Contacts of the helix formed by residues 49 - 75 (chain G) in PDB entry 5B31
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 THR 49 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G GLY 3.1 0.4 - - - -
48G ALA* 1.3 87.3 - - + +
50G ALA* 1.3 60.7 + - - +
51G ALA 3.1 2.7 - - - -
52G VAL* 2.9 9.9 + - - +
53G TYR* 2.8 29.5 + - - +
301G CL 3.0 15.7 - - + +
91H SER* 3.1 16.1 + - - -
118H VAL* 3.8 31.4 - - + +
121H TYR* 4.4 15.0 - - + -
122H THR* 5.4 5.4 - - - -
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Residues in contact with ALA 50 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36G LEU* 4.2 3.6 - - + -
46G VAL* 3.9 14.1 - - + -
47G GLY 3.4 3.6 + - - +
49G THR* 1.3 78.5 + - - +
51G ALA* 1.3 58.2 + - - +
53G TYR* 3.4 1.1 + - - +
54G SER* 2.9 34.5 + - - -
301G CL 3.5 1.8 - - - +
89H ILE* 3.4 28.9 - - + +
90H THR* 3.8 2.2 - - - -
91H SER* 3.6 23.3 - - - +
94H ILE* 4.1 9.7 - - + +
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Residues in contact with ALA 51 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19G ARG* 4.0 4.0 - - - +
29G VAL* 3.7 17.8 - - + +
32G ILE* 3.8 7.3 - - - +
33G HIS* 3.5 48.2 - - + +
36G LEU* 4.1 10.8 - - + +
46G VAL* 4.7 0.2 - - - +
47G GLY 4.2 2.4 + - - -
48G ALA 4.8 0.2 - - - +
49G THR* 3.1 0.6 - - - +
50G ALA* 1.3 79.7 - - - +
52G VAL* 1.3 56.6 + - - +
55G ALA* 2.9 31.5 + - - +
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Residues in contact with VAL 52 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G ALA* 3.7 14.6 - - + -
25G LEU* 3.6 1.9 - - + +
29G VAL* 4.0 19.5 - - + -
48G ALA 4.2 2.2 - - - +
49G THR* 2.9 14.2 + - - +
51G ALA* 1.3 77.3 - - - +
53G TYR* 1.3 58.4 + - - +
55G ALA* 3.2 4.5 + - - +
56G ALA* 2.9 27.0 + - - +
117H ALA* 3.7 34.5 - - + +
118H VAL* 3.9 10.1 - - + +
121H TYR* 3.6 42.6 - - + -
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Residues in contact with TYR 53 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49G THR 2.8 17.5 + - - +
50G ALA 3.8 3.6 - - - +
52G VAL* 1.3 70.0 - - - +
54G SER* 1.3 67.2 + - - +
56G ALA* 3.0 9.5 + - - +
57G ILE* 2.9 49.9 + - + +
91H SER* 3.9 25.6 - - - -
94H ILE* 3.5 17.7 - - + -
95H GLN* 2.6 55.2 + - + +
98H VAL* 4.8 2.7 - - + -
110H ALA 4.8 0.2 - - - -
111H VAL* 3.5 17.4 + - - -
114H GLY* 3.7 28.0 - - - -
115H THR* 3.9 6.1 - - - -
118H VAL* 3.9 13.7 - - + -
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Residues in contact with SER 54 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G ILE* 3.9 15.0 - - - -
36G LEU* 4.1 6.6 - - - +
50G ALA 2.9 15.1 + - - -
51G ALA 3.9 3.6 - - - -
53G TYR* 1.3 76.3 - - - +
55G ALA* 1.3 64.0 + - - +
57G ILE* 3.1 7.4 + - - +
58G LEU* 3.0 28.7 + - - +
70H PHE* 4.7 11.2 - - - -
73H ILE* 4.6 7.3 - - - +
94H ILE* 3.3 37.2 - - - +
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Residues in contact with ALA 55 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G LEU* 3.7 14.8 - - + -
27G PHE* 3.8 11.7 - - + +
29G VAL* 3.8 15.5 - - + -
