Contacts of the helix formed by residues 21 - 46 (chain A) in PDB entry 2FA5
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 PHE 21 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16A LEU* 3.6 33.7 - - + -
17A ASN 3.2 11.6 + - - +
18A LEU* 2.9 21.8 + - + +
19A GLU 3.5 0.2 - - - -
20A GLN* 1.3 74.9 - - - +
22A LEU* 1.3 66.8 + - - +
23A PRO* 3.7 24.2 - - + -
24A TYR* 2.9 27.2 + - + +
25A ARG* 3.0 12.9 + - - +
37B ILE* 4.6 1.3 - - + -
124B VAL* 3.7 13.7 - - + -
125B ASN* 3.7 11.9 - - - -
128B GLU* 3.2 45.5 - - + -
801B CL 3.9 20.9 - - + -
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Residues in contact with LEU 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A GLN 3.6 5.9 + - - -
21A PHE* 1.3 69.4 - - - +
23A PRO* 1.3 80.3 - - + +
25A ARG* 3.1 8.7 + - + -
26A LEU* 2.8 33.6 + - + +
150A LEU* 4.3 17.3 - - + -
33B ILE* 4.8 0.7 - - + -
128B GLU* 4.1 14.5 + - - +
131B LEU* 4.7 4.5 - - + -
132B MSE 3.7 28.5 - - + -
140B GLN* 4.9 4.3 - - - +
143B LEU* 4.2 12.6 - - + -
144B GLU* 4.5 20.2 + - + +
147B ILE* 4.0 24.9 - - + -
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Residues in contact with PRO 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A PHE* 3.5 26.9 - - + -
22A LEU* 1.3 99.2 - - + +
24A TYR* 1.3 55.5 + - - +
26A LEU* 3.9 4.1 - - + +
27A SER* 3.0 28.8 + - - -
30B SER* 4.7 1.7 + - - -
33B ILE* 3.9 30.8 - - + +
34B SER* 5.7 0.3 + - - -
37B ILE* 4.1 10.8 - - + -
53B ARG* 5.3 4.3 - - - +
128B GLU* 3.5 24.9 - - + -
131B LEU* 4.4 9.0 - - + -
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Residues in contact with TYR 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A LEU* 3.3 39.0 - - + +
19A GLU* 4.3 11.9 + - - -
21A PHE* 2.9 20.7 + - + +
23A PRO* 1.3 76.9 - - - +
25A ARG* 1.3 83.3 + - - +
27A SER* 3.1 4.9 + - - -
28A VAL* 2.8 54.2 + - + +
53B ARG* 3.7 42.3 - - - +
57B ILE* 3.5 24.6 - - + +
72B ARG* 3.7 18.4 + - - +
73B THR* 3.7 14.7 - - + +
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Residues in contact with ARG 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A GLU* 3.2 46.5 + - - +
20A GLN* 4.7 2.5 - - - +
21A PHE 3.0 19.1 + - - +
22A LEU* 3.6 15.5 - - + +
24A TYR* 1.3 103.0 - - - +
26A LEU* 1.3 62.3 + - - +
28A VAL* 4.0 27.6 - - - +
29A LEU* 3.1 25.3 + - - +
72B ARG 5.7 0.2 + - - -
144B GLU* 6.4 1.8 - - + -
147B ILE* 4.5 17.4 - - + +
148B ASP* 4.6 15.5 + - - -
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Residues in contact with LEU 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A LEU* 2.8 25.3 + - + +
23A PRO 3.9 3.8 - - - +
25A ARG* 1.3 75.5 - - - +
27A SER* 1.3 60.4 + - - +
29A LEU* 3.4 6.7 + - + +
30A SER* 2.9 32.6 + - - -
147A ILE* 4.8 5.8 - - + -
150A LEU* 4.9 2.2 - - + -
26B LEU* 3.6 33.4 - - + +
29B LEU* 3.7 30.3 - - + -
30B SER* 4.2 15.9 - - - +
33B ILE* 3.9 20.2 - - + -
143B LEU* 6.5 0.2 - - + -
147B ILE* 4.2 21.5 - - + +
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Residues in contact with SER 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A PRO 3.0 19.3 + - - -
24A TYR* 3.1 8.7 + - - -
26A LEU* 1.3 77.6 - - - +
28A VAL* 1.3 59.2 + - - +
30A SER* 3.4 1.0 + - - -
31A ASN* 2.9 46.9 + - - +
30B SER* 3.3 21.1 + - - -
34B SER* 5.1 6.7 + - - -
53B ARG* 5.4 9.2 + - - -
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Residues in contact with VAL 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TYR* 2.8 61.6 + - + +
25A ARG* 4.0 19.3 - - - +
27A SER* 1.3 74.3 - - - +
29A LEU* 1.3 62.6 + - - +
31A ASN* 3.2 2.9 + - - +
32A ARG* 2.9 43.4 + - + +
72B ARG 3.5 21.1 - - - +
