Contacts of the strand formed by residues 367 - 372 (chain K) in PDB entry 4ZZ7
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 THR 367 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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273K PHE* 3.8 5.7 - - - -
305K MET* 4.2 3.1 - - - -
336K ILE* 3.8 28.2 - - + +
346K ILE* 5.7 0.9 - - - -
348K VAL 3.3 12.6 - - - -
349K ASP* 4.7 0.4 - - - -
350K GLY* 3.4 20.0 - - - +
364K VAL* 4.6 0.7 - - + -
365K GLY 3.0 19.3 - - - +
366K GLY* 1.3 74.4 - - - -
368K LEU* 1.3 60.5 + - - +
369K ILE* 4.2 7.4 - - - +
386K PRO 3.0 10.3 + - - +
387K VAL* 3.5 22.3 - - - +
388K LEU* 3.0 22.9 + - - +
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Residues in contact with LEU 368 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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298K VAL* 4.2 10.8 - - + +
301K MET* 3.8 19.5 - - + -
302K THR* 3.8 20.2 - - - +
305K MET* 3.6 29.2 - - + -
346K ILE* 3.7 1.6 - - - +
347K VAL* 2.9 37.2 + - + -
348K VAL* 3.0 23.3 + - + +
367K THR* 1.3 73.2 - - - +
369K ILE* 1.3 89.7 + - - +
370K ASP 4.5 0.7 - - - +
388K LEU* 3.5 14.8 - - + +
390K VAL* 3.6 20.4 - - + -
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Residues in contact with ILE 369 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336K ILE* 4.4 15.7 - - + -
339K ALA* 3.7 23.3 - - + -
344K ALA* 3.4 33.0 - - + -
345K THR 3.4 5.2 - - - +
346K ILE* 3.9 17.5 - - + -
367K THR* 4.2 5.2 - - - +
368K LEU* 1.3 85.5 - - - +
370K ASP* 1.3 53.7 + - - +
372K VAL* 3.5 13.9 - - + -
383K ILE* 5.5 2.2 - - + -
387K VAL* 3.8 26.7 - - + -
388K LEU 2.9 9.4 + - - +
389K GLN* 3.4 9.9 - - + +
390K VAL 2.8 30.8 + - - -
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Residues in contact with ASP 370 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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298K VAL* 3.3 23.6 - - + +
344K ALA* 3.6 4.7 - - - +
345K THR* 2.8 31.5 + - - +
347K VAL* 3.6 21.4 - - + +
368K LEU 4.3 0.2 - - - -
369K ILE* 1.3 73.1 - - - +
371K HIS* 1.3 105.4 + - + +
372K VAL 3.3 4.0 + - - -
390K VAL* 3.6 12.6 - - + +
392K ARG* 2.9 37.4 + - - -
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Residues in contact with HIS 371 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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343K GLY 5.1 3.7 - - - +
344K ALA* 4.5 2.6 - - - -
345K THR* 3.2 27.6 + - + +
370K ASP* 1.3 100.9 + - + +
372K VAL* 1.3 64.0 + - - +
373K THR* 3.9 6.6 - - - +
376K MET* 3.7 12.5 - - - +
390K VAL 3.4 4.5 + - - -
392K ARG* 3.3 42.6 + - - +
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Residues in contact with VAL 372 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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344K ALA* 4.2 3.8 - - + -
369K ILE* 3.5 37.9 - - + +
370K ASP 3.9 3.4 - - - +
371K HIS* 1.3 80.9 - - - +
373K THR* 1.3 63.6 + - - +
376K MET* 3.8 14.6 - - - -
378K SER* 5.8 0.4 - - - +
379K TYR* 4.3 11.9 - - + -
389K GLN* 4.0 29.2 - - + +
390K VAL 3.1 12.9 + - - +
391K VAL* 3.2 44.7 - - + +
392K ARG 4.6 1.4 + - - -
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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