Contacts of the strand formed by residues 213 - 226 (chain A) in PDB entry 1ATT
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 VAL 213 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A GLY* 3.2 1.7 - - - -
150A ASP 2.7 29.6 + - - -
153A ILE* 3.4 22.2 - - + -
155A PHE* 3.6 16.2 - - + -
176A PHE* 3.8 1.9 - - - -
211A PHE 4.1 0.9 - - - +
212A THR* 1.3 73.1 - - - +
214A LEU* 1.3 60.0 + - + +
356A VAL* 4.0 19.7 - - + -
363A LEU* 3.5 16.6 - - + -
391A ILE* 2.8 16.7 + - + +
392A ALA 4.0 6.7 - - - -
394A ARG* 3.3 37.2 - - + +
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Residues in contact with LEU 214 (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 LEU* 4.1 22.0 - - + -
148A PHE 3.4 21.3 - - - +
149A GLY* 4.0 0.4 - - - -
155A PHE* 3.6 26.0 - - + -
159A TYR* 4.1 11.0 - - + +
171A LEU* 4.9 3.1 - - + -
212A THR* 4.7 0.2 - - - -
213A VAL* 1.3 81.1 - - + +
215A VAL* 1.3 62.7 + - - +
216A LEU* 3.7 29.6 + - + -
355A ILE* 3.5 26.7 - - + -
391A ILE* 2.8 43.4 + - + +
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Residues in contact with VAL 215 (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* 2.7 33.5 + - + +
176A PHE* 3.3 28.6 - - + -
187A ILE* 3.6 19.3 - - + -
203A ILE* 4.1 3.6 - - + -
208A ILE* 3.4 20.4 - - + -
212A THR* 3.7 14.1 - - + -
214A LEU* 1.3 69.8 - - - +
216A LEU* 1.3 60.8 + - - +
217A VAL* 4.0 11.4 - - + -
388A VAL* 3.9 24.5 - - + -
389A ILE 4.0 3.1 - - - +
390A SER* 3.9 6.7 - - - +
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Residues in contact with LEU 216 (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 ALA* 3.6 19.4 - - + +
90A MET* 4.4 13.5 - - + -
91A THR* 3.4 27.8 - - - +
146A ARG 3.6 3.4 - - - -
147A LEU* 3.8 20.6 - - + -
159A TYR* 3.8 15.0 - - - +
214A LEU* 3.7 27.3 - - + +
215A VAL* 1.3 72.5 - - - +
217A VAL* 1.3 60.4 + - - +
355A ILE* 5.7 1.8 - - + -
388A VAL* 3.4 2.3 - - - -
389A ILE* 3.1 53.9 + - + +
391A ILE* 5.2 2.7 - - + -
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Residues in contact with VAL 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A ALA* 5.5 1.1 - - - -
90A MET* 4.8 4.0 - - - +
144A ALA 4.0 0.2 - - - +
145A ASN* 3.3 4.6 - - - +
146A ARG 3.0 30.0 + - - +
148A PHE* 3.6 16.4 - - + -
187A ILE* 3.5 30.7 - - + -
190A TRP* 3.8 13.7 - - + -
191A ILE* 3.2 26.0 - - + -
215A VAL* 4.0 4.9 - - + -
216A LEU* 1.3 74.7 - - - +
218A ASN* 1.3 71.9 + - - +
386A SER* 4.1 2.7 - - - +
387A THR 3.5 9.0 - - - +
388A VAL* 4.0 12.3 - - + -
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Residues in contact with ASN 218 (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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83A SER* 2.6 41.3 + - - +
86A THR* 3.1 25.5 - - - +
87A ALA* 4.0 22.6 - - + +
90A MET* 4.7 0.7 - - + -
143A SER* 5.2 1.7 + - - -
144A ALA 3.7 0.9 - - - -
145A ASN* 2.9 22.6 + - - +
217A VAL* 1.3 73.0 - - - +
219A THR* 1.3 90.5 + - - +
220A ILE* 3.9 3.0 - - - +
386A SER* 3.2 20.8 + - - -
387A THR 3.1 12.8 + - - +
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Residues in contact with THR 219 (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 SER* 3.4 17.0 + - - -
144A ALA* 2.7 34.6 + - - +
190A TRP* 4.1 7.0 - - + -
191A ILE* 3.4 30.3 - - + -
194A LYS* 4.0 17.5 + - + +
195A THR* 4.0 16.6 - - + -
218A ASN* 1.3 89.2 + - - +
220A ILE* 1.3 69.9 + - - +
385A ALA 3.5 5.8 - - - +
386A SER* 4.0 0.9 - - - +
