Contacts of the helix formed by residues 77 - 108 (chain H) in PDB entry 3Q84
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 TYR 77 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G ARG* 3.1 37.0 + - + -
238G GLU* 3.0 31.5 + - - +
241G ARG* 5.0 1.3 - - - -
242G LEU* 4.6 5.5 - - + +
75H PRO 3.6 14.8 - - - +
76H GLN* 1.3 101.5 + - - +
78H GLY* 1.3 69.1 + - - +
79H SER 3.9 0.5 + - - -
80H LEU 4.0 1.4 + - - -
81H GLU* 3.7 8.5 + - - -
283H ASP* 3.8 36.4 + - + +
284H LEU 4.8 0.2 + - - -
286H TRP* 3.3 39.7 - + + -
287H PHE* 4.0 9.8 - + + +
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Residues in contact with GLY 78 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77H TYR* 1.3 76.7 - - - +
79H SER* 1.3 66.1 + - - -
81H GLU* 3.0 18.7 + - - +
82H ARG* 3.2 28.6 + - - -
283H ASP* 3.7 7.9 - - - -
286H TRP* 5.5 6.6 - - - -
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Residues in contact with SER 79 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H GLY* 1.3 72.1 - - - -
80H LEU* 1.3 56.6 + - - +
82H ARG* 3.5 23.3 + - - +
83H ALA* 2.8 27.7 + - - +
277H GLY 5.0 1.3 - - - -
278H ALA* 3.8 8.1 - - - +
279H ASP 3.0 30.7 + - - -
282H GLU* 3.7 18.1 - - - -
283H ASP* 2.8 28.5 + - - -
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Residues in contact with LEU 80 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242G LEU* 4.2 19.7 - - + +
245G LEU* 3.7 32.8 - - + +
246G LYS* 4.4 16.8 - - + +
249G LEU* 4.2 13.0 - - + -
76H GLN* 3.6 20.5 - - - +
78H GLY 3.2 0.8 - - - -
79H SER* 1.3 81.1 - - - +
81H GLU* 1.3 66.7 + - - +
83H ALA* 3.8 1.5 - - - +
84H TRP* 2.9 25.5 + - - +
278H ALA* 4.0 19.7 - - + -
279H ASP 4.3 9.6 - - - +
280H ALA 4.8 2.0 - - - +
283H ASP* 3.1 18.3 + - - +
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Residues in contact with GLU 81 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71H ILE* 3.7 29.1 - - + +
72H GLU* 3.9 21.5 - - - +
76H GLN* 3.4 32.7 - - + +
77H TYR* 3.7 13.5 + - - -
78H GLY 3.0 20.2 + - - +
80H LEU* 1.3 76.9 - - - +
82H ARG* 1.3 60.8 + - - +
84H TRP* 3.7 3.4 - - - +
85H GLY* 2.9 24.9 + - - -
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Residues in contact with ARG 82 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H GLY* 3.2 29.8 + - - -
79H SER* 3.5 22.0 + - - +
81H GLU* 1.3 80.5 + - + +
83H ALA* 1.3 64.2 + - - +
85H GLY* 3.3 3.4 + - - +
86H ALA* 3.0 21.7 + - - +
274H ALA* 5.3 1.1 - - - +
282H GLU* 5.0 9.7 + - - -
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Residues in contact with ALA 83 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249G LEU* 3.9 16.5 - - + +
79H SER 2.8 21.5 + - - +
80H LEU* 3.3 5.3 + - - +
82H ARG* 1.3 72.9 - - - +
84H TRP* 1.3 57.9 + - - +
86H ALA* 3.0 23.6 - - - +
87H ILE* 4.0 2.9 + - - +
274H ALA 3.8 17.7 - - - +
275H ILE* 4.0 15.6 - - + +
278H ALA* 3.5 22.4 - - + -
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Residues in contact with TRP 84 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38G LEU* 4.4 13.2 - - + -
41G ASP* 3.9 24.2 - - + -
42G LEU* 3.9 31.2 - - + +
45G CYS* 3.8 20.4 - - + -
245G LEU* 5.8 9.2 - - + -
249G LEU* 3.8 28.6 - - + +
67H TRP* 4.3 15.7 - + - -
71H ILE* 3.7 41.5 - - + +
76H GLN* 4.1 29.4 - - + -
80H LEU 2.9 16.4 + - - +
81H GLU 3.7 2.5 - - - +
83H ALA* 1.3 71.6 - - - +
