Contacts of the helix formed by residues 191 - 209 (chain A) in PDB entry 3UZP
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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125A ILE* 3.8 17.1 - - - +
156A TYR* 5.3 1.8 - - - -
164A HIS* 4.1 12.3 - - - -
190A GLN* 1.3 75.7 - - - +
192A ARG* 1.3 66.5 + - - +
193A ARG* 3.3 17.4 + - - +
194A ASP* 2.6 30.2 + - - +
195A ASP* 3.7 3.8 + - - +
260A PHE* 2.8 42.6 + - - -
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Residues in contact with ARG 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A HIS* 3.4 42.7 - - + +
125A ILE* 3.8 3.2 - - + +
156A TYR* 3.2 49.9 + - + -
157A ARG* 3.9 11.5 - - - +
164A HIS* 3.8 13.5 + - - -
191A SER* 1.3 77.6 - - - +
193A ARG* 1.3 63.0 + - - +
194A ASP 3.2 0.7 + - - -
195A ASP 3.3 10.0 + - - -
196A LEU* 3.5 7.6 + - - +
260A PHE 4.8 0.9 + - - +
261A ASP 3.0 28.7 + - - -
262A ASP 3.3 18.0 + - - +
263A LYS* 3.7 27.1 - - - +
264A PRO* 3.9 14.1 - - + -
266A TYR* 3.7 14.1 + - - -
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Residues in contact with ARG 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A TYR* 4.1 5.5 + - - -
183A ASN* 3.6 32.2 - - - +
188A ILE* 4.1 17.4 - - - +
189A GLU 5.0 1.2 + - - -
191A SER* 3.3 18.6 + - - +
192A ARG* 1.3 77.8 - - - +
194A ASP* 1.3 70.7 + - - +
196A LEU* 3.2 6.9 + - - +
197A GLU* 2.9 30.3 + - - +
255A CYS* 4.0 10.3 - - - +
256A ARG 5.2 2.6 + - - -
258A LEU* 2.9 60.8 + - + -
259A ARG* 3.9 9.9 - - - +
260A PHE* 3.4 36.7 + - - +
262A ASP 5.3 1.2 + - - +
264A PRO* 4.5 1.0 - - - +
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Residues in contact with ASP 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A SER* 2.8 32.8 + - - +
183A ASN* 4.1 14.0 + - - +
184A THR* 3.8 5.1 + - - +
189A GLU 4.0 2.9 - - - +
190A GLN* 3.3 23.8 - - + +
191A SER* 2.6 40.2 + - - +
192A ARG 3.1 0.8 - - - -
193A ARG* 1.3 85.8 + - - +
195A ASP* 1.3 67.1 + - - +
197A GLU* 3.4 3.1 + - - +
198A SER* 3.1 27.2 + - - -
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Residues in contact with ASP 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A ILE* 3.9 13.2 - - + +
120A HIS* 2.8 32.4 + - - +
125A ILE* 3.4 8.0 - - - +
126A HIS* 2.9 30.4 + - - +
127A ARG* 2.9 29.3 + - - +
129A VAL* 3.8 18.0 - - + +
190A GLN* 4.9 1.6 + - - -
191A SER 3.7 2.2 + - - -
192A ARG 3.3 3.6 + - - +
194A ASP* 1.3 78.6 - - - +
196A LEU* 1.3 63.5 + - - +
198A SER* 3.4 4.8 + - - -
199A LEU* 3.1 20.6 + - - +
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Residues in contact with LEU 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113A ILE* 4.8 7.4 - - + -
116A ILE* 3.7 32.1 - - + -
192A ARG 3.5 7.6 + - - +
193A ARG 3.2 6.4 + - - +
194A ASP 3.2 0.6 - - - -
195A ASP* 1.3 75.4 - - - +
197A GLU* 1.3 66.1 + - - +
199A LEU* 3.1 5.7 + - + -
200A GLY 3.0 11.3 + - - -
251A TYR* 2.9 33.7 + - - +
255A CYS* 3.7 10.8 - - - -
258A LEU* 4.7 6.1 - - + -
264A PRO* 3.4 38.8 - - + -
266A TYR* 3.9 16.6 - - + -
269A LEU* 4.0 19.1 - - + -
