Contacts of the helix formed by residues 70 - 101 (chain A) in PDB entry 2UYO
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 ASP 70 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ALA* 1.3 58.1 + - + +
72A GLU* 3.3 15.6 + - - +
73A ALA* 3.1 42.6 + - - +
74A ALA* 2.7 37.9 + - - +
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Residues in contact with ALA 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A ASP* 1.3 74.2 - - + +
72A GLU* 1.3 56.7 + - + +
74A ALA* 3.7 4.3 - - - +
75A ALA* 2.7 39.4 + - - +
291A GLY 5.4 0.9 - - - -
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Residues in contact with GLU 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A ASP* 3.3 12.7 + - - +
71A ALA* 1.3 80.8 - - + +
73A ALA* 1.3 57.7 + - - +
75A ALA* 3.8 5.7 - - - +
76A MET* 2.9 28.9 + - - +
233A ARG* 4.8 3.9 - - + +
291A GLY 4.1 12.9 - - - +
293A PRO* 3.5 39.1 - - + +
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Residues in contact with ALA 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A ASP* 3.1 32.6 + - - +
72A GLU* 1.3 73.8 - - - +
74A ALA* 1.3 65.0 + - - +
76A MET* 3.1 13.2 + - - +
77A VAL* 3.3 18.4 + - - +
233A ARG* 4.1 30.4 - - + +
236A ARG* 5.3 7.4 - - + -
237A VAL* 5.8 4.3 - - + +
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Residues in contact with ALA 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A ASP 2.7 20.7 + - - +
71A ALA* 3.9 4.3 - - - +
73A ALA* 1.3 73.9 - - - +
75A ALA* 1.3 63.2 + - - +
77A VAL* 3.1 10.7 + - - +
78A GLU* 3.1 22.6 + - - +
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Residues in contact with ALA 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ALA 2.7 24.0 + - - +
72A GLU 3.8 3.6 - - - +
74A ALA* 1.3 72.4 - - - +
76A MET* 1.3 57.6 + - - +
78A GLU* 3.5 12.3 + - - +
79A HIS* 2.9 30.9 + - - +
289A GLY* 6.6 0.2 - - - -
291A GLY* 4.0 10.8 - - - +
292A VAL* 4.0 26.2 - - + +
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Residues in contact with MET 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A GLU 2.9 11.8 + - - +
73A ALA 3.1 10.7 + - - +
75A ALA* 1.3 77.7 - - - +
77A VAL* 1.3 57.1 + - + +
79A HIS* 3.3 6.4 + - - +
80A MET* 2.9 28.3 + - + +
226A TRP* 3.8 37.0 - - + -
229A GLN* 3.9 10.8 - - + +
230A MET* 3.8 37.2 - - + +
233A ARG* 4.1 18.6 - - + -
234A PHE* 5.0 3.6 - - + +
292A VAL* 4.8 3.1 - - + +
293A PRO* 4.0 27.4 - - + +
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Residues in contact with VAL 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A MET 3.5 26.9 - - - +
73A ALA 3.4 16.4 - - - +
74A ALA* 3.1 8.4 + - - +
76A MET* 1.3 72.6 - - + +
78A GLU* 1.3 65.9 + - - +
80A MET* 3.3 27.1 + - + +
81A ARG* 3.2 21.0 + - - +
233A ARG 6.0 0.7 - - - +
234A PHE* 6.1 2.9 - - - -
237A VAL* 4.7 20.0 - - + -
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Residues in contact with GLU 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ALA 3.1 15.7 + - - +
75A ALA* 3.9 10.8 - - - +
77A VAL* 1.3 76.0 - - - +
79A HIS* 1.3 56.9 + - - +
81A ARG* 3.3 27.0 + - - +
82A SER* 2.9 39.9 + - - +
289A GLY* 5.1 11.3 - - - -
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Residues in contact with HIS 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A ALA 2.9 18.0 + - - +
