Contacts of the helix formed by residues 76 - 99 (chain Q) in PDB entry 5FLX
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 GLY 76 (chain Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15441 C 2.7 18.7 + - - -
16721 U 4.0 4.7 - - - -
16731 U 3.7 15.7 - - - -
75Q GLY* 1.3 77.9 - - - +
77Q HIS* 1.3 66.0 + - - -
78Q VAL 3.3 2.0 - - - -
79Q ALA* 3.7 7.8 - - - +
80Q GLN* 3.1 27.4 + - - +
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Residues in contact with HIS 77 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15421 C 5.9 0.2 - - - -
15431 U 3.0 47.3 + - + -
15441 C 3.2 23.6 + + - -
15891 A 4.7 0.7 - - - -
15901 C 2.9 35.8 + - - -
15911 C 4.2 15.5 + - - -
16721 U 4.8 2.1 + - - -
16731 U 4.0 7.9 + - - -
43Q GLU* 3.6 12.1 + - - +
44Q PRO* 5.7 7.3 - - + +
47Q LEU* 4.5 7.7 - - + +
76Q GLY* 1.3 73.7 - - - +
78Q VAL* 1.3 64.3 + - + +
80Q GLN* 3.6 12.4 + - - +
81Q ILE* 3.3 21.3 + - - +
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Residues in contact with VAL 78 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16731 U 3.6 30.1 + - - +
16741 G 3.8 19.7 - - - +
51F HIS* 3.4 33.9 - - + +
87F LEU* 5.2 7.2 - - + -
16Q LYS* 4.8 8.5 - - - +
47Q LEU* 4.2 15.5 - - + -
76Q GLY 3.3 0.2 - - - -
77Q HIS* 1.3 76.2 - - + +
79Q ALA* 1.3 66.1 + - - +
81Q ILE* 3.2 15.1 + - - +
82Q TYR* 3.3 26.5 - - + -
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Residues in contact with ALA 79 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16721 U 5.8 1.3 - - - +
16731 U 3.7 6.6 + - - +
16Q LYS* 3.9 17.3 - - + +
17Q LYS* 6.1 2.0 - - + -
18Q THR 3.3 27.6 - - - +
19Q ALA* 3.6 11.7 - - + +
75Q GLY 4.9 0.9 - - - +
76Q GLY* 3.4 17.6 + - - +
77Q HIS 3.3 0.6 - - - -
78Q VAL* 1.3 80.5 - - - +
80Q GLN* 1.3 56.9 + - - +
82Q TYR 3.6 0.3 + - - -
83Q ALA* 2.9 31.4 + - - +
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Residues in contact with GLN 80 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15431 U 4.3 2.6 + - - -
15441 C 3.4 41.9 + - - +
43Q GLU* 3.5 28.7 + - - +
72Q VAL* 3.5 41.8 + - + -
74Q GLY 3.8 7.1 + - - +
76Q GLY 3.1 18.1 + - - +
77Q HIS* 3.9 7.1 - - - +
78Q VAL 3.3 0.2 - - - -
79Q ALA* 1.3 77.3 - - - +
81Q ILE* 1.3 60.2 + - + +
83Q ALA* 3.6 0.3 - - - +
84Q ILE* 2.9 43.0 + - + +
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Residues in contact with ILE 81 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42Q ILE* 3.6 31.4 - - + -
43Q GLU* 6.5 0.4 - - - -
44Q PRO* 5.0 3.4 - - + -
47Q LEU* 4.0 33.2 - - + +
50Q LYS* 5.1 7.9 - - + -
51Q LEU* 3.3 40.7 - - + +
77Q HIS 3.3 18.4 - - - +
78Q VAL* 3.2 8.0 + - - +
80Q GLN* 1.3 81.1 - - + +
82Q TYR* 1.3 69.1 + - + +
84Q ILE* 3.2 3.0 + - + -
85Q ARG* 2.9 26.2 + - + +
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Residues in contact with TYR 82 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51F HIS* 2.8 42.5 + + - -
52F SER* 3.4 13.7 - - - -
53F ALA* 5.0 4.7 - - + -
16Q LYS* 3.6 42.6 - - + -
47Q LEU* 5.7 2.5 - - + -
50Q LYS* 3.8 29.4 - - + +
78Q VAL* 3.3 41.3 + - + -
81Q ILE* 1.3 80.4 - - + +
83Q ALA* 1.3 61.6 + - - +
85Q ARG* 3.9 21.7 - - - +
86Q GLN* 2.9 34.4 + - - +
118Q THR* 6.1 1.3 - - - -
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Residues in contact with ALA 83 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14Q GLY* 4.6 10.0 - - - -
16Q LYS* 4.6 4.4 - - + +
19Q ALA* 3.8 18.2 - - + -
20Q THR 4.7 1.8 - - - -
21Q ALA* 3.6 20.0 - - + +
72Q VAL* 4.3 5.8 - - + -
79Q ALA 2.9 21.7 + - - +
80Q GLN* 3.6 7.4 - - - +
81Q ILE 3.2 0.2 - - - -
82Q TYR* 1.3 75.1 - - - +
