Contacts of the helix formed by residues 64 - 93 (chain M) in PDB entry 2FJC
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 GLU 64 (chain M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62M GLY* 3.1 1.1 - - - -
63M ILE* 1.3 97.6 + - + +
65M PHE* 1.3 64.6 + - - +
66M LYS 3.5 2.0 - - - -
67M GLN* 3.2 20.0 + - + +
68M VAL* 3.1 28.2 + - + +
120M ILE* 3.3 30.2 - - + +
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Residues in contact with PHE 65 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57M HIS 4.3 3.6 - - - -
58M TRP 4.8 6.3 - - - -
60M ILE* 3.5 47.1 - - + -
61M TYR* 4.3 2.2 - - - -
62M GLY 2.9 19.3 + - - +
63M ILE 3.2 2.7 - - - +
64M GLU* 1.3 75.9 - - - +
66M LYS* 1.3 61.6 + - + +
68M VAL* 3.7 0.5 - - - +
69M HIS* 2.7 74.6 + + + +
120M ILE* 3.5 8.8 - - - +
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Residues in contact with LYS 66 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63M ILE 5.0 1.0 + - - -
64M GLU 3.3 0.8 + - - -
65M PHE* 1.3 87.6 - - + +
67M GLN* 1.3 78.5 + - - +
69M HIS* 3.4 5.9 + - + +
70M GLU* 2.8 55.5 + - - +
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Residues in contact with GLN 67 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63M ILE 4.4 4.4 + - - -
64M GLU* 3.2 26.8 + - + +
66M LYS* 1.3 95.3 + - - +
68M VAL* 1.3 61.2 + - + +
70M GLU* 3.3 10.4 + - - +
71M LEU* 2.9 28.6 + - - +
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Residues in contact with VAL 68 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60M ILE* 3.5 18.2 - - + -
64M GLU* 3.1 22.2 + - + +
67M GLN* 1.3 76.4 - - + +
69M HIS* 1.3 57.9 + - - +
71M LEU* 4.0 9.9 - - + -
72M LEU* 2.8 53.4 + - + +
120M ILE* 3.7 26.7 - - + -
123M ALA* 5.9 0.4 - - + -
124M LEU* 3.9 30.7 - - + -
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Residues in contact with HIS 69 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57M HIS* 2.7 86.3 + + - -
58M TRP* 5.0 2.5 - + - -
60M ILE* 3.7 6.9 - - - +
65M PHE* 2.7 51.6 + + + +
66M LYS* 3.5 7.9 - - + +
68M VAL* 1.3 73.8 - - - +
70M GLU* 1.3 71.0 + - + +
72M LEU* 3.5 2.1 + - - +
73M GLU* 3.3 5.7 + - - -
88N GLU* 3.5 17.8 + - - -
91N LEU* 6.2 0.9 - - + -
614N FE 3.9 1.8 - - - -
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Residues in contact with GLU 70 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66M LYS* 2.8 59.0 + - - +
67M GLN* 3.7 8.0 - - - +
69M HIS* 1.3 84.1 - - + +
71M LEU* 1.3 64.8 + - - +
73M GLU* 3.1 17.6 + - - +
74M GLU* 3.0 29.9 + - - +
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Residues in contact with LEU 71 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67M GLN 2.9 17.6 + - - +
68M VAL* 3.1 12.1 + - + +
70M GLU* 1.3 75.0 - - - +
72M LEU* 1.3 64.5 + - + +
74M GLU* 3.0 26.3 + - - +
75M TYR* 2.9 66.6 + - + +
124M LEU* 4.4 22.0 - - + -
171M LEU* 4.5 4.7 - - + -
174M THR* 6.2 3.4 - - + -
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Residues in contact with LEU 72 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53M LEU* 4.0 19.4 - - + +
56M TYR* 3.8 13.9 - - + -
57M HIS* 3.8 35.7 - - + +