76A MET* 3.5 9.6 - - - +
77A VAL 3.3 0.2 - - - -
78A GLU* 1.3 76.1 + - - +
80A MET* 1.3 60.7 + - - +
82A SER* 4.5 4.7 - - - +
83A TYR* 2.7 45.7 + + + +
226A TRP* 3.7 29.5 + + - -
282A MET* 4.1 29.2 - - + +
288A TRP* 4.2 9.9 - + - -
289A GLY* 5.0 7.9 + - - +
292A VAL* 4.6 11.6 - - + +
301A PHE* 3.6 27.6 - + - -
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Residues in contact with MET 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A MET* 4.0 25.4 - - + +
24A ALA* 4.5 13.5 - - + -
54A TRP* 3.8 39.7 - - + +
57A MET 4.9 6.1 - - - -
76A MET* 2.9 14.9 + - + +
77A VAL* 3.3 35.2 + - + +
79A HIS* 1.3 80.7 - - - +
81A ARG* 1.3 65.3 + - + +
83A TYR* 4.1 2.2 - - - +
84A GLN* 3.1 36.2 + - + +
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Residues in contact with ARG 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ALA* 3.9 25.5 - - + +
27A ALA* 3.9 17.0 - - + -
28A GLU* 3.1 43.3 + - + +
31A ARG* 3.6 37.3 - - - +
77A VAL 3.2 9.3 + - - +
78A GLU* 3.7 33.2 + - - +
79A HIS 3.2 0.4 - - - -
80A MET* 1.3 83.1 - - + +
82A SER* 1.3 59.1 + - - +
84A GLN* 3.2 4.7 + - - +
85A ALA* 2.9 26.7 + - - +
287A ARG* 3.2 17.0 - - - +
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Residues in contact with SER 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A GLU* 2.9 27.5 + - - +
79A HIS* 4.0 1.8 - - - -
81A ARG* 1.3 77.6 + - - +
83A TYR* 1.3 65.4 + - - +
85A ALA* 3.2 1.2 + - - +
86A VAL* 2.9 29.1 + - - +
282A MET* 3.9 7.4 - - - -
287A ARG* 3.0 56.4 + - - +
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Residues in contact with TYR 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A HIS* 2.7 42.9 + + + +
80A MET* 4.1 2.7 - - - +
82A SER* 1.3 72.7 - - - +
84A GLN* 1.3 77.0 + - - +
86A VAL* 3.3 1.8 + - + +
87A ARG* 2.8 45.6 + - - +
217A GLU* 2.5 31.5 + - - -
278A ALA* 3.5 24.7 - - + -
282A MET* 3.6 26.5 - - + +
301A PHE* 5.3 5.8 - + - -
302A ALA* 3.4 20.9 - - + +
304A PHE* 3.6 14.6 - + - -
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Residues in contact with GLN 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A MET* 5.7 2.4 - - - +
21A VAL* 3.4 34.3 - - + +
24A ALA* 3.5 29.4 - - + -
25A ARG* 4.9 6.1 + - + +
80A MET* 3.1 23.7 + - + +
81A ARG 3.7 1.3 - - - +
82A SER 3.2 0.2 - - - -
83A TYR* 1.3 99.9 - - - +
85A ALA* 1.3 57.2 + - - +
87A ARG* 3.3 35.7 + - - +
88A THR* 2.8 39.3 + - - +
186A GLU* 4.9 0.5 - - - +
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Residues in contact with ALA 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ALA 6.1 0.4 - - - -
25A ARG* 6.1 1.1 - - - +
28A GLU* 3.6 37.9 - - + +
35A LEU* 3.6 13.6 - - + +
36A ILE* 3.8 13.4 - - + +
81A ARG 2.9 17.1 + - - +
82A SER 3.2 4.2 + - - +
84A GLN* 1.3 77.4 - - - +
86A VAL* 1.3 55.9 + - - +
88A THR* 3.4 2.1 + - - -
89A ASN* 2.9 30.3 + - - +
287A ARG* 4.1 5.8 - - - +
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Residues in contact with VAL 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A LEU* 3.9 11.2 - - + -
82A SER 2.9 19.9 + - - +
83A TYR 3.8 2.2 - - - +
85A ALA* 1.3 73.6 - - + +
87A ARG* 1.3 61.8 + - - +
89A ASN* 3.3 2.9 + - - +
90A PHE* 2.8 29.3 + - - +
281A GLU* 3.5 32.0 - - + +
282A MET* 3.6 29.4 - - + +
