Contacts of the helix formed by residues 14 - 42 (chain A) in PDB entry 2RBD
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 HIS 14 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A PRO 3.8 1.2 + - - -
13A LEU* 1.3 76.5 - - - +
15A TYR* 1.3 65.6 + - - +
16A GLY* 3.0 27.3 + - - -
17A GLU* 2.9 52.6 + - + +
18A VAL* 3.0 22.0 + - - +
123A GLN* 2.8 34.8 + - + -
125A ILE* 3.8 28.0 - - + +
160B PRO* 3.7 20.6 - - + +
161B PRO 3.4 15.0 - - - +
162B LEU* 3.8 10.8 - - + -
163B HIS 4.4 1.6 - - - -
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Residues in contact with TYR 15 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A HIS* 1.3 71.6 - - - +
16A GLY* 1.3 57.5 + - - +
18A VAL* 3.8 6.9 - - + +
19A PHE* 2.9 31.3 + - - +
161B PRO* 2.9 41.5 + - + +
162B LEU 3.4 27.8 - - - -
163B HIS* 3.8 10.5 - - + -
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Residues in contact with GLY 16 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A HIS* 3.0 11.9 + - - -
15A TYR* 1.3 76.9 - - - +
17A GLU* 1.3 59.1 + - - +
19A PHE* 4.1 4.0 - - - +
20A SER* 2.8 28.3 + - - -
123A GLN* 2.9 24.8 - - - +
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Residues in contact with GLU 17 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A PRO 4.5 1.0 - - - +
13A LEU* 3.3 27.0 - - + +
14A HIS* 2.9 50.5 + - + +
16A GLY* 1.3 74.2 - - - +
18A VAL* 1.3 61.6 + - - +
20A SER* 4.7 2.2 - - - -
21A THR* 2.8 36.0 + - - +
120A ILE* 6.0 2.0 - - + -
123A GLN* 4.3 3.8 - - + +
124A SER* 3.5 16.9 - - - +
125A ILE* 2.8 27.2 + - - +
126A ARG* 2.8 22.8 + - - +
129A VAL* 4.4 9.6 - - + +
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Residues in contact with VAL 18 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A LEU* 3.7 28.0 - - + -
14A HIS 3.0 16.7 + - - +
15A TYR* 3.8 8.7 - - - +
17A GLU* 1.3 77.5 - - - +
19A PHE* 1.3 65.3 + - - +
21A THR* 3.3 5.2 + - - -
22A TRP* 2.9 28.2 + - + +
69A LEU* 4.8 1.7 - - - +
74A VAL* 3.8 32.3 - - + -
163B HIS* 3.8 28.7 - - + +
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Residues in contact with PHE 19 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A TYR 2.9 18.6 + - - +
16A GLY* 4.1 3.6 - - - +
18A VAL* 1.3 78.8 - - - +
20A SER* 1.3 65.7 + - - +
22A TRP* 3.7 15.7 - + - +
23A THR* 2.8 58.3 + - + -
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Residues in contact with SER 20 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A GLY 2.8 20.4 + - - -
17A GLU* 4.2 2.0 - - - -
19A PHE* 1.3 85.6 - - - +
21A THR* 1.3 56.4 + - - +
23A THR* 3.4 4.0 + - - -
24A TYR* 2.9 29.6 + - - +
116A THR* 5.7 0.5 - - - +
120A ILE* 3.7 31.5 - - - +
123A GLN* 3.2 21.2 + - - -
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Residues in contact with THR 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A LEU* 5.6 0.5 - - - +
17A GLU* 2.8 23.2 + - + +
18A VAL* 3.3 4.5 + - - -
20A SER* 1.3 73.4 - - - +
22A TRP* 1.3 67.0 + - - +
24A TYR* 3.3 6.1 + - - +
25A LEU* 3.0 26.4 + - - +
65A LEU* 4.2 12.4 - - + +
