Contacts of the strand formed by residues 141 - 151 (chain C) in PDB entry 2ZUQ
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 SER 141 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C SER* 1.3 79.9 + - - +
142C VAL* 1.3 64.6 + - - +
143C THR* 3.5 13.0 + - - +
188C THR* 3.9 19.3 - - - +
189C VAL 3.6 7.0 - - - -
190C THR* 4.6 3.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 142 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C PRO* 4.5 12.1 - - + -
138C THR* 5.5 3.1 - - - +
139C GLY 5.7 2.9 - - - +
140C SER 4.4 4.7 - - - +
141C SER* 1.3 70.1 - - - +
143C THR* 1.3 61.6 + - - +
144C LEU* 3.8 24.5 - - + +
187C VAL 4.1 0.5 - - - +
188C THR 3.4 0.5 - - - -
189C VAL* 2.7 41.2 + - - +
191C SER* 3.6 34.8 - - - -
194C TRP* 4.1 21.8 - - + -
195C PRO* 5.6 1.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 143 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B THR* 6.1 3.8 - - + +
141B SER* 3.5 24.9 + - - +
143B PHE* 3.1 21.8 - - - -
160B PHE* 4.8 4.0 - - - -
162B ASN* 4.9 9.4 + - - +
132C PRO* 4.2 10.7 - - - +
141C SER 3.6 14.6 - - - +
142C VAL* 1.3 75.4 - - - +
144C LEU* 1.3 64.9 + - - +
186C SER* 5.2 0.4 - - - -
187C VAL 3.4 12.6 - - - -
188C THR* 3.4 24.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 144 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B PHE* 3.7 10.9 - - - -
130C LEU 3.9 7.2 - - - +
132C PRO* 4.9 3.8 - - + -
142C VAL* 3.8 26.7 - - + +
143C THR* 1.3 80.9 + - - +
145C GLY* 1.3 59.5 + - - +
160C TRP* 5.2 0.2 - - + -
186C SER* 3.6 3.6 - - - -
187C VAL* 3.0 39.9 + - + +
189C VAL* 5.2 3.4 - - + -
194C TRP* 3.7 34.8 - - + +
199C ILE* 3.7 32.1 - - + -
216C ILE* 3.6 31.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 145 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B PHE* 3.6 1.6 - - - -
160B PHE* 4.1 6.5 - - - -
129C PRO 4.0 0.2 - - - -
130C LEU* 2.9 46.5 + - - +
144C LEU* 1.3 74.7 - - - +
146C CYS* 1.3 60.6 + - - +
160C TRP* 3.4 11.6 - - - -
185C SER 3.0 10.3 - - - -
216C ILE* 3.7 8.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 146 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C VAL* 3.9 17.7 - - - -
128C TYR 3.9 6.7 - - - -
129C PRO* 4.7 0.9 - - - -
130C LEU* 3.7 4.7 - - - +
145C GLY* 1.3 73.2 - - - -
147C LEU* 1.3 63.1 + - - +
148C VAL* 4.3 5.6 - - - -
158C LEU* 4.4 1.8 - - - +
160C TRP* 3.4 17.3 - - + -
183C LEU 4.3 0.3 - - - +
184C SER* 3.5 1.6 - - - -
185C SER* 2.7 42.4 + - - -
201C CYS* 2.0 48.0 - - + -
203C VAL* 4.1 4.7 - - - -
214C LYS* 5.2 0.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B GLN* 5.2 2.0 - - - +
156B SER* 4.4 22.4 - - - +
158B VAL* 3.7 28.3 - - + -
203B THR* 4.4 7.2 - - + +
126C SER 3.7 1.0 - - - +
127C VAL* 3.4 4.3 - - - +
128C TYR* 2.8 59.8 + - + +
130C LEU* 3.7 25.7 - - + +
146C CYS* 1.3 72.2 - - - +
148C VAL* 1.3 67.7 + - - +
149C LYS* 4.3 12.3 - - + -
182C THR* 5.0 7.6 - - + -
183C LEU 3.9 3.1 - - - +
184C SER* 3.8 25.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C PRO* 3.7 15.7 - - + -
126C SER 3.3 4.5 - - - +
127C VAL* 4.2 4.3 - - + -
146C CYS* 4.4 2.9 - - - -
147C LEU* 1.3 79.0 - - - +
149C LYS* 1.3 62.1 + - - +
151C TYR* 3.6 27.7 - - + -
156C VAL* 4.6 4.7 - - + -
158C LEU* 4.0 18.8 - - + -
182C THR* 3.3 4.0 - - - +
183C LEU* 2.7 49.0 + - + +
203C VAL* 3.6 39.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 149 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B GLN* 4.7 2.2 - - - +
156B SER* 4.4 15.0 + - - +
203B THR* 6.2 0.8 - - - +
205B THR* 3.6 23.1 + - - +
125C PRO 4.0 0.2 - - - -
126C SER* 2.9 36.4 + - - -
128C TYR* 4.0 35.0 - - + +
147C LEU* 4.6 7.0 - - + -
148C VAL* 1.3 78.3 - - - +
150C GLY* 1.3 67.7 + - - +
151C TYR* 3.7 2.7 - - - -
177C GLN* 4.9 7.1 + - - -
181C TYR 4.0 1.1 - - - -
182C THR* 3.4 23.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 150 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C THR* 3.7 9.7 - - - +
124C ALA 3.4 15.6 - - - +
126C SER* 4.6 2.1 + - - -
149C LYS* 1.3 81.0 - - - +
151C TYR* 1.3 59.6 + - - +
177C GLN* 5.3 0.7 - - - -
180C LEU* 3.7 25.6 - - - -
181C TYR 3.3 0.8 + - - -
182C THR* 3.1 13.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C THR 3.3 15.0 - - - +
125C PRO* 3.5 30.1 - - + -
148C VAL* 3.6 26.7 - - + -
149C LYS 4.6 1.1 - - - -
150C GLY* 1.3 77.4 - - - +
152C PHE* 1.3 63.4 + - - +
153C PRO 3.7 25.6 - - - -
154C GLU* 3.5 10.3 + - - -
156C VAL* 3.1 29.4 - - + +
174C ALA* 3.3 23.2 - - - +
180C LEU* 3.3 12.6 - - - +
181C TYR* 2.8 66.4 + + + -
182C THR 4.6 0.4 - - - -
183C LEU* 4.1 4.0 - - + +
205C HIS* 3.8 7.2 - + - +
----------------------------------------------------------
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