Contacts of the helix formed by residues 82 - 111 (chain K) in PDB entry 3BKN
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 THR 82 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35K TRP* 4.1 11.0 - - - -
80K GLY 3.5 0.4 + - - -
81K GLN* 1.3 84.2 - - + +
83K LEU* 1.3 65.5 + - - +
84K ARG* 3.4 8.7 + - - +
85K GLU* 3.0 31.7 + - - +
86K GLN* 2.9 21.7 + - - +
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Residues in contact with LEU 83 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32K GLN* 3.9 21.1 - - + +
35K TRP* 4.3 5.1 - - + -
37K PHE* 3.9 41.7 - - + -
40K LEU* 3.4 32.3 - - + -
82K THR* 1.3 72.0 - - - +
84K ARG* 1.3 64.0 + - - +
86K GLN* 3.1 9.9 + - - +
87K PHE* 3.0 35.3 + - + -
141K MET* 4.5 11.9 - - + -
149K TYR* 4.8 10.1 - - + -
150K ALA* 4.1 19.5 - - + -
153K CYS* 5.0 0.7 - - - -
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Residues in contact with ARG 84 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82K THR* 3.3 6.8 + - - +
83K LEU* 1.3 77.2 - - - +
85K GLU* 1.3 59.2 + - - +
87K PHE* 3.3 4.2 + - - +
88K GLU* 3.0 44.6 + - - +
138K LEU* 3.8 21.4 + - + +
141K MET* 3.9 34.9 - - + +
142K ASP* 2.6 36.0 + - - +
146K ASP* 2.6 36.5 + - - -
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Residues in contact with GLU 85 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79K VAL 4.8 0.2 - - - +
80K GLY* 3.7 11.9 - - - -
81K GLN* 2.7 37.8 + - - +
82K THR* 3.0 26.8 + - - +
84K ARG* 1.3 78.0 - - - +
86K GLN* 1.3 58.6 + - - +
88K GLU* 3.3 13.0 + - + +
89K ALA* 2.8 29.5 + - - +
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Residues in contact with GLN 86 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28K HIS* 3.3 47.3 - - + +
31K MET* 3.4 35.0 - - - +
32K GLN* 3.1 26.0 + - - +
35K TRP* 3.4 23.9 - - - -
80K GLY* 3.5 13.8 + - - +
82K THR 2.9 13.8 + - - +
83K LEU* 3.1 9.2 + - - +
85K GLU* 1.3 73.3 - - - +
87K PHE* 1.3 67.3 + - + +
89K ALA* 3.2 2.2 + - - +
90K ASP* 2.9 30.9 + - - +
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Residues in contact with PHE 87 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32K GLN* 5.1 7.9 - - - -
40K LEU* 4.0 26.7 - - + -
44K THR* 5.3 3.4 - - + -
83K LEU* 3.0 29.1 + - + -
84K ARG 3.7 5.4 - - - +
86K GLN* 1.3 76.3 - - + +
88K GLU* 1.3 58.4 + - - +
90K ASP* 3.4 2.9 + - - +
91K LEU* 2.8 32.2 + - - +
133K TYR* 4.0 17.5 - + - -
134K LEU* 3.7 25.3 - - + +
137K GLN* 3.8 28.0 - - + -
138K LEU* 3.8 20.5 - - + +
141K MET* 4.2 13.9 - - - -
149K TYR* 3.8 27.4 - + - -
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Residues in contact with GLU 88 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84K ARG* 3.0 39.3 + - - +
85K GLU* 3.6 13.1 - - + +
86K GLN 3.2 0.2 - - - -
87K PHE* 1.3 75.4 - - - +
89K ALA* 1.3 60.2 + - - +
91K LEU* 3.5 10.7 + - + +
92K ALA* 3.0 28.2 + - - +
138K LEU* 4.4 16.6 - - + +
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Residues in contact with ALA 89 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K GLN* 3.2 10.8 + - - +
28K HIS* 3.8 7.2 - - + +
78K ARG* 3.6 47.7 + - + +
80K GLY* 4.8 2.7 - - - +
85K GLU 2.8 17.0 + - - +
