Contacts of the strand formed by residues 210 - 216 (chain E) in PDB entry 2EST
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 210 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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124E PRO* 3.6 30.0 - - + +
128E THR* 3.8 27.5 + - + +
130E LEU* 3.5 29.7 - - + +
181E VAL* 3.6 18.9 - - + +
199E LEU* 3.0 8.1 + - + -
201E CYS* 3.6 29.4 - - + -
203E VAL* 3.9 15.3 - - + +
208E ALA* 3.2 37.8 + - + +
209E VAL* 1.3 77.0 - - - +
211E GLY* 1.4 54.1 + - - +
230E ARG* 3.6 3.3 - - - +
231E VAL* 3.4 20.1 + - - -
232E SER* 4.9 1.3 + - - -
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Residues in contact with GLY 211 (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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197E GLY 3.5 2.6 - - - +
198E PRO* 3.6 0.2 - - - +
199E LEU* 3.3 32.4 + - - +
209E VAL* 3.4 14.7 - - - +
210E HIS* 1.4 75.9 - - - +
212E VAL* 1.3 62.3 + - - +
213E THR 4.0 1.3 - - - -
228E PHE* 3.5 18.6 - - - -
229E THR 3.2 9.9 - - - -
231E VAL* 4.0 1.6 - - - -
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Residues in contact with VAL 212 (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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53E MET* 3.8 41.7 - - + -
54E THR 3.4 31.0 - - - +
55E ALA* 3.5 12.1 - - + +
102E ASP 4.3 3.6 - - - +
103E ILE* 4.4 10.5 - - + -
196E GLY* 3.5 16.2 - - - +
197E GLY 3.4 4.5 - - - -
211E GLY* 1.3 72.1 - - - +
213E THR* 1.3 65.0 + - - +
214E SER* 3.1 0.9 + - - -
228E PHE* 3.2 1.4 - - - -
229E THR* 3.1 39.0 + - - +
231E VAL* 4.0 6.3 - - + -
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Residues in contact with THR 213 (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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1E 2Z5 3.4 23.6 - - + -
55E ALA* 3.8 8.5 - - - +
57E HIS* 3.8 0.3 - - - -
138E ILE* 3.8 16.3 - - + +
139E THR 5.6 0.2 + - - -
190E GLY* 5.0 0.9 - - - -
194E ASP* 3.7 22.2 + - + +
195E SER* 3.4 3.9 - - - +
196E GLY* 2.8 24.5 + - - +
197E GLY 3.1 17.1 + - - -
212E VAL* 1.3 69.6 - - - +
214E SER* 1.4 63.1 - - - +
226E THR* 3.5 29.2 - - + -
228E PHE* 3.2 23.6 - - + -
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Residues in contact with SER 214 (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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1E 2Z5 2.9 25.6 + - - +
57E HIS* 3.2 11.0 + - - -
99E VAL* 4.5 6.2 + - - +
102E ASP* 2.8 28.8 + - - +
180E MET* 5.8 2.2 - - - +
212E VAL 3.1 5.8 + - - -
213E THR* 1.4 75.9 - - - +
215E PHE* 1.3 84.1 + - - +
227E VAL* 2.6 22.2 + - - -
228E PHE* 4.4 1.1 - - - -
229E THR* 4.2 11.2 + - - -
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Residues in contact with PHE 215 (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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1E 2Z5 3.1 54.1 - + + +
99E VAL* 3.5 34.5 - - + -
172E TRP* 3.9 19.1 - + - -
175E THR* 4.3 23.3 - - + -
180E MET* 4.3 9.0 - - + -
214E SER* 1.3 102.6 - - - +
216E VAL* 1.3 65.7 - - - +
226E THR* 3.9 0.9 - - - +
227E VAL* 2.9 63.2 + - + +
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Residues in contact with VAL 216 (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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1E 2Z5 2.9 62.3 + - - +
172E TRP* 3.4 10.8 - - - -
190E GLY 3.3 25.6 - - - +
191E CYS* 4.9 0.4 - - - -
192E GLN* 3.4 28.9 - - - +
215E PHE* 1.3 76.7 - - - +
217E SER* 1.3 67.1 + - - +
220E CYS* 3.9 25.1 - - - +
224E LYS 6.0 0.2 - - - -
225E PRO 5.3 0.7 - - - -
226E THR* 4.0 17.5 - - + +
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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