Contacts of the helix formed by residues 47 - 76 (chain X) in PDB entry 6L49
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 SER 47 (chain X).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177I C 3.2 18.5 + - - -
118W THR* 3.5 11.9 - - - +
119W ILE 2.6 26.3 + - - -
120W MET* 3.8 16.5 - - - +
121W PRO* 4.9 3.4 - - - -
46X ILE* 1.3 76.9 - - - +
48X GLY* 1.3 64.7 + - - +
49X LEU* 3.4 4.9 - - - -
50X ILE* 3.4 25.6 + - - +
51X TYR* 3.3 15.8 - - - -
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Residues in contact with GLY 48 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177I C 2.7 29.9 + - - -
47X SER* 1.3 76.2 - - - +
49X LEU* 1.3 63.6 + - - +
51X TYR* 3.2 27.9 + - - +
52X GLU* 4.5 6.1 + - - +
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Residues in contact with LEU 49 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177I C 5.7 2.0 - - - +
121W PRO* 3.7 27.1 - - + -
47X SER* 3.4 2.5 - - - -
48X GLY* 1.3 77.2 - - - +
50X ILE* 1.3 59.2 + - - +
51X TYR 3.3 1.1 - - - -
52X GLU* 3.4 11.1 + - + +
53X GLU* 2.9 31.8 + - - +
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Residues in contact with ILE 50 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104W PHE* 3.7 30.7 - - + -
119W ILE* 3.7 14.8 - - + -
120W MET* 3.5 34.5 - - - +
121W PRO* 3.8 4.9 - - + -
124W ILE* 3.8 16.6 - - + -
34X ILE* 5.0 1.8 - - + -
46X ILE* 3.7 16.6 - - + -
47X SER* 3.4 35.7 - - - +
48X GLY 3.2 0.8 - - - -
49X LEU* 1.3 78.7 - - - +
51X TYR* 1.3 54.7 + - - +
53X GLU* 3.9 2.8 - - - +
54X THR* 2.4 40.2 + - - +
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Residues in contact with TYR 51 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177I C 4.6 3.0 - - - -
178I C 3.4 19.1 + - - -
31X LYS* 3.2 57.7 + - + -
34X ILE* 3.5 32.7 - - + +
35X ARG* 3.6 19.7 - - + +
46X ILE* 3.9 15.9 - - + +
47X SER 3.3 19.0 + - - -
48X GLY* 3.2 26.7 - - - +
49X LEU 3.3 0.2 - - - -
50X ILE* 1.3 77.4 - - - +
52X GLU* 1.3 57.2 + - + +
54X THR 3.4 0.2 + - - -
55X ARG* 2.9 52.6 + - - +
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Residues in contact with GLU 52 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27X GLN* 4.5 10.5 + - - -
48X GLY 4.8 8.1 - - - +
49X LEU* 3.4 13.6 + - + +
50X ILE 3.4 0.2 - - - -
51X TYR* 1.3 73.8 - - + +
53X GLU* 1.3 60.6 - - - +
55X ARG* 3.0 34.1 + - - +
56X GLY* 2.9 24.6 + - - -
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Residues in contact with GLU 53 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121W PRO* 4.3 19.7 - - + +
124W ILE* 3.8 35.5 - - + +
125W GLN* 5.1 12.5 + - - +
134W ARG* 3.8 21.0 + - - -
49X LEU* 2.9 19.5 + - - +
50X ILE* 3.9 3.8 - - - +
52X GLU* 1.3 76.5 - - - +
54X THR* 1.3 58.3 + - - +
56X GLY* 3.3 1.7 + - - -
57X VAL* 2.9 39.9 + - + +
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Residues in contact with THR 54 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100W LEU* 3.8 33.4 - - + -
103W LEU* 6.4 1.1 - - + -
104W PHE* 3.5 31.8 - - + -
124W ILE* 5.1 3.6 - - - +
29X ILE* 6.3 0.9 - - + -
34X ILE* 3.7 17.7 - - + +
37X LEU* 5.0 1.1 - - + -
50X ILE* 2.4 28.9 + - - +
51X TYR 3.8 3.6 - - - -
53X GLU* 1.3 72.9 - - - +
55X ARG* 1.3 62.0 + - - +
57X VAL* 4.0 4.6 - - - +
