Contacts of the helix formed by residues 129 - 150 (chain A) in PDB entry 3KXG
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 THR 129 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127A THR 3.4 4.4 + - - +
128A LEU* 1.3 74.3 - - - +
130A ASP* 1.3 67.8 + - - +
131A TYR* 3.8 9.5 + - - +
132A ASP* 2.7 52.7 + - - +
133A ILE* 3.0 13.0 + - - +
291A HIS* 5.6 2.9 - - - -
292A LEU* 4.2 1.6 - - - -
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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
----------------------------------------------------------
129A THR* 1.3 72.8 - - - +
131A TYR* 1.3 64.7 + - - +
133A ILE* 3.2 4.4 + - - +
134A ARG* 2.9 55.6 + - - +
226A ILE* 5.9 0.2 - - - +
291A HIS* 3.8 26.1 + - - +
292A LEU* 3.6 30.8 - - + +
323A TYR* 3.9 9.5 + - - -
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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
----------------------------------------------------------
129A THR* 3.1 9.2 + - - +
130A ASP* 1.3 80.9 - - - +
132A ASP* 1.3 57.3 + - - +
134A ARG* 3.2 12.9 + - + +
135A TYR* 2.8 42.5 + + + +
169A ARG* 4.2 15.0 - - - -
326A GLN* 3.7 45.7 + - + +
327A VAL* 3.6 40.0 - - + +
330A ALA* 3.7 18.4 - - - +
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Residues in contact with ASP 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A THR 4.5 1.6 - - - +
128A LEU* 3.6 26.3 - - + +
129A THR* 2.7 48.4 + - - +
131A TYR* 1.3 77.7 - - - +
133A ILE* 1.3 58.3 + - - +
135A TYR* 3.3 0.5 + - - +
136A TYR* 2.9 38.0 + - + -
166A HIS* 4.1 8.1 + - - -
169A ARG* 2.5 44.0 + - - +
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Residues in contact with ILE 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A TYR 5.3 2.9 - - - +
128A LEU* 4.0 19.3 - - + +
129A THR 3.0 11.6 + - - +
130A ASP* 3.6 7.6 - - - +
131A TYR 3.2 0.2 - - - -
132A ASP* 1.3 72.9 - - - +
134A ARG* 1.3 67.2 + - - +
136A TYR 4.6 0.2 - - - +
137A ILE* 3.0 34.7 + - + +
222A PHE* 3.9 21.1 - - + -
225A MET* 4.0 37.2 - - + +
226A ILE* 4.3 6.5 - - + +
292A LEU* 3.6 43.3 - - + -
323A TYR* 3.5 17.9 - - - +
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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
----------------------------------------------------------
130A ASP* 2.9 42.9 + - - +
131A TYR* 3.2 14.3 + - + +
133A ILE* 1.3 78.0 - - - +
135A TYR* 1.3 54.9 + - - +
138A TYR* 3.0 29.3 + - - +
294A SER* 3.3 25.5 + - - -
296A GLU* 4.5 7.9 - - - +
322A PRO 5.0 0.8 + - - -
323A TYR* 3.0 73.4 + - + +
324A PHE* 3.2 11.6 - - + +
325A GLN* 6.3 0.4 - - - +
326A GLN* 5.8 8.7 - - - +
327A VAL* 3.9 16.2 - - + -
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Residues in contact with TYR 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A TYR* 2.8 30.8 + + + +
132A ASP 3.5 4.3 - - - +
134A ARG* 1.3 78.6 - - - +
136A TYR* 1.3 87.8 - + - +
138A TYR* 3.3 3.8 + - - +
139A GLU* 3.1 51.3 + - + +
169A ARG* 2.8 65.4 + - + +
327A VAL* 3.9 23.3 - - + +
331A GLU* 6.1 0.2 - - - -
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Residues in contact with TYR 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU* 3.9 22.0 - - + -
132A ASP* 2.9 32.4 + - + +
133A ILE* 4.3 2.7 - - - +
135A TYR* 1.3 99.5 - + - +
137A ILE* 1.3 59.5 + - - +
139A GLU* 3.1 2.7 + - + +
140A LEU* 2.9 26.6 + - - +
164A ILE* 3.7 40.4 - - + -
166A HIS* 2.9 41.4 - + - -
169A ARG* 3.4 32.9 - - + +
170A LYS 4.4 2.7 - - - -
171A LEU* 3.4 21.3 - - + +
225A MET* 5.2 7.6 - - + -
