Contacts of the helix formed by residues 22 - 50 (chain J) in PDB entry 2UX1
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 22 (chain J).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21J SER* 1.3 93.2 - - - +
23J ALA* 1.3 58.3 + - - +
24J ASP 3.3 3.4 - - - -
25J SER* 3.3 4.8 + - - -
26J LYS* 2.9 40.9 + - + +
83J LEU* 3.8 30.3 - - + +
139J GLU* 3.2 34.1 - - + +
140J GLY 5.1 0.4 - - - +
141J ASP* 3.8 28.3 - - + +
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Residues in contact with ALA 23 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21J SER 3.7 8.3 - - - +
22J LEU* 1.3 77.8 - - - +
24J ASP* 1.3 63.7 + - - +
26J LYS* 3.7 13.4 - - - +
27J ALA* 2.9 27.5 + - - +
139J GLU* 3.7 2.0 + - - -
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Residues in contact with ASP 24 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23J ALA* 1.3 80.3 - - - +
25J SER* 1.3 60.0 + - - +
27J ALA* 3.5 7.3 + - - +
28J VAL* 3.1 24.8 + - - +
135J VAL* 3.4 25.6 - - + +
139J GLU* 3.1 18.6 + - + +
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Residues in contact with SER 25 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22J LEU* 3.6 6.7 - - - -
24J ASP* 1.3 75.1 - - - +
26J LYS* 1.3 65.1 + - - +
28J VAL* 3.3 12.0 - - - +
29J LEU* 3.0 29.0 + - - +
83J LEU* 5.2 1.1 - - - -
135J VAL* 3.5 2.4 - - - +
136J SER* 3.3 30.4 + - - +
139J GLU* 2.7 28.6 + - - +
141J ASP* 4.0 20.9 - - - +
144J THR* 4.6 4.0 - - - +
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Residues in contact with LYS 26 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22J LEU* 2.9 29.7 + - + +
23J ALA* 3.7 11.9 - - - +
25J SER* 1.3 74.8 - - - +
27J ALA* 1.3 64.3 + - - +
29J LEU* 3.3 6.8 + - - +
30J ASN* 3.0 24.1 + - - +
80J LEU* 3.6 30.0 - - + +
83J LEU* 3.4 43.4 + - + +
84J GLY 3.8 14.3 + - - -
85J GLY* 4.1 9.1 - - - +
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Residues in contact with ALA 27 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23J ALA 2.9 19.3 + - - +
24J ASP* 3.7 8.3 - - - +
25J SER 3.4 0.2 - - - -
26J LYS* 1.3 75.3 - - - +
28J VAL* 1.3 57.5 + - - +
30J ASN* 3.3 7.6 + - - +
31J GLN* 2.9 27.8 + - - +
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Residues in contact with VAL 28 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24J ASP 3.1 17.3 + - - +
25J SER* 3.3 20.6 - - - +
27J ALA* 1.3 73.8 - - - +
29J LEU* 1.3 65.8 + - - +
31J GLN* 3.2 6.5 + - + +
32J ALA* 2.9 23.7 + - - +
128J LEU* 3.8 20.2 - - + +
131J LYS* 4.5 6.5 - - + -
132J GLY* 3.7 41.1 - - - +
135J VAL* 4.5 9.9 - - + -
148J PHE* 3.9 11.0 - - + -
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Residues in contact with LEU 29 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25J SER 3.0 22.9 + - - +
26J LYS* 3.6 7.0 - - - +
28J VAL* 1.3 75.1 - - - +
30J ASN* 1.3 58.3 + - - +
32J ALA* 3.2 6.9 - - - +
33J VAL* 3.0 30.2 + - - +
76J MET* 3.8 36.7 - - + +
79J ARG* 3.9 26.2 - - + -
80J LEU* 4.0 22.0 - - + +
83J LEU* 4.1 10.3 - - + -
144J THR* 4.0 18.2 - - + +
147J ILE* 5.2 3.6 - - + -
148J PHE* 3.8 25.1 - - + -
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Residues in contact with ASN 30 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26J LYS 3.0 16.8 + - - +
