Contacts of the helix formed by residues 73 - 94 (chain C) in PDB entry 5HZZ
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 LEU 73 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A PRO* 4.6 3.1 - - + -
30A THR 3.8 38.4 - - - +
31A PRO* 3.9 6.3 - - + -
32A PRO* 3.9 21.1 - - + -
94A LEU* 4.3 13.9 - - + +
96A ILE* 4.0 24.6 - - + +
138A ILE* 4.8 1.3 - - + -
58C LEU* 4.0 24.0 - - + -
68C LEU* 5.7 2.2 - - + -
69C SER 4.3 6.3 - - - +
70C ALA* 3.0 15.3 + - - +
72C ASP* 1.3 78.7 - - + +
74C ALA* 1.3 59.0 + - - +
75C PRO 3.5 0.9 - - - -
76C LEU* 3.4 9.9 + - + +
77C ALA* 2.9 29.5 + - - +
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Residues in contact with ALA 74 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A VAL* 3.5 5.1 - - + +
135A ARG* 3.7 37.5 - - + +
138A ILE* 3.9 18.4 - - + -
70C ALA 4.2 1.2 + - - -
71C GLY 3.2 16.1 + - - +
73C LEU* 1.3 77.2 - - - +
75C PRO* 1.3 69.4 - - + +
77C ALA 3.3 0.3 + - - -
78C HIS* 2.9 26.0 + - - +
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Residues in contact with PRO 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C GLU* 3.3 30.1 - - - +
71C GLY 4.3 2.0 - - - +
72C ASP* 3.7 15.0 - - - +
73C LEU 3.7 0.2 - - - -
74C ALA* 1.3 93.2 - - + +
76C LEU* 1.3 61.0 + - - +
78C HIS* 3.3 7.6 + - + +
79C GLU* 3.0 27.9 + - - +
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Residues in contact with LEU 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A LEU* 4.0 16.4 - - + -
94A LEU* 3.8 25.1 - - + -
51C VAL* 4.0 17.9 - - + +
54C GLU* 3.9 16.1 - - + +
55C ILE* 3.7 25.4 - - + -
58C LEU* 3.8 30.1 - - + -
72C ASP 5.2 0.6 + - - -
73C LEU* 3.4 9.1 + - + +
74C ALA 3.3 0.4 - - - -
75C PRO* 1.3 77.7 - - - +
77C ALA* 1.3 58.5 + - - +
79C GLU* 3.2 1.5 + - - +
80C LEU* 2.8 48.0 + - + +
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Residues in contact with ALA 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A LEU* 4.1 18.2 - - + +
96A ILE* 3.9 24.9 - - + +
101A VAL* 3.7 6.8 - - + +
134A VAL* 4.2 5.2 - - + -
138A ILE* 4.2 14.4 - - + -
73C LEU 2.9 17.6 + - - +
74C ALA 3.7 4.3 - - - +
76C LEU* 1.3 76.5 - - - +
78C HIS* 1.3 57.7 + - - +
80C LEU* 3.3 2.9 + - - +
81C ALA* 2.9 30.1 + - - +
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Residues in contact with HIS 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A VAL* 4.5 2.5 - - - -
105A VAL* 3.9 17.0 - - + +
129A TRP* 6.4 0.7 - + - -
131A PRO* 5.0 6.7 - - + -
132A ALA* 3.9 33.5 + - + +
134A VAL* 3.5 25.1 + - + +
74C ALA 2.9 17.1 + - - +
75C PRO* 3.5 8.1 - - + +
77C ALA* 1.3 76.7 - - - +
79C GLU* 1.3 63.6 + - + +
81C ALA* 3.2 3.7 + - - +
82C ASP* 2.9 43.9 + - - -
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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
----------------------------------------------------------
47C ALA 4.7 1.6 - - - +
50C GLU* 3.0 20.9 - - + +
51C VAL* 3.4 31.1 - - + +
54C GLU* 3.7 24.1 - - + +
75C PRO* 3.0 21.0 + - - +
76C LEU* 3.8 3.6 - - - +
78C HIS* 1.3 82.8 - - - +
80C LEU* 1.3 57.7 + - - +
82C ASP* 3.3 6.7 + - - +
83C LEU* 3.0 22.7 + - - +
203C MN 2.5 34.8 + - - -
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Residues in contact with LEU 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A LEU* 4.0 15.5 - - + -
87A THR* 3.5 25.5 - - + +
90A ALA* 4.2 17.3 - - + -
91A LEU* 3.9 35.2 - - + -
94A LEU* 4.1 12.6 - - + -
51C VAL* 3.8 25.4 - - + -
55C ILE* 5.9 0.9 - - + -
76C LEU* 2.8 46.5 + - + +