84Q ILE* 1.3 59.8 + - - +
86Q GLN* 4.1 2.3 - - - +
87Q SER* 2.9 31.4 + - - -
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Residues in contact with ILE 84 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32Q ILE* 5.9 0.9 - - + -
34Q VAL* 3.5 41.3 - - + -
39Q LEU* 4.8 2.7 - - + -
42Q ILE* 6.4 0.4 - - + -
51Q LEU* 3.6 31.0 - - + -
70Q VAL* 3.8 16.2 - - + -
72Q VAL* 3.5 20.6 - - + -
80Q GLN* 2.9 28.6 + - + +
81Q ILE* 3.7 6.7 - - + +
83Q ALA* 1.3 76.7 - - - +
85Q ARG* 1.3 62.0 + - - +
87Q SER* 2.5 21.0 + - - -
88Q ILE* 2.9 24.3 + - + +
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Residues in contact with ARG 85 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50Q LYS* 3.1 49.3 + - - +
51Q LEU* 4.1 17.4 - - + +
53Q GLU* 2.5 34.4 + - - +
54Q PRO* 4.1 16.8 - - + +
81Q ILE* 2.9 17.2 + - - +
82Q TYR* 4.1 19.1 - - - +
84Q ILE* 1.3 78.1 - - - +
86Q GLN* 1.3 57.4 + - - +
88Q ILE* 3.3 6.5 + - - +
89Q SER* 2.9 31.1 + - - -
115Q TYR* 3.4 14.5 - - - -
116Q ASP* 4.7 2.4 + - - -
118Q THR* 4.2 13.9 + - - -
119Q LEU* 3.3 36.9 - - + +
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Residues in contact with GLN 86 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14Q GLY 3.5 14.8 + - - +
15Q ARG 3.0 18.1 + - - +
16Q LYS* 4.5 4.2 + - - +
82Q TYR* 2.9 22.2 + - - +
83Q ALA* 4.1 2.0 - - - +
85Q ARG* 1.3 78.7 - - - +
87Q SER* 1.3 57.7 + - - +
89Q SER* 3.2 1.9 + - - -
90Q LYS* 2.9 64.7 + - + +
118Q THR 4.1 9.5 - - - +
119Q LEU* 3.3 22.2 - - - +
121Q VAL 4.0 1.8 - - - -
122Q ALA* 3.4 27.8 - - - +
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Residues in contact with SER 87 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12Q VAL* 4.4 8.3 - - - +
14Q GLY 4.5 9.8 + - - +
21Q ALA* 4.0 14.6 - - - -
23Q ALA* 3.3 18.9 - - - +
70Q VAL* 3.8 14.1 - - - +
83Q ALA 2.9 16.8 + - - -
84Q ILE* 2.5 25.5 + - - -
86Q GLN* 1.3 76.9 - - - +
88Q ILE* 1.3 49.9 + - - +
90Q LYS* 5.1 2.5 - - - -
91Q ALA* 2.7 39.2 + - - +
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Residues in contact with ILE 88 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32Q ILE* 5.3 15.9 - - + -
51Q LEU* 5.4 4.0 - - + -
54Q PRO* 4.2 22.4 - - + -
55Q VAL* 6.3 1.8 - - + -
68Q ILE* 3.6 33.7 - - + -
70Q VAL* 3.8 15.9 - - + -
84Q ILE* 2.9 28.8 + - + +
85Q ARG* 3.6 8.1 - - - +
87Q SER* 1.3 73.9 - - - +
89Q SER* 1.3 66.9 + - - +
91Q ALA* 3.0 2.8 + - - -
92Q LEU* 3.0 47.0 + - + +
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Residues in contact with SER 89 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54Q PRO* 4.0 11.1 - - - +
58Q LEU* 5.4 4.9 - - - -
85Q ARG 2.9 17.9 + - - -
86Q GLN 3.2 4.2 + - - -
88Q ILE* 1.3 77.2 - - - +
90Q LYS* 1.3 61.0 + - - +
92Q LEU* 3.9 3.8 + - - +
93Q VAL* 3.3 22.1 + - - +
112Q LEU* 3.7 21.2 - - - +
119Q LEU* 3.3 45.6 - - - +
120Q LEU* 6.1 1.6 - - - -
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Residues in contact with LYS 90 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13961 A 5.7 2.8 + - - -
12Q VAL* 3.5 28.3 - - + +
13Q PHE* 5.0 12.8 + - - +
14Q GLY 5.0 0.4 + - - -
15Q ARG* 5.2 2.8 - - - +
86Q GLN* 2.9 50.3 + - + +
87Q SER* 5.8 0.2 - - - -
89Q SER* 1.3 74.4 - - - +
91Q ALA* 1.3 65.8 + - - +
93Q VAL* 3.0 12.0 + - + +
94Q ALA* 2.9 22.0 + - - +
119Q LEU 4.1 6.3 - - - +
120Q LEU* 3.1 38.0 + - + +
122Q ALA* 4.3 9.3 - - - +
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Residues in contact with ALA 91 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12Q VAL* 3.7 13.0 - - + +
23Q ALA* 3.6 25.1 - - + +
25Q CYS* 3.7 10.8 - - + -
