Contacts of the helix formed by residues 112 - 133 (chain C) in PDB entry 1Z9X
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 112 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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111C LEU* 1.3 75.4 - - - +
113C GLU* 1.3 59.4 + - - +
114C GLU* 3.5 10.0 + - - +
115C GLU* 2.8 40.4 + - - +
116C ALA* 2.9 26.8 + - - +
287C ARG* 3.6 23.6 - - - +
289C SER 3.3 8.1 - - - -
290C VAL* 4.2 7.0 - - - +
291C VAL* 4.8 1.6 - - - -
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Residues in contact with GLU 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C SER* 1.3 69.8 - - - +
114C GLU* 1.3 59.2 + - - +
116C ALA* 3.6 6.6 - - - +
117C THR* 2.8 34.7 + - - +
211C LEU* 4.3 16.2 - - + +
243C HIS 4.1 0.5 - - - +
244C THR* 3.5 12.0 - - - +
245C SER* 2.5 49.0 + - - -
248C ALA* 4.1 5.8 - - - -
274C TRP* 2.8 22.7 + - + +
286C ARG* 3.4 22.5 + - + +
289C SER* 2.8 29.6 + - - +
290C VAL 4.7 2.1 - - - +
291C VAL* 4.7 6.1 - - + -
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Residues in contact with GLU 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C SER* 3.2 10.0 + - - +
113C GLU* 1.3 75.3 - - - +
115C GLU* 1.3 65.0 + - - +
117C THR* 2.7 19.6 + - - -
118C SER* 3.2 17.8 + - - +
283C ALA 4.5 1.6 - - - +
286C ARG* 3.3 34.3 + - - +
287C ARG* 3.0 61.0 + - - +
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Residues in contact with GLU 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108C LYS* 3.6 21.6 + - - -
110C SER* 3.9 3.6 + - - +
111C LEU* 3.4 19.2 - - + -
112C SER* 2.8 41.0 + - - +
114C GLU* 1.3 78.6 - - + +
116C ALA* 1.3 65.9 + - - +
118C SER* 3.2 16.3 + - - -
119C PHE* 3.2 26.5 + - + -
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Residues in contact with ALA 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C LEU* 4.3 9.8 - - + +
112C SER 2.9 16.3 + - - +
113C GLU* 3.6 11.7 - - - +
114C GLU 3.3 0.2 - - - -
115C GLU* 1.3 76.1 - - - +
117C THR* 1.3 57.3 + - - +
119C PHE* 3.2 10.8 + - - +
120C ILE* 3.0 33.4 + - + +
210C LEU* 3.7 27.9 - - + +
211C LEU* 4.2 13.0 - - + -
274C TRP* 5.0 0.7 - - + -
291C VAL* 4.6 0.7 - - + -
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Residues in contact with THR 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C GLU 2.8 19.8 + - - +
114C GLU* 2.7 26.0 + - - -
116C ALA* 1.3 70.6 - - - +
118C SER* 1.3 55.1 + - - +
120C ILE* 3.6 7.6 - - - +
121C LYS* 2.7 36.6 + - - +
274C TRP* 3.4 55.2 - - + +
275C ILE* 4.2 10.2 - - + +
286C ARG* 3.4 20.5 + - - -
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Residues in contact with SER 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114C GLU* 3.2 17.3 + - - +
115C GLU* 3.2 13.8 + - - -
117C THR* 1.3 78.1 + - - +
119C PHE* 1.3 63.3 + - - +
121C LYS* 3.4 7.2 + - - +
122C GLN* 3.3 27.8 + - - +
154C ILE* 5.2 13.5 - - - -
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Residues in contact with PHE 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C LEU* 3.9 25.8 - - + -
104C PHE* 4.0 12.6 - + - -
105C LEU* 3.9 24.9 - - + -
108C LYS* 5.1 4.0 - - - -
111C LEU* 4.5 8.5 - - + -
115C GLU* 3.2 28.4 + - + -
116C ALA* 3.2 8.4 + - - +
