Contacts of the helix formed by residues 145 - 155 (chain C) in PDB entry 2WOE
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 ASP 145 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139C THR* 3.7 10.3 - - + -
142C HIS* 2.6 44.1 + - - +
144C ALA* 1.3 82.2 - - - +
146C LEU* 1.3 63.1 + - - +
147C GLU 3.4 0.9 - - - -
148C PRO* 3.6 8.3 - - - +
149C TRP* 3.0 48.6 + - - +
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Residues in contact with LEU 146 (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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135C ALA 4.2 0.4 - - - +
136C ALA* 3.7 18.8 - - + -
139C THR* 3.4 25.8 - - - +
143C PRO* 3.1 17.2 + - + +
144C ALA 3.4 0.2 - - - -
145C ASP* 1.3 77.7 - - - +
147C GLU* 1.3 59.8 + - - +
149C TRP* 3.8 0.3 - - - +
150C VAL* 2.8 51.4 + - + +
168C LEU* 4.5 8.3 - - + -
171C GLY* 3.7 6.5 - - - -
172C ARG* 3.7 41.1 - - + +
175C HIS* 3.7 25.8 - - + +
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Residues in contact with GLU 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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143C PRO 4.6 1.4 + - - -
144C ALA 4.6 0.4 + - - +
146C LEU* 1.3 79.7 - - - +
148C PRO* 1.3 84.9 - - + +
151C LEU* 3.0 47.2 + - + +
168C LEU* 3.7 40.5 - - + +
172C ARG* 5.3 4.9 - - - +
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Residues in contact with PRO 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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78C LEU* 4.3 3.1 - - + +
144C ALA 3.4 23.8 - - - +
145C ASP* 3.5 11.9 - - - +
147C GLU* 1.3 105.5 - - + +
149C TRP* 1.3 64.3 + - + +
151C LEU* 4.2 1.7 - - + +
152C ALA* 2.9 32.8 + - - +
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Residues in contact with TRP 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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72C LEU* 3.9 23.8 - - + -
76C GLY 4.8 0.2 - - - -
77C THR* 3.7 18.2 - - - -
78C LEU* 3.6 53.9 - - + +
135C ALA* 4.3 11.8 - - + +
138C ALA* 3.7 25.4 - - + -
139C THR* 3.4 21.1 - - + -
142C HIS* 3.9 20.6 - + - -
145C ASP* 3.0 41.9 + - + +
146C LEU 4.0 1.3 - - - +
148C PRO* 1.3 80.9 - - + +
150C VAL* 1.3 67.2 + - - +
152C ALA* 3.4 1.6 + - - +
153C GLN* 3.1 25.1 + - - +
290C LEU* 4.4 10.5 - - + -
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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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132C CYS* 3.9 14.4 - - + -
135C ALA* 3.9 17.3 - - + -
136C ALA 4.4 3.1 - - - +
146C LEU* 2.8 47.1 + - + +
147C GLU* 4.2 2.5 - - - +
149C TRP* 1.3 71.5 - - - +
151C LEU* 1.3 65.1 + - + +
153C GLN* 3.3 11.0 - - - +
154C ALA* 3.0 25.5 + - - +
167C CYS* 3.6 44.6 - - + +
168C LEU* 4.2 2.7 - - + +
171C GLY* 5.0 3.1 - - - -
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Residues in contact with LEU 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 GLU* 3.0 46.9 + - + +
148C PRO* 4.2 2.2 - - + +
150C VAL* 1.3 87.2 - - + +
152C ALA* 1.3 58.3 + - - +
154C ALA* 4.1 4.9 - - + -
155C ARG* 2.8 59.5 + - + +
164C ASP* 3.7 52.5 - - + +
167C CYS* 5.0 0.9 - - + -
168C LEU* 4.5 8.5 - - + -
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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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78C LEU* 3.5 27.8 - - + -
80C VAL* 3.8 19.7 - - + +
115C THR 5.0 0.5 - - - +
116C THR* 5.4 0.3 + - - -
148C PRO 2.9 20.7 + - - +
149C TRP 3.4 2.0 + - - +
151C LEU* 1.3 77.7 - - - +
153C GLN* 1.3 61.9 + - - +
155C ARG* 3.5 4.7 + - - +
156C ILE* 3.4 21.4 + - - +
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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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68C LEU* 3.7 41.3 - - + +
78C LEU* 4.9 0.8 - - + +
83C ILE* 4.4 9.4 - - + -
87C PHE* 4.3 1.2 - - - -
128C ALA 3.5 9.5 + - - -
131C ARG* 2.8 49.9 + - - -
132C CYS* 3.3 34.8 + - - -
135C ALA* 4.7 2.9 - - + -
149C TRP 3.1 14.9 + - - +
150C VAL* 3.3 17.8 + - - +
152C ALA* 1.3 73.6 - - - +
154C ALA* 1.3 80.2 + - - +
156C ILE* 3.3 24.4 - - + +
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Residues in contact with ALA 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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128C ALA* 3.8 18.6 - - + +
131C ARG* 3.3 10.0 + - - +
150C VAL 3.0 15.3 + - - +
151C LEU* 3.6 11.2 - - + +
153C GLN* 1.3 92.1 - - - +
155C ARG* 1.3 58.8 + - + +
157C THR* 3.0 7.4 + - - -
158C HIS* 2.9 27.9 + - - +
163C SER* 5.4 0.9 - - - +
164C ASP* 5.6 2.0 - - - +
167C CYS* 4.0 14.4 - - + -
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Residues in contact with ARG 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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116C THR* 3.2 20.1 + - - +
117C ALA* 2.7 34.0 + - - +
151C LEU* 2.8 43.1 + - + +
152C ALA* 4.0 4.7 - - - +
154C ALA* 1.3 68.3 - - - +
156C ILE* 1.3 58.2 + - - +
157C THR 3.1 2.4 + - - -
158C HIS 3.4 18.6 - - - -
159C ASN* 3.6 32.2 + - - +
164C ASP* 2.9 38.0 + - - +
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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