Contacts of the strand formed by residues 146 - 152 (chain C) 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 C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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90C GLN 3.0 14.6 + - - +
91C ARG* 3.3 25.8 + - - +
92C LEU 2.9 25.6 + - - +
144C GLY 3.8 1.4 + - - -
145C LEU* 1.3 70.3 - - - +
147C ARG* 1.3 60.6 + - - +
148C THR* 2.7 25.2 + - - -
189C ARG* 4.1 8.8 - - - +
245C ASP* 3.1 31.9 + - - -
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Residues in contact with ARG 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C LEU* 3.6 22.7 - - + -
136C LEU* 3.2 33.5 + - + +
139C PHE 2.8 37.2 + - - -
140C PRO* 3.5 8.6 - - - +
141C ASP* 3.3 39.4 + - - +
145C LEU* 3.6 24.0 + - + +
146C ASN* 1.3 74.9 + - - +
148C THR* 1.3 61.3 + - - +
149C VAL* 5.5 0.2 - - - -
185C GLU* 3.8 14.6 + - - -
187C ASN* 4.7 14.3 + - - +
188C VAL* 3.5 32.7 - - + +
189C ARG* 2.9 25.9 + - - +
109D VAL* 6.3 0.2 - - - +
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Residues in contact with THR 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91C ARG* 3.9 10.7 + - - -
92C LEU* 2.8 14.6 + - - +
93C LEU* 3.4 14.7 - - + +
94C LEU 3.0 23.0 + - - -
146C ASN* 2.7 25.2 + - - -
147C ARG* 1.3 71.5 - - - +
149C VAL* 1.3 68.6 + - - +
150C VAL* 4.1 7.2 - - + -
189C ARG* 3.2 22.2 - - + +
191C LEU* 5.3 0.2 - - + -
242C LEU* 3.8 28.3 - - + -
245C ASP* 4.8 1.9 + - - -
247C PHE* 4.6 6.5 - - + -
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Residues in contact with VAL 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92C LEU* 5.9 1.1 - - + -
94C LEU* 3.4 19.1 - - + +
132C THR* 4.0 13.5 - - + -
135C VAL* 5.6 1.6 - - + -
136C LEU* 4.0 27.4 - - + -
148C THR* 1.3 80.3 - - - +
150C VAL* 1.3 63.1 + - - +
178C PHE* 3.6 23.9 - - + -
181C LEU* 3.7 21.8 - - + -
188C VAL* 4.1 3.1 - - + +
189C ARG 3.0 7.1 + - - +
190C VAL* 3.6 16.4 - - + -
191C LEU* 3.0 25.6 + - - +
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Residues in contact with VAL 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93C LEU* 4.2 8.1 - - + -
94C LEU 2.7 15.7 + - - +
95C ILE* 4.1 13.0 - - + -
96C ASN* 2.7 36.4 + - - +
148C THR* 4.1 5.8 - - + -
149C VAL* 1.3 80.0 - - - +
151C ASN* 1.3 63.6 + - - +
152C ILE* 3.9 26.0 - - + -
178C PHE* 3.7 2.5 - - - -
191C LEU* 3.4 15.0 - - + +
193C TYR* 4.4 4.3 - - + -
238C LEU* 4.2 14.1 - - + -
242C LEU* 4.0 29.2 - - + -
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Residues in contact with ASN 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96C ASN* 4.0 4.5 - - - -
128C MET* 3.6 11.8 - - + +
150C VAL* 1.3 73.8 - - - +
152C ILE* 1.3 62.5 + - - +
153C SER* 3.2 7.9 + - - +
174C ARG* 2.9 48.7 + - - +
175C ASP* 3.0 20.2 + - - +
178C PHE* 3.6 16.8 - - + -
191C LEU 2.9 6.5 + - - -
192C ASN* 2.8 27.0 + - - +
193C TYR* 2.9 26.5 + - - -
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Residues in contact with ILE 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16C PHE* 3.9 22.0 - - + -
95C ILE* 4.1 9.2 - - + -
96C ASN 3.0 22.0 + - - +
97C ASN* 3.8 24.0 - - + +
150C VAL* 3.9 20.0 - - + -
151C ASN* 1.3 74.4 + - - +
153C SER* 1.3 60.3 + - - +
171C LYS* 2.9 25.3 + - - -
174C ARG* 3.5 2.3 + - - -
193C TYR* 3.4 9.9 - - + -
195C PRO* 3.9 20.2 - - + -
238C LEU* 4.1 7.4 - - + -
803C NAP 3.4 31.4 - - - +
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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