Contacts of the helix formed by residues 2258 - 2273 (chain L) 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 HIS2258 (chain L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1858J HIS* 5.2 2.0 + + + +
1860J GLY* 3.4 21.7 + - - -
1861J GLU* 3.4 11.0 - - + -
1864J ASP* 3.2 24.1 + - - -
2058K HIS* 5.4 0.2 - - + -
2256L SER* 2.9 15.4 + - - +
2257L ASN* 1.3 84.8 - - + +
2259L GLU* 1.3 66.6 + - - +
2261L GLU* 3.2 19.4 + - + +
2262L LEU* 3.1 22.9 + - - +
2283L TYR* 4.1 2.2 - - - -
2404L PO4 3.1 37.9 + - - +
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Residues in contact with GLU2259 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1859J GLU* 3.9 2.8 - - + +
2059K GLU* 4.0 3.1 - - - +
2083K TYR* 3.6 30.1 + - - +
2086K THR* 5.2 0.2 + - - -
2258L HIS* 1.3 71.0 - - - +
2260L GLY* 1.3 63.6 + - - +
2262L LEU* 3.2 6.7 + - - +
2263L VAL* 3.0 24.6 + - - +
2283L TYR* 3.6 30.0 + - + +
2287L SER* 2.6 32.0 + - - +
2289L ALA* 4.0 5.5 + - + +
2290L ILE* 4.3 8.0 - - + +
2404L PO4 3.5 8.0 + - - +
2408L TRS 2.8 48.9 + - - -
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Residues in contact with GLY2260 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2057K ASN* 3.4 24.9 + - - +
2058K HIS* 3.4 19.2 + - - -
2083K TYR* 4.5 0.2 + - - -
2259L GLU* 1.3 80.6 - - - +
2261L GLU* 1.3 56.8 + - - +
2263L VAL* 3.3 5.5 + - - +
2264L ASP* 3.0 33.3 + - - +
2404L PO4 3.1 9.0 + - - -
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Residues in contact with GLU2261 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2058K HIS* 3.4 10.3 - - + -
2256L SER* 2.7 27.9 + - - +
2258L HIS* 3.2 25.5 + - + +
2260L GLY* 1.3 74.9 - - - +
2262L LEU* 1.3 60.3 + - - +
2264L ASP* 3.2 12.1 + - + +
2265L TRP* 2.9 71.0 + - + +
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Residues in contact with LEU2262 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2212L LEU* 4.6 15.6 - - + +
2213L ASN 3.8 23.1 - - - +
2214L GLY* 4.0 15.7 - - - -
2256L SER* 4.0 10.3 - - - +
2258L HIS 3.1 12.8 + - - +
2259L GLU 3.2 5.8 + - - +
2261L GLU* 1.3 78.1 - - - +
2263L VAL* 1.3 60.9 + - - +
2265L TRP* 3.2 24.4 + - + +
2266L ILE* 3.0 31.8 + - + +
2278L ILE* 5.8 4.7 - - + -
2280L PRO* 5.3 2.2 - - + +
2283L TYR* 3.7 31.4 - - + -
2290L ILE* 3.9 17.5 - - + -
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Residues in contact with VAL2263 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2015K PRO* 4.8 0.9 - - + -
2016K ASN* 3.7 24.7 - - - +
2057K ASN* 3.6 30.7 - - + +
2259L GLU* 3.0 20.2 + - + +
2260L GLY* 3.5 9.2 - - - +
2262L LEU* 1.3 74.2 - - - +
2264L ASP* 1.3 63.2 + - - +
2266L ILE* 3.1 5.6 + - - +
2267L HIS* 3.1 26.1 + - + +
2289L ALA* 4.0 30.3 - - + +
2290L ILE* 4.0 15.0 - - + -
2293L ALA* 4.0 7.9 - - + -
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Residues in contact with ASP2264 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2057K ASN* 2.6 37.0 + - - +
2058K HIS* 3.0 24.4 + - - -
2260L GLY 3.0 14.8 + - - +
2261L GLU* 3.4 10.5 - - + +
2263L VAL* 1.3 76.1 - - - +
2265L TRP* 1.3 68.9 + - + +
2267L HIS* 3.3 9.0 + - - +
2268L GLU* 3.1 20.6 + - - +
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Residues in contact with TRP2265 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2210L MET* 3.6 9.3 - - + +
2212L LEU* 4.1 17.7 - - + +
2254L ARG* 3.2 58.4 - - + +
2255L GLN 3.5 21.3 - - - -
2256L SER* 3.6 25.1 - - - -
2261L GLU* 2.9 46.3 + - + +
2262L LEU* 3.6 21.8 - - + +
2263L VAL 3.2 0.4 - - - -
2264L ASP* 1.3 83.7 - - + +
2266L ILE* 1.3 56.9 + - - +
2268L GLU* 3.3 11.6 + - - +
