Contacts of the helix formed by residues 50 - 76 (chain B) in PDB entry 5O9G
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 ILE 50 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A PHE* 4.2 11.0 - - + -
119A ILE* 3.7 36.6 - - + +
120A MET 4.0 6.7 - - - +
121A PRO* 3.9 32.8 - - + -
124A ILE* 5.1 12.9 - - + +
34B ILE* 5.9 0.4 - - + -
46B ILE* 5.5 7.0 - - + -
47B SER* 3.6 28.5 - - - +
48B GLY 2.8 9.5 + - - +
49B LEU* 1.3 81.5 - - - +
51B TYR* 1.3 59.0 + - + +
52B GLU 3.2 1.6 - - - -
53B GLU* 3.4 7.0 + - - +
54B THR* 2.4 42.1 + - - +
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Residues in contact with TYR 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B GLN* 6.1 1.3 - - - -
30B THR 5.0 2.0 - - - +
31B LYS* 3.7 50.6 + - + -
34B ILE* 3.6 27.1 - - + +
46B ILE* 5.6 8.3 - - + -
48B GLY* 3.0 25.8 + - - -
49B LEU* 5.5 5.4 - - + +
50B ILE* 1.3 76.7 - - + +
52B GLU* 1.3 77.1 + - + +
54B THR* 3.4 9.0 - - - -
55B ARG* 2.9 70.5 + - - +
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Residues in contact with GLU 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B ILE* 6.0 2.4 - - - +
27B GLN* 5.3 2.6 - - - +
49B LEU* 5.1 18.8 - - + +
50B ILE 3.2 1.2 - - - +
51B TYR* 1.3 91.7 - - + +
53B GLU* 1.3 60.4 + - - +
55B ARG* 3.2 34.3 + - - +
56B GLY* 3.6 7.3 + - - -
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Residues in contact with GLU 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A PRO* 3.4 29.3 - - - +
124A ILE* 3.9 20.6 - - + +
125A GLN* 2.5 35.2 + - - -
128A ARG* 5.8 0.5 - - - -
49B LEU 4.7 8.1 + - - +
50B ILE* 3.4 9.1 + - - +
52B GLU* 1.3 76.9 - - - +
54B THR* 1.3 60.0 + - - +
56B GLY* 3.0 5.1 + - - +
57B VAL* 2.9 33.5 + - + +
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Residues in contact with THR 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LEU* 4.2 17.5 - - + -
103A LEU* 6.1 1.6 - - + -
104A PHE* 3.7 35.8 - - + -
124A ILE* 5.4 4.7 - - - +
34B ILE* 3.8 17.9 - - + -
37B LEU* 6.1 0.4 - - + -
50B ILE* 2.4 28.6 + - - +
51B TYR* 3.2 11.9 + - - -
53B GLU* 1.3 76.4 - - - +
55B ARG* 1.3 56.3 + - - +
57B VAL* 3.1 11.7 + - + +
58B LEU* 2.9 27.9 + - + +
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Residues in contact with ARG 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B ILE* 3.3 51.0 + - + +
27B GLN* 4.3 21.3 + - - +
29B ILE* 2.5 40.2 + - + +
30B THR* 4.0 11.5 + - - +
31B LYS 4.7 0.2 - - - +
34B ILE* 4.8 7.4 - - + -
51B TYR* 2.9 59.7 + - - +
52B GLU* 3.2 29.0 + - - +
53B GLU 3.2 0.2 - - - -
54B THR* 1.3 74.4 - - - +
56B GLY* 1.3 57.7 + - - +
58B LEU* 3.5 8.5 + - - +
59B LYS* 2.9 30.4 + - - +
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Residues in contact with GLY 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B GLU 3.6 4.5 + - - -
53B GLU* 3.0 11.5 + - - -
55B ARG* 1.3 77.6 - - - +
57B VAL* 1.3 59.2 + - - +
59B LYS* 3.1 8.6 + - - +
60B VAL* 2.9 36.0 + - - +
