Contacts of the helix formed by residues 50 - 76 (chain T) 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 ILE 50 (chain T).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104S PHE* 3.6 32.8 - - + -
119S ILE* 3.7 22.4 - - + -
120S MET 3.5 34.5 - - - +
121S PRO* 3.8 3.8 - - + -
124S ILE* 3.8 14.3 - - + +
46T ILE* 3.7 12.6 - - + -
47T SER* 3.5 31.9 - - - +
48T GLY 3.2 1.6 - - - -
49T LEU* 1.3 78.0 - - - +
51T TYR* 1.3 60.2 + - + +
52T GLU 3.4 0.9 - - - -
53T GLU* 3.3 4.5 + - - +
54T THR* 2.7 38.4 + - - +
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Residues in contact with TYR 51 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104S PHE* 5.8 0.2 - + - -
31T LYS* 3.6 52.9 - - + -
34T ILE* 3.6 35.2 - - + +
35T ARG* 3.1 40.3 + - + -
46T ILE* 3.5 32.3 + - + +
47T SER 3.5 14.3 + - - -
48T GLY* 3.8 19.0 + - - +
49T LEU 3.7 0.2 - - - -
50T ILE* 1.3 79.7 - - + +
52T GLU* 1.3 56.9 + - + +
54T THR* 3.4 0.9 + - - -
55T ARG* 2.9 44.1 + - - +
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Residues in contact with GLU 52 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27T GLN* 2.9 22.6 + - - -
48T GLY 5.2 0.8 + - - -
49T LEU* 4.7 6.0 - - - +
50T ILE 3.4 1.2 - - - +
51T TYR* 1.3 74.4 - - + +
53T GLU* 1.3 60.7 + - - +
55T ARG* 2.8 33.1 + - - +
56T GLY* 2.9 23.7 + - - -
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Residues in contact with GLU 53 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121S PRO* 4.7 14.9 - - + +
124S ILE* 3.8 33.0 - - + +
125S GLN* 4.8 15.7 + - - +
128S ARG* 4.9 4.9 - - - -
49T LEU 3.8 14.1 + - - +
50T ILE 3.3 9.6 + - - +
52T GLU* 1.3 80.3 - - - +
54T THR* 1.3 56.3 + - - +
56T GLY* 3.1 3.6 + - - -
57T VAL* 2.9 44.4 + - - +
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Residues in contact with THR 54 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100S LEU* 3.7 28.8 - - + +
103S LEU* 4.4 8.1 - - + -
104S PHE* 3.6 37.0 - - + -
124S ILE* 4.0 8.2 - - - +
34T ILE* 3.7 14.6 - - + -
50T ILE* 2.7 23.5 + - - +
51T TYR 3.7 4.7 - - - -
53T GLU* 1.3 73.8 - - - +
55T ARG* 1.3 60.5 + - - +
57T VAL* 3.4 7.2 + - - +
58T LEU* 2.9 28.6 + - - +
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Residues in contact with ARG 55 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158I C 5.4 1.4 + - - -
26T ILE* 3.4 41.5 + - + +
27T GLN* 4.2 16.3 + - - +
29T ILE* 2.7 34.7 + - + +
30T THR* 3.5 2.0 - - - +
31T LYS* 3.4 26.7 - - - +
34T ILE* 3.5 18.1 - - + +
51T TYR* 2.9 27.0 + - - +
52T GLU* 2.8 50.2 + - - +
53T GLU 3.3 0.2 - - - -
54T THR* 1.3 76.9 - - - +
56T GLY* 1.3 55.8 + - - +
58T LEU* 3.4 9.7 + - + +
59T LYS* 2.9 28.6 + - - +
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Residues in contact with GLY 56 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52T GLU 2.9 15.3 + - - -
53T GLU* 3.1 6.2 + - - -
55T ARG* 1.3 74.3 - - - +
57T VAL* 1.3 59.4 + - - +
59T LYS* 3.2 7.4 + - - +
60T VAL* 2.9 34.2 + - - +
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Residues in contact with VAL 57 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99S TYR* 3.4 32.9 + - + +
