Contacts of the helix formed by residues 120 - 141 (chain A) in PDB entry 4FUX
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 120 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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118A HIS* 3.9 10.5 + - - -
119A LEU* 1.4 76.8 - - - +
121A ASN* 1.3 64.3 + - - +
122A ASP* 3.4 10.1 + - - +
123A HIS* 2.8 41.9 + - - +
124A ILE* 3.0 20.1 + - - +
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Residues in contact with ASN 121 (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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119A LEU 3.9 0.4 + - - -
120A SER* 1.3 72.7 - - - +
122A ASP* 1.4 59.8 + - - +
124A ILE* 3.2 12.6 + - + +
125A CYS* 2.8 36.5 + - - +
220A LEU* 5.7 1.4 - - - +
281A ASP* 3.6 30.3 + - - +
284A ALA* 4.9 1.0 - - - +
310A TYR* 2.9 33.4 + - - -
313A GLN* 6.0 1.4 - - - +
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Residues in contact with ASP 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A SER* 3.1 8.9 + - - +
121A ASN* 1.4 83.8 + - - +
123A HIS* 1.3 59.4 + - + +
125A CYS* 3.4 6.0 + - - +
126A TYR* 3.0 30.3 + - - +
313A GLN* 5.1 10.2 + - - +
314A TYR* 4.4 5.7 + - - +
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Residues in contact with HIS 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A LEU* 4.4 6.7 - - + -
120A SER* 2.8 41.6 + - - +
122A ASP* 1.3 74.4 - - + +
124A ILE* 1.4 59.2 + - - +
126A TYR* 3.4 6.5 + + - +
127A PHE* 2.9 57.3 + + + -
159A CME 4.0 31.7 - - + -
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Residues in contact with ILE 124 (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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119A LEU* 3.7 28.3 - - + +
120A SER 3.0 18.7 + - - +
121A ASN* 3.6 14.4 - - - +
123A HIS* 1.4 73.1 - - - +
125A CYS* 1.3 62.9 + - - +
127A PHE* 3.4 0.4 + - - -
128A LEU* 3.1 24.3 + - - +
216A LEU* 3.7 26.0 - - + -
219A MET* 3.8 37.3 - - + +
220A LEU* 3.8 27.8 - - + +
310A TYR* 3.4 13.9 - - - +
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Residues in contact with CYS 125 (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 ASN* 2.8 24.8 + - - +
122A ASP* 3.7 7.0 - - - +
124A ILE* 1.3 71.4 - - - +
126A TYR* 1.3 58.0 + - - +
129A TYR* 3.0 26.0 + - - +
310A TYR* 3.2 48.2 + - + +
311A LEU* 3.5 19.8 - - - +
313A GLN* 4.2 13.7 - - - +
314A TYR* 3.9 20.0 - - + -
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Residues in contact with TYR 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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122A ASP 3.0 18.1 + - - +
123A HIS* 3.9 7.0 - + - +
125A CYS* 1.3 77.6 - - - +
127A PHE* 1.3 64.4 + + - +
129A TYR* 3.4 6.7 + + - +
130A GLN* 3.2 58.6 + - + +
158A THR 4.7 3.8 + - - -
159A CME 3.5 26.7 - - + -
160A ASP* 3.7 17.7 + - - -
314A TYR* 3.5 43.2 - + - +
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Residues in contact with PHE 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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110A LEU* 4.1 9.0 - - + -
113A LEU* 3.9 16.2 - - + -
119A LEU* 3.6 35.0 - - + -
123A HIS* 2.9 36.6 + + + +
124A ILE 4.0 0.2 - - - +
126A TYR* 1.3 75.3 - + - +
128A LEU* 1.3 60.5 + - - +
130A GLN* 3.3 14.6 + - - +
131A ILE* 3.0 33.9 + - + +
155A LEU* 3.6 25.6 - - + -
159A CME 3.5 42.2 - - + -
161A LEU* 3.9 11.9 - - + +
219A MET* 3.8 18.6 - - - -
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Residues in contact with LEU 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 ILE 3.1 17.7 + - - +
