Contacts of the helix formed by residues 103 - 138 (chain A) in PDB entry 3G1E
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 GLU 103 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A ACE 2.5 13.5 - - + +
102A ASN* 1.3 72.9 - - - +
104A LYS* 1.3 54.2 + - - +
106A GLU* 3.1 32.9 - - - +
107A LEU* 2.8 51.9 + - + +
103B GLU* 4.9 11.8 - - - +
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Residues in contact with LYS 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A ACE 3.0 19.2 - - + +
103A GLU* 1.3 79.7 - - - +
105A VAL* 1.3 59.2 + - + +
106A GLU 3.3 3.1 + - - -
107A LEU* 4.1 10.6 - - - +
108A GLN* 3.7 20.6 + - - +
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Residues in contact with VAL 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A ACE 4.4 2.0 - - - +
102A ASN* 2.4 59.0 + - - +
104A LYS* 1.3 73.2 - - + +
106A GLU* 1.3 55.4 + - - +
108A GLN* 4.7 5.4 - - + -
109A GLU* 4.2 18.2 - - + +
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Residues in contact with GLU 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ASN* 3.3 7.4 - - - +
103A GLU* 3.1 43.4 - - - +
104A LYS 3.6 0.2 + - - -
105A VAL* 1.3 75.5 - - - +
107A LEU* 1.3 70.6 + - + +
108A GLN 3.4 0.8 - - - +
109A GLU* 3.9 18.2 - - - +
110A LEU* 3.3 21.5 + - - +
113A ARG* 5.1 1.4 + - - -
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Residues in contact with LEU 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A GLU* 2.8 45.3 - - + +
104A LYS* 4.4 8.7 - - - +
106A GLU* 1.3 85.8 - - + +
108A GLN* 1.3 64.4 + - - +
109A GLU 3.2 0.2 - - - -
110A LEU* 3.1 21.6 + - + +
111A ASN* 2.9 30.0 + - - +
103B GLU* 5.8 5.6 - - - +
107B LEU* 6.0 7.2 - - + -
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Residues in contact with GLN 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A LYS 3.7 16.7 + - - +
105A VAL* 4.9 6.1 - - + -
107A LEU* 1.3 79.0 - - - +
109A GLU* 1.3 63.6 + - + +
111A ASN* 3.1 11.8 + - - +
112A ASP* 2.9 42.2 + - - +
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Residues in contact with GLU 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A VAL* 4.2 21.2 - - + +
106A GLU* 3.9 15.9 + - - +
108A GLN* 1.3 78.3 - - + +
110A LEU* 1.3 63.4 + - - +
112A ASP* 3.1 10.1 + - - +
113A ARG* 3.0 43.5 + - - +
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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
----------------------------------------------------------
106A GLU 3.3 12.9 + - - +
107A LEU* 3.1 27.9 + - + +
109A GLU* 1.3 79.1 - - - +
111A ASN* 1.3 62.7 + - - +
113A ARG* 3.2 22.4 - - - +
114A PHE* 3.2 22.9 + - - +
107B LEU* 5.3 12.6 - - + -
110B LEU* 3.9 28.5 - - + -
114B PHE* 3.6 29.6 - - + -
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Residues in contact with ASN 111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A LEU* 2.9 20.6 + - - +
108A GLN* 3.6 12.3 + - - +
110A LEU* 1.3 78.3 - - - +
112A ASP* 1.3 61.6 + - - +
114A PHE* 3.5 15.7 + - - +
115A ALA* 3.1 27.2 + - - +
110B LEU* 5.8 3.6 - - - +
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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
----------------------------------------------------------
108A GLN* 2.9 37.6 + - - +
109A GLU* 3.1 10.5 + - - +
111A ASN* 1.3 78.7 - - - +
113A ARG* 1.3 59.9 + - - +
115A ALA* 3.3 6.4 + - - +
116A ASN* 3.0 39.8 + - - +
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Residues in contact with ARG 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A GLU 5.1 1.4 + - - -
109A GLU* 3.0 25.7 + - - +
110A LEU* 3.2 47.0 - - - +
112A ASP* 1.3 74.5 - - - +
114A PHE* 1.3 61.0 + - - +
116A ASN* 3.8 10.1 - - - +
117A LEU* 2.9 31.9 + - - +
114B PHE* 3.5 26.7 - - + -
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Residues in contact with PHE 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU 3.2 18.5 + - - +
111A ASN* 3.6 16.6 - - - +
113A ARG* 1.3 78.5 - - - +
115A ALA* 1.3 56.4 + - - +
117A LEU* 3.7 3.2 - - - +
118A ILE* 3.0 56.2 + - + +
110B LEU* 4.4 19.3 - - + -
113B ARG* 4.6 17.3 - - + -
114B PHE* 3.3 32.8 - + + -
117B LEU* 3.8 19.1 - - + -
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Residues in contact with ALA 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A ASN 3.1 17.4 + - - +
