Contacts of the helix formed by residues 122 - 143 (chain A) in PDB entry 3SA0
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 SER 122 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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120A HIS* 4.0 11.0 + - - -
121A LEU* 1.3 76.2 - - - +
123A ASN* 1.3 65.3 + - - +
124A ASP* 3.3 10.7 + - - +
125A HIS* 2.7 42.8 + - - -
126A ILE* 3.0 20.5 + - - +
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Residues in contact with ASN 123 (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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121A LEU 3.8 1.0 + - - -
122A SER* 1.3 72.2 - - - +
124A ASP* 1.3 68.7 + - - +
126A ILE* 3.4 11.8 + - + +
127A CYS* 3.0 24.6 + - - +
222A LEU* 5.5 1.9 - - - +
283A ASP* 3.5 34.7 + - - +
286A ALA* 4.9 1.2 - - - +
312A TYR* 2.8 34.0 + - - -
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Residues in contact with ASP 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A SER* 3.1 9.8 + - - +
123A ASN* 1.3 84.4 + - - +
125A HIS* 1.3 63.1 + - + +
127A CYS* 3.4 6.4 + - - +
128A TYR* 3.1 23.7 + - - +
315A GLN* 4.8 13.3 + - - +
316A TYR* 4.5 5.3 + - - +
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Residues in contact with HIS 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A LEU* 4.3 6.5 - - + -
122A SER* 2.7 43.6 + - - +
124A ASP* 1.3 75.8 - - + +
126A ILE* 1.3 60.0 + - - +
128A TYR* 3.3 6.7 + + - -
129A PHE* 2.8 59.1 + + + -
161A CME 4.0 32.0 - - + -
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Residues in contact with ILE 126 (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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121A LEU* 3.6 27.4 - - + +
122A SER 3.0 14.1 + - - +
123A ASN* 3.6 14.1 - - + +
125A HIS* 1.3 75.3 - - - +
127A CYS* 1.3 57.6 + - - +
129A PHE* 3.9 1.2 - - - +
130A LEU* 2.9 29.5 + - - +
218A LEU* 3.7 27.4 - - + -
221A MET* 3.5 37.2 - - + +
222A LEU* 3.8 23.8 - - + +
312A TYR* 3.4 14.6 - - + +
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Residues in contact with CYS 127 (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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123A ASN* 3.0 19.4 + - - +
124A ASP* 3.7 8.3 - - - +
126A ILE* 1.3 77.7 - - - +
128A TYR* 1.3 55.9 + - - +
130A LEU* 3.4 0.3 + - - +
131A TYR* 2.9 30.1 + - - +
312A TYR* 3.3 49.3 + - + +
313A LEU* 3.5 17.1 - - - +
315A GLN* 4.2 11.2 - - - +
316A TYR* 3.9 20.0 - - + -
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Residues in contact with TYR 128 (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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124A ASP 3.1 17.1 + - - +
125A HIS* 3.7 8.5 - + - +
127A CYS* 1.3 73.1 - - - +
129A PHE* 1.3 70.1 + + - +
131A TYR* 3.3 6.2 + + - +
132A GLN* 3.0 63.2 + - + +
160A THR 4.6 4.2 + - - -
161A CME 3.5 26.7 - - + -
162A ASP* 3.6 18.2 + - - -
316A TYR* 3.6 41.7 - + - +
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Residues in contact with PHE 129 (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 LEU* 4.0 16.2 - - + -
115A LEU* 4.1 6.7 - - + -
121A LEU* 3.6 37.0 - - + -
125A HIS* 2.8 37.2 + + + +
128A TYR* 1.3 76.7 - + - +
130A LEU* 1.3 62.2 + - - +
132A GLN* 3.2 12.9 + - - +
133A ILE* 3.0 29.2 + - + +
157A LEU* 3.6 26.9 - - + -
161A CME 3.6 42.2 - - + -
163A LEU* 4.0 12.5 - - + +
221A MET* 3.8 17.3 - - - -
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Residues in contact with LEU 130 (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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126A ILE 2.9 18.7 + - - +
