Contacts of the strand formed by residues 51 - 60 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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46A LYS 3.6 1.7 - - - +
47A ASN* 3.4 2.4 - - - -
48A ILE* 2.9 37.7 + - - +
49A SER 3.3 3.4 + - - -
50A GLY* 1.3 75.1 - - - +
52A ILE* 1.3 61.8 + - - +
53A GLU* 3.9 1.4 + - - +
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Residues in contact with ILE 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45A TRP* 3.9 17.3 - - + -
46A LYS 3.3 1.8 - - - -
47A ASN* 3.4 41.3 - - + +
50A GLY 3.5 10.7 + - - +
51A SER* 1.3 72.7 - - - +
53A GLU* 1.3 65.9 + - - +
54A ILE* 4.4 3.5 + - + +
95A PHE* 4.1 21.5 - - + -
147A NAG 3.7 21.3 - - + +
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Residues in contact with GLU 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16A ALA* 5.6 4.2 - - - +
45A TRP* 3.4 2.6 - - - -
46A LYS* 2.9 59.7 + - + +
51A SER 3.9 1.5 + - - +
52A ILE* 1.3 74.5 - - - +
54A ILE* 1.4 71.6 + - - +
55A VAL* 3.5 4.1 + - + +
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Residues in contact with ILE 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A PHE* 3.5 48.0 - - + -
16A ALA* 3.8 15.8 - - - +
43A ALA* 6.1 0.2 - - + -
44A THR 3.8 7.6 - - - +
45A TRP* 4.1 2.0 - - + -
52A ILE* 4.2 4.2 + - + -
53A GLU* 1.4 83.1 - - - +
55A VAL* 1.3 64.0 + - - +
56A LYS 3.7 15.7 - - - +
57A GLN* 3.5 28.0 - - + +
95A PHE* 3.8 30.3 - - + -
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Residues in contact with VAL 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A PHE* 4.3 0.3 - - - -
15A ASN* 4.2 0.2 - - - +
16A ALA* 3.2 31.8 + - + +
17A ASN* 6.1 2.2 - - - +
44A THR* 2.8 25.4 + - - +
45A TRP* 4.0 15.9 - - - +
46A LYS* 4.1 28.0 - - + -
53A GLU* 4.1 4.0 - - - +
54A ILE* 1.3 76.5 - - - +
56A LYS* 1.4 77.0 + - + +
81A VAL* 4.9 7.4 - - + -
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Residues in contact with LYS 56 (chain A).
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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14A PHE 3.2 9.6 - - - +
15A ASN* 3.1 31.4 + - + +
17A ASN* 4.2 14.5 - - - +
21A ASP* 3.9 12.7 + - - -
42A PHE* 3.9 19.6 - - + -
43A ALA* 3.4 2.1 - - - -
44A THR* 2.8 37.1 + - - +
54A ILE* 3.7 3.6 - - - +
55A VAL* 1.4 97.0 + - + +
57A GLN* 1.3 66.4 + - - +
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Residues in contact with GLN 57 (chain A).
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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12A LEU* 3.3 31.2 - - - +
13A PHE* 3.3 8.3 - - - -
14A PHE* 2.9 50.9 + - + +
42A PHE* 3.4 12.6 - - - +
43A ALA* 3.9 15.5 - - + -
54A ILE* 3.5 25.2 - - + +
56A LYS* 1.3 79.3 - - - +
58A GLY* 1.3 58.8 + - - +
92A ASN* 2.9 29.2 + - - +
93A GLU* 4.1 6.9 + - - +
95A PHE* 4.0 13.6 - - - -
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Residues in contact with GLY 58 (chain A).
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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11A CYS* 3.6 7.8 - - - +
12A LEU 3.2 15.3 + - - -
13A PHE* 4.4 1.6 - - - -
29A GLU* 3.4 11.9 - - - -
41A CYS* 3.3 3.8 - - - -
42A PHE* 2.9 39.8 + - - -
57A GLN* 1.3 75.3 - - - +
59A CYS* 1.3 61.9 + - - -
92A ASN* 3.6 2.1 + - - -
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Residues in contact with CYS 59 (chain A).
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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11A CYS* 3.7 4.5 - - - -
29A GLU* 2.8 42.3 + - - +
30A PRO 3.7 2.2 - - - -
31A CYS* 2.1 58.3 - - + -
40A HIS 3.4 6.7 - - - +
42A PHE* 3.4 12.1 - - - -
58A GLY* 1.3 74.9 - - - -
60A TRP* 1.3 61.8 + - - +
61A LEU* 4.1 3.3 + - + +
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Residues in contact with TRP 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39A ARG* 4.2 2.3 - - - +
40A HIS* 2.8 41.8 + - + +
41A CYS 4.8 0.2 - - - +
42A PHE* 3.8 45.5 - + + -
44A THR* 5.9 0.7 - - + -
58A GLY 4.0 0.2 + - - -
59A CYS* 1.3 74.9 - - - +
61A LEU* 1.3 62.1 + - - +
62A ASP* 3.3 46.2 + - + +
63A ASP 4.8 0.2 + - - -
64A ILE* 3.7 37.7 - - + +
83A PHE* 3.7 21.5 - + - -
85A CYS* 5.3 0.9 - - + -
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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