Contacts of the helix formed by residues 77 - 105 (chain K) 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 K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190D ARG* 3.7 53.2 - - - +
70K PHE* 3.5 34.0 + - + +
75K VAL* 3.3 1.5 - - + +
76K ALA* 1.3 80.2 - - - +
78K ARG* 1.3 59.4 + - - +
79K GLY 3.2 2.9 - - - -
80K LEU* 3.3 5.0 + - + +
81K ALA* 3.0 27.5 + - - +
128K ASP* 3.8 14.8 - - - +
129K ALA* 4.0 15.3 - - + -
197K VAL* 4.2 6.3 - - + -
198K TRP* 4.5 7.0 - - + -
201K ASP* 3.4 30.1 - - + +
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Residues in contact with ARG 78 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183D GLU* 4.6 23.6 - - - +
184D TYR* 6.1 0.4 - - - -
187D GLN* 3.1 34.7 + - - +
203D MET* 3.7 16.8 - - - +
207D GLU* 3.4 21.7 + - - +
70K PHE 5.2 0.4 - - - -
76K ALA* 3.6 8.3 + - - -
77K LEU* 1.3 69.7 - - - +
79K GLY* 1.3 59.9 + - - +
81K ALA* 3.7 6.9 - - - +
82K LYS* 3.0 29.3 + - - +
201K ASP* 3.1 5.0 + - - +
202K GLN* 3.0 27.9 + - - +
205K LEU* 3.7 31.7 - - + +
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Residues in contact with GLY 79 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78K ARG* 1.3 75.9 - - - +
80K LEU* 1.3 59.1 + - - +
82K LYS* 3.4 3.2 + - - +
83K PHE* 3.0 28.1 + - - +
201K ASP* 2.8 30.7 + - - -
204K LEU* 3.7 11.9 - - - +
205K LEU* 3.7 20.0 - - - +
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Residues in contact with LEU 80 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70K PHE* 3.6 36.6 - - + -
77K LEU* 3.3 7.6 + - + +
79K GLY* 1.3 70.5 - - - +
81K ALA* 1.3 66.7 + - - +
83K PHE* 3.2 2.6 + - - +
84K PHE* 2.9 48.9 + - + -
129K ALA* 3.7 33.4 - - + +
132K ALA* 4.7 0.2 - - + -
133K MET* 4.3 10.5 - - + -
188K LEU* 5.5 0.2 - - + -
200K PHE* 4.2 18.8 - - + -
201K ASP* 2.7 30.6 + - + +
204K LEU* 3.8 19.5 - - + -
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Residues in contact with ALA 81 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67K PHE* 3.3 29.7 - - + +
70K PHE* 3.9 27.5 - - - +
71K ASP* 3.9 11.0 - - + +
77K LEU 3.0 17.2 + - - +
78K ARG* 3.7 9.2 - - - +
79K GLY 3.3 0.2 - - - -
80K LEU* 1.3 77.7 - - - +
82K LYS* 1.3 55.8 + - - +
84K PHE* 3.9 0.7 - - - -
85K LYS* 2.9 24.6 + - - +
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Residues in contact with LYS 82 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67K PHE* 5.8 0.2 - - - -
78K ARG 3.0 18.6 + - - +
79K GLY* 3.7 4.7 - - - +
81K ALA* 1.3 75.6 - - - +
83K PHE* 1.3 59.0 + - - +
85K LYS* 3.3 8.5 + - + +
86K GLU* 2.9 62.4 + - + +
204K LEU 5.2 3.1 + - - +
205K LEU* 3.4 38.4 + - + +
206K HIS* 5.5 0.2 - - - +
207K GLU 5.2 6.3 + - - -
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Residues in contact with PHE 83 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63K TYR* 5.2 1.8 - + - -
79K GLY 3.0 17.2 + - - +
80K LEU 3.2 3.6 + - - +
82K LYS* 1.3 78.8 - - - +
84K PHE* 1.3 82.1 + + - +
86K GLU* 3.4 9.5 + - + +
87K SER* 2.8 49.9 + - - -
133K MET* 3.7 28.9 - - + -
136K ALA* 5.1 0.9 - - + -
180K ARG* 3.6 41.3 - - - -
181K ILE* 4.1 22.4 - - + -
184K TYR* 3.9 16.8 - + - -
204K LEU* 3.9 16.8 - - + -
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Residues in contact with PHE 84 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63K TYR* 3.6 39.2 - + - +