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Residues in contact with VAL 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A TYR* 5.6 0.2 - - + -
100A LEU* 5.4 7.2 - - + -
103A LEU* 3.8 29.4 - - + -
124A ILE* 4.1 25.1 - - + -
128A ARG* 3.4 30.1 - - - +
53B GLU* 2.9 25.9 + - + +
54B THR* 3.1 12.5 + - + +
56B GLY* 1.3 76.0 - - - +
58B LEU* 1.3 57.0 + - - +
60B VAL* 3.4 3.3 + - - +
61B PHE* 2.9 35.9 + - + +
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Residues in contact with LEU 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ILE* 5.5 3.6 - - + -
67A PHE* 5.3 10.5 - - + -
70A LEU* 5.5 5.8 - - + -
96A SER* 3.9 16.4 - - - -
99A TYR* 3.3 34.5 - - + +
100A LEU* 4.0 23.9 - - + +
29B ILE* 5.0 20.0 - - + -
54B THR 2.9 15.0 + - - +
55B ARG* 3.8 9.2 - - + +
57B VAL* 1.3 77.2 - - - +
59B LYS* 1.3 50.9 + - - +
61B PHE* 3.4 2.9 - - - +
62B LEU* 2.6 58.0 + - + +
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Residues in contact with LYS 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A LEU* 5.4 0.7 - - - -
74A ILE* 3.7 31.4 - - + -
26B ILE* 4.0 28.1 - - - +
55B ARG 2.9 16.0 + - - +
56B GLY* 3.1 11.8 + - - +
58B LEU* 1.3 77.2 - - - +
60B VAL* 1.3 60.4 + - + +
62B LEU* 4.3 4.7 - - + -
63B GLU* 2.9 64.8 + - + +
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Residues in contact with VAL 60 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A ARG* 3.8 26.2 - - - +
133A GLU 5.6 1.1 - - - +
56B GLY 2.9 21.0 + - - +
57B VAL* 4.0 3.8 - - - +
59B LYS* 1.3 77.9 - - + +
61B PHE* 1.3 63.0 + - + +
62B LEU 3.2 3.8 + - - -
63B GLU* 4.0 5.3 + - - +
64B ASN* 3.3 21.4 + - - +
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Residues in contact with PHE 61 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A TYR* 2.9 50.6 + + + -
103A LEU* 3.9 19.5 - - + -
128A ARG* 3.3 33.9 - - + -
131A ARG* 4.8 7.2 - - - -
133A GLU* 3.3 47.1 - - + -
57B VAL* 2.9 27.3 + - + +
58B LEU 3.4 3.4 - - - -
60B VAL* 1.3 79.9 - - + +
62B LEU* 1.3 55.1 + - - +
64B ASN* 3.3 22.6 - - - +
65B VAL* 4.0 9.4 - - - +
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Residues in contact with LEU 62 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A PHE* 5.1 7.9 - - + -
70A LEU* 5.5 5.6 - - + -
71A VAL* 4.0 26.2 - - + -
74A ILE* 4.5 16.6 - - + -
92A LEU* 5.1 15.9 - - + -
96A SER* 5.7 2.0 - - - -
99A TYR* 4.8 6.1 - - - +
58B LEU* 2.6 38.5 + - + +
59B LYS* 3.8 3.8 - - - +
60B VAL 3.1 0.8 + - - -
61B PHE* 1.3 80.3 - - - +
63B GLU* 1.3 61.9 - - + +
64B ASN* 3.2 2.9 - - - -
65B VAL* 3.3 5.6 + - + +
66B ILE* 2.9 56.3 + - + +
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Residues in contact with GLU 63 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ILE* 4.4 18.6 - - + +
78A PHE* 5.9 0.7 - - - -
59B LYS* 2.9 51.8 + - + +
60B VAL* 4.0 3.7 + - - +
62B LEU* 1.3 75.7 - - + +
64B ASN* 1.3 58.5 + - - +
66B ILE* 4.1 6.6 - - - +