127A CYS 3.7 3.4 - - - +
129A PHE* 1.3 75.4 - - - +
131A TYR* 1.3 63.7 + - - +
133A ILE* 3.3 9.2 + - + +
134A LEU* 2.9 34.5 + - + +
214A VAL* 3.6 31.0 - - + +
218A LEU* 4.0 27.6 - - + -
221A MET* 4.2 10.9 - - + +
289A LEU* 3.7 28.9 - - + -
293A MET* 4.2 4.7 - - + -
312A TYR* 3.9 20.4 - - + -
313A LEU* 4.3 5.6 - - + -
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Residues in contact with TYR 131 (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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127A CYS 2.9 18.0 + - - +
128A TYR* 3.5 7.9 - + - +
129A PHE 3.2 0.2 - - - -
130A LEU* 1.3 78.2 - - - +
132A GLN* 1.3 68.2 + - + +
134A LEU* 3.3 1.7 + - - +
135A ARG* 2.8 52.7 + - - +
308A LEU* 3.7 19.1 - - + -
313A LEU* 4.1 21.0 - - + +
316A TYR* 3.4 56.0 + + + -
317A TYR* 4.1 2.9 - - - -
318A ASP* 4.2 2.6 + - - +
321A ASP* 4.4 4.7 + - - -
322A GLU* 2.5 40.7 + - - +
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Residues in contact with GLN 132 (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 ASN* 3.2 34.3 + - - +
128A TYR* 3.0 55.1 + - + +
129A PHE* 3.8 6.3 - - - +
131A TYR* 1.3 79.7 - - + +
133A ILE* 1.3 66.8 + - - +
135A ARG* 4.2 5.2 - - - -
136A GLY* 3.0 19.2 + - - -
161A CME 3.1 22.2 + - - -
162A ASP* 3.5 7.8 - - - +
163A LEU* 2.9 37.9 + - + +
165A ILE* 5.0 0.2 - - - +
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Residues in contact with ILE 133 (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 LEU* 5.1 0.4 - - + -
129A PHE* 3.0 26.9 + - + +
130A LEU* 3.6 13.2 - - + +
132A GLN* 1.3 76.7 - - - +
134A LEU* 1.3 58.5 + - - +
136A GLY* 3.3 1.0 + - - -
137A LEU* 2.8 28.6 + - + +
150A LEU* 5.4 4.3 - - + -
155A LEU* 3.7 29.2 - - + -
163A LEU* 3.8 23.8 - - + +
165A ILE* 3.7 12.6 - - + +
214A VAL* 3.9 32.1 - - + -
217A ILE* 4.1 19.3 - - + -
221A MET* 4.5 7.0 - - + -
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Residues in contact with LEU 134 (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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130A LEU* 2.9 26.8 + - + +
133A ILE* 1.3 74.0 - - - +
135A ARG* 1.3 59.9 + - - +
137A LEU* 4.2 6.7 - - + -
138A LYS* 2.8 27.9 + - - +
211A ILE* 4.4 10.1 - - + -
214A VAL* 4.0 19.7 - - + -
293A MET* 3.9 18.4 - - + -
304A VAL* 3.3 23.9 - - + +
307A ALA* 3.8 24.0 - - + -
308A LEU* 3.6 17.4 - - + +
313A LEU* 3.6 29.8 - - + -
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Residues in contact with ARG 135 (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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80A HIS* 3.5 16.9 + - + +
81A GLU* 3.0 39.9 + - - +
82A ASN* 2.9 27.6 + - - +
131A TYR* 2.8 48.0 + - + +
132A GLN* 3.7 3.4 - - - +
133A ILE 3.3 0.2 - - - -
134A LEU* 1.3 78.5 - - - +
136A GLY* 1.3 62.7 + - - +
138A LYS* 3.4 10.2 + - - +
139A TYR 3.5 8.0 + - - -
308A LEU* 4.0 10.5 - - + +
321A ASP* 2.8 46.2 + - - -
322A GLU* 4.0 13.8 - - + +
323A PRO* 3.9 15.1 - - - +
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Residues in contact with GLY 136 (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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80A HIS* 3.7 18.2 - - - -
82A ASN* 3.9 8.3 - - - -
83A ILE* 3.9 4.7 - - - +
132A GLN 3.0 14.6 + - - -
133A ILE 3.7 2.2 - - - -
135A ARG* 1.3 77.2 - - - +
137A LEU* 1.3 61.3 + - - +
139A TYR* 3.1 6.8 + - - +
140A ILE* 3.0 24.9 + - - +
165A ILE* 4.0 12.8 - - - -
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Residues in contact with LEU 137 (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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133A ILE* 2.8 19.4 + - + +