60M ILE* 3.9 9.4 - - + -
68M VAL* 2.8 41.4 + - + +
69M HIS 3.6 5.2 - - - +
71M LEU* 1.3 74.0 - - + +
73M GLU* 1.3 57.0 + - - +
75M TYR* 3.3 22.8 + - + +
76M TYR* 3.0 31.2 + - - +
123M ALA* 5.5 1.3 - - + -
124M LEU* 4.4 17.9 - - + -
127M VAL* 4.4 8.5 - - + -
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Residues in contact with GLU 73 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57M HIS* 3.8 21.1 + - + -
69M HIS* 3.3 4.0 + - - +
70M GLU* 3.1 19.1 + - - +
72M LEU* 1.3 76.4 - - - +
74M GLU* 1.3 65.3 + - - +
76M TYR* 3.2 35.0 + - + +
77M VAL* 2.9 36.9 + - + +
84N ASP* 5.1 3.6 - - - +
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Residues in contact with GLU 74 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70M GLU* 3.0 22.3 + - + +
71M LEU* 3.2 24.5 - - + +
73M GLU* 1.3 75.1 - - - +
75M TYR* 1.3 61.8 + - + +
77M VAL* 3.3 7.1 + - - +
78M SER* 2.9 30.4 + - - -
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Residues in contact with TYR 75 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53M LEU* 3.9 16.2 - - + -
71M LEU* 2.9 51.1 + - + +
72M LEU* 3.4 23.8 - - + +
73M GLU 3.1 0.2 - - - -
74M GLU* 1.3 79.6 - - + +
76M TYR* 1.3 57.6 + - - +
78M SER* 3.1 8.2 + - - -
79M VAL* 2.7 32.2 + - - +
124M LEU* 5.2 0.2 - - + -
127M VAL* 4.2 15.5 - - + -
131M PHE* 3.8 37.5 - + + -
167M ALA* 4.0 18.0 + - + +
170M MET* 5.2 3.8 - - - +
171M LEU* 3.5 25.4 + - + +
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Residues in contact with TYR 76 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50M TYR* 3.3 33.2 - + + +
53M LEU* 3.7 28.7 - - + +
54M HIS* 3.4 39.3 + + - -
57M HIS* 3.6 24.9 + + - -
72M LEU 3.0 22.3 + - - -
73M GLU* 3.5 41.6 + - + -
75M TYR* 1.3 73.4 - - - +
77M VAL* 1.3 72.7 + - + +
79M VAL* 4.0 2.7 - - - -
80M THR* 2.9 24.6 + - - -
80N THR* 6.4 1.1 - - + -
84N ASP* 3.5 22.3 + - - +
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Residues in contact with VAL 77 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73M GLU* 2.9 30.4 + - + +
74M GLU* 3.6 6.5 - - - +
76M TYR* 1.3 90.2 - - + +
78M SER* 1.3 65.3 + - - +
80M THR* 3.2 12.3 - - + +
81M GLU* 3.1 24.2 + - + +
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Residues in contact with SER 78 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74M GLU 2.9 17.3 + - - -
75M TYR* 3.4 8.7 - - - -
77M VAL* 1.3 79.8 - - - +
79M VAL* 1.3 62.6 + - - +
81M GLU* 3.2 16.3 + - - +
82M ALA* 3.1 22.5 + - - +
163M THR* 4.4 16.5 + - - +
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Residues in contact with VAL 79 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46M LEU* 3.4 41.5 - - + +
49M LEU* 3.9 15.5 - - + -
50M TYR* 4.0 15.9 - - + +
53M LEU* 3.6 17.0 - - + -
75M TYR 2.7 23.7 + - - +
76M TYR* 3.7 6.5 - - - +
77M VAL 3.3 0.2 - - - -
78M SER* 1.3 73.4 - - - +
80M THR* 1.3 57.9 + - - +
82M ALA* 3.2 7.3 + - - +
83M PHE* 2.8 26.8 + - + +
131M PHE* 4.5 9.4 - - + -
134M LEU* 5.7 0.9 - - + -
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Residues in contact with THR 80 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50M TYR* 3.6 18.3 - - + +
