Contacts of the helix formed by residues 43 - 74 (chain A) in PDB entry 3PCV
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 PRO 43 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A PHE* 3.7 31.4 - - + +
35A VAL* 4.4 9.9 - - + -
42A GLY* 1.3 85.6 - - - +
44A PRO* 1.4 75.4 - - + +
45A GLU* 4.3 5.4 - - + +
46A PHE* 2.9 24.3 + - + -
47A GLU* 3.0 9.7 + - - +
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Residues in contact with PRO 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A GLY 3.6 2.9 - - - +
43A PRO* 1.4 84.2 - - + +
45A GLU* 1.3 58.8 + - - +
47A GLU* 3.2 10.3 + - + +
48A ARG* 2.8 49.8 + - + +
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Residues in contact with GLU 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A PHE* 3.5 32.9 - - + -
43A PRO* 3.0 2.5 + - + +
44A PRO* 1.3 79.6 - - - +
46A PHE* 1.3 64.1 + - - +
48A ARG* 3.5 29.1 + - - +
49A VAL* 3.4 25.2 + - + +
98A ALA 4.2 7.5 - - - +
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Residues in contact with PHE 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A VAL* 4.4 6.3 - - + -
29A ALA* 3.9 23.6 - - + -
30A ARG* 3.5 46.0 - - + -
33A PHE* 4.0 24.9 - - + -
35A VAL* 3.9 29.4 - - + -
40A THR* 3.8 26.7 - - - -
41A THR 4.3 4.9 - - - -
43A PRO* 2.9 17.1 + - + +
45A GLU* 1.3 78.5 - - - +
47A GLU* 1.3 75.1 + - + +
49A VAL* 3.1 6.0 + - - +
50A TYR* 3.1 35.0 + + + -
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Residues in contact with GLU 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A THR 4.1 5.4 - - - +
41A THR* 3.2 26.1 - - - +
42A GLY 2.8 45.5 + - - +
43A PRO 3.0 7.3 + - - +
44A PRO* 3.2 10.0 + - + +
46A PHE* 1.3 78.6 - - + +
48A ARG* 1.3 58.9 + - + +
50A TYR* 3.5 5.0 + - + +
51A ARG* 2.8 42.2 + - + +
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Residues in contact with ARG 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A PRO* 2.8 43.4 + - + +
45A GLU* 3.5 29.6 - - - +
47A GLU* 1.3 77.5 - - + +
49A VAL* 1.3 57.5 + - - +
51A ARG* 3.9 2.0 - - - +
52A ALA* 2.9 30.3 + - - +
97A TYR* 3.1 46.6 + - + +
98A ALA* 2.9 21.1 + - - +
99A ARG* 3.3 15.6 + - - +
100A SER* 3.6 3.2 - - - +
101A ALA* 3.4 25.6 - - + +
250A SO4 3.7 13.8 + - - -
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Residues in contact with VAL 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A GLN* 3.9 23.3 - - + +
26A VAL* 3.9 11.0 - - - -
29A ALA* 4.1 15.9 - - + -
33A PHE* 6.0 0.9 - - + -
45A GLU* 3.4 18.1 + - + +
46A PHE 3.1 7.0 + - - +
48A ARG* 1.3 73.8 - - - +
50A TYR* 1.3 66.9 + - - +
52A ALA* 3.4 3.9 + - - -
53A GLN* 3.1 23.2 + - - +
94A PHE* 3.7 22.5 - - + -
98A ALA* 3.8 26.5 - - + +
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Residues in contact with TYR 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A VAL* 4.1 17.2 - - + +
30A ARG* 4.6 11.0 - - - -
40A THR* 3.6 42.9 - - + +
46A PHE* 3.1 31.7 + + + +
47A GLU* 3.7 4.0 - - + +
49A VAL* 1.3 77.5 - - - +
51A ARG* 1.3 69.6 + - + +
53A GLN* 3.2 12.4 + - - +
54A VAL* 2.9 52.6 + - + +
214A EDO 2.5 50.2 + - - -
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Residues in contact with ARG 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A GLU* 2.8 31.8 + - + +
