Contacts of the helix formed by residues 137 - 161 (chain E) in PDB entry 3ZNI
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 137 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131E ARG* 2.6 62.4 + - - +
134E GLU* 2.9 15.7 + - - +
135E GLU 4.4 0.9 - - - +
136E GLN* 1.3 82.4 - - - +
138E GLN* 1.3 63.2 + - - +
139E ASP* 3.7 4.3 + - - -
140E ARG* 3.2 15.4 + - - +
141E ARG* 3.2 17.0 + - - +
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Residues in contact with GLN 138 (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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131E ARG* 4.9 0.8 - - - +
136E GLN 3.8 0.8 + - - -
137E SER* 1.3 70.8 - - - +
139E ASP* 1.3 62.2 + - - +
141E ARG* 3.0 22.8 + - - +
142E ASN* 2.9 55.9 + - - +
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Residues in contact with ASP 139 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124E LEU* 3.5 19.2 - - + +
127E GLU 5.0 0.7 - - - -
128E GLY* 3.6 17.2 + - - -
131E ARG* 3.4 29.3 + - + +
132E MET* 3.7 21.6 - - - +
137E SER* 3.2 8.3 - - - +
138E GLN* 1.3 78.6 + - - +
140E ARG* 1.3 57.8 + - - +
142E ASN* 3.3 14.3 + - - +
143E LEU* 3.1 20.8 + - - +
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Residues in contact with ARG 140 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64E LYS 4.8 0.2 + - - -
65E LEU* 2.3 42.6 + - - +
66E GLN 4.1 5.5 + - - -
67E LEU* 3.8 20.8 - - - +
132E MET* 2.8 38.8 + - - +
133E TYR* 4.0 6.9 + - - +
134E GLU 3.7 5.4 - - - +
135E GLU* 3.6 47.0 - - + +
137E SER* 3.2 21.5 + - - +
138E GLN 3.2 0.2 - - - -
139E ASP* 1.3 78.6 - - - +
141E ARG* 1.3 64.2 + - - +
143E LEU* 3.2 20.5 + - - +
144E THR* 3.0 28.5 + - - +
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Residues in contact with ARG 141 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135E GLU 5.5 0.2 + - - -
137E SER 3.2 11.5 + - - +
138E GLN* 3.0 34.2 + - - +
140E ARG* 1.3 76.8 - - - +
142E ASN* 1.3 58.8 + - - +
144E THR* 3.2 15.0 + - - +
145E LYS* 2.9 43.5 + - - +
262E ALA 4.3 3.4 + - - -
263E PHE* 2.8 37.8 + - - +
264E LEU* 4.1 6.6 - - - +
268E GLU* 2.9 41.9 + - - +
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Residues in contact with ASN 142 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120E ARG* 5.2 7.4 - - - +
124E LEU* 3.7 20.2 - - + +
138E GLN* 2.9 42.6 + - - +
139E ASP* 3.5 16.1 + - - +
140E ARG 3.3 0.2 - - - -
141E ARG* 1.3 76.8 - - - +
143E LEU* 1.3 62.4 + - - +
145E LYS* 3.5 9.4 + - - +
146E LEU* 3.1 28.7 + - + +
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Residues in contact with LEU 143 (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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56E VAL* 5.8 0.7 - - + -
60E CYS* 4.2 16.6 - - - -
65E LEU* 4.7 3.6 - - + -
67E LEU* 4.5 17.9 - - + -
74E ILE* 5.6 4.5 - - + -
121E ALA* 5.1 8.7 - - + -
124E LEU* 3.4 17.0 - - + +
125E PHE* 4.1 27.6 - - + -
132E MET* 4.0 16.6 - - + -
139E ASP 3.1 9.7 + - - +
140E ARG* 3.4 23.1 - - - +
141E ARG 3.2 0.6 - - - -
142E ASN* 1.3 74.6 - - - +
144E THR* 1.3 60.0 + - - +
146E LEU* 3.2 10.7 + - + +
147E SER* 2.9 39.0 + - - +
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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
----------------------------------------------------------
72E PRO* 4.8 2.0 - - + +
140E ARG* 3.0 17.7 + - - +
141E ARG* 3.2 13.2 + - - +
143E LEU* 1.3 77.1 - - - +
145E LYS* 1.3 62.0 + - - +
147E SER* 3.1 9.7 + - - -
148E LEU* 3.0 23.2 + - + +
265E THR* 3.6 29.8 - - + +
268E GLU* 3.7 25.5 + - + +
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Residues in contact with LYS 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141E ARG* 2.9 29.1 + - - +
142E ASN* 3.6 13.7 - - - +
144E THR* 1.3 77.7 - - - +
146E LEU* 1.3 64.6 + - + +
148E LEU* 3.2 6.4 + - + +
149E ILE* 3.0 40.4 + - + +
224E CYS* 4.0 9.3 - - - -
