Contacts of the helix formed by residues 70 - 96 (chain N) in PDB entry 1Q90
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 70 (chain N).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A ALA 3.6 15.5 - - - +
39A VAL* 4.5 6.1 - - + -
40A LEU* 4.1 30.1 - - + +
68N GLY 4.0 1.3 - - - +
69N GLU* 1.3 95.6 - - + +
71N ALA* 1.3 65.3 + - - +
72N ILE* 4.1 10.5 - - + -
73N VAL* 3.4 25.2 - - + +
74N GLN* 3.3 16.8 + - - +
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Residues in contact with ALA 71 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2L LEU* 3.6 27.4 - - + -
70N PRO* 1.3 69.3 - - - +
72N ILE* 1.3 69.5 + - - +
73N VAL 3.0 1.6 - - - -
74N GLN* 2.8 3.2 + - - -
75N ILE* 2.7 36.6 + - + +
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Residues in contact with ILE 72 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 4.4 18.2 - - + -
249A PRO* 4.2 16.6 - - + +
252A ILE* 3.6 33.6 - - + +
253A GLN* 4.4 17.7 - - + -
256A LEU* 4.4 11.4 - - + -
70N PRO* 4.1 13.5 - - + -
71N ALA* 1.3 77.2 - - - +
73N VAL* 1.3 74.2 + - + +
75N ILE* 3.2 13.2 + - + +
76N GLY* 2.7 32.7 + - - -
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Residues in contact with VAL 73 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A GLN* 4.4 8.3 - - - +
38A ALA* 4.2 5.4 - - + -
247A GLN* 3.9 22.2 - - + -
252A ILE* 3.5 21.3 - - + -
57D LEU* 4.3 2.6 - - + +
69N GLU* 3.9 20.4 - - + -
70N PRO* 3.4 30.3 - - + +
71N ALA 3.0 0.2 - - - -
72N ILE* 1.3 85.6 - - + +
74N GLN* 1.3 57.7 + - + +
76N GLY* 3.1 2.4 + - - -
77N TRP* 2.9 53.7 + - + +
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Residues in contact with GLN 74 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1L MET 4.7 4.2 - - - +
2L LEU* 3.3 32.8 - - + +
3L THR* 3.1 36.9 - - + +
6L SER* 5.2 0.2 - - - -
951L LMG 3.6 24.7 + - - +
68N GLY* 5.8 1.2 - - - -
69N GLU* 3.4 34.9 + - + +
70N PRO 3.3 8.3 + - - +
71N ALA* 2.8 9.0 + - - +
73N VAL* 1.3 71.9 - - - +
75N ILE* 1.3 66.6 + - - +
77N TRP* 3.3 3.0 + - - +
78N ALA* 2.9 23.2 + - - +
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Residues in contact with ILE 75 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A LEU* 4.4 20.4 - - + -
2L LEU* 4.7 8.5 - - + -
6L SER* 4.1 17.0 - - - +
10L LEU* 4.4 17.7 - - + -
71N ALA* 2.7 32.8 + - + +
72N ILE* 3.5 14.4 - - + +
74N GLN* 1.3 71.4 - - - +
76N GLY* 1.3 54.6 + - - +
78N ALA* 3.0 7.5 + - - +
79N ALA* 2.7 33.1 + - - +
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Residues in contact with GLY 76 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252A ILE* 3.7 19.9 - - - +
255A LEU* 4.9 2.4 - - - +
256A LEU* 4.9 2.5 - - - -
259A PHE* 4.6 0.5 - - - -
57D LEU* 3.4 11.0 - - - -
72N ILE 2.7 15.4 + - - -
73N VAL 3.1 4.2 + - - -
75N ILE* 1.3 77.8 - - - +
77N TRP* 1.3 63.1 + - - +
79N ALA* 3.2 7.5 + - - +
80N THR* 3.0 25.1 + - - -
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Residues in contact with TRP 77 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A GLN* 3.3 34.5 + - - -
