Contacts of the helix formed by residues 49 - 75 (chain A) in PDB entry 2G33
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 49 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A HIS 2.2 22.8 + - - +
48A ALA* 1.3 72.5 - - - +
50A PRO* 1.3 77.2 - - - +
51A HIS* 3.0 23.8 + - - +
52A HIS* 2.7 41.9 + - - +
53A THR* 3.3 5.8 + - - -
108A LEU* 5.4 0.2 - - - +
112A ARG* 6.2 0.2 - - - -
50B PRO* 6.2 1.1 - - - -
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Residues in contact with PRO 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A PHE* 4.0 12.8 - - + -
49A SER* 1.3 85.3 - - - +
51A HIS* 1.3 67.3 + - + +
53A THR* 3.0 12.9 + - - +
54A ALA* 2.7 23.2 + - - +
112A ARG* 5.0 8.5 - - - +
47B HIS* 3.4 37.9 - - + +
50B PRO* 5.4 11.7 - - + -
53B THR* 4.1 17.8 - - + +
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Residues in contact with HIS 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A PHE* 3.3 30.7 - + + -
49A SER* 3.0 14.2 + - - +
50A PRO* 1.3 79.4 - - - +
52A HIS* 1.3 67.3 + - - +
54A ALA* 3.1 16.5 + - - +
55A LEU* 3.2 12.6 - - - +
103A PHE* 4.6 7.4 - + - -
104A HIS* 3.0 27.6 + + - +
107A ALA* 4.2 19.6 - - + +
108A LEU* 3.5 26.4 - - + +
112A ARG* 3.6 41.3 + - + +
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Residues in contact with HIS 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A TYR* 6.5 0.4 - + + -
41A ALA* 5.0 5.4 - - + -
42A LEU* 4.0 21.8 - - + +
47A HIS 4.9 0.2 - - - -
48A ALA* 3.8 20.0 - - + +
49A SER* 2.7 52.4 + - - +
50A PRO 3.1 0.2 - - - -
51A HIS* 1.3 80.3 - - - +
53A THR* 1.3 66.5 + - - +
55A LEU* 2.9 18.0 + - - +
56A ARG* 3.2 31.7 - - - +
108A LEU* 3.9 29.6 - - + +
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Residues in contact with THR 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A HIS* 3.7 5.2 - - - +
49A SER 3.3 12.1 + - - -
50A PRO* 3.1 12.5 - - - +
52A HIS* 1.3 75.2 - - - +
54A ALA* 1.3 66.4 + - - +
56A ARG* 2.8 28.2 - - - +
57A GLN* 3.0 14.8 + - - +
8B GLU* 2.6 35.1 + - - +
50B PRO* 4.0 13.3 - - + +
53B THR* 4.8 1.8 - - - -
54B ALA* 3.7 32.1 - - + +
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Residues in contact with ALA 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A PHE* 4.5 7.4 - - + -
50A PRO 2.7 14.3 + - - +
51A HIS* 3.1 11.7 - - - +
53A THR* 1.3 74.3 - - - +
55A LEU* 1.3 67.8 + - - +
57A GLN* 3.3 14.3 - - - +
58A ALA* 3.8 4.9 + - - +
100A LEU* 5.8 0.5 - - - +
104A HIS* 3.1 34.8 - - + +
53B THR* 4.8 5.1 - - + +
57B GLN* 4.0 23.7 - - - +
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Residues in contact with LEU 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A ALA* 5.5 7.2 - - + -
38A TYR* 6.0 4.5 - - + -
42A LEU* 5.3 13.9 - - + -
51A HIS 3.2 16.8 - - - +
52A HIS* 2.9 11.1 + - - +
54A ALA* 1.3 76.5 - - - +
56A ARG* 1.3 70.9 + - + +
57A GLN 2.5 4.2 + - - -
58A ALA* 2.6 27.5 + - + +
59A ILE* 3.0 21.3 - - + +
100A LEU* 6.1 0.4 - - + -
101A LEU* 5.6 7.2 - - + +
104A HIS* 3.3 36.8 - - + -
105A ILE* 4.1 25.6 - - + +
108A LEU* 5.0 10.8 - - + -
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Residues in contact with ARG 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ALA 4.3 1.2 + - - -
42A LEU* 2.7 60.3 + - - +
44A SER 4.0 6.7 + - - -
46A GLU 3.5 22.6 + - - -
47A HIS* 3.7 13.3 - - - +
52A HIS* 3.2 25.1 + - - +
53A THR* 2.8 28.8 - - - +
55A LEU* 1.3 76.9 - - - +
57A GLN* 1.3 78.3 + - - +
59A ILE* 3.1 12.3 + - - +
60A LEU* 2.8 25.5 + - - +
3B ILE* 4.9 16.6 - - + -
4B ASP 5.8 3.8 - - - -
5B PRO* 5.3 9.6 - - + -
8B GLU* 3.9 16.5 + - - +
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Residues in contact with GLN 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A THR* 3.0 23.5 + - - +