58X LEU* 2.9 33.7 + - + +
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Residues in contact with ARG 55 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26X ILE* 3.4 39.0 + - + +
27X GLN* 4.5 18.4 + - - +
29X ILE* 2.7 34.2 + - + +
30X THR* 3.5 3.2 - - - +
31X LYS* 3.4 26.9 - - - +
34X ILE* 3.6 13.5 - - + +
51X TYR* 2.9 40.2 + - - +
52X GLU* 3.0 38.7 + - - +
53X GLU 3.3 0.2 - - - -
54X THR* 1.3 76.6 - - - +
56X GLY* 1.3 55.8 + - - +
58X LEU* 3.7 5.5 - - - +
59X LYS* 2.9 30.3 + - - +
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Residues in contact with GLY 56 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52X GLU 2.9 15.5 + - - -
53X GLU* 3.8 2.7 - - - -
55X ARG* 1.3 74.8 - - - +
57X VAL* 1.3 59.4 + - - +
59X LYS* 3.3 6.8 + - - +
60X VAL* 3.0 36.7 + - - +
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Residues in contact with VAL 57 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99W TYR* 3.6 23.6 - - + +
100W LEU* 4.5 5.2 - - + -
103W LEU* 3.7 19.3 - - + -
124W ILE* 5.0 2.9 - - + -
128W ARG* 3.6 41.3 - - - +
134W ARG* 4.9 1.6 - - - +
53X GLU* 2.9 35.7 + - + +
54X THR* 4.1 4.7 - - - +
56X GLY* 1.3 72.2 - - - +
58X LEU* 1.3 61.0 + - - +
60X VAL* 3.3 7.8 - - - +
61X PHE* 2.9 29.2 + - - +
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Residues in contact with LEU 58 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62W ILE* 5.1 3.6 - - + -
67W PHE* 3.8 14.8 - - + -
70W LEU* 4.5 5.6 - - + -
96W CYS* 4.4 13.0 - - + -
99W TYR* 6.0 0.7 - - - -
100W LEU* 4.5 22.8 - - + +
26X ILE* 5.5 0.9 - - + -
29X ILE* 3.7 46.4 - - + -
54X THR* 2.9 20.6 + - + +
55X ARG* 3.7 6.1 - - - +
57X VAL* 1.3 77.4 - - - +
59X LYS* 1.3 56.9 + - - +
61X PHE* 4.0 5.1 - - + +
62X LEU* 2.9 57.5 + - + +
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Residues in contact with LYS 59 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70W LEU* 4.9 7.6 - - - +
73W GLU* 5.1 9.3 + - - -
74W ILE* 4.1 26.6 - - + +
77W ASP* 4.7 8.9 + - - -
26X ILE* 4.0 27.8 - - + +
55X ARG 2.9 19.1 + - - +
56X GLY* 3.3 8.5 + - - +
58X LEU* 1.3 78.2 - - - +
60X VAL* 1.3 60.2 + - + +
62X LEU* 3.8 1.6 - - - +
63X GLU* 2.9 54.8 + - - +
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Residues in contact with VAL 60 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128W ARG* 4.7 17.7 - - - +
134W ARG* 6.3 0.4 - - - +
56X GLY* 3.0 17.6 + - - +
57X VAL* 3.3 16.8 - - - +
59X LYS* 1.3 80.3 - - + +
61X PHE* 1.3 61.1 + - + +
63X GLU* 3.4 16.9 + - - +
64X ASN* 3.0 41.3 + - - +
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Residues in contact with PHE 61 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95W ALA* 4.6 4.0 - - + -
96W CYS* 3.1 48.2 - - + -
99W TYR* 3.9 44.0 - + + -
128W ARG* 6.2 0.4 - - - +
57X VAL 2.9 18.8 + - - +
58X LEU* 4.0 5.8 - - + +
60X VAL* 1.3 75.4 - - + +
62X LEU* 1.3 58.9 + - - +
64X ASN* 3.3 9.8 + - + +
65X VAL* 3.0 52.3 + - + +
90X LEU* 4.7 14.4 - - + -
93X GLN* 5.6 9.6 - - + -
95X ARG* 4.7 14.4 - - + -
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Residues in contact with LEU 62 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67W PHE* 3.7 24.2 - - + -
70W LEU* 3.9 22.2 - - + -
71W VAL* 4.0 19.7 - - + -
