Contacts of the helix formed by residues 2058 - 2073 (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 HIS2058 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1858J HIS* 5.1 1.5 - - + -
2056K SER* 3.0 16.1 + - - +
2057K ASN* 1.3 87.6 - - + +
2059K GLU* 1.3 67.0 + - - +
2061K GLU* 3.0 27.2 + - + +
2062K LEU* 3.1 14.8 + - - +
2083K TYR* 4.0 2.7 - - - -
2260L GLY* 3.7 2.8 - - - -
2261L GLU* 3.4 27.1 - - + -
2264L ASP* 3.0 24.3 + - - -
2404L PO4 2.7 37.2 + - - +
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Residues in contact with GLU2059 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1859J GLU* 3.9 3.9 - - - +
1883J TYR* 3.4 33.1 + - - +
1886J THR* 5.2 0.2 + - - -
2058K HIS* 1.3 71.2 - - - +
2060K GLY* 1.3 63.8 + - - +
2061K GLU 3.2 0.2 + - - -
2062K LEU* 3.2 6.4 + - - +
2063K VAL* 3.0 24.4 + - - +
2083K TYR* 3.5 30.5 + - + +
2087K SER* 2.6 31.9 + - - +
2089K ALA* 3.8 5.4 + - + +
2090K ILE* 4.4 6.0 - - + +
2259L GLU* 4.0 2.8 - - + +
2404L PO4 4.0 6.4 + - - +
2408L TRS 2.7 47.9 + - - -
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Residues in contact with GLY2060 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1857J ASN* 3.4 25.9 + - - +
1858J HIS* 3.4 19.9 + - - +
1883J TYR* 4.3 0.8 + - - -
2058K HIS 3.3 0.8 - - - -
2059K GLU* 1.3 81.8 - - - +
2061K GLU* 1.3 56.0 + - - +
2063K VAL* 3.3 6.5 + - - +
2064K ASP* 3.0 31.4 + - - +
2404L PO4 3.4 7.2 + - - -
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Residues in contact with GLU2061 (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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1858J HIS* 3.4 12.5 - - + -
2055K GLN 5.1 0.2 - - - +
2056K SER* 2.7 30.9 + - - +
2058K HIS* 3.0 20.0 + - + +
2060K GLY* 1.3 73.1 - - - +
2062K LEU* 1.3 66.5 + - - +
2064K ASP* 3.1 9.5 + - + +
2065K TRP* 2.9 64.1 + - + +
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Residues in contact with LEU2062 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2012K LEU* 4.4 18.3 - - + +
2013K ASN 3.8 18.8 - - - +
2014K GLY* 3.9 17.7 - - - -
2056K SER* 4.0 11.9 - - - +
2058K HIS 3.1 13.1 + - - +
2059K GLU 3.2 5.6 + - - +
2061K GLU* 1.3 77.2 - - - +
2063K VAL* 1.3 61.7 + - - +
2065K TRP* 3.3 25.1 + - + +
2066K ILE* 3.0 32.6 + - + +
2078K ILE* 5.8 4.9 - - + -
2080K PRO* 5.1 3.4 - - + +
2083K TYR* 3.7 30.1 - - + -
2090K ILE* 3.9 16.8 - - + -
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Residues in contact with VAL2063 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1815J PRO* 4.8 1.3 - - + -
1816J ASN* 3.8 10.1 - - - +
1857J ASN* 3.5 37.5 - - + +
2059K GLU 3.0 20.4 + - - +
2060K GLY* 3.5 9.2 - - - +
2061K GLU 3.2 0.2 - - - -
2062K LEU* 1.3 75.7 - - - +
2064K ASP* 1.3 62.9 + - - +
2066K ILE* 3.0 13.7 + - - +
2067K HIS* 3.1 28.1 + - + +
2089K ALA* 3.8 32.8 - - + +
2090K ILE* 4.0 13.9 - - + -
2093K ALA* 4.3 7.9 - - + -
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Residues in contact with ASP2064 (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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1857J ASN* 2.7 34.9 + - - +
1858J HIS* 3.3 22.1 + - - -
2060K GLY 3.0 15.1 + - - +
2061K GLU* 3.3 12.7 - - + +
2063K VAL* 1.3 75.3 - - - +
2065K TRP* 1.3 68.9 + - + +
2067K HIS* 3.1 9.8 + - - +
2068K GLU* 3.0 21.4 + - - +
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Residues in contact with TRP2065 (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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2010K MET* 3.6 8.9 - - + +
2012K LEU* 4.0 21.8 - - + -
2054K ARG* 3.1 60.1 - - + +
2055K GLN 3.4 22.7 - - - -
2056K SER* 3.6 23.6 - - - -
2061K GLU* 2.9 44.7 + - + +
2062K LEU* 3.7 16.6 - - + +
2063K VAL 3.2 0.2 - - - -
2064K ASP* 1.3 83.9 - - + +
2066K ILE* 1.3 60.2 + - - +
2068K GLU* 3.3 13.0 + - - +
2069K ALA* 3.0 18.0 + - - +
