Contacts of the helix formed by residues 15 - 43 (chain B) in PDB entry 2AXT
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 ASP 15 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B VAL 4.2 14.2 - - - +
12B LEU* 3.3 6.6 + - - +
14B ASN* 1.3 78.3 - - - +
16B PRO* 1.3 54.5 - - - +
17B GLY 2.4 23.5 + - - -
18B ARG* 2.6 46.6 + - + +
19B LEU* 2.8 9.9 + - - -
118B TRP* 3.6 21.1 - - - +
4L ASN* 3.1 32.0 + - - +
6L ASN* 3.5 15.8 + - - +
7L ARG* 5.6 0.7 + - - -
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Residues in contact with PRO 16 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B ASN* 3.4 10.3 - - - +
15B ASP* 1.3 85.7 - - - +
17B GLY* 1.3 56.3 + - - +
19B LEU* 3.8 12.5 - - + -
20B ILE* 3.1 36.9 + - + +
123B PHE* 3.7 27.6 - - + +
131B PRO* 4.7 10.1 - - + -
132B ALA* 5.2 3.4 - - - +
133B LEU* 3.3 47.3 - - + -
525B CLA 5.7 0.4 - - + -
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Residues in contact with GLY 17 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B ASP* 2.4 10.9 + - - -
16B PRO* 1.3 71.2 - - - +
18B ARG* 1.3 49.5 + - - -
19B LEU 3.0 3.6 - - - -
20B ILE* 3.2 5.0 + - - +
21B ALA* 2.7 33.8 + - - +
114B HIS* 3.5 18.8 - - - +
117B TYR 5.5 0.2 - - - -
118B TRP* 4.0 11.4 + - - -
123B PHE* 3.6 22.7 - - - -
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Residues in contact with ARG 18 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B LEU* 3.1 31.9 - - + +
15B ASP* 2.6 29.8 + - - +
17B GLY* 1.3 69.7 - - - -
19B LEU* 1.3 58.3 + - - +
21B ALA* 3.7 6.7 - - - -
22B ALA* 3.2 18.2 + - - +
115B TRP* 2.6 74.6 + - + +
116B VAL* 5.1 0.6 + - - +
118B TRP* 3.6 17.4 - - + -
4L ASN* 3.1 27.6 - - - +
7L ARG* 3.5 16.5 - - - +
213t SQD 3.4 33.1 + - - -
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Residues in contact with LEU 19 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B LEU* 3.4 37.2 - - + +
13B ILE 6.2 0.4 - - - -
15B ASP 2.8 12.8 + - - +
16B PRO* 3.9 11.7 - - + +
18B ARG* 1.3 77.7 - - - +
20B ILE* 1.3 56.2 + - - +
21B ALA 3.0 1.1 - - - -
22B ALA* 3.0 3.8 + - - +
23B HIS* 2.7 48.4 + - + +
133B LEU* 5.6 0.7 - - + -
234B ILE* 3.7 29.8 - - + -
520B CLA 4.2 16.4 - - + -
522B CLA 3.6 31.0 - - + -
525B CLA 5.0 7.0 - - + +
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Residues in contact with ILE 20 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B PRO 3.1 19.9 + - - +
17B GLY* 3.6 2.9 - - - +
19B LEU* 1.3 79.1 - - - +
21B ALA* 1.3 57.7 + - - +
23B HIS* 3.7 2.5 - - - +
24B LEU* 2.8 32.6 + - + +
114B HIS* 3.9 31.0 - - + +
123B PHE* 3.9 20.0 - - + -
525B CLA 3.6 47.9 - - + +
526B CLA 3.4 36.1 - - + -
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Residues in contact with ALA 21 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B GLY 2.7 16.6 + - - +
18B ARG* 3.7 2.5 - - - -
19B LEU 3.0 0.2 - - - -
20B ILE* 1.3 75.7 - - - +
22B ALA* 1.3 68.1 + - - +
24B LEU* 3.3 7.1 + - - +
25B MET* 3.2 18.7 + - - +
111B ALA* 3.8 20.9 - - - +
114B HIS* 4.0 6.1 - - - +
115B TRP* 3.6 37.2 - - + +
527B BCR 3.9 5.9 - - + +
