Contacts of the strand formed by residues 51 - 60 (chain B) in PDB entry 1BTE
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 SER 51 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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46B LYS 3.7 1.4 - - - +
47B ASN* 3.5 3.0 + - - -
48B ILE* 3.1 40.8 + - - +
49B SER 4.4 3.1 + - - -
50B GLY* 1.3 75.0 - - - +
52B ILE* 1.3 62.4 + - - +
53B GLU* 3.8 2.3 + - - +
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Residues in contact with ILE 52 (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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45B TRP* 3.9 17.3 - - + -
46B LYS 3.4 10.8 - - - +
47B ASN* 4.5 4.0 - - - +
50B GLY 3.5 6.9 + - - +
51B SER* 1.3 71.6 - - - +
53B GLU* 1.3 62.1 + - - +
54B ILE* 3.5 21.9 + - + -
95B PHE* 3.4 32.5 - - + -
147B NAG 5.0 7.9 - - + +
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Residues in contact with GLU 53 (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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16B ALA* 6.2 0.7 - - + -
45B TRP* 3.3 3.2 - - - -
46B LYS* 2.8 65.7 + - + +
51B SER 3.8 2.8 + - - +
52B ILE* 1.3 72.9 - - - +
54B ILE* 1.3 70.9 + - - +
55B VAL* 3.5 4.9 + - + +
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Residues in contact with ILE 54 (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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14B PHE* 3.5 49.1 - - + -
16B ALA* 3.6 16.5 - - - +
44B THR 4.0 5.2 - - - +
45B TRP* 4.1 1.6 - - - -
52B ILE* 3.5 21.2 - - + +
53B GLU* 1.3 80.6 - - - +
55B VAL* 1.3 60.4 + - - +
56B LYS 3.8 20.0 - - - +
57B GLN* 3.6 22.0 - - + +
95B PHE* 3.8 20.9 - - + -
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Residues in contact with VAL 55 (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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15B ASN* 4.2 0.5 - - - +
16B ALA* 3.0 33.9 + - + +
17B ASN 4.8 0.2 + - - -
44B THR* 2.9 31.3 + - + +
45B TRP* 4.1 12.6 - - - -
46B LYS* 4.2 26.7 - - + -
53B GLU* 4.2 7.6 - - - +
54B ILE* 1.3 76.7 - - - +
56B LYS* 1.4 72.8 + - + +
81B VAL* 5.4 3.8 - - + -
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Residues in contact with LYS 56 (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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14B PHE 3.3 11.2 - - - +
15B ASN* 3.5 25.8 + - - +
17B ASN* 5.8 0.4 - - - +
21B ASP* 4.1 9.3 + - - -
42B PHE* 4.0 22.6 - - + -
43B ALA* 3.4 2.4 - - - -
44B THR* 2.9 40.2 + - + +
54B ILE* 4.0 4.0 - - - +
55B VAL* 1.4 92.9 - - + +
57B GLN* 1.3 63.3 + - - +
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Residues in contact with GLN 57 (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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12B LEU* 3.3 31.5 - - - +
13B PHE* 3.2 9.0 - - - -
14B PHE* 2.9 50.9 + - + +
42B PHE* 3.4 11.2 - - - +
43B ALA* 3.9 15.7 - - + -
54B ILE* 3.6 22.8 - - + +
56B LYS* 1.3 80.1 - - - +
58B GLY* 1.3 57.9 + - - +
92B ASN* 3.0 31.1 + - - +
93B GLU* 3.9 7.5 + - - +
95B PHE* 3.9 13.8 - - + -
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Residues in contact with GLY 58 (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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11B CYS* 3.6 9.2 - - - -
12B LEU 3.2 13.8 + - - -
13B PHE* 4.5 1.1 - - - -
29B GLU* 3.2 11.9 - - - -
41B CYS* 3.3 4.5 - - - -
42B PHE* 2.9 42.4 + - - -
57B GLN* 1.3 74.2 - - - +
59B CYS* 1.3 61.3 + - - -
92B ASN* 3.6 1.9 + - - -
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Residues in contact with CYS 59 (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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11B CYS* 3.6 4.7 - - - -
29B GLU* 2.8 40.9 + - - +
30B PRO 3.7 3.8 - - - -
31B CYS* 2.1 53.2 - - + -
40B HIS 3.6 6.3 - - - +
42B PHE* 3.5 11.7 - - - -
58B GLY* 1.3 73.5 - - - -
60B TRP* 1.3 60.2 + - - +
61B LEU* 3.6 24.3 + - + +
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Residues in contact with TRP 60 (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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39B ARG* 4.0 6.9 - - - -
40B HIS* 2.8 40.5 + - + +
42B PHE* 3.8 44.9 - + + -
58B GLY 4.0 0.6 + - - -
59B CYS* 1.3 72.6 - - - +
61B LEU* 1.3 61.5 + - - +
62B ASP* 3.3 49.6 + - + +
63B ASP 4.9 0.6 + - - -
64B ILE* 3.7 37.3 - - + +
83B PHE* 4.0 19.7 - + - -
85B CYS* 5.4 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