Contacts of the helix formed by residues 149 - 160 (chain A) in PDB entry 2AXZ
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 PHE 149 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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107A LEU* 4.9 1.8 - - + -
145A ARG* 3.3 18.8 - - - -
147A THR* 3.7 14.6 - - + -
148A PHE* 1.3 75.0 - - - +
150A GLY* 1.3 67.4 + - - +
151A ILE* 3.2 5.6 - - + -
152A ASP* 2.8 35.4 + - - +
153A TYR* 3.3 9.8 - - - -
186A TYR* 4.3 0.7 - - - -
10B GLN* 4.8 6.7 - - + -
11B ILE* 3.3 40.2 - - + -
14B GLU* 3.8 25.4 - - + -
15B LEU* 4.2 12.8 - - + -
56B VAL* 3.8 23.3 - - + -
60B GLU* 3.1 12.6 - - - +
64B ARG* 3.5 26.2 - - - +
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Residues in contact with GLY 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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149A PHE* 1.3 71.1 - - - +
151A ILE* 1.3 61.3 + - - +
153A TYR* 3.1 5.6 + - - -
154A GLU* 3.0 20.1 + - - +
185A ASP 5.5 0.2 - - - -
186A TYR* 3.6 19.6 - - - -
189A THR* 3.3 21.4 + - - -
60B GLU* 2.9 27.2 + - - -
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Residues in contact with ILE 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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79A LYS* 3.9 0.2 - - - +
107A LEU* 3.6 56.3 - - + +
108A GLN* 3.2 42.8 - - - +
111A SER* 4.1 4.9 - - - -
149A PHE* 4.4 9.2 - - + -
150A GLY* 1.3 74.4 - - - +
152A ASP* 1.3 64.2 + - - +
154A GLU* 3.3 29.4 + - - +
155A ILE* 2.9 33.5 + - - +
55B GLY 4.0 8.3 - - - +
56B VAL* 4.8 7.0 - - + -
57B ASN* 5.4 3.0 - - + +
60B GLU* 4.2 2.8 + - - -
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Residues in contact with ASP 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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107A LEU* 3.6 13.4 - - - +
142A TYR* 2.9 34.9 + - - +
145A ARG* 2.7 33.1 + - - -
148A PHE* 3.6 2.4 - - + -
149A PHE* 2.8 33.0 + - - +
151A ILE* 1.3 79.3 - - - +
153A TYR* 1.3 60.2 + - - +
155A ILE* 3.1 4.4 + - - +
156A VAL* 2.9 31.5 + - - +
175A MSE 3.3 20.6 - - + -
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Residues in contact with TYR 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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148A PHE* 3.9 21.2 + - + +
149A PHE 3.3 19.1 - - - -
150A GLY* 3.1 4.1 + - - +
152A ASP* 1.3 76.4 - - - +
154A GLU* 1.3 57.3 + - - +
156A VAL* 4.5 0.7 - - - -
157A SER* 2.9 24.9 + - - -
175A MSE 2.6 56.8 + - + +
176A TYR* 3.6 28.5 - + - -
178A ILE* 3.1 18.5 - - + +
186A TYR* 4.1 11.8 + + - -
189A THR* 3.6 21.3 - - - +
190A ILE* 3.6 19.3 - - + -
193A VAL* 3.0 21.6 - - + +
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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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79A LYS* 2.9 32.9 + - - -
111A SER* 3.1 22.2 + - - +
150A GLY 3.0 11.2 + - - +
151A ILE* 3.3 20.9 - - + +
152A ASP 3.1 0.2 - - - -
153A TYR* 1.3 75.5 - - - +
155A ILE* 1.3 64.7 - - - +
157A SER* 3.2 7.3 + - - -
158A ASN* 2.9 28.2 + - - -
189A THR* 4.0 12.0 - - + +
5E VAL* 3.3 19.7 - - + +
6E PHE* 3.2 13.7 - - - -
7E VAL* 3.5 24.0 + - - +
