Contacts of the strand formed by residues 191 - 198 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133B ALA* 3.9 15.9 - - + +
136B MET* 3.7 32.1 - - + -
137B GLY* 4.4 1.8 - - - +
147B ARG* 4.4 2.2 - - + -
148B GLY 3.4 19.7 - - - +
150B ILE* 3.8 24.9 - - + -
183B ALA* 4.7 3.3 - - - +
186B LEU* 3.4 35.8 + - + +
187B ALA* 5.0 0.9 - - - -
189B ILE* 3.7 32.5 - - + +
190B GLY* 1.3 80.8 - - - +
192B ARG* 1.3 70.9 + - - +
193B VAL* 4.0 3.1 + - - +
247B ASN* 4.8 2.4 + - - +
223D PHE* 4.7 2.1 - - - -
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Residues in contact with ARG 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B GLN* 2.9 24.3 + - - +
148B GLY 3.3 6.4 + - - +
149B VAL* 3.4 29.0 - - + +
150B ILE 2.9 26.0 + - - -
190B GLY 4.1 0.2 - - - -
191B ILE* 1.3 75.4 - - - +
193B VAL* 1.3 61.3 - - - +
194B VAL* 4.4 1.1 - - + +
240B VAL* 3.1 28.9 + - - +
241B ILE 3.2 17.6 + - - -
243B ASN 3.1 22.7 + - - -
244B PRO* 3.5 21.6 + - - +
246B LEU* 3.0 35.7 + - - +
247B ASN* 3.4 25.1 - - - +
223D PHE* 4.0 17.0 - - + -
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Residues in contact with VAL 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B ILE* 5.4 1.8 - - + -
150B ILE* 3.4 17.5 - - + +
152B ASN* 3.8 22.0 - - - +
179B THR* 4.0 21.1 - - + +
182B ILE* 3.9 29.2 - - + -
183B ALA* 4.0 18.8 - - + -
186B LEU* 4.2 15.5 - - + -
191B ILE 4.0 2.2 + - - +
192B ARG* 1.3 77.7 - - - +
194B VAL* 1.3 60.8 + - - +
247B ASN* 3.0 7.3 + - - -
248B GLY* 2.9 30.7 + - - -
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Residues in contact with VAL 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149B VAL* 5.5 1.1 - - + -
150B ILE 3.1 7.3 + - - +
151B ILE* 3.2 7.9 - - + +
152B ASN* 2.9 22.8 + - - -
179B THR* 4.6 0.9 - - - -
192B ARG* 4.6 3.6 - - + +
193B VAL* 1.3 79.8 - - - +
195B THR* 1.3 73.6 + - - +
196B ILE* 5.4 2.2 - - + -
240B VAL* 3.9 40.2 - - + -
246B LEU* 3.5 35.4 - - + +
247B ASN* 4.0 3.6 - - - +
248B GLY 4.5 0.2 - - - +
249B GLU* 3.6 15.9 - - + +
251B ILE* 4.4 13.2 - - + -
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Residues in contact with THR 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152B ASN* 3.2 27.6 + - - +
154B ALA* 3.7 30.1 - - + -
175B ILE* 4.1 10.3 - - + +
176B VAL* 4.9 1.8 - - + -
179B THR* 2.7 26.0 + - - +
194B VAL* 1.3 74.6 - - - +
196B ILE* 1.4 66.2 + - - +
249B GLU 3.1 8.6 + - - +
250B VAL* 3.2 23.9 - - + -
251B ILE* 3.0 23.6 + - - +
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Residues in contact with ILE 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B ILE* 4.0 16.4 - - + -
152B ASN 2.8 10.2 + - - +
153B THR* 3.5 2.3 - - - -
154B ALA 2.8 28.8 + - - -
194B VAL* 5.4 2.0 - - + -
195B THR* 1.4 77.1 - - - +
197B ALA* 1.3 61.3 + - - +
198B PRO* 3.3 9.3 - - + +
233B TYR* 3.8 29.8 - - + -
236B LEU* 3.7 40.8 - - + -
237B VAL* 3.8 32.1 - - + +
240B VAL* 4.9 8.5 - - + -
251B ILE* 3.6 8.7 - - + +
253B LEU* 4.5 5.2 - - + -
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Residues in contact with ALA 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154B ALA* 4.6 2.2 - - + -
155B SER* 3.8 26.0 - - - +
156B VAL* 3.9 6.0 - - - +
159B PHE* 4.6 9.6 - - + -
196B ILE* 1.3 72.1 - - - +
198B PRO* 1.3 67.2 - - - +
250B VAL* 4.2 17.9 - - + -
251B ILE 2.8 14.0 + - - +
252B ARG* 3.4 9.6 - - + -
253B LEU 3.1 21.2 + - - -
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Residues in contact with PRO 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22B LEU* 4.3 5.4 - - + -
153B THR* 3.8 18.4 - - + -
154B ALA 3.7 16.6 - - - +
155B SER* 4.0 0.4 + - - -
156B VAL* 3.1 22.2 + - - +
196B ILE* 3.3 12.1 - - + +
197B ALA* 1.3 86.8 - - - +
199B GLY* 1.3 61.6 - - - +
201B PHE* 4.0 21.5 - - + -
233B TYR* 4.3 18.2 - - + -
253B LEU* 3.5 9.2 - - + +
301B NAD 3.6 24.8 - - + -
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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