Contacts of the helix formed by residues 74 - 100 (chain B) in PDB entry 4A2N
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 74 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72B ASN 4.5 2.2 - - - +
73B LEU* 1.4 104.8 - - + +
75B ASP* 1.3 65.6 + - - +
76B SER* 4.0 12.3 - - - +
77B ILE* 3.5 32.3 + - + +
78B ARG* 3.6 11.7 + - - +
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Residues in contact with ASP 75 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 3.3 35.9 + - - +
6B TRP* 3.3 31.0 + - + -
73B LEU 4.7 2.7 - - - +
74B PRO* 1.3 70.7 - - - +
76B SER* 1.3 65.4 + - - +
78B ARG* 3.2 5.8 + - - +
79B LEU* 3.1 24.6 + - - +
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Residues in contact with SER 76 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74B PRO* 4.0 12.1 - - - +
75B ASP* 1.3 77.2 + - - +
77B ILE* 1.3 68.4 + - - +
78B ARG 3.3 0.3 + - - -
79B LEU* 3.5 7.2 + - - +
80B PHE* 3.3 17.2 + - - +
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Residues in contact with ILE 77 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B LEU* 4.5 14.4 - - + -
74B PRO* 3.5 30.6 + - + +
75B ASP 3.4 0.2 - - - -
76B SER* 1.3 78.3 - - - +
78B ARG* 1.3 63.3 + - - +
80B PHE* 3.4 20.6 + - + +
81B ALA* 3.5 4.0 + - - +
141B ILE* 4.0 24.4 - - + +
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Residues in contact with ARG 78 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET 5.6 0.8 + - - -
3B GLU* 3.0 40.2 + - - -
6B TRP* 3.5 51.2 - - + +
72B ASN* 6.0 0.4 - - - +
73B LEU* 3.9 29.3 + - + +
74B PRO 3.6 13.8 + - - +
75B ASP* 3.2 7.2 + - - +
76B SER 3.2 1.0 - - - -
77B ILE* 1.3 75.3 - - - +
79B LEU* 1.3 67.2 + - - +
81B ALA* 2.9 15.6 + - - +
82B LEU* 3.0 11.8 + - - +
141B ILE* 3.3 23.3 - - - +
142B ILE* 3.2 25.4 + - - +
143B LEU* 4.0 2.8 + - - +
144B SER* 3.6 20.4 + - - -
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Residues in contact with LEU 79 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B TRP* 4.0 9.5 - - + -
75B ASP 3.1 15.8 + - - +
76B SER* 3.8 6.3 - - - +
78B ARG* 1.3 75.1 - - - +
80B PHE* 1.3 65.2 + - - +
82B LEU* 2.9 18.6 + - + -
83B ILE* 2.8 47.0 + - + +
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Residues in contact with PHE 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B SER 3.3 9.5 + - - +
77B ILE* 3.4 17.7 - - + +
78B ARG 3.1 0.8 - - - -
79B LEU* 1.3 79.9 - - - +
81B ALA* 1.3 62.6 + - - +
83B ILE* 3.7 7.7 + - + +
84B VAL* 3.3 42.7 + - + +
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Residues in contact with ALA 81 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B ILE 3.5 3.3 + - - +
78B ARG 2.9 11.2 + - - +
80B PHE* 1.3 78.7 - - - +
82B LEU* 1.3 54.1 + - - +
84B VAL* 2.8 16.0 + - - +
85B THR* 2.6 36.6 + - - -
138B THR* 4.2 16.2 - - - +
141B ILE* 4.2 17.5 - - + -
142B ILE* 3.5 19.5 - - + -
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Residues in contact with LEU 82 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B TRP* 4.4 18.8 - - + -
9B CYS* 3.3 34.5 - - + -
10B PHE 6.1 0.2 - - - +
13B MET* 4.2 25.4 - - + -
78B ARG 3.0 10.4 + - - +
79B LEU* 2.9 22.6 + - + +
81B ALA* 1.3 75.8 - - - +
83B ILE* 1.3 67.2 + - + +
85B THR* 3.1 16.1 + - - +
86B PHE* 3.3 10.9 + - - +
142B ILE* 4.0 14.9 - - + +
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Residues in contact with ILE 83 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B LEU* 2.8 36.9 + - + +
