Contacts of the helix formed by residues 56 - 85 (chain H) in PDB entry 1MWA
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 56 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54H GLN 3.8 3.0 + - - -
55H GLU* 1.3 81.5 + - - +
57H PRO* 1.3 76.7 - - - +
58H GLU* 3.2 16.5 + - - -
59H TYR* 3.4 8.3 + - - +
60H TRP* 3.0 14.4 - - - -
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Residues in contact with PRO 57 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56H GLY* 1.3 81.3 - - - +
58H GLU* 1.3 80.6 + - + +
60H TRP* 3.3 12.7 + - + +
61H GLU* 3.1 21.5 + - - +
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Residues in contact with GLU 58 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A SER* 3.9 27.8 + - - +
56H GLY* 3.3 19.7 + - - -
57H PRO* 1.3 93.0 - - + +
59H TYR* 1.3 54.3 + - - +
61H GLU* 3.1 7.5 + - - +
62H ARG* 2.8 38.6 + - - +
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Residues in contact with TYR 59 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7H TYR* 4.5 4.9 + - - -
33H PHE* 4.4 1.0 - - - -
34H VAL* 3.9 10.3 - - + +
45H TYR* 4.9 1.7 - + - -
52H MET* 3.5 28.3 - - + +
55H GLU* 4.0 23.1 - - + +
56H GLY 3.4 13.3 + - - +
57H PRO 3.3 0.4 - - - -
58H GLU* 1.3 79.7 + - - +
60H TRP* 1.3 91.6 + + - +
62H ARG* 3.4 29.1 - - - +
63H GLU* 3.0 51.9 + - + +
167H TRP* 3.7 18.4 - + - -
171H TYR* 3.0 31.3 + + - -
1P GLU* 4.7 1.4 - - + -
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Residues in contact with TRP 60 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34H VAL* 4.1 6.5 - - + -
44H ARG* 6.4 1.8 - - + -
45H TYR* 3.3 31.7 - - + +
46H GLU* 3.4 20.4 - - - -
47H PRO* 3.3 36.5 - - + +
52H MET* 3.2 32.1 + - + -
53H GLU* 5.1 1.4 + - - +
55H GLU* 3.2 19.1 + - + -
56H GLY 3.0 23.7 + - - -
57H PRO* 3.3 8.5 + - + +
58H GLU 3.2 0.4 - - - -
59H TYR* 1.3 106.2 - + - +
61H GLU* 1.3 58.5 + - - +
63H GLU* 4.0 0.8 - - - -
64H THR* 2.7 34.9 + - - +
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Residues in contact with GLU 61 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A PHE* 4.4 17.2 - - + -
57H PRO 3.1 12.2 + - - +
58H GLU* 3.1 12.0 + - - +
60H TRP* 1.3 74.7 - - - +
62H ARG* 1.3 66.0 + - - +
64H THR* 3.1 7.9 + - - +
65H GLN* 3.0 42.5 + - - +
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Residues in contact with ARG 62 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A TYR* 3.5 29.6 - - - +
27A SER* 3.0 29.9 + - - +
28A ALA* 3.5 22.7 - - - +
100A PHE* 3.7 19.8 - - + -
58H GLU 2.8 17.2 + - - +
59H TYR* 3.4 35.8 - - - +
61H GLU* 1.3 74.8 - - - +
63H GLU* 1.3 85.7 + - - +
65H GLN* 3.3 2.8 + - - +
66H LYS* 3.1 26.5 + - - +
167H TRP* 3.5 19.6 - - - -
1P GLU* 3.6 18.0 + - - +
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Residues in contact with GLU 63 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7H TYR* 4.8 0.3 + - - -
45H TYR* 3.6 35.8 - - + -
59H TYR* 3.0 44.3 + - + +
62H ARG* 1.3 88.3 + - - +
64H THR* 1.3 57.3 + - - +
66H LYS* 3.1 27.9 + - - +
67H ALA* 2.8 29.3 + - - +
1P GLU* 3.5 13.2 - - - +
2P GLN* 2.9 33.4 + - - +
