Contacts of the helix formed by residues 144 - 159 (chain A) in PDB entry 2ZHX
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 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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24A GLN* 2.5 32.8 + - - -
27A HIS* 5.3 2.2 - - - -
28A MET* 3.6 9.9 - - - -
142A GLY 3.1 7.1 + - - -
143A LYS* 1.3 80.8 - - - +
145A TRP* 1.3 61.8 + - - +
146A GLU* 3.5 3.4 + - - -
147A ALA* 3.6 10.0 - - - +
148A VAL 4.2 0.2 + - - -
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Residues in contact with TRP 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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25A VAL* 5.2 5.2 - - + -
28A MET* 3.8 48.1 - - + +
32A LEU* 4.3 9.1 - - + +
49A VAL* 3.8 30.7 - - + -
50A LEU* 4.0 12.8 - - + -
128A ARG 4.0 2.5 - - - +
129A VAL* 3.9 27.6 - - + -
130A LEU* 3.5 43.5 - - + +
131A THR* 2.9 33.9 + - + +
140A HIS* 4.5 8.1 - - + +
143A LYS 3.7 1.6 - - - +
144A GLY* 1.3 74.8 - - - +
146A GLU* 1.3 60.0 + - - +
148A VAL* 2.8 42.5 + - + +
149A THR* 3.1 12.5 + - - +
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Residues in contact with GLU 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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128A ARG* 3.8 28.0 - - + +
129A VAL* 3.5 23.2 - - + +
140A HIS 4.7 0.2 - - - +
141A ARG* 3.6 9.2 + - - +
142A GLY* 2.9 38.5 + - - -
143A LYS 4.0 0.3 + - - -
144A GLY 3.5 1.8 + - - -
145A TRP* 1.3 81.0 + - - +
147A ALA* 1.3 54.3 + - - +
149A THR* 3.1 9.9 + - - +
150A GLU* 2.7 52.5 + - - +
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Residues in contact with ALA 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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21A VAL* 3.8 8.3 - - + +
24A GLN* 3.9 20.6 - - + +
144A GLY 3.6 13.6 + - - +
146A GLU* 1.3 77.2 - - - +
148A VAL* 1.3 57.4 + - - +
150A GLU* 3.7 8.3 + - - +
151A CYS* 3.1 26.0 + - - +
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Residues in contact with VAL 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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18A LEU* 3.9 21.0 - - + +
21A VAL* 4.2 15.3 - - + -
24A GLN* 4.2 17.7 - - - +
25A VAL* 4.3 28.3 - - + +
28A MET* 4.6 0.9 - - + -
50A LEU* 5.7 1.1 - - + -
53A PHE* 4.6 14.1 - - + -
130A LEU* 5.1 0.2 - - + -
144A GLY 4.4 0.2 - - - +
145A TRP* 2.8 43.1 + - + +
147A ALA* 1.3 67.3 - - - +
149A THR* 1.3 54.3 + - + +
150A GLU 3.1 1.3 - - - -
151A CYS* 2.8 24.1 + - - +
152A ALA* 2.8 16.7 + - - +
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Residues in contact with THR 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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53A PHE* 5.0 0.4 - - + -
126A LEU* 3.9 11.4 - - + +
127A ASN 3.2 22.2 - - - +
128A ARG* 2.9 43.3 + - - +
130A LEU* 3.9 22.2 - - + -
145A TRP 3.1 5.3 + - - +
146A GLU* 3.1 13.9 + - - -
148A VAL* 1.3 74.5 - - + +
150A GLU* 1.3 56.8 + - - +
152A ALA* 3.0 10.3 - - - +
153A ILE* 3.0 36.0 + - - +
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Residues in contact with GLU 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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128A ARG* 3.9 23.2 + - - +
146A GLU* 2.7 36.0 + - - +
147A ALA* 3.7 7.8 + - - +
149A THR* 1.3 72.1 + - - +
151A CYS* 1.3 64.2 + - - +
153A ILE* 3.1 6.2 + - - +
154A ARG* 3.0 45.3 + - - +
175A LEU* 5.6 0.4 - - + -
178A MET* 3.5 35.6 - - + +
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Residues in contact with CYS 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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17A ALA 3.8 22.2 - - - -
18A LEU* 4.4 1.6 - - - -
20A PRO* 4.4 15.5 - - - -
21A VAL* 3.7 31.0 - - + -
147A ALA 3.1 13.9 + - - +