100S LEU* 4.5 1.1 - - + -
103S LEU* 3.8 20.0 - - + -
124S ILE* 4.1 12.6 - - + -
128S ARG* 3.7 31.2 - - - +
53T GLU* 2.9 28.1 + - - +
54T THR 3.8 4.7 - - - +
56T GLY* 1.3 75.9 - - - +
58T LEU* 1.3 56.9 + - - +
60T VAL* 3.3 8.5 + - + +
61T PHE* 2.9 27.9 + - - +
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Residues in contact with LEU 58 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62S ILE* 5.1 2.0 - - + -
67S PHE* 3.7 26.2 - - + -
70S LEU* 4.2 4.0 - - + -
96S CYS* 3.7 24.9 - - + -
99S TYR* 5.4 0.4 - - - -
100S LEU* 4.0 23.7 - - + +
26T ILE* 4.1 14.6 - - + -
29T ILE* 4.0 34.5 - - + -
54T THR 2.9 17.8 + - - +
55T ARG* 3.6 7.6 - - + +
57T VAL* 1.3 76.2 - - - +
59T LYS* 1.3 57.7 + - - +
61T PHE* 3.3 6.3 + - + +
62T LEU* 2.9 36.6 + - + +
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Residues in contact with LYS 59 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70S LEU* 5.7 1.6 - - + -
73S GLU* 6.1 1.3 - - - -
74S ILE* 4.2 24.0 - - + +
77S ASP* 5.5 4.8 + - - -
26T ILE* 4.7 22.9 - - + -
55T ARG 2.9 17.1 + - - +
56T GLY* 3.2 8.2 + - - +
58T LEU* 1.3 74.2 - - - +
60T VAL* 1.3 61.7 + - + +
62T LEU* 3.8 5.0 - - - +
63T GLU* 2.8 68.0 + - + +
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Residues in contact with VAL 60 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99S TYR* 6.1 0.7 - - - +
128S ARG* 3.7 28.3 - - - +
134S ARG 3.7 18.4 - - - +
56T GLY 2.9 21.4 + - - +
57T VAL* 3.7 9.0 - - + +
59T LYS* 1.3 77.4 - - + +
61T PHE* 1.3 61.6 + - - +
63T GLU* 3.5 8.3 + - - +
64T ASN* 3.1 34.8 + - - +
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Residues in contact with PHE 61 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92S LEU* 5.2 1.6 - - + -
95S ALA* 4.1 11.9 - - + -
96S CYS* 3.2 48.2 - - + -
99S TYR* 3.7 29.8 - + + -
57T VAL 2.9 17.0 + - - +
58T LEU* 3.6 5.6 - - + +
59T LYS 3.3 0.2 - - - -
60T VAL* 1.3 76.0 - - - +
62T LEU* 1.3 61.2 + - + +
64T ASN* 3.2 8.4 + - + +
65T VAL* 3.0 54.3 + - + +
90T LEU* 3.7 16.8 - - + -
93T GLN* 5.3 4.3 - - + -
95T ARG* 3.6 28.9 - - + -
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Residues in contact with LEU 62 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67S PHE* 3.9 10.3 - - + -
70S LEU* 3.8 31.0 - - + -
71S VAL* 4.6 3.1 - - + -
74S ILE* 3.7 27.2 - - + +
92S LEU* 3.8 22.7 - - + -
96S CYS* 3.1 31.4 - - - -
58T LEU* 2.9 27.5 + - + +
59T LYS* 4.0 0.9 - - - +
61T PHE* 1.3 78.5 - - + +
63T GLU* 1.3 57.7 + - - +
65T VAL* 4.6 0.7 - - + -
66T ILE* 2.9 47.4 + - + +
67T ARG 4.1 0.2 + - - -
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Residues in contact with GLU 63 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74S ILE* 4.4 10.1 - - + -
77S ASP* 5.6 1.9 - - - +
78S PHE* 4.0 22.9 - - + -
59T LYS* 2.8 51.8 + - + +
60T VAL* 4.0 8.9 - - - +
62T LEU* 1.3 76.3 - - - +
64T ASN* 1.3 59.4 + - - +
67T ARG* 2.8 45.4 + - - +
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Residues in contact with ASN 64 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134S ARG 3.7 21.4 + - - +
