Contacts of the helix formed by residues 76 - 101 (chain C) in PDB entry 3QU3
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 PRO 76 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C LEU* 1.3 92.9 - - + +
77C PRO* 1.3 66.7 - - + -
78C PRO* 3.3 4.9 - - + -
79C GLU* 2.7 50.6 + - + +
80C ALA 2.8 9.0 + - - -
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Residues in contact with PRO 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C LEU 3.6 2.4 - - - +
76C PRO* 1.3 85.8 - - + +
78C PRO* 1.4 69.6 - - + +
80C ALA* 3.7 8.7 - - + +
81C GLU* 3.0 24.3 + - - +
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Residues in contact with PRO 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C PRO* 3.4 12.1 - - + -
77C PRO* 1.4 97.0 - - + +
79C GLU* 1.3 72.6 + - - +
81C GLU* 3.4 5.8 + - + +
82C ALA* 3.2 26.2 + - - +
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Residues in contact with GLU 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C LEU* 3.6 24.3 - - + +
76C PRO* 2.7 37.7 + - + +
78C PRO* 1.3 87.6 - - - +
80C ALA* 1.3 61.7 + - - +
82C ALA* 3.9 7.6 - - + +
83C ALA* 3.1 24.3 + - - +
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Residues in contact with ALA 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73C VAL* 4.5 1.3 - - - +
75C LEU* 3.9 17.4 - - - +
76C PRO 2.8 10.8 + - - +
77C PRO* 3.7 10.8 - - + +
79C GLU* 1.3 76.2 - - - +
81C GLU* 1.3 62.9 - - - +
83C ALA* 3.4 3.6 + - - +
84C GLU* 3.2 20.3 + - - +
136C EDO 3.5 45.7 + - - +
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Residues in contact with GLU 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C GLU* 4.7 4.9 + - + +
77C PRO 3.0 16.5 + - - +
78C PRO* 3.7 6.3 - - + +
80C ALA* 1.3 74.9 - - - +
82C ALA* 1.3 60.6 + - - +
84C GLU* 3.5 1.9 + - - +
85C ARG* 2.9 63.6 + - - +
88C ARG* 2.8 39.7 + - - +
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Residues in contact with ALA 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C PRO 3.2 13.6 + - - +
79C GLU* 3.9 9.9 - - + +
81C GLU* 1.3 80.6 + - - +
83C ALA* 1.3 57.2 + - - +
85C ARG* 3.2 9.6 + - - +
86C ARG* 2.8 31.4 + - - +
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Residues in contact with ALA 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C TRP* 4.1 7.5 - - + -
73C VAL* 4.2 12.6 - - + -
75C LEU* 4.1 16.2 - - + -
79C GLU 3.1 16.8 + - - +
80C ALA 3.7 4.5 - - - +
81C GLU 3.3 0.2 - - - -
82C ALA* 1.3 81.7 - - - +
84C GLU* 1.3 61.0 + - - +
86C ARG* 3.5 15.0 - - - +
87C GLU* 3.3 19.6 - - - +
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Residues in contact with GLU 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C GLU* 4.7 8.0 - - - +
59C LYS* 3.4 33.2 + - - +
68C TRP* 3.1 37.9 + - + +
72C GLY* 4.5 0.2 - - - -
80C ALA 3.2 8.4 + - - +
81C GLU* 4.0 1.3 - - - +
83C ALA* 1.3 74.6 - - - +
85C ARG* 1.3 58.1 + - - +
87C GLU* 2.7 25.9 + - - +
88C ARG* 3.0 39.4 + - - +
91C TRP* 4.2 4.6 - - + -
136C EDO 3.0 31.3 - - - +
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Residues in contact with ARG 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49C ASP* 3.5 36.0 + - + +
50C LEU 3.4 14.9 + - - +
51C ASP* 2.9 30.9 + - - +
81C GLU* 2.9 52.4 + - - +
82C ALA* 3.4 9.0 - - - +
84C GLU* 1.3 77.2 - - - +
