Contacts of the helix formed by residues 37 - 61 (chain A) in PDB entry 5FWP
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 37 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A ASN* 2.8 32.3 + - - +
36A LYS* 1.3 72.7 - - - +
38A ILE* 1.3 57.6 + - - +
39A PHE 3.0 10.8 + - - -
40A LEU 3.4 5.2 + - - -
41A ARG 3.7 3.5 + - - -
192A TYR* 4.4 3.6 + - - -
197A ARG* 3.2 38.9 + - - +
201A VAL* 3.3 34.8 - - + +
204A LYS* 2.9 40.1 + - - -
205A HIS* 3.9 16.3 + - - +
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Residues in contact with ILE 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A TYR* 3.8 23.3 - - + -
35A ASN* 3.1 27.4 - - + +
37A GLU* 1.3 73.1 - - - +
39A PHE* 1.3 60.7 + - - +
40A LEU 3.4 0.2 - - - -
41A ARG* 3.6 27.4 - - - +
42A GLU* 2.9 33.7 + - + +
135A SER* 3.4 33.9 - - - +
138A LEU* 3.7 13.0 - - + -
205A HIS* 5.2 2.7 - - + -
393A GLU* 3.2 32.5 - - - +
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Residues in contact with PHE 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A LYS 3.0 18.4 + - - +
37A GLU* 3.0 0.6 - - - -
38A ILE* 1.3 87.0 - - + +
40A LEU* 1.3 95.3 + - + +
42A GLU* 4.2 1.4 - - - +
43A LEU* 3.1 42.5 + - + +
84A LEU* 3.9 17.3 - - + -
135A SER* 4.1 7.2 + - - +
136A ALA* 3.1 43.5 - - + -
138A LEU* 5.3 1.1 - - + -
139A VAL* 3.4 31.0 - - + -
140A ALA* 4.5 1.3 - - + -
183A LEU* 3.7 22.0 - - + -
185A LEU* 4.3 5.2 - - + -
192A TYR* 5.5 9.0 - + + -
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Residues in contact with LEU 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A GLU 3.4 2.2 + - - -
38A ILE 3.4 0.2 - - - -
39A PHE* 1.3 103.7 - - + +
41A ARG* 1.3 65.9 + - - +
43A LEU* 3.7 9.5 - - + +
44A ILE* 2.9 40.3 + - + +
75A ILE* 4.7 20.4 - - + -
84A LEU* 4.8 11.2 - - + -
86A LEU* 6.5 0.2 - - + -
183A LEU* 5.3 2.7 - - + -
192A TYR* 5.1 8.5 - - + -
198A VAL* 4.4 21.3 - - + +
201A VAL* 3.9 35.0 - - + -
202A VAL* 4.1 14.1 - - + -
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Residues in contact with ARG 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A TYR* 4.5 2.0 - - - -
37A GLU 3.7 3.4 + - - +
38A ILE* 3.3 33.4 + - - +
39A PHE 3.3 0.6 - - - -
40A LEU* 1.3 79.8 - - - +
42A GLU* 1.3 80.2 + - - +
44A ILE* 3.5 6.8 + - - +
45A SER* 2.7 44.5 + - - +
201A VAL* 5.0 1.2 - - - +
205A HIS* 3.6 51.7 + - + +
206A SER* 6.3 0.2 - - - -
360A VAL* 4.1 20.6 - - + -
361A PHE 4.8 5.4 + - - -
362A ILE* 5.2 3.1 - - - +
391A SER 3.4 14.5 + - - -
392A ARG* 3.8 14.9 + - - +
393A GLU* 2.7 33.9 + - - -
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Residues in contact with GLU 42 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A TYR* 4.8 9.2 - - - +
38A ILE* 2.9 32.7 + - + +
39A PHE 4.2 1.3 - - - +
41A ARG* 1.3 97.4 + - - +
43A LEU* 1.3 66.9 + - + +
45A SER* 3.4 3.2 + - - -
46A ASN* 3.0 32.3 + - - +
132A GLY* 4.3 11.5 - - - +
133A PHE* 5.9 0.2 - - - -
135A SER* 4.1 13.2 - - - +
392A ARG* 2.8 36.5 + - - -
1691A ATP 3.1 27.0 + - - +
1692A MG 3.8 1.4 - - - -
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Residues in contact with LEU 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A PHE* 3.1 46.3 + - + +
40A LEU* 3.7 9.6 - - + +
42A GLU* 1.3 77.6 - - + +
44A ILE* 1.3 62.6 + - + +
46A ASN* 3.3 10.6 + - - +
47A ALA 3.1 16.6 + - - -
86A LEU* 3.5 26.1 - - + +
133A PHE* 5.0 13.7 - - + +
136A ALA* 4.4 18.6 - - + -
181A VAL* 4.5 13.2 - - + -
183A LEU* 3.6 35.9 - - + -
1691A ATP 5.0 0.5 + - - -
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Residues in contact with ILE 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 2.9 27.0 + - + +
41A ARG* 3.8 5.4 - - - +
