Contacts of the helix formed by residues 90 - 114 (chain L) in PDB entry 2FRV
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 90 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88L ILE 3.8 0.6 + - - -
89L PRO* 1.3 72.4 - - - +
91L ASN* 1.3 56.8 + - - +
93L THR* 3.0 10.7 + - + -
94L LEU* 2.9 41.5 + - + +
431L LYS* 5.2 13.5 - - - +
435L ASN* 2.9 29.2 + - - +
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Residues in contact with ASN 91 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89L PRO* 3.2 1.0 + - - +
90L GLU* 1.3 76.7 - - - +
92L ALA* 1.3 62.5 + - - +
94L LEU* 4.0 2.7 - - - +
95L MET* 3.1 25.1 + - - +
234L LEU* 4.7 3.8 - - - +
432L LEU* 3.7 21.4 - - + +
435L ASN* 2.8 34.9 + - - +
436L VAL* 4.1 9.9 - - - +
440L LYS* 2.8 27.3 + - - -
441L ASP* 3.5 16.2 - - - +
442L ASP 3.1 19.0 + - - +
443L LEU* 3.8 12.1 - - + +
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Residues in contact with ALA 92 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88L ILE* 4.2 7.2 - - + -
89L PRO* 2.6 16.9 + - + +
91L ASN* 1.3 74.2 - - - +
93L THR* 1.3 66.2 + - - +
96L ARG* 3.0 33.3 + - - -
227L GLY* 3.7 19.3 - - - -
228L CYS* 3.8 14.7 - - - -
443L LEU* 3.2 31.3 - - - +
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Residues in contact with THR 93 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88L ILE* 3.3 17.6 + - - +
89L PRO 3.0 7.4 + - - -
90L GLU* 3.4 12.5 - - + +
92L ALA* 1.3 79.7 - - - +
94L LEU* 1.3 64.4 + - + +
96L ARG* 3.7 2.4 - - - +
97L ASN* 3.2 27.7 + - - +
287L PRO 3.2 27.8 - - - +
288L THR* 4.4 11.1 + - - +
290L GLU* 2.8 35.2 + - - +
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Residues in contact with LEU 94 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90L GLU* 2.9 30.4 + - + +
91L ASN* 4.0 7.0 - - - +
93L THR* 1.3 77.8 - - + +
95L MET* 1.3 51.4 + - - +
97L ASN* 3.2 9.9 + - - +
98L LEU* 2.9 38.8 + - - +
428L TRP* 4.0 39.0 - - + +
431L LYS* 3.9 20.9 - - + -
432L LEU* 3.8 31.6 - - + +
435L ASN* 3.9 21.5 - - - +
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Residues in contact with MET 95 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91L ASN 3.1 17.2 + - - +
92L ALA 4.3 1.6 - - - +
94L LEU* 1.3 73.2 - - - +
96L ARG* 1.3 61.3 + - - +
98L LEU* 3.5 10.7 + - - +
99L THR* 2.9 29.8 + - - -
213L PHE* 4.1 21.7 - - + +
222L PHE* 3.7 22.2 - - + -
228L CYS* 4.1 16.2 - - - -
230L ASN* 3.9 26.0 - - - +
233L SER* 3.7 15.9 - - - +
234L LEU* 3.5 32.5 - - + -
432L LEU* 4.4 5.8 - - + +
443L LEU* 4.2 8.5 - - + -
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Residues in contact with ARG 96 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70L TYR* 2.6 31.4 + - - +
74L LEU* 4.1 12.8 - - + +
77L VAL* 3.5 24.9 - - - +
78L ARG* 4.1 19.2 - - - +
81L ASP* 2.8 26.6 + - - -
88L ILE* 3.7 17.9 - - - +
92L ALA* 3.0 26.8 + - - +
93L THR* 3.7 4.7 - - - +
95L MET* 1.3 75.6 - - - +
97L ASN* 1.3 59.2 + - - +
100L MET* 3.3 18.9 + - - +
222L PHE* 4.6 2.2 - - + -
