Contacts of the helix formed by residues 44 - 74 (chain B) in PDB entry 6TOS
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 44 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B LYS* 1.4 80.6 - - + +
45B TYR* 1.3 63.7 + - - +
46B ALA* 3.5 3.6 + - - -
47B TRP* 4.3 8.1 + - - +
48B VAL* 4.6 10.6 - - - +
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Residues in contact with TYR 45 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B PRO* 3.7 19.7 - - + -
43B LYS 3.7 0.6 - - - +
44B GLN* 1.3 76.6 - - - +
46B ALA* 1.4 52.3 + - - +
48B VAL* 3.2 17.9 + - + +
49B LEU* 2.9 53.7 + - + +
338B ALA* 3.6 22.9 + - + +
341B THR* 3.7 27.0 - - + +
342B PHE* 3.5 34.8 + - - +
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Residues in contact with ALA 46 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B TYR* 3.6 22.0 - - + -
42B PRO* 3.3 35.5 - - + +
43B LYS 5.4 1.1 - - - +
44B GLN 3.5 1.7 - - - +
45B TYR* 1.4 75.3 - - - +
47B TRP* 1.4 58.6 + - - +
49B LEU* 3.3 7.3 + - - +
50B ILE* 3.0 43.4 + - + +
108B ILE* 4.7 2.6 - - + +
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Residues in contact with TRP 47 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B GLN 4.3 6.0 + - - +
45B TYR 3.6 0.6 - - - -
46B ALA* 1.4 73.1 - - - +
48B VAL* 1.4 78.2 + - + +
50B ILE* 3.5 10.9 + - + +
51B ALA* 3.0 42.8 + - + +
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Residues in contact with VAL 48 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B GLN 4.6 9.2 - - - +
45B TYR* 3.2 18.4 + - + +
47B TRP* 1.4 93.0 - - + +
49B LEU* 1.3 56.9 + - - +
51B ALA* 3.8 2.2 - - - +
52B ALA* 2.9 38.5 + - + +
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Residues in contact with LEU 49 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B PRO* 4.7 6.7 - - + -
45B TYR* 2.9 37.6 + - + +
46B ALA* 3.4 5.8 - - - +
48B VAL* 1.3 74.5 - - - +
50B ILE* 1.3 65.0 + - - +
52B ALA* 4.0 3.4 - - + +
53B TYR* 3.1 56.2 + - + -
104B LEU* 4.5 0.2 - - - -
107B ASP* 4.2 11.7 - - + +
108B ILE* 3.7 25.8 - - + -
341B THR* 3.5 36.1 - - + -
345B TRP* 5.0 8.3 - - + -
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Residues in contact with ILE 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B TYR* 6.4 0.9 - - + -
46B ALA* 3.0 30.6 + - + +
47B TRP* 3.9 9.2 - - + +
49B LEU* 1.3 72.4 - - - +
51B ALA* 1.4 53.3 + - - +
53B TYR* 3.2 4.3 + - - +
54B VAL* 2.9 50.9 + - + +
104B LEU* 4.0 24.5 - - + -
108B ILE* 4.1 22.9 - - + -
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Residues in contact with ALA 51 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B TRP* 3.0 42.0 + - + +
48B VAL* 3.9 3.6 - - - +
50B ILE* 1.4 75.6 - - - +
52B ALA* 1.4 58.5 + - - +
54B VAL* 3.4 4.7 + - - +
55B ALA* 3.0 32.4 + - - +
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Residues in contact with ALA 52 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B VAL* 2.9 27.6 + - + +
49B LEU* 4.0 5.2 - - + +
51B ALA* 1.4 72.3 - - - +
53B TYR* 1.3 56.6 + - - +
55B ALA* 4.1 4.2 - - - +
56B VAL* 3.2 22.3 + - - +
345B TRP* 2.9 40.4 + - + +
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Residues in contact with TYR 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU* 3.1 49.6 + - + +
50B ILE 3.5 4.5 - - - +
52B ALA* 1.3 74.6 - - - +
54B VAL* 1.4 59.9 + - - +
56B VAL* 3.6 1.6 + - - -
57B PHE* 3.0 27.7 + - - +
100B LEU* 3.6 42.3 - - + +
103B SER* 3.0 13.5 + - - -
104B LEU* 3.7 37.0 - - + -
107B ASP* 2.8 24.4 + - - -
344B HIS* 3.6 12.0 - - - +
345B TRP* 3.7 24.9 + + + -
348B TYR* 3.8 20.8 - + - -
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Residues in contact with VAL 54 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B ILE* 2.9 35.7 + - + +
51B ALA* 4.1 5.6 - - - +
53B TYR* 1.4 73.2 - - - +
55B ALA* 1.4 59.9 + - - +
57B PHE* 3.3 11.3 + - + +
58B VAL* 2.9 40.3 + - + +
104B LEU* 4.7 10.5 - - + -