48A ARG* 4.0 0.4 - - - +
50A TYR* 1.3 78.2 - - + +
52A ALA* 1.3 61.8 + - - +
54A VAL* 3.6 31.3 - - - +
55A ASN* 2.9 33.2 + - - +
58A GLU* 4.5 1.2 + - - -
97A TYR* 3.3 25.4 - - + +
201A GSH 2.9 59.4 + - - +
214A EDO 3.0 44.5 + - - -
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Residues in contact with ALA 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ARG 2.9 20.3 + - - +
49A VAL* 3.7 4.3 - - - +
51A ARG* 1.3 76.1 - - - +
53A GLN* 1.3 62.9 + - - +
55A ASN* 3.8 1.6 - - - +
56A CYS* 3.0 30.0 + - - -
93A TYR* 3.9 3.1 - - + -
94A PHE* 3.5 30.3 - - + +
97A TYR* 3.5 31.4 - - + -
98A ALA 4.9 0.2 - - - +
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Residues in contact with GLN 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A GLN* 4.3 1.2 - - - +
22A PHE* 3.9 22.9 - - + -
23A SER* 4.2 12.5 + - - +
26A VAL* 3.4 39.4 - - + +
49A VAL 3.1 6.9 + - - +
50A TYR* 3.6 10.4 - - - +
52A ALA* 1.3 78.6 - - - +
54A VAL* 1.3 70.4 + - - +
56A CYS* 3.3 4.0 + - - +
57A SER* 2.8 59.6 + - - +
94A PHE* 3.7 13.4 - - + -
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Residues in contact with VAL 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A TYR* 2.9 55.7 + - + +
51A ARG* 3.3 31.2 + - - +
53A GLN* 1.3 88.7 - - - +
55A ASN* 1.3 58.6 + - - +
57A SER* 3.2 3.8 + - - -
58A GLU* 2.9 38.6 + - + +
214A EDO 4.6 3.6 - - - +
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Residues in contact with ASN 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ARG* 2.9 17.2 + - - +
52A ALA 3.8 2.9 - - - +
54A VAL* 1.3 75.5 - - - +
56A CYS* 1.3 64.7 + - - +
58A GLU* 3.2 16.5 + - - +
59A TYR* 3.1 33.1 + - - -
90A ARG* 2.7 36.2 + - - -
93A TYR* 3.1 21.6 + - + +
108A LEU* 4.7 1.0 - - - +
201A GSH 3.0 56.0 + - - +
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Residues in contact with CYS 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A GLN* 3.4 25.2 + - - +
22A PHE* 3.5 29.2 - - + -
52A ALA 3.0 22.7 + - - +
53A GLN 3.6 4.0 - - - +
55A ASN* 1.3 78.6 - - - +
57A SER* 1.3 62.1 + - - +
59A TYR* 3.4 2.3 + - - +
60A PHE* 3.0 18.5 + - - +
86A TYR* 4.9 1.4 + - - -
90A ARG* 3.5 38.1 - - - +
93A TYR* 3.8 11.4 - - - -
94A PHE* 4.6 2.5 - - - -
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Residues in contact with SER 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A GLN* 3.2 18.5 + - - -
23A SER* 5.7 0.2 + - - -
53A GLN* 2.8 43.4 + - - +
54A VAL* 3.2 5.8 + - - -
56A CYS* 1.3 73.5 - - - +
58A GLU* 1.3 62.1 + - - +
60A PHE* 3.4 4.1 + - - +
61A PRO* 3.3 18.7 - - - +
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Residues in contact with GLU 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ARG* 4.9 0.2 + - - -
54A VAL* 2.9 27.3 + - + +
55A ASN* 3.3 23.5 + - - +
57A SER* 1.3 77.9 - - - +
59A TYR* 1.3 67.1 + - + +
61A PRO* 3.5 10.0 - - - +
62A LEU* 4.1 3.3 - - - +
201A GSH 2.6 41.1 + - - +
215A EDO 3.0 31.3 + - - +
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Residues in contact with TYR 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ASN* 3.1 38.5 + - - +
56A CYS 3.8 1.6 - - - +
58A GLU* 1.3 88.5 - - + +
60A PHE* 1.3 66.2 + - - +
61A PRO 3.3 1.6 - - - -
62A LEU* 2.9 34.0 + - + +
63A PHE* 2.9 12.6 + - - +