118C SER* 1.3 73.8 - - - +
120C ILE* 1.3 66.8 + - + +
122C GLN* 3.2 22.1 + - - +
123C ILE* 3.4 6.0 + - - +
147C LEU* 5.2 0.2 - - + -
153C PRO 5.4 0.9 - - - -
154C ILE* 3.8 19.1 - - + -
155C PRO* 3.7 41.3 - - + -
157C ILE* 3.2 30.1 - - + +
210C LEU* 5.3 3.8 - - + -
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Residues in contact with ILE 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116C ALA 3.0 23.4 + - - +
117C THR* 3.2 6.3 + - - +
119C PHE* 1.3 76.4 - - - +
121C LYS* 1.3 56.3 + - - +
123C ILE* 3.1 17.4 + - + +
124C LEU* 2.9 46.0 + - + +
203C ILE* 5.0 4.3 - - + -
206C ILE* 6.5 0.4 - - + -
207C THR* 3.8 24.5 - - + +
210C LEU* 4.1 26.5 - - + -
211C LEU* 5.4 0.2 - - + -
251C PHE* 4.5 5.8 - - + -
274C TRP* 3.5 33.9 - - + -
275C ILE* 3.9 9.2 - - + -
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Residues in contact with LYS 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117C THR 2.7 21.1 + - - +
118C SER* 3.7 7.6 - - - +
119C PHE 3.3 0.2 - - - -
120C ILE* 1.3 73.2 - - - +
122C GLN* 1.3 52.9 + - - +
124C LEU* 3.5 10.0 - - - +
125C ASP* 2.6 58.9 + - - +
270C LEU* 4.1 19.7 - - + -
275C ILE* 4.2 21.8 - - + +
276C THR* 5.3 4.9 - - - -
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Residues in contact with GLN 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75C ASN* 3.8 23.8 + - - +
118C SER* 3.3 13.5 + - - +
119C PHE* 3.2 29.1 + - - +
121C LYS* 1.3 79.2 - - - +
123C ILE* 1.3 61.2 + - - +
125C ASP* 3.4 8.3 + - - +
126C GLY* 3.1 17.5 + - - -
154C ILE* 4.5 7.7 + - - +
155C PRO 3.0 21.8 + - - -
156C HIS* 3.3 11.9 + - - +
157C ILE* 2.7 41.0 + - + +
159C LEU* 5.7 0.3 - - - +
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Residues in contact with ILE 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C LEU* 4.5 7.4 - - + -
119C PHE 3.6 15.5 - - - +
120C ILE* 3.1 21.0 + - + +
122C GLN* 1.3 71.9 - - - +
124C LEU* 1.3 62.7 + - + +
126C GLY* 3.0 3.1 + - - -
127C VAL* 2.8 43.5 + - + +
140C LEU* 5.1 2.9 - - + -
145C ILE* 4.1 32.3 - - + -
157C ILE* 4.0 15.5 - - + -
159C LEU* 4.0 22.7 - - + +
203C ILE* 4.8 17.0 - - + -
206C ILE* 4.9 16.2 - - + -
210C LEU* 5.6 1.1 - - + -
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Residues in contact with LEU 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C ILE* 2.9 22.0 + - + +
121C LYS* 3.1 11.6 + - - +
123C ILE* 1.3 76.6 - - + +
125C ASP* 1.3 57.8 + - - +
127C VAL* 4.5 0.7 - - - -
128C ASN* 2.9 30.3 + - - +
200C MET* 4.9 0.2 - - + -
203C ILE* 3.9 31.4 - - + -
251C PHE* 4.4 3.8 - - + -
266C ILE* 3.4 25.2 - - + +
269C ALA* 4.3 18.8 - - + +
270C LEU* 3.7 19.4 - - + +
275C ILE* 3.8 40.8 - - + -
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Residues in contact with ASP 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73C HIS* 4.3 12.8 + - + +
74C HIS* 6.1 1.1 - - + +
75C ASN* 4.7 7.2 - - - +
121C LYS* 2.6 53.7 + - - +
122C GLN* 3.6 9.5 - - - +
124C LEU* 1.3 70.0 - - - +
126C GLY* 1.3 63.8 + - - +
128C ASN* 3.7 7.6 + - - +
129C TYR* 3.3 21.3 + - - +
270C LEU* 3.7 15.1 - - - +
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Residues in contact with GLY 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73C HIS* 4.4 15.4 - - - -