2269L ALA* 3.0 22.0 + - - +
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Residues in contact with ILE2266 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2212L LEU* 3.7 17.7 - - + -
2262L LEU* 3.0 22.6 + - + +
2263L VAL* 3.1 7.2 + - - +
2265L TRP* 1.3 73.2 - - - +
2267L HIS* 1.3 59.6 + - + +
2269L ALA* 3.2 8.0 + - - +
2270L ARG* 2.8 28.9 + - - +
2276L ILE* 4.2 2.5 - - + -
2278L ILE* 4.4 7.4 - - + -
2290L ILE* 3.9 28.3 - - + -
2293L ALA* 3.6 42.6 - - + +
2294L LEU* 3.9 19.7 - - + +
2297L CYS* 3.7 13.7 - - - -
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Residues in contact with HIS2267 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2016K ASN* 2.8 30.9 + - - -
2018K ASN* 3.2 40.9 + - - +
2019K LEU* 3.9 24.5 - - + +
2057K ASN* 3.7 11.8 + - - -
2263L VAL* 3.1 26.8 + - + +
2264L ASP* 3.3 9.0 + - - +
2266L ILE* 1.3 76.0 - - - +
2268L GLU* 1.3 60.6 + - - +
2270L ARG* 3.3 20.6 + - - +
2271L LEU* 3.5 16.2 + - - +
2293L ALA* 4.4 5.2 - - + -
2296L THR* 4.2 8.5 - - - -
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Residues in contact with GLU2268 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2210L MET* 4.4 0.9 - - - -
2254L ARG* 2.8 44.0 + - - -
2264L ASP 3.1 12.3 + - - +
2265L TRP* 3.4 15.1 - - - +
2267L HIS* 1.3 73.9 - - - +
2269L ALA* 1.3 65.4 + - - +
2271L LEU* 3.1 3.0 + - - -
2272L ASN* 2.9 43.8 + - - +
2273L HIS* 4.1 10.5 - - + -
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Residues in contact with ALA2269 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2210L MET* 3.9 17.9 - - + +
2265L TRP 3.0 13.8 + - - +
2266L ILE* 3.2 8.7 + - - +
2268L GLU* 1.3 74.8 - - - +
2270L ARG* 1.3 64.3 + - - +
2273L HIS* 3.0 41.9 + - + +
2276L ILE* 3.8 31.6 - - + -
2300L LEU* 4.2 4.9 - - - +
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Residues in contact with ARG2270 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2019K LEU* 4.0 22.7 - - - +
2022K GLN* 3.1 49.8 + - - +
2023K ARG* 5.4 2.4 - - - +
2266L ILE 2.8 13.5 + - - +
2267L HIS* 3.3 14.8 + - - +
2269L ALA* 1.3 77.5 - - - +
2271L LEU* 1.3 79.4 + - + +
2273L HIS 5.2 1.6 - - - +
2296L THR* 2.8 46.7 + - - +
2297L CYS* 3.8 18.1 - - - -
2298L ASP* 5.2 3.4 + - - -
2300L LEU* 4.4 8.3 - - - +
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Residues in contact with LEU2271 (chain L).
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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2022K GLN* 5.5 1.8 - - - +
2202L ARG* 2.8 25.3 + - - -
2267L HIS 3.5 14.6 + - - +
2268L GLU* 3.1 3.3 + - - +
2269L ALA 3.1 0.4 - - - -
2270L ARG* 1.3 107.5 - - + +
2272L ASN* 1.3 74.0 + - - +
2273L HIS 3.9 0.7 - - - -
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Residues in contact with ASN2272 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2202L ARG* 3.7 22.1 + - - +
2207L ALA* 3.4 16.1 - - - +
2208L PRO* 4.2 5.0 - - - +
2268L GLU* 2.9 37.9 + - + +
2271L LEU* 1.3 97.7 - - - +
2273L HIS* 1.3 75.7 + - + +
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Residues in contact with HIS2273 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2202L ARG* 4.3 9.0 + - - +
2207L ALA* 4.1 4.3 - - - -
2208L PRO* 3.1 36.1 - - + +
2210L MET* 3.3 38.6 - - + +
2252L ASP* 2.9 29.2 + - + +
2268L GLU* 4.1 11.9 - - + -
2269L ALA* 3.0 28.5 + - + +
2270L ARG 5.2 1.2 - - - +
2271L LEU 5.3 0.2 - - - -
2272L ASN* 1.3 97.4 + - + +
2274L CYS* 1.3 61.2 + - - +
2275L GLY 3.4 12.8 - - - +
2300L LEU* 3.5 13.9 - - - +
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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