86A TYR* 3.4 19.7 + - - +
90A ARG* 3.2 18.8 - - - +
108A LEU* 5.8 2.5 - - + -
115A LEU* 4.2 14.5 - - + +
201A GSH 2.6 38.4 + - + +
215A EDO 3.8 20.9 - - - -
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Residues in contact with PHE 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A THR 4.4 0.2 - - - -
15A GLY* 3.5 41.1 - - - -
16A VAL* 3.7 19.1 - - + -
19A GLN* 3.8 26.0 - - + +
56A CYS 3.0 16.4 + - - +
57A SER* 3.6 6.5 - - - +
59A TYR* 1.3 76.9 - - - +
61A PRO* 1.3 67.2 - - + +
63A PHE* 3.2 19.4 + + - +
64A LEU* 2.9 65.3 + - + +
86A TYR* 5.0 4.3 - + - -
87A LEU* 4.8 4.0 - - + -
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Residues in contact with PRO 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A SER 3.3 15.9 - - - +
58A GLU* 3.5 9.9 - - - +
59A TYR 3.5 3.4 - - - -
60A PHE* 1.3 95.2 - - + +
62A LEU* 1.3 60.9 + - + +
64A LEU* 3.8 11.9 - - + +
65A ALA* 2.9 31.9 + - - +
208A LMT 5.8 0.2 - - - +
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Residues in contact with LEU 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A GLU 4.1 7.2 - - - +
59A TYR* 2.9 21.8 + - + +
61A PRO* 1.3 78.9 - - + +
63A PHE* 1.3 66.8 + - - +
65A ALA* 4.0 4.2 - - - +
66A THR* 3.0 34.3 + - + +
115A LEU* 4.3 15.9 - - + -
215A EDO 3.6 39.3 - - - +
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Residues in contact with PHE 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A VAL* 3.8 17.3 - - + -
15A GLY* 5.1 0.2 - - - -
59A TYR 2.9 9.8 + - - +
60A PHE* 3.5 23.8 - + - +
62A LEU* 1.3 77.2 - - - +
64A LEU* 1.3 61.2 + - + +
66A THR* 3.3 1.2 + - - -
67A LEU* 2.9 47.3 + - + +
83A GLY* 3.3 42.4 - - - -
86A TYR* 3.4 42.2 - + + -
87A LEU* 3.6 24.9 - - + -
115A LEU* 3.8 9.1 - - + +
118A LEU* 3.7 17.3 - - + -
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Residues in contact with LEU 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A THR* 3.7 39.7 - - + +
16A VAL* 6.1 0.4 - - + -
60A PHE* 2.9 60.2 + - + +
61A PRO* 3.8 9.9 - - + +
63A PHE* 1.3 80.2 - - + +
65A ALA* 1.3 62.7 + - - +
67A LEU* 3.6 4.2 - - + +
68A TRP* 3.1 35.1 + - + +
208A LMT 4.9 6.1 - - + -
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Residues in contact with ALA 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A PRO 2.9 22.1 + - - +
62A LEU* 4.0 5.2 - - - +
64A LEU* 1.3 74.4 - - - +
66A THR* 1.3 58.9 + - + +
68A TRP* 4.0 1.4 - - - +
69A VAL* 3.1 38.1 + - + +
208A LMT 4.0 21.7 - - + +
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Residues in contact with THR 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 3.0 26.7 + - + +
63A PHE 3.3 4.3 + - - -
65A ALA* 1.3 75.1 - - + +
67A LEU* 1.3 62.4 + - - +
69A VAL* 4.6 4.0 - - - +
70A ALA* 2.8 35.6 + - - +
115A LEU* 3.4 17.8 - - + +
118A LEU* 3.6 22.6 - - - +
119A VAL* 3.7 27.1 - - + -
122A ALA* 4.4 4.4 - - + +
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Residues in contact with LEU 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU* 3.7 26.0 - - + +
11A VAL* 3.9 23.3 - - + -
12A THR* 3.5 27.1 - - - +
63A PHE* 2.9 33.4 + - + +
64A LEU* 3.6 5.4 - - - +
66A THR* 1.3 77.9 + - - +
68A TRP* 1.3 61.6 + - + +
71A GLY* 2.9 27.0 + - - -
79A ALA* 3.5 31.6 - - - +