112A ASP* 3.6 8.1 - - - +
114A PHE* 1.3 75.8 - - - +
116A ASN* 1.3 61.2 + - - +
118A ILE* 3.2 10.5 + - - +
119A ASP* 2.9 39.7 + - - +
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Residues in contact with ASN 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ASP* 3.0 30.0 + - - +
113A ARG* 3.4 8.9 + - - +
115A ALA* 1.3 77.6 - - - +
117A LEU* 1.3 58.5 + - - +
119A ASP* 3.4 11.2 + - - +
120A LYS* 3.0 28.6 + - - +
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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
----------------------------------------------------------
113A ARG 2.9 19.3 + - - +
114A PHE 3.7 4.7 - - - +
115A ALA 3.2 0.2 - - - -
116A ASN* 1.3 73.3 - - - +
118A ILE* 1.3 67.4 + - - +
120A LYS* 3.3 12.0 + - + +
121A VAL* 3.2 27.9 + - - +
114B PHE* 3.7 28.0 - - + +
117B LEU* 3.4 39.3 - - + -
118B ILE* 4.1 18.2 - - + -
121B VAL* 4.5 13.5 - - + -
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Residues in contact with ILE 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A PHE* 3.0 55.2 + - + +
115A ALA* 3.2 8.3 + - - +
117A LEU* 1.3 76.6 - - - +
119A ASP* 1.3 65.8 + - - +
121A VAL* 3.2 9.0 + - + +
122A ARG* 3.0 38.6 + - + +
117B LEU* 4.2 12.6 - - + -
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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 ALA* 2.9 28.3 + - - +
116A ASN* 3.6 12.7 - - - +
118A ILE* 1.3 79.5 - - - +
120A LYS* 1.3 57.5 + - - +
122A ARG* 2.7 37.2 + - - +
123A PHE* 2.9 51.3 + - + -
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Residues in contact with LYS 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A ASN 3.0 18.2 + - - +
117A LEU* 3.6 15.3 - - + +
118A ILE 3.2 0.4 - - - -
119A ASP* 1.3 75.5 - - - +
121A VAL* 1.3 63.2 + - - +
123A PHE* 3.4 7.5 + - - +
124A LEU* 3.0 42.4 + - + +
121B VAL* 3.9 24.0 - - + -
125B GLU* 3.6 23.8 + - - -
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Residues in contact with VAL 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A LEU 3.2 16.4 + - - +
118A ILE* 3.6 7.0 - - + +
120A LYS* 1.3 77.2 - - - +
122A ARG* 1.3 63.8 + - + +
124A LEU* 3.3 8.0 + - - +
125A GLU* 3.0 51.2 + - + +
117B LEU* 3.9 27.4 - - + +
120B LYS* 4.0 26.0 - - + -
121B VAL* 3.8 20.2 - - + +
124B LEU* 4.2 2.5 - - + -
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Residues in contact with ARG 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ILE* 3.0 35.2 + - + +
119A ASP* 2.7 43.1 + - - +
121A VAL* 1.3 77.5 - - + +
123A PHE* 1.3 80.9 + - - +
125A GLU* 3.4 10.2 + - - +
126A GLN* 3.0 28.6 + - - +
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Residues in contact with PHE 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ASP* 2.9 33.5 + - + +
120A LYS* 3.9 5.8 - - - +
122A ARG* 1.3 106.4 - - - +
124A LEU* 1.3 62.5 + - + +
126A GLN* 3.2 18.2 + - - +
127A GLN* 2.8 51.3 + - - +
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Residues in contact with LEU 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A LYS* 3.0 33.1 + - + +
121A VAL* 3.7 3.8 - - - +
123A PHE* 1.3 77.6 - - + +
125A GLU* 1.3 57.6 + - - +
127A GLN* 4.4 12.3 - - - +
128A ASN* 2.8 30.4 + - - +
121B VAL* 3.8 26.2 - - + +
124B LEU* 3.9 19.9 - - + +
125B GLU* 3.7 35.2 - - + +
128B ASN* 3.2 23.7 + - + +
----------------------------------------------------------
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Residues in contact with GLU 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A VAL* 3.0 36.7 + - - +
122A ARG* 3.8 9.1 - - - +
124A LEU* 1.3 73.6 - - - +
126A GLN* 1.3 61.6 + - - +
128A ASN* 3.3 8.4 + - - +
129A LYS* 2.9 32.9 + - + +
120B LYS* 4.8 8.1 - - - +
124B LEU* 3.6 21.2 - - + +
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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 ARG 3.0 17.0 + - - +
123A PHE* 3.2 20.5 + - - +
125A GLU* 1.3 73.3 - - - +
127A GLN* 1.3 67.1 + - + +
129A LYS* 2.9 50.7 - - - +
130A ILE* 3.2 14.4 + - + +
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Residues in contact with GLN 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A PHE* 2.8 38.5 + - - +
124A LEU* 3.8 17.7 - - - +
126A GLN* 1.3 78.9 - - + +
128A ASN* 1.3 63.3 + - - +
130A ILE* 3.2 7.6 + - - +
131A LEU* 3.0 32.6 + - + +
