Contacts of the strand formed by residues 149 - 159 (chain A) in PDB entry 1ZN7
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 GLU 149 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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57A ARG* 4.0 10.3 + - - -
120A GLY* 4.7 7.8 - - - +
121A GLN 2.8 12.6 + - - +
122A ARG* 3.3 19.4 - - + +
123A VAL* 2.8 28.8 + - - +
147A GLN 4.0 0.6 + - - +
148A ALA* 1.3 75.3 - - - +
150A VAL* 1.3 65.4 + - - +
151A LEU* 3.4 26.7 + - + +
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Residues in contact with VAL 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123A VAL* 3.4 7.0 - - + +
125A VAL* 4.2 6.7 - - + -
140A CYS* 4.0 27.1 - - + +
143A LEU* 3.7 38.8 - - + -
144A GLY* 5.0 1.1 - - - +
148A ALA 3.9 3.0 + - - +
149A GLU* 1.3 74.4 - - - +
151A LEU* 1.3 63.5 + - - +
152A GLU 3.7 16.8 - - - +
153A CYS* 4.2 2.5 - - - -
171A VAL* 3.7 35.5 - - + +
172A PRO* 4.9 2.3 - - - +
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Residues in contact with LEU 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54A HIS* 3.6 29.9 - - + +
57A ARG* 3.3 52.9 - - + +
58A ILE* 3.9 24.0 - - + -
122A ARG* 3.9 19.7 - - + -
123A VAL 2.9 12.1 + - - +
124A VAL* 4.1 5.6 - - + -
149A GLU* 3.6 24.9 - - + +
150A VAL* 1.3 72.6 - - - +
152A GLU* 1.3 63.5 + - - +
172A PRO* 3.3 23.5 - - - +
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Residues in contact with GLU 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A HIS* 2.6 34.7 + - - -
50A LEU* 3.9 4.2 - - + +
53A THR* 3.9 6.1 - - - +
54A HIS* 2.7 36.4 + - - +
123A VAL 4.0 0.6 + - - -
124A VAL* 3.3 15.5 - - + +
125A VAL 3.1 22.0 + - - -
150A VAL* 3.4 7.3 - - - +
151A LEU* 1.3 79.6 - - - +
153A CYS* 1.3 72.9 + - - +
154A VAL* 3.6 6.1 - - + +
171A VAL* 4.1 2.2 - - - -
172A PRO* 3.4 28.6 - - + +
173A PHE 4.1 0.6 - - - +
174A PHE* 3.1 16.3 - - - +
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Residues in contact with CYS 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125A VAL* 3.3 23.6 - - + +
136A MET* 3.9 24.2 - - - -
140A CYS* 3.5 32.8 - - - -
150A VAL* 4.2 0.2 - - - -
152A GLU* 1.3 76.9 - - - +
154A VAL* 1.3 66.2 + - - +
168A LEU* 4.0 18.2 - - + -
171A VAL* 4.1 7.9 - - - -
172A PRO 3.0 7.3 + - - +
173A PHE* 3.2 8.6 - - + -
174A PHE 3.1 21.7 + - - -
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Residues in contact with VAL 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46A LEU* 4.0 20.0 - - + -
50A LEU* 3.9 21.5 - - + -
75A LEU* 4.4 7.6 - - + -
124A VAL* 4.3 9.4 - - + -
125A VAL 2.8 16.8 + - - +
126A VAL* 3.3 20.1 - - + +
127A ASP 3.1 23.9 + - - -
136A MET* 3.3 6.0 - - - +
152A GLU* 3.6 22.0 - - + +
153A CYS* 1.3 80.9 - - - +
155A SER* 1.3 61.8 + - - +
173A PHE* 4.1 0.9 - - - -
174A PHE* 3.1 18.6 - - + +
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Residues in contact with SER 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46A LEU* 4.0 10.6 - - - +
126A VAL* 5.1 0.7 - - - -
127A ASP 3.1 15.3 - - - -
128A ASP 3.8 5.8 - - - -
129A LEU 4.0 1.8 - - - -
130A LEU 3.8 2.0 + - - -
136A MET* 3.8 13.7 - - - -
154A VAL* 1.3 76.7 - - - +
156A LEU* 1.3 60.7 + - - +
157A VAL 2.7 27.9 + - - -
173A PHE* 3.2 19.0 - - - -
174A PHE 3.0 5.5 + - - +
175A SER* 3.2 5.7 - - - -
176A LEU 3.1 20.4 + - - -
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Residues in contact with LEU 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A VAL* 4.3 11.2 - - + -
13A ILE* 5.3 0.9 - - + -
29A ILE* 4.4 11.7 - - + -
32A VAL* 4.3 11.9 - - + -
42A ALA* 4.0 15.9 - - + -
46A LEU* 4.1 13.0 - - + -
71A PHE* 3.5 60.3 - - + -
126A VAL* 5.4 0.4 - - + -
127A ASP 4.4 2.2 - - - +
128A ASP* 3.0 15.3 + - - +
155A SER* 1.3 71.5 - - - +
157A VAL* 1.3 68.2 + - + +
176A LEU* 3.4 22.9 + - + +
177A LEU* 2.8 32.4 + - - +
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Residues in contact with VAL 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13A ILE* 4.1 26.7 - - + -
27A ARG* 4.3 7.6 - - + -
29A ILE* 4.7 6.3 - - + -
128A ASP 3.0 6.5 + - - +
129A LEU* 3.2 33.3 - - + -
130A LEU 2.8 24.2 + - - -
155A SER* 2.7 20.9 + - - -
156A LEU* 1.3 88.7 - - + +
158A GLU* 1.3 56.7 + - - +
159A LEU* 3.9 7.6 - - + -
175A SER* 4.3 0.2 - - - -
177A LEU* 3.4 5.4 - - + -
179A TYR* 3.6 34.5 - - + -
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Residues in contact with GLU 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A LEU* 3.5 15.2 - - + +
157A VAL* 1.3 75.8 - - - +
159A LEU* 1.3 69.1 + - - +
160A THR* 3.6 24.7 + - + +
164A GLY 5.8 0.4 + - - +
165A ARG* 4.0 29.2 + - - +
173A PHE* 3.5 24.7 - - + -
175A SER* 2.6 37.1 + - - +
177A LEU 2.9 6.7 + - - +
178A GLN* 3.4 11.7 - - + +
179A TYR 2.9 26.9 + - - +
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Residues in contact with LEU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A VAL 5.0 1.3 - - - +
27A ARG* 4.1 18.2 - - + +
129A LEU* 3.8 16.8 - - + -
130A LEU 2.9 12.7 + - - +
131A ALA* 4.0 10.1 - - + +
157A VAL* 3.9 19.7 - - + -
158A GLU* 1.3 78.9 - - - +
160A THR* 1.3 64.4 + - - +
161A SER 3.3 2.9 - - - -
162A LEU* 3.2 34.5 + - + +
163A LYS 4.1 1.9 + - - -
164A GLY 5.0 1.2 + - - -
179A TYR* 3.3 15.7 - - + -
180A GLU* 3.4 13.7 - - - +
655A ADE 3.6 34.3 - - - +
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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