Contacts of the helix formed by residues 134 - 157 (chain N) in PDB entry 1H2I
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 SER 134 (chain N).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103N PHE* 3.8 1.6 - - - -
132N LEU* 3.4 2.5 - - - +
133N LYS* 1.3 79.1 - - - +
135N LYS* 1.3 62.7 + - - +
137N LEU* 3.1 37.5 + - - +
138N SER* 3.0 25.5 + - - -
130O GLU* 2.8 27.1 + - - -
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Residues in contact with LYS 135 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96N VAL* 4.3 15.5 - - + -
103N PHE* 3.5 49.0 - - + -
134N SER* 1.3 71.8 + - - +
136N ALA* 1.3 58.8 + - - +
138N SER* 3.0 5.0 + - - -
139N LEU* 2.8 38.7 + - + +
95O PHE* 3.7 37.8 - - + +
97O ASP* 2.7 36.0 + - - +
130O GLU* 4.8 1.4 + - - -
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Residues in contact with ALA 136 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134N SER* 3.3 0.6 - - - +
135N LYS* 1.3 80.3 - - - +
137N LEU* 1.3 56.3 + - - +
139N LEU 3.4 0.2 + - - -
140N GLU* 2.9 31.2 + - - +
95O PHE* 3.4 24.6 - - + -
105O VAL 4.4 3.6 - - - +
106O GLY* 4.5 2.0 - - - -
126O TYR* 3.7 7.1 - - - -
128O VAL* 3.5 35.7 - - + -
130O GLU* 3.8 13.4 + - + +
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Residues in contact with LEU 137 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132N LEU* 4.1 16.6 - - + +
134N SER* 3.1 30.1 + - - +
136N ALA* 1.3 80.1 - - + +
138N SER* 1.3 56.4 + - - +
140N GLU* 3.6 22.6 - - - +
141N LYS* 3.0 29.6 + - - +
128O VAL* 4.7 9.0 - - + -
130O GLU* 3.8 15.0 - - - +
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Residues in contact with SER 138 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103N PHE* 3.7 17.5 + - - +
105N VAL* 3.8 20.6 - - - -
129N SER* 3.4 29.9 + - - -
132N LEU* 3.5 15.1 - - - +
134N SER 3.0 15.9 + - - -
135N LYS 3.0 9.8 + - - -
137N LEU* 1.3 74.3 - - - +
139N LEU* 1.3 65.7 + - - +
141N LYS 3.4 0.9 + - - -
142N ALA* 3.0 22.0 + - - +
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Residues in contact with LEU 139 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93N VAL* 4.4 18.2 - - + -
96N VAL* 4.0 22.2 - - + -
105N VAL* 3.6 26.2 - - + -
107N VAL* 4.7 2.5 - - + -
135N LYS* 2.8 29.8 + - + +
136N ALA 3.8 0.7 - - - +
138N SER* 1.3 73.1 - - - +
140N GLU* 1.3 65.2 + - - +
142N ALA* 3.3 0.7 + - - -
143N ARG* 2.9 32.6 + - + +
94O ASP* 3.5 21.1 - - + +
95O PHE* 4.0 25.4 - - + -
126O TYR* 3.4 15.0 - - + +
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Residues in contact with GLU 140 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136N ALA 2.9 17.8 + - - +
137N LEU* 3.6 27.2 - - - +
139N LEU* 1.3 76.8 - - - +
141N LYS* 1.3 64.0 + - - +
143N ARG* 5.0 0.2 - - - -
144N LYS* 3.0 62.6 + - + +
126O TYR* 3.5 35.6 - - + +
128O VAL* 4.7 7.5 - - - +
149O ASP* 4.5 0.7 - - - +
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Residues in contact with LYS 141 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128N VAL 2.7 27.3 + - - +
129N SER* 4.0 14.3 - - - +
132N LEU* 5.1 8.5 - - + -
137N LEU 3.0 17.4 + - - +
138N SER 3.8 3.8 - - - +
140N GLU* 1.3 80.9 - - - +
142N ALA* 1.3 58.6 + - - +
144N LYS* 4.0 2.4 - - - +
145N GLU* 2.8 66.3 + - + +
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Residues in contact with ALA 142 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105N VAL* 3.9 16.2 - - + +
107N VAL* 3.7 17.7 - - + +
127N GLY* 3.3 30.2 - - - +
128N VAL 4.1 6.3 - - - +
129N SER* 4.6 0.2 - - - -
138N SER 3.0 16.6 + - - +
