Contacts of the helix formed by residues 85 - 114 (chain O) in PDB entry 5OXV
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 GLN 85 (chain O).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263I G 6.1 3.0 - - - -
264I A 5.1 7.3 + - - -
-260J C 5.5 2.6 + - - -
-259J T 3.2 22.2 + - - +
84O PHE* 1.3 74.5 - - - +
86O SER* 1.3 58.1 + - - +
87O SER* 3.1 9.5 + - - +
88O ALA* 2.6 37.2 + - + +
89O VAL* 3.1 7.3 + - - +
80P THR* 4.3 12.1 - - + +
81P VAL 3.1 11.5 + - - +
82P THR* 3.1 25.3 - - - +
83P ALA* 2.9 24.4 + - - +
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Residues in contact with SER 86 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
-259J T 4.0 15.8 + - - -
84O PHE 3.6 3.8 + - - -
85O GLN* 1.3 71.5 - - - +
87O SER* 1.3 59.4 + - - +
89O VAL* 3.4 9.4 + - - +
90O MET* 3.1 36.0 + - - +
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Residues in contact with SER 87 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85O GLN* 3.1 10.4 + - - +
86O SER* 1.3 79.7 + - - +
88O ALA* 1.3 61.8 + - - +
89O VAL 3.2 0.2 - - - -
90O MET* 3.8 8.7 - - - +
91O ALA* 2.9 30.1 + - - +
83P ALA* 3.1 21.9 - - - +
100P PHE* 3.8 15.9 - - - -
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Residues in contact with ALA 88 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84O PHE* 4.4 9.2 - - + -
85O GLN* 2.6 29.7 + - + +
87O SER* 1.3 76.9 + - - +
89O VAL* 1.3 58.3 + - - -
91O ALA* 3.7 0.8 - - - +
92O LEU* 3.3 29.2 + - - +
81P VAL 3.9 3.1 - - - +
82P THR 3.3 32.1 - - - +
83P ALA* 3.9 9.4 - - - +
86P VAL* 3.6 9.4 - - + +
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Residues in contact with VAL 89 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64O LYS 5.5 0.7 - - - +
67O PHE* 4.1 6.6 - - + -
68O GLN* 3.9 42.6 - - + +
71O VAL* 4.5 15.0 - - + -
72O ARG* 5.3 1.3 - - + +
84O PHE* 3.8 27.1 - - + +
85O GLN 3.1 12.7 + - - +
86O SER* 3.4 9.8 + - - +
87O SER 3.2 0.2 - - - -
88O ALA* 1.3 77.1 - - - +
90O MET* 1.3 66.0 + - - +
92O LEU* 3.3 8.8 + - - +
93O GLN* 2.8 28.5 + - - +
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Residues in contact with MET 90 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60O LEU* 4.1 21.3 - - + -
64O LYS* 3.7 44.9 - - + +
86O SER* 3.1 23.1 + - - +
87O SER* 3.5 6.3 + - - +
89O VAL* 1.3 80.9 - - - +
91O ALA* 1.3 53.9 + - - +
93O GLN* 2.9 10.0 + - - +
94O GLU* 2.8 38.8 + - + +
100P PHE* 3.9 18.6 - - + -
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Residues in contact with ALA 91 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87O SER 2.9 18.7 + - - +
88O ALA* 3.7 7.4 - - - +
90O MET* 1.3 75.6 - - - +
92O LEU* 1.3 62.8 + - - +
94O GLU* 3.4 0.5 + - - +
95O ALA* 3.0 25.4 + - - +
83P ALA* 5.0 1.8 - - + -
86P VAL* 4.0 17.9 - - + -
87P VAL* 5.0 2.9 - - + -
97P LEU* 3.4 24.7 - - + +
100P PHE* 3.8 21.4 - - + -
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Residues in contact with LEU 92 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67O PHE* 4.2 4.5 - - + -
71O VAL* 3.7 27.4 - - + -
84O PHE* 4.5 10.1 - - + -
88O ALA 3.3 15.8 + - - +
89O VAL* 3.3 8.7 + - - +
90O MET 3.3 0.2 - - - -
91O ALA* 1.3 78.0 - - - +
93O GLN* 1.3 60.6 + - - +
95O ALA* 3.2 4.6 + - + +
96O SER* 2.6 34.5 + - - +
61P PHE* 6.0 0.7 - - + -
