Contacts of the helix formed by residues 149 - 161 (chain C) 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 C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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97C ILE* 3.7 23.3 - - + -
122C LEU* 3.6 29.8 - - + +
124C VAL* 3.8 9.9 - - + -
146C ASN* 3.1 10.3 + - - +
147C LYS 3.1 1.0 - - - -
148C GLU* 1.3 78.6 - - - +
150C TRP* 1.3 60.8 + - - +
151C PRO* 3.5 1.6 - - - -
152C HIS* 3.4 17.5 + - - +
153C ILE* 3.4 18.0 + - - +
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Residues in contact with TRP 150 (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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143C PRO* 3.6 19.3 - - + -
146C ASN 4.0 1.8 + - - -
147C LYS* 3.2 18.7 + - + +
149C ALA* 1.3 75.1 - - - +
151C PRO* 1.3 75.0 - - + +
153C ILE* 3.4 15.4 + - + -
154C LYS* 3.0 66.2 + - + +
157C PHE* 4.6 3.6 - - + -
158C GLN* 3.5 27.8 - - + -
171C CYS* 3.9 22.4 - - - -
172C ASP* 3.8 6.0 + - - -
173C TRP* 3.8 61.6 - + + +
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Residues in contact with PRO 151 (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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147C LYS 3.5 11.4 - - - +
148C GLU* 3.7 9.4 - - - +
149C ALA 3.6 3.1 - - - -
150C TRP* 1.3 97.9 - - + +
152C HIS* 1.3 67.1 + - + +
154C LYS* 4.3 21.2 + - + +
155C THR* 5.2 4.5 + - - -
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Residues in contact with HIS 152 (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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68C PRO* 3.3 35.1 - - + +
70C ARG* 3.7 32.0 + - - +
95C GLY 5.7 0.2 + - - -
97C ILE* 4.5 10.3 - - + -
122C LEU* 5.0 3.8 - - + +
148C GLU 3.7 24.0 + - - -
149C ALA* 3.4 10.3 + - - +
150C TRP 3.1 1.2 - - - -
151C PRO* 1.3 88.5 - - + +
153C ILE* 1.3 62.1 + - + +
154C LYS 3.5 0.2 - - - -
155C THR* 4.7 3.3 + - - -
156C ILE* 3.8 9.2 - - - +
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Residues in contact with ILE 153 (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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6C ILE* 5.3 1.1 - - + -
70C ARG* 3.8 25.8 - - + +
97C ILE* 4.4 5.2 - - + -
99C ILE* 3.7 34.1 - - + -
124C VAL* 4.2 20.4 - - + -
143C PRO* 4.9 1.3 - - + -
149C ALA 3.4 18.2 - - - +
150C TRP* 3.9 21.3 - - + +
152C HIS* 1.3 78.8 - - + +
154C LYS* 1.3 61.1 + - - +
155C THR 3.3 3.1 - - - -
156C ILE* 3.4 8.2 + - + -
157C PHE* 2.9 53.1 + - + +
173C TRP* 5.3 0.2 - - + -
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Residues in contact with LYS 154 (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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150C TRP* 3.0 53.5 + - + +
151C PRO* 4.6 18.0 - - - +
152C HIS 3.5 1.2 - - - -
153C ILE* 1.3 77.9 - - - +
155C THR* 1.3 63.2 + - - +
157C PHE 4.6 0.2 - - - +
158C GLN* 2.9 59.3 + - - +
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Residues in contact with THR 155 (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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27C PHE* 4.0 20.7 - - + -
151C PRO 5.2 4.4 + - - -
152C HIS 4.7 3.4 + - - -
153C ILE 3.3 0.6 - - - -
154C LYS* 1.3 83.8 - - - +
156C ILE* 1.3 65.8 + - + +
158C GLN* 5.3 0.4 - - - -
159C GLY* 3.0 25.8 + - - -
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Residues in contact with ILE 156 (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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5C ASP* 5.4 4.9 - - + -
6C ILE* 4.7 12.3 - - + -
22C MET* 3.7 34.5 - - + -
27C PHE* 3.6 38.4 - - + -
70C ARG* 4.0 22.9 - - - +
152C HIS 3.8 21.3 - - - +
153C ILE* 3.4 7.4 + - - +
154C LYS 3.3 0.2 - - - -
155C THR* 1.3 80.8 - - - +
157C PHE* 1.3 74.1 + - + +
159C GLY* 3.9 0.2 - - - -
160C ILE* 3.1 30.7 + - + +
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Residues in contact with PHE 157 (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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6C ILE* 4.8 4.9 - - + -
72C ILE* 4.5 18.2 - - + -
99C ILE* 3.6 33.9 - - + -
126C SER* 3.8 25.4 - - - -
141C LEU* 3.5 34.9 - - + +
143C PRO* 4.6 8.5 - - + -
150C TRP* 4.6 4.5 - - + -
153C ILE* 2.9 45.7 + - + +
154C LYS 4.2 0.9 - - - +
156C ILE* 1.3 85.3 - - + +
158C GLN* 1.3 59.5 + - - +
160C ILE* 3.3 6.9 - - + +
161C ALA* 2.9 28.6 + - - +
171C CYS* 3.7 14.1 - - - -
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Residues in contact with GLN 158 (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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150C TRP* 3.5 21.6 - - + -
154C LYS* 2.9 42.7 + - + +
155C THR 4.8 0.2 - - - +
157C PHE* 1.3 75.2 - - - +
159C GLY* 1.3 52.3 + - - +
161C ALA* 3.4 13.4 + - - +
163C LYS* 2.2 34.7 + - - +
169C PRO* 4.0 21.5 - - + +
171C CYS 3.1 28.7 + - - +
172C ASP* 4.3 8.3 + - - +
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Residues in contact with GLY 159 (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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25C HIS* 3.0 26.8 + - - -
27C PHE* 5.3 3.8 - - - -
155C THR 3.0 21.9 + - - -
156C ILE* 3.9 0.7 - - - -
158C GLN* 1.3 80.0 - - - +
160C ILE* 1.3 57.5 + - - +
161C ALA 4.2 0.2 - - - +
163C LYS* 3.7 15.4 - - - -
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Residues in contact with ILE 160 (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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18C LEU* 4.8 15.5 - - + -
21C ASN* 3.1 26.6 + - - +
22C MET* 3.8 44.6 - - + -
25C HIS* 3.9 16.1 + - + +
27C PHE* 4.4 6.3 - - + -
137C TYR 4.6 1.2 - - - +
138C GLY* 3.5 6.6 + - - -
139C PRO* 3.2 18.0 - - + +
141C LEU* 4.1 15.7 - - + -
156C ILE* 3.1 20.1 + - + +
157C PHE* 3.3 13.2 - - + +
159C GLY* 1.3 75.1 - - - +
161C ALA* 1.3 66.8 + - - +
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Residues in contact with ALA 161 (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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25C HIS* 5.7 0.2 + - - -
138C GLY* 4.5 0.7 - - - -
139C PRO* 3.5 15.3 - - - +
141C LEU* 4.5 2.2 - - + -
157C PHE 2.9 17.4 + - - +
158C GLN* 3.4 9.4 + - - +
159C GLY 4.2 0.2 - - - +
160C ILE* 1.3 83.8 - - - +
162C ALA* 1.3 68.2 + - - +
163C LYS* 3.4 18.4 + - - +
169C PRO* 4.8 0.2 - - + -
170C CYS 4.2 9.6 - - - +
171C CYS* 3.6 26.0 - - + -
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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