Contacts of the strand formed by residues 188 - 196 (chain G) 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 G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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79G GLU* 5.4 1.2 + - - -
83G PHE* 3.7 27.2 - + - -
127G TYR* 3.2 49.6 - + - -
131G TRP* 4.4 5.2 + + - -
173G ALA* 4.6 2.8 - - - +
186G PRO* 4.2 0.7 - - - +
187G CYS* 1.3 75.9 - - - +
189G MET* 1.3 61.0 + - - +
190G PHE* 3.4 2.7 + - - -
213G MET* 3.4 28.9 - - + -
214G TYR 3.7 6.5 - - - -
215G GLN* 4.0 2.0 - - + +
227G ASN* 3.4 11.2 + - - +
231G TYR* 2.5 38.1 + + + +
650G UMP 3.4 23.8 + - - -
2651G CB3 5.8 0.2 - - - +
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Residues in contact with MET 189 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172G SER* 2.9 15.2 + - - -
173G ALA 3.0 12.0 + - - -
174G TRP* 3.5 37.7 + - + +
186G PRO* 4.3 8.1 - - - +
187G CYS 3.1 7.6 + - - +
188G HIS* 1.3 73.8 - - - +
190G PHE* 1.3 68.0 + - + +
214G TYR* 3.2 24.2 + - + +
216G ARG* 3.7 27.4 - - - -
170H ILE* 3.6 28.3 - - + -
172H SER* 5.5 0.2 - - - -
190H PHE* 3.5 38.8 - - + -
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Residues in contact with PHE 190 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170G ILE* 4.0 1.6 - - + -
171G LEU 3.1 14.6 - - - +
172G SER* 3.5 15.9 - - - +
188G HIS 3.4 2.8 - - - -
189G MET* 1.3 88.0 - - + +
191G CYS* 1.3 93.9 + - - +
192G GLN* 4.3 3.1 - - + -
212G LEU* 4.9 1.3 - - + -
213G MET* 3.5 4.9 - - - +
214G TYR* 3.0 44.5 + - + -
231G TYR* 5.3 3.6 - - - -
189H MET* 3.5 24.2 - - + -
190H PHE* 2.8 37.2 - + - -
214H TYR* 3.1 46.4 - + - -
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Residues in contact with CYS 191 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169G ILE 4.0 0.2 - - - +
170G ILE* 3.5 3.8 - - - -
171G LEU* 2.9 46.8 + - - -
190G PHE* 1.3 84.7 - - - +
192G GLN* 1.3 61.2 + - - +
193G PHE* 3.5 35.1 - - - -
211G CYS* 4.0 4.7 - - - -
212G LEU 2.9 15.0 - - - +
213G MET* 3.8 8.5 - - + -
231G TYR* 3.8 26.2 - - + -
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Residues in contact with GLN 192 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167G ARG* 3.6 22.0 + - - +
169G ILE 3.4 5.8 - - - +
170G ILE* 3.5 20.1 - - + +
190G PHE* 4.3 2.9 - - + -
191G CYS* 1.3 76.6 - - - +
193G PHE* 1.3 75.3 + - - +
194G PHE* 6.1 0.6 - - - -
211G CYS* 3.4 3.2 - - - -
212G LEU 2.8 30.3 + - - +
49H PHE* 3.5 19.0 - - + -
214H TYR* 2.5 36.3 + - - +
216H ARG* 2.9 37.6 + - - +
254H GLY* 3.5 1.6 - - - -
255H ASP* 4.1 8.1 - - - +
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Residues in contact with PHE 193 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156G VAL* 3.8 22.0 - - + -
160G ILE* 4.4 3.6 - - + -
166G ASP 5.3 1.2 - - - +
169G ILE* 3.0 45.5 + - + +
171G LEU* 4.3 10.8 - - + -
191G CYS* 3.5 31.6 - - - -
192G GLN* 1.3 86.1 + - - +
194G PHE* 1.3 62.6 + - - +
209G LEU* 4.1 22.7 - - + -
210G SER 3.2 14.1 - - - +
211G CYS* 3.8 21.3 - - + -
234G LEU* 4.3 10.1 - - + -
235G THR* 4.0 12.6 - - - -
238G ILE* 3.4 32.5 - - + -
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Residues in contact with PHE 194 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166G ASP 6.1 0.7 - - - -
169G ILE* 5.2 1.6 - - - -
192G GLN* 6.1 0.7 - - - -
193G PHE* 1.3 74.5 - - - +
195G VAL* 1.3 74.7 + - - +
196G SER* 3.4 23.1 - - - -
208G LYS 3.5 1.2 - - - +
209G LEU* 3.5 4.9 - - - +
210G SER* 2.8 35.6 + - - -
35H GLU* 4.5 4.3 - - - -
37H ARG* 3.5 34.1 - - - -
47H ALA* 5.1 6.3 - - + -
48H LEU 5.0 2.2 - - - -
49H PHE* 3.4 65.5 - + + -
255H ASP* 3.5 30.5 - - + -
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Residues in contact with VAL 195 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160G ILE* 3.8 32.3 - - + +
164G PRO* 3.8 37.2 + - + +
169G ILE* 4.6 3.1 - - + -
194G PHE* 1.3 85.1 - - - +
196G SER* 1.3 55.4 + - - +
197G LEU* 3.7 3.6 + - + +
207G PRO* 3.5 28.7 - - + -
208G LYS 3.2 5.2 - - - +
209G LEU* 4.0 10.1 - - + -
244G THR* 4.5 8.5 - - + -
37H ARG* 2.7 34.2 + - - +
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Residues in contact with SER 196 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194G PHE* 3.4 14.9 - - - -
195G VAL* 1.3 73.0 - - - +
197G LEU* 1.3 68.2 + - - +
207G PRO* 3.2 7.8 - - - +
208G LYS* 2.8 49.7 + - - +
210G SER* 5.7 1.0 + - - -
247G HIS* 5.6 4.2 - - - -
35H GLU* 3.4 23.0 + - - -
37H ARG* 3.8 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