Contacts of the helix formed by residues 43 - 69 (chain B) in PDB entry 1XJZ
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 43 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B GLN* 5.7 2.0 - - + +
42B VAL* 1.3 80.0 - - - +
44B ARG* 1.3 59.9 + - - +
45B ASP* 3.7 8.4 + - - +
46B GLY* 3.1 16.0 + - - +
47B PHE* 2.9 27.7 + - - +
155B LEU* 4.0 4.0 - - - -
221B LEU* 4.9 6.6 - - - +
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Residues in contact with ARG 44 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B THR* 1.3 73.9 - - - +
45B ASP* 1.3 71.5 + - - +
46B GLY 3.1 0.2 + - - -
47B PHE* 3.2 2.1 + - - +
48B LYS* 2.9 50.4 + - + +
95B PHE* 5.2 3.4 + - - -
96B TRP* 3.4 54.2 + - + +
155B LEU* 3.6 20.6 - - + +
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Residues in contact with ASP 45 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B THR* 3.4 7.0 + - - +
44B ARG* 1.3 87.7 - - - +
46B GLY* 1.3 60.9 + - - +
48B LYS* 3.9 13.9 + - - +
49B LEU* 3.1 29.0 + - + +
221B LEU* 4.0 16.2 - - + -
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Residues in contact with GLY 46 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B PHE* 3.8 7.7 - - - -
42B VAL* 4.2 7.6 - - - -
43B THR* 3.1 13.1 + - - -
44B ARG 3.1 0.8 - - - -
45B ASP* 1.3 78.4 - - - +
47B PHE* 1.3 62.4 - - - +
49B LEU* 3.2 5.6 + - - +
50B VAL* 3.1 25.3 + - - +
221B LEU* 3.7 27.5 - - - +
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Residues in contact with PHE 47 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B PHE* 3.8 28.5 - + - -
42B VAL* 3.8 7.9 - - + +
43B THR 2.9 15.2 + - - +
44B ARG 3.2 3.6 + - - +
46B GLY* 1.3 74.6 - - - +
48B LYS* 1.3 58.2 + - + +
50B VAL* 3.2 9.0 + - + +
51B MET* 2.9 53.9 + - + +
96B TRP* 3.5 39.0 - + - -
151B ALA* 3.7 24.7 - - + -
155B LEU* 3.9 13.7 - - + -
157B LEU* 6.5 0.2 - - + -
164B LEU* 3.5 25.6 - - + -
167B PHE* 3.6 23.8 - + - -
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Residues in contact with LYS 48 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B ARG* 2.9 51.7 + - + +
45B ASP* 3.9 12.9 + - - +
47B PHE* 1.3 77.5 - - - +
49B LEU* 1.3 57.1 + - - +
51B MET* 3.2 7.6 + - - +
52B ALA* 2.9 25.5 + - - +
96B TRP* 3.6 43.2 + - + +
97B TYR* 3.3 50.3 + - + +
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Residues in contact with LEU 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B ASP* 3.1 12.6 + - + +
46B GLY 3.2 7.6 + - - +
48B LYS* 1.3 74.8 - - - +
50B VAL* 1.3 54.2 + - - +
52B ALA* 3.3 3.8 + - - +
53B SER* 2.7 38.4 + - - -
97B TYR* 4.3 2.7 - - - +
106B PRO* 3.7 28.9 - - + -
108B THR* 4.9 4.9 - - + -
111B MET* 4.0 16.5 - - + +
217B LEU* 4.1 25.1 - - + +
220B LEU* 4.5 16.4 - - + -
221B LEU* 3.8 33.4 - - + -
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Residues in contact with VAL 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B PHE* 3.2 44.2 - - + -
37B PHE* 4.5 15.3 - - + -
46B GLY 3.1 6.1 + - - +
47B PHE* 3.2 14.6 + - + +
49B LEU* 1.3 77.4 - - - +
51B MET* 1.3 61.7 + - - +
53B SER* 3.2 8.3 + - - -
54B LEU* 3.0 45.4 + - + +
167B PHE* 5.9 2.7 - - + -
214B PHE* 6.1 2.0 - - + -
217B LEU* 4.5 6.1 - - + -
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Residues in contact with MET 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B PHE* 2.9 47.3 + - + +
48B LYS* 3.2 8.0 + - - +
50B VAL* 1.3 76.6 - - - +
52B ALA* 1.3 63.4 + - - +
54B LEU* 3.5 15.6 + - - +
55B TYR* 3.1 22.2 + - - +
89B LEU* 4.0 6.3 - - + +
92B ASP* 3.3 35.9 - - + +
93B LEU* 3.8 16.3 - - + +
96B TRP* 4.5 10.5 - - + +
97B TYR* 5.6 1.3 - - + -
163B GLY 3.7 15.3 - - - +
166B PHE* 4.1 12.1 - - + -
167B PHE* 4.0 17.0 - - + -
