Contacts of the helix formed by residues 77 - 106 (chain L) in PDB entry 3A68
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 LEU 77 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190E ARG* 3.6 52.9 - - - +
70L PHE* 3.5 37.3 + - + +
75L VAL* 3.3 1.3 - - + +
76L ALA* 1.3 77.7 - - - +
78L ARG* 1.3 60.8 + - - +
79L GLY 3.3 2.7 - - - -
80L LEU* 3.4 4.8 + - + +
81L ALA* 3.0 26.5 + - - +
128L ASP* 3.8 12.6 - - - +
129L ALA* 4.2 12.8 - - + -
197L VAL* 4.2 6.5 - - + -
198L TRP* 4.5 7.6 - - + -
201L ASP* 3.3 31.2 - - + +
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Residues in contact with ARG 78 (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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183E GLU* 4.7 23.1 - - - +
187E GLN* 2.9 39.8 + - - +
203E MET* 3.8 16.6 - - - +
207E GLU* 3.4 23.2 + - - +
70L PHE 5.3 0.2 - - - -
76L ALA* 3.6 8.5 + - - -
77L LEU* 1.3 73.6 - - - +
79L GLY* 1.3 57.4 + - - +
81L ALA* 3.4 7.2 + - - +
82L LYS* 2.9 30.1 + - - +
201L ASP* 3.2 5.1 + - - +
202L GLN* 3.0 22.8 + - - -
205L LEU* 4.0 29.3 - - + +
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Residues in contact with GLY 79 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78L ARG* 1.3 76.1 - - - +
80L LEU* 1.3 57.5 + - - -
82L LYS* 3.4 3.0 + - - +
83L PHE* 2.9 28.6 + - - +
201L ASP* 2.8 30.6 + - - -
204L LEU* 3.8 11.1 - - - +
205L LEU* 3.7 21.1 - - - +
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Residues in contact with LEU 80 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70L PHE* 4.0 26.5 - - + -
77L LEU* 3.8 8.3 - - + +
79L GLY* 1.3 69.8 - - - +
81L ALA* 1.3 67.3 + - - +
83L PHE* 3.2 2.7 + - + +
84L PHE* 2.9 51.0 + - + -
129L ALA* 4.7 20.0 - - + +
133L MET* 3.2 32.3 - - + -
188L LEU* 5.7 0.2 - - + -
197L VAL* 5.8 0.4 - - + +
200L PHE* 4.4 12.1 - - + -
201L ASP* 2.7 41.0 + - + +
204L LEU* 4.0 14.8 - - + -
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Residues in contact with ALA 81 (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 PHE* 3.4 24.0 - - + +
70L PHE* 3.9 27.1 - - - +
71L ASP* 4.0 10.3 - - + +
77L LEU 3.0 16.7 + - - +
78L ARG* 3.6 8.7 - - - +
79L GLY 3.3 0.2 - - - -
80L LEU* 1.3 76.4 - - - +
82L LYS* 1.3 58.1 + - - +
84L PHE* 3.3 0.5 + - - -
85L LYS* 2.9 31.4 + - - +
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Residues in contact with LYS 82 (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 PHE* 5.8 0.2 - - - -
78L ARG 2.9 18.3 + - - +
79L GLY* 3.6 5.8 - - - +
81L ALA* 1.3 76.4 - - - +
83L PHE* 1.3 62.7 + - - +
85L LYS* 3.3 8.4 + - - +
86L GLU* 2.7 64.4 + - + +
204L LEU 4.6 5.6 - - - -
205L LEU* 3.4 38.8 - - + +
207L GLU 5.3 7.1 + - - -
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Residues in contact with PHE 83 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63L TYR* 5.5 1.8 - + - -
79L GLY 2.9 17.4 + - - +
80L LEU 3.7 3.4 - - - +
82L LYS* 1.3 78.6 - - - +
84L PHE* 1.3 87.7 + + - +
86L GLU* 3.4 7.8 + - + +
87L SER* 2.7 50.2 + - - -
133L MET* 4.1 20.9 - - + -
136L ALA* 5.3 0.7 - - + -
180L ARG* 3.5 41.3 - - - -
181L ILE* 4.2 21.8 - - + -
184L TYR* 3.8 18.4 - + - -
204L LEU* 3.9 17.5 - - + -
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Residues in contact with PHE 84 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63L TYR* 3.6 44.8 - + - +
66L MET* 3.8 22.9 - - + -
67L PHE* 3.7 9.4 - - - +
70L PHE* 3.7 32.3 - + - -