86K GLN* 3.5 5.4 - - - +
88K GLU* 1.3 78.1 - - - +
90K ASP* 1.3 62.2 + - - +
92K ALA* 3.2 13.2 + - - +
93K ILE 3.4 6.9 + - - -
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Residues in contact with ASP 90 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K GLN* 2.9 26.5 + - - +
25K TYR* 3.5 41.9 - - + +
28K HIS* 2.9 32.2 + - - +
32K GLN* 5.7 0.5 + - - -
44K THR* 4.5 4.0 - - - +
86K GLN* 2.9 16.3 + - - +
87K PHE* 4.1 4.0 - - - +
89K ALA* 1.3 73.0 - - - +
91K LEU* 1.3 65.6 + - - +
93K ILE* 3.2 6.9 + - - +
94K GLU* 3.1 25.3 + - - +
134K LEU* 4.0 14.9 - - + +
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Residues in contact with LEU 91 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87K PHE 2.8 16.5 + - - +
88K GLU* 3.5 10.5 - - + +
90K ASP* 1.3 78.0 - - - +
92K ALA* 1.3 61.4 + - - +
94K GLU* 3.2 2.5 + - - +
95K TYR* 3.0 59.0 + - + -
131K ILE* 4.0 12.8 - - + -
134K LEU* 3.7 21.4 - - + +
135K GLU* 4.0 25.6 - - + -
138K LEU* 3.8 28.0 - - + -
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Residues in contact with ALA 92 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78K ARG* 3.8 28.9 - - - +
88K GLU 3.0 14.4 + - - +
89K ALA 3.4 10.1 - - - +
90K ASP 3.2 0.4 - - - -
91K LEU* 1.3 76.5 - - - +
93K ILE* 1.3 60.7 + - - +
95K TYR* 3.6 7.7 + - - +
96K GLU* 3.3 24.1 + - - +
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Residues in contact with ILE 93 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17K SER* 5.3 5.2 + - - +
20K THR* 4.6 12.6 - - + -
21K ALA* 3.8 36.1 - - + +
24K GLN* 3.2 34.8 - - + +
25K TYR* 5.2 3.8 - - + -
75K PHE* 6.1 4.7 - - + -
76K SER 5.4 2.7 - - - +
78K ARG* 3.4 26.9 - - - +
89K ALA 3.4 1.2 + - - -
90K ASP* 3.2 16.8 + - + +
92K ALA* 1.3 77.2 - - - +
94K GLU* 1.3 67.6 + - + +
96K GLU* 3.2 13.3 + - - +
97K VAL* 3.1 26.4 + - + +
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Residues in contact with GLU 94 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25K TYR* 2.6 24.9 + - - +
51K GLU* 3.3 1.4 - - - +
90K ASP 3.1 17.8 + - - +
91K LEU* 3.9 3.4 - - - +
93K ILE* 1.3 77.1 - - + +
95K TYR* 1.3 64.5 + - - +
97K VAL* 3.1 16.0 + - - +
98K LEU* 3.1 19.2 + - - +
127K GLU* 3.0 20.3 - - + +
130K HIS* 2.9 11.5 + - + -
131K ILE* 3.4 23.6 - - + -
134K LEU* 4.2 11.0 - - + -
202K ZN 2.0 36.2 - - - -
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Residues in contact with TYR 95 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 3.5 20.0 - - + +
91K LEU* 3.0 53.6 + - + +
92K ALA* 3.9 7.0 - - - +
94K GLU* 1.3 75.6 - - - +
96K GLU* 1.3 63.4 + - - +
98K LEU* 3.4 27.6 + - + +
99K GLU* 3.1 32.1 + - + +
131K ILE* 3.9 9.4 - - + -
135K GLU* 2.6 25.4 + - - -
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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
----------------------------------------------------------
17K SER* 5.4 1.5 + - - +
75K PHE* 5.4 8.1 - - - +
78K ARG* 3.0 36.4 + - - -
92K ALA 3.3 9.6 + - - +
93K ILE* 3.2 19.5 + - - +
94K GLU 3.2 0.8 - - - -
95K TYR* 1.3 76.7 - - - +
97K VAL* 1.3 64.2 - - + +
99K GLU* 3.2 14.9 + - - +
100K ARG* 3.1 35.7 + - - +