76M TYR 2.9 15.4 + - - +
77M VAL* 3.2 18.6 - - + +
79M VAL* 1.3 78.8 - - - +
81M GLU* 1.3 62.1 + - - +
83M PHE* 3.2 17.1 - - - +
84M ASP* 3.0 27.9 + - - +
50N TYR* 2.7 29.6 + - - +
54N HIS* 4.7 2.1 + - - -
76N TYR* 6.5 0.9 - - + -
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Residues in contact with GLU 81 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77M VAL* 3.1 17.0 + - + +
78M SER* 3.2 17.6 + - - +
79M VAL 3.1 0.2 - - - -
80M THR* 1.3 78.4 - - + +
82M ALA* 1.3 65.7 + - - +
84M ASP* 3.2 5.5 + - - +
85M THR* 3.0 37.3 + - + +
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Residues in contact with ALA 82 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46M LEU* 4.0 15.0 - - + -
78M SER 3.1 9.9 + - - +
79M VAL* 3.6 8.5 - - - +
81M GLU* 1.3 76.3 + - - +
83M PHE* 1.3 66.1 + - - +
85M THR* 4.0 8.1 - - - -
86M ILE* 2.9 30.3 + - - +
160M ILE* 3.8 34.5 - - + -
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Residues in contact with PHE 83 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43M VAL* 3.4 42.5 - - + +
46M LEU* 3.8 15.0 - - + +
47M GLY* 3.7 21.5 - - - -
50M TYR* 6.3 1.3 - - + -
79M VAL* 2.8 14.6 + - + +
80M THR* 3.2 22.9 - - - +
82M ALA* 1.3 75.7 - - - +
84M ASP* 1.3 59.2 + - - +
86M ILE* 4.2 1.2 - - - +
87M ALA* 3.1 29.3 + - - +
104M TYR* 3.2 26.0 - + - -
50N TYR* 5.3 4.5 - + - -
51N ILE* 5.0 7.2 - - + -
54N HIS* 3.5 31.2 - + + -
58N TRP* 3.5 20.6 - + - -
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Residues in contact with ASP 84 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80M THR 3.0 14.0 + - - +
81M GLU* 3.2 4.5 + - - +
82M ALA 3.2 0.2 - - - -
83M PHE* 1.3 82.9 - - + +
85M THR* 1.3 64.2 + - + +
87M ALA* 3.4 2.9 + - - +
88M GLU* 2.8 37.4 + - - +
613M FE 2.1 30.6 - - - -
54N HIS* 3.6 16.5 - - + +
57N HIS* 3.8 0.5 - - - -
58N TRP* 2.9 25.0 + - - -
73N GLU* 5.3 1.2 - - - +
76N TYR* 3.7 11.9 + - - +
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Residues in contact with THR 85 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81M GLU* 3.0 26.5 + - + +
82M ALA* 3.5 9.7 + - - -
84M ASP* 1.3 76.7 - - + +
86M ILE* 1.3 61.5 + - - +
88M GLU* 3.4 8.6 + - - +
89M ARG* 3.0 27.2 + - - +
156M ILE* 4.0 23.8 - - - +
160M ILE* 4.3 3.6 - - - +
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Residues in contact with ILE 86 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39M LEU* 3.8 27.3 - - + +
42M HIS* 4.0 6.7 - - + -
43M VAL* 3.7 19.1 - - + +
46M LEU* 3.9 8.5 - - + -
82M ALA 2.9 18.7 + - - +
83M PHE 4.2 2.7 - - - +
85M THR* 1.3 76.3 + - - +
87M ALA* 1.3 66.7 + - - +
89M ARG* 3.1 7.5 + - - +
90M LEU* 3.0 20.6 + - - +
138M PHE* 3.4 36.6 - - + -
156M ILE* 4.4 8.7 - - + -
157M ILE* 4.8 7.4 - - + -
160M ILE* 3.5 24.7 - - + -
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Residues in contact with ALA 87 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43M VAL* 3.8 16.6 - - + +
83M PHE 3.1 19.5 + - - +
84M ASP 3.8 1.6 - - - +
85M THR 3.3 0.2 - - - -
86M ILE* 1.3 76.9 - - - +
88M GLU* 1.3 58.5 + - - +
