Contacts of the helix formed by residues 170 - 192 (chain O) in PDB entry 3A68
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 TYR 170 (chain O).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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56O GLU* 4.3 5.8 - - - -
94O HIS* 2.7 50.2 + + + -
97O LYS* 3.4 24.3 - - - +
98O LEU* 3.2 24.3 + - + +
147O LEU* 3.9 34.2 - - + +
165O PHE* 3.6 32.1 - + - -
166O VAL* 3.0 18.9 + - + +
168O THR 3.5 0.6 - - - -
169O GLU* 1.3 93.4 - - + +
171O LEU* 1.3 62.3 + - - +
172O GLY 3.5 1.6 - - - -
173O GLU* 3.4 5.6 + - + +
174O GLN* 2.8 33.3 + - - +
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Residues in contact with LEU 171 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160G VAL* 3.5 31.9 - - + -
161G GLN* 3.8 18.3 - - + +
164G ASP* 5.8 0.2 - - - +
144O ASN* 4.3 10.0 - - - +
147O LEU* 3.8 30.5 - - + -
148O LEU* 4.0 24.2 - - + -
151O HIS* 4.2 9.0 - - + -
166O VAL* 3.1 17.2 + - + +
167O GLU* 3.5 23.2 + - + +
170O TYR* 1.3 76.7 - - - +
172O GLY* 1.3 62.2 + - - +
174O GLN* 3.3 4.5 + - - +
175O VAL* 3.1 26.3 + - - +
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Residues in contact with GLY 172 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161G GLN* 3.6 24.1 - - - +
164G ASP* 5.6 0.8 + - - -
167O GLU 3.8 6.1 + - - -
171O LEU* 1.3 75.8 - - - +
173O GLU* 1.3 69.5 + - - +
175O VAL* 3.2 4.6 + - - +
176O GLU* 3.0 29.2 + - - +
215O CA 4.7 4.5 - - - -
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Residues in contact with GLU 173 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94O HIS* 6.0 7.0 - - + +
168O THR 3.4 3.1 - - - +
169O GLU* 3.3 31.3 - - - +
170O TYR* 3.5 8.6 + - - +
172O GLY* 1.3 77.6 + - - +
174O GLN* 1.3 57.8 + - - +
176O GLU* 3.3 13.4 + - - +
177O ALA* 2.9 29.3 + - - +
215O CA 2.6 28.1 - - - -
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Residues in contact with GLN 174 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94O HIS* 5.5 3.3 - - - -
140O GLU* 2.6 56.0 + - - +
143O THR* 4.0 7.2 - - - -
144O ASN* 3.5 36.1 - - + +
147O LEU* 3.9 16.6 - - + +
170O TYR* 2.8 18.6 + - - +
171O LEU 3.6 6.1 - - - +
172O GLY 3.2 0.2 - - - -
173O GLU* 1.3 75.5 - - - +
175O VAL* 1.3 60.1 + - - +
177O ALA* 3.3 6.4 + - - +
178O ILE* 3.0 34.9 + - + +
214O CA 4.2 10.7 - - - -
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Residues in contact with VAL 175 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101G TYR* 5.2 1.8 - - + -
104G LYS* 3.9 39.6 - - + +
105G ARG* 3.8 22.7 - - + +
161G GLN* 3.7 26.5 - - + +
144O ASN* 5.1 11.4 - - - +
171O LEU 3.1 14.0 + - - +
172O GLY* 3.2 8.5 + - - +
174O GLN* 1.3 76.4 - - - +
176O GLU* 1.3 63.2 + - + +
178O ILE* 3.3 9.2 + - + +
179O LYS* 3.0 22.0 + - - +
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Residues in contact with GLU 176 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104G LYS* 3.2 38.8 + - + +
172O GLY 3.0 17.8 + - - +
173O GLU* 3.3 14.7 + - - +
175O VAL* 1.3 78.6 - - + +
177O ALA* 1.3 56.8 + - - +
179O LYS* 3.3 5.2 + - - +
180O ARG* 2.9 30.6 + - - +
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Residues in contact with ALA 177 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140O GLU* 4.3 21.5 - - - +
173O GLU 2.9 16.3 + - - +
174O GLN* 3.7 9.9 - - - +
175O VAL 3.3 0.2 - - - -
176O GLU* 1.3 76.2 - - - +
178O ILE* 1.3 62.9 + - - +
180O ARG* 3.4 9.8 + - - +
181O ILE* 3.1 33.2 + - + +
