Contacts of the helix formed by residues 143 - 160 (chain A) in PDB entry 4QMG
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 ASN 143 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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53A ASN* 4.9 3.4 - - - +
100A GLU* 5.1 7.1 + - - -
141A ALA 3.5 4.0 + - - +
142A ASN* 1.3 76.5 - - - +
144A PRO* 1.3 76.7 - - + +
145A GLU* 2.9 18.5 + - - +
146A GLN* 2.5 61.9 + - - +
147A ASN* 3.1 17.3 + - - +
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Residues in contact with PRO 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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142A ASN 4.8 0.2 - - - +
143A ASN* 1.3 89.8 - - + +
145A GLU* 1.3 63.6 + - + +
147A ASN* 3.5 13.8 + - + +
148A ARG* 3.2 34.2 + - - +
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Residues in contact with GLU 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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53A ASN* 4.8 10.5 + - - +
100A GLU* 5.5 1.9 - - - +
111A MSE 3.8 37.4 - - - +
113A TYR* 3.8 11.2 + - - -
122A ASN* 4.7 5.0 + - - -
125A GLU* 5.1 2.3 - - - +
143A ASN* 2.9 11.9 + - + +
144A PRO* 1.3 76.6 - - + +
146A GLN* 1.3 65.8 + - - +
147A ASN 3.1 0.7 + - - -
148A ARG* 3.5 37.3 + - - +
149A LEU* 3.5 18.1 + - + +
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Residues in contact with GLN 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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53A ASN* 3.3 34.9 + - + +
100A GLU* 5.6 0.6 + - - -
135A ARG* 2.9 28.7 + - - +
138A GLY* 5.8 5.4 - - - -
140A ARG* 5.9 1.8 - - - +
141A ALA 3.9 4.7 - - - +
142A ASN* 3.2 40.7 - - + +
143A ASN* 2.5 36.9 + - - +
145A GLU* 1.3 72.1 - - - +
147A ASN* 1.3 61.7 + - - +
149A LEU* 3.6 8.3 + - - +
150A SER* 3.4 8.5 + - - -
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Residues in contact with ASN 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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142A ASN* 3.2 30.1 + - - +
143A ASN 3.1 16.5 + - - -
144A PRO* 3.6 13.9 - - + +
145A GLU 3.1 0.2 - - - -
146A GLN* 1.3 77.1 - - - +
148A ARG* 1.3 64.4 + - + +
150A SER* 3.1 21.9 + - - -
151A GLU* 3.2 15.2 + - - +
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Residues in contact with ARG 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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113A TYR* 5.8 2.2 + - - -
122A ASN* 5.2 4.2 - - - +
125A GLU* 3.2 33.8 + - - +
144A PRO* 3.2 30.2 + - - +
145A GLU* 3.8 32.2 + - - +
146A GLN 3.5 0.2 - - - -
147A ASN* 1.3 71.2 - - + +
149A LEU* 1.3 60.2 + - - +
150A SER 3.1 1.8 - - - -
151A GLU* 3.1 20.4 + - + +
152A CYS* 2.8 36.7 + - - -
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Residues in contact with LEU 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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52A SER 4.8 0.9 - - - +
53A ASN* 3.5 37.0 - - + +
54A ILE* 4.1 10.1 - - + -
124A ALA* 3.9 8.5 - - + +
125A GLU* 3.9 31.2 - - + +
128A VAL* 3.4 30.3 - - + +
135A ARG* 3.6 15.9 - - + +
145A GLU* 3.5 16.0 + - + +
146A GLN* 3.7 13.0 - - + +
148A ARG* 1.3 77.8 - - - +
150A SER* 1.3 57.4 + - - +
152A CYS* 4.3 3.4 - - - -
153A GLU* 3.0 28.4 + - - +
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Residues in contact with SER 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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135A ARG* 3.5 22.4 + - - +
142A ASN* 4.9 6.0 + - - -
146A GLN 3.4 10.2 + - - -
147A ASN* 3.1 14.3 + - - -
148A ARG 3.1 0.6 - - - -
149A LEU* 1.3 78.0 - - - +
151A GLU* 1.3 59.6 + - - +
153A GLU* 3.3 2.6 + - - +
154A GLU* 2.9 37.9 + - - +
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Residues in contact with GLU 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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147A ASN* 3.2 10.3 + - - +
148A ARG* 3.1 25.9 + - - +
150A SER* 1.3 75.1 - - - +
152A CYS* 1.3 60.4 + - - +