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Residues in contact with ILE 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ILE* 3.0 22.4 + - + +
134A ARG* 4.1 2.0 - - - +
136A TYR* 1.3 76.9 - - - +
138A TYR* 1.3 59.1 + - - +
140A LEU* 3.2 5.6 + - + +
141A LEU* 2.8 32.1 + - + +
218A LEU* 4.2 28.0 - - + -
221A MET* 4.5 12.3 - - + -
222A PHE* 4.1 28.0 - - + +
225A MET* 3.8 29.8 - - + -
300A PHE* 4.4 12.8 - - + -
324A PHE* 3.8 20.9 - - + -
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Residues in contact with TYR 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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134A ARG 3.0 18.6 + - - +
135A TYR 3.3 5.6 + - - +
137A ILE* 1.3 76.7 - - - +
139A GLU* 1.3 64.5 + - - +
141A LEU* 3.2 7.0 + - - +
142A LYS* 3.0 37.7 + - - +
319A MET* 3.1 54.0 + - + +
324A PHE* 3.6 28.7 - + + -
327A VAL* 3.6 23.1 - - + -
328A ARG* 3.6 28.3 - - + +
331A GLU* 3.3 30.6 + - - -
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Residues in contact with GLU 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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93A ASN* 2.8 48.2 + - - +
135A TYR* 3.1 56.0 + - + +
136A TYR* 3.1 7.8 + - - +
138A TYR* 1.3 79.3 - - - +
140A LEU* 1.3 62.6 + - - +
142A LYS* 3.1 43.9 + - - +
143A ALA 3.4 4.0 + - - -
169A ARG 5.1 1.7 - - - +
170A LYS* 6.1 0.4 - - - -
171A LEU* 4.1 18.6 + - + +
327A VAL* 5.4 0.2 - - - +
331A GLU* 4.1 3.5 - - - +
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Residues in contact with LEU 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 TYR 2.9 12.9 + - - +
137A ILE* 3.5 9.9 - - + +
139A GLU* 1.3 77.4 - - - +
141A LEU* 1.3 62.0 + - - +
143A ALA* 3.1 14.4 + - - +
144A LEU* 3.1 18.6 + - + +
157A VAL* 4.4 6.3 - - + -
162A VAL* 4.0 21.8 - - + -
171A LEU* 4.0 16.7 - - + +
173A LEU* 4.0 29.6 - - + -
218A LEU* 3.4 29.2 - - + -
221A MET* 3.9 30.5 - - + -
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Residues in contact with LEU 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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137A ILE* 2.8 19.4 + - + +
138A TYR* 3.2 11.2 + - - +
140A LEU* 1.3 73.8 - - - +
142A LYS* 1.3 56.1 + - - +
144A LEU* 3.7 4.3 - - + +
145A ASP* 2.8 32.1 + - - +
215A MET* 3.8 10.5 - - + -
218A LEU* 3.3 32.5 - - + -
300A PHE* 4.4 2.2 - - + -
315A ALA* 4.0 10.6 - - + +
318A ALA* 3.7 27.1 - - + -
319A MET* 3.5 22.8 - - + +
324A PHE* 3.7 37.0 - - + -
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Residues in contact with LYS 142 (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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92A PRO* 3.9 21.5 - - + +
93A ASN* 4.0 12.6 - - - +
138A TYR* 3.0 24.7 + - - +
139A GLU* 3.1 34.6 + - - +
141A LEU* 1.3 74.6 - - - +
143A ALA* 1.3 63.3 + - - +
145A ASP* 4.0 2.3 - - - +
146A TYR* 3.0 24.6 + - - +
319A MET* 3.6 23.8 - - + -
331A GLU* 2.8 38.2 + - - -
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Residues in contact with ALA 143 (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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92A PRO 3.4 20.4 + - - +
93A ASN* 4.0 16.2 - - + +
94A ILE* 3.7 19.8 - - + +
139A GLU 3.4 2.7 + - - +
140A LEU* 3.1 13.1 + - - +
142A LYS* 1.3 80.9 - - - +
144A LEU* 1.3 58.6 + - - +
146A TYR* 3.4 2.9 + - - +
147A CYS* 2.9 27.0 + - - +
171A LEU* 5.3 0.2 - - + -
173A LEU* 3.9 19.3 - - + -
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Residues in contact with LEU 144 (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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140A LEU* 3.1 24.2 + - + +