125A CYS 3.8 3.4 - - - +
127A PHE* 1.3 73.8 - - - +
129A TYR* 1.4 65.0 + - - +
131A ILE* 3.3 12.5 + - + +
132A LEU* 3.0 36.9 + - + +
212A VAL* 3.7 29.4 - - + +
216A LEU* 3.8 25.4 - - + +
219A MET* 4.2 6.7 - - + +
287A LEU* 3.7 28.0 - - + -
291A MET* 4.2 8.1 - - + -
310A TYR* 3.8 21.8 - - + -
311A LEU* 4.3 2.7 - - + -
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Residues in contact with TYR 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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125A CYS 3.0 18.6 + - - +
126A TYR* 3.6 8.7 - + - +
127A PHE 3.3 0.4 - - - -
128A LEU* 1.4 75.7 - - - +
130A GLN* 1.4 66.4 + - + +
132A LEU* 3.4 2.1 + - - +
133A ARG* 2.9 50.8 + - - +
306A LEU* 3.6 18.8 - - + -
311A LEU* 3.9 22.3 - - + +
314A TYR* 3.5 54.5 + + + -
315A TYR* 4.1 2.9 - - - -
316A ASP* 4.3 2.1 + - - +
319A ASP* 4.4 6.1 + - - -
320A GLU* 2.5 39.1 + - - +
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Residues in contact with GLN 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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80A ASN* 3.4 36.2 + - - +
126A TYR* 3.2 52.9 + - + +
127A PHE* 3.7 8.6 - - - +
129A TYR* 1.4 78.5 - - + +
131A ILE* 1.4 59.5 + - - +
133A ARG* 4.3 2.5 - - - -
134A GLY* 2.9 24.6 + - - -
159A CME 3.1 21.0 + - - -
160A ASP* 3.6 8.0 - - - +
161A LEU* 2.8 40.2 + - + +
163A ILE* 4.9 0.2 - - - +
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Residues in contact with ILE 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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110A LEU* 5.1 0.2 - - + -
127A PHE* 3.0 27.6 + - + +
128A LEU* 3.6 15.0 - - + +
130A GLN* 1.4 74.6 - - - +
132A LEU* 1.4 57.9 + - - +
135A LEU* 2.8 27.9 + - + +
148A LEU* 5.4 3.6 - - + -
153A LEU* 3.8 31.0 - - + -
161A LEU* 3.8 23.1 - - + +
163A ILE* 3.5 12.6 - - + +
212A VAL* 3.8 32.8 - - + -
215A ILE* 4.0 19.5 - - + -
219A MET* 4.3 8.7 - - + -
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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
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128A LEU* 3.0 34.5 + - + +
131A ILE* 1.4 72.6 - - - +
133A ARG* 1.3 56.8 + - - +
135A LEU* 4.1 6.3 - - + -
136A LYS* 2.8 31.5 + - - +
209A ILE* 4.5 10.3 - - + -
212A VAL* 4.0 19.5 - - + -
287A LEU* 4.7 2.5 - - + -
291A MET* 4.7 4.0 - - - -
302A VAL* 3.3 23.8 - - + +
305A ALA* 3.8 28.9 - - + -
306A LEU* 3.8 19.5 - - + +
311A LEU* 3.6 29.8 - - + -
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Residues in contact with ARG 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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78A HIS* 3.5 23.2 + - + +
79A GLU* 3.2 34.9 + - - +
80A ASN* 3.0 27.6 + - - +
129A TYR* 2.9 50.0 + - + +
130A GLN* 3.8 1.3 - - - +
131A ILE 3.3 0.2 - - - -
132A LEU* 1.3 73.0 - - - +
134A GLY* 1.3 67.3 + - - +
136A LYS* 3.6 5.2 + - - +
137A TYR* 3.5 10.0 + - - +
306A LEU* 4.0 11.6 - - + +
319A ASP* 2.8 45.7 + - - -
320A GLU* 4.0 12.7 - - + +
321A PRO* 3.9 15.3 - - - +
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Residues in contact with GLY 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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78A HIS* 3.7 16.5 - - - -
80A ASN* 3.8 10.8 - - - -
81A ILE* 3.8 2.3 - - - +
130A GLN 2.9 15.9 + - - -
131A ILE 3.8 1.3 - - - -
133A ARG* 1.3 76.1 - - - +
135A LEU* 1.3 60.4 + - - +
137A TYR* 3.2 8.0 + - - +
138A ILE* 3.1 23.4 + - - +
163A ILE* 3.8 13.0 - - - -
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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