80B PHE* 3.8 9.2 - - + +
82B LEU* 1.3 77.6 - - + +
84B VAL* 1.3 60.2 + - + +
86B PHE* 2.7 41.3 + - + +
87B LEU* 3.1 24.2 + - + +
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Residues in contact with VAL 84 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80B PHE* 3.3 30.9 + - + +
81B ALA* 2.8 35.7 + - - +
83B ILE* 1.3 78.7 - - + +
85B THR* 1.3 57.1 + - - +
87B LEU* 3.2 16.4 + - + +
88B ASN* 2.8 29.5 + - - +
134B LEU* 5.6 8.9 - - + +
138B THR* 3.7 21.3 - - + -
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Residues in contact with THR 85 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B PHE* 6.5 0.7 - - + -
13B MET* 5.6 7.4 - - + -
81B ALA 2.6 18.5 + - - -
82B LEU* 3.1 20.7 + - - +
84B VAL* 1.3 72.5 - - - +
86B PHE* 1.3 64.4 + - - +
88B ASN* 3.0 9.4 - - - +
89B ILE* 3.0 25.1 + - - +
135B TRP* 3.9 26.5 - - + -
138B THR* 2.8 34.3 - - + +
139B GLN* 5.5 0.9 - - + -
142B ILE* 3.2 16.4 - - + +
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Residues in contact with PHE 86 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B MET* 5.1 16.5 - - + +
82B LEU 3.3 9.4 + - - +
83B ILE* 2.7 22.0 + - + +
85B THR* 1.3 75.9 - - - +
87B LEU* 1.3 76.8 + - + +
88B ASN 2.8 0.9 + - - -
89B ILE* 2.9 19.4 + - + +
90B GLY 3.3 4.7 + - - -
1195B CDL 2.9 36.6 - - - -
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Residues in contact with LEU 87 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B ILE* 3.1 34.0 + - + +
84B VAL* 3.5 14.8 - - + +
86B PHE* 1.3 89.3 - - + +
88B ASN* 1.3 64.6 + - - +
90B GLY* 3.1 4.6 + - - +
91B LEU* 2.9 21.6 + - - +
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Residues in contact with ASN 88 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B VAL 2.8 14.0 + - - +
85B THR* 3.0 13.4 - - - +
86B PHE 2.8 1.0 + - - -
87B LEU* 1.3 76.2 - - - +
89B ILE* 1.3 51.3 + - + +
91B LEU* 2.7 16.6 + - - +
92B PHE* 2.5 36.6 + - - +
131B HIS* 2.7 37.4 + - + +
134B LEU* 3.2 41.8 - - - +
135B TRP* 3.6 16.1 - - + +
138B THR* 4.6 6.7 - - - +
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Residues in contact with ILE 89 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B MET* 3.5 36.6 - - + +
16B ILE* 3.8 30.5 - - + -
17B TRP* 3.8 18.8 - - + -
20B VAL* 4.1 16.6 - - + -
85B THR 3.2 15.7 - - - +
86B PHE* 2.9 14.5 + - + +
88B ASN* 1.3 71.4 - - - +
90B GLY* 1.3 62.0 + - - +
92B PHE* 3.3 9.5 - - + +
93B THR* 3.0 23.6 + - + +
131B HIS* 5.4 0.4 - - - -
135B TRP* 4.2 14.4 - - + -
1195B CDL 4.9 2.2 - - - +
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Residues in contact with GLY 90 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86B PHE 3.3 4.8 + - - -
87B LEU* 3.1 7.2 + - - -
88B ASN 3.0 0.8 - - - -
89B ILE* 1.3 76.3 - - - +
91B LEU* 1.3 66.9 + - - +
93B THR* 2.6 20.4 + - - -
94B LYS* 2.7 9.0 + - - +
1195B CDL 3.3 43.6 + - - +
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Residues in contact with LEU 91 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87B LEU 2.9 11.9 + - - +
88B ASN* 2.7 26.7 + - - +
90B GLY* 1.3 70.2 - - - +
92B PHE* 1.3 52.8 + - - +
94B LYS* 2.8 21.4 + - + +
95B ILE* 2.6 65.9 + - + +
120B ILE* 4.0 22.7 - - + -
127B PRO* 5.2 1.6 - - + +
130B ALA* 5.8 1.8 - - + -
131B HIS* 4.4 9.6 - - + +
134B LEU* 5.7 4.7 - - + -
1195B CDL 4.6 0.4 - - - -
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Residues in contact with PHE 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B TRP* 3.7 43.1 - + - -