75C ASN* 4.7 5.4 - - - -
76C VAL* 4.8 4.9 - - - +
122C GLN 3.1 10.3 + - - -
123C ILE 3.0 6.7 + - - -
125C ASP* 1.3 75.2 - - - +
127C VAL* 1.3 62.9 + - - +
129C TYR* 3.4 7.2 + - - +
130C LEU* 3.3 24.3 + - - +
159C LEU* 3.8 16.8 - - - -
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Residues in contact with VAL 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123C ILE* 2.8 28.7 + - + +
126C GLY* 1.3 73.5 - - - +
128C ASN* 1.3 53.7 + - - +
130C LEU* 3.1 10.9 + - + +
131C HIS* 2.8 66.5 + - + +
137C HIS* 6.1 0.7 - - + -
140C LEU* 4.0 21.5 - - + -
159C LEU* 4.0 14.1 - - + -
199C ASP* 4.6 4.7 - - + +
203C ILE* 4.1 12.1 - - + -
266C ILE* 3.7 20.0 - - + -
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Residues in contact with ASN 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124C LEU 2.9 19.4 + - - +
125C ASP* 3.7 9.4 + - - +
126C GLY 3.3 0.2 - - - -
127C VAL* 1.3 76.3 - - - +
129C TYR* 1.3 55.2 + - - +
131C HIS 3.3 0.5 + - - -
132C THR* 2.6 47.9 + - - -
266C ILE* 3.6 23.8 - - + +
267C GLN* 2.7 31.2 + - - +
270C LEU* 4.0 13.3 - - + +
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Residues in contact with TYR 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71C VAL* 3.8 30.1 - - + -
72C LEU* 2.7 40.6 + - - +
73C HIS* 3.9 32.3 - + + -
76C VAL* 4.9 3.1 - - + -
125C ASP 3.3 11.3 + - - +
126C GLY 3.5 9.6 - - - +
127C VAL 3.3 0.4 - - - -
128C ASN* 1.3 80.6 - - - +
130C LEU* 1.3 68.7 + - + +
132C THR* 3.8 7.2 + - - -
133C LYS* 2.9 53.5 + - + +
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Residues in contact with LEU 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71C VAL* 4.0 25.1 - - + -
76C VAL* 5.0 4.3 - - + -
126C GLY 3.4 14.6 - - - +
127C VAL* 3.1 13.1 + - + +
129C TYR* 1.3 81.6 - - + +
131C HIS* 1.3 59.5 + - + +
133C LYS* 3.0 16.0 + - - -
135C ILE* 2.9 46.8 + - + +
137C HIS* 4.3 18.6 - - + +
159C LEU* 4.3 15.9 - - + -
162C PHE* 3.7 39.3 - - + -
199C ASP* 5.7 0.4 - - - +
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Residues in contact with HIS 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127C VAL* 2.8 41.2 + - + +
128C ASN 3.9 0.4 - - - +
130C LEU* 1.3 72.5 - - + +
132C THR* 1.3 65.0 + - - +
134C LYS* 3.1 15.1 + - - +
135C ILE 3.4 17.0 - - - -
196C LEU* 3.2 59.3 + - + +
199C ASP* 2.9 27.2 + - + -
200C MET* 4.0 11.1 - - + +
266C ILE* 3.8 29.1 + - + +
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Residues in contact with THR 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128C ASN* 2.6 35.3 + - - -
129C TYR* 3.8 8.6 - - - -
130C LEU 3.2 0.2 - - - -
131C HIS* 1.3 76.7 - - - +
133C LYS* 1.3 61.4 + - + +
134C LYS* 3.4 13.5 + - - +
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Residues in contact with LYS 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70C GLN* 2.5 56.2 + - + +
71C VAL* 5.1 0.7 - - + -
129C TYR* 2.9 43.5 + - + +
130C LEU* 3.0 9.4 + - - +
132C THR* 1.3 79.1 - - + +
134C LYS* 1.3 72.7 + - - +
135C ILE* 3.2 22.0 + - + +
167C GLU* 4.9 4.5 - - - +
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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