Contacts of the helix formed by residues 2056 - 2074 (chain B) in PDB entry 4ASI
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 PHE2056 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2007B THR* 3.9 11.9 - - - -
2049B GLN 5.1 2.9 - - - -
2050B GLN* 4.0 26.7 - - + +
2051B ALA* 3.5 43.7 - - + -
2054B VAL* 3.7 25.6 - - + -
2055B TRP* 1.3 77.2 - - - +
2057B PRO* 1.3 75.7 - - + +
2058B ASP* 3.2 16.6 - - - +
2059B SER* 3.6 6.6 - - - -
2060B ALA* 2.8 22.9 + - - +
2087B SER* 3.6 24.5 - - - -
2092B ASP* 3.7 17.3 - - - -
2097B VAL* 4.1 4.7 - - - -
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Residues in contact with PRO2057 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2056B PHE* 1.3 88.9 - - + +
2058B ASP* 1.3 63.6 + - - +
2060B ALA* 3.7 3.6 - - + +
2061B PHE* 2.9 24.5 + - - +
2092B ASP* 3.5 29.2 - - - +
2095B ASP* 3.7 31.4 - - + +
2097B VAL* 3.8 29.4 - - + -
2100B PHE* 4.2 13.4 - - + +
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Residues in contact with ASP2058 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2004B TRP* 3.8 20.0 - - + +
2005B ALA* 3.4 27.7 + - + +
2032B LEU* 4.4 8.7 - - - +
2050B GLN* 2.8 29.1 + - - +
2056B PHE* 3.4 10.2 - - - +
2057B PRO* 1.3 78.6 - - - +
2059B SER* 1.3 84.2 + - - +
2061B PHE* 3.1 7.5 + - - +
2062B LYS* 2.8 26.9 + - - +
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Residues in contact with SER2059 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2005B ALA* 3.7 9.5 - - - +
2007B THR* 2.8 44.9 + - - +
2008B VAL* 3.6 10.4 - - - +
2055B TRP* 3.7 9.9 - - - -
2056B PHE* 3.3 16.7 + - - +
2058B ASP* 1.3 89.9 + - - +
2060B ALA* 1.3 54.0 + - - +
2062B LYS 3.5 0.5 + - - -
2063B THR* 2.7 36.4 + - - -
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Residues in contact with ALA2060 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2055B TRP* 3.6 12.9 - - + +
2056B PHE 2.8 18.3 + - - +
2057B PRO* 3.7 3.4 - - + +
2059B SER* 1.3 76.5 - - - +
2061B PHE* 1.3 58.4 + - - +
2063B THR* 3.2 2.8 + - - -
2064B TYR* 2.9 28.6 + - - +
2086B PHE* 4.2 20.2 - - + -
2097B VAL* 5.3 0.7 - - + +
2100B PHE* 3.8 28.9 - - + +
2104B ILE* 4.1 8.1 - - + +
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Residues in contact with PHE2061 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1870B ARG* 5.0 7.4 - - - -
2004B TRP* 4.0 21.3 - + + -
2057B PRO 2.9 17.1 + - - +
2058B ASP* 3.5 4.5 - - - +
2060B ALA* 1.3 74.7 - - - +
2062B LYS* 1.3 67.4 + - - +
2064B TYR* 3.1 23.0 + + - +
2065B GLN* 2.8 43.3 + - - +
2100B PHE* 3.7 38.1 - + + +
2103B TYR* 5.3 2.7 - + - -
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Residues in contact with LYS2062 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1972B ARG* 5.8 0.2 - - - +
1999B GLU* 4.5 3.8 + - - -
2000B ILE 4.0 2.4 + - - -
2001B MET* 2.6 35.9 + - + +
2002B GLN* 3.9 8.9 + - - +
2004B TRP* 2.9 54.2 + - + +
2005B ALA* 3.5 7.6 + - + +
2008B VAL* 3.2 36.5 + - + -
2010B VAL* 3.7 28.7 - - + +