20B VAL* 3.5 26.9 - - + -
21B ARG* 4.2 21.5 - - + -
88B ASN 2.5 15.4 + - - +
89B ILE* 3.3 14.4 - - - +
91B LEU* 1.3 72.8 - - - +
93B THR* 1.3 54.6 + - - +
95B ILE* 3.3 6.1 - - + +
96B HIS* 2.6 65.6 + + + +
128B MET* 4.6 15.3 - - + -
131B HIS* 2.6 42.8 - + - +
132B LEU* 5.1 2.2 - - + -
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Residues in contact with THR 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B VAL* 3.0 43.7 - - + -
24B TYR* 4.4 7.8 + - + -
89B ILE* 3.0 14.8 + - + +
90B GLY* 2.6 25.0 + - - -
92B PHE* 1.3 77.5 - - - +
94B LYS* 1.3 60.3 + - - +
96B HIS* 4.2 3.1 - - - +
97B LYS* 3.1 25.3 + - - +
1195B CDL 3.6 16.9 + - - -
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Residues in contact with LYS 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B GLY 2.7 7.7 + - - +
91B LEU* 2.8 24.9 + - + +
93B THR* 1.3 75.1 + - - +
95B ILE* 1.3 67.0 + - - +
97B LYS* 3.0 5.6 + - - +
98B ASP* 2.8 36.8 + - - +
120B ILE* 4.5 17.7 - - + +
1195B CDL 3.2 46.0 + - - +
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Residues in contact with ILE 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B LEU* 2.6 48.5 + - + +
92B PHE* 3.3 8.3 - - + +
94B LYS* 1.3 71.5 - - - +
96B HIS* 1.3 60.9 + - + +
98B ASP* 2.8 21.1 + - - +
99B LEU* 2.9 12.6 + - + +
120B ILE* 3.8 21.7 - - + +
121B TYR* 3.7 21.4 - - + +
127B PRO* 3.5 13.5 - - + +
128B MET* 3.4 46.7 - - + +
131B HIS* 4.0 7.9 - - + -
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Residues in contact with HIS 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B VAL* 4.8 3.1 - - + -
21B ARG* 3.2 39.7 + - + +
24B TYR* 2.9 47.7 - - + +
25B GLY 4.5 3.6 - - - -
92B PHE* 2.6 56.7 + + - +
93B THR* 4.2 5.6 - - - -
95B ILE* 1.3 77.0 - - - +
97B LYS* 1.3 57.7 + - - +
99B LEU* 3.9 4.5 - - - +
100B GLY* 3.4 13.6 + - - -
103B TRP* 4.3 26.6 - + + +
128B MET* 4.2 9.1 - - - +
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Residues in contact with LYS 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B TYR* 3.0 30.8 - - + +
93B THR 3.1 19.9 + - - +
94B LYS 3.0 4.1 + - - +
96B HIS* 1.3 74.3 - - - +
98B ASP* 1.3 70.3 + - - +
99B LEU 3.1 3.0 + - - -
100B GLY* 3.8 7.6 + - - -
1195B CDL 3.2 56.8 + - - +
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Residues in contact with ASP 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B LYS* 2.8 24.1 + - - +
95B ILE* 3.2 11.2 - - - +
97B LYS* 1.3 80.8 - - - +
99B LEU* 1.3 57.7 + - - +
116B VAL* 4.3 15.1 - - + +
119B GLY* 3.7 12.6 - - - -
120B ILE* 3.3 33.0 + - - +
121B TYR* 4.2 17.5 - - + -
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Residues in contact with LEU 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B ILE* 2.9 12.5 + - + +
96B HIS* 4.2 5.6 - - - +
97B LYS 3.1 0.4 - - - -
98B ASP* 1.3 81.2 - - - +
100B GLY* 1.3 66.4 + - - +
101B ASN 3.4 2.3 + - - -
102B ASN* 3.7 39.8 + - + -
103B TRP* 4.0 30.7 - - + +
116B VAL* 4.4 6.7 - - + -
121B TYR* 2.9 32.1 - - + +
128B MET* 4.7 6.5 - - - -
1193B SAH 3.7 42.6 - - + +
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Residues in contact with GLY 100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B TYR* 5.0 10.3 - - - +
28B ALA* 3.3 13.1 - - - +
96B HIS* 3.4 15.1 + - - -
97B LYS 3.8 6.2 + - - -
99B LEU* 1.3 74.5 - - - +
101B ASN* 1.3 60.1 + - - -
102B ASN 2.9 11.2 + - - -
103B TRP* 3.2 15.7 + - - +
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il