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Residues in contact with VAL 97 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14K GLN* 3.2 33.0 - - - +
17K SER* 4.3 9.9 - - - -
18K GLU* 5.9 0.2 - - - -
93K ILE* 3.1 16.7 + - + +
94K GLU* 3.1 19.0 + - - +
96K GLU* 1.3 77.1 - - - +
98K LEU* 1.3 59.3 + - + +
100K ARG* 3.1 14.5 + - - +
101K LEU* 2.8 46.1 + - + +
124K LEU* 5.4 0.7 - - + -
127K GLU* 3.8 24.7 - - + +
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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
----------------------------------------------------------
1A MET* 4.6 19.1 - - + -
94K GLU 3.1 13.4 + - - +
95K TYR* 3.6 24.7 - - + +
96K GLU 3.4 0.2 - - - -
97K VAL* 1.3 75.8 - - - +
99K GLU* 1.3 62.3 + - + +
102K LYS* 2.9 49.2 + - + +
124K LEU* 3.8 28.9 - - + -
127K GLU* 4.5 12.3 - - + -
128K GLU* 4.5 7.4 - - + +
131K ILE* 3.4 27.1 - - + -
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Residues in contact with GLU 99 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95K TYR* 3.1 22.4 + - + +
96K GLU* 3.2 16.1 + - - +
98K LEU* 1.3 78.2 - - + +
100K ARG* 1.3 56.9 + - - +
102K LYS* 5.2 1.8 - - - +
103K PRO* 3.1 25.9 - - - +
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Residues in contact with ARG 100 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10K LEU* 3.7 20.7 - - + +
13K GLU* 3.9 24.2 - - + +
14K GLN* 2.7 50.7 + - - +
17K SER* 2.8 31.3 + - - -
75K PHE* 3.6 20.0 - - - -
96K GLU* 3.1 18.4 + - - +
97K VAL* 3.1 15.2 + - - +
98K LEU 3.1 0.4 - - - -
99K GLU* 1.3 78.7 - - - +
101K LEU* 1.3 60.5 + - + +
102K LYS 3.5 0.2 + - - -
103K PRO* 3.6 5.2 - - - +
104K GLY* 3.0 23.6 + - - -
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Residues in contact with LEU 101 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10K LEU* 4.7 3.8 - - + -
14K GLN* 3.6 28.9 - - + +
97K VAL* 2.8 38.4 + - + +
100K ARG* 1.3 79.4 - - + +
102K LYS* 1.3 62.7 + - - +
104K GLY* 4.1 1.6 - - - +
105K ILE* 2.8 40.9 + - + +
120K LEU* 3.7 50.0 - - + +
123K ILE* 3.9 18.2 - - + -
124K LEU* 4.2 18.2 - - + +
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Residues in contact with LYS 102 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A LYS 5.2 3.0 + - - -
112A GLN* 3.4 45.0 + - - +
113A ASP* 5.4 2.9 - - - +
98K LEU* 2.9 45.4 + - + +
99K GLU* 5.2 1.6 - - - +
101K LEU* 1.3 80.4 - - - +
103K PRO* 1.3 67.9 - - + +
105K ILE* 4.2 3.3 - - - +
106K VAL* 3.8 18.7 + - - +
124K LEU* 4.4 17.5 - - + -
128K GLU* 5.5 3.6 - - - +
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Residues in contact with PRO 103 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A GLN* 3.3 24.2 - - - +
99K GLU* 3.1 28.7 - - - +
100K ARG* 3.6 4.9 - - - +
102K LYS* 1.3 90.0 - - + +
104K GLY* 1.3 58.1 + - - +
106K VAL* 3.2 4.9 + - + +
107K LEU* 2.8 29.7 + - - +
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Residues in contact with GLY 104 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10K LEU* 3.5 27.3 - - - +
100K ARG 3.0 20.6 + - - -
101K LEU* 3.2 2.8 + - - -
103K PRO* 1.3 75.8 - - - +
105K ILE* 1.3 62.9 + - - +
107K LEU* 3.1 7.9 + - - +
108K CYS* 2.8 27.2 + - - -
120K LEU* 4.6 1.6 - - - -
