Contacts of the strand formed by residues 57 - 67 (chain A) in PDB entry 2CR9
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 ASN 57 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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49A LEU 3.4 2.3 - - - +
50A VAL* 3.5 25.7 - - + +
55A GLY 3.9 3.1 + - - +
56A THR* 1.3 74.1 - - - +
58A SER* 1.3 93.3 + - - +
81A ARG* 3.2 18.1 - - - +
82A VAL* 2.9 56.0 + - + +
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Residues in contact with SER 58 (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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48A GLY* 3.7 1.9 - - - -
49A LEU* 2.4 51.9 + - - +
56A THR* 4.9 5.0 + - - -
57A ASN* 1.3 82.9 + - - +
59A TYR* 1.3 63.3 + - - +
80A GLY 4.0 9.4 - - - -
81A ARG* 5.0 4.9 + - - +
82A VAL* 4.3 0.7 - - - -
128A PHE* 4.2 18.4 - - - -
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Residues in contact with TYR 59 (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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46A THR* 6.4 1.3 - - + -
47A LEU 3.8 10.5 - - - +
48A GLY* 4.2 2.9 - - - -
58A SER* 1.3 79.3 - - - +
60A TYR* 1.3 61.4 + - - +
61A LYS* 4.8 5.6 - - + -
78A SER* 3.5 25.3 + - - -
79A TRP* 3.6 26.9 + - - -
80A GLY* 2.5 34.2 + - - +
81A ARG 3.0 20.4 - - - -
82A VAL* 4.1 15.5 - - + -
83A GLY 5.6 0.4 - - - -
87A GLY* 4.7 9.9 - - - -
88A SER 5.2 0.7 + - - -
128A PHE* 5.3 0.4 - - - -
131A LEU* 5.2 5.6 - - + -
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Residues in contact with TYR 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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46A THR* 3.8 0.6 - - - -
47A LEU* 2.8 63.6 + - + +
48A GLY* 4.5 0.4 - - - +
59A TYR* 1.3 74.3 - - - +
61A LYS* 1.3 69.2 - - - +
62A LEU* 3.5 36.8 - - + +
77A ARG* 4.3 8.2 - - + +
78A SER 3.5 9.2 - - - -
79A TRP* 4.6 16.6 - + + -
107A LEU* 3.9 25.2 - - - +
108A TYR* 5.3 0.2 - - - -
110A GLU* 4.1 1.6 + - - -
111A LYS* 3.0 54.3 - - + -
128A PHE* 4.3 17.6 - + + -
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Residues in contact with LYS 61 (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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44A SER* 3.1 26.5 + - - -
45A ALA 3.2 15.6 + - - +
46A THR* 3.2 34.1 + - + +
59A TYR* 5.0 6.3 - - + -
60A TYR* 1.3 78.4 - - - +
62A LEU* 1.3 65.4 + - - +
63A GLN* 3.3 32.1 - - - +
76A PHE* 4.1 5.6 - - + +
77A ARG* 3.7 5.9 - - - -
78A SER* 3.0 49.8 + - - +
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Residues in contact with LEU 62 (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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43A PHE 3.6 1.4 - - - +
45A ALA* 3.1 34.1 + - + +
47A LEU* 5.9 0.2 - - + -
60A TYR* 3.5 33.1 - - + +
61A LYS* 1.3 73.8 - - - +
63A GLN* 1.3 70.9 + - - +
75A ILE* 5.5 1.8 - - + -
76A PHE 3.9 12.8 - - - +
77A ARG* 4.5 1.3 - - + -
104A PHE* 3.0 57.2 - - + +
107A LEU* 3.8 21.5 - - + -
108A TYR* 3.5 28.5 - - + +
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Residues in contact with GLN 63 (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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22A ALA 3.1 25.9 + - - -
23A VAL* 4.5 3.2 - - - +
24A ASP* 4.3 15.4 + - - +
35A VAL* 4.2 7.3 - - + +
43A PHE 3.2 5.8 - - - +
44A SER* 4.0 15.1 + - - -
61A LYS* 3.3 37.2 + - + +
62A LEU* 1.3 87.0 - - - +
64A LEU* 1.3 60.5 + - - +
65A LEU* 3.5 15.8 + - + +
75A ILE* 4.5 0.7 - - - +
76A PHE* 3.3 59.3 + - + +
104A PHE* 3.9 3.1 - - - -
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Residues in contact with LEU 64 (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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35A VAL* 3.5 1.1 - - - +
36A LEU* 2.5 57.6 + - + +
43A PHE* 3.2 28.0 + - + +
63A GLN* 1.3 69.8 - - - +
65A LEU* 1.3 64.4 + - - +
73A TYR* 4.5 1.6 - - + -
74A TRP 3.1 22.2 - - - +
75A ILE* 4.1 3.6 - - + -
100A ALA* 3.0 48.5 - - + +
101A ILE* 3.4 10.1 - - - +
104A PHE* 3.3 26.3 - - + -
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Residues in contact with LEU 65 (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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23A VAL* 3.2 38.4 - - + -
24A ASP 4.9 1.1 - - - +
27A SER* 3.6 23.6 - - - +
29A LEU* 3.3 35.2 - - + -
33A ALA* 4.3 8.3 - - + -
34A HIS 3.4 5.8 - - - +
35A VAL* 4.5 3.8 - - + +
63A GLN* 3.5 23.2 + - + +
64A LEU* 1.3 86.9 - - - +
66A GLU* 1.3 59.5 + - - +
73A TYR* 3.5 1.6 - - - -
74A TRP* 3.1 29.1 + - + +
76A PHE* 4.1 14.1 - - + -
91A LEU* 4.2 2.9 - - + -
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Residues in contact with GLU 66 (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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33A ALA* 3.1 16.7 - - - +
34A HIS* 2.7 58.9 + - + +
35A VAL 3.2 10.6 - - - +
36A LEU* 3.3 25.3 - - + +
37A GLU* 3.5 5.5 + - - +
64A LEU 3.9 0.2 + - - -
65A LEU* 1.3 74.2 - - - +
67A ASP* 1.3 65.5 + - - +
68A ASP 3.4 0.9 + - - -
73A TYR* 3.1 34.4 + - + -
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Residues in contact with ASP 67 (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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32A SER* 4.7 6.4 + - - +
33A ALA* 4.0 5.5 - - - +
66A GLU* 1.3 77.4 - - - +
68A ASP* 1.3 61.8 + - - +
69A LYS* 3.3 32.4 + - - +
70A GLU* 4.8 4.9 + - - +
71A ASN* 4.8 4.4 + - - +
72A ARG* 2.5 63.8 + - + +
73A TYR* 4.1 4.0 - - - +
74A TRP* 3.2 31.4 - - + -
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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