Contacts of the strand formed by residues 150 - 164 (chain E) in PDB entry 2ZNZ
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 VAL 150 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93E VAL* 4.1 13.2 - - + -
94E LYS 3.8 2.7 - - - -
95E VAL* 4.9 0.2 - - - +
96E LYS* 3.6 12.1 + - - -
103E VAL* 3.7 24.9 - - + -
107E LEU* 5.7 0.2 - - + -
144E ILE* 3.4 32.3 - - + +
145E GLY* 4.1 17.4 - - - +
147E ILE* 3.1 30.9 + - + +
149E GLY* 1.3 75.1 - - - +
151E GLU* 1.3 61.6 + - - +
152E GLY* 3.9 23.6 - - - +
153E THR* 4.4 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 151 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94E LYS* 2.8 48.6 + - + +
95E VAL 4.7 0.2 - - - -
96E LYS* 3.3 42.3 - - + +
97E ALA 4.7 1.6 + - - -
149E GLY 3.6 2.8 + - - -
150E VAL* 1.3 74.2 - - - +
152E GLY* 1.3 57.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 152 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93E VAL* 3.7 2.8 - - - +
94E LYS* 3.0 30.5 + - - +
123E TYR* 5.0 2.9 - - - -
145E GLY* 6.4 0.4 - - - -
150E VAL* 3.5 6.7 - - - -
151E GLU* 1.3 81.9 - - - +
153E THR* 1.3 68.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 153 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91E ILE* 3.6 20.2 - - + -
92E LEU 3.2 5.8 - - - +
93E VAL* 4.3 4.5 - - + -
123E TYR* 4.6 3.4 + - - -
141E LEU* 3.9 12.4 + - + +
144E ILE* 3.7 31.0 - - + -
145E GLY* 5.2 3.6 - - - +
150E VAL* 4.4 5.6 - - + -
152E GLY* 1.3 78.6 - - - +
154E HIS* 1.3 62.5 + - - +
172E LYS* 2.8 46.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 154 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90E PHE 3.9 0.3 - - - +
92E LEU* 2.8 45.8 + - + +
123E TYR* 3.2 44.5 + + + +
153E THR* 1.3 73.0 - - - +
155E THR* 1.3 74.0 + - - +
156E MET* 3.9 10.0 + - + +
172E LYS* 3.6 5.8 - - - -
121F GLY* 5.4 10.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 155 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89E ALA* 3.9 23.1 - - + -
90E PHE 3.4 8.7 - - - +
91E ILE* 3.9 10.8 - - + +
137E LEU* 4.2 9.6 - - + -
141E LEU* 3.3 20.2 - - + +
154E HIS* 1.3 80.9 + - - +
156E MET* 1.3 63.8 + - - +
157E ILE* 3.9 17.8 + - + +
172E LYS* 2.6 35.4 + - - +
120F THR* 4.1 5.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 156 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89E ALA* 3.3 2.9 - - - +
90E PHE* 2.7 62.5 + - + +
92E LEU* 4.0 29.4 - - + -
126E VAL* 5.7 0.9 - - + -
154E HIS* 4.5 15.5 - - + +
155E THR* 1.3 77.4 - - - +
157E ILE* 1.3 63.1 + - - +
158E VAL 3.6 0.3 + - - -
92F LEU* 4.4 17.9 - - + -
119F THR* 4.2 10.5 - - + -
120F THR* 3.6 25.6 - - - +
121F GLY* 5.7 1.8 - - - -
123F TYR* 6.5 1.1 - - - -
126F VAL* 3.9 24.9 - - + -
156F MET* 5.2 3.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 157 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87E MET* 3.8 29.4 - - + -
88E LEU 4.0 1.8 - - - -
89E ALA* 4.0 1.8 - - + -
134E SER* 6.2 0.4 - - - -
137E LEU* 3.4 33.4 - - + -
155E THR* 3.9 13.2 - - + +
156E MET* 1.3 70.4 - - - +
158E VAL* 1.3 76.9 + - - +
159E LEU* 3.4 8.7 + - + -
119F THR* 3.3 5.2 - - - -
120F THR* 3.1 44.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 158 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88E LEU* 3.0 48.1 + - + +
89E ALA 4.6 0.2 - - - +
90E PHE* 3.9 30.1 - - + -
156E MET 3.6 0.4 + - - -
157E ILE* 1.3 81.0 - - - +
159E LEU* 1.3 62.7 + - - +
160E LYS* 3.5 28.5 - - - +
161E THR* 3.9 6.5 - - - +
117F TYR* 3.8 15.3 - - + -
118F GLU 3.4 4.5 - - - +
119F THR* 4.1 7.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 159 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157E ILE* 4.1 13.7 - - + +
158E VAL* 1.3 76.5 - - - +
160E LYS* 1.3 62.1 + - + +
118F GLU* 2.7 18.8 + - + +
119F THR* 4.0 22.4 - - - +
120F THR* 3.9 23.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 160 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158E VAL* 3.5 7.6 - - - +
159E LEU* 1.3 82.8 - - + +
161E THR* 1.3 71.6 + - - +
162E HIS* 3.8 32.2 + - + -
101F SER* 5.8 3.8 + - - -
117F TYR* 3.4 4.2 - - - -
118F GLU* 2.8 47.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 161 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88E LEU* 4.3 5.2 - - - +
158E VAL* 3.9 6.8 - - - +
160E LYS* 1.3 82.3 - - - +
162E HIS* 1.3 64.1 + - - +
163E LYS* 3.8 16.2 - - - +
164E GLU* 3.8 20.3 + - + +
116F VAL 3.8 2.5 - - - -
117F TYR* 3.6 32.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 162 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160E LYS* 3.8 30.7 + - + +
161E THR* 1.3 75.8 - - - +
163E LYS* 1.3 62.8 + - + +
101F SER* 4.6 11.1 + - - -
104F ALA* 3.5 36.8 - - + +
105F SER* 4.9 7.4 - - - -
108F ALA* 4.4 7.9 - - + +
116F VAL* 2.9 27.2 + - + +
118F GLU* 2.8 41.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 163 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161E THR* 3.6 4.2 - - - +
162E HIS* 1.3 81.8 - - - +
164E GLU* 1.3 68.3 + - - +
165E THR* 3.9 22.1 - - + +
108F ALA* 3.2 34.4 + - + +
109F LYS 4.9 0.2 - - - -
110F TYR 2.9 19.8 + - - -
111F PRO* 4.1 7.1 + - - +
113F ILE 2.8 29.4 + - - +
114F VAL 4.0 6.3 - - - +
115F GLU* 3.3 4.0 - - - +
116F VAL* 2.9 42.0 + - + +
117F TYR* 4.5 0.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 164 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80E PRO* 5.4 3.5 - - - +
88E LEU* 4.0 2.1 - - - +
128E LYS* 4.6 1.8 + - - +
130E ARG* 2.7 32.5 + - - -
161E THR* 3.8 15.6 + - + +
163E LYS* 1.3 79.6 - - - +
165E THR* 1.3 61.2 + - - +
72F LYS* 5.2 10.0 + - - -
114F VAL 3.7 3.6 - - - -
115F GLU* 4.1 7.2 - - + +
117F TYR* 2.7 34.3 + - - +
----------------------------------------------------------
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