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Residues in contact with ALA 55 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B ALA 3.0 18.4 + - - +
52B ALA* 4.1 5.8 - - - +
54B VAL* 1.4 75.0 - - - +
56B VAL* 1.3 58.2 + - + +
58B VAL* 3.9 4.6 - - - +
59B VAL* 3.0 39.1 + - + +
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Residues in contact with VAL 56 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ALA 3.2 21.6 + - - +
53B TYR* 4.0 3.1 - - - +
54B VAL 3.3 0.2 - - - -
55B ALA* 1.3 75.1 - - + +
57B PHE* 1.4 60.1 + - - +
59B VAL* 4.8 0.2 - - - -
60B ALA* 2.8 32.9 + - + +
100B LEU* 3.8 6.1 - - + -
345B TRP* 3.4 28.3 - - + +
348B TYR* 3.3 43.1 - - + +
349B ALA* 3.7 11.9 - - + +
352B ALA* 4.1 13.3 - - + +
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Residues in contact with PHE 57 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B TYR 3.0 18.8 + - - +
54B VAL* 3.4 13.7 - - + +
56B VAL* 1.4 77.3 - - - +
58B VAL* 1.4 68.9 + - + +
61B LEU* 3.2 57.6 + - + +
96B THR* 3.4 38.5 - - + +
97B ALA* 4.1 9.9 - - - -
100B LEU* 3.8 17.9 - - + +
101B PRO* 4.1 15.5 - - + -
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Residues in contact with VAL 58 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B VAL* 2.9 34.0 + - + +
55B ALA* 4.0 5.4 - - - +
56B VAL 3.4 0.2 - - - -
57B PHE* 1.4 84.3 - - + +
59B VAL* 1.3 65.6 + - + +
61B LEU* 4.0 3.2 - - - +
62B VAL* 3.1 37.0 + - + +
413B SOG 6.4 0.4 - - + -
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Residues in contact with VAL 59 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B ALA* 3.0 25.5 + - + +
56B VAL* 4.2 1.6 - - - +
58B VAL* 1.3 77.2 - - + +
60B ALA* 1.3 56.5 + - - +
63B GLY* 3.0 27.2 + - - -
352B ALA* 3.9 19.3 - - + +
355B PRO* 5.2 0.6 - - + +
356B ILE* 3.9 28.9 - - + -
413B SOG 3.9 27.9 - - + +
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Residues in contact with ALA 60 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B VAL* 2.8 23.2 + - + +
59B VAL* 1.3 72.7 - - - +
61B LEU* 1.4 65.4 + - - +
64B ASN* 2.7 35.5 + - - +
92B ASP 6.0 0.2 - - - -
93B VAL* 4.6 1.4 - - - +
96B THR* 3.5 27.4 - - + +
348B TYR 5.0 1.3 - - - +
351B SER* 3.8 7.2 - - - -
352B ALA* 3.8 23.9 - - + +
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Residues in contact with LEU 61 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B PHE* 3.2 48.4 + - + +
58B VAL* 4.0 4.0 - - - +
60B ALA* 1.4 71.5 - - - +
62B VAL* 1.4 59.6 + - + +
64B ASN* 4.6 0.2 - - - +
65B THR* 2.7 42.7 + - + +
93B VAL* 4.7 16.2 - - + +
96B THR* 3.7 24.7 - - + -
97B ALA* 4.3 18.4 - - + +
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Residues in contact with VAL 62 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B VAL* 3.1 28.1 + - + +
61B LEU* 1.4 75.5 - - + +
63B GLY* 1.3 61.6 + - - +
65B THR* 2.7 19.8 + - - -
66B LEU* 3.1 32.6 + - + +
373B PHE* 4.5 8.7 - - + -
413B SOG 3.8 23.6 - - + -
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Residues in contact with GLY 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B VAL 3.0 18.4 + - - -
62B VAL* 1.3 77.1 - - - +
64B ASN* 1.3 56.1 + - - +
66B LEU* 3.3 9.1 + - - +
67B VAL* 3.2 28.1 + - - +
355B PRO* 3.4 22.1 - - - +
369B PHE* 4.7 0.9 - - - -
413B SOG 4.2 15.7 - - - +
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Residues in contact with ASN 64 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B ALA* 2.7 30.8 + - - +
63B GLY* 1.3 73.1 - - - +
65B THR* 1.3 64.7 + - - +
67B VAL* 3.3 11.0 + - - +
68B CYS* 3.4 19.1 + - - -
89B SER* 2.7 39.2 + - - +
92B ASP* 4.1 13.1 - - - +
93B VAL* 3.8 18.3 - - + +
351B SER 2.8 28.5 + - - +
354B ASN* 5.0 2.4 - - - +
355B PRO* 3.5 13.3 - - - +
358B TYR* 5.6 0.2 - - - -
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Residues in contact with THR 65 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B LEU* 2.7 28.5 + - + +
62B VAL* 2.7 16.3 + - - -
64B ASN* 1.3 74.7 - - - +
66B LEU* 1.4 58.1 + - - +
68B CYS* 3.3 10.9 + - - +
69B LEU* 3.0 39.2 + - - +
