Contacts of the helix formed by residues 143 - 172 (chain H) in PDB entry 4D1Q
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 143 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112G VAL* 4.6 1.1 - - - -
142H PRO* 1.3 77.2 - - - +
144H PRO* 1.3 76.6 - - - +
145H ILE* 3.5 14.9 + - - +
146H THR* 2.8 30.1 + - - -
147H LEU* 3.1 10.2 + - - +
6J G 3.0 37.6 + - - -
7J T 4.8 5.2 - - - -
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Residues in contact with PRO 144 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G PHE* 3.9 38.4 - - + +
110G SER* 4.0 7.2 - - - +
112G VAL* 4.2 9.2 - - + -
113G SER* 3.7 30.5 - - - +
143H SER* 1.3 85.4 - - - +
145H ILE* 1.3 70.1 + - + +
147H LEU* 2.9 10.7 + - + +
148H SER* 2.8 27.0 + - - -
6I A 5.1 5.4 - - + +
7J T 6.3 0.2 - - + -
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Residues in contact with ILE 145 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143H SER* 3.6 12.1 - - - +
144H PRO* 1.3 88.1 - - + +
146H THR* 1.3 62.9 + - - +
148H SER* 3.9 9.5 - - - -
149H ARG* 3.3 52.9 + - + +
6I A 6.3 0.2 - - + -
7I C 4.0 46.0 - - + +
8I A 4.5 10.3 - - - +
9I A 5.0 0.9 - - - +
6J G 4.8 2.0 - - - +
7J T 3.6 31.4 - - + +
8J T 5.3 0.7 - - - +
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Residues in contact with THR 146 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G ILE* 3.5 42.2 - - + -
142H PRO* 3.9 5.4 - - + -
143H SER* 2.8 15.5 + - - -
145H ILE* 1.3 75.5 - - - +
147H LEU* 1.3 69.2 + - - +
149H ARG* 2.9 15.7 + - - +
150H LYS* 2.8 22.2 + - + +
5J T 3.8 16.7 - - - +
6J G 2.6 24.6 + - - +
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Residues in contact with LEU 147 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G ILE* 3.6 14.6 - - + +
98G CYS* 3.7 10.8 - - + -
99G ALA* 3.2 35.2 - - + +
102G VAL* 4.3 17.0 - - + -
109G PHE* 4.1 17.7 - - + +
112G VAL* 3.7 40.2 - - + -
142H PRO* 3.9 13.0 - - + -
143H SER 3.1 6.5 + - - +
144H PRO 2.9 7.0 + - - +
146H THR* 1.3 77.7 - - - +
148H SER* 1.3 64.0 + - - +
150H LYS* 3.0 6.7 + - - +
151H VAL* 2.9 25.9 + - - +
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Residues in contact with SER 148 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G PHE* 3.3 32.8 - - - -
144H PRO 2.8 16.0 + - - -
145H ILE* 4.0 10.8 - - - -
147H LEU* 1.3 73.3 - - - +
149H ARG* 1.3 63.5 + - - +
151H VAL* 3.2 5.2 + - - +
152H THR* 3.1 25.6 + - - -
593H THR* 3.9 8.0 + - - +
6I A 5.7 0.2 - - - -
7I C 2.6 29.5 + - - -
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Residues in contact with ARG 149 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145H ILE* 3.3 42.2 + - + +
146H THR* 2.9 10.4 + - - +
148H SER* 1.3 75.5 - - - +
150H LYS* 1.3 60.4 + - - +
151H VAL 3.0 1.6 - - - -
152H THR* 3.3 7.9 + - - +
153H SER* 2.9 32.3 + - - -
8I A 5.7 2.2 + - - -
9I A 4.2 15.4 + - - +
10I C 5.4 3.0 - - - +
5J T 3.6 30.7 + - - +
6J G 3.6 27.1 + - - -
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Residues in contact with LYS 150 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92G LYS* 6.3 2.9 - - + -
95G ILE* 3.7 29.8 - - + -
96G GLU* 4.7 15.0 - - + -
99G ALA* 3.6 25.1 - - + -
146H THR* 2.8 18.4 + - + +
147H LEU* 3.0 8.9 + - - +