80L LEU* 2.9 50.2 + - + +
83L PHE* 1.3 95.0 - + - +
85L LYS* 1.3 61.3 + - - +
87L SER* 3.6 3.1 - - - -
88L SER* 2.8 30.5 + - - -
132L ALA* 4.1 19.3 - - + -
133L MET* 4.3 5.8 - - - -
136L ALA* 4.1 6.7 - - + -
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Residues in contact with LYS 85 (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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64L HIS* 5.0 0.9 - - - +
67L PHE* 3.6 32.3 - - + +
81L ALA 2.9 19.5 + - - +
82L LYS* 3.6 8.1 - - - +
84L PHE* 1.3 77.6 - - - +
86L GLU* 1.3 64.3 + - + +
88L SER* 3.4 6.6 + - - -
89L GLU* 3.2 20.8 + - - +
92V ARG* 4.6 1.6 + - - -
96V GLU* 3.2 38.1 + - - +
100V GLU* 2.5 27.6 + - - -
224V CA 4.4 6.7 - - - -
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Residues in contact with GLU 86 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82L LYS* 2.7 57.0 + - + +
83L PHE* 3.9 7.5 - - + +
85L LYS* 1.3 76.1 - - + +
87L SER* 1.3 60.1 + - - +
89L GLU* 3.3 11.9 + - - +
90L GLU* 3.0 27.9 + - - +
180L ARG* 5.7 2.8 + - - -
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Residues in contact with SER 87 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63L TYR* 3.7 28.0 - - - -
83L PHE* 2.7 48.7 + - - -
84L PHE* 3.6 6.7 - - - -
86L GLU* 1.3 74.5 - - - +
88L SER* 1.3 65.2 + - - +
90L GLU* 3.3 6.9 + - - +
91L GLU* 2.9 29.8 + - - +
180L ARG* 5.5 0.7 + - - -
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Residues in contact with SER 88 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60L SER* 2.8 48.2 + - - +
63L TYR* 3.7 7.7 - - - +
64L HIS* 3.5 23.9 + - - +
84L PHE 2.8 17.4 + - - -
85L LYS 3.6 5.6 - - - -
86L GLU 3.3 0.2 - - - -
87L SER* 1.3 77.8 - - - +
89L GLU* 1.3 63.4 + - - +
91L GLU 3.3 0.2 + - - -
92L ARG* 3.1 10.0 + - - +
57V TYR* 4.6 0.3 + - - -
92V ARG* 2.9 18.6 + - - -
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Residues in contact with GLU 89 (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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85L LYS* 3.2 10.0 + - - +
86L GLU* 3.6 15.0 - - - +
87L SER 3.3 0.2 - - - -
88L SER* 1.3 79.7 - - - +
90L GLU* 1.3 62.0 + - - +
92L ARG* 3.3 6.1 + - - +
93L GLU* 3.1 32.8 + - + +
92V ARG* 3.6 22.0 + - - +
93V GLU* 6.0 0.4 - - - -
224V CA 4.0 15.8 - - - -
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Residues in contact with GLU 90 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86L GLU 3.0 17.2 + - - +
87L SER* 3.6 8.3 - - - +
89L GLU* 1.3 77.1 - - - +
91L GLU* 1.3 59.7 + - - +
93L GLU* 3.1 15.8 + - - +
94L HIS* 2.9 57.4 + - + +
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Residues in contact with GLU 91 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56L GLU* 3.0 16.8 - - - +
59L VAL* 3.7 21.6 - - + +
60L SER* 3.6 24.0 - - - +
63L TYR* 3.6 19.2 - - + -
87L SER* 2.9 22.2 + - - +
88L SER 3.7 0.2 - - - +
90L GLU* 1.3 75.2 - - - +
92L ARG* 1.3 66.3 + - - +
94L HIS* 3.1 16.1 + - - +
95L ALA* 3.0 21.0 + - - +
140L GLU* 3.6 15.3 - - - +
214L CA 2.5 29.7 - - - -
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Residues in contact with ARG 92 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57L TYR* 3.8 26.9 + - + +
60L SER* 3.7 17.6 + - - +
88L SER 3.1 8.0 + - - +
89L GLU* 3.5 10.1 - - - +
90L GLU 3.2 0.2 - - - -
91L GLU* 1.3 75.5 - - - +
93L GLU* 1.3 76.3 + - - +
95L ALA* 3.1 8.0 + - - +
96L GLU* 2.9 37.7 + - - +
60V SER* 4.7 2.2 + - - -
