Contacts of the helix formed by residues 2270 - 2281 (chain B) in PDB entry 2ASS
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 THR2270 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2268B ASP 4.0 7.6 - - - +
2269B PHE* 1.3 80.9 - - - +
2271B GLU* 1.3 71.4 + - - +
2272B LYS* 2.8 33.7 + - - +
2273B HIS* 3.1 24.8 + - + +
2274B VAL* 3.3 12.8 + - - +
2296B ASN* 4.1 13.5 - - - +
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Residues in contact with GLU2271 (chain B).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2270B THR* 1.3 83.4 + - - +
2272B LYS* 1.3 78.8 + - - +
2274B VAL* 3.9 2.0 - - - +
2275B GLN* 2.9 50.4 + - - +
2296B ASN* 3.6 40.0 + - - +
2298B GLN* 5.4 4.5 - - - +
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Residues in contact with LYS2272 (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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2245B GLU* 3.7 36.1 - - + +
2270B THR* 2.8 15.7 + - + +
2271B GLU* 1.3 96.2 - - - +
2273B HIS* 1.3 63.1 + - - +
2275B GLN* 3.7 7.5 - - - +
2276B VAL* 3.0 27.0 + - - +
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Residues in contact with HIS2273 (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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2243B PHE* 2.9 28.2 + + - -
2244B SER* 3.5 3.6 - - - -
2245B GLU* 3.5 38.1 + - + +
2248B LEU* 3.6 10.1 - - + +
2268B ASP* 4.4 7.1 + - - -
2269B PHE* 3.4 51.6 - + + -
2270B THR* 3.1 37.8 + - + +
2272B LYS* 1.3 79.2 - - - +
2274B VAL* 1.3 52.3 + - - +
2276B VAL* 3.1 3.3 + - - +
2277B ALA* 2.7 35.8 + - - +
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Residues in contact with VAL2274 (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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2269B PHE* 4.6 6.1 - - + -
2270B THR 3.3 12.2 + - - +
2271B GLU 4.0 3.4 - - - +
2272B LYS 3.4 0.2 - - - -
2273B HIS* 1.3 74.4 - - - +
2275B GLN* 1.3 63.0 + - - +
2277B ALA* 3.3 6.8 + - - +
2278B VAL* 3.1 23.8 + - + +
2290B LEU* 4.4 10.5 - - + -
2293B TYR* 3.9 37.5 - - + -
2296B ASN* 3.9 26.0 - - + +
2297B LEU* 4.1 26.9 - - + -
2301B ASP* 4.2 11.0 - - + +
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Residues in contact with GLN2275 (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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2271B GLU* 2.9 50.2 + - + +
2272B LYS* 3.7 8.1 - - - +
2274B VAL* 1.3 74.7 - - + +
2276B VAL* 1.3 64.1 + - + +
2278B VAL* 3.6 8.6 - - - +
2279B ALA* 3.0 28.4 + - - +
2296B ASN 5.0 0.2 + - - -
2298B GLN* 5.5 4.6 - - - +
2301B ASP* 3.3 26.8 + - - +
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Residues in contact with VAL2276 (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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2245B GLU* 3.7 26.7 - - + +
2248B LEU* 3.9 11.2 - - + -
2249B GLN* 3.6 43.7 - - + +
2252B LEU* 4.6 0.7 - - + -
2272B LYS 3.0 17.7 + - - +
2273B HIS* 3.4 8.1 - - - +
2275B GLN* 1.3 75.8 - - + +
2277B ALA* 1.3 68.6 + - - +
2279B ALA* 3.0 1.5 + - - -
2280B HIS* 2.8 39.6 + - + +
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Residues in contact with ALA2277 (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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2248B LEU* 4.5 0.7 - - - -
2252B LEU* 3.8 13.0 - - - +
2261B LEU* 6.3 0.7 - - + -
2263B LEU* 4.0 24.5 - - + -
2269B PHE* 5.6 0.7 - - + -
2273B HIS 2.7 17.8 + - - +
2274B VAL* 3.4 13.7 - - - +
2276B VAL* 1.3 76.5 - - - +
2278B VAL* 1.3 55.3 + - - +
2280B HIS 3.8 0.3 - - - -
2281B VAL* 2.7 37.3 + - + +
2290B LEU* 4.6 15.9 - - + -
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Residues in contact with VAL2278 (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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2274B VAL* 3.1 17.0 + - + +
2275B GLN* 3.6 9.4 - - - +
2277B ALA* 1.3 79.5 - - - +
2279B ALA* 1.3 60.2 + - + +
2281B VAL* 3.8 8.4 - - - +
2288B LEU* 5.6 0.4 - - + -
2290B LEU* 3.9 23.1 - - + -
2297B LEU* 5.9 0.7 - - + -
2301B ASP* 3.7 42.6 - - + +
2304B THR* 3.8 14.6 - - + +
2305B LEU* 3.8 27.3 - - + +
2308B ARG* 2.9 26.0 + - - -
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Residues in contact with ALA2279 (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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2275B GLN 3.0 20.7 + - - +
2276B VAL* 3.0 4.3 + - - +
2278B VAL* 1.3 77.5 - - - +
2280B HIS* 1.3 78.8 + - + +
2304B THR* 4.3 8.1 - - + -
2308B ARG* 3.0 28.8 + - - +
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Residues in contact with HIS2280 (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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2249B GLN* 3.2 50.9 + - + +
2252B LEU* 3.3 36.8 - - + +
2253B SER* 4.7 10.4 - - - +
2276B VAL* 2.8 34.0 + - + +
2277B ALA 3.8 0.7 - - - -
2279B ALA* 1.3 94.4 + - + +
2281B VAL* 1.3 66.8 + - - +
2282B SER* 4.4 0.3 - - - -
2308B ARG* 3.9 4.4 + - - +
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Residues in contact with VAL2281 (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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2252B LEU* 4.4 8.1 - - + -
2258B LEU* 4.8 2.7 - - + -
2261B LEU* 3.4 33.2 - - + -
2277B ALA* 2.7 32.8 + - + +
2278B VAL* 3.8 12.6 - - - +
2280B HIS* 1.3 78.0 - - - +
2282B SER* 1.3 69.8 + - - +
2285B ILE* 4.5 24.5 - - + -
2288B LEU* 4.7 10.3 - - + -
2305B LEU* 4.5 14.1 - - + -
2308B ARG* 3.1 23.9 + - - +
2309B CYS* 4.7 1.1 - - - -
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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