85H GLY* 1.3 63.2 + - - +
86H ALA 3.0 5.2 + - - -
87H ILE* 3.1 22.8 + - + +
88H MSE 3.3 7.7 - - - +
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Residues in contact with GLY 85 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H ARG* 5.4 3.1 + - - +
71H ILE* 4.2 3.9 - - - +
81H GLU 2.9 15.1 + - - -
82H ARG* 3.3 6.9 + - - -
84H TRP* 1.3 73.9 - - - +
86H ALA* 1.3 58.7 + - - +
88H MSE 2.6 34.5 + - - +
89H THR* 3.5 13.2 + - - -
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Residues in contact with ALA 86 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82H ARG 3.0 10.7 + - - +
83H ALA 3.0 17.5 - - - +
84H TRP 3.0 0.6 + - - -
85H GLY* 1.3 75.8 - - - +
87H ILE* 1.3 63.1 + - - +
89H THR* 3.2 11.6 + - - -
90H GLU 3.2 17.2 + - - -
271H LEU* 3.7 20.2 - - + +
274H ALA* 3.7 28.5 - - + -
275H ILE* 4.8 0.4 - - + -
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Residues in contact with ILE 87 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42G LEU* 6.1 0.4 - - + -
45G CYS* 6.1 2.0 - - - -
249G LEU* 3.8 35.7 - - + +
252G ILE* 3.9 25.6 - - + -
253G LYS 5.4 0.7 - - - +
256G LEU* 4.0 21.5 - - + -
63H TRP* 3.7 24.0 - - + -
83H ALA 4.6 2.7 - - - +
84H TRP* 3.1 17.3 + - + +
86H ALA* 1.3 75.9 - - - +
88H MSE 1.3 62.8 + - - +
90H GLU* 3.0 14.2 - - + +
91H ALA* 3.0 19.6 + - - +
271H LEU* 4.2 20.0 - - + -
275H ILE* 4.8 0.2 - - + -
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Residues in contact with MSE 88 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45G CYS* 5.2 1.1 - - - -
63H TRP* 4.3 11.2 - - + -
64H ALA* 3.5 34.3 - - + +
67H TRP* 3.7 24.7 - - + -
68H ARG* 3.9 26.0 - - + +
71H ILE* 3.4 20.4 - - + -
84H TRP* 3.3 12.6 - - - +
85H GLY* 2.6 45.9 + - - +
86H ALA 3.3 0.4 - - - -
87H ILE* 1.3 76.5 - - - +
89H THR* 1.3 67.6 + - - +
91H ALA* 3.3 7.6 + - - +
92H ASP* 2.9 28.0 + - - +
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Residues in contact with THR 89 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H ARG* 4.6 5.5 + - - +
85H GLY 3.5 10.0 + - - -
86H ALA* 3.2 13.4 + - - -
88H MSE 1.3 77.2 - - - +
90H GLU* 1.3 65.0 + - - +
92H ASP* 2.9 12.5 + - + +
93H LYS* 2.8 46.6 + - + +
270H GLU* 4.7 11.0 - - - +
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Residues in contact with GLU 90 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49G ARG* 2.7 41.9 + - - -
256G LEU* 3.5 10.8 - - - +
86H ALA 3.2 7.7 + - - +
87H ILE* 3.0 21.7 + - + +
89H THR* 1.3 76.2 - - - +
91H ALA* 1.3 62.2 + - - +
93H LYS* 3.0 10.7 + - - +
94H VAL* 2.7 41.5 + - - +
267H VAL* 4.1 18.6 - - + +
268H TYR* 2.9 30.2 + - + -
271H LEU* 4.0 28.0 - - + -
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Residues in contact with ALA 91 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49G ARG* 4.4 2.7 - - - +
60H LEU* 3.9 22.2 - - + +
63H TRP* 3.6 35.7 - - + -
64H ALA* 4.3 1.3 - - + -
87H ILE 3.0 6.4 + - - +
88H MSE 3.4 9.6 - - - +
89H THR 3.2 0.2 - - - -
90H GLU* 1.3 83.5 - - - +
92H ASP* 1.3 64.3 + - - +
94H VAL* 3.2 3.7 + - - +
95H SER* 2.9 25.7 + - - -
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Residues in contact with ASP 92 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61H THR* 3.6 23.9 - - - +
64H ALA* 3.8 13.4 - - - +
68H ARG* 3.1 32.4 + - - -
88H MSE 2.9 14.4 + - - +
89H THR* 2.9 11.7 + - + +
