Contacts of the helix formed by residues 67 - 90 (chain A) in PDB entry 4HRG
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 GLY 67 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A PHE* 3.6 6.7 - - - -
23A GLY 5.0 2.0 - - - -
24A TYR* 4.7 6.9 - - - +
60A GLN* 3.9 8.4 + - - -
65A LYS* 3.9 4.4 + - - +
66A VAL* 1.3 75.9 - - - +
68A PHE* 1.3 60.5 + - - -
69A GLN 3.3 2.7 - - - -
70A SER* 3.3 9.5 + - - -
71A PHE* 2.8 27.0 + - - +
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Residues in contact with PHE 68 (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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11A MET 3.8 21.1 - - - -
12A MET* 3.9 12.6 - - - -
15A PHE* 3.5 41.9 - + + -
60A GLN* 4.3 0.2 + - - -
67A GLY* 1.3 72.8 - - - -
69A GLN* 1.3 53.6 + - - +
71A PHE* 3.1 11.4 + + - +
72A PHE* 2.7 60.1 + + - +
79B THR* 3.8 32.8 - - + -
80B ILE* 4.0 17.0 - - + -
83B ASN* 3.4 36.3 - - + +
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Residues in contact with GLN 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ASP* 4.5 10.8 + - - +
60A GLN* 3.2 25.9 + - + +
67A GLY 3.3 0.2 - - - -
68A PHE* 1.3 79.6 - - - +
70A SER* 1.3 61.6 + - - +
72A PHE* 3.3 1.4 + - - -
73A SER* 3.0 18.7 + - - -
80B ILE* 3.7 41.4 - - + +
5661C MET* 3.4 23.7 - - + +
5663D ILE* 4.5 12.7 - - - +
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Residues in contact with SER 70 (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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58A LEU* 3.8 9.0 - - - +
59A ASP* 2.5 14.0 + - - -
60A GLN* 2.3 57.1 + - - +
61A CYS* 4.4 6.5 - - - -
66A VAL* 3.8 16.4 - - - -
67A GLY 3.5 9.3 + - - -
68A PHE 3.2 0.4 - - - -
69A GLN* 1.3 70.1 - - - +
71A PHE* 1.3 64.9 + - - +
73A SER* 2.7 23.0 + - - -
74A LEU 3.4 4.2 + - - -
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Residues in contact with PHE 71 (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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11A MET* 3.7 26.7 - - + -
14A THR* 4.6 7.0 - - + -
15A PHE* 3.7 26.5 - + + -
25A LEU* 3.9 17.7 - - + -
30A LEU* 4.7 6.7 - - + -
33A LEU* 3.7 37.9 - - + -
58A LEU* 5.3 0.4 - - - -
66A VAL* 3.8 5.8 - - + +
67A GLY 2.8 13.9 + - - +
68A PHE* 3.3 19.7 - + - +
70A SER* 1.3 77.6 - - - +
72A PHE* 1.3 63.3 + + - +
74A LEU* 3.2 27.0 + - + +
75A ILE* 3.3 33.6 + - + +
4B MET* 4.6 7.6 - - + -
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Residues in contact with PHE 72 (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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11A MET* 3.9 25.8 - - + -
68A PHE* 2.7 43.5 + + + +
69A GLN* 3.6 8.3 - - - +
71A PHE* 1.3 73.3 - + - +
73A SER* 1.3 59.7 + - - +
75A ILE* 3.2 8.5 + - + +
76A ALA* 2.8 25.3 + - - +
72B PHE* 3.2 33.2 - + - -
75B ILE* 4.1 10.8 - - + -
76B ALA* 3.4 38.4 - - + -
79B THR* 3.8 29.2 - - + -
80B ILE* 4.6 3.8 - - + -
5661C MET* 4.2 7.9 - - + -
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Residues in contact with SER 73 (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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58A LEU* 3.5 10.7 - - - +
59A ASP* 3.7 13.7 + - - -
69A GLN 3.0 11.5 + - - -
70A SER* 2.7 20.7 + - - -
72A PHE* 1.3 76.0 - - - +
74A LEU* 1.3 57.8 + - - +
76A ALA* 3.2 4.1 + - - +
77A GLY 2.9 25.1 + - - -
5661C MET* 3.9 20.1 - - - +
5662C LYS 3.2 24.9 - - - -
5663C ILE* 4.1 1.0 - - - +
5664C PRO* 3.3 11.9 - - - +
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Residues in contact with LEU 74 (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 LEU* 4.0 26.9 - - + -
33A LEU* 5.7 0.2 - - + -
34A MET* 4.1 22.2 - - + -
38A PHE* 4.9 2.7 - - + -
54A ILE* 4.0 19.3 - - + -
58A LEU* 3.6 18.4 - - + -
