Contacts of the helix formed by residues 82 - 111 (chain K) in PDB entry 2X17
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 SER 82 (chain K).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30K TYR* 3.2 10.0 + - - -
80K TRP* 4.0 1.4 - - - +
81K GLU* 1.3 79.6 - - - +
83K PRO* 1.4 76.2 - - - +
84K LEU* 3.6 11.6 + - - +
85K LYS* 3.1 27.5 + - - +
86K ALA* 3.0 20.1 + - - +
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Residues in contact with PRO 83 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30K TYR* 3.8 6.5 - - - +
31K PHE* 3.7 22.0 - - + -
34K LEU* 4.2 20.2 - - + -
36K LEU* 4.2 13.0 - - + -
39K PHE* 5.1 1.1 - - + -
82K SER* 1.4 88.1 - - - +
84K LEU* 1.3 60.3 + - - +
86K ALA* 3.4 4.5 + - + +
87K PHE* 3.2 21.0 + - - -
141K LEU* 3.5 25.9 - - + +
151K LEU* 4.4 17.9 - - + -
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Residues in contact with LEU 84 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82K SER* 3.1 10.5 - - - +
83K PRO* 1.3 80.5 - - - +
85K LYS* 1.3 60.4 + - + +
87K PHE* 3.3 3.5 + - - +
88K GLU* 2.9 51.9 + - + +
138K LEU* 3.8 12.1 - - + +
141K LEU* 3.8 28.1 - - + +
142K LYS* 3.7 42.2 - - + +
145K LYS* 5.0 14.4 - - + -
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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
----------------------------------------------------------
80K TRP* 3.9 5.6 - - + -
81K GLU* 4.1 32.3 - - + +
82K SER* 3.1 28.3 + - - +
84K LEU* 1.3 81.6 - - + +
86K ALA* 1.3 56.7 + - - +
88K GLU* 3.4 26.1 + - + +
89K ALA* 3.0 28.2 + - - +
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Residues in contact with ALA 86 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27K MET* 3.4 19.0 - - - +
30K TYR* 3.9 23.8 - - + -
31K PHE* 3.9 14.1 - - + -
80K TRP* 3.7 22.4 - - + +
82K SER 3.0 11.9 + - - +
83K PRO 3.5 9.2 - - - +
84K LEU 3.2 0.4 - - - -
85K LYS* 1.3 76.4 - - - +
87K PHE* 1.3 58.3 + - - +
89K ALA* 3.4 1.7 + - - +
90K ALA* 3.1 19.8 + - - +
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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
----------------------------------------------------------
31K PHE* 3.7 9.4 - + - -
39K PHE* 3.7 28.7 - + - -
42K TRP* 4.5 12.8 - + + -
43K MET* 3.6 31.4 - - + -
83K PRO 3.2 7.9 + - - +
84K LEU 3.3 2.2 + - - +
86K ALA* 1.3 76.9 - - - +
88K GLU* 1.3 60.8 + - - +
89K ALA 3.3 0.2 - - - -
90K ALA* 3.6 4.8 - - + +
91K TYR* 3.0 23.7 + - - +
134K VAL* 3.8 33.0 - - + +
137K ILE* 3.7 39.5 - - + -
138K LEU* 3.4 18.2 - - - +
141K LEU* 3.7 28.3 - - + -
158K LEU* 4.9 2.0 - - + -
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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 LEU* 2.9 40.8 + - + +
85K LYS* 3.5 38.4 + - + +
86K ALA 3.3 0.2 - - - -
87K PHE* 1.3 76.5 - - - +
89K ALA* 1.3 57.5 + - - +
91K TYR* 3.6 2.3 + - - +
92K GLU* 3.2 28.3 + - - +
138K LEU* 3.7 23.6 - - + -
142K LYS* 4.1 14.4 - - - -
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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
----------------------------------------------------------
23K LEU* 5.2 1.0 - - - +
27K MET* 4.3 6.6 - - + +
