Contacts of the helix formed by residues 151 - 166 (chain R) in PDB entry 2UZI
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 GLY 151 (chain R).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142R ILE* 3.8 2.1 - - - +
143R GLU 3.9 15.5 - - - -
144R THR* 3.5 6.1 - - - +
149R ARG 3.2 1.0 + - - -
150R GLN* 1.3 70.2 - - - +
152R VAL* 1.3 58.0 + - - +
153R GLU 3.6 1.3 - - - -
154R ASP* 3.3 17.6 + - - +
155R ALA* 2.8 32.6 + - - +
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Residues in contact with VAL 152 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19R LEU* 3.5 45.5 - - + +
22R GLN* 4.1 10.3 - - + -
23R LEU* 3.9 26.2 - - + +
144R THR* 4.5 4.3 - - - -
145R SER 3.7 16.8 - - - +
149R ARG* 3.1 30.6 + - + +
150R GLN 4.1 1.6 - - - +
151R GLY* 1.3 79.6 - - - +
153R GLU* 1.3 65.1 + - - +
155R ALA* 3.3 2.0 + - - +
156R PHE* 3.3 30.1 + - + -
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Residues in contact with GLU 153 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23R LEU* 4.0 23.8 - - + -
149R ARG* 3.5 32.0 + - - +
152R VAL* 1.3 77.0 - - - +
154R ASP* 1.3 56.0 + - - +
156R PHE 3.2 1.4 + - - -
157R TYR* 2.7 70.7 + - + +
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Residues in contact with ASP 154 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142R ILE* 3.9 22.0 - - + +
151R GLY* 3.3 20.0 + - - +
153R GLU* 1.3 77.7 - - - +
155R ALA* 1.3 55.9 + - - +
157R TYR* 4.8 3.4 - - - -
158R THR* 2.7 54.8 + - - -
161R ARG* 4.9 4.5 + - - +
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Residues in contact with ALA 155 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19R LEU* 6.1 1.3 - - + -
79R LEU* 3.6 21.0 - - + +
112R VAL* 4.2 2.6 - - - +
114R VAL* 3.9 27.1 - - + -
142R ILE* 3.9 15.0 - - + +
144R THR* 3.9 13.0 - - + -
151R GLY 2.8 20.3 + - - +
152R VAL* 3.8 4.3 - - - +
154R ASP* 1.3 74.3 - - - +
156R PHE* 1.3 62.3 - - + +
158R THR* 3.9 2.9 - - - -
159R LEU* 3.4 13.3 + - - +
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Residues in contact with PHE 156 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6R LEU* 3.8 24.4 - - + +
8R VAL* 4.2 4.9 - - + -
19R LEU* 3.8 30.1 - - + -
20R THR* 3.9 25.6 - - - -
23R LEU* 3.6 31.4 - - + -
53R LEU* 4.9 2.5 - - + -
55R ILE* 3.7 26.5 - - + -
79R LEU* 3.9 29.2 - - + -
152R VAL* 3.3 23.2 + - + +
153R GLU 3.2 5.0 + - - +
155R ALA* 1.3 78.2 - - + +
157R TYR* 1.3 72.4 + - + +
159R LEU* 3.3 7.4 + - - +
160R VAL* 3.2 24.6 + - - +
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Residues in contact with TYR 157 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23R LEU* 4.3 18.1 - - + +
42R LYS* 5.6 2.8 - - - -
44R VAL* 4.0 29.7 - - + +
45R VAL 4.1 13.8 + - - -
46R ILE* 3.8 31.7 - - + +
53R LEU* 4.5 5.2 - - + -
153R GLU* 2.7 57.9 + - + +
154R ASP* 4.1 2.7 - - - +
156R PHE* 1.3 75.4 - - + +
158R THR* 1.3 67.0 + - - +
160R VAL* 3.2 5.5 + - - +
161R ARG* 3.0 44.8 + - - +
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Residues in contact with THR 158 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112R VAL* 3.7 16.6 - - + -
140R PRO* 3.8 24.9 - - + -
142R ILE* 3.4 12.8 - - + +
154R ASP* 2.7 37.8 + - - -
155R ALA 3.9 2.0 - - - -
157R TYR* 1.3 77.4 - - - +
159R LEU* 1.3 58.2 + - - +
161R ARG* 3.3 20.4 + - + +
162R GLU* 2.9 27.1 + - + +