62P LEU* 4.1 17.7 - - + -
65P VAL* 3.5 32.5 - - + -
66P ILE* 4.0 19.3 - - + -
69P ALA* 6.0 0.4 - - + -
81P VAL* 6.1 0.2 - - + -
86P VAL* 3.6 19.7 - - + +
90P LEU* 5.6 1.1 - - + -
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Residues in contact with GLN 93 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60O LEU* 3.5 30.6 - - + +
62O ILE* 2.7 30.1 + - - +
64O LYS* 4.2 13.6 - - - +
67O PHE* 3.1 42.5 - - + +
89O VAL* 2.8 19.1 + - - +
90O MET* 2.9 20.0 + - + +
92O LEU* 1.3 71.8 - - - +
94O GLU* 1.3 62.1 + - - +
96O SER* 3.7 0.7 - - - -
97O GLU* 3.0 45.3 + - + +
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Residues in contact with GLU 94 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101M THR* 4.9 1.3 - - - +
103M ALA* 3.9 5.4 - - + -
104M GLN* 2.8 52.5 + - - +
60O LEU* 3.3 29.0 - - + +
90O MET* 2.8 23.6 + - + +
91O ALA 3.7 4.3 - - - +
93O GLN* 1.3 71.6 - - - +
95O ALA* 1.3 64.0 + - - +
96O SER 3.1 0.3 + - - -
98O ALA* 2.9 31.0 + - - +
97P LEU* 4.1 15.3 - - + -
100P PHE* 4.1 19.6 - - + -
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Residues in contact with ALA 95 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101M THR* 4.6 10.8 - - - -
91O ALA 3.0 17.7 + - - +
92O LEU* 3.6 5.6 - - - +
94O GLU* 1.3 76.7 - - - +
96O SER* 1.3 57.3 + - - +
98O ALA* 4.1 0.9 - - - +
99O TYR* 3.2 27.0 + - - +
61P PHE* 3.7 5.0 - - + -
90P LEU* 3.6 39.0 - - + -
95P ARG* 3.4 11.8 + - - +
97P LEU* 4.5 6.4 - - + +
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Residues in contact with SER 96 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62O ILE* 6.2 0.2 - - - -
67O PHE* 3.9 10.0 - - - -
92O LEU 2.6 21.1 + - - -
93O GLN 3.7 2.7 - - - -
95O ALA* 1.3 75.4 - - - +
97O GLU* 1.3 66.4 + - - +
99O TYR* 3.2 5.7 + - - +
100O LEU* 3.0 27.6 + - - +
58P LEU* 4.1 17.7 - - - -
61P PHE* 3.4 28.5 - - - -
62P LEU* 3.5 17.7 - - - +
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Residues in contact with GLU 97 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60O LEU* 3.5 19.3 - - + +
61O LEU* 3.0 21.5 + - - +
62O ILE* 2.8 41.5 + - + +
67O PHE* 5.8 0.2 - - + -
93O GLN* 3.0 37.7 + - + +
94O GLU 4.0 1.8 - - - +
96O SER* 1.3 73.2 - - - +
98O ALA* 1.3 58.0 + - - +
100O LEU* 2.6 29.9 + - - -
101O VAL* 2.9 17.1 + - + +
37P LEU* 3.8 24.2 - - + +
40P ARG* 4.6 3.5 + - - -
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Residues in contact with ALA 98 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101M THR* 3.8 28.0 - - + +
94O GLU* 2.9 21.4 + - - +
95O ALA 4.1 2.5 - - - +
97O GLU* 1.3 71.5 - - - +
99O TYR* 1.3 56.2 + - - +
101O VAL* 3.4 7.6 + - - +
102O ALA* 3.1 29.3 + - - +
95P ARG* 5.0 2.0 - - - +
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Residues in contact with TYR 99 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95O ALA 3.2 17.7 + - - +
96O SER 3.2 9.1 + - - +
97O GLU 2.8 4.0 + - - -
98O ALA* 1.3 73.2 - - - +
100O LEU* 1.3 80.9 + - + +
102O ALA* 3.5 3.4 - - - +
103O LEU* 2.9 30.4 + - + +
128O ARG* 4.0 3.5 + - - -
131O ARG* 3.5 10.7 + - - -
133O GLU* 2.5 43.9 + - - -
57P VAL* 4.0 21.5 + - + +
58P LEU* 6.3 0.2 - - + -
61P PHE* 3.6 35.3 - + + +
95P ARG* 3.4 41.0 - - - +
