Contacts of the helix formed by residues 133 - 160 (chain E) in PDB entry 5VOT
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 ASN 133 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131E ARG* 3.1 5.0 - - + -
132E HIS* 1.3 79.8 - - - +
134E ILE* 1.3 65.4 + - - +
135E ILE 3.3 2.7 - - - -
136E LEU* 3.4 14.3 + - + +
137E SER* 3.6 8.8 + - - -
201E PHE* 4.0 8.5 - - + -
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Residues in contact with ILE 134 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E CYS* 5.1 4.3 - - + +
124E ALA 5.9 1.1 - - - +
125E SER* 4.8 15.7 - - - -
131E ARG* 3.8 18.5 + - + +
132E HIS 3.7 0.4 - - - -
133E ASN* 1.3 76.2 - - - +
135E ILE* 1.3 65.1 + - - +
137E SER* 2.3 32.0 + - - +
138E ALA* 2.9 7.6 + - - +
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Residues in contact with ILE 135 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125E SER* 4.6 15.7 - - - -
131E ARG 5.3 0.2 + - - -
132E HIS 5.0 2.0 - - - +
133E ASN 3.3 1.2 - - - +
134E ILE* 1.3 78.9 - - - +
136E LEU* 1.3 56.6 + - - +
138E ALA* 3.0 12.8 + - - +
139E GLY* 2.9 23.9 + - - -
197E ALA* 5.9 3.1 - - - +
198E VAL* 5.3 1.9 - - - +
201E PHE* 3.6 26.8 - - + +
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Residues in contact with LEU 136 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542D LEU* 5.9 0.2 - - - +
133E ASN* 3.4 9.3 + - + +
134E ILE 3.2 0.4 - - - -
135E ILE* 1.3 78.9 - - - +
137E SER* 1.3 57.9 + - - +
139E GLY* 3.0 3.3 + - - +
140E ILE* 2.9 30.4 + - - +
198E VAL* 5.3 3.9 - - - +
201E PHE* 3.4 41.3 - - + -
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Residues in contact with SER 137 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E CYS* 4.9 5.4 - - - +
133E ASN 3.6 6.4 + - - -
134E ILE* 2.3 34.9 + - - +
136E LEU* 1.3 78.4 - - - +
138E ALA* 1.3 57.2 + - - +
140E ILE* 4.6 4.3 - - - +
141E PHE* 2.9 59.3 + - - +
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Residues in contact with ALA 138 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118E GLY* 4.7 3.8 - - - +
121E CYS* 3.6 35.4 - - + -
122E ILE* 4.3 9.0 - - + +
125E SER* 5.6 0.2 - - - -
134E ILE 2.9 10.0 + - - +
135E ILE* 3.0 16.6 + - - +
137E SER* 1.3 77.5 + - - +
139E GLY* 1.3 50.3 + - - +
141E PHE* 4.9 1.6 - - - -
142E PHE* 2.5 42.3 + - + +
197E ALA* 6.2 2.7 - - + -
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Residues in contact with GLY 139 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542D LEU* 4.4 1.6 - - - -
135E ILE 2.9 11.4 + - - -
136E LEU 3.0 3.5 + - - -
138E ALA* 1.3 75.0 - - - +
140E ILE* 1.3 59.9 + - - +
142E PHE* 4.2 3.4 - - - -
143E VAL* 2.9 38.7 + - - +
194E GLY 5.4 0.9 - - - -
197E ALA* 5.4 4.5 - - - +
198E VAL* 3.6 29.2 - - - -
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Residues in contact with ILE 140 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
807A MET* 4.1 21.7 - - + +
811A LEU* 4.5 21.8 - - + -
542D LEU* 4.5 11.6 - - + +
136E LEU 2.9 17.6 + - - +
137E SER* 4.2 4.5 - - - +
139E GLY* 1.3 70.3 - - - -
141E PHE* 1.3 63.8 + - + +
143E VAL* 5.3 0.2 - - - -
144E SER* 2.4 40.9 + - - +
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Residues in contact with PHE 141 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
811A LEU* 6.0 4.9 - - + -
114E LEU* 5.0 5.1 - - - +
117E MET* 5.9 7.4 - - + -
118E GLY* 5.4 8.5 - - - +
121E CYS* 5.7 5.4 - - + -
137E SER* 2.9 40.9 + - - +
138E ALA* 4.5 2.5 - - - +
140E ILE* 1.3 83.3 - - + +
142E PHE* 1.3 57.2 + - - +
144E SER* 2.9 5.8 + - - -
145E ALA* 2.9 31.7 + - - +
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Residues in contact with PHE 142 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13E THR* 6.4 1.8 - - + -
16E GLY 5.4 0.9 - - - -
17E ALA* 4.7 24.0 - - + -
20E ALA* 6.0 0.9 - - + -
114E LEU 5.7 0.2 - - - -
115E LEU* 3.8 27.0 - - + +
118E GLY* 4.4 23.1 - - - +
119E GLY 5.6 0.2 - - - -
138E ALA* 2.5 24.8 + - + +
139E GLY* 3.7 2.2 - - - +
