Contacts of the helix formed by residues 148 - 162 (chain C) in PDB entry 1C3Q
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 GLY 148 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146C GLY 3.7 0.4 - - - -
147C GLY* 1.3 81.8 - - - +
149C ASP* 1.3 56.6 + - - +
150C ILE 3.4 1.3 - - - -
151C ILE* 3.1 16.8 + - - +
152C ARG* 2.6 60.4 + - - +
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Residues in contact with ASP 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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140C GLY 3.6 20.9 - - - +
145C GLU* 3.6 27.6 - - - +
146C GLY* 3.6 13.9 - - - -
148C GLY* 1.3 71.6 + - - +
150C ILE* 1.3 76.8 + - + +
152C ARG* 3.2 10.4 + - - +
153C LEU* 2.9 27.8 + - - +
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Residues in contact with ILE 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 ALA* 3.9 22.0 - - + -
140C GLY 5.0 0.4 - - - +
141C VAL* 4.4 23.6 - - + +
145C GLU 4.1 10.8 - - - +
146C GLY* 5.2 3.4 - - - -
148C GLY 4.8 0.4 - - - +
149C ASP* 1.3 101.6 + - - +
151C ILE* 1.3 62.6 + - + +
153C LEU* 3.2 8.7 + - + +
154C ALA* 3.0 22.2 + - - +
167C ILE* 4.2 26.8 - - + +
171C VAL 5.7 1.8 - - - +
173C VAL* 3.9 21.1 - - + -
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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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147C GLY* 4.6 9.9 - - - +
148C GLY* 3.1 26.5 + - - +
150C ILE* 1.3 78.1 - - + +
152C ARG* 1.3 64.3 + - + +
154C ALA* 3.4 4.5 + - - +
155C GLN* 3.2 21.6 + - + +
173C VAL* 4.0 25.5 - - + +
180C VAL* 3.7 23.7 - - + +
182C THR* 3.9 22.0 - - + -
269C VAL* 4.3 21.1 - - + -
271C VAL* 6.4 0.2 - - + -
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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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147C GLY 5.7 0.6 + - - -
148C GLY* 2.6 44.6 + - - +
149C ASP* 3.6 8.1 - - - +
151C ILE* 1.3 72.8 - - + +
153C LEU* 1.3 60.4 + - - +
155C GLN* 3.8 6.2 - - - +
156C GLN* 2.9 54.7 + - + +
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Residues in contact with LEU 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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124C ALA* 4.0 24.2 - - + +
127C ILE* 4.7 3.1 - - + -
128C ALA* 4.3 8.3 - - + +
131C VAL* 4.9 7.0 - - + -
133C VAL* 3.9 27.6 - - + -
141C VAL* 4.2 19.5 - - + -
149C ASP 2.9 13.8 + - - +
150C ILE* 3.2 13.2 + - + +
152C ARG* 1.3 77.1 - - - +
154C ALA* 1.3 57.4 + - - +
156C GLN* 3.8 8.6 - - + +
157C ALA* 2.9 35.9 + - + +
167C ILE* 4.0 17.9 - - + -
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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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150C ILE 3.0 7.4 + - - +
151C ILE 3.6 3.8 - - - +
153C LEU* 1.3 78.4 - - - +
155C GLN* 1.3 57.1 + - - +
157C ALA* 3.3 0.3 + - - +
158C ALA* 3.0 29.6 + - - +
165C ILE* 3.7 24.4 - - + +
167C ILE* 4.2 11.2 - - + -
173C VAL* 3.5 32.3 - - + -
175C ALA* 4.1 12.8 - - + -
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Residues in contact with GLN 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 ILE* 3.2 14.1 + - + +
152C ARG* 4.1 7.3 - - - +
154C ALA* 1.3 79.3 - - - +
156C GLN* 1.3 60.2 + - + +
158C ALA* 3.3 3.3 + - - +
159C GLN* 2.9 52.5 + - - +
175C ALA* 4.0 8.2 - - - +
176C ASP 4.3 8.1 - - - +
177C THR 4.1 4.6 + - - +
178C SER* 4.1 17.0 - - - +
180C VAL* 3.9 23.3 - - + +
271C VAL* 3.1 36.0 - - - +
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Residues in contact with GLN 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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152C ARG* 2.9 42.6 + - - +
153C LEU* 3.9 8.5 - - + +
155C GLN* 1.3 77.3 - - + +
157C ALA* 1.3 59.2 + - - +
159C GLN* 3.5 17.4 + - - +
160C LYS* 3.0 28.6 + - - +
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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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127C ILE* 4.2 12.1 - - + -
131C VAL* 3.7 33.2 - - + -
153C LEU* 2.9 21.0 + - + +
154C ALA 3.8 3.4 - - - +
156C GLN* 1.3 74.5 - - - +
158C ALA* 1.3 60.8 + - - +
160C LYS* 3.8 4.0 - - - +
161C LEU* 3.0 35.2 + - - +
165C ILE* 3.8 12.7 - - + +
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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 ALA 3.0 16.9 + - - +
155C GLN 3.6 3.8 - - - +
156C GLN 3.3 0.2 - - - -
157C ALA* 1.3 78.4 - - - +
159C GLN* 1.3 53.9 + - - +
162C ASN* 2.6 36.0 + - - -
163C THR 3.4 21.0 + - - +
165C ILE* 3.4 10.3 - - + +
175C ALA 3.7 10.5 - - - +
176C ASP 3.5 24.0 - - - +
177C THR* 3.7 3.8 + - - -
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Residues in contact with GLN 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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155C GLN* 2.9 36.2 + - - +
156C GLN* 3.8 19.5 - - - +
158C ALA* 1.3 79.4 - - - +
160C LYS* 1.3 62.0 + - - +
162C ASN* 3.8 7.3 + - - +
177C THR* 3.3 43.1 + - + +
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Residues in contact with LYS 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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131C VAL* 3.2 37.8 + - + +
156C GLN 3.0 17.5 + - - +
157C ALA* 3.8 5.2 - - - +
158C ALA 3.3 0.2 - - - -
159C GLN* 1.3 79.0 - - - +
161C LEU* 1.3 78.5 + - + +
162C ASN* 5.1 0.7 - - - +
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Residues in contact with LEU 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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112C ILE* 4.0 33.5 - - + +
120C ILE* 3.8 27.8 - - + -
130C THR 6.0 0.2 - - - +
131C VAL* 3.7 30.1 - - + -
157C ALA 3.0 14.2 + - - +
160C LYS* 1.3 99.8 - - + +
162C ASN* 1.3 74.0 + - - +
163C THR* 3.8 13.5 - - + -
165C ILE* 4.3 4.0 - - + -
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Residues in contact with ASN 162 (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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117C LEU 4.6 2.9 - - - +
158C ALA 2.6 19.9 + - - -
159C GLN 3.8 5.8 + - - +
160C LYS 3.5 2.6 - - - +
161C LEU* 1.3 77.5 - - - +
163C THR* 1.3 57.2 + - - +
177C THR* 3.9 14.6 + - - -
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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