93B VAL* 4.8 11.9 - - + -
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Residues in contact with LEU 66 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B VAL* 3.1 30.9 + - + +
63B GLY* 3.5 8.1 - - - +
64B ASN 3.2 0.2 - - - -
65B THR* 1.4 74.6 - - - +
67B VAL* 1.4 54.4 + - - +
69B LEU* 3.7 19.8 - - + +
70B ALA* 2.8 35.0 + - - +
369B PHE* 3.7 22.1 - - + -
372B ALA* 3.6 27.6 - - + -
373B PHE* 3.9 35.0 - - + -
413B SOG 4.6 7.0 - - + -
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Residues in contact with VAL 67 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B GLY 3.2 16.0 + - - +
64B ASN 3.6 2.0 - - - +
65B THR 3.3 0.4 - - - -
66B LEU* 1.4 77.1 - - - +
68B CYS* 1.4 60.0 + - - +
70B ALA* 3.4 1.7 + - - +
71B VAL* 3.3 25.3 + - - +
85B LEU 4.4 9.2 - - - +
86B VAL* 4.5 9.4 - - + -
89B SER* 3.5 29.8 - - - +
355B PRO* 4.0 10.5 - - + -
358B TYR* 3.7 30.7 - - + -
365B PHE* 3.7 24.2 - - + -
369B PHE* 4.0 7.6 - - + -
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Residues in contact with CYS 68 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASN 3.4 14.6 + - - -
65B THR* 3.3 10.0 + - - +
67B VAL* 1.4 75.8 - - - +
69B LEU* 1.3 58.1 + - + +
71B VAL* 3.6 2.4 + - - +
72B TRP* 3.1 29.0 + - - +
86B VAL* 3.7 32.0 - - + +
89B SER* 4.3 12.8 - - - -
90B LEU* 4.4 15.5 - - - -
93B VAL* 6.3 1.6 - - - -
----------------------------------------------------------
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Residues in contact with LEU 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B THR* 3.0 26.0 + - - +
66B LEU* 3.8 22.9 - - + +
68B CYS* 1.3 74.7 - - + +
70B ALA* 1.4 54.3 + - - +
72B TRP* 3.2 27.5 + - + +
73B ARG* 2.7 40.0 + - + +
----------------------------------------------------------
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Residues in contact with ALA 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B LEU 2.8 21.7 + - - +
67B VAL 3.6 5.2 - - - +
69B LEU* 1.4 70.0 - - - +
71B VAL* 1.3 57.0 + - - +
73B ARG* 4.0 0.5 - - - +
74B ASN* 3.0 25.8 + - - +
77B MET* 3.1 18.9 - - + +
365B PHE* 3.9 18.6 - - + -
368B GLN* 3.6 35.7 - - + -
369B PHE* 4.3 2.0 - - + -
----------------------------------------------------------
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Residues in contact with VAL 71 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B VAL 3.3 14.6 + - - +
68B CYS 4.1 1.3 - - - +
70B ALA* 1.3 73.0 - - - +
72B TRP* 1.3 63.2 + - - +
74B ASN 3.3 13.1 - - - +
77B MET* 4.0 20.9 - - + +
78B ARG* 3.1 19.9 + - + +
82B ASN* 4.1 12.3 - - + -
83B TYR* 3.9 29.4 - - + -
86B VAL* 3.6 26.9 - - + -
365B PHE* 3.9 23.8 - - + -
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Residues in contact with TRP 72 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B CYS 3.1 19.3 + - - +
69B LEU* 3.7 29.6 - - + +
71B VAL* 1.3 78.3 - - - +
73B ARG* 1.3 84.7 + - + +
75B HIS* 3.8 5.8 + - - -
78B ARG* 2.8 36.7 + - - +
----------------------------------------------------------
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Residues in contact with ARG 73 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B LEU 2.7 21.3 + - - +
70B ALA 4.0 0.2 - - - +
72B TRP* 1.3 91.7 - - + +
74B ASN* 1.3 59.0 + - - +
75B HIS* 3.7 10.9 + - - -
367B GLU 5.9 0.2 - - - -
368B GLN* 3.1 34.6 + - - +
371B ALA* 3.8 26.1 - - - +
----------------------------------------------------------
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Residues in contact with ASN 74 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B ALA 3.0 6.3 + - - -
71B VAL 3.3 14.6 - - - +
73B ARG* 1.3 73.0 - - - +
75B HIS* 1.4 57.0 + - - +
76B HIS* 3.0 30.5 + - - +
77B MET* 3.0 50.8 + - + +
78B ARG 3.9 0.3 + - - -
364B LYS* 4.8 10.1 + - - +
367B GLU* 5.6 3.2 + - - -
368B GLN* 3.4 30.0 - - - +
----------------------------------------------------------
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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