Contacts of the helix formed by residues 50 - 77 (chain B) in PDB entry 6T90
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 LEU 50 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A PRO* 3.7 27.7 - - + +
48B SER* 3.1 8.2 + - - +
49B GLY* 1.3 80.5 - - - +
51B ILE* 1.3 62.9 - - - +
52B TYR 3.2 3.0 + - - -
53B GLU* 3.4 14.0 + - + +
54B GLU* 3.3 18.9 + - - +
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Residues in contact with ILE 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A PHE* 4.1 18.4 - - + -
120A ILE* 3.5 26.7 - - + +
121A MET* 3.5 32.8 - - - +
122A PRO 3.7 3.6 - - - -
125A ILE* 3.7 17.3 - - + -
35B ILE* 4.4 5.8 - - + -
47B ILE* 3.7 20.6 - - + -
48B SER* 3.1 18.5 + - - +
50B LEU* 1.3 78.6 - - - +
52B TYR* 1.3 63.3 + - - +
54B GLU* 3.1 4.1 + - - +
55B THR* 2.8 44.2 + - - +
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Residues in contact with TYR 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B LYS* 3.8 52.5 - - + -
35B ILE* 3.7 32.7 - - + +
36B ARG* 3.4 32.6 + - + +
47B ILE* 3.6 18.8 + - + +
48B SER 3.9 13.9 - - - -
49B GLY* 3.5 23.8 - - - +
50B LEU 3.2 0.4 - - - -
51B ILE* 1.3 77.4 - - - +
53B GLU* 1.3 64.9 + - + +
55B THR* 3.8 1.7 - - - -
56B ARG* 3.2 43.5 + - - +
82J G 4.7 1.6 + - - -
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Residues in contact with GLU 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B GLN* 5.0 7.3 + - - +
49B GLY 5.8 1.1 - - - +
50B LEU* 3.4 15.4 + - + +
51B ILE 3.2 0.6 - - - -
52B TYR* 1.3 77.2 - - + +
54B GLU* 1.3 67.3 + - - +
56B ARG* 3.1 29.7 + - - +
57B GLY* 3.1 18.4 + - - -
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Residues in contact with GLU 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A PRO* 4.5 16.3 - - + +
125A ILE* 4.0 32.3 - - + +
126A GLN* 3.5 31.6 + - - +
129A ARG* 5.0 9.2 + - - -
50B LEU 3.3 10.5 + - - +
51B ILE* 3.1 7.5 + - - +
53B GLU* 1.3 79.5 - - - +
55B THR* 1.3 62.8 + - - +
57B GLY* 3.2 3.7 + - - -
58B VAL* 3.0 25.0 + - + +
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Residues in contact with THR 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU* 4.2 23.2 - - + +
104A LEU* 6.5 0.2 - - - -
105A PHE* 3.6 24.7 - - + -
125A ILE* 4.3 5.5 - - - +
30B ILE* 6.0 1.3 - - + -
35B ILE* 4.0 23.5 - - + +
38B LEU* 5.7 0.2 - - + -
51B ILE* 2.8 38.4 + - - +
52B TYR 3.8 4.0 - - - -
54B GLU* 1.3 78.3 - - - +
56B ARG* 1.3 62.2 + - - +
58B VAL* 3.2 8.2 + - - +
59B LEU* 3.0 22.2 + - + +
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Residues in contact with ARG 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B ILE* 3.6 41.1 + - + +
28B GLN* 4.3 25.7 + - - +
30B ILE* 2.8 35.0 + - + +
31B THR* 4.1 9.1 - - - +
32B LYS* 4.2 6.9 - - - +
35B ILE* 4.1 16.0 - - + +
52B TYR* 3.2 27.7 + - - +
53B GLU* 3.1 36.2 + - - +
55B THR* 1.3 78.0 - - - +
57B GLY* 1.3 63.2 + - - +
59B LEU* 3.3 7.5 + - - +
60B LYS* 3.0 24.8 + - - +