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Residues in contact with THR 64 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36H PHE* 4.4 2.0 - - + -
43H PRO 4.0 8.1 - - - +
44H ARG* 3.5 24.8 - - + +
45H TYR 3.0 22.7 + - - +
60H TRP* 2.7 23.8 + - - +
61H GLU* 3.1 9.1 + - - +
63H GLU* 1.3 75.1 - - - +
65H GLN* 1.3 67.3 + - - +
67H ALA* 3.2 6.0 + - - +
68H LYS* 2.8 46.1 + - + +
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Residues in contact with GLN 65 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A PHE* 3.5 49.5 - - + +
61H GLU* 3.0 30.8 + - - +
62H ARG 3.8 0.9 - - - +
64H THR* 1.3 82.5 - - - +
66H LYS* 1.3 58.2 + - - +
68H LYS* 3.1 16.0 + - - +
69H GLY* 2.9 24.9 + - - -
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Residues in contact with LYS 66 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A TYR* 5.7 1.1 - - - -
99A GLY 4.8 7.6 - - - -
100A PHE* 3.8 14.3 - - - +
62H ARG* 3.1 20.9 + - - +
63H GLU* 3.1 24.1 + - - +
65H GLN* 1.3 77.9 - - - +
67H ALA* 1.3 50.9 + - - +
69H GLY* 2.9 3.9 + - - -
70H ASN* 2.6 46.5 + - - +
1P GLU* 2.8 29.9 + - - +
2P GLN* 2.7 44.3 + - + +
3P TYR 4.2 3.6 - - - +
4P LYS* 4.1 18.7 - - + +
1001P ACY 3.8 14.8 + - - -
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Residues in contact with ALA 67 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H TYR* 3.7 4.2 - - - -
24H GLU* 3.5 22.2 - - - +
36H PHE* 4.0 23.1 - - + -
45H TYR* 3.9 19.3 - - + -
63H GLU 2.8 19.4 + - - +
64H THR 3.6 4.7 - - - +
66H LYS* 1.3 75.7 - - - +
68H LYS* 1.3 53.3 + - - +
70H ASN* 3.6 0.6 - - - +
71H GLU* 2.7 35.6 + - - +
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Residues in contact with LYS 68 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36H PHE* 4.4 8.0 - - + -
43H PRO* 3.9 38.9 + - - +
64H THR* 2.8 31.6 + - + +
65H GLN* 3.3 20.4 - - - +
67H ALA* 1.3 77.1 - - - +
69H GLY* 1.3 60.3 + - - +
71H GLU* 3.6 23.9 + - - +
72H GLN* 3.5 24.3 + - - +
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Residues in contact with GLY 69 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A PHE 5.6 2.7 - - - -
101A ALA* 6.3 1.6 - - - -
50B TYR* 3.8 24.3 + - - -
65H GLN 2.9 9.7 + - - -
66H LYS* 2.9 7.2 + - - -
68H LYS* 1.3 74.7 - - - +
70H ASN* 1.3 65.3 + - - +
71H GLU 3.1 1.5 + - - -
72H GLN* 3.2 4.6 + - - +
73H SER* 3.1 20.3 + - - -
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Residues in contact with ASN 70 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H TYR* 3.1 22.2 - - - +
24H GLU* 3.4 15.9 + - - +
66H LYS* 2.6 30.6 + - - +
67H ALA 3.7 0.4 - - - +
69H GLY* 1.3 71.4 - - - +
71H GLU* 1.3 62.3 + - - +
73H SER* 3.1 9.0 + - - -
74H PHE* 3.1 25.8 + - + -
2P GLN* 3.5 10.9 - - - +
3P TYR 2.8 22.1 + - - +
4P LYS* 3.4 6.3 - - - +
5P PHE* 3.0 36.8 + - + +
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Residues in contact with GLU 71 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H TYR* 3.5 30.7 - - + +
36H PHE* 4.7 4.5 - - + -
38H SER* 3.5 23.1 - - - -
67H ALA 2.7 21.6 + - - +
68H LYS* 3.6 28.0 + - - +
69H GLY 3.1 0.2 - - - -
70H ASN* 1.3 74.4 - - - +
72H GLN* 1.3 65.0 + - - +
74H PHE* 3.3 2.9 + - - +
75H ARG* 2.5 65.6 + - - +
