Contacts of the helix formed by residues 191 - 209 (chain C) in PDB entry 3UYS
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 191 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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125C ILE* 3.6 16.1 - - - +
156C TYR* 5.4 0.7 - - - -
164C HIS* 3.6 19.5 - - - -
190C GLN* 1.3 76.4 - - - +
192C ARG* 1.3 69.2 + - - +
193C ARG* 3.2 16.5 + - - +
194C ASP* 2.7 23.4 + - - +
195C ASP* 3.6 3.6 + - - +
260C PHE* 2.9 39.5 + - - -
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Residues in contact with ARG 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C HIS* 3.2 46.5 - - + +
125C ILE* 3.4 8.4 - - + +
156C TYR* 3.3 37.6 + - + -
157C ARG* 3.9 12.1 - - - +
164C HIS* 3.3 19.4 + - - -
191C SER* 1.3 75.0 - - - +
193C ARG* 1.3 63.6 + - - +
194C ASP 3.1 0.7 + - - -
195C ASP 3.2 9.7 + - - -
196C LEU* 3.4 10.0 + - - +
260C PHE 5.9 0.2 - - - +
261C ASP 3.2 24.9 + - - -
262C ASP 3.7 13.6 + - - +
263C LYS* 3.7 27.7 - - - +
264C PRO* 3.9 15.0 - - + -
266C TYR* 3.6 15.5 - - - -
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Residues in contact with ARG 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C TYR* 4.6 6.9 + - - -
183C ASN* 3.5 35.4 - - - +
188C ILE* 4.2 12.1 - - - +
189C GLU 5.2 0.8 + - - -
191C SER* 3.6 13.6 + - - +
192C ARG* 1.3 75.3 - - - +
194C ASP* 1.3 67.6 + - - +
196C LEU* 3.1 7.5 + - - +
197C GLU* 2.9 28.9 + - - +
255C CYS* 4.3 9.8 - - - +
256C ARG 5.7 0.2 + - - -
258C LEU* 2.8 61.0 + - + -
259C ARG* 3.8 10.6 - - - +
260C PHE* 3.2 43.2 + - - +
262C ASP 5.2 2.5 + - - +
264C PRO* 4.5 2.3 - - + +
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Residues in contact with ASP 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C SER* 2.8 33.7 + - - +
183C ASN* 3.9 16.9 + - - +
184C THR* 4.4 1.1 - - - +
188C ILE 5.5 0.4 - - - +
189C GLU 4.0 3.3 - - - +
190C GLN* 3.1 28.7 - - + +
191C SER* 2.7 38.2 + - - +
193C ARG* 1.3 84.6 + - - +
195C ASP* 1.3 64.8 + - - +
197C GLU* 3.9 2.8 - - - +
198C SER* 3.1 28.5 + - - -
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Residues in contact with ASP 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C ILE* 3.7 15.3 - - + +
119C ILE* 5.6 0.3 - - - +
120C HIS* 2.9 23.9 + - - +
125C ILE* 3.5 7.0 - - - +
126C HIS* 2.8 33.2 + - - +
127C ARG* 3.0 28.0 + - - +
129C VAL* 3.7 17.9 - - + +
190C GLN* 4.9 1.9 + - - +
191C SER 3.6 3.4 + - - +
192C ARG 3.2 8.8 + - - +
194C ASP* 1.3 78.9 - - - +
196C LEU* 1.3 62.4 + - - +
198C SER* 3.6 3.5 + - - -
199C LEU* 3.2 21.1 + - - +
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Residues in contact with LEU 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113C ILE* 4.6 9.6 - - + -
116C ILE* 4.2 24.9 - - + -
192C ARG 3.4 7.8 + - - +
193C ARG* 3.1 8.3 + - - +
195C ASP* 1.3 78.8 - - - +
197C GLU* 1.3 63.6 + - - +
199C LEU* 3.4 3.1 + - + -
200C GLY 3.1 4.3 + - - -
251C TYR* 2.5 41.9 + - - +
255C CYS* 3.7 11.9 - - - -
258C LEU* 4.6 4.9 - - + -
264C PRO* 3.2 43.5 - - + -
266C TYR* 3.8 18.6 - - + +
269C LEU* 4.2 15.3 - - + -
