Contacts of the helix formed by residues 58 - 85 (chain I) 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 GLU 58 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C SER* 3.5 25.7 + - - +
56I GLY* 3.9 17.1 - - - -
57I PRO* 1.3 80.2 - - + +
59I TYR* 1.3 55.6 + - - +
61I GLU* 3.3 5.8 - - - +
62I ARG* 2.4 38.5 + - - +
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Residues in contact with TYR 59 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C SER* 4.7 5.5 - - - +
34I VAL* 4.0 9.4 - - - +
45I TYR* 6.0 0.3 - - - -
52I MET* 3.7 8.8 - - - -
55I GLU* 2.9 50.9 - - + +
56I GLY* 2.6 16.3 + - - +
58I GLU* 1.3 78.7 - - - +
60I TRP* 1.3 80.0 + + - -
62I ARG* 3.1 33.2 - - - +
63I GLU* 2.5 57.5 + - + +
167I TRP* 4.3 10.5 - + + -
171I TYR* 3.5 28.0 + + - -
1Q GLU* 5.2 0.2 - - + -
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Residues in contact with TRP 60 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I VAL* 3.9 16.2 - - + -
44I ARG* 3.7 19.1 - - - +
45I TYR* 3.3 52.7 - + + -
46I GLU 3.4 9.2 - - - -
47I PRO* 3.3 36.5 - - + +
52I MET* 3.3 29.5 + - - -
53I GLU* 4.9 4.6 - - - +
55I GLU* 4.1 4.6 - - - +
56I GLY 2.5 33.3 + - - +
57I PRO* 3.4 20.4 - - + -
59I TYR* 1.3 93.8 - + - +
61I GLU* 1.3 58.8 + - - +
63I GLU* 5.0 1.8 - - + -
64I THR* 2.7 38.4 + - - -
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Residues in contact with GLU 61 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44I ARG* 4.1 19.6 + - - +
57I PRO 3.0 26.7 + - - +
58I GLU* 3.3 7.6 - - - +
60I TRP* 1.3 74.8 - - - +
62I ARG* 1.3 65.8 + - - +
64I THR* 3.6 5.9 - - - +
65I GLN* 2.8 54.6 + - + +
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Residues in contact with ARG 62 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C TYR* 3.9 33.7 - - + +
27C SER* 4.3 9.4 - - - -
28C ALA* 3.8 12.7 - - - +
99C GLY 5.3 3.3 - - - +
100C PHE* 4.9 8.5 - - + -
58I GLU 2.4 28.6 + - - +
59I TYR* 3.1 22.5 - - - +
61I GLU* 1.3 74.2 - - - +
63I GLU* 1.3 95.8 + - - +
65I GLN* 3.2 6.1 + - - +
66I LYS* 2.9 26.7 + - - +
167I TRP* 3.1 39.4 - - - -
1Q GLU* 2.3 34.0 + - - +
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Residues in contact with GLU 63 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7I TYR* 4.8 1.9 + - - -
45I TYR* 4.0 33.6 + - + -
59I TYR* 2.5 46.7 + - + +
60I TRP* 4.2 3.6 - - + +
62I ARG* 1.3 104.3 + - - +
64I THR* 1.3 67.4 + - - +
66I LYS* 2.6 24.0 + - - +
67I ALA* 2.8 23.9 + - - +
1Q GLU* 4.1 3.7 - - - -
2Q GLN* 3.3 30.4 + - - +
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Residues in contact with THR 64 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36I PHE* 4.8 2.0 - - + -
43I PRO 3.7 9.9 - - - +
44I ARG* 3.5 33.1 - - + +
45I TYR* 2.8 32.1 + - - +
60I TRP 2.7 28.1 + - - -
61I GLU* 3.6 9.0 - - - +
63I GLU* 1.3 73.1 - - - +
65I GLN* 1.3 70.6 + - - +
67I ALA* 3.3 4.2 - - - +
68I LYS* 3.2 26.0 + - + +
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Residues in contact with GLN 65 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C PHE* 3.5 50.1 - - + +
