Contacts of the helix formed by residues 144 - 152 (chain B) in PDB entry 4ZCU
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 TRP 144 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88B GLU* 4.0 16.6 - - - -
91B MET* 4.2 2.2 - - + -
92B LYS* 3.6 60.2 - - + +
95B PHE* 3.4 44.6 - + + -
104B GLY* 3.7 4.1 + - - +
143B ASP* 1.3 76.2 - - - +
145B ASN* 1.3 62.4 + - + +
147B TRP* 3.7 20.9 - + - -
148B ARG* 2.9 53.8 + - + +
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Residues in contact with ASN 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143B ASP* 3.2 16.8 + - - +
144B TRP* 1.3 82.9 - - + +
146B GLU* 1.3 63.2 + - + +
148B ARG* 3.8 17.5 + - - +
149B ASP* 2.9 50.6 + - - +
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Residues in contact with GLU 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134B ILE* 4.1 11.7 - - - +
135B ASP* 4.8 4.3 - - - -
136B VAL* 3.9 26.8 + - + +
137B ASP* 2.9 24.3 + - - +
141B THR 3.6 0.9 - - - +
142B VAL* 3.3 16.0 - - + -
143B ASP* 3.1 28.8 + - - +
145B ASN* 1.3 77.9 - - + +
147B TRP* 1.3 60.7 + - - +
149B ASP* 3.9 6.2 - - - +
150B TYR* 2.9 31.5 + - - +
1004B CA 3.2 18.3 - - - -
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Residues in contact with TRP 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91B MET* 3.2 25.2 + - + +
94B ALA* 4.3 9.6 - - + -
95B PHE* 3.4 19.9 - + + +
98B LEU* 3.4 26.5 - - + -
106B ILE* 3.6 24.9 - - + -
111B ILE* 6.1 0.7 - - + -
131B LEU* 6.0 1.6 - - + -
134B ILE* 4.2 10.8 - - + -
142B VAL* 3.8 11.1 - - + +
143B ASP 3.1 18.0 + - - +
144B TRP* 3.6 23.8 - + - +
146B GLU* 1.3 76.5 - - - +
148B ARG* 1.3 60.8 + - - +
150B TYR* 3.1 5.2 + - - -
151B PHE* 2.9 66.9 + + - +
162B ILE* 3.9 19.5 - - + -
166B TRP* 4.1 20.2 - + - -
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Residues in contact with ARG 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88B GLU* 3.3 28.4 + - - +
91B MET* 5.8 1.6 - - - -
144B TRP* 2.9 51.7 + - + +
145B ASN* 3.8 14.8 + - - +
147B TRP* 1.3 77.6 - - - +
149B ASP* 1.3 90.4 + - - +
151B PHE* 3.7 2.3 - - - -
152B LEU* 2.9 50.4 + - + +
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Residues in contact with ASP 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145B ASN* 2.9 37.2 + - - +
146B GLU* 3.9 5.8 + - - +
148B ARG* 1.3 109.9 + - - +
150B TYR* 1.3 62.9 + - - +
152B LEU* 3.7 16.9 + - - +
153B PHE* 5.1 1.9 + - - -
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Residues in contact with TYR 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133B SER* 3.4 26.9 + - - -
134B ILE* 3.4 36.3 - - + +
146B GLU 2.9 18.5 + - - +
147B TRP 3.5 3.6 - - - +
149B ASP* 1.3 79.7 - - - +
151B PHE* 1.3 79.5 + + - +
152B LEU 3.7 0.2 + - - -
153B PHE 4.9 0.7 + - - -
154B ASN* 4.1 10.8 + - - +
165B PHE* 3.6 37.1 - + - -
166B TRP* 5.1 1.4 - - - -
169B SER* 4.1 10.6 + - - -
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Residues in contact with PHE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87B HIS* 2.6 33.3 + - - -
88B GLU* 5.1 0.2 - - - -
91B MET* 3.7 24.7 - - + -
134B ILE* 4.1 5.8 - - + -
147B TRP* 2.9 67.5 + + - +
148B ARG 3.7 1.6 - - - +
150B TYR* 1.3 98.9 - + - +
152B LEU* 1.3 54.9 + - - +
153B PHE 3.4 2.5 - - - -
154B ASN* 3.3 23.0 - - + +
156B VAL* 3.9 18.4 - - + -
162B ILE* 4.0 25.1 - - + -
165B PHE* 4.4 7.0 - + - -
166B TRP* 3.9 20.6 - - - -
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Residues in contact with LEU 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24B TYR* 4.9 9.2 - - + +
27B LEU* 4.7 8.5 - - + -
83B TYR* 5.3 0.7 - - - -
84B LEU* 4.0 21.1 - - + +
87B HIS* 3.2 20.7 - - + -
88B GLU* 3.2 33.0 - - + +
148B ARG* 2.9 35.3 + - + +
149B ASP* 3.8 13.7 - - - +
150B TYR 3.4 2.0 - - - -
151B PHE* 1.3 77.3 - - - +
153B PHE* 1.3 90.8 + - + +
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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