Contacts of the helix formed by residues 38 - 72 (chain B) in PDB entry 4XK8
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 THR 38 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B ASP 4.1 5.8 + - - +
37B ILE* 1.3 86.2 - - - +
39B GLU* 1.3 65.3 + - - +
40B GLY* 3.7 4.3 + - - -
41B ARG* 3.3 29.3 + - + +
42B LEU* 3.0 23.7 + - - +
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Residues in contact with GLU 39 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B THR* 1.3 74.0 - - - +
40B GLY* 1.3 62.6 + - - +
42B LEU* 3.2 12.1 + - + +
43B TYR* 2.9 49.2 + - + -
165B VAL* 3.6 24.5 - - + +
169B LYS* 3.3 25.5 + - - -
328B ASN* 4.6 8.1 - - - +
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Residues in contact with GLY 40 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B THR* 3.2 5.8 + - - -
39B GLU* 1.3 79.9 - - - +
41B ARG* 1.3 62.6 + - - +
43B TYR* 3.3 1.6 + - - +
44B GLN* 2.9 43.8 + - - +
165B VAL* 3.6 20.1 - - - +
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Residues in contact with ARG 41 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B ASP 3.9 22.2 + - - -
37B ILE* 4.4 9.9 - - + +
38B THR* 3.3 26.5 + - - +
40B GLY* 1.3 74.2 - - - +
42B LEU* 1.3 56.7 + - - +
44B GLN* 3.7 12.7 + - - +
45B ASN* 2.9 47.7 + - - +
162B LYS* 4.9 12.3 - - - +
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Residues in contact with LEU 42 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B PHE* 3.6 30.5 - - + -
32B GLU* 3.8 36.6 - - + +
37B ILE* 5.7 7.1 - - + +
38B THR 3.0 14.3 + - - +
39B GLU* 3.3 17.7 - - + +
41B ARG* 1.3 76.9 - - - +
43B TYR* 1.3 61.0 + - + +
45B ASN* 3.9 2.6 - - - +
46B ILE* 2.9 51.1 + - + +
330B ILE* 3.9 20.0 - - + -
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Residues in contact with TYR 43 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B GLU* 2.9 51.0 + - + +
40B GLY* 4.0 3.4 - - - +
42B LEU* 1.3 77.8 - - + +
44B GLN* 1.3 57.7 + - - +
46B ILE* 3.4 9.1 + - + +
47B PHE* 2.9 29.5 + - - +
165B VAL* 3.8 16.8 - - + -
168B PHE* 3.5 56.4 - + + -
169B LYS* 3.4 21.5 + - + +
174B ARG* 6.2 0.4 - - - -
327B ASN 3.5 10.4 + - - -
328B ASN 4.3 3.3 + - - -
330B ILE* 3.6 38.5 - - + +
333B GLN* 4.6 5.5 + - - -
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Residues in contact with GLN 44 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B GLY* 2.9 33.3 + - - +
41B ARG* 3.7 9.8 - - - +
43B TYR* 1.3 74.1 - - - +
45B ASN* 1.3 61.4 + - - +
47B PHE* 3.3 7.7 + - - +
48B ALA* 3.0 29.8 + - - +
156B HIS 5.4 2.4 - - - +
157B LEU* 4.1 14.2 - - + +
162B LYS* 3.4 46.2 + - + +
163B PRO* 3.4 29.6 + - + +
164B SER* 5.2 2.4 - - - +
165B VAL 5.8 0.2 - - - +
168B PHE* 4.6 6.1 - - + -
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Residues in contact with ASN 45 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B PHE* 3.7 32.3 - - + +
37B ILE* 6.0 3.4 - - - +
41B ARG* 2.9 32.3 + - - +
42B LEU* 3.9 1.7 - - - +
44B GLN* 1.3 74.8 - - - +
46B ILE* 1.3 56.3 + - - +
48B ALA* 3.5 5.8 + - - +
49B SER* 2.6 38.7 + - - -
157B LEU* 4.3 13.0 - - - +
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Residues in contact with ILE 46 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B PHE* 4.0 15.5 - - + -
42B LEU* 2.9 34.7 + - + +
43B TYR* 3.6 7.9 - - + +