141A LEU* 3.8 7.0 - - - +
143A ALA* 1.3 76.6 - - - +
145A ASP* 1.3 66.0 + - - +
147A CYS* 3.9 7.4 - - - -
148A HIS* 2.9 39.2 + - + +
154A HIS* 4.5 1.1 - - + -
157A VAL* 3.9 21.5 - - + -
173A LEU* 3.8 23.6 - - + -
214A ASP* 4.0 23.6 - - + +
215A MET* 4.4 9.6 - - - -
218A LEU* 4.3 32.5 - - + -
315A ALA* 4.3 5.8 - - + -
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Residues in contact with ASP 145 (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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12A TYR* 2.9 31.4 + - - -
141A LEU 2.8 16.5 + - - +
142A LYS 4.0 3.4 - - - +
144A LEU* 1.3 76.5 - - - +
146A TYR* 1.3 59.5 + - - +
148A HIS* 3.8 2.5 - - - +
149A SER* 2.8 30.0 + - - -
315A ALA* 3.5 15.5 - - + +
316A LEU* 3.7 35.1 + - - +
319A MET* 4.5 10.6 - - - +
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Residues in contact with TYR 146 (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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87A ASN 4.1 10.2 + - - -
88A LEU* 3.7 28.5 + - + -
89A CSO 5.0 2.1 + - - -
90A GLY 5.2 0.2 - - - -
91A GLY* 3.4 31.4 + - - -
92A PRO* 3.6 23.1 - - + -
94A ILE* 3.8 12.1 - - + -
142A LYS 3.0 20.0 + - - +
143A ALA* 3.5 4.5 - - - +
144A LEU 3.1 0.2 - - - -
145A ASP* 1.3 78.7 - - - +
147A CYS* 1.3 64.9 + - - +
149A SER* 2.7 27.0 + - - -
150A GLN* 3.0 39.4 + - + +
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Residues in contact with CYS 147 (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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88A LEU* 3.7 21.5 - - + -
94A ILE* 4.9 1.1 - - + -
143A ALA 2.9 17.6 + - - +
144A LEU* 3.6 20.9 - - - -
146A TYR* 1.3 76.8 - - - +
148A HIS* 1.3 75.7 + - - +
150A GLN* 3.0 9.0 + - - -
151A GLY 3.2 0.3 + - - -
152A ILE* 2.9 36.6 + - + +
154A HIS 4.5 4.3 - - - -
176A TRP* 3.8 36.1 - - + -
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Residues in contact with HIS 148 (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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11A VAL* 6.1 0.2 - - + -
12A TYR* 3.5 31.4 - - + +
144A LEU* 2.9 33.4 + - + +
145A ASP* 3.8 3.4 - - - +
147A CYS* 1.3 80.3 - - - +
149A SER* 1.3 55.7 + - - +
151A GLY* 2.9 19.8 + - - -
152A ILE 3.2 20.4 - - - -
153A MET* 4.4 0.2 - - - -
211A TYR* 3.5 48.5 + + + +
214A ASP* 2.8 33.4 + - + +
215A MET* 4.4 12.3 - - + -
315A ALA* 4.4 10.3 + - - +
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Residues in contact with SER 149 (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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12A TYR* 3.5 33.7 - - - -
15A VAL* 3.5 20.1 - - - +
19A ARG* 4.0 3.1 + - - -
145A ASP* 2.8 21.1 + - - -
146A TYR* 2.7 26.0 + - - -
148A HIS* 1.3 72.7 - - - +
150A GLN* 1.3 75.2 + - - +
151A GLY 3.3 0.9 - - - -
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Residues in contact with GLN 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A VAL* 3.6 8.7 - - - -
19A ARG* 2.9 32.4 + - - +
23A TYR* 2.6 38.9 + - - +
87A ASN 5.0 4.3 - - - +
88A LEU* 3.9 11.4 - - + -
146A TYR* 3.0 52.1 + - + +
147A CYS 3.7 6.1 - - - +
148A HIS 3.0 0.6 - - - -
149A SER* 1.3 104.2 + - - +
151A GLY* 1.3 59.8 + - - +
152A ILE* 3.4 5.0 + - - +
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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
------------------------------------------------------------
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