Contacts of the strand formed by residues 151 - 160 (chain B) in PDB entry 2PZI
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 TYR 151 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145B ASP 3.1 6.4 - - - +
146B ILE* 3.3 3.4 - - - -
147B VAL* 2.8 53.9 + - + +
148B ALA* 4.8 0.4 - - + -
150B GLN* 1.3 100.9 + - + +
152B GLU* 1.3 60.0 + - - +
153B VAL 3.5 0.9 + - - -
168B ALA* 4.0 14.6 - - + -
169B LEU 3.3 2.2 - - - -
170B ASP* 3.5 34.3 + - + -
176B ARG* 5.7 0.4 + - - -
178B VAL* 3.7 18.8 - - + -
180B LEU* 4.5 7.6 - - + -
214B PHE* 4.9 2.6 - - - +
215B ASN* 3.0 28.3 + - - +
217B VAL* 3.7 28.7 - - + -
231B VAL* 3.9 24.8 - - + +
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Residues in contact with GLU 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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144B GLY* 4.4 13.2 + - - +
145B ASP 3.4 3.1 - - - -
146B ILE* 3.7 15.9 - - + +
150B GLN 3.8 1.6 + - - -
151B TYR* 1.3 69.2 - - - +
153B VAL* 1.3 70.1 + - - +
154B LYS* 3.3 35.5 + - - +
168B ALA* 3.1 1.9 - - - -
169B LEU* 2.8 49.7 + - + +
171B ARG* 3.1 36.0 + - - +
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Residues in contact with VAL 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B LEU* 4.0 26.0 - - + -
142B ASN 3.5 24.9 - - - +
144B GLY* 2.6 28.6 + - - -
145B ASP* 2.8 31.7 + - + +
147B VAL* 3.9 19.5 - - + -
151B TYR 4.3 1.6 - - - +
152B GLU* 1.3 72.2 - - - +
154B LYS* 1.3 65.8 + - - +
155B GLY* 3.8 13.9 - - - +
166B TYR* 4.7 8.3 - - + -
167B LEU 3.7 9.0 - - - +
168B ALA* 3.9 8.5 - - + -
180B LEU* 5.4 1.3 - - + -
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Residues in contact with LYS 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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89B LEU* 5.0 18.6 - - + +
92B LEU* 3.9 33.0 - - + +
143B PRO* 3.5 20.9 - - - +
152B GLU* 3.3 38.9 + - - +
153B VAL* 1.3 75.0 - - - +
155B GLY* 1.3 58.1 + - - +
167B LEU* 2.8 23.1 + - + +
168B ALA* 4.5 1.1 - - - -
169B LEU* 3.9 31.0 - - + +
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Residues in contact with GLY 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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92B LEU* 3.9 7.8 - - - +
93B MET 5.9 0.4 - - - -
141B LEU 5.6 1.8 - - - -
143B PRO* 4.3 12.3 - - - -
153B VAL* 3.7 8.1 - - - +
154B LYS* 1.3 80.9 - - - +
156B CYS* 1.3 61.1 - - - -
166B TYR* 3.3 8.4 - - - +
167B LEU* 2.8 30.4 + - - +
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Residues in contact with CYS 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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92B LEU* 3.5 3.7 - - - +
93B MET* 2.7 38.1 + - + +
96B PRO* 4.0 17.4 - - + +
139B PRO* 3.8 30.7 - - - -
141B LEU 5.2 0.7 - - - -
155B GLY* 1.3 74.3 - - - -
157B ILE* 1.3 59.2 + - - +
164B TRP* 3.8 43.7 - - + -
165B ILE 3.4 6.1 - - - +
166B TYR* 3.9 10.5 - - - -
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Residues in contact with ILE 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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91B ALA* 3.7 38.4 - - + +
92B LEU* 4.0 4.3 - - + -
93B MET* 3.7 13.8 - - - +
156B CYS* 1.3 78.8 - - - +
158B ALA* 1.3 65.5 + - - +
165B ILE* 2.9 22.8 + - + +
167B LEU* 3.8 27.6 - - + +
179B VAL* 4.0 22.0 - - + -
234B TYR* 4.0 7.2 - - + -
752B AXX 3.5 49.6 - - + +
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Residues in contact with ALA 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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93B MET* 4.0 8.8 - - - -
156B CYS 3.9 0.4 - - - -
157B ILE* 1.3 82.0 - - - +
159B HIS* 1.3 59.3 + - - +
164B TRP* 3.0 16.3 - - - -
165B ILE* 2.8 34.5 + - + +
752B AXX 3.9 32.8 - - + +
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Residues in contact with HIS 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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93B MET* 5.5 0.8 - - + +
98B VAL* 3.6 31.0 - - + +
136B SER 5.1 0.6 + - - -
137B PHE* 4.1 20.6 - + - -
158B ALA* 1.3 79.9 - - - +
160B GLY* 1.3 76.2 + - - +
161B GLY* 5.6 0.2 - - - -
163B GLY* 3.4 29.1 - - - -
164B TRP* 3.6 36.4 + + + -
165B ILE* 4.4 4.0 - - - -
241B LYS* 4.3 16.5 + - - -
280B GLU* 4.4 3.5 - - - +
752B AXX 6.4 0.4 - - - -
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Residues in contact with GLY 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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159B HIS* 1.3 92.5 - - - +
161B GLY* 1.3 59.8 + - - -
162B LEU 3.1 3.8 - - - -
163B GLY 2.9 26.5 + - - -
165B ILE* 4.9 4.9 - - - +
181B LYS* 5.8 3.1 - - - -
280B GLU* 4.2 18.6 - - - -
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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