Contacts of the helix formed by residues 146 - 160 (chain C) in PDB entry 2OVI
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 LEU 146 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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59C ASN* 4.2 7.2 - - + +
137C LEU* 5.8 0.2 - - - +
138C GLY* 3.2 21.9 + - - +
139C ARG 3.9 8.5 - - - +
140C ASP* 3.8 30.3 - - - +
141C ASP 5.3 0.2 - - - +
144C GLN 3.4 1.4 + - - -
145C LEU* 1.3 68.8 - - - +
147C SER* 1.3 59.6 + - - +
148C GLU* 3.2 14.1 - - - +
149C GLN* 2.8 61.6 + - + +
150C VAL* 2.9 12.6 + - - +
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Residues in contact with SER 147 (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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140C ASP* 5.8 0.2 + - - -
145C LEU 3.0 7.9 + - - -
146C LEU* 1.3 71.2 - - - +
148C GLU* 1.3 81.1 + - - +
150C VAL* 3.3 8.2 + - - +
151C SER* 2.8 30.8 + - - -
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Residues in contact with GLU 148 (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 LEU* 3.5 17.1 - - - +
147C SER* 1.3 94.5 + - - +
149C GLN* 1.3 61.5 + - + +
151C SER* 3.6 6.8 + - - -
152C ALA* 3.2 23.0 + - - +
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Residues in contact with GLN 149 (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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57C TRP* 2.7 42.9 - - + +
58C GLY 4.1 0.5 - - - -
59C ASN 2.9 18.9 + - - +
60C VAL* 3.7 7.9 - - - +
137C LEU* 3.6 21.5 - - + +
138C GLY 2.8 32.7 + - - +
146C LEU* 2.8 33.7 + - + +
148C GLU* 1.3 78.4 - - + +
150C VAL* 1.3 59.6 + - - +
151C SER 3.0 1.3 - - - -
152C ALA* 3.3 5.0 + - - +
153C PHE* 2.7 31.2 + - - +
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Residues in contact with VAL 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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111C GLU* 4.1 10.1 - - - +
120C ALA* 5.4 0.2 - - + -
137C LEU* 3.5 15.9 - - + -
145C LEU* 3.4 40.4 - - + +
146C LEU 2.9 16.2 + - - +
147C SER* 3.3 7.8 + - - +
149C GLN* 1.3 75.8 - - - +
151C SER* 1.3 56.9 + - - +
153C PHE* 3.2 4.9 - - + +
154C HIS* 2.9 53.1 + - + +
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Residues in contact with SER 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 SER* 2.8 23.0 + - - -
148C GLU* 3.7 8.8 - - - -
149C GLN 3.0 0.2 - - - -
150C VAL* 1.3 73.1 - - - +
152C ALA* 1.3 55.6 + - - +
153C PHE 3.0 1.6 - - - -
154C HIS* 3.1 8.6 + - - +
155C THR* 2.8 38.5 + - - -
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Residues in contact with ALA 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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53C THR* 5.6 0.3 - - - +
57C TRP* 3.3 36.9 - - + +
148C GLU 3.2 14.6 + - - +
149C GLN* 4.0 1.6 - - - +
151C SER* 1.3 77.3 - - - +
153C PHE* 1.3 53.7 + - - +
155C THR* 3.5 8.8 - - - -
156C LEU* 2.7 37.1 + - - +
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Residues in contact with PHE 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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57C TRP* 3.7 16.5 - + + -
109C LEU* 3.8 25.8 - - + +
110C ILE 3.4 32.8 - - - -
111C GLU* 4.1 9.6 - - + -
120C ALA* 4.2 11.7 - - + -
121C SER* 3.7 25.4 - - - -
122C ILE* 4.3 2.9 - - + -
137C LEU* 3.8 23.6 - - + -
149C GLN 2.7 18.9 + - - +
150C VAL* 3.2 7.4 - - + +
152C ALA* 1.3 78.5 - - - +
154C HIS* 1.3 91.3 + + - +
156C LEU* 3.7 2.1 - - - +
157C ALA* 3.0 25.3 + - + +
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Residues in contact with HIS 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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111C GLU* 2.6 32.8 + - - -
150C VAL* 2.9 43.2 + - + +
151C SER* 3.1 5.4 + - - +
153C PHE* 1.3 90.3 - + - +
155C THR* 1.3 63.9 + - - +
157C ALA* 3.3 7.4 + - + +
158C ALA* 3.0 23.4 + - - +
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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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151C SER* 2.8 20.0 + - - -
152C ALA* 3.5 12.6 - - - -
154C HIS* 1.3 76.4 - - - +
156C LEU* 1.3 57.5 + - - +
158C ALA* 3.1 8.9 + - + +
159C SER* 2.9 37.2 + - - +
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Residues in contact with LEU 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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49C THR* 4.5 10.1 - - + -
50C VAL* 4.3 24.2 - - + +
53C THR* 4.0 31.6 - - + +
57C TRP* 4.0 24.2 - - + -
109C LEU* 4.0 15.5 - - + -
122C ILE* 4.6 2.0 - - + -
152C ALA 2.7 19.8 + - - +
153C PHE 3.7 3.1 - - - +
155C THR* 1.3 73.2 - - - +
157C ALA* 1.3 64.3 + - - +
159C SER* 3.2 10.0 + - - -
160C LEU* 3.1 41.3 + - + +
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Residues in contact with ALA 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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40C THR* 3.8 35.3 + - - +
109C LEU* 3.6 27.3 - - + +
153C PHE* 3.0 16.7 + - + +
154C HIS* 3.3 9.4 + - + +
156C LEU* 1.3 78.8 - - - +
158C ALA* 1.3 62.5 + - - +
160C LEU* 3.7 13.4 + - - +
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Residues in contact with ALA 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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154C HIS 3.0 13.9 + - - +
155C THR* 3.2 12.6 - - + +
156C LEU 3.1 0.2 - - - -
157C ALA* 1.3 77.7 - - - +
159C SER* 1.3 67.8 + - - +
160C LEU 3.2 5.2 + - - -
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Residues in contact with SER 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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49C THR* 6.3 1.3 - - - -
155C THR* 2.9 21.7 + - - +
156C LEU* 3.5 17.1 - - - -
158C ALA* 1.3 77.3 - - - +
160C LEU* 1.3 65.3 + - - +
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Residues in contact with LEU 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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40C THR* 4.8 2.8 - - + +
42C VAL* 3.2 44.2 - - + +
46C LYS* 3.4 44.6 - - + +
49C THR* 4.5 11.0 - - + -
50C VAL* 5.3 6.7 - - + +
107C ILE* 5.5 0.2 - - + -
109C LEU* 4.1 21.1 - - + -
156C LEU* 3.1 38.0 + - + +
157C ALA* 4.0 10.8 - - - +
158C ALA 3.2 8.0 + - - -
159C SER* 1.3 83.0 - - - +
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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