61I GLU* 2.8 48.8 + - + +
62I ARG 3.4 5.4 - - - +
64I THR* 1.3 82.7 - - - +
66I LYS* 1.3 65.3 + - - +
68I LYS* 3.0 22.8 + - - +
69I GLY* 3.1 9.5 + - - -
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Residues in contact with LYS 66 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C GLY 5.3 9.2 - - - +
100C PHE* 4.2 13.8 - - - +
62I ARG* 2.9 29.2 + - - +
63I GLU* 2.6 35.8 + - - +
65I GLN* 1.3 74.1 - - - +
67I ALA* 1.3 63.4 + - - +
69I GLY* 2.9 12.3 + - - -
70I ASN* 2.9 36.3 + - - +
1Q GLU* 3.1 9.2 + - - -
2Q GLN* 2.8 49.0 + - + +
3Q TYR 4.0 4.5 - - - +
4Q LYS* 4.4 15.5 - - + +
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Residues in contact with ALA 67 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22I TYR* 3.6 5.9 - - - -
24I GLU* 3.6 15.7 - - - +
36I PHE* 3.7 19.1 - - + -
45I TYR* 3.5 26.0 - - + -
63I GLU 2.8 11.3 + - - +
64I THR 3.3 11.9 - - - +
66I LYS* 1.3 77.3 - - - +
68I LYS* 1.3 57.3 + - - +
70I ASN* 3.4 3.4 + - - +
71I GLU* 2.9 30.1 + - - +
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Residues in contact with LYS 68 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36I PHE* 3.8 10.8 - - + -
38I SER* 4.2 4.2 - - - -
43I PRO* 3.0 47.3 - - - +
64I THR* 3.2 14.3 + - + +
65I GLN* 3.0 18.8 + - - +
67I ALA* 1.3 78.5 - - - +
69I GLY* 1.3 64.6 + - - +
71I GLU* 3.2 36.9 + - - +
72I GLN* 3.5 11.1 + - - +
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Residues in contact with GLY 69 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C PHE 4.9 7.0 - - - -
101C ALA* 5.2 1.1 - - - -
50D TYR* 3.6 28.4 - - - -
65I GLN 3.1 7.5 + - - -
66I LYS 2.9 9.6 + - - -
68I LYS* 1.3 76.0 - - - +
70I ASN* 1.3 57.6 + - - -
71I GLU 3.0 5.4 + - - -
72I GLN* 3.0 16.2 + - - +
73I SER* 3.1 10.5 + - - -
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Residues in contact with ASN 70 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C PHE 5.5 0.5 - - - +
101C ALA* 6.0 0.7 - - - -
22I TYR* 3.6 13.4 + - - +
24I GLU* 4.1 3.2 + - - -
66I LYS* 2.9 41.1 + - - +
67I ALA* 4.0 6.2 - - - +
69I GLY* 1.3 73.5 - - - +
71I GLU* 1.3 61.3 + - - +
72I GLN 3.4 0.2 - - - -
73I SER* 3.4 14.4 - - - -
74I PHE* 3.1 27.6 + - + -
2Q GLN* 3.8 12.5 - - - +
3Q TYR 3.6 17.2 + - - -
4Q LYS* 4.0 15.2 - - - +
5Q PHE* 4.4 17.2 + - + +
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Residues in contact with GLU 71 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20I PRO 4.4 8.3 - - - +
22I TYR* 3.6 29.5 - - + +
36I PHE* 5.1 0.3 - - - -
38I SER* 3.1 27.7 + - - -
67I ALA 2.9 15.0 + - - +
68I LYS* 3.2 41.4 + - - +
69I GLY 3.0 0.6 - - - -
70I ASN* 1.3 75.5 - - - +
72I GLN* 1.3 65.4 + - + +
74I PHE* 3.1 6.8 + - - +
75I ARG* 2.9 45.3 + - + +
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Residues in contact with GLN 72 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50D TYR* 3.6 14.8 - - + -
54D SER* 4.6 4.8 + - - -
56D GLU* 3.0 38.4 + - + +
68I LYS 4.1 9.2 - - - +
