Contacts of the helix formed by residues 170 - 192 (chain H) 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 H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56H GLU* 4.2 5.8 - - - -
94H HIS* 2.7 53.6 + + + -
97H LYS* 3.3 21.4 - - + +
98H LEU* 3.2 24.9 + - + +
147H LEU* 3.8 33.3 - - + +
165H PHE* 3.7 29.6 - + - -
166H VAL* 3.0 20.7 + - + +
168H THR 3.5 0.4 - - - -
169H GLU* 1.3 93.9 - - + +
171H LEU* 1.3 62.1 + - - +
172H GLY 3.5 1.8 - - - -
173H GLU* 3.4 7.1 + - + +
174H GLN* 2.9 32.3 + - - +
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Residues in contact with LEU 171 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A VAL* 3.5 32.5 - - + -
161A GLN* 3.7 19.6 - - + +
164A ASP* 5.4 0.7 - - - +
144H ASN* 4.3 9.3 - - - +
147H LEU* 3.8 30.1 - - + -
148H LEU* 3.9 23.3 - - + -
151H HIS* 4.3 7.4 - - + -
166H VAL* 3.2 19.0 + - + +
167H GLU* 3.4 22.7 + - + +
170H TYR* 1.3 75.3 - - - +
172H GLY* 1.3 63.6 + - - +
174H GLN* 3.3 4.3 + - - +
175H VAL* 3.2 26.2 + - - +
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Residues in contact with GLY 172 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A GLN* 3.6 24.0 - - - +
164A ASP* 5.2 1.9 + - - -
167H GLU 3.9 5.9 + - - -
170H TYR 3.5 0.2 - - - -
171H LEU* 1.3 75.2 - - - +
173H GLU* 1.3 70.1 + - - +
175H VAL* 3.3 4.5 + - - +
176H GLU* 3.1 32.3 + - - +
215H CA 4.6 4.7 - - - -
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Residues in contact with GLU 173 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94H HIS* 5.8 8.5 - - + +
168H THR 3.5 2.9 - - - +
169H GLU* 3.3 30.2 - - - +
170H TYR* 3.6 9.0 + - - +
172H GLY* 1.3 77.3 + - - +
174H GLN* 1.3 57.8 + - - +
176H GLU* 3.3 13.6 + - - +
177H ALA* 2.9 28.5 + - - +
215H CA 2.5 28.9 - - - -
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Residues in contact with GLN 174 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94H HIS* 5.5 3.3 - - - -
140H GLU* 2.7 55.1 + - - +
143H THR* 3.6 14.7 - - - -
144H ASN* 3.5 31.9 - - + +
147H LEU* 3.9 15.8 - - + +
170H TYR* 2.9 18.2 + - - +
171H LEU 3.7 6.1 - - - +
172H GLY 3.2 0.4 - - - -
173H GLU* 1.3 74.0 - - - +
175H VAL* 1.3 61.1 + - - +
177H ALA* 3.2 5.2 + - - +
178H ILE* 2.9 34.6 + - + +
214H CA 4.0 12.0 - - - -
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Residues in contact with VAL 175 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A TYR* 5.2 2.5 - - + -
104A LYS* 4.0 35.0 - - + +
105A ARG* 3.8 26.0 - - - +
161A GLN* 3.6 29.6 - - + +
144H ASN* 5.1 11.4 - - - +
171H LEU 3.2 14.0 + - - +
172H GLY 3.3 9.4 + - - +
174H GLN* 1.3 75.6 - - - +
176H GLU* 1.3 63.0 + - + +
178H ILE* 3.4 9.7 + - + +
179H LYS* 3.0 21.8 + - - +
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Residues in contact with GLU 176 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A LYS* 3.4 37.8 + - + +
172H GLY 3.1 21.0 + - - +
173H GLU* 3.6 15.5 - - - +
175H VAL* 1.3 75.7 - - + +
177H ALA* 1.3 58.3 + - - +
179H LYS* 3.3 6.3 + - - +
180H ARG* 2.9 29.9 + - - +
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Residues in contact with ALA 177 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140H GLU* 4.4 22.2 - - + +
173H GLU 2.9 16.5 + - - +
174H GLN* 3.2 9.6 + - - +
176H GLU* 1.3 77.1 - - - +
178H ILE* 1.3 62.0 + - - +
180H ARG* 3.4 9.6 + - - +
181H ILE* 3.1 33.6 + - + +