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Residues in contact with GLY 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B GLU 3.1 11.8 + - - -
54B GLU* 3.2 4.2 + - - -
56B ARG* 1.3 77.3 - - - +
58B VAL* 1.3 62.2 + - - +
60B LYS* 3.5 6.4 + - - +
61B VAL* 3.2 28.4 + - - +
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Residues in contact with VAL 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A TYR* 3.7 22.4 - - + +
101A LEU* 4.2 5.4 - - + -
104A LEU* 3.7 22.9 - - + -
125A ILE* 4.3 15.0 - - + -
129A ARG* 3.9 38.3 + - - +
54B GLU* 3.0 18.2 + - + +
55B THR* 3.2 9.4 + - - +
57B GLY* 1.3 75.7 - - - +
59B LEU* 1.3 64.9 + - - +
61B VAL* 3.3 6.2 + - - +
62B PHE* 3.1 20.4 + - - +
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Residues in contact with LEU 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ILE* 4.8 4.9 - - + -
68A PHE* 5.0 2.7 - - + -
71A LEU* 4.2 11.0 - - + -
97A CYS* 3.8 37.2 - - + -
100A TYR* 6.0 0.4 - - + -
101A LEU* 4.1 28.5 - - + +
27B ILE* 5.1 2.5 - - + -
30B ILE* 3.9 37.9 - - + -
55B THR* 3.0 15.2 + - + +
56B ARG* 3.8 5.4 - - - +
58B VAL* 1.3 79.2 - - - +
60B LYS* 1.3 65.2 + - - +
62B PHE* 3.2 7.6 + - + +
63B LEU* 3.0 29.6 + - + +
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Residues in contact with LYS 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A LEU* 5.7 1.8 - - + -
74A GLU* 5.3 7.6 + - - -
75A ILE* 4.6 14.6 - - + -
27B ILE* 4.0 24.8 - - + +
56B ARG 3.0 14.6 + - - +
57B GLY* 3.8 6.3 - - - +
59B LEU* 1.3 81.5 - - - +
61B VAL* 1.3 64.2 + - + +
63B LEU* 3.3 8.5 + - - +
64B GLU* 2.9 46.7 + - + +
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Residues in contact with VAL 61 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A ARG* 5.1 14.4 - - - +
57B GLY 3.2 15.4 + - - +
58B VAL* 3.8 7.9 - - - +
59B LEU 3.2 0.4 - - - -
60B LYS* 1.3 80.5 - - + +
62B PHE* 1.3 65.4 + - - +
64B GLU* 3.2 12.4 + - - +
65B ASN* 3.2 35.7 + - - +
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Residues in contact with PHE 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A LEU* 6.5 0.4 - - + -
96A ALA* 4.0 9.2 - - + -
97A CYS* 3.8 40.8 - - - -
100A TYR* 3.9 47.8 - + + -
58B VAL 3.1 11.6 + - - +
59B LEU* 3.6 8.5 - - + +
61B VAL* 1.3 81.8 - - - +
63B LEU* 1.3 66.9 + - + +
65B ASN* 3.2 5.2 + - - +
66B VAL* 3.1 43.1 + - + +
91B LEU* 4.3 11.9 - - + -
94B GLN* 4.7 7.0 - - - -
96B ARG* 4.0 20.6 - - - -
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Residues in contact with LEU 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A PHE* 4.0 18.2 - - + -
71A LEU* 3.7 31.4 - - + -
72A VAL* 4.4 7.0 - - + -
75A ILE* 3.7 22.9 - - + -
93A LEU* 4.5 13.0 - - + -
97A CYS* 3.5 26.9 - - - -
59B LEU* 3.0 24.4 + - + +
60B LYS* 3.8 3.1 - - - +
62B PHE* 1.3 78.8 - - + +
64B GLU* 1.3 64.2 + - - +
66B VAL* 3.2 2.0 + - - +
67B ILE* 2.9 42.2 + - + +
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Residues in contact with GLU 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A ILE* 3.8 27.9 - - + +
