Contacts of the helix formed by residues 110 - 131 (chain A) in PDB entry 7KAC
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 110 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A LEU* 1.3 74.7 - - - +
111A GLU* 1.3 59.3 + - - +
112A LEU* 3.7 7.0 + - - +
113A GLN* 3.1 39.3 + - - +
114A ILE* 2.9 28.5 + - - +
243A TRP* 5.0 1.8 - - - -
283A LEU* 5.8 0.2 - - - +
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Residues in contact with GLU 111 (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 SER* 1.3 73.5 - - - +
112A LEU* 1.3 53.9 + - + +
114A ILE* 3.4 5.8 + - - +
115A SER* 2.5 43.5 + - - +
242A LYS 4.6 0.9 - - - +
243A TRP* 3.5 29.6 - - + -
244A SER* 2.6 49.6 + - - -
247A PHE* 3.7 25.4 - - + +
273A LEU* 3.6 12.2 - - + +
276A GLN* 5.1 3.6 + - - +
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Residues in contact with LEU 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A SER* 3.3 6.3 + - - +
111A GLU* 1.3 74.6 - - + +
113A GLN* 1.3 60.4 + - - +
115A SER* 3.4 4.3 + - - -
116A TYR 2.9 23.2 + - - -
276A GLN* 4.0 20.0 - - + +
277A PRO 5.0 2.7 - - - +
278A GLY* 4.7 8.3 - - - +
279A LEU* 3.7 23.1 - - + +
283A LEU* 3.5 36.3 - - + +
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Residues in contact with GLN 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A LEU* 4.0 12.9 - - + -
110A SER* 3.1 37.3 + - - +
112A LEU* 1.3 73.6 - - - +
114A ILE* 1.3 64.1 + - - +
116A TYR* 3.4 6.5 + - - +
117A VAL* 3.1 29.0 + - - +
283A LEU* 2.9 43.5 + - + +
284A ILE* 4.1 7.1 - - + +
286A ASP* 4.3 6.9 - - - +
287A LEU* 3.6 37.0 - - + +
290A LYS* 5.8 3.0 - - - +
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Residues in contact with ILE 114 (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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109A LEU* 3.7 23.1 - - + +
110A SER 2.9 22.8 + - - +
111A GLU* 3.8 5.2 - - - +
113A GLN* 1.3 73.7 - - - +
115A SER* 1.3 54.5 + - - +
117A VAL* 3.1 8.0 + - - +
118A CYS* 2.8 48.7 + - - -
205A ALA* 4.0 11.7 - - + +
208A LEU* 3.8 13.5 - - + -
209A ALA* 3.6 40.6 - - + +
243A TRP* 4.7 1.6 - - + -
247A PHE* 3.9 31.0 - - + -
273A LEU* 5.7 0.2 - - + -
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Residues in contact with SER 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A GLU* 2.5 26.8 + - - +
112A LEU* 3.5 6.1 - - - -
113A GLN 3.4 0.2 - - - -
114A ILE* 1.3 76.1 - - - +
116A TYR* 1.3 56.2 + - - +
118A CYS* 3.5 5.1 + - - -
119A ARG* 3.1 23.9 + - - +
273A LEU* 3.3 40.0 - - - +
274A VAL* 3.6 10.3 - - - +
276A GLN* 3.5 21.3 + - - -
279A LEU* 3.8 8.2 - - - +
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Residues in contact with TYR 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A LEU 2.9 17.6 + - - +
113A GLN* 3.7 6.5 - - - +
114A ILE 3.2 0.2 - - - -
115A SER* 1.3 72.9 - - - +
117A VAL* 1.4 64.5 + - - +
119A ARG* 3.0 38.5 + - - +
120A GLU* 3.0 53.2 + - + +
149A GLY 4.6 3.5 + - - -
150A GLU* 6.1 0.7 - - - -
151A VAL* 4.3 5.2 - - + -
279A LEU* 3.9 8.4 - - + +
280A ASN* 3.5 30.3 - - - -
281A ARG* 3.5 27.3 + - - +
283A LEU* 4.1 9.0 - - + -
284A ILE* 3.3 33.9 - - + -
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Residues in contact with VAL 117 (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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99A LEU* 3.6 39.7 - - + -
109A LEU* 4.6 5.6 - - + -
113A GLN 3.1 19.0 + - - +
114A ILE 3.1 7.4 + - - +