141E PHE* 1.3 77.4 - - - +
143E VAL* 1.3 65.7 + - + +
145E ALA* 3.1 9.1 + - - +
146E GLY* 3.0 16.6 + - - -
190E ALA* 2.9 43.4 - - + +
193E VAL* 4.0 11.0 - - + -
194E GLY* 3.3 27.8 - - - -
197E ALA* 5.6 2.5 - - + -
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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
----------------------------------------------------------
807A MET* 6.3 1.3 - - + -
535D GLY* 6.5 0.2 - - - -
538D VAL* 3.6 28.3 - - + -
539D VAL* 4.3 18.6 - - + +
542D LEU* 4.9 12.3 - - + -
139E GLY* 2.9 23.6 + - - +
140E ILE* 4.5 0.4 - - - +
142E PHE* 1.3 74.6 - - + +
144E SER* 1.3 56.5 + - - +
146E GLY* 2.7 23.3 + - - +
147E LEU* 2.9 11.3 + - + +
191E GLU* 4.5 15.4 - - + +
194E GLY* 3.6 35.9 - - - +
198E VAL* 5.9 0.2 - - + -
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Residues in contact with SER 144 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
807A MET* 4.2 23.4 - - - +
539D VAL* 5.8 2.5 - - - -
140E ILE 2.4 26.9 + - - -
141E PHE* 2.9 12.1 + - - -
143E VAL* 1.3 76.3 - - - +
145E ALA* 1.3 65.3 + - - +
147E LEU* 3.0 11.4 + - - +
148E SER* 2.9 22.4 + - - -
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Residues in contact with ALA 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111E SER* 4.3 3.7 - - - +
114E LEU* 3.5 29.4 - - + -
115E LEU* 3.8 20.6 - - + +
141E PHE 2.9 16.7 + - - +
142E PHE* 3.1 8.5 + - - +
144E SER* 1.3 81.3 + - - +
146E GLY* 1.3 60.2 + - - +
148E SER* 2.4 27.6 + - - -
149E ASN* 2.9 9.4 + - - +
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Residues in contact with GLY 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115E LEU* 4.4 7.7 - - - +
142E PHE 3.0 8.7 + - - -
143E VAL* 2.7 15.7 + - - -
145E ALA* 1.3 71.6 - - - +
147E LEU* 1.3 60.3 + - - -
149E ASN* 2.9 20.3 + - - +
150E ILE 3.0 10.6 + - - -
187E PHE* 3.3 19.6 - - - -
190E ALA* 5.1 10.3 - - - -
191E GLU* 5.7 3.6 - - - -
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Residues in contact with LEU 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800A VAL* 5.2 7.1 - - + +
803A LEU* 4.8 20.4 - - + -
535D GLY* 6.0 5.6 - - - -
539D VAL* 5.1 12.6 - - + -
143E VAL* 2.9 9.6 + - + +
144E SER* 3.0 12.5 + - - +
146E GLY* 1.3 74.6 - - - +
148E SER* 1.3 63.2 + - - +
150E ILE* 3.1 6.2 + - - +
151E ILE* 2.9 22.1 + - - +
187E PHE* 4.2 9.1 - - - -
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Residues in contact with SER 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800A VAL* 5.7 2.2 - - - -
107E PHE* 4.3 12.7 - - - +
110E LEU* 5.0 4.3 + - - -
111E SER* 4.2 13.2 - - - -
114E LEU* 5.3 0.7 - - - +
144E SER 2.9 10.3 + - - -
145E ALA* 2.4 33.8 + - - -
147E LEU* 1.3 75.8 - - - +
149E ASN* 1.3 61.9 + - - +
151E ILE* 3.3 9.1 + - - +
152E GLY* 2.9 19.8 + - - -
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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
----------------------------------------------------------
24E MET* 5.0 6.1 - - - +
107E PHE 5.2 0.4 - - - -
108E PRO* 5.1 7.4 - - - +
111E SER* 3.7 22.9 - - - -
115E LEU* 5.0 11.6 - - + +
145E ALA 2.9 12.1 + - - +
146E GLY* 2.9 17.9 + - - +
148E SER* 1.3 76.5 + - - +
150E ILE* 1.3 61.8 + - - +
152E GLY* 3.1 3.4 + - - -
153E ILE* 2.9 22.9 + - - +
183E GLY* 4.1 8.3 + - - +
186E SER* 3.5 24.5 + - - -
187E PHE* 4.3 12.5 - - + +
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Residues in contact with ILE 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
796A PHE* 5.3 8.5 - - + -
531D PHE* 4.7 17.4 - - + -
532D ALA* 5.7 0.9 - - - +
146E GLY 3.0 6.5 + - - -
147E LEU* 3.1 7.8 + - - +
149E ASN* 1.3 74.8 - - - +
151E ILE* 1.3 64.2 + - - +
153E ILE* 3.0 10.0 + - - +
154E ILE* 2.9 21.7 + - - +
187E PHE* 3.4 39.4 - - + -
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Residues in contact with ILE 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
796A PHE* 4.4 8.2 - - + -
800A VAL* 4.0 30.2 - - + +
107E PHE* 5.0 2.2 - - + -
