Contacts of the helix formed by residues 147 - 162 (chain B) 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 147 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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145B GLU* 2.7 14.7 + - - -
146B GLY* 1.3 72.8 - - - -
148B GLY* 1.3 57.8 + - - +
149B ASP* 2.8 6.0 + - - -
150B ILE* 3.3 5.5 + - - +
151B ILE* 3.1 36.0 + - - +
171B VAL* 4.6 18.3 - - - +
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Residues in contact with GLY 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B GLY 3.4 5.3 + - - -
147B GLY* 1.3 73.9 - - - +
149B ASP* 1.3 60.2 + - - +
150B ILE 3.2 0.2 - - - -
151B ILE* 3.7 12.7 - - - +
152B ARG* 2.9 44.9 + - - +
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Residues in contact with ASP 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B LEU 4.9 0.6 - - - +
138B ILE* 2.8 69.7 + - + +
145B GLU 2.9 10.5 - - - +
146B GLY* 3.9 0.9 - - - -
147B GLY* 2.8 25.5 + - - -
148B GLY* 1.3 72.5 - - - +
150B ILE* 1.3 73.3 + - - +
152B ARG* 3.6 16.0 - - - +
153B LEU* 3.2 24.1 + - - +
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Residues in contact with ILE 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B ALA* 3.8 26.5 - - + -
138B ILE* 5.2 5.8 - - + -
145B GLU 5.2 0.9 - - - +
147B GLY* 3.3 6.5 + - - +
148B GLY 3.2 0.2 - - - -
149B ASP* 1.3 95.5 + - - +
151B ILE* 1.3 60.8 + - - +
152B ARG 3.2 0.2 - - - -
153B LEU* 3.3 9.8 + - + +
154B ALA* 2.9 28.2 + - - +
167B ILE* 4.1 26.5 - - + -
171B VAL* 3.8 32.1 - - + -
173B VAL* 3.8 19.7 - - + -
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Residues in contact with ILE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B GLY 3.1 21.9 + - - +
148B GLY* 3.4 10.1 + - - +
150B ILE* 1.3 75.9 - - - +
152B ARG* 1.3 63.4 + - - +
154B ALA* 3.5 1.7 + - - +
155B GLN* 3.1 25.5 + - - +
171B VAL* 5.9 0.2 - - + -
173B VAL* 4.0 25.4 - - + -
180B VAL* 3.6 21.3 - - + +
182B THR* 4.1 7.2 - - + -
269B VAL* 3.7 31.6 - - + -
271B VAL* 4.1 22.4 - - + -
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Residues in contact with ARG 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135B ASP* 3.0 21.5 + - - +
137B LEU* 3.8 30.9 + - - +
138B ILE* 4.6 4.6 + - - +
148B GLY* 2.9 34.0 + - - +
149B ASP* 3.6 13.4 + - - +
151B ILE* 1.3 77.1 - - - +
153B LEU* 1.3 63.7 + - - +
155B GLN* 4.0 3.1 - - - +
156B GLN* 3.0 56.6 + - + +
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Residues in contact with LEU 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B ALA* 3.7 32.3 - - + +
127B ILE* 4.5 8.1 - - + -
128B ALA* 4.1 27.1 - - + +
131B VAL* 6.0 2.9 - - + -
138B ILE* 6.5 0.9 - - + -
149B ASP 3.2 11.2 + - - +
150B ILE* 3.6 13.2 - - + +
152B ARG* 1.3 79.5 - - - +
154B ALA* 1.3 57.2 + - - +
156B GLN* 3.8 6.9 - - + +
157B ALA* 2.9 36.5 + - + +
167B ILE* 4.1 17.3 - - + -
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Residues in contact with ALA 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B ILE 2.9 16.8 + - - +
151B ILE 3.7 4.0 - - - +
153B LEU* 1.3 77.9 - - - +
155B GLN* 1.3 57.6 + - - +
157B ALA* 3.7 1.9 - - - +
158B ALA* 2.9 28.9 + - - +
165B ILE* 3.7 16.8 - - + +