66K MET* 3.4 36.3 - - + -
67K PHE* 3.7 9.6 - - - +
70K PHE* 3.9 28.9 - + - -
80K LEU* 2.9 38.7 + - + +
83K PHE* 1.3 96.0 - + - +
85K LYS* 1.3 60.9 + - - +
87K SER* 3.6 3.5 - - - -
88K SER* 2.9 28.9 + - - -
132K ALA* 4.1 10.8 - - + -
133K MET* 4.2 15.5 - - + -
136K ALA* 4.0 13.2 - - + -
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Residues in contact with LYS 85 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64K HIS* 5.0 1.6 - - - +
67K PHE* 3.7 34.1 - - + +
81K ALA 2.9 17.9 + - - +
82K LYS* 3.6 8.5 - - + +
84K PHE* 1.3 78.0 - - - +
86K GLU* 1.3 64.5 + - + +
88K SER* 3.3 7.5 + - - -
89K GLU* 3.2 22.0 + - - +
92W ARG* 4.6 1.9 + - - -
96W GLU* 3.2 33.7 + - - +
100W GLU* 2.6 30.5 + - - -
234W CA 4.6 2.9 - - - -
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Residues in contact with GLU 86 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82K LYS* 2.9 53.2 + - + +
83K PHE* 3.9 9.3 - - + +
85K LYS* 1.3 79.1 - - + +
87K SER* 1.3 57.7 + - - +
89K GLU* 3.3 11.1 + - - +
90K GLU* 3.0 42.3 + - + +
180K ARG* 5.1 8.1 + - - -
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Residues in contact with SER 87 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63K TYR* 3.8 30.4 - - - -
83K PHE* 2.8 48.1 + - - -
84K PHE* 3.6 5.6 - - - -
85K LYS 3.3 0.4 - - - -
86K GLU* 1.3 75.2 - - - +
88K SER* 1.3 64.5 + - - +
90K GLU* 3.3 13.0 + - - +
91K GLU* 2.9 29.9 + - - +
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Residues in contact with SER 88 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60K SER* 2.8 47.7 + - - +
63K TYR* 3.7 7.7 - - - +
64K HIS* 3.5 23.1 + - - -
84K PHE 2.9 16.3 + - - -
85K LYS 3.6 5.2 - - - -
86K GLU 3.3 0.2 - - - -
87K SER* 1.3 76.5 - - - +
89K GLU* 1.3 62.4 + - - +
91K GLU 3.4 0.2 + - - -
92K ARG* 3.1 10.9 + - - +
57W TYR* 4.6 0.2 + - - -
92W ARG* 2.8 24.3 + - - -
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Residues in contact with GLU 89 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85K LYS* 3.2 12.5 + - - +
86K GLU* 3.6 13.2 - - - +
87K SER 3.2 0.2 - - - -
88K SER* 1.3 80.8 + - - +
90K GLU* 1.3 62.7 + - + +
92K ARG* 3.3 7.0 + - + +
93K GLU* 3.1 36.2 + - + +
89W GLU* 4.6 10.7 - - - +
92W ARG* 3.6 22.0 + - - +
93W GLU* 5.0 4.3 - - - +
234W CA 4.1 14.9 - - - -
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Residues in contact with GLU 90 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86K GLU* 3.0 30.0 + - + +
87K SER* 3.3 11.2 + - - +
89K GLU* 1.3 78.0 - - + +
91K GLU* 1.3 57.4 + - + +
93K GLU* 3.1 11.9 + - - +
94K HIS* 2.9 44.4 + - + +
180K ARG* 4.7 15.7 + - - -
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Residues in contact with GLU 91 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56K GLU* 3.3 13.7 - - - +
59K VAL* 3.1 29.1 - - + +
60K SER* 3.5 22.0 - - - +
63K TYR* 3.6 20.5 - - + -
87K SER* 2.9 22.0 + - - +
90K GLU* 1.3 78.5 - - - +
92K ARG* 1.3 62.2 + - - +
94K HIS* 3.1 15.1 + - - +
95K ALA* 3.0 21.7 + - - +
140K GLU* 3.5 16.0 - - - +
143K THR* 4.7 1.4 + - - -
214K CA 2.7 30.0 - - - -
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Residues in contact with ARG 92 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57K TYR* 3.8 27.0 + - + +