69I GLY* 3.0 9.2 + - - +
71I GLU* 1.3 76.5 - - + +
73I SER* 1.3 70.2 + - - +
75I ARG* 2.6 60.9 + - - +
76I VAL* 2.9 19.4 + - - +
79I ARG* 5.7 0.6 - - - +
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Residues in contact with SER 73 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50D TYR* 4.3 15.3 - - - -
69I GLY 3.1 4.2 + - - -
70I ASN* 3.4 23.3 - - - -
72I GLN* 1.3 77.4 - - - +
74I PHE* 1.3 59.6 + - - +
76I VAL 3.5 0.3 + - - -
77I SER* 2.8 24.6 + - - -
5Q PHE* 3.1 29.9 + - - +
6Q TYR 3.8 0.9 - - - -
7Q SER* 3.2 35.8 + - - -
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Residues in contact with PHE 74 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9I VAL* 3.3 22.2 - - + -
11I ALA* 4.1 16.6 - - + -
22I TYR* 3.4 25.6 - + + -
70I ASN* 3.1 10.9 + - + +
71I GLU 3.1 8.8 + - - +
72I GLN 2.9 1.0 - - - -
73I SER* 1.3 79.1 - - - +
75I ARG* 1.3 58.9 + - - +
76I VAL 3.1 1.8 - - - -
77I SER* 3.6 16.2 - - - -
78I LEU* 2.8 31.2 + - - +
95I ILE* 3.7 31.4 - - + +
97I VAL* 3.1 24.5 - - + -
116I TYR* 3.8 23.6 - + - -
5Q PHE* 4.6 23.1 - + + -
8Q VAL 6.3 0.4 - - - -
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Residues in contact with ARG 75 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19I GLU* 2.6 53.8 + - - +
20I PRO* 3.8 32.1 + - + +
71I GLU* 2.9 33.8 + - + +
72I GLN* 2.6 51.3 + - - +
74I PHE* 1.3 72.8 - - - +
76I VAL* 1.3 55.9 + - - +
78I LEU* 3.3 7.3 - - - +
79I ARG* 3.2 45.5 + - - +
----------------------------------------------------------
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Residues in contact with VAL 76 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30D ASN* 5.7 0.7 - - - +
50D TYR* 3.9 33.2 - - + +
51D GLY* 4.3 0.9 - - - -
52D ALA 4.0 28.5 - - - +
54D SER* 4.4 10.3 - - - +
72I GLN* 2.9 15.8 + - - +
73I SER 3.8 4.9 - - - +
75I ARG* 1.3 77.9 - - + +
77I SER* 1.3 54.4 + - - +
78I LEU 3.1 1.3 - - - -
79I ARG* 3.9 24.7 - - - +
80I THR* 2.6 53.3 + - - +
7Q SER* 4.3 2.9 - - - +
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Residues in contact with SER 77 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73I SER 2.8 18.4 + - - -
74I PHE* 3.3 25.1 + - - -
76I VAL* 1.3 74.4 - - - +
78I LEU* 1.3 52.9 + - - +
80I THR* 3.3 1.7 - - - -
81I LEU* 2.5 50.2 + - - +
116I TYR* 6.4 0.2 - - - -
7Q SER* 4.2 9.1 - - - -
8Q VAL* 4.0 28.9 - - - -
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Residues in contact with LEU 78 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12I VAL 4.3 0.2 - - - -
13I SER* 3.4 25.8 - - - +
20I PRO* 3.3 35.7 - - + -
74I PHE 2.8 12.5 + - - +
75I ARG 3.3 5.2 - - - +
77I SER* 1.3 76.4 - - - +
79I ARG* 1.3 64.5 + - - +
81I LEU* 3.0 8.0 + - + +
82I LEU* 2.8 34.1 + - + +
93I HIS* 4.1 27.8 - - + +
94I THR 4.5 1.3 - - - +
95I ILE* 3.1 36.5 - - + +
118I TYR* 5.6 4.0 - - + -
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Residues in contact with ARG 79 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52D ALA* 3.4 18.0 + - + -