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Residues in contact with ILE 178 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G ALA* 3.6 35.4 - - + +
39G GLN* 3.5 24.9 - - + +
104G LYS 5.8 0.4 - - - +
137O LEU* 3.8 16.6 - - + +
140O GLU* 3.9 35.7 - - + +
141O LYS* 4.0 7.6 - - + +
144O ASN* 3.9 15.5 - - + +
174O GLN* 3.0 21.9 + - - +
175O VAL* 3.8 7.0 - - + +
177O ALA* 1.3 74.7 - - - +
179O LYS* 1.3 60.8 + - - +
181O ILE* 5.0 0.2 - - - -
182O SER* 2.8 32.4 + - - -
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Residues in contact with LYS 179 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A ASP* 3.0 47.8 + - - -
73A ASP* 3.8 19.3 - - + +
37G ALA* 4.2 4.2 - - + +
100G GLU 5.3 0.4 + - - -
103G ASN* 3.8 20.7 - - - +
104G LYS* 3.9 30.2 - - + +
175O VAL 3.0 15.6 + - - +
176O GLU* 3.8 5.8 - - - +
178O ILE* 1.3 77.7 - - - +
180O ARG* 1.3 64.0 + - - +
182O SER* 3.3 5.3 + - - -
183O GLU* 2.9 52.0 + - - +
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Residues in contact with ARG 180 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83O PHE* 3.5 29.2 - - - -
86O GLU* 5.9 0.8 + - - -
87O SER* 5.4 1.0 + - - -
90O GLU* 5.1 8.7 + - - -
176O GLU 2.9 17.1 + - - +
177O ALA* 3.6 9.6 - - - +
179O LYS* 1.3 77.1 - - - +
181O ILE* 1.3 64.7 + - - +
183O GLU* 3.3 16.8 + - - +
184O TYR* 3.0 48.9 + - + +
207O GLU* 2.8 27.5 + - - -
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Residues in contact with ILE 181 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63O TYR* 4.2 8.7 - - + +
83O PHE* 4.4 24.2 - - + -
133O MET* 3.5 35.9 - - + +
136O ALA* 4.2 8.5 - - + -
137O LEU* 3.6 18.2 - - + +
140O GLU* 3.5 34.5 - - + +
177O ALA* 3.1 15.9 + - + +
178O ILE 4.2 2.2 - - - +
180O ARG* 1.3 77.6 - - + +
182O SER* 1.3 66.3 + - - +
184O TYR* 3.0 8.2 + - + +
185O VAL* 2.9 21.9 + - - +
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Residues in contact with SER 182 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A ASP* 3.5 28.9 - - - -
36G LEU* 3.5 16.3 - - - +
37G ALA* 3.3 22.6 + - - -
137O LEU* 3.4 16.1 - - - +
178O ILE 2.8 24.4 + - - -
179O LYS 3.5 5.2 - - - -
181O ILE* 1.3 76.5 - - - +
183O GLU* 1.3 56.9 + - - +
185O VAL* 3.2 4.9 + - - +
186O ALA* 2.9 26.0 + - - +
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Residues in contact with GLU 183 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A ASP* 4.5 2.8 - - - +
72A ARG 5.1 0.5 - - - +
73A ASP* 3.7 24.6 - - + +
76A ALA* 4.1 11.2 - - + -
78A ARG* 4.8 20.3 - - - +
179O LYS* 2.9 51.5 + - - +
180O ARG* 3.5 15.7 - - - +
181O ILE 3.2 0.2 - - - -
182O SER* 1.3 76.3 - - - +
184O TYR* 1.3 59.2 + - + +
186O ALA* 3.4 1.4 + - - +
187O GLN* 3.0 47.0 + - - +
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Residues in contact with TYR 184 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78A ARG* 5.9 3.1 - - - -
83O PHE* 3.8 25.1 - + - -
133O MET* 3.5 34.8 - - + -
180O ARG* 3.0 44.4 + - + +
181O ILE* 3.0 12.6 + - - +
183O GLU* 1.3 76.1 - - + +
185O VAL* 1.3 66.6 + - - +
187O GLN* 3.3 13.7 + - - +
188O LEU* 2.9 28.4 + - - +
200O PHE* 3.7 24.6 - + + -
203O MET* 4.8 4.5 - - + -
204O LEU* 3.4 15.2 - - + +
207O GLU* 2.7 32.0 + - - -
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Residues in contact with VAL 185 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28G VAL* 5.4 0.2 - - + -
36G LEU* 3.8 17.3 - - + -
130O LEU* 3.9 13.3 - - + +
133O MET* 3.7 35.4 - - + +
134O GLU* 4.0 12.8 - - + +