79A PHE* 3.8 12.9 - - + -
60B LYS* 2.9 45.9 + - - +
61B VAL* 3.2 12.3 + - - +
63B LEU* 1.3 75.0 - - - +
65B ASN* 1.3 65.1 + - - +
68B ARG* 2.9 33.1 + - - +
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Residues in contact with ASN 65 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B VAL* 3.2 28.2 + - - +
62B PHE* 3.8 7.0 - - - +
63B LEU 3.2 0.2 - - - -
64B GLU* 1.3 81.5 - - - +
66B VAL* 1.3 61.9 + - - +
68B ARG* 3.1 34.6 + - - +
69B ASP* 3.4 21.0 + - - -
94B GLN* 3.7 22.7 + - - +
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Residues in contact with VAL 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A LEU* 3.5 28.3 - - + -
62B PHE* 3.1 34.0 + - + +
63B LEU* 4.1 3.6 - - + +
65B ASN* 1.3 77.0 - - - +
67B ILE* 1.3 63.8 + - - +
69B ASP 3.4 1.6 + - - -
70B ALA* 3.0 18.6 + - + +
87B VAL* 4.5 3.4 - - + -
90B ALA* 3.4 18.4 - - + +
91B LEU* 3.7 34.5 - - + -
94B GLN* 4.1 20.4 - - - +
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Residues in contact with ILE 67 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A VAL* 3.9 29.6 - - + +
75A ILE* 3.8 19.3 - - + -
76A ALA* 4.1 14.4 - - + -
79A PHE* 4.0 20.9 - - + -
85A PHE* 5.3 5.4 - - + -
93A LEU* 4.1 20.6 - - + -
63B LEU* 2.9 35.0 + - + +
64B GLU 4.2 1.1 - - - +
66B VAL* 1.3 73.5 - - - +
68B ARG* 1.3 67.4 + - - +
70B ALA* 2.9 8.4 + - + +
71B VAL* 2.8 33.9 + - + +
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Residues in contact with ARG 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A PHE* 3.7 39.1 - - + -
64B GLU* 2.9 31.4 + - - +
65B ASN* 3.1 35.9 + - - +
66B VAL 3.3 0.2 - - - -
67B ILE* 1.3 77.8 - - - +
69B ASP* 1.3 69.1 + - - +
71B VAL* 3.5 3.7 + - - +
72B THR* 2.9 32.3 + - - +
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Residues in contact with ASP 69 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B ASN 3.4 9.2 + - - +
66B VAL 3.4 3.2 + - - +
67B ILE 3.2 0.6 - - - -
68B ARG* 1.3 85.6 + - - +
70B ALA* 1.3 67.6 + - - +
72B THR* 3.0 8.2 + - - -
73B TYR* 3.0 29.6 + - + -
90B ALA* 3.7 24.7 - - + +
93B ARG* 3.2 28.8 + - - -
94B GLN* 3.8 16.6 + - - -
101D LEU* 3.7 21.5 - - + +
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Residues in contact with ALA 70 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A LEU* 6.0 0.4 - - + -
66B VAL* 3.0 13.7 + - + +
67B ILE* 2.9 11.9 + - + +
69B ASP* 1.3 76.4 - - - +
71B VAL* 1.3 62.1 + - + +
73B TYR* 3.4 1.0 + - - -
74B THR* 2.8 28.5 + - - -
82B VAL* 4.2 15.5 - - + -
86B ASP* 3.7 34.0 - - - +
87B VAL* 4.2 11.9 - - + +
90B ALA* 3.7 1.0 - - + +
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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
----------------------------------------------------------
76A ALA* 5.0 0.9 - - + -
79A PHE* 4.9 12.1 - - + -
80A LYS* 4.4 9.9 - - + -
83A LEU* 3.7 34.8 - - + -
85A PHE* 5.8 0.7 - - + -
67B ILE* 2.8 33.8 + - + +