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Residues in contact with GLU 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C SER* 3.2 22.1 - - - -
182C ILE 3.2 15.6 + - - -
183C ASN* 4.8 4.0 + - - -
193C ARG 2.9 15.4 + - - +
194C ASP* 3.4 7.1 + - - +
196C LEU* 1.3 73.4 - - - +
198C SER* 1.3 58.6 + - - +
200C GLY* 2.7 22.7 + - - -
201C TYR* 2.8 45.3 + - + -
251C TYR* 4.8 0.7 - - - -
252C LEU* 4.1 8.3 - - + +
255C CYS* 4.0 19.7 - - + +
256C ARG* 3.6 34.4 + - + +
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Residues in contact with SER 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129C VAL* 3.7 32.8 + - - -
179C TYR* 2.7 30.0 + - - +
180C ALA* 4.3 1.7 - - - -
181C SER 4.2 6.6 + - - -
194C ASP 3.1 16.0 + - - -
195C ASP* 3.7 1.1 - - - -
197C GLU* 1.3 78.3 - - - +
199C LEU* 1.3 63.7 + - - -
201C TYR* 2.9 16.2 + - - +
202C VAL* 2.9 15.1 + - - +
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Residues in contact with LEU 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109C ALA 4.8 0.2 - - - +
112C MET* 3.6 44.4 - - + -
113C ILE* 3.8 37.5 - - + +
116C ILE* 4.0 15.5 - - + -
129C VAL* 3.6 10.0 - - + +
134C PHE* 5.3 0.2 - - + -
195C ASP 3.2 12.3 + - - +
196C LEU* 3.5 9.4 - - + +
197C GLU 3.2 0.2 - - - -
198C SER* 1.3 78.9 - - - +
200C GLY* 1.3 56.4 + - - +
202C VAL* 3.4 4.4 - - + +
203C LEU* 3.0 42.9 + - + +
251C TYR* 3.6 14.8 - - + +
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Residues in contact with GLY 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196C LEU 3.1 6.1 + - - -
197C GLU 2.7 11.4 + - - -
199C LEU* 1.3 75.1 - - - +
201C TYR* 1.3 62.5 + - - -
203C LEU* 3.5 8.1 + - - +
204C MET* 3.3 24.1 + - - +
248C PHE* 5.9 0.3 - - - +
251C TYR* 3.4 25.1 - - - -
252C LEU* 3.8 14.7 - - - +
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Residues in contact with TYR 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179C TYR* 3.7 20.4 - - + -
180C ALA 3.3 27.1 - - - -
182C ILE* 3.9 19.6 - - - +
197C GLU* 2.8 47.4 + - + -
198C SER* 2.9 5.2 + - - +
200C GLY* 1.3 72.8 - - - +
202C VAL* 1.3 57.4 + - - +
204C MET* 2.9 6.6 + - - +
205C TYR* 2.7 36.2 + - - +
211C LEU* 4.1 15.6 - - + +
213C TRP* 3.6 34.5 - + - -
232C LYS* 4.1 9.3 + - + +
237C ILE* 6.1 4.1 - - + +
240C LEU* 4.2 11.9 - - + -
252C LEU* 4.0 17.7 - - + -
256C ARG* 5.2 1.2 - - - +
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Residues in contact with VAL 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112C MET* 4.2 17.9 - - + -
129C VAL* 4.3 9.0 - - + +
130C LYS* 3.9 11.7 - - - -
131C PRO* 3.8 21.1 - - + -
179C TYR* 3.5 21.3 - - + -
198C SER 2.9 14.2 + - - +
199C LEU* 3.4 11.9 - - + +
201C TYR* 1.3 76.2 - - - +
203C LEU* 1.3 58.2 + - - +
205C TYR* 2.9 25.6 - - - +
206C PHE* 3.0 40.2 + - + -
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Residues in contact with LEU 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105C VAL* 3.5 25.9 - - + +
108C LEU* 5.3 0.4 - - + -
109C ALA* 3.5 40.4 - - + +
112C MET* 5.0 4.0 - - - -
199C LEU* 3.0 40.0 + - + +
200C GLY* 3.7 9.2 - - - +
201C TYR 3.1 0.4 - - - -