64V HIS* 3.5 17.9 + - + -
85V LYS 4.6 1.2 + - - -
88V SER* 2.9 30.1 + - - -
89V GLU* 3.5 37.0 + - - +
92V ARG* 3.3 34.7 - - - +
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Residues in contact with GLU 93 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89L GLU* 3.1 27.0 + - + +
90L GLU* 3.1 17.9 + - - +
92L ARG* 1.3 94.6 + - - +
94L HIS* 1.3 59.2 + - + +
96L GLU* 3.3 10.5 + - - +
97L LYS* 2.9 30.8 + - - +
216L CA 2.9 28.6 - - - -
89V GLU* 5.2 2.8 - - - +
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Residues in contact with HIS 94 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56L GLU* 3.7 14.1 - - - +
90L GLU* 2.9 50.6 + - + +
91L GLU* 3.3 16.8 + - - +
93L GLU* 1.3 79.7 - - + +
95L ALA* 1.3 62.1 + - - +
97L LYS* 3.4 10.7 + - - +
98L LEU* 3.3 10.6 + - - +
169L GLU 6.0 1.1 + - - -
170L TYR* 2.7 46.1 + + + -
173L GLU* 5.8 11.1 - - + +
174L GLN* 5.5 2.7 - - - -
214L CA 2.8 24.3 - - - -
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Residues in contact with ALA 95 (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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53L ILE* 3.9 11.1 - - + +
56L GLU* 3.8 22.5 - - + +
57L TYR* 3.8 33.2 - - + +
91L GLU 3.0 8.7 + - - +
92L ARG* 3.1 9.4 + - - +
94L HIS* 1.3 76.2 - - - +
96L GLU* 1.3 59.8 + - - +
98L LEU* 3.1 8.0 + - - +
99L MET* 2.9 31.1 + - - +
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Residues in contact with GLU 96 (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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92L ARG* 2.9 25.1 + - - +
93L GLU* 3.6 14.6 - - - +
95L ALA* 1.3 78.4 - - - +
97L LYS* 1.3 56.5 + - - +
99L MET* 3.1 11.2 + - - +
100L GLU* 2.9 34.4 + - - +
216L CA 2.8 25.8 - - - -
64V HIS* 2.7 33.4 + - + +
67V PHE* 4.4 7.9 - - + -
85V LYS* 3.2 38.9 + - - +
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Residues in contact with LYS 97 (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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93L GLU 2.9 15.7 + - - +
94L HIS* 5.3 9.8 - - - +
95L ALA 3.3 0.2 - - - -
96L GLU* 1.3 77.6 - - - +
98L LEU* 1.3 55.9 + - - +
100L GLU* 3.5 16.6 + - - +
101L TYR* 2.9 26.5 + - - +
165L PHE* 4.0 12.1 - - + -
169L GLU* 2.8 47.5 + - + +
170L TYR* 3.3 28.3 - - - +
173L GLU* 5.7 0.2 + - - -
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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
----------------------------------------------------------
49L VAL* 3.8 22.3 - - + +
52L GLN* 3.5 33.7 - - + -
53L ILE* 3.5 14.1 - - + +
56L GLU* 3.9 15.3 - - + -
94L HIS 3.3 12.7 + - - +
95L ALA 3.1 7.9 + - - +
97L LYS* 1.3 76.4 - - - +
99L MET* 1.3 59.7 + - - +
101L TYR* 3.6 4.2 - - + +
102L GLN* 2.9 28.9 + - - +
147L LEU* 6.0 0.2 - - + -
150L LEU* 4.3 19.7 - - + -
165L PHE* 3.7 22.2 - - + -
170L TYR* 3.3 20.0 - - + +
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Residues in contact with MET 99 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53L ILE* 3.7 28.0 - - + -
57L TYR* 4.5 3.8 - - - -
95L ALA 2.9 22.5 + - - +
96L GLU* 3.1 16.8 + - - +
98L LEU* 1.3 75.2 - - - +
100L GLU* 1.3 63.6 + - - +
102L GLN* 3.3 4.7 + - - +
103L ASN* 3.2 22.2 + - - -
109L VAL* 3.6 15.1 - - + +
111L LEU* 4.2 20.0 - - + -
64V HIS* 3.6 54.7 - - + +
67V PHE* 4.1 10.8 - - + -
68V ALA* 3.8 15.3 - - + -