70A SER 3.4 1.1 + - - +
71A PHE* 3.2 20.1 + - + +
73A SER* 1.3 81.2 + - - +
75A ILE* 1.3 67.7 + - + +
77A GLY* 3.2 2.6 + - - -
78A LEU* 3.0 39.5 + - + +
5664C PRO* 4.1 2.0 - - + -
5666C PHE* 3.9 23.3 - - + -
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Residues in contact with ILE 75 (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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11A MET* 3.7 33.2 - - + -
38A PHE* 3.7 23.3 - - + -
71A PHE* 3.7 34.3 - - + +
72A PHE* 3.2 12.4 + - + +
74A LEU* 1.3 81.0 - - + +
76A ALA* 1.3 62.4 + - - +
78A LEU* 3.9 4.2 - - + +
79A THR* 2.7 43.3 + - - +
4B MET* 3.5 24.7 - - + -
8B MET* 4.3 5.4 - - + -
72B PHE* 3.9 9.2 - - + -
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Residues in contact with ALA 76 (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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72A PHE 2.8 12.4 + - - +
73A SER* 3.4 12.1 - - - +
75A ILE* 1.3 77.3 - - - +
77A GLY* 1.3 58.1 + - - +
80A ILE* 2.8 46.2 + - + +
72B PHE* 3.3 33.6 - - + -
5661C MET* 4.7 2.0 - - - -
5663C ILE* 4.5 6.3 - - + -
5661D MET* 4.6 12.3 - - + -
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Residues in contact with GLY 77 (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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73A SER 2.9 12.0 + - - -
74A LEU 3.7 2.9 - - - -
76A ALA* 1.3 75.9 - - - +
78A LEU* 1.3 62.8 + - - +
80A ILE* 4.1 1.2 - - - +
81A ALA* 3.1 25.3 + - - +
5663C ILE* 3.4 25.8 - - - +
5664C PRO* 3.4 13.5 - - - +
5666C PHE* 3.7 8.7 + - - -
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Residues in contact with LEU 78 (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 MET* 5.0 4.0 - - + -
38A PHE* 3.9 37.2 - - + -
41A PHE* 3.9 23.6 - - + -
74A LEU* 3.0 36.8 + - + +
75A ILE* 3.9 3.1 - - + +
77A GLY* 1.3 75.5 - - - +
79A THR* 1.3 59.3 + - - +
81A ALA* 3.3 4.2 + - - +
82A CYS* 2.8 32.1 + - - -
107A LEU* 4.3 12.3 - - + -
110A LEU* 4.1 3.3 - - + +
8B MET* 3.7 13.7 - - + -
5666C PHE* 3.3 34.3 - - + -
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Residues in contact with THR 79 (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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75A ILE* 2.7 28.2 + - - +
76A ALA 4.0 0.4 - - - -
78A LEU* 1.3 74.7 - - - +
80A ILE* 1.3 62.2 + - - +
82A CYS* 3.3 5.4 + - + +
83A ASN* 2.8 28.2 + - - +
103A VAL* 6.3 0.7 - - + -
8B MET* 3.4 47.0 - - + +
11B MET* 4.0 4.0 - - + +
12B MET* 4.9 4.0 - - + +
68B PHE* 3.7 23.6 - - + -
72B PHE* 3.8 17.8 - - + -
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Residues in contact with ILE 80 (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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76A ALA* 2.8 29.7 + - + +
77A GLY 4.1 2.7 - - - +
79A THR* 1.3 75.9 - - - +
81A ALA* 1.3 63.9 + - - +
83A ASN* 3.2 3.3 + - - +
84A ASP* 3.0 34.3 + - - +
68B PHE* 3.9 25.6 - - + -
69B GLN* 3.7 46.7 - - + +
72B PHE* 4.6 9.6 - - + -
5663C ILE* 3.7 20.0 - - + -
5661D MET* 4.7 3.1 - - - -
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Residues in contact with ALA 81 (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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77A GLY 3.1 20.3 + - - +
78A LEU 3.7 3.4 - - - +
80A ILE* 1.3 76.8 - - - +
82A CYS* 1.3 66.5 + - - +
84A ASP* 3.3 9.3 + - - +
85A TYR* 3.1 22.3 + - - +
110A LEU* 3.8 21.3 - - + +
5666C PHE* 3.8 27.8 - - + +
5668C PHE* 3.7 8.0 - - + -
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Residues in contact with CYS 82 (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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78A LEU 2.8 26.2 + - - +
79A THR* 3.5 11.0 - - + +
81A ALA* 1.3 73.7 - - - +
83A ASN* 1.3 63.2 + - - +
