Contacts of the helix formed by residues 324 - 337 (chain I) in PDB entry 2OHI
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 324 (chain I).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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318I ILE* 5.2 6.7 - - + -
322I PRO 3.2 7.8 - - - +
323I TYR* 1.3 95.5 - - + +
325I SER* 1.3 59.3 + - - +
326I VAL 3.1 0.7 - - - -
327I GLY* 2.8 19.6 + - - -
298J ARG* 3.6 31.0 - - - +
328J ASP* 3.4 39.3 - - - +
331J MET* 4.1 8.2 - - + +
332J TYR* 3.8 28.7 - - + +
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Residues in contact with SER 325 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264I ASP* 2.6 33.1 + - - +
293I LEU* 3.6 27.1 - - - +
323I TYR* 3.1 12.7 + - - -
324I PRO* 1.3 79.8 - - - +
326I VAL* 1.3 62.9 + - - +
328I ASP* 3.2 19.7 + - - +
329I LEU* 3.6 4.5 + - - +
298J ARG* 4.5 3.6 - - - +
328J ASP* 3.4 16.5 + - - -
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Residues in contact with VAL 326 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264I ASP* 5.3 1.6 - - + -
293I LEU* 4.0 20.4 - - + -
313I LEU* 4.1 8.3 - - + -
314I GLY 4.3 3.8 - - - +
315I ALA* 3.6 27.6 - - + -
322I PRO* 4.5 8.5 - - + -
323I TYR* 3.4 16.2 - - + +
325I SER* 1.3 78.0 + - - +
327I GLY* 1.3 55.2 + - - +
329I LEU* 3.5 2.8 + - + +
330I LEU* 2.9 53.5 + - + +
362I MET* 3.8 23.3 - - + -
331J MET* 4.5 1.1 - - - -
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Residues in contact with GLY 327 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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324I PRO 2.8 13.5 + - - -
326I VAL* 1.3 76.8 - - - +
328I ASP* 1.3 64.2 + - - +
330I LEU* 4.1 2.6 - - - +
331I MET* 3.3 22.7 + - - +
327J GLY* 3.4 23.4 - - - -
331J MET* 3.7 22.0 - - - -
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Residues in contact with ASP 328 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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298I ARG* 2.7 52.0 + - - +
324I PRO 3.8 1.0 + - - -
325I SER* 3.2 10.9 + - - +
327I GLY* 1.3 76.3 - - - +
329I LEU* 1.3 63.9 + - - +
331I MET* 3.3 2.9 + - - +
332I TYR* 3.1 17.2 + - - +
324J PRO* 3.2 22.9 - - - +
325J SER* 3.1 19.6 - - - -
328J ASP* 3.6 20.1 - - + +
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Residues in contact with LEU 329 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262I ILE* 3.9 32.3 - - + -
293I LEU* 4.3 21.1 - - + -
298I ARG* 4.4 19.1 - - + -
301I ILE* 4.2 22.4 - - + -
302I VAL* 4.7 6.5 - - + -
305I ILE* 4.7 2.0 - - + -
313I LEU* 3.9 18.2 - - + -
325I SER 3.6 2.7 + - - +
326I VAL* 3.5 6.5 + - - +
328I ASP* 1.3 83.4 + - - +
330I LEU* 1.3 57.3 + - + +
332I TYR* 3.2 7.0 + - + +
333I LEU* 2.8 55.1 + - + +
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Residues in contact with LEU 330 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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313I LEU* 4.1 8.7 - - + -
326I VAL* 2.9 44.6 + - + +
327I GLY* 4.4 4.0 - - - +
329I LEU* 1.3 77.5 - - + +
331I MET* 1.3 57.5 + - - +
333I LEU* 3.4 8.8 + - + +
334I ARG* 3.0 32.2 + - + +
362I MET* 4.5 8.5 - - + -
365I LEU* 3.7 40.4 - - + +
366I LEU* 3.7 46.7 - - + +
369I ALA* 4.6 2.4 - - + +
331J MET* 4.8 0.9 - - + -
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Residues in contact with MET 331 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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327I GLY 3.3 16.3 + - - +