68A LEU* 4.1 18.9 - - + +
69A LEU* 3.4 22.7 - - - +
120A ILE* 4.8 3.6 - - + -
129A VAL* 4.2 11.2 - - + -
133A PHE* 3.7 29.2 - - + -
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Residues in contact with TRP 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A VAL* 2.9 21.1 + - + +
19A PHE* 3.7 15.5 - + - +
21A THR* 1.3 77.9 + - - +
23A THR* 1.3 76.7 + - + +
25A LEU* 3.4 3.1 + - - +
26A SER* 2.9 37.4 + - - -
69A LEU* 4.0 13.9 - - + +
74A VAL* 4.3 10.8 - - + -
75A GLY 3.1 27.6 + - - -
76A LEU 4.0 0.8 - - - -
77A PRO* 3.6 40.4 - - + +
78A PRO* 5.4 2.9 - - + -
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Residues in contact with THR 23 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A PHE* 2.8 50.5 + - + -
20A SER* 3.8 5.2 - - - -
22A TRP* 1.3 92.5 - - + +
24A TYR* 1.3 58.6 + - - +
26A SER* 3.3 4.5 + - - -
27A THR* 2.8 41.7 + - - +
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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
----------------------------------------------------------
20A SER 2.9 17.5 + - - +
21A THR* 3.3 6.5 + - - +
23A THR* 1.3 76.8 - - - +
25A LEU* 1.3 57.4 + - - +
27A THR* 3.3 2.8 + - - -
28A ASN* 2.9 33.3 + - - +
61A GLU* 2.9 32.2 + - - -
65A LEU* 3.6 16.4 - - + -
113A GLY 4.6 0.7 - - - -
116A THR* 3.8 28.5 - - + -
117A CYS* 3.6 18.2 - - - -
120A ILE* 4.3 5.2 - - + -
133A PHE* 3.7 23.1 - + + -
136A PHE* 3.8 13.5 - + - -
140A LYS* 3.2 22.7 - - - -
171A PG4 3.4 32.2 + - - -
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Residues in contact with LEU 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A THR 3.0 16.8 + - - +
22A TRP 3.6 3.6 - - - +
24A TYR* 1.3 77.1 - - - +
26A SER* 1.3 58.2 + - - +
28A ASN* 3.3 1.9 + - - +
29A ASN* 2.9 38.1 + - - +
62A ASN* 3.2 43.7 - - + +
65A LEU* 4.1 18.6 - - + +
66A GLU* 3.6 31.9 - - + +
69A LEU* 3.9 18.2 - - + -
76A LEU* 4.1 2.5 - - + -
77A PRO* 3.6 28.5 - - + -
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Residues in contact with SER 26 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A TRP* 2.9 29.0 + - - -
23A THR* 3.7 7.9 - - - -
25A LEU* 1.3 76.4 - - - +
27A THR* 1.3 62.9 + - - +
29A ASN* 3.2 9.0 + - - +
30A GLY* 3.0 19.2 + - - -
77A PRO* 3.8 25.0 - - - +
78A PRO 5.2 2.6 + - - -
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Residues in contact with THR 27 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A THR* 2.8 32.3 + - - +
24A TYR* 3.6 3.0 - - - -
26A SER* 1.3 70.3 - - - +
28A ASN* 1.3 58.7 + - - +
30A GLY* 3.1 2.8 + - - -
31A LEU* 2.9 45.2 + - + +
171A PG4 3.5 22.7 - - - +
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Residues in contact with ASN 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TYR* 2.9 21.7 + - - +
25A LEU 3.3 4.9 + - - +
27A THR* 1.3 76.8 - - - +
29A ASN* 1.3 55.9 + - - +
31A LEU* 3.2 0.9 + - - +
32A ILE* 2.8 37.1 + - - +
58A MSE 3.6 28.3 + - + +
61A GLU* 3.0 25.9 + - - +
62A ASN* 3.0 31.1 + - - +
65A LEU* 4.3 0.2 - - - +
171A PG4 2.8 32.8 + - - +