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Residues in contact with LEU 100 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62O ILE* 4.8 3.8 - - + -
96O SER 3.0 15.5 + - - +
97O GLU* 2.6 18.2 + - - +
99O TYR* 1.3 90.9 - - + +
101O VAL* 1.3 55.9 + - + +
103O LEU* 3.3 9.3 + - + +
104O PHE* 2.8 50.5 + - + -
29P ILE* 6.3 0.4 - - + -
37P LEU* 3.9 26.2 - - + -
54P THR* 4.7 16.6 - - + +
57P VAL* 4.3 15.7 - - + -
58P LEU* 4.3 37.2 - - + -
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Residues in contact with VAL 101 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107M VAL* 3.9 16.8 - - + -
97O GLU* 2.9 20.0 + - + +
98O ALA* 3.7 9.2 - - - +
100O LEU* 1.3 74.1 - - - +
102O ALA* 1.3 69.0 + - - +
103O LEU 3.1 0.7 - - - -
104O PHE* 2.9 5.2 + - - +
105O GLU* 2.9 24.9 + - - +
37P LEU* 3.9 32.5 - - + +
40P ARG* 3.5 48.2 - - + +
41P GLY* 3.8 5.3 - - - -
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Residues in contact with ALA 102 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98O ALA 3.1 15.4 + - - +
99O TYR* 3.5 8.5 - - - +
101O VAL* 1.3 76.7 - - - +
103O LEU* 1.3 59.1 + - - +
105O GLU* 2.9 40.4 + - - +
106O ASP* 3.1 11.6 + - - +
131O ARG* 3.6 11.0 - - - +
95P ARG* 4.9 8.1 - - - +
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Residues in contact with LEU 103 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99O TYR* 2.9 25.0 + - + +
100O LEU* 3.3 15.3 - - + +
101O VAL 3.1 0.4 - - - -
102O ALA* 1.3 75.7 - - - +
104O PHE* 1.3 57.3 + - + +
106O ASP* 3.2 2.0 + - - +
107O THR* 2.6 40.7 + - - +
124O ILE* 4.4 18.2 - - + -
127O ALA* 4.3 13.5 - - + -
128O ARG* 4.0 20.0 - - + -
131O ARG* 3.3 33.1 - - - +
57P VAL* 3.8 29.2 - - + -
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Residues in contact with PHE 104 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100O LEU* 2.8 41.2 + - + -
101O VAL 2.9 6.1 + - - +
103O LEU* 1.3 72.3 - - + +
105O GLU* 1.3 58.2 + - - +
107O THR* 2.9 7.4 + - - -
108O ASN* 2.6 38.1 + - - +
119O ILE* 3.5 31.2 - - + -
124O ILE* 4.8 7.4 - - + -
34P ILE* 4.2 14.4 - - + -
37P LEU* 4.0 14.8 - - + -
38P ALA* 3.7 35.2 - - + -
41P GLY* 4.1 7.2 - - - -
43P VAL* 3.9 11.2 - - + +
50P ILE* 4.3 8.1 - - + -
54P THR* 3.4 30.3 - - + -
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Residues in contact with GLU 105 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107M VAL* 3.7 26.2 - - - +
101O VAL* 2.9 14.5 + - - +
102O ALA* 2.9 24.4 - - - +
104O PHE* 1.3 78.4 - - - +
106O ASP* 1.3 69.4 + - - +
108O ASN* 3.3 5.8 + - - +
109O LEU* 3.2 27.5 + - + +
40P ARG 4.8 1.4 - - - +
41P GLY 3.4 23.2 + - - +
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Residues in contact with ASP 106 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129K ARG* 5.6 3.8 - - - +
130K ILE* 4.1 28.5 - - + +
102O ALA* 3.1 10.5 + - - +
103O LEU 3.9 2.5 - - - +
105O GLU* 1.3 79.2 - - - +
107O THR* 1.3 69.3 + - - +
109O LEU* 3.4 21.6 + - - +
110O CYS* 3.3 18.8 + - - -
127O ALA* 4.4 10.1 - - + -
131O ARG* 2.6 39.2 + - - +
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Residues in contact with THR 107 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103O LEU* 2.6 30.4 + - - +
104O PHE* 3.2 13.8 - - + -
106O ASP* 1.3 75.7 - - - +
108O ASN* 1.3 55.1 + - - +
110O CYS* 2.7 29.4 + - - +
111O ALA 3.1 8.7 + - - -
119O ILE* 3.8 26.0 - - + -