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Residues in contact with LEU 159 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6R LEU* 4.0 24.5 - - + -
7R VAL 5.1 0.2 - - - +
77R GLY* 3.6 14.1 - - - +
78R PHE 3.6 45.8 - - - +
79R LEU* 3.8 16.6 - - + +
110R PRO* 3.8 4.5 - - + +
111R MET* 3.7 28.3 - - - +
112R VAL* 3.9 7.6 - - + +
155R ALA 3.4 11.3 + - - +
156R PHE 3.3 8.8 + - - +
157R TYR 3.2 0.4 - - - -
158R THR* 1.3 78.2 - - - +
160R VAL* 1.3 67.0 + - - +
162R GLU* 3.1 5.2 + - + +
163R ILE* 3.0 21.5 + - - +
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Residues in contact with VAL 160 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4R TYR* 3.9 24.9 - - + -
6R LEU* 4.4 6.7 - - + -
46R ILE* 3.6 23.8 - - + -
53R LEU* 3.4 32.5 - - + -
156R PHE 3.2 10.6 + - - +
157R TYR 3.2 8.8 + - - +
159R LEU* 1.3 77.2 - - - +
161R ARG* 1.3 58.0 + - - +
163R ILE* 3.2 9.9 + - - +
164R ARG* 2.9 55.6 + - - +
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Residues in contact with ARG 161 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46R ILE* 4.1 18.3 - - + +
47R ASP* 3.1 43.3 + - - +
154R ASP* 4.9 4.8 + - - +
157R TYR* 3.0 22.7 + - - +
158R THR* 3.7 35.6 + - + +
160R VAL* 1.3 77.0 - - - +
162R GLU* 1.3 63.4 + - - +
164R ARG* 3.5 10.6 + - - +
165R GLN* 3.0 41.2 + - - +
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Residues in contact with GLU 162 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110R PRO* 4.1 14.8 - - + -
111R MET 3.9 13.8 + - - +
112R VAL* 4.2 3.4 - - + -
138R GLY 4.9 5.0 - - - +
139R ILE* 5.7 0.7 - - - +
140R PRO* 3.6 36.4 - - + +
158R THR* 2.9 19.7 + - - +
159R LEU* 3.1 11.9 + - + +
161R ARG* 1.3 77.4 - - - +
163R ILE* 1.3 62.4 + - - +
165R GLN* 3.1 18.3 + - - +
166R HIS* 2.6 53.4 + - + -
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Residues in contact with ILE 163 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4R TYR* 3.6 31.2 - - + -
6R LEU* 3.4 32.8 - - + -
76R GLU* 3.9 30.5 - - + +
77R GLY* 3.8 17.9 - - - +
110R PRO* 3.9 23.9 - - + +
159R LEU* 3.0 18.0 + - + +
160R VAL* 3.5 7.0 - - - +
162R GLU* 1.3 73.5 - - - +
164R ARG* 1.3 63.7 + - - +
166R HIS* 3.3 18.5 + - - +
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Residues in contact with ARG 164 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2R THR* 6.2 0.2 - - - -
4R TYR* 2.8 37.2 + - + +
46R ILE* 3.0 39.6 + - - +
47R ASP* 3.9 12.6 + - - +
49R GLU* 3.8 20.2 - - - +
51R CYS* 3.7 27.9 - - - +
160R VAL* 2.9 28.4 + - - +
161R ARG* 3.7 9.9 - - - +
163R ILE* 1.3 77.1 - - - +
165R GLN* 1.3 61.8 + - + +
166R HIS 4.4 3.1 - - - -
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Residues in contact with GLN 165 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161R ARG* 3.0 35.0 + - - +
162R GLU* 3.1 20.1 + - - +
164R ARG* 1.3 79.4 - - + +
166R HIS* 1.3 67.3 + - + +
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Residues in contact with HIS 166 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108R ASP* 3.3 26.4 + - - +
110R PRO* 3.9 27.2 - - + +
162R GLU* 2.6 53.3 + - + +
163R ILE 3.3 7.8 + - - +
165R GLN* 1.3 87.9 - - + +
1170R ZN 2.8 34.3 - - - -
1171R ZN 2.1 36.6 - - - -
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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
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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