Contacts of the strand formed by residues 217 - 229 (chain K) in PDB entry 1IA0
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 SER 217 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148K GLU* 3.6 30.1 + - - -
149K ILE 3.4 6.3 - - - -
150K TYR* 4.0 13.6 - - - -
203K ARG* 3.1 25.1 + - - -
204K THR* 4.4 1.9 + - - -
213K THR* 4.0 4.9 - - - +
214K SER* 3.3 16.9 + - - +
216K ARG* 1.3 80.3 - - - +
218K HIS* 1.3 62.5 + - - +
249K LEU 4.1 1.6 - - - +
250K ALA* 3.6 15.0 + - - -
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Residues in contact with HIS 218 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148K GLU* 3.1 6.2 - - - +
149K ILE* 2.6 74.2 + - + +
151K CYS 6.0 0.7 - - - -
203K ARG* 4.0 1.6 - - - -
216K ARG 4.4 5.1 + - - -
217K SER* 1.3 75.4 - - - +
219K ALA* 1.3 61.0 + - - +
220K VAL* 4.2 2.6 + - + -
247K VAL* 5.6 0.4 - - + -
248K ASP 3.7 5.6 - - - +
249K LEU* 3.5 19.4 - - + +
250K ALA* 3.0 36.6 + - + +
271K ILE 5.5 4.0 + - - -
274K SER* 3.7 23.2 - - - -
275K LEU* 4.1 27.0 + - + +
311K LEU* 4.2 12.1 - - + -
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Residues in contact with ALA 219 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146K TYR* 4.1 21.1 - - + +
147K MET 3.4 5.6 - - - +
148K GLU* 4.5 0.2 - - - +
157K LEU* 5.1 0.4 - - + -
203K ARG* 3.4 38.1 - - - +
218K HIS* 1.3 73.6 - - - +
220K VAL* 1.3 63.9 + - - +
221K PHE 4.1 0.2 - - - -
246K LEU 3.9 1.2 - - - +
247K VAL* 3.6 3.1 - - - +
248K ASP* 3.0 42.0 + - + +
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Residues in contact with VAL 220 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145K SER 4.0 0.3 - - - +
146K TYR* 3.4 4.8 - - - -
147K MET* 2.9 54.0 + - + +
149K ILE* 4.3 24.0 - - + -
218K HIS 5.1 1.3 - - - -
219K ALA* 1.3 79.7 - - - +
221K PHE* 1.3 60.6 + - - +
222K ASN* 3.6 29.2 + - - +
245K SER* 4.0 10.8 - - - +
246K LEU 3.8 2.0 - - - -
247K VAL* 4.2 20.2 - - + +
311K LEU* 4.6 7.6 - - + -
314K LEU* 6.1 1.1 - - + -
315K LEU* 4.9 8.5 - - + -
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Residues in contact with PHE 221 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119K ILE* 3.9 24.5 - - + -
123K CYS* 3.9 11.9 - - - -
144K VAL* 3.5 23.6 - - + -
145K SER 3.8 2.2 - - - -
146K TYR* 3.8 37.9 - + + -
158K LEU* 6.2 0.7 - - + -
192K ILE* 4.4 7.2 - - + -
195K LEU* 5.8 1.3 - - + -
196K MET* 3.9 37.7 - - + -
219K ALA 4.1 0.4 - - - -
220K VAL* 1.3 70.7 - - - +
222K ASN* 1.3 62.0 + - - +
223K ILE* 3.7 30.3 - - + -
244K ILE 3.6 1.9 - - - +
246K LEU* 2.8 55.3 + - + +
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Residues in contact with ASN 222 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143K GLU 3.9 0.2 - - - +
144K VAL* 3.3 7.8 - - - +
145K SER* 2.9 50.1 + - - +
147K MET* 3.9 20.1 - - - +
220K VAL* 3.6 11.2 + - - +
221K PHE* 1.3 76.4 + - - +
223K ILE* 1.3 63.5 + - - +
224K ILE* 4.3 4.4 - - + +
243K LYS* 3.8 27.6 + - + +
244K ILE 3.2 2.8 + - - +
245K SER* 3.2 40.2 + - - +
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Residues in contact with ILE 223 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122K LEU* 4.2 19.3 - - + -
123K CYS* 3.9 17.5 - - - -
126K LEU* 4.2 14.4 - - + -
142K VAL* 3.9 16.2 - - + -