27J ALA* 3.6 6.7 - - - +
29J LEU* 1.3 74.6 - - - +
31J GLN* 1.3 65.1 + - - +
33J VAL* 3.2 13.5 + - - +
34J ALA 3.2 9.9 + - - -
80J LEU* 3.5 16.0 - - + +
86J ALA 3.6 16.0 + - - -
87J PRO* 3.3 7.3 - - - +
88J PHE* 2.9 74.0 + - + +
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Residues in contact with GLN 31 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27J ALA 2.9 13.8 + - - +
28J VAL* 3.4 13.2 - - + +
30J ASN* 1.3 73.8 - - - +
32J ALA* 1.3 59.3 + - - +
34J ALA* 3.2 4.8 + - - +
35J ASP* 2.9 63.0 + - - +
88J PHE* 4.4 5.5 - - - -
97J ASN* 3.0 32.3 + - - +
99J GLN* 3.9 9.0 - - - +
124J TYR* 3.9 7.1 + - - +
128J LEU* 4.2 11.9 - - + -
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Residues in contact with ALA 32 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28J VAL 2.9 12.4 + - - +
29J LEU* 3.2 13.0 - - - +
31J GLN* 1.3 76.0 - - - +
33J VAL* 1.3 53.1 + - - +
36J LEU* 2.7 44.6 + - + +
76J MET* 3.7 28.7 - - - -
128J LEU* 3.8 21.2 - - + +
129J PHE* 4.5 1.3 - - + -
148J PHE* 4.5 7.6 - - + -
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Residues in contact with VAL 33 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29J LEU 3.0 20.6 + - - +
30J ASN* 3.2 20.6 + - - +
32J ALA* 1.3 74.7 - - - +
34J ALA* 1.3 56.7 + - - +
36J LEU* 4.9 0.2 - - - -
37J SER* 2.8 34.0 + - - -
73J LEU* 3.4 20.8 - - + +
76J MET* 4.5 1.6 - - + -
77J SER* 3.7 35.9 - - - +
80J LEU* 5.2 0.7 - - + -
87J PRO* 4.7 1.8 - - + -
88J PHE* 3.6 25.6 - - + +
94J PHE* 3.7 10.5 - - + -
48L TRP* 4.2 8.5 - - + -
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Residues in contact with ALA 34 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30J ASN 3.2 12.0 + - - +
31J GLN* 3.6 6.7 - - - +
33J VAL* 1.3 75.9 - - - +
35J ASP* 1.3 64.9 + - - +
37J SER* 3.2 5.2 + - - -
38J VAL* 3.1 25.8 + - - +
88J PHE* 4.1 5.1 - - + -
94J PHE* 3.6 35.5 - - - +
97J ASN* 3.9 15.0 - - + -
98J SER* 3.9 13.7 - - - +
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Residues in contact with ASP 35 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31J GLN* 2.9 31.2 + - - +
32J ALA 3.9 0.2 - - - +
34J ALA* 1.3 77.0 - - - +
36J LEU* 1.3 53.0 + - - +
38J VAL 3.4 0.3 + - - -
39J ALA* 2.8 35.6 + - - +
98J SER* 2.6 28.3 + - - -
99J GLN 2.9 15.2 + - - -
100J LEU* 3.5 6.6 + - + +
124J TYR* 2.7 38.6 + - + -
125J LEU* 4.3 3.4 - - + -
128J LEU* 3.3 25.0 - - + +
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Residues in contact with LEU 36 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32J ALA* 2.7 32.2 + - + +
33J VAL* 4.9 0.2 - - - -
35J ASP* 1.3 71.9 - - - +
37J SER* 1.3 57.9 + - - +
39J ALA* 4.1 2.0 - - - -
40J HIS* 2.8 26.7 + - - +
69J ILE* 3.3 37.1 - - + +
72J TYR* 4.0 4.7 - - + -
73J LEU* 3.7 41.1 - - + +
76J MET* 3.8 25.6 - - + -
125J LEU* 4.0 20.0 - - + -
129J PHE* 3.8 22.7 - - + -
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Residues in contact with SER 37 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33J VAL 2.8 19.2 + - - -
34J ALA 3.2 8.5 + - - -
36J LEU* 1.3 75.4 - - - +
38J VAL* 1.3 64.1 + - - +
40J HIS* 3.6 6.0 + - - +
41J SER* 3.2 20.1 + - - -
73J LEU* 3.6 17.9 - - - +
94J PHE* 3.6 42.8 - - - -