223L THR* 4.1 12.0 - - + +
224L VAL 3.3 13.1 + - - -
227L GLY* 2.9 32.9 + - - -
228L CYS* 3.6 18.2 - - - -
290L GLU* 4.3 6.6 + - - +
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Residues in contact with ASN 97 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78L ARG* 4.2 7.8 + - - -
93L THR* 3.2 18.6 + - - +
94L LEU* 3.4 12.0 - - - +
96L ARG* 1.3 76.5 - - - +
98L LEU* 1.3 64.8 + - - +
99L THR 3.2 0.2 - - - -
100L MET* 4.5 1.8 - - - +
101L GLY 2.9 18.5 + - - -
285L GLU* 4.8 0.5 - - - +
286L PHE* 3.6 28.2 + - + +
287L PRO* 3.4 40.3 + - - +
290L GLU* 4.9 0.5 - - - +
428L TRP* 3.3 40.4 - - + +
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Residues in contact with LEU 98 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94L LEU 2.9 21.0 + - - +
95L MET* 3.8 12.6 - - - +
97L ASN* 1.3 80.9 - - - +
99L THR* 1.3 56.2 + - - +
101L GLY* 3.3 0.7 + - - -
102L ALA* 3.0 28.6 + - - +
213L PHE* 3.8 32.3 - - + -
242L PHE* 4.2 13.4 - - + -
425L VAL* 3.6 41.1 - - + +
428L TRP* 3.8 26.7 - - + +
429L LEU* 4.0 15.9 - - + +
432L LEU* 4.5 9.4 - - + -
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Residues in contact with THR 99 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70L TYR* 3.8 35.7 - - + -
95L MET 2.9 19.6 + - - -
96L ARG 4.0 0.2 - - - -
97L ASN 3.2 0.6 - - - -
98L LEU* 1.3 77.4 - - - +
100L MET* 1.3 57.7 + - - +
102L ALA* 3.7 5.6 + - - +
103L GLN* 3.2 23.6 + - - +
210L MET* 4.0 31.1 - - + +
213L PHE* 3.3 23.3 - - - +
214L GLY* 4.7 0.2 - - - -
220L THR* 4.3 3.6 - - + -
222L PHE* 3.5 14.6 - - + -
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Residues in contact with MET 100 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70L TYR* 3.8 9.6 - - + +
71L VAL* 3.6 30.7 - - + -
74L LEU* 3.6 17.3 - - + -
96L ARG 3.3 17.4 + - - +
97L ASN* 3.9 4.0 - - - +
98L LEU 3.2 0.4 - - - -
99L THR* 1.3 74.7 - - - +
101L GLY* 1.3 65.4 + - - +
103L GLN* 3.1 7.6 + - - +
104L TYR* 3.0 55.4 + - + -
285L GLU* 4.1 10.3 - - + +
286L PHE* 3.7 19.5 - - + -
459L VAL* 3.3 34.5 - - + -
460L ASN 4.5 2.9 - - - +
462L PRO* 4.8 0.2 - - - -
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Residues in contact with GLY 101 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97L ASN 2.9 17.0 + - - -
98L LEU 3.8 1.8 - - - -
100L MET* 1.3 78.0 - - - +
102L ALA* 1.3 56.6 + - - +
104L TYR* 3.1 7.4 + - - +
105L MET* 3.0 31.2 + - - +
286L PHE* 3.9 13.4 - - - -
421L ALA* 4.7 4.3 - - - +
425L VAL* 3.8 20.9 - - - -
428L TRP* 4.4 1.1 - - - -
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Residues in contact with ALA 102 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98L LEU 3.0 16.5 + - - +
99L THR* 3.9 5.6 - - - +
100L MET 3.3 0.2 - - - -
101L GLY* 1.3 78.1 - - - +
103L GLN* 1.3 58.9 + - - +
105L MET* 3.5 13.8 + - - +
106L HIS* 3.3 23.7 + - - +
206L ALA* 4.3 8.5 - - - +
209L ALA* 5.0 2.7 - - + -
210L MET* 4.0 29.8 - - + +
242L PHE* 4.8 13.0 - - + -
425L VAL* 4.4 2.4 - - - +