263E PHE* 3.6 56.8 - - + +
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Residues in contact with LEU 146 (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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74E ILE* 6.3 0.2 - - + -
117E LYS* 4.0 33.8 - - + +
120E ARG* 4.1 17.0 - - + -
121E ALA* 3.6 40.4 - - + +
124E LEU* 4.2 11.9 - - + -
142E ASN* 3.1 19.2 + - + +
143E LEU* 3.2 11.9 + - + +
145E LYS* 1.3 77.6 - - + +
147E SER* 1.3 57.6 + - - +
149E ILE* 3.3 13.7 + - + +
150E PHE* 2.9 43.6 + - + -
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Residues in contact with SER 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72E PRO* 4.0 21.3 - - - -
74E ILE* 3.7 37.5 - - - +
77E ILE* 3.6 7.8 - - - +
143E LEU* 2.9 24.1 + - - +
144E THR* 3.1 13.5 + - - -
146E LEU* 1.3 75.7 - - - +
148E LEU* 1.3 57.7 + - - +
150E PHE* 3.5 0.9 + - - +
151E SER* 3.0 27.7 + - - -
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Residues in contact with LEU 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72E PRO* 3.9 22.2 - - + +
144E THR* 3.0 12.8 + - + +
145E LYS* 3.4 11.4 - - - +
147E SER* 1.3 75.5 - - - +
149E ILE* 1.3 59.5 + - - +
151E SER* 3.1 5.6 + - - -
152E HIS* 2.9 61.9 + - + +
263E PHE* 3.4 50.7 - - + +
264E LEU 4.1 6.5 - - - +
265E THR* 4.1 14.8 - - + -
287E LEU 6.2 0.2 - - - +
289E CYS* 4.1 17.0 - - + -
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Residues in contact with ILE 149 (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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117E LYS* 3.9 24.2 - - + -
145E LYS* 3.0 32.7 + - + +
146E LEU* 3.3 17.7 + - + +
148E LEU* 1.3 75.5 - - - +
150E PHE* 1.3 58.5 + - + +
152E HIS* 3.2 3.8 + - - +
153E MET* 2.8 45.5 + - - +
222E LEU 4.0 10.3 - - - +
223E THR* 3.3 24.2 - - - +
224E CYS* 3.7 34.3 - - + -
263E PHE* 4.9 1.8 - - + -
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Residues in contact with PHE 150 (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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56E VAL* 5.0 1.1 - - + -
74E ILE* 3.6 23.6 - - + -
77E ILE* 3.6 20.0 - - + +
78E LEU* 3.8 23.8 - - + -
81E THR* 4.7 2.3 + - - +
114E LEU* 3.8 27.1 - - + -
117E LYS* 3.5 47.8 - - + -
118E SER* 3.7 11.9 - - - -
121E ALA* 4.8 8.3 - - + -
146E LEU* 2.9 37.0 + - + +
147E SER 3.8 3.8 - - - +
149E ILE* 1.3 72.4 - - + +
151E SER* 1.3 57.2 + - - +
153E MET* 3.3 10.1 + - + +
154E LEU* 2.9 30.3 + - - +
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Residues in contact with SER 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72E PRO* 4.0 9.1 - - - +
77E ILE* 3.6 23.5 - - - +
147E SER 3.0 15.4 + - - -
148E LEU 3.1 8.7 + - - -
150E PHE* 1.3 76.4 - - - +
152E HIS* 1.3 62.7 + - - +
154E LEU* 3.3 5.6 + - - +
155E ALA* 3.1 22.2 + - - +
289E CYS* 3.3 27.1 + - - -
292E LEU* 5.2 0.6 - - - +
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Residues in contact with HIS 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148E LEU* 2.9 49.6 + - + +
149E ILE 3.7 3.8 - - - +
151E SER* 1.3 78.2 + - - +
153E MET* 1.3 58.7 + - - +
155E ALA* 3.4 2.9 + - - +
156E GLU* 2.9 28.6 + - - +
222E LEU* 3.6 46.9 - - + +
223E THR* 4.3 14.2 - - + +
231E PHE* 4.2 4.1 - - + -
263E PHE* 4.4 10.4 - + - -
287E LEU* 5.5 5.6 - - + +
288E SER 5.2 0.7 - - - -
289E CYS* 4.7 11.1 + - - -
292E LEU* 3.7 36.1 - - + +
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Residues in contact with MET 153 (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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110E TYR* 3.7 34.5 - - + +
113E SER* 3.7 27.4 - - - -
114E LEU* 3.8 20.0 - - + +
117E LYS* 4.5 10.1 - - - -
149E ILE* 2.8 35.1 + - - +
150E PHE* 3.6 21.3 - - + +
152E HIS* 1.3 73.6 - - - +
154E LEU* 1.3 61.1 + - - +
156E GLU* 3.2 5.9 + - - +
157E ILE* 2.9 30.7 + - - +
223E THR* 3.7 29.6 - - + +
