Contacts of the helix formed by residues 85 - 114 (chain N) in PDB entry 5C3I
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 N).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84N PHE* 1.3 76.7 - - - +
86N SER* 1.3 65.4 + - - +
87N SER* 3.6 14.4 + - - +
88N ALA* 3.0 22.4 + - + +
89N VAL* 3.3 10.0 + - - +
80O THR* 4.2 11.4 - - + -
81O VAL 3.1 26.0 + - - +
82O THR* 3.4 8.1 - - - -
83O ALA* 3.3 22.0 + - - +
95P LEU* 3.9 0.9 - - - -
96P ALA* 4.6 9.6 - - + -
100P GLU 4.8 3.0 + - - -
102P VAL* 3.2 28.7 - - - +
79X ARG* 5.3 10.6 + - - +
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Residues in contact with SER 86 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85N GLN* 1.3 70.9 - - - +
87N SER* 1.3 68.6 + - - +
88N ALA 3.2 0.3 + - - -
89N VAL* 3.3 5.7 + - - +
90N MET* 3.1 27.4 + - - +
90P TYR* 4.8 5.1 - - - -
95P LEU* 3.8 18.3 - - - +
96P ALA* 5.4 1.2 - - - +
84X ILE* 3.7 18.3 - - - +
86X GLU* 3.3 41.7 + - - -
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Residues in contact with SER 87 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85N GLN* 3.6 19.8 + - - +
86N SER* 1.3 83.0 + - - +
88N ALA* 1.3 58.3 + - - +
90N MET* 4.1 8.8 - - - +
91N ALA* 3.1 27.1 + - - +
83O ALA* 3.7 17.6 - - - +
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Residues in contact with ALA 88 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84N PHE* 4.5 4.9 - - + -
85N GLN* 3.0 21.8 + - + +
87N SER* 1.3 79.0 + - - +
89N VAL* 1.3 65.8 + - - +
91N ALA* 3.3 7.9 + - - +
92N LEU* 3.1 27.5 + - - +
81O VAL* 4.1 14.1 - - + +
82O THR 3.6 26.2 - - - +
83O ALA* 4.3 5.2 - - - +
86O VAL* 3.8 5.6 - - + +
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Residues in contact with VAL 89 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67N PHE* 3.5 9.4 - - + -
68N GLN* 4.2 15.7 - - + -
71N VAL* 4.0 25.1 - - + -
84N PHE* 3.6 27.4 - - + -
85N GLN 3.3 13.6 + - - +
86N SER 3.3 4.2 + - - +
88N ALA* 1.3 75.0 - - - +
90N MET* 1.3 57.2 + - - +
92N LEU* 3.2 11.9 + - - +
93N GLN* 3.0 22.7 + - - +
90P TYR* 3.6 26.5 - - + -
95P LEU* 3.9 13.5 - - + -
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Residues in contact with MET 90 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64N LYS* 3.4 33.7 - - - +
86N SER 3.1 16.8 + - - +
87N SER* 4.1 8.1 - - - +
89N VAL* 1.3 74.7 - - - +
91N ALA* 1.3 60.3 + - - +
93N GLN* 3.1 8.0 + - + +
94N GLU* 2.9 59.3 + - + +
90P TYR* 3.3 24.1 + - + +
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Residues in contact with ALA 91 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87N SER 3.1 21.0 + - - +
88N ALA* 3.3 8.5 + - - +
90N MET* 1.3 76.3 - - - +
92N LEU* 1.3 57.8 + - - +
94N GLU* 4.1 9.3 - - - +
95N ALA* 3.1 27.7 + - - +
83O ALA* 4.9 7.0 - - + +
86O VAL* 3.9 20.3 - - + +
87O VAL* 5.3 7.0 - - + -
90O LEU* 4.5 3.7 - - + +
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Residues in contact with LEU 92 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67N PHE* 3.6 11.7 - - + -
71N VAL* 4.2 24.5 - - + -
84N PHE* 4.5 10.5 - - + -
88N ALA 3.1 19.8 + - - +
89N VAL* 3.4 11.4 - - - +
91N ALA* 1.3 75.4 - - - +
93N GLN* 1.3 58.2 + - - +
95N ALA* 3.5 5.4 + - + +
96N CYS* 2.9 36.1 + - - -