143K GLU 3.3 9.2 - - - +
144K VAL* 4.7 0.7 - - + -
192K ILE* 4.3 10.3 - - + -
221K PHE* 3.7 29.4 - - + -
222K ASN* 1.3 78.8 - - - +
224K ILE* 1.3 74.6 + - - +
225K PHE* 4.1 4.0 - - + +
242K SER 3.7 1.0 - - - +
243K LYS* 3.5 3.5 - - - +
244K ILE* 2.8 52.8 + - + +
246K LEU* 4.9 2.5 - - + -
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Residues in contact with ILE 224 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141K SER* 3.6 5.5 + - - +
142K VAL* 3.7 0.3 - - - -
143K GLU* 2.8 54.0 + - + +
144K VAL* 6.0 0.7 - - - -
145K SER* 6.4 1.6 - - - -
183K LYS* 4.2 22.9 - - + +
222K ASN* 5.3 5.2 - - + +
223K ILE* 1.3 81.7 - - - +
225K PHE* 1.3 59.8 + - - +
226K THR* 3.7 7.3 + - - +
241K VAL* 3.9 24.0 - - + -
242K SER 3.7 1.3 - - - -
243K LYS* 3.8 35.2 - - + -
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Residues in contact with PHE 225 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85K ALA* 4.4 19.3 - - + -
86K PHE* 3.7 42.0 - + - -
126K LEU* 4.0 11.4 - - + -
130K ILE* 3.7 15.9 - - + -
140K TYR* 3.4 38.8 - + + -
141K SER 3.7 7.2 - - - -
142K VAL* 4.2 8.1 - - + +
223K ILE* 3.8 13.2 - - + -
224K ILE* 1.3 71.1 - - - +
226K THR* 1.3 66.2 + - - +
227K GLN* 3.7 21.7 + - + +
240K LYS 3.5 2.3 - - - +
241K VAL* 3.5 2.2 - - - -
242K SER* 2.9 42.7 + - - +
244K ILE* 4.4 8.1 - - + -
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Residues in contact with THR 226 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140K TYR* 3.5 7.1 - - - +
141K SER* 2.9 51.4 + - - +
143K GLU* 4.9 3.3 + - - -
224K ILE* 3.7 9.1 + - - +
225K PHE* 1.3 73.1 - - - +
227K GLN* 1.3 62.9 + - - +
228K LYS* 4.0 18.0 + - + +
239K GLU* 3.4 38.8 - - + +
240K LYS 3.4 2.7 - - - -
241K VAL* 3.6 17.4 - - + +
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Residues in contact with GLN 227 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85K ALA 3.7 7.1 + - - -
86K PHE* 2.9 47.0 + - - +
88K GLY* 4.6 1.0 - - - +
138K MET* 4.1 16.8 - - + +
139K SER 3.9 3.6 - - - -
140K TYR* 3.6 24.4 + - + -
225K PHE* 3.7 23.1 + - + -
226K THR* 1.3 72.8 - - - +
228K LYS* 1.3 61.1 + - - +
229K ARG 4.1 0.6 + - - -
238K THR 3.6 0.9 - - - +
239K GLU* 3.3 6.9 - - - +
240K LYS* 2.8 57.9 + - + +
242K SER* 5.9 0.4 - - - -
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Residues in contact with LYS 228 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137K ASN 3.5 1.6 - - - +
138K MET* 3.4 6.1 - - - +
139K SER* 2.9 54.0 + - - +
140K TYR* 5.7 1.8 - - - -
141K SER* 4.5 14.7 + - - -
226K THR* 4.0 14.5 - - + +
227K GLN* 1.3 77.9 - - - +
229K ARG* 1.3 60.4 + - - +
230K HIS 3.9 0.6 + - - -
237K THR* 3.7 17.5 - - + -
238K THR 3.4 4.3 - - - -
239K GLU* 2.9 32.5 - - + +
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Residues in contact with ARG 229 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135K ASN* 4.6 14.4 - - - +
137K ASN* 3.4 4.6 - - - +
138K MET* 3.3 25.1 - - + +
227K GLN 4.1 1.0 - - - -
228K LYS* 1.3 71.4 - - - +
230K HIS* 1.3 71.8 + - - +
231K ASP* 5.0 10.4 + - + +
236K ILE 4.1 1.9 - - - +
237K THR* 3.6 4.3 - - - +
238K THR* 3.0 44.4 + - - +
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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