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Residues in contact with ALA 22 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B LEU* 3.6 5.6 - - + -
18B ARG 3.2 14.5 + - - +
19B LEU 3.0 8.4 + - - +
21B ALA* 1.3 78.1 - - - +
23B HIS* 1.3 62.0 + - + +
25B MET* 2.8 24.1 + - - +
26B HIS* 3.2 8.7 + - - +
115B TRP* 5.1 0.6 - - - -
522B CLA 3.6 37.0 - - + -
524B CLA 3.7 17.8 - - + +
527B BCR 4.7 3.6 - - - -
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Residues in contact with HIS 23 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B LEU* 2.7 31.0 + - + +
20B ILE 4.0 3.1 - - - +
22B ALA* 1.3 73.6 - - - +
24B LEU* 1.3 59.7 + - - +
26B HIS* 3.5 7.3 + - - +
27B THR* 3.1 27.5 + - - -
520B CLA 3.8 14.8 - - + +
522B CLA 2.6 106.7 + + + +
525B CLA 3.1 29.9 + - - +
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Residues in contact with LEU 24 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B ILE* 2.8 24.7 + - + +
21B ALA 3.4 6.3 - - - +
22B ALA 2.9 0.2 + - - -
23B HIS* 1.3 73.5 - - - +
25B MET* 1.3 58.1 + - - +
27B THR* 3.7 2.2 + - - -
28B ALA* 3.0 27.5 + - - +
107B LEU* 3.2 39.7 - - + +
110B ALA* 3.4 14.6 - - + +
111B ALA* 3.3 29.4 - - + +
114B HIS* 3.6 24.5 - - + -
525B CLA 4.3 7.6 - - - -
526B CLA 3.5 26.7 - - + -
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Residues in contact with MET 25 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B ALA 3.2 1.6 + - - +
22B ALA 2.8 10.5 + - - +
24B LEU* 1.3 78.2 - - - +
26B HIS* 1.3 63.3 + - - +
28B ALA* 4.2 6.3 - - - -
29B LEU* 3.0 34.7 + - + +
108B PHE* 3.5 40.4 - - + +
111B ALA* 4.1 10.1 - - + +
524B CLA 3.7 19.3 - - + -
527B BCR 3.5 72.5 - - + -
213t SQD 4.9 5.2 - - + -
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Residues in contact with HIS 26 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B ALA 3.2 5.8 + - - +
23B HIS 3.8 7.9 - - - +
24B LEU 3.4 0.2 - - - -
25B MET* 1.3 73.6 - - - +
27B THR* 1.3 73.7 + - - +
29B LEU* 3.0 15.3 + - + +
30B VAL* 3.0 26.9 + - + +
522B CLA 3.4 68.6 - - + +
523B CLA 2.8 80.4 + + - -
524B CLA 4.8 5.0 - - + +
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Residues in contact with THR 27 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B HIS 3.1 16.2 + - - -
24B LEU* 3.9 4.9 - - - -
26B HIS* 1.3 80.9 + - - +
28B ALA* 1.3 66.2 + - - +
30B VAL* 2.7 16.2 + - - +
107B LEU* 3.3 24.7 - - + -
515B CLA 2.7 47.3 - - + +
522B CLA 3.5 29.0 + - + +
525B CLA 4.3 14.0 - - - -
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Residues in contact with ALA 28 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B LEU 3.0 19.3 + - - +
25B MET* 3.6 9.2 - - - +
27B THR* 1.3 75.1 - - - +
29B LEU* 1.3 56.8 + - - +
31B ALA* 4.7 0.2 - - - -
32B GLY 3.0 8.7 + - - -
104B SER* 2.9 39.0 - - - +
107B LEU* 3.5 28.1 - - + +
108B PHE* 3.8 11.4 - - + +
213t SQD 3.8 9.7 - - + +
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Residues in contact with LEU 29 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B MET* 3.0 18.9 + - + +
26B HIS* 3.0 9.4 + - - +
27B THR 2.8 3.8 + - - -
28B ALA* 1.3 70.3 - - - +
30B VAL* 1.3 59.7 + - + +
31B ALA 3.1 1.6 - - - -
32B GLY* 3.2 2.2 + - - -
33B TRP* 2.8 29.6 + - - +