60K SER* 3.7 17.6 + - - +
88K SER 3.1 8.0 + - - +
89K GLU* 3.6 11.0 - - - +
90K GLU 3.2 0.2 - - - -
91K GLU* 1.3 76.6 - - - +
93K GLU* 1.3 75.8 + - - +
95K ALA* 3.2 8.1 + - - +
96K GLU* 2.9 38.9 + - - +
60W SER* 4.7 2.4 + - - -
64W HIS* 3.5 18.3 + - + -
85W LYS 4.6 0.8 + - - -
88W SER* 2.8 35.8 + - - -
89W GLU* 3.6 28.8 + - - +
92W ARG* 3.4 34.0 - - - +
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Residues in contact with GLU 93 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89K GLU* 3.1 24.6 + - + +
90K GLU* 3.1 12.6 + - - +
92K ARG* 1.3 91.5 + - - +
94K HIS* 1.3 63.5 + - + +
96K GLU* 3.2 10.2 + - - +
97K LYS* 2.9 31.6 + - - +
216K CA 2.8 27.4 - - - -
89W GLU* 4.7 6.6 - - - +
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Residues in contact with HIS 94 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56K GLU* 3.5 14.6 - - - +
90K GLU* 2.9 31.8 + - + +
91K GLU* 3.1 16.3 + - - +
93K GLU* 1.3 79.7 - - + +
95K ALA* 1.3 63.5 + - - +
97K LYS* 3.9 16.8 - - - +
98K LEU* 3.3 9.7 + - - +
169K GLU 6.0 0.4 - - - -
170K TYR* 2.7 42.3 + + + -
173K GLU* 5.6 12.1 - - + +
174K GLN* 5.9 0.7 - - - -
214K CA 2.8 22.9 - - - -
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Residues in contact with ALA 95 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K ILE* 3.9 11.3 - - + +
56K GLU* 3.7 23.3 - - + +
57K TYR* 3.8 31.6 - - + +
91K GLU 3.0 9.3 + - - +
92K ARG 3.2 8.9 + - - +
94K HIS* 1.3 77.4 - - - +
96K GLU* 1.3 62.6 + - - +
98K LEU* 3.2 7.9 + - - +
99K MET* 3.0 26.6 + - - +
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Residues in contact with GLU 96 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92K ARG* 2.9 25.9 + - - +
93K GLU* 3.2 12.2 + - - +
95K ALA* 1.3 76.9 - - - +
97K LYS* 1.3 58.5 - - - +
99K MET* 3.1 11.7 + - - +
100K GLU* 2.9 33.3 + - - +
216K CA 2.7 27.4 - - - -
64W HIS* 2.8 32.6 + - + +
67W PHE* 4.3 7.0 - - + -
85W LYS* 3.1 39.8 + - - +
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Residues in contact with LYS 97 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93K GLU 2.9 13.4 + - - +
94K HIS* 3.9 23.8 - - - +
95K ALA 3.3 0.2 - - - -
96K GLU* 1.3 76.4 - - - +
98K LEU* 1.3 57.0 + - - +
100K GLU* 3.4 15.9 + - - +
101K TYR* 2.9 25.6 + - - +
165K PHE* 4.2 11.2 - - + -
169K GLU* 3.2 42.6 + - + +
170K TYR* 3.3 28.3 + - - +
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Residues in contact with LEU 98 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49K VAL* 3.9 21.4 - - + +
52K GLN* 3.6 31.9 - - + +
53K ILE* 3.5 17.0 - - + -
56K GLU* 3.9 15.0 - - + +
94K HIS 3.3 8.0 + - - +
95K ALA 3.2 3.7 + - - +
96K GLU 3.2 0.4 - - - -
97K LYS* 1.3 76.4 - - - +
99K MET* 1.3 58.7 + - - +
101K TYR* 3.2 4.8 + - + +
102K GLN* 2.9 28.6 + - - +
147K LEU* 5.2 0.4 - - + -
150K LEU* 4.4 19.3 - - + -
162K LEU* 6.1 0.2 - - + -
165K PHE* 3.8 22.0 - - + -
170K TYR* 3.2 30.5 - - + +
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Residues in contact with MET 99 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K ILE* 3.7 27.6 - - + -
57K TYR* 4.6 3.8 - - - -
95K ALA 3.0 23.6 + - - +
96K GLU* 3.4 16.2 - - - +
98K LEU* 1.3 75.2 - - - +
100K GLU* 1.3 62.6 + - - +