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Residues in contact with ALA 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B LYS 2.9 15.7 + - - +
49B LEU 3.6 4.9 - - - +
51B MET* 1.3 73.7 - - - +
53B SER* 1.3 67.3 + - - +
55B TYR* 3.2 9.0 + - - +
56B HIS* 3.1 29.0 + - - +
93B LEU* 4.5 6.9 - - - +
97B TYR* 4.1 4.7 - - + +
105B ILE* 4.5 7.9 - - + -
106B PRO* 4.0 39.3 - - + +
111B MET* 4.6 1.1 - - + -
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Residues in contact with SER 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU 2.7 21.3 + - - -
50B VAL* 3.4 9.6 - - - -
52B ALA* 1.3 77.7 - - - +
54B LEU* 1.3 63.4 + - - +
56B HIS* 3.2 2.6 + - - +
57B ILE* 3.0 29.1 + - - +
111B MET* 3.4 31.2 - - - +
213B LEU* 3.6 32.2 - - - +
217B LEU* 4.0 5.1 - - - +
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Residues in contact with LEU 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B VAL* 3.0 38.3 + - + +
51B MET* 3.7 12.8 - - - +
53B SER* 1.3 78.2 - - - +
55B TYR* 1.3 56.9 + - - +
57B ILE* 3.7 7.4 - - + +
58B TYR* 2.8 40.3 + - + +
89B LEU* 3.7 12.3 - - + -
136B ARG* 4.1 35.0 - - - +
140B ASP* 4.5 1.3 - - - +
166B PHE* 3.6 38.6 - - + -
167B PHE* 5.2 2.5 - - + -
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Residues in contact with TYR 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B MET 3.1 9.5 + - - +
52B ALA 3.2 5.4 + - - +
54B LEU* 1.3 76.5 - - - +
56B HIS* 1.3 72.2 + + - +
58B TYR* 3.8 0.9 - - - +
59B VAL* 2.9 62.1 + - + +
86B LYS* 4.8 4.5 - - + -
89B LEU* 3.7 24.4 - - + +
90B GLU* 3.9 18.0 + - + -
93B LEU* 3.3 26.2 - - + -
101B TRP* 3.5 25.2 - + - -
102B GLN* 3.6 21.8 + - + -
105B ILE* 3.7 31.0 - - + -
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Residues in contact with HIS 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ALA 3.1 16.7 + - - -
53B SER* 3.7 5.6 - - - +
55B TYR* 1.3 91.9 - + - +
57B ILE* 1.3 63.0 + - + +
59B VAL* 3.5 5.4 + - + +
60B ALA* 3.2 17.0 + - - +
105B ILE* 3.6 26.7 - - + +
106B PRO 2.9 30.2 + - - -
107B TYR* 3.6 37.5 - + + +
111B MET* 3.7 10.3 - - + -
115B VAL* 3.3 26.9 - - + +
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Residues in contact with ILE 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B SER* 3.0 23.2 + - - +
54B LEU* 3.7 10.1 - - + +
56B HIS* 1.3 78.9 - - + +
58B TYR* 1.3 58.8 + - - +
60B ALA 3.3 1.7 + - - -
61B LEU* 2.9 27.7 + - + +
111B MET* 5.3 4.3 - - - +
114B TYR* 3.3 63.0 - - + -
115B VAL* 4.5 3.8 - - + -
118B LEU* 3.5 11.8 - - + +
136B ARG* 3.9 30.7 - - + +
210B ASN* 5.0 0.4 - - - +
213B LEU* 4.1 15.9 - - + -
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Residues in contact with TYR 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B LEU* 2.8 31.8 + - + +
55B TYR 4.1 0.7 - - - +
57B ILE* 1.3 72.5 - - - +
59B VAL* 1.3 66.5 + - - +
61B LEU* 4.2 15.0 - - + -
62B GLU* 2.9 53.7 + - - +
85B ARG* 3.8 13.8 - - + +
86B LYS* 4.6 5.8 - - - +
89B LEU* 3.7 20.6 - - + -
136B ARG* 3.5 24.4 + - + -
137B TYR* 3.3 38.2 - + - -
140B ASP* 2.4 37.8 + - - +
166B PHE* 3.5 15.9 - + - -
169B PHE* 5.2 0.2 - - - -
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Residues in contact with VAL 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B TYR* 2.9 64.4 + - + +
56B HIS* 3.7 6.7 - - + +
57B ILE 3.3 0.2 - - - -
58B TYR* 1.3 76.4 - - - +
60B ALA* 1.3 65.3 + - + +
62B GLU* 4.1 0.7 - - - +
63B GLU* 3.1 46.3 + - + +
86B LYS* 4.2 29.4 - - + +
119B HIS* 6.1 0.4 - - - +
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Residues in contact with ALA 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B HIS 3.2 14.4 + - - +
57B ILE 3.7 3.1 - - - +
59B VAL* 1.3 79.5 - - + +
61B LEU* 1.3 64.7 + - - +
63B GLU* 3.3 2.3 + - - +
