Contacts of the helix formed by residues 176 - 199 (chain I) in PDB entry 2ONK
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 VAL 176 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G PHE* 4.3 15.5 - - + -
84G HIS* 4.2 6.1 - - + -
93G TYR* 4.2 10.3 - - + +
154I VAL* 4.7 0.9 - - + -
158I LEU* 3.9 29.4 - - + +
159I GLU* 4.2 7.6 - - + -
162I ALA* 3.5 29.6 - - + -
172I VAL* 2.6 21.2 + - + +
175I THR* 1.3 80.2 - - - +
177I SER* 1.3 69.9 + - - +
178I LEU 3.6 0.2 - - - -
179I PRO* 3.3 5.2 - - - +
180I LEU* 3.1 39.2 - - + +
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Residues in contact with SER 177 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74I TYR* 4.0 7.3 + - - -
151I PHE* 4.3 11.9 - - - -
154I VAL* 4.0 8.0 - - - +
159I GLU* 3.0 34.8 + - - +
172I VAL* 3.2 2.6 + - - +
173I PHE* 3.3 30.7 - - - -
176I VAL* 1.3 82.4 - - - +
178I LEU* 1.3 67.1 + - - +
180I LEU* 3.4 2.6 - - - +
181I SER* 3.0 23.8 + - - -
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Residues in contact with LEU 178 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70I THR* 4.6 4.0 - - + -
151I PHE* 3.5 19.7 - - + -
173I PHE* 2.7 58.3 + - + +
174I PHE* 3.9 28.3 - - + +
177I SER* 1.3 71.3 - - - +
179I PRO* 1.3 63.1 - - + +
181I SER* 2.8 27.8 + - - -
182I VAL* 2.9 16.5 + - + +
185I ILE* 4.3 15.4 - - + +
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Residues in contact with PRO 179 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G HIS* 4.0 22.3 - - + +
174I PHE 3.1 26.5 - - - +
175I THR* 3.0 29.2 - - - +
176I VAL 3.3 8.1 - - - +
178I LEU* 1.3 88.6 - - + +
180I LEU* 1.3 59.0 + - - +
182I VAL* 3.5 23.9 - - + +
183I ARG 5.3 0.2 + - - -
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Residues in contact with LEU 180 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83G PRO* 3.4 29.6 - - + -
84G HIS* 3.6 28.3 - - + +
153I SER* 4.9 3.8 + - - -
154I VAL* 3.4 39.4 - - + +
158I LEU* 3.9 15.5 - - + -
176I VAL* 3.1 34.3 + - + +
177I SER 3.1 0.4 + - - -
178I LEU 2.8 2.0 + - - -
179I PRO* 1.3 80.7 - - - +
181I SER* 1.3 57.5 + - - +
182I VAL 3.3 1.2 + - - -
183I ARG* 4.8 2.9 + - - +
184I HIS* 5.0 2.4 - - - -
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Residues in contact with SER 181 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147I ALA 5.2 0.2 - - - -
150I GLY* 3.4 35.0 - - - -
151I PHE* 3.5 24.4 - - - -
154I VAL* 4.5 1.6 - - - -
177I SER 3.0 15.6 + - - -
178I LEU* 2.8 8.4 + - - -
180I LEU* 1.3 71.9 - - - +
182I VAL* 1.3 66.0 + - - +
183I ARG 3.3 2.9 - - - -
184I HIS* 2.7 21.9 + - - +
185I ILE* 3.0 17.1 + - - +
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Residues in contact with VAL 182 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178I LEU* 2.9 21.7 + - + +
179I PRO* 3.5 23.6 - - + +
180I LEU 3.3 2.2 - - - -
181I SER* 1.3 75.8 - - - +
183I ARG* 1.3 56.4 + - - +
184I HIS 2.6 12.3 + - - -
185I ILE* 2.9 13.8 + - + +
186I VAL* 2.8 39.8 + - + +
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Residues in contact with ARG 183 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180I LEU 4.8 3.1 + - - +
181I SER 3.3 1.2 - - - -
182I VAL* 1.3 77.7 - - - +
184I HIS* 1.3 63.6 + - + +
186I VAL* 4.5 6.2 - - + +
187I ALA* 3.6 20.1 + - - +
251I VAL* 4.2 35.7 + - + +
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Residues in contact with HIS 184 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146I GLN* 3.7 33.7 + - - +