43A LEU* 1.3 74.5 - - + +
45A SER* 1.3 63.0 + - - +
47A ALA* 3.1 8.3 + - - +
48A SER* 2.9 26.0 + - - -
73A ILE* 3.6 17.2 - - + +
75A ILE* 4.1 22.2 - - + -
86A LEU* 4.8 4.0 - - + -
202A VAL* 4.0 26.7 - - + -
205A HIS* 6.5 0.2 - - + -
206A SER* 4.1 14.8 - - - -
209A ILE* 4.2 15.5 - - + -
213A ILE* 3.7 26.5 - - + -
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Residues in contact with SER 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ARG* 2.7 33.1 + - - +
42A GLU* 3.6 9.0 - - - -
44A ILE* 1.3 78.5 - - - +
46A ASN* 1.3 57.8 + - - +
48A SER* 2.6 24.9 + - - -
49A ASP* 2.9 20.2 + - - +
126A ILE* 4.6 18.7 - - - +
209A ILE* 5.5 3.9 - - - +
360A VAL* 4.9 7.1 - - - +
392A ARG* 4.1 14.2 + - - -
1692A MG 4.6 5.6 - - - -
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Residues in contact with ASN 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A GLU* 3.0 17.8 + - - +
43A LEU* 3.6 9.5 - - - +
45A SER* 1.3 72.5 - - - +
47A ALA* 1.3 66.5 + - - +
49A ASP* 3.2 10.3 + - - +
50A ALA* 3.1 21.5 + - - +
132A GLY 5.1 0.2 - - - -
133A PHE* 4.4 16.8 - - - +
1691A ATP 2.9 60.7 + - + +
1692A MG 1.4 36.3 - - - -
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Residues in contact with ALA 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A LEU 3.1 13.2 + - - +
44A ILE 3.1 9.5 + - - +
46A ASN* 1.3 77.0 - - - +
48A SER* 1.3 56.1 + - - +
50A ALA 3.2 1.6 + - - -
51A LEU* 3.0 30.2 + - - +
73A ILE* 3.8 28.5 - - + -
86A LEU* 4.4 6.7 - - + -
88A ASP* 3.3 33.6 - - + +
1691A ATP 4.1 1.5 + - - +
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Residues in contact with SER 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A ILE 2.9 11.6 + - - -
45A SER* 2.6 25.2 + - - -
47A ALA* 1.3 73.6 - - - +
49A ASP* 1.3 60.3 + - - +
51A LEU* 3.2 10.5 + - - +
52A ASP* 2.9 35.5 + - - +
73A ILE* 3.8 14.6 - - - +
126A ILE* 4.1 17.9 - - - +
209A ILE* 4.2 18.6 - - - +
211A TYR* 4.6 4.4 - - - -
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Residues in contact with ASP 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A SER 2.9 21.2 + - - +
46A ASN* 3.4 17.1 - - - +
48A SER* 1.3 79.4 + - - +
50A ALA* 1.3 56.6 + - - +
52A ASP* 3.1 7.9 + - - +
53A LYS* 2.9 36.2 + - - +
110A THR* 4.0 22.6 - - + +
125A MET* 3.5 14.9 - - - +
126A ILE* 2.8 45.9 + - - +
1691A ATP 4.1 3.6 + - - -
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Residues in contact with ALA 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A ASN 3.1 5.6 + - - +
47A ALA 3.2 2.2 + - - +
49A ASP* 1.3 75.9 - - - +
51A LEU* 1.3 61.2 + - - +
53A LYS* 3.3 14.4 + - - +
54A ILE* 3.2 13.3 + - - +
88A ASP* 3.3 26.9 - - - +
90A GLY* 3.5 12.1 - - - -
91A ILE* 3.0 22.2 + - + +
92A GLY 4.3 2.0 - - - +
1691A ATP 3.7 21.7 - - + +
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Residues in contact with LEU 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ALA 3.0 15.5 + - - +
48A SER* 3.4 7.6 - - - +
50A ALA* 1.3 75.6 - - - +
52A ASP* 1.3 59.1 + - - +
54A ILE* 3.3 6.0 + - - +
55A ARG* 3.0 26.3 + - - +
71A LEU* 3.7 17.2 - - + +
72A LYS 3.7 9.2 - - - +
73A ILE* 3.5 33.4 - - + -
88A ASP* 4.1 0.9 - - - +
89A THR* 3.3 29.4 - - - +
90A GLY* 3.5 16.6 - - - +
211A TYR* 3.5 41.8 + - + -
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Residues in contact with ASP 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A SER* 2.9 22.3 + - - +
49A ASP* 3.3 16.5 - - - +
51A LEU* 1.3 73.8 - - - +
53A LYS* 1.3 64.8 + - - +
55A ARG* 2.7 42.4 + - - +
56A TYR* 3.1 19.1 + - - +
123A ILE* 3.8 11.4 - - + +
124A SER 3.3 21.9 - - - +
125A MET* 3.8 15.7 - - + +
126A ILE* 5.1 3.6 - - - +
211A TYR* 3.6 7.3 - - - -