80K TRP* 3.5 30.7 - - + +
85K LYS 3.0 13.0 + - - +
86K ALA 3.7 2.9 - - - +
87K PHE 3.3 0.2 - - - -
88K GLU* 1.3 75.8 - - - +
90K ALA* 1.3 58.5 + - - +
92K GLU* 3.8 10.6 + - - +
93K HIS* 3.2 24.8 + - - +
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Residues in contact with ALA 90 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K TYR* 4.1 14.9 + - + -
27K MET* 3.8 21.5 - - + -
43K MET* 4.8 6.5 - - + -
86K ALA 3.1 16.4 + - - +
87K PHE* 3.6 9.6 - - - +
88K GLU 3.3 0.2 - - - -
89K ALA* 1.3 75.9 - - - +
91K TYR* 1.3 59.1 + - - +
92K GLU 3.3 0.2 - - - -
93K HIS* 3.2 7.0 + - - +
94K GLU* 2.8 31.8 + - - +
134K VAL* 4.1 12.6 - - + -
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Residues in contact with TYR 91 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87K PHE 3.0 17.4 + - - +
88K GLU 4.0 2.7 - - - +
90K ALA* 1.3 73.0 - - - +
92K GLU* 1.3 64.4 + - - +
94K GLU* 3.4 4.5 + - + +
95K LYS* 3.2 52.6 + - + +
131K GLU* 3.7 39.0 + - + -
134K VAL* 3.7 9.8 - - + +
135K LYS* 3.5 50.5 - - + +
138K LEU* 3.6 18.6 - - + -
1R MET* 3.7 23.8 - - + +
65R ASN* 4.6 4.3 - - - +
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Residues in contact with GLU 92 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88K GLU 3.2 19.5 + - - +
89K ALA* 3.9 10.1 - - - +
91K TYR* 1.3 75.7 - - - +
93K HIS* 1.3 58.4 + - - +
95K LYS* 3.6 16.7 + - - +
96K PHE* 3.2 22.9 + - - +
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Residues in contact with HIS 93 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16K ARG 5.3 0.2 - - - -
19K TYR* 3.7 31.1 - + - -
20K SER* 3.0 31.7 + - - -
23K LEU* 3.5 25.6 - - + +
24K TYR* 4.2 15.0 - + - +
89K ALA 3.2 14.7 + - - +
90K ALA* 3.2 10.0 + - - +
92K GLU* 1.3 76.3 - - - +
94K GLU* 1.3 58.8 + - - +
96K PHE* 3.2 32.2 + + - +
97K ILE* 3.0 30.5 + - + +
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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
----------------------------------------------------------
20K SER* 5.7 0.5 + - - -
24K TYR* 2.5 29.7 + - - +
50K GLU* 3.8 4.3 - - - +
90K ALA 2.8 15.2 + - - +
91K TYR* 3.7 9.0 - - + +
92K GLU 3.4 0.4 - - - -
93K HIS* 1.3 80.4 - - - +
95K LYS* 1.3 57.0 + - - +
97K ILE* 3.6 6.4 + - - +
98K SER* 2.8 31.5 + - - -
127K GLN* 2.8 31.0 + - - +
130K GLU* 3.2 39.0 - - - +
131K GLU* 4.1 15.5 + - + +
134K VAL* 4.0 19.5 - - + +
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Residues in contact with LYS 95 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91K TYR* 3.2 48.4 + - + +
92K GLU* 3.9 15.4 - - - +
93K HIS 3.3 0.2 - - - -
94K GLU* 1.3 73.9 - - - +
96K PHE* 1.3 59.2 + - - +
98K SER* 3.9 2.0 - - - -
99K LYS* 3.1 29.6 + - - +
131K GLU* 4.2 24.0 - - - +
1R MET* 5.3 19.2 - - + +
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Residues in contact with PHE 96 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16K ARG* 4.2 31.9 - - + -
19K TYR* 6.0 1.1 - + - -
92K GLU 3.2 14.5 + - - +
93K HIS* 3.2 39.0 + + - +
95K LYS* 1.3 75.6 - - - +
97K ILE* 1.3 70.0 + - + +
99K LYS* 3.6 9.1 + - + +
100K SER* 3.2 22.9 + - - -
