Contacts of the strand formed by residues 191 - 198 (chain A) in PDB entry 4ERO
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 THR 191 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A LEU* 3.4 43.9 - - + +
37A ASP* 2.6 28.5 + - - +
38A PRO* 4.5 2.0 - - - -
39A PHE* 3.8 5.7 - - + -
189A GLY 3.5 0.8 + - - -
190A TRP* 1.3 71.4 - - - +
192A SER* 1.3 62.5 + - - +
219A VAL* 5.6 1.6 - - + -
242A ALA* 3.1 4.7 - - - +
243A GLY 2.9 31.6 + - - -
245A PRO* 3.5 11.6 - - - +
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Residues in contact with SER 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A LYS* 3.5 20.3 + - - +
186A ILE* 4.2 14.4 - - - -
190A TRP 3.8 1.2 + - - -
191A THR* 1.3 78.2 - - - +
193A PHE* 1.3 67.4 + - - +
219A VAL* 3.8 8.7 - - - +
220A LEU* 3.3 51.4 + - - +
240A LEU* 4.8 1.6 - - - -
241A ILE 3.4 4.9 - - - -
242A ALA* 3.9 15.5 - - - -
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Residues in contact with PHE 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ILE* 3.6 28.7 - - + -
36A LEU* 4.0 20.6 - - + -
39A PHE* 3.9 12.6 - + - -
42A PHE* 4.2 19.7 - + + -
116A LEU* 4.8 0.9 - - + -
192A SER* 1.3 77.0 - - - +
194A ILE* 1.3 73.0 + - - +
195A TYR* 4.2 8.1 - - + -
217A THR* 3.7 24.0 - - + -
218A ALA 3.2 19.5 - - - +
219A VAL* 4.1 4.0 - - - -
220A LEU* 4.3 2.2 - - - -
240A LEU* 3.6 2.8 - - - +
241A ILE* 2.9 82.5 + - + +
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Residues in contact with ILE 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193A PHE* 1.3 74.6 - - - +
195A TYR* 1.3 62.2 + - - +
196A THR* 3.9 7.1 + - + +
203A ILE* 3.7 27.6 - - + -
216A HIS 3.5 1.9 - - - +
217A THR* 3.6 0.2 - - - -
218A ALA* 2.8 39.5 + - + +
220A LEU* 4.2 7.0 - - + -
226A VAL* 4.3 7.6 - - + -
228A VAL* 3.6 30.7 - - + -
238A PHE* 3.8 28.5 - - + -
239A VAL 3.2 11.9 - - - +
240A LEU* 3.4 31.2 - - + -
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Residues in contact with TYR 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A SER* 2.8 33.2 + - - -
25A ARG* 4.0 2.8 - - - +
27A SER* 4.0 9.6 - - - -
42A PHE* 3.7 22.0 - + + -
44A GLU* 2.5 49.7 + - + +
114A LEU* 4.3 5.4 - - + -
193A PHE* 4.2 7.4 - - + -
194A ILE* 1.3 74.2 - - - +
196A THR* 1.3 70.6 + - - +
197A ILE* 3.9 9.8 + - + +
215A HIS* 3.5 15.2 - - - +
216A HIS 3.2 20.6 - - - -
217A THR* 3.3 19.7 - - - -
238A PHE* 3.2 3.9 - - - +
239A VAL* 2.9 47.2 + - + +
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Residues in contact with THR 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A ILE* 4.3 6.7 - - + +
195A TYR* 1.3 83.3 - - - +
197A ILE* 1.3 59.4 + - - +
198A SER 5.1 1.3 - - - +
199A GLY 5.4 2.5 - - - +
200A ASP 6.1 0.2 - - - -
201A VAL* 4.0 18.8 - - + +
212A ILE* 3.5 31.4 - - + +
213A GLU 2.5 25.3 + - - +
214A PRO* 3.9 3.8 - - - -
215A HIS* 2.7 28.8 + - - -
216A HIS* 3.0 25.1 + - - +
237A HIS 4.7 0.9 - - - +
238A PHE* 3.9 10.5 - - + -
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Residues in contact with ILE 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A GLU* 4.1 17.5 - - - +
68A LEU* 4.4 17.3 - - + -
112A HIS* 4.3 13.9 - - + -
114A LEU* 4.7 3.6 - - + -
195A TYR* 4.3 16.2 - - + +
196A THR* 1.3 77.4 - - - +
198A SER* 1.3 66.7 + - - +
214A PRO* 3.9 11.9 - - - +
215A HIS* 4.0 10.8 + - - -
237A HIS* 2.8 55.7 + - + +
238A PHE* 4.0 11.4 - - - -
239A VAL* 4.1 19.1 - - + -
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Residues in contact with SER 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A THR* 3.9 1.4 - - - -
197A ILE* 1.3 81.8 + - - +
199A GLY* 1.3 71.2 + - - +
200A ASP 5.0 0.2 - - - -
214A PRO* 4.0 7.2 - - - +
234A LYS* 4.3 16.3 - - - +
235A ARG 4.2 2.2 + - - -
236A SER* 3.7 1.9 + - - -
237A HIS* 3.0 48.1 + - - +
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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
------------------------------------------------------------
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