Contacts of the helix formed by residues 92 - 119 (chain A) in PDB entry 1UNP
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 92 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A ASN* 3.5 5.7 - - - +
90A VAL* 3.4 8.3 - - - +
91A GLU* 1.3 92.0 - - + +
93A PRO* 1.3 71.1 - - + +
94A GLU* 3.2 18.6 + - - +
95A GLU* 3.0 45.1 + - - +
96A ARG 3.2 8.8 + - - -
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Residues in contact with PRO 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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71A ASN* 3.1 24.8 - - - +
91A GLU 4.7 0.4 - - - +
92A THR* 1.3 83.8 - - + +
94A GLU* 1.3 89.4 + - - +
96A ARG* 3.3 17.2 + - + +
97A GLU* 3.0 25.1 + - - +
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Residues in contact with GLU 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A THR* 3.2 22.6 - - - +
93A PRO* 1.3 98.1 - - - +
95A GLU* 1.3 62.1 + - + +
97A GLU* 3.3 8.4 + - - +
98A GLU* 3.0 23.3 + - - +
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Residues in contact with GLU 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A TRP 5.6 1.7 - - - +
90A VAL* 3.8 20.0 - - + +
91A GLU* 3.9 12.7 + - - +
92A THR* 3.0 45.4 + - - +
94A GLU* 1.3 76.6 - - + +
96A ARG* 1.3 65.2 + - - +
98A GLU* 3.1 19.1 - - - +
99A TRP* 3.1 28.8 + - + -
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Residues in contact with ARG 96 (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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64A LYS* 3.8 25.5 - - - +
65A THR 3.0 13.1 + - - +
66A GLU* 2.8 32.5 + - - -
71A ASN* 3.4 22.7 + - + +
72A THR 3.0 35.6 + - - +
73A PHE* 3.8 20.2 - - + -
90A VAL* 3.4 17.4 - - + +
92A THR 3.2 6.3 + - - +
93A PRO* 3.6 16.2 + - + +
94A GLU 3.3 0.4 - - - -
95A GLU* 1.3 78.8 - - - +
97A GLU* 1.3 58.7 + - - +
99A TRP* 3.2 3.0 + - - +
100A THR* 2.8 38.2 + - + +
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Residues in contact with GLU 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A LYS* 2.6 31.9 + - - -
93A PRO 3.0 14.0 + - - +
94A GLU* 3.5 11.4 - - - +
96A ARG* 1.3 78.4 + - - +
98A GLU* 1.3 62.1 + - - +
100A THR* 3.4 5.6 + - - -
101A THR* 2.9 45.7 + - - +
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Residues in contact with GLU 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LYS* 2.4 35.9 + - + +
94A GLU* 3.0 11.8 + - - +
95A GLU* 3.1 25.2 - - - +
97A GLU* 1.3 79.1 - - - +
99A TRP* 1.3 61.2 + - - +
101A THR* 4.0 2.8 - - - -
102A ALA* 3.3 20.8 + - - +
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Residues in contact with TRP 99 (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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8A LYS* 3.3 41.8 - - + +
9A GLU* 4.0 8.1 - - - -
10A GLY* 3.7 29.8 - - - -
11A TRP 4.4 4.6 + - - -
12A LEU* 3.3 30.9 - - + +
27A PHE* 3.9 26.0 - - + -
29A LEU* 4.4 6.1 - - + -
35A PHE* 3.5 31.9 - + - -
73A PHE* 3.8 17.0 - + + -
90A VAL* 4.2 9.3 - - + +
95A GLU* 3.1 22.0 + - + +
96A ARG 3.8 5.2 - - - +
98A GLU* 1.3 78.6 - - + +
100A THR* 1.3 64.5 + - - +
102A ALA* 3.2 2.4 + - - +
103A ILE* 2.9 37.3 + - + +
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Residues in contact with THR 100 (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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62A LEU* 3.2 28.5 - - + +
64A LYS* 3.7 23.0 - - + -
73A PHE* 3.7 35.0 - - + -
96A ARG* 2.8 32.0 + - + +
97A GLU* 3.3 15.4 + - - -
99A TRP* 1.3 72.5 - - - +
101A THR* 1.3 59.5 + - - +
103A ILE* 4.6 2.2 - - - -
104A GLN* 2.9 28.9 + - - +
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Residues in contact with THR 101 (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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97A GLU* 2.9 38.5 + - - +