523B CLA 3.8 16.4 - - + -
524B CLA 3.4 32.8 - - + -
527B BCR 3.6 29.2 - - + -
528B BCR 3.6 25.8 - - + +
213t SQD 3.5 36.1 - - + -
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Residues in contact with VAL 30 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B HIS* 3.0 32.7 + - + +
27B THR* 2.7 11.6 + - - +
29B LEU* 1.3 69.8 - - - +
31B ALA* 1.3 60.2 + - - +
33B TRP* 4.1 1.0 - - - +
34B ALA* 3.1 23.1 + - - +
515B CLA 3.4 42.4 - - + +
522B CLA 4.0 9.6 - - + -
523B CLA 3.5 46.4 - - + -
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Residues in contact with ALA 31 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B THR 3.1 0.4 + - - +
28B ALA* 3.7 1.3 - - - +
29B LEU 3.1 0.4 - - - -
30B VAL* 1.3 76.0 - - - +
32B GLY* 1.3 73.7 + - - +
34B ALA* 2.6 16.5 + - - +
35B GLY 2.9 10.7 + - - -
100B HIS* 4.0 23.5 - - + +
103B LEU* 4.7 8.1 - - + -
104B SER* 3.6 23.3 - - - +
107B LEU* 5.0 0.2 - - + -
515B CLA 3.1 24.4 - - + +
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Residues in contact with GLY 32 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B ALA 3.0 10.1 + - - -
29B LEU 3.2 2.0 + - - -
31B ALA* 1.3 84.3 - - - +
33B TRP* 1.3 61.3 + - - +
35B GLY* 3.1 0.7 + - - -
36B SER* 2.7 27.3 + - - -
101B ILE* 4.2 6.2 - - - +
104B SER* 3.4 13.6 - - - -
528B BCR 3.4 26.0 - - - -
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Residues in contact with TRP 33 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B LEU 2.8 19.0 + - - +
30B VAL 4.1 2.0 - - - +
32B GLY* 1.3 71.1 - - - +
34B ALA* 1.3 79.7 + - - +
36B SER* 3.1 6.7 - - - -
37B MET* 2.7 50.9 + - + +
61B PHE* 4.4 8.1 - + - -
62B VAL* 3.7 22.9 - - + -
514B CLA 3.5 27.6 - - + -
515B CLA 3.6 36.8 - - + -
517B CLA 3.2 34.2 - + + +
523B CLA 3.7 26.0 - - + -
528B BCR 3.4 23.3 - - + +
104t BCR 3.6 22.4 - - + +
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Residues in contact with ALA 34 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B VAL 3.1 18.0 + - - +
31B ALA 2.6 15.5 + - - +
33B TRP* 1.3 84.7 - - - +
35B GLY* 1.3 62.0 + - - +
37B MET* 3.5 3.6 + - - +
38B ALA 3.3 13.5 + - - -
62B VAL* 4.7 0.5 - - - +
100B HIS* 3.3 24.0 - - + +
515B CLA 3.7 36.5 - - + +
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Residues in contact with GLY 35 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B ALA 2.9 12.9 + - - -
32B GLY 3.8 1.1 - - - -
34B ALA* 1.3 71.8 - - - +
36B SER* 1.3 65.8 + - - +
38B ALA* 3.1 4.7 + - - +
39B LEU* 3.0 28.0 + - - +
97B ALA* 3.8 27.8 - - - +
100B HIS* 3.8 9.9 - - - +
101B ILE* 4.3 7.9 - - - -
515B CLA 5.1 0.4 - - - -
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Residues in contact with SER 36 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B GLY 2.7 20.1 + - - -
33B TRP* 3.1 9.4 - - - -
35B GLY* 1.3 76.3 - - - +
37B MET* 1.3 64.0 + - - +
39B LEU* 3.3 7.6 + - - +
40B TYR* 3.2 15.4 + - - +
101B ILE* 4.1 7.2 - - - +
528B BCR 3.1 29.6 - - - +
104t BCR 2.9 32.5 - - - +
5217t LMT 5.3 9.0 - - - +
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Residues in contact with MET 37 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B TRP* 2.7 41.4 + - + +
