Contacts of the helix formed by residues 137 - 159 (chain H) in PDB entry 5JKL
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 TYR 137 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27H GLU* 4.2 8.1 - - - -
65H HIS* 2.6 54.4 + + + -
68H LYS* 3.4 19.1 - - + +
69H LEU* 3.4 22.7 + - + +
114H LEU* 3.8 36.6 - - + -
132H PHE* 3.5 36.1 - + - -
133H ILE* 2.9 14.8 + - + +
135H THR 3.7 0.4 - - - -
136H HIS* 1.3 97.3 - - + +
138H LEU* 1.3 66.6 + - - +
139H ASN 3.5 1.8 - - - -
140H GLU* 3.4 5.6 + - + +
141H GLN* 3.0 29.9 + - - +
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Residues in contact with LEU 138 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111H ASN* 4.3 7.3 - - - +
114H LEU* 3.9 22.2 - - + +
115H LEU* 4.0 28.0 - - + -
118H HIS* 4.4 9.6 - - + +
133H ILE* 2.9 40.5 + - + +
134H GLU* 3.9 30.2 + - + +
137H TYR* 1.3 72.4 - - - +
139H ASN* 1.3 59.2 + - - +
141H GLN* 3.3 5.3 + - - +
142H VAL* 3.0 32.6 + - + +
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Residues in contact with ASN 139 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134H GLU 4.2 8.6 + - - +
135H THR 5.8 2.2 + - - +
137H TYR 3.5 0.4 - - - +
138H LEU* 1.3 76.8 - - - +
140H GLU* 1.3 68.6 + - - +
142H VAL* 4.1 17.5 - - - +
143H LYS* 3.0 56.3 + - - +
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Residues in contact with GLU 140 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61H GLU* 5.3 8.0 - - - +
65H HIS* 5.0 19.5 + - + +
135H THR 5.6 1.1 - - - +
136H HIS* 3.4 25.1 - - - +
137H TYR* 3.4 10.0 + - + +
138H LEU 3.4 0.6 - - - -
139H ASN* 1.3 79.2 + - - +
141H GLN* 1.3 66.3 + - - +
143H LYS* 3.0 33.8 + - - +
144H ALA* 3.0 24.1 + - - +
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Residues in contact with GLN 141 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62H GLU* 5.1 0.2 - - - +
65H HIS* 4.8 6.6 - - - -
107H GLU* 2.7 53.6 + - - +
110H VAL* 3.9 11.5 - - - +
111H ASN* 3.3 28.7 - - + +
114H LEU* 3.5 26.5 - - + +
137H TYR* 3.0 13.5 + - - +
138H LEU 3.5 5.8 - - - +
139H ASN 3.2 0.2 - - - -
140H GLU* 1.3 79.2 - - - +
142H VAL* 1.3 57.1 + - - +
144H ALA* 3.3 3.0 + - - +
145H ILE* 2.9 36.3 + - - +
201H FE 3.9 15.1 - - - -
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Residues in contact with VAL 142 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111H ASN* 5.2 11.0 - - - +
138H LEU 3.0 21.6 + - - +
139H ASN* 3.3 16.8 + - - +
141H GLN* 1.3 75.0 - - - +
143H LYS* 1.3 60.3 + - + +
145H ILE* 3.5 6.4 + - + +
146H LYS* 3.0 31.8 + - + +
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Residues in contact with LYS 143 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139H ASN* 3.0 41.5 + - - +
140H GLU* 3.0 38.5 + - - +
142H VAL* 1.3 77.6 - - + +
144H ALA* 1.3 62.4 + - - +
146H LYS* 3.4 5.3 + - - +
147H GLU* 3.0 24.9 + - - +
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Residues in contact with ALA 144 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107H GLU* 4.2 26.0 - - + +
140H GLU 3.0 17.6 + - - +
141H GLN* 3.7 5.6 - - - +
143H LYS* 1.3 76.9 - - - +
145H ILE* 1.3 57.6 + - - +
147H GLU* 3.4 6.9 + - - +
148H LEU* 3.0 37.3 + - + +
203H MG 4.4 15.0 - - - -