77C ALA 3.8 4.0 - - - +
79C GLU* 1.3 71.7 - - - +
81C ALA* 1.3 57.9 + - - +
83C LEU* 3.2 3.0 + - + +
84C LEU* 2.9 24.3 + - - +
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Residues in contact with ALA 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A LEU* 4.6 3.1 - - + +
98A ALA 5.5 0.4 - - - +
101A VAL* 3.6 22.4 - - + -
102A PHE* 4.1 14.8 - - + +
105A VAL* 3.8 16.8 - - + -
77C ALA 2.9 17.2 + - - +
78C HIS 3.5 4.9 - - - +
80C LEU* 1.3 74.7 - - - +
82C ASP* 1.3 59.9 + - - +
84C LEU* 3.4 15.5 + - + +
85C TYR* 2.8 28.3 + - - +
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Residues in contact with ASP 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A VAL* 3.4 13.3 - - - +
47C ALA* 4.4 4.7 - - + -
78C HIS* 2.9 29.2 + - - -
79C GLU* 3.3 12.4 + - - +
81C ALA* 1.3 77.0 - - - +
83C LEU* 1.3 61.2 + - - +
85C TYR* 3.1 3.3 + - - +
86C VAL* 3.0 27.5 + - - +
201C UMP 2.5 40.7 + - - +
203C MN 2.2 39.2 + - - +
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Residues in contact with LEU 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A LEU* 3.9 20.4 - - + -
48A SER* 5.1 3.4 - - - +
83A LEU* 4.5 10.5 - - + -
87A THR* 3.6 24.5 - - + +
44C LEU* 4.2 18.2 - - + +
47C ALA* 3.9 23.1 - - + +
48C SER* 4.2 15.5 - - - +
51C VAL* 4.3 15.9 - - + -
79C GLU 3.0 13.7 + - - +
80C LEU* 3.2 9.6 + - + +
82C ASP* 1.3 72.6 - - - +
84C LEU* 1.3 65.2 + - - +
86C VAL* 3.4 2.9 + - + +
87C THR* 2.8 39.7 + - - +
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Residues in contact with LEU 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A LEU* 3.9 22.7 - - + +
87A THR* 3.6 26.2 - - + +
88A TYR* 3.8 41.7 - - + +
91A LEU* 3.8 23.1 - - + -
98A ALA* 4.4 5.2 - - + +
102A PHE* 3.8 22.4 - - + -
80C LEU 2.9 15.0 + - - +
81C ALA* 3.4 10.5 - - + +
83C LEU* 1.3 74.7 - - - +
85C TYR* 1.3 58.4 + - - +
87C THR* 3.1 1.6 + - - -
88C TYR* 2.9 38.6 + - + -
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Residues in contact with TYR 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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102A PHE* 3.4 34.1 - + - -
105A VAL* 4.2 9.2 - - + -
106A HIS* 2.7 42.3 + - + -
109A ASN* 3.4 31.2 - - + +
13C ARG 4.4 0.2 + - - -
14C LEU* 3.6 26.5 - - + +
17C PHE* 3.2 26.9 - + - +
40C ARG* 4.8 0.2 + - - -
81C ALA 2.8 12.2 + - - +
82C ASP 3.1 10.0 + - - +
84C LEU* 1.3 76.3 - - - +
86C VAL* 1.3 56.3 + - - +
89C GLY* 2.8 23.9 + - - -
201C UMP 3.4 34.1 - - + +
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Residues in contact with VAL 86 (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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40C ARG* 3.2 17.2 + - - +
43C LEU* 3.8 40.8 - - + +
44C LEU* 4.0 20.0 - - + +
47C ALA* 3.9 12.1 - - + -
82C ASP 3.0 11.6 + - - +
83C LEU* 3.5 10.3 - - - +
85C TYR* 1.3 74.6 - - - +
87C THR* 1.3 61.9 - - - +
89C GLY 3.5 0.4 - - - -
90C ALA* 3.1 24.6 + - - +
201C UMP 3.5 35.7 - - + +
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Residues in contact with THR 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A LEU* 3.3 43.2 - - + +
83A LEU* 3.5 16.0 - - + +
84A LEU* 3.6 21.3 - - + +
87A THR* 5.4 0.5 + - - -
44C LEU* 3.5 19.6 - - - +
83C LEU* 2.8 23.5 + - - +
84C LEU 3.7 2.7 - - - -
86C VAL* 1.3 74.8 - - - +
88C TYR* 1.3 65.3 + - - +
89C GLY 3.1 1.1 + - - -
90C ALA* 3.3 5.2 + - - +
91C LEU* 3.3 22.3 + - - +
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Residues in contact with TYR 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ASN* 2.9 24.7 + - - +