62O LEU* 3.9 19.7 - - + -
65O VAL* 3.8 30.3 - - + -
66O ILE* 4.1 14.1 - - + +
69O ALA* 5.9 0.7 - - + -
86O VAL* 3.9 19.1 - - + -
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Residues in contact with GLN 93 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62N ILE* 3.0 29.7 + - + -
64N LYS* 3.6 22.3 - - - +
67N PHE* 3.3 44.7 - - + -
89N VAL 3.0 8.3 + - - +
90N MET* 3.1 12.3 + - + +
92N LEU* 1.3 74.1 - - - +
94N GLU* 1.3 56.0 + - + +
96N CYS* 3.1 2.9 + - - +
97N GLU* 2.7 58.9 + - + +
90P TYR* 2.7 30.2 + - - +
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Residues in contact with GLU 94 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90N MET* 2.9 48.3 + - + +
91N ALA* 4.1 7.1 - - - +
93N GLN* 1.3 76.7 - - + +
95N ALA* 1.3 57.6 + - - +
97N GLU* 4.1 10.7 - - - +
98N ALA* 2.9 33.1 + - - +
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Residues in contact with ALA 95 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91N ALA 3.1 20.5 + - - +
92N LEU* 3.5 9.9 - - + +
94N GLU* 1.3 76.9 - - - +
96N CYS* 1.3 57.3 + - - +
98N ALA* 4.0 2.6 - - - +
99N TYR* 3.0 31.2 + - - +
61O PHE* 3.9 8.7 - - + -
86O VAL* 5.5 0.2 - - + -
90O LEU* 3.7 36.3 - - + -
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Residues in contact with CYS 96 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62N ILE* 5.1 3.6 - - + -
67N PHE* 4.1 12.8 - - + -
92N LEU* 2.9 26.8 + - - +
93N GLN 3.6 3.1 - - - +
95N ALA* 1.3 76.9 - - - +
97N GLU* 1.3 59.0 + - - +
99N TYR* 3.7 1.0 - - - +
100N LEU* 3.1 36.2 + - - +
58O LEU* 3.6 16.2 - - + -
61O PHE* 3.5 31.0 - - - -
62O LEU* 3.6 32.5 - - - -
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Residues in contact with GLU 97 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61N LEU* 3.4 38.8 + - + +
62N ILE* 3.3 34.7 + - + +
93N GLN* 2.7 56.5 + - - +
94N GLU* 4.1 9.9 - - - +
96N CYS* 1.3 72.4 - - - +
98N ALA* 1.3 58.1 + - - +
100N LEU* 3.4 0.7 + - - -
101N VAL* 2.8 36.6 + - - +
37O LEU* 4.0 6.4 - - + +
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Residues in contact with ALA 98 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94N GLU 2.9 18.8 + - - +
95N ALA* 4.1 2.7 - - - +
97N GLU* 1.3 73.5 - - - +
99N TYR* 1.3 66.3 + - - +
101N VAL* 4.1 5.5 - - - +
102N GLY* 3.1 20.8 + - - -
131N ARG* 5.2 1.0 + - - -
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Residues in contact with TYR 99 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95N ALA 3.0 19.6 + - - +
96N CYS 3.7 3.4 - - - +
98N ALA* 1.3 77.1 - - - +
100N LEU* 1.3 75.2 - - + +
102N GLY* 3.9 0.5 - - - -
103N LEU* 3.0 40.7 + - + +
128N ARG* 4.2 1.4 - - - +
131N ARG* 4.2 23.3 + - - +
133N GLU* 2.8 39.1 + - - -
57O VAL* 3.7 29.4 - - + +
58O LEU* 5.1 0.4 - - + -
61O PHE* 3.9 51.2 - + + +
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Residues in contact with LEU 100 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62N ILE* 4.9 1.8 - - + -
96N CYS 3.1 16.3 + - - +
97N GLU 4.0 2.2 - - - +
99N TYR* 1.3 95.1 - - + +
101N VAL* 1.3 59.2 + - - +
103N LEU* 3.1 18.9 + - + +
104N PHE* 2.8 41.3 + - + -
29O ILE* 4.2 5.4 - - + -
37O LEU* 3.8 31.4 - - + -
54O THR* 4.2 19.1 - - + +
57O VAL* 4.8 7.6 - - + -
