Contacts of the helix formed by residues 141 - 166 (chain J) 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 J).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C LYS* 5.6 1.2 + - - -
22J LEU* 3.8 24.3 - - + +
25J SER* 4.0 15.2 - - - +
79J ARG* 3.1 23.3 + - - -
83J LEU* 3.3 18.1 - - - +
136J SER* 3.0 13.1 + - - +
139J GLU 3.3 0.8 - - - +
140J GLY* 1.3 75.1 - - - +
142J SER* 1.3 57.9 + - - +
143J VAL 3.6 1.2 + - - -
144J THR* 2.6 31.2 + - - -
145J ASN* 3.0 27.6 + - - +
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Residues in contact with SER 142 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C GLN* 4.8 8.8 + - - -
133C PHE* 3.3 39.0 - - - -
149C ASN* 2.8 32.7 + - - -
152C LYS* 5.1 4.9 + - - +
140J GLY 3.3 8.2 + - - -
141J ASP* 1.3 72.0 + - - +
143J VAL* 1.3 66.6 + - - +
145J ASN* 3.4 9.4 + - - +
146J ASP 3.1 17.0 + - - -
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Residues in contact with VAL 143 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C ASN* 3.8 16.6 - - - +
152C LYS* 4.1 13.0 - - + +
153C ALA* 3.5 46.4 - - + +
156C GLU* 4.0 10.8 - - - +
79J ARG* 3.6 35.2 - - - +
141J ASP* 3.3 1.4 + - - -
142J SER* 1.3 76.0 + - - +
144J THR* 1.3 65.8 + - - +
146J ASP* 3.1 7.1 + - - +
147J ILE* 3.1 28.7 + - + +
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Residues in contact with THR 144 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25J SER* 4.6 6.1 - - - -
29J LEU* 4.0 17.3 - - + -
79J ARG* 3.2 21.7 + - - +
83J LEU* 3.7 2.8 - - - +
136J SER* 3.7 13.2 - - - -
141J ASP* 2.6 32.0 + - - +
143J VAL* 1.3 76.7 - - - +
145J ASN* 1.3 62.0 + - - +
147J ILE* 3.3 12.8 + - - +
148J PHE* 3.2 46.5 + - + -
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Residues in contact with ASN 145 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133J PHE* 2.9 70.5 + - - -
136J SER* 3.2 10.6 + - - +
137J ASP* 3.6 16.7 - - - +
141J ASP 3.0 15.0 + - - +
142J SER* 3.4 14.8 - - - +
143J VAL 3.1 0.4 - - - -
144J THR* 1.3 77.8 - - - +
146J ASP* 1.3 57.5 + - - +
148J PHE* 3.3 3.8 + - - +
149J ASN* 3.1 22.9 + - - +
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Residues in contact with ASP 146 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C ASP* 4.5 12.2 - - - +
149C ASN* 3.9 15.6 + - - +
150C VAL* 5.7 6.0 - - - +
146H ASP* 4.6 13.2 - - - +
142J SER 3.1 11.3 + - - +
143J VAL* 3.1 9.2 + - - +
145J ASN* 1.3 74.3 + - - +
147J ILE* 1.3 70.2 + - - +
149J ASN* 3.8 7.6 + - - +
150J VAL* 3.0 40.5 + - - +
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Residues in contact with ILE 147 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29J LEU* 5.2 3.4 - - + -
75J GLU* 3.7 40.8 - - + +
76J MET* 3.8 29.6 - - + -
79J ARG* 3.8 40.4 - - + -
143J VAL* 3.1 21.9 + - + +
144J THR* 3.5 9.2 - - + +
146J ASP* 1.3 79.6 + - - +
148J PHE* 1.3 61.3 + - + +
150J VAL* 3.7 4.8 + - - +