54A ALA 3.3 13.7 - - - +
55A LEU 2.5 3.2 + - - -
56A ARG* 1.3 76.6 - - - +
58A ALA* 1.3 69.3 + - - +
60A LEU* 2.5 22.4 + - - -
61A ALA* 2.6 16.7 + - + -
5B PRO* 5.3 12.7 + - - +
8B GLU* 5.1 2.4 + - - -
9B PHE* 6.4 0.2 - - - -
54B ALA* 4.1 20.4 - - - +
57B GLN* 3.4 34.1 - - + -
58B ALA* 4.7 7.5 + - - +
100B LEU* 4.9 13.2 - - - +
104B HIS* 5.3 4.3 + - - -
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Residues in contact with ALA 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ALA 3.8 4.7 + - - +
55A LEU* 2.6 20.7 + - - +
57A GLN* 1.3 76.2 - - - +
59A ILE* 1.3 54.6 + - + +
61A ALA* 3.1 3.0 + - - +
62A TRP* 2.8 37.8 + - - +
97A PHE* 3.4 17.6 - - + -
100A LEU* 4.5 18.2 - - + -
101A LEU* 4.3 18.4 - - + -
57B GLN* 5.1 2.0 - - - +
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Residues in contact with ILE 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LEU* 4.7 20.4 - - + -
42A LEU* 5.9 4.7 - - + -
55A LEU* 3.0 53.4 - - + -
56A ARG* 3.1 10.1 - - - +
57A GLN 2.9 2.6 + - - -
58A ALA* 1.3 74.0 - - + +
60A LEU* 1.3 56.2 + - + +
62A TRP* 3.2 9.5 + - + +
63A GLY* 2.6 35.7 + - - -
101A LEU* 4.8 12.8 - - + +
1B MET* 4.8 22.0 - - + +
3B ILE* 5.7 6.3 - - + -
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Residues in contact with LEU 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A ARG 2.8 15.4 + - - +
57A GLN* 2.5 15.0 + - - +
59A ILE* 1.3 72.6 - - + +
61A ALA* 1.3 59.3 + - - +
63A GLY* 3.2 4.6 + - - +
64A ASP* 2.8 39.5 + - - +
1B MET 5.2 5.4 - - - +
3B ILE* 3.8 32.3 - - + +
5B PRO* 3.2 48.9 - - + -
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Residues in contact with ALA 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A GLN* 2.6 19.1 + - + +
58A ALA* 3.5 8.1 - - - +
60A LEU* 1.3 72.0 - - - +
62A TRP* 1.3 57.1 + - - +
64A ASP* 2.8 27.4 - - - +
65A LEU* 2.9 19.9 + - + +
97A PHE* 4.2 15.5 - - + -
61B ALA* 4.2 18.4 - - + -
97B PHE* 4.9 12.1 - - + -
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Residues in contact with TRP 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A VAL* 4.1 32.8 - - + -
31A LEU* 4.2 21.8 - - + +
58A ALA 2.8 16.5 + - - +
59A ILE* 3.5 8.3 - - + +
61A ALA* 1.3 73.8 - - - +
63A GLY* 1.3 55.9 + - - +
64A ASP 2.8 5.2 - - - -
65A LEU* 2.8 20.4 + - + +
66A MET* 2.7 72.0 + - + -
89A VAL* 4.7 17.7 - - + -
90A ASN* 5.0 11.0 - - - -
93A VAL* 4.0 19.3 - - + -
94A GLY* 4.6 10.1 - - - -
97A PHE* 3.4 36.1 - + + -
101A LEU* 5.8 3.1 - - + -
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Residues in contact with GLY 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ILE* 2.6 21.0 + - - -
60A LEU* 3.2 8.3 + - - -
62A TRP* 1.3 77.8 - - - +
64A ASP* 1.3 55.1 + - - +
66A MET* 4.4 5.4 - - - -
67A THR* 2.7 30.1 + - - -
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Residues in contact with ASP 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A LEU* 2.8 16.8 + - - +
61A ALA* 2.8 21.4 - - - +
62A TRP 2.8 0.2 - - - -
63A GLY* 1.3 78.2 - - - +
65A LEU* 1.3 62.7 + - + +
67A THR* 3.7 8.5 - - - +
68A LEU* 3.1 23.4 + - - +
88B TYR* 5.0 2.1 + - - -
93B VAL* 6.0 5.3 - - + +
96B LYS* 3.5 38.2 + - - +
97B PHE* 4.4 15.9 - - + -
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Residues in contact with LEU 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A ALA* 2.9 23.8 + - + +
62A TRP* 2.8 25.7 + - + +
64A ASP* 1.3 79.2 - - + +
66A MET* 1.3 55.2 + - + +
67A THR 3.0 1.3 - - - -
68A LEU* 2.7 21.0 + - + +
69A ALA* 2.6 36.5 + - - +
89A VAL* 5.3 11.9 - - + -
93A VAL* 4.2 26.7 - - + -
97A PHE* 4.7 8.3 - - + -
65B LEU* 5.1 21.8 - - + -