149H ARG* 1.3 72.8 - - - +
151H VAL* 1.3 57.7 + - - +
153H SER* 2.9 23.8 + - - -
154H ASP* 2.8 65.5 + - - +
157H GLU* 4.0 9.7 + - - -
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Residues in contact with VAL 151 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99G ALA* 4.1 17.5 - - + +
102G VAL* 4.8 0.4 - - + -
103G VAL* 3.7 25.6 - - + -
109G PHE* 4.6 7.0 - - + -
147H LEU 2.9 12.3 + - - +
148H SER* 3.4 11.0 - - - +
150H LYS* 1.3 75.5 - - - +
152H THR* 1.3 67.8 + - - +
153H SER 3.1 1.3 - - - -
154H ASP* 3.8 4.7 - - + +
155H ALA* 3.0 23.2 + - - +
593H THR* 4.5 4.9 - - + +
596H SER* 3.7 16.8 - - - -
597H LEU* 3.4 28.5 - - + +
600H LEU* 3.9 6.8 - - + +
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Residues in contact with THR 152 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148H SER* 3.1 17.5 + - - -
149H ARG* 4.0 9.1 - - - +
151H VAL* 1.3 74.8 - - - +
153H SER* 1.3 60.4 + - - +
155H ALA* 3.2 15.4 - - - +
156H LYS* 3.7 17.7 + - - +
592H GLN* 3.2 37.0 - - + +
593H THR* 4.1 17.2 + - - -
596H SER* 3.7 15.9 - - - +
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Residues in contact with SER 153 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149H ARG 2.9 17.9 + - - -
150H LYS* 2.9 28.0 + - - -
152H THR* 1.3 75.6 - - - +
154H ASP* 1.3 62.7 + - - +
155H ALA 3.1 2.1 + - - -
156H LYS* 3.4 11.1 + - - +
157H GLU* 3.3 27.3 + - - +
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Residues in contact with ASP 154 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96G GLU* 6.0 1.7 - - - +
99G ALA* 6.1 0.7 - - - +
100G GLN* 5.4 3.8 + - - +
150H LYS* 2.8 50.3 + - + +
151H VAL* 3.8 6.1 - - + +
153H SER* 1.3 71.3 + - - +
155H ALA* 1.3 69.9 - - - +
157H GLU* 3.6 15.8 + - - +
158H LYS* 3.1 40.2 + - - +
600H LEU* 4.2 10.8 - - + +
604H TYR* 3.4 21.8 + - - -
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Residues in contact with ALA 155 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151H VAL 3.0 9.6 + - - +
152H THR 3.2 13.7 - - - +
154H ASP* 1.3 80.5 - - - +
156H LYS* 1.3 66.9 + - + +
158H LYS* 3.6 0.9 - - - +
159H LYS* 2.8 40.4 + - - +
596H SER* 3.3 25.6 - - - +
599H PHE* 4.8 1.1 - - + -
600H LEU* 3.3 19.7 - - + +
----------------------------------------------------------
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Residues in contact with LYS 156 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152H THR* 3.7 14.7 + - - +
153H SER* 3.4 10.8 + - - +
155H ALA* 1.3 78.3 - - + +
157H GLU* 1.3 66.5 + - - +
159H LYS* 3.9 8.8 - - + +
160H ALA* 3.1 24.4 + - - +
234H GLN* 6.3 0.4 - - - +
592H GLN* 4.4 19.2 + - - +
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Residues in contact with GLU 157 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150H LYS* 4.0 11.5 + - - -
153H SER* 3.3 18.2 + - - +
154H ASP* 3.8 19.9 - - - +
155H ALA 3.2 0.2 + - - -
156H LYS* 1.3 76.6 - - - +
158H LYS* 1.3 64.1 + - + +
160H ALA* 3.8 4.6 - - - +
161H LEU* 3.0 26.0 + - - +
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Residues in contact with LYS 158 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100G GLN* 5.9 1.6 - - - +
154H ASP* 3.1 29.6 - - - +
155H ALA 3.1 2.7 + - - +
157H GLU* 1.3 77.8 - - + +