147E LEU 2.9 12.2 + - - +
148E SER* 3.5 11.0 - - - +
150E ILE* 1.3 75.3 - - - +
152E GLY* 1.3 57.4 + - - +
154E ILE* 3.1 10.1 + - - +
155E VAL* 2.9 33.0 + - + +
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Residues in contact with GLY 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107E PHE* 3.5 27.5 - - - +
108E PRO* 4.6 12.5 - - - +
148E SER 2.9 12.2 + - - -
149E ASN 3.1 3.8 + - - -
151E ILE* 1.3 76.8 - - - +
153E ILE* 1.3 62.4 + - - +
155E VAL* 2.9 16.1 + - - +
156E TYR* 2.9 14.9 + - - +
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Residues in contact with ILE 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528D CYS* 5.8 1.8 - - - -
531D PHE* 5.1 15.9 - - + -
149E ASN* 2.9 15.9 + - - +
150E ILE* 3.0 12.5 + - - +
152E GLY* 1.3 74.0 - - - +
154E ILE* 1.3 63.2 + - - +
156E TYR* 3.4 5.1 + - - +
157E ILE* 2.9 25.9 + - - +
180E PHE* 4.9 14.4 - - + -
183E GLY 6.5 0.7 - - - -
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Residues in contact with ILE 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
792A VAL* 6.0 4.3 - - + -
793A ALA* 6.0 3.1 - - + +
796A PHE* 3.9 28.5 - - + -
797A TYR* 5.9 4.3 - - + -
528D CYS* 4.8 17.2 - - + -
150E ILE 2.9 12.4 + - - +
151E ILE 3.3 9.4 - - - +
153E ILE* 1.3 76.4 - - - +
155E VAL* 1.3 57.1 + - + +
157E ILE* 3.5 6.1 + - - +
158E SER* 2.9 30.9 + - - -
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Residues in contact with VAL 155 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797A TYR* 4.6 23.8 - - + +
98E LEU 5.6 1.1 - - - +
101E VAL* 4.1 35.7 - - + +
102E ARG* 5.1 5.6 - - - +
107E PHE* 5.1 5.6 - - + -
108E PRO* 6.4 0.4 - - + -
151E ILE* 2.9 24.7 + - + +
152E GLY* 2.9 12.3 + - - +
154E ILE* 1.3 75.3 - - - +
156E TYR* 1.3 62.7 + - - +
158E SER* 2.3 28.3 + - - +
159E ALA* 2.9 11.1 + - + +
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Residues in contact with TYR 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32E TYR* 5.6 5.4 - - + -
33E TRP* 3.1 33.2 - - + +
61E SER* 5.0 5.0 - - - -
63E LEU* 4.7 25.7 + - + -
102E ARG* 5.9 3.1 - - - +
152E GLY 2.9 13.6 + - - +
153E ILE* 3.9 5.6 - - - +
155E VAL* 1.3 77.7 - - - +
157E ILE* 1.3 69.3 + - - +
158E SER 3.0 1.0 + - - -
159E ALA* 4.7 2.7 - - + +
160E ASN* 3.1 39.7 + - + +
176E TYR* 6.0 4.5 - + - -
180E PHE* 4.4 22.9 - + - -
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Residues in contact with ILE 157 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
789A LEU* 5.2 11.4 - - + +
528D CYS* 5.1 11.9 - - - -
153E ILE 2.9 18.3 + - - +
154E ILE* 3.9 5.8 - - - +
156E TYR* 1.3 82.1 - - - +
158E SER* 1.3 62.1 + - - +
160E ASN* 4.1 9.1 + - - +
161E ALA* 4.8 1.0 + - - +
174E TYR* 5.7 0.7 + - - -
176E TYR* 5.7 7.6 - - + +
180E PHE* 4.6 17.5 - - + -
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Residues in contact with SER 158 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
789A LEU* 5.2 19.4 - - - +
793A ALA* 5.2 9.0 - - - -
797A TYR* 4.4 11.2 + - - -
154E ILE 2.9 14.3 + - - -
155E VAL* 2.3 32.1 + - - +
157E ILE* 1.3 78.5 - - - +
159E ALA* 1.3 62.4 + - - +
160E ASN 3.0 9.9 + - - -
161E ALA* 3.3 16.5 + - - +
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Residues in contact with ALA 159 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98E LEU* 4.7 14.4 - - + +
99E ARG* 5.5 0.7 - - - +
102E ARG* 3.9 28.9 - - + -
155E VAL* 2.9 15.4 + - + +
156E TYR* 4.6 2.9 - - + +
158E SER* 1.3 77.3 + - - +
160E ASN* 1.3 60.0 + - - +
161E ALA 2.9 17.4 - - - +
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Residues in contact with ASN 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156E TYR* 3.1 36.5 + - + +
157E ILE* 4.1 9.4 - - - +
158E SER 3.0 2.0 + - - -
159E ALA* 1.3 76.4 - - - +
161E ALA* 1.3 60.5 + - - +
174E TYR* 5.7 6.3 - - + +
----------------------------------------------------------
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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