Contacts of the helix formed by residues 77 - 108 (chain G) in PDB entry 3Q84
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 TYR 77 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72G GLU 5.4 1.5 + - - -
73G LYS 5.5 0.5 + - - -
74G GLY 4.1 10.5 + - - -
75G PRO* 3.1 31.2 - - + +
76G GLN* 1.3 94.2 + - - +
78G GLY* 1.3 65.4 + - - +
79G SER 3.9 0.9 + - - -
80G LEU 4.0 0.5 + - - -
81G GLU* 3.7 14.4 + - - -
283G ASP* 3.9 7.0 - - - +
286G TRP* 4.3 28.7 - + + -
400G CA 3.8 14.1 - - - -
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Residues in contact with GLY 78 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77G TYR* 1.3 74.5 - - - +
79G SER* 1.3 64.3 + - - -
81G GLU* 3.5 9.2 + - - +
82G ARG* 3.4 35.8 + - - +
283G ASP* 3.8 11.4 - - - -
286G TRP* 5.4 9.8 - - - -
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Residues in contact with SER 79 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G GLY* 1.3 70.9 - - - -
80G LEU* 1.3 60.7 + - - +
81G GLU 3.3 0.7 - - - -
82G ARG* 3.3 31.3 + - - +
83G ALA* 3.0 21.1 + - - +
277G GLY 4.8 2.9 - - - -
278G ALA* 3.5 21.7 - - - +
279G ASP* 3.0 27.1 + - - +
282G GLU* 6.1 2.2 - - - -
283G ASP* 3.0 23.2 + - - -
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Residues in contact with LEU 80 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76G GLN* 4.0 20.8 - - - +
77G TYR 4.0 0.4 + - - -
78G GLY 3.4 0.6 - - - -
79G SER* 1.3 80.4 + - - +
81G GLU* 1.3 63.1 - - - +
83G ALA* 3.8 1.6 - - + +
84G TRP* 2.9 25.8 + - - +
278G ALA* 4.1 16.4 - - + -
280G ALA* 4.5 13.9 - - + +
283G ASP* 3.6 13.1 + - - +
242H LEU* 3.8 44.2 - - + +
245H LEU* 3.6 27.1 - - + +
246H LYS* 3.9 23.6 - - + +
249H LEU* 4.3 12.1 - - + +
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Residues in contact with GLU 81 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71G ILE* 3.8 19.3 - - + +
72G GLU* 4.1 13.5 - - - +
76G GLN* 3.1 31.0 - - + +
77G TYR* 3.7 19.9 + - - -
78G GLY 3.5 13.8 + - - +
79G SER 3.3 0.2 - - - -
80G LEU* 1.3 78.1 - - - +
82G ARG* 1.3 59.6 + - - +
84G TRP* 3.6 3.8 - - - +
85G GLY* 2.9 26.2 + - - -
400G CA 2.9 22.6 - - - -
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Residues in contact with ARG 82 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G GLY* 3.4 23.7 + - - +
79G SER* 3.3 36.6 + - - +
80G LEU 3.2 0.6 - - - -
81G GLU* 1.3 79.5 - - + +
83G ALA* 1.3 64.6 + - - +
85G GLY* 3.8 2.4 - - - +
86G ALA* 3.0 23.2 + - - +
274G ALA* 5.1 2.8 - - - +
277G GLY 5.6 1.2 + - - -
282G GLU* 5.9 0.8 + - - -
283G ASP* 5.2 1.4 + - - -
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Residues in contact with ALA 83 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79G SER 3.0 16.1 + - - +
80G LEU* 3.3 4.4 + - + +
82G ARG* 1.3 76.9 - - - +
84G TRP* 1.3 62.8 + - - +
86G ALA* 3.2 19.2 + - - +
87G ILE* 4.0 4.3 + - - +
274G ALA 4.2 8.3 + - - +
275G ILE* 3.8 33.1 - - + +
278G ALA* 3.9 13.7 - - + -
249H LEU* 3.8 18.4 - - + -
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Residues in contact with TRP 84 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67G TRP* 4.5 4.5 - + - -
71G ILE* 3.2 38.0 - - + +
76G GLN* 4.4 21.3 - - + -
80G LEU 2.9 16.8 + - - +
81G GLU 3.6 3.6 - - - +
83G ALA* 1.3 71.8 - - - +
85G GLY* 1.3 60.6 + - - +
86G ALA 3.0 4.7 - - - -
