Contacts of the helix formed by residues 146 - 161 (chain C) in PDB entry 5OA3
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 GLU 146 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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124C PHE* 4.9 0.7 - - - -
144C SER* 3.3 11.5 + - - +
145C LYS* 1.3 87.8 - - + +
147C VAL* 1.3 67.1 + - - +
148C ALA* 3.5 3.3 + - + +
149C THR* 3.5 20.8 + - - +
150C ALA* 3.1 18.8 + - - +
120D TYR* 3.1 39.8 + - + +
123D LEU* 5.5 3.1 - - - +
152D PHE* 5.4 5.2 - - - +
153D VAL 4.7 12.5 + - - +
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Residues in contact with VAL 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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109C ILE* 5.3 13.0 - - + +
124C PHE* 4.6 26.6 - - + -
145C LYS 4.3 0.6 + - - -
146C GLU* 1.3 73.2 - - + +
148C ALA* 1.3 67.3 + - + +
150C ALA* 3.2 8.2 + - - +
151C ILE* 2.9 40.7 + - + +
116D ARG* 5.7 7.0 - - - +
120D TYR* 5.7 4.9 - - + +
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Residues in contact with ALA 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C GLU* 3.5 2.1 - - + +
147C VAL* 1.3 84.3 - - + +
149C THR* 1.3 65.2 + - - +
151C ILE* 3.0 18.4 + - - +
152C ARG* 3.0 24.8 + - - +
120D TYR* 6.5 0.9 - - + -
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Residues in contact with THR 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13492 G 6.0 2.0 - - - +
142C LYS* 4.8 3.8 - - - +
144C SER* 3.8 15.0 - - - +
146C GLU* 3.5 28.7 + - - +
147C VAL 3.3 0.2 - - - -
148C ALA* 1.3 78.3 - - - +
150C ALA* 1.3 58.6 + - - +
152C ARG* 3.5 29.2 + - - +
153C GLY* 2.9 28.2 + - - -
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Residues in contact with ALA 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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124C PHE* 4.0 11.9 - - + +
126C ALA* 4.0 8.7 - - + +
142C LYS* 3.2 33.0 - - - +
144C SER* 3.6 23.3 - - - -
146C GLU 3.1 6.8 + - - +
147C VAL* 3.2 11.4 + - - +
149C THR* 1.3 78.8 - - - +
151C ILE* 1.3 58.7 + - - +
154C ALA* 2.9 25.8 + - - +
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Residues in contact with ILE 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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106C VAL* 4.7 22.9 - - + -
109C ILE* 4.2 15.9 - - + -
126C ALA* 4.1 18.2 - - + -
128C VAL* 4.0 5.3 - - + +
147C VAL* 2.9 33.3 + - + +
148C ALA* 3.0 11.1 + - - +
150C ALA* 1.3 75.6 - - - +
152C ARG* 1.3 61.9 + - + +
154C ALA* 3.0 6.1 + - - +
155C ILE* 2.9 37.0 + - + +
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Residues in contact with ARG 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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148C ALA* 3.0 18.6 + - - +
149C THR* 3.5 34.7 + - - +
151C ILE* 1.3 75.1 - - + +
153C GLY* 1.3 67.8 + - - +
155C ILE* 3.0 16.8 + - + +
156C ILE* 2.9 25.3 + - - +
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Residues in contact with GLY 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C LYS* 4.2 16.6 - - - -
149C THR* 2.9 18.7 + - - -
150C ALA 3.9 0.4 - - - -
152C ARG* 1.3 78.6 - - - +
154C ALA* 1.3 56.8 + - - +
156C ILE* 3.2 13.0 + - - +
157C LEU* 2.9 27.9 + - - +
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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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126C ALA* 3.8 12.1 - - + +
128C VAL* 3.6 22.3 - - + +