2058B ASP 2.8 14.9 + - - +
2059B SER 3.7 4.5 - - - +
2061B PHE* 1.3 77.4 - - - +
2063B THR* 1.3 57.0 + - - +
2065B GLN* 3.7 2.7 - - - +
2066B ALA* 2.9 28.4 + - - +
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Residues in contact with THR2063 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2008B VAL* 3.6 14.6 - - - +
2010B VAL* 5.0 3.6 - - - -
2023B VAL* 4.1 22.4 - - + -
2055B TRP* 3.1 32.3 + - + -
2059B SER 2.7 26.0 + - - -
2060B ALA 3.6 4.5 - - - -
2061B PHE 3.1 0.4 - - - -
2062B LYS* 1.3 76.0 - - - +
2064B TYR* 1.3 58.5 + - - +
2066B ALA* 3.5 5.4 + - - +
2067B ILE* 3.0 43.4 + - + +
2079B VAL* 6.3 1.1 - - + -
2083B TRP* 4.9 0.9 - - + -
2104B ILE* 4.3 6.5 - - + -
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Residues in contact with TYR2064 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2060B ALA 2.9 13.6 + - - +
2061B PHE* 3.4 30.3 - + - +
2063B THR* 1.3 77.6 - - - +
2065B GLN* 1.3 64.1 + - - +
2067B ILE* 3.2 9.5 + - - +
2068B LYS* 3.0 70.9 + - + +
2103B TYR* 3.4 58.7 - + + -
2104B ILE* 4.1 6.6 - - + +
2106B ASP* 4.9 4.9 - - + +
2107B GLY* 4.0 15.3 - - - -
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Residues in contact with GLN2065 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1848B TYR* 4.1 3.3 + - - -
1870B ARG* 3.3 28.2 - - - +
1873B GLN* 2.8 24.7 + - - +
1919B HIS* 5.3 1.1 - - - +
2001B MET* 4.5 14.6 - - + -
2004B TRP* 5.1 4.4 - - + -
2061B PHE* 2.8 36.1 + - + +
2062B LYS* 3.7 8.5 - - - +
2064B TYR* 1.3 80.2 - - - +
2066B ALA* 1.3 67.1 + - - +
2068B LYS* 3.2 9.2 + - - +
2069B ASP* 2.9 48.1 + - - +
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Residues in contact with ALA2066 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2001B MET* 4.4 7.5 - - - +
2010B VAL* 3.8 35.2 - - + -
2023B VAL* 4.5 4.7 - - + -
2062B LYS 2.9 17.0 + - - +
2063B THR* 3.6 5.4 - - - +
2065B GLN* 1.3 75.0 - - - +
2067B ILE* 1.3 64.0 + - - +
2069B ASP* 4.7 2.9 - - - -
2070B PHE* 3.0 46.4 + - + -
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Residues in contact with ILE2067 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2023B VAL* 5.1 5.2 - - + -
2063B THR* 3.0 42.2 + - + +
2064B TYR* 3.5 8.3 - - - +
2065B GLN 3.2 0.4 - - - -
2066B ALA* 1.3 78.0 - - - +
2068B LYS* 1.3 63.9 + - - +
2070B PHE* 4.1 5.0 - - - +
2071B ASN* 3.1 22.8 + - + +
2077B LEU* 4.6 17.1 - - + +
2104B ILE* 4.1 23.6 - - + +
2107B GLY* 3.7 29.4 - - - +
2108B LEU* 4.3 18.4 - - + +
2111B CYS* 3.9 16.4 - - - -
2133B ILE* 6.4 0.2 - - + -
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Residues in contact with LYS2068 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1848B TYR* 3.8 17.3 - - + +
1849B ASN* 5.1 0.8 + - - -
2064B TYR* 3.0 59.1 + - + +
2065B GLN* 3.7 10.1 - - - +
2067B ILE* 1.3 77.1 - - - +
2069B ASP* 1.3 66.0 + - - +
2071B ASN* 3.2 5.0 + - - +
2072B ARG* 3.0 63.4 + - - +
2107B GLY* 5.1 7.9 - - - +
2110B GLU* 6.1 4.0 - - - -