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Residues in contact with ILE 178 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ALA* 3.6 34.8 - - + +
39A GLN* 3.5 25.4 - - + +
104A LYS 5.8 0.2 - - - +
137H LEU* 3.8 16.8 - - + +
140H GLU* 3.9 35.7 - - + +
141H LYS* 4.1 7.9 - - + +
144H ASN* 3.9 15.0 - - + +
174H GLN* 2.9 21.9 + - + +
175H VAL* 3.8 7.2 - - + +
177H ALA* 1.3 73.5 - - - +
179H LYS* 1.3 60.9 + - - +
181H ILE* 3.6 0.4 + - - -
182H SER* 2.8 33.6 + - - -
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Residues in contact with LYS 179 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ALA* 4.3 3.6 - - - +
100A GLU 5.3 0.4 + - - -
103A ASN* 3.8 22.1 - - - +
104A LYS* 4.0 29.3 - - + +
71G ASP* 2.9 47.3 + - - -
73G ASP* 3.9 19.1 - - + +
175H VAL 3.0 16.0 + - - +
176H GLU* 3.9 5.6 - - - +
178H ILE* 1.3 78.3 - - - +
180H ARG* 1.3 63.8 + - - +
182H SER* 3.3 5.4 + - - -
183H GLU* 2.9 53.1 + - - +
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Residues in contact with ARG 180 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83H PHE* 3.4 31.1 - - - -
86H GLU* 5.7 2.2 + - - -
87H SER* 5.2 1.4 + - - -
90H GLU* 4.8 14.1 + - - -
176H GLU 2.9 18.6 + - - +
177H ALA* 3.6 9.0 - - - +
178H ILE 3.3 0.2 - - - -
179H LYS* 1.3 77.6 - - - +
181H ILE* 1.3 63.9 + - - +
183H GLU* 3.3 15.9 + - - +
184H TYR* 2.9 48.8 + - + +
207H GLU* 3.2 25.8 + - - -
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Residues in contact with ILE 181 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63H TYR* 3.9 10.3 - - + +
83H PHE* 4.4 23.8 - - + -
133H MET* 3.5 36.6 - - - +
136H ALA* 4.1 7.6 - - + +
137H LEU* 3.7 17.7 - - + +
140H GLU* 3.4 35.9 - - + +
177H ALA* 3.1 15.2 + - + +
178H ILE 4.2 1.8 - - - +
180H ARG* 1.3 76.0 - - + +
182H SER* 1.3 67.3 + - - +
184H TYR* 3.0 8.0 + - + +
185H VAL* 3.0 22.0 + - + +
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Residues in contact with SER 182 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A LEU* 3.5 15.9 - - - +
37A ALA* 3.3 22.0 + - - -
73G ASP* 3.5 27.4 - - - -
137H LEU* 3.4 19.8 - - - +
178H ILE 2.8 24.2 + - - -
179H LYS 3.5 4.5 - - - -
181H ILE* 1.3 78.3 - - - +
183H GLU* 1.3 57.1 + - - +
185H VAL* 3.2 2.1 + - - +
186H ALA* 3.0 25.3 + - - +
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Residues in contact with GLU 183 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71G ASP* 4.5 2.8 - - - +
72G ARG 5.2 0.7 - - - +
73G ASP* 3.7 25.1 - - + +
76G ALA* 3.9 11.7 - - + +
78G ARG* 4.8 20.4 - - - +
179H LYS* 2.9 51.6 + - - +
180H ARG* 3.5 16.7 - - - +
182H SER* 1.3 77.4 - - - +
184H TYR* 1.3 58.0 + - + +
186H ALA* 3.3 2.1 + - - +
187H GLN* 2.9 45.5 + - - +
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Residues in contact with TYR 184 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G ARG* 6.0 2.7 - - - -
83H PHE* 3.7 25.4 - + - -
133H MET* 3.5 31.9 - - + -
180H ARG* 2.9 46.4 + - + +
181H ILE* 3.0 12.8 + - - +
183H GLU* 1.3 77.2 - - + +
185H VAL* 1.3 58.6 + - - +
187H GLN* 3.3 15.1 + - - +
188H LEU* 2.9 36.4 + - - +
200H PHE* 3.6 24.6 - + + -
203H MET* 4.8 4.5 - - + -
204H LEU* 3.4 16.4 - - + +
207H GLU* 2.5 33.3 + - - -
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Residues in contact with VAL 185 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 5.2 1.6 - - + -
36A LEU* 3.8 16.4 - - + -
130H LEU* 3.9 13.9 - - + +
133H MET* 3.8 33.4 - - + +
