Contacts of the strand formed by residues 191 - 197 (chain C) in PDB entry 5FLX
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 VAL 191 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131 C 5.7 0.4 - - - +
141 C 4.7 1.1 - - - +
186C GLY 3.4 1.0 - - - +
187C ARG* 3.3 25.1 - - - -
188C CYS 3.3 17.2 + - - +
189C GLY 3.4 0.2 - - - -
190C SER* 1.3 82.8 - - - +
192C LEU* 1.3 61.9 + - - +
193C VAL* 3.7 12.3 - - + -
226C ALA* 5.6 2.2 - - + -
227C ARG 3.9 8.1 - - - +
229C CYS 3.9 11.9 - - - +
230C THR* 5.8 0.9 - - - +
232C THR* 3.7 30.1 - - + -
235C ASN* 4.1 9.9 - - + +
236C PHE* 3.5 38.4 - - + +
239C ALA* 3.8 1.9 - - + +
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Residues in contact with LEU 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11421 G 5.3 5.2 - - - +
11431 A 5.7 0.2 - - - +
11531 C 6.0 1.1 - - - +
11541 U 3.8 47.3 - - + +
185C THR* 4.6 10.1 - - - +
186C GLY 3.4 6.7 - - - +
187C ARG* 4.0 25.4 - - + +
190C SER* 3.2 26.3 + - - +
191C VAL* 1.3 76.8 - - - +
193C VAL* 1.3 61.7 + - - +
194C ARG* 3.9 1.1 - - + +
225C SER 3.2 14.9 - - - +
226C ALA* 3.3 14.7 - - - +
227C ARG* 3.5 22.1 + - + -
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Residues in contact with VAL 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C THR* 3.2 5.2 - - - -
186C GLY 3.0 27.7 + - - -
191C VAL* 3.7 11.4 - - + -
192C LEU* 1.3 69.7 - - - +
194C ARG* 1.3 62.4 + - - +
195C LEU* 4.6 13.5 - - + -
210C PRO* 6.1 0.9 - - + -
224C THR* 5.5 6.7 - - + -
225C SER 4.0 2.2 - - - -
226C ALA* 5.0 1.8 - - + +
236C PHE* 3.6 32.3 - - + -
239C ALA* 3.8 13.5 - - + +
240C THR* 3.3 46.0 - - + +
243C ALA* 3.8 8.5 - - + +
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Residues in contact with ARG 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21 A 6.3 0.7 - - - -
6561 G 4.8 0.2 + - - -
11541 U 2.5 53.4 + - + +
11551 U 3.9 11.2 + - - +
11561 U 2.3 37.6 + - - +
183C LYS* 3.0 37.7 - - - +
184C VAL 3.5 9.0 - - - +
185C THR* 4.3 2.0 - - - +
192C LEU* 5.1 1.3 - - + +
193C VAL* 1.3 72.9 - - - +
195C LEU* 1.3 71.0 + - - +
196C ILE* 4.1 19.8 - - + +
223C TYR 3.5 0.3 - - - +
224C THR* 3.2 9.4 - - - -
225C SER* 3.0 53.6 + - - +
92W ASN* 4.9 3.8 + - - -
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Residues in contact with LEU 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180C VAL* 4.4 16.6 - - + -
183C LYS* 3.2 25.1 - - - +
184C VAL* 2.8 37.3 + - + +
193C VAL* 4.6 9.6 - - + -
194C ARG* 1.3 81.2 - - - +
196C ILE* 1.3 64.3 - - - +
197C PRO* 4.7 0.2 - - - -
214C LEU* 3.8 23.6 - - + -
222C CYS* 3.7 22.2 - - - -
223C TYR 3.4 3.4 - - - +
224C THR* 4.0 5.8 - - + -
240C THR* 5.5 1.8 - - + -
243C ALA* 4.4 12.6 - - + -
244C ILE* 3.7 31.0 - - + -
247C THR* 5.6 0.2 - - + -
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Residues in contact with ILE 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21 A 3.7 51.1 - - + +
180C VAL* 4.1 3.6 - - - -
183C LYS* 3.8 21.1 - - + -
194C ARG* 4.1 21.8 - - + +
195C LEU* 1.3 79.5 - - - +
197C PRO* 1.3 85.3 - - + +
198C ALA 3.7 0.3 + - - -
222C CYS* 3.4 7.1 - - - -
223C TYR* 3.0 42.2 + - + +
225C SER* 4.1 17.7 - - - +
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Residues in contact with PRO 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21 A 5.2 0.9 + - - -
170C TRP* 3.8 25.5 + - + -
179C THR* 3.3 18.2 - - + +
180C VAL* 3.8 18.6 - - + +
181C PRO 4.5 2.9 - - - +
182C CYS* 4.1 12.1 - - - +
183C LYS* 3.6 25.1 - - + +
196C ILE* 1.3 98.3 - - + +
198C ALA* 1.3 59.3 - - - +
223C TYR* 3.3 12.3 - - - -
95W PRO 4.0 12.6 - - - +
96W SER* 4.5 7.2 - - - -
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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