Contacts of the helix formed by residues 45 - 73 (chain O) in PDB entry 6KW3
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 ALA 45 (chain O).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17O ARG* 4.6 17.7 + - - +
31O HIS* 5.4 3.1 - - - -
43O VAL 4.0 0.2 + - - -
44O GLY* 1.3 71.9 - - - -
46O GLY* 1.3 62.6 + - - +
47O ALA 3.3 0.9 - - - -
48O PRO* 3.4 17.0 - - - +
49O VAL* 3.9 10.6 - - - +
112U T 4.0 22.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 46 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44O GLY* 3.5 0.4 - - - -
45O ALA* 1.3 76.8 - - - +
47O ALA* 1.3 59.6 + - - +
48O PRO 3.6 0.4 - - - -
49O VAL* 3.4 10.8 + - - +
50O TYR* 2.9 29.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 47 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34O LEU* 4.9 8.5 - - + -
43O VAL* 5.2 1.8 - - + -
44O GLY* 3.9 14.9 + - - +
45O ALA 3.3 0.4 - - - -
46O GLY* 1.3 74.9 - - - +
48O PRO* 1.4 67.9 - - + +
50O TYR* 3.4 6.1 + - - +
51O LEU* 2.9 34.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 48 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17O ARG* 5.0 1.6 - - - +
27O VAL* 3.7 31.6 - - + +
30O VAL* 3.7 25.9 - - + +
31O HIS* 4.0 21.8 - - + +
34O LEU* 4.4 8.5 - - + -
44O GLY 3.4 13.7 - - - +
45O ALA* 3.4 17.3 - - - +
47O ALA* 1.4 89.0 - - + +
49O VAL* 1.3 54.6 + - - +
51O LEU* 3.6 3.2 - - + +
52O ALA* 2.9 30.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 49 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17O ARG* 5.5 4.7 - - + +
21O ALA* 3.8 28.0 - - + -
23O LEU* 3.6 7.9 - - + +
27O VAL* 3.8 26.2 - - + -
45O ALA 3.9 13.5 - - - +
46O GLY* 3.4 11.2 + - - +
47O ALA 3.3 0.8 - - - -
48O PRO* 1.3 76.0 - - - +
50O TYR* 1.3 59.6 + - - +
52O ALA* 3.3 4.4 + - - -
53O ALA* 3.0 30.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 50 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46O GLY 2.9 17.9 + - - +
47O ALA* 3.4 6.7 + - - +
49O VAL* 1.3 74.0 - - - +
51O LEU* 1.3 66.8 + - + +
53O ALA* 4.1 5.6 - - + +
54O VAL* 3.3 42.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 51 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30O VAL* 3.8 24.9 - - + -
34O LEU* 4.0 26.0 - - + -
47O ALA* 2.9 22.1 + - + +
48O PRO* 3.6 5.2 - - + +
50O TYR* 1.3 82.3 - - + +
52O ALA* 1.3 57.7 + - - +
54O VAL* 3.4 4.2 + - + +
55O LEU* 2.9 46.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 52 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23O LEU* 3.8 17.7 - - + -
25O PHE* 3.7 38.2 - - + +
27O VAL* 4.5 5.8 - - + -
30O VAL* 5.2 7.8 - - + +
48O PRO 2.9 18.7 + - - +
49O VAL 3.3 0.6 + - - -
51O LEU* 1.3 76.3 - - - +
53O ALA* 1.3 58.0 + - - +
55O LEU* 4.5 2.2 - - - -
56O GLU* 2.9 32.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 53 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23O LEU* 3.5 27.2 - - + +
49O VAL* 3.0 18.3 + - + +
50O TYR* 4.3 7.9 - - + +
52O ALA* 1.3 76.6 - - - +
54O VAL* 1.3 59.5 + - + +
56O GLU* 3.4 1.9 + - - +
57O TYR* 2.9 30.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 54 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50O TYR* 3.3 45.5 + - + +
