Contacts of the helix formed by residues 63 - 81 (chain A) in PDB entry 2FCC
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 LYS 63 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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46A ILE* 4.1 6.5 - - - +
47A SER 4.7 0.8 + - - -
59A PHE* 2.6 63.9 + - + +
60A PHE* 2.8 21.3 + - + +
62A ASP* 1.3 103.2 + - - +
64A LEU* 1.3 57.3 + - - +
65A GLU 3.2 3.4 - - - -
66A PHE* 2.9 30.4 + - + +
67A LEU* 3.2 7.7 + - - +
102A GLY 3.2 10.1 - - - +
103A ASP 4.5 3.8 - - - +
104A TYR* 3.7 34.8 - - + -
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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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27A VAL* 3.9 20.6 - - + +
28A PHE* 3.7 26.4 - - + -
31A VAL* 4.1 22.0 - - + -
60A PHE 3.7 14.8 - - - +
61A TYR 3.9 5.6 - - - +
63A LYS* 1.3 74.1 - - - +
65A GLU* 1.3 55.3 + - - +
67A LEU* 3.2 8.1 + - + +
68A ARG* 2.7 35.3 + - - +
93A ILE* 3.9 5.3 - - + +
96A ILE* 3.8 31.2 - - + -
100A PHE* 3.1 25.5 + - + +
101A ARG* 4.1 10.5 - - + -
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Residues in contact with GLU 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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63A LYS 3.2 0.8 - - - -
64A LEU* 1.3 75.2 - - - +
66A PHE* 1.3 65.6 + - - +
68A ARG* 3.0 42.6 + - - +
69A LYS* 3.2 30.4 + - - +
93A ILE* 4.5 6.2 - - - +
101A ARG* 3.4 32.0 + - + +
102A GLY 3.3 7.3 + - - +
103A ASP* 4.1 20.2 - - + +
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Residues in contact with PHE 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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4A ILE* 4.4 1.1 - - + -
5A ASN 4.8 0.2 - - - -
6A LEU* 3.7 23.6 - - + -
60A PHE* 3.8 27.4 - + - -
63A LYS* 2.9 11.3 + - + +
65A GLU* 1.3 81.9 - - - +
67A LEU* 1.3 73.6 + - + +
69A LYS* 3.4 0.6 + - - -
70A ARG* 3.1 35.7 + - - +
102A GLY 3.4 2.4 + - - -
103A ASP* 4.0 8.7 - - - +
104A TYR* 3.4 53.2 - + + +
106A PRO* 4.6 8.7 - - + -
602A GOL 3.5 43.9 - - - -
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Residues in contact with LEU 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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4A ILE* 3.7 31.6 - - + -
24A LEU* 3.7 28.4 - - + +
27A VAL* 3.7 41.1 - - + -
28A PHE* 4.0 9.0 - - + -
60A PHE* 3.9 16.8 - - + -
63A LYS 3.2 9.1 + - - +
64A LEU* 3.2 17.2 + - + +
66A PHE* 1.3 90.6 - - + +
68A ARG* 1.3 66.0 + - - +
70A ARG* 3.1 2.4 + - - +
71A GLN* 2.9 25.8 + - - +
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Residues in contact with ARG 68 (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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28A PHE* 3.8 11.2 - - + -
64A LEU 2.7 19.8 + - - +
65A GLU* 3.0 38.7 + - - +
66A PHE 3.4 0.2 - - - -
67A LEU* 1.3 73.1 - - - +
69A LYS* 1.3 83.3 + - - +
71A GLN* 3.3 3.5 + - - +
72A ILE* 3.3 44.7 + - - +
90A VAL* 3.7 21.1 - - + +
91A GLN 5.2 2.2 - - - +
93A ILE* 4.0 24.9 - - + -
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Residues in contact with LYS 69 (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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65A GLU* 3.2 20.3 + - - +
66A PHE* 3.8 1.3 - - - +
67A LEU 3.2 0.4 - - - -
68A ARG* 1.3 107.7 - - - +
70A ARG* 1.3 60.8 + - - +
71A GLN 3.3 0.2 - - - -
72A ILE* 3.6 16.2 + - + +
73A GLU* 3.5 19.2 + - - +
103A ASP* 2.4 40.4 + - - -
602A GOL 3.2 21.9 + - - +
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Residues in contact with ARG 70 (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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4A ILE* 4.6 1.3 - - - -
5A ASN* 2.8 31.8 + - - +
6A LEU 4.0 2.4 - - - -
7A THR* 2.9 29.1 + - - +
9A VAL* 3.8 19.0 - - + +
12A LEU* 4.2 4.4 - - - +
20A GLU* 2.7 37.9 + - - -
24A LEU* 4.2 9.9 - - + -
66A PHE* 3.1 27.3 + - + +
67A LEU* 3.1 4.9 + - - +
69A LYS* 1.3 75.6 - - - +
71A GLN* 1.3 59.8 + - - +
73A GLU* 3.1 5.3 + - - +
74A LEU* 2.9 34.2 + - + +
602A GOL 2.8 50.1 + - - -
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Residues in contact with GLN 71 (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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21A TYR* 3.0 45.6 + - - +
24A LEU* 3.6 18.8 - - + +
25A PRO* 3.4 20.7 - - + +
67A LEU 2.9 15.9 + - - +
68A ARG 3.3 5.6 + - - +
70A ARG* 1.3 76.2 - - - +
72A ILE* 1.3 58.3 + - - +
74A LEU* 3.3 20.0 - - - +
75A ILE* 2.9 41.8 + - + +
90A VAL* 3.7 27.1 - - + -
220D A 4.8 4.8 + - - +