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Residues in contact with GLN 103 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67L VAL 3.2 17.6 + - - +
68L CYS* 3.7 4.6 - - - +
69L THR* 3.7 24.3 - - - +
70L TYR* 4.8 1.3 - - + -
71L VAL* 4.1 11.4 - - + -
99L THR 3.2 13.3 + - - +
100L MET* 3.1 14.8 + - - +
102L ALA* 1.3 72.9 - - - +
104L TYR* 1.3 61.5 + - - +
106L HIS* 3.9 8.3 + - - +
107L ASP* 2.8 68.7 + - - +
210L MET* 3.5 27.9 - - + +
217L ASN* 4.3 2.6 - - - +
462L PRO* 4.0 13.2 - - + -
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Residues in contact with TYR 104 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100L MET* 3.0 46.7 + - + -
101L GLY 3.5 7.4 - - - +
103L GLN* 1.3 73.5 - - - +
105L MET* 1.3 69.6 + - - +
106L HIS 3.2 0.5 + - - -
107L ASP* 4.6 0.2 - - - -
108L HIS* 3.2 34.3 + + - +
285L GLU* 3.9 10.9 - - - +
286L PHE* 4.2 16.7 - + - -
298L THR* 5.4 0.9 + - + -
417L GLN* 3.7 42.0 + - + +
418L CYS* 4.7 1.6 - - - -
421L ALA* 3.7 25.4 - - + -
460L ASN* 2.6 41.1 + - - -
461L ALA 4.1 1.5 + - - -
462L PRO* 4.0 20.0 - - + -
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Residues in contact with MET 105 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101L GLY 3.0 13.4 + - - +
102L ALA* 3.5 16.2 - - - +
104L TYR* 1.3 83.1 - - + +
106L HIS* 1.3 57.7 + - - +
109L LEU* 3.4 24.9 + - - +
206L ALA* 5.0 3.4 - - + -
246L TYR* 4.0 29.6 - - + -
249L VAL* 3.4 31.9 - - + -
250L ARG* 3.7 18.4 - - - +
253L ILE* 3.4 18.2 - - + +
418L CYS* 4.0 15.3 - - - +
422L ALA* 4.1 28.0 - - + +
425L VAL* 4.5 6.3 - - - -
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Residues in contact with HIS 106 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67L VAL 5.6 2.8 + - - -
102L ALA 3.3 13.1 + - - +
103L GLN* 3.9 12.4 + - - +
105L MET* 1.3 74.7 - - - +
107L ASP* 1.3 71.5 + - - +
109L LEU* 3.4 5.3 + - - +
110L VAL* 2.9 36.5 + - + +
203L GLN* 3.1 49.8 + - + +
206L ALA* 3.6 20.3 - - + +
207L ALA* 3.8 9.6 - - + +
210L MET* 5.8 1.3 - - - -
217L ASN* 5.1 4.8 + - - +
22S GLU* 4.0 6.3 - - - -
26S ARG* 3.4 34.9 + - - -
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Residues in contact with ASP 107 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67L VAL* 3.9 8.9 - - - +
68L CYS* 3.8 4.7 - - - -
103L GLN* 2.8 40.0 + - - +
104L TYR 4.2 0.4 - - - +
106L HIS* 1.3 85.4 + - - +
108L HIS* 1.3 52.9 + - + +
110L VAL* 3.2 4.6 + - - +
111L HIS* 2.8 33.1 + - - +
462L PRO* 3.4 20.5 - - + +
463L ARG* 2.8 46.1 + - - -
528L ASP* 4.5 2.1 - - - +
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Residues in contact with HIS 108 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104L TYR* 3.2 25.6 + + + +
107L ASP* 1.3 75.0 - - - +
109L LEU* 1.3 58.5 + - - +
111L HIS* 3.7 4.0 - - - +
112L PHE* 3.0 31.0 + - - +
257L TYR* 3.7 8.6 + - + +
371L PRO* 4.1 1.8 - - + +
414L ARG* 3.5 33.0 + - + +
417L GLN* 2.8 47.5 + - + -
418L CYS* 3.1 37.8 - - + +
462L PRO* 3.6 20.2 + - + +
528L ASP* 4.8 4.9 - - - -
