.5 34.5 - - + +
146G ASP* 5.9 2.7 - - - +
149L ASN 3.0 12.2 + - - +
150L VAL* 3.5 13.2 - - - +
151L ALA 3.3 0.2 - - - -
152L LYS* 1.3 75.8 - - - +
154L SER* 1.3 63.0 + - - +
156L GLU* 3.5 3.4 + - - +
157L LYS* 3.2 21.7 + - - +
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Residues in contact with SER 154 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68L GLU* 2.6 22.4 + - - -
72L TYR* 3.1 22.7 - - - -
150L VAL* 3.3 6.0 + - - -
151L ALA 3.2 2.5 + - - -
153L ALA* 1.3 77.3 - - - +
155L ILE* 1.3 66.6 + - - +
157L LYS* 3.1 10.8 + - - +
158L HIS* 3.1 29.5 + - - -
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Residues in contact with ILE 155 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68L GLU* 4.1 6.1 - - - +
69L ILE* 4.2 19.5 - - + -
72L TYR* 4.1 18.2 - - + -
122L PHE* 3.2 51.6 - - + +
125L LEU* 4.7 3.8 - - + -
126L ALA* 4.2 9.2 - - + +
129L PHE* 3.9 21.3 - - + -
151L ALA 3.0 16.2 + - - +
152L LYS* 4.0 5.6 - - - +
154L SER* 1.3 74.9 - - - +
156L GLU* 1.3 58.6 + - - +
158L HIS* 3.1 11.8 + - + +
159L ILE* 2.9 29.2 + - + +
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Residues in contact with GLU 156 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79G ARG* 2.8 44.0 + - - +
82G THR* 3.5 16.8 - - + +
143G VAL* 4.1 2.3 - - - +
126L ALA* 4.4 15.8 - - + +
152L LYS* 2.9 55.4 + - - +
153L ALA 3.9 3.4 - - - +
155L ILE* 1.3 73.2 - - - +
157L LYS* 1.3 65.3 + - - +
159L ILE* 3.2 8.8 + - + +
160L TRP 3.1 18.2 + - - -
172L LEU* 3.7 27.7 - - + +
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Residues in contact with LYS 157 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74G ASP* 5.2 0.2 + - - -
75G GLU* 4.8 18.7 + - - +
78G GLU* 2.8 41.5 + - - +
79G ARG* 5.5 0.4 - - - +
82G THR* 4.4 10.7 - - - +
153L ALA 3.2 13.0 + - - +
154L SER* 3.1 12.4 + - - +
156L GLU* 1.3 74.9 - - - +
158L HIS* 1.3 66.9 + - + +
160L TRP* 3.3 20.4 + - + +
161L MET* 3.1 38.1 + - + +
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Residues in contact with HIS 158 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61L LYS* 6.4 0.2 - - - -
64L GLU* 6.1 1.6 - - - -
65L TYR* 3.8 31.7 + + + +
68L GLU* 2.8 38.6 + - - -
122L PHE* 3.7 24.5 - + + -
154L SER* 3.1 23.4 + - - -
155L ILE* 3.1 11.2 + - + +
157L LYS* 1.3 79.0 - - + +
159L ILE* 1.3 59.9 + - - +
161L MET* 3.1 14.4 + - - +
162L LEU* 2.8 35.6 + - - +
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Residues in contact with ILE 159 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119L VAL* 4.5 9.2 - - + +
122L PHE* 3.6 43.5 - - + +
123L ARG* 3.8 24.9 - - + +
126L ALA* 4.2 6.7 - - + -
155L ILE* 2.9 23.4 + - + +
156L GLU* 3.2 8.7 + - - +
158L HIS* 1.3 75.4 - - - +
160L TRP* 1.3 57.2 + - - +
162L LEU* 3.9 5.5 - - - +
163L GLN* 2.9 42.4 + - + +
170L PRO* 3.8 21.5 - - + +
172L LEU* 4.1 22.7 - - + -
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Residues in contact with TRP 160 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47E HIS 4.9 0.2 - - - -
48E TRP 4.6 6.8 + - - -
50E MET 5.5 0.4 + - - -
55E PHE* 3.9 18.5 - + - -
59E HIS* 3.6 26.9 - + - -
107E TYR* 5.9 0.2 - - - -
78G GLU* 3.4 46.2 - - + -
81G ILE* 3.4 34.6 - - + +
82G THR* 3.6 25.4 - - - +