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Residues in contact with GLN 72 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B TYR* 3.9 21.5 - - + -
54B SER* 5.9 0.4 - - - +
56B GLU* 3.6 28.7 + - - +
68H LYS 3.5 12.1 + - - +
69H GLY* 3.2 7.9 + - - +
71H GLU* 1.3 83.7 + - - +
73H SER* 1.3 66.2 + - - +
75H ARG* 3.1 52.4 + - - +
76H VAL* 3.1 18.7 + - + +
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Residues in contact with SER 73 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B TYR* 4.1 18.8 - - - -
69H GLY 3.1 12.2 + - - -
70H ASN* 3.1 14.6 + - - -
72H GLN* 1.3 79.7 - - - +
74H PHE* 1.3 64.7 + - - +
76H VAL* 3.2 8.5 + - - +
77H SER* 3.2 7.0 + - - -
5P PHE* 3.6 27.8 + - - +
6P TYR* 4.4 0.2 - - - -
7P SER* 3.1 36.0 + - - -
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Residues in contact with PHE 74 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9H VAL* 3.9 13.0 - - + -
11H ALA* 4.1 19.1 - - + -
22H TYR* 4.0 18.8 - + + -
70H ASN 3.1 15.1 + - - +
71H GLU 3.9 6.3 - - - +
73H SER* 1.3 78.6 - - - +
75H ARG* 1.3 67.3 + - - +
76H VAL 3.0 2.0 - - - -
77H SER* 3.7 8.8 - - - +
78H LEU* 3.0 30.4 + - - +
95H ILE* 3.5 38.1 - - + +
97H VAL* 3.5 27.6 - - + -
116H TYR* 3.8 19.5 - + - -
5P PHE* 3.7 31.2 - + + -
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Residues in contact with ARG 75 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19H GLU* 3.7 31.7 - - - +
20H PRO* 3.1 47.2 + - + +
22H TYR* 4.6 2.2 - - - +
71H GLU* 2.5 48.8 + - - +
72H GLN* 3.2 44.1 - - - +
74H PHE* 1.3 77.2 - - - +
76H VAL* 1.3 63.2 + - + +
78H LEU* 3.6 21.1 - - - +
79H ARG* 3.6 24.5 + - - +
----------------------------------------------------------
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Residues in contact with VAL 76 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B TYR* 3.6 35.4 - - + +
51B GLY* 4.2 10.3 - - - -
52B ALA 5.1 2.0 - - - +
54B SER* 4.2 10.1 - - - +
72H GLN* 3.1 13.3 + - + +
73H SER 3.5 7.2 - - - +
74H PHE 3.0 0.6 - - - -
75H ARG* 1.3 77.2 - - + +
77H SER* 1.3 60.4 + - - +
79H ARG* 3.1 34.2 + - + +
80H THR* 2.8 34.9 + - - +
7P SER* 4.4 5.8 - - - +
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Residues in contact with SER 77 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73H SER 3.2 9.1 + - - -
74H PHE* 3.2 14.2 + - - -
76H VAL* 1.3 72.5 - - - +
78H LEU* 1.3 68.1 + - - +
80H THR* 3.5 3.4 - - - -
81H LEU* 2.8 28.4 + - - +
95H ILE* 3.9 15.5 - - - -
116H TYR* 5.8 2.3 - - - -
7P SER* 3.2 12.8 - - - -
8P VAL* 3.0 43.3 + - - +
----------------------------------------------------------
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Residues in contact with LEU 78 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H ALA* 4.0 25.1 - - + +
13H SER* 4.1 27.1 - - - +
20H PRO* 3.5 38.1 - - + -
74H PHE 3.0 17.9 + - - +
75H ARG* 3.6 9.0 - - - +
77H SER* 1.3 77.7 - - - +
79H ARG* 1.3 66.1 + - + +
81H LEU* 3.2 11.4 + - - +
82H LEU* 3.3 16.1 + - - +
93H HIS* 4.1 17.2 - - + +
95H ILE* 3.8 24.4 - - + +
118H TYR* 4.9 2.9 + - + -
----------------------------------------------------------
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Residues in contact with ARG 79 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ALA 3.6 22.4 + - - -
