Contacts of the helix formed by residues 83 - 112 (chain R) in PDB entry 1RZZ
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 GLY 83 (chain R).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67R TYR 3.7 12.0 + - - -
68R PRO 3.7 4.5 - - - -
69R PRO* 3.4 31.6 - - - +
80R LEU 4.3 1.0 + - - -
81R ALA 3.6 3.8 + - - -
82R LYS* 1.3 74.0 - - - +
84R GLY* 1.3 63.5 + - - +
85R LEU 3.4 2.0 - - - -
86R TRP* 3.2 6.9 + - - +
87R GLN* 2.9 25.1 + - - +
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Residues in contact with GLY 84 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78R ALA* 3.2 22.8 + - - +
79R PRO 2.9 13.0 + - - -
80R LEU* 3.7 9.0 - - - -
82R LYS 3.5 0.6 + - - -
83R GLY* 1.3 76.5 - - - +
85R LEU* 1.3 61.8 + - - +
87R GLN* 3.0 23.6 + - - +
88R ILE* 3.1 19.6 + - - +
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Residues in contact with LEU 85 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48R LEU* 3.5 26.0 - - + +
51R TRP* 3.4 44.0 - - + -
52R SER* 3.4 35.9 - - - +
55R LEU* 4.1 7.4 - - + -
66R VAL* 4.7 2.9 - - + -
80R LEU* 2.7 45.3 + - + +
81R ALA* 5.5 0.2 - - - -
84R GLY* 1.3 71.4 - - - +
86R TRP* 1.3 63.3 + - - +
88R ILE* 3.3 6.1 + - + +
89R ILE* 2.9 33.7 + - + +
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Residues in contact with TRP 86 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66R VAL* 3.1 36.3 - - + +
67R TYR 3.3 19.3 - - - +
68R PRO* 3.4 25.7 - - + +
69R PRO* 4.0 0.4 - - + -
83R GLY 3.2 7.0 + - - +
85R LEU* 1.3 78.3 - - - +
87R GLN* 1.3 93.9 + - + +
89R ILE* 3.1 4.7 + - - +
90R THR* 2.9 50.2 + - + -
132R VAL* 3.4 28.3 - - + -
142R TRP* 4.3 17.9 - + + -
145R ALA* 3.5 30.1 - - + -
146R PHE 3.3 14.4 + - - -
148R TYR* 3.2 34.3 - + - -
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Residues in contact with GLN 87 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69R PRO* 3.6 11.4 - - + +
76R GLY 3.2 22.0 - - - +
77R GLY* 3.9 4.8 - - - -
78R ALA 3.6 17.6 + - - +
83R GLY 2.9 9.8 + - - +
84R GLY* 3.2 24.4 - - - +
86R TRP* 1.3 99.4 - - + +
88R ILE* 1.3 61.2 + - + +
90R THR* 3.6 3.4 + - - -
91R ILE* 3.4 28.9 + - + +
142R TRP* 3.3 23.4 + - + -
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Residues in contact with ILE 88 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44R LEU* 5.3 4.5 - - + -
48R LEU* 3.3 28.3 - - + -
80R LEU* 3.7 29.4 - - + -
84R GLY 3.1 12.0 + - - +
85R LEU* 3.8 5.4 - - + +
87R GLN* 1.3 75.7 - - + +
89R ILE* 1.3 66.8 + - - +
91R ILE* 3.3 12.9 + - + +
92R CYS* 3.0 33.0 + - - -
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Residues in contact with ILE 89 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45R GLY* 4.1 9.0 - - - +
48R LEU* 3.5 34.1 - - + +
49R ILE* 3.7 39.3 - - + -
66R VAL* 3.7 27.4 - - + -
85R LEU* 2.9 25.0 + - + +
86R TRP 3.6 3.1 - - - +
88R ILE* 1.3 72.8 - - - +
90R THR* 1.3 56.0 + - - +
92R CYS* 3.1 8.4 + - - +
93R ALA* 2.8 33.3 + - - +
148R TYR* 4.3 9.2 - - + -
2006R BPH 4.1 15.7 - - + -
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Residues in contact with THR 90 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86R TRP* 2.9 36.5 + - + -
87R GLN 3.6 7.4 - - - +
89R ILE* 1.3 77.7 - - - +
91R ILE* 1.3 59.7 + - + +
93R ALA* 3.3 2.8 + - - +
