Contacts of the strand formed by residues 141 - 148 (chain A) in PDB entry 1ZZ7
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 141 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A GLY* 1.3 76.0 - - - +
142A GLU* 1.3 61.9 + - - +
173A PHE* 3.6 22.0 - - + -
174A VAL 3.6 4.3 - - - -
175A GLU* 3.8 8.0 - - - +
176A GLU* 3.2 23.6 + - - +
197A ASN* 3.4 4.7 - - - +
198A PHE* 2.9 63.5 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 142 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A HIS* 2.8 13.4 - - + -
140A GLY 5.1 0.2 - - - +
141A ASN* 1.3 77.0 - - - +
143A PHE* 1.3 65.0 + - - +
144A LEU* 3.4 24.9 - - + +
172A MET 3.8 0.2 - - - +
173A PHE* 3.4 5.6 - - - -
174A VAL* 2.8 45.3 + - + +
180A HIS* 3.2 7.5 + - - -
182A PHE* 5.4 1.4 - - - -
195A ALA* 3.5 20.8 - - - +
196A VAL 3.4 9.9 - - - +
197A ASN* 3.4 21.8 + - - +
198A PHE* 4.2 2.7 - - - -
199A FE2 2.2 32.0 - - - -
1002A S0H 4.5 3.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 143 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A GLU* 1.3 74.7 - - - +
144A LEU* 1.3 75.7 + - - +
145A PHE* 4.1 24.2 - + + -
171A SER* 4.0 17.7 - - - -
172A MET 3.5 9.0 - - - -
173A PHE* 4.7 5.8 - + + +
194A ILE* 5.2 5.4 - - + -
195A ALA* 3.4 1.7 - - - -
196A VAL* 2.7 61.2 + - + +
198A PHE* 3.9 13.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A GLU* 3.4 46.2 - - + +
143A PHE* 1.3 81.3 - - - +
145A PHE* 1.3 62.0 + - - +
146A VAL* 5.9 1.3 - - + -
153A MET* 4.0 25.1 - - + -
166A LEU* 6.0 2.0 - - + -
171A SER* 3.2 6.3 - - - -
172A MET* 2.9 45.3 + - + +
174A VAL* 4.0 18.8 - - + -
180A HIS* 5.6 1.3 - - + +
182A PHE* 4.4 7.2 - - + -
193A LEU* 4.1 27.4 - - + -
194A ILE 3.2 6.5 - - - +
195A ALA* 4.1 4.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A PHE* 4.1 14.6 - + + -
144A LEU* 1.3 75.5 - - - +
146A VAL* 1.3 67.1 + - - +
147A LEU* 3.3 23.6 + - + -
168A THR* 6.3 0.2 - - + -
169A GLY* 3.5 32.3 - - - -
170A ALA 3.5 14.1 - - - -
171A SER* 4.4 8.5 - - - -
193A LEU* 3.2 4.0 - - - -
194A ILE* 2.7 58.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A LEU* 5.9 2.0 - - + -
145A PHE* 1.3 76.5 - - - +
147A LEU* 1.3 61.4 + - - +
148A GLU 3.5 22.0 - - - +
149A GLY 3.6 15.3 - - - +
151A ILE* 4.1 20.9 - - + -
166A LEU* 3.8 33.4 - - + +
167A PRO 3.5 18.6 - - - +
168A THR* 3.7 6.2 - - - +
169A GLY* 2.8 29.1 + - - +
170A ALA* 3.1 12.2 + - + +
192A LYS 3.8 4.3 - - - +
193A LEU* 4.1 4.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 147 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A VAL* 4.2 14.4 - - + -
145A PHE* 3.3 25.5 + - + +
146A VAL* 1.3 73.7 - - - +
148A GLU* 1.3 65.9 + - + +
168A THR* 3.4 14.8 - - - +
192A LYS* 2.7 43.6 + - + +
193A LEU 4.1 1.1 - - - -
194A ILE* 4.1 30.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A VAL* 3.5 4.2 - - - +
147A LEU* 1.3 85.8 - - + +
149A GLY* 1.3 68.0 + - - +
168A THR* 3.6 4.0 - - - -
190A SER 5.1 0.2 - - - -
191A ALA* 3.5 4.5 - - - +
192A LYS* 2.9 65.5 + - + +
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
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