68B ARG* 3.9 6.3 - - - +
70B ALA* 1.3 77.7 - - + +
72B THR* 1.3 64.4 + - - +
74B THR* 2.9 8.4 + - - -
75B GLU* 2.8 43.0 + - + +
82B VAL* 4.6 8.1 - - + -
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Residues in contact with THR 72 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B ARG* 2.9 20.4 + - - +
69B ASP* 3.0 9.2 + - - -
71B VAL* 1.3 78.7 - - - +
73B TYR* 1.3 62.6 + - - +
75B GLU* 3.4 10.0 + - - +
76B HIS* 3.1 21.8 + - - +
97D THR* 3.8 21.3 - - + +
100D ARG* 4.8 18.2 - - + +
101D LEU* 3.8 26.2 - - + +
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Residues in contact with TYR 73 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B ASP* 3.0 29.2 + - + -
70B ALA 3.9 3.6 - - - +
72B THR* 1.3 74.5 - - - +
74B THR* 1.3 62.7 + - - +
76B HIS* 3.3 7.4 + - - +
77B ALA* 3.3 22.9 + - - +
79B ARG* 4.9 0.2 + - - -
86B ASP* 3.8 30.5 - - - +
89B TYR* 3.8 28.6 + + + +
90B ALA* 4.0 12.1 - - - -
93B ARG* 3.7 17.5 - - - +
77D GLU* 2.9 20.9 + - - -
80D ARG* 5.2 7.3 - - + -
81D LEU* 3.6 32.3 - - + -
84D TYR* 4.5 18.0 - + + -
85D ASN* 5.7 0.3 + - - -
97D THR* 5.6 0.2 - - + -
101D LEU* 3.8 19.9 - - + +
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Residues in contact with THR 74 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A LEU* 5.1 5.2 - - + -
70B ALA 2.8 18.3 + - - -
71B VAL* 2.9 12.9 + - - -
73B TYR* 1.3 78.2 - - - +
75B GLU* 1.3 62.6 + - + +
77B ALA* 3.5 2.6 + - - +
78B LYS 3.4 3.1 + - - -
79B ARG* 3.1 54.7 + - + +
80B LYS* 4.4 1.8 - - - -
81B THR 3.5 27.8 - - - +
82B VAL* 3.7 17.2 - - + +
86B ASP* 3.3 13.9 + - - -
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Residues in contact with GLU 75 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A PHE 5.4 0.5 - - - +
80A LYS* 3.6 37.2 - - + +
83A LEU* 6.1 2.5 - - + -
71B VAL* 2.8 36.4 + - + +
72B THR* 3.9 7.9 - - - +
74B THR* 1.3 70.9 - - + +
76B HIS* 1.3 68.1 + - - +
78B LYS* 2.8 16.7 + - - +
79B ARG 4.6 5.8 - - - +
93D ARG* 3.6 9.6 + - - -
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Residues in contact with HIS 76 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B THR 3.1 12.3 + - - +
73B TYR* 3.3 11.9 + - - +
75B GLU* 1.3 79.4 - - - +
77B ALA* 1.3 57.4 + - - +
78B LYS* 3.2 5.5 + - - +
81D LEU* 4.3 11.9 + - + +
85D ASN* 3.5 30.4 + - - +
93D ARG* 3.4 42.8 + - + +
94D GLU* 3.9 42.2 + - + +
97D THR* 2.9 35.2 + - + +
----------------------------------------------------------
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Residues in contact with ALA 77 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B TYR 3.3 12.7 + - - +
74B THR 3.9 5.2 - - - +
75B GLU 3.1 0.4 - - - -
76B HIS* 1.3 78.0 - - - +
78B LYS* 1.3 68.7 + - - +
79B ARG* 3.4 29.1 + - - +
84D TYR* 5.8 1.6 - - + -
85D ASN* 3.3 28.0 - - - +
----------------------------------------------------------
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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