51O LEU* 3.4 4.1 + - - +
52O ALA 3.4 0.4 - - - -
53O ALA* 1.3 76.0 - - + +
55O LEU* 1.3 59.3 + - + +
57O TYR* 3.3 5.7 + - + +
58O LEU* 2.9 47.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 55 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25O PHE* 3.6 23.3 - - + -
30O VAL* 5.7 7.9 - - + -
51O LEU* 2.9 36.4 + - + +
52O ALA* 5.0 0.9 - - - -
54O VAL* 1.3 78.2 - - + +
56O GLU* 1.3 53.7 + - - +
58O LEU* 3.6 11.8 + - + +
59O THR* 2.5 39.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 56 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22O GLY 5.3 0.6 - - - +
23O LEU* 3.4 23.9 - - + +
24O GLN* 3.1 49.8 + - + +
25O PHE* 3.5 19.6 + - + -
52O ALA 2.9 17.9 + - - +
53O ALA 3.8 3.6 - - - +
55O LEU* 1.3 75.5 - - - +
57O TYR* 1.3 58.6 + - - +
59O THR* 3.8 1.9 - - - -
60O ALA* 2.9 31.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 57 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53O ALA 2.9 16.7 + - - +
54O VAL* 3.9 6.1 - - + +
56O GLU* 1.3 77.1 - - - +
58O LEU* 1.3 69.5 + - + +
60O ALA* 3.4 8.3 + - + +
61O GLU* 3.0 45.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 58 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54O VAL* 2.9 37.8 + - + +
55O LEU* 4.0 12.1 - - + +
57O TYR* 1.3 88.0 - - + +
59O THR* 1.3 57.3 + - - +
61O GLU* 3.3 8.5 + - + +
62O ILE* 3.0 45.0 + - + +
93O LEU* 6.1 5.8 - - + -
96O LEU* 6.1 5.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 59 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25O PHE* 4.0 19.0 - - + -
55O LEU* 2.5 27.4 + - - +
56O GLU* 3.8 6.3 - - - -
58O LEU* 1.3 75.8 - - - +
60O ALA* 1.3 58.0 + - - +
62O ILE* 3.4 6.6 + - - +
63O LEU* 2.9 49.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 60 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56O GLU* 2.9 20.5 + - + +
57O TYR* 3.7 10.1 - - + +
59O THR* 1.3 76.6 - - - +
61O GLU* 1.3 56.9 + - - +
63O LEU* 3.8 5.7 - - - +
64O GLU* 2.9 32.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 61 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57O TYR* 3.0 36.9 + - + +
58O LEU* 3.7 10.8 - - + +
60O ALA* 1.3 77.1 - - - +
62O ILE* 1.3 58.2 + - + +
64O GLU* 3.3 20.5 + - - +
65O LEU* 3.0 53.0 + - + +
93O LEU* 5.8 3.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 62 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58O LEU* 3.0 30.4 + - + +
59O THR* 4.0 6.7 - - - +
61O GLU* 1.3 76.7 - - + +
63O LEU* 1.3 61.8 + - + +
65O LEU* 3.4 8.3 + - - +
66O ALA* 2.9 26.7 + - + +
83O LEU* 5.2 13.2 - - + -
86O ALA* 5.7 0.3 - - - +
87O VAL* 5.5 13.0 - - + -
93O LEU* 4.6 28.7 - - + -
97O LEU* 6.4 2.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 63 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59O THR* 2.9 39.1 + - + +
60O ALA* 4.1 4.9 - - - +
62O ILE* 1.3 77.3 - - + +
64O GLU* 1.3 59.6 + - - +
66O ALA* 3.7 5.9 - - + +
67O GLY* 2.9 25.1 + - - -
78O ILE* 4.3 22.9 - - + +
83O LEU* 6.1 1.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 64 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60O ALA 2.9 19.5 + - - +