84A LEU* 3.9 20.2 - - + +
88A TYR* 2.4 39.0 + + - -
102A PHE* 4.0 17.7 - + - -
10C ASN* 3.5 18.0 + - + +
11C ALA* 3.7 27.1 - - + -
14C LEU* 3.8 19.1 - - + -
84C LEU* 2.9 25.7 + - + +
87C THR* 1.3 76.9 - - - +
89C GLY* 1.3 57.3 + - - +
91C LEU* 3.2 8.0 + - - +
92C ASP* 2.8 30.7 + - - +
98C ALA* 3.6 24.1 - - + +
99C ASP* 4.4 0.5 + - - -
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Residues in contact with GLY 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C LEU* 3.6 18.8 - - - -
18C HIS* 3.5 5.0 - - - -
40C ARG* 3.4 20.0 - - - -
85C TYR 2.8 16.7 + - - -
87C THR 3.1 1.0 - - - -
88C TYR* 1.3 77.7 - - - +
90C ALA* 1.3 55.9 + - - +
93C GLN* 3.0 34.8 + - - +
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Residues in contact with ALA 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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55A ILE* 6.1 1.1 - - + -
76A LEU* 6.3 0.7 - - + -
80A LEU* 3.9 23.6 - - + -
40C ARG* 3.5 33.6 - - + +
44C LEU* 4.8 3.8 - - + -
86C VAL 3.1 14.2 + - - +
87C THR 3.7 7.6 - - - +
88C TYR 3.3 0.4 - - - -
89C GLY* 1.3 73.5 - - - +
91C LEU* 1.3 64.8 + - - +
93C GLN* 3.3 2.6 + - - +
94C LEU* 3.1 31.1 + - + +
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Residues in contact with LEU 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A ALA* 3.9 37.0 - - + +
80A LEU* 3.9 22.0 - - + -
81A ALA* 4.6 6.5 - - + +
84A LEU* 4.1 17.5 - - + -
87C THR 3.3 11.8 + - - +
88C TYR* 3.2 7.9 + - - +
90C ALA* 1.3 78.6 - - - +
92C ASP* 1.3 63.0 + - - +
94C LEU* 3.2 11.2 + - + +
96C ILE* 3.0 51.3 + - + +
98C ALA* 3.5 29.6 - - + +
101C VAL* 5.1 2.9 - - + -
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Residues in contact with ASP 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C ALA 4.5 3.4 - - - +
14C LEU* 4.2 9.2 - - + -
15C HIS* 3.5 27.2 + - - +
18C HIS* 2.7 27.7 + - - +
25C THR* 2.7 30.4 + - - -
26C PRO* 3.5 9.9 - - - +
88C TYR 2.8 16.1 + - - +
89C GLY 3.8 4.5 - - - +
90C ALA 3.3 0.2 - - - -
91C LEU* 1.3 76.2 - - - +
93C GLN* 1.3 56.6 + - - +
95C GLY* 2.9 19.9 + - - -
96C ILE 4.4 5.6 - - - +
98C ALA* 5.7 0.4 - - - +
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Residues in contact with GLN 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C HIS* 3.4 18.2 - - + -
23C ALA* 3.8 10.2 - - - +
24C ALA* 2.9 47.9 + - - +
26C PRO* 3.3 18.0 - - - +
30C THR* 4.9 1.7 - - - +
36C LEU* 3.0 47.2 - - + +
39C LEU* 4.4 7.1 - - - +
40C ARG* 2.9 24.6 + - + +
89C GLY 3.0 21.4 + - - +
90C ALA 3.3 3.5 + - - +
92C ASP* 1.3 76.0 - - - +
94C LEU* 1.3 57.4 + - - +
95C GLY 3.1 0.4 - - - -
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Residues in contact with LEU 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A LEU* 4.1 12.7 - - + +
76A LEU* 3.8 25.6 - - + -
77A ALA 5.4 0.9 - - - +
80A LEU* 4.3 13.5 - - + -
26C PRO* 4.5 1.8 - - - -
29C PRO* 3.4 2.6 - - - +
30C THR 2.9 29.4 + - - +
32C PRO* 3.7 42.0 - - + -
36C LEU* 5.0 2.9 - - + -
37C LEU* 4.7 7.9 - - + -
40C ARG* 6.2 2.5 - - + -
90C ALA* 3.1 17.7 + - + +
91C LEU* 3.6 9.6 - - + +
92C ASP 3.2 0.2 - - - -
93C GLN* 1.3 76.9 - - + +
95C GLY* 1.3 60.5 + - - +
96C ILE* 3.4 25.1 + - + +
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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) + - + + + + + -
------------------------------------------------------------
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