Contacts of the helix formed by residues 73 - 100 (chain A) in PDB entry 1OKC
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 ASN 73 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A LYS 3.7 7.1 + - - -
23A THR* 3.1 25.2 + - - +
26A ALA* 3.5 21.9 - - + +
70A TRP* 3.0 30.6 + - + +
71A ARG 3.3 1.4 + - - -
72A GLY* 1.3 74.8 - - - +
74A LEU* 1.3 67.3 + - - +
75A ALA 3.1 2.7 - - - -
76A ASN* 2.9 50.7 + - - +
77A VAL* 3.3 3.8 + - - +
137A ARG* 4.5 2.2 - - - +
800A CDL 3.2 19.4 + - - +
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Residues in contact with LEU 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A ASN* 1.3 70.6 - - - +
75A ALA* 1.3 64.6 + - - +
77A VAL* 3.1 30.2 + - + +
78A ILE* 3.2 23.9 + - + +
156A LEU* 3.7 13.5 - - + -
800A CDL 2.8 100.1 + - + +
980A PC1 3.4 24.7 - - - +
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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
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72A GLY 3.6 4.1 + - - +
73A ASN 3.1 0.4 - - - -
74A LEU* 1.3 78.3 - - - +
76A ASN* 1.3 62.8 + - - +
78A ILE* 3.3 3.7 + - - +
79A ARG* 3.0 29.6 + - - +
133A LEU* 3.4 38.3 - - + +
137A ARG* 3.7 19.3 - - + +
140A LEU* 6.3 0.2 - - + -
156A LEU* 4.1 19.1 - - + +
800A CDL 4.3 0.4 + - - -
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Residues in contact with ASN 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ALA* 5.6 1.0 - - - +
19A ALA* 5.2 1.0 - - - -
22A LYS* 3.9 45.8 + - + +
29A GLU* 3.1 27.4 + - - +
73A ASN* 2.9 38.5 + - - +
75A ALA* 1.3 80.7 - - - +
77A VAL* 1.3 59.0 + - + +
79A ARG* 4.0 9.9 + - - +
80A TYR* 4.6 4.7 + - - +
137A ARG* 3.5 26.8 + - - +
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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
----------------------------------------------------------
15A GLY 4.8 0.5 - - - +
19A ALA* 3.9 28.7 - - + +
23A THR* 3.4 26.0 - - - +
73A ASN* 3.8 11.9 - - - +
74A LEU* 3.1 29.6 + - + +
76A ASN* 1.3 77.7 - - + +
78A ILE* 1.3 64.5 + - + +
80A TYR* 4.7 5.2 + - - +
81A PHE* 3.5 20.1 - - - -
800A CDL 3.8 37.2 - - + -
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Residues in contact with ILE 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A LEU* 3.2 39.3 + - + +
75A ALA* 3.9 3.6 - - - +
77A VAL* 1.3 79.8 - - + +
79A ARG* 1.3 66.8 + - - +
80A TYR 3.0 4.0 + - - -
81A PHE* 3.1 15.0 + - + -
82A PRO* 3.1 18.5 - - + +
133A LEU* 4.2 20.0 - - + -
156A LEU* 4.0 11.4 - - + -
800A CDL 5.5 1.6 - - + -
980A PC1 3.9 33.7 - - + +
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Residues in contact with ARG 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LYS* 3.4 20.2 - - - +
75A ALA 3.0 16.8 + - - +
76A ASN* 4.3 6.1 - - - +
77A VAL 3.8 0.2 - - - -
78A ILE* 1.3 76.0 - - - +
80A TYR* 1.3 63.5 + - - +
82A PRO* 3.1 5.1 - - - +
83A THR* 2.8 37.9 + - - +
130A VAL* 3.8 23.3 - - + -
133A LEU* 4.1 17.5 - - + +
134A ASP* 3.0 38.8 + - - -
401A CXT 2.6 71.8 + - - +
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Residues in contact with TYR 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ASP 4.4 0.3 + - - -
11A PHE* 3.0 46.3 + + - -
14A GLY* 3.5 27.3 - - - -
15A GLY* 3.2 23.1 - - - +
18A ALA* 3.8 20.4 - - + -
19A ALA 6.0 0.2 - - - +
22A LYS* 5.6 4.1 - - - +
76A ASN 4.6 5.4 + - - +
77A VAL 4.7 5.6 - - - +
78A ILE 3.0 1.3 + - - +
79A ARG* 1.3 78.5 - - - +
81A PHE* 1.3 72.6 + + + +
83A THR* 4.3 4.7 - - - -
84A GLN* 2.8 65.6 + - + +
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Residues in contact with PHE 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A PHE* 3.5 34.2 - + + -