285A VAL* 3.8 14.6 - - + -
287A ARG* 3.7 28.5 - - + -
304A PHE* 4.5 5.4 - - + -
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Residues in contact with ARG 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A VAL* 4.0 22.0 - - - +
25A ARG* 5.1 2.2 - - - +
83A TYR* 2.8 27.2 + - + +
84A GLN* 3.3 35.0 + - - +
86A VAL* 1.3 78.1 - - - +
88A THR* 1.3 62.6 + - - +
90A PHE* 3.2 2.1 + - - +
91A PHE* 3.0 47.0 + - + -
186A GLU* 2.7 34.2 + - - +
187A GLY* 4.2 9.9 - - - -
217A GLU* 2.9 44.5 + - - -
304A PHE* 3.9 20.4 - - + -
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Residues in contact with THR 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A ARG* 3.5 24.3 + - - +
36A ILE* 3.8 26.0 - - + -
84A GLN* 2.8 24.8 + - - -
85A ALA 3.7 3.6 - - - -
87A ARG* 1.3 76.6 - - - +
89A ASN* 1.3 57.9 + - - +
92A ASP* 2.8 42.8 + - - +
116A ARG* 3.3 11.8 + - - +
119A ARG* 3.5 28.0 - - - +
186A GLU* 4.5 8.0 + - - -
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Residues in contact with ASN 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A LEU* 3.7 32.3 + - + +
36A ILE* 3.6 19.8 - - + +
85A ALA 2.9 18.0 + - - +
86A VAL* 3.5 4.9 - - - +
88A THR* 1.3 75.6 - - - +
90A PHE* 1.3 63.0 + - - +
92A ASP* 3.7 4.9 - - - +
93A THR* 2.9 41.1 + - - -
281A GLU* 4.7 2.8 - - - +
284A ARG* 4.5 14.6 + - - -
285A VAL* 4.5 6.9 - - - +
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Residues in contact with PHE 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A VAL 2.8 16.7 + - - +
87A ARG 3.2 4.5 + - - +
89A ASN* 1.3 78.2 + - - +
91A PHE* 1.3 84.9 + + - +
93A THR* 3.3 7.2 + - - +
94A TYR* 3.0 27.2 + - + +
215A ALA* 4.8 2.7 - - + -
276A GLN* 4.5 11.2 - - + -
281A GLU* 3.7 33.6 + - - +
304A PHE* 3.6 46.4 - + + -
306A THR* 3.7 24.5 - - - -
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Residues in contact with PHE 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A ARG* 3.0 44.4 + - + -
90A PHE* 1.3 91.7 - + - +
92A ASP* 1.3 66.0 + - - +
94A TYR* 3.3 6.8 + + - +
95A PHE* 3.0 25.3 + - - +
116A ARG* 3.5 18.3 + - - +
184A LEU* 3.4 30.2 - - + +
186A GLU* 4.0 24.0 - - + -
215A ALA* 3.7 23.3 - - + -
216A VAL 4.0 8.5 - - - -
217A GLU* 3.9 24.2 - - + -
304A PHE* 4.0 17.3 - + - -
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Residues in contact with ASP 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A ILE* 4.1 9.2 - - - +
88A THR* 2.8 26.1 + - - +
89A ASN* 3.7 7.4 - - - +
91A PHE* 1.3 75.3 - - - +
93A THR* 1.3 56.2 + - - +
95A PHE* 3.2 3.6 + - - +
96A ASN* 2.8 43.5 + - - +
116A ARG* 2.7 36.1 + - - +
119A ARG* 2.9 36.3 + - - -
120A LEU* 4.2 12.8 - - + +
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Residues in contact with THR 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A ASN* 2.9 30.7 + - - -
90A PHE* 3.5 6.7 - - - -
92A ASP* 1.3 74.8 - - - +
94A TYR* 1.3 54.3 - - - +
96A ASN* 3.3 8.9 + - + +
97A ASN* 2.8 59.3 + - - +
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Residues in contact with TYR 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A PHE* 3.0 18.5 + - + +
91A PHE* 3.3 13.9 - - + +
93A THR* 1.3 77.7 - - - +
95A PHE* 1.3 83.3 + + - +
97A ASN* 3.4 6.8 + - - +
98A ALA* 3.0 27.7 + - - +
