Contacts of the helix formed by residues 46 - 74 (chain G) in PDB entry 6R8Y
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 ALA 46 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G ARG* 4.8 11.3 + - - +
32G HIS* 5.4 6.3 - - + -
44G VAL 4.1 0.4 + - - -
45G GLY* 1.3 73.6 - - - -
47G GLY* 1.3 62.2 + - - +
49G PRO* 3.3 16.9 - - - +
50G VAL* 4.5 7.8 - - - +
122H TYR* 4.8 21.5 + - + +
111I T 3.1 21.6 + - - +
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Residues in contact with GLY 47 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45G GLY 3.2 1.2 - - - -
46G ALA* 1.3 79.6 - - - +
48G ALA* 1.3 67.2 + - - +
50G VAL* 3.1 18.1 + - - +
51G TYR* 3.4 10.0 + - - +
92H SER* 4.5 13.2 - - - -
119H VAL* 4.3 12.0 - - - +
122H TYR* 5.6 6.1 - - - -
111I T 4.7 1.2 + - - -
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Residues in contact with ALA 48 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G LEU* 5.1 5.6 - - + -
44G VAL* 4.5 10.3 - - + -
45G GLY 3.3 9.5 + - - +
47G GLY* 1.3 75.4 - - - +
49G PRO* 1.3 69.8 - - + +
51G TYR* 3.0 7.2 + - - +
52G LEU* 3.0 22.5 + - - +
90H ILE* 4.7 6.5 - - + +
91H THR* 4.3 11.4 - - - +
92H SER* 4.4 14.1 - - - +
95H ILE* 4.1 23.7 - - + +
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Residues in contact with PRO 49 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G ARG* 4.9 1.6 - - - +
28G VAL* 4.2 27.5 - - + +
31G VAL* 3.8 24.7 - - + +
32G HIS* 4.5 19.5 - - + +
35G LEU* 4.8 4.0 - - + -
44G VAL* 4.7 5.6 - - + -
45G GLY 3.4 8.7 - - - +
46G ALA 3.3 15.0 - - - +
48G ALA* 1.3 95.7 - - + +
50G VAL* 1.3 56.7 + - - +
52G LEU* 3.7 7.4 - - + +
53G ALA* 2.8 31.2 + - - +
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Residues in contact with VAL 50 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G ARG* 5.6 0.9 - - + +
22G ALA* 4.4 14.1 - - + -
24G LEU* 4.4 3.1 - - + +
28G VAL* 4.4 21.8 - - + -
46G ALA 4.5 9.2 - - - +
47G GLY* 3.1 9.8 + - - +
48G ALA 3.1 0.8 + - - -
49G PRO* 1.3 79.1 - - - +
51G TYR* 1.3 63.6 + - - +
53G ALA* 3.2 6.4 + - - +
54G ALA* 2.9 23.0 + - - +
118H ALA* 3.7 35.2 - - + +
119H VAL* 4.4 5.6 - - + +
122H TYR* 4.4 31.2 - - + -
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Residues in contact with TYR 51 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G GLY 3.4 7.2 + - - +
48G ALA* 3.0 11.2 + - - +
50G VAL* 1.3 78.9 - - - +
52G LEU* 1.3 63.7 + - - +
54G ALA* 3.2 4.2 + - - +
55G VAL* 3.0 40.9 + - + +
92H SER* 4.3 20.9 - - - -
95H ILE* 4.0 17.3 - - + -
96H GLN* 2.2 62.1 + - + +
99H VAL* 4.9 2.2 - - + -
112H VAL* 3.6 23.1 + - + +
115H GLY* 4.2 35.7 - - - -
116H THR* 4.3 3.8 - - - -
119H VAL* 4.3 8.7 - - + +
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Residues in contact with LEU 52 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G VAL* 4.2 11.9 - - + -
35G LEU* 4.7 12.3 - - + -
48G ALA 3.0 16.4 + - - +
49G PRO* 3.7 4.7 - - + +
51G TYR* 1.3 77.8 - - - +
53G ALA* 1.3 61.9 + - - +
55G VAL* 3.1 10.7 + - + +
56G LEU* 3.0 39.8 + - + +
71H PHE* 3.7 36.6 - - + +
74H ILE* 4.2 37.7 - - + -
75H ALA* 6.0 1.6 - - + +
95H ILE* 4.7 20.4 - - + -
99H VAL* 6.2 0.2 - - + -
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Residues in contact with ALA 53 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G LEU* 4.5 10.8 - - + -