53D GLY* 2.6 30.9 + - - -
54D SER* 4.5 1.0 - - - -
72I GLN* 5.7 0.6 - - - +
75I ARG* 3.2 36.5 + - - +
76I VAL* 3.5 27.4 - - - +
78I LEU* 1.3 79.4 - - - +
80I THR* 1.3 63.4 + - - +
82I LEU* 3.3 30.9 - - + +
83I GLY* 3.7 3.5 + - - -
----------------------------------------------------------
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Residues in contact with THR 80 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30D ASN* 5.2 9.7 + - - +
52D ALA* 5.0 10.3 + - + +
72D GLN* 5.8 3.2 + - - +
76I VAL* 2.6 41.4 + - - +
77I SER* 3.3 7.2 - - - -
79I ARG* 1.3 74.1 - - - +
81I LEU* 1.3 65.6 + - - +
82I LEU 3.3 0.3 + - - -
83I GLY* 3.5 2.4 + - - -
84I TYR* 3.0 58.5 + - + +
146I LYS* 5.9 2.5 - - - -
7Q SER* 5.5 0.7 - - - -
8Q VAL* 4.8 6.3 - - + -
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Residues in contact with LEU 81 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77I SER* 2.5 38.9 + - - +
78I LEU* 3.6 8.3 - - + +
80I THR* 1.3 69.1 - - - +
82I LEU* 1.3 71.9 + - - +
84I TYR* 3.0 20.0 + - + +
85I TYR* 3.0 26.8 - - + +
95I ILE* 4.8 18.4 - - + -
116I TYR* 6.2 2.0 - - + -
118I TYR* 4.5 23.3 - - + -
123I TYR* 3.8 22.9 - - + +
8Q VAL* 3.5 37.9 - - + -
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Residues in contact with LEU 82 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13I SER* 5.5 3.1 - - - +
78I LEU* 2.8 26.8 + - + +
79I ARG* 3.3 26.9 - - + +
81I LEU* 1.3 80.8 - - - +
83I GLY* 1.3 64.7 + - - +
84I TYR 2.9 0.3 + - - -
85I TYR 3.0 9.2 + - - -
87I GLN* 3.4 35.6 + - + +
89I ALA* 5.2 16.8 - - + -
91I GLY 5.7 2.7 - - - +
93I HIS* 3.2 37.9 - - + +
118I TYR* 4.6 3.5 + - + +
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Residues in contact with GLY 83 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79I ARG 3.7 3.6 + - - -
80I THR 3.5 5.6 + - - -
81I LEU 3.4 0.4 - - - -
82I LEU* 1.3 78.1 - - - +
84I TYR* 1.3 56.2 + - - +
86I ASN* 2.6 38.6 + - - -
87I GLN 4.8 1.5 + - - -
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Residues in contact with TYR 84 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80I THR* 3.0 46.0 - - + +
81I LEU* 3.0 26.8 + - + +
82I LEU 2.9 0.6 + - - -
83I GLY* 1.3 73.9 - - - +
85I TYR* 1.3 73.5 + - + +
86I ASN* 3.9 2.3 + - - -
123I TYR* 2.9 29.2 - - - -
139I ALA 4.2 3.6 - - - -
142I ILE* 3.5 53.0 - - + +
143I THR* 3.2 16.3 + - - -
146I LYS* 4.3 12.6 - - - +
8Q VAL* 4.4 2.1 - - - +
----------------------------------------------------------
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Residues in contact with TYR 85 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81I LEU* 3.0 34.5 - - - +
82I LEU 3.0 4.1 + - - -
83I GLY 2.7 1.0 + - - -
84I TYR* 1.3 88.7 - - + +
86I ASN* 1.3 74.2 + - - +
87I GLN* 3.3 13.9 + - + +
118I TYR* 3.3 50.1 - + - -
123I TYR* 3.1 31.9 - - - -
139I ALA* 3.3 32.2 - - + +
----------------------------------------------------------
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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