167B ILE* 3.9 19.2 - - + +
173B VAL* 3.9 21.5 - - + -
175B ALA* 4.2 12.1 - - + -
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Residues in contact with GLN 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B ILE* 3.1 14.7 + - - +
152B ARG* 4.2 3.4 - - - +
154B ALA* 1.3 78.6 - - - +
156B GLN* 1.3 62.7 + - - +
158B ALA* 3.3 3.8 + - - +
159B GLN* 3.0 47.1 + - - +
175B ALA* 4.1 7.8 - - - +
176B ASP 4.2 2.9 - - - +
177B THR 3.6 18.6 + - - +
178B SER* 3.8 17.0 + - - +
179B HIS 4.2 0.4 - - - +
180B VAL* 3.5 25.7 - - + +
271B VAL* 3.6 26.2 - - - +
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Residues in contact with GLN 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134B THR* 4.8 8.1 - - - +
135B ASP* 3.5 29.0 + - - +
152B ARG* 3.0 48.7 + - + +
153B LEU* 3.8 7.4 - - + +
155B GLN* 1.3 77.3 - - + +
157B ALA* 1.3 59.0 + - - +
159B GLN* 3.3 16.8 + - - +
160B LYS* 3.0 44.7 + - - +
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Residues in contact with ALA 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B ILE* 4.0 14.4 - - + -
131B VAL* 3.9 28.7 - - + -
153B LEU* 2.9 20.3 + - + +
154B ALA 3.7 3.6 - - - +
156B GLN* 1.3 74.3 - - - +
158B ALA* 1.3 65.8 + - - +
160B LYS* 3.3 4.0 + - - +
161B LEU* 2.9 31.0 + - - +
165B ILE* 3.9 14.8 - - + -
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Residues in contact with ALA 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154B ALA 2.9 17.2 + - - +
155B GLN 3.5 2.9 - - - +
157B ALA* 1.3 77.1 - - - +
159B GLN* 1.3 52.5 + - - +
162B ASN* 2.7 35.7 + - - -
163B THR* 3.2 24.3 + - - +
165B ILE* 3.5 8.0 - - + +
175B ALA 3.7 11.2 - - - +
176B ASP 3.5 26.7 - - - +
177B THR* 3.9 3.7 + - - -
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Residues in contact with GLN 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155B GLN* 3.0 35.6 + - - +
156B GLN* 3.6 17.1 - - - +
157B ALA 3.2 0.2 - - - -
158B ALA* 1.3 78.5 - - - +
160B LYS* 1.3 62.1 + - + +
162B ASN* 3.6 8.8 + - - +
177B THR* 3.3 44.9 + - + +
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Residues in contact with LYS 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B VAL* 3.6 30.1 + - + +
132B GLY 4.5 2.8 + - - -
134B THR* 3.1 38.0 + - - +
156B GLN* 3.0 33.2 + - - +
157B ALA* 3.9 4.3 - - - +
159B GLN* 1.3 79.9 - - + +
161B LEU* 1.3 70.2 + - + +
162B ASN* 3.6 1.4 + - - +
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Residues in contact with LEU 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112B ILE* 4.0 35.4 - - + +
120B ILE* 3.9 23.8 - - + -
130B THR* 5.6 0.7 - - + -
131B VAL* 3.8 32.3 - - + -
157B ALA 2.9 17.0 + - - +
160B LYS* 1.3 83.7 - - + +
162B ASN* 1.3 72.7 + - - +
163B THR* 3.3 15.5 + - + -
165B ILE* 4.7 4.7 - - + -
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Residues in contact with ASN 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116B ARG* 6.0 4.5 - - - +
117B LEU 4.5 3.6 - - - +
158B ALA 2.7 15.4 + - - -
159B GLN 3.6 7.5 + - - +
160B LYS 3.3 3.7 - - - +
161B LEU* 1.3 80.5 - - - +
163B THR* 1.3 56.3 + - - +
177B THR* 3.8 15.3 + - - -
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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