120O MET 4.7 0.2 - - - +
123O ASP* 3.6 23.5 - - + +
124O ILE* 3.5 31.9 - - + +
127O ALA* 4.4 7.9 - - - +
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Residues in contact with ASN 108 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112M GLN* 4.6 6.7 - - - +
115M LEU* 3.8 16.1 - - - +
104O PHE 2.6 19.1 + - - +
105O GLU* 3.4 7.4 - - - +
107O THR* 1.3 74.4 - - - +
109O LEU* 1.3 56.8 + - + +
111O ALA* 3.4 3.6 - - - +
112O ILE* 3.0 38.7 + - - +
117O VAL* 4.9 4.2 - - - +
119O ILE* 3.6 18.1 - - - +
41P GLY 4.8 0.6 + - - -
42P GLY* 2.9 32.7 + - - -
43P VAL* 3.8 17.8 - - + +
44P LYS 4.9 1.2 + - - -
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Residues in contact with LEU 109 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126K LEU* 4.0 20.6 - - + +
129K ARG* 4.5 29.2 - - + -
130K ILE* 5.2 1.6 - - + -
112M GLN* 4.3 26.5 - - + +
105O GLU* 3.2 24.6 + - + +
106O ASP* 3.7 19.1 - - - +
107O THR 3.1 0.8 - - - -
108O ASN* 1.3 74.1 - - + +
110O CYS* 1.3 55.0 + - - +
112O ILE* 3.3 12.2 + - + +
113O HIS* 2.7 34.6 + - - +
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Residues in contact with CYS 110 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113K HIS* 3.4 8.5 + - - -
126K LEU* 4.6 2.7 - - - -
130K ILE* 3.6 22.2 - - - -
106O ASP 3.3 15.0 - - - -
107O THR 2.7 13.4 + - - +
109O LEU* 1.3 68.3 - - - +
111O ALA* 1.3 67.3 + - - +
113O HIS* 2.9 18.8 + - - +
114O ALA 3.1 8.0 + - - -
123O ASP* 3.6 24.7 - - + +
126O LEU* 3.3 34.8 - - + -
127O ALA* 4.3 5.2 - - - -
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Residues in contact with ALA 111 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107O THR 3.1 4.9 + - - -
108O ASN* 3.4 12.8 - - - +
110O CYS* 1.3 73.2 - - - +
112O ILE* 1.3 60.2 + - + +
114O ALA* 2.9 18.5 + - - +
116O ARG* 3.1 36.5 + - + +
117O VAL 4.9 1.3 - - - -
118O THR 3.7 26.5 - - - +
119O ILE* 3.9 15.0 - - + -
123O ASP* 3.4 10.5 + - - +
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Residues in contact with ILE 112 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112M GLN* 3.8 39.3 - - + +
114M VAL* 4.3 22.7 - - + -
115M LEU* 4.4 12.6 - - + -
108O ASN* 3.0 30.2 + - - +
109O LEU* 3.5 13.7 - - + +
111O ALA* 1.3 79.6 - - + +
113O HIS* 1.3 64.0 + - - +
115O LYS* 3.0 16.6 + - - +
116O ARG 3.7 15.3 - - - +
117O VAL* 5.4 0.7 - - + -
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Residues in contact with HIS 113 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110K CYS 3.2 21.0 + - - -
113K HIS* 4.5 7.6 - + + -
114K ALA* 3.7 14.6 - - + +
116K ARG* 3.3 10.9 + - - -
122K LYS* 4.1 26.0 + - + +
123K ASP* 2.8 43.2 + - - -
126K LEU* 3.6 33.3 - - + +
109O LEU 2.7 16.9 + - - +
110O CYS* 2.9 10.0 + - - +
112O ILE* 1.3 74.4 - - - +
114O ALA* 1.3 55.7 + - - +
115O LYS* 3.2 8.9 + - - +
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Residues in contact with ALA 114 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113K HIS* 4.0 22.0 - - + +
114K ALA* 4.5 4.3 - - - +
115K LYS* 3.6 22.6 + - - +
110O CYS 3.1 8.9 + - - +
111O ALA 2.9 10.7 + - - +
113O HIS* 1.3 75.0 - - - +
115O LYS* 1.3 63.7 + - - +
116O ARG* 2.9 41.7 + - - +
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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