54D LEU* 4.2 9.9 - - + -
57D LEU* 3.2 46.5 - - + +
58D ASP* 4.1 9.6 - - + -
5G LEU* 3.5 32.8 - - + -
3L THR* 5.5 0.4 - - - -
951L LMG 3.5 78.9 - - + +
73N VAL* 2.9 40.3 + - + +
74N GLN 3.3 5.8 + - - +
76N GLY* 1.3 73.0 - - - +
78N ALA* 1.3 53.7 + - - +
80N THR* 3.0 7.8 + - + -
81N CYS* 2.8 38.3 + - - -
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Residues in contact with ALA 78 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3L THR* 3.8 10.4 - - - +
6L SER* 3.6 28.3 - - - +
7L TYR* 3.6 16.3 - - - +
10L LEU* 4.3 1.6 - - + -
951L LMG 5.3 2.7 - - - -
74N GLN 2.9 13.4 + - - +
75N ILE 3.3 7.9 - - - +
77N TRP* 1.3 75.9 - - - +
79N ALA* 1.3 64.5 + - - +
81N CYS* 2.8 11.8 + - - +
82N VAL* 2.8 26.9 + - - +
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Residues in contact with ALA 79 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A LEU* 3.3 34.5 - - + -
259A PHE* 3.6 13.1 - - + -
10L LEU* 3.8 17.4 - - + +
75N ILE 2.7 14.2 + - - +
76N GLY 3.4 8.5 - - - +
78N ALA* 1.3 69.7 - - - +
80N THR* 1.3 59.4 + - - +
82N VAL* 2.8 22.4 + - - +
83N MET* 2.9 15.1 + - - +
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Residues in contact with THR 80 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A LEU* 4.1 1.2 - - - +
259A PHE* 3.5 22.7 - - + -
50D CYS* 4.3 13.0 - - - +
53D GLY* 3.7 22.0 - - - -
54D LEU* 4.3 5.8 - - - +
57D LEU* 3.7 13.7 - - + +
951L LMG 4.3 21.8 - - + -
76N GLY 3.0 11.8 + - - -
77N TRP* 3.3 11.0 - - + -
79N ALA* 1.3 78.0 - - - +
81N CYS* 1.3 64.7 + - - +
82N VAL 3.0 0.7 + - - -
83N MET* 3.1 12.0 + - - +
84N PHE* 3.1 12.6 + - - +
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Residues in contact with CYS 81 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7L TYR* 3.7 17.8 - - + -
951L LMG 3.9 50.3 - - - -
76M MET* 3.5 30.1 - - - +
77N TRP* 2.8 20.2 + - - +
78N ALA* 2.8 10.0 + - - +
80N THR* 1.3 72.7 - - - +
82N VAL* 1.3 61.2 + - - +
84N PHE* 3.7 5.1 - - - +
85N SER* 3.3 25.8 + - - -
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Residues in contact with VAL 82 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A LEU* 6.3 0.9 - - + -
7L TYR* 3.8 27.6 - - + +
10L LEU* 3.8 29.4 - - + +
11L LEU* 4.0 22.2 - - + +
14L ALA* 4.5 6.7 - - + -
78N ALA 2.8 19.8 + - - +
79N ALA* 2.8 8.3 + - - +
81N CYS* 1.3 76.0 - - - +
83N MET* 1.3 63.8 + - - +
85N SER* 3.0 3.9 + - - -
86N PHE* 2.7 46.5 + - + +
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Residues in contact with MET 83 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A PHE* 3.4 68.4 - - + +
262A VAL* 3.5 28.0 - - + -
263A LEU* 4.0 17.0 - - - +
266A GLN* 4.2 6.7 - - - +
49D ALA* 3.8 23.3 - - + -
50D CYS* 4.5 4.3 - - - +
79N ALA 2.9 10.4 + - - +
80N THR* 3.5 7.2 - - - +
82N VAL* 1.3 78.8 - - - +
84N PHE* 1.3 63.5 + - - +
86N PHE* 5.1 3.1 - - - -
87N SER* 2.8 30.7 + - - +