60T VAL* 3.1 24.9 + - - +
61T PHE* 3.7 7.8 - - + +
62T LEU 3.2 0.4 - - - -
63T GLU* 1.3 80.6 - - - +
65T VAL* 1.3 58.6 + - + +
67T ARG* 3.8 16.6 + - - +
68T ASP* 2.9 18.5 + - - +
93T GLN* 2.8 42.7 + - + +
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Residues in contact with VAL 65 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92S LEU* 3.7 27.4 - - + -
61T PHE* 3.0 48.3 + - + +
62T LEU* 4.2 2.0 - - - +
64T ASN* 1.3 76.5 - - - +
66T ILE* 1.3 63.8 + - - +
67T ARG 3.2 1.3 - - - -
68T ASP 3.1 3.5 + - - -
69T ALA* 2.9 22.9 + - + +
86T VAL* 4.8 3.6 - - + +
89T ALA* 3.3 17.7 - - + +
90T LEU* 3.8 23.1 - - + -
93T GLN* 3.8 19.5 - - + -
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Residues in contact with ILE 66 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71S VAL* 3.9 29.2 - - + -
74S ILE* 4.0 15.9 - - + -
75S ALA* 3.7 28.7 - - + -
78S PHE* 4.6 1.6 - - - -
84S PHE* 4.1 15.5 - - + -
92S LEU* 3.9 20.2 - - + -
62T LEU* 2.9 44.2 + - + +
65T VAL* 1.3 72.7 - - - +
67T ARG* 1.3 57.9 + - - +
69T ALA* 3.3 10.7 + - + +
70T VAL* 2.9 29.5 + - + +
81T VAL* 6.0 0.2 - - + -
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Residues in contact with ARG 67 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78S PHE* 3.5 50.4 - - + -
63T GLU* 2.8 54.4 + - - +
64T ASN* 3.8 20.4 + - - +
65T VAL 3.2 0.6 - - - -
66T ILE* 1.3 78.2 - - - +
68T ASP* 1.3 60.4 + - - +
70T VAL* 3.2 6.1 + - + +
71T THR* 2.7 39.1 + - - +
96V ARG 5.8 3.4 - - - -
101V GLY* 6.2 3.1 - - - -
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Residues in contact with ASP 68 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64T ASN 2.9 8.4 - - - +
65T VAL 3.1 8.5 + - - +
67T ARG* 1.3 88.0 + - - +
69T ALA* 1.3 58.6 + - - +
71T THR* 3.3 8.5 + - - -
72T TYR* 2.9 33.8 + - - -
89T ALA* 3.8 15.5 - - + -
92T ARG* 3.3 20.0 + - + -
93T GLN* 2.7 31.1 + - - +
96V ARG 5.1 1.6 - - - +
97V LEU* 3.6 28.2 - - + +
----------------------------------------------------------
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Residues in contact with ALA 69 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65T VAL* 2.9 13.8 + - + +
66T ILE* 3.5 16.8 - - + +
67T ARG 3.2 0.2 - - - -
68T ASP* 1.3 75.4 - - - +
70T VAL* 1.3 54.3 - - - +
72T TYR* 3.3 3.3 + - - +
73T THR* 2.5 38.5 + - - -
81T VAL* 4.0 19.1 - - + -
85T ASP* 4.0 14.0 - - - +
86T VAL* 4.4 8.5 - - + -
89T ALA* 3.5 13.2 - - + +
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Residues in contact with VAL 70 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75S ALA* 4.3 8.7 - - + +
78S PHE* 4.0 26.9 - - + +
79S LYS* 3.8 15.4 - - + +
82S LEU* 3.7 26.7 - - + -
66T ILE* 2.9 19.8 + - + +
67T ARG* 3.2 10.3 + - + +
69T ALA* 1.3 74.1 - - - +
71T THR* 1.3 58.1 + - - +
73T THR* 3.2 6.1 + - - -
74T GLU* 2.9 52.8 + - - +
81T VAL* 5.0 3.6 - - + -
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Residues in contact with THR 71 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67T ARG* 2.7 21.7 + - - +
68T ASP* 3.5 9.4 + - - -