159H LYS* 1.3 66.1 + - - +
161H LEU* 3.2 23.4 + - + +
162H ILE* 3.4 16.8 + - - +
599H PHE* 4.4 7.4 - - + -
600H LEU* 4.3 9.4 - - + -
603H PHE* 3.6 46.7 - - + -
604H TYR* 4.0 26.1 + - - -
608H CYS* 6.0 1.0 - - - -
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Residues in contact with LYS 159 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155H ALA* 2.8 35.1 + - - +
156H LYS* 3.9 7.6 - - + +
158H LYS* 1.3 73.2 - - - +
160H ALA* 1.3 64.3 + - - +
162H ILE* 3.5 13.0 - - - +
163H GLY* 3.6 5.9 + - - -
209H LEU 3.8 12.5 + - - -
212H LYS* 5.9 0.2 - - - +
234H GLN* 2.7 55.3 + - + +
235H PHE* 3.8 21.0 - - + -
595H ASP* 2.8 31.2 + - - -
599H PHE* 3.3 41.0 - - + -
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Residues in contact with ALA 160 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156H LYS 3.1 15.5 + - - +
157H GLU* 3.8 3.8 - - - +
159H LYS* 1.3 79.6 - - - +
161H LEU* 1.4 58.3 + - - +
163H GLY* 2.9 21.5 + - - +
164H ARG 4.6 0.7 + - - -
234H GLN 4.9 7.8 + - - +
235H PHE* 6.0 0.2 - - - +
236H ASN* 6.0 2.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 161 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157H GLU 3.0 15.1 + - - +
158H LYS* 3.2 25.7 + - + +
160H ALA* 1.4 75.1 - - - +
162H ILE* 1.3 76.4 + - + +
163H GLY 3.7 0.2 + - - -
164H ARG* 4.5 6.8 + - - +
603H PHE* 4.5 13.5 - - + -
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Residues in contact with ILE 162 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158H LYS 3.4 14.8 - - - +
159H LYS 3.5 8.1 - - - +
161H LEU* 1.3 87.8 - - + +
163H GLY* 1.3 52.6 + - - +
164H ARG 2.5 20.2 + - - -
165H GLU* 2.5 30.5 + - + +
166H ILE* 3.1 35.7 + - + -
207H LEU* 4.5 5.8 - - + -
235H PHE* 4.3 2.0 - - + -
599H PHE* 4.3 20.0 - - + -
603H PHE* 4.8 2.7 - - + -
607H PHE* 3.2 51.8 - - + -
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Residues in contact with GLY 163 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159H LYS 3.6 8.8 + - - -
160H ALA* 2.9 17.7 + - - -
162H ILE* 1.3 74.0 - - - +
164H ARG* 1.3 54.8 + - - +
166H ILE* 4.3 1.6 - - - +
167H LYS* 3.1 29.7 + - - +
235H PHE* 3.5 29.0 - - - +
236H ASN* 5.3 5.1 - - - +
----------------------------------------------------------
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Residues in contact with ARG 164 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H ALA 4.6 0.6 + - - -
161H LEU 4.5 6.3 + - - +
162H ILE 2.5 7.9 + - - -
163H GLY* 1.3 70.3 - - - +
165H GLU* 1.3 65.2 + - - +
166H ILE 3.1 1.8 - - - -
167H LYS* 3.2 4.0 + - + -
168H SER* 2.8 39.5 + - - -
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Residues in contact with GLU 165 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162H ILE* 2.5 27.1 + - + +
164H ARG* 1.3 82.4 - - - +
166H ILE* 1.3 55.3 + - + +
168H SER* 3.7 7.5 + - - +
169H ALA* 3.3 23.6 + - - +
198H TYR* 3.0 20.2 + - + +
200H GLU* 3.4 23.5 - - - +
205H ARG* 3.0 29.4 + - - -
607H PHE* 4.4 9.8 - - - -
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Residues in contact with ILE 166 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162H ILE* 3.1 42.2 + - + +
163H GLY 4.3 3.6 - - - +
165H GLU* 1.3 77.8 - - - +
167H LYS* 1.3 60.0 + - - +