225E ASN* 6.0 0.2 - - - +
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Residues in contact with LEU 154 (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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77E ILE* 4.0 21.3 - - + +
80E ASP* 3.8 27.4 - - + +
81E THR* 3.5 34.1 + - - +
84E HIS* 4.7 1.6 - - + -
110E TYR* 5.1 0.9 - - - -
150E PHE 2.9 16.1 + - - +
151E SER* 3.6 5.8 - - - +
152E HIS 3.3 0.2 - - - -
153E MET* 1.3 76.6 - - - +
155E ALA* 1.3 62.3 + - - +
157E ILE* 3.2 17.6 - - + +
158E LYS* 3.2 51.8 + - + +
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Residues in contact with ALA 155 (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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151E SER 3.1 11.1 + - - +
152E HIS 3.7 2.9 - - - +
154E LEU* 1.3 77.5 - - - +
156E GLU* 1.3 63.8 + - - +
158E LYS* 3.6 7.6 + - - +
159E ALA* 3.2 23.0 + - - +
231E PHE* 3.8 7.8 - - + -
292E LEU* 3.5 31.9 - - + -
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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
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106E TYR* 2.6 35.6 + - + +
110E TYR* 4.5 6.4 - - - -
152E HIS 2.9 18.1 + - - +
153E MET* 3.5 6.1 - - - +
154E LEU 3.1 0.2 - - - -
155E ALA* 1.3 77.8 - - - +
157E ILE* 1.3 57.5 + - - +
159E ALA* 3.1 2.9 + - - +
160E ILE* 2.9 34.6 + - + +
191E ILE* 5.7 0.7 - - - +
223E THR* 3.9 16.6 + - + +
225E ASN* 5.5 3.1 + - - -
229E SER* 2.6 28.6 + - - +
231E PHE* 3.6 27.5 - - + -
232E GLU* 3.8 16.1 - - - +
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Residues in contact with ILE 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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81E THR* 5.6 0.7 - - + +
84E HIS* 3.6 25.0 + - + -
85E LEU* 4.8 2.0 - - + -
88E ILE* 3.9 13.7 - - + -
106E TYR* 3.6 29.5 + - + -
107E PHE* 4.7 2.9 - - + -
110E TYR* 3.7 41.5 - - + +
153E MET 2.9 15.3 + - - +
154E LEU* 3.2 24.5 - - + +
156E GLU* 1.3 75.4 - - - +
158E LYS* 1.3 56.5 + - - +
160E ILE* 4.5 0.9 - - - +
161E PHE* 2.7 48.2 + - + +
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Residues in contact with LYS 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80E ASP* 4.7 14.3 + - - +
84E HIS* 3.8 37.5 - - + +
154E LEU* 3.2 46.1 + - + +
155E ALA* 3.9 7.0 - - - +
157E ILE* 1.3 75.8 - - - +
159E ALA* 1.3 62.0 + - - +
160E ILE 3.4 0.2 - - - -
162E PRO* 3.3 25.1 - - - +
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Residues in contact with ALA 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155E ALA 3.2 17.2 + - - +
156E GLU 3.1 4.1 + - - +
158E LYS* 1.3 77.8 - - - +
160E ILE* 1.3 65.3 + - + +
162E PRO* 3.6 10.6 - - - +
167E GLN* 5.1 3.6 - - - +
171E PHE* 4.2 19.0 - - + +
231E PHE* 3.5 30.3 - - + -
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Residues in contact with ILE 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106E TYR* 3.9 26.7 - - + -
156E GLU* 2.9 25.7 + - + +
157E ILE 4.2 0.4 - - - +
159E ALA* 1.3 80.3 - - - +
161E PHE* 1.3 61.2 + - + +
162E PRO* 3.3 7.1 - - - +
166E PHE* 3.7 26.9 - - + -
167E GLN* 2.8 31.7 + - - -
168E GLY* 3.3 11.7 + - - +
171E PHE* 4.3 10.1 - - + -
190E THR* 3.8 23.3 - - + -
229E SER* 5.7 0.9 - - - -
230E VAL* 4.1 17.7 - - + -
231E PHE* 4.4 8.7 - - + -
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Residues in contact with PHE 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E HIS* 2.8 18.4 + - - +
88E ILE* 3.8 24.7 - - + -
92E TYR* 3.9 5.2 - + - -
101E LEU* 3.8 31.2 - - + -
104E ASN* 4.4 4.0 - - - -
106E TYR* 3.9 20.4 - + - -
107E PHE* 4.2 13.7 - + + -
157E ILE* 2.7 34.3 + - + +
160E ILE* 1.3 81.6 - - + +
162E PRO* 1.3 66.7 - - - +
164E GLY 2.9 16.3 + - - -
165E GLN 3.3 7.6 - - - -
166E PHE* 3.4 52.0 - + + -
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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