134A LEU* 3.3 6.9 + - + +
136A GLY* 1.3 72.7 - - - +
138A LYS* 1.3 66.6 + - - +
140A ILE* 3.6 18.8 - - + +
141A HIS* 2.8 64.2 + - + +
147A HIS* 4.9 0.9 - - + -
150A LEU* 4.0 14.6 - - + -
165A ILE* 3.9 3.3 - - + +
210A ASP* 3.8 17.0 - - + +
211A ILE* 4.1 15.5 - - + -
214A VAL* 3.9 26.5 - - + -
304A VAL* 4.1 7.6 - - + -
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Residues in contact with LYS 138 (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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134A LEU 2.8 17.7 + - - +
135A ARG 3.5 6.3 - - - +
136A GLY 3.2 0.2 - - - -
137A LEU* 1.3 76.8 - - - +
139A TYR* 1.3 58.0 + - - +
141A HIS* 3.8 1.2 - - - +
142A SER* 2.8 31.1 + - - -
304A VAL* 3.6 15.5 - - + +
305A GLU* 3.7 34.5 + - + +
308A LEU* 3.9 21.7 - - + +
319A PRO* 3.9 15.8 + - - +
322A GLU* 2.9 45.9 + - + +
323A PRO 4.7 0.4 - - - +
324A ILE* 3.5 21.7 - - + +
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Residues in contact with TYR 139 (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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77A ARG 4.1 2.8 + - - -
78A PHE* 3.6 37.8 - + + -
79A ARG* 3.1 36.7 + - - +
80A HIS* 3.4 32.5 - + + +
83A ILE* 3.6 18.4 - - + -
135A ARG 3.5 1.4 + - - -
136A GLY 3.1 7.9 + - - +
138A LYS* 1.3 80.2 - - - +
140A ILE* 1.3 64.3 + - - +
142A SER* 2.7 23.1 + - - -
143A ALA* 3.2 6.1 + - - +
323A PRO* 3.6 19.3 + - + +
324A ILE 3.6 11.9 - - - -
325A ALA* 3.6 23.4 - - + +
326A GLU* 3.7 15.8 + - - -
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Residues in contact with ILE 140 (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 PHE* 4.0 14.4 - - + -
83A ILE* 3.6 16.2 - - + -
136A GLY 3.0 14.9 + - - +
137A LEU* 3.6 16.2 - - + +
139A TYR* 1.3 75.7 - - - +
141A HIS* 1.3 62.5 + - + +
143A ALA* 3.0 19.9 + - - +
145A VAL* 3.2 48.9 + - + +
147A HIS* 4.4 11.2 - - + +
150A LEU* 5.7 0.2 - - + -
165A ILE* 3.9 24.5 - - + -
168A PHE* 3.6 29.2 - - + -
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Residues in contact with HIS 141 (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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137A LEU* 2.8 45.3 + - + +
138A LYS 4.0 2.5 - - - +
140A ILE* 1.3 74.5 - - + +
142A SER* 1.3 57.4 + - - +
144A ASN 2.9 16.3 + - - -
145A VAL 3.2 21.1 - - - -
146A LEU* 4.1 1.4 - - + +
207A LYS* 3.1 76.1 + - + +
210A ASP* 2.8 28.3 + - + +
211A ILE* 4.8 5.4 - - + +
304A VAL* 4.1 20.5 + - + +
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Residues in contact with SER 142 (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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138A LYS* 2.8 15.8 + - - -
139A TYR 2.7 18.9 + - - -
141A HIS* 1.3 75.6 - - - +
143A ALA* 1.3 57.0 + - - +
144A ASN* 3.2 1.8 + - - +
207A LYS* 5.1 1.1 - - - +
324A ILE* 3.3 28.0 - - - +
325A ALA* 2.8 30.3 + - - +
327A ALA 5.0 0.2 - - - -
328A PRO* 4.6 9.7 - - - +
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Residues in contact with ALA 143 (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 PHE* 3.6 29.8 - - + -
139A TYR 3.2 3.6 + - - +
140A ILE 3.0 11.2 + - - +
142A SER* 1.3 76.6 - - - +
144A ASN* 1.3 65.5 + - - +
145A VAL* 3.1 5.5 + - + +
325A ALA* 3.8 17.5 - - + -
328A PRO* 3.8 10.1 - - - -
329A PHE* 2.9 35.4 + - + -
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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
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Atomic class I II III IV V VI VII VIII
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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