154A GLU* 3.4 5.4 + - - +
155A GLN* 3.0 32.9 + - - +
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Residues in contact with CYS 152 (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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125A GLU* 3.9 35.7 - - - +
128A VAL* 3.6 8.0 - - + +
129A ALA* 3.7 28.3 - - - +
148A ARG* 2.8 29.6 + - - +
149A LEU* 3.8 6.1 - - - +
151A GLU* 1.3 74.1 - - - +
153A GLU* 1.3 57.0 + - - +
155A GLN* 3.5 10.2 + - - +
156A ALA* 3.0 28.9 + - - +
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Residues in contact with GLU 153 (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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128A VAL* 3.6 15.3 - - + +
134A THR* 3.5 16.2 + - - -
135A ARG* 2.9 46.7 + - - +
149A LEU 3.0 17.5 + - - +
150A SER 3.6 5.4 - - - +
151A GLU 3.2 0.2 - - - -
152A CYS* 1.3 75.0 - - - +
154A GLU* 1.3 68.1 + - - +
156A ALA* 3.3 2.9 + - - +
157A LYS* 2.9 41.2 + - - +
164A TRP* 4.0 23.9 - - + +
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Residues in contact with GLU 154 (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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150A SER* 2.9 24.4 + - - +
151A GLU* 3.9 5.6 - - - +
153A GLU* 1.3 80.6 - - - +
155A GLN* 1.3 60.9 + - - +
157A LYS* 2.4 38.4 + - - +
158A ALA* 2.9 31.6 + - - +
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Residues in contact with GLN 155 (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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129A ALA* 5.2 6.2 - - + +
151A GLU 3.0 18.6 + - - +
152A CYS* 3.8 10.0 - - - +
154A GLU* 1.3 78.1 - - - +
156A ALA* 1.3 57.6 + - - +
158A ALA* 3.8 5.6 - - + +
159A ALA* 3.1 28.4 + - - +
188B ASP* 3.2 54.5 + - - +
191B HIS* 3.5 22.5 + - + +
192B GLN* 3.6 22.4 + - - +
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Residues in contact with ALA 156 (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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128A VAL 3.5 17.9 - - - +
129A ALA 3.5 16.5 + - - +
130A GLU 4.6 0.7 - - - -
131A GLY* 3.9 5.2 - - - +
152A CYS 3.0 18.0 + - - +
153A GLU 3.6 5.2 - - - +
155A GLN* 1.3 75.4 - - - +
157A LYS* 1.3 58.5 + - - +
159A ALA* 3.4 3.2 + - - +
160A LYS 2.8 22.3 + - - -
161A LYS* 3.0 17.4 + - + -
164A TRP* 3.7 16.4 - - + +
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Residues in contact with LYS 157 (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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153A GLU* 2.9 27.7 + - - +
154A GLU* 2.4 48.1 + - - +
156A ALA* 1.3 74.1 - - - +
158A ALA* 1.3 65.6 + - - +
160A LYS* 3.2 18.2 + - - +
164A TRP* 3.4 58.8 - - + +
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Residues in contact with ALA 158 (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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154A GLU 2.9 17.7 + - - +
155A GLN* 3.8 7.4 - - + +
157A LYS* 1.3 79.5 - - - +
159A ALA* 1.3 60.0 + - - +
160A LYS* 3.1 8.9 + - - +
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Residues in contact with ALA 159 (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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155A GLN 3.1 19.8 + - - +
156A ALA 4.0 0.4 - - - +
158A ALA* 1.3 74.3 - - - +
160A LYS* 1.3 70.7 + - - +
161A LYS* 4.0 18.4 - - + -
192B GLN* 3.7 36.8 - - + +
305B THR* 3.3 25.2 - - + +
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Residues in contact with LYS 160 (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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156A ALA 2.8 9.5 + - - -
157A LYS 3.2 14.1 + - - +
158A ALA 3.1 7.7 - - - +
159A ALA* 1.3 82.3 - - - +
161A LYS* 1.3 58.9 + - - +
164A TRP 3.5 25.6 - - - +
165A SER* 3.7 14.4 + - - -
166A GLU* 4.5 23.5 - - - +
304B TYR 4.3 8.0 - - - +
305B THR* 4.5 8.2 - - - +
307B GLY 5.9 0.3 + - - -
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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