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Residues in contact with PHE 84 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
904B BCR 3.6 35.7 - - + +
50D CYS* 3.5 16.5 - - - -
13G LEU* 4.1 10.3 - - + -
951L LMG 3.9 34.5 - - + -
73M MET* 3.6 28.9 - - + -
76M MET* 4.1 9.0 - - + -
77M THR* 3.7 32.5 - - - -
80N THR 3.1 7.9 + - - +
81N CYS* 3.7 8.7 - - - +
83N MET* 1.3 83.1 - - - +
85N SER* 1.3 83.0 + - - +
87N SER* 3.2 13.2 + - - -
88N LEU* 3.4 27.2 + - + +
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Residues in contact with SER 85 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7L TYR* 3.0 25.0 + - - -
11L LEU* 5.1 8.1 - - - -
76M MET* 3.2 25.7 + - - +
80M GLY* 3.6 11.9 - - - -
81N CYS 3.3 14.1 + - - -
82N VAL* 3.0 6.1 + - - -
84N PHE* 1.3 84.9 - - - +
86N PHE* 1.3 63.9 + - - -
88N LEU* 3.0 18.7 + - - +
89N SER* 3.1 12.5 + - - -
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Residues in contact with PHE 86 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A LEU* 3.4 30.5 - - + -
11L LEU* 4.1 13.7 - - + -
14L ALA* 3.9 18.4 - - + -
15L LEU* 4.1 16.4 - - + -
18L THR* 2.9 36.1 - - + -
83M ILE* 4.2 13.0 - - + -
87M LEU* 4.4 5.8 - - + -
82N VAL* 2.7 30.7 + - + +
83N MET* 4.6 3.4 - - - +
85N SER* 1.3 74.2 - - - +
87N SER* 1.3 55.8 + - - +
89N SER* 3.0 22.9 - - - -
90N LEU* 2.7 54.0 + - + +
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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
----------------------------------------------------------
266A GLN* 3.1 30.7 + - - +
904B BCR 3.7 22.4 - - - -
46D GLY* 3.3 11.7 - - - -
83N MET* 2.8 26.2 + - - +
84N PHE* 3.2 6.3 - - - -
86N PHE* 1.3 74.2 - - - +
88N LEU* 1.3 68.1 + - - +
90N LEU* 3.1 5.0 + - - +
91N VAL* 2.9 28.9 + - - +
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Residues in contact with LEU 88 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B ILE* 4.0 9.6 - - + -
904B BCR 3.7 53.8 - - + -
77M THR* 3.9 32.8 - - + +
80M GLY* 4.8 0.2 - - - -
81M LEU* 4.2 17.9 - - + +
84N PHE* 3.8 35.9 - - + +
85N SER* 3.0 9.9 + - - +
87N SER* 1.3 76.3 - - - +
89N SER* 1.3 55.1 + - - +
91N VAL* 3.0 7.8 + - - +
92N VAL* 2.7 39.5 + - - +
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Residues in contact with SER 89 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80M GLY* 2.8 27.5 + - - -
83M ILE* 3.6 11.0 - - - +
84M GLY* 3.7 15.8 - - - -
87M LEU* 4.3 4.3 - - - -
85N SER 3.1 8.9 + - - -
86N PHE* 3.0 32.5 + - - -
88N LEU* 1.3 78.7 - - - +
90N LEU* 1.3 58.8 + - - +
92N VAL* 3.1 2.7 + - - +
93N TRP* 2.8 31.7 + - - +
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Residues in contact with LEU 90 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A LEU* 4.2 4.7 - - + -
266A GLN* 3.4 37.2 - - + +
267A VAL* 4.0 20.6 - - + +
270A VAL* 4.5 11.7 - - + +
39D MET* 4.1 2.0 - - - +
42D VAL* 4.4 12.6 - - + -
18L THR* 4.5 0.4 - - - +
87M LEU* 4.7 1.3 - - + -
86N PHE* 2.7 57.6 + - + +
87N SER* 3.7 4.5 - - - +
89N SER* 1.3 73.0 - - - +
91N VAL* 1.3 53.8 + - - +