34B ALA 3.7 4.9 - - - +
36B SER* 1.3 71.0 - - - +
38B ALA* 1.3 66.1 + - - +
40B TYR* 2.9 46.9 + - + +
41B GLU* 3.0 25.8 + - + +
61B PHE* 5.3 4.0 - - + -
62B VAL* 3.6 30.5 - - + +
517B CLA 3.7 33.4 - - + +
104t BCR 3.6 27.9 - - + +
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Residues in contact with ALA 38 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B ALA 3.3 10.6 + - - +
35B GLY* 3.1 11.4 + - - +
37B MET* 1.3 79.5 - - - +
39B LEU* 1.3 64.9 + - - +
41B GLU* 3.0 6.0 + - - +
42B LEU* 2.8 28.0 + - + +
62B VAL* 4.5 8.9 - - - +
63B LEU* 5.9 0.6 - - - +
66B MET* 4.2 22.2 - - + -
93B PHE 4.9 1.8 - - - +
97B ALA* 3.6 21.3 - - + +
515B CLA 4.4 3.6 - - - -
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Residues in contact with LEU 39 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B GLY 3.0 14.7 + - - +
36B SER* 3.7 6.3 - - - +
38B ALA* 1.3 75.6 - - - +
40B TYR* 1.3 62.7 + - - +
42B LEU* 3.1 14.3 + - + +
43B ALA* 2.8 26.0 + - - +
94B GLU* 5.1 2.9 - - - +
97B ALA* 3.6 20.9 - - + -
98B LEU* 5.4 0.4 - - - +
101B ILE* 4.6 15.7 - - + -
5568a LMT 4.6 36.3 - - + +
5217t LMT 4.0 41.6 + - + +
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Residues in contact with TYR 40 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B SER 3.2 8.4 + - - +
37B MET* 2.9 27.0 + - + +
39B LEU* 1.3 77.5 - - - +
41B GLU* 1.3 66.5 + - + +
43B ALA* 3.3 13.5 + - - +
44B THR* 3.1 30.1 + - + +
517B CLA 3.0 53.5 + + + -
530B MGE 4.1 4.3 + - - -
5216M LMT 3.2 23.8 - - + +
104t BCR 3.8 24.9 - - + -
5217t LMT 3.6 53.2 + - - -
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Residues in contact with GLU 41 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B MET* 3.0 31.6 + - + +
38B ALA* 3.5 6.8 - - - +
40B TYR* 1.3 79.7 - - + +
42B LEU* 1.3 57.8 + - - +
44B THR* 3.1 6.0 + - - -
45B PHE* 2.7 39.9 + - - +
59B GLY 4.3 1.4 - - - +
60B MET* 3.5 25.8 - - + +
61B PHE* 2.6 31.8 + - - +
62B VAL* 3.2 16.5 + - - +
63B LEU* 2.8 38.2 + - + +
66B MET* 5.2 0.2 - - - +
517B CLA 5.7 0.7 - - - +
----------------------------------------------------------
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Residues in contact with LEU 42 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B ALA* 2.8 20.2 + - + +
39B LEU* 3.1 19.5 + - + +
41B GLU* 1.3 75.5 - - - +
43B ALA* 1.3 59.3 + - - +
44B THR 3.1 1.5 + - - -
45B PHE* 4.0 12.8 + - + +
63B LEU* 4.4 13.0 - - + -
66B MET* 6.1 0.4 - - + -
78B TRP* 4.4 15.0 - - + -
93B PHE* 3.6 51.6 - - + +
94B GLU* 3.6 31.9 - - + +
5568a LMT 4.0 20.3 - - + +
----------------------------------------------------------
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Residues in contact with ALA 43 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B LEU 2.8 14.6 + - - +
40B TYR 3.5 3.6 - - - +
41B GLU 3.1 0.2 - - - -
42B LEU* 1.3 77.5 - - - +
44B THR* 1.3 62.3 + - - +
5568a LMT 3.2 38.2 + - + +
5217t LMT 2.9 50.1 + - - +
----------------------------------------------------------
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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