Contacts of the strand formed by residues 2237 - 2246 (chain C) in PDB entry 1G24
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 ILE2237 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2135C LEU* 4.2 14.6 - - + -
2143C LEU* 3.9 32.3 - - + -
2150C ILE* 3.9 21.1 - - + -
2155C PHE* 3.8 38.8 - - + -
2158C ALA* 5.0 2.0 - - + -
2187C PRO 2.7 13.0 + - - +
2188C ILE* 3.5 8.8 - - + +
2189C ILE 2.9 27.0 + - - +
2228C MET* 4.3 7.4 - - + -
2229C ARG 3.4 3.6 - - - +
2230C LEU* 4.0 2.7 - - + -
2236C GLN* 1.3 72.1 - - - +
2238C ILE* 1.3 63.4 + - - +
2239C ILE* 3.8 22.6 + - + -
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Residues in contact with ILE2238 (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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2189C ILE* 3.4 31.6 - - + +
2191C LYS* 4.1 26.5 - - + +
2227C ASP* 3.8 2.1 - - - +
2228C MET* 3.4 4.2 - - - -
2229C ARG* 2.6 52.0 + - + +
2230C LEU 4.6 1.1 - - - -
2231C SER* 4.2 16.8 - - - +
2236C GLN* 4.1 16.6 - - + +
2237C ILE* 1.3 79.2 - - - +
2239C ILE* 1.3 63.2 + - - +
2240C THR* 4.1 6.6 + - - +
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Residues in contact with ILE2239 (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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2134C TYR* 3.9 22.2 - - + +
2135C LEU* 4.6 5.4 - - + -
2188C ILE* 3.7 26.0 - - + -
2189C ILE 2.8 13.6 + - - +
2190C THR* 3.3 16.2 - - + +
2191C LYS* 2.7 34.5 + - - +
2225C ILE* 3.7 37.7 - - + -
2227C ASP 3.5 2.9 - - - +
2228C MET* 4.1 21.8 - - + -
2237C ILE* 3.9 14.8 - - + -
2238C ILE* 1.3 75.5 - - - +
2240C THR* 1.3 63.9 + - - +
2241C ALA* 4.1 1.3 - - + +
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Residues in contact with THR2240 (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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2125C MET* 5.1 2.2 - - + -
2191C LYS* 3.4 23.3 + - + +
2193C LYS* 4.2 29.4 - - + +
2225C ILE* 3.7 1.9 - - - -
2226C ASP* 2.9 29.0 + - + +
2227C ASP* 2.9 31.9 + - + +
2238C ILE* 4.7 6.1 - - - +
2239C ILE* 1.3 74.8 + - - +
2241C ALA* 1.3 65.7 + - - +
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Residues in contact with ALA2241 (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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2190C THR* 4.9 1.6 - - + -
2191C LYS 3.0 7.1 + - - +
2192C PHE* 3.4 16.4 - - + -
2193C LYS* 2.8 35.9 + - - +
2223C TYR* 3.9 22.7 - - + -
2224C HIS 3.1 19.7 - - - +
2225C ILE* 3.9 7.6 - - + -
2226C ASP* 3.8 4.3 - - - -
2239C ILE* 4.1 4.7 - - + -
2240C THR* 1.3 75.6 - - - +
2242C THR* 1.3 55.6 + - - +
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Residues in contact with THR2242 (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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2046C TYR* 4.9 10.3 - - - +
2193C LYS* 3.9 18.5 - - + +
2223C TYR* 3.2 3.3 - - - -
2224C HIS* 2.8 43.2 + - + -
2226C ASP* 2.6 24.8 + - - -
2241C ALA* 1.3 72.3 - - - +
2243C MET* 1.3 72.7 + - - +
2244C MET* 3.5 7.6 + - + +
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Residues in contact with MET2243 (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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2173C ILE* 4.3 4.5 - - + -
2192C PHE* 3.5 36.3 - - + -
2193C LYS 3.0 20.6 + - - +
2194C VAL* 4.1 23.1 - - + -
2195C ALA* 5.3 5.5 + - - +
2198C SER* 5.9 3.4 - - - +
2217C LEU* 3.7 28.0 - - + -
2221C SER* 4.2 20.4 - - - -
2222C THR 3.7 16.2 - - - +
2223C TYR* 3.9 11.6 - - + +
2241C ALA 3.8 2.2 + - - -
2242C THR* 1.3 78.4 - - - +
2244C MET* 1.3 61.4 + - - +
2245C GLY* 4.2 8.5 - - - +
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Residues in contact with MET2244 (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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2166C ASP* 3.6 34.8 - - - +
2222C THR* 2.9 34.4 + - + +
2224C HIS* 3.9 18.2 - - + -
2242C THR* 3.9 12.1 - - + +
2243C MET* 1.3 76.5 - - - +
2245C GLY* 1.3 57.6 + - - +
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Residues in contact with GLY2245 (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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2198C SER* 6.5 0.4 - - - -
2218C PRO* 5.8 0.4 - - - -
2220C HIS 4.2 0.3 - - - +
2221C SER* 3.2 6.0 - - - -
2222C THR* 2.9 28.8 + - - -
2243C MET* 3.7 10.1 - - - +
2244C MET* 1.3 80.9 - - - +
2246C THR* 1.3 62.1 + - - -
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Residues in contact with THR2246 (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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2199C LYS* 4.0 9.0 - - + -
2218C PRO* 3.7 24.2 - - + +
2219C ARG 2.6 22.5 + - - -
2220C HIS 3.7 4.7 - - - -
2221C SER* 3.5 14.1 - - - -
2245C GLY* 1.3 73.4 - - - -
2247C ALA* 1.3 64.9 + - - +
2248C ILE* 2.9 28.9 + - - +
2249C ASN* 3.0 26.3 + - - +
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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