Contacts of the strand formed by residues 191 - 198 (chain A) in PDB entry 1E3S
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 ILE 191 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133A ALA* 3.7 16.6 - - + +
136A MET* 3.7 30.3 - - + -
137A GLY 4.5 2.2 - - - +
147A ARG* 4.5 2.5 - - + -
148A GLY 3.4 18.8 - - - +
150A ILE* 3.8 26.9 - - + -
183A ALA 4.7 4.2 - - - +
186A LEU* 3.5 35.8 + - + +
187A ALA* 5.0 1.2 - - - -
189A ILE* 3.7 31.2 - - + +
190A GLY* 1.3 81.0 - - - +
192A ARG* 1.3 71.8 + - - +
193A VAL* 4.0 2.9 + - - +
247A ASN* 4.7 3.5 + - - +
223C PHE* 4.7 2.1 - - - -
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Residues in contact with ARG 192 (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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146A GLN* 2.9 24.1 + - - +
148A GLY 3.2 6.6 + - - +
149A VAL* 3.4 28.2 - - + +
150A ILE 2.9 26.0 + - - -
190A GLY 4.1 0.4 + - - -
191A ILE* 1.3 75.0 - - - +
193A VAL* 1.3 62.9 + - - +
194A VAL* 4.5 1.2 - - + +
240A VAL* 3.1 29.1 + - - +
241A ILE 3.2 17.8 + - - -
243A ASN 3.0 23.2 + - - -
244A PRO* 3.4 21.8 + - - +
246A LEU* 2.9 34.2 + - - +
247A ASN* 3.5 24.7 - - - +
223C PHE* 4.1 16.6 - - + -
224C PRO* 5.0 0.7 - - - -
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Residues in contact with VAL 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A ILE* 5.4 1.8 - - + -
150A ILE* 3.4 16.8 - - + +
152A ASN* 3.8 22.4 - - - +
179A THR* 4.1 20.3 - - + +
182A ILE* 4.0 21.8 - - + -
183A ALA* 4.0 26.5 - - + +
186A LEU* 4.1 16.2 - - + -
191A ILE* 4.2 2.9 - - + +
192A ARG* 1.3 77.7 - - - +
194A VAL* 1.3 61.5 + - - +
247A ASN* 2.9 7.3 + - - -
248A GLY* 2.9 31.5 + - - -
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Residues in contact with VAL 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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149A VAL* 5.5 1.1 - - + -
150A ILE 3.0 8.5 + - - +
151A ILE* 3.2 9.4 - - + +
152A ASN* 2.9 23.3 + - - -
179A THR* 4.7 0.7 - - - -
192A ARG* 4.5 3.8 - - + +
193A VAL* 1.3 80.0 - - - +
195A THR* 1.3 72.6 + - - +
196A ILE* 5.4 2.2 - - + -
240A VAL* 3.8 40.2 - - + -
246A LEU* 3.6 34.3 - - + +
247A ASN* 4.0 3.1 - - - -
248A GLY 4.5 0.7 - - - +
249A GLU* 3.7 14.8 - - + +
251A ILE* 4.4 13.2 - - + -
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Residues in contact with THR 195 (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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152A ASN* 3.2 27.4 + - - +
154A ALA* 3.7 31.2 - - + +
175A ILE* 4.0 9.7 - - + +
176A VAL* 5.0 1.6 - - + -
179A THR* 2.7 26.0 + - - +
194A VAL* 1.3 75.2 - - - +
196A ILE* 1.3 66.2 + - - +
249A GLU 3.1 8.1 + - - +
250A VAL* 3.2 23.4 - - + -
251A ILE* 3.0 23.7 + - - +
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Residues in contact with ILE 196 (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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151A ILE* 4.1 15.7 - - + -
152A ASN 3.0 10.7 + - - +
153A THR* 3.6 1.9 - - - -
154A ALA 2.8 26.4 + - - -
194A VAL* 5.4 1.6 - - + -
195A THR* 1.3 77.6 - - - +
197A ALA* 1.3 65.2 + - - +
198A PRO* 3.3 11.8 - - + +
233A TYR* 3.8 31.2 - - + -
236A LEU* 3.8 41.1 - - + +
237A VAL* 3.8 31.9 - - + +
240A VAL* 4.9 7.9 - - + -
251A ILE* 3.7 8.5 - - + +
253A LEU* 4.5 5.6 - - + -
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Residues in contact with ALA 197 (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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154A ALA* 4.5 2.5 - - + -
155A SER 3.7 26.9 - - - +
156A VAL* 3.9 5.7 - - - +
159A PHE* 4.6 8.5 - - + -
196A ILE* 1.3 71.7 - - - +
198A PRO* 1.3 67.7 - - - +
199A GLY 3.8 0.3 + - - -
250A VAL* 4.2 17.7 - - + -
251A ILE 2.8 16.5 + - - +
252A ARG* 3.4 9.3 - - + -
253A LEU 3.1 21.5 + - - -
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Residues in contact with PRO 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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22A LEU* 4.3 4.5 - - + -
153A THR* 3.8 12.3 - - + -
154A ALA 3.7 17.0 - - - +
155A SER* 4.0 0.6 + - - -
156A VAL* 3.1 22.3 + - - +
196A ILE* 3.3 20.6 - - + +
197A ALA* 1.3 83.8 - - - +
199A GLY* 1.3 62.7 + - - +
201A PHE* 3.9 20.0 - - + -
233A TYR* 4.3 10.1 - - + -
253A LEU* 3.5 10.1 - - + +
301A NAD 3.5 31.5 - - + -
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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