Contacts of the helix formed by residues 60 - 89 (chain P) in PDB entry 1L0V
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 SER 60 (chain P).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56P ALA 3.4 10.5 + - - -
57P PHE* 2.4 38.8 + - - -
59P GLN* 1.3 73.6 - - - +
61P PHE* 1.3 68.0 + - - +
62P ILE* 3.6 13.3 - - - +
63P GLY 3.0 11.3 + - - -
64P ARG* 2.8 23.9 + - - +
800P MQ7 3.8 11.5 - - - +
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Residues in contact with PHE 61 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59P GLN 3.8 1.6 + - - -
60P SER* 1.3 69.2 - - - +
62P ILE* 1.3 69.7 + - + +
64P ARG* 2.8 25.7 + - + +
65P VAL* 3.1 31.4 + - + +
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Residues in contact with ILE 62 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57P PHE* 4.7 10.5 - - + -
60P SER* 3.6 17.0 - - - +
61P PHE* 1.3 82.0 - - + +
63P GLY* 1.3 65.6 + - - +
64P ARG 3.2 0.3 + - - -
65P VAL* 3.2 7.3 + - - +
66P PHE* 2.8 32.1 + - + +
800P MQ7 4.7 8.1 - - + -
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Residues in contact with GLY 63 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57P PHE* 3.5 38.1 - - - -
58P ALA 4.2 4.7 - - - -
60P SER* 3.0 7.6 + - - -
62P ILE* 1.3 83.8 - - - +
64P ARG* 1.3 63.0 + - - +
66P PHE* 3.9 0.8 - - - -
67P LEU* 3.0 32.3 + - - +
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Residues in contact with ARG 64 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58P ALA 3.1 18.2 - - - +
59P GLN* 2.8 17.5 + - - +
60P SER 2.8 27.4 + - - +
61P PHE* 2.8 13.9 + - + +
63P GLY* 1.3 78.9 - - - +
65P VAL* 1.3 64.9 + - + +
67P LEU* 4.9 0.7 - - - -
68P PHE* 3.0 15.2 + - - +
115P VAL* 2.8 48.0 + - + +
116P VAL* 3.2 6.9 - - - +
117P THR 2.8 20.0 - - - +
118P ILE* 2.0 65.6 + - - +
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Residues in contact with VAL 65 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61P PHE* 3.1 37.7 + - + +
62P ILE* 3.7 7.4 - - - +
64P ARG* 1.3 77.1 - - + +
66P PHE* 1.3 62.9 + - - +
68P PHE* 3.3 8.3 + - + +
69P LEU* 3.0 45.7 + - + +
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Residues in contact with PHE 66 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123O ILE* 4.6 12.6 - - + -
23P TRP* 3.7 29.6 - + - -
27P ILE* 4.1 13.0 - - + -
31P MET* 3.6 26.0 - - + -
57P PHE* 3.9 21.3 - + + -
62P ILE* 2.8 22.6 + - + +
63P GLY* 3.9 5.6 - - - +
65P VAL* 1.3 79.2 - - - +
67P LEU* 1.3 61.7 + - + +
69P LEU* 4.1 5.5 - - - +
70P MET* 3.0 35.9 + - + +
800P MQ7 3.4 30.3 - - + -
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Residues in contact with LEU 67 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42O LEU* 5.4 5.2 - - + +
46O LEU* 4.1 22.4 - - + -
49O LEU* 5.7 0.2 - - + -
31P MET* 5.2 0.9 - - + -
57P PHE* 4.9 6.5 - - + -
58P ALA* 3.9 30.5 - - + +
63P GLY 3.0 22.3 + - - +
64P ARG* 3.9 3.8 - - - +
66P PHE* 1.3 81.7 - - + +
68P PHE* 1.3 65.6 + - - +
70P MET* 4.2 5.2 - - + -
71P ILE* 3.0 41.1 + - + +
111P THR* 5.2 0.4 - - - -
115P VAL* 5.1 5.2 - - + -
800P MQ7 3.6 44.0 - - + +
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Residues in contact with PHE 68 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710D CE1 5.2 6.5 - - - -
64P ARG 3.0 14.1 + - - +
