Contacts of the helix formed by residues 54 - 81 (chain C) in PDB entry 6MZL
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 GLN 54 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C VAL* 1.3 79.9 - - - +
55C LEU* 1.3 64.9 + - - +
56C SER* 3.4 7.0 + - - +
57C ALA* 3.2 27.8 + - + +
58C CYS 3.5 1.9 + - - -
194N THR* 5.2 4.3 - - + -
195N LEU* 3.3 22.0 + - - +
196N THR* 3.7 22.0 - - - +
197N MET* 3.5 36.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 55 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C VAL* 4.5 18.4 - - + +
54C GLN* 1.3 71.3 - - - +
56C SER* 1.3 58.5 + - - +
58C CYS* 3.0 9.2 + - + +
59C HIS* 3.0 42.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 56 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C GLN* 4.9 7.1 + - - +
55C LEU* 1.3 78.0 + - - +
57C ALA* 1.3 59.2 + - - +
59C HIS* 3.7 13.1 - - - +
60C LEU* 2.9 39.0 + - - +
197N MET* 5.8 3.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 57 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C GLN* 3.2 26.7 + - + +
56C SER* 1.3 81.6 + - - +
58C CYS* 1.3 56.6 + - - +
60C LEU* 3.4 9.2 + - - +
61C LEU* 2.9 34.8 + - - +
195N LEU* 4.0 21.5 - - + -
196N THR 5.6 0.9 - - - +
197N MET* 5.6 1.8 - - - -
200N LEU* 4.8 23.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 58 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ARG* 5.8 3.1 - - + -
41C VAL* 4.1 24.4 - - + +
42C ALA* 6.5 0.2 - - - -
45C CYS* 5.1 6.3 - - - -
53C VAL* 3.6 30.3 - - + -
54C GLN 3.5 1.6 + - - +
55C LEU* 3.0 11.8 + - + +
57C ALA* 1.3 76.1 - - - +
59C HIS* 1.3 61.9 + - + +
61C LEU* 3.7 9.1 - - - +
62C THR* 2.9 34.5 + - + +
195N LEU* 4.3 11.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 59 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ARG* 3.2 52.5 + - - +
55C LEU* 3.0 44.4 + - + +
56C SER* 3.7 10.8 - - - +
57C ALA 3.3 0.2 - - - -
58C CYS* 1.3 76.6 - - + +
60C LEU* 1.3 58.9 + - + +
62C THR* 2.6 21.8 + - - -
63C ASP* 3.0 22.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C SER* 2.9 26.8 + - - +
57C ALA* 3.8 7.6 - - - +
59C HIS* 1.3 76.4 - - + +
61C LEU* 1.3 58.2 + - + +
63C ASP* 3.2 18.4 + - + +
64C VAL* 2.8 33.3 + - + +
41L GLU* 6.1 0.7 - - - +
42L PHE* 5.4 12.8 - - + -
45L ARG* 4.1 30.7 - - - +
197N MET* 6.4 0.9 - - + -
200N LEU* 5.1 15.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C VAL* 5.5 8.3 - - + -
57C ALA 2.9 21.4 + - - +
58C CYS* 3.8 10.3 - - - +
59C HIS 3.3 0.4 - - - -
60C LEU* 1.3 75.1 - - + +
62C THR* 1.3 59.9 + - - +
64C VAL* 3.3 18.3 + - + +
65C LEU* 2.8 32.2 + - - +
163N ILE* 4.6 16.1 - - + +
166N ILE* 4.3 33.7 - - + -
167N ALA* 6.6 0.2 - - + -
195N LEU* 4.4 22.9 - - + -
200N LEU* 4.6 20.6 - - + -
203N ALA* 5.6 1.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 62 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ARG* 5.0 2.2 - - - -
37C LEU* 4.1 8.6 - - + +
38C ARG* 3.7 38.9 + - + +
41C VAL* 3.8 25.4 - - + -
58C CYS* 2.9 19.1 + - + +
59C HIS* 2.6 25.8 + - - -
61C LEU* 1.3 73.2 - - - +
63C ASP* 1.3 63.0 + - - +
65C LEU* 3.2 8.3 + - - +
66C GLN* 3.0 38.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 63 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ARG* 5.7 4.3 + - - -
59C HIS* 3.0 23.3 + - - +
60C LEU* 3.4 21.9 - - + +
62C THR* 1.3 78.4 + - - +
64C VAL* 1.3 56.9 + - + +
66C GLN* 3.3 16.5 + - - +
67C ARG* 2.9 52.1 + - - +
38L GLN* 5.1 8.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 64 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C LEU* 2.8 21.6 + - + +