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Residues in contact with ILE 220 (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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80A SER* 3.3 24.7 - - - +
82A LEU* 3.7 13.9 - - + -
83A SER* 3.7 17.0 - - - +
86A THR* 5.6 0.7 - - - +
132A TYR* 3.7 17.3 - - + +
141A LEU* 3.9 26.5 - - + -
142A VAL 3.4 10.1 - - - +
143A SER* 3.6 8.7 - - - +
195A THR* 4.1 3.2 - - - +
218A ASN* 3.9 7.0 - - - +
219A THR* 1.3 83.9 - - - +
221A TYR* 1.3 60.7 + - - +
384A ALA* 3.3 3.3 - - - +
385A ALA* 2.7 36.8 + - + +
422A ILE* 4.2 3.4 - - + -
423A PHE* 3.9 15.1 - - + -
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Residues in contact with TYR 221 (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 GLU* 3.3 22.7 + - + +
141A LEU* 3.4 4.7 - - - +
142A VAL* 3.0 46.1 + - + -
194A LYS 4.4 11.2 - - - +
195A THR* 3.4 23.1 - - - -
196A GLU* 3.2 42.0 - - + +
198A ARG* 4.4 2.0 - - + -
220A ILE* 1.3 74.9 - - - +
222A PHE* 1.3 66.2 + - - +
223A LYS* 3.4 34.9 + - + +
382A GLU* 2.9 36.0 + - + -
383A ALA 3.7 8.5 - - - -
384A ALA* 4.3 3.6 - - + -
423A PHE* 5.2 0.2 - - - -
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Residues in contact with PHE 222 (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 SER* 4.2 6.5 - - - -
140A GLU 4.1 5.2 - - - -
141A LEU* 4.1 13.7 - - + -
221A TYR* 1.3 80.7 - - - +
223A LYS* 1.3 67.8 + - - +
224A GLY 3.8 4.0 - - - -
275A PHE* 3.5 35.4 - + - -
280A ILE* 3.3 46.0 - - + -
381A SER* 3.3 31.6 - - - -
382A GLU* 3.2 5.4 - - - +
383A ALA* 2.8 48.8 + - + +
413A ILE* 4.6 14.4 - - + -
422A ILE* 6.0 0.4 - - + -
423A PHE* 4.3 11.2 - - + -
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Residues in contact with LYS 223 (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 SER* 3.4 6.6 - - - -
140A GLU* 3.3 50.4 + - + +
196A GLU* 5.8 1.8 - - - +
221A TYR* 3.4 24.0 + - + +
222A PHE* 1.3 77.0 - - - +
224A GLY* 1.2 65.7 + - - +
225A LEU* 6.0 4.5 - - + -
381A SER 3.4 5.6 - - - +
382A GLU* 4.0 23.5 + - + +
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Residues in contact with GLY 224 (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 SER 4.9 0.2 - - - -
139A SER* 4.5 10.3 - - - -
222A PHE* 3.8 5.0 - - - -
223A LYS* 1.2 80.4 - - - +
225A LEU* 1.3 68.8 + - - +
275A PHE* 3.7 17.1 - - - -
380A GLY* 3.0 3.5 - - - -
381A SER 2.9 35.7 + - - -
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Residues in contact with LEU 225 (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 SER 5.2 0.6 + - - -
223A LYS* 6.0 4.9 - - + -
224A GLY* 1.3 77.1 - - - +
226A TRP* 1.3 65.2 + - - +
229A LYS* 3.8 11.7 - - - +
275A PHE* 3.3 6.2 - - - -
276A LYS* 2.8 62.1 + - + +
379A GLU* 3.2 26.5 - - + +
380A GLY* 4.8 0.4 - - - -
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Residues in contact with TRP 226 (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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225A LEU* 1.3 77.5 - - - +
227A LYS* 1.3 65.1 + - - +
228A SER 3.8 17.5 - - - +
229A LYS* 3.9 10.1 - - - +
230A PHE* 3.5 25.3 - + - -
253A MET* 4.8 1.8 - - + -
273A LEU* 3.8 44.0 - - + -
274A PRO 4.1 4.0 - - - +
275A PHE* 3.9 22.2 - + - -
276A LYS* 3.6 14.5 - - - -
282A MET* 3.8 28.9 - - + -
321A MET* 4.9 1.6 - - - -
376A VAL* 3.8 23.3 - - + -
377A ASN 2.7 20.3 + - - -
378A GLU 3.0 22.8 + - - -
379A GLU* 3.0 11.1 + - - -
380A GLY* 3.2 24.4 - - - +
381A SER* 4.7 0.2 - - - -
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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