202C VAL* 1.3 74.2 - - + +
204C MET* 1.3 66.5 + - - +
206C PHE* 3.1 23.5 + - + +
207C ASN* 3.1 17.9 + - - -
248C PHE* 4.3 12.1 - - + -
251C TYR* 4.9 4.0 - - + -
273C PHE* 4.2 21.1 - - + -
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Residues in contact with MET 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200C GLY 3.3 11.8 + - - +
201C TYR 2.9 8.1 + - - +
203C LEU* 1.3 75.5 - - - +
205C TYR* 1.3 55.2 + - - +
207C ASN* 2.6 38.7 + - + +
208C LEU* 2.6 42.9 + - + +
211C LEU* 4.4 11.4 - - + -
240C LEU* 3.1 40.2 - - + +
241C CYS* 3.5 35.4 - - - -
244C TYR* 3.8 15.5 - - + -
248C PHE* 3.8 15.7 - - + -
252C LEU* 4.3 3.4 - - + -
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Residues in contact with TYR 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90C GLU* 3.1 29.7 + - - -
93C PHE* 3.5 27.9 - + - -
98C ARG* 2.9 28.0 + - - -
131C PRO* 4.0 9.0 - - + -
178C ARG* 3.3 20.5 + - - -
179C TYR* 3.5 23.1 - + + -
201C TYR 2.7 13.2 + - - +
202C VAL* 2.9 15.7 - - - +
204C MET* 1.3 75.6 - - - +
206C PHE* 1.3 71.0 + + - -
208C LEU 4.6 0.2 - - - +
209C GLY* 2.9 32.6 + - - -
210C SER* 4.1 8.5 - - - -
211C LEU* 3.9 18.3 - - + +
214C GLN* 3.7 15.3 - - - -
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Residues in contact with PHE 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89C LEU* 3.8 42.6 - - + -
93C PHE* 3.7 30.9 - + - -
99C LYS* 4.9 0.9 - - - -
100C PHE* 3.7 51.7 + + + +
105C VAL* 4.1 10.8 - - + -
108C LEU* 4.3 12.1 - - + -
112C MET* 4.7 4.7 - - - -
131C PRO* 4.1 8.7 - - + -
202C VAL* 3.0 39.9 + - + -
203C LEU* 3.4 17.0 - - + +
204C MET 3.1 0.4 - - - -
205C TYR* 1.3 95.8 - + - +
207C ASN* 1.3 60.8 + - - +
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Residues in contact with ASN 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100C PHE 5.0 4.6 - - - +
102C LEU* 4.5 8.3 - - - +
105C VAL* 3.7 20.4 - - - +
203C LEU 3.1 16.5 + - - -
204C MET* 2.6 29.0 + - + +
206C PHE* 1.3 74.6 - - - +
208C LEU* 1.3 59.8 + - - +
209C GLY 3.6 0.4 - - - -
244C TYR* 3.3 41.6 + - + -
248C PHE* 3.5 40.3 - - - -
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Residues in contact with LEU 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204C MET* 2.6 40.1 + - + +
207C ASN* 1.3 76.3 - - - +
209C GLY* 1.3 55.0 + - - +
210C SER* 2.9 28.6 + - - +
211C LEU* 4.3 5.6 - - + -
212C PRO* 4.5 5.6 - - + -
240C LEU* 3.6 28.7 - - + +
242C LYS 5.5 0.9 - - - +
244C TYR* 3.5 29.7 + - + +
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Residues in contact with GLY 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93C PHE* 3.8 18.5 - - - -
98C ARG* 3.6 41.1 + - - -
205C TYR* 2.9 14.9 + - - -
206C PHE 4.7 0.2 + - - -
207C ASN 3.6 1.2 - - - -
208C LEU* 1.3 77.0 - - - +
210C SER* 1.3 61.7 + - - +
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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
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Atomic class I II III IV V VI VII VIII
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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