139N LEU 4.0 0.9 - - - +
141N LYS* 1.3 76.9 - - - +
143N ARG* 1.3 65.2 + - - +
146N ALA* 3.1 24.9 + - - +
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Residues in contact with ARG 143 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91N GLN* 2.9 61.0 + - - +
93N VAL* 3.6 26.6 - - - +
107N VAL* 4.0 13.2 - - + -
139N LEU* 2.9 22.2 + - + +
140N GLU* 4.3 2.5 - - - +
142N ALA* 1.3 75.6 - - - +
144N LYS* 1.3 66.1 + - + +
147N VAL* 3.2 13.3 + - - +
92O ASN* 5.3 4.4 + - - +
94O ASP* 2.5 46.5 + - - -
108O CYS* 3.4 25.3 - - - -
110O PHE* 4.6 4.9 - - - -
124O VAL* 4.3 9.4 - - + -
126O TYR* 3.8 22.9 - - + -
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Residues in contact with LYS 144 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140N GLU* 3.0 47.8 + - + +
141N LYS* 4.1 3.4 - - - +
143N ARG* 1.3 80.3 - - + +
145N GLU* 1.3 62.4 + - + +
147N VAL* 3.3 3.3 + - - +
148N THR* 3.1 25.2 + - - -
124O VAL* 4.2 13.0 - - + +
125O GLY 4.5 0.7 - - - -
126O TYR* 4.0 13.0 - - + +
149O ASP* 2.7 34.5 + - - -
153O ARG* 3.6 40.4 + - - +
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Residues in contact with GLU 145 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126N TYR 3.9 3.6 - - - +
127N GLY* 4.0 9.1 - - - -
128N VAL* 3.7 10.7 + - - +
141N LYS* 2.8 64.4 + - + +
144N LYS* 1.3 73.7 - - + +
146N ALA* 1.3 58.2 + - - +
148N THR* 4.0 5.3 - - - +
149N ASP* 2.7 38.8 + - + +
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Residues in contact with ALA 146 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91N GLN* 3.8 4.5 - - - +
107N VAL* 3.5 33.2 - - + +
109N ALA* 3.7 15.6 - - + +
125N GLY* 3.5 7.6 - - - -
126N TYR 3.5 13.5 - - - +
127N GLY* 3.6 1.4 - - - +
142N ALA 3.1 19.1 + - - +
143N ARG 3.6 4.7 - - - +
145N GLU* 1.3 77.6 - - - +
147N VAL* 1.3 62.8 + - - +
150N GLY* 2.9 20.4 + - - -
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Residues in contact with VAL 147 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86N HIS* 5.2 6.5 - - + +
88N ILE* 3.9 29.2 - - + -
91N GLN* 3.6 17.3 - - - +
109N ALA* 3.9 11.9 - - + -
111N VAL* 3.6 6.5 - - + +
143N ARG 3.2 1.8 + - - +
144N LYS 3.6 7.0 - - - +
145N GLU 3.2 0.6 - - - -
146N ALA* 1.3 76.3 - - - +
148N THR* 1.3 58.1 + - - +
150N GLY* 3.1 2.9 + - - -
151N LEU* 2.8 28.1 + - + +
110O PHE* 5.0 0.7 - - + -
122O GLU 4.9 2.5 - - - +
123O ASP* 3.7 22.9 - - - +
124O VAL* 3.2 29.2 - - + -
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Residues in contact with THR 148 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68N GLY* 4.0 27.6 - - - +
72N ILE* 6.4 1.3 - - + -
144N LYS 3.1 14.2 + - - -
145N GLU* 4.0 5.4 - - - -
147N VAL* 1.3 78.7 - - - +
149N ASP* 1.3 63.7 + - - +
151N LEU* 3.2 11.9 + - + +
152N LYS* 2.9 32.9 + - + +
123O ASP* 5.2 2.4 + - - -
153O ARG* 3.8 17.3 + - - -
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Residues in contact with ASP 149 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140M GLU* 4.5 0.6 - - - +
144M LYS* 2.8 31.7 + - - -
125N GLY* 3.3 3.0 - - - -
126N TYR 2.8 27.0 + - - +
145N GLU* 2.7 23.7 + - + +
146N ALA 3.6 3.8 - - - +
148N THR* 1.3 73.8 - - - +
150N GLY* 1.3 56.9 + - - +
152N LYS* 3.2 21.0 + - - +
153N ARG* 2.9 37.1 + - - +
156N ARG* 5.2 4.3 + - - -
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Residues in contact with GLY 150 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111N VAL* 3.8 15.5 - - - +
123N ASP* 4.5 2.8 - - - +
124N VAL 4.0 5.6 - - - -
125N GLY* 3.3 22.8 - - - -
146N ALA 2.9 12.4 + - - -