147I ALA* 5.0 0.9 - - - -
149I GLU* 4.3 13.6 - - + +
150I GLY* 3.2 35.3 + - - -
153I SER* 3.7 22.4 + - - -
180I LEU 5.0 2.5 - - - -
181I SER* 2.7 18.3 + - - +
182I VAL 2.6 5.3 + - - -
183I ARG* 1.3 77.9 + - + +
185I ILE* 1.3 58.0 + - + +
186I VAL 3.2 1.3 - - - -
187I ALA 3.7 0.2 - - - -
188I GLY* 2.7 32.9 + - - -
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Residues in contact with ILE 185 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66I VAL* 4.7 11.4 - - + -
70I THR* 4.7 5.4 - - + -
143I TYR* 3.0 31.5 - - + +
147I ALA* 4.9 11.9 - - + +
151I PHE* 4.4 10.8 - - + -
178I LEU* 4.3 30.7 - - + +
181I SER* 3.0 21.0 + - - +
182I VAL* 2.9 12.5 + - + +
184I HIS* 1.3 77.9 - - + +
186I VAL* 1.3 59.0 + - + +
189I ALA* 2.8 30.2 + - + +
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Residues in contact with VAL 186 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182I VAL* 2.8 31.8 + - + +
183I ARG* 4.5 6.1 - - + +
185I ILE* 1.3 80.7 - - + +
187I ALA* 1.3 65.8 + - + +
189I ALA* 3.2 7.1 + - - +
190I ILE* 2.9 34.5 + - + +
251I VAL* 4.4 26.7 - - + -
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Residues in contact with ALA 187 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146I GLN* 4.1 11.9 - - - +
183I ARG 3.6 17.5 + - - +
184I HIS* 3.3 5.1 + - - +
186I VAL* 1.3 81.4 - - - +
188I GLY* 1.3 65.6 + - - +
190I ILE* 3.1 9.3 + - - +
191I MET* 2.8 34.7 + - + +
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Residues in contact with GLY 188 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143I TYR* 3.4 16.7 - - - -
146I GLN* 3.5 27.7 - - - +
184I HIS 2.7 21.6 + - - -
185I ILE 3.7 1.1 - - - -
187I ALA* 1.3 73.1 - - - +
189I ALA* 1.3 61.4 + - - +
191I MET* 3.3 5.1 + - - +
192I SER* 2.9 23.2 + - - -
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Residues in contact with ALA 189 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62I THR* 3.9 22.3 - - + +
66I VAL* 4.2 13.2 - - + -
143I TYR* 3.4 8.6 - - - -
185I ILE* 2.8 21.3 + - + +
186I VAL* 3.5 6.5 - - - +
188I GLY* 1.3 73.1 - - - +
190I ILE* 1.3 65.6 + - + +
192I SER* 2.9 16.1 + - - -
193I TRP* 2.9 13.3 + - - +
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Residues in contact with ILE 190 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186I VAL* 2.9 30.5 + - + +
187I ALA* 3.5 9.9 - - - +
189I ALA* 1.3 77.1 - - + +
191I MET* 1.3 65.4 + - + +
193I TRP* 3.3 9.1 + - + +
194I ALA* 3.0 21.0 + - - +
244I PHE* 3.9 18.3 - - + -
247I LEU* 3.4 55.6 - - + +
251I VAL* 5.1 4.7 - - + -
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Residues in contact with MET 191 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95H VAL* 5.3 11.5 - - + +
145H ASN* 5.8 5.4 - - - +
142I ILE* 3.8 19.4 - - + +
146I GLN* 3.3 37.0 - - + +
187I ALA* 2.8 24.7 + - + +
188I GLY 3.5 4.3 - - - +
190I ILE* 1.3 81.9 - - + +
192I SER* 1.3 60.8 - - - +
194I ALA* 3.3 9.2 + - - +
195I ARG* 3.1 20.1 + - - +
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Residues in contact with SER 192 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61I SER* 4.7 1.4 + - - -
62I THR* 2.8 31.2 + - - +
65I ALA* 4.8 2.4 - - - +
139I SER* 3.4 37.5 + - - -
142I ILE* 3.8 5.8 - - - +
143I TYR* 4.0 13.7 - - - +
188I GLY 2.9 12.2 + - - -
189I ALA* 2.9 8.7 + - - -
191I MET* 1.3 74.5 - - - +
193I TRP* 1.3 64.4 + - - +