91H ALA* 1.3 72.4 - - - +
93H LYS* 1.3 60.6 + - + +
95H SER* 3.3 6.2 + - - -
96H GLU* 2.9 30.8 + - - +
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Residues in contact with LYS 93 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89H THR* 2.8 32.5 + - + +
90H GLU* 3.4 9.2 - - - +
92H ASP* 1.3 75.9 - - + +
94H VAL* 1.3 64.9 + - - +
96H GLU* 3.2 18.0 + - - +
97H LEU* 3.1 27.0 + - - +
267H VAL* 4.0 28.9 - - + -
270H GLU* 3.2 30.1 - - - +
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Residues in contact with VAL 94 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49G ARG* 5.3 3.4 - - - +
56H TYR* 4.2 6.5 - - + +
60H LEU* 3.3 22.4 - - + -
90H GLU* 2.7 26.9 + - - +
91H ALA* 3.9 2.9 - - - +
93H LYS* 1.3 73.9 - - - +
95H SER* 1.3 61.0 + - - +
97H LEU* 3.2 16.0 + - + +
98H HIS* 3.2 32.6 + - + +
258H LEU* 5.8 0.2 - - + -
264H TYR* 4.2 20.4 - - + +
267H VAL* 4.4 9.6 - - + -
268H TYR* 3.8 22.7 - - - +
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Residues in contact with SER 95 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57H GLY* 2.3 37.8 + - - -
60H LEU* 3.7 14.4 - - - -
61H THR* 3.5 12.9 + - - +
91H ALA 2.9 17.9 + - - -
92H ASP* 3.4 8.5 - - - -
94H VAL* 1.3 76.6 - - - +
96H GLU* 1.3 65.1 + - - +
98H HIS* 3.4 1.8 + - - +
99H GLN* 3.1 27.5 + - - +
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Residues in contact with GLU 96 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92H ASP* 2.9 15.4 + - - +
93H LYS* 3.3 22.8 + - - +
95H SER* 1.3 80.3 - - - +
97H LEU* 1.3 58.6 + - + +
99H GLN* 3.5 6.5 + - - +
100H GLU* 3.0 46.2 + - + +
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Residues in contact with LEU 97 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93H LYS 3.1 14.7 + - - +
94H VAL* 3.2 12.0 + - - +
96H GLU* 1.3 81.5 - - + +
98H HIS* 1.3 56.6 + - - +
100H GLU* 3.3 20.7 + - - +
101H VAL* 3.1 28.6 + - - +
258H LEU* 4.4 20.4 - - + +
261H ASN* 3.8 26.9 - - - +
263H SER* 4.7 9.0 - - - -
264H TYR* 3.7 41.1 - - + +
267H VAL* 4.7 8.7 - - + -
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Residues in contact with HIS 98 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G TYR* 3.5 16.5 + + - -
98G HIS* 5.4 3.2 - - - -
53H GLU* 2.8 49.0 + - - +
56H TYR* 3.3 36.0 - + + -
57H GLY* 4.5 4.5 - - - -
60H LEU* 4.9 0.4 - - + -
94H VAL* 3.2 33.1 + - + +
95H SER 4.1 3.4 - - - +
97H LEU* 1.3 73.2 - - - +
99H GLN* 1.3 60.3 + - - +
101H VAL* 3.2 10.1 + - + +
102H LYS* 2.8 27.9 + - - +
258H LEU* 3.7 28.3 - - + +
264H TYR* 5.8 0.6 + - - -
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Residues in contact with GLN 99 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54H LYS* 3.0 36.7 + - - +
57H GLY* 3.6 29.7 - - - -
58H GLN* 3.7 10.0 - - - +
61H THR* 5.2 1.2 + - - -
95H SER* 3.1 17.7 + - - +
96H GLU* 3.6 6.7 - - - +
98H HIS* 1.3 75.3 - - - +
100H GLU* 1.3 61.1 + - - +
102H LYS* 3.2 30.6 + - - +
103H ASN* 2.8 36.5 + - - +
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Residues in contact with GLU 100 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96H GLU* 3.0 34.4 + - + +
97H LEU* 3.3 28.1 + - - +
99H GLN* 1.3 73.1 - - + +
101H VAL* 1.3 60.8 + - - +
103H ASN* 3.4 5.8 + - - +
104H ASN* 3.0 37.5 + - - +
261H ASN* 4.7 5.4 - - - +