102K GLN* 3.3 5.0 + - - +
103K ASN* 3.2 21.8 + - - +
109K VAL* 3.5 16.8 - - + +
111K LEU* 4.3 19.7 - - + -
64W HIS* 3.7 52.9 - - + +
67W PHE* 4.1 11.0 - - + -
68W ALA* 3.8 15.5 - - + -
71W ASP* 5.2 0.2 - - - -
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Residues in contact with GLU 100 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96K GLU* 2.9 22.1 + - - +
97K LYS* 3.6 16.8 - - + +
99K MET* 1.3 75.5 - - - +
101K TYR* 1.3 58.4 + - - +
103K ASN* 3.3 4.3 + - - +
104K LYS* 3.0 42.9 + - - +
179P LYS* 5.3 0.3 + - - -
67W PHE* 3.9 17.5 - - + -
71W ASP* 4.1 12.6 - - - +
85W LYS* 2.5 37.6 + - - -
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Residues in contact with TYR 101 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41K TYR* 4.4 9.9 - + - -
49K VAL* 4.7 6.3 - - + -
97K LYS 2.9 17.7 + - - +
98K LEU 3.6 5.6 - - - +
99K MET 3.2 0.2 - - - -
100K GLU* 1.3 74.3 - - - +
102K GLN* 1.3 70.0 + - - +
104K LYS* 3.0 27.7 + - + +
105K ARG* 3.0 47.7 + - + +
161K GLN* 2.5 32.9 + - - -
162K LEU* 3.3 32.3 - - + -
165K PHE* 3.6 53.2 - + + -
175P VAL* 5.2 4.3 - - + -
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Residues in contact with GLN 102 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41K TYR* 2.6 41.5 + - - -
46K GLU* 3.0 33.8 + - - +
49K VAL* 3.6 11.2 - - + +
50K ASN* 3.0 25.5 + - - +
53K ILE* 4.7 0.7 - - + -
98K LEU 2.9 13.6 + - - +
99K MET 3.3 11.0 + - - +
101K TYR* 1.3 83.1 - - - +
103K ASN* 1.3 56.9 + - - +
105K ARG* 3.3 1.9 + - - +
106K GLY 3.1 7.1 + - - -
107K GLY* 2.9 41.7 + - - +
109K VAL* 3.7 21.5 - - + +
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Residues in contact with ASN 103 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99K MET 3.2 12.1 + - - -
100K GLU 3.7 3.4 - - - +
101K TYR 3.2 0.4 - - - -
102K GLN* 1.3 77.8 - - - +
104K LYS* 1.3 64.9 + - - +
106K GLY* 3.1 11.8 + - - -
107K GLY 3.5 12.1 - - - +
109K VAL* 4.2 8.5 + - - +
179P LYS* 3.7 14.2 - - - +
67W PHE* 5.5 0.6 - - - -
68W ALA* 2.9 29.6 + - - +
71W ASP* 2.9 48.9 + - - +
72W ARG* 3.5 20.8 - - - +
73W ASP* 4.2 7.3 + - - +
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Residues in contact with LYS 104 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K ALA* 4.1 8.7 - - - +
100K GLU* 3.0 31.0 + - - +
101K TYR* 3.0 22.5 + - + +
103K ASN* 1.3 76.5 - - - +
105K ARG* 1.3 60.4 + - - +
106K GLY 3.5 0.3 + - - -
165K PHE* 6.1 2.8 - - - -
175P VAL* 3.9 26.5 - - + +
176P GLU* 2.7 41.6 + - - +
178P ILE* 5.7 0.7 - - - +
179P LYS* 3.9 37.1 - - + +
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Residues in contact with ARG 105 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K ALA 4.9 1.1 - - - -
38K ARG* 3.3 26.4 - - - +
39K GLN 3.3 16.3 + - - +
40K LYS* 3.1 18.2 + - - +
41K TYR* 3.5 40.0 - - + +
101K TYR* 3.0 60.4 + - + +
102K GLN 3.9 1.3 - - - +
103K ASN 3.2 0.2 - - - -
104K LYS* 1.3 76.6 - - - +
106K GLY* 1.3 61.6 + - - +
107K GLY 3.6 0.3 + - - -
159K ASP* 2.9 41.6 + - - -
161K GLN* 3.7 18.4 + - - +
162K LEU* 3.7 1.4 - - - +
175P VAL* 3.8 22.1 - - - +
----------------------------------------------------------
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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