12A LEU* 4.4 18.6 - - + -
15A GLY* 3.9 24.5 - - - -
16A VAL* 4.9 1.8 - - + -
77A VAL 3.5 19.7 - - - -
78A ILE* 3.1 18.2 + - + +
80A TYR* 1.3 86.6 - + - +
82A PRO* 1.3 72.1 - - + +
85A ALA* 3.0 23.6 + - - +
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Residues in contact with PRO 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78A ILE* 3.1 29.4 - - + +
79A ARG* 3.1 18.4 - - - +
81A PHE* 1.3 80.0 - - + +
83A THR* 1.3 61.8 + - - +
85A ALA* 3.1 6.4 + - + +
86A LEU* 2.8 35.1 + - + +
129A PHE* 5.7 2.2 - - + -
130A VAL* 3.6 20.4 - - + -
133A LEU* 4.4 8.1 - - + -
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Residues in contact with THR 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79A ARG* 2.8 37.4 + - - +
80A TYR* 3.6 6.1 - - - -
82A PRO* 1.3 78.2 - - - +
84A GLN* 1.3 71.7 + - - +
86A LEU* 3.2 7.4 + - - +
87A ASN* 2.9 27.4 + - - +
126A SER* 4.1 9.5 + - - +
130A VAL* 3.6 20.5 - - - +
401A CXT 4.1 32.3 - - + +
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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
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11A PHE* 3.6 21.5 - - + -
80A TYR* 2.8 57.2 + - + +
83A THR* 1.3 80.2 - - - +
85A ALA* 1.3 66.7 + - - +
87A ASN* 3.6 28.2 + - - +
88A PHE* 3.0 23.4 + - - +
401A CXT 4.1 11.1 + - - -
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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
----------------------------------------------------------
11A PHE* 4.2 10.3 - - + -
81A PHE 3.0 18.8 + - - +
82A PRO* 3.1 8.7 + - + +
84A GLN* 1.3 76.2 - - - +
86A LEU* 1.3 64.9 + - + +
88A PHE* 3.2 21.6 + - - +
89A ALA* 3.5 6.8 + - - +
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Residues in contact with LEU 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82A PRO* 2.8 27.1 + - + +
83A THR* 3.5 5.2 - - - +
85A ALA* 1.3 76.6 - - + +
87A ASN* 1.3 64.6 + - - +
89A ALA* 3.1 3.9 + - - -
90A PHE* 3.0 46.9 + - + +
125A THR* 5.3 1.6 - - + +
126A SER* 3.8 26.2 - - - +
129A PHE* 3.6 58.3 - - + -
130A VAL* 4.7 2.2 - - + -
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Residues in contact with ASN 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A THR* 2.9 15.3 + - - +
84A GLN* 3.6 29.9 + - - +
86A LEU* 1.3 75.7 - - - +
88A PHE* 1.3 62.3 + - - +
90A PHE* 5.0 0.6 - - - +
91A LYS* 2.8 50.8 + - + +
92A ASP 4.3 1.4 + - - -
122A ALA* 4.4 11.4 - - - +
126A SER* 3.4 16.6 + - - -
401A CXT 2.9 40.1 + - - -
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Residues in contact with PHE 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7A PHE* 3.7 41.5 - + + -
84A GLN 3.0 12.8 + - - +
85A ALA* 3.3 15.0 - - - +
86A LEU 3.2 0.4 - - - -
87A ASN* 1.3 78.0 - - - +
89A ALA* 1.3 61.3 + - + +
92A ASP* 5.8 1.7 + - - +
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Residues in contact with ALA 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85A ALA 3.5 6.4 + - - +
86A LEU* 3.1 7.4 + - - +
87A ASN 3.1 0.4 - - - -
88A PHE* 1.3 85.1 - - + +
90A PHE* 1.3 75.9 + - + +
92A ASP 5.7 0.2 - - - -
93A LYS* 3.8 19.0 - - - +
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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
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86A LEU* 3.0 42.3 + - + +
87A ASN* 5.0 0.9 - - - +
89A ALA* 1.3 93.8 - - + +
91A LYS* 1.3 68.7 + - - +
92A ASP 3.4 2.2 - - - -
93A LYS* 2.9 19.4 + - + +
94A TYR* 3.0 49.2 + + + -
122A ALA* 5.5 2.0 - - - -
125A THR* 3.9 26.9 - - + -
129A PHE* 5.6 4.7 - + - -