67B ARG* 2.9 43.9 + - - +
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Residues in contact with ASN 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B VAL* 3.3 20.9 + - - +
61B PHE* 3.3 32.1 - - - +
63B GLU* 1.3 72.9 - - - +
65B VAL* 1.3 83.2 + - - +
67B ARG* 3.3 9.5 + - - +
68B ASP* 2.9 39.8 + - - +
93B GLN* 5.5 12.2 - - - +
95C LYS* 6.2 0.2 - - - +
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Residues in contact with VAL 65 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A LEU* 3.8 28.3 - - + -
99A TYR* 5.7 3.4 - - + +
61B PHE 4.0 11.7 - - - +
62B LEU* 3.3 9.1 + - + +
64B ASN* 1.3 91.8 + - - +
66B ILE* 1.3 61.7 + - - +
68B ASP* 3.4 7.3 + - - +
69B ALA* 2.9 29.7 + - + +
86B VAL* 4.8 4.5 - - + -
89B ALA* 4.6 10.3 - - + +
90B LEU* 3.8 31.4 - - + -
93B GLN* 5.7 8.3 - - + -
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Residues in contact with ILE 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A VAL* 3.7 33.4 - - + +
74A ILE* 4.5 16.8 - - + -
75A ALA* 3.7 28.3 - - + +
78A PHE* 5.2 6.3 - - + -
84A PHE* 5.3 3.4 - - + -
92A LEU* 4.9 8.5 - - + -
62B LEU* 2.9 46.8 + - + +
63B GLU* 4.1 4.5 - - - +
65B VAL* 1.3 76.5 - - + +
67B ARG* 1.3 59.0 + - - +
69B ALA* 3.2 7.1 + - + +
70B VAL* 2.9 35.9 + - + +
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Residues in contact with ARG 67 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A PHE* 3.6 43.8 - - + -
63B GLU* 2.9 33.9 + - - +
64B ASN* 3.6 8.5 - - - +
66B ILE* 1.3 76.3 - - - +
68B ASP* 1.3 63.3 + - - +
70B VAL* 3.3 3.3 + - - +
71B THR* 2.8 37.5 + - - +
97D LEU* 6.0 0.9 - - + -
100D PRO 4.0 19.0 + - - -
101D GLY* 5.6 1.2 - - - -
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Residues in contact with ASP 68 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASN* 2.9 26.5 + - - +
65B VAL* 3.8 3.1 - - - +
67B ARG* 1.3 82.6 - - - +
69B ALA* 1.3 57.3 + - - +
71B THR* 3.2 4.6 + - - -
72B TYR* 2.9 41.0 + - + -
89B ALA* 3.6 22.4 - - + +
92B ARG* 4.6 7.4 + - - -
93B GLN* 3.5 29.1 + - - +
97D LEU* 3.3 24.5 - - + +
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Residues in contact with ALA 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A PHE* 6.1 1.6 - - + -
92A LEU* 6.5 1.3 - - + -
65B VAL* 2.9 19.7 + - + +
66B ILE* 3.2 8.9 + - + +
68B ASP* 1.3 77.4 - - - +
70B VAL* 1.3 54.2 - - + +
72B TYR* 3.8 2.8 - - - -
73B THR* 2.6 38.4 + - - -
81B VAL* 4.4 19.1 - - + -
85B ASP* 3.7 11.6 - - - +
86B VAL* 4.6 17.3 - - + -
89B ALA* 4.5 0.8 - - + +
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Residues in contact with VAL 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A ALA* 5.2 0.4 - - + -
78A PHE* 3.8 24.9 - - + -
79A LYS* 3.8 30.1 - - + -
82A LEU* 3.8 28.9 - - + -
84A PHE* 6.0 1.1 - - + -
66B ILE* 2.9 28.6 + - + +
67B ARG 3.3 4.5 + - - +
69B ALA* 1.3 77.0 - - + +
71B THR* 1.3 58.1 + - - +
73B THR* 3.7 5.4 - - - -