45B ASN* 1.3 77.9 - - - +
47B PHE* 1.3 56.6 + - - +
49B SER* 3.3 6.5 + - - -
50B HIS* 2.9 65.1 + - + +
330B ILE* 3.7 39.5 - - + -
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Residues in contact with PHE 47 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B TYR 2.9 16.8 + - - +
44B GLN* 3.4 6.1 - - - +
46B ILE* 1.3 78.4 - - - +
48B ALA* 1.3 63.0 + - - +
50B HIS* 3.1 17.3 + - + +
51B PHE* 3.0 59.2 + + - -
156B HIS* 3.9 31.2 - + + -
163B PRO* 4.2 15.3 - - + -
167B TRP* 4.0 21.5 - + - -
168B PHE* 3.9 25.6 - + + -
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Residues in contact with ALA 48 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B GLN 3.0 16.5 + - - +
45B ASN* 3.9 5.4 - - - +
47B PHE* 1.3 76.4 - - - +
49B SER* 1.3 56.8 + - - +
51B PHE* 3.2 13.2 + - - +
52B GLY* 2.9 24.3 + - - -
153B GLY* 4.3 11.3 - - - +
156B HIS* 6.1 0.7 - - - -
157B LEU* 3.7 35.2 - - + +
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Residues in contact with SER 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B PHE* 3.7 19.5 - - - -
45B ASN 2.6 25.7 + - - -
46B ILE* 3.4 8.3 - - - -
47B PHE 3.2 0.2 - - - -
48B ALA* 1.3 73.7 - - - +
50B HIS* 1.3 64.9 + - - +
52B GLY* 3.2 3.0 + - - +
53B GLN* 2.9 28.2 + - - +
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Residues in contact with HIS 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B ILE* 2.9 46.2 + - + +
47B PHE* 3.1 17.9 + - + +
49B SER* 1.3 78.6 - - - +
51B PHE* 1.3 65.7 + - + +
53B GLN* 3.2 9.2 + - + +
54B LEU* 2.9 30.6 + - + +
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Residues in contact with PHE 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B PHE* 3.0 67.5 + + - -
48B ALA* 3.2 6.7 + - - +
50B HIS* 1.3 76.4 - - + +
52B GLY* 1.3 61.7 + - - +
54B LEU* 3.2 17.7 + - + +
55B ALA* 2.9 23.4 + - - +
149B SER* 3.5 26.9 - - - +
150B LEU* 5.5 0.4 - - - -
152B ALA* 3.5 21.8 - - + -
153B GLY* 3.7 22.7 - - - -
156B HIS* 3.9 23.1 - + + -
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Residues in contact with GLY 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B ALA 2.9 13.8 + - - -
49B SER* 3.2 4.9 + - - -
51B PHE* 1.3 75.4 - - - +
53B GLN* 1.3 61.6 + - - +
55B ALA* 3.2 8.7 + - - +
56B ILE* 3.0 31.3 + - - +
150B LEU* 4.6 12.0 - - - +
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Residues in contact with GLN 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B SER 2.9 12.9 + - - +
50B HIS* 3.2 12.8 + - + +
52B GLY* 1.3 74.5 - - - +
54B LEU* 1.3 65.7 + - + +
56B ILE* 3.1 20.8 + - - +
57B ILE* 2.9 39.5 + - + +
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Residues in contact with LEU 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B HIS* 2.9 19.6 + - + +
51B PHE* 3.5 25.6 - - + +
53B GLN* 1.3 77.7 - - + +
55B ALA* 1.3 63.2 + - - +
57B ILE* 3.1 19.1 + - + +
58B PHE* 2.9 48.8 + - + -
149B SER* 4.3 8.7 - - - -
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Residues in contact with ALA 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B PHE 2.9 12.0 + - - +
52B GLY 3.2 9.2 + - - +
54B LEU* 1.3 74.3 - - - +
56B ILE* 1.3 59.5 + - + +
58B PHE 3.4 0.3 + - - -
59B LEU* 2.9 21.3 + - - +
146B SER* 2.9 33.3 + - - +
149B SER* 3.2 22.5 + - - +
150B LEU* 3.7 24.2 - - + -