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Residues in contact with LYS 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A ASN* 2.8 41.5 + - + +
90A PHE* 1.3 74.0 - - - +
92A ASP* 1.3 63.0 + - - +
94A TYR* 3.4 4.0 + - - +
95A LYS* 3.2 50.7 + - + +
118A SER* 4.4 1.0 + - - +
122A ALA* 4.5 21.6 - - + +
187A ARG* 6.2 0.2 - - - +
401A CXT 2.7 58.4 + - - +
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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
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87A ASN 4.3 1.8 + - - -
88A PHE 5.8 1.5 + - - +
90A PHE 3.4 0.6 - - - -
91A LYS* 1.3 76.9 - - - +
93A LYS* 1.3 62.2 + - + +
95A LYS* 3.1 17.2 + - + +
96A GLN* 2.6 60.7 + - - +
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Residues in contact with LYS 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89A ALA 3.8 20.9 - - - +
90A PHE* 2.9 10.8 + - + +
92A ASP* 1.3 78.1 + - + +
94A TYR* 1.3 59.4 + - + +
96A GLN* 3.3 24.0 + - - +
97A ILE* 2.8 42.7 + - + +
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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
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90A PHE* 3.0 51.6 + + + -
91A LYS 3.8 5.4 - - - +
92A ASP 3.3 0.2 - - - -
93A LYS* 1.3 77.0 - - + +
95A LYS* 1.3 57.8 + - - +
97A ILE* 3.2 16.1 + - + -
98A PHE* 2.8 49.4 + + + +
118A SER* 3.8 15.5 - - - +
121A ALA* 3.5 23.8 - - + -
122A ALA* 3.6 21.3 - - + -
125A THR* 2.7 29.5 + - - +
802A CDL 5.2 4.4 - - + +
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Residues in contact with LYS 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91A LYS* 3.2 44.2 + - - +
92A ASP* 3.1 21.4 + - - +
94A TYR* 1.3 79.4 - - - +
96A GLN* 1.3 54.1 + - + +
99A LEU* 2.7 50.9 + - + +
118A SER* 3.2 22.7 - - - +
187A ARG* 5.3 10.3 - - - +
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Residues in contact with GLN 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A ASP* 2.6 43.4 + - - +
93A LYS* 3.6 32.1 - - - +
95A LYS* 1.3 76.3 - - + +
97A ILE* 1.3 60.3 + - + +
100A GLY* 2.8 32.4 + - - +
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Residues in contact with ILE 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93A LYS* 2.8 36.7 + - + +
94A TYR* 3.6 21.3 - - + +
96A GLN* 1.3 79.7 - - + +
98A PHE* 1.3 79.7 + - + +
100A GLY 4.5 2.9 + - - +
110A ARG* 4.9 3.5 + - - -
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Residues in contact with PHE 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A TYR* 2.8 43.6 + + - +
97A ILE* 1.3 86.3 - - + +
99A LEU* 1.3 63.1 + - - +
110A ARG* 2.8 33.5 + - - +
114A GLY* 3.5 19.6 - - - +
117A ALA* 3.6 24.7 - - + -
118A SER* 3.7 15.5 - - - +
121A ALA* 3.8 27.4 - - + -
802A CDL 5.8 5.2 - - + -
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Residues in contact with LEU 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A LYS* 2.7 34.3 + - + +
96A GLN* 5.0 0.2 - - - -
98A PHE* 1.3 83.3 - - + +
100A GLY* 1.3 65.7 + - - +
101A GLY 3.2 0.5 + - - -
102A VAL* 2.6 43.6 + - + +
110A ARG* 4.4 0.9 - - - +
111A TYR* 3.5 54.1 - - + +
114A GLY* 3.5 13.9 - - - +
115A ASN* 4.3 19.3 - - - +
118A SER* 5.1 1.3 - - - -
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Residues in contact with GLY 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A LYS 3.6 1.6 + - - -
96A GLN* 2.8 25.5 + - - +
97A ILE 4.5 2.0 + - - +
98A PHE 3.8 0.4 - - - -
99A LEU* 1.3 79.1 - - - +
101A GLY* 1.3 60.1 + - - -
102A VAL* 3.4 1.0 + - - +
110A ARG* 4.9 6.8 + - - -
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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