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Residues in contact with ASP2069 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1848B TYR* 2.4 36.0 + - - -
1873B GLN* 3.2 27.3 + - - -
1874B ARG* 3.1 18.8 + - + +
1919B HIS* 3.4 28.7 + - + -
2000B ILE* 6.0 1.1 - - + -
2001B MET* 4.8 2.1 - - + +
2012B ARG* 5.4 0.7 - - - +
2065B GLN* 2.9 27.7 + - - +
2066B ALA* 4.0 2.9 - - - +
2068B LYS* 1.3 75.0 - - - +
2070B PHE* 1.3 69.3 + - + +
2072B ARG 3.0 10.9 + - - -
2073B GLU* 3.1 21.7 + - - +
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Residues in contact with PHE2070 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2000B ILE* 4.0 14.6 - - + -
2010B VAL* 4.7 0.2 - - + -
2011B GLY* 3.1 37.0 - - - -
2012B ARG* 3.8 28.7 - - + -
2021B GLY* 3.7 14.4 - - - -
2022B VAL 3.7 15.3 - - - -
2023B VAL* 5.2 0.2 - - + -
2066B ALA* 3.0 39.0 + - + +
2069B ASP* 1.3 79.2 - - + +
2071B ASN* 1.3 64.8 + - - +
2073B GLU* 3.1 30.0 + - - +
2074B GLY 3.1 9.0 + - - -
2075B LEU* 3.2 21.9 + - + +
2077B LEU* 3.9 24.7 - - + -
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Residues in contact with ASN2071 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2067B ILE* 3.1 22.2 + - + +
2068B LYS* 3.6 4.3 - - - +
2069B ASP 3.2 0.2 - - - -
2070B PHE* 1.3 78.5 - - - +
2072B ARG* 1.3 78.6 - - - +
2074B GLY* 3.1 16.8 + - - -
2075B LEU 4.6 2.2 - - - -
2077B LEU* 5.0 2.5 - - + -
2110B GLU* 3.7 18.4 + - - +
2111B CYS* 3.5 20.1 - - - +
2112B CYS* 3.2 19.5 + - - +
2113B GLN* 3.1 26.1 + - - +
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Residues in contact with ARG2072 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1848B TYR* 3.4 47.5 - - - +
1849B ASN* 2.9 36.4 + - - +
1850B GLU 6.0 0.7 - - - -
1851B ILE* 4.7 7.0 - - - +
1852B ILE* 4.4 7.3 - - - +
1874B ARG* 3.6 17.4 + - - +
1943B VAL* 5.5 5.4 - - - +
2068B LYS* 3.0 51.8 + - - +
2069B ASP 3.0 2.9 + - - +
2071B ASN* 1.3 93.4 - - - +
2073B GLU* 1.3 63.4 + - - +
2074B GLY* 3.7 0.4 + - - -
2110B GLU* 5.4 7.3 - - - +
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Residues in contact with GLU2073 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1852B ILE* 4.2 17.4 - - + +
1874B ARG* 2.7 32.1 + - - +
1939B MET* 3.6 18.7 - - + +
1940B PRO* 3.2 27.4 - - - +
2012B ARG* 2.7 42.9 + - - -
2069B ASP* 3.1 16.6 + - - +
2070B PHE* 3.1 12.2 + - - +
2072B ARG* 1.3 78.6 - - - +
2074B GLY* 1.3 58.6 + - - +
2075B LEU* 3.1 22.4 - - + +
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Residues in contact with GLY2074 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1940B PRO* 4.8 4.9 - - - +
1947B VAL* 3.5 19.0 - - - +
2070B PHE 3.1 2.0 + - - -
2071B ASN 3.1 12.8 + - - -
2072B ARG 3.2 0.6 - - - -
2073B GLU* 1.3 80.0 - - - +
2075B LEU* 1.3 63.3 + - - +
2076B PRO* 4.0 0.7 - - - +
2113B GLN* 3.8 24.3 - - - +
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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
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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