91L LEU* 4.6 6.6 - - - +
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Residues in contact with VAL 38 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34J ALA 3.1 14.0 + - - +
35J ASP 4.0 0.9 - - - +
37J SER* 1.3 74.3 - - - +
39J ALA* 1.3 67.5 + - - +
41J SER* 3.1 7.2 + - - -
42J ILE* 2.9 24.6 + - + +
94J PHE 4.1 6.5 - - - +
95J SER* 4.6 4.0 - - - -
98J SER* 3.6 24.5 - - - +
100J LEU* 3.7 28.7 - - + +
102J GLU* 3.6 29.4 - - + +
91L LEU* 3.8 23.1 - - + -
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Residues in contact with ALA 39 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35J ASP 2.8 22.2 + - - +
36J LEU* 3.4 6.5 + - - +
38J VAL* 1.3 71.7 - - - +
40J HIS* 1.3 63.7 + - - +
42J ILE* 3.2 5.8 + - - +
43J LEU* 2.9 28.6 + - + +
69J ILE* 4.7 6.5 - - + -
100J LEU* 3.7 9.3 - - + +
121J VAL* 3.7 27.6 - - + +
125J LEU* 3.9 16.6 - - + -
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Residues in contact with HIS 40 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36J LEU 2.8 19.8 + - - +
37J SER* 3.7 9.6 - - - +
38J VAL 3.3 0.2 - - - -
39J ALA* 1.3 73.1 - - - +
41J SER* 1.3 62.2 + - - +
43J LEU* 3.2 9.9 + - - +
44J HIS* 2.9 26.1 + + - -
66J MET* 3.8 25.9 + - + +
69J ILE* 4.1 7.0 - - + +
70J ASP* 2.7 42.1 + - - +
73J LEU* 5.4 1.6 - - + -
1173J ZN 2.1 36.2 - - - -
70L ASP* 5.8 3.6 - - - -
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Residues in contact with SER 41 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37J SER 3.2 10.4 + - - -
38J VAL* 3.1 7.5 + - - -
40J HIS* 1.3 85.7 - - - +
42J ILE* 1.3 61.4 + - - +
44J HIS* 3.4 5.6 + - - +
45J GLN* 3.1 22.3 + - - +
102J GLU* 2.6 27.5 + - - -
89L SER 3.6 12.7 + - - +
90L THR* 3.9 5.5 - - - -
91L LEU* 4.0 17.7 + - - +
94L PHE* 4.1 8.7 - - - -
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Residues in contact with ILE 42 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38J VAL* 2.9 32.4 + - + +
39J ALA* 3.6 5.6 - - - +
41J SER* 1.3 74.3 - - - +
43J LEU* 1.3 67.4 + - + +
45J GLN* 3.1 14.9 + - - +
46J VAL* 3.0 26.6 + - + +
100J LEU* 4.2 11.7 - - + -
101J LYS 4.2 7.2 - - - +
102J GLU* 4.2 16.2 - - + -
117J ARG* 3.7 49.6 - - + +
118J VAL* 6.0 1.3 - - - -
121J VAL* 3.8 24.7 - - + -
89L SER 5.6 0.2 - - - -
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Residues in contact with LEU 43 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39J ALA* 2.9 18.8 + - + +
40J HIS* 3.6 6.3 - - - +
42J ILE* 1.3 78.0 - - + +
44J HIS* 1.3 58.4 + - - +
46J VAL* 3.4 6.6 + - - +
47J HIS* 2.9 27.4 + - - +
62J MET* 3.8 26.8 - - - +
65J TYR* 3.9 20.9 - - + -
66J MET* 3.6 23.6 - - + +
69J ILE* 3.8 29.4 - - + -
118J VAL* 3.9 27.4 - - + -
121J VAL* 5.6 4.0 - - + -
122J PHE* 4.3 11.7 - - + -
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Residues in contact with HIS 44 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40J HIS* 2.9 13.4 + + - +
41J SER* 3.8 7.0 - - - +
42J ILE 3.2 0.2 - - - -
43J LEU* 1.3 74.0 - - - +
45J GLN* 1.3 66.1 + - - +
47J HIS* 3.3 12.1 + + - -
48J TRP* 3.0 61.8 + + + -
63J ASP* 5.4 1.0 + - - -
66J MET* 3.7 15.9 - - - +
1173J ZN 2.0 38.8 - - - -
70L ASP* 5.5 2.9 - - + -
73L LEU* 4.7 8.9 - - + +
74L ASP* 2.7 33.5 + - + -