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131A ILE* 2.8 21.9 + - + +
132A LEU* 3.8 7.4 - - + +
133A ARG 3.4 0.2 - - - -
134A GLY* 1.3 68.6 - - - +
136A LYS* 1.3 58.2 + - - +
138A ILE* 3.2 19.2 + - + +
139A HIS* 2.9 58.8 + - + +
145A HIS* 5.0 0.7 - - + -
148A LEU* 3.9 13.9 - - + -
163A ILE* 3.6 3.6 - - + +
208A ASP* 3.7 19.1 - - + +
209A ILE* 3.8 25.6 - - + -
212A VAL* 3.8 27.8 - - + -
302A VAL* 3.8 6.5 - - + -
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Residues in contact with LYS 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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132A LEU 2.8 22.0 + - - +
133A ARG 3.7 6.7 - - - +
134A GLY 3.4 0.2 - - - -
135A LEU* 1.3 70.9 - - - +
137A TYR* 1.3 56.9 + - - +
139A HIS* 3.9 1.6 - - - +
140A SER* 3.0 28.8 + - - -
302A VAL* 3.5 16.3 - - + +
303A GLU* 3.4 37.2 + - + -
306A LEU* 3.7 24.7 - - + -
317A PRO* 3.6 19.4 + - - +
320A GLU* 2.7 43.6 + - + +
321A PRO 4.5 1.1 - - - +
322A ILE* 3.6 20.8 - - + +
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Residues in contact with TYR 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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75A ARG 4.2 3.5 + - - -
76A PHE* 3.6 38.0 - + + -
77A ARG* 3.3 32.3 + - - +
78A HIS* 3.4 32.5 - + + +
81A ILE* 3.4 17.7 - - + -
133A ARG 3.5 1.2 + - - -
134A GLY 3.2 10.4 + - - +
136A LYS* 1.3 77.1 - - - +
138A ILE* 1.3 65.9 + - - +
140A SER* 2.7 21.1 + - - -
141A ALA* 3.3 6.4 + - - +
321A PRO* 3.7 14.3 + - + +
322A ILE 3.6 17.9 - - - -
323A ALA* 3.6 23.5 - - + +
324A GLU* 3.6 18.8 + - - -
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Residues in contact with ILE 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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76A PHE* 3.9 14.6 - - + -
81A ILE* 3.6 16.6 - - + -
134A GLY 3.1 15.9 + - - +
135A LEU* 3.2 16.8 + - + +
137A TYR* 1.3 73.8 - - - +
139A HIS* 1.3 62.1 + - + +
141A ALA* 3.1 23.4 + - - +
143A VAL* 3.3 45.3 + - + +
145A HIS* 4.3 13.7 - - + +
148A LEU* 5.5 0.2 - - + -
163A ILE* 3.8 27.8 - - + -
166A PHE* 3.7 25.1 - - + -
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Residues in contact with HIS 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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135A LEU* 2.9 35.6 + - + +
136A LYS 4.0 3.4 - - - +
138A ILE* 1.3 74.4 - - + +
140A SER* 1.4 59.7 + - - +
142A ASN 2.9 15.9 + - - -
143A VAL 3.2 20.4 - - - -
144A LEU* 4.5 0.4 - - - +
205A LYS* 3.1 76.0 + - + +
208A ASP* 2.8 32.6 + - + +
209A ILE* 4.7 6.5 - - + +
302A VAL* 4.0 23.1 + - + +
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Residues in contact with SER 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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136A LYS 3.0 15.3 + - - -
137A TYR 2.7 19.8 + - - -
139A HIS* 1.4 75.2 - - - +
141A ALA* 1.3 57.4 + - - +
142A ASN* 3.2 1.6 + - - +
205A LYS* 5.1 1.6 - - - +
322A ILE* 3.4 30.9 - - - +
323A ALA* 2.8 28.4 + - - +
326A PRO* 4.1 11.8 - - - +
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Residues in contact with ALA 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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76A PHE* 3.5 30.7 - - + -
137A TYR 3.8 1.3 - - - +
138A ILE 3.1 13.7 + - - +
140A SER* 1.3 76.7 + - - +
142A ASN* 1.4 65.0 + - - +
143A VAL* 3.4 1.6 + - + -
323A ALA* 3.6 17.7 - - + -
325A ALA 4.7 1.6 - - - +
326A PRO* 3.7 13.9 - - + -
327A PHE* 2.7 31.2 + - + +
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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