98A GLU* 4.0 3.8 - - - -
100A THR* 1.3 76.7 + - - +
102A ALA* 1.3 58.4 + - - +
104A GLN* 3.8 4.8 - - - +
105A THR* 2.8 42.2 + - - +
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Residues in contact with ALA 102 (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 VAL* 4.4 13.4 - - + +
8A LYS* 3.9 19.3 - - + -
29A LEU* 3.7 14.1 - - + -
98A GLU 3.3 15.2 + - - +
99A TRP* 3.2 5.9 + - + +
101A THR* 1.3 81.4 - - - +
103A ILE* 1.3 63.0 + - + +
105A THR* 3.3 6.4 + - - -
106A VAL* 3.1 27.4 + - - +
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Residues in contact with ILE 103 (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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29A LEU* 3.8 23.1 - - + -
35A PHE* 4.4 11.9 - - + -
57A VAL* 4.1 27.6 - - + +
62A LEU* 3.9 24.0 - - + -
73A PHE* 3.8 21.3 - - + -
75A ILE* 3.8 24.7 - - + -
99A TRP* 2.9 28.2 + - + +
100A THR 3.9 3.1 - - - +
102A ALA* 1.3 75.1 - - - +
104A GLN* 1.3 60.5 + - - +
106A VAL* 3.2 3.5 + - - +
107A ALA* 2.9 28.9 + - + +
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Residues in contact with GLN 104 (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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60A CYS 5.2 5.0 + - - +
61A GLN* 5.9 0.2 - - - +
62A LEU* 3.7 30.2 + - + +
100A THR 2.9 19.3 + - - +
101A THR* 3.8 5.4 - - - +
103A ILE* 1.3 76.7 - - - +
105A THR* 1.3 56.2 + - - +
107A ALA* 4.2 9.5 - - - +
108A ASP* 2.8 67.6 + - - +
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Residues in contact with THR 105 (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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31A ASN* 6.0 1.1 - - - +
101A THR* 2.8 30.2 + - - +
102A ALA* 3.6 6.9 - - - -
103A ILE 3.2 0.2 - - - -
104A GLN* 1.3 75.9 - - - +
106A VAL* 1.3 64.9 + - + +
108A ASP* 3.4 7.8 + - - +
109A GLY* 3.0 20.4 + - - -
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Residues in contact with VAL 106 (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 VAL* 3.9 26.2 - - + -
29A LEU* 3.8 20.4 - - + -
30A LYS 3.6 17.5 - - - +
31A ASN* 3.9 20.4 - - - +
33A GLY* 3.8 22.4 - - - +
57A VAL* 4.3 6.1 - - + -
102A ALA 3.1 14.4 + - - +
103A ILE 3.2 6.7 + - - +
105A THR* 1.3 79.3 - - + +
107A ALA* 1.3 62.5 + - - +
109A GLY* 3.2 2.5 + - - -
110A LEU* 3.1 24.2 + - + +
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Residues in contact with ALA 107 (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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57A VAL* 4.0 22.9 - - + +
58A ALA* 5.1 1.1 - - - +
59A GLN 5.0 6.8 + - - +
60A CYS 4.8 9.6 - - - +
103A ILE* 2.9 17.9 + - + +
104A GLN* 3.8 14.8 - - - +
106A VAL* 1.3 77.6 - - - +
108A ASP* 1.3 57.6 + - - +
110A LEU* 3.1 12.7 + - - +
111A LYS* 2.8 28.7 + - - +
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Residues in contact with ASP 108 (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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104A GLN* 2.8 52.8 + - - +
105A THR* 3.7 7.0 - - - +
106A VAL 3.3 0.2 - - - -
107A ALA* 1.3 75.9 - - - +
109A GLY* 1.3 63.4 + - - +
111A LYS* 3.2 25.6 + - - +
112A LYS* 2.9 23.7 + - - +
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Residues in contact with GLY 109 (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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105A THR 3.0 14.1 + - - -
106A VAL* 3.2 4.2 + - - -
108A ASP* 1.3 76.4 - - - +
110A LEU* 1.3 62.6 + - - +
112A LYS* 3.3 9.1 + - - +
113A GLN* 3.2 19.8 + - - +
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Residues in contact with LEU 110 (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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31A ASN 4.1 13.2 - - - +