140C GLY* 4.2 5.3 - - - +
141C VAL 4.3 0.2 - - - -
142C LYS* 3.6 19.2 - - + +
150C ALA 2.9 19.7 + - - +
151C ILE 3.0 5.8 + - - +
153C GLY* 1.3 73.4 - - - +
155C ILE* 1.3 59.7 + - - +
157C LEU* 3.6 7.1 - - - +
158C ALA* 2.9 29.6 + - - +
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Residues in contact with ILE 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104C ASP* 3.8 26.9 - - - +
128C VAL* 4.0 20.6 - - + -
130C ILE* 5.0 7.1 - - + +
151C ILE* 2.9 25.9 + - + +
152C ARG* 3.0 17.2 + - + +
154C ALA* 1.3 75.6 - - - +
156C ILE* 1.3 62.0 + - + +
158C ALA* 3.9 2.0 - - - +
159C LYS* 2.9 57.0 + - + +
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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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91C SER* 4.1 24.2 - - - +
92C GLU* 5.4 3.6 - - - +
152C ARG 2.9 13.1 + - - +
153C GLY* 3.4 12.8 - - - +
155C ILE* 1.3 77.7 - - + +
157C LEU* 1.3 65.0 + - + +
159C LYS* 3.2 3.1 + - + +
160C LEU* 2.9 45.4 + - + +
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Residues in contact with LEU 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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139C LEU 4.5 0.7 - - - +
140C GLY* 4.4 9.2 - - - -
141C VAL 3.2 28.0 - - - +
142C LYS* 3.9 28.3 - - + +
153C GLY 2.9 14.3 + - - +
154C ALA* 3.6 8.3 - - - +
155C ILE 3.2 0.4 - - - -
156C ILE* 1.3 84.8 - - + +
158C ALA* 1.3 61.4 + - - +
160C LEU* 3.3 25.3 + - + +
161C SER* 3.3 12.8 + - - -
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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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128C VAL* 3.8 6.5 - - + +
130C ILE* 3.5 23.8 - - + -
138C GLY* 3.8 2.9 - - - -
139C LEU* 3.4 16.4 - - - +
140C GLY* 3.4 22.4 - - - +
154C ALA 2.9 16.0 + - - +
155C ILE* 4.2 1.8 - - - +
157C LEU* 1.3 73.7 - - - +
159C LYS* 1.3 61.9 + - - +
161C SER 2.6 25.5 - - - +
162C ILE* 3.7 5.0 - - - +
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Residues in contact with LYS 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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91C SER* 3.3 25.6 + - - +
94C ILE* 3.2 47.6 - - + +
95C ASP* 3.6 31.0 + - - -
102C LEU* 4.6 6.3 - - + -
130C ILE* 3.9 26.5 - - + -
155C ILE* 2.9 42.6 + - + +
156C ILE* 3.5 5.6 - - + +
158C ALA* 1.3 74.0 - - - +
160C LEU* 1.3 65.6 + - - +
162C ILE* 3.5 6.7 - - - +
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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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13512 G 5.4 6.7 - - - +
88C ILE* 3.7 39.8 - - - +
89C LYS* 4.5 14.4 - - + +
90C GLU* 3.9 7.9 - - - +
91C SER* 3.9 25.6 - - - +
94C ILE* 4.7 2.6 - - - +
156C ILE* 2.9 32.3 + - + +
157C LEU* 3.4 24.0 - - + +
158C ALA 3.2 0.2 - - - -
159C LYS* 1.3 80.5 - - - +
161C SER* 1.3 58.5 + - - +
162C ILE 3.4 4.2 + - - -
27V LYS* 3.6 8.5 + - - -
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Residues in contact with SER 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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138C GLY* 3.2 13.7 - - - -
139C LEU 3.9 10.4 + - - -
157C LEU 3.3 8.8 + - - -
158C ALA 2.6 21.5 + - - +
160C LEU* 1.3 77.4 - - - +
162C ILE* 1.3 57.6 + - - +
163C VAL* 5.5 0.2 - - - +
241C PHE* 3.7 21.9 - - - -
27V LYS* 3.2 19.5 + - - +
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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