74B GLU* 2.9 36.7 + - + +
81B VAL* 5.2 5.2 - - + -
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Residues in contact with THR 71 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A PHE* 5.7 1.4 - - - -
67B ARG* 2.8 25.1 + - - +
68B ASP 3.2 4.7 + - - -
70B VAL* 1.3 77.0 - - - +
72B TYR* 1.3 58.0 + - - +
74B GLU* 3.3 7.0 + - - +
75B HIS* 2.9 30.5 + - - +
93D THR* 3.3 28.0 - - - +
96D ARG* 5.2 10.5 - - + -
97D LEU* 3.7 28.1 - - + +
----------------------------------------------------------
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Residues in contact with TYR 72 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B ASP* 2.9 33.1 + - + +
69B ALA 4.0 0.2 - - - +
71B THR* 1.3 76.8 - - - +
73B THR* 1.3 62.0 + - - +
75B HIS* 3.6 10.7 + - + +
76B ALA* 3.4 22.9 + - - +
78B ARG* 5.1 1.6 + - - -
85B ASP* 3.7 31.2 - - + -
88B TYR* 4.5 27.6 + + + +
89B ALA* 4.5 16.8 - - + -
92B ARG* 4.0 10.7 - - - +
73D GLU* 3.0 24.1 + - - -
76D ARG* 5.2 3.3 + - - -
77D LEU* 3.3 32.2 - - + +
80D TYR* 4.8 5.2 - + - -
81D ASN* 6.2 0.2 - - - -
93D THR* 5.8 0.2 - - - -
97D LEU* 3.6 22.8 - - + +
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Residues in contact with THR 73 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A LEU* 5.2 5.8 - - + -
69B ALA 2.6 22.5 + - - -
70B VAL* 3.7 5.8 - - - -
72B TYR* 1.3 78.0 - - - +
74B GLU* 1.3 60.8 + - - +
76B ALA 3.3 8.8 + - - -
78B ARG* 2.8 42.3 + - + +
79B LYS* 4.2 2.7 - - - -
80B THR 3.5 34.1 - - - +
81B VAL* 3.4 18.1 - - + +
85B ASP* 2.9 18.4 + - - -
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Residues in contact with GLU 74 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A LYS* 4.9 21.2 + - - +
70B VAL* 2.9 25.4 + - + +
71B THR* 4.0 5.3 - - - +
73B THR* 1.3 78.2 - - - +
75B HIS* 1.3 61.0 + - - +
76B ALA 3.4 0.5 + - - -
77B LYS* 3.5 11.3 + - - -
78B ARG 3.9 7.5 + - - -
89D ARG* 5.2 2.1 + - - -
96D ARG* 5.0 12.8 + - - -
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Residues in contact with HIS 75 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B THR 2.9 18.0 + - - +
72B TYR* 4.0 10.7 + - + +
73B THR 3.2 0.2 - - - -
74B GLU* 1.3 77.6 - - - +
76B ALA* 1.3 57.3 + - - +
77B LYS* 3.2 5.2 + - - +
77D LEU* 4.8 21.0 - - + +
81D ASN* 3.9 19.2 + - - -
83D ARG* 6.1 2.5 - - - -
89D ARG* 3.5 42.4 + - + +
90D GLU* 3.9 26.0 - - + +
93D THR* 3.5 39.0 - - + +
----------------------------------------------------------
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Residues in contact with ALA 76 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B TYR 3.4 13.1 + - - +
73B THR 3.3 1.4 + - - -
74B GLU 3.2 1.4 - - - -
75B HIS* 1.3 75.6 - - - +
77B LYS* 1.3 71.2 + - - +
78B ARG* 3.3 41.6 + - + +
81D ASN* 3.8 23.3 - - - +
----------------------------------------------------------
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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