86C ARG* 1.3 62.6 + - - +
87C GLU 3.2 0.7 + - - -
88C ARG* 3.4 33.4 + - - +
89C ARG* 4.6 2.4 + - - +
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Residues in contact with ARG 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ALA 2.8 13.6 + - - +
83C ALA* 3.5 14.4 - - - +
84C GLU 3.1 0.2 - - - -
85C ARG* 1.3 75.2 - - - +
87C GLU* 1.3 73.1 + - - +
89C ARG* 4.9 4.3 + - - +
90C GLY 5.3 1.6 + - - -
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Residues in contact with GLU 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67C ARG 5.6 0.9 - - - +
68C TRP* 3.6 29.0 - - + -
83C ALA 3.3 15.5 - - - +
84C GLU 2.7 16.2 + - - +
86C ARG* 1.3 93.6 + - - +
88C ARG* 1.3 62.3 + - - +
89C ARG 3.4 1.8 - - - -
90C GLY* 3.1 7.9 + - - -
91C TRP* 3.1 47.2 + - + -
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Residues in contact with ARG 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU* 2.9 45.7 + - + +
51C ASP* 3.5 18.3 + - - +
52C GLU* 3.6 28.9 - - - +
55C ALA* 3.7 18.5 - - + +
58C PHE* 4.8 1.4 - - - -
81C GLU* 2.8 34.3 + - - +
84C GLU* 3.0 34.3 + - - +
85C ARG* 3.4 33.2 + - - +
87C GLU* 1.3 76.4 - - - +
89C ARG* 1.3 58.6 + - - +
91C TRP* 3.2 18.4 + - + +
92C LYS* 2.9 29.1 + - - +
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Residues in contact with ARG 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C PHE* 4.2 7.1 - - - +
46C GLY 2.9 30.1 + - - +
47C ARG* 3.5 9.6 + - - -
48C ARG 2.6 30.7 + - - -
49C ASP* 5.8 1.0 - - - +
50C LEU* 4.3 15.9 - - + +
85C ARG 4.6 3.0 + - - +
86C ARG 4.9 3.8 + - - +
87C GLU 3.4 0.4 - - - -
88C ARG* 1.3 78.3 - - - +
90C GLY* 1.3 63.5 + - - +
92C LYS* 3.3 27.3 - - - +
93C THR* 3.2 25.8 + - - +
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Residues in contact with GLY 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86C ARG 5.3 1.4 + - - -
87C GLU 3.1 8.4 + - - -
89C ARG* 1.3 79.2 - - - +
91C TRP* 1.3 59.8 + - - +
93C THR* 3.4 6.6 + - - -
94C ASN* 3.0 30.9 + - - +
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Residues in contact with TRP 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55C ALA* 4.9 2.9 - - + -
58C PHE* 3.8 19.0 - - + +
59C LYS* 3.4 39.7 - - + -
62C ALA* 3.4 27.8 - - + +
65C ARG* 4.5 8.2 + - - +
67C ARG* 4.9 6.2 + - + +
68C TRP* 3.4 46.0 - + + +
84C GLU* 4.2 11.4 - - + -
87C GLU* 3.1 36.4 + - + +
88C ARG* 3.4 35.2 - - + +
90C GLY* 1.3 74.1 - - - +
92C LYS* 1.3 61.5 + - - +
94C ASN* 3.9 4.9 - - - +
95C PHE* 2.9 31.9 + - - +
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Residues in contact with LYS 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C PHE* 3.5 35.9 - - + -
50C LEU* 4.5 4.7 - - + -
58C PHE* 3.8 24.8 - - + +
88C ARG 2.9 13.2 + - - +
89C ARG* 3.3 39.7 - - - +
91C TRP* 1.3 75.6 - - - +
93C THR* 1.3 70.9 + - - +
95C PHE* 3.1 3.1 + - - +
96C ARG* 2.9 64.9 + - - +
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Residues in contact with THR 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89C ARG* 3.2 13.9 + - - +
90C GLY* 3.6 9.4 - - - -
92C LYS* 1.3 95.8 + - - +
94C ASN* 1.3 63.3 + - - +
96C ARG* 3.3 5.3 + - - +
97C CYS* 3.0 36.5 + - - -
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Residues in contact with ASN 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61C TRP* 3.2 8.8 + - - -
