Contacts of the helix formed by residues 144 - 152 (chain B) in PDB entry 2ZSU
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 144 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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106B VAL* 3.9 1.2 - - - +
108B ILE* 3.6 17.4 - - + +
143B GLY* 1.3 71.5 - - - -
145B GLY* 1.3 66.9 + - - +
146B VAL* 3.4 18.8 + - - +
147B LYS* 2.8 43.4 + - + +
148B PHE* 3.2 21.8 + - - +
170B GLU* 4.2 11.1 - - - +
30D GLU 4.8 5.6 + - - +
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Residues in contact with GLY 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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83B ILE* 3.8 33.6 - - - +
106B VAL* 3.9 13.9 + - - +
143B GLY 3.6 4.6 + - - -
144B ASP* 1.3 72.6 + - - +
146B VAL* 1.3 68.0 + - - +
148B PHE* 3.3 4.2 + - - +
149B ILE* 3.3 25.1 + - - +
171B MET* 5.8 0.2 - - - -
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Residues in contact with VAL 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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144B ASP* 3.3 17.0 - - - +
145B GLY* 1.3 77.2 - - - +
147B LYS* 1.3 67.7 + - - +
148B PHE 3.1 0.7 + - - -
149B ILE* 3.2 13.5 + - - +
150B GLU* 3.4 24.0 + - + +
170B GLU* 4.0 21.8 - - + +
171B MET* 3.9 28.5 - - + -
174B SER* 6.0 0.4 - - - +
176B GLU* 5.8 3.1 - - - +
177B PHE* 4.0 25.8 - - + -
180B ASN* 6.0 1.3 - - - +
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Residues in contact with LYS 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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144B ASP* 2.8 33.0 + - + +
145B GLY 3.5 0.2 - - - -
146B VAL* 1.3 77.6 - - - +
148B PHE* 1.3 63.5 + - - +
150B GLU* 3.2 46.8 + - - +
151B GLU* 3.6 12.3 + - - +
28D GLN* 4.4 34.9 - - + +
30D GLU* 6.2 1.3 - - - +
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Residues in contact with PHE 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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79B ARG* 5.9 0.2 - - - -
81B LEU* 3.8 23.3 - - + -
83B ILE* 5.9 0.2 - - + -
104B ILE* 4.0 19.3 - - + -
106B VAL* 3.9 22.4 - - + -
141B ILE* 3.8 9.9 - - + -
144B ASP 3.2 14.8 + - - +
145B GLY* 3.4 11.9 - - - +
146B VAL 3.1 1.0 - - - -
147B LYS* 1.3 76.5 - - - +
149B ILE* 1.3 59.9 - - + +
150B GLU 3.0 0.2 - - - -
151B GLU* 3.1 3.2 + - - -
152B ASN* 2.6 75.6 + - + +
155B PHE* 3.8 22.9 - + - -
30D GLU* 3.6 40.8 - - + +
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Residues in contact with ILE 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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81B LEU* 3.5 32.5 - - + -
83B ILE* 3.8 7.2 - - + -
145B GLY 3.3 9.6 + - - +
146B VAL 3.2 13.4 + - - +
148B PHE* 1.3 76.0 - - + +
150B GLU* 1.3 53.5 + - - +
151B GLU 3.3 0.4 - - - -
152B ASN 4.0 9.0 - - - +
155B PHE* 5.9 0.4 - - + -
158B ILE* 5.2 2.9 - - + -
177B PHE* 3.2 40.8 - - + +
180B ASN* 3.7 8.8 - - + +
181B ALA* 3.6 31.2 - - + +
183B ARG* 2.4 34.8 + - - -
184B ALA* 4.6 11.2 - - + -
191B TYR* 6.0 0.2 - - + -
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Residues in contact with GLU 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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146B VAL* 3.4 18.1 + - + +
147B LYS* 3.2 57.7 + - - +
148B PHE 3.0 0.6 - - - -
149B ILE* 1.3 80.8 - - - +
151B GLU* 1.4 72.2 + - - +
176B GLU* 4.5 11.1 - - - +
180B ASN* 3.5 24.4 - - - +
183B ARG* 3.2 16.8 + - - +
28D GLN* 5.7 0.2 - - - +
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Residues in contact with GLU 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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147B LYS 3.6 14.1 - - - +
148B PHE* 3.1 1.6 + - - -
150B GLU* 1.4 95.7 - - - +
152B ASN* 1.3 71.5 + - - +
153B SER* 5.3 0.2 + - - -
183B ARG* 4.8 2.2 - - - -
27D GLU* 5.5 2.9 - - - +
28D GLN* 3.3 49.6 + - + +
29D SER 5.4 2.5 - - - +
30D GLU* 6.1 0.4 - - - +
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Residues in contact with ASN 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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79B ARG* 5.9 1.1 - - - +
148B PHE* 2.6 74.1 + - + +
149B ILE* 3.8 5.9 - - - +
150B GLU 3.7 0.8 - - - -
151B GLU* 1.3 92.0 - - - +
153B SER* 1.3 64.5 + - - +
155B PHE* 4.2 7.4 - - + -
183B ARG* 3.0 14.0 + - - -
184B ALA* 3.5 11.1 - - - +
30D GLU* 4.6 9.7 + - - +
111D LYS* 5.6 3.5 + - - -
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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