Contacts of the helix formed by residues 450 - 472 (chain B) in PDB entry 4ACR
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 ASP 450 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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240B VAL* 3.7 20.5 - - + +
241B PRO* 5.7 0.5 - - - +
282B ASN* 3.5 27.4 + - + +
448B LYS 3.7 1.8 + - - -
449B PRO* 1.3 71.0 - - - +
451B MET* 1.3 64.7 + - - +
452B THR* 3.1 34.2 + - - -
453B ILE* 3.3 24.8 + - + +
454B ARG* 3.3 23.6 + - - +
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Residues in contact with MET 451 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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449B PRO* 3.4 31.2 + - + +
450B ASP* 1.3 72.5 + - - +
452B THR* 1.3 60.5 + - - +
454B ARG* 3.2 21.0 + - + +
455B GLN* 2.9 48.7 + - - +
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Residues in contact with THR 452 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B LYS* 4.0 26.7 - - + +
237B VAL 4.8 0.4 - - - +
240B VAL* 4.2 11.8 - - + +
450B ASP* 3.1 14.1 + - - -
451B MET* 1.3 77.9 - - - +
453B ILE* 1.3 60.0 + - + +
455B GLN* 3.2 14.9 + - - +
456B GLN* 2.9 48.4 + - + +
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Residues in contact with ILE 453 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237B VAL* 4.2 23.3 - - + -
240B VAL* 3.6 24.7 - - + -
282B ASN* 3.3 37.9 - - + +
283B GLN* 4.4 4.0 - - - +
285B ASP* 4.4 4.9 - - + -
286B LEU* 4.3 11.2 - - + -
450B ASP* 3.3 30.4 + - + +
451B MET 3.3 0.2 - - - -
452B THR* 1.3 78.1 - - - +
454B ARG* 1.3 63.7 + - - +
456B GLN* 3.2 8.6 + - - +
457B ILE* 2.9 46.3 + - + +
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Residues in contact with ARG 454 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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282B ASN* 4.7 1.6 + - - -
285B ASP* 2.5 38.8 + - - +
433B LEU* 4.2 6.1 - - - +
449B PRO* 3.5 28.3 - - + +
450B ASP 3.3 14.6 + - - +
451B MET* 3.2 28.4 + - + +
453B ILE* 1.3 80.1 - - - +
455B GLN* 1.3 56.3 + - + +
457B ILE* 3.2 27.1 + - - +
458B MET* 2.9 28.5 + - - +
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Residues in contact with GLN 455 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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451B MET* 2.9 32.1 + - + +
452B THR* 3.5 13.4 + - - +
454B ARG* 1.3 75.4 - - + +
456B GLN* 1.3 68.4 + - - +
458B MET* 3.1 11.3 + - - +
459B GLN* 2.9 33.6 + - + +
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Residues in contact with GLN 456 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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232B ASP* 4.3 1.0 - - - +
233B VAL* 3.5 40.1 + - + +
236B LYS* 3.3 38.3 + - + +
237B VAL* 3.9 22.4 - - + -
286B LEU* 4.3 2.7 - - + -
452B THR* 2.9 30.0 + - + +
453B ILE 3.2 5.6 + - - +
455B GLN* 1.3 85.0 + - - +
457B ILE* 1.3 60.5 + - - +
459B GLN* 3.2 15.2 + - - +
460B LEU* 2.9 34.3 + - - +
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Residues in contact with ILE 457 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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285B ASP 3.7 21.5 - - - +
286B LEU* 3.7 16.6 - - + -
289B GLU* 3.8 17.0 - - + -
453B ILE* 2.9 29.3 + - + +
454B ARG* 3.2 37.2 + - - +
456B GLN* 1.3 72.5 - - - +
458B MET* 1.3 66.1 + - - +
460B LEU* 3.2 10.3 + - + +
461B LYS* 2.9 46.9 + - - +
