Contacts of the helix formed by residues 137 - 152 (chain A) in PDB entry 1CK7
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 PRO 137 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A TYR* 3.5 38.4 - - + +
135A LEU 3.7 0.6 - - - +
136A ASP* 1.3 84.6 - - + +
138A GLU* 1.4 71.9 + - + +
140A VAL 2.6 3.1 + - - -
141A ASP* 2.6 29.7 + - - +
314A TYR* 4.4 19.3 - - + +
333A PRO* 3.7 26.0 - - + +
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Residues in contact with GLU 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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136A ASP* 3.3 0.8 + - - -
137A PRO* 1.4 82.3 - - + +
139A THR* 1.3 62.5 + - - +
141A ASP* 3.3 8.9 + - - +
142A ASP* 2.9 25.5 + - - +
222A ARG* 3.0 36.8 + - - +
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Residues in contact with THR 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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135A LEU* 4.0 26.7 - - + -
136A ASP* 2.6 35.4 + - - +
137A PRO 2.8 2.0 + - - -
138A GLU* 1.3 73.9 - - - +
140A VAL* 1.3 62.7 + - - +
142A ASP* 3.7 5.5 - - + +
143A ALA* 3.0 23.8 + - + +
215A LEU* 4.6 17.7 - - + -
220A VAL* 4.9 0.9 - - + -
222A ARG* 4.5 0.9 + - - -
232A TYR* 2.4 39.1 + - + +
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Residues in contact with VAL 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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128A ILE* 4.8 0.2 - - + -
131A TYR* 3.6 27.4 - - + -
132A THR* 3.5 19.5 - - + -
135A LEU* 3.3 38.6 - - + +
136A ASP 2.9 7.9 + - - +
137A PRO 2.6 12.4 + - - +
139A THR* 1.3 74.5 - - - +
141A ASP* 1.3 64.8 + - - +
143A ALA* 3.3 2.8 + - - +
144A PHE* 3.1 46.5 + - + -
173A PHE* 4.5 4.9 - - + -
397A LEU* 3.8 9.4 - - + -
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Residues in contact with ASP 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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126A TYR* 5.5 1.2 + - - -
128A ILE* 3.4 12.8 - - + +
131A TYR* 2.3 37.7 + - - -
137A PRO* 2.6 25.2 + - - +
138A GLU* 3.8 9.0 + - - +
140A VAL* 1.3 71.0 - - - +
142A ASP* 1.3 61.6 + - - +
144A PHE* 3.0 6.6 + - - +
145A ALA* 3.0 22.9 + - - +
161A ARG* 3.2 29.6 + - - +
314A TYR* 4.9 1.9 + - - -
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Residues in contact with ASP 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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138A GLU 2.9 18.1 + - - +
139A THR* 3.7 6.1 - - - +
141A ASP* 1.3 71.1 - - - +
143A ALA* 1.3 68.9 + - - +
144A PHE 3.0 0.2 + - - -
145A ALA* 3.0 6.6 + - - +
146A ARG* 2.3 67.7 + - - +
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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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135A LEU* 6.0 0.9 - - + -
139A THR* 3.0 16.4 + - + +
140A VAL 3.5 4.7 - - - +
142A ASP* 1.3 79.5 + - - +
144A PHE* 1.3 66.1 + - - +
146A ARG* 3.8 20.7 - - - +
147A ALA* 2.9 23.2 + - - +
215A LEU* 5.2 7.9 - - + -
397A LEU* 4.3 15.5 - - + -
398A PHE* 4.2 24.9 - - - +
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Residues in contact with PHE 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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126A TYR* 5.0 6.1 - - + -
128A ILE* 3.6 31.4 - - + -
140A VAL* 3.1 26.6 + - + -
141A ASP 3.0 8.0 + - - +
143A ALA* 1.3 74.5 - - - +
145A ALA* 1.3 58.0 + - - +
147A ALA* 2.8 21.8 + - - +
148A PHE* 2.8 15.6 + - + -
171A ILE* 3.4 35.4 - - + -
173A PHE* 3.7 12.8 - + - -
207A PHE* 3.7 17.0 - + - -
397A LEU* 3.5 39.5 - - + -
401A ALA* 3.6 15.3 - - + -
405A PHE* 3.8 16.2 - + + -
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Residues in contact with ALA 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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126A TYR* 4.3 16.7 + - - +
