Contacts of the helix formed by residues 149 - 161 (chain E) in PDB entry 5UQ9
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 ALA 149 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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97E ILE* 3.5 32.8 - - + -
122E LEU* 3.8 10.4 - - + +
124E VAL* 3.6 22.4 - - + -
146E ASN 3.0 13.1 + - - +
147E LYS 3.0 0.8 - - - -
148E GLU* 1.3 78.1 - - - +
150E TRP* 1.3 62.3 + - - +
151E PRO* 3.5 1.6 - - - -
152E HIS* 3.3 14.9 + - - +
153E ILE* 3.4 15.8 + - - +
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Residues in contact with TRP 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143E PRO* 3.5 18.8 - - + -
146E ASN 3.9 1.6 + - - -
147E LYS* 2.9 25.6 + - + +
149E ALA* 1.3 78.2 - - - +
151E PRO* 1.3 58.6 - - + +
152E HIS 3.1 0.2 + - - -
153E ILE* 3.4 20.3 + - + -
154E LYS* 2.9 64.6 + - + +
157E PHE* 4.4 6.7 - - + -
158E GLN* 3.2 34.5 - - + +
171E CYS* 4.0 18.2 - - - -
172E ASP* 3.8 5.1 + - - -
173E TRP* 3.6 62.3 - + + +
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Residues in contact with PRO 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147E LYS* 3.3 13.2 - - + +
148E GLU* 3.6 12.6 - - - +
149E ALA 3.6 1.8 - - - -
150E TRP* 1.3 93.6 - - + +
152E HIS* 1.3 70.0 + - + +
154E LYS* 3.7 31.3 - - - +
155E THR* 5.0 2.9 + - - -
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Residues in contact with HIS 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68E PRO* 3.5 37.1 - - + +
70E ARG* 2.8 41.8 + - - +
95E GLY 5.6 0.8 + - - -
97E ILE* 4.7 11.2 - - + -
122E LEU* 5.5 1.5 - - + +
148E GLU* 3.8 22.7 + - - +
149E ALA* 3.3 8.5 + - - +
150E TRP 3.1 0.8 - - - -
151E PRO* 1.3 86.7 + - + +
153E ILE* 1.3 58.8 - - - +
154E LYS 3.3 5.0 + - - -
155E THR* 4.4 7.4 + - - -
156E ILE* 5.2 2.1 + - - +
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Residues in contact with ILE 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6E ILE* 5.0 3.6 - - + -
70E ARG* 4.0 21.5 - - + +
97E ILE* 4.2 4.9 - - + -
99E ILE* 4.1 22.7 - - + -
124E VAL* 4.1 31.2 - - + -
143E PRO* 4.7 2.7 - - + -
149E ALA 3.4 16.1 + - - +
150E TRP* 3.7 25.8 - - + +
152E HIS* 1.3 75.3 - - + +
154E LYS* 1.3 64.3 + - - +
155E THR 3.3 2.7 - - - -
156E ILE* 4.1 6.5 - - + +
157E PHE* 3.1 50.2 + - + +
173E TRP* 4.7 0.4 - - + -
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Residues in contact with LYS 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150E TRP* 2.9 57.3 + - + +
151E PRO* 3.7 31.1 + - - +
152E HIS 3.3 2.0 - - - -
153E ILE* 1.3 77.6 - - - +
155E THR* 1.3 63.1 + - - +
158E GLN* 3.3 40.1 + - - +
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Residues in contact with THR 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27E PHE* 3.6 26.3 - - + -
151E PRO 5.0 3.2 + - - -
152E HIS 4.4 5.9 + - - -
153E ILE 3.3 0.6 - - - -
154E LYS* 1.3 79.6 - - - +
156E ILE* 1.3 59.5 + - - +
158E GLN* 4.6 0.6 - - - +
159E GLY* 2.9 27.0 + - - -
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Residues in contact with ILE 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5E ASP* 4.2 11.4 - - + +
6E ILE* 4.0 34.8 - - + -
22E MET* 3.7 34.3 - - + -
27E PHE* 3.5 43.5 - - + -
70E ARG* 5.0 11.4 - - - +
152E HIS 5.2 4.2 + - - +
153E ILE* 3.5 6.9 + - - +
154E LYS 3.5 0.2 - - - -
155E THR* 1.3 75.1 - - - +
157E PHE* 1.3 75.7 + - + +
159E GLY* 3.6 0.2 - - - -
160E ILE* 3.0 31.6 + - + +
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Residues in contact with PHE 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6E ILE* 4.9 3.1 - - + -
72E ILE* 4.0 23.8 - - + -
99E ILE* 3.6 28.9 - - + -
126E SER* 3.3 27.4 - - - -
128E VAL* 6.0 0.9 - - + -
141E LEU* 3.2 38.7 - - + +
143E PRO* 4.4 11.7 - - + -
150E TRP* 4.4 4.9 - - + -
153E ILE* 3.1 41.8 + - + +
156E ILE* 1.3 84.8 - - + +
158E GLN* 1.3 62.1 + - - +
160E ILE* 3.6 3.5 + - + -
161E ALA* 3.1 25.6 + - - +
171E CYS* 3.6 14.6 - - - -
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Residues in contact with GLN 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150E TRP* 3.2 26.3 - - + +
154E LYS* 3.3 33.3 + - - +
155E THR 4.6 0.4 - - - +
157E PHE* 1.3 76.3 - - - +
159E GLY* 1.3 62.6 + - - +
161E ALA* 3.6 10.1 + - - +
163E LYS* 3.4 17.0 + - - -
169E PRO* 3.9 29.0 - - + +
171E CYS* 3.3 30.2 + - - +
172E ASP* 4.1 8.5 + - - -
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Residues in contact with GLY 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25E HIS* 3.1 26.7 + - - -
27E PHE* 5.4 4.0 - - - -
155E THR 2.9 22.1 + - - -
156E ILE* 3.1 1.1 + - - -
158E GLN* 1.3 77.3 - - - +
160E ILE* 1.3 59.2 + - - +
163E LYS* 3.3 18.7 + - - -
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Residues in contact with ILE 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18E LEU* 4.7 19.7 - - + +
21E ASN* 3.4 30.1 + - - +
22E MET* 3.6 48.9 - - + +
25E HIS* 4.0 13.6 + - + -
27E PHE* 5.1 1.8 - - + -
137E TYR 4.6 0.9 - - - +
138E GLY* 3.6 6.1 - - - -
139E PRO* 3.3 18.0 - - + +
141E LEU* 4.1 15.3 - - + -
156E ILE* 3.0 24.0 + - + +
157E PHE* 3.6 8.1 - - + +
159E GLY* 1.3 73.4 - - - +
161E ALA* 1.3 68.1 + - - +
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Residues in contact with ALA 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137E TYR 5.4 0.2 - - - +
138E GLY* 4.2 0.9 - - - -
139E PRO* 3.5 15.0 - - - +
141E LEU* 4.3 3.6 - - + -
157E PHE 3.1 18.8 + - - +
158E GLN* 3.9 7.9 - - - +
159E GLY 3.3 1.8 - - - +
160E ILE* 1.3 83.4 - - - +
162E ALA* 1.3 69.8 + - - +
163E LYS* 3.2 17.5 + - - +
169E PRO* 4.8 0.2 - - + -
170E CYS 4.2 4.7 - - - +
171E CYS* 3.6 25.6 - - + -
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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