65P VAL* 3.5 12.6 - - + +
67P LEU* 1.3 76.3 - - - +
69P LEU* 1.3 80.1 + - + +
71P ILE* 3.0 3.6 + - - +
72P VAL* 2.9 49.4 + - + +
108P THR* 3.8 29.4 - - + -
111P THR* 3.6 21.3 - - + -
112P LEU* 4.0 26.0 - - + -
115P VAL* 4.3 13.6 - - + +
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Residues in contact with LEU 69 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23P TRP* 4.0 30.1 - - + -
65P VAL* 3.0 37.2 + - + +
66P PHE* 4.1 1.6 - - - +
68P PHE* 1.3 94.3 - - + +
70P MET* 1.3 62.7 + - - +
71P ILE 3.0 1.7 + - - -
72P VAL* 5.0 0.7 - - - -
73P LEU* 3.1 52.1 + - + +
74P PRO* 3.4 4.2 - - - +
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Residues in contact with MET 70 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38O PHE* 3.9 28.0 - - + -
39O SER* 4.2 1.4 + - - -
42O LEU* 3.9 18.4 - - + +
23P TRP* 3.2 31.8 - - + +
27P ILE* 3.5 22.4 - - - -
28P ALA* 4.2 20.6 - - + -
31P MET* 3.7 21.1 - - + -
66P PHE* 3.0 26.2 + - + +
67P LEU* 3.9 8.7 - - + +
68P PHE 3.3 0.2 - - - -
69P LEU* 1.3 74.2 - - - +
71P ILE* 1.3 57.0 + - - +
74P PRO* 3.3 19.7 - - + +
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Residues in contact with ILE 71 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39O SER* 2.3 45.8 + - - +
42O LEU* 3.8 34.8 - - + +
43O ILE* 3.6 31.6 - - + -
46O LEU* 4.6 11.4 - - + -
67P LEU* 3.0 26.2 + - + +
68P PHE 3.0 4.6 + - - +
70P MET* 1.3 80.4 - - - +
72P VAL* 1.3 66.8 + - - +
74P PRO* 3.3 5.2 - - - +
75P LEU* 3.6 8.4 + - + +
111P THR* 3.6 23.6 - - + +
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Residues in contact with VAL 72 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710D CE1 4.5 6.7 - - - +
68P PHE* 2.9 48.2 + - + +
69P LEU* 5.0 1.6 - - + -
71P ILE* 1.3 74.5 - - + +
73P LEU* 1.3 72.0 + - + +
75P LEU* 2.7 21.9 + - + +
76P TRP* 3.1 41.9 + - + +
108P THR* 3.6 23.8 - - + +
111P THR* 4.0 15.0 - - + +
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Residues in contact with LEU 73 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710D CE1 5.5 5.4 - - - +
16P LEU* 5.5 3.4 - - + +
19P ALA* 4.7 14.4 - - + +
20P GLY* 3.4 28.0 - - - +
23P TRP* 3.8 40.6 - - + -
69P LEU* 3.1 34.6 + - + +
72P VAL* 1.3 77.9 - - + +
74P PRO* 1.3 72.3 - - + +
76P TRP* 3.3 9.4 + - + +
77P CYS 3.1 15.9 + - - -
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Residues in contact with PRO 74 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35O ALA* 4.4 21.9 - - + +
36O VAL* 4.7 1.2 - - - +
38O PHE* 6.5 0.9 - - + -
39O SER* 4.1 5.4 - - - +
20P GLY 4.8 0.2 - - - +
23P TRP* 4.2 14.1 - - + -
24P SER* 4.3 17.5 - - - -
69P LEU 3.4 9.9 - - - +
70P MET* 3.3 25.8 - - + +
71P ILE 3.3 14.1 - - - +
73P LEU* 1.3 95.4 - - + +
75P LEU* 1.3 51.5 + - - +
77P CYS* 3.2 7.9 + - + +
78P GLY* 2.7 32.9 + - - -
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Residues in contact with LEU 75 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36O VAL* 3.5 39.0 - - + +
39O SER* 3.6 20.2 - - - +
40O ILE* 5.3 4.0 - - + -
43O ILE* 4.9 3.6 - - + -
71P ILE* 3.6 12.5 + - + +
72P VAL* 2.7 20.5 + - + +
74P PRO* 1.3 71.9 - - - +
76P TRP* 1.3 60.4 + - + +
79P LEU* 2.7 51.8 + - + +
104P ALA* 4.9 5.8 - - - +
107P LEU* 3.5 48.2 - - + -
108P THR* 5.1 1.8 - - - +