68Q ILE* 4.5 12.6 - - + -
87Q SER 2.7 22.7 + - - +
88Q ILE* 3.0 6.0 + - - +
90Q LYS* 1.3 77.7 - - - +
92Q LEU* 1.3 64.0 + - - +
94Q ALA* 3.2 3.1 + - - +
95Q TYR* 2.9 23.9 + - - +
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Residues in contact with LEU 92 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58Q LEU* 3.5 29.2 - - + -
62Q ARG* 3.5 36.1 - - + +
66Q VAL* 5.9 6.5 - - + -
68Q ILE* 3.5 26.9 - - + -
88Q ILE* 3.0 40.1 + - + +
89Q SER 4.2 4.9 - - - +
91Q ALA* 1.3 76.5 - - - +
93Q VAL* 1.3 59.4 + - + +
95Q TYR* 3.3 7.9 + - + +
96Q TYR* 2.9 44.2 + - + -
108Q ILE* 6.1 0.9 - - + -
112Q LEU* 5.7 2.5 - - + -
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Residues in contact with VAL 93 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89Q SER 3.3 18.4 - - - +
90Q LYS* 3.0 12.5 + - - +
92Q LEU* 1.3 77.4 - - + +
94Q ALA* 1.3 57.4 + - - +
96Q TYR* 3.2 1.9 + - - -
97Q GLN* 2.9 33.1 + - - +
105Q LYS* 3.1 41.6 - - + +
108Q ILE* 5.5 3.4 - - + -
109Q LYS* 4.9 12.1 - - + +
112Q LEU* 4.0 17.7 - - + -
120Q LEU* 4.3 21.5 - - + -
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Residues in contact with ALA 94 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10Q VAL* 3.5 31.4 - - + -
12Q VAL* 3.8 17.5 - - + -
90Q LYS 2.9 6.4 + - - +
91Q ALA 3.6 7.0 - - - +
93Q VAL* 1.3 74.9 - - - +
95Q TYR* 1.3 60.6 + - - +
97Q GLN* 2.8 36.2 + - - +
98Q LYS* 3.0 17.2 + - - +
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Residues in contact with TYR 95 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8Q GLN* 5.7 5.4 - - + -
9Q SER* 6.0 1.3 - - - -
10Q VAL* 5.0 4.5 - - + -
25Q CYS* 3.7 31.5 - - + -
26Q LYS* 4.7 0.7 - - - -
27Q ARG* 4.1 31.8 - - + +
65Q GLY 4.3 4.0 + - - -
66Q VAL* 3.5 33.5 - - + +
91Q ALA 2.9 16.7 + - - +
92Q LEU* 3.7 7.4 - - - +
94Q ALA* 1.3 75.8 - - - +
96Q TYR* 1.3 73.8 + + - +
98Q LYS* 4.7 0.9 - - + +
99Q TYR* 2.9 76.3 + + + +
100Q VAL* 3.8 6.4 + - + -
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Residues in contact with TYR 96 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62Q ARG* 2.5 56.7 + - + +
66Q VAL* 5.7 2.6 - - + +
92Q LEU* 2.9 33.9 + - + +
93Q VAL 3.5 0.2 - - - -
94Q ALA 3.1 0.2 - - - -
95Q TYR* 1.3 88.0 - + - +
97Q GLN* 1.3 58.9 + - - +
100Q VAL* 2.7 62.3 - - + +
101Q ASP 4.1 2.9 - - - +
102Q GLU* 4.4 1.2 - - - +
104Q SER* 4.6 7.0 - - - -
105Q LYS* 3.5 30.3 - - + +
108Q ILE* 3.9 26.5 - - + -
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Residues in contact with GLN 97 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13981 G 5.5 2.3 - - - +
10Q VAL* 5.8 0.2 - - - +
93Q VAL* 2.9 31.0 + - - +
94Q ALA* 2.8 27.0 + - - +
96Q TYR* 1.3 79.6 - - - +
98Q LYS* 1.3 70.4 - - + +
100Q VAL 3.9 5.7 - - - +
102Q GLU* 4.4 8.8 - - - +
105Q LYS* 3.6 23.5 - - - +
60g ARG* 6.0 4.8 - - - +
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Residues in contact with LYS 98 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9Q SER 5.5 0.4 - - - +
10Q VAL* 3.5 31.6 - - + -
94Q ALA 3.0 9.8 + - - +
95Q TYR* 4.5 1.1 - - - +
97Q GLN* 1.3 86.8 - - + +
99Q TYR* 1.3 62.9 + - + +
100Q VAL 3.7 0.7 + - - +
94g THR 4.6 6.5 + - - +
96g THR* 4.0 29.6 + - - +
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Residues in contact with TYR 99 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8Q GLN* 3.4 32.3 - - + +
27Q ARG* 4.5 16.2 - - - -
95Q TYR* 2.9 56.2 + + + +
98Q LYS* 1.3 78.9 - - + +
100Q VAL* 1.3 69.4 + - + +
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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