65C ARG* 3.0 50.3 + - - +
67C ARG* 5.4 2.2 - - - +
90C GLY 3.0 15.1 + - - +
91C TRP* 3.9 2.0 - - + +
93C THR* 1.3 80.8 - - - +
95C PHE* 1.3 63.3 + - - +
97C CYS* 3.8 5.5 - - - +
98C ALA* 3.1 22.2 + - - +
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Residues in contact with PHE 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12C PHE* 3.5 34.3 - + - -
15C TRP* 3.7 7.0 - + - -
16C LEU* 4.0 13.2 - - + -
40C VAL* 4.3 21.5 - - + -
42C TRP* 5.6 0.9 - + - -
57C ILE* 3.6 35.4 - - + -
58C PHE* 3.4 33.0 - + + -
61C TRP* 4.1 24.4 - - + -
91C TRP 2.9 19.6 + - - +
92C LYS 3.1 3.3 + - - +
94C ASN* 1.3 75.5 + - - +
96C ARG* 1.3 70.4 + - + +
98C ALA* 3.3 4.2 + - - +
99C LEU* 3.1 29.8 + - + +
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Residues in contact with ARG 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41C PRO 4.8 0.4 + - - -
42C TRP* 3.5 63.1 - - + +
43C LYS 2.8 35.0 + - - +
44C HIS* 4.6 8.7 + - - +
45C PHE* 4.0 9.5 - - - -
58C PHE* 4.0 13.1 - - + -
92C LYS* 2.9 52.9 + - + +
93C THR* 4.0 4.9 - - - +
95C PHE* 1.3 87.6 - - + +
97C CYS* 1.3 58.0 + - - +
99C LEU* 3.5 6.3 + - - +
100C HIS* 2.9 28.2 + - - +
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Residues in contact with CYS 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93C THR* 3.0 33.0 + - - +
94C ASN* 3.8 5.8 - - - +
96C ARG* 1.3 75.0 - - - +
98C ALA* 1.3 59.7 + - - +
100C HIS* 3.8 7.1 + - - +
101C SER* 2.9 30.8 + - - -
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Residues in contact with ALA 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C PHE* 3.6 31.0 - - + +
61C TRP* 4.1 11.4 - - + +
94C ASN* 3.1 13.6 + - - +
95C PHE 3.6 8.7 - - - +
97C CYS* 1.3 74.3 - - - +
99C LEU* 1.3 59.1 + - - +
101C SER* 3.2 8.3 + - - -
102C THR* 2.5 32.9 + - - -
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Residues in contact with LEU 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C PHE* 3.4 14.7 - - + -
16C LEU* 4.2 9.0 - - + -
38C PHE* 5.2 0.4 - - + -
40C VAL* 4.4 10.3 - - + -
42C TRP* 4.0 17.5 - - + -
95C PHE* 3.1 27.3 + - + +
96C ARG* 3.8 5.2 - - - +
98C ALA* 1.3 75.2 - - - +
100C HIS* 1.3 67.7 + - - +
102C THR* 2.8 17.1 + - - -
105C PHE* 3.3 41.1 - - + -
122C TYR* 3.9 38.1 - - + +
135C NA 3.1 12.7 - - - -
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Residues in contact with HIS 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C ARG 2.9 19.3 + - - +
97C CYS* 3.8 7.8 + - - +
99C LEU* 1.3 78.1 - - - +
101C SER* 1.3 64.0 + - - +
102C THR* 2.9 7.0 + - - -
103C GLY* 5.4 0.7 - - - -
135C NA 3.8 11.9 - - - -
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Residues in contact with SER 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C CYS 2.9 19.1 + - - -
98C ALA* 3.4 9.2 - - - -
99C LEU 3.2 0.6 - - - -
100C HIS* 1.3 82.2 + - - +
102C THR* 1.3 57.5 + - - +
103C GLY 3.6 3.3 + - - -
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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
------------------------------------------------------------
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) + - + + + + + -
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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