128B ASN* 4.1 8.1 + - - +
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Residues in contact with ASN 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A LEU 2.8 17.3 + - - +
125A GLU* 3.5 8.7 - - - +
126A GLN 3.2 0.2 - - - -
127A GLN* 1.3 77.6 - - - +
129A LYS* 1.3 63.8 + - - +
131A LEU* 3.2 4.6 + - - +
132A LEU* 3.0 44.1 + - - +
124B LEU* 4.7 13.0 - - + +
127B GLN* 3.0 31.2 + - - +
128B ASN* 2.9 29.8 + - - +
131B LEU* 3.4 13.3 - - - +
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Residues in contact with LYS 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A GLU* 2.9 13.2 + - + +
126A GLN* 2.9 58.5 - - - +
128A ASN* 1.3 79.6 + - - +
130A ILE* 1.3 70.7 + - + +
132A LEU* 3.5 10.3 + - + +
133A ALA* 3.1 22.0 + - - +
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Residues in contact with ILE 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A GLN* 3.2 20.5 + - + +
127A GLN* 3.7 9.0 - - - +
129A LYS* 1.3 81.8 - - + +
131A LEU* 1.3 68.5 + - + +
133A ALA* 3.2 8.1 + - + +
134A GLU* 3.0 50.3 + - + +
----------------------------------------------------------
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Residues in contact with LEU 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A GLN* 3.0 26.0 + - + +
128A ASN 3.7 3.8 - - - +
130A ILE* 1.3 78.8 - - + +
132A LEU* 1.3 61.6 + - - +
134A GLU* 3.3 13.1 + - - +
135A LEU* 3.0 25.1 + - - +
128B ASN* 3.8 46.9 - - + +
131B LEU* 3.8 16.9 - - + +
132B LEU* 3.5 31.2 - - + -
135B LEU* 3.7 19.7 - - + +
----------------------------------------------------------
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Residues in contact with LEU 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A ASN* 3.0 38.9 + - - +
129A LYS* 3.7 10.1 - - - +
131A LEU* 1.3 76.0 - - - +
133A ALA* 1.3 58.0 + - - +
135A LEU* 3.4 7.2 + - + +
136A GLU* 2.9 33.9 + - - +
127B GLN* 4.3 9.4 - - - +
131B LEU* 3.7 28.9 - - + -
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Residues in contact with ALA 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A LYS 3.1 12.0 + - - +
130A ILE* 3.2 15.9 + - + +
132A LEU* 1.3 79.1 - - - +
134A GLU* 1.3 62.8 + - + +
136A GLU* 3.1 27.6 - - - +
137A GLN* 3.2 19.0 + - - +
----------------------------------------------------------
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Residues in contact with GLU 134 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A ILE* 3.0 35.0 + - + +
131A LEU* 3.8 13.7 - - - +
133A ALA* 1.3 75.0 - - + +
135A LEU* 1.3 66.0 + - - +
137A GLN* 3.1 27.3 + - - +
138A LEU* 3.4 16.0 + - + +
135B LEU* 3.6 28.6 - - + +
----------------------------------------------------------
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Residues in contact with LEU 135 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A LEU 3.0 17.1 + - - +
132A LEU* 3.9 6.7 - - + +
134A GLU* 1.3 76.8 - - - +
136A GLU* 1.3 62.8 + - - +
138A LEU* 3.0 14.9 + - - +
139A NH2 3.2 8.0 + - - -
131B LEU* 4.0 25.4 - - + +
134B GLU* 4.0 26.7 - - + -
135B LEU* 3.7 19.5 - - + +
138B LEU* 3.4 32.8 - - + -
----------------------------------------------------------
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Residues in contact with GLU 136 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A LEU* 2.9 18.1 + - - +
133A ALA* 3.1 22.2 - - - +
135A LEU* 1.3 77.9 - - - +
137A GLN* 1.3 59.7 + - + +
139A NH2 3.1 9.0 + - - -
----------------------------------------------------------
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Residues in contact with GLN 137 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ALA* 3.2 19.0 - - - +
134A GLU* 3.1 18.4 + - - +
136A GLU* 1.3 78.1 - - + +
138A LEU* 1.3 68.2 + - + +
139A NH2 3.2 3.3 + - - -
----------------------------------------------------------
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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 GLU 3.4 9.8 + - - +
135A LEU 3.0 11.9 + - - +
137A GLN* 1.3 86.5 - - + +
139A NH2 1.3 46.5 + - - -
135B LEU* 4.1 20.6 - - + +
138B LEU* 3.5 50.3 - - + +
139B NH2 4.7 6.1 - - - +
----------------------------------------------------------
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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