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Residues in contact with MET 458 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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454B ARG 2.9 12.5 + - - +
455B GLN* 3.2 14.1 - - - +
457B ILE* 1.3 76.3 - - - +
459B GLN* 1.3 60.8 + - - +
461B LYS* 3.2 33.4 + - + +
462B ILE* 2.9 47.2 + - + +
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Residues in contact with GLN 459 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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229B VAL* 4.3 17.0 - - + +
233B VAL* 4.7 1.3 - - + -
236B LYS* 6.2 1.6 - - - +
455B GLN* 2.9 24.9 + - + +
456B GLN* 3.2 23.3 + - - +
458B MET* 1.3 78.4 - - - +
460B LEU* 1.3 57.2 + - - +
462B ILE* 3.3 21.2 + - - +
463B MET* 2.9 32.4 + - - +
466B ARG* 5.9 1.4 + - - -
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Residues in contact with LEU 460 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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229B VAL* 4.6 2.2 - - + +
233B VAL* 3.7 24.5 - - + -
286B LEU* 4.0 26.2 - - + +
289B GLU* 3.7 28.5 - - + +
290B TRP* 3.8 27.1 - - + +
293B LEU* 3.6 31.0 - - + +
456B GLN 2.9 19.2 + - - +
457B ILE* 3.2 8.7 + - + +
459B GLN* 1.3 76.2 - - - +
461B LYS* 1.3 54.6 + - - +
463B MET* 3.6 4.5 + - - +
464B THR* 2.7 38.0 + - - -
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Residues in contact with LYS 461 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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289B GLU* 3.4 38.4 - - - +
457B ILE* 2.9 36.6 + - - +
458B MET* 3.4 34.5 - - + +
460B LEU* 1.3 77.0 - - - +
462B ILE* 1.3 56.7 + - + +
464B THR* 3.3 3.5 + - - -
465B ASN* 2.9 31.5 + - - +
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Residues in contact with ILE 462 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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458B MET* 2.9 36.7 + - + +
459B GLN* 3.3 26.2 + - - +
461B LYS* 1.3 75.1 - - + +
463B MET* 1.3 58.0 + - - +
465B ASN* 3.3 6.8 + - - +
466B ARG* 2.9 50.4 + - + +
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Residues in contact with MET 463 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222B SER* 4.2 5.8 - - - +
225B GLN* 3.7 21.5 - - + +
226B GLY* 3.7 22.4 - - - -
229B VAL* 3.5 36.1 - - + -
293B LEU* 3.6 23.3 - - + -
459B GLN 2.9 16.3 + - - +
460B LEU 4.0 2.9 - - - +
462B ILE* 1.3 77.3 - - - +
464B THR* 1.3 57.3 + - - +
466B ARG* 3.3 38.8 + - - +
467B LEU* 2.9 34.2 + - - +
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Residues in contact with THR 464 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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289B GLU* 4.2 3.1 + - - +
292B ASN* 3.9 24.1 - - + +
293B LEU* 3.3 25.2 + - - +
296B SER* 4.3 11.3 - - - +
460B LEU 2.7 25.9 + - - -
461B LYS* 3.6 7.2 - - - -
463B MET* 1.3 77.6 - - - +
465B ASN* 1.3 57.4 + - - +
467B LEU* 3.1 4.0 + - - +
468B ARG* 2.9 56.5 + - - +
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Residues in contact with ASN 465 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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427A GLU* 5.6 1.4 - - - +
461B LYS 2.9 17.4 + - - +
462B ILE* 3.7 6.5 - - - +
464B THR* 1.3 77.1 - - - +
466B ARG* 1.3 57.7 + - - +
468B ARG* 3.1 13.1 + - - +
469B SER* 2.9 36.8 + - - -
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Residues in contact with ARG 466 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222B SER* 4.1 7.8 + - - +