32G ILE* 3.5 26.4 - - + +
51G ALA 2.9 20.0 + - - +
52G VAL 3.4 4.5 - - - +
54G SER* 1.3 77.1 - - - +
56G ALA* 1.3 62.3 + - - +
58G LEU* 3.3 3.3 + - - +
59G GLU* 3.0 24.3 + - - +
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Residues in contact with ALA 56 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G LEU* 3.5 15.2 - - + +
52G VAL 2.9 12.4 + - - +
53G TYR 3.0 8.3 + - - +
55G ALA* 1.3 77.7 - - - +
57G ILE* 1.3 63.5 + - - +
59G GLU* 3.3 3.5 + - - +
60G TYR* 3.0 24.5 + - - +
113H GLU* 3.8 17.8 - - + +
114H GLY* 3.8 7.0 - - - -
117H ALA* 3.6 26.0 - - + -
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Residues in contact with ILE 57 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53G TYR* 2.9 42.0 + - + +
54G SER* 3.1 9.4 + - - +
56G ALA* 1.3 76.1 - - - +
58G LEU* 1.3 67.8 + - + +
60G TYR* 3.4 6.3 + - - +
61G LEU* 3.1 38.5 + - + +
73H ILE* 3.5 29.6 - - + -
94H ILE* 5.2 0.7 - - + -
98H VAL* 3.5 22.0 - - + -
102H LEU* 5.1 0.4 - - + -
110H ALA* 3.2 35.7 - - + +
114H GLY* 3.9 5.4 - - - -
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Residues in contact with LEU 58 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27G PHE* 3.6 17.0 - - + -
32G ILE* 3.9 20.6 - - + -
54G SER* 3.0 14.5 + - - +
55G ALA 3.7 5.4 - - - +
57G ILE* 1.3 79.9 - - + +
59G GLU* 1.3 55.9 + - - +
61G LEU* 4.1 3.4 - - + +
62G THR* 2.7 34.1 + - - -
37H TYR* 4.9 1.8 - - - +
65H PHE* 5.5 1.0 - - + -
66H VAL* 4.1 20.4 - - + +
69H ILE* 3.7 35.9 - - + -
70H PHE* 3.7 40.8 - - + +
73H ILE* 5.3 1.8 - - + -
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Residues in contact with GLU 59 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G GLY 4.9 1.2 - - - +
25G LEU* 3.4 19.4 - - + +
26G GLN* 2.8 47.8 + - - +
27G PHE* 3.1 25.3 + - + +
55G ALA 3.0 15.6 + - - +
56G ALA* 3.7 5.2 - - - +
58G LEU* 1.3 73.8 - - - +
60G TYR* 1.3 60.6 + - - +
62G THR* 3.3 2.9 + - - -
63G ALA* 2.8 30.7 + - + +
44H VAL* 3.8 17.2 - - + +
47H GLN* 4.1 11.4 + - - +
----------------------------------------------------------
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Residues in contact with TYR 60 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G ALA 3.0 16.7 + - - +
57G ILE* 3.7 4.5 - - - +
59G GLU* 1.3 77.1 - - - +
61G LEU* 1.3 76.4 + - + +
63G ALA* 3.0 10.4 + - + +
64G GLU* 2.9 51.3 + - + +
106H LEU* 3.7 31.7 - - + +
109H HIS* 3.0 35.0 + + + +
110H ALA* 3.8 19.7 - - + -
113H GLU* 3.8 34.5 - - + -
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Residues in contact with LEU 61 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57G ILE* 3.1 21.8 + - + +
58G LEU* 4.2 3.1 - - - +
60G TYR* 1.3 89.1 - - + +
62G THR* 1.3 62.5 + - - +
64G GLU* 3.4 5.3 + - + +
65G VAL* 3.0 29.1 + - - +
96G LEU* 5.2 4.3 - - + -
99G LEU* 4.3 9.4 - - + -
65H PHE* 4.1 13.5 - - + -
69H ILE* 3.8 34.5 - - + -
102H LEU* 3.8 30.5 - - + -
106H LEU* 3.7 35.9 - - + -