111P THR* 5.7 0.2 - - - +
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Residues in contact with TRP 76 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710D CE1 3.4 47.2 - - - -
810D CE1 6.2 0.9 - - + -
13P PHE* 5.1 2.2 - + - -
16P LEU* 4.0 37.9 - - + +
17P PHE* 4.2 5.1 + - - +
72P VAL* 3.1 39.7 + - + +
73P LEU* 3.8 12.6 - - + +
75P LEU* 1.3 77.5 - - + +
77P CYS* 1.3 63.0 + - - +
79P LEU* 4.8 1.1 - - + +
80P HIS* 3.2 22.0 + - - +
101P TYR* 3.5 40.0 - + + -
104P ALA* 3.4 27.4 - - + -
105P ALA* 3.6 16.8 - - + -
108P THR* 3.1 27.3 + - - -
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Residues in contact with CYS 77 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32O ALA* 6.3 0.2 - - - -
82O HIS* 4.4 2.7 - - - -
17P PHE* 3.7 24.1 - - - +
20P GLY* 3.7 8.5 - - - -
21P GLY* 3.5 38.4 - - - +
24P SER* 4.4 5.6 - - - -
73P LEU 3.1 5.9 + - - +
74P PRO* 3.6 7.9 - - + +
75P LEU 3.1 0.6 - - - -
76P TRP* 1.3 79.2 - - - +
78P GLY* 1.3 63.2 + - - +
80P HIS* 3.4 1.9 + - - +
81P ARG* 3.0 47.9 + - - +
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Residues in contact with GLY 78 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32O ALA* 3.3 25.1 - - - +
35O ALA* 5.1 2.5 - - - -
36O VAL* 4.1 8.5 - - - -
74P PRO 2.7 20.8 + - - -
75P LEU 3.6 0.4 - - - -
77P CYS* 1.3 76.7 - - - +
79P LEU* 1.3 63.0 - - - +
82P MET* 3.1 31.5 + - - +
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Residues in contact with LEU 79 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36O VAL* 4.3 8.3 - - + -
75P LEU* 2.7 34.3 + - + +
76P TRP* 4.8 1.1 - - + +
78P GLY* 1.3 71.1 - - - -
80P HIS* 1.3 68.2 + - - +
82P MET* 2.9 24.9 + - + +
83P HIS* 2.9 24.0 + - - +
100P PHE* 3.7 35.9 - - + +
101P TYR* 5.5 2.0 - - + -
103P LEU* 4.3 19.7 - - + -
104P ALA* 3.5 43.3 - - + +
107P LEU* 4.8 1.6 - - + -
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Residues in contact with HIS 80 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801N MQ7 4.1 14.8 - + - -
10P GLU* 3.1 27.8 + - - -
13P PHE* 3.7 17.6 - - + +
14P TRP* 4.2 6.0 - - - -
17P PHE* 3.4 39.9 - + + +
76P TRP 3.2 21.4 + - - +
77P CYS 3.5 4.3 - - - +
78P GLY 3.3 0.2 - - - -
79P LEU* 1.3 80.7 - - - +
81P ARG* 1.3 61.4 + - - +
83P HIS* 3.2 11.9 + - - +
84P HIS* 3.2 38.7 + + - -
101P TYR* 2.8 34.8 + - + -
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Residues in contact with ARG 81 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801N MQ7 2.9 19.3 + - + +
28O ARG* 3.3 32.7 + - - +
29O GLU* 2.8 49.0 + - - +
31O THR* 5.2 3.4 - - - +
32O ALA* 3.7 25.1 - - + +
82O HIS* 3.3 35.4 + - - -
85O THR* 5.9 0.2 + - - -
86O TRP* 4.3 8.1 - - - -
17P PHE* 3.6 24.4 - - + -
77P CYS* 3.0 23.6 + - - +
78P GLY 3.8 0.2 - - - +
79P LEU 3.1 0.4 - - - -
80P HIS* 1.3 79.1 - - + +
82P MET* 1.3 56.6 + - - +
84P HIS* 3.6 5.8 + - - +
85P ALA* 2.9 27.4 + - - +
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Residues in contact with MET 82 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32O ALA* 4.0 13.7 - - + +
33O VAL* 4.5 20.9 - - + -
36O VAL* 3.5 28.5 - - + -
78P GLY 3.1 23.1 + - - +
79P LEU* 2.9 33.0 + - + +
81P ARG* 1.3 75.1 - - - +
83P HIS* 1.3 66.1 + - - +
85P ALA* 3.2 9.9 - - + +
86P MET* 3.1 28.8 + - - +
100P PHE* 4.1 16.4 - - + -