87G ILE* 3.1 22.8 + - + +
88G MSE 3.2 6.7 - - + +
38H LEU* 4.1 26.9 - - + -
41H ASP* 3.7 26.5 - - + -
42H LEU* 3.9 35.1 - - + +
45H CYS* 3.9 27.8 - - + -
245H LEU* 5.7 7.0 - - + -
249H LEU* 3.7 26.5 - - + +
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Residues in contact with GLY 85 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68G ARG* 4.7 3.8 + - - -
71G ILE* 4.4 4.4 - - - +
81G GLU 2.9 16.6 + - - -
82G ARG* 3.8 3.1 - - - -
84G TRP* 1.3 72.6 - - - +
86G ALA* 1.3 58.5 + - - +
87G ILE 3.1 0.4 - - - -
88G MSE 2.8 41.8 + - - +
89G THR* 3.4 7.8 + - - -
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Residues in contact with ALA 86 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G ARG 3.0 12.8 + - - +
83G ALA 3.2 15.7 - - - +
84G TRP 3.0 1.0 - - - -
85G GLY* 1.3 79.3 - - - +
87G ILE* 1.3 55.2 + - - +
89G THR* 3.0 25.2 + - - +
90G GLU 3.0 10.7 + - - -
271G LEU* 3.3 23.0 - - + +
274G ALA* 3.8 20.9 - - + -
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Residues in contact with ILE 87 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G TRP* 3.9 21.5 - - + -
83G ALA 4.2 5.4 - - - +
84G TRP* 3.1 18.1 + - + +
86G ALA* 1.3 75.3 - - - +
88G MSE 1.3 67.1 + - - +
90G GLU* 3.2 22.8 + - - +
91G ALA* 3.1 21.7 + - - +
271G LEU* 4.0 20.2 - - + -
275G ILE* 4.9 4.9 - - + -
249H LEU* 4.0 32.8 - - + +
252H ILE* 4.1 23.8 - - + -
253H LYS 5.5 0.4 - - - +
256H LEU* 3.9 14.8 - - + -
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Residues in contact with MSE 88 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G TRP* 4.6 14.4 - - + -
64G ALA* 3.3 42.3 - - + +
67G TRP* 3.6 20.6 - - + +
68G ARG* 3.7 32.3 - - + +
71G ILE* 3.1 27.6 - - + -
84G TRP* 3.2 12.8 - - - +
85G GLY* 2.8 49.3 + - - +
87G ILE* 1.3 81.3 - - - +
89G THR* 1.3 61.4 + - - +
91G ALA 3.5 0.3 + - - -
92G ASP* 3.2 21.7 + - - +
45H CYS* 5.2 0.9 - - - -
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Residues in contact with THR 89 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68G ARG* 4.3 10.5 + - - +
85G GLY 3.4 7.4 + - - -
86G ALA* 3.0 15.4 + - - -
88G MSE 1.3 75.1 - - - +
90G GLU* 1.3 66.2 + - - +
92G ASP* 3.2 8.6 + - + +
93G LYS* 3.1 47.7 + - + +
270G GLU* 4.5 10.3 - - - +
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Residues in contact with GLU 90 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86G ALA 3.0 6.6 + - - +
87G ILE* 3.2 15.6 - - - +
89G THR* 1.3 75.3 - - - +
91G ALA* 1.3 59.5 + - - +
93G LYS* 3.0 4.7 + - - +
94G VAL* 2.9 34.1 + - - +
267G VAL* 3.7 17.9 - - + +
268G TYR* 2.4 51.7 + - + +
271G LEU* 3.8 24.9 - - + -
49H ARG* 2.5 40.2 + - - -
256H LEU* 4.1 6.2 - - - +
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Residues in contact with ALA 91 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G LEU* 4.0 16.9 - - + +
63G TRP* 3.7 25.4 - - + -
64G ALA* 4.1 7.6 - - + -
87G ILE 3.1 4.6 + - - +
88G MSE 3.8 4.7 - - - +
90G GLU* 1.3 85.8 + - - +
92G ASP* 1.3 57.6 + - - +
94G VAL* 3.4 4.2 + - - +
95G SER* 2.9 31.5 + - - -
49H ARG* 3.7 19.3 - - - +
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Residues in contact with ASP 92 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61G THR* 4.1 18.5 + - - +
64G ALA* 3.7 12.5 - - - +
68G ARG* 2.6 32.0 + - - -
88G MSE 3.2 7.9 + - - +