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Residues in contact with MET 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ARG* 5.2 15.5 - - - +
31A LEU* 6.0 0.4 - - - -
62A TRP* 2.7 54.6 + - + +
63A GLY* 4.8 4.7 - - - -
65A LEU* 1.3 74.1 - - + +
67A THR* 1.3 59.9 + - - +
68A LEU 3.4 0.2 + - - -
69A ALA* 3.9 11.9 - - + -
70A THR* 3.2 35.4 + - + +
89A VAL* 6.4 1.8 - - + -
90A ASN* 5.6 12.6 - - - +
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Residues in contact with THR 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A GLY 2.7 25.2 + - - -
64A ASP* 3.7 9.5 + - - +
65A LEU 3.0 0.6 - - - -
66A MET* 1.3 78.4 - - - +
68A LEU* 1.3 62.8 + - - +
70A THR* 3.9 7.6 + - - -
71A TRP* 3.8 11.1 + - - +
88B TYR* 4.5 7.7 + - - +
96B LYS* 4.0 23.1 - - - +
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Residues in contact with LEU 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A ASP 3.1 15.1 + - - +
65A LEU* 2.7 25.8 + - + +
67A THR* 1.3 78.5 - - - +
69A ALA* 1.3 57.6 + - + +
71A TRP* 2.5 39.4 + - + +
72A VAL* 3.0 27.1 + - + +
89A VAL* 6.3 2.9 - - + -
88B TYR* 3.4 42.0 - - + -
89B VAL* 6.2 0.9 - - + -
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Residues in contact with ALA 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU 2.6 17.7 + - - +
66A MET* 3.9 15.9 - - + +
68A LEU* 1.3 79.6 - - + +
70A THR* 1.3 64.5 + - + +
71A TRP 3.2 0.5 + - - -
72A VAL* 3.3 20.5 + - - +
73A GLY* 3.6 4.5 + - - -
85A VAL* 6.5 0.2 - - - -
86A VAL* 5.3 23.6 - - + +
89A VAL* 6.0 5.8 - - + -
90A ASN* 5.9 0.7 - - - +
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Residues in contact with THR 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A MET* 3.2 25.4 + - + +
67A THR* 3.9 7.4 + - - -
69A ALA* 1.3 82.2 - - + +
71A TRP* 1.3 61.3 + - - +
73A GLY* 3.8 3.1 + - - -
74A THR* 3.4 19.1 + - - -
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Residues in contact with TRP 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A THR 3.8 11.4 - - - +
68A LEU* 2.5 29.2 + - + +
70A THR* 1.3 71.6 + - - +
72A VAL* 1.3 90.4 + - + -
73A GLY 3.1 2.0 - - - -
74A THR* 2.8 29.3 + - + -
75A ASN* 2.9 53.9 + - + +
76A LEU* 6.2 2.0 - - + -
84B LEU* 5.0 16.8 - - + -
85B VAL* 5.6 8.1 - - + -
88B TYR* 3.9 51.7 - + + +
92B ASN* 5.9 1.3 - - - +
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Residues in contact with VAL 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A LEU* 3.0 39.2 + - + +
69A ALA* 3.4 11.7 - - - +
71A TRP* 1.3 91.7 - - + +
73A GLY* 1.3 61.1 + - - +
75A ASN 3.4 0.5 + - - -
76A LEU* 3.2 53.1 + - + +
82A ARG* 4.2 12.1 - - + +
85A VAL* 4.7 22.9 - - + -
86A VAL* 6.2 0.9 - - + -
85B VAL* 6.1 3.1 - - + -
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Residues in contact with GLY 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A ALA 3.6 7.0 + - - -
70A THR* 3.8 4.8 + - - -
71A TRP 3.1 1.0 - - - -
72A VAL* 1.3 78.9 - - - +
74A THR* 1.3 60.4 + - - +
76A LEU 4.2 2.8 + - - +
77A GLU* 5.5 0.9 - - - +
82A ARG* 3.3 35.7 + - - +
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Residues in contact with THR 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A THR 3.4 14.0 + - - -
71A TRP* 2.8 14.3 + - + -
73A GLY* 1.3 79.2 - - - +
75A ASN* 1.3 69.9 + - - +
76A LEU 3.7 2.6 + - - -
77A GLU* 4.2 10.7 - - - +
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Residues in contact with ASN 75 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A TRP* 2.9 55.4 + - + +
72A VAL 3.5 2.2 - - - +
74A THR* 1.3 93.7 - - - +
76A LEU* 1.3 66.8 + - - +
77A GLU* 4.4 0.9 - - - -
84B LEU* 4.1 14.2 - - + +
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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