85A TYR* 3.3 2.9 + - - +
86A PHE* 2.9 23.6 + - - +
103A VAL* 4.4 11.7 - - + -
106A ILE* 3.6 33.3 - - + +
107A LEU* 3.6 32.5 - - - -
110A LEU* 4.2 2.9 - - - -
8B MET* 4.3 7.4 - - - -
12B MET* 4.2 11.2 - - - -
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Residues in contact with ASN 83 (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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79A THR 2.8 16.9 + - - +
80A ILE 3.5 5.4 + - - +
82A CYS* 1.3 77.3 - - - +
84A ASP* 1.3 68.0 + - - +
86A PHE* 3.2 2.4 + - - +
87A VAL* 2.8 38.2 + - - +
12B MET* 3.4 22.6 - - + +
15B PHE* 5.2 0.4 - - - -
16B HIS* 2.7 29.8 + - - -
68B PHE* 3.4 43.4 - - + +
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Residues in contact with ASP 84 (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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80A ILE* 3.0 27.0 + - - +
81A ALA* 3.7 10.3 - - - +
82A CYS 3.3 0.2 - - - -
83A ASN* 1.3 87.0 + - - +
85A TYR* 1.3 61.8 + - - +
87A VAL* 3.9 5.5 - - - +
88A VAL* 3.0 31.9 + - + +
5668C PHE* 3.8 17.1 - - + -
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Residues in contact with TYR 85 (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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81A ALA 3.1 11.6 + - - +
82A CYS 3.5 7.4 - - - +
84A ASP* 1.3 74.1 - - - +
86A PHE* 1.3 56.8 + - - +
88A VAL 3.2 0.2 + - - -
89A HIS* 2.8 71.7 + + + +
90A MET* 4.0 18.2 - - + -
105A GLU* 6.2 1.6 - - + -
106A ILE* 3.7 31.6 - - + -
109A LYS* 3.7 44.3 - - + +
110A LEU* 5.0 0.7 - - + -
5668C PHE* 3.6 36.9 - + + -
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Residues in contact with PHE 86 (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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82A CYS 2.9 13.8 + - - +
83A ASN* 3.3 7.4 - - - +
85A TYR* 1.3 78.6 - - - +
87A VAL* 1.3 61.0 + - - +
90A MET* 2.9 34.6 + - + -
91A LYS* 2.8 54.0 + - + -
97A PHE* 3.6 42.0 - + - -
102A THR* 5.1 0.9 - - - -
106A ILE* 4.2 3.1 - - + -
12B MET* 3.8 22.2 - - + -
13B PHE* 3.7 26.9 - + - -
16B HIS* 3.8 36.3 - + + -
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Residues in contact with VAL 87 (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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83A ASN* 2.8 28.9 + - - +
84A ASP* 3.9 6.7 - - - +
86A PHE* 1.3 79.3 - - + +
88A VAL* 1.3 65.8 + - + +
91A LYS* 4.2 21.9 + - + +
92A GLN* 4.9 11.7 + - - +
16B HIS* 3.7 31.2 - - + +
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Residues in contact with VAL 88 (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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84A ASP* 3.0 23.5 + - + +
85A TYR* 3.9 2.7 - - - +
87A VAL* 1.3 83.9 - - + +
89A HIS* 1.3 87.7 + - + +
92A GLN* 5.8 2.4 - - - +
93A GLU* 4.6 5.0 - - - +
5668C PHE* 4.6 11.2 - - + -
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Residues in contact with HIS 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A TYR* 2.8 63.9 + + + +
88A VAL* 1.3 97.9 - - + +
90A MET* 1.3 59.1 + - + +
93A GLU* 3.3 23.3 - - - +
5668C PHE* 4.1 17.0 - + - -
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Residues in contact with MET 90 (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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85A TYR* 4.0 19.3 - - + -
86A PHE* 2.9 22.4 + - + +
88A VAL 3.8 0.4 - - - -
89A HIS* 1.3 83.4 - - + +
91A LYS* 1.3 68.0 + - - +
92A GLN 3.3 2.5 - - - -
93A GLU* 2.9 21.2 + - - +
94A ASN 3.5 5.5 + - - -
97A PHE* 3.6 21.1 - - + -
102A THR* 4.3 22.0 - - + +
105A GLU* 4.9 17.7 - - + +
106A ILE* 3.8 34.8 - - + -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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