156L GLU 3.1 8.2 + - - +
157L LYS* 3.4 28.3 - - + +
158L HIS 3.3 0.2 - - - -
159L ILE* 1.3 76.3 - - - +
161L MET* 1.3 76.2 + - + +
163L GLN* 3.3 2.4 + - - +
164L ALA* 2.8 31.3 + - + +
168L GLN 6.1 0.4 - - - -
170L PRO* 3.8 29.5 - - + +
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Residues in contact with MET 161 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55E PHE* 3.8 23.9 - - + -
56E MET* 3.8 27.4 - - + +
59E HIS* 3.7 23.6 - - + +
78G GLU* 4.8 2.5 - - - +
65L TYR* 5.5 1.6 - - - +
157L LYS* 3.1 29.3 + - + +
158L HIS* 3.1 17.4 + - - +
160L TRP* 1.3 106.7 - - + +
162L LEU* 1.3 57.3 + - - +
164L ALA* 3.3 2.9 + - - +
165L GLU* 3.0 27.9 + - - +
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Residues in contact with LEU 162 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58L TRP* 3.7 31.2 - - + -
65L TYR* 3.7 15.3 - - + +
115L LEU* 4.1 23.9 - - + +
118L VAL* 3.7 27.4 - - + -
119L VAL* 3.5 23.3 - - + -
122L PHE* 3.7 22.0 - - + -
158L HIS 2.8 24.6 + - - +
159L ILE* 4.0 2.2 - - - +
161L MET* 1.3 73.5 - - - +
163L GLN* 1.3 61.9 + - - +
165L GLU* 3.4 6.6 + - - +
166L LEU* 3.1 28.1 + - + +
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Residues in contact with GLN 163 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119L VAL* 3.7 23.0 - - + +
123L ARG* 3.4 22.0 - - - +
159L ILE* 2.9 28.7 + - + +
160L TRP 3.7 3.1 - - - +
162L LEU* 1.3 74.9 - - - +
164L ALA* 1.3 62.8 + - - +
166L LEU* 2.9 21.5 + - - +
167L GLY 3.0 0.2 + - - -
168L GLN* 2.8 53.6 + - - +
169L ALA 2.9 35.0 + - - +
170L PRO* 3.9 10.8 - - + +
171L LYS* 3.7 4.6 - - - +
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Residues in contact with ALA 164 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50E MET 3.7 7.6 - - - +
51E ARG* 3.4 8.6 - - + +
52E GLY 2.6 32.4 + - - -
55E PHE* 3.5 35.4 - - + -
160L TRP* 2.8 25.3 + - + +
161L MET 3.3 4.2 + - - +
163L GLN* 1.3 76.6 - - - +
165L GLU* 1.3 53.2 + - - +
167L GLY 3.0 4.7 + - - -
168L GLN 3.6 8.4 + - - +
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Residues in contact with GLU 165 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52E GLY* 3.2 23.1 - - - -
53E ARG* 2.9 32.5 + - - +
54E GLY* 2.8 24.0 + - - -
55E PHE* 3.1 10.5 + - + +
56E MET* 2.9 32.6 + - - +
173E EPE 4.7 3.1 + - - -
57L ILE* 6.2 0.2 - - - -
58L TRP* 3.4 36.8 + - + +
115L LEU* 4.0 12.1 - - + -
161L MET 3.0 13.6 + - - +
162L LEU 3.7 9.2 - - - +
163L GLN 3.2 0.2 - - - -
164L ALA* 1.3 75.7 - - - +
166L LEU* 1.3 56.4 + - - +
167L GLY 3.2 1.0 + - - -
----------------------------------------------------------
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Residues in contact with LEU 166 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52E GLY* 5.1 0.4 - - - -
53E ARG* 5.0 1.6 - - - +
112L GLU* 3.7 45.0 - - + +
115L LEU* 4.0 20.9 - - + -
116L ALA* 4.1 27.4 - - + +
119L VAL* 4.4 5.6 - - + -
162L LEU 3.1 16.7 + - - +
163L GLN* 2.9 27.3 + - - +
165L GLU* 1.3 77.1 - - - +
167L GLY* 1.3 61.0 + - - +
168L GLN* 3.3 27.0 + - - +
----------------------------------------------------------
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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