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Residues in contact with ASN 29 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU* 2.9 24.2 + - - +
26A SER* 3.2 9.6 + - - +
28A ASN* 1.3 76.5 - - - +
30A GLY* 1.3 61.6 + - - +
32A ILE* 3.6 8.1 + - - +
33A ASN* 3.2 22.0 + - - +
62A ASN* 3.2 21.1 + - - -
66A GLU* 4.9 5.9 + - - +
77A PRO* 3.7 29.3 + - - +
78A PRO 4.3 2.7 + - - +
79A ALA* 3.5 37.7 - - + +
80A PRO* 3.9 9.5 - - + +
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Residues in contact with GLY 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A SER 3.0 12.9 + - - -
27A THR* 3.1 3.3 + - - -
29A ASN* 1.3 79.8 - - - +
31A LEU* 1.3 56.7 + - - +
33A ASN* 3.3 8.7 + - - +
34A GLY* 2.9 24.9 + - - -
80A PRO* 4.9 6.7 - - - -
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Residues in contact with LEU 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A THR* 2.9 30.4 + - + +
30A GLY* 1.3 75.8 - - - +
32A ILE* 1.3 58.9 + - - +
34A GLY* 4.4 1.1 - - - +
35A TYR* 2.8 48.1 + - + +
58A MSE 3.7 17.9 - - + -
109A ASP* 3.5 31.2 - - + +
171A PG4 3.8 45.1 - - - -
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Residues in contact with ILE 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ASN 2.8 22.5 + - - +
29A ASN* 3.8 8.1 - - - +
31A LEU* 1.3 71.1 - - - +
33A ASN* 1.3 58.0 + - - +
35A TYR* 3.5 2.8 + - - +
36A ARG* 2.9 68.8 + - - +
55A ILE* 4.2 15.2 - - + +
58A MSE 3.8 30.1 - - + -
59A GLN* 3.9 22.0 - - + +
62A ASN* 3.6 28.0 - - - +
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Residues in contact with ASN 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A ASN 3.2 12.1 + - - +
30A GLY* 3.6 8.5 + - - +
31A LEU 3.2 0.2 - - - -
32A ILE* 1.3 80.4 - - - +
34A GLY* 1.3 63.3 + - - +
36A ARG* 3.3 8.4 + - - +
37A SER 3.1 16.8 + - - -
80A PRO* 3.6 35.4 - - + +
81A PRO* 3.9 11.4 - - - +
83A ARG* 3.0 47.2 + - - +
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Residues in contact with GLY 34 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A GLY 2.9 14.4 + - - -
31A LEU* 3.8 2.0 - - - -
33A ASN* 1.3 80.5 - - - +
35A TYR* 1.3 62.7 + - - +
37A SER* 3.1 10.0 + - - -
38A PHE* 2.8 35.5 + - - -
83A ARG* 5.6 0.4 - - - -
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Residues in contact with TYR 35 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LEU* 2.8 36.4 + - + +
34A GLY* 1.3 72.5 - - - -
36A ARG* 1.3 61.9 + - - +
38A PHE* 3.1 22.3 + + - +
39A ILE* 2.9 24.4 + - - +
51A ILE* 3.5 26.3 - - + +
54A ALA* 4.0 22.2 - - + -
55A ILE* 3.9 11.0 - - + -
58A MSE 3.5 27.6 - - + -
106A ILE* 3.7 33.0 + - + +
109A ASP* 2.7 43.1 + - - +
171A PG4 4.4 5.4 - - - -
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Residues in contact with ARG 36 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ILE* 2.9 42.2 + - - +
33A ASN* 3.6 7.5 - - - +
34A GLY 3.3 0.2 - - - -
35A TYR* 1.3 76.1 - - - +
37A SER* 1.3 63.4 + - - +
39A ILE* 3.5 22.0 + - + +
40A ASN* 3.7 13.0 + - - -
55A ILE* 3.9 19.0 - - + +
59A GLN* 3.1 25.3 - - - +