151J ALA* 3.2 23.2 + - - +
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Residues in contact with PHE 148 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28J VAL* 3.9 17.9 - - + -
29J LEU* 3.8 25.8 - - + -
32J ALA* 4.5 4.5 - - + -
76J MET* 4.0 17.3 - - + -
128J LEU* 4.8 1.6 - - + -
129J PHE* 3.5 54.6 - + - +
132J GLY* 3.4 31.9 - - - -
133J PHE* 3.8 7.9 - - - +
136J SER* 4.3 0.2 - - - -
144J THR* 3.2 41.8 + - + -
145J ASN 3.7 6.1 - - - +
146J ASP 3.2 0.2 - - - -
147J ILE* 1.3 73.5 - - + +
149J ASN* 1.3 59.9 + - - +
151J ALA* 3.4 3.0 + - - +
152J LYS* 2.9 32.5 + - - +
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Residues in contact with ASN 149 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142H SER* 2.8 51.9 + - - -
143H VAL* 3.6 9.0 + - - +
146H ASP* 3.7 21.6 + - - +
133J PHE* 3.8 16.3 - - + -
145J ASN* 3.1 16.4 + - - +
146J ASP* 3.3 9.6 + - - +
148J PHE* 1.3 75.7 - - - +
150J VAL* 1.3 58.9 + - + +
152J LYS* 3.3 7.1 + - - +
153J ALA* 2.9 30.9 + - - +
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Residues in contact with VAL 150 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146H ASP* 5.2 9.2 - - - +
72J TYR* 4.9 10.3 - - + +
75J GLU* 5.7 3.6 - - - +
146J ASP* 3.0 37.5 + - - +
147J ILE* 4.0 4.7 - - - +
149J ASN* 1.3 76.3 - - + +
151J ALA* 1.3 65.3 + - - +
153J ALA* 3.3 16.2 + - - +
154J SER* 3.3 13.5 + - - -
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Residues in contact with ALA 151 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72J TYR* 3.6 33.2 + - + -
76J MET* 3.9 8.7 - - + -
129J PHE* 3.7 24.9 - - + -
147J ILE 3.2 16.2 + - - +
148J PHE 3.8 2.0 - - - +
149J ASN 3.3 0.2 - - - -
150J VAL* 1.3 78.5 - - - +
152J LYS* 1.3 62.5 + - - +
154J SER* 3.4 4.3 + - - -
155J ILE* 3.1 28.1 + - - +
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Residues in contact with LYS 152 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79H ARG* 4.1 5.7 - - - +
141H ASP* 5.5 0.8 + - - -
142H SER* 4.9 9.4 + - - +
143H VAL* 4.0 14.5 - - + +
126J ALA* 3.9 20.2 - - - +
129J PHE* 3.7 14.0 - - + +
130J GLN* 3.1 42.9 + - - +
133J PHE* 5.7 3.1 - - + -
148J PHE 2.9 18.4 + - - +
149J ASN* 3.5 7.0 - - - +
151J ALA* 1.3 73.8 - - - +
153J ALA* 1.3 65.6 + - - +
155J ILE* 4.7 2.0 - - - -
156J GLU* 2.8 68.4 + - + +
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Residues in contact with ALA 153 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79H ARG* 4.7 2.8 + - - -
143H VAL* 3.6 33.1 - - + +
149J ASN* 2.9 14.2 + - - +
150J VAL* 3.4 13.5 - - - +
151J ALA 3.3 0.2 - - - -
152J LYS* 1.3 75.8 - - - +
154J SER* 1.3 57.8 + - - +
156J GLU* 3.5 4.7 + - - +
157J LYS* 3.1 26.5 + - - +
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Residues in contact with SER 154 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68J GLU* 2.4 24.5 + - - -
72J TYR* 3.1 22.9 - - - -
150J VAL 3.3 5.7 + - - -
