Contacts of the strand formed by residues 150 - 157 (chain B) in PDB entry 2CUY
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).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B LEU* 4.0 31.5 - - + +
147B LEU* 3.4 39.5 - - + +
148B GLU 3.0 5.7 + - - +
149B GLY* 1.3 78.9 - - - +
151B GLU* 1.3 69.8 + - - +
163B ILE* 4.4 13.2 - - + -
164B SER 3.5 6.7 - - - +
165B GLY* 4.4 0.2 - - - -
169B ALA* 4.0 12.8 - - + -
170B VAL* 4.2 20.0 - - + +
173B ALA* 4.2 4.5 - - + -
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Residues in contact with GLU 151 (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 LEU* 5.1 2.2 - - - -
148B GLU 5.7 0.7 - - - +
149B GLY* 5.1 7.2 - - - +
150B VAL* 1.3 82.8 - - - +
152B ILE* 1.3 68.3 + - - +
153B ALA 3.3 0.2 + - - -
163B ILE* 3.1 8.9 - - - +
164B SER* 2.7 38.0 + - - +
165B GLY* 5.5 0.3 - - - -
194B HIS 4.8 0.2 - - - +
195B SER* 3.5 15.5 - - - -
196B SER* 2.8 48.0 + - - -
197B LEU* 4.5 3.8 + - - +
245B THR 4.9 2.1 - - - +
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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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137B LEU* 4.4 11.0 - - + -
140B ILE* 3.9 15.7 - - + -
141B GLN* 4.9 10.3 - - + +
144B LEU* 3.4 30.5 - - + -
151B GLU* 1.3 74.7 - - - +
153B ALA* 1.3 58.4 + - - +
154B ASN 4.1 0.7 - - - +
155B LEU* 3.7 38.6 - - + -
161B THR* 4.0 13.5 - - + -
162B VAL 3.7 2.0 - - - -
163B ILE* 4.0 7.2 - - + -
194B HIS 4.2 2.8 - - - +
247B PRO* 3.5 24.3 - - + +
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Residues in contact with ALA 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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129B MET* 5.7 0.4 - - - -
151B GLU 3.3 1.2 + - - -
152B ILE* 1.3 73.3 - - - +
154B ASN* 1.3 70.5 + - - +
162B VAL* 2.6 25.4 + - + +
164B SER* 3.2 30.1 - - - +
193B PHE 3.4 14.8 - - - +
194B HIS* 3.6 15.0 - - + +
247B PRO* 3.3 4.5 - - - +
248B VAL 2.9 19.3 + - - -
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Residues in contact with ASN 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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88B HIS* 3.7 19.8 - - - +
129B MET* 5.8 0.9 - - - +
152B ILE* 4.1 0.2 - - - +
153B ALA* 1.3 100.4 + - - +
155B LEU* 1.3 65.2 + - - +
156B ASN* 3.3 23.6 + - - +
161B THR* 3.2 14.0 - - - +
162B VAL* 3.0 47.6 + - + +
194B HIS* 4.0 10.1 - - - -
248B VAL* 3.2 26.7 - - - +
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Residues in contact with LEU 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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137B LEU* 3.7 41.1 - - + -
152B ILE* 3.7 19.1 - - + -
154B ASN* 1.3 79.3 - - - +
156B ASN* 1.3 60.9 + - - +
157B ALA 3.7 1.1 - - - -
160B GLN 4.4 2.2 - - - -
161B THR* 4.3 6.5 - - - +
247B PRO* 4.2 16.6 - - + -
248B VAL 2.9 19.9 + - - +
249B ARG* 4.4 13.0 - - + -
250B TRP* 3.2 6.8 + - - +
251B VAL* 2.8 37.7 + - + -
252B GLU* 5.1 7.2 - - - +
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Residues in contact with ASN 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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88B HIS* 2.6 32.1 + - - -
154B ASN* 3.3 25.4 + - - +
155B LEU* 1.3 76.0 - - - +
157B ALA* 1.3 62.0 + - - +
160B GLN* 3.1 17.4 + - + +
162B VAL* 3.6 18.0 - - - +
248B VAL* 4.9 0.2 - - - +
250B TRP* 3.7 21.4 - - - +
251B VAL* 3.5 8.0 - - - +
277B LEU* 3.7 29.4 - - + +
281B THR* 3.7 6.4 + - - -
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Residues in contact with ALA 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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155B LEU* 4.9 0.7 - - - -
156B ASN* 1.3 76.8 + - - +
158B PRO* 1.3 81.7 - - + +
159B GLU 3.1 1.3 - - - +
160B GLN* 3.0 55.2 + - + +
161B THR* 4.4 2.4 + - - -
251B VAL* 3.6 10.6 - - - +
277B LEU* 4.3 4.0 - - + -
280B ARG* 4.4 8.5 - - + -
281B THR* 3.6 6.1 - - - +
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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