Contacts of the helix formed by residues 137 - 150 (chain A) in PDB entry 1AZ1
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 ILE 137 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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83A HIS* 6.1 2.2 - - + +
109A ILE* 4.9 3.2 - - + +
112A PRO* 3.8 38.8 - - + +
136A ASN* 1.3 76.5 - - - +
138A LEU* 1.3 59.1 + - + +
140A THR* 3.4 8.1 + - - -
141A TRP* 2.9 26.0 + - - +
161A PHE* 3.7 30.5 - - + -
165A GLN* 4.0 24.7 - - + +
168A MET* 4.4 22.6 - - + -
169A ILE* 4.0 20.0 - - + -
308A ASP* 4.2 16.0 + - - +
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Residues in contact with LEU 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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136A ASN* 2.9 11.0 - - - +
137A ILE* 1.3 76.5 - - - +
139A ASP* 1.3 66.4 + - - +
141A TRP* 3.1 5.6 + - + +
142A ALA* 3.0 19.4 + - - +
168A MET* 3.5 51.6 - - + +
169A ILE* 4.0 14.6 - - + -
172A LYS* 3.6 37.2 - - + -
173A PRO* 5.1 6.5 - - + -
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Residues in contact with ASP 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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83A HIS 5.2 0.7 - - - +
85A LYS* 3.5 41.0 + - + +
135A THR* 5.6 4.2 - - + -
136A ASN* 3.0 37.4 + - - +
138A LEU* 1.3 77.9 - - - +
140A THR* 1.3 62.7 + - - +
142A ALA* 3.3 6.4 + - - +
143A ALA 3.2 16.5 + - - -
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Residues in contact with THR 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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78A LEU* 3.9 23.6 - - + -
83A HIS* 3.3 47.3 + - + +
88A VAL* 4.7 2.0 - - + -
109A ILE* 3.8 22.0 - - + -
135A THR* 4.7 1.2 - - - -
136A ASN 3.0 14.7 + - - -
137A ILE* 3.6 9.6 - - - -
138A LEU 3.2 0.2 - - - -
139A ASP* 1.3 79.6 - - - +
141A TRP* 1.3 62.3 + - - +
143A ALA* 3.2 6.8 + - - +
144A MET* 3.0 22.0 + - + +
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Residues in contact with TRP 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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109A ILE* 3.9 16.6 - - + +
137A ILE 2.9 13.5 + - - +
138A LEU* 3.1 12.1 + - - +
140A THR* 1.3 76.0 - - - +
142A ALA* 1.3 64.0 + - - +
144A MET* 3.1 9.2 + - + +
145A GLU* 3.0 39.2 + - - +
156A ILE* 3.4 37.7 - - + -
157A GLY* 3.7 20.9 - - - -
158A ILE* 3.9 9.2 - - + -
169A ILE* 3.7 28.0 - - + +
172A LYS* 4.0 10.3 - - + -
175A LEU* 3.4 15.6 - - + +
177A TYR 3.0 29.5 + - - -
179A PRO* 3.6 30.7 - - + -
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Residues in contact with ALA 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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85A LYS* 3.9 15.9 - - - -
138A LEU 3.0 11.7 + - - +
139A ASP* 3.4 10.3 - - - +
140A THR 3.3 0.2 - - - -
141A TRP* 1.3 77.3 - - - +
143A ALA* 1.3 59.4 + - - +
145A GLU* 3.5 17.2 + - - +
146A GLU* 3.3 27.7 + - - +
172A LYS* 4.3 13.8 - - - +
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Residues in contact with ALA 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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85A LYS* 4.0 21.0 - - + +
88A VAL* 3.6 37.8 - - + +
139A ASP 3.2 8.7 + - - +
140A THR* 3.2 10.4 + - - +
142A ALA* 1.3 76.3 - - - +
144A MET* 1.3 63.5 + - - +
146A GLU* 3.4 30.0 + - - +
147A LEU* 3.6 6.9 + - - +
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Residues in contact with MET 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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78A LEU* 4.0 19.5 - - - -
88A VAL* 4.2 6.7 - - + -
107A TYR* 3.4 53.4 - - + +
108A LEU 3.9 2.0 - - - +
109A ILE* 3.8 38.4 - - + +
140A THR* 3.0 17.3 + - + +
141A TRP* 3.1 11.0 + - + +
143A ALA* 1.3 76.1 - - - +
145A GLU* 1.3 63.0 + - - +
147A LEU* 3.2 23.2 + - - +
148A VAL 3.6 1.6 + - - -
156A ILE* 3.6 28.5 - - + +
157A GLY 4.3 3.1 - - - +
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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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141A TRP* 3.0 40.4 + - - +
142A ALA* 3.6 19.3 - - - +
143A ALA 3.3 0.2 - - - -
144A MET* 1.3 77.2 - - - +
146A GLU* 1.3 61.9 + - + +
148A VAL* 3.1 16.2 + - - +
149A ASP* 3.3 13.5 + - - +
156A ILE* 3.8 12.6 - - + -
172A LYS* 4.5 7.8 + - - -
174A GLY 5.0 2.3 - - - +
175A LEU* 3.5 2.9 - - - +
176A LYS* 2.9 37.9 + - + +
177A TYR* 3.0 29.2 + - + -
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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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85A LYS* 4.6 11.9 - - - +
142A ALA* 3.3 13.1 - - - +
143A ALA* 3.5 26.0 - - - +
144A MET 3.3 0.4 - - - -
145A GLU* 1.3 76.2 - - + +
147A LEU* 1.3 58.5 + - + +
149A ASP* 3.3 12.2 + - - +
150A GLU* 3.0 43.6 + - - +
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Residues in contact with LEU 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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88A VAL* 3.7 23.6 - - + -
89A LYS* 3.9 31.0 - - + -
92A CYS* 4.1 16.6 - - + -
107A TYR* 3.8 30.5 - - + -
143A ALA 3.6 7.8 + - - +
144A MET* 3.2 18.7 + - - +
146A GLU* 1.3 80.6 - - + +
148A VAL* 1.3 59.5 + - - +
150A GLU* 3.4 7.2 + - - +
151A GLY 3.1 3.6 + - - -
152A LEU* 3.0 41.6 + - + +
153A VAL* 3.5 14.0 + - + -
156A ILE* 5.4 0.4 - - + -
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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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144A MET 3.9 2.0 - - - +
145A GLU 3.1 10.9 + - - +
147A LEU* 1.3 76.8 - - - +
149A ASP* 1.3 61.7 + - - +
151A GLY* 3.1 14.2 + - - -
153A VAL* 3.5 32.6 - - + +
154A LYS* 4.3 11.0 - - - +
155A ALA* 4.8 1.8 - - - -
156A ILE* 3.8 32.3 - - + +
177A TYR* 3.8 31.4 - - + +
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Residues in contact with ASP 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 GLU* 3.3 12.6 + - - +
146A GLU* 3.3 12.4 + - - +
148A VAL* 1.3 76.3 - - - +
150A GLU* 1.3 60.6 + - + +
151A GLY 3.3 0.2 - - - -
176A LYS* 3.0 30.6 + - - +
177A TYR* 2.7 28.3 + - - -
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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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89A LYS* 3.3 38.3 + - - +
146A GLU* 3.0 30.8 + - - +
147A LEU* 3.9 8.0 - - - +
148A VAL 3.2 0.4 - - - -
149A ASP* 1.3 78.9 - - - +
151A GLY* 1.3 61.2 + - - +
152A LEU* 3.6 18.1 + - + +
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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