151J ALA 3.7 1.1 - - - -
152J LYS 3.2 0.4 - - - -
153J ALA* 1.3 78.7 - - - +
155J ILE* 1.3 64.0 + - - +
157J LYS* 3.2 8.5 + - - +
158J HIS* 3.0 31.7 + - - -
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Residues in contact with ILE 155 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68J GLU* 4.5 4.9 - - - +
69J ILE* 3.9 28.3 - - + -
72J TYR* 4.3 9.2 - - + -
122J PHE* 3.3 56.8 - - + +
125J LEU* 4.5 5.6 - - + -
126J ALA* 4.1 13.0 - - + +
129J PHE* 3.9 16.4 - - + -
151J ALA 3.1 17.8 + - - +
152J LYS* 4.1 4.9 - - - +
154J SER* 1.3 75.8 - - - +
156J GLU* 1.3 57.6 + - - +
158J HIS* 3.3 8.8 + - + +
159J ILE* 3.0 27.4 + - + +
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Residues in contact with GLU 156 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79H ARG* 2.7 43.6 + - - +
82H THR* 3.9 14.5 - - + +
143H VAL* 4.1 2.1 - - - +
126J ALA* 4.2 15.8 - - + +
152J LYS* 2.8 54.4 + - - +
153J ALA 3.8 3.8 - - - +
155J ILE* 1.3 76.8 - - - +
157J LYS* 1.3 62.4 + - - +
159J ILE* 3.1 10.3 + - - +
160J TRP 3.1 17.7 + - - -
172J LEU* 3.8 27.6 - - + +
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Residues in contact with LYS 157 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74H ASP* 5.3 0.4 + - - -
75H GLU* 4.6 21.2 + - - +
78H GLU* 2.9 38.9 + - + +
79H ARG* 5.5 0.2 - - - +
82H THR* 4.2 11.6 - - - +
153J ALA 3.1 14.4 + - - +
154J SER* 3.2 11.0 + - - +
156J GLU* 1.3 75.0 - - - +
158J HIS* 1.3 67.1 + - + +
160J TRP* 3.2 16.1 + - + +
161J MET* 3.1 46.2 + - + +
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Residues in contact with HIS 158 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61J LYS* 6.3 0.9 - - - -
65J TYR* 3.6 34.3 + + + +
68J GLU* 2.8 37.0 + - - -
122J PHE* 3.7 24.7 - + + -
154J SER* 3.0 26.5 + - - -
155J ILE* 3.6 10.8 - - + +
156J GLU 3.3 0.4 - - - -
157J LYS* 1.3 77.3 - - + +
159J ILE* 1.3 60.1 + - - +
161J MET* 3.2 16.5 + - + +
162J LEU* 2.8 35.8 + - - +
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Residues in contact with ILE 159 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119J VAL* 4.5 6.5 - - + +
122J PHE* 3.6 43.1 - - + +
123J ARG* 3.7 26.5 - - + +
126J ALA* 4.3 6.7 - - + -
155J ILE* 3.0 22.3 + - + +
156J GLU* 3.1 8.9 + - - +
158J HIS* 1.3 72.7 - - - +
160J TRP* 1.3 67.3 + - - +
162J LEU* 3.8 5.6 - - - +
163J GLN* 2.9 36.5 + - + +
170J PRO 3.8 22.4 - - - +
172J LEU* 4.0 22.7 - - + -
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Residues in contact with TRP 160 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47F HIS 4.8 0.2 - - - -
48F TRP 4.5 7.1 + - - -
50F MET 5.3 1.0 + - - -
55F PHE* 3.9 19.8 - + - -
59F HIS* 3.6 25.1 - + - -
78H GLU* 3.4 44.9 - - + -
81H ILE* 3.6 40.3 - - + +
82H THR* 3.5 23.1 - - - +
156J GLU 3.1 8.1 + - - +
157J LYS* 3.2 28.0 + - + +
159J ILE* 1.3 77.6 - - - +
161J MET* 1.3 76.9 + - + +
163J GLN* 3.7 1.9 - - - +