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Residues in contact with GLU 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A SER* 3.4 18.4 - - - -
182A ILE* 2.9 21.7 + - - +
183A ASN* 5.2 6.4 + - - -
193A ARG* 2.9 18.0 + - - +
194A ASP* 3.4 6.2 + - - +
196A LEU* 1.3 75.5 - - - +
198A SER* 1.3 55.6 + - - +
200A GLY* 2.7 22.2 + - - +
201A TYR* 2.9 42.8 + - + +
252A LEU* 3.8 9.7 - - + +
255A CYS* 3.9 16.0 - - + +
256A ARG* 3.4 37.5 + - + +
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Residues in contact with SER 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127A ARG 6.2 0.2 - - - -
129A VAL* 3.9 24.5 + - - -
179A TYR* 2.9 28.8 + - - +
180A ALA* 4.1 2.3 - - - -
181A SER* 4.1 7.0 + - - -
194A ASP 3.1 12.2 + - - -
195A ASP* 3.5 10.4 - - - -
197A GLU* 1.3 79.7 - - - +
199A LEU* 1.3 62.8 + - - +
201A TYR* 3.0 6.8 + - - +
202A VAL* 2.9 25.9 + - - +
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Residues in contact with LEU 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A ALA 4.8 0.7 - - - +
112A MET* 3.6 41.1 - - + -
113A ILE* 3.6 33.7 - - + +
116A ILE* 3.6 24.2 - - + -
129A VAL* 4.0 12.5 - - + +
134A PHE* 5.0 0.2 - - + -
195A ASP 3.1 13.8 + - - +
196A LEU* 3.1 10.1 + - + +
198A SER* 1.3 76.0 - - - +
200A GLY* 1.3 63.1 + - - +
202A VAL* 3.1 4.9 + - + -
203A LEU* 2.9 41.1 + - + +
251A TYR* 3.5 15.5 - - + +
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Residues in contact with GLY 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A LEU 3.0 6.1 + - - -
197A GLU 2.7 12.2 + - - -
199A LEU* 1.3 79.0 - - - +
201A TYR* 1.3 59.3 + - - -
203A LEU* 3.5 7.1 + - - +
204A MET* 3.1 27.9 + - - +
248A PHE* 5.8 0.2 - - - -
251A TYR* 3.5 23.3 - - - -
252A LEU* 3.7 14.7 - - - +
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Residues in contact with TYR 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A TYR* 3.3 37.2 - - + -
180A ALA 3.5 18.6 - - - -
181A SER* 4.1 0.7 - - - -
182A ILE* 3.9 5.9 - - - +
197A GLU* 2.9 42.0 + - + -
198A SER* 3.0 6.5 + - - +
200A GLY* 1.3 73.7 - - - +
202A VAL* 1.3 56.5 + - - +
204A MET* 3.3 3.5 + - - +
205A TYR* 2.7 36.0 + - - +
211A LEU* 3.7 11.7 - - + +
213A TRP* 3.8 28.9 - + - -
232A LYS* 4.3 9.5 - - + +
240A LEU* 4.3 10.1 - - + -
252A LEU* 3.9 19.5 - - + -
256A ARG* 2.7 30.6 + - - -
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Residues in contact with VAL 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112A MET* 3.9 17.0 - - + -
129A VAL* 4.0 9.6 - - + +
130A LYS* 4.0 11.9 - - - -
131A PRO* 3.8 23.8 - - + -
179A TYR* 3.7 17.7 - - + -
198A SER 2.9 17.5 + - - +
199A LEU* 3.1 10.5 + - + +
201A TYR* 1.3 76.1 - - - +
203A LEU* 1.3 57.0 + - - +
205A TYR* 3.0 9.9 - - - +
206A PHE* 2.9 56.7 + - + -
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Residues in contact with LEU 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105A VAL* 4.1 17.3 - - + +
108A LEU* 5.2 0.4 - - + -
109A ALA* 3.7 39.0 - - + +