73B THR* 4.1 16.2 - - - +
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Residues in contact with LEU 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A ARG 3.1 18.5 + - - +
26A LEU* 3.8 7.0 - - + +
28A VAL* 1.3 77.9 - - - +
30A SER* 1.3 58.3 + - - +
32A ARG* 3.3 4.7 + - - +
33A ILE* 2.9 49.9 + - + +
26B LEU* 4.4 9.2 - - + -
147B ILE* 3.8 31.6 - - + +
150B LEU* 4.0 30.5 - - + -
151B ALA* 4.0 33.0 - - + +
155B LEU* 4.4 9.2 - - + -
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Residues in contact with SER 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU 2.9 19.0 + - - -
27A SER* 3.7 6.1 - - - -
29A LEU* 1.3 77.7 - - - +
31A ASN* 1.3 61.6 + - - +
33A ILE* 3.4 9.2 + - - +
34A SER* 2.9 34.1 + - - -
23B PRO 4.5 1.4 + - - +
26B LEU* 4.2 21.8 - - - +
27B SER* 3.2 32.8 + - - -
30B SER* 4.6 3.3 - - - -
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Residues in contact with ASN 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A SER* 2.9 33.8 + - - +
28A VAL 3.6 1.6 - - - +
30A SER* 1.3 80.3 + - - +
32A ARG* 1.3 56.0 + - - +
34A SER* 3.5 5.9 + - - -
35A GLY* 2.9 25.5 + - - -
49A ILE* 5.4 1.6 - - - +
73B THR 3.0 17.8 + - - +
74B ALA* 3.4 33.5 + - + +
75B MSE 3.9 15.9 - - - +
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Residues in contact with ARG 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A VAL* 2.9 34.8 + - - +
29A LEU* 3.3 5.8 + - - +
31A ASN* 1.3 73.9 - - - +
33A ILE* 1.3 66.1 + - - +
35A GLY* 3.3 1.5 + - - -
36A ASN* 3.0 29.3 + - - +
71B ASP 6.0 0.9 - - - +
74B ALA* 3.7 17.9 - - + -
151B ALA* 4.4 15.5 + - - +
152B LYS* 5.4 6.3 - - - +
155B LEU* 3.2 40.2 - - + +
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Residues in contact with ILE 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A LEU* 2.9 36.2 + - + +
30A SER* 3.7 4.9 - - - +
32A ARG* 1.3 75.8 - - - +
34A SER* 1.3 64.2 + - - +
36A ASN 3.2 2.1 + - - -
37A ILE* 3.0 28.1 + - + +
131A LEU* 3.9 28.0 - - + -
22B LEU* 5.7 0.9 - - + -
23B PRO* 3.8 36.8 - - + -
26B LEU* 3.8 28.7 - - + -
150B LEU* 4.9 4.3 - - + -
155B LEU* 4.0 18.8 - - + -
158B MSE 3.6 7.3 - - + +
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Residues in contact with SER 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A SER* 2.9 24.1 + - - -
31A ASN* 3.8 6.7 - - - -
33A ILE* 1.3 80.9 - - - +
35A GLY* 1.3 51.7 + - - +
37A ILE* 3.3 9.0 + - - +
38A ALA* 2.8 36.0 + - - +
41A TYR* 4.5 1.4 + - - -
49A ILE* 4.2 23.8 - - - +
53A ARG* 5.6 3.5 + - - -
23B PRO* 4.9 6.1 + - - +
27B SER* 4.8 9.2 - - - -
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Residues in contact with GLY 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31A ASN 2.9 17.9 + - - -
32A ARG* 3.3 2.7 + - - -
33A ILE 3.2 0.4 - - - -
34A SER* 1.3 76.7 - - - +
36A ASN* 1.3 65.2 + - - +
38A ALA* 3.3 18.0 + - - +
39A LYS* 3.5 8.3 + - - +
49A ILE* 4.6 7.0 - - - -
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Residues in contact with ASN 36 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32A ARG* 3.0 17.9 + - - +
33A ILE 3.7 4.7 - - - +
35A GLY* 1.3 75.0 - - - +
37A ILE* 1.3 65.6 + - - +
39A LYS* 3.3 19.7 + - - +
127A MSE 3.3 15.4 - - - +
155B LEU* 3.6 31.0 - - - +
158B MSE 3.7 26.9 - - + +
159B ALA* 5.6 3.6 - - - +
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Residues in contact with ILE 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A ILE* 3.0 24.2 + - + +
34A SER* 3.7 7.6 - - - +
36A ASN* 1.3 76.3 - - - +
38A ALA* 1.3 61.7 + - - +
39A LYS 3.1 0.4 - - - -
40A VAL* 3.1 22.4 + - - +