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Residues in contact with GLN 45 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41J SER 3.1 14.2 + - - +
42J ILE* 3.1 17.5 + - - +
44J HIS* 1.3 72.8 - - - +
46J VAL* 1.3 58.8 + - + +
48J TRP* 3.0 3.8 + - - -
49J TYR* 2.8 52.4 + - + +
102J GLU* 5.8 0.2 - - - +
103J VAL* 2.8 37.4 + - - +
104J LEU 4.4 1.7 - - - +
105J GLY* 3.4 12.6 - - - +
106J ASP 5.3 0.4 - - - -
114J GLN* 5.6 2.8 - - - +
117J ARG* 5.4 5.7 + - - -
89L SER* 2.7 47.8 + - - +
90L THR* 3.8 2.0 - - - +
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Residues in contact with VAL 46 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42J ILE* 3.0 24.4 + - + +
43J LEU 3.6 8.1 - - - +
45J GLN* 1.3 77.9 - - + +
47J HIS* 1.3 62.6 + - - +
50J MET* 3.1 51.1 + - + +
62J MET* 3.8 18.2 - - + -
114J GLN* 3.6 40.6 - - + +
115J LEU* 5.4 0.7 - - + +
117J ARG* 4.7 5.6 - - + -
118J VAL* 4.2 19.5 - - + -
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Residues in contact with HIS 47 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B TRP* 5.0 0.2 - - - -
43J LEU 2.9 13.7 + - - +
44J HIS* 3.3 14.6 - + - +
45J GLN 3.2 0.2 - - - -
46J VAL* 1.3 76.5 - - - +
48J TRP* 1.3 76.9 + + - +
50J MET* 4.4 6.9 - - - +
55J PHE* 4.5 2.1 - - - -
59J HIS* 2.8 73.3 + + - -
62J MET* 3.8 11.9 - - + +
63J ASP* 3.3 25.9 + - - -
66J MET* 3.8 11.9 - - + -
74L ASP* 3.5 6.3 - - - -
78L GLU* 2.9 9.2 + - - -
1173L ZN 2.0 36.8 - - - -
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Residues in contact with TRP 48 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B TRP* 4.7 5.9 + - - -
44J HIS* 3.0 52.0 + + + +
45J GLN 3.0 2.4 + - - +
47J HIS* 1.3 93.8 - + - +
49J TYR* 1.3 68.4 + - + +
50J MET 3.4 3.4 + - - +
55J PHE* 5.6 0.7 - - - -
59J HIS* 5.2 1.1 - + - -
107J TYR* 3.8 8.3 - - - -
33L VAL* 4.2 12.6 - - + -
73L LEU* 4.2 12.1 - - + -
74L ASP* 2.9 19.5 + - - -
77L SER* 2.9 36.2 + - - -
78L GLU* 3.6 15.6 + - + -
81L ILE* 3.5 28.3 - - + +
87L PRO* 4.0 13.5 - - + -
88L PHE 3.4 21.3 - - - -
89L SER* 4.1 18.8 - - - -
94L PHE* 4.7 6.5 - + - -
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Residues in contact with TYR 49 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45J GLN* 2.8 37.5 + - + +
48J TRP* 1.3 78.7 - - + +
50J MET* 1.3 64.3 + - - +
51J ARG* 3.4 2.4 + - - +
105J GLY* 3.6 21.7 + - - -
106J ASP 3.6 17.3 - - - +
107J TYR* 3.5 72.2 - + - +
109J VAL 5.1 0.5 - - - +
114J GLN* 4.2 11.6 + - - +
86L ALA* 3.2 12.1 - - + +
87L PRO* 2.7 52.0 + - + -
89L SER* 3.7 17.0 + - - -
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Residues in contact with MET 50 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B TRP* 5.5 0.7 + - - -
164B ALA* 3.8 2.6 - - - +
46J VAL* 3.1 45.1 + - + +
47J HIS 4.4 1.8 - - - +
48J TRP 3.4 3.0 - - - +
49J TYR* 1.3 76.9 - - - +
51J ARG* 1.3 63.9 + - - +
55J PHE* 3.4 38.4 - - + +
58J TRP* 3.7 31.0 - - + +
59J HIS* 3.4 28.5 - - - -
62J MET* 4.3 4.9 - - + -
111J ILE* 3.0 29.8 - - + -
114J GLN* 4.4 12.8 - - + +
115J LEU* 4.8 7.6 - - + -
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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).
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