Contacts of the helix formed by residues 114 - 135 (chain A) in PDB entry 6C9G
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 ASP 114 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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112A ARG* 4.2 1.0 + - - -
113A LEU* 1.3 78.9 - - - +
115A GLU* 1.3 59.7 + - - +
116A LYS* 3.4 7.7 + - - +
117A GLU* 2.8 45.4 + - - +
118A SER* 2.9 23.2 + - - -
210A LEU* 5.2 0.2 - - - -
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Residues in contact with GLU 115 (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 ASP* 1.3 74.8 - - - +
116A LYS* 1.3 60.6 + - + +
118A SER* 3.5 1.7 + - - -
119A ARG* 3.0 40.4 + - - +
210A LEU* 4.5 13.9 - - + +
240A ASN* 2.9 36.0 + - - +
269A TRP* 2.8 35.7 + - + +
272A GLN* 5.7 0.2 - - - -
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Residues in contact with LYS 116 (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 ASP* 3.4 7.7 + - - +
115A GLU* 1.3 79.8 - - + +
117A GLU* 1.3 61.7 + - + +
119A ARG* 3.4 24.8 + - - +
120A ARG* 3.0 27.9 + - - +
273A ASP* 4.7 12.1 - - - +
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Residues in contact with GLU 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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113A LEU* 3.9 24.7 - - + +
114A ASP* 2.8 31.7 + - - +
116A LYS* 1.3 73.0 - - + +
118A SER* 1.3 65.9 + - - +
120A ARG* 3.3 32.6 + - - +
121A LEU* 3.1 28.9 + - - +
153A MET* 5.3 6.8 - - - +
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Residues in contact with SER 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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113A LEU* 3.0 19.9 + - - +
114A ASP 2.9 22.8 + - - -
115A GLU 3.7 1.6 - - - -
117A GLU* 1.3 76.7 - - - +
119A ARG* 1.3 57.8 + - - +
121A LEU* 3.4 0.7 + - - -
122A PHE* 2.9 31.5 + - - +
206A LEU* 5.1 0.9 - - - -
209A LEU* 3.3 35.7 + - - +
210A LEU* 3.5 24.8 - - - +
269A TRP* 4.4 2.9 - - - -
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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 GLU* 3.0 24.6 + - - +
116A LYS* 3.7 29.4 + - - +
118A SER* 1.3 75.1 - - - +
120A ARG* 1.3 65.5 + - - +
122A PHE* 3.3 1.7 + - - +
123A GLN* 2.9 46.3 + - + +
269A TRP* 3.0 71.8 + - + +
270A PHE 4.7 0.4 - - - +
272A GLN* 2.7 52.2 + - - +
273A ASP* 3.4 21.6 + - + +
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Residues in contact with ARG 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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116A LYS 3.0 17.9 + - - +
117A GLU* 3.3 30.9 + - - +
119A ARG* 1.3 77.1 - - - +
121A LEU* 1.3 75.7 + - - +
123A GLN* 3.5 13.6 + - - +
124A GLN* 3.3 39.7 + - - +
152A HIS 3.5 11.4 + - - -
153A MET* 2.7 29.2 + - - +
154A ASN* 2.8 28.5 + - - -
275A PRO* 6.4 2.9 - - + -
278A LEU* 5.3 0.2 - - - +
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Residues in contact with LEU 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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103A LEU* 4.1 16.6 - - + -
113A LEU* 3.7 29.2 - - + -
117A GLU* 3.1 14.8 + - - +
118A SER 3.9 2.5 - - - +
120A ARG* 1.3 81.9 - - - +
122A PHE* 1.3 62.0 + - - +
124A GLN* 3.1 16.3 + - - +
125A ILE* 3.0 37.6 + - + +
149A LEU* 4.1 7.4 - - + -
153A MET* 3.4 35.9 - - + +
155A ALA* 4.0 15.5 - - + +
209A LEU* 3.9 20.4 - - + -