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Residues in contact with ILE 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B GLY 3.0 20.8 + - - +
53B GLN* 3.1 20.8 + - - +
55B ALA* 1.3 78.8 - - + +
57B ILE* 1.3 57.5 + - - +
59B LEU* 3.4 10.9 + - + +
60B TRP* 2.9 30.5 + - + +
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Residues in contact with ILE 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B GLN* 2.9 42.9 + - + +
54B LEU* 3.1 20.6 + - + +
56B ILE* 1.3 76.1 - - + +
58B PHE* 1.3 66.6 + - + +
60B TRP* 3.1 21.6 + - + +
61B THR* 2.9 40.6 + - - +
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Residues in contact with PHE 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B LEU* 2.9 49.3 + - + +
55B ALA 3.8 3.1 - - - +
57B ILE* 1.3 83.6 - - + +
59B LEU* 1.3 57.5 + - - +
61B THR* 3.9 4.4 - - - -
62B SER* 2.9 30.5 + - - -
142B LEU* 3.3 40.4 - - + +
145B LEU* 3.7 46.9 - - + -
146B SER 3.9 3.8 - - - +
149B SER* 4.1 4.0 - - - -
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Residues in contact with LEU 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B ALA 2.9 19.2 + - - +
56B ILE* 3.7 10.8 - - + +
58B PHE* 1.3 76.1 - - - +
60B TRP* 1.3 57.1 + - - +
62B SER* 2.6 20.2 + - - +
63B GLY* 2.9 14.1 + - - -
143B LEU* 3.7 25.4 - - + -
146B SER* 3.8 12.1 + - - +
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Residues in contact with TRP 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B ILE* 2.9 21.3 + - + +
57B ILE* 3.1 20.8 + - + +
59B LEU* 1.3 74.9 - - - +
61B THR* 1.3 85.7 + - + +
63B GLY* 3.0 3.9 + - - -
64B ASN* 3.0 50.6 + - - +
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Residues in contact with THR 61 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ILE* 2.9 21.6 + - - +
58B PHE* 3.9 5.3 - - - -
60B TRP* 1.3 90.9 - - + +
62B SER* 1.3 58.2 + - - +
64B ASN* 3.1 13.7 + - + +
65B LEU* 2.9 35.9 + - + +
123B TRP* 5.5 13.0 - - + -
124B TRP* 5.4 7.2 - - + +
142B LEU* 3.5 24.7 - - + -
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Residues in contact with SER 62 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B PHE 2.9 15.1 + - - -
59B LEU* 2.6 33.1 + - - +
61B THR* 1.3 77.1 - - - +
63B GLY* 1.3 55.8 + - - +
65B LEU* 4.4 2.9 - - - -
66B PHE* 2.9 31.8 + - - +
139B ALA* 3.3 36.9 - - - +
142B LEU* 3.9 7.4 - - - +
143B LEU* 4.0 12.2 - - - +
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Residues in contact with GLY 63 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B LEU* 2.9 15.8 + - - -
60B TRP* 3.0 5.5 + - - -
62B SER* 1.3 75.7 + - - +
64B ASN* 1.3 60.3 - - - +
66B PHE* 3.4 5.2 + - - +
67B HIS* 2.9 44.1 + - - -
----------------------------------------------------------
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Residues in contact with ASN 64 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B TRP* 3.0 58.6 + - - +
61B THR* 3.1 12.2 + - + +
63B GLY* 1.3 77.9 - - - +
65B LEU* 1.3 62.8 + - - +
67B HIS* 3.3 3.8 + - - +
68B VAL* 3.0 30.8 + - + +
88B ALA 5.2 0.2 - - - +
120B VAL* 5.4 9.0 - - + +
124B TRP* 3.9 15.3 - - + -
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Residues in contact with LEU 65 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B THR* 2.9 19.9 + - + +
62B SER 3.8 3.4 - - - +
64B ASN* 1.3 76.0 - - - +