74W ILE* 3.7 20.2 - - + -
92W LEU* 3.8 22.2 - - + -
96W CYS* 3.4 25.8 - - - -
58X LEU* 2.9 31.8 + - + +
61X PHE* 1.3 76.5 - - + +
63X GLU* 1.3 57.1 + - - +
65X VAL* 4.6 1.6 - - - +
66X ILE* 2.9 39.2 + - + +
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Residues in contact with GLU 63 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74W ILE* 3.8 23.7 - - + +
77W ASP* 5.0 7.2 - - + +
78W PHE* 3.2 18.4 - - + -
59X LYS* 2.9 45.2 + - - +
60X VAL* 3.5 22.7 - - - +
61X PHE 3.2 0.2 - - - -
62X LEU* 1.3 76.0 - - - +
64X ASN* 1.3 58.2 + - - +
67X ARG* 2.9 44.0 + - - +
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Residues in contact with ASN 64 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60X VAL* 3.0 29.6 + - - +
61X PHE* 3.3 9.9 + - + +
63X GLU* 1.3 77.6 - - - +
65X VAL* 1.3 58.5 + - + +
67X ARG* 3.2 23.5 + - - +
68X ASP* 3.0 36.9 + - - +
93X GLN* 4.2 19.5 - - - +
----------------------------------------------------------
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Residues in contact with VAL 65 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92W LEU* 3.7 26.7 - - + -
61X PHE* 3.0 48.1 + - + +
62X LEU* 4.4 1.1 - - - +
64X ASN* 1.3 77.1 - - + +
66X ILE* 1.3 57.9 + - - +
68X ASP* 3.4 7.5 + - - +
69X ALA* 2.9 27.6 + - + +
86X VAL* 4.6 11.0 - - + -
89X ALA* 3.9 17.2 - - + +
90X LEU* 4.7 13.5 - - + -
93X GLN* 4.7 14.8 - - + -
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Residues in contact with ILE 66 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71W VAL* 3.7 44.0 - - + +
74W ILE* 3.7 20.9 - - + -
75W ALA* 3.8 19.3 - - + -
78W PHE* 3.7 19.7 - - + -
84W PHE* 5.7 2.0 - - + -
92W LEU* 4.3 18.8 - - + -
62X LEU* 2.9 29.6 + - + +
65X VAL* 1.3 74.5 - - - +
67X ARG* 1.3 60.6 + - - +
69X ALA* 3.2 7.1 + - + +
70X VAL* 2.8 36.1 + - + +
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Residues in contact with ARG 67 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78W PHE* 3.5 46.8 - - + -
63X GLU* 2.9 29.9 + - - +
64X ASN* 3.2 31.9 + - - +
66X ILE* 1.3 76.3 - - - +
68X ASP* 1.3 57.3 + - - +
70X VAL* 3.3 6.1 + - + +
71X THR* 2.6 41.6 + - - +
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Residues in contact with ASP 68 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64X ASN* 3.0 17.7 + - - +
65X VAL* 3.6 4.7 - - - +
66X ILE 3.3 0.2 - - - -
67X ARG* 1.3 83.9 + - - +
69X ALA* 1.3 56.5 + - - +
71X THR* 3.3 6.6 + - - -
72X TYR* 2.9 36.8 + - + -
89X ALA* 3.7 16.8 - - + +
92X ARG* 2.5 41.1 + - - -
93X GLN* 3.5 14.6 + - - +
97Z LEU* 4.0 15.8 - - + +
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Residues in contact with ALA 69 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92W LEU* 6.4 0.9 - - + -
65X VAL* 2.9 18.8 + - + +
66X ILE* 3.2 9.2 + - + +
68X ASP* 1.3 73.4 - - - +
70X VAL* 1.3 56.9 + - + +
72X TYR 3.4 0.3 + - - -
73X THR* 2.5 38.8 + - - -
81X VAL* 4.3 12.3 - - + -
85X ASP* 3.6 32.2 - - + +
86X VAL* 4.4 11.4 - - + +
89X ALA* 4.3 0.4 - - - +
----------------------------------------------------------
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Residues in contact with VAL 70 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75W ALA* 5.0 3.1 - - + -
78W PHE* 4.6 15.9 - - + -
