Contacts of the strand formed by residues 2102 - 2106 (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 VAL2102 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2076K ILE* 3.2 18.8 - - + +
2078K ILE* 4.3 14.1 - - + -
2094K LEU* 4.3 33.9 - - + -
2097K CYS* 5.2 1.3 - - + -
2100K LEU* 3.6 13.9 - - + +
2101K PRO* 1.3 81.1 - - - +
2103K VAL* 1.3 66.2 + - - +
2125K ARG* 3.7 26.0 - - + +
2126K ALA* 3.9 19.3 - - + +
2127K ASP* 2.9 32.8 + - - +
2128K GLY 3.5 4.2 + - - -
2148K LEU* 5.6 0.2 - - - +
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Residues in contact with VAL2103 (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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1733I CYS* 5.0 2.5 - - - -
2076K ILE 2.9 8.9 + - - +
2077K VAL* 3.3 6.0 - - + +
2078K ILE* 3.0 24.8 + - - +
2102K VAL* 1.3 83.7 - - - +
2104K GLU* 1.3 72.8 + - - +
2105K VAL* 4.2 2.5 - - + -
2127K ASP* 5.7 0.2 - - + -
2128K GLY* 3.3 20.0 - - - +
2130K VAL* 4.2 14.1 - - + -
2141K GLY* 4.1 27.6 - - - +
2144K ARG* 3.8 34.1 - - + -
2145K ILE* 4.2 10.1 - - + -
2148K LEU* 5.5 2.9 - - + -
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Residues in contact with GLU2104 (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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2078K ILE* 3.3 12.6 - - - +
2080K PRO* 4.1 5.3 - - + +
2103K VAL* 1.3 73.9 - - - +
2105K VAL* 1.3 60.1 + - - +
2106K HIS* 2.8 29.3 + - + +
2120K SER* 2.7 22.6 + - - -
2122K VAL* 3.7 19.0 - - + +
2123K SER* 2.5 40.2 + - - -
2126K ALA* 3.8 14.3 - - + +
2128K GLY 2.9 8.0 + - - +
2129K VAL* 3.3 9.7 - - + +
2130K VAL 2.8 30.3 + - - -
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Residues in contact with VAL2105 (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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2077K VAL* 3.9 24.7 - - + -
2078K ILE 3.0 10.8 + - - +
2079K ASN* 3.1 29.2 - - + +
2080K PRO* 4.2 0.2 - - - +
2103K VAL* 4.2 11.2 - - + -
2104K GLU* 1.3 80.8 - - - +
2106K HIS* 1.3 77.2 + - - +
2107K ILE 4.6 0.4 - - - +
2130K VAL* 3.3 10.1 - - + +
2134K GLY 5.0 1.3 - - - +
2137K GLY* 3.6 39.9 - - - +
2138K TYR* 3.9 23.1 - - + +
2141K GLY* 4.6 0.4 - - - -
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Residues in contact with HIS2106 (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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2080K PRO* 4.0 7.6 - - + -
2081K ALA 4.6 0.4 - - - -
2084K SER* 3.0 33.8 - - - -
2085K HIS* 5.0 0.7 - + - -
2104K GLU* 2.8 30.1 + - + -
2105K VAL* 1.3 82.0 + - - +
2107K ILE* 1.3 65.1 + - - +
2108K SER 3.6 13.9 - - - +
2110K ILE* 4.0 30.4 - - + +
2120K SER* 4.5 1.2 + - - -
2129K VAL* 4.8 5.4 - - + -
2130K VAL* 2.9 9.6 + - - +
2131K ALA* 3.3 16.0 - - + -
2132K GLY 3.1 14.7 + - - -
2133K CYS 4.3 2.1 + - - -
2134K GLY 4.6 0.7 - - - +
2137K GLY* 5.8 0.5 - - - -
2160K CA2 3.0 34.8 + - + +
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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