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Residues in contact with ILE 97 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13K GLN* 3.7 7.9 - - - +
16K ARG* 4.0 25.8 - - + +
17K GLU* 3.7 19.3 - - - +
20K SER* 3.4 25.6 - - - +
50K GLU* 6.0 0.4 - - - +
93K HIS* 3.0 31.5 + - + +
94K GLU* 4.0 9.9 - - - +
96K PHE* 1.3 85.0 - - + +
98K SER* 1.3 60.3 + - - +
100K SER* 2.7 19.9 + - - +
101K ILE* 2.9 22.3 + - + +
127K GLN* 3.7 26.9 - - - +
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Residues in contact with SER 98 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94K GLU 2.8 17.2 + - - -
95K LYS* 3.9 4.9 - - - -
96K PHE 3.4 0.2 - - - -
97K ILE* 1.3 76.1 - - - +
99K LYS* 1.3 57.6 + - - +
101K ILE* 3.3 9.9 + - - +
102K TYR* 3.0 50.5 + - - -
127K GLN* 3.4 26.0 + - - +
131K GLU* 2.7 29.0 + - - -
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Residues in contact with LYS 99 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95K LYS 3.1 20.8 + - - +
96K PHE* 3.7 9.0 - - + +
97K ILE 3.2 0.2 - - - -
98K SER* 1.3 77.2 - - - +
100K SER* 1.3 58.2 + - - +
102K TYR* 3.2 16.8 + - + +
103K GLU* 3.1 50.3 + - + +
----------------------------------------------------------
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Residues in contact with SER 100 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13K GLN* 2.9 24.3 + - - +
16K ARG* 3.8 25.9 + - - -
96K PHE* 3.2 14.4 + - - -
97K ILE* 2.7 24.1 + - - -
99K LYS* 1.3 74.2 - - - +
101K ILE* 1.3 62.3 + - - +
103K GLU* 3.8 15.8 + - - +
104K LEU* 3.3 26.5 + - - +
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Residues in contact with ILE 101 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13K GLN* 3.7 34.1 - - + +
17K GLU* 4.5 4.5 - - - +
57K PHE* 4.2 9.9 - - + -
97K ILE* 2.9 26.0 + - + +
98K SER* 3.4 11.9 - - - +
99K LYS 3.2 0.2 - - - -
100K SER* 1.3 76.3 - - - +
102K TYR* 1.3 65.7 + - + +
104K LEU* 3.2 7.3 + - + +
105K ALA* 3.0 20.6 + - - +
120K LEU* 4.5 11.5 - - + +
123K PHE* 4.2 18.2 - - + +
124K ILE* 3.7 38.8 - - + +
127K GLN* 4.5 8.7 - - + -
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Residues in contact with TYR 102 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98K SER* 3.0 39.1 + - - -
99K LYS* 3.2 18.1 + - + +
101K ILE* 1.3 78.2 - - + +
103K GLU* 1.3 57.9 + - + +
105K ALA* 3.2 5.2 + - - +
106K ALA* 2.9 28.8 + - - +
124K ILE* 4.4 12.8 - - + -
64R ARG* 3.1 18.2 + - - -
112R LYS 5.4 3.1 - - - -
113R ASP* 5.0 2.3 + - - -
114R TYR* 3.6 49.5 - + + -
115R SER* 2.6 30.0 + - - -
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Residues in contact with GLU 103 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16K ARG* 5.9 0.9 + - - -
99K LYS* 3.1 37.2 + - + +
100K SER* 4.0 13.8 - - - +
101K ILE 3.3 0.2 - - - -
102K TYR* 1.3 74.3 - - + +
104K LEU* 1.3 61.2 + - - +
106K ALA* 3.7 8.0 - - - +
107K LEU* 3.0 28.2 + - - +
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Residues in contact with LEU 104 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6K MET* 4.4 11.4 - - - +
9K ALA* 3.8 37.0 - - + +
10K LEU* 4.3 14.8 - - + -
13K GLN* 3.7 36.8 - - + +
16K ARG* 5.6 0.9 - - - +