182A ALA* 3.7 2.6 - - + -
183A TRP 2.7 33.6 + - - -
184A LEU* 4.6 6.5 - - + -
213A ARG* 3.0 54.3 + - + +
214A ILE* 3.2 3.1 - - - -
215A ALA* 3.5 31.0 - - + -
306A THR* 4.1 18.4 - - + +
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Residues in contact with PHE 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A PHE 3.0 11.2 + - - +
92A ASP 3.7 6.1 - - - +
94A TYR* 1.3 107.2 - + - +
96A ASN* 1.3 63.4 + - - +
98A ALA* 3.2 5.8 + - - +
99A VAL* 3.0 27.3 + - - +
106A PHE* 3.7 30.3 - + + -
107A VAL 4.4 1.3 - - - -
108A ILE* 3.7 31.2 - - + -
116A ARG* 3.9 17.7 - - - -
120A LEU* 3.8 10.3 - - + -
122A TRP* 3.6 25.6 - + + -
128A VAL* 5.6 0.2 - - + -
182A ALA* 3.7 14.8 - - + -
184A LEU* 3.6 28.5 - - + -
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Residues in contact with ASN 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A ASP* 2.8 34.2 + - - +
93A THR* 3.3 9.2 + - - +
95A PHE* 1.3 72.9 - - - +
97A ASN* 1.3 61.2 + - - +
99A VAL* 3.4 10.3 + - - +
100A ILE* 3.0 34.8 + - + +
120A LEU* 4.1 24.8 - - - +
121A ASP* 5.0 9.2 + - - +
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Residues in contact with ASN 97 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A THR* 2.8 43.2 + - - +
94A TYR* 3.8 5.7 - - - +
96A ASN* 1.3 73.1 - - - +
98A ALA* 1.3 59.6 + - - +
100A ILE* 3.4 20.0 + - - +
101A ASP* 3.0 35.0 + - - +
213A ARG* 4.0 7.6 - - - +
----------------------------------------------------------
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Residues in contact with ALA 98 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A TYR 3.0 15.1 + - - +
95A PHE* 3.2 10.5 + - - +
97A ASN* 1.3 73.9 - - - +
99A VAL* 1.3 64.4 + - - +
101A ASP* 3.1 9.4 + - - +
102A GLY 3.1 0.2 + - - -
103A ILE* 3.0 33.0 + - + +
106A PHE* 3.7 19.5 - - + -
182A ALA* 3.8 16.4 - - + -
213A ARG* 3.6 18.8 - - - +
----------------------------------------------------------
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Residues in contact with VAL 99 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A PHE 3.0 18.1 + - - +
96A ASN* 3.4 12.3 - - - +
97A ASN 3.4 0.2 - - - -
98A ALA* 1.3 75.6 - - - +
100A ILE* 1.3 66.8 + - + +
102A GLY* 3.0 11.6 + - - -
103A ILE 4.0 2.5 - - - +
104A ARG* 3.0 21.6 + - - +
106A PHE* 3.6 18.6 - - + -
121A ASP 4.5 8.3 - - - +
122A TRP* 3.9 20.9 - - + -
123A PRO* 3.6 34.3 - - + -
----------------------------------------------------------
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Residues in contact with ILE 100 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A ASN* 3.0 19.2 + - + +
97A ASN* 3.6 23.8 - - - +
99A VAL* 1.3 78.5 - - + +
101A ASP* 1.3 67.9 + - - +
102A GLY* 3.2 4.5 + - - -
----------------------------------------------------------
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Residues in contact with ASP 101 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A ASN* 3.0 19.2 + - - +
98A ALA 3.1 5.3 + - - +
100A ILE* 1.3 83.3 - - - +
102A GLY* 1.3 57.4 + - - +
103A ILE* 3.5 2.0 - - + -
180A ARG* 3.0 24.0 + - - +
213A ARG* 2.9 40.2 + - - +
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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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