112A MET* 4.7 4.5 - - - -
199A LEU* 2.9 40.7 + - + +
200A GLY* 3.7 8.5 - - - +
202A VAL* 1.3 77.0 - - - +
204A MET* 1.3 62.8 + - - +
206A PHE* 3.0 27.0 + - + +
207A ASN* 3.0 18.8 + - - -
248A PHE* 4.3 15.5 - - + -
251A TYR* 4.9 6.1 - - + -
273A PHE* 4.0 22.9 - - + -
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Residues in contact with MET 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200A GLY 3.1 16.8 + - - +
201A TYR* 3.9 5.2 - - - +
203A LEU* 1.3 79.5 - - - +
205A TYR* 1.3 57.2 + - - +
207A ASN* 3.6 14.3 - - + +
208A LEU* 3.0 53.8 + - + +
211A LEU* 4.1 11.7 - - + -
240A LEU* 3.6 31.2 - - + +
241A CYS* 3.6 33.0 - - - -
244A TYR* 4.1 13.5 - - + -
248A PHE* 3.6 23.1 - - + -
252A LEU* 4.3 10.1 - - + -
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Residues in contact with TYR 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90A GLU* 3.0 31.7 + - - -
93A PHE* 4.1 13.1 - + - -
98A ARG* 2.9 31.8 + - - -
131A PRO* 3.9 11.2 - - + -
178A ARG* 3.4 22.6 + - - -
179A TYR* 3.4 26.7 - + + -
201A TYR 2.7 14.4 + - - +
202A VAL* 3.0 12.8 - - - +
203A LEU 3.0 0.2 - - - -
204A MET* 1.3 78.6 - - - +
206A PHE* 1.3 70.6 + + - +
209A GLY* 2.9 37.7 + - - +
210A SER* 4.1 7.2 - - - -
211A LEU* 3.8 13.9 - - + +
214A GLN* 3.8 15.0 - - - -
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Residues in contact with PHE 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89A LEU* 3.9 35.0 - - + -
93A PHE* 3.6 32.9 - + + -
99A LYS* 4.8 1.7 - - - +
100A PHE* 3.8 41.0 + + + +
105A VAL* 4.1 11.7 - - + -
108A LEU* 4.0 22.4 - - + -
112A MET* 4.4 6.1 - - + -
131A PRO* 4.0 11.4 - - + -
202A VAL* 2.9 39.4 + - + -
203A LEU* 3.0 17.0 + - + +
205A TYR* 1.3 99.6 - + - +
207A ASN* 1.3 59.3 + - - +
209A GLY 4.3 0.3 + - - -
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Residues in contact with ASN 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99A LYS* 5.5 6.4 - - - +
100A PHE 5.2 3.4 - - - +
102A LEU* 4.1 10.2 - - - +
105A VAL* 3.5 21.5 - - - +
203A LEU 3.0 13.3 + - - -
204A MET* 3.6 21.2 - - + +
205A TYR 3.2 0.4 - - - -
206A PHE* 1.3 80.5 - - - +
208A LEU* 1.3 58.6 + - - +
244A TYR* 3.0 43.9 + - + -
248A PHE* 3.3 41.3 - - - -
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Residues in contact with LEU 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204A MET* 3.0 37.1 + - + +
207A ASN* 1.3 78.4 - - - +
209A GLY* 1.3 56.6 + - - +
210A SER* 3.1 29.9 + - - +
211A LEU* 4.6 2.2 - - + -
212A PRO* 4.7 4.9 - - + -
240A LEU* 3.9 26.7 - - + +
242A LYS 5.4 2.0 - - - +
244A TYR* 3.4 31.6 - - + +
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Residues in contact with GLY 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93A PHE* 3.8 17.7 - - - -
98A ARG* 3.0 39.4 + - - -
205A TYR* 2.9 17.7 + - - -
206A PHE 4.3 1.4 + - - -
207A ASN 3.7 1.2 - - - -
208A LEU* 1.3 75.1 - - - +
210A SER* 1.3 63.7 + - - +
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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