Contacts of the helix formed by residues 111 - 138 (chain A) in PDB entry 4HZF
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 PRO 111 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A ILE* 3.0 22.6 - - + +
108A GLN 4.3 3.4 - - - +
109A VAL 4.0 4.7 - - - +
110A ASN* 1.3 87.5 - - - +
112A ASP* 1.3 60.7 - - - +
113A ILE 3.1 0.7 - - - -
114A LEU* 2.9 17.2 + - + +
115A MET* 3.0 15.4 + - - +
107B ILE* 4.0 22.2 - - + +
108B GLN* 4.0 26.0 - - - +
111B PRO* 3.9 29.2 - - + -
114B LEU* 4.7 0.5 - - - +
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Residues in contact with ASP 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A THR* 4.4 15.2 + - + +
110A ASN* 2.9 26.0 + - - +
111A PRO* 1.3 76.6 - - - +
113A ILE* 1.3 60.8 + - - +
115A MET* 3.2 12.4 + - + +
116A ARG* 3.0 34.0 + - - +
108B GLN* 3.4 20.8 + - - -
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Residues in contact with ILE 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A THR* 4.3 14.6 - - + +
12A LEU* 4.2 17.5 - - + -
14A TRP* 4.3 14.1 - - + -
15A PHE* 3.6 36.6 - - + -
70A PHE* 4.2 8.8 - - + -
103A PHE* 3.7 31.8 - - + -
106A LEU* 4.3 4.5 - - + +
107A ILE* 4.2 19.1 - - + +
110A ASN 3.2 16.1 + - - +
111A PRO 3.1 1.2 - - - -
112A ASP* 1.3 78.3 - - - +
114A LEU* 1.3 64.0 + - - +
116A ARG* 3.4 6.9 + - - +
117A LEU* 3.2 21.1 + - - +
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Residues in contact with LEU 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A PHE* 4.1 24.2 - - + -
103A PHE* 4.9 1.1 - - - -
107A ILE* 3.9 38.4 - - + -
111A PRO* 2.9 10.3 + - + +
113A ILE* 1.3 80.0 - - - +
115A MET* 1.3 60.0 + - - +
117A LEU* 3.2 13.4 + - + -
118A SER* 2.8 43.9 + - - +
111B PRO* 4.3 3.4 - - + +
114B LEU* 3.6 32.5 - - + -
115B MET* 3.6 29.6 - - + +
118B SER* 4.6 0.4 - - - +
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Residues in contact with MET 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A PRO 3.0 17.1 + - - +
112A ASP* 3.2 19.0 + - - +
114A LEU* 1.3 77.6 - - - +
116A ARG* 1.3 58.0 + - + +
118A SER* 3.8 2.2 - - - -
119A ALA* 2.9 31.5 + - - +
76B LEU* 4.6 5.2 - - + +
77B PHE* 3.8 32.2 - - + +
104B ARG* 3.8 32.8 - - + -
107B ILE* 3.8 17.7 - - + -
108B GLN* 5.5 2.5 - - - +
114B LEU* 3.6 22.4 - - + +
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Residues in contact with ARG 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A ASP* 2.4 50.3 + - - +
11A THR* 3.5 34.6 + - - +
12A LEU* 3.7 24.2 - - + +
70A PHE* 4.2 11.0 - - + -
112A ASP* 3.0 19.5 + - - +
113A ILE* 3.7 10.3 - - + +
114A LEU 3.2 0.2 - - - -
115A MET* 1.3 78.1 - - + +
117A LEU* 1.3 63.6 + - - +
119A ALA* 3.5 11.6 + - - +
120A GLN* 3.5 19.6 + - - +
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Residues in contact with LEU 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 4.4 5.8 - - + -
70A PHE* 3.5 44.3 - - + -
73A GLU* 3.6 30.5 - - + -
76A LEU* 3.8 28.9 - - + -
77A PHE* 4.6 3.4 - - + -
103A PHE* 3.8 16.2 - - + -
113A ILE 3.2 12.3 + - - +
114A LEU* 3.2 13.9 + - + +