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Residues in contact with ILE 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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107A LEU* 3.5 48.7 - - + +
110A PHE* 3.6 32.5 - - + -
111A SER* 3.9 15.9 - - - -
114A LEU* 3.5 13.0 - - + +
142A TYR* 3.4 27.6 - - + +
151A ILE 2.9 20.5 + - - +
152A ASP 3.4 6.3 - - - +
154A GLU* 1.3 75.8 - - - +
156A VAL* 1.3 54.3 + - + +
158A ASN* 3.1 2.3 + - - +
159A LEU* 2.7 40.2 + - + +
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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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142A TYR* 4.6 8.7 - - + +
152A ASP 2.9 20.0 + - - +
153A TYR 4.0 3.4 - - - +
155A ILE* 1.3 75.7 - - + +
157A SER* 1.3 63.9 + - - +
159A LEU* 3.5 10.6 - - + +
160A LEU* 3.1 24.1 + - + +
168A VAL* 3.9 9.2 - - + -
171A ILE* 4.3 17.0 - - + -
172A ILE* 3.6 31.2 - - + +
175A MSE 3.5 26.5 - - + -
193A VAL* 4.1 15.3 - - + -
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Residues in contact with SER 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 TYR 2.9 20.6 + - - -
154A GLU* 3.3 5.8 - - - -
155A ILE 3.1 0.2 - - - -
156A VAL* 1.3 79.8 - - - +
158A ASN* 1.3 61.5 + - - +
160A LEU* 3.6 14.4 + - - +
161A ASN* 4.2 2.6 + - - +
189A THR 4.9 0.2 - - - -
192A THR* 2.8 40.0 - - - +
193A VAL* 3.9 7.0 - - - -
196A ASN* 3.2 23.6 + - - +
2E VAL* 4.7 1.6 - - - +
3E THR 4.1 1.9 - - - +
5E VAL* 3.7 14.4 - - - -
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Residues in contact with ASN 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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111A SER* 3.2 22.6 + - - +
114A LEU* 4.3 20.0 - - + +
118A SER* 4.6 0.3 + - - -
154A GLU* 2.9 18.9 + - - +
155A ILE 3.8 2.5 - - - +
157A SER* 1.3 74.1 - - - +
159A LEU* 1.3 64.2 + - - +
160A LEU 3.3 0.2 - - - -
161A ASN* 3.3 15.6 + - - +
162A VAL* 3.8 12.0 - - - +
4E LEU* 3.1 28.6 - - + +
5E VAL 2.9 43.1 + - - -
6E PHE* 4.0 8.8 - - - -
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Residues in contact with LEU 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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114A LEU* 3.8 27.4 - - + -
134A ILE* 4.5 8.7 - - + -
138A LEU* 3.6 36.6 - - + -
142A TYR* 6.0 0.7 - - + -
155A ILE* 2.7 22.3 + - + +
156A VAL* 3.5 13.5 - - + +
157A SER 3.2 0.2 - - - -
158A ASN* 1.3 73.3 - - - +
160A LEU* 1.3 61.5 + - - +
161A ASN 3.0 5.1 + - - -
162A VAL* 3.1 9.9 + - + +
163A LEU* 3.0 39.8 + - + +
168A VAL* 3.7 26.0 - - + -
171A ILE* 4.3 5.8 - - + -
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Residues in contact with LEU 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 3.1 21.6 + - - +
157A SER* 3.8 11.7 - - - +
158A ASN 3.3 0.2 - - - -
159A LEU* 1.3 77.2 - - - +
161A ASN* 1.3 58.8 + - - +
162A VAL 3.4 0.8 + - - -
163A LEU 3.7 12.1 - - - +
165A TYR* 4.0 19.7 - - + -
168A VAL* 3.4 29.6 - - + -
172A ILE* 3.7 18.6 - - + -
193A VAL* 4.0 16.6 - - + +
196A ASN* 3.8 26.2 - - + -
197A ALA* 4.1 6.1 - - - +
200A ILE* 3.5 28.4 - - + +
289A PHE* 3.8 6.6 - - - -
2E VAL* 4.5 2.2 - - + -
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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