Contacts of the strand formed by residues 214 - 222 (chain A) in PDB entry 3HIG
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 214 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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202A ILE* 4.3 15.3 - - + -
203A ILE 3.5 11.0 - - - +
204A GLN* 4.0 4.6 - - + -
211A PHE 4.4 4.7 - - - +
212A LEU* 3.3 11.0 - - - +
213A HIS* 1.3 91.6 - - - +
215A THR* 1.3 62.7 + - - +
216A GLY 3.5 1.1 - - - +
263A LEU* 4.3 6.8 - - - +
487A ALA 4.5 2.5 - - - +
488A THR* 3.7 26.5 - - - +
489A PHE* 3.7 28.4 - - + +
504A HIS* 4.2 9.6 - - + +
505A LEU* 3.6 14.6 - - + -
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Residues in contact with THR 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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170A THR* 3.9 25.3 - - + +
182A LEU* 4.0 8.7 - - + -
203A ILE* 2.9 28.4 + - + +
204A GLN 4.0 8.7 - - - -
205A ARG* 3.9 28.0 - - + -
214A PRO* 1.3 76.3 - - - +
216A GLY* 1.3 58.6 + - - +
217A LEU* 3.4 14.6 + - - +
238A TYR* 3.9 13.1 + - - -
261A VAL 5.1 1.9 - - - +
263A LEU* 4.0 13.4 - - + +
489A PHE* 3.5 13.0 - - - -
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Residues in contact with GLY 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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214A PRO* 3.5 1.2 - - - +
215A THR* 1.3 77.6 - - - +
217A LEU* 1.3 58.9 + - - +
218A GLU* 5.1 1.1 - - - -
237A TRP* 3.4 9.6 - - - -
238A TYR* 3.2 13.9 - - - -
239A ASN 3.0 25.3 + - - -
489A PHE* 3.2 40.3 - - - +
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Residues in contact with LEU 217 (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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162A LEU* 4.2 6.3 - - + -
165A PHE* 5.0 4.9 - - + -
166A PHE* 3.6 35.0 - - + -
202A ILE* 4.7 0.9 - - - +
203A ILE* 3.1 42.3 + - + +
215A THR* 3.4 13.4 + - - +
216A GLY* 1.3 78.6 + - - +
218A GLU* 1.3 68.6 + - - +
219A LEU* 4.0 17.0 - - + -
236A VAL* 3.5 26.0 - - + -
237A TRP 3.3 15.7 - - - +
238A TYR* 3.8 10.9 - - + -
249A LEU* 3.8 16.2 - - + -
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Residues in contact with GLU 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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200A TRP* 3.6 13.1 - - + -
201A LEU 3.1 11.9 - - - +
202A ILE* 4.0 14.9 - - + +
216A GLY 5.1 0.9 - - - -
217A LEU* 1.3 80.4 - - - +
219A LEU* 1.3 66.9 + - - +
237A TRP* 2.8 48.2 + - + +
363A THR* 2.6 33.0 + - - +
364A PRO* 3.2 12.5 - - - +
365A ALA* 2.9 37.8 + - + +
488A THR* 4.1 5.9 - - - +
489A PHE* 5.2 2.5 + - + +
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Residues in contact with LEU 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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155A LEU* 3.5 32.1 - - + -
159A THR* 3.9 20.2 - - + -
162A LEU* 5.3 3.1 - - + -
174A PHE* 5.2 0.7 - - + -
199A SER 3.4 2.6 - - - +
200A TRP* 3.4 6.1 - - - -
201A LEU* 2.7 44.0 + - + +
203A ILE* 4.0 20.2 - - + -
217A LEU* 4.0 18.4 - - + -
218A GLU* 1.3 81.7 - - - +
220A LEU* 1.3 58.3 + - - +
221A VAL* 4.0 2.5 - - + -
233A VAL* 4.3 12.6 - - + -
235A GLN 3.7 2.9 - - - +
236A VAL* 3.9 32.5 - - + -
246A PRO* 5.5 0.9 - - + -
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Residues in contact with LEU 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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198A ARG* 3.8 20.2 - - + +
199A SER 3.4 23.6 - - - +
200A TRP* 3.6 37.1 - - + +
219A LEU* 1.3 70.1 - - - +
221A VAL* 1.3 56.5 + - - +
233A VAL* 3.3 4.7 - - - -
234A GLU* 2.8 62.2 + - + +
235A GLN* 3.0 21.2 + - + +
543B TRP* 3.7 34.1 - - + -
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Residues in contact with VAL 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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151A LEU* 3.9 26.5 - - + -
154A THR* 4.7 7.2 - - + -
155A LEU* 4.1 9.0 - - + -
198A ARG* 3.3 3.6 - - - -
199A SER 2.9 38.6 + - - +
201A LEU* 3.9 24.9 - - + -
219A LEU 4.6 4.0 - - - +
220A LEU* 1.3 77.0 - - - +
222A ASP* 1.3 70.4 + - - +
223A HIS* 3.3 11.1 - - + -
231A TRP* 4.7 7.4 - - + -
232A ALA 3.4 11.0 - - - +
233A VAL* 4.0 21.3 - - + -
234A GLU* 4.8 0.7 - - - -
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Residues in contact with ASP 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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197A ARG 3.5 9.1 + - - +
198A ARG* 4.0 16.9 + - - +
220A LEU 4.2 0.8 + - - -
221A VAL* 1.3 69.9 - - - +
223A HIS* 1.3 61.7 + - - +
224A GLY* 3.2 15.0 + - - -
225A SER 5.1 0.4 + - - -
230A HIS 4.8 0.2 - - - +
231A TRP* 3.3 27.2 - - - +
232A ALA* 3.0 16.5 + - + +
234A GLU* 3.8 20.4 + - + +
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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