94R THR* 2.9 38.1 + - - +
128R TYR* 3.6 13.4 + - + +
129R LEU* 5.9 1.1 - - + -
132R VAL* 3.2 29.6 - - + -
133R LEU* 6.3 0.7 - - + -
142R TRP* 6.2 1.8 - - + -
148R TYR* 2.7 18.0 + - - -
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Residues in contact with ILE 91 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41R PHE* 4.7 8.6 - - + -
87R GLN* 3.4 18.6 + - + +
88R ILE* 3.3 15.6 + - + +
89R ILE 3.2 0.2 - - - -
90R THR* 1.3 78.7 - - + +
92R CYS* 1.3 59.7 + - - +
94R THR* 3.7 6.2 - - - -
95R GLY* 3.0 24.4 + - - -
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Residues in contact with CYS 92 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41R PHE* 3.2 38.6 - - + +
44R LEU* 3.6 38.8 - - - -
45R GLY* 3.9 11.4 - - - -
48R LEU* 4.2 5.8 - - - -
88R ILE* 3.0 30.0 + - - -
89R ILE 3.1 6.7 + - - +
91R ILE* 1.3 75.8 - - - +
93R ALA* 1.3 60.4 + - - +
95R GLY 3.4 0.2 + - - -
96R ALA* 2.9 26.3 + - - +
2006R BPH 4.0 2.5 - - + -
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Residues in contact with ALA 93 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89R ILE 2.8 17.2 + - - +
90R THR* 3.3 5.8 + - - +
92R CYS* 1.3 74.2 - - - +
94R THR* 1.3 65.5 + - - +
96R ALA* 3.1 1.9 + - - -
97R PHE* 2.9 39.7 + - + -
128R TYR* 3.6 15.9 - - - +
2006R BPH 3.6 40.3 - - + +
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Residues in contact with THR 94 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90R THR* 2.9 20.3 + - - +
91R ILE* 3.7 8.0 - - - -
93R ALA* 1.3 75.6 - - - +
95R GLY* 1.3 61.5 + - - +
97R PHE* 3.8 8.8 - - - +
98R VAL* 2.9 48.9 + - + +
125R ILE* 5.4 1.1 - - + -
128R TYR* 3.8 5.5 - - - -
129R LEU* 3.6 34.8 - - + +
133R LEU* 6.5 0.2 - - + -
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Residues in contact with GLY 95 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41R PHE* 3.5 23.7 - - - -
91R ILE 3.0 16.2 + - - -
92R CYS 3.7 3.1 - - - -
93R ALA 3.2 0.2 - - - -
94R THR* 1.3 78.2 - - - +
96R ALA* 1.3 56.4 + - - +
98R VAL* 4.1 4.4 - - - +
99R SER* 2.8 34.3 + - - -
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Residues in contact with ALA 96 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38R THR* 3.7 18.1 - - + +
41R PHE* 3.7 16.5 - - + +
42R ALA 4.2 5.2 - - - +
92R CYS 2.9 16.8 + - - +
93R ALA 3.7 3.4 - - - +
95R GLY* 1.3 73.9 - - - +
97R PHE* 1.3 63.3 + - - +
99R SER* 4.4 2.9 - - - -
100R TRP* 3.0 28.2 + - - +
2006R BPH 3.8 29.0 - - + +
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Residues in contact with PHE 97 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93R ALA* 2.9 34.7 + - + +
94R THR* 3.8 3.4 - - - +
96R ALA* 1.3 75.5 - - + +
98R VAL* 1.3 66.1 + - - +
100R TRP* 2.9 14.0 + - - +
101R ALA* 2.9 10.2 + - - +
121R PHE* 3.4 8.4 - - + -
125R ILE* 3.9 23.3 - - + -
128R TYR* 3.8 33.7 - + - -
2002R BCL 3.6 68.0 - - + -
2006R BPH 3.5 34.3 - - + -
2004S BCL 4.2 6.3 - - + -
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Residues in contact with VAL 98 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94R THR* 2.9 34.4 + - + +
95R GLY* 4.1 4.3 - - - +
97R PHE* 1.3 76.6 - - - +
99R SER* 1.3 58.5 + - - +
101R ALA* 3.2 6.8 + - + +
102R LEU* 2.9 46.1 + - + +
125R ILE* 4.0 21.5 - - + +