116A TYR* 1.4 72.0 - - - +
118A CYS* 1.3 60.8 + - - +
120A GLU* 3.2 7.1 + - - +
121A VAL* 2.9 42.1 + - + +
143A ILE* 4.6 5.8 - - + -
145A ILE* 5.0 0.2 - - + -
151A VAL* 4.6 11.2 - - + -
201A LEU* 5.8 1.6 - - + -
204A THR* 5.8 0.2 - - + -
208A LEU* 3.9 14.1 - - + -
284A ILE* 3.9 18.8 - - + -
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Residues in contact with CYS 118 (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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114A ILE* 2.8 36.7 + - - +
115A SER* 3.7 7.0 - - - +
117A VAL* 1.3 79.2 - - - +
119A ARG* 1.4 56.3 + - - +
121A VAL* 4.0 0.5 - - - +
122A LEU* 2.9 35.2 + - - +
201A LEU* 4.2 18.1 - - + +
205A ALA* 4.0 11.7 - - - -
208A LEU* 5.8 0.7 - - - -
250A PHE* 3.8 37.2 - - + -
273A LEU* 5.3 2.2 - - + -
274A VAL* 3.9 7.9 - - + -
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Residues in contact with ARG 119 (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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115A SER 3.1 14.5 + - - +
116A TYR* 3.0 42.3 + - - +
118A CYS* 1.4 74.6 - - - +
120A GLU* 1.3 74.1 + - - +
122A LEU* 3.3 5.9 + - - +
123A GLN* 3.0 44.7 + - - +
269A LEU* 3.9 13.2 - - + +
274A VAL* 3.5 33.5 + - + +
276A GLN 5.5 0.6 + - - -
279A LEU* 3.3 31.5 + - + +
280A ASN* 4.9 0.8 - - - +
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Residues in contact with GLU 120 (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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73A ASN* 3.0 36.6 + - - +
116A TYR* 3.0 49.2 + - + +
117A VAL 3.8 2.5 - - - +
119A ARG* 1.3 103.7 + - - +
121A VAL* 1.3 60.7 + - - +
123A GLN* 3.1 23.0 + - - +
124A GLY 3.2 16.6 + - - -
150A GLU* 5.9 0.2 - - - -
151A VAL* 3.5 32.9 + - + +
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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
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117A VAL* 2.9 29.7 + - + +
118A CYS 4.0 0.2 - - - +
120A GLU* 1.3 71.7 - - - +
122A LEU* 1.3 58.2 + - - +
124A GLY* 3.1 2.9 + - - -
125A LEU* 2.8 43.4 + - + +
138A ILE* 4.4 9.2 - - + -
143A ILE* 3.8 32.3 - - + -
151A VAL* 4.4 3.6 - - + -
153A LEU* 3.8 28.3 - - + +
201A LEU* 3.7 27.4 - - + -
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Residues in contact with LEU 122 (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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118A CYS 2.9 21.9 + - - +
119A ARG 3.6 4.3 - - - +
121A VAL* 1.3 75.7 - - - +
123A GLN* 1.3 55.9 + - - +
125A LEU* 3.8 5.4 - - + +
126A ALA* 2.9 31.5 + - - +
198A ILE* 4.2 10.8 - - + -
201A LEU* 3.6 20.9 - - + -
250A PHE* 4.1 15.3 - - + -
265A ALA* 3.9 19.1 - - + +
268A MET* 3.6 47.8 - - + +
269A LEU* 3.7 15.8 - - + +
274A VAL* 4.1 15.9 - - + -
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Residues in contact with GLN 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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71A HIS* 3.7 18.1 + - + +
73A ASN* 2.9 24.2 + - - +
119A ARG* 3.0 44.0 + - - +
120A GLU* 3.1 23.2 + - - +
121A VAL 3.2 0.2 - - - -
122A LEU* 1.3 76.8 - - - +
124A GLY* 1.3 63.0 + - - +
126A ALA* 3.5 3.9 + - - +
127A TYR* 3.3 17.0 + - - +
269A LEU* 4.1 19.3 - - + +
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Residues in contact with GLY 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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71A HIS* 4.3 1.6 - - - -
