Contacts of the helix formed by residues 151 - 163 (chain A) in PDB entry 2AAZ
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 ASP 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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132A ARG* 2.8 59.0 + - - +
149A GLY 3.7 4.0 + - - +
150A VAL* 1.3 73.1 - - - +
152A GLN* 1.3 59.8 + - - +
153A LEU 3.3 1.9 + - - -
154A GLN* 3.0 25.9 + - + +
155A ARG* 3.2 18.5 + - - +
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Residues in contact with GLN 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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130A GLN 2.9 23.2 + - - -
131A TRP* 2.9 12.8 + - - +
134A PHE* 3.7 12.3 - - - +
150A VAL* 4.0 11.4 - - + +
151A ASP* 1.3 71.8 - - - +
153A LEU* 1.3 58.6 + - - +
155A ARG* 3.3 7.4 + - - +
156A VAL* 2.9 32.7 + - - +
170A ILE 3.8 10.6 - - - +
171A LEU* 3.8 11.7 - - + -
172A SER* 2.7 49.2 + - - +
174B TRP* 4.6 1.4 + - - -
176B PRO* 3.7 30.0 - - + +
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Residues in contact with LEU 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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84A VAL* 3.8 28.3 - - + -
131A TRP* 3.3 8.2 + - + +
132A ARG* 3.6 30.3 - - - +
151A ASP* 3.3 1.2 + - - -
152A GLN* 1.3 78.2 - - - +
154A GLN* 1.3 62.9 + - - +
156A VAL* 3.1 9.7 + - + +
157A ILE* 3.1 25.0 + - + +
171A LEU* 3.9 28.8 - - + +
234A LEU* 4.6 5.4 - - + -
238A ILE* 4.3 22.4 - - + -
292A ILE* 3.7 32.3 - - + -
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Residues in contact with GLN 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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132A ARG* 4.4 4.7 - - - +
151A ASP* 3.0 31.1 + - + +
153A LEU* 1.3 76.9 - - - +
155A ARG* 1.3 57.7 + - - +
157A ILE* 3.2 17.9 + - - +
158A ASP* 2.9 58.2 + - - +
291A ASP* 5.2 7.1 - - - +
292A ILE* 3.9 25.1 - - - +
293A ASP* 5.0 2.2 + - - -
139D THR* 6.1 7.6 - - + -
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Residues in contact with ARG 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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150A VAL* 5.9 4.0 - - + -
151A ASP 3.2 15.0 + - - +
152A GLN* 3.5 11.7 - - - +
153A LEU 3.2 0.6 - - - -
154A GLN* 1.3 76.4 - - - +
156A VAL* 1.3 55.2 + - - +
158A ASP* 3.4 5.4 + - - +
159A THR* 2.7 49.9 + - - +
114D GLY 5.8 0.6 + - - -
117D HIS* 3.4 51.5 + - - -
181D LEU* 5.3 10.5 - - - +
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Residues in contact with VAL 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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152A GLN 2.9 20.5 + - - +
153A LEU* 3.1 11.0 + - + +
155A ARG* 1.3 77.2 - - + +
157A ILE* 1.3 62.4 + - - +
159A THR* 3.3 3.0 + - - -
160A ILE* 2.9 38.7 + - + +
169A ILE* 3.6 28.9 - - + +
170A ILE 3.7 26.2 - - - +
171A LEU* 4.5 9.9 - - + -
193A PHE* 3.8 17.0 - - + -
238A ILE* 4.5 10.3 - - + -
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Residues in contact with ILE 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 LEU* 3.1 15.4 + - + +
154A GLN* 3.2 30.0 + - - +
156A VAL* 1.3 78.9 - - + +
158A ASP* 1.3 64.1 + - - +
160A ILE 3.4 0.3 + - - -
161A LYS* 3.1 36.4 + - + +
238A ILE* 3.6 44.9 - - + -
241A ILE* 4.0 19.1 - - + -
242A THR* 3.7 19.0 - - + +
292A ILE* 4.4 18.2 - - + -
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Residues in contact with ASP 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 GLN* 2.9 47.2 + - - +
155A ARG* 3.8 7.4 + - - +
157A ILE* 1.3 77.0 - - - +
159A THR* 1.3 58.9 + - - +
161A LYS* 3.4 8.0 + - - +
162A ASN* 2.9 39.7 + - - +
117D HIS* 3.4 33.9 + - + +
139D THR 5.1 6.4 - - - +
140D ASP* 5.3 9.4 - - - +
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Residues in contact with THR 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 ARG* 2.7 38.5 + - - +
156A VAL* 3.7 5.8 - - - -
158A ASP* 1.3 75.0 - - - +
160A ILE* 1.3 60.6 + - - +
163A ASN* 2.7 45.5 + - + +
166A ASP* 3.5 38.1 - - + +
169A ILE* 3.8 16.4 - - + -
117D HIS* 3.7 10.2 - - + +
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Residues in contact with ILE 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 VAL* 2.9 34.4 + - + +
157A ILE 3.7 4.3 - - - +
159A THR* 1.3 76.7 - - - +
161A LYS* 1.3 61.9 + - - +
164A PRO* 3.5 24.7 - - - +
169A ILE* 4.2 13.2 - - + -
193A PHE* 4.4 4.9 - - + -
195A VAL* 3.9 24.6 - - + +
209A LEU* 3.8 15.3 - - + -
238A ILE* 3.5 30.7 - - + -
242A THR* 3.6 24.0 - - + +
244A THR* 3.9 15.4 - - + +
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Residues in contact with LYS 161 (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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157A ILE* 3.1 31.1 + - + +
158A ASP* 3.8 9.2 + - - +
160A ILE* 1.3 79.4 - - - +
162A ASN* 1.3 72.9 + - - +
163A ASN 3.7 0.2 - - - -
164A PRO* 4.5 3.0 - - - +
241A ILE* 4.0 22.1 + - - +
242A THR* 3.7 26.7 - - - +
243A ASP* 6.1 0.7 - - - -
286A LYS* 5.7 5.4 - - - +
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Residues in contact with ASN 162 (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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158A ASP* 2.9 20.3 + - - +
161A LYS* 1.3 90.1 - - - +
163A ASN* 1.3 58.7 + - - +
164A PRO* 3.6 4.9 - - - +
107D LYS* 2.7 30.4 + - - +
116D GLY 3.7 0.4 - - - +
117D HIS 2.7 33.1 + - - +
118D ARG* 3.5 13.0 - - - +
119D ARG* 3.4 33.3 - - - +
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Residues in contact with ASN 163 (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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159A THR* 2.7 23.7 + - + +
162A ASN* 1.3 75.9 - - - +
164A PRO* 1.3 60.9 - - - +
165A THR* 3.3 12.5 + - - -
166A ASP* 3.0 50.9 + - - +
107D LYS* 4.5 0.2 - - - +
111D GLU* 3.6 26.2 + - - +
116D GLY* 3.2 28.0 - - - +
117D HIS* 4.8 0.2 - - - -
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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