26G PHE* 4.3 14.8 - - + +
27G PRO 3.5 23.8 - - - +
28G VAL* 4.6 3.6 - - + -
31G VAL* 5.3 4.7 - - + +
49G PRO 2.8 19.8 + - - +
50G VAL* 3.6 6.1 - - - +
52G LEU* 1.3 77.4 - - - +
54G ALA* 1.3 62.7 + - - +
56G LEU* 3.2 12.5 + - - +
57G GLU* 2.9 22.9 + - - +
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Residues in contact with ALA 54 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G LEU* 4.4 15.4 - - + +
50G VAL 2.9 16.3 + - - +
51G TYR 3.5 5.2 - - - +
53G ALA* 1.3 77.5 - - - +
55G VAL* 1.3 64.4 + - - +
57G GLU* 3.1 7.4 + - - +
58G TYR* 3.0 24.7 + - - +
114H GLU* 4.0 19.8 - - + +
115H GLY* 4.1 6.5 - - - -
118H ALA* 4.0 21.5 - - + -
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Residues in contact with VAL 55 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51G TYR* 3.0 34.3 + - + +
52G LEU* 3.1 11.9 + - + +
54G ALA* 1.3 78.1 - - + +
56G LEU* 1.3 65.5 + - + +
58G TYR* 3.3 5.4 + - - +
59G LEU* 3.0 39.8 + - + +
74H ILE* 4.9 12.8 - - + -
95H ILE* 5.8 0.2 - - + -
99H VAL* 4.6 20.2 - - + -
103H LEU* 5.4 4.3 - - + -
111H ALA* 4.3 29.4 - - + +
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Residues in contact with LEU 56 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G PHE* 4.0 20.6 - - + -
31G VAL* 5.3 10.8 - - + -
52G LEU* 3.0 36.3 + - + +
53G ALA* 3.2 9.6 + - - +
55G VAL* 1.3 80.9 - - + +
57G GLU* 1.3 62.4 + - - +
59G LEU* 3.4 8.7 + - + +
60G THR* 2.9 29.8 + - - +
38H TYR* 5.6 2.5 - - + -
66H PHE* 6.0 2.5 - - + -
67H VAL* 4.4 32.1 - - + +
70H ILE* 4.3 28.3 - - + -
71H PHE* 5.1 10.8 - - + +
74H ILE* 5.8 0.2 - - + -
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Residues in contact with GLU 57 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G GLY 5.0 0.5 - - - +
24G LEU* 3.2 31.3 - - + +
25G GLN* 3.5 35.5 + - - +
26G PHE* 4.1 19.0 - - + -
53G ALA 2.9 13.2 + - - +
54G ALA* 3.1 9.2 + - - +
56G LEU* 1.3 78.3 - - - +
58G TYR* 1.3 58.5 + - - +
60G THR* 3.2 1.9 + - - -
61G ALA* 2.9 32.0 + - + +
45H VAL* 4.2 16.0 - - + +
48H GLN* 5.1 6.8 + - - +
114H GLU* 5.1 5.9 - - - +
----------------------------------------------------------
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Residues in contact with TYR 58 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54G ALA 3.0 15.5 + - - +
55G VAL* 3.8 3.6 - - - +
57G GLU* 1.3 77.9 - - - +
59G LEU* 1.3 69.1 + - + +
61G ALA* 3.3 7.8 + - + +
62G GLU* 3.0 32.5 + - + +
107H LEU* 3.9 26.9 - - + +
110H HIS* 2.9 37.5 - + + +
111H ALA* 3.6 36.6 - - + -
114H GLU* 4.3 28.3 - - + +
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Residues in contact with LEU 59 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55G VAL* 3.0 36.9 + - + +
56G LEU* 3.8 8.1 - - + +
58G TYR* 1.3 83.0 - - + +
60G THR* 1.3 63.6 + - - +
62G GLU* 3.1 9.8 + - - +
63G ILE* 3.0 29.8 + - + +
94G LEU* 5.4 5.2 - - + -
97G LEU* 5.8 6.7 - - + -
66H PHE* 5.0 22.0 - - + -
70H ILE* 4.8 17.5 - - + -
74H ILE* 6.3 0.2 - - + -
103H LEU* 4.4 16.4 - - + -
107H LEU* 4.1 33.9 - - + -
111H ALA* 5.5 1.1 - - + -
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Residues in contact with THR 60 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G PHE* 3.9 21.6 - - + -
56G LEU 2.9 18.5 + - - -
57G GLU* 3.7 3.8 - - - -