129R LEU* 5.7 1.3 - - + -
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Residues in contact with SER 99 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34R PHE* 3.5 20.1 - - - +
37R ALA* 3.7 16.1 - - - +
38R THR* 3.2 23.1 - - - -
41R PHE* 4.0 5.9 - - - -
95R GLY 2.8 23.9 + - - -
96R ALA 3.9 1.8 - - - -
98R VAL* 1.3 74.9 - - - +
100R TRP* 1.3 56.2 + - - +
102R LEU* 4.1 7.8 - - - +
103R ARG* 2.7 36.2 + - - +
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Residues in contact with TRP 100 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29R PHE* 5.8 2.5 - + - -
38R THR* 3.5 24.4 + - + -
96R ALA 3.0 14.8 + - - +
97R PHE 2.9 10.4 + - - +
99R SER* 1.3 75.6 - - - +
101R ALA* 1.3 62.0 + - - +
103R ARG* 3.3 23.9 + - - +
104R GLU* 3.0 39.5 + - - +
121R PHE* 3.8 16.8 - + - -
2006R BPH 3.0 62.0 + + + +
255S THR* 3.3 40.3 - - + +
256S MET* 4.6 0.7 - - - -
2008S U10 3.7 32.3 - - + -
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Residues in contact with ALA 101 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97R PHE 2.9 10.3 + - - +
98R VAL* 3.2 10.8 - - + +
100R TRP* 1.3 76.6 - - - +
102R LEU* 1.3 57.3 + - + +
104R GLU* 2.8 30.1 + - - +
105R VAL* 3.1 16.1 + - - +
118R PRO* 3.8 14.2 - - + +
121R PHE* 3.8 22.2 - - + -
122R ALA* 5.6 2.0 - - + +
125R ILE* 4.3 8.3 - - + -
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Residues in contact with LEU 102 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16R LEU* 4.1 8.6 - - + +
34R PHE* 3.4 50.3 - - + -
98R VAL* 2.9 36.1 + - + +
99R SER* 3.6 2.5 - - - +
101R ALA* 1.3 77.9 - - + +
103R ARG* 1.3 61.5 + - - +
105R VAL* 3.3 23.4 + - + +
106R GLU* 3.3 17.3 + - - +
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Residues in contact with ARG 103 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29R PHE* 4.0 9.5 - - - +
30R TYR* 2.9 28.3 + - + +
31R VAL 3.6 8.9 + - - +
34R PHE* 3.9 14.3 - - + +
35R GLY* 3.6 24.4 - - - -
38R THR* 4.9 3.8 - - - -
99R SER 2.7 21.1 + - - +
100R TRP* 3.4 35.4 + - - +
101R ALA 3.1 0.2 - - - -
102R LEU* 1.3 71.7 - - - +
104R GLU* 1.3 66.7 + - - +
106R GLU* 3.1 17.8 + - - +
107R ILE* 3.1 21.1 + - + +
254S TRP 2.7 29.5 + - - -
255S THR* 3.1 32.7 + - - +
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Residues in contact with GLU 104 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100R TRP* 3.0 26.0 + - + +
101R ALA* 2.8 13.6 + - - +
103R ARG* 1.3 75.3 - - + +
105R VAL* 1.3 56.1 + - - +
107R ILE* 3.3 11.6 + - - +
108R CYS* 3.0 32.0 + - - -
117R ILE* 3.9 0.4 - - - +
118R PRO* 3.4 30.6 - - + +
121R PHE* 4.2 3.8 - - - +
2006R BPH 2.6 40.2 - - - +
251S PHE* 3.7 25.6 - - + -
252S TRP* 4.1 1.0 - - - -
255S THR* 3.8 18.1 - - + +
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Residues in contact with VAL 105 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16R LEU* 3.9 21.1 - - + -
101R ALA 3.1 14.0 + - - +
102R LEU* 3.4 20.4 - - + +
103R ARG 3.1 0.2 - - - -
104R GLU* 1.3 74.9 - - - +
106R GLU* 1.3 65.0 + - - +
108R CYS* 3.1 9.5 + - - +
109R ARG* 3.0 29.1 + - - +
115R TYR* 3.9 21.5 - - + -
118R PRO* 4.0 18.4 - - + -
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Residues in contact with GLU 106 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14R GLY 3.8 15.0 - - - +