168H SER 3.2 1.3 - - - -
169H ALA* 3.3 5.9 + - - +
170H VAL* 2.9 32.6 + - + +
196H LEU* 4.1 18.2 - - + -
198H TYR* 4.5 17.0 - - + +
207H LEU* 4.3 12.6 - - + -
209H LEU* 4.3 8.7 - - + -
232H PHE* 5.5 1.6 - - + -
235H PHE* 3.5 29.6 - - + -
237H VAL* 4.2 16.2 - - + -
607H PHE* 5.6 0.2 - - + -
----------------------------------------------------------
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Residues in contact with LYS 167 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163H GLY 3.1 20.0 + - - +
164H ARG* 3.7 6.1 - - + +
166H ILE* 1.3 75.7 - - - +
168H SER* 1.3 69.5 + - - +
170H VAL* 3.5 1.7 + - + +
171H GLU* 3.2 56.8 + - - +
236H ASN* 2.9 38.7 + - + +
237H VAL* 3.8 22.4 - - + +
238H GLU* 4.9 4.4 - - - +
239H ASP 6.0 0.7 - - - +
----------------------------------------------------------
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Residues in contact with SER 168 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164H ARG* 2.8 24.1 + - - -
165H GLU* 3.7 8.7 + - - +
167H LYS* 1.3 80.4 - - - +
169H ALA* 1.3 68.0 + - - +
171H GLU* 2.9 12.1 + - - +
172H LYS* 2.9 40.5 + - - +
200H GLU* 5.6 2.1 + - - -
----------------------------------------------------------
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Residues in contact with ALA 169 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165H GLU 3.3 16.0 + - - +
166H ILE 3.3 7.0 + - - +
168H SER* 1.3 81.7 + - - +
170H VAL* 1.3 59.8 + - - +
171H GLU 3.6 0.2 + - - -
172H LYS* 3.7 7.8 + - - +
174H GLY* 3.2 23.8 + - - -
175H ALA* 3.7 6.4 + - + -
196H LEU* 5.7 0.4 - - + -
198H TYR* 3.9 38.1 - - + -
----------------------------------------------------------
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Residues in contact with VAL 170 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166H ILE* 2.9 28.9 + - + +
167H LYS* 3.8 5.6 - - + +
168H SER 3.0 0.2 + - - -
169H ALA* 1.3 74.8 - - + +
171H GLU* 1.3 68.3 + - + +
173H ASP* 3.7 8.1 + - - -
175H ALA* 3.6 21.2 - - + +
196H LEU* 5.1 2.0 - - + -
232H PHE* 5.1 3.4 - - + -
237H VAL* 4.0 21.1 - - + -
239H ASP* 3.9 17.3 - - + +
242H SER* 3.7 23.2 + - - +
243H ILE* 3.8 30.7 - - + -
----------------------------------------------------------
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Residues in contact with GLU 171 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167H LYS* 3.2 51.3 + - - +
168H SER* 2.9 4.7 + - - +
170H VAL* 1.3 80.8 - - + +
172H LYS* 1.3 68.2 + - + +
173H ASP* 2.9 17.0 + - - +
239H ASP* 5.6 10.3 - - + +
242H SER* 5.0 4.9 - - - +
464H ILE* 3.6 18.8 - - + +
----------------------------------------------------------
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Residues in contact with LYS 172 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168H SER* 2.9 43.3 + - - +
169H ALA* 3.9 4.9 - - - +
170H VAL 3.5 0.2 - - - -
171H GLU* 1.3 80.0 + - + +
173H ASP* 1.3 64.5 + - - +
174H GLY* 3.0 6.7 + - - -
461H LEU* 3.9 21.7 - - + +
464H ILE* 4.5 26.5 - - + +
556H LYS* 6.0 2.2 - - - +
560H SER* 5.3 1.2 - - - -
----------------------------------------------------------
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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