Contacts of the helix formed by residues 61 - 87 (chain C) in PDB entry 1A6Z
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 MET 61 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C SER 3.8 7.2 + - - +
60C GLN* 1.3 80.5 + - - +
62C TRP* 1.3 58.9 + - + +
63C LEU 2.8 11.3 + - - -
64C GLN* 3.0 27.5 + - - +
65C LEU* 2.8 43.1 + - + +
168C GLN* 4.3 8.5 - - - -
171C GLN* 2.9 47.1 - - + +
172C LEU* 4.0 33.2 - - + -
175C LEU* 5.6 9.0 - - + -
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Residues in contact with TRP 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C PHE* 4.4 8.1 - + - -
37C VAL* 4.0 8.7 - - + -
46C VAL* 2.9 42.0 + - + +
47C GLU 3.3 24.2 - - - -
48C PRO* 3.3 19.5 - - + -
53C VAL* 3.5 23.8 - - + -
54C SER 4.0 11.4 - - - +
55C SER* 3.7 43.2 - - - +
58C SER 4.3 2.0 + - - +
59C SER* 3.8 10.0 - - - +
60C GLN 3.5 0.8 - - - -
61C MET* 1.3 79.4 - - + +
63C LEU* 1.3 55.9 + - - +
65C LEU* 4.2 22.4 - - + -
66C SER* 3.1 32.2 + - - -
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Residues in contact with LEU 63 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LEU* 6.0 6.1 - - + -
59C SER 3.6 9.2 + - - +
60C GLN* 3.3 15.7 + - - +
61C MET 2.8 1.6 + - - -
62C TRP* 1.3 75.6 - - - +
64C GLN* 1.3 65.1 + - - +
66C SER* 3.2 7.2 + - - -
67C GLN* 3.1 19.3 + - - +
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Residues in contact with GLN 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C GLN 4.4 4.7 - - - +
61C MET* 3.0 55.8 + - - +
63C LEU* 1.3 77.0 - - - +
65C LEU* 1.3 59.6 + - - +
67C GLN* 2.9 18.9 + - - +
68C SER* 2.5 41.3 + - - +
168C GLN* 5.2 8.3 - - + +
171C GLN* 3.9 6.8 + - - +
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Residues in contact with LEU 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C TYR* 3.9 5.2 - - + +
36C PHE* 3.7 20.2 - - + -
37C VAL* 3.7 38.8 - - + -
46C VAL* 4.8 2.2 - - + -
61C MET* 2.8 38.0 + - + +
62C TRP* 4.2 18.6 - - + -
64C GLN* 1.3 80.3 - - - +
66C SER* 1.3 60.2 - - - +
68C SER* 3.7 7.0 - - - -
69C LEU* 3.3 35.5 + - + +
168C GLN* 3.0 29.2 - - - +
172C LEU* 4.8 3.1 - - + -
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Residues in contact with SER 66 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C VAL* 3.7 31.9 - - - +
62C TRP* 3.1 23.1 + - - -
63C LEU* 3.2 6.4 + - - -
64C GLN 3.1 0.4 - - - -
65C LEU* 1.3 78.2 - - - +
67C GLN* 1.3 60.3 + - - +
69C LEU* 4.2 1.9 - - - +
70C LYS* 3.0 36.6 + - - +
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Residues in contact with GLN 67 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A GLN* 3.3 69.5 + - - +
70A LYS* 4.7 8.7 - - - +
71A GLY* 5.2 3.4 - - - +
63C LEU 3.1 10.8 + - - +
64C GLN* 2.9 20.7 + - - +
66C SER* 1.3 77.9 - - - +
68C SER* 1.3 69.6 + - - +
70C LYS* 3.1 5.1 + - - +
71C GLY* 2.9 22.5 + - - -
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Residues in contact with SER 68 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C TYR* 6.0 0.2 - - - -
64C GLN* 2.5 22.3 + - - +
65C LEU* 3.7 10.8 - - - -
67C GLN* 1.3 76.6 - - - +
69C LEU* 1.3 56.6 + - - +
71C GLY* 3.4 1.8 + - - -
72C TRP* 3.0 57.6 + - - -
160C TYR* 5.2 3.6 - - - -
168C GLN* 5.0 9.9 + - - -
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Residues in contact with LEU 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C TYR* 3.9 22.9 - - + -
12C PHE* 4.3 4.1 - - + -
25C PHE* 5.3 0.3 - - - -
27C ALA* 4.2 21.5 - - + -
28C LEU 5.6 0.2 - - - +
37C VAL* 3.9 17.9 - - + -
39C TYR* 4.0 28.6 - - + -
46C VAL* 3.7 26.7 - - + -
65C LEU* 3.3 21.8 + - + +
66C SER* 4.4 3.4 - - - +
67C GLN 3.2 0.4 - - - -
68C SER* 1.3 72.2 - - - +
70C LYS* 1.3 59.8 + - - +
71C GLY 3.1 1.8 - - - -
72C TRP* 3.1 22.0 + - + +
73C ASP* 2.8 29.7 + - - +
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Residues in contact with LYS 70 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A GLN* 4.8 7.6 - - - +