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Residues in contact with PHE 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 SER 2.9 18.8 + - - +
119A ARG* 3.9 4.0 - - - +
121A LEU* 1.3 76.8 - - - +
123A GLN* 1.3 56.8 + - - +
125A ILE* 4.5 7.6 - - + -
126A LEU* 3.1 39.4 + - + +
202A SER* 3.6 28.7 - - - -
205A ILE* 5.4 3.8 - - + -
206A LEU* 3.7 41.3 - - + -
209A LEU* 4.2 8.0 - - + +
246A LEU* 4.4 4.5 - - + -
250A MET* 3.7 29.6 - - + -
264A ILE* 4.1 6.7 - - + -
269A TRP* 4.3 7.6 - + - -
270A PHE* 3.5 34.3 - + - -
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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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119A ARG* 2.9 32.3 + - + +
120A ARG* 3.7 12.9 - - - +
121A LEU 3.2 0.2 - - - -
122A PHE* 1.3 75.4 - - + +
124A GLN* 1.3 66.1 + - - +
126A LEU* 3.9 1.2 - - - +
127A SER* 3.0 25.5 + - - -
270A PHE* 2.8 47.2 + - + +
272A GLN 3.1 19.4 + - - -
273A ASP* 4.4 2.6 - - - +
274A LEU* 3.6 22.0 - - + +
275A PRO* 3.5 17.8 - - - +
278A LEU* 3.7 16.0 - - + +
279A PHE* 4.2 3.1 - - - -
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Residues in contact with GLN 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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77A HIS* 3.2 47.6 - - + +
120A ARG* 3.3 38.2 + - + +
121A LEU* 3.1 14.2 + - - +
123A GLN* 1.3 77.0 - - - +
125A ILE* 1.3 62.9 + - - +
127A SER* 3.3 4.7 - - - -
128A GLY 3.2 15.6 + - - -
154A ASN* 3.4 22.7 + - - -
155A ALA* 2.9 28.3 + - + -
277A TYR* 4.1 10.1 + - - +
278A LEU* 4.1 9.4 - - + -
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Residues in contact with ILE 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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77A HIS* 5.3 0.9 - - - -
103A LEU* 4.4 8.1 - - + -
121A LEU* 3.0 26.7 + - + +
122A PHE* 4.0 9.2 - - + +
124A GLN* 1.3 77.6 - - - +
126A LEU* 1.3 59.6 + - - +
128A GLY* 2.9 18.2 + - - -
129A VAL* 2.9 26.2 + - + +
142A LEU* 5.6 2.0 - - + -
147A VAL* 4.1 24.2 - - + -
155A ALA* 3.6 20.0 - - + -
157A ILE* 3.7 16.8 - - + +
202A SER* 5.0 6.5 - - - +
205A ILE* 4.1 36.6 - - + -
209A LEU* 4.7 2.7 - - + -
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Residues in contact with LEU 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 PHE* 3.1 29.8 + - + +
123A GLN 4.1 2.0 - - - +
125A ILE* 1.3 80.4 - - - +
127A SER* 1.3 57.0 + - - +
129A VAL* 3.7 9.1 - - + +
130A ASP* 2.9 29.5 + - - +
199A ILE* 5.4 2.9 - - + -
202A SER* 4.4 20.0 - - - +
261A ILE* 4.5 26.9 - - + +
264A ILE* 3.6 49.4 - - + -
265A ARG* 5.1 0.7 - - + -
270A PHE* 3.7 19.5 - - + -
279A PHE* 4.2 4.2 - - + -
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Residues in contact with SER 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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75A HIS* 2.9 18.4 - - - -
123A GLN 3.0 19.5 + - - -
124A GLN 3.3 7.0 - - - -
125A ILE 3.1 0.2 - - - -
126A LEU* 1.3 77.0 - - - +
128A GLY* 1.3 56.3 + - - +
130A ASP* 3.5 2.9 + - - +
131A TYR* 3.1 28.6 + - - +
278A LEU* 2.9 38.7 + - - +
279A PHE* 3.6 18.2 - - - -
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Residues in contact with GLY 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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75A HIS* 3.6 21.3 + - - -
77A HIS* 4.9 0.9 - - - -
78A ILE* 3.7 4.7 - - - +
124A GLN 3.2 6.3 + - - -
125A ILE 2.9 7.5 + - - -
127A SER* 1.3 77.3 + - - +
129A VAL* 1.3 65.9 + - - +