225B GLN* 3.5 32.4 + - - +
229B VAL* 5.5 2.0 - - - +
459B GLN* 5.9 1.6 + - - -
462B ILE* 2.9 37.9 + - + +
463B MET* 3.5 32.3 - - - +
464B THR 3.3 0.2 - - - -
465B ASN* 1.3 77.9 - - - +
467B LEU* 1.3 57.6 + - - +
469B SER* 3.5 6.4 + - - -
470B ALA* 2.9 27.9 + - - +
475B ASP* 4.6 21.8 - - - +
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Residues in contact with LEU 467 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222B SER* 3.4 39.5 - - - +
223B PHE* 4.1 3.6 - - - +
226B GLY* 4.4 0.7 - - - -
293B LEU* 3.6 14.8 - - + -
296B SER* 3.3 32.3 - - - +
297B MET* 3.6 21.3 - - + -
300B ILE* 4.1 28.6 - - + +
463B MET* 2.9 20.4 + - - +
464B THR 3.1 8.3 + - - +
466B ARG* 1.3 74.6 - - - +
468B ARG* 1.3 60.1 + - - +
470B ALA* 3.4 4.6 + - - +
471B TYR* 2.9 27.4 + - - +
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Residues in contact with ARG 468 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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428A VAL* 5.6 6.0 + - + -
430A GLY* 4.8 16.6 - - - +
292B ASN* 4.8 16.3 + - - +
296B SER* 5.2 6.7 - - - -
299B LEU* 6.1 6.7 - - + +
464B THR* 2.9 40.3 + - - +
465B ASN* 3.1 15.7 + - - +
467B LEU* 1.3 75.0 - - - +
469B SER* 1.3 60.1 + - - +
471B TYR* 3.1 10.1 + - + +
472B ASN* 3.0 36.5 + - - +
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Residues in contact with SER 469 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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465B ASN* 2.9 26.2 + - - -
466B ARG* 3.8 7.1 - - - -
468B ARG* 1.3 75.9 - - - +
470B ALA* 1.3 58.8 + - - +
472B ASN* 3.2 11.5 + - - +
473B GLY 3.1 7.1 + - - -
474B ASN* 2.8 35.3 + - - +
475B ASP* 4.5 17.7 - - - -
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Residues in contact with ALA 470 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215B ARG 5.1 0.5 - - - +
218B VAL* 3.9 19.1 - - + +
219B ALA* 4.9 2.4 - - - +
222B SER* 3.2 35.4 - - - +
300B ILE* 3.9 12.4 - - + +
303B LYS* 5.4 1.6 - - - +
466B ARG 2.9 14.4 + - - +
467B LEU 3.5 6.3 - - - +
468B ARG 3.2 0.2 - - - -
469B SER* 1.3 74.8 - - - +
471B TYR* 1.3 62.5 + - - +
473B GLY* 3.1 13.0 + - - -
474B ASN 4.1 9.2 + - - +
475B ASP* 6.0 0.2 - - - -
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Residues in contact with TYR 471 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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391A ASP* 4.6 7.3 - - - +
394A ILE* 3.9 26.4 + - + +
395A SER* 5.3 4.2 - - - -
299B LEU* 3.5 55.7 - - + +
300B ILE* 3.6 17.9 - - + +
302B ASP* 4.3 6.6 + - + -
303B LYS* 3.6 45.6 + - + +
467B LEU 2.9 14.3 + - - +
468B ARG* 3.1 13.4 + - + +
470B ALA* 1.3 76.8 - - - +
472B ASN* 1.3 70.9 + - - +
473B GLY* 3.1 1.3 + - - -
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Residues in contact with ASN 472 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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273A ARG* 3.2 46.2 + - - +
398A GLY* 5.9 1.7 - - - -
428A VAL* 5.2 7.5 - - - +
468B ARG* 3.0 24.4 + - - +
469B SER* 3.2 11.0 + - - +
471B TYR* 1.3 85.4 - - - +
473B GLY* 1.3 60.7 + - - +
474B ASN* 3.3 22.6 + - - +
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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
------------------------------------------------------------
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