137O LEU* 4.4 12.8 - - + -
181O ILE 2.9 17.2 + - - +
182O SER 3.5 7.2 - - - +
184O TYR* 1.3 76.6 - - - +
186O ALA* 1.3 57.2 + - - +
188O LEU* 3.3 2.3 + - - +
189O ARG* 2.9 56.3 + - - +
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Residues in contact with ALA 186 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73A ASP 3.4 24.2 - - - +
74A ASN* 3.8 22.0 - - - +
75A VAL 4.7 2.2 - - - +
76A ALA* 3.8 9.2 - - + -
36G LEU* 4.0 6.9 - - + +
182O SER 2.9 9.4 + - - +
183O GLU 3.7 3.6 - - - +
184O TYR 3.3 0.2 - - - -
185O VAL* 1.3 78.4 - - - +
187O GLN* 1.3 61.3 + - - +
189O ARG* 3.4 9.6 + - - +
190O ARG* 3.0 23.5 + - - +
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Residues in contact with GLN 187 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76A ALA* 3.8 22.1 - - + +
78A ARG* 2.9 38.0 + - - +
198A TRP* 2.9 34.6 + - + +
183O GLU* 3.0 38.1 + - - +
184O TYR* 4.0 12.7 - - - +
186O ALA* 1.3 74.6 - - - +
188O LEU* 1.3 61.7 + - - +
190O ARG* 3.0 7.8 + - - +
191O VAL* 2.9 35.1 + - - +
200O PHE* 3.8 15.2 - - + -
203O MET* 3.7 6.1 - - - +
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Residues in contact with LEU 188 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80O LEU* 5.6 0.7 - - + -
129O ALA* 3.7 44.6 - - + +
130O LEU* 4.1 17.9 - - + +
133O MET* 3.9 19.3 - - + -
184O TYR 2.9 19.7 + - - +
185O VAL 3.7 3.4 - - - +
187O GLN* 1.3 75.4 - - - +
189O ARG* 1.3 62.9 + - - +
191O VAL* 3.7 4.1 - - + +
192O GLY* 3.3 22.2 + - - -
197O VAL* 4.0 21.7 - - + +
200O PHE* 3.5 42.0 - - + -
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Residues in contact with ARG 189 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28G VAL* 3.5 16.4 + - - +
29G PRO 2.9 30.9 + - - -
30G THR* 4.0 20.6 + - - +
31G VAL 5.2 2.6 + - - -
32G PRO* 6.0 1.6 - - - +
36G LEU* 3.6 13.7 - - - +
130O LEU* 3.9 19.6 - - + +
134O GLU* 2.8 28.3 + - - -
185O VAL* 2.9 33.2 + - - +
186O ALA* 3.6 8.3 - - - +
188O LEU* 1.3 76.6 - - - +
190O ARG* 1.3 63.4 + - - +
192O GLY* 3.9 6.8 + - - -
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Residues in contact with ARG 190 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ASN 5.1 1.8 + - - -
75A VAL* 3.2 27.3 + - - +
76A ALA 5.3 0.6 + - - -
77A LEU* 3.5 26.0 - - - +
128A ASP* 3.2 38.6 + - - -
194A GLY* 3.3 46.6 - - - +
197A VAL* 3.9 11.1 - - - +
198A TRP* 4.1 18.2 - - + +
186O ALA 3.0 14.2 + - - +
187O GLN* 3.0 11.0 + - - +
189O ARG* 1.3 79.7 - - - +
191O VAL* 1.3 62.3 + - + +
192O GLY* 4.6 0.3 - - - -
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Residues in contact with VAL 191 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A HIS* 3.7 27.7 + - + +
198A TRP* 3.5 51.8 - - + -
187O GLN 2.9 20.2 + - - +
188O LEU* 3.7 11.9 - - + +
190O ARG* 1.3 76.6 - - - +
192O GLY* 1.3 66.4 + - - +
193O LYS 4.9 0.5 - - - +
196O GLY* 3.4 38.2 + - - +
197O VAL* 3.8 4.7 - - - +
200O PHE* 4.3 6.3 - - + -
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Residues in contact with GLY 192 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188O LEU 3.3 11.2 + - - -
189O ARG 3.9 5.6 + - - -
190O ARG 3.4 2.8 - - - -
191O VAL* 1.3 82.0 - - - +
193O LYS* 1.3 64.6 + - - +
197O VAL* 3.1 30.7 + - - +
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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) + - + + + + + -
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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