58O LEU* 3.8 38.6 - - + -
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Residues in contact with VAL 101 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69I ARG* 6.1 2.7 - - - -
61N LEU* 4.0 17.0 - - + -
97N GLU 2.8 25.2 + - - +
98N ALA* 4.1 5.2 - - - +
100N LEU* 1.3 71.7 - - - +
102N GLY* 1.3 66.1 + - - +
104N PHE* 3.3 1.6 + - - -
105N GLU* 3.1 29.7 + - - +
37O LEU* 3.8 32.1 - - + +
40O ARG* 4.0 34.1 - - + +
41O GLY* 3.8 3.2 - - - -
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Residues in contact with GLY 102 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98N ALA 3.1 16.0 + - - -
99N TYR 4.0 0.9 - - - -
101N VAL* 1.3 78.0 - - - +
103N LEU* 1.3 56.8 + - - +
105N GLU* 3.2 19.1 - - - +
106N ASP 3.1 20.3 + - - -
131N ARG* 3.7 11.6 + - - -
98O TYR* 3.1 21.1 + - - -
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Residues in contact with LEU 103 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99N TYR* 3.0 43.5 + - + +
100N LEU* 3.1 23.3 + - + +
102N GLY* 1.3 77.2 - - - +
104N PHE* 1.3 53.0 + - + +
106N ASP* 3.4 5.2 + - - +
107N THR* 2.6 36.2 + - - +
124N ILE* 4.6 12.1 - - + -
127N ALA* 3.8 25.8 - - + +
128N ARG* 4.1 13.2 - - + -
131N ARG* 3.8 30.9 - - - +
57O VAL* 4.3 10.8 - - + -
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Residues in contact with PHE 104 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100N LEU* 2.8 28.4 + - + +
101N VAL 3.8 4.0 - - - +
103N LEU* 1.3 74.2 - - + +
105N GLU* 1.3 56.6 + - - +
107N THR* 3.5 8.0 - - - -
108N ASN* 2.8 35.2 + - - +
119N ILE* 4.1 28.3 - - + -
124N ILE* 4.4 10.3 - - + -
34O ILE* 4.2 12.8 - - + -
37O LEU* 3.8 17.0 - - + +
38O ALA* 3.7 40.2 - - + -
41O GLY* 4.2 7.9 - - - -
43O VAL* 3.7 4.6 - - + +
50O ILE* 4.2 8.3 - - + -
54O THR* 3.4 41.5 - - + -
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Residues in contact with GLU 105 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69I ARG* 3.2 42.3 + - - -
71I MET* 4.3 9.6 - - + +
145M ARG* 4.7 2.9 + - - +
101N VAL* 3.1 22.6 + - - +
102N GLY* 3.2 15.5 + - - +
104N PHE* 1.3 74.8 - - - +
106N ASP* 1.3 64.4 + - - +
108N ASN* 3.5 3.1 + - - +
109N LEU* 3.1 23.7 + - - +
40O ARG 4.5 2.8 - - - +
41O GLY* 3.2 28.2 + - - +
98O TYR* 3.3 28.6 + - + +
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Residues in contact with ASP 106 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112M TYR* 3.3 21.7 + - - +
145M ARG* 2.7 41.6 + - - +
102N GLY 3.1 6.9 + - - +
103N LEU 3.5 9.4 - - - +
104N PHE 3.3 0.2 - - - -
105N GLU* 1.3 74.8 - - - +
107N THR* 1.3 58.4 + - - +
109N LEU* 3.3 3.2 + - - +
110N CYS* 2.9 29.6 + - - +
127N ALA* 3.6 6.9 - - + +
130N ILE* 4.0 6.4 - - - +
131N ARG* 2.8 43.4 + - - +
98O TYR* 3.7 5.2 - - - -
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Residues in contact with THR 107 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103N LEU* 2.6 23.2 + - - +
104N PHE* 3.5 14.6 - - + -
106N ASP* 1.3 73.7 - - - +
108N ASN* 1.3 64.8 + - - +
110N CYS* 3.4 7.6 + - - +
111N ALA* 3.2 17.7 + - - +
119N ILE* 3.5 33.2 - - + +
120N MET 4.5 0.4 - - - +
123N ASP* 3.5 29.4 - - + +
124N ILE* 3.9 22.0 - - + +
127N ALA* 4.0 7.6 - - - +
