Contacts of the strand formed by residues 191 - 200 (chain B) in PDB entry 3FN3
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 PHE 191 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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134B TYR* 3.5 12.0 - - - +
157B ALA 3.7 1.6 - - - +
158B GLU* 3.0 28.6 - - - +
159B GLY 3.0 12.0 + - - -
160B TYR* 3.7 27.6 - + - -
161B PRO* 3.5 11.9 - - + -
162B LYS* 3.4 58.6 - - + -
181B THR* 4.3 10.5 - - + -
182B THR 3.3 12.1 - - - +
183B ASN* 4.4 15.9 - - - -
184B SER 4.5 0.4 - - - -
189B LYS 4.7 3.4 - - - -
190B LEU* 1.3 76.8 - - - +
192B ASN* 1.3 59.8 + - - +
193B VAL* 3.8 2.2 - - + -
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Residues in contact with ASN 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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156B GLN* 3.0 33.8 + - - +
157B ALA 3.9 2.7 - - - -
158B GLU* 3.0 25.8 - - - +
180B THR 3.4 2.1 + - - +
181B THR* 3.4 1.6 - - - -
182B THR* 2.8 52.9 + - - +
183B ASN 4.5 0.2 - - - +
184B SER* 4.1 7.5 - - - +
185B LYS 5.6 0.2 - - - +
190B LEU 4.1 1.0 + - - -
191B PHE* 1.3 70.5 - - - +
193B VAL* 1.3 58.5 + - - +
194B THR* 3.5 15.0 + - - -
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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
----------------------------------------------------------
134B TYR* 3.7 26.0 - - + +
156B GLN* 3.3 3.8 - - - -
157B ALA 3.0 34.9 + - - +
163B ALA 4.1 17.5 - - - +
165B VAL* 3.9 17.9 - - + -
179B THR* 4.0 15.3 - - + -
180B THR 3.7 3.4 - - - -
181B THR* 3.5 24.5 - - + +
191B PHE* 4.3 1.8 - - + -
192B ASN* 1.3 75.8 - - - +
194B THR* 1.3 60.8 + - - +
211B PHE* 3.5 22.1 - - + -
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Residues in contact with THR 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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229A LEU* 4.4 1.6 - - + -
230A PRO* 3.9 26.8 - - + +
154B THR* 4.1 14.8 - - + -
155B CYS 3.3 9.0 - - - +
156B GLN* 2.7 34.7 + - + +
178B LYS 3.8 1.2 - - - +
179B THR* 3.5 1.7 - - - -
180B THR* 2.6 47.3 + - - +
192B ASN* 3.5 10.6 + - - -
193B VAL* 1.3 73.2 - - - +
195B SER* 1.3 62.0 + - - +
196B THR* 4.8 1.7 + - - +
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Residues in contact with SER 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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154B THR* 3.2 4.3 - - - +
155B CYS 2.8 32.6 + - - -
165B VAL* 3.6 33.8 - - - +
167B TRP* 2.9 26.2 + - - -
177B GLY 4.8 0.3 - - - -
178B LYS 3.3 6.5 + - - -
179B THR* 3.3 16.5 + - - -
193B VAL 4.3 0.4 - - - -
194B THR* 1.3 73.3 - - - +
196B THR* 1.3 67.4 + - - +
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Residues in contact with THR 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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230A PRO* 4.7 9.5 - - - +
152B GLU* 3.2 40.3 + - + +
153B LEU 3.3 3.4 - - - +
154B THR* 3.3 13.2 - - + +
167B TRP* 4.1 2.2 - - - -
177B GLY* 3.2 4.1 - - - -
178B LYS* 2.8 44.2 + - + +
194B THR* 4.8 1.7 + - - +
195B SER* 1.3 82.6 + - - +
197B LEU* 1.3 64.6 + - - +
198B ARG* 4.2 5.9 + - - -
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Residues in contact with LEU 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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151B HIS 3.6 0.7 - - - +
152B GLU* 3.4 4.9 - - - +
153B LEU* 2.5 58.0 + - + +
167B TRP* 3.7 41.9 - - + -
175B LEU* 4.2 23.6 - - + -
176B SER 3.2 30.7 - - - +
196B THR* 1.3 75.8 - - - +
198B ARG* 1.3 79.5 + - - +
199B ILE* 4.1 22.7 - - + -
207B PHE* 4.7 2.9 - - + -
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Residues in contact with ARG 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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144B VAL* 3.2 35.7 - - - +
150B GLU* 2.8 40.1 + - - +
151B HIS 3.4 11.7 - - - +
152B GLU* 4.4 20.0 + - - +
176B SER 5.0 1.5 + - - +
177B GLY* 5.5 0.4 - - - -
196B THR* 4.2 5.5 + - - -
197B LEU* 1.3 77.8 - - - +
199B ILE* 1.3 78.3 + - - +
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Residues in contact with ILE 199 (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 SER 3.8 0.2 - - - +
150B GLU* 4.1 4.6 - - - +
151B HIS* 2.6 43.2 + - + +
153B LEU* 4.9 8.7 - - + -
173B GLN* 5.1 5.4 - - - +
175B LEU* 3.2 35.4 - - + -
176B SER 5.8 0.2 - - - +
197B LEU* 4.1 17.9 - - + -
198B ARG* 1.3 85.3 - - - +
200B ASN* 1.3 72.2 + - - +
201B THR* 4.2 5.6 - - + -
207B PHE* 4.0 32.1 - - + -
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Residues in contact with ASN 200 (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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148B THR* 2.8 43.6 - - - +
149B SER* 3.2 8.3 - - - +
150B GLU* 3.5 9.1 - - - +
173B GLN* 5.8 0.2 - - - +
199B ILE* 1.3 86.8 - - - +
201B THR* 1.3 67.5 + - - +
207B PHE* 5.0 0.9 - - - -
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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