116A ARG* 1.3 80.7 - - - +
118A SER* 1.3 59.0 + - - +
120A GLN* 3.0 19.2 + - + +
121A MET* 3.0 18.2 + - + +
124A ARG* 5.8 0.4 - - - +
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Residues in contact with SER 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A LEU* 2.8 38.9 + - - +
115A MET 3.8 0.2 - - - -
117A LEU* 1.3 70.3 - - - +
119A ALA* 1.3 60.1 + - - +
121A MET* 3.2 8.2 + - - -
122A ALA* 2.9 27.5 + - - +
77B PHE* 3.4 29.6 - - - -
114B LEU* 4.0 1.7 - - - +
118B SER* 2.8 25.3 + - - -
121B MET* 3.5 12.1 - - - +
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Residues in contact with ALA 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A MET 2.9 18.5 + - - +
116A ARG* 3.6 9.0 - - - +
117A LEU 3.2 0.2 - - - -
118A SER* 1.3 75.4 - - - +
120A GLN* 1.3 63.1 + - + +
122A ALA* 3.4 3.1 + - - +
123A ARG* 3.1 25.3 + - - +
305A GOL 5.3 0.4 - - - -
77B PHE* 3.5 34.2 - - + +
78B GLU* 6.2 0.7 - - + -
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Residues in contact with GLN 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A GLY 2.9 25.5 + - - -
69A ASP* 3.5 4.4 + - - +
70A PHE* 2.8 45.2 + - + +
116A ARG* 3.6 9.6 + - - +
117A LEU* 3.0 9.5 + - + +
119A ALA* 1.3 78.4 - - + +
121A MET* 1.3 59.7 + - - +
123A ARG* 3.3 2.3 + - - +
124A ARG* 2.9 49.6 + - - +
305A GOL 3.3 32.2 + - - +
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Residues in contact with MET 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A GLU* 3.8 24.5 - - + +
74A LEU* 3.9 11.9 - - + -
77A PHE* 3.7 38.6 - - + -
117A LEU* 3.0 23.1 + - + +
118A SER* 3.2 14.6 + - - +
120A GLN* 1.3 76.1 - - - +
122A ALA* 1.3 62.1 + - - +
124A ARG* 3.3 9.4 + - - +
125A LEU* 3.0 24.1 + - - +
118B SER* 3.7 12.8 - - - +
121B MET* 4.1 13.4 - - + +
122B ALA* 3.7 28.3 - - + +
125B LEU* 4.8 5.6 - - + +
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Residues in contact with ALA 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A SER 2.9 16.1 + - - +
119A ALA 3.7 4.7 - - - +
121A MET* 1.3 77.4 - - - +
123A ARG* 1.3 65.6 + - - +
125A LEU* 3.2 3.3 + - - +
126A GLN* 3.0 27.7 + - - +
74B LEU* 3.8 37.3 - - + +
77B PHE* 3.8 20.4 - - + -
121B MET* 3.9 5.8 - - - -
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Residues in contact with ARG 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ALA 3.1 16.6 + - - +
120A GLN 3.3 6.7 + - - +
122A ALA* 1.3 77.7 - - - +
124A ARG* 1.3 57.7 + - - +
126A GLN* 2.5 41.0 + - - +
127A VAL* 2.9 50.4 + - + +
305A GOL 4.0 28.7 - - - +
74B LEU 4.9 2.0 + - - -
78B GLU* 2.7 32.5 + - - +
81B GLN* 3.0 24.9 + - - +
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Residues in contact with ARG 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A SER* 5.6 0.2 - - - +
65A LEU* 3.8 13.8 - - - +
69A ASP* 3.6 9.9 - - - +
70A PHE* 2.8 31.7 + - - +
73A GLU* 3.0 34.0 + - - -
117A LEU* 6.1 0.2 - - - -
120A GLN* 2.9 37.3 + - - +
121A MET* 3.6 5.6 - - - +
123A ARG* 1.3 76.0 - - - +
125A LEU* 1.3 59.5 + - - +
127A VAL* 4.0 5.8 - - - +
