Contacts of the strand formed by residues 188 - 196 (chain E) in PDB entry 2AAZ
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 HIS 188 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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79E GLU* 5.4 1.0 + - - -
83E PHE* 3.7 27.2 - + - -
127E TYR* 3.2 48.6 - + - -
131E TRP* 4.4 4.5 + + - -
173E ALA* 4.5 2.4 - - - +
186E PRO* 4.2 0.9 - - - +
187E CYS* 1.3 76.3 - - - +
189E MET* 1.3 60.6 + - - +
190E PHE 3.4 2.8 + - - -
213E MET* 3.4 31.6 - - + -
214E TYR 3.7 6.5 - - - -
215E GLN* 3.9 2.4 - - + +
227E ASN* 3.4 11.7 + - - +
231E TYR* 2.6 36.0 + + - +
550E UMP 3.3 24.2 + - - -
2551E CB3 5.7 0.2 - - - +
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Residues in contact with MET 189 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172E SER* 3.0 14.9 + - - -
173E ALA 3.0 12.1 + - - -
174E TRP* 3.5 40.9 + - + +
186E PRO* 4.3 9.0 - - - +
187E CYS 3.0 7.6 + - - +
188E HIS* 1.3 74.2 - - - +
190E PHE* 1.3 69.1 + - + +
214E TYR* 3.2 24.0 + - + +
216E ARG* 3.7 25.6 - - - -
170F ILE* 3.7 25.8 - - + -
172F SER* 5.5 0.2 - - - -
190F PHE* 3.5 39.5 - - + -
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Residues in contact with PHE 190 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131E TRP* 6.3 0.2 - - - +
170E ILE* 4.1 1.8 - - + -
171E LEU 3.1 14.1 - - - +
172E SER* 3.5 15.3 - - - +
188E HIS 3.4 2.8 - - - -
189E MET* 1.3 88.5 - - + +
191E CYS* 1.3 93.2 + - - +
192E GLN* 4.3 3.1 - - + -
212E LEU* 4.8 1.8 - - + -
213E MET* 3.5 5.1 - - - +
214E TYR* 3.0 44.4 + - + -
231E TYR* 5.3 3.6 - - - -
189F MET* 3.5 21.3 - - + -
190F PHE* 2.8 37.7 - + - -
214F TYR* 3.1 48.7 - + - -
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Residues in contact with CYS 191 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169E ILE 4.0 0.3 - - - +
170E ILE* 3.5 3.6 - - - -
171E LEU* 2.9 46.0 + - - -
190E PHE* 1.3 86.0 - - - +
192E GLN* 1.3 60.7 + - - +
193E PHE* 3.5 34.9 - - - -
211E CYS* 4.0 5.2 - - - -
212E LEU 2.9 15.3 - - - +
213E MET* 3.8 8.7 - - + -
231E TYR* 3.8 26.2 - - + -
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Residues in contact with GLN 192 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167E ARG* 3.7 22.0 + - - +
169E ILE 3.4 6.0 - - - +
170E ILE* 3.5 19.9 - - + +
190E PHE* 4.3 2.4 - - + -
191E CYS* 1.3 75.8 - - - +
193E PHE* 1.3 74.8 + - - +
194E PHE* 6.0 0.6 - - - -
211E CYS* 3.4 2.5 - - - -
212E LEU 2.7 33.9 + - - +
49F PHE* 3.5 19.4 - - + -
214F TYR* 2.6 35.4 + - - +
216F ARG* 2.9 38.5 + - - +
254F GLY* 3.4 1.9 - - - -
255F ASP* 4.0 8.3 - - - +
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Residues in contact with PHE 193 (chain E).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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156E VAL* 3.8 25.8 - - + -
160E ILE* 4.4 3.4 - - + -
166E ASP 5.3 1.4 - - - +
169E ILE* 3.0 45.3 + - + +
171E LEU* 4.3 11.0 - - + -
191E CYS* 3.5 31.4 - - - -
192E GLN* 1.3 86.2 + - - +
194E PHE* 1.3 63.1 + - - +
209E LEU* 4.1 22.2 - - + -
210E SER 3.2 14.4 - - - +
211E CYS* 3.7 22.0 - - + -
234E LEU* 4.3 10.3 - - + -
235E THR* 3.9 12.3 - - - -
238E ILE* 3.5 28.0 - - + -
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Residues in contact with PHE 194 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166E ASP 6.1 0.4 - - - -
169E ILE* 5.2 1.1 - - - -
192E GLN* 6.0 0.7 - - - -
193E PHE* 1.3 74.9 - - - +
195E VAL* 1.3 73.7 + - - +
196E SER* 3.5 23.1 - - - -
208E LYS 3.5 1.3 - - - +
209E LEU* 3.5 5.0 - - - +
210E SER* 2.8 36.3 + - - -
35F GLU* 4.4 5.4 - - - -
37F ARG* 3.5 33.0 - - - -
47F ALA* 5.1 6.3 - - + -
48F LEU* 5.0 2.7 - - - -
49F PHE* 3.4 66.2 - + + -
255F ASP* 3.5 31.0 - - + -
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Residues in contact with VAL 195 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160E ILE* 3.9 32.1 - - + -
164E PRO* 3.8 38.6 + - + +
169E ILE* 4.7 3.1 - - + -
194E PHE* 1.3 84.9 - - - +
196E SER* 1.3 55.9 + - - +
197E LEU* 3.7 2.7 + - + +
207E PRO* 3.5 28.9 - - + -
208E LYS 3.2 5.6 - - - +
209E LEU* 4.0 10.8 - - + -
244E THR* 4.6 7.0 - - + -
37F ARG* 2.4 35.2 + - - +
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Residues in contact with SER 196 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194E PHE* 3.5 15.1 - - - -
195E VAL* 1.3 72.8 - - - +
197E LEU* 1.3 67.4 + - - +
207E PRO* 3.3 6.9 - - - +
208E LYS* 2.8 48.1 + - - +
210E SER* 5.6 1.0 + - - -
247E HIS* 5.5 4.7 - - - -
35F GLU* 3.4 22.1 + - - -
37F ARG* 3.7 1.3 - - - +
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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