359A ARG* 5.3 5.6 + - - -
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Residues in contact with LYS 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A ASP* 2.9 24.6 + - - +
50A ALA* 3.3 11.2 - - - +
52A ASP* 1.3 76.8 - - - +
54A ILE* 1.3 61.8 + - - +
56A TYR* 3.4 3.2 + - - +
57A GLU* 3.1 28.8 + - - +
91A ILE* 3.5 26.8 - - + +
92A GLY 5.2 2.8 + - - -
93A MET* 5.6 1.6 - - - +
109A GLY* 4.4 8.8 - - - -
110A THR* 4.8 7.4 - - - -
113A PHE* 3.5 42.6 - - + -
125A MET* 3.5 18.4 - - + -
1691A ATP 3.7 41.6 + - - -
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Residues in contact with ILE 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A ALA 3.2 2.9 + - - +
51A LEU* 3.5 5.4 - - + +
52A ASP 3.3 0.2 - - - -
53A LYS* 1.3 76.2 - - - +
55A ARG* 1.3 68.2 + - - +
57A GLU* 3.0 5.6 + - + +
58A SER* 2.7 29.6 + - - +
64A LYS* 5.5 2.0 - - + +
65A LEU* 3.4 30.1 - - + -
71A LEU* 3.4 21.5 - - + -
89A THR 3.2 27.1 - - - +
90A GLY* 3.3 14.6 - - - -
91A ILE* 3.4 30.1 - - + +
177A ARG* 3.4 16.6 - - - +
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Residues in contact with ARG 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A LEU 3.0 4.4 + - - +
52A ASP* 2.7 43.0 + - - +
54A ILE* 1.3 79.6 - - - +
56A TYR* 1.3 57.1 + - - +
58A SER* 3.0 7.3 + - - +
59A LEU* 2.8 35.8 + - + +
71A LEU* 4.6 5.8 - - + -
122A ASP* 4.2 5.9 + - - -
123A ILE* 3.6 37.5 - - + +
124A SER 4.4 3.0 + - - +
211A TYR* 2.8 35.0 + - - +
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Residues in contact with TYR 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ASP 3.1 6.6 + - - +
53A LYS* 3.7 7.4 - - - +
55A ARG* 1.3 82.1 - - - +
57A GLU* 1.3 77.1 + - + +
59A LEU* 3.1 12.3 + - + +
60A THR* 3.1 50.5 + - + +
113A PHE* 5.1 2.7 - + + -
116A ALA 5.2 2.4 + - - -
117A LEU* 3.3 28.1 - - + +
119A ALA* 3.7 19.4 + - + +
120A GLY* 3.4 35.4 + - - -
123A ILE* 3.8 25.3 - - + +
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Residues in contact with GLU 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A LYS 3.1 15.8 + - - +
54A ILE* 3.0 4.9 + - - +
56A TYR* 1.3 92.5 - - + +
58A SER* 1.3 52.6 + - - +
60A THR* 3.2 6.5 + - - -
61A ASP* 2.7 36.9 + - - +
64A LYS* 3.5 35.9 + - + +
91A ILE* 3.3 31.9 - - - +
113A PHE* 3.8 23.7 - - + -
149A HIS* 4.4 10.8 + - - -
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Residues in contact with SER 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ILE* 2.7 28.8 + - - +
55A ARG* 3.0 13.0 + - - +
57A GLU* 1.3 72.3 - - - +
59A LEU* 1.3 63.2 + - - +
61A ASP 3.4 9.9 - - - -
62A PRO* 3.0 25.6 - - - +
64A LYS* 4.0 3.5 - - - +
65A LEU* 3.5 40.5 - - - +
71A LEU* 5.6 0.5 - - - +
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Residues in contact with LEU 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG* 2.8 24.4 + - + +
56A TYR* 3.2 20.6 - - + +
58A SER* 1.3 79.4 + - - +
60A THR* 1.3 64.6 + - + +
62A PRO* 4.6 4.5 - - - +
120A GLY* 6.1 0.4 - - - -
122A ASP* 4.5 22.2 - - - +
123A ILE* 4.9 4.0 - - + -
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Residues in contact with THR 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A TYR* 3.1 47.3 + - + +
57A GLU* 3.2 11.6 + - - -
59A LEU* 1.3 83.5 - - + +
61A ASP* 1.3 61.8 + - - +
62A PRO* 3.9 3.6 - - - +
119A ALA* 5.4 4.0 - - + -
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Residues in contact with ASP 61 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A GLU 2.7 11.3 + - - +
58A SER* 3.2 4.3 - - - -
60A THR* 1.3 83.8 - - - +
62A PRO* 1.3 57.1 - - - +
63A SER* 2.6 31.1 + - - -
64A LYS* 2.9 51.5 + - + +
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il