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Residues in contact with HIS 83 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243B ARG 5.3 8.9 + - - -
79P LEU 2.9 10.6 + - - +
80P HIS* 3.3 10.1 - - - +
82P MET* 1.3 77.6 - - - +
84P HIS* 1.3 75.4 + + - +
86P MET* 3.0 22.7 + - + +
87P HIS* 3.6 3.1 + - - +
96P GLY* 3.8 7.3 - - - -
97P LYS* 3.7 39.7 - - + +
100P PHE* 3.8 31.3 - + + -
101P TYR* 3.6 31.9 - + + +
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Residues in contact with HIS 84 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202N TRP 5.4 5.2 - - - -
205N THR* 4.4 16.3 - - + +
801N MQ7 3.7 27.7 - + + -
29O GLU* 5.5 0.4 - - - +
10P GLU* 3.4 22.4 + - - -
80P HIS* 3.2 55.0 + + - +
81P ARG 4.0 3.4 - - - +
83P HIS* 1.3 88.3 - + + +
85P ALA* 1.3 64.2 + - - +
87P HIS* 3.0 21.8 + - - +
88P ASP* 3.1 18.3 + - - +
101P TYR* 4.4 4.1 + - - -
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Residues in contact with ALA 85 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26O MET* 6.1 2.9 - - + -
29O GLU* 5.6 9.2 - - + -
81P ARG 2.9 20.6 + - - +
82P MET* 3.2 15.3 - - + +
84P HIS* 1.3 78.0 - - - +
86P MET* 1.3 64.5 + - - +
88P ASP* 3.3 10.1 + - - +
89P LEU* 3.0 36.7 + - + +
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Residues in contact with MET 86 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82P MET* 3.1 19.9 + - - +
83P HIS* 3.0 11.0 + - - +
85P ALA* 1.3 78.0 - - - +
87P HIS* 1.3 64.9 + - - +
89P LEU* 3.0 5.4 + - - -
90P LYS 2.9 17.8 + - - -
91P ILE* 2.5 78.7 + - + +
93P VAL* 3.9 14.8 - - + -
100P PHE* 4.0 25.6 - - + -
----------------------------------------------------------
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Residues in contact with HIS 87 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243B ARG* 3.9 30.5 + - - +
160N GLN* 4.2 7.2 + - - -
163N LEU* 3.8 38.7 + - + +
164N ASN* 5.3 7.4 - - + +
83P HIS 3.6 2.3 + - - +
84P HIS* 3.0 19.2 + - - +
86P MET* 1.3 78.4 - - - +
88P ASP* 1.3 60.8 + - - +
90P LYS* 2.8 29.1 + - - +
91P ILE 4.9 2.0 - - - +
----------------------------------------------------------
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Residues in contact with ASP 88 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160N GLN* 2.5 31.7 + - - +
163N LEU* 4.0 9.9 - - - +
205N THR* 4.6 2.6 - - - +
15O TRP* 2.7 44.4 + - + -
16O TRP* 4.4 1.6 - - - -
25O TYR* 2.8 33.5 + - - -
26O MET* 4.6 11.0 - - + +
29O GLU* 5.1 3.1 - - - +
84P HIS* 3.1 17.0 + - - +
85P ALA* 3.8 9.3 - - - +
87P HIS* 1.3 75.4 + - - +
89P LEU* 1.3 60.3 + - - +
90P LYS* 3.3 2.6 + - - +
----------------------------------------------------------
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Residues in contact with LEU 89 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13O SER* 3.3 21.1 - - - +
16O TRP* 3.6 33.0 - - + +
26O MET* 3.7 16.6 - - + -
85P ALA* 3.0 27.6 + - + +
86P MET* 3.5 5.6 - - - +
87P HIS 3.0 1.0 - - - -
88P ASP* 1.3 75.7 - - - +
90P LYS* 1.3 74.0 + - - +
91P ILE* 3.5 27.7 - - + +
----------------------------------------------------------
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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).
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