73A ASN* 3.8 11.6 - - - +
74A ILE* 3.5 26.0 - - - +
120A GLU 3.2 4.9 + - - -
121A VAL 3.1 7.4 + - - -
123A GLN* 1.3 79.2 - - - +
125A LEU* 1.3 54.7 + - - +
127A TYR* 3.5 0.9 + - - +
128A LEU* 3.1 31.5 + - - +
153A LEU* 4.0 9.6 - - - -
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Residues in contact with LEU 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 VAL* 2.8 39.0 + - + +
122A LEU* 3.8 10.5 - - + +
123A GLN 3.3 0.2 - - - -
124A GLY* 1.3 70.1 - - - +
126A ALA* 1.3 61.3 + - - +
128A LEU* 3.4 9.4 + - + -
129A HIS* 2.9 41.9 + - + +
135A HIS* 4.4 0.4 - - + -
138A ILE* 3.9 20.9 - - + -
153A LEU* 4.0 7.0 - - + -
197A ASP* 3.7 52.5 - - + +
198A ILE* 4.3 11.9 - - + -
201A LEU* 4.7 3.4 - - + -
265A ALA* 4.0 9.0 - - + -
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Residues in contact with ALA 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 LEU 2.9 17.8 + - - +
123A GLN* 3.9 5.6 - - - +
124A GLY 3.4 0.2 - - - -
125A LEU* 1.3 74.8 - - - +
127A TYR* 1.3 61.1 + - - +
129A HIS* 4.1 3.1 - - - +
130A SER* 3.1 24.6 + - - -
265A ALA* 3.6 12.7 - - + +
266A THR* 3.7 30.7 - - + +
269A LEU* 4.6 7.4 - - + -
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Residues in contact with TYR 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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68A THR 3.1 14.0 + - - -
69A CYS* 4.0 19.1 - - - -
70A ARG* 2.9 43.6 + - - +
71A HIS* 3.5 42.6 - + + +
74A ILE* 3.9 9.9 - - + -
123A GLN 3.3 6.3 + - - +
124A GLY 3.7 6.7 - - - +
125A LEU 3.2 0.4 - - - -
126A ALA* 1.3 75.4 - - - +
128A LEU* 1.3 68.2 + - + +
130A SER* 2.6 23.8 + - - -
131A GLN* 3.1 45.2 + - + +
133A LYS* 4.5 0.2 - - - -
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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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69A CYS* 3.7 26.9 - - - -
74A ILE* 4.4 7.0 - - + -
124A GLY 3.1 22.6 + - - +
125A LEU* 3.4 8.5 + - + +
127A TYR* 1.3 77.1 - - + +
129A HIS* 1.3 63.9 + - + +
131A GLN* 3.2 10.4 + - - +
133A LYS* 2.9 48.9 + - + +
134A ILE 6.0 0.2 - - - -
135A HIS* 4.2 17.9 - - + +
153A LEU* 4.1 19.7 - - + -
156A PHE* 3.7 36.3 - - + -
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Residues in contact with HIS 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 LEU* 2.9 35.2 + - + +
126A ALA* 4.1 4.7 - - - +
128A LEU* 1.3 75.8 - - + +
130A SER* 1.4 60.1 + - - +
132A LYS* 3.0 19.1 + - - -
133A LYS 3.3 19.3 - - - -
194A GLU* 3.2 49.6 + - + +
195A LEU* 5.9 0.8 - - - +
197A ASP* 2.9 32.1 + - + +
198A ILE* 4.6 10.8 - - + -
264A SER* 6.2 0.4 - - - -
265A ALA* 4.2 11.1 + - + +
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Residues in contact with SER 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A ALA 3.1 15.7 + - - -
127A TYR* 2.6 25.3 + - - -
129A HIS* 1.4 75.2 - - - +
131A GLN* 1.3 69.4 + - - +
132A LYS* 3.2 4.2 + - - +
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Residues in contact with GLN 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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68A THR 4.7 3.6 - - - +
127A TYR* 3.1 44.7 + - + +
128A LEU* 3.2 6.8 + - - +
130A SER* 1.3 90.3 + - - +
132A LYS* 1.4 68.6 + - - +
133A LYS* 3.3 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
------------------------------------------------------------
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