61O GLU* 3.3 24.3 + - - +
63O LEU* 1.3 76.2 - - - +
65O LEU* 1.3 61.1 + - + +
67O GLY* 3.4 1.4 + - - -
68O ASN* 2.9 45.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 65 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61O GLU* 3.0 40.5 + - + +
62O ILE* 3.8 4.9 - - - +
64O GLU* 1.3 76.9 - - + +
66O ALA* 1.3 56.7 + - - +
68O ASN* 3.4 15.1 + - + +
69O ALA* 2.9 29.8 + - - +
86O ALA* 3.7 22.3 - - + +
87O VAL* 6.0 0.2 - - - -
90O ASP* 4.9 10.3 - - + +
93O LEU* 3.8 29.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 66 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62O ILE 2.9 17.9 + - - +
63O LEU* 3.7 9.2 - - + +
65O LEU* 1.3 75.1 - - - +
67O GLY* 1.3 59.5 + - - +
69O ALA* 3.4 3.4 + - - +
70O ALA* 2.9 28.8 + - - +
78O ILE* 3.8 22.8 - - + +
82O HIS* 4.6 4.3 - - - +
83O LEU* 3.8 27.1 - - + -
86O ALA* 4.4 9.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 67 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63O LEU 2.9 17.2 + - - -
64O GLU* 3.8 2.2 - - - -
66O ALA* 1.3 73.9 - - - +
68O ASN* 1.3 58.6 + - - +
70O ALA* 3.3 6.3 + - - +
71O ARG* 2.9 44.2 + - - +
78O ILE* 4.3 7.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 68 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64O GLU* 2.9 42.5 + - - +
65O LEU* 3.6 18.5 - - + +
67O GLY* 1.3 76.8 - - - +
69O ALA* 1.3 57.9 + - - +
71O ARG* 2.5 36.6 + - - +
72O ASP* 2.9 39.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 69 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65O LEU 2.9 18.0 + - - +
66O ALA 3.9 2.7 - - - +
68O ASN* 1.3 77.0 - - - +
70O ALA* 1.3 60.3 + - - +
72O ASP* 3.8 10.3 + - - +
73O ASN* 3.5 26.9 + - - -
82O HIS* 3.5 30.7 - - + +
85O LEU* 4.7 8.0 - - + +
86O ALA* 3.9 12.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 70 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66O ALA 2.9 17.9 + - - +
67O GLY* 3.7 8.1 - - - +
68O ASN 3.2 0.2 - - - -
69O ALA* 1.3 77.8 - - - +
71O ARG* 1.3 62.2 + - + +
73O ASN* 3.2 9.9 + - - +
75O LYS* 3.0 38.6 + - - +
76O THR 5.2 0.7 - - - -
77O ARG 4.1 7.6 - - - +
78O ILE* 4.5 8.7 - - + -
82O HIS* 3.4 22.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 71 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67O GLY* 2.9 21.9 + - - +
68O ASN* 2.5 35.7 + - - +
70O ALA* 1.3 74.3 - - + +
72O ASP* 1.3 65.9 + - - +
73O ASN 3.3 0.2 - - - -
74O LYS* 3.5 15.5 + - - +
75O LYS 4.3 7.2 - - - +
76O THR* 6.2 2.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 72 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68O ASN* 2.9 25.6 + - - +
69O ALA* 3.9 11.0 - - - +
70O ALA 3.2 0.2 - - - -
71O ARG* 1.3 79.1 - - - +
73O ASN* 1.3 63.0 + - - +
74O LYS* 3.3 10.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 73 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69O ALA 3.5 8.5 + - - -
70O ALA 3.2 3.5 + - - +
72O ASP* 1.3 80.8 - - - +
74O LYS* 1.3 74.9 + - - +
75O LYS* 3.3 14.7 + - + +
81O ARG* 5.8 0.6 - - - +
82O HIS* 3.2 40.5 + - - +
85O LEU* 3.9 21.8 - - - +
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
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