Contacts of the helix formed by residues 142 - 154 (chain A) in PDB entry 2ACX
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 142 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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83A PHE* 4.4 10.3 - + + -
87A VAL* 3.8 30.1 - - + -
90A TYR* 3.7 46.7 - + - -
91A GLU* 5.7 1.8 - - - +
102A GLY* 4.1 17.3 - - - -
105A LEU* 3.9 24.9 - - + -
106A THR* 5.0 2.9 - - - -
110A LEU* 4.6 10.8 - - + -
129A CYS* 3.8 25.8 - - - -
133A LEU* 5.0 0.9 - - + -
139A LYS 5.1 1.5 + - - +
140A ASP 2.8 4.9 + - - -
141A LEU* 1.3 85.2 - - + +
143A GLN* 1.3 57.2 + - - +
144A GLU 3.5 1.3 - - - -
145A LEU* 3.9 15.8 - - + +
146A THR* 2.9 29.7 + - - -
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Residues in contact with GLN 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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91A GLU* 5.8 5.1 + - - +
140A ASP* 2.7 48.0 + - - +
141A LEU 3.4 1.2 - - - -
142A PHE* 1.3 69.5 - - - +
144A GLU* 1.3 62.9 + - - +
146A THR* 3.5 8.9 + - + +
147A ARG* 2.9 30.7 + - + +
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Residues in contact with GLU 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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125A LEU* 3.7 39.9 - - + +
141A LEU 4.8 3.2 + - - +
142A PHE 3.5 0.2 - - - -
143A GLN* 1.3 80.8 - - - +
145A LEU* 1.3 56.1 + - + +
147A ARG* 2.8 49.2 + - - +
148A LEU* 2.9 37.8 + - + +
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Residues in contact with LEU 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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83A PHE* 3.9 22.0 - - + -
110A LEU* 4.0 28.0 - - + -
117A LEU* 4.9 5.6 - - + +
118A ILE* 4.9 1.4 - - + +
121A VAL* 4.3 23.8 - - + -
125A LEU* 4.4 19.5 - - + -
126A VAL* 4.6 9.2 - - + +
129A CYS* 3.8 31.9 - - + -
141A LEU 5.4 1.1 - - - +
142A PHE* 3.6 9.3 + - + +
143A GLN 3.3 0.6 - - - -
144A GLU* 1.3 74.3 - - + +
146A THR* 1.3 54.7 + - - +
148A LEU* 3.3 8.4 + - + +
149A THR* 2.7 40.6 + - - -
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Residues in contact with THR 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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83A PHE* 4.1 2.4 - - - -
84A LEU* 4.0 18.2 - - + +
87A VAL* 3.9 23.2 - - + +
142A PHE 2.9 20.9 + - - -
143A GLN* 3.5 10.5 - - + +
145A LEU* 1.3 76.9 - - - +
147A ARG* 1.3 61.9 + - - +
149A THR* 3.2 3.2 + - - -
150A HIS* 2.9 51.5 + - + +
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Residues in contact with ARG 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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143A GLN* 2.9 18.9 + - + +
144A GLU* 2.8 41.0 + - - +
145A LEU 3.2 0.2 - - - -
146A THR* 1.3 76.7 - - + +
148A LEU* 1.3 81.5 + - - +
150A HIS* 3.3 9.8 + - - +
151A GLU* 2.7 64.5 + - - +
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Residues in contact with LEU 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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118A ILE* 3.5 22.6 - - + +
121A VAL* 4.9 2.2 - - + -
122A PRO* 3.8 20.9 - - + -
125A LEU* 3.3 33.9 - - + -
144A GLU* 2.9 21.1 + - + +
145A LEU* 3.6 11.7 - - + +
147A ARG* 1.3 104.0 - - - +
149A THR* 1.3 56.1 + - - +
151A GLU* 3.3 15.4 - - + +
152A TYR* 2.9 23.2 + - - +
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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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80A CYS* 3.9 35.4 - - + +
83A PHE* 3.8 13.4 - - + -
84A LEU* 3.9 24.7 - - + -
117A LEU* 4.0 9.8 - - + +
118A ILE* 3.8 12.0 - - + +
145A LEU 2.7 28.3 + - - -
146A THR* 3.2 7.6 + - - -
148A LEU* 1.3 73.8 - - - +
150A HIS* 1.3 63.9 + - - +
152A TYR* 3.0 5.0 + - - +
153A LEU* 2.9 26.0 + - + +
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Residues in contact with HIS 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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53A TYR* 4.2 9.9 + - + -
58A GLU* 2.8 32.6 + - + +
84A LEU* 3.7 28.5 - - + +
146A THR* 2.9 51.7 + - + +
147A ARG* 3.9 7.2 - - - +
149A THR* 1.3 74.4 - - - +
151A GLU* 1.3 58.6 + - - +
153A LEU* 3.7 7.7 - - - +
154A SER* 2.7 35.7 + - - -
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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 ARG* 2.7 54.4 + - - +
148A LEU* 3.3 19.3 - - + +
149A THR 3.1 0.2 - - - -
150A HIS* 1.3 75.8 - - - +
152A TYR* 1.3 61.5 + - - +
154A SER* 2.6 23.9 + - - +
155A VAL* 3.8 9.0 + - - +
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Residues in contact with TYR 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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74A ARG* 5.0 3.5 + - - -
76A GLU* 4.3 11.2 - - + +
77A LEU* 3.8 22.3 - - + +
80A CYS* 4.1 11.9 - - - -
117A LEU 5.6 0.2 - - - -
118A ILE* 3.7 27.4 - - + -
119A PRO* 3.8 35.8 - - + +
148A LEU 2.9 13.1 + - - +
149A THR 3.0 6.3 + - - +
151A GLU* 1.3 78.6 - - - +
153A LEU* 1.3 71.9 + - + +
154A SER 3.3 0.5 + - - -
155A VAL* 3.4 8.2 + - - +
156A ALA* 4.1 6.2 + - + -
157A PRO* 3.3 35.6 - - + +
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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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53A TYR* 3.3 27.4 - - + +
67A PHE* 4.4 15.2 - - + -
71A CYS* 5.0 5.2 - - - -
77A LEU* 4.4 6.7 - - + +
80A CYS* 4.2 18.6 - - + -
81A VAL* 5.3 5.8 - - + -
84A LEU* 3.9 28.0 - - + -
149A THR* 2.9 26.2 + - + +
150A HIS* 3.7 3.1 - - - +
152A TYR* 1.3 87.6 - - + +
154A SER* 1.3 58.3 + - - +
155A VAL 3.2 0.5 + - - -
157A PRO* 3.5 24.7 - - + +
158A PHE* 3.1 29.8 + - - +
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Residues in contact with SER 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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53A TYR* 3.6 34.1 - - - +
150A HIS 2.7 17.6 + - - -
151A GLU* 2.6 25.7 + - - +
153A LEU* 1.3 72.9 - - - +
155A VAL* 1.3 63.8 + - - +
158A PHE* 3.4 20.4 - - - -
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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