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Residues in contact with ASN 108 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10I VAL* 5.6 6.7 - - - +
25I GLU* 3.7 19.4 + - - +
104N PHE 2.8 20.4 + - - +
105N GLU 3.7 5.5 + - - +
107N THR* 1.3 71.5 - - - +
109N LEU* 1.3 63.6 + - - +
111N ALA* 3.3 4.9 + - - +
112N ILE* 3.2 26.1 + - - +
117N VAL 5.3 3.8 - - - +
119N ILE* 4.0 11.6 - - - +
41O GLY 4.4 4.2 + - - +
42O GLY* 3.4 29.4 + - - +
43O VAL* 3.8 17.4 - - + +
44O LYS* 4.5 3.3 + - - +
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Residues in contact with LEU 109 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8I ASN* 3.8 8.3 - - - +
10I VAL* 3.6 29.6 - - + -
112M TYR* 4.1 10.8 - - + -
140M LEU* 3.6 18.8 - - + -
143M ASN* 3.4 34.8 - - + +
145M ARG* 3.3 26.9 - - - +
105N GLU 3.1 16.0 + - - +
106N ASP 3.6 3.6 - - - +
108N ASN* 1.3 78.3 - - - +
110N CYS* 1.3 60.0 + - - +
112N ILE* 3.2 11.5 - - + +
113N HIS* 3.0 30.1 + - - +
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Residues in contact with CYS 110 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92M VAL* 3.6 27.7 - - - +
112M TYR* 3.5 36.1 - - + +
106N ASP 2.9 17.4 + - - +
107N THR* 3.4 8.5 - - - +
108N ASN 3.2 0.2 - - - -
109N LEU* 1.3 78.1 - - - +
111N ALA* 1.3 61.3 + - - +
113N HIS* 3.6 1.9 + - - -
114N ALA 3.3 14.2 + - - -
123N ASP* 3.3 28.5 - - + +
126N LEU* 3.8 13.5 - - - -
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Residues in contact with ALA 111 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107N THR 3.2 2.7 + - - +
108N ASN 3.7 7.9 - - - +
109N LEU 3.3 0.2 - - - -
110N CYS* 1.3 80.8 - - - +
112N ILE* 1.3 56.6 + - - +
114N ALA* 3.0 15.1 + - - +
115N LYS 3.2 0.2 + - - -
116N ARG* 3.0 58.4 + - - +
117N VAL 4.7 2.7 - - - +
118N THR 4.1 5.8 - - - +
119N ILE* 3.8 24.7 - - + -
123N ASP* 3.9 1.5 + - - +
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Residues in contact with ILE 112 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10I VAL* 3.7 22.4 - - + -
11I VAL 3.9 15.3 - - - +
12I LEU* 3.4 45.1 - - + +
108N ASN* 3.2 17.1 + - - +
109N LEU* 3.2 25.1 - - + +
111N ALA* 1.3 76.2 - - - +
113N HIS* 1.3 60.5 + - - +
115N LYS* 2.9 27.4 + - - +
116N ARG 3.5 13.6 + - - +
117N VAL* 6.2 3.1 - - + -
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Residues in contact with HIS 113 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92M VAL* 3.7 12.1 - - + -
112M TYR* 3.4 12.0 + - + -
113M VAL 3.6 10.3 - - - -
114M ASN* 3.1 60.7 + - + +
138M ASN* 3.1 33.3 + - - -
140M LEU* 3.5 41.0 - - + +
109N LEU 3.0 19.0 + - - +
110N CYS* 3.7 7.2 - - - +
111N ALA 3.3 0.2 - - - -
112N ILE* 1.3 78.4 - - + +
114N ALA* 1.3 57.9 + - - +
115N LYS* 3.2 9.8 + - - +
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Residues in contact with ALA 114 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91M GLY* 4.9 3.5 - - - -
92M VAL* 3.7 28.2 - - + +
114M ASN* 3.8 12.2 + - - +
110N CYS 3.3 2.3 + - - +
111N ALA 3.0 11.7 + - - +
113N HIS* 1.3 78.0 - - - +
115N LYS* 1.3 70.4 + - - +
116N ARG* 3.7 27.7 - - - +
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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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