93N TRP* 3.6 25.0 - - + +
94N GLY* 2.7 33.3 + - - -
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Residues in contact with VAL 91 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B ILE* 3.5 31.6 - - + -
903B HEC 5.0 1.1 - - + -
904B BCR 4.1 22.7 - - + -
39D MET* 3.6 9.7 - - + +
42D VAL* 4.0 18.6 - - + -
43D VAL* 4.1 14.4 - - + -
87N SER 2.9 17.7 + - - +
88N LEU 3.3 7.2 - - - +
90N LEU* 1.3 73.9 - - - +
92N VAL* 1.3 60.6 + - - +
94N GLY 3.2 0.2 + - - -
95N ARG* 2.8 50.3 + - + +
98N LEU* 5.3 0.7 - - + -
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Residues in contact with VAL 92 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B ILE* 4.8 8.1 - - + -
81M LEU* 3.8 32.1 - - + -
84M GLY* 4.1 17.3 - - - -
85M PHE* 4.0 23.1 - - + +
88M LEU* 3.9 4.2 - - + +
88N LEU 2.7 25.2 + - - +
89N SER 3.6 4.3 - - - +
91N VAL* 1.3 72.9 - - - +
93N TRP* 1.3 57.9 + - - +
96N SER* 2.9 8.0 + - - -
97N GLY* 2.8 56.0 + - - +
98N LEU* 3.9 4.9 - - - +
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Residues in contact with TRP 93 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A VAL* 5.2 1.3 - - + -
270A VAL* 3.8 21.3 - - + -
271A LEU* 3.9 26.2 - - + -
274A LYS* 2.9 33.2 + - + -
18L THR* 3.6 28.0 - - + -
22L TYR* 4.2 27.8 - + - -
84M GLY* 4.4 2.0 - - - +
87M LEU* 3.7 29.3 - - + -
88M LEU* 3.5 43.1 - - + +
91M GLU* 2.7 22.8 + - + +
89N SER 2.8 17.5 + - - +
90N LEU* 3.6 18.8 - - + +
92N VAL* 1.3 74.6 - - - +
94N GLY* 1.3 65.4 + - - +
96N SER 3.0 10.4 + - - -
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Residues in contact with GLY 94 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270A VAL* 3.6 20.4 - - - +
273A LYS* 2.9 27.5 + - - +
274A LYS* 3.9 8.2 + - - -
277A GLU* 4.9 0.9 - - - +
39D MET* 3.4 22.7 - - - -
90N LEU 2.7 16.4 + - - -
93N TRP* 1.3 73.8 - - - +
95N ARG* 1.3 56.7 + - - +
96N SER* 4.6 1.2 + - - -
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Residues in contact with ARG 95 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A LYS* 4.1 7.0 - - - +
26B VAL* 4.8 5.9 - - - +
30B VAL* 2.8 40.4 + - - +
31B ASN 3.8 0.4 + - - -
35B CYS* 5.1 0.2 - - - -
903B HEC 3.8 38.7 - - - +
35D ASP* 2.8 40.2 + - - +
39D MET* 3.6 16.6 - - + -
91N VAL* 2.8 29.9 + - - +
92N VAL 4.6 0.4 - - - +
94N GLY* 1.3 72.1 - - - -
96N SER* 1.3 71.8 + - - +
97N GLY* 3.6 1.2 + - - +
98N LEU* 3.2 24.6 - - + +
----------------------------------------------------------
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Residues in contact with SER 96 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274A LYS* 4.4 6.4 + - - -
277A GLU* 5.8 0.5 + - - -
85M PHE* 5.7 0.2 - - - -
88M LEU* 3.8 22.7 - - - +
92N VAL 2.9 10.3 + - - -
93N TRP 3.0 11.3 + - - -
94N GLY 4.6 1.4 + - - -
95N ARG* 1.3 82.0 - - - +
97N GLY* 1.3 55.8 + - - +
----------------------------------------------------------
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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