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Residues in contact with LEU 109 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105L MET 3.4 19.1 + - - +
106L HIS* 3.5 6.3 - - - +
108L HIS* 1.3 74.7 - - - +
110L VAL* 1.3 67.8 + - + +
112L PHE* 3.4 1.1 + - - -
113L TYR* 3.3 47.1 + - + +
114L HIS* 4.8 1.8 + - - -
199L ALA* 4.6 4.3 - - + +
202L VAL* 3.8 32.3 - - + -
203L GLN* 4.4 15.3 - - + +
206L ALA* 5.2 0.4 - - + -
249L VAL* 4.8 8.5 - - + -
252L PHE* 3.4 30.5 - - + -
253L ILE* 4.3 11.4 - - + -
257L TYR* 4.2 16.7 - - + -
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Residues in contact with VAL 110 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67L VAL* 6.4 0.7 - - + -
106L HIS* 2.9 32.9 + - + +
107L ASP* 3.8 3.8 - - - +
109L LEU* 1.3 77.6 - - - +
111L HIS* 1.3 64.7 + - - +
114L HIS* 3.1 43.1 + - + +
115L LEU* 3.5 16.5 + - + +
203L GLN* 3.5 38.6 - - + +
22S GLU* 4.6 17.0 - - - +
25S LEU* 5.4 8.3 - - + -
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Residues in contact with HIS 111 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16L ARG 5.4 0.7 - - - -
107L ASP* 2.8 19.9 + - - +
108L HIS* 3.7 5.6 - - - +
109L LEU 3.3 0.2 - - - -
110L VAL* 1.3 76.6 - - - +
112L PHE* 1.3 67.1 + - - +
115L LEU* 3.2 26.3 + - + +
116L HIS* 2.9 50.1 + + - +
414L ARG* 3.5 35.2 - - - -
463L ARG* 5.5 0.2 - - - +
525L HIS* 2.9 35.1 + - - +
528L ASP* 3.3 38.0 - - - +
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Residues in contact with PHE 112 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108L HIS 3.0 13.2 + - - +
109L LEU 4.1 2.5 - - - +
110L VAL 3.3 0.2 - - - -
111L HIS* 1.3 79.9 + - - +
113L TYR* 1.3 88.1 + + - +
116L HIS* 3.4 11.5 - - + +
117L ALA* 2.8 44.7 + - + +
120L TRP* 6.1 3.8 - + - -
257L TYR* 3.1 44.6 - + + +
260L ASP* 4.2 12.6 - - + -
261L LEU* 3.9 36.1 - - + -
264L VAL* 5.3 12.1 - - + -
411L THR* 5.0 9.9 - - + -
414L ARG* 6.0 0.4 - - - -
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Residues in contact with TYR 113 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109L LEU* 3.3 35.9 + - + +
112L PHE* 1.3 105.4 - + - +
114L HIS* 1.3 78.4 + - + +
117L ALA* 3.5 17.8 + - + +
118L LEU 4.8 0.9 + - - -
192L ALA* 4.7 6.5 - - + -
195L HIS* 3.6 21.3 - - + -
196L TYR* 2.9 39.8 - - + -
199L ALA* 3.5 15.5 - - + -
252L PHE* 3.9 9.6 - + - -
256L VAL* 3.4 9.9 + - + +
257L TYR* 3.4 22.3 - - - -
260L ASP* 2.9 21.9 + - - +
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Residues in contact with HIS 114 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16L ARG* 3.6 18.2 - - - +
109L LEU 5.4 0.2 - - - -
110L VAL* 3.1 40.2 + - + +
113L TYR* 1.3 83.2 - - + +
115L LEU* 1.3 65.9 + - + +
117L ALA 5.3 0.2 - - - -
118L LEU* 4.9 2.3 - - - +
196L TYR* 3.2 53.6 + + + +
199L ALA* 3.7 34.0 - - + +
200L LEU* 3.5 25.3 - - + +
203L GLN* 4.5 1.3 - - + +
25S LEU* 6.3 1.2 - - + +
47S THR 4.6 0.9 - - - +
48S LEU* 4.5 22.4 - - + +
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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