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Residues in contact with ILE 145 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104H LEU* 3.8 22.0 - - + +
107H GLU* 3.9 35.2 - - + +
108H LYS* 4.0 25.6 - - + -
111H ASN* 3.9 28.3 - - + +
141H GLN 2.9 22.7 + - - +
142H VAL* 3.9 7.0 - - + +
144H ALA* 1.3 74.2 - - - +
146H LYS* 1.3 58.7 + - - +
148H LEU* 3.5 1.9 + - - -
149H GLY* 3.0 25.6 + - - -
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Residues in contact with LYS 146 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142H VAL* 3.0 20.5 + - + +
143H LYS* 3.8 6.1 - - - +
145H ILE* 1.3 78.9 - - - +
147H GLU* 1.3 63.0 + - - +
149H GLY* 3.3 2.1 + - - -
150H ASP* 2.9 59.8 + - - +
42J ASP* 2.9 38.9 + - - +
43J ARG* 4.8 0.2 - - - +
44J ASP* 3.8 21.5 - - + +
47J ALA* 5.8 0.4 - - - +
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Residues in contact with GLU 147 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54H TYR* 2.5 32.9 + - - +
58H GLN* 4.0 6.4 + - - -
143H LYS 3.0 19.2 + - - +
144H ALA* 3.7 7.4 - - - +
146H LYS* 1.3 77.4 - - - +
148H LEU* 1.3 57.7 + - - +
150H ASP* 3.2 12.8 + - - +
151H HIS* 2.9 49.4 + - + +
49J LYS* 5.7 2.4 + - - -
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Residues in contact with LEU 148 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34H TYR* 4.0 4.7 - - + +
54H TYR* 3.6 22.9 - - + +
55H PHE* 5.0 0.2 - - + -
100H MET* 3.6 30.7 - - - +
103H ALA* 3.8 29.6 - - + +
104H LEU* 3.8 16.8 - - + +
107H GLU* 3.7 29.6 - - + -
144H ALA* 3.0 22.6 + - + +
145H ILE* 3.9 3.6 - - - +
147H GLU* 1.3 74.4 - - - +
149H GLY* 1.3 57.1 + - - +
151H HIS* 3.2 3.4 + - - +
152H VAL* 2.9 34.5 + - - +
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Residues in contact with GLY 149 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104H LEU* 4.4 12.2 - - - +
145H ILE 3.0 15.7 + - - -
146H LYS 3.7 2.9 - - - -
148H LEU* 1.3 74.0 - - - +
150H ASP* 1.3 58.2 + - - +
152H VAL* 3.4 6.7 + - - +
153H THR* 2.9 33.8 + - - -
44J ASP* 4.0 15.7 - - - -
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Residues in contact with ASP 150 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146H LYS* 2.9 52.7 + - - +
147H GLU* 3.3 11.9 - - - +
149H GLY* 1.3 74.6 - - - +
151H HIS* 1.3 68.2 + - + +
153H THR* 3.4 1.7 + - - -
154H ASN* 3.0 32.1 + - - +
43J ARG 4.2 0.2 - - - +
44J ASP* 3.3 16.2 - - - -
47J ALA* 3.8 20.1 - - + +
49J LYS* 4.3 21.6 - - + +
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Residues in contact with HIS 151 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54H TYR* 3.7 26.4 + + - -
100H MET* 4.0 28.0 - - + -
147H GLU* 2.9 38.4 + - + +
148H LEU* 3.6 7.2 - - - +
150H ASP* 1.3 77.4 - - + +
152H VAL* 1.3 65.7 + - - +
154H ASN* 3.3 2.8 + - - +
155H LEU* 3.0 29.6 + - - +
170H PHE* 3.6 21.0 - + + -
174H THR* 3.7 23.6 - - + +
175H LEU* 3.9 11.5 - - + +
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Residues in contact with VAL 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97H LEU* 3.9 9.6 - - + +
100H MET* 3.8 34.8 - - + +
101H GLU* 3.9 15.3 - - + +
104H LEU* 4.4 11.9 - - + -
148H LEU 2.9 23.1 + - - +
149H GLY* 3.7 5.6 - - - +
151H HIS* 1.3 76.1 - - - +
153H THR* 1.3 56.7 + - - +
155H LEU* 3.3 0.7 + - - -
156H ARG* 2.9 74.5 + - - +