15R THR* 3.4 10.7 - - - -
16R LEU* 2.7 42.2 + - + +
17R VAL 3.7 7.6 + - - +
30R TYR* 4.0 15.5 + - + +
31R VAL 4.6 0.9 - - - +
32R GLY* 3.5 27.5 - - - -
33R PHE* 3.8 4.4 + - - +
34R PHE* 3.9 18.9 + - + +
102R LEU 3.5 13.2 - - - +
103R ARG* 3.1 9.3 + - - +
105R VAL* 1.3 76.3 - - - +
107R ILE* 1.3 63.1 + - - +
109R ARG* 3.2 5.2 + - - +
110R LYS* 3.0 23.2 + - - +
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Residues in contact with ILE 107 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30R TYR* 3.7 26.0 - - + -
103R ARG* 3.1 24.1 + - + +
104R GLU* 3.5 10.5 - - - +
106R GLU* 1.3 78.8 - - - +
108R CYS* 1.3 61.2 + - - +
110R LYS* 3.5 6.0 + - - +
111R LEU* 3.1 37.0 + - + +
251S PHE* 3.7 26.7 - - + +
254S TRP* 3.9 36.6 - - + +
255S THR* 3.3 23.6 - - - +
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Residues in contact with CYS 108 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104R GLU 3.0 25.7 + - - -
105R VAL 3.1 7.6 + - - +
107R ILE* 1.3 78.1 - - - +
109R ARG* 1.3 52.3 + - - +
111R LEU 3.1 1.0 + - - -
112R GLY* 2.7 32.6 + - - -
113R ILE* 3.2 24.1 + - + +
114R GLY 3.3 24.2 - - - +
115R TYR* 3.7 20.2 - - + -
117R ILE* 5.5 1.1 - - - -
118R PRO* 4.2 14.8 - - - -
251S PHE* 3.7 17.9 - - - -
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Residues in contact with ARG 109 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14R GLY* 2.9 40.0 + - - +
15R THR 4.3 4.9 + - - -
16R LEU* 3.1 35.4 - - - +
105R VAL* 3.0 23.4 + - - +
106R GLU* 3.5 6.1 - - - +
108R CYS* 1.3 77.2 - - - +
110R LYS* 1.3 62.4 + - - +
111R LEU 3.3 0.5 + - - -
112R GLY* 3.4 10.4 + - - -
115R TYR* 3.6 24.5 + - + +
111T PRO* 4.3 2.8 - - - +
242T MET* 3.8 14.5 - - + +
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Residues in contact with LYS 110 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9R TYR* 4.2 9.7 - - - +
11R VAL* 2.6 35.3 + - + +
13R GLY 2.9 35.3 + - - +
14R GLY* 4.2 1.0 - - - -
23R ASP* 3.0 26.3 + - - -
25R TRP* 3.6 11.6 - - + -
30R TYR* 3.6 25.1 - - - -
106R GLU 3.0 14.3 + - - +
107R ILE* 3.9 6.1 - - - +
108R CYS 3.3 0.2 - - - -
109R ARG* 1.3 76.1 - - - +
111R LEU* 1.3 58.4 + - - +
254S TRP* 3.4 30.3 - - + -
110T GLY 4.8 0.9 - - - -
111T PRO* 3.2 23.4 - - - +
242T MET* 4.0 3.8 - - - -
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Residues in contact with LEU 111 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9R TYR* 4.1 24.5 - - + -
107R ILE* 3.1 29.2 + - + +
108R CYS 3.9 2.5 - - - +
110R LYS* 1.3 80.1 - - - +
112R GLY* 1.3 58.3 + - - +
113R ILE* 4.2 14.1 - - + -
247S ARG* 2.8 49.5 + - + +
250S LEU* 4.1 11.9 - - + -
251S PHE* 3.6 36.8 - - + +
254S TRP* 3.7 28.3 - - + -
111T PRO* 4.1 4.7 - - - +
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Residues in contact with GLY 112 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108R CYS 2.7 14.0 + - - -
109R ARG* 3.4 10.9 + - - -
110R LYS 3.5 0.2 - - - -
111R LEU* 1.3 75.8 - - - +
113R ILE* 1.3 53.9 + - - -
228S ARG* 2.7 33.1 + - - -
229S PHE* 3.9 1.6 - - - -
247S ARG* 4.2 4.0 - - - -
111T PRO* 4.2 10.1 - - - +
238T ALA* 3.8 15.7 - - - +
241T LEU* 4.6 7.4 - - - +
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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