53B GLY* 4.0 17.9 + - - -
54B SER* 4.3 1.4 - - - +
75H ARG* 3.6 26.3 + - - +
76H VAL* 3.1 35.5 + - + +
78H LEU* 1.3 81.3 - - + +
80H THR* 1.3 63.5 + - - +
82H LEU* 3.0 31.8 + - + +
83H GLY 3.5 3.5 + - - -
----------------------------------------------------------
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Residues in contact with THR 80 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76H VAL* 2.8 30.8 + - - +
77H SER* 3.1 7.3 + - - -
79H ARG* 1.3 72.7 - - - +
81H LEU* 1.3 62.7 + - - +
83H GLY* 3.3 4.2 + - - -
84H TYR* 3.1 58.9 + - + +
146H LYS* 4.7 2.9 + - - +
7P SER* 5.5 0.2 - - - -
8P VAL* 3.6 22.6 + - + +
----------------------------------------------------------
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Residues in contact with LEU 81 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77H SER 2.8 19.5 + - - +
78H LEU* 3.5 5.6 - - - +
79H ARG 3.1 0.2 - - - -
80H THR* 1.3 74.8 - - - +
82H LEU* 1.3 64.2 + - - +
84H TYR* 3.3 8.2 + - + -
85H TYR* 3.1 41.6 + - + +
87H GLN* 4.3 0.2 - - - +
95H ILE* 3.8 20.6 - - + -
118H TYR* 3.5 46.7 - - + -
123H TYR* 3.6 42.8 - - + +
8P VAL* 4.1 11.9 - - + -
----------------------------------------------------------
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Residues in contact with LEU 82 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H LEU 3.3 9.8 + - - +
79H ARG* 3.0 22.6 + - + +
81H LEU* 1.3 77.2 - - - +
83H GLY* 1.3 52.8 + - - +
86H ASN* 2.8 29.5 + - - -
87H GLN* 3.0 36.3 + - + +
88H SER 3.3 27.6 - - - +
89H ALA* 4.6 14.6 - - + +
91H GLY 5.0 2.7 - - - +
93H HIS* 3.9 19.7 - - + -
118H TYR* 4.1 2.0 - - - +
----------------------------------------------------------
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Residues in contact with GLY 83 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79H ARG 3.5 4.0 + - - -
80H THR* 3.3 7.5 + - - -
81H LEU 3.2 0.4 - - - -
82H LEU* 1.3 76.8 - - - +
84H TYR* 1.3 62.9 + - - +
85H TYR 3.0 6.4 + - - -
86H ASN* 3.0 25.6 + - - +
----------------------------------------------------------
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Residues in contact with TYR 84 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80H THR* 3.1 33.4 + - + +
81H LEU* 3.3 14.8 + - + +
83H GLY* 1.3 75.7 - - - +
85H TYR* 1.3 63.7 + - + +
86H ASN* 5.4 1.7 + - - -
123H TYR* 3.4 16.8 - - - -
139H ALA* 3.8 26.2 - - + +
142H ILE* 3.1 48.9 - - + +
143H THR* 3.5 10.3 - - - -
146H LYS* 3.5 15.2 + - - -
8P VAL* 2.8 30.2 + - + -
----------------------------------------------------------
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Residues in contact with TYR 85 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81H LEU* 3.1 35.4 + - + +
83H GLY 3.0 0.4 - - - -
84H TYR* 1.3 81.1 - - + +
86H ASN* 1.3 75.9 + - - +
87H GLN* 3.1 28.0 + - + +
118H TYR* 3.7 31.1 - + - +
123H TYR* 3.3 16.2 - + - -
137H ASP* 2.6 35.2 + - - -
139H ALA* 3.5 20.0 - - + -
----------------------------------------------------------
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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