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Residues in contact with THR 153 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149H GLY 2.9 15.9 + - - -
150H ASP 3.6 4.5 - - - -
152H VAL* 1.3 75.7 - - - +
154H ASN* 1.3 57.2 + - - +
156H ARG* 3.3 11.8 + - - +
157H LYS* 2.9 47.2 + - + +
44J ASP* 2.6 24.9 + - - +
45J ASP* 3.5 34.8 - - - +
46J VAL 3.8 15.3 - - - +
47J ALA* 4.2 0.7 - - + -
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Residues in contact with ASN 154 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150H ASP* 3.0 29.0 + - - +
151H HIS* 3.9 4.2 + - - +
153H THR* 1.3 75.0 - - - +
155H LEU* 1.3 64.2 + - - +
157H LYS* 3.2 5.9 + - - +
158H MET* 2.9 32.0 + - - +
170H PHE* 3.9 19.4 - - + -
174H THR* 5.8 0.2 - - - -
46J VAL 4.6 1.9 - - - +
47J ALA* 2.8 36.3 + - - +
48J LEU* 3.9 11.4 - - - +
168J TYR* 3.4 27.6 - - + +
172J LYS* 5.0 0.8 + - - -
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Residues in contact with LEU 155 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51H PHE* 4.2 5.8 - - + -
97H LEU* 4.0 25.4 - - + +
100H MET* 4.0 26.2 - - + -
151H HIS 3.0 21.1 + - - +
152H VAL 3.9 2.7 - - - +
154H ASN* 1.3 75.7 - - - +
156H ARG* 1.3 62.7 + - - +
158H MET* 3.4 4.4 + - - +
159H GLY 3.3 5.2 + - - -
160H ALA* 3.0 40.3 + - + +
166H ALA* 4.4 2.5 - - + +
167H GLU* 4.2 21.1 - - + -
170H PHE* 3.5 45.5 - - + -
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Residues in contact with ARG 156 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97H LEU* 3.9 17.2 - - + +
101H GLU* 2.7 30.5 + - - +
104H LEU* 6.1 1.2 - - - +
152H VAL* 2.9 39.7 + - - +
153H THR* 3.6 11.0 + - - +
155H LEU* 1.3 77.1 - - - +
157H LYS* 1.3 64.7 + - + +
159H GLY* 3.1 15.1 + - - -
160H ALA 4.2 8.5 + - - +
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Residues in contact with LYS 157 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153H THR* 2.9 28.8 + - + +
154H ASN* 3.8 6.3 - - - +
156H ARG* 1.3 78.6 - - + +
158H MET* 1.3 61.4 + - + +
159H GLY 3.4 0.3 + - - -
45J ASP 2.7 30.4 + - - -
46J VAL* 4.0 16.7 - - - +
48J LEU* 6.6 0.4 - - + -
164J GLY* 3.4 35.4 + - - +
165J LEU 3.6 1.2 + - - -
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Residues in contact with MET 158 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154H ASN 2.9 20.5 + - - +
155H LEU* 3.7 7.0 - - - +
157H LYS* 1.3 78.8 - - + +
159H GLY* 1.3 55.7 + - - +
163H SER* 4.4 4.2 + - - -
166H ALA* 3.4 41.6 - - + +
169H LEU* 4.0 5.4 - - + -
170H PHE* 3.8 22.4 - - - +
164J GLY 4.9 0.2 - - - +
165J LEU* 3.8 39.9 - - + +
168J TYR* 3.4 64.6 - - + -
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Residues in contact with GLY 159 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156H ARG 3.1 11.8 + - - -
157H LYS 3.2 1.4 + - - -
158H MET* 1.3 77.9 - - - +
160H ALA* 1.3 65.9 + - - +
162H GLU* 3.5 5.7 + - - +
163H SER* 3.0 29.1 + - - -
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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
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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) + - + + + + + -
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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