79W LYS* 4.0 31.9 - - + -
82W LEU* 3.8 22.2 - - + -
84W PHE* 6.2 0.7 - - + -
66X ILE* 2.8 30.0 + - + +
67X ARG* 3.7 7.4 - - + +
69X ALA* 1.3 75.8 - - + +
71X THR* 1.3 60.4 + - - +
73X THR* 3.3 6.4 + - - -
74X GLU* 2.9 33.0 + - + +
81X VAL* 5.0 4.0 - - + -
----------------------------------------------------------
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Residues in contact with THR 71 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67X ARG* 2.6 29.0 + - - +
68X ASP* 3.6 6.8 + - - -
70X VAL* 1.3 77.4 - - - +
72X TYR* 1.3 57.4 + - - +
74X GLU* 3.4 4.6 + - + +
75X HIS* 3.0 29.1 + - - +
93Z THR* 3.5 21.7 + - - +
96Z ARG* 4.8 15.0 - - + -
97Z LEU* 3.8 25.1 - - + +
----------------------------------------------------------
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Residues in contact with TYR 72 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68X ASP* 2.9 27.3 + - + +
69X ALA 3.7 3.8 - - - +
71X THR* 1.3 77.0 - - - +
73X THR* 1.3 61.5 + - - +
75X HIS* 3.6 4.0 + - - +
76X ALA* 3.3 22.3 + - - +
85X ASP* 3.5 37.9 - - + +
88X TYR* 3.4 28.9 + + + +
89X ALA* 3.4 26.9 - - + -
92X ARG* 3.6 20.9 - - - +
73Z GLU* 4.3 10.1 + - - -
77Z LEU* 3.6 32.5 - - + -
80Z TYR* 5.5 4.7 - + - -
81Z ASN* 5.7 0.5 + - - -
97Z LEU* 3.6 20.2 - - + +
----------------------------------------------------------
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Residues in contact with THR 73 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82W LEU* 5.2 0.7 - - + -
69X ALA 2.5 24.0 + - - -
70X VAL* 3.8 5.2 - - - -
72X TYR* 1.3 77.3 - - - +
74X GLU* 1.3 65.5 + - - +
76X ALA* 3.2 7.3 + - - +
78X ARG* 3.2 68.6 + - + +
79X LYS 4.8 0.7 - - - -
80X THR 3.6 12.8 - - - +
81X VAL* 3.5 23.5 - - + +
85X ASP* 2.5 16.0 + - - +
----------------------------------------------------------
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Residues in contact with GLU 74 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79W LYS* 3.3 40.2 - - + +
82W LEU* 4.4 5.4 - - - +
70X VAL* 2.9 24.6 + - + +
71X THR* 4.0 5.4 - - + +
73X THR* 1.3 76.5 - - - +
75X HIS* 1.3 54.2 + - - +
77X LYS* 3.6 6.9 + - - +
78X ARG 3.2 22.1 + - - +
79X LYS* 6.0 0.9 - - - +
89Z ARG* 2.5 29.3 + - - -
----------------------------------------------------------
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Residues in contact with HIS 75 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71X THR 3.0 17.4 + - - +
72X TYR* 4.0 7.2 - - - +
73X THR 3.3 0.2 - - - -
74X GLU* 1.3 78.4 - - - +
76X ALA* 1.3 56.9 + - - +
77X LYS* 3.2 1.6 - - - +
77Z LEU* 3.4 33.6 - - + +
81Z ASN* 2.9 42.8 + - - +
89Z ARG* 2.6 47.1 + - + +
90Z GLU* 3.5 34.2 + - + +
93Z THR* 3.5 29.9 - - + +
----------------------------------------------------------
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Residues in contact with ALA 76 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72X TYR 3.3 16.6 + - - +
73X THR 3.2 4.0 + - - +
75X HIS* 1.3 75.0 - - - +
77X LYS* 1.3 71.3 + - - +
78X ARG* 3.3 36.7 + - - +
81Z ASN* 3.3 17.3 - - - +
----------------------------------------------------------
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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