39C TYR* 3.6 20.0 - - + +
44C ARG* 3.5 50.9 + - - +
46C VAL* 4.1 13.5 - - - +
66C SER* 3.0 26.5 + - - +
67C GLN* 3.1 8.4 + - - +
69C LEU* 1.3 76.4 - - - +
71C GLY* 1.3 62.0 + - - +
73C ASP* 3.3 9.5 - - - +
74C HIS* 3.3 30.3 + - + +
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Residues in contact with GLY 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A GLN* 5.2 2.6 - - - +
67C GLN 2.9 13.0 + - - -
68C SER* 3.7 3.8 - - - -
70C LYS* 1.3 75.3 - - - +
72C TRP* 1.3 63.9 + - - +
74C HIS* 3.1 11.8 + - - +
75C MET* 3.0 21.8 + - - +
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Residues in contact with TRP 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C TYR* 4.0 27.8 - + - -
12C PHE* 3.5 36.6 - + + -
68C SER* 3.0 48.4 + - - +
69C LEU* 3.1 11.9 + - + +
71C GLY* 1.3 72.7 - - - +
73C ASP* 1.3 58.0 + - - +
75C MET* 3.7 21.8 - - - +
76C PHE* 2.7 38.3 + - - +
100C LEU* 4.0 21.7 - - + +
114C TRP* 4.2 12.8 - + - -
160C TYR* 3.2 52.3 - + - -
168C GLN* 4.8 1.3 - - - -
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Residues in contact with ASP 73 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C PHE* 3.6 30.8 - - + -
39C TYR* 3.0 27.0 + - - +
41C HIS* 3.2 39.8 + - - -
44C ARG* 5.0 0.2 - - - -
69C LEU 2.8 13.4 + - - +
70C LYS 3.3 11.4 - - - +
72C TRP* 1.3 77.5 - - - +
74C HIS* 1.3 56.4 + - + +
76C PHE* 3.3 2.1 + - - +
77C THR* 2.8 42.8 + - - -
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Residues in contact with HIS 74 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A GLN* 3.7 28.1 + - + +
163A ARG* 4.9 14.6 + - - -
164A ASP* 5.5 3.4 + - - -
41C HIS* 6.6 0.4 - + - -
70C LYS* 3.3 17.1 + - + +
71C GLY* 3.1 10.6 + - - +
73C ASP* 1.3 82.3 + - + +
75C MET* 1.3 58.0 + - - +
77C THR* 3.1 9.3 + - - -
78C VAL* 2.9 32.4 + - - +
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Residues in contact with MET 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C GLY 3.0 10.3 + - - +
72C TRP* 3.7 21.5 - - + +
74C HIS* 1.3 75.8 - - - +
76C PHE* 1.3 61.4 + - - +
78C VAL* 3.1 8.6 + - + +
79C ASP* 2.8 44.0 + - - +
114C TRP* 3.9 31.4 - - + -
153C ARG* 3.7 33.2 - - + +
157C ASN* 3.9 15.5 - - - +
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Residues in contact with PHE 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C PHE* 3.9 13.9 - - + -
13C MET 4.2 1.3 - - - -
14C GLY* 3.5 17.5 - - - -
23C SER* 6.2 0.2 - - - -
24C LEU 4.6 2.9 - - - -
25C PHE* 3.2 39.0 - + + -
72C TRP 2.7 22.2 + - - +
73C ASP 3.4 4.0 - - - +
75C MET* 1.3 72.1 - - - +
77C THR* 1.3 59.3 + - - +
79C ASP* 3.1 8.8 + - - +
80C PHE* 2.7 59.2 + + - +
96C LEU* 3.5 45.6 - - + +
98C VAL* 3.7 24.5 - - + -
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Residues in contact with THR 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ILE* 4.2 4.9 - - + -
156A GLN* 4.1 14.8 - - - +
23C SER* 5.5 5.6 - - - +
41C HIS* 4.9 4.5 + - - -
73C ASP* 2.8 30.2 + - - -
74C HIS* 3.1 10.1 + - - -
76C PHE* 1.3 83.6 - - - +
78C VAL* 1.3 62.6 + - - +
80C PHE* 3.3 5.5 + - + +
81C TRP* 3.0 49.6 + - + +
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Residues in contact with VAL 78 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ILE* 4.1 23.7 - - + +
153A ARG* 5.6 5.8 - - + +
156A GLN* 3.2 31.9 - - + +
74C HIS 2.9 14.9 + - - +
75C MET* 3.5 9.0 - - - +
77C THR* 1.3 74.7 - - - +
79C ASP* 1.3 65.2 + - - +
81C TRP* 3.3 4.0 + - - +
82C THR* 2.9 40.1 + - - +
153C ARG* 6.1 0.7 - - - +
----------------------------------------------------------
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Residues in contact with ASP 79 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C MET* 2.8 32.9 + - - +
76C PHE* 3.5 7.3 - - - +
78C VAL* 1.3 79.9 - - - +
80C PHE* 1.3 61.0 + - - +
82C THR* 3.2 7.0 + - - -
83C ILE* 2.8 37.7 + - + +
96C LEU* 4.4 3.8 - - + -
116C TYR* 3.1 34.3 + - + -
147C TRP* 3.8 14.1 + - + -