69T ALA 3.3 0.2 - - - -
70T VAL* 1.3 78.5 - - - +
72T TYR* 1.3 60.9 + - - +
74T GLU* 3.7 2.0 + - - +
75T HIS* 3.7 10.6 + - - +
93V THR* 3.1 40.5 + - - +
96V ARG* 3.4 48.8 + - + +
97V LEU* 3.8 16.1 - - + +
----------------------------------------------------------
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Residues in contact with TYR 72 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68T ASP 2.9 28.1 + - - +
69T ALA* 3.6 5.2 - - - +
70T VAL 3.3 0.2 - - - -
71T THR* 1.3 76.8 - - - +
73T THR* 1.3 62.5 + - - +
74T GLU 3.6 0.3 + - - -
75T HIS* 3.7 3.3 + - - +
76T ALA* 3.6 18.7 + - - +
85T ASP* 3.6 21.8 - - + +
88T TYR* 3.5 46.6 + + + -
89T ALA* 4.1 6.7 - - - -
91T LYS* 2.9 30.1 + - - -
92T ARG* 4.9 4.4 - - + +
73V GLU* 4.2 5.5 + - - -
76V ARG* 5.7 0.7 - - - +
77V LEU* 3.6 30.7 - - + +
80V TYR* 3.8 17.0 - + + -
81V ASN* 4.9 4.7 + - - +
97V LEU* 3.6 27.4 - - + +
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Residues in contact with THR 73 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79S LYS* 5.9 1.3 - - - -
82S LEU* 5.1 3.1 - - + -
69T ALA 2.5 23.2 + - - -
70T VAL* 3.2 4.0 + - - -
72T TYR* 1.3 75.2 - - - +
74T GLU* 1.3 65.3 + - - +
75T HIS 3.3 0.2 - - - -
76T ALA* 3.4 10.9 + - - +
78T ARG* 3.2 44.5 + - - +
79T LYS 4.8 0.7 - - - -
80T THR 3.7 22.0 - - - +
81T VAL* 3.4 27.8 - - + +
85T ASP* 3.0 20.4 + - - +
----------------------------------------------------------
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Residues in contact with GLU 74 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78S PHE 4.5 4.0 - - - +
79S LYS* 3.7 36.0 + - + +
70T VAL* 2.9 35.7 + - - +
71T THR* 4.1 4.8 - - - +
72T TYR 3.4 0.4 - - - -
73T THR* 1.3 77.8 - - - +
75T HIS* 1.3 51.2 + - - +
77T LYS* 3.7 5.9 + - - -
78T ARG 4.9 2.2 - - - +
89V ARG* 2.7 27.1 + - - -
96V ARG* 2.6 41.6 + - - +
----------------------------------------------------------
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Residues in contact with HIS 75 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71T THR 3.7 5.7 + - - +
72T TYR 4.2 4.0 - - - +
73T THR 3.3 0.4 - - - -
74T GLU* 1.3 74.7 - - - +
76T ALA* 1.3 57.5 + - - +
77T LYS* 3.1 8.6 + - - +
77V LEU* 4.1 16.3 - - + +
78V ALA* 4.7 1.1 - - - -
81V ASN* 3.0 26.4 + - + -
83V ARG* 5.1 5.9 - - - -
89V ARG* 2.7 58.2 + - + +
90V GLU* 2.8 49.0 + - + +
93V THR* 3.5 34.2 - - + +
96V ARG* 4.8 2.6 - - - +
----------------------------------------------------------
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Residues in contact with ALA 76 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72T TYR 3.6 9.2 + - - +
73T THR 3.4 5.2 + - - +
74T GLU 3.4 0.6 - - - -
75T HIS* 1.3 77.2 - - - +
77T LYS* 1.3 68.9 + - - +
78T ARG* 3.3 40.4 + - + +
81V ASN* 3.3 31.8 - - + +
----------------------------------------------------------
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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
------------------------------------------------------------
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