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Residues in contact with ILE2066 (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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2012K LEU* 3.6 20.6 - - + -
2062K LEU* 3.0 22.6 + - + +
2063K VAL* 3.0 6.9 + - - +
2065K TRP* 1.3 72.6 - - - +
2067K HIS* 1.3 62.0 + - + +
2069K ALA* 3.3 7.1 + - - +
2070K ARG* 3.0 27.0 + - - +
2076K ILE* 4.2 2.9 - - + -
2078K ILE* 4.4 4.3 - - + -
2090K ILE* 4.0 18.6 - - + -
2093K ALA* 3.5 44.0 - - + +
2094K LEU* 3.8 28.5 - - + -
2097K CYS* 3.7 14.2 - - - -
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Residues in contact with HIS2067 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1816J ASN* 2.7 30.3 + - - -
1818J ASN* 3.3 41.1 + - - +
1819J LEU* 3.8 26.8 - - + +
1857J ASN* 3.7 19.5 + - - -
2063K VAL* 3.1 20.6 + - + +
2064K ASP* 3.1 7.9 + - - +
2066K ILE* 1.3 79.1 - - + +
2068K GLU* 1.3 60.0 + - - +
2070K ARG* 3.3 21.0 + - - +
2071K LEU* 3.7 14.2 + - - +
2093K ALA* 4.4 5.4 - - + -
2096K THR* 4.2 8.1 - - - -
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Residues in contact with GLU2068 (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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2010K MET* 4.3 4.0 - - + -
2054K ARG* 2.8 43.6 + - - -
2064K ASP 3.0 11.3 + - - +
2065K TRP* 3.4 15.5 + - - +
2067K HIS* 1.3 74.1 - - - +
2069K ALA* 1.4 64.2 + - - +
2071K LEU* 3.2 4.2 + - - -
2072K ASN* 3.0 43.5 + - - +
2073K HIS* 4.2 7.0 - - + -
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Residues in contact with ALA2069 (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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2010K MET* 3.8 20.8 - - + +
2065K TRP 3.0 15.4 + - - +
2066K ILE* 3.3 6.5 + - - +
2068K GLU* 1.4 73.6 - - - +
2070K ARG* 1.3 66.7 + - - +
2071K LEU 3.0 0.9 + - - -
2073K HIS* 3.0 41.3 + - + +
2076K ILE* 4.0 28.7 - - + -
2100K LEU* 4.4 4.9 - - + +
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Residues in contact with ARG2070 (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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1819J LEU* 3.9 22.7 - - - +
1822J GLN* 3.0 49.4 + - - +
1823J ARG* 5.2 5.9 - - - +
2002K ARG* 5.3 0.3 + - - -
2066K ILE 3.0 13.5 + - - +
2067K HIS* 3.3 14.3 + - - +
2069K ALA* 1.3 77.5 - - - +
2071K LEU* 1.3 82.9 + - + +
2073K HIS 5.3 1.2 - - - +
2096K THR* 2.9 47.1 + - - +
2097K CYS* 3.9 17.7 - - - -
2098K ASP* 5.5 0.6 + - - -
2100K LEU* 4.5 9.0 - - - +
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Residues in contact with LEU2071 (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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2002K ARG* 2.3 34.3 + - - -
2067K HIS 3.7 11.4 + - - +
2068K GLU* 3.2 9.0 + - - +
2069K ALA 3.0 0.4 - - - -
2070K ARG* 1.3 106.2 - - - +
2072K ASN* 1.3 66.2 + - - +
2073K HIS 3.9 0.7 - - - -
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Residues in contact with ASN2072 (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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2002K ARG* 3.8 15.7 + - - +
2007K ALA* 3.5 15.8 - - - +
2008K PRO* 3.9 6.1 - - - +
2068K GLU* 3.0 32.1 + - - +
2071K LEU* 1.3 92.9 - - - +
2073K HIS* 1.4 81.7 + - + +
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Residues in contact with HIS2073 (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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2002K ARG* 4.0 9.6 + - - +
2007K ALA* 4.2 4.9 - - - -
2008K PRO* 3.2 31.9 - - + +
2010K MET* 3.4 38.5 - - + +
2052K ASP* 2.7 28.4 + - + +
2068K GLU* 4.3 10.8 - - + -
2069K ALA* 3.0 26.8 + - + +
2070K ARG 5.3 0.9 - - - +
2071K LEU 3.9 0.4 - - - -
2072K ASN* 1.4 97.9 - - + +
2074K CYS* 1.3 62.5 + - - +
2075K GLY 3.3 12.6 - - - +
2100K LEU* 3.5 14.3 - - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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