128A THR* 2.8 36.1 + - - -
301A CMP 3.6 28.9 + - + +
305A GOL 2.9 45.2 + - - -
125B LEU* 3.8 17.7 - - + -
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Residues in contact with LEU 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A MET 3.0 17.1 + - - +
122A ALA 3.2 4.7 + - - +
124A ARG* 1.3 74.5 - - - +
126A GLN* 1.3 61.4 - - - +
129A SER* 2.7 34.2 + - - +
73B GLU* 4.2 8.3 - - - +
74B LEU* 3.9 30.3 - - + -
121B MET* 4.5 8.1 - - + +
124B ARG* 3.8 40.4 - - + +
125B LEU* 3.8 19.4 - - + +
128B THR* 3.9 5.6 - - + +
301B CMP 3.6 31.2 - - + +
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Residues in contact with GLN 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A ALA 3.0 16.6 + - - +
123A ARG* 2.5 44.7 + - - +
125A LEU* 1.3 77.9 - - - +
127A VAL* 1.3 57.3 + - + +
129A SER* 3.3 6.6 + - - -
130A GLU* 3.0 26.9 + - - +
74B LEU* 3.5 37.2 + - + +
75B GLY* 5.2 0.2 - - - -
81B GLN* 3.2 21.7 + - - +
82B GLU 4.9 9.9 + - - -
84B SER* 4.4 17.1 - - - -
301B CMP 5.1 0.6 + - - -
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Residues in contact with VAL 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU 5.6 2.5 - - - +
63A SER* 5.8 4.7 - - - +
123A ARG* 2.9 42.2 + - + +
124A ARG* 4.0 5.4 - - - +
126A GLN* 1.3 72.3 - - + +
128A THR* 1.3 61.1 + - - +
130A GLU* 3.2 16.1 + - - +
131A LYS* 3.0 35.7 + - - +
304A GOL 6.3 2.5 - - - -
305A GOL 5.5 4.5 - - - +
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Residues in contact with THR 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 4.7 7.9 + - + -
124A ARG* 2.8 20.4 + - - -
125A LEU 4.1 1.6 - - - -
127A VAL* 1.3 78.3 - - - +
129A SER* 1.3 62.6 + - - +
131A LYS* 3.2 9.7 + - + +
132A VAL* 3.0 22.0 + - - +
301A CMP 2.9 34.2 + - - +
125B LEU* 3.9 7.0 - - + -
128B THR* 3.8 15.7 - - + -
129B SER* 3.9 10.8 - - - +
132B VAL* 3.7 21.3 - - + -
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Residues in contact with SER 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A LEU 2.7 23.0 + - - -
126A GLN* 3.6 6.3 - - - -
128A THR* 1.3 77.5 - - - +
130A GLU* 1.3 62.5 + - - +
132A VAL* 3.2 6.3 + - - +
133A GLY* 3.1 18.4 + - - -
52B ILE* 4.2 10.5 - - - +
62B LEU* 3.8 17.9 - - - -
84B SER* 6.0 3.8 - - - -
128B THR* 3.9 8.2 - - - +
301B CMP 2.9 34.0 + - - -
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Residues in contact with GLU 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A GLN 3.0 13.3 + - - +
127A VAL* 3.2 18.6 + - - +
129A SER* 1.3 76.5 - - - +
131A LYS* 1.3 56.3 + - - +
133A GLY* 3.2 4.7 + - - +
134A ASN* 2.9 42.5 + - - +
52B ILE* 6.0 0.4 - - - -
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Residues in contact with LYS 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A MET* 5.1 2.0 - - - -
61A ILE 4.5 10.3 + - - +
62A LEU* 3.5 24.4 + - + +
127A VAL* 3.0 21.3 + - - +
128A THR* 3.3 13.9 - - + +
130A GLU* 1.3 74.0 - - - +
132A VAL* 1.3 65.1 + - - +
134A ASN* 3.2 10.7 + - - +
135A LEU* 2.9 32.2 + - + +
176A ILE* 4.8 5.6 + - - +