141A ASP 3.0 11.9 + - - +
142A ASP* 3.6 9.4 - - - +
144A PHE* 1.3 75.8 - - - +
146A ARG* 1.3 64.6 + - + +
148A PHE* 2.9 17.9 + - - +
149A GLN* 2.9 27.5 + - - +
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Residues in contact with ARG 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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139A THR 5.4 0.2 + - - -
142A ASP* 2.3 69.2 + - - +
143A ALA* 3.8 12.6 - - - +
145A ALA* 1.3 74.0 - - + +
147A ALA* 1.3 62.0 + - - +
149A GLN* 3.2 20.5 + - - +
150A VAL* 3.1 21.8 + - - +
215A LEU* 4.5 18.3 - - - +
398A PHE* 3.5 47.9 - - + +
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Residues in contact with ALA 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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143A ALA 2.9 13.2 + - - +
144A PHE 2.8 13.2 + - - +
146A ARG* 1.3 78.4 - - - +
148A PHE* 1.3 59.9 + - - +
150A VAL* 3.1 26.2 - - - +
151A TRP* 3.6 9.5 - - - -
398A PHE* 3.8 6.2 - - - +
401A ALA* 3.6 11.9 - - + -
402A ALA* 3.3 32.1 - - + +
405A PHE* 3.8 6.7 - - + -
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Residues in contact with PHE 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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126A TYR* 3.2 65.3 - + + -
144A PHE 2.8 21.3 + - - -
145A ALA* 2.9 6.5 + - - +
147A ALA* 1.3 68.8 - - - +
149A GLN* 1.3 56.6 + - + +
151A TRP* 2.6 32.0 + + - +
152A SER* 3.0 12.9 + - - +
159A PHE* 3.7 35.6 - + + -
169A ILE* 4.1 20.9 - - + -
171A ILE* 4.4 1.8 - - + -
405A PHE* 3.2 53.4 - + + -
409A MET* 4.3 0.4 - - + -
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Residues in contact with GLN 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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145A ALA* 2.9 27.5 + - - +
146A ARG* 3.2 21.8 + - - +
148A PHE* 1.3 75.2 - - + +
150A VAL* 1.3 64.0 + - - +
151A TRP 2.7 1.9 + - - -
152A SER* 3.9 11.9 - - - +
153A ASP* 2.9 39.0 + - - +
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Residues in contact with VAL 150 (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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146A ARG 3.1 13.3 + - - +
147A ALA* 3.1 20.2 - - - +
149A GLN* 1.3 76.4 - - - +
151A TRP* 1.3 68.2 + - + +
153A ASP* 4.3 7.4 + - - +
154A VAL* 4.1 3.5 - - - +
398A PHE* 4.0 16.6 - - + -
402A ALA* 3.8 21.5 - - + -
420A LEU* 4.6 0.4 - - + -
431A PHE* 3.6 25.8 - - + -
433A LEU* 3.7 33.8 - - + +
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Residues in contact with TRP 151 (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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147A ALA 3.6 15.4 + - - -
148A PHE* 2.6 17.2 + + - +
150A VAL* 1.3 75.6 - - + +
152A SER* 1.3 65.6 + - - +
153A ASP 3.0 2.4 + - - -
154A VAL* 3.1 14.1 + - - +
155A THR* 3.1 16.8 + - - +
157A LEU* 5.5 0.7 - - + -
159A PHE* 4.6 12.1 - - + -
402A ALA* 2.9 20.8 + - - +
405A PHE* 4.0 15.0 - - + -
406A GLY* 3.5 22.7 - - - +
409A MET* 5.1 4.3 - - + -
411A LEU* 3.8 20.9 - - + -
420A LEU* 3.3 32.5 - - + -
421A MET* 4.1 12.3 - - + -
433A LEU* 3.9 24.5 - - + -
437A ASP* 4.3 7.6 - - + -
441A ILE* 3.8 39.9 - - + -
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Residues in contact with SER 152 (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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148A PHE* 3.0 12.4 + - - +
149A GLN* 3.1 14.4 + - - +
151A TRP* 1.3 75.1 - - - +
153A ASP* 1.3 63.8 + - - +
155A THR* 2.7 24.2 - - - +
157A LEU 3.5 25.9 + - - -
158A ARG* 4.0 22.3 + - - -
159A PHE* 3.8 14.8 + - - -
448A SER* 5.2 0.9 - - - -
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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