148A VAL 2.8 12.5 + - - +
150A GLU* 1.3 71.7 - - - +
152A ALA* 1.3 64.8 + - - +
154A ARG* 3.3 10.0 + - - +
155A ALA* 2.9 24.8 + - - +
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Residues in contact with ALA 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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14A TRP* 4.1 11.6 - - + -
18A LEU* 3.9 10.4 - - + +
53A PHE* 3.6 31.2 - - + -
126A LEU* 3.8 12.1 - - + -
148A VAL 2.8 11.0 + - - +
149A THR* 3.0 14.6 - - - +
151A CYS* 1.3 76.1 - - - +
153A ILE* 1.3 62.0 + - - +
155A ALA* 3.3 5.9 + - - +
156A LEU* 3.2 23.5 + - - +
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Residues in contact with ILE 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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63A LEU* 3.7 33.0 - - + -
65A VAL* 4.8 4.7 - - + -
126A LEU* 4.0 17.3 - - + -
128A ARG* 5.6 1.6 - - + -
149A THR* 3.0 18.3 + - - +
150A GLU 3.6 5.2 - - - +
152A ALA* 1.3 72.8 - - - +
154A ARG* 1.3 67.2 + - - +
156A LEU* 2.8 22.1 + - + +
157A ALA* 3.0 11.9 + - - +
163A LEU* 5.8 3.4 - - + -
175A LEU* 3.3 32.1 - - + -
178A MET* 4.4 11.4 - - + -
179A LEU* 4.5 25.8 - - + -
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Residues in contact with ARG 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 GLU* 3.0 41.7 + - - +
151A CYS* 3.7 12.0 - - - +
153A ILE* 1.3 72.0 - - - +
155A ALA* 1.3 63.2 + - - +
157A ALA* 3.3 9.2 + - - +
158A ALA* 3.0 22.5 + - - +
178A MET* 3.8 43.1 + - + +
81H ILE 5.6 4.4 + - - -
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Residues in contact with ALA 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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17A ALA* 3.7 39.0 - - + +
57A PHE* 3.5 13.8 - - + -
151A CYS* 2.9 15.1 + - - +
152A ALA 3.3 10.5 - - - +
154A ARG* 1.3 75.4 - - - +
156A LEU* 1.3 63.7 + - - +
158A ALA* 3.1 16.5 + - - +
159A ARG* 3.5 6.9 + - - +
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Residues in contact with LEU 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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14A TRP* 4.3 3.1 - - + -
57A PHE* 3.4 31.4 - - + +
60A VAL* 3.8 20.0 - - + -
63A LEU* 4.8 8.5 - - + -
124A LEU* 3.6 30.1 - - + -
152A ALA 3.2 9.2 + - - +
153A ILE* 2.8 15.5 + - + +
155A ALA* 1.3 77.7 - - - +
157A ALA* 1.3 62.1 + - - +
159A ARG* 3.2 55.3 + - - +
161A ALA 4.8 2.3 - - - +
163A LEU* 4.0 22.9 - - + +
184A CYS* 5.0 0.9 - - - -
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Residues in contact with ALA 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 ILE 3.0 10.4 + - - +
154A ARG* 3.5 12.6 - - - +
156A LEU* 1.3 79.4 - - - +
158A ALA* 1.3 60.3 + - - +
159A ARG 3.4 2.4 + - - +
163A LEU* 4.4 1.6 - - + +
178A MET 4.6 1.6 - - - +
179A LEU* 4.0 24.9 - - + -
180A ALA 4.9 3.8 - - - +
183A ASN* 3.6 20.1 + - - +
184A CYS* 3.5 27.0 - - - -
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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 ARG 3.0 13.6 + - - +
155A ALA* 3.1 11.8 + - - +
157A ALA* 1.3 76.8 - - - +
159A ARG* 1.3 65.1 + - - +
160A ALA 3.8 0.2 + - - -
183A ASN* 5.5 0.2 - - - +
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Residues in contact with ARG 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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57A PHE* 2.9 64.7 + - + -
58A ASP* 3.9 11.1 + - - +
60A VAL* 2.9 32.5 + - - +
155A ALA 3.5 1.3 - - - +
156A LEU* 3.2 27.6 + - - +
157A ALA 3.3 1.3 - - - +
158A ALA* 1.3 83.3 - - - +
160A ALA* 1.3 60.2 + - - +
161A ALA* 3.2 24.6 + - + +
162A PRO 3.4 19.4 + - - -
163A LEU* 3.9 14.3 - - - +
183A ASN* 2.8 23.7 + - - +
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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