Contacts of the helix formed by residues 151 - 156 (chain C) in PDB entry 4UC5
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 THR 151 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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110C ILE* 4.8 9.9 - - + -
111C ASN* 6.1 0.7 - - - +
125C LEU* 4.5 11.7 - - + -
146C PHE* 4.2 5.7 - - - -
147C LEU 4.9 2.6 + - - -
148C ASP* 2.7 42.6 + - - +
150C ILE* 1.3 70.4 - - - +
152C PRO* 1.4 63.7 - - - +
154C TYR* 2.8 37.4 + - - +
155C TYR* 3.7 29.4 + - - +
212D LEU* 3.7 15.0 - - + -
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Residues in contact with PRO 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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146C PHE* 3.6 37.5 - - + -
148C ASP 3.5 17.7 - - - +
149C MET 3.6 2.9 - - - +
150C ILE 2.9 10.5 - - - +
151C THR* 1.4 95.9 - - - +
153C GLN* 1.3 59.4 + - + +
156C ALA* 2.9 39.8 + - + +
177C LEU* 4.3 16.8 - - + -
181C LEU* 4.3 10.5 - - + -
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Residues in contact with GLN 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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21C PRO* 3.5 31.6 - - + +
25C LEU* 4.6 3.8 - - - +
149C MET 5.2 0.9 - - - +
150C ILE 3.0 13.1 + - - +
151C THR 3.0 0.2 + - - -
152C PRO* 1.3 79.6 - - + +
154C TYR* 1.3 61.3 + - - +
155C TYR 3.6 0.2 - - - -
156C ALA 5.0 0.4 + - - -
157C ASP* 5.3 1.6 - - - +
213C SER* 4.2 12.1 + - - +
214C VAL* 2.9 31.0 + - + +
215C THR* 3.9 1.4 - - - +
216C LYS* 2.9 58.9 + - + +
9D ASP* 4.1 8.3 + - - +
15D VAL* 5.0 12.1 - - - +
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Residues in contact with TYR 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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18C LEU* 4.1 8.0 - - + +
19C LEU 2.8 25.5 + - - -
21C PRO* 3.4 41.0 - - + +
24C HIS* 3.5 31.0 - + + +
25C LEU* 4.9 2.6 - - - +
125C LEU* 3.9 33.9 - - + +
129C ARG* 2.8 29.9 + - + +
150C ILE* 3.7 27.6 - - + -
151C THR* 2.8 22.7 + - - +
153C GLN* 1.3 80.2 - - - +
155C TYR* 1.3 68.0 + - + +
157C ASP* 4.5 0.2 - - - -
212D LEU* 5.3 0.7 - - + -
220D SER* 3.7 14.9 + - - -
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Residues in contact with TYR 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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97C PHE* 4.3 7.9 - + - -
110C ILE* 3.1 36.0 - - + +
125C LEU* 4.3 11.9 - - + -
128C ALA* 4.5 11.9 - - + -
129C ARG* 3.7 15.5 - - - +
132C LEU* 3.6 27.6 - - + -
144C THR* 4.2 13.2 + - + -
145C GLU 5.0 4.3 + - - -
146C PHE* 3.7 24.7 - + - -
151C THR* 3.7 26.9 + - - -
152C PRO 3.4 1.2 + - - -
154C TYR* 1.3 88.1 - - + +
156C ALA* 1.3 70.2 + - - +
157C ASP* 3.1 10.3 - - - -
158C LEU* 3.0 19.5 + - + +
159C ILE* 3.7 7.5 - - + +
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Residues in contact with ALA 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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42C ARG* 3.0 13.1 + - - +
146C PHE* 4.1 17.7 - - + -
152C PRO* 2.9 27.7 + - + +
153C GLN 5.0 0.2 - - - -
155C TYR* 1.3 78.4 - - - +
157C ASP* 1.3 58.3 + - - +
159C ILE* 2.8 30.6 + - + +
181C LEU* 4.7 9.0 - - + -
182C SER* 6.0 5.4 - - - +
183C CYS* 5.8 0.5 - - - -
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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