164J ALA* 2.8 32.0 + - + +
168J GLN 5.0 0.6 - - - +
170J PRO* 3.9 28.3 - - + +
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Residues in contact with MET 161 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55F PHE* 3.6 29.1 - - + -
56F MET* 3.8 27.3 - - + +
59F HIS* 4.7 12.8 - - + +
78H GLU* 5.0 1.8 - - - +
65J TYR* 5.4 2.0 - - - +
157J LYS* 3.1 34.0 + - + +
158J HIS* 3.2 17.9 + - + +
160J TRP* 1.3 104.3 - - + +
162J LEU* 1.3 67.2 + - + +
164J ALA* 3.2 2.8 + - - +
165J GLU* 3.0 23.2 + - - +
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Residues in contact with LEU 162 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58J TRP* 3.6 29.8 - - + -
65J TYR* 3.7 15.3 - - + +
115J LEU* 4.3 23.6 - - + -
118J VAL* 3.9 17.5 - - + -
119J VAL* 3.4 24.7 - - + +
122J PHE* 3.8 29.2 - - + -
158J HIS 2.8 21.5 + - - +
159J ILE* 3.9 1.8 - - - +
161J MET* 1.3 75.0 - - - +
163J GLN* 1.3 63.1 + - - +
165J GLU* 3.3 6.6 + - - +
166J LEU* 3.1 29.0 + - + +
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Residues in contact with GLN 163 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119J VAL* 3.5 22.8 - - + +
123J ARG* 3.2 28.5 + - - +
159J ILE* 2.9 28.7 + - + +
160J TRP 3.7 3.1 - - - +
162J LEU* 1.3 73.8 - - - +
164J ALA* 1.3 60.5 + - - +
166J LEU* 3.2 13.9 + - - +
167J GLY 3.1 4.9 + - - -
168J GLN* 2.7 62.2 + - - +
169J ALA 3.0 34.0 + - - +
170J PRO* 3.9 5.2 - - + +
171J LYS* 3.5 3.6 - - - +
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Residues in contact with ALA 164 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50F MET 3.8 8.7 - - - +
51F ARG* 3.6 7.6 - - + -
52F GLY 2.8 19.0 + - - -
55F PHE* 3.5 33.9 - - + -
160J TRP* 2.8 25.0 + - + +
161J MET 3.2 4.9 + - - +
163J GLN* 1.3 75.7 - - - +
165J GLU* 1.3 59.3 + - - +
167J GLY* 2.8 17.0 + - - -
168J GLN 3.6 8.9 + - - +
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Residues in contact with GLU 165 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52F GLY 3.2 22.4 - - - -
53F ARG* 2.9 41.0 + - - +
54F GLY* 3.0 19.2 + - - -
55F PHE* 3.2 9.7 + - + +
56F MET* 2.9 31.8 + - - +
57J ILE* 6.1 0.2 - - - -
58J TRP* 3.5 35.8 + - + +
115J LEU* 4.1 10.1 - - + -
161J MET 3.0 13.0 + - - +
162J LEU* 3.3 9.2 + - - +
164J ALA* 1.3 76.1 - - - +
166J LEU* 1.3 55.9 - - + +
167J GLY 3.2 3.8 + - - -
173J EPE 4.1 4.3 + - - -
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Residues in contact with LEU 166 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53F ARG* 5.2 3.6 - - - +
112J GLU* 3.7 37.9 - - + +
115J LEU* 3.9 24.9 - - + -
116J ALA* 4.0 29.2 - - + +
119J VAL* 4.3 4.3 - - + -
162J LEU 3.1 19.5 + - - +
163J GLN* 3.7 20.4 - - - +
164J ALA 3.2 0.4 - - - -
165J GLU* 1.3 74.1 - - + +
167J GLY* 1.3 61.2 + - - +
168J GLN* 3.3 27.6 + - - +
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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