131A TYR* 3.2 4.4 + - - +
132A CYS* 3.0 26.4 + - - -
157A ILE* 3.8 16.2 - - - -
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Residues in contact with VAL 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 ILE* 2.9 24.2 + - + +
126A LEU* 3.7 13.0 - - + +
128A GLY* 1.3 75.1 - - - +
130A ASP* 1.3 56.3 + - - +
132A CYS* 3.2 8.6 + - - +
133A HIS* 3.0 57.8 + - + +
139A HIS* 6.4 0.2 - - + -
142A LEU* 3.6 25.1 - - + -
157A ILE* 3.7 12.1 - - + +
198A ASP* 4.0 14.1 - - + +
199A ILE* 5.4 1.3 - - + +
202A SER* 4.0 13.0 - - - +
261A ILE* 4.2 6.7 - - + -
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Residues in contact with ASP 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 LEU 2.9 18.2 + - - +
127A SER 3.6 4.5 - - - +
129A VAL* 1.3 74.4 - - - +
131A TYR* 1.3 55.9 + - - +
133A HIS* 3.1 5.3 + - - +
134A ARG* 2.6 75.4 + - - +
261A ILE* 3.5 38.8 - - + +
265A ARG* 5.1 0.2 - - - -
279A PHE* 3.9 16.8 - - + -
280A PRO* 4.4 2.3 - - - +
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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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72A LEU 4.2 2.4 + - - -
73A PHE* 3.5 32.3 - + + -
74A ARG* 2.7 42.9 + - - +
75A HIS* 4.1 22.0 - + + +
78A ILE* 3.7 15.7 - - + -
127A SER 3.1 14.3 + - - +
128A GLY* 3.5 10.3 - - - +
130A ASP* 1.3 77.7 + - - +
132A CYS* 1.3 61.5 + - - +
134A ARG* 3.5 11.2 + - - +
135A HIS* 2.7 64.2 + + - -
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Residues in contact with CYS 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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73A PHE* 3.8 14.8 - - + -
78A ILE* 3.5 20.9 - - - -
128A GLY 3.0 20.7 + - - -
129A VAL* 3.2 11.2 + - - +
131A TYR* 1.3 74.6 - - - +
133A HIS* 1.3 64.3 + - + +
135A HIS* 3.0 11.4 + - - +
136A MET 3.1 0.2 + - - -
137A VAL* 3.0 37.2 + - + +
139A HIS* 5.5 7.9 - - + +
157A ILE* 5.3 3.6 - - - -
160A PHE* 3.7 27.4 - - - -
198A ASP* 5.7 0.4 - - - +
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Residues in contact with HIS 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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129A VAL* 3.0 34.9 + - + +
130A ASP* 3.5 9.9 - - - +
132A CYS* 1.3 78.1 - - + +
134A ARG* 1.3 57.0 + - + +
136A MET* 2.8 26.0 + - - +
137A VAL 3.3 17.5 - - - -
138A VAL* 4.5 5.6 - - + -
166A MET* 3.9 10.6 - - + +
195A PRO* 3.5 45.7 - - + +
198A ASP* 2.8 27.1 + - + +
199A ILE* 4.9 2.4 - - + +
261A ILE* 3.9 15.9 - - + +
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Residues in contact with ARG 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 ASP* 2.6 48.9 + - - +
131A TYR* 3.7 13.5 - - - +
132A CYS 3.3 0.2 - - - -
133A HIS* 1.3 72.2 - - - +
135A HIS* 1.3 67.4 + - + +
136A MET* 3.3 7.6 + - - +
265A ARG* 2.9 31.9 - - - +
280A PRO* 3.5 30.2 - - - +
281A GLU* 4.2 12.3 + - - +
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Residues in contact with HIS 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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69A ASN* 4.8 3.6 - - - +
72A LEU* 6.0 4.7 - - + -
73A PHE* 3.8 30.7 - + + -
131A TYR* 2.7 60.5 + + - +
132A CYS 3.0 8.7 + - - +
134A ARG* 1.3 84.4 - - + +
136A MET* 1.3 73.1 + - - +
137A VAL* 3.3 9.2 + - - +
165A MET* 5.5 2.3 - - - +
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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