153C ARG* 3.5 28.8 + - - -
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Residues in contact with PHE 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C GLY 3.6 20.4 - - - -
15C ALA 3.6 13.9 - - - -
16C SER* 3.5 7.6 - - - -
23C SER* 4.5 11.7 - - - -
76C PHE* 2.7 38.7 + + - +
77C THR* 3.5 8.1 - - - +
79C ASP* 1.3 73.1 - - - +
81C TRP* 1.3 60.5 + + + +
83C ILE* 3.4 2.7 + - + +
84C MET* 2.8 55.0 + - + +
94C HIS 3.5 24.7 - - - -
95C THR 4.2 3.4 - - - -
96C LEU* 3.6 35.6 - - + +
118C TYR* 4.3 7.4 - + - -
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Residues in contact with TRP 81 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ILE* 3.7 41.4 - - + +
155A ARG* 6.2 3.1 - - - -
21C GLY* 5.7 3.8 - - - -
22C LEU* 4.7 24.4 - - - +
23C SER* 4.9 7.7 + - - -
77C THR* 3.0 39.2 + - + +
78C VAL 3.6 3.4 - - - +
80C PHE* 1.3 81.1 - + + +
82C THR* 1.3 53.3 + - - +
84C MET* 3.8 25.5 - - + +
85C GLU* 2.8 69.3 + - + +
89C HIS 5.9 1.6 - - - -
90C SER* 6.6 0.2 - - - -
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Residues in contact with THR 82 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A HIS* 3.6 25.4 + - - +
78C VAL* 2.9 28.3 + - - +
79C ASP* 3.5 8.8 + - - -
81C TRP* 1.3 77.0 - - - +
83C ILE* 1.3 62.1 + - - +
85C GLU 3.5 0.2 + - - -
86C ASN* 3.1 31.7 + - - +
143C THR* 4.2 7.9 - - + +
146C GLU* 3.6 29.2 + - - +
147C TRP* 4.3 18.6 + - - +
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Residues in contact with ILE 83 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C ASP 2.8 22.4 + - - +
80C PHE* 3.9 3.4 - - - +
82C THR* 1.3 73.3 - - - +
84C MET* 1.3 67.9 + - - +
86C ASN* 3.1 8.7 + - - +
87C HIS* 2.9 23.1 + - + -
96C LEU* 3.8 24.7 - - + -
116C TYR* 4.2 17.0 - - + -
118C TYR* 3.4 39.0 - - + -
123C HIS* 3.9 26.5 - - + +
124C LEU* 4.6 0.2 - - + -
143C THR* 3.9 25.8 - - + +
147C TRP* 4.6 9.6 - - + -
----------------------------------------------------------
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Residues in contact with MET 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C SER* 3.5 37.0 - - - +
17C GLU 5.7 0.7 - - - +
80C PHE* 2.8 39.8 + - + +
81C TRP* 3.8 25.8 - - + +
83C ILE* 1.3 77.8 - - - +
85C GLU* 1.3 62.2 + - - +
87C HIS* 3.1 11.1 + - - +
89C HIS* 3.2 46.3 + - + +
90C SER* 4.5 6.5 - - - +
92C GLU 4.5 4.5 - - - +
94C HIS* 4.2 9.2 - - + -
118C TYR* 3.3 23.6 - - + +
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Residues in contact with GLU 85 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A ARG 3.9 2.5 - - - +
150A HIS* 2.6 54.5 + - + +
151A LYS* 4.9 6.8 + - - +
152A ILE 5.5 1.6 + - - -
81C TRP* 2.8 46.6 + - + +
84C MET* 1.3 74.1 - - + +
86C ASN* 1.3 60.2 + - - +
87C HIS 3.1 0.4 - - - -
88C ASN* 3.2 23.1 + - - +
89C HIS 4.8 7.0 - - - +
----------------------------------------------------------
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Residues in contact with ASN 86 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A ARG* 3.3 21.0 + - - +
150A HIS* 3.4 12.6 - - - -
82C THR* 3.1 18.7 + - - +
83C ILE 3.7 4.5 - - - +
84C MET 3.1 1.0 - - - -
85C GLU* 1.3 77.4 - - - +
87C HIS* 1.3 61.7 + - - +
88C ASN 3.5 0.2 - - - -
139C ARG* 4.1 12.0 - - - +
142C PRO* 4.1 20.0 - - + +
143C THR* 2.9 39.6 + - - +
146C GLU* 3.1 19.8 + - - -
----------------------------------------------------------
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Residues in contact with HIS 87 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C ILE* 2.9 21.4 + - + -
84C MET 3.1 3.9 + - - +
86C ASN* 1.3 79.3 - - + +
88C ASN* 1.3 73.2 + - - +
89C HIS* 3.2 45.7 + + + +
118C TYR* 3.5 20.8 - + - -
123C HIS* 3.1 35.8 - + - -
137C GLU* 4.0 5.7 + - - -
139C ARG* 3.5 48.5 - - + +
----------------------------------------------------------
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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