59G LEU* 1.3 76.6 - - - +
61G ALA* 1.3 63.9 + - - +
63G ILE* 3.3 5.8 + - - +
64G LEU* 3.0 41.0 + - + +
42H VAL* 4.6 12.3 - - + -
45H VAL* 4.3 10.1 - - + -
63H MET* 4.3 18.4 - - + +
66H PHE* 5.0 5.5 - - - -
67H VAL* 4.5 12.0 - - - +
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Residues in contact with ALA 61 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57G GLU* 2.9 19.9 + - + +
58G TYR* 3.6 9.0 - - + +
60G THR* 1.3 78.3 - - - +
62G GLU* 1.3 62.5 + - - +
64G LEU* 3.9 2.5 - - - +
65G GLU* 2.9 30.0 + - - +
45H VAL* 4.2 18.6 - - + +
48H GLN* 6.2 1.6 - - - +
49H VAL* 4.6 14.9 - - + +
----------------------------------------------------------
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Residues in contact with GLU 62 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G TYR* 3.0 26.9 + - + +
59G LEU* 3.5 13.4 - - - +
61G ALA* 1.3 77.6 - - - +
63G ILE* 1.3 62.6 + - - +
65G GLU* 3.2 8.4 + - - +
66G LEU* 3.1 37.8 + - + +
91G ASP* 5.2 5.9 - - - +
94G LEU* 3.7 29.4 - - - +
107H LEU* 3.0 35.5 - - - +
----------------------------------------------------------
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Residues in contact with ILE 63 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59G LEU* 3.0 21.1 + - + +
60G THR* 3.7 5.8 - - - +
62G GLU* 1.3 77.0 - - + +
64G LEU* 1.3 64.0 + - + +
66G LEU* 3.2 8.1 + - + +
67G ALA* 2.9 20.8 + - - +
84G LEU* 3.9 24.2 - - + -
87G ALA* 4.5 6.2 - - + +
88G ILE* 4.2 22.9 - - + -
94G LEU* 3.8 36.8 - - + -
98G LEU* 5.9 1.3 - - + -
63H MET* 4.2 19.5 - - + -
66H PHE* 5.1 16.4 - - + -
----------------------------------------------------------
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Residues in contact with LEU 64 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G THR* 3.0 30.0 + - + +
61G ALA* 4.0 3.1 - - - +
63G ILE* 1.3 79.8 - - + +
65G GLU* 1.3 58.2 + - - +
67G ALA* 3.1 4.3 + - - +
68G GLY* 2.8 27.2 + - - -
79G ILE* 4.4 13.9 - - + +
84G LEU* 5.1 5.8 - - + -
42H VAL* 4.2 9.2 - - + +
45H VAL* 4.1 12.3 - - + +
46H LEU* 3.9 49.8 - - + +
49H VAL* 5.1 5.6 - - + -
50H HIS* 4.2 5.2 - - - -
55H ILE* 4.6 15.3 - - + -
63H MET* 4.9 14.6 - - + -
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Residues in contact with GLU 65 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61G ALA* 2.9 21.3 + - - +
62G GLU* 3.6 7.1 - - - +
64G LEU* 1.3 78.5 - - - +
66G LEU* 1.3 66.6 + - + +
68G GLY* 3.3 1.4 + - - -
69G ASN* 3.0 23.5 + - + +
72G ARG* 6.2 0.2 - - - +
49H VAL* 4.1 20.4 - - + +
50H HIS* 3.9 15.1 + - + +
----------------------------------------------------------
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Residues in contact with LEU 66 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62G GLU* 3.1 23.6 + - + +
63G ILE* 3.7 3.8 - - - +
65G GLU* 1.3 79.2 - - + +
67G ALA* 1.3 63.4 + - - +
69G ASN* 3.2 11.3 + - + +
70G ALA* 3.0 22.7 + - - +
87G ALA* 3.5 31.1 - - + +
91G ASP* 4.4 11.4 - - + +
94G LEU* 4.1 26.0 - - + -
----------------------------------------------------------
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Residues in contact with ALA 67 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G ILE 2.9 13.7 + - - +
64G LEU* 3.5 10.5 - - - +
66G LEU* 1.3 78.4 - - - +
68G GLY* 1.3 58.3 + - - +
