Contacts of the strand formed by residues 364 - 370 (chain C) in PDB entry 1UHG
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 364 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198C PHE* 3.9 15.0 - + - -
241C MET* 6.1 0.2 - - - -
243C VAL* 3.6 18.6 - - + -
244C LEU 3.3 16.6 - - - +
245C LEU* 3.9 10.8 - - + -
252C LEU* 4.2 6.4 - - - +
282C LEU* 4.7 4.3 - - + -
283C PRO* 4.1 11.7 - - + -
285C MET* 3.7 24.7 - - + -
360C ALA* 4.1 16.2 - - + -
362C HIS 3.4 20.0 - - - +
363C PRO* 1.3 74.8 - - - +
365C LEU* 1.3 75.4 + - - +
366C PHE* 3.8 24.5 - + + -
381C ARG* 3.5 4.0 - - - +
382C CYS* 2.9 52.1 + - + -
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Residues in contact with LEU 365 (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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15C PHE* 3.9 11.0 - - + -
243C VAL* 3.7 0.2 - - - -
244C LEU* 2.8 40.8 + - + +
252C LEU* 3.8 13.0 - - + -
255C LEU* 4.3 16.2 - - + -
256C GLU* 3.6 31.4 - - + +
259C ILE* 4.0 37.0 - - + -
364C PHE* 1.3 79.1 - - - +
366C PHE* 1.3 64.1 + - - +
379C PHE* 4.4 14.1 - - + -
380C GLY 3.3 7.2 - - - +
381C ARG* 3.8 20.6 - - + -
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Residues in contact with PHE 366 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C PHE* 3.7 38.6 - + - -
241C MET* 4.2 24.9 - - + -
242C LEU 3.1 13.2 - - - +
243C VAL* 4.4 7.2 - - + -
244C LEU* 4.5 2.0 - - - -
285C MET* 4.9 5.4 - - + -
287C MET* 3.9 28.3 - - + -
334C ILE* 5.3 5.4 - - + -
364C PHE* 3.8 26.0 - + + -
365C LEU* 1.3 77.1 - - - +
367C CYS* 1.3 66.0 + - - +
368C ILE* 5.1 3.8 - - + -
378C PHE* 5.6 0.4 - - + -
379C PHE* 3.6 7.5 - - - -
380C GLY* 2.9 54.2 + - - +
381C ARG 3.7 3.4 - - - -
382C CYS* 4.0 10.3 - - + -
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Residues in contact with CYS 367 (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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8C MET* 5.1 2.9 - - - -
240C SER 3.8 0.7 - - - +
241C MET* 3.3 2.7 - - - -
242C LEU* 2.8 55.7 + - + +
244C LEU* 5.2 3.8 - - + -
264C LEU* 5.9 7.6 - - + -
366C PHE* 1.3 76.2 - - - +
368C ILE* 1.3 71.1 + - - +
369C LYS* 3.9 9.3 + - - -
376C VAL* 3.8 35.2 - - - -
378C PHE 3.3 6.1 - - - -
379C PHE* 3.9 16.6 - - + -
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Residues in contact with ILE 368 (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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28C PHE* 5.4 6.1 - - + -
180C PHE* 3.9 27.1 - - + -
234C PHE* 4.1 16.4 - - + -
239C MET* 4.3 18.8 - - + -
240C SER 3.4 8.5 - - - +
241C MET* 3.9 30.1 - - + -
332C ALA* 5.7 0.2 - - + -
334C ILE* 5.5 4.9 - - + -
366C PHE* 5.1 3.6 - - + -
367C CYS* 1.3 74.9 - - - +
369C LYS* 1.3 61.5 + - - +
376C VAL* 3.8 1.6 - - - -
377C LEU* 2.8 33.6 + - + +
378C PHE* 2.9 43.1 + - + +
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Residues in contact with LYS 369 (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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231C GLU* 3.6 22.7 + - - -
239C MET* 3.1 26.3 - - - +
240C SER* 2.9 25.6 + - - +
242C LEU* 4.1 25.0 - - + +
268C THR* 4.6 16.4 + - - -
367C CYS* 3.9 11.6 + - - -
368C ILE* 1.3 77.6 - - - +
370C HIS* 1.3 66.3 + - - +
371C ILE* 3.6 14.1 + - - +
374C ASN* 3.8 29.8 - - - +
375C ALA 3.3 12.8 - - - +
376C VAL* 4.8 0.9 - - + -
377C LEU* 4.0 3.4 - - - -
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Residues in contact with HIS 370 (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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86C ILE* 4.3 18.5 - - + +
89C GLN* 2.6 40.8 + - - -
90C ILE* 4.6 9.6 - - + -
238C THR* 3.5 15.5 + - - -
239C MET* 4.9 1.3 - - + -
369C LYS* 1.3 70.3 - - - +
371C ILE* 1.3 59.7 - - - +
372C ALA* 3.8 17.0 - - + +
373C THR* 2.8 47.3 + - + +
374C ASN* 2.8 31.5 + - - -
375C ALA* 2.8 17.1 + - + +
377C LEU* 3.8 18.2 - - + +
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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