Contacts of the strand formed by residues 151 - 161 (chain A) in PDB entry 2A1X
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 ILE 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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140A LEU* 4.2 21.5 - - + +
143A VAL* 3.9 15.0 - - + -
144A GLU* 4.1 23.3 - - + +
147A THR* 3.7 16.6 - - - +
148A GLY 3.3 25.8 - - - +
149A PRO* 4.0 6.1 - - + +
150A ASN* 1.3 71.5 - - - +
152A MET* 1.3 65.2 + - - +
282A PHE* 4.1 19.7 - - + -
283A ALA 4.0 2.9 - - - +
330A LEU* 3.5 6.6 - - - +
331A VAL* 2.9 27.9 + - + -
332A LYS* 2.7 35.2 + - + +
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Residues in contact with MET 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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151A ILE* 1.3 72.7 - - - +
153A ALA* 1.3 59.9 + - - +
154A MET* 3.4 16.2 + - - -
282A PHE* 3.2 8.9 - - - +
283A ALA 2.9 37.2 + - - +
285A ALA* 3.7 30.7 - - + -
328A ALA* 3.6 24.0 - - + -
329A ARG 3.5 24.9 - - - +
330A LEU* 3.7 28.9 - - - +
335A ARG* 3.8 30.7 - - - +
338A LEU* 4.1 11.7 - - + -
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Residues in contact with ALA 153 (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 GLN* 6.2 0.2 - - - +
131A PHE* 4.4 6.7 - - + -
134A CYS* 4.0 11.4 - - + -
152A MET* 1.3 70.5 - - - +
154A MET* 1.3 59.7 - - - +
156A THR* 5.3 3.5 - - + +
280A CYS* 3.9 17.7 - - - -
281A HIS 4.2 0.4 - - - -
282A PHE* 3.8 14.1 - - + -
327A ARG 4.4 2.3 - - - +
328A ALA* 4.0 1.9 - - - -
329A ARG* 3.0 30.1 + - + +
331A VAL* 3.5 26.8 - - + +
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Residues in contact with MET 154 (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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152A MET* 3.8 15.5 - - - +
153A ALA* 1.3 73.1 - - - +
155A HIS* 1.3 58.3 + - + +
156A THR* 5.6 0.9 - - - -
183A PHE* 3.8 37.9 - - + -
281A HIS* 2.9 18.5 + - + +
283A ALA* 3.7 26.9 - - + -
289A TYR* 4.0 19.5 - - + +
324A TRP* 3.6 20.2 - - + +
327A ARG* 3.3 29.8 - - - +
328A ALA* 3.5 26.5 - - + +
338A LEU* 3.7 20.4 - - + -
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Residues in contact with HIS 155 (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 GLN* 3.3 34.1 + - - -
123A ASP* 4.6 7.9 + - - -
154A MET* 1.3 80.1 - - + +
156A THR* 1.3 65.6 + - - +
157A MET* 3.6 28.4 - - + +
181A PHE* 4.2 19.3 - + + -
279A SER 4.1 0.2 - - - +
280A CYS* 3.1 7.0 - - - -
281A HIS* 2.9 55.8 + + + +
324A TRP* 3.8 19.4 - + + -
327A ARG* 4.4 10.9 + - - +
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Residues in contact with THR 156 (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 GLN* 3.3 6.2 - - - +
123A ASP* 3.0 27.0 + - - +
124A PHE* 3.1 52.7 + - + -
125A GLN* 3.4 15.6 + - + +
131A PHE* 5.1 0.9 - - + -
134A CYS* 3.7 21.8 - - - -
153A ALA* 5.3 4.3 - - + +
154A MET 5.6 0.4 - - - -
155A HIS* 1.3 82.3 + - - +
157A MET* 1.3 64.3 + - - +
279A SER 3.6 3.4 - - - -
280A CYS* 4.3 5.6 - - + -
327A ARG* 6.1 0.2 - - - +
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Residues in contact with MET 157 (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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120A LYS* 4.0 14.4 - - + -
121A VAL 3.4 7.9 - - - +
122A GLN* 4.1 13.0 - - + +
124A PHE* 3.5 10.5 - - - -
155A HIS* 3.6 22.9 - - + +
156A THR* 1.3 77.1 - - - +
158A LEU* 1.3 57.0 + - - +
159A ILE* 3.8 23.6 - - + -
191A CYS* 5.7 0.9 - - - -
193A TRP* 5.0 2.9 - - + -
278A ILE* 3.5 0.5 - - - -
279A SER* 2.7 67.1 + - - +
281A HIS* 4.4 15.9 - - + -
451A AKG 3.3 34.3 - - + +
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Residues in contact with LEU 158 (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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81A PHE* 4.4 5.8 - - + +
85A PHE* 3.8 42.9 - - + -
120A LYS* 3.3 5.8 - - - +
121A VAL* 2.9 49.3 + - + +
124A PHE* 3.8 6.4 - - + -
130A LEU* 4.5 10.5 - - + -
157A MET* 1.3 72.4 - - - +
159A ILE* 1.3 72.7 + - - +
160A ASN 4.0 0.2 + - - -
196A MET* 3.9 28.5 - - + -
276A LYS* 4.5 8.3 - - + -
277A ALA 3.5 12.3 - - - +
278A ILE* 4.0 17.7 - - + -
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Residues in contact with ILE 159 (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 THR 4.0 7.2 - - - +
120A LYS* 4.2 16.8 - - - +
157A MET* 3.8 31.4 - - + -
158A LEU* 1.3 77.0 - - - +
160A ASN* 1.3 62.5 + - - +
161A LYS* 3.7 10.5 - - + +
193A TRP* 3.6 18.4 - - + +
275A ARG* 3.1 7.1 - - - +
276A LYS* 3.1 7.1 - - - -
277A ALA* 2.7 44.0 + - + +
279A SER* 4.3 4.5 - - - +
451A AKG 3.3 49.1 - - + +
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Residues in contact with ASN 160 (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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85A PHE* 3.6 31.9 - - + -
89A CYS* 5.4 0.6 - - - -
118A ILE 2.7 25.1 + - - +
119A THR* 2.7 33.8 + - - +
158A LEU 4.0 0.2 + - - -
159A ILE* 1.3 71.8 - - - +
161A LYS* 1.3 62.8 - - - +
162A PRO* 3.3 3.8 - - - +
274A PHE* 3.4 30.2 - - - +
275A ARG 3.6 1.8 - - - -
276A LYS* 2.7 35.0 + - + +
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Residues in contact with LYS 161 (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 THR 4.8 1.3 - - - -
159A ILE* 3.7 8.0 - - + -
160A ASN* 1.3 71.0 - - - +
162A PRO* 1.3 71.8 - - + +
164A ASP* 3.1 33.3 + - - -
204A GLY 4.0 4.7 - - - +
266A SER* 3.4 23.2 + - - -
267A GLY 3.1 22.1 + - - +
269A ASN* 2.9 22.2 + - + +
274A PHE* 3.3 1.7 - - - -
275A ARG* 2.8 70.1 + - + +
451A AKG 4.8 2.9 - - - +
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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