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Residues in contact with GLU 100 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96L GLU* 2.9 21.3 + - - +
97L LYS* 3.7 17.2 - - - +
99L MET* 1.3 77.2 - - - +
101L TYR* 1.3 57.1 + - - +
103L ASN* 3.2 4.5 + - - +
104L LYS* 2.9 41.4 + - - +
179M LYS* 5.3 0.5 + - - -
67V PHE* 3.9 18.5 - - + -
71V ASP* 4.0 12.5 - - - +
85V LYS* 2.5 36.8 + - - -
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Residues in contact with TYR 101 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41L TYR* 4.4 9.9 - + - -
49L VAL* 4.7 6.5 - - + -
97L LYS 2.9 18.4 + - - +
98L LEU* 3.6 4.9 - - - +
99L MET 3.2 0.2 - - - -
100L GLU* 1.3 73.0 - - - +
102L GLN* 1.3 69.4 + - - +
104L LYS* 3.0 28.4 + - + +
105L ARG* 3.0 46.2 + - + +
161L GLN* 2.5 34.0 + - - -
162L LEU* 3.2 30.9 - - + -
165L PHE* 3.6 51.8 - + + -
175M VAL* 5.2 4.0 - - + -
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Residues in contact with GLN 102 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41L TYR* 2.6 45.9 + - - -
46L GLU* 3.0 28.3 + - - +
49L VAL* 3.7 11.9 - - + +
50L ASN* 3.1 25.5 + - - +
53L ILE* 4.8 0.9 - - + -
98L LEU 2.9 13.3 + - - +
99L MET* 3.4 10.8 - - - +
101L TYR* 1.3 77.4 - - - +
103L ASN* 1.3 60.9 + - - +
105L ARG* 3.2 2.5 + - - +
106L GLY 3.1 3.8 + - - -
107L GLY* 2.9 45.9 + - - -
108L LYS 3.8 0.2 + - - -
109L VAL* 3.7 21.3 - - + +
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Residues in contact with ASN 103 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99L MET 3.2 10.4 + - - -
100L GLU 3.2 4.8 + - - +
101L TYR 3.1 0.6 - - - -
102L GLN* 1.3 76.4 - - - +
104L LYS* 1.3 66.8 + - - +
106L GLY* 3.2 11.1 + - - -
107L GLY 3.5 15.4 - - - +
109L VAL* 4.2 9.1 + - - +
179M LYS* 3.7 14.2 - - - +
67V PHE* 5.5 0.4 - - - -
68V ALA* 2.9 29.9 + - - +
71V ASP* 3.0 49.5 + - - +
72V ARG* 3.5 17.2 - - - +
73V ASP* 4.3 7.1 + - - +
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Residues in contact with LYS 104 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37L ALA* 4.1 7.4 - - - +
100L GLU* 2.9 30.1 + - - +
101L TYR* 3.0 23.4 + - + +
103L ASN* 1.3 77.7 - - - +
105L ARG* 1.3 60.1 + - - +
106L GLY 3.6 0.2 + - - -
165L PHE* 6.1 2.2 - - - -
175M VAL* 4.0 25.9 - - + +
176M GLU* 2.8 43.3 + - - +
178M ILE* 5.8 0.7 - - - +
179M LYS* 3.9 37.2 - - + +
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Residues in contact with ARG 105 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37L ALA 4.6 1.5 - - - +
38L ARG* 3.2 26.8 - - - +
39L GLN 3.4 15.5 + - - +
40L LYS* 3.0 19.2 + - - +
41L TYR* 3.5 38.8 - - + +
101L TYR* 3.0 56.1 + - + +
102L GLN 3.9 0.7 - - - +
104L LYS* 1.3 76.7 - - - +
106L GLY* 1.3 61.2 + - - +
107L GLY 3.6 0.3 + - - -
159L ASP* 2.9 41.0 + - - -
161L GLN* 3.7 7.3 + - - +
162L LEU* 3.7 3.4 - - - +
175M VAL* 3.8 31.3 - - - +
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Residues in contact with GLY 106 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35L SER* 3.1 39.9 - - - -
37L ALA* 4.8 0.4 - - - +
38L ARG* 3.6 17.8 + - - -
102L GLN 3.1 2.2 + - - -
103L ASN 3.2 8.9 + - - -
104L LYS 3.3 0.8 + - - -
105L ARG* 1.3 78.7 - - - +
107L GLY* 1.3 63.1 + - - +
108L LYS* 5.1 3.3 + - - +
217L ACY 4.5 2.3 - - - +
73V ASP* 3.8 8.5 + - - -
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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
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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