304A GOL 3.4 30.3 + - - -
306A GOL 3.5 31.8 - - - +
132B VAL* 4.0 26.9 - - + -
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Residues in contact with VAL 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A THR 3.0 19.3 + - - +
129A SER 3.2 7.6 + - - +
131A LYS* 1.3 73.1 - - - +
133A GLY* 1.3 65.6 + - - +
135A LEU* 3.2 2.2 + - - -
136A ALA* 2.9 22.5 + - - +
52B ILE* 4.8 0.4 - - + -
60B MET* 3.9 20.2 - - + -
62B LEU* 3.9 20.2 - - + -
128B THR* 3.7 24.0 - - + +
131B LYS* 4.1 9.0 - - + -
132B VAL* 3.7 24.7 - - + +
135B LEU* 3.7 20.3 - - + +
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Residues in contact with GLY 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A SER 3.1 9.6 + - - -
130A GLU* 3.2 4.9 + - - -
132A VAL* 1.3 80.9 - - - +
134A ASN* 1.3 56.6 + - - +
136A ALA* 3.2 1.9 + - - -
137A PHE* 2.8 48.2 + - - +
52B ILE* 3.7 21.9 - - - +
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Residues in contact with ASN 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A GLU* 2.9 41.8 + - - +
131A LYS* 3.2 6.4 + - - +
133A GLY* 1.3 70.9 - - - +
135A LEU* 1.3 59.1 + - - +
137A PHE* 5.2 0.2 - - - -
138A LEU* 2.9 58.3 + - + +
143A ARG* 3.7 4.8 - - - -
146A GLN* 4.9 7.5 + - - +
306A GOL 3.2 44.6 + - - +
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Residues in contact with LEU 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A MET* 4.6 6.1 - - - -
131A LYS* 2.9 24.4 + - + +
132A VAL 3.8 3.1 - - - +
134A ASN* 1.3 79.4 - - - +
136A ALA* 1.3 60.9 + - - +
138A LEU 4.1 1.2 - - - +
143A ARG* 3.5 32.3 + - - +
176A ILE 5.5 1.3 - - - +
177A VAL 3.6 26.9 - - - +
306A GOL 4.5 6.1 - - - +
132B VAL* 3.7 46.0 - - + +
135B LEU* 3.9 21.9 - - + +
136B ALA* 4.5 16.2 - - + +
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Residues in contact with ALA 136 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A VAL 2.9 16.6 + - - +
133A GLY* 3.7 3.6 - - - +
135A LEU* 1.3 77.7 - - - +
137A PHE* 1.3 75.4 + - + +
138A LEU 5.0 0.2 - - - -
60B MET* 3.7 27.1 - - - -
135B LEU* 4.3 16.1 - - + +
143B ARG* 5.6 1.3 - - - +
178B GLY* 5.2 11.2 - - - +
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Residues in contact with PHE 137 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A GLY* 2.8 30.8 + - - +
134A ASN* 5.2 0.2 - - - -
136A ALA* 1.3 95.6 - - + +
138A LEU* 1.3 66.7 + - + +
139A ASP 4.2 0.2 + - - -
52B ILE* 4.1 12.6 - - + -
53B LYS 3.7 10.1 - - - -
54B ASP* 3.5 55.6 - - + -
58B LYS* 4.4 7.0 - - + -
59B GLU 5.3 0.7 - - - -
60B MET* 4.0 26.7 - - + -
178B GLY* 6.1 4.0 - - - -
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Residues in contact with LEU 138 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ASN* 2.9 41.0 + - + +
135A LEU 4.1 2.6 - - - +
136A ALA 5.0 0.2 - - - -
137A PHE* 1.3 84.9 - - + +
139A ASP* 1.3 57.2 + - - +
142A GLY* 4.1 28.3 - - - +
143A ARG* 2.7 41.7 + - + +
146A GLN* 4.8 11.4 - - + +
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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