89G THR* 3.2 9.6 + - + +
91G ALA* 1.3 76.6 - - - +
93G LYS* 1.3 62.2 + - + +
95G SER* 3.3 5.5 - - - -
96G GLU* 3.0 28.5 + - - +
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Residues in contact with LYS 93 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89G THR* 3.1 27.4 + - + +
90G GLU* 3.0 8.0 + - - +
92G ASP* 1.3 78.1 - - + +
94G VAL* 1.3 67.4 + - - +
95G SER 3.0 1.3 - - - -
96G GLU* 3.2 16.5 + - - +
97G LEU* 3.1 28.2 + - - +
266G HIS* 5.8 3.6 - - + -
267G VAL* 4.2 22.4 - - + -
270G GLU* 2.9 35.5 + - - +
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Residues in contact with VAL 94 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G TYR* 4.6 6.3 - - + +
60G LEU* 3.7 21.8 - - + -
90G GLU* 2.9 21.8 + - - +
91G ALA* 4.0 2.7 - - - +
93G LYS* 1.3 75.7 - - - +
95G SER* 1.3 63.2 + - - +
97G LEU* 3.0 17.0 + - - +
98G HIS* 3.1 35.8 + - + +
264G TYR* 4.2 17.5 - - + -
267G VAL* 4.2 6.3 - - + -
268G TYR* 3.3 39.7 - - + +
49H ARG* 5.4 0.9 - - - +
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Residues in contact with SER 95 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57G GLY* 3.1 29.0 + - - -
60G LEU* 4.0 8.5 - - - -
61G THR* 3.1 24.7 + - - -
91G ALA 2.9 19.5 + - - -
92G ASP* 3.3 9.0 - - - -
94G VAL* 1.3 79.3 - - - +
96G GLU* 1.3 62.1 + - - +
98G HIS* 3.1 6.2 + - - +
99G GLN* 3.1 29.3 + - - +
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Residues in contact with GLU 96 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92G ASP* 3.0 19.1 + - - +
93G LYS* 3.4 19.3 - - - +
95G SER* 1.3 75.6 - - - +
97G LEU* 1.3 61.9 + - + +
99G GLN* 3.5 9.1 + - - +
100G GLU* 3.2 29.4 + - + +
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Residues in contact with LEU 97 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93G LYS* 3.1 16.4 + - + +
94G VAL* 3.0 12.5 + - - +
96G GLU* 1.3 77.5 - - + +
98G HIS* 1.4 54.6 + - - +
100G GLU* 2.8 44.9 + - - +
101G VAL* 3.1 15.8 + - - +
258G LEU* 4.2 16.7 - - + +
261G ASN* 4.0 17.5 - - - +
263G SER* 4.0 23.6 - - - -
264G TYR* 3.8 39.7 - - + +
267G VAL* 4.4 7.4 - - + -
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Residues in contact with HIS 98 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53G GLU* 2.7 45.4 + - - +
56G TYR* 3.2 40.2 - + - -
57G GLY* 4.5 5.8 - - - +
60G LEU* 5.0 0.4 - - + -
94G VAL* 3.1 38.3 + - + +
95G SER* 3.1 8.1 + - - +
97G LEU* 1.4 70.6 - - - +
99G GLN* 1.3 61.4 + - - +
101G VAL* 3.3 9.1 + - - +
102G LYS* 2.9 28.5 + - - +
258G LEU* 3.8 26.5 - - + +
264G TYR* 5.8 1.2 - - - -
56H TYR* 3.6 12.5 - + - -
98H HIS* 5.4 3.4 - - - -
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Residues in contact with GLN 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54G LYS* 3.6 31.2 - - - +
57G GLY* 3.8 3.8 - - - -
58G GLN* 3.6 17.2 + - - +
61G THR* 5.7 0.2 + - - -
95G SER* 3.1 20.1 + - - +
96G GLU* 3.9 9.2 - - - +
97G LEU 3.3 0.2 - - - -
98G HIS* 1.3 76.3 - - - +
100G GLU* 1.3 56.5 + - - +
102G LYS* 2.8 40.1 + - - +
103G ASN* 3.0 34.9 + - - +
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Residues in contact with GLU 100 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96G GLU* 3.2 23.7 + - + +
97G LEU* 2.8 42.7 + - - +
99G GLN* 1.3 69.1 - - - +
101G VAL* 1.3 53.2 + - + +
103G ASN* 3.1 5.1 + - - +