134H GLU* 4.0 13.9 - - + +
137H LEU* 4.4 11.9 - - + -
181H ILE 3.0 17.7 + - - +
182H SER* 3.5 7.2 - - - +
184H TYR* 1.3 76.8 - - - +
186H ALA* 1.3 63.4 + - - +
188H LEU* 3.3 4.4 + - - +
189H ARG* 2.9 49.8 + - - +
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Residues in contact with ALA 186 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A LEU* 4.0 6.3 - - + +
73G ASP 3.4 25.6 - - - +
74G ASN* 3.8 21.3 - - - +
75G VAL 4.8 2.0 - - - +
76G ALA* 3.8 9.0 - - + -
182H SER 3.0 7.8 + - - +
183H GLU 3.6 6.1 - - - +
185H VAL* 1.3 78.1 - - - +
187H GLN* 1.3 61.3 + - - +
189H ARG* 3.3 8.9 + - - +
190H ARG* 3.0 23.5 + - - +
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Residues in contact with GLN 187 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76G ALA* 3.9 19.9 - - + +
78G ARG* 3.0 34.5 + - - +
198G TRP* 2.8 36.8 + - + +
183H GLU* 2.9 37.9 + - - +
184H TYR* 3.8 16.1 - - - +
186H ALA* 1.3 75.3 - - - +
188H LEU* 1.3 58.3 + - - +
190H ARG* 3.1 8.1 + - - +
191H VAL* 2.9 35.1 + - - +
200H PHE* 3.8 16.1 - - + -
203H MET* 3.7 6.1 - - - +
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Residues in contact with LEU 188 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80H LEU* 5.5 0.4 - - + -
129H ALA* 3.8 34.5 - - + +
130H LEU* 4.0 18.8 - - + +
133H MET* 3.6 33.2 - - + -
184H TYR 2.9 21.2 + - - +
185H VAL 3.7 3.8 - - - +
187H GLN* 1.3 76.3 - - - +
189H ARG* 1.3 63.7 + - - +
191H VAL* 3.7 4.1 - - + +
192H GLY* 3.3 21.3 + - - -
197H VAL* 4.1 21.1 - - + +
200H PHE* 3.5 38.4 - - + -
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Residues in contact with ARG 189 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 3.8 13.5 + - - +
29A PRO 3.1 29.7 + - - -
30A THR* 4.2 15.0 + - - +
31A VAL 5.5 1.2 + - - -
32A PRO* 6.3 0.4 - - - +
36A LEU* 3.5 15.7 - - - +
130H LEU* 3.9 19.4 - - + +
134H GLU* 2.8 30.7 + - - -
185H VAL* 2.9 31.2 + - - +
186H ALA* 3.7 8.1 - - - +
187H GLN 3.2 0.2 - - - -
188H LEU* 1.3 76.3 - - - +
190H ARG* 1.3 63.8 + - - +
192H GLY* 3.9 6.8 + - - -
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Residues in contact with ARG 190 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74G ASN 5.1 2.2 + - - -
75G VAL* 3.1 27.7 + - - +
76G ALA 5.3 0.8 + - - -
77G LEU* 3.6 27.4 - - - +
128G ASP* 3.0 38.6 + - - -
194G GLY* 3.3 46.3 - - - +
197G VAL* 3.9 11.5 - - - +
198G TRP* 4.1 17.9 - - + +
186H ALA 3.0 15.0 + - - +
187H GLN* 3.1 10.6 + - - +
189H ARG* 1.3 79.4 - - - +
191H VAL* 1.3 62.6 + - + +
192H GLY* 4.6 0.5 - - - -
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Residues in contact with VAL 191 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195G HIS* 3.7 26.5 + - + +
198G TRP* 3.5 50.0 - - + -
187H GLN 2.9 22.9 + - - +
188H LEU* 3.7 11.9 - - - +
190H ARG* 1.3 76.8 - - - +
192H GLY* 1.3 66.1 + - - +
193H LYS 4.8 0.5 - - - +
196H GLY* 3.4 39.1 + - - +
197H VAL* 3.8 4.9 - - - +
200H PHE* 4.4 7.0 - - + -
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Residues in contact with GLY 192 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188H LEU 3.3 14.5 + - - -
189H ARG 3.9 6.0 + - - -
190H ARG 3.4 3.2 - - - -
191H VAL* 1.3 77.9 - - - +
193H LYS* 1.3 68.8 + - - +
196H GLY* 3.6 0.2 - - - -
197H VAL* 3.1 27.4 + - - +
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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