Contacts of the strand formed by residues 191 - 197 (chain B) in PDB entry 1ZZ7
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 ALA 191 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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123B ASP* 3.8 0.5 - - - +
124B VAL* 2.7 38.0 + - + +
125B LEU* 5.8 0.2 - - - +
148B GLU* 3.3 18.2 - - - +
150B GLU 3.9 18.8 - - - +
151B ILE* 3.8 25.8 - - + -
184B ALA* 4.1 4.7 - - + +
190B SER* 1.3 79.0 - - - +
192B LYS* 1.3 64.4 + - - +
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Residues in contact with LYS 192 (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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121B VAL* 4.8 11.4 - - + -
122B VAL 3.3 7.0 - - - +
123B ASP* 2.9 30.3 - - - +
146B VAL* 3.6 4.0 - - - +
147B LEU* 2.8 47.0 + - + -
148B GLU* 3.0 28.0 + - + +
191B ALA* 1.3 78.2 - - - +
193B LEU* 1.3 60.2 + - - +
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Residues in contact with LEU 193 (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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121B VAL* 3.4 7.4 - - - +
122B VAL* 2.8 41.0 + - + +
124B VAL* 4.4 9.4 - - + -
144B LEU* 4.0 18.4 - - + -
145B PHE 3.3 5.4 - - - +
146B VAL* 3.5 27.1 - - + -
147B LEU* 4.1 1.3 - - - +
151B ILE* 3.4 36.8 - - + -
172B MET* 3.8 11.4 - - + -
182B PHE* 4.0 30.7 - - + -
192B LYS* 1.3 72.8 - - - +
194B ILE* 1.3 65.8 + - - +
195B ALA 3.9 0.7 - - - +
1001B S0H 5.0 4.3 - - + -
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Residues in contact with ILE 194 (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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108B LEU* 4.6 11.9 - - + -
120B LEU 3.4 11.4 - - - +
121B VAL* 4.7 7.2 - - + -
143B PHE* 3.8 3.3 - - + +
144B LEU* 3.2 6.6 - - - +
145B PHE* 2.8 47.9 + - + +
147B LEU* 3.3 43.1 - - + -
193B LEU* 1.3 74.4 - - - +
195B ALA* 1.3 60.5 - - - +
196B VAL* 4.1 19.7 - - + +
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Residues in contact with ALA 195 (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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118B VAL 3.7 2.6 - - - +
119B PRO* 3.4 1.4 - - - +
120B LEU* 2.8 42.9 + - + +
122B VAL* 4.4 13.0 - - + -
142B GLU* 3.5 24.0 - - - +
143B PHE 3.4 3.8 - - - -
144B LEU* 4.0 5.6 - - + -
193B LEU* 3.9 1.7 + - + -
194B ILE* 1.3 74.7 - - - +
196B VAL* 1.3 60.5 + - - +
197B ASN* 4.0 5.7 + - - +
1001B S0H 3.9 17.3 - - + -
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Residues in contact with VAL 196 (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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117B LEU* 3.7 28.5 - - + -
118B VAL 4.0 2.5 - - - -
119B PRO* 4.1 14.6 - - + -
142B GLU* 4.3 0.6 - - - +
143B PHE* 2.7 58.2 + - + +
194B ILE* 4.1 16.6 - - + -
195B ALA* 1.3 76.1 - - - +
197B ASN* 1.3 64.7 + - - +
198B PHE* 3.4 12.3 - - + -
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Residues in contact with ASN 197 (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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21A GLN* 5.6 4.5 - - + +
23A LYS* 5.3 6.5 - - - +
116B SER 3.1 5.4 - - - +
117B LEU* 3.3 5.9 - - - +
118B VAL* 2.9 53.4 + - + +
120B LEU* 5.2 7.7 - - - +
138B HIS* 3.5 24.6 + - - +
140B GLY 5.4 0.6 - - - -
141B ASN 3.6 6.0 - - - +
142B GLU* 3.4 35.8 + - - +
195B ALA* 4.9 6.7 + - - +
196B VAL* 1.3 74.2 - - - +
198B PHE* 1.3 61.4 + - - +
1001B S0H 5.3 3.6 + - - +
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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