80A PRO 5.0 3.8 + - - -
81A PRO 4.4 3.6 + - - -
82A ASP* 3.3 57.8 + - - +
83A ARG* 3.8 15.9 - - + +
----------------------------------------------------------
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Residues in contact with SER 37 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A ASN 3.1 6.7 + - - -
34A GLY* 3.1 12.8 + - - -
36A ARG* 1.3 77.2 - - - +
38A PHE* 1.3 65.2 + - - +
40A ASN* 2.9 20.3 + - - +
41A HIS* 3.2 32.5 + - - -
83A ARG* 3.5 34.5 + - - +
----------------------------------------------------------
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Residues in contact with PHE 38 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A GLY* 2.8 23.9 + - - -
35A TYR* 3.1 31.8 + + - +
37A SER* 1.3 76.1 - - - +
39A ILE* 1.3 58.0 + - - +
41A HIS* 3.0 15.7 + + + +
42A THR* 2.7 25.2 + - - -
51A ILE* 4.1 6.1 - - + -
97A PHE* 4.0 39.7 - + + -
102A ILE* 3.7 39.7 - - + -
105A THR* 4.0 33.9 - - + -
106A ILE* 4.4 4.7 - - + -
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Residues in contact with ILE 39 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A TYR 2.9 10.3 + - - +
36A ARG* 3.6 13.2 - - + +
37A SER 3.2 0.4 + - - -
38A PHE* 1.3 74.7 - - - +
40A ASN* 1.3 69.8 + - - +
41A HIS 3.4 0.2 + - - -
42A THR* 3.5 19.4 + - - +
48A LYS* 4.3 27.5 + - + -
51A ILE* 3.7 19.2 - - + +
52A ASP* 3.1 28.3 - - - +
55A ILE* 3.3 29.6 - - + -
----------------------------------------------------------
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Residues in contact with ASN 40 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A ARG 3.7 13.4 + - - -
37A SER* 2.9 13.5 + - - +
39A ILE* 1.3 85.1 - - - +
41A HIS* 1.3 58.5 - - + +
42A THR 3.5 0.8 - - - +
83A ARG* 4.7 7.9 - - - +
84A PRO 2.9 24.5 + - - -
85A ALA* 3.7 6.4 - - - +
86A ALA* 3.1 41.9 + - + +
88A LEU* 3.3 22.5 + - - +
91A ILE* 3.4 11.2 - - + +
----------------------------------------------------------
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Residues in contact with HIS 41 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A SER* 3.2 38.5 + - - -
38A PHE* 3.0 10.8 + + - +
40A ASN* 1.3 79.8 - - + +
42A THR* 1.3 57.2 + - - +
88A LEU* 3.2 9.6 - - - +
91A ILE* 3.9 21.4 - - + +
95A ALA 3.2 26.0 - - - -
96A ARG* 2.8 37.7 + - - +
97A PHE* 3.0 45.6 + + + +
102A ILE* 4.0 7.6 - - + -
----------------------------------------------------------
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Residues in contact with THR 42 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A PHE 2.7 20.5 + - - -
39A ILE* 3.5 9.7 + - - +
40A ASN 3.5 1.3 - - - +
41A HIS* 1.3 77.9 - - - +
43A GLY* 1.3 63.3 + - - +
44A ASP 3.2 28.5 - - - +
47A LEU* 3.9 14.3 - - + +
48A LYS* 3.6 28.7 + - - +
51A ILE* 3.4 17.3 - - - +
88A LEU* 4.0 10.4 - - - +
99A ASP* 3.4 12.1 - - - +
102A ILE* 3.6 9.9 - - - +
----------------------------------------------------------
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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