147N VAL 3.5 3.6 - - - -
149N ASP* 1.3 75.1 - - - +
151N LEU* 1.3 64.9 + - - +
153N ARG* 3.2 0.9 + - - +
154N ALA* 2.9 26.0 + - - +
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Residues in contact with LEU 151 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71N VAL* 5.6 1.6 - - + -
72N ILE* 4.3 26.5 - - + -
84N TRP* 3.9 10.1 - - + -
86N HIS* 3.8 47.6 - - + +
111N VAL* 3.7 14.0 - - + +
113N VAL* 4.7 6.1 - - + -
147N VAL* 2.8 16.9 + - + +
148N THR* 3.7 11.2 - - + +
150N GLY* 1.3 76.1 - - - +
152N LYS* 1.3 66.3 + - + +
154N ALA* 3.3 0.9 + - - +
155N LEU* 3.0 48.9 + - + +
157O SER* 5.4 0.2 - - - +
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Residues in contact with LYS 152 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65N TYR* 4.3 16.0 - - - +
66N ILE* 2.8 33.6 + - + +
67N GLU* 5.0 0.2 - - - +
68N GLY* 4.0 14.5 - - - +
71N VAL* 3.9 31.1 - - + +
148N THR* 2.9 27.7 + - + +
149N ASP* 3.6 20.1 + - - +
151N LEU* 1.3 82.1 - - + +
153N ARG* 1.3 62.6 + - - +
155N LEU* 3.4 6.0 + - - +
156N ARG* 3.1 45.6 + - - +
162N LEU 4.7 1.9 - - - +
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Residues in contact with ARG 153 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144M LYS* 3.5 57.8 + - - +
147M VAL* 4.8 0.2 - - - +
148M THR* 3.8 17.6 + - - -
123N ASP* 2.5 59.4 + - + +
124N VAL* 2.8 27.8 + - - +
149N ASP* 2.9 22.0 + - - +
150N GLY 3.2 2.2 + - - +
152N LYS* 1.3 75.7 - - - +
154N ALA* 1.3 65.7 + - - +
156N ARG* 3.2 44.4 + - - +
157N SER* 3.8 4.2 + - - -
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Residues in contact with ALA 154 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111N VAL* 3.7 15.5 - - + +
113N VAL* 3.4 26.1 - - + +
121N HIS* 3.6 16.1 - - - +
122N GLU 4.8 1.1 - - - -
123N ASP* 3.8 11.8 - - - +
150N GLY 2.9 17.8 + - - +
151N LEU* 3.7 4.3 - - - +
153N ARG* 1.3 76.0 - - - +
155N LEU* 1.3 64.2 + - - +
157N SER* 3.1 25.6 + - - -
158N PHE* 4.4 1.0 + - - -
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Residues in contact with LEU 155 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71N VAL* 3.9 20.4 - - + -
72N ILE* 5.8 0.4 - - - +
75N ALA* 4.6 7.9 - - + -
79N PHE* 5.0 4.7 - - + -
84N TRP* 4.2 16.6 - - + -
113N VAL* 3.5 29.6 - - + -
151N LEU* 3.0 45.6 + - + +
152N LYS 3.7 4.5 - - - +
154N ALA* 1.3 78.2 - - - +
156N ARG* 1.3 62.5 + - - +
158N PHE* 3.0 32.3 + - + -
162N LEU* 3.6 35.1 - - + +
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Residues in contact with ARG 156 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72M ILE* 5.3 3.1 - - + -
65N TYR* 6.2 2.2 - - - +
66N ILE* 4.9 9.1 - - - +
71N VAL* 6.1 1.2 - - - +
149N ASP* 5.2 4.8 + - - -
152N LYS* 3.1 42.1 + - - +
153N ARG* 3.4 33.4 - - - +
154N ALA 3.2 0.8 - - - -
155N LEU* 1.3 75.1 - - - +
157N SER* 1.3 63.9 + - - +
159N GLY 2.9 19.9 + - - +
162N LEU 3.9 11.1 + - - +
163N GLY* 3.7 23.7 + - - +
164N ASN* 3.4 26.2 - - - +
166N ILE* 4.0 25.5 - - - +
167N LEU* 4.2 15.1 - - - +
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Residues in contact with SER 157 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72M ILE* 3.3 23.7 - - - +
76M ASN* 2.9 24.1 + - - +
84M TRP* 3.8 8.8 - - - -
86M HIS* 3.4 19.3 - - - -
151M LEU* 5.2 0.3 - - - +
121N HIS* 3.3 29.4 - - - +
123N ASP* 5.1 2.6 + - - -
153N ARG 4.0 5.0 + - - -
154N ALA* 3.1 17.2 + - - -
155N LEU 3.0 0.6 + - - -
156N ARG* 1.3 78.0 - - - +
158N PHE* 1.3 56.0 + - - +
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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