Contacts of the strand formed by residues 151 - 160 (chain B) in PDB entry 1ZBU
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 ILE 151 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135B PHE* 3.6 28.7 - - + -
136B GLU 3.4 7.6 - - - +
137B ALA* 4.2 1.1 - - + +
150B GLU* 1.3 72.1 - - - +
152B ILE* 1.3 63.3 + - - +
153B GLU 3.5 26.9 - - - +
154B PHE* 4.6 2.2 - - + +
174B VAL* 3.3 27.7 - - + +
176B PRO* 5.2 1.9 - - - +
203B PHE* 3.9 18.2 - - + -
238B PHE* 4.0 23.8 - - + +
239B LEU* 4.0 13.7 - - - +
242B GLN* 2.9 41.8 + - + +
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Residues in contact with ILE 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136B GLU 2.7 26.0 + - - +
137B ALA 3.8 8.3 - - - +
138B THR* 3.6 27.6 - - + -
150B GLU 3.2 0.6 + - - +
151B ILE* 1.3 75.9 - - - +
153B GLU* 1.3 57.4 + - - +
173B TYR* 3.3 12.8 - - - +
174B VAL* 2.9 35.0 + - - +
176B PRO* 4.0 14.1 - - + -
182B LEU* 3.9 20.2 - - + -
186B CYS* 3.9 17.5 - - - -
190B THR* 4.3 3.8 - - + +
192B ILE* 3.7 30.0 - - + +
197B VAL* 4.0 10.8 - - + +
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Residues in contact with GLU 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135B PHE* 3.4 9.0 - - - -
136B GLU* 3.1 43.3 + - + +
151B ILE* 3.5 8.0 - - - +
152B ILE* 1.3 81.8 - - - +
154B PHE* 1.3 62.3 + - - +
155B PRO* 3.4 6.4 - - + +
171B GLN* 3.1 34.0 - - + +
172B GLN 3.5 7.0 - - - +
173B TYR* 3.8 19.7 - - + -
174B VAL* 4.9 0.2 - - - -
192B ILE* 3.7 13.7 - - + +
294B CYS* 4.0 4.7 - - - -
295B GLY* 2.9 30.0 + - - -
296B LEU 3.5 11.6 + - - -
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Residues in contact with PHE 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133B ILE* 4.2 17.0 - - + -
135B PHE* 3.6 33.9 - + + -
151B ILE* 4.8 0.9 - - + -
153B GLU* 1.3 74.6 - - - +
155B PRO* 1.3 63.9 - - - +
156B VAL* 4.1 7.9 - - + -
170B PHE* 3.4 9.9 - - - -
172B GLN 2.8 30.7 + - - +
174B VAL* 4.4 4.2 - - + +
203B PHE* 3.9 28.3 - + - -
206B VAL* 3.8 23.6 - - + -
207B LEU* 3.9 21.1 - - + -
210B VAL* 3.7 37.5 - - + -
239B LEU* 5.2 1.8 - - + -
253B PHE* 6.3 1.8 - + - -
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Residues in contact with PRO 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132B ILE 4.5 0.7 - - - -
133B ILE* 3.8 14.9 - - - +
134B ASP 3.1 33.4 - - - +
135B PHE* 4.2 1.6 - - + -
153B GLU* 3.4 16.1 - - + +
154B PHE* 1.3 91.7 - - + +
156B VAL* 1.3 67.7 + - - +
170B PHE 3.3 9.4 - - - +
171B GLN* 4.3 2.9 - - + -
295B GLY* 3.6 10.1 - - - -
296B LEU* 3.8 27.6 - - + +
299B SER* 3.5 15.7 - - - +
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Residues in contact with VAL 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B CYS* 3.7 27.8 - - - -
132B ILE 3.5 3.1 - - - +
133B ILE* 4.5 4.0 - - + -
154B PHE* 4.1 9.2 - - + -
155B PRO* 1.3 79.5 - - - +
157B VAL* 1.3 67.6 + - - +
158B LEU* 3.8 14.6 - - + -
168B ASP 4.0 0.6 - - - +
169B THR* 3.4 3.6 - - - -
170B PHE* 2.8 54.3 + - + +
210B VAL* 3.9 28.0 - - + -
213B LEU* 4.3 16.8 - - + -
214B MSE 5.5 2.9 - - + -
296B LEU* 4.7 0.3 - - - +
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Residues in contact with VAL 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B CYS* 3.5 1.9 - - - -
132B ILE* 2.8 59.4 + - + +
156B VAL* 1.3 81.0 - - - +
158B LEU* 1.3 64.5 + - - +
159B LEU 5.0 0.2 - - - +
166B ILE* 3.7 37.5 - - + -
168B ASP 3.5 2.2 - - - -
169B THR* 4.1 13.0 - - + -
296B LEU* 4.3 5.8 - - + -
299B SER* 3.6 28.5 - - - +
300B LYS* 4.1 9.2 - - + -
303B ALA* 4.2 7.0 - - + -
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Residues in contact with LEU 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129B TYR* 4.5 12.3 - - + -
130B ILE 3.6 1.6 - - - +
131B CYS* 3.6 36.3 - - + -
156B VAL* 3.8 13.2 - - + -
157B VAL* 1.3 72.2 - - - +
159B LEU* 1.3 60.2 + - - +
166B ILE* 3.4 4.5 - - - -
167B GLU* 2.9 28.6 + - - +
168B ASP* 2.9 36.4 + - + +
213B LEU* 4.9 11.7 - - + -
214B MSE 5.4 3.6 - - + -
217B LYS* 3.6 37.0 - - + -
219B LEU* 4.3 15.5 - - + -
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Residues in contact with LEU 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129B TYR* 3.2 10.0 - - - -
130B ILE* 2.8 53.4 + - + +
132B ILE* 4.9 10.3 - - + -
157B VAL* 4.0 1.2 + - + -
158B LEU* 1.3 72.3 - - - +
160B ASN* 1.3 76.5 + - - +
161B THR* 3.4 2.3 + - + +
164B LEU* 3.8 2.9 - - - -
165B GLU 3.7 18.8 - - - +
166B ILE* 4.1 12.1 - - + +
303B ALA* 4.3 5.2 - - + +
306B ALA* 3.9 23.6 - - + -
307B VAL* 3.6 34.8 - - + +
310B LEU* 4.6 9.6 - - + -
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Residues in contact with ASN 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128B ASP 3.7 6.1 - - - -
129B TYR* 3.9 14.5 + - + -
158B LEU 3.9 1.4 + - - -
159B LEU* 1.3 73.5 - - - +
161B THR* 1.3 56.9 + - - +
162B HIS* 2.7 46.1 + - - +
163B THR* 2.8 31.0 + - - +
164B LEU* 2.9 28.9 + - - -
165B GLU 3.0 13.3 + - - +
167B GLU* 2.7 33.3 + - - +
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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