Contacts of the helix formed by residues 2032 - 2047 (chain K) in PDB entry 2BT4
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 THR2032 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2020K LEU* 3.4 17.9 - - - +
2021K GLY* 4.9 3.1 - - - -
2022K GLN* 6.3 1.6 - - + -
2030K SER 4.4 6.5 - - - +
2031K ASP* 1.3 78.1 - - - +
2033K LEU* 1.3 65.0 + - - +
2034K ALA* 3.3 10.1 + - - +
2035K ASP* 2.9 32.8 + - - +
2036K VAL* 3.0 21.5 + - - +
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Residues in contact with LEU2033 (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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2013K ASN* 4.1 14.1 - - + +
2017K LEU* 3.4 34.8 - - + +
2018K ASN* 4.1 10.8 + - - +
2020K LEU* 3.9 23.3 + - + +
2032K THR* 1.3 75.6 - - - +
2034K ALA* 1.3 57.5 + - - +
2036K VAL* 3.2 8.4 + - + +
2037K GLU* 2.9 26.9 + - - +
2053K PHE* 3.9 25.6 - - + -
2055K GLN* 3.7 35.0 - - + -
2138K TYR* 4.6 3.6 - - - +
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Residues in contact with ALA2034 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2032K THR* 3.1 9.9 + - - +
2033K LEU* 1.3 76.3 - - - +
2035K ASP* 1.3 66.4 + - - +
2037K GLU* 3.2 13.2 + - - +
2038K ALA* 3.0 22.5 + - - +
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Residues in contact with ASP2035 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2030K SER 4.6 0.7 - - - +
2031K ASP* 3.6 22.2 - - + +
2032K THR* 2.9 39.9 + - - +
2034K ALA* 1.3 76.4 - - - +
2036K VAL* 1.3 64.2 + - - +
2038K ALA* 3.2 8.8 + - - +
2039K LEU* 3.0 26.7 + - + +
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Residues in contact with VAL2036 (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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2020K LEU* 3.6 24.5 - - + -
2031K ASP* 4.8 2.5 - - + -
2032K THR 3.0 15.0 + - - +
2033K LEU* 3.4 11.0 - - + +
2035K ASP* 1.3 73.2 - - - +
2037K GLU* 1.3 67.4 + - - +
2039K LEU* 3.1 10.9 + - + +
2040K CYS* 3.0 20.3 + - - -
2053K PHE* 4.1 9.9 - - + -
2135K VAL* 3.6 23.3 - - + +
2138K TYR* 3.6 45.1 - - + -
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Residues in contact with GLU2037 (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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2033K LEU 2.9 12.0 + - - +
2034K ALA* 3.4 14.5 - - - +
2036K VAL* 1.3 76.0 - - - +
2038K ALA* 1.3 57.6 + - - +
2040K CYS* 3.1 4.0 + - - +
2041K VAL* 2.9 39.4 + - + +
2051K VAL* 5.5 0.7 - - - +
2053K PHE* 3.7 55.7 + - + +
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Residues in contact with ALA2038 (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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2034K ALA 3.0 12.1 + - - +
2035K ASP* 3.4 11.9 - - - +
2037K GLU* 1.3 74.5 - - - +
2039K LEU* 1.3 66.1 + - - +
2041K VAL* 3.3 8.7 + - - +
2042K LYS* 3.1 23.4 + - - +
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Residues in contact with LEU2039 (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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2031K ASP* 5.0 4.0 - - - +
2035K ASP 3.0 18.0 + - - +
2036K VAL* 3.1 12.1 + - + +
2038K ALA* 1.3 76.5 - - - +
2040K CYS* 1.3 60.7 + - - +
2042K LYS* 3.4 15.3 + - + +
2043K ALA* 3.0 27.7 + - - +
2135K VAL* 3.6 43.7 - - + +
2136K GLN* 5.0 1.1 - - - +
2138K TYR* 6.0 0.2 - - + -
2139K VAL* 4.4 20.6 - - + +
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Residues in contact with CYS2040 (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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2011K ILE* 4.3 14.6 - - + -
