Contacts of the helix formed by residues 137 - 151 (chain A) in PDB entry 1QZW
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 PRO 137 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135A TYR 4.0 4.9 - - - +
136A ARG* 1.4 106.9 - - + +
138A ALA* 1.3 52.7 - - + +
139A ALA* 2.2 28.6 + - - +
140A TYR* 4.6 2.9 - - - -
141A ASP* 3.7 4.1 - - - +
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Residues in contact with ALA 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A THR* 5.6 0.3 - - - +
136A ARG* 3.4 20.2 + - - +
137A PRO* 1.3 71.5 - - + +
139A ALA* 1.3 68.3 - - - +
140A TYR 3.5 2.4 - - - +
141A ASP* 2.6 30.0 + - + +
142A GLN* 3.8 26.3 + - + +
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Residues in contact with ALA 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A THR* 5.3 2.8 + - - -
131A ALA* 4.1 10.1 - - + -
133A ASP* 3.8 25.6 - - + +
134A VAL* 6.1 0.2 - - + -
136A ARG* 3.9 7.1 - - - +
137A PRO 2.2 26.9 + - - +
138A ALA* 1.3 77.6 - - - +
140A TYR* 1.3 92.1 - - + +
141A ASP* 2.5 1.8 + - - -
142A GLN* 4.4 0.7 - - - +
143A LEU* 3.2 15.8 - - - +
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Residues in contact with TYR 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ALA* 3.7 17.2 - - + +
134A VAL* 5.0 4.3 - - + +
137A PRO 4.6 3.1 - - - -
139A ALA* 1.3 96.2 - - + +
141A ASP* 1.3 101.8 + - - +
143A LEU* 2.5 29.9 + - + +
144A LEU* 2.6 15.9 + - + -
155A TYR 5.2 0.9 - - - -
156A GLY* 3.9 13.0 - - - -
157A GLU 2.5 49.1 + - - -
158A PRO* 3.0 19.1 - - + +
159A ASN* 3.1 13.3 + - - -
153G GLN* 5.9 1.8 - - - +
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Residues in contact with ASP 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A PRO 4.5 1.9 - - - +
138A ALA* 3.3 22.1 + - + -
139A ALA 2.5 28.4 + - - -
140A TYR* 1.3 103.6 - - - +
142A GLN* 1.3 56.3 + - - +
143A LEU 2.4 3.3 + - - -
144A LEU* 2.4 47.1 + - - +
145A GLN* 4.4 0.2 - - - -
176G LYS* 4.6 25.4 - - - +
177G ASN* 4.7 4.9 - - - +
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Residues in contact with GLN 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A THR* 3.2 31.2 + - - +
111A THR* 3.7 26.9 - - - +
136A ARG* 5.3 0.6 + - - -
138A ALA* 3.8 23.9 + - + +
140A TYR 3.1 0.2 + - - -
141A ASP* 1.3 77.4 - - - +
143A LEU* 1.3 63.6 + - - +
145A GLN* 2.7 31.7 - - - +
146A LEU* 3.0 10.9 - - + +
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Residues in contact with LEU 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A THR* 3.9 21.1 - - - +
129A LEU* 6.0 1.6 - - + -
130A VAL 5.4 0.9 - - - -
131A ALA* 4.3 19.7 - - + +
139A ALA* 3.2 9.4 - - - +
140A TYR* 2.5 33.2 + - + +
141A ASP 2.4 5.3 + - - -
142A GLN* 1.3 76.0 + - - +
144A LEU* 1.3 83.2 + - - +
145A GLN 2.3 19.4 + - - -
146A LEU* 2.6 38.6 - - + +
147A GLY 5.3 0.4 - - - +
154A VAL* 4.3 29.4 - - + -
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Residues in contact with LEU 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140A TYR* 3.5 7.9 - - + -
141A ASP* 2.4 43.2 + - - +
143A LEU* 1.3 89.5 - - - +
145A GLN* 1.3 109.4 - - - +