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Residues in contact with THR 62 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27G PHE* 3.4 23.2 - - + -
58G LEU 2.7 23.3 + - - -
59G GLU* 3.4 5.4 - - - -
61G LEU* 1.3 78.2 - - - +
63G ALA* 1.3 63.1 + - - +
65G VAL* 3.3 2.8 + - - +
66G LEU* 2.9 48.8 + - + +
41H VAL* 4.3 11.0 - - + -
44H VAL* 4.4 9.0 - - + -
62H MET* 3.8 19.7 - - + +
65H PHE* 4.3 3.6 - - - -
66H VAL* 3.7 12.5 - - - +
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Residues in contact with ALA 63 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59G GLU* 2.8 18.1 + - + +
60G TYR* 3.4 12.1 - - + +
62G THR* 1.3 73.0 - - - +
64G GLU* 1.3 54.1 + - - +
66G LEU* 3.2 2.3 + - - +
67G GLU* 2.7 38.4 + - - +
44H VAL* 3.6 21.7 - - + +
47H GLN* 6.1 0.7 - - - +
48H VAL* 3.9 17.9 - - + +
----------------------------------------------------------
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Residues in contact with GLU 64 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G TYR* 2.9 42.0 + - + +
61G LEU* 3.7 11.7 - - - +
63G ALA* 1.3 77.1 - - - +
65G VAL* 1.3 62.1 + - + +
67G GLU* 3.6 9.6 + - - +
68G LEU* 3.1 34.9 + - + +
93G ASP* 5.4 4.0 - - - +
96G LEU* 4.4 15.7 - - + +
106H LEU* 4.4 19.1 - - + +
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Residues in contact with VAL 65 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61G LEU 3.0 20.5 + - - +
62G THR 3.9 3.1 - - - +
64G GLU* 1.3 75.7 - - - +
66G LEU* 1.3 58.7 + - - +
68G LEU* 3.2 2.5 + - - +
69G ALA* 2.8 28.1 + - + +
86G LEU* 3.5 28.0 - - + -
89G ALA* 4.6 1.0 - - + +
90G ILE* 3.9 29.6 - - + -
96G LEU* 4.1 23.3 - - + -
100G ILE* 4.4 0.7 - - + -
62H MET* 3.9 16.2 - - + -
65H PHE* 4.1 18.8 - - + -
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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 THR* 2.9 36.9 + - + +
63G ALA* 3.7 3.4 - - - +
65G VAL* 1.3 73.5 - - - +
67G GLU* 1.3 55.3 + - - +
69G ALA* 4.5 1.3 - - - +
70G GLY* 2.7 31.0 + - - -
81G ILE* 4.0 20.7 - - + +
86G LEU* 5.1 3.8 - - + -
41H VAL* 3.6 28.5 - - + +
44H VAL* 4.3 3.8 - - + -
45H LEU* 3.8 24.0 - - + +
48H VAL* 4.0 11.4 - - + -
49H HIS* 3.4 9.4 - - - -
54H ILE* 4.5 9.9 - - + -
62H MET* 4.3 25.1 - - + -
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Residues in contact with GLU 67 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G ALA 2.7 22.5 + - - +
64G GLU* 3.6 12.1 - - - +
66G LEU* 1.3 72.3 - - - +
68G LEU* 1.3 67.4 + - + +
71G ASN* 3.1 33.2 + - - +
48H VAL* 3.8 20.5 - - + +
49H HIS* 3.0 37.5 + - - -
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Residues in contact with LEU 68 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64G GLU* 3.1 25.5 + - - +
65G VAL* 3.9 2.5 - - - +
67G GLU* 1.3 82.5 - - + +
69G ALA* 1.3 58.6 + - - +
71G ASN* 3.4 19.6 + - + +
72G ALA* 3.1 21.1 + - - +
89G ALA* 3.5 22.4 - - + +
93G ASP* 3.8 26.2 - - + +
96G LEU* 3.4 29.6 - - + -
----------------------------------------------------------
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Residues in contact with ALA 69 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G VAL 2.8 17.0 + - - +