41A TYR* 3.6 15.9 - - + +
52A TRP* 4.9 0.4 - - + -
124A VAL* 3.8 40.6 - - + +
127A MSE 3.6 13.9 - - + -
128A GLU* 5.5 1.6 - - + -
802A CL 4.4 11.2 - - + -
21B PHE* 4.6 2.9 - - + -
23B PRO* 3.8 35.4 - - + -
158B MSE 3.6 14.8 - - + -
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Residues in contact with ALA 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A SER 2.8 17.1 + - - +
35A GLY* 3.4 11.7 - - - +
37A ILE* 1.3 77.3 - - - +
39A LYS* 1.3 56.6 + - - +
40A VAL 3.2 0.2 - - - -
41A TYR* 3.4 27.5 + - + +
42A GLY* 2.7 29.8 + - - -
47A MSE 4.8 0.4 - - - +
49A ILE* 3.7 17.0 - - + +
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Residues in contact with LYS 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A GLY 3.5 7.1 + - - +
36A ASN* 3.3 14.9 + - - +
37A ILE 3.1 1.2 - - - -
38A ALA* 1.3 75.6 - - - +
40A VAL* 1.3 67.2 + - + +
42A GLY* 4.4 1.1 - - - +
43A ASP* 2.7 66.2 + - - +
127A MSE 5.6 3.1 - - + -
159B ALA* 6.0 7.0 - - + -
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Residues in contact with VAL 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A ILE 3.1 15.0 + - - +
39A LYS* 1.3 80.3 - - - +
41A TYR* 1.3 58.9 + - - +
43A ASP* 4.0 1.3 - - - +
44A ARG* 3.2 31.8 + - + +
120A VAL* 3.7 26.5 - - + +
123A LEU* 3.9 39.5 - - + +
124A VAL* 4.5 7.6 - - + -
127A MSE 3.7 31.0 - - + -
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Residues in contact with TYR 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A SER 4.5 1.9 + - - -
37A ILE* 3.6 23.5 - - + +
38A ALA* 3.4 17.8 + - + +
40A VAL* 1.3 75.2 - - - +
42A GLY* 1.3 62.3 + - - +
43A ASP 3.2 1.3 - - - -
44A ARG* 3.8 6.5 - - - +
45A TYR* 2.8 30.3 + - + +
46A GLY 3.3 4.9 + - - -
47A MSE 3.4 46.7 + - + -
48A ALA 3.7 9.4 - - - -
49A ILE* 3.3 30.4 + - - +
52A TRP* 3.3 54.9 - + + +
120A VAL* 4.0 26.2 - - + -
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Residues in contact with GLY 42 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A ALA 2.7 20.9 + - - -
39A LYS* 4.5 1.3 - - - -
41A TYR* 1.3 78.3 - - - +
43A ASP* 1.3 60.8 + - - +
46A GLY* 2.9 25.4 + - - -
47A MSE 3.7 16.4 - - - -
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Residues in contact with ASP 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39A LYS* 2.7 56.2 + - - +
40A VAL* 4.0 2.5 - - - +
42A GLY* 1.3 80.6 - - - +
44A ARG* 1.3 66.8 + - + +
45A TYR 3.5 0.2 + - - -
46A GLY 4.5 0.9 + - - -
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Residues in contact with ARG 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A VAL* 3.2 24.8 + - + +
43A ASP* 1.3 81.0 - - + +
45A TYR* 1.3 94.7 + - + +
119A THR* 3.5 29.7 - - + +
120A VAL* 5.1 2.0 - - + -
123A LEU* 4.3 16.2 - - + +
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Residues in contact with TYR 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A TYR* 2.8 19.5 + - + +
44A ARG* 1.3 101.8 + - + +
46A GLY* 1.3 61.0 + - - +
47A MSE 3.1 17.0 - - + -
90A ARG* 2.8 32.3 + - - +
92A PHE* 4.5 7.9 - + - -
115A GLN* 4.1 3.5 + - - +
116A VAL* 3.8 40.3 + - + -
119A THR* 3.5 28.7 + - + +
120A VAL* 3.6 24.2 - - + -
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Residues in contact with GLY 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A GLY* 2.9 20.2 + - - -
43A ASP 4.5 1.6 + - - -
44A ARG 4.0 0.2 - - - -
45A TYR* 1.3 76.4 - - - +
47A MSE 1.3 58.5 + - - +
48A ALA 4.3 0.5 + - - -
51A GLU* 4.7 0.9 - - - +
90A ARG* 3.2 14.4 + - - -
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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