Contacts of the strand formed by residues 146 - 152 (chain E) in PDB entry 1Z6Z
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 ASN 146 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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90E GLN 2.9 15.7 + - - +
91E ARG* 3.3 24.8 + - - +
92E LEU 2.9 25.8 + - - +
144E GLY 3.9 1.0 + - - -
145E LEU* 1.3 70.4 - - - +
147E ARG* 1.3 63.5 + - - +
148E THR* 2.7 26.7 + - - -
189E ARG* 4.1 8.2 - - - +
245E ASP* 3.2 31.3 + - - -
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Residues in contact with ARG 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92E LEU* 3.6 22.0 - - + -
136E LEU* 3.3 29.5 + - + +
139E PHE 2.8 37.0 + - - -
140E PRO* 3.5 8.6 - - - +
141E ASP* 3.3 36.1 - - - +
145E LEU* 3.6 23.6 + - + +
146E ASN* 1.3 75.3 + - - +
148E THR* 1.3 60.8 + - - +
149E VAL* 5.6 0.2 - - - -
185E GLU* 3.8 14.1 + - - -
187E ASN* 4.3 15.9 + - - +
188E VAL* 3.5 35.9 - - + +
189E ARG* 2.9 25.8 + - - +
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Residues in contact with THR 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91E ARG* 3.8 10.3 + - - +
92E LEU* 2.8 17.9 + - - +
93E LEU* 3.4 13.0 - - + +
94E LEU 3.0 23.7 + - - -
146E ASN* 2.7 25.5 + - - -
147E ARG* 1.3 71.8 + - - +
149E VAL* 1.3 73.3 + - - +
150E VAL* 4.2 2.7 - - + -
189E ARG* 3.2 22.5 - - + +
242E LEU* 3.8 28.9 - - + -
245E ASP* 4.9 1.7 + - - -
247E PHE* 4.6 6.3 - - + -
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Residues in contact with VAL 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92E LEU* 6.0 1.8 - - + -
94E LEU* 3.4 20.0 - - + +
132E THR* 4.1 12.8 - - + -
135E VAL* 5.6 1.1 - - + -
136E LEU* 4.0 27.1 - - + -
147E ARG 4.4 0.2 + - - -
148E THR* 1.3 80.1 - - - +
150E VAL* 1.3 63.8 + - - +
178E PHE* 3.7 23.6 - - + -
181E LEU* 3.7 22.7 - - + -
188E VAL* 4.1 4.7 - - + -
189E ARG 2.9 6.3 + - - +
190E VAL* 3.5 14.5 - - + -
191E LEU* 2.9 25.6 + - - +
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Residues in contact with VAL 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93E LEU* 4.3 7.4 - - + -
94E LEU 2.7 15.1 + - - +
95E ILE* 4.1 14.1 - - + -
96E ASN* 2.7 36.9 + - - +
148E THR* 4.2 5.8 - - + -
149E VAL* 1.3 79.6 - - - +
151E ASN* 1.3 61.8 + - - +
152E ILE* 3.9 26.2 - - + -
178E PHE* 3.7 2.9 - - - -
191E LEU* 3.4 15.0 - - + +
193E TYR* 4.5 4.0 - - + -
238E LEU* 4.2 15.7 - - + -
242E LEU* 4.0 27.8 - - + -
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Residues in contact with ASN 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96E ASN* 4.1 3.4 - - - -
128E MET* 3.8 12.3 - - + -
150E VAL* 1.3 76.3 - - - +
152E ILE* 1.3 62.8 + - - +
153E SER* 3.1 7.2 + - - +
171E LYS* 5.9 0.2 - - - +
174E ARG* 2.9 53.3 + - - +
175E ASP* 3.1 18.0 + - - -
178E PHE* 3.6 17.6 - - + -
191E LEU 2.9 6.5 + - - +
192E ASN* 2.8 27.6 + - - +
193E TYR* 2.9 26.0 + - - -
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Residues in contact with ILE 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16E PHE* 3.9 21.5 - - + -
95E ILE* 4.0 9.6 - - + -
96E ASN 3.1 22.0 + - - +
97E ASN* 3.8 24.5 - - + +
150E VAL* 3.9 20.6 - - + -
151E ASN* 1.3 77.1 + - - +
153E SER* 1.3 58.4 + - - +
171E LYS* 3.0 24.6 + - - -
174E ARG* 3.5 1.4 + - - -
193E TYR* 3.4 9.0 - - + -
195E PRO* 3.8 19.7 - - + -
238E LEU* 4.1 7.6 - - + -
805E NAP 3.4 31.9 - - - +
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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