66G LEU* 4.1 0.4 - - - +
68G LEU* 1.3 73.8 - - - +
70G GLY* 1.3 61.1 + - - +
72G ALA* 3.2 3.9 + - - +
73G SER* 3.0 28.1 + - - -
81G ILE* 3.9 19.4 - - + +
85G HIS* 3.9 16.1 - - - +
86G LEU* 3.6 27.4 - - + -
89G ALA* 3.4 10.2 - - + +
----------------------------------------------------------
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Residues in contact with GLY 70 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66G LEU 2.7 22.9 + - - -
69G ALA* 1.3 74.0 - - - +
71G ASN* 1.3 59.5 + - - +
73G SER* 2.9 20.5 + - - -
74G LYS* 2.9 28.0 + - - +
81G ILE* 3.6 8.9 - - - +
49H HIS* 3.5 14.6 - - - -
52H THR* 4.6 1.1 - - - -
----------------------------------------------------------
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Residues in contact with ASN 71 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67G GLU* 3.1 33.4 + - - +
68G LEU* 3.6 21.5 - - - +
69G ALA 3.3 0.4 - - - -
70G GLY* 1.3 71.7 - - - +
72G ALA* 1.3 62.7 + - - +
74G LYS* 3.8 6.3 - - - +
75G ASP* 2.9 43.8 + - - +
49H HIS* 3.2 17.5 - - - -
----------------------------------------------------------
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Residues in contact with ALA 72 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68G LEU 3.1 12.8 + - - +
69G ALA 3.2 9.6 + - - +
71G ASN* 1.3 78.4 - - - +
73G SER* 1.3 59.3 + - - +
75G ASP* 3.6 7.3 + - - +
76G LEU* 3.3 28.6 + - - +
85G HIS* 3.9 27.6 - - + +
88G LEU* 4.4 16.3 - - + +
89G ALA* 4.8 2.9 - - + +
----------------------------------------------------------
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Residues in contact with SER 73 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69G ALA 3.0 10.3 + - - -
70G GLY* 2.9 20.6 + - - -
72G ALA* 1.3 74.5 - - - +
74G LYS* 1.3 63.2 + - - +
76G LEU 3.3 1.4 + - - +
77G LYS 3.1 5.0 + - - -
78G VAL* 2.9 42.4 + - - +
80G ARG 4.2 4.9 - - - -
81G ILE* 3.9 8.4 - - - +
85G HIS* 3.4 34.5 - - - -
52H THR* 4.1 6.8 - - - +
----------------------------------------------------------
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Residues in contact with LYS 74 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G GLY 2.9 30.0 + - - +
71G ASN* 3.9 6.5 - - - +
73G SER* 1.3 79.1 + - - +
75G ASP* 1.3 57.3 + - - +
76G LEU 3.1 0.9 - - - -
77G LYS* 2.7 47.3 + - - +
78G VAL 4.3 7.0 - - - +
49H HIS* 2.6 41.0 + - + +
51H ASP* 3.2 30.3 - - - +
52H THR* 2.9 21.4 + - - +
----------------------------------------------------------
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Residues in contact with ASP 75 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71G ASN* 2.9 29.3 + - - +
72G ALA* 3.9 7.4 - - - +
74G LYS* 1.3 78.4 - - - +
76G LEU* 1.3 63.4 + - + +
77G LYS* 3.3 4.3 - - - +
----------------------------------------------------------
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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