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Residues in contact with VAL 101 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53H GLU* 3.8 26.7 - - + +
97H LEU 3.1 18.4 + - - +
98H HIS* 3.2 11.6 + - + +
100H GLU* 1.3 71.7 - - - +
102H LYS* 1.3 68.5 + - - +
104H ASN* 3.0 6.9 + - - +
105H LEU* 2.9 33.1 + - + +
255H HIS 3.2 28.5 - - - +
256H LEU* 3.9 22.4 - - + +
258H LEU* 4.1 20.0 - - + -
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Residues in contact with LYS 102 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50H ALA* 3.5 36.1 - - + +
53H GLU* 4.3 1.2 - - + +
54H LYS* 3.4 36.1 - - + +
98H HIS 2.8 13.6 + - - +
99H GLN* 3.2 39.6 + - - +
101H VAL* 1.3 78.6 - - - +
103H ASN* 1.3 96.8 + - - +
105H LEU* 3.5 1.4 + - - +
106H LEU* 3.2 32.8 + - + +
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Residues in contact with ASN 103 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99H GLN* 2.8 22.7 + - - +
100H GLU* 3.4 5.1 + - - +
101H VAL 3.2 0.4 - - - -
102H LYS* 1.3 103.8 + - - +
104H ASN* 1.3 59.5 + - - +
106H LEU* 3.4 5.4 + - - +
107H ASN* 2.8 56.5 + - - +
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Residues in contact with ASN 104 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100H GLU* 3.0 25.4 + - - +
101H VAL* 3.6 3.3 - - - +
103H ASN* 1.3 75.9 - - - +
105H LEU* 1.3 61.4 + - - +
107H ASN* 5.8 0.6 - - - +
108H GLU* 2.8 54.4 + - - +
109H ASP 3.3 1.7 + - - -
255H HIS* 3.6 38.7 + - + +
----------------------------------------------------------
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Residues in contact with LEU 105 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46H VAL* 3.4 30.9 - - + +
49H ARG* 3.9 28.3 - - + -
50H ALA* 4.0 22.0 - - + +
53H GLU* 4.6 0.2 - - + -
101H VAL* 2.9 39.4 + - + +
102H LYS 3.8 3.4 - - - +
104H ASN* 1.3 72.0 - - - +
106H LEU* 1.3 57.4 + - - +
109H ASP* 3.5 19.8 + - - +
110H LEU* 3.1 23.4 + - - +
252H ILE* 4.3 20.0 - - + -
255H HIS* 4.4 7.6 - - + -
256H LEU* 4.0 8.1 - - + -
----------------------------------------------------------
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Residues in contact with LEU 106 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47H GLN* 4.2 18.6 - - + +
50H ALA* 3.8 23.3 - - + -
102H LYS* 3.2 28.8 + - + +
103H ASN* 4.1 5.4 - - - +
104H ASN 3.2 0.2 - - - -
105H LEU* 1.3 77.9 - - + +
107H ASN* 1.3 72.0 + - - +
108H GLU 3.5 0.2 - - - -
110H LEU* 3.7 39.7 - - + +
111H GLU* 4.0 14.2 - - - +
----------------------------------------------------------
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Residues in contact with ASN 107 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103H ASN* 2.8 45.0 + - - +
104H ASN* 5.1 0.9 - - - +
106H LEU* 1.3 83.6 - - - +
108H GLU* 1.3 76.1 + - + +
111H GLU* 3.9 17.7 - - - +
----------------------------------------------------------
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Residues in contact with GLU 108 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H ASN* 2.8 38.2 + - - +
107H ASN* 1.3 90.9 - - + +
109H ASP* 1.3 71.3 + - - +
110H LEU 3.5 0.7 - - - -
111H GLU* 4.2 0.6 - - - +
112H LYS* 3.1 29.3 + - - +
255H HIS* 3.7 13.2 - - + +
----------------------------------------------------------
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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