66B PHE* 1.3 64.2 + - - +
68B VAL* 3.4 1.7 + - - +
69B ALA* 2.9 26.4 + - - +
124B TRP* 3.5 39.2 - - + +
129B LEU* 5.5 3.4 - - + -
135B LEU* 3.7 40.3 - - + +
138B GLY* 4.0 5.4 - - - -
139B ALA* 3.9 18.4 - - + +
142B LEU* 3.6 30.5 - - + -
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Residues in contact with PHE 66 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B SER 2.9 19.7 + - - +
63B GLY* 3.7 4.7 - - - +
65B LEU* 1.3 76.9 - - - +
67B HIS* 1.3 78.5 + + - +
69B ALA* 3.4 4.8 + - - +
70B TRP* 2.9 74.1 + + + +
136B TYR* 3.9 27.4 - + - -
139B ALA* 4.0 12.5 - - + +
----------------------------------------------------------
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Residues in contact with HIS 67 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B GLY* 2.9 30.8 + - - +
64B ASN* 4.0 3.4 - - - +
66B PHE* 1.3 89.2 - + - +
68B VAL* 1.3 60.6 + - - +
70B TRP* 4.2 21.8 - + - +
71B GLN* 2.9 56.3 + - - +
72B GLY 3.5 3.5 + - - -
88B ALA 3.9 16.4 - - - +
89B HIS* 4.0 12.8 - + + +
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Residues in contact with VAL 68 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASN* 3.0 23.4 + - + +
65B LEU 3.9 1.1 - - - +
67B HIS* 1.3 75.8 - - - +
69B ALA* 1.3 59.9 + - - +
72B GLY* 3.0 29.4 + - - +
74B PHE* 4.1 6.8 - - + +
87B ILE 4.2 1.6 - - - +
88B ALA* 4.2 14.8 - - - +
120B VAL* 4.3 7.0 - - + -
121B TYR* 3.6 37.0 - - + +
124B TRP* 3.6 26.9 - - + -
132B ASN* 4.5 3.1 - - - +
135B LEU* 3.8 17.0 - - + -
----------------------------------------------------------
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Residues in contact with ALA 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B LEU 2.9 19.0 + - - +
66B PHE 3.7 3.1 - - - +
68B VAL* 1.3 79.4 - - - +
70B TRP* 1.3 58.9 + - - +
72B GLY 4.8 1.9 + - - +
132B ASN* 3.5 37.2 + - + +
135B LEU* 3.6 28.5 - - + -
136B TYR* 3.6 23.6 + - + +
----------------------------------------------------------
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Residues in contact with TRP 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B PHE* 2.9 53.8 + + + +
67B HIS* 4.2 11.2 - + - +
69B ALA* 1.3 80.6 - - - +
71B GLN* 1.3 94.4 + - + +
72B GLY 3.8 0.7 - - - -
136B TYR* 3.1 18.4 - - + +
----------------------------------------------------------
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Residues in contact with GLN 71 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B HIS* 2.9 32.0 + - - +
70B TRP* 1.3 124.9 - - + +
72B GLY* 1.3 63.0 + - - +
87B ILE* 3.5 15.0 - - - +
89B HIS* 3.7 2.7 - - - +
90B ALA* 3.0 48.9 + - + +
113B VAL* 4.5 6.1 - - - +
----------------------------------------------------------
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Residues in contact with GLY 72 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B HIS 3.5 1.8 + - - -
68B VAL 3.0 20.2 + - - +
69B ALA 5.2 1.9 - - - +
70B TRP 3.8 0.6 - - - -
71B GLN* 1.3 82.5 - - - +
73B ASN* 1.3 60.8 + - - -
74B PHE 3.6 3.3 + - - -
87B ILE* 3.6 20.0 - - - -
121B TYR* 3.7 4.7 - - - -
132B ASN* 5.4 4.5 + - - +
----------------------------------------------------------
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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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