57K PHE* 4.4 3.4 - - + -
100K SER 3.3 16.9 + - - +
101K ILE* 3.2 10.6 + - + +
103K GLU* 1.3 76.4 - - - +
105K ALA* 1.3 58.5 + - - +
107K LEU* 3.3 6.6 + - + +
108K ALA* 2.9 29.1 + - - +
120K LEU* 3.7 27.5 - - + +
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Residues in contact with ALA 105 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101K ILE 3.0 12.7 + - - +
102K TYR* 3.2 9.8 + - - +
104K LEU* 1.3 77.3 - - - +
106K ALA* 1.3 56.8 + - - +
108K ALA* 3.3 2.5 + - - +
109K GLU* 3.1 33.7 + - - +
117K ARG* 3.8 22.1 - - - +
120K LEU* 3.8 10.5 - - + +
124K ILE* 4.3 16.6 - - + -
114R TYR* 4.1 15.9 - - + -
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Residues in contact with ALA 106 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102K TYR 2.9 14.4 + - - +
103K GLU* 3.7 9.2 - - - +
104K LEU 3.3 0.2 - - - -
105K ALA* 1.3 75.3 - - - +
107K LEU* 1.3 58.9 + - - +
109K GLU* 3.6 4.8 + - - +
110K GLU* 3.2 28.8 + - - +
112R LYS* 5.8 8.1 - - + +
114R TYR* 3.4 20.6 + - + +
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Residues in contact with LEU 107 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5K ARG* 4.4 28.0 - - + +
6K MET* 3.9 18.3 - - + +
9K ALA* 3.9 28.7 - - + -
103K GLU 3.0 19.3 + - - +
104K LEU* 3.6 7.6 - - + +
105K ALA 3.3 0.2 - - - -
106K ALA* 1.3 74.8 - - - +
108K ALA* 1.3 59.5 + - - +
110K GLU* 3.6 17.1 + - - +
111K GLU* 3.1 41.1 + - + +
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Residues in contact with ALA 108 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6K MET* 3.7 17.4 - - + +
104K LEU 2.9 16.4 + - - +
105K ALA* 3.6 7.6 - - - +
107K LEU* 1.3 78.5 - - - +
109K GLU* 1.3 56.6 + - - +
112K LYS* 3.2 5.0 + - - -
113K ASP 2.9 34.4 + - - +
116K THR* 4.4 4.0 - - - -
117K ARG* 3.8 34.0 - - + +
120K LEU* 4.4 2.0 - - + -
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Residues in contact with GLU 109 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105K ALA 3.1 18.0 + - - +
106K ALA* 4.0 5.5 - - - +
107K LEU 3.3 0.2 - - - -
108K ALA* 1.3 75.4 - - - +
110K GLU* 1.3 63.4 + - - +
112K LYS* 3.5 16.1 + - - +
117K ARG* 3.0 35.7 + - + +
114R TYR* 2.8 33.7 + - - -
----------------------------------------------------------
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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
----------------------------------------------------------
106K ALA 3.2 17.6 + - - +
107K LEU* 3.9 20.0 - - - +
109K GLU* 1.3 78.9 - - - +
111K GLU* 1.3 62.2 + - + +
112K LYS* 3.2 6.8 + - - +
----------------------------------------------------------
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Residues in contact with GLU 111 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3K SER* 2.6 35.0 + - - -
5K ARG* 3.6 28.2 - - - +
6K MET* 3.4 24.4 + - + +
107K LEU* 3.1 24.8 + - + +
108K ALA 4.4 2.0 - - - +
110K GLU* 1.3 78.8 - - + +
112K LYS* 1.3 69.2 + - - +
113K ASP* 3.3 6.7 + - + +
----------------------------------------------------------
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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