70G ALA* 3.2 4.8 + - - +
71G ALA* 2.8 26.9 + - - +
79G ILE* 4.2 18.1 - - + +
83G HIS* 4.2 16.2 - - + +
84G LEU* 4.0 23.6 - - + -
87G ALA* 4.0 7.5 - - + +
----------------------------------------------------------
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Residues in contact with GLY 68 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64G LEU 2.8 16.0 + - - -
65G GLU 3.8 1.1 - - - -
67G ALA* 1.3 75.5 - - - +
69G ASN* 1.3 60.5 + - - +
71G ALA* 3.1 9.1 + - - +
72G ARG* 2.9 37.2 + - - +
79G ILE* 4.6 7.9 - - - -
50H HIS* 4.0 16.6 - - - -
53H THR* 5.6 3.4 - - - -
----------------------------------------------------------
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Residues in contact with ASN 69 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G GLU* 3.0 14.3 + - + +
66G LEU* 3.6 14.8 - - + +
67G ALA 3.2 0.2 - - - -
68G GLY* 1.3 76.1 - - - +
70G ALA* 1.3 64.6 + - - +
72G ARG* 3.2 35.6 + - - +
73G ASP* 3.0 19.6 + - - +
----------------------------------------------------------
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Residues in contact with ALA 70 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66G LEU 3.0 13.0 + - - +
67G ALA* 3.6 9.6 - - - +
69G ASN* 1.3 76.3 - - - +
71G ALA* 1.3 61.6 + - - +
73G ASP* 3.1 17.9 + - - +
74G ASN* 3.2 18.4 + - - +
83G HIS* 4.7 13.9 - - + +
86G LEU* 4.7 23.8 - - + -
87G ALA* 5.5 1.6 - - + +
----------------------------------------------------------
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Residues in contact with ALA 71 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67G ALA 2.8 14.0 + - - +
68G GLY* 3.2 14.1 - - - +
69G ASN 3.1 0.2 - - - -
70G ALA* 1.3 77.8 - - - +
72G ARG* 1.3 57.8 - - - +
74G ASN* 2.9 18.4 + - - +
75G LYS 2.9 10.0 + - - -
76G LYS 3.3 23.7 + - - +
77G THR 5.6 0.9 - - - -
78G ARG 5.0 2.9 - - - +
79G ILE* 4.9 7.4 - - + -
83G HIS* 4.4 24.4 - - + +
53H THR* 5.6 3.4 - - + -
----------------------------------------------------------
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Residues in contact with ARG 72 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G GLU* 5.1 0.6 + - - +
68G GLY 2.9 10.5 + - - +
69G ASN* 3.2 46.4 + - - +
71G ALA* 1.3 76.3 - - - +
73G ASP* 1.3 61.9 + - - +
74G ASN 3.4 0.3 + - - -
75G LYS* 3.4 15.3 + - - +
76G LYS 4.4 2.7 + - - +
50H HIS* 3.5 29.1 + - - -
----------------------------------------------------------
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Residues in contact with ASP 73 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69G ASN* 3.0 13.2 + - - +
70G ALA* 3.3 14.1 - - - +
71G ALA 3.0 1.0 - - - -
72G ARG* 1.3 79.0 - - - +
74G ASN* 1.3 66.4 + - - +
75G LYS* 3.5 9.9 + - - +
----------------------------------------------------------
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Residues in contact with ASN 74 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G ALA 3.2 10.8 + - - +
71G ALA 2.9 7.5 + - - +
73G ASP* 1.3 88.0 - - - +
75G LYS* 1.3 77.8 + - - +
76G LYS* 3.2 25.8 + - + +
82G ARG* 6.0 1.8 - - - +
83G HIS* 4.2 20.9 + - - +
86G LEU* 4.6 13.1 - - - +
----------------------------------------------------------
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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