80A ALA* 4.2 5.6 - - - +
83A GLY* 4.4 5.2 - - - -
118A LEU* 4.2 8.5 - - + -
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Residues in contact with TRP 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A VAL* 3.4 48.9 - - + -
8A LEU* 3.8 21.5 + - + -
9A ALA* 3.7 24.9 - - + -
12A THR* 2.8 30.0 + - + +
64A LEU* 3.1 33.0 + - + +
65A ALA 4.1 1.8 - - - +
67A LEU* 1.3 83.4 - - + +
69A VAL* 1.3 60.5 + - - +
71A GLY* 3.8 0.2 - - - -
72A ILE* 2.9 49.7 + - + +
208A LMT 3.8 37.5 - - + -
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Residues in contact with VAL 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A ALA* 3.1 22.4 + - + +
66A THR* 4.2 1.1 - - - +
68A TRP* 1.3 76.7 - - + +
70A ALA* 1.3 56.1 + - - +
72A ILE* 3.4 0.8 + - - -
73A PHE* 2.9 48.7 + - + +
122A ALA* 3.7 22.4 - - + +
126A LEU* 4.0 24.7 - - + -
208A LMT 5.3 8.5 - - + -
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Residues in contact with ALA 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A THR 2.8 22.4 + - - +
69A VAL* 1.3 74.2 - - - +
71A GLY* 1.3 58.8 + - - +
74A PHE* 2.8 27.6 + - - +
75A HIS 3.1 9.9 + - - +
79A ALA* 3.8 14.6 - - + -
118A LEU* 3.7 27.4 - - + +
121A LEU* 3.9 10.9 - - + +
122A ALA* 3.8 16.0 - - - +
----------------------------------------------------------
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Residues in contact with GLY 71 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A GLU 5.1 1.6 - - - +
8A LEU* 3.8 18.3 - - - +
67A LEU 2.9 15.5 + - - -
68A TRP 3.8 0.2 - - - -
70A ALA* 1.3 77.9 - - - +
72A ILE* 1.3 60.9 + - - +
75A HIS* 3.6 5.3 + - - -
76A GLU* 3.4 24.9 + - - +
79A ALA* 3.4 20.0 - - - -
----------------------------------------------------------
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Residues in contact with ILE 72 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A GLU 5.8 0.4 - - - +
5A VAL* 4.5 4.3 - - + -
8A LEU* 4.3 9.6 - - + -
68A TRP* 2.9 30.1 + - + +
69A VAL* 4.8 0.7 - - - -
71A GLY* 1.3 80.8 - - - +
73A PHE* 1.3 85.8 + - + +
74A PHE 3.6 0.8 - - - -
208A LMT 3.5 82.7 - - + +
----------------------------------------------------------
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Residues in contact with PHE 73 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A VAL* 2.9 31.3 + - + +
70A ALA* 5.3 0.2 - - - -
72A ILE* 1.3 99.9 - - + +
74A PHE* 1.3 60.7 + - - +
122A ALA* 4.8 1.1 - - - +
125A GLY* 3.3 36.3 - - - +
126A LEU* 3.8 32.5 - - + +
129A HIS* 4.0 29.8 - + + -
206A LMT 3.8 15.3 - - - +
208A LMT 6.5 0.2 - - + -
----------------------------------------------------------
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Residues in contact with PHE 74 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A ALA 2.8 13.7 + - - +
71A GLY 4.9 0.4 - - - -
72A ILE 5.2 0.4 - - - -
73A PHE* 1.3 79.3 - - - +
75A HIS* 1.3 77.5 + - + +
78A ALA* 4.5 8.1 - - + -
121A LEU* 3.4 67.5 - - + +
124A LEU* 4.2 10.8 - - + -
125A GLY* 4.2 2.5 - - - -
206A LMT 3.6 56.7 - - + +
----------------------------------------------------------
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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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