61C LEU* 3.5 24.0 - - + +
62C THR 3.3 0.2 - - - -
63C ASP* 1.3 71.8 - - + +
65C LEU* 1.3 61.2 + - + +
67C ARG* 3.5 11.5 + - - +
68C TYR* 2.8 28.7 + - + +
162N PHE* 4.0 25.8 - - + -
163N ILE* 6.2 0.4 - - + -
166N ILE* 5.2 2.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 65 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C LEU* 5.0 14.1 - - + +
40C SER* 5.0 4.3 - - - +
41C VAL* 3.7 29.8 - - + -
44C ILE* 6.2 0.7 - - + -
61C LEU 2.8 15.1 + - - +
62C THR* 3.2 12.8 + - + +
64C VAL* 1.3 77.5 - - - +
66C GLN* 1.3 58.3 + - + +
68C TYR* 3.2 4.8 + - + +
69C LEU* 2.9 40.2 + - + +
130N ILE* 6.4 2.0 - - + -
159N ALA* 4.0 27.4 - - + +
162N PHE* 4.3 11.2 - - + -
163N ILE* 3.6 31.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 66 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ARG* 3.3 31.6 + - - +
37C LEU* 3.5 26.3 - - + +
62C THR* 3.0 24.2 + - - +
63C ASP* 3.8 16.1 - - - +
65C LEU* 1.3 75.0 - - - +
67C ARG* 1.3 59.7 + - + +
69C LEU* 3.8 7.7 - - - +
70C GLN* 3.0 40.0 + - - +
138N TYR* 3.1 44.3 + - + +
141N ARG* 5.4 2.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 67 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ASP* 2.9 36.5 + - - +
64C VAL* 3.9 9.6 - - - +
66C GLN* 1.3 77.6 - - + +
68C TYR* 1.3 57.0 + - - +
70C GLN* 3.4 13.0 + - - +
71C GLN* 2.9 39.4 + - - +
72H ASP* 3.9 24.5 + - - -
75H LEU* 6.1 1.2 - - - +
42L PHE* 4.0 33.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C VAL* 2.8 19.9 + - + +
65C LEU* 3.7 7.0 - - + +
67C ARG* 1.3 74.6 - - - +
69C LEU* 1.3 61.1 + - + +
71C GLN* 3.3 13.1 + - - +
72C LEU* 2.9 53.8 + - + +
97C PHE* 4.1 10.7 - + - -
100C MET* 3.8 31.4 + - + +
102C VAL* 3.8 23.6 - - - +
158N ALA* 5.1 2.4 + - - +
159N ALA* 4.8 15.5 - - + -
162N PHE* 4.2 53.4 - + + +
206N GLU* 6.4 0.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C LEU* 5.2 15.3 - - + -
65C LEU* 2.9 26.4 + - + +
66C GLN* 3.8 8.3 - - - +
68C TYR* 1.3 78.2 - - + +
70C GLN* 1.3 57.8 + - + +
72C LEU* 3.3 10.8 + - + +
73C GLY* 2.9 25.1 + - - -
135N THR* 5.2 16.2 - - + +
138N TYR* 4.6 23.8 - - + +
139N LEU* 4.0 17.2 - - + +
142N ALA* 5.0 0.2 - - - -
155N ILE* 3.7 28.9 - - + +
156N SER* 5.7 0.7 - - - -
159N ALA* 4.0 25.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 70 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C GLN* 3.0 25.3 + - - +
67C ARG* 3.8 12.6 - - - +
68C TYR 3.3 0.2 - - - -
69C LEU* 1.3 76.3 - - + +
71C GLN* 1.3 56.8 + - - +
73C GLY* 3.8 0.2 - - - -
74C ARG* 2.9 56.6 + - - +
543F SER* 5.6 1.6 - - - +
73H TYR* 5.5 2.7 + - - -
138N TYR* 4.5 14.3 - - + +
141N ARG* 3.8 42.1 - - - +
142N ALA* 4.0 22.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C ARG* 2.9 27.4 + - + +
68C TYR* 3.3 14.5 + - - +
70C GLN* 1.3 74.0 - - - +
72C LEU* 1.3 59.8 + - - +
74C ARG* 3.5 12.0 + - - +
75C GLY* 2.9 26.7 + - - -
100C MET* 3.8 27.9 - - + +
207N TYR* 5.0 20.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C TYR* 2.9 48.1 + - + +
69C LEU* 3.6 11.7 - - + +
71C GLN* 1.3 76.4 - - - +
73C GLY* 1.3 56.3 + - - +
75C GLY* 3.4 1.0 + - - -
76C CYS* 2.9 37.7 + - - -
96C ALA* 5.0 8.7 - - + +
97C PHE* 3.6 43.1 - - + -
100C MET* 3.7 24.7 - - + -
139N LEU* 5.8 0.7 - - + -
155N ILE* 3.9 28.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 73 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C LEU 2.9 15.5 + - - -
70C GLN 3.8 2.7 - - - -
72C LEU* 1.3 77.2 - - - +