64B GLU* 3.1 28.9 + - - +
115B VAL* 3.9 14.1 - - + -
118B LEU* 3.9 19.3 - - + -
119B HIS* 3.6 30.2 - - + +
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Residues in contact with LEU 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ILE* 2.9 19.0 + - + +
58B TYR* 4.0 15.3 - - + +
60B ALA* 1.3 77.3 - - - +
62B GLU* 1.3 58.4 + - - +
64B GLU* 3.3 5.4 + - - +
65B ILE* 2.9 45.8 + - + +
118B LEU* 3.9 23.7 - - + +
129B LEU* 4.1 20.9 - - + -
132B HIS* 4.3 0.7 - - + +
133B ALA* 4.2 18.6 - - + +
136B ARG* 3.9 32.1 - - + -
137B TYR* 3.9 20.9 - - + +
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Residues in contact with GLU 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B TYR* 2.9 28.0 + - + +
59B VAL* 4.5 1.3 - - - +
61B LEU* 1.3 74.0 - - + +
63B GLU* 1.3 65.9 + - - +
65B ILE* 3.8 8.5 - - + +
66B GLU* 3.0 31.0 + - + +
84B HIS* 3.3 13.3 - - - +
85B ARG 2.8 24.0 + - - -
86B LYS* 3.1 36.9 + - + +
137B TYR* 2.7 29.6 + - - +
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Residues in contact with GLU 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B VAL* 3.1 35.0 + - + +
60B ALA 3.3 4.2 + - - +
62B GLU* 1.3 76.1 - - - +
64B GLU* 1.3 61.5 + - - +
66B GLU* 3.4 6.4 + - - +
67B ARG* 3.0 27.5 + - - +
86B LYS* 6.0 6.3 - - + -
119B HIS* 3.4 25.8 + - + -
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Residues in contact with GLU 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B ALA 3.1 13.4 + - - +
61B LEU* 3.7 7.4 - - - +
63B GLU* 1.3 76.8 - - - +
65B ILE* 1.3 64.9 - - - +
67B ARG* 2.8 45.4 + - - -
68B ASN* 2.8 29.6 + - - +
118B LEU* 3.5 22.2 - - + +
119B HIS* 2.7 33.6 + - - +
122B GLY* 3.1 26.2 - - - -
129B LEU* 3.6 13.9 - - + +
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Residues in contact with ILE 65 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B LEU* 2.9 33.7 + - + +
62B GLU* 3.8 8.5 - - + +
63B GLU 3.3 0.2 - - - -
64B GLU* 1.3 76.9 - - - +
66B GLU* 1.3 54.8 + - - +
68B ASN 3.2 1.0 + - - -
69B LYS* 2.7 34.1 + - - +
74B PHE* 3.5 42.3 - - + -
78B TYR* 3.6 23.8 - - + -
129B LEU* 3.8 13.0 - - + -
133B ALA* 4.6 0.4 - - + -
137B TYR* 3.9 34.1 - - + +
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Residues in contact with GLU 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B GLU* 3.0 22.9 + - + +
63B GLU* 3.7 6.5 - - - +
64B GLU 3.2 0.2 - - - -
65B ILE* 1.3 79.1 - - + +
67B ARG* 1.3 60.5 + - - +
69B LYS* 3.3 46.0 + - - +
78B TYR* 2.5 39.9 + - - -
80B PRO* 4.6 3.8 - - - +
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Residues in contact with ARG 67 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B GLU* 3.0 18.0 + - - +
64B GLU* 2.8 42.4 + - - +
65B ILE 3.3 0.2 - - - -
66B GLU* 1.3 77.8 - - - +
68B ASN* 1.3 73.8 + - - +
69B LYS* 4.0 0.3 + - - +
70B GLU 5.2 0.7 + - - -
122B GLY 3.8 8.9 + - - -
123B ARG* 3.1 50.6 - - - +
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Residues in contact with ASN 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B GLU 2.8 24.5 + - - +
65B ILE 3.4 2.5 - - - +
67B ARG* 1.3 91.9 + - - +
69B LYS* 1.3 62.4 + - - +
70B GLU 3.2 3.4 - - - -
71B SER* 3.0 28.6 + - - -
74B PHE* 3.8 20.6 - - + +
122B GLY* 3.0 24.8 + - - +
126B PRO* 3.1 34.8 - - + +
129B LEU* 4.4 5.9 - - + +
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Residues in contact with LYS 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B ILE 2.7 18.4 + - - +
66B GLU* 3.3 35.9 + - - +
67B ARG 3.6 0.4 - - - -
68B ASN* 1.3 73.8 - - - +
70B GLU* 1.3 80.9 + - + +
74B PHE* 4.8 4.7 - - - -
75B ALA* 3.4 23.9 - - - +
78B TYR* 3.4 52.3 - - + +
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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