104G ASN* 2.7 50.6 + - - +
261G ASN* 5.3 4.9 + - - -
263G SER* 5.7 0.2 + - - -
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Residues in contact with VAL 101 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53G GLU* 3.8 27.8 - - + +
97G LEU 3.1 11.6 + - - +
98G HIS* 3.4 13.2 - - - +
100G GLU* 1.3 74.9 - - + +
102G LYS* 1.3 66.4 + - - +
104G ASN* 3.2 5.0 + - - +
105G LEU* 2.8 31.8 + - + +
255G HIS 3.5 26.7 - - - +
256G LEU* 3.9 22.4 - - + +
258G LEU* 4.2 23.3 - - + -
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Residues in contact with LYS 102 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50G ALA* 3.6 35.2 - - + +
53G GLU* 4.3 3.8 - - + +
54G LYS* 3.6 31.6 - - + +
98G HIS 2.9 17.4 + - - +
99G GLN* 2.8 36.1 + - - +
101G VAL* 1.3 77.1 - - - +
103G ASN* 1.3 90.0 + - - +
105G LEU* 3.2 3.7 + - - +
106G LEU* 3.0 41.8 + - + +
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Residues in contact with ASN 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99G GLN* 3.0 24.3 + - - +
100G GLU* 3.1 5.8 + - - +
102G LYS* 1.3 99.2 + - - +
104G ASN* 1.3 59.8 + - - +
106G LEU* 4.8 5.6 - - - +
107G ASN* 2.7 57.1 + - - +
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Residues in contact with ASN 104 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100G GLU* 2.7 33.7 + - - +
101G VAL* 3.7 2.6 - - - +
103G ASN* 1.3 75.1 - - - +
105G LEU* 1.3 58.3 + - - +
107G ASN* 5.1 0.2 - - - -
108G GLU* 2.9 39.2 + - - +
109G ASP* 3.2 11.2 + - - +
255G HIS* 3.6 40.1 + - + +
----------------------------------------------------------
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Residues in contact with LEU 105 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46G VAL* 3.8 25.6 - - + +
49G ARG* 4.2 6.7 - - + -
50G ALA* 4.0 29.6 - - + +
53G GLU* 4.8 0.7 - - + -
101G VAL* 2.8 38.2 + - + +
102G LYS 3.6 2.5 - - - +
104G ASN* 1.3 74.3 - - - +
106G LEU* 1.3 61.3 + - - +
109G ASP* 3.2 23.5 + - - +
110G LEU* 2.8 28.6 + - - +
252G ILE* 4.2 17.7 - - + -
255G HIS* 4.4 7.9 - - + -
256G LEU* 4.1 20.9 - - + -
----------------------------------------------------------
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Residues in contact with LEU 106 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46G VAL* 5.5 0.4 - - + -
47G GLN* 4.3 18.2 - - + -
50G ALA* 3.7 21.1 - - + -
102G LYS* 3.0 39.1 + - + +
103G ASN* 4.1 4.9 - - - +
105G LEU* 1.3 81.4 - - + +
107G ASN* 1.3 71.3 + - - +
110G LEU* 3.3 39.1 - - + +
111G GLU* 3.4 6.4 + - - +
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Residues in contact with ASN 107 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103G ASN* 2.7 45.7 + - - +
104G ASN* 6.0 0.2 - - - +
106G LEU* 1.3 80.1 - - - +
108G GLU* 1.3 64.1 + - + +
111G GLU* 2.8 30.5 - - - +
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Residues in contact with GLU 108 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104G ASN* 2.9 29.6 + - - +
107G ASN* 1.3 85.2 - - + +
109G ASP* 1.3 59.6 + - - +
110G LEU 3.8 0.2 - - - -
111G GLU* 3.7 12.7 - - - +
112G LYS* 2.8 30.8 + - - +
255G HIS* 3.8 18.1 + - + +
----------------------------------------------------------
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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