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Residues in contact with ILE 72 (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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68A ARG* 3.3 41.5 + - - +
69A LYS* 3.7 12.8 - - + +
70A ARG 3.2 0.2 - - - -
71A GLN* 1.3 77.5 - - - +
73A GLU* 1.3 60.7 + - + +
75A ILE* 3.5 6.0 + - - +
76A ALA* 3.1 28.3 + - + +
90A VAL* 3.6 16.6 - - + -
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Residues in contact with GLU 73 (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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9A VAL* 3.7 25.2 + - + +
69A LYS 3.5 13.0 + - - +
70A ARG* 3.1 7.0 + - - +
72A ILE* 1.3 79.4 - - + +
74A LEU* 1.3 60.0 + - - +
76A ALA* 3.3 5.6 + - - +
77A GLU* 2.9 31.2 + - - +
602A GOL 3.2 38.4 + - - -
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Residues in contact with LEU 74 (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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9A VAL* 3.8 20.2 - - + -
12A LEU* 3.9 3.6 - - + -
17A LEU* 3.7 24.2 - - + +
20A GLU* 3.7 50.7 - - + +
21A TYR* 4.5 9.0 - - - -
24A LEU* 4.0 11.4 - - + -
70A ARG* 2.9 21.5 + - + +
71A GLN* 3.3 27.8 - - - +
73A GLU* 1.3 75.4 - - - +
75A ILE* 1.3 59.2 + - - +
77A GLU* 3.4 2.4 + - - +
78A CYS* 2.9 35.9 + - - -
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Residues in contact with ILE 75 (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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21A TYR* 3.8 21.3 - - + -
71A GLN* 2.9 33.2 + - + +
72A ILE* 3.7 6.1 - - - +
74A LEU* 1.3 76.3 - - - +
76A ALA* 1.3 64.7 + - - +
78A CYS* 3.1 5.1 + - - +
79A LEU* 3.0 31.7 + - + +
85A ILE* 4.2 11.4 - - + -
87A ASP 4.1 3.8 - - - +
88A THR* 3.3 45.8 - - - +
89A THR* 3.7 19.5 - - - +
90A VAL* 4.0 5.8 - - + +
220D A 6.2 0.2 - - - +
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Residues in contact with ALA 76 (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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72A ILE* 3.1 16.6 + - + +
73A GLU* 3.3 6.7 + - - +
75A ILE* 1.3 81.2 - - - +
77A GLU* 1.3 58.0 + - - +
79A LEU* 3.3 9.3 + - - +
80A LYS* 2.9 38.3 + - + +
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Residues in contact with GLU 77 (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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9A VAL* 3.5 23.8 - - + +
10A SER* 3.7 22.9 + - - +
17A LEU* 3.6 20.4 - - + -
73A GLU 2.9 17.4 + - - +
74A LEU 3.7 3.1 - - - +
76A ALA* 1.3 75.4 - - - +
78A CYS* 1.3 66.4 + - - +
80A LYS* 3.0 38.2 + - - +
81A ARG* 3.0 45.1 + - - +
131A TYR* 4.8 0.2 + - - -
132A TYR* 3.9 12.5 + - - -
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Residues in contact with CYS 78 (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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17A LEU* 3.8 21.7 - - - +
18A MET* 5.0 0.4 - - - -
21A TYR* 4.0 29.4 - - - -
74A LEU 2.9 21.7 + - - -
75A ILE 3.1 8.0 + - - +
77A GLU* 1.3 78.1 - - - +
79A LEU* 1.3 61.2 + - - +
81A ARG* 3.4 0.9 + - - -
82A GLY 3.3 2.9 + - - -
83A PHE* 2.9 54.1 + - + +
85A ILE* 3.6 20.2 - - + -
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Residues in contact with LEU 79 (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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75A ILE* 3.0 27.2 + - + +
76A ALA* 3.8 9.2 - - - +
78A CYS* 1.3 72.0 - - - +
80A LYS* 1.3 66.0 + - - +
82A GLY* 3.1 13.3 + - - -
83A PHE 4.1 10.8 - - - +
85A ILE* 3.8 26.0 - - + +
88A THR* 4.1 24.9 - - + -
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Residues in contact with LYS 80 (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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10A SER* 4.8 8.1 - - - -
76A ALA* 2.9 23.3 + - + +
77A GLU* 3.0 34.2 + - - +
79A LEU* 1.3 78.1 - - - +
81A ARG* 1.3 59.0 + - + +
82A GLY 3.2 1.3 + - - -
132A TYR* 3.8 27.8 + - - +
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Residues in contact with ARG 81 (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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9A VAL 3.7 5.7 + - - -
10A SER 3.3 11.9 + - - -
12A LEU 2.6 31.7 + - - -
13A ALA 3.6 1.8 - - - -
14A ASP* 2.9 38.9 + - - +
17A LEU* 3.8 19.4 - - - +
77A GLU* 3.0 38.0 + - - +
78A CYS* 3.4 1.8 + - - +
79A LEU 3.2 0.2 - - - -
80A LYS* 1.3 76.1 - - - +
82A GLY* 1.3 60.9 + - - +
83A PHE* 3.5 19.7 + - + -
131A TYR* 3.2 21.9 - - - -
132A TYR* 3.6 42.3 - - + +
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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