328I ASP 3.3 5.4 + - - +
330I LEU* 1.3 77.8 - - - +
332I TYR* 1.3 59.9 + - - +
334I ARG* 3.4 21.3 - - - +
335I GLY 3.5 5.5 + - - -
321J GLU* 3.8 21.1 - - + +
322J PRO* 3.6 46.1 - - + +
323J TYR 4.3 0.9 - - - +
324J PRO* 4.2 7.9 - - + +
326J VAL* 4.4 4.7 - - + -
327J GLY* 3.4 35.9 - - - +
330J LEU* 4.6 0.4 - - + -
361J THR* 5.0 3.4 - - + -
365J LEU* 4.0 26.2 - - + -
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Residues in contact with TYR 332 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27I GLY 5.1 3.3 + - - -
28I TYR* 5.7 0.3 - - - -
201I ASN* 2.4 45.1 + - - +
298I ARG* 3.7 33.9 - - + -
299I SER* 4.8 2.1 - - - -
302I VAL* 3.7 17.7 - - + -
328I ASP 3.1 13.1 + - - +
329I LEU* 3.5 12.3 - - + +
331I MET* 1.3 75.1 - - - +
333I LEU* 1.3 60.1 + - - +
334I ARG 3.2 0.2 - - - -
335I GLY* 3.3 3.7 + - - -
336I LEU* 2.9 60.0 + - + +
318J ILE* 5.2 15.5 - - + -
324J PRO* 3.8 27.7 - - + +
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Residues in contact with LEU 333 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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302I VAL* 4.1 8.5 - - + -
305I ILE* 3.7 28.5 - - + -
311I ILE* 5.1 3.1 - - + -
313I LEU* 5.8 0.4 - - + -
329I LEU* 2.8 42.5 + - + +
330I LEU* 3.7 9.6 - - + +
332I TYR* 1.3 73.4 - - - +
334I ARG* 1.3 64.3 + - - +
336I LEU* 3.8 3.5 - - + +
337I LYS 3.2 17.7 + - - -
338I PHE* 3.7 28.8 + - + -
366I LEU* 4.3 16.2 - - + -
369I ALA* 3.8 22.4 - - + +
371I PHE* 4.2 19.2 - - + -
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Residues in contact with ARG 334 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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330I LEU 3.0 19.9 + - - +
331I MET* 3.4 15.7 - - - +
332I TYR 3.2 0.4 - - - -
333I LEU* 1.3 77.6 - - - +
335I GLY* 1.3 56.4 + - - +
337I LYS* 2.9 40.9 + - - +
365I LEU* 4.7 13.0 - - - +
368I GLU* 2.6 41.6 + - - +
369I ALA* 4.5 19.1 - - + +
321J GLU* 4.0 33.4 + - + +
361J THR* 6.4 0.2 - - - +
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Residues in contact with GLY 335 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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205I PRO* 3.5 10.0 - - - +
331I MET 3.5 5.3 + - - -
332I TYR* 3.3 7.1 + - - -
334I ARG* 1.3 78.1 - - - +
336I LEU* 1.3 64.7 + - - +
337I LYS* 3.9 4.6 - - - +
318J ILE 4.6 1.8 - - - -
319J TYR* 3.3 43.7 - - - +
321J GLU* 3.8 10.2 - - - +
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Residues in contact with LEU 336 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200I ALA 3.8 15.3 - - - +
201I ASN 3.8 22.7 - - - +
204I THR* 3.5 3.4 - - - -
205I PRO* 3.0 42.9 - - + +
302I VAL* 3.8 12.1 - - + -
332I TYR* 2.9 65.8 + - + +
333I LEU* 3.6 4.9 + - - +
335I GLY* 1.3 79.8 - - - +
337I LYS* 1.3 68.0 + - - +
338I PHE* 3.6 17.7 + - + -
319J TYR* 4.4 9.6 - - + -
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Residues in contact with LYS 337 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204I THR 4.1 3.1 - - - +
333I LEU 3.2 12.2 + - - -
334I ARG* 2.9 36.9 + - - +
335I GLY* 3.9 7.0 - - - +
336I LEU* 1.3 83.2 - - - +
338I PHE* 1.3 65.9 + - - +
339I ASN* 3.2 24.4 + - - +
340I ARG* 3.3 60.7 + - + +
368I GLU 4.7 11.6 + - - -
369I ALA 4.4 3.9 + - - -
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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