195I ARG* 3.3 0.6 + - - -
196I GLY* 3.1 18.2 + - - -
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Residues in contact with TRP 193 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55I TYR* 3.1 51.2 + + + -
58I ALA* 3.6 8.6 - - + +
59I LEU* 3.4 42.9 - - + +
62I THR* 3.4 13.2 - - + +
189I ALA 2.9 9.1 + - - +
190I ILE* 3.4 11.4 - - - +
192I SER* 1.3 76.0 + - - +
194I ALA* 1.3 65.3 + - - +
195I ARG 3.1 0.5 + - - -
196I GLY* 3.2 2.3 + - - -
197I ILE* 3.0 55.4 + - + +
243I VAL* 3.5 29.8 - - + -
244I PHE* 3.6 25.6 - + - -
247I LEU* 5.1 7.6 - - + -
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Residues in contact with ALA 194 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95H VAL* 3.7 26.2 - - + +
96H VAL* 4.8 2.8 - - + -
190I ILE 3.0 8.4 + - - +
191I MET* 3.6 11.0 - - - +
193I TRP* 1.3 78.3 - - - +
195I ARG* 1.3 59.3 + - - +
197I ILE* 3.7 6.1 - - - +
198I SER* 3.0 29.3 + - - -
244I PHE* 3.5 35.9 - - + -
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Residues in contact with ARG 195 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95H VAL* 5.2 5.1 - - + +
99H HIS* 4.0 10.9 + - - -
195H ARG* 5.0 8.7 - - - +
99I HIS* 3.4 22.6 - - - -
138I VAL* 2.7 44.8 + - + +
139I SER* 3.6 21.5 - - - -
142I ILE* 4.0 21.6 - - + +
191I MET 3.1 12.0 + - - +
192I SER 3.4 9.2 - - - +
193I TRP 3.0 0.6 - - - -
194I ALA* 1.3 75.3 - - - +
196I GLY* 1.3 66.2 + - - +
198I SER* 3.1 14.0 + - - -
199I GLU* 2.7 43.7 + - - +
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Residues in contact with GLY 196 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58I ALA* 3.9 3.8 - - - -
61I SER* 5.0 0.9 - - - -
135I MET* 2.9 52.5 - - - +
139I SER* 4.4 1.3 - - - -
192I SER 3.1 11.0 + - - -
193I TRP 3.2 2.2 + - - -
195I ARG* 1.3 78.9 - - - +
197I ILE* 1.3 63.6 + - - +
199I GLU* 3.0 16.3 + - - +
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Residues in contact with ILE 197 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96H VAL 4.4 11.0 - - - +
98H PRO* 4.1 7.8 - - + +
54I THR* 3.8 20.4 - - + +
55I TYR* 3.1 47.1 - - + +
58I ALA* 3.6 13.4 - - + +
193I TRP* 3.0 48.0 + - + +
194I ALA* 3.7 8.3 - - - +
196I GLY* 1.3 77.8 - - - +
198I SER* 1.3 68.4 + - - +
199I GLU 3.5 0.7 + - - +
212I ILE* 4.6 0.3 - - - +
214I PRO* 3.5 17.8 - - - +
240I SER* 5.0 3.6 - - - +
244I PHE* 4.9 6.1 - - + -
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Residues in contact with SER 198 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94H PRO 5.6 0.7 - - - -
95H VAL 3.6 10.6 + - - -
96H VAL 3.6 11.1 + - - -
97H ILE 3.7 4.1 - - - -
98H PRO* 3.5 31.4 - - - +
99H HIS* 3.1 38.3 + - - +
194I ALA 3.0 16.8 + - - -
195I ARG* 3.1 9.6 + - - -
197I ILE* 1.3 75.3 - - - +
199I GLU* 1.3 63.4 + - - +
214I PRO* 4.2 0.9 - - - +
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Residues in contact with GLU 199 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99H HIS* 3.1 10.4 + - - -
99I HIS* 3.5 12.8 + - - +
135I MET* 4.8 2.5 - - + -
138I VAL* 4.2 9.8 - - + +
195I ARG* 2.7 44.9 + - - +
196I GLY* 3.0 18.8 + - - +
197I ILE 4.1 1.2 - - - +
198I SER* 1.3 76.4 - - - +
200I PHE* 1.3 63.1 + - - +
201I GLY 3.6 0.6 - - - -
202I ALA* 2.6 40.7 + - + +
203I VAL* 3.6 29.2 - - + +
212I ILE* 4.4 5.7 - - - +
214I PRO* 3.3 19.6 - - - +
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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