Contacts of the strand formed by residues 150 - 164 (chain B) 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 B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B VAL* 3.9 23.8 - - + -
94B LYS 3.6 4.3 - - - -
95B VAL* 4.5 0.7 - - - +
103B VAL* 3.7 24.7 - - + -
144B ILE* 3.4 33.2 - - + +
145B GLY* 4.1 19.1 - - - +
147B ILE* 3.2 25.7 + - + +
148B PRO 3.5 0.6 - - - -
149B GLY* 1.3 74.5 + - - +
151B GLU* 1.3 62.4 + - - +
152B GLY 3.6 17.0 - - - +
153B THR* 4.4 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 151 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B LYS* 2.7 40.3 + - + +
95B VAL 4.2 2.8 - - - +
96B LYS* 3.4 40.4 - - + +
97B ALA 4.6 1.2 + - - -
149B GLY 4.0 1.8 - - - +
150B VAL* 1.3 74.6 - - - +
152B GLY* 1.3 55.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 152 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B VAL* 3.6 0.5 - - - -
94B LYS* 2.9 33.3 + - - +
123B TYR* 4.7 2.9 - - - -
145B GLY* 6.1 1.6 - - - -
150B VAL* 3.5 7.2 - - - +
151B GLU* 1.3 80.9 - - - +
153B THR* 1.3 69.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 153 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B ILE* 3.8 17.5 - - + -
92B LEU 3.2 9.0 - - - +
93B VAL* 4.3 5.2 - - + -
123B TYR* 4.2 6.0 + - - -
141B LEU* 4.1 12.7 + - + +
144B ILE* 3.6 33.0 - - + -
145B GLY* 5.0 4.8 - - - +
150B VAL* 4.4 3.6 - - + -
152B GLY* 1.3 79.2 - - - +
154B HIS* 1.3 61.5 + - - +
172B LYS* 2.8 48.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 154 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A GLY* 4.9 11.6 - - - -
122A ASP* 4.7 14.4 - - - -
90B PHE 3.9 0.3 - - - +
91B ILE* 3.8 0.4 - - - -
92B LEU* 2.8 52.4 + - + +
123B TYR* 3.4 35.6 + - + +
153B THR* 1.3 73.2 - - - +
155B THR* 1.3 75.1 + - - +
156B MET* 4.2 14.6 - - + +
172B LYS 3.5 4.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 155 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A THR* 4.2 4.5 + - - -
89B ALA* 3.9 22.4 - - + -
90B PHE 3.4 9.9 - - - +
91B ILE* 3.7 9.5 - - + +
137B LEU* 4.2 18.6 - - + -
141B LEU* 3.2 21.3 - - + +
154B HIS* 1.3 81.5 + - - +
156B MET* 1.3 66.9 + - - +
157B ILE* 4.1 9.0 + - + +
172B LYS* 2.7 34.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 156 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A LEU* 4.0 19.3 - - + -
119A THR* 3.5 18.8 - - + +
120A THR* 3.6 20.4 - - - +
121A GLY* 5.2 1.6 - - - -
123A TYR* 5.2 7.4 - - + +
125A MET 5.3 0.7 - - - +
126A VAL* 3.2 33.9 - - + -
89B ALA* 3.4 0.7 - - - -
90B PHE* 2.7 51.5 + - + +
92B LEU* 4.2 26.7 - - - -
154B HIS* 4.2 16.6 - - + +
155B THR* 1.3 75.2 - - - +
157B ILE* 1.3 64.6 + - - +
158B VAL* 3.7 0.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 157 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A THR* 3.4 4.0 - - - -
120A THR* 3.0 42.8 + - + +
87B MET* 3.9 26.9 - - + -
88B LEU 3.9 2.7 - - - -
89B ALA* 4.3 1.6 - - + -
134B SER* 6.1 2.0 - - - -
137B LEU* 4.1 28.7 - - + -
155B THR* 4.0 9.6 - - + +
156B MET* 1.3 73.2 - - - +
158B VAL* 1.3 74.6 + - - +
159B LEU* 3.4 11.6 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 158 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A TYR* 3.8 28.0 - - + -
118A GLU 3.5 4.7 - - - +
119A THR* 4.0 9.6 - - + -
88B LEU* 2.9 49.3 + - + +
89B ALA* 4.6 0.4 - - - +
90B PHE* 4.0 17.5 - - + -
156B MET 3.7 0.2 + - - -
157B ILE* 1.3 79.3 - - - +
159B LEU* 1.3 61.8 + - - +
160B LYS 3.6 26.0 - - - +
161B THR* 3.9 6.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 159 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A GLU* 2.6 23.6 + - + +
119A THR* 4.1 7.4 - - - +
120A THR* 3.9 36.6 - - + +
157B ILE* 4.0 14.8 - - + +
158B VAL* 1.3 77.0 - - - +
160B LYS* 1.3 61.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 160 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A TYR* 3.4 3.8 - - - -
118A GLU* 2.8 52.4 + - + +
158B VAL* 3.5 6.8 - - - +
159B LEU* 1.3 83.6 - - - +
161B THR* 1.3 71.2 + - - +
162B HIS* 3.5 29.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 161 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A VAL 4.0 2.5 - - - -
117A TYR* 3.5 27.8 - - + -
88B LEU* 4.2 5.4 - - - +
158B VAL* 3.9 6.8 - - - +
160B LYS* 1.3 81.4 - - - +
162B HIS* 1.3 63.3 + - - +
163B LYS* 3.7 24.7 - - - +
164B GLU* 4.0 16.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 162 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A TYR 4.7 3.4 - - - -
101A SER* 4.8 8.3 - - - -
104A ALA* 3.4 36.5 - - + +
108A ALA* 5.2 5.2 - - + +
116A VAL* 3.0 21.4 + - + +
118A GLU* 2.6 48.2 + - + +
125A MET* 4.4 4.4 - - + +
160B LYS* 3.5 25.9 - - + +
161B THR* 1.3 76.7 + - - +
163B LYS* 1.3 62.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 163 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ALA* 2.8 38.0 + - + +
110A TYR 2.8 21.6 + - - -
111A PRO* 4.3 5.7 + - - +
113A ILE 2.6 30.0 + - - +
114A VAL 4.1 7.0 - - - +
115A GLU* 3.3 4.7 - - - +
116A VAL* 3.0 43.3 + - + +
117A TYR* 4.4 0.9 - - - -
161B THR* 3.7 6.5 - - - +
162B HIS* 1.3 80.5 - - - +
164B GLU* 1.3 68.9 + - - +
165B THR* 4.2 18.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 164 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A LYS* 4.8 11.3 + - - -
114A VAL 3.6 3.6 - - - -
115A GLU* 4.1 7.2 - - + +
117A TYR* 2.7 36.9 + - - +
80B PRO* 5.7 2.4 - - - +
88B LEU* 4.0 1.6 - - - +
128B LYS* 4.5 1.2 + - - +
130B ARG* 2.7 33.6 + - - -
161B THR* 4.0 13.5 + - + +
163B LYS* 1.3 78.1 - - - +
165B THR* 1.3 62.0 + - - +
----------------------------------------------------------
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