74C ARG* 1.3 55.8 + - - +
76C CYS* 3.2 7.6 + - - +
77C HIS* 2.9 41.7 + - - -
139N LEU* 4.5 9.6 - - - +
142N ALA* 4.3 15.3 - - - -
144N PHE* 5.2 4.0 - - - -
155N ILE* 6.6 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 74 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C GLN* 2.9 40.3 + - - +
71C GLN* 3.9 11.8 - - - +
73C GLY* 1.3 75.1 - - - +
75C GLY* 1.3 58.5 + - - +
77C HIS* 3.4 7.9 + - - +
78C ARG* 2.9 48.4 + - + +
543F SER* 3.3 41.1 + - - +
564F ASP* 5.6 1.9 + - - -
73H TYR* 4.3 17.6 - - - -
76H LYS* 4.9 9.5 - - - +
142N ALA* 4.7 0.4 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 75 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C GLN 2.9 17.3 + - - -
72C LEU* 3.8 1.6 - - - -
74C ARG* 1.3 76.6 - - - +
76C CYS* 1.3 56.3 + - - +
78C ARG* 3.8 5.6 - - - +
79C TYR* 2.9 30.7 + - - +
96C ALA* 5.0 7.4 - - - +
99C LEU* 6.0 7.7 - - - +
100C MET* 5.6 4.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 76 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C LEU* 2.9 29.2 + - - +
73C GLY* 3.2 7.2 + - - +
75C GLY* 1.3 76.4 - - - +
77C HIS* 1.3 57.5 + - - +
79C TYR* 3.4 6.2 + - - +
80C SER* 2.9 31.6 + - - -
88C PRO* 5.8 2.9 - - + -
92C ASP* 5.1 3.8 - - + +
93C VAL* 4.1 30.1 - - + -
96C ALA* 4.0 22.4 - - - +
144N PHE* 4.9 18.8 - - + -
155N ILE* 5.6 5.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 77 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C GLY 2.9 25.8 + - - +
74C ARG* 4.0 6.7 - - - +
76C CYS* 1.3 74.6 - - - +
78C ARG* 1.3 62.8 + - + +
80C SER* 3.2 9.1 + - - -
81C GLU* 2.9 47.3 + - + +
541F GLY* 4.2 16.0 + - - +
543F SER* 5.1 5.6 - - - -
568F ARG* 5.6 0.4 - - - +
142N ALA 2.6 29.4 + - - -
143N GLY 3.1 26.3 - - - -
144N PHE* 3.6 25.0 + + + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 78 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C ARG* 2.9 34.1 + - + +
75C GLY* 4.0 5.6 - - - +
77C HIS* 1.3 76.9 - - + +
79C TYR* 1.3 60.0 + - - +
81C GLU* 5.0 7.1 - - - +
82C LEU* 3.5 24.3 + - - +
564F ASP 5.6 3.4 + - - -
582F LYS* 4.1 25.8 - - - +
585F ASN* 6.1 1.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 79 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C GLY 2.9 18.8 + - - +
76C CYS* 3.6 7.4 - - - +
78C ARG* 1.3 79.0 - - - +
80C SER* 1.3 58.5 + - - +
81C GLU 3.6 0.2 - - - -
82C LEU* 3.7 18.6 - - - +
83C TYR* 4.1 17.0 + + - -
92C ASP* 3.2 49.0 + - + +
95C GLU* 2.3 37.6 + - + -
96C ALA* 5.8 5.2 - - + -
99C LEU* 5.9 7.2 - - + -
919D GLU* 4.9 4.3 + - + -
922D GLN* 4.6 2.8 + - - +
923D GLN* 3.3 50.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 80 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C CYS 2.9 19.9 + - - -
77C HIS* 3.1 17.5 + - - +
79C TYR* 1.3 75.9 - - - +
81C GLU* 1.3 62.2 + - - +
82C LEU 3.2 2.2 - - - -
83C TYR* 3.2 27.0 + - - +
85C ARG 3.3 17.5 - - - +
86C THR* 4.1 20.2 + - - -
87C ASP 5.1 4.5 - - - -
88C PRO* 5.3 9.1 - - - +
92C ASP* 5.3 5.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 81 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C HIS* 2.9 27.9 + - + +
78C ARG* 4.3 7.4 + - - +
79C TYR 3.6 0.2 - - - -
80C SER* 1.3 76.2 - - - +
82C LEU* 1.3 62.5 - - + +
83C TYR 3.1 14.4 - - - +
85C ARG 5.0 0.4 - - - -
566F THR* 4.7 8.1 + - - -
568F ARG* 2.4 42.8 + - - +
580F GLY* 5.1 15.5 - - - +
581F TYR* 6.1 0.2 - - - -
582F LYS* 4.8 13.9 - - - +
----------------------------------------------------------
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