2036K VAL 3.0 16.1 + - - -
2037K GLU* 3.1 9.6 + - - +
2039K LEU* 1.3 75.2 - - - +
2041K VAL* 1.3 65.0 + - - +
2043K ALA* 3.4 6.7 + - - +
2044K ALA* 2.9 27.0 + - - +
2051K VAL* 3.6 18.9 - - + +
2053K PHE* 4.2 17.9 - - + -
2138K TYR* 3.8 37.2 - - - -
2139K VAL* 5.6 1.1 - - - -
2142K VAL* 4.5 3.6 - - + +
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Residues in contact with VAL2041 (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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2037K GLU* 2.9 30.3 + - + +
2038K ALA* 3.3 10.1 + - - +
2040K CYS* 1.3 75.2 - - - +
2042K LYS* 1.3 59.2 + - - +
2044K ALA* 3.9 2.0 - - - +
2045K ALA* 3.0 30.8 + - + +
2049K GLY 5.0 0.5 - - - +
2050K THR* 5.8 1.8 - - - +
2051K VAL* 3.7 24.5 - - + +
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Residues in contact with LYS2042 (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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2038K ALA 3.1 16.8 + - - +
2039K LEU* 3.6 15.0 - - + +
2040K CYS 3.2 0.2 - - - -
2041K VAL* 1.3 76.1 - - - +
2043K ALA* 1.3 65.2 + - - +
2045K ALA* 3.2 6.9 + - - +
2046K ALA* 2.9 24.1 + - + +
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Residues in contact with ALA2043 (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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2039K LEU 3.0 17.7 + - - +
2040K CYS* 3.4 4.2 + - - +
2042K LYS* 1.3 76.8 - - - +
2044K ALA* 1.3 62.8 + - - +
2046K ALA* 3.3 8.9 - - - +
2047K HIS* 3.0 28.7 - - + -
2139K VAL* 4.0 29.4 - - + -
2142K VAL* 3.8 20.0 - - + -
2143K GLU* 5.6 1.1 - - + -
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Residues in contact with ALA2044 (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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2004K LEU* 5.6 0.7 - - - -
2009K ILE* 4.6 5.8 - - + -
2040K CYS 2.9 17.0 + - - +
2041K VAL 3.9 2.2 - - - +
2043K ALA* 1.3 79.0 - - - +
2045K ALA* 1.3 60.9 + - - +
2047K HIS* 2.9 12.9 + - - +
2048K GLY 3.1 0.2 + - - -
2049K GLY* 2.8 39.1 + - - +
2050K THR* 3.9 3.8 - - - +
2051K VAL* 3.5 22.7 - - + -
2142K VAL* 3.6 14.6 - - + +
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Residues in contact with ALA2045 (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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2041K VAL* 3.0 21.0 + - + +
2042K LYS* 3.6 7.4 - - - +
2044K ALA* 1.3 74.9 - - - +
2046K ALA* 1.3 55.5 + - - +
2047K HIS 2.9 0.2 - - - -
2048K GLY* 2.8 22.7 + - - +
2049K GLY 3.4 12.7 + - - +
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Residues in contact with ALA2046 (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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2042K LYS* 2.9 12.9 + - + +
2043K ALA* 3.3 15.3 - - - +
2044K ALA 3.2 0.2 - - - -
2045K ALA* 1.3 75.1 - - - +
2047K HIS* 1.3 68.9 + - + +
2048K GLY 3.4 0.2 - - - -
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Residues in contact with HIS2047 (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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2004K LEU* 4.1 13.9 - - + +
2043K ALA* 3.0 24.7 - - - +
2044K ALA* 2.9 8.4 + - - +
2046K ALA* 1.3 87.3 + - + +
2048K GLY* 1.3 60.2 + - - +
2049K GLY 3.4 0.8 + - - -
2142K VAL* 5.0 2.2 - - + -
2143K GLU* 3.7 34.6 + - + +
2146K ALA* 3.8 31.7 - - + +
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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