32A ASP* 3.6 29.4 - - - +
33A GLY* 3.6 14.1 - - - -
58A ALA* 3.6 36.1 - - + +
59A GLN 5.7 0.4 - - - +
106A VAL* 3.1 19.1 + - + +
107A ALA* 3.5 6.3 - - - +
109A GLY* 1.3 75.5 - - - +
111A LYS* 1.3 59.9 + - - +
113A GLN* 3.2 23.2 + - - +
114A GLU* 2.9 27.4 + - - +
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Residues in contact with LYS 111 (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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59A GLN 6.3 0.7 - - - +
107A ALA 2.8 13.4 + - - +
108A ASP* 3.2 27.3 + - - +
110A LEU* 1.3 74.6 - - - +
112A LYS* 1.3 61.1 + - - +
114A GLU* 3.2 17.0 + - - +
115A GLU* 2.9 58.2 + - + +
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Residues in contact with LYS 112 (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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108A ASP 2.9 12.2 + - - +
109A GLY* 3.3 12.8 - - - +
111A LYS* 1.3 80.0 - - - +
113A GLN* 1.3 60.5 + - - +
115A GLU* 3.4 20.4 + - - +
116A GLU* 3.1 52.3 + - + +
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Residues in contact with GLN 113 (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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109A GLY 3.2 9.5 + - - +
110A LEU* 3.2 26.0 + - + +
112A LYS* 1.3 80.9 - - - +
114A GLU* 1.3 62.9 + - - +
116A GLU* 3.3 13.7 + - - +
117A GLU* 3.2 23.6 + - + +
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Residues in contact with GLU 114 (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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59A GLN* 4.1 32.7 + - - +
110A LEU 2.9 13.0 + - - +
111A LYS* 3.4 21.3 - - - +
113A GLN* 1.3 77.7 - - - +
115A GLU* 1.3 59.4 + - + +
117A GLU* 3.0 9.6 + - - +
118A MET* 2.9 43.2 + - + +
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Residues in contact with GLU 115 (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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111A LYS* 2.9 40.5 + - + +
112A LYS* 3.7 27.9 + - - +
114A GLU* 1.3 78.5 - - + +
116A GLU* 1.3 58.9 + - + +
118A MET* 5.0 1.1 - - - -
119A ASP* 2.9 56.2 + - - +
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Residues in contact with GLU 116 (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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112A LYS* 3.1 44.9 + - + +
113A GLN* 3.7 11.9 - - - +
114A GLU 3.2 0.2 - - - -
115A GLU* 1.3 77.8 - - + +
117A GLU* 1.3 58.4 - - - +
119A ASP 4.7 5.4 - - - +
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Residues in contact with GLU 117 (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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113A GLN* 3.2 12.4 + - + +
114A GLU* 3.0 12.0 + - - +
116A GLU* 1.3 81.4 - - - +
118A MET* 1.3 78.9 + - - +
119A ASP 3.6 1.0 - - - +
121A ARG* 3.3 37.7 + - - +
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Residues in contact with MET 118 (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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114A GLU* 2.9 33.5 + - + +
115A GLU* 5.0 0.9 - - - -
117A GLU* 1.3 96.7 - - + +
119A ASP* 1.3 65.2 + - - +
120A PHE 3.7 1.0 + - - -
121A ARG* 3.1 50.0 - - - +
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Residues in contact with ASP 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A GLU* 2.9 39.8 + - - +
116A GLU* 4.8 5.5 - - - +
117A GLU 3.6 1.4 - - - +
118A MET* 1.3 82.0 - - - +
120A PHE* 1.3 90.5 + - + +
121A ARG* 3.2 2.8 + - - +
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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) + - + + + + + -
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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