147A GLY* 3.1 9.2 + - - -
148A ASN* 4.1 0.6 - - - +
153G GLN* 3.3 33.9 + - - +
173G ILE* 4.6 7.9 - - + -
174G PHE* 5.7 2.5 - - + -
177G ASN* 3.0 44.6 - - + +
179G MET* 5.3 2.2 - - - -
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Residues in contact with GLN 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A GLN* 2.7 29.1 - - - +
143A LEU 2.3 7.7 + - - -
144A LEU* 1.3 107.8 - - + +
146A LEU* 1.3 77.4 + - + +
147A GLY 2.6 0.3 + - - -
148A ASN* 2.5 25.4 + - - +
149A GLN* 4.0 4.5 - - + +
177G ASN* 4.4 9.9 + - - +
179G MET* 3.9 20.8 - - - +
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Residues in contact with LEU 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A THR* 5.6 2.0 - - - +
111A THR* 5.4 6.5 - - - +
114A GLY* 4.7 20.0 - - - +
142A GLN* 3.0 18.8 - - + +
143A LEU* 2.6 38.1 - - + +
145A GLN* 1.3 78.2 - - + +
147A GLY* 1.3 58.8 + - - +
149A GLN* 2.5 52.1 + - - +
150A ILE* 2.5 23.4 + - + +
276A ILE* 5.5 7.4 - - + -
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Residues in contact with GLY 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143A LEU* 4.9 0.8 - - - +
144A LEU 3.1 9.1 + - - -
145A GLN 2.6 7.1 + - - -
146A LEU* 1.3 78.6 - - - +
148A ASN* 1.3 50.4 + - - -
150A ILE* 3.2 7.3 - - - +
152A VAL* 2.4 58.3 + - - +
153A GLN* 4.8 1.1 - - - -
154A VAL* 4.0 13.7 - - - -
153G GLN* 4.9 1.8 - - - -
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Residues in contact with ASN 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A LEU 3.7 1.9 + - - +
145A GLN* 2.5 34.4 + - - +
146A LEU 2.6 2.2 + - - -
147A GLY* 1.3 69.0 - - - -
149A GLN* 1.3 73.3 + - - +
150A ILE 2.4 18.2 + - - -
151A GLY 2.4 14.0 + - - +
152A VAL 4.3 0.7 - - - +
121G LYS* 5.2 0.9 + - - -
126G LYS* 4.5 22.7 - - - +
127G VAL* 5.5 8.4 - - + +
151G GLY* 3.0 22.8 + - - +
152G VAL* 4.1 1.7 - - + +
153G GLN* 3.5 37.1 + - + +
179G MET* 6.0 4.1 - - - +
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Residues in contact with GLN 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A GLN* 4.0 2.6 - - + +
146A LEU* 2.5 29.4 + - - +
148A ASN* 1.3 90.0 - - - +
150A ILE* 1.3 77.7 + - - +
276A ILE* 5.5 12.5 - - - +
126G LYS* 5.5 7.9 - - - +
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Residues in contact with ILE 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A GLY* 5.7 2.2 - - - +
117A ALA* 5.3 1.8 - - + -
118A TYR* 4.3 31.9 - - + +
121A LYS* 2.7 31.7 + - + +
129A LEU* 6.2 0.9 - - + -
146A LEU* 2.5 34.4 + - + +
147A GLY* 3.2 19.3 - - - +
148A ASN 2.4 14.5 + - - -
149A GLN* 1.3 85.6 - - - +
151A GLY* 1.3 48.5 + - - +
152A VAL* 3.1 33.0 - - + -
276A ILE* 5.0 13.5 - - + -
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Residues in contact with GLY 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121A LYS* 3.6 14.5 + - - -
148A ASN 2.4 15.1 + - - -
150A ILE* 1.3 74.1 - - - +
152A VAL* 1.3 64.7 + - - +
153A GLN 4.2 0.2 - - - -
121G LYS* 5.4 0.2 - - - -
148G ASN* 2.9 24.0 + - - +
151G GLY* 2.6 33.4 - - - -
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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