90M LEU* 3.2 8.4 - - - +
91M LEU* 3.0 30.2 + - - +
97M ALA* 4.1 9.4 - - + +
58N TRP* 3.4 37.7 - - + -
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Residues in contact with GLU 88 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84M ASP* 2.8 26.7 + - - +
85M THR* 3.8 6.7 - - - +
86M ILE 3.2 0.2 - - - -
87M ALA* 1.3 76.7 - - - +
89M ARG* 1.3 63.4 + - - +
91M LEU* 3.2 11.7 + - + +
92M GLN* 3.0 36.5 + - - +
613M FE 2.3 29.2 - - - -
57N HIS* 3.5 1.2 + - - -
58N TRP* 3.8 13.2 - - + +
69N HIS* 3.4 20.9 + - - -
166O LYS* 3.0 29.4 + - - +
169O TRP* 3.9 16.2 - - + -
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Residues in contact with ARG 89 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39M LEU* 4.1 12.3 - - + -
85M THR 3.0 14.0 + - - +
86M ILE* 3.1 11.9 + - - +
88M GLU* 1.3 75.0 - - - +
90M LEU* 1.3 66.8 + - - +
92M GLN* 2.8 49.0 + - - +
93M LEU* 2.9 41.3 + - + +
150M ASP* 2.9 28.7 + - - -
152M VAL* 3.4 24.9 - - - +
153M THR* 2.8 24.1 + - + +
156M ILE* 3.9 26.5 - - + -
157M ILE* 6.0 0.7 - - + -
165O GLY* 5.2 3.8 - - - -
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Residues in contact with LEU 90 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36M CYS* 3.5 44.9 - - + +
39M LEU* 3.6 18.1 - - + +
40M ARG* 3.8 34.5 - - + +
43M VAL* 4.5 5.4 - - + -
86M ILE 3.0 10.4 + - - +
87M ALA 3.2 10.1 - - - +
89M ARG* 1.3 78.4 - - - +
91M LEU* 1.3 61.2 + - - +
93M LEU* 3.1 10.5 + - - +
95M ALA* 3.1 34.5 + - + +
96M GLN 4.0 3.1 - - - +
97M ALA* 3.9 21.3 - - + -
98M PRO* 3.9 4.9 - - + -
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Residues in contact with LEU 91 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87M ALA 3.0 17.4 + - - +
88M GLU* 3.4 11.2 - - - +
90M LEU* 1.3 75.5 - - - +
92M GLN* 1.3 61.7 + - - +
94M GLY* 3.0 15.2 + - - -
95M ALA 3.3 18.1 - - - +
96M GLN* 4.1 0.4 - - + -
97M ALA* 3.9 7.9 - - + +
58N TRP* 3.4 37.2 - - + +
59N HIS* 3.8 31.6 - - + +
169O TRP* 3.4 47.3 - - + +
----------------------------------------------------------
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Residues in contact with GLN 92 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88M GLU* 3.0 28.3 + - - +
89M ARG* 2.8 43.6 - - - +
91M LEU* 1.3 76.2 - - - +
93M LEU* 1.3 59.4 + - - +
94M GLY* 3.0 4.9 + - - -
152M VAL* 4.6 4.8 - - - +
156M ILE* 5.4 1.0 - - - +
162O ARG* 5.0 2.3 + - - +
165O GLY* 3.9 22.1 - - - +
166O LYS* 3.7 20.9 + - - +
169O TRP* 3.6 31.4 - - + -
----------------------------------------------------------
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Residues in contact with LEU 93 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32M ILE* 3.4 35.5 - - + +
35M ILE* 4.1 11.7 - - + -
36M CYS* 3.7 23.4 - - - -
39M LEU* 3.8 28.9 - - + -
89M ARG* 2.9 39.1 + - - +
90M LEU 3.1 8.2 + - - +
92M GLN* 1.3 75.1 - - - +
94M GLY* 1.3 60.0 + - - +
95M ALA 3.3 1.2 + - - -
150M ASP* 4.1 7.2 - - - +
153M THR* 4.1 11.7 - - - +
----------------------------------------------------------
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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