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Residues in contact with ILE 105 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A ARG* 4.6 2.7 - - - +
114A ALA* 4.3 11.7 - - + -
101K LEU* 2.8 26.7 + - + +
102K LYS* 4.2 4.3 - - - +
104K GLY* 1.3 70.5 - - - +
106K VAL* 1.3 67.1 + - + +
108K CYS* 3.1 9.7 + - - +
109K ARG* 3.1 27.5 + - + +
117K ALA* 4.1 10.5 - - + +
120K LEU* 3.9 25.1 - - + +
121K GLU* 3.7 47.6 - - + +
124K LEU* 3.7 29.2 - - + -
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Residues in contact with VAL 106 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A ARG* 3.8 23.6 - - + +
110A GLU 5.6 0.2 - - - +
112A GLN* 4.0 24.0 - - + +
102K LYS 3.8 13.7 - - - +
103K PRO 3.2 8.1 + - - +
105K ILE* 1.3 78.9 - - + +
107K LEU* 1.3 57.7 + - - +
109K ARG* 3.5 6.8 + - - +
110K GLU* 3.0 42.7 + - + +
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Residues in contact with LEU 107 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6K ASP* 4.1 34.3 - - + +
7K VAL* 4.5 3.1 - - - +
10K LEU* 4.1 19.7 - - + -
103K PRO 2.8 14.4 + - - +
104K GLY* 3.3 9.4 - - - +
106K VAL* 1.3 77.2 - - - +
108K CYS* 1.3 59.2 + - - +
110K GLU* 3.2 9.1 + - + +
111K LYS* 2.9 50.3 + - + +
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Residues in contact with CYS 108 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7K VAL* 4.2 17.0 - - - -
10K LEU* 3.7 19.3 - - - -
104K GLY 2.8 20.5 + - - -
105K ILE 3.5 7.4 - - - +
107K LEU* 1.3 74.4 - - - +
109K ARG* 1.3 61.2 + - - +
111K LYS* 3.3 7.1 + - - +
112K GLN 3.1 4.3 + - - -
113K ASP* 2.8 42.3 + - + +
116K SER* 4.2 17.5 - - - -
117K ALA* 3.7 11.2 - - + -
120K LEU* 4.0 14.1 - - - -
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Residues in contact with ARG 109 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A ARG* 3.4 23.9 - - - +
105D ILE* 4.2 3.8 - - - +
106D VAL* 3.8 18.9 - - + +
109D ARG* 3.7 18.5 - - - +
121D GLU* 2.6 33.1 + - - -
105K ILE* 3.1 20.7 + - - +
106K VAL* 4.1 5.8 - - - +
108K CYS* 1.3 74.5 - - - +
110K GLU* 1.3 57.7 + - - +
112K GLN* 3.0 17.4 + - - +
113K ASP 4.6 4.3 - - - +
114K ALA* 4.2 14.0 - - - +
117K ALA* 3.7 15.1 - - + +
118K ARG* 3.5 23.0 - - - +
121K GLU* 2.8 31.3 + - - -
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Residues in contact with GLU 110 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106D VAL* 5.7 0.4 - - - +
106K VAL* 3.0 32.8 + - + +
107K LEU* 3.6 10.8 - - + +
109K ARG* 1.3 70.2 - - - +
111K LYS* 1.3 63.0 + - + +
112K GLN* 3.0 17.8 + - - +
----------------------------------------------------------
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Residues in contact with LYS 111 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102D LYS* 5.0 4.3 + - - -
4K ASP* 3.5 30.8 + - + +
6K ASP* 3.6 32.9 + - - -
7K VAL* 4.1 17.7 - - + -
107K LEU* 2.9 33.7 + - + +
108K CYS 3.3 5.8 + - - +
110K GLU* 1.3 77.6 - - + +
112K GLN* 1.3 71.5 + - - +
113K ASP* 3.2 3.0 + - + +
----------------------------------------------------------
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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