Contacts of the strand formed by residues 451 - 468 (chain B) in PDB entry 2C11
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 TYR 451 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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235A GLY* 3.3 33.2 - - - -
236A ALA* 2.6 39.0 + - - -
237A GLY* 3.2 8.8 + - - -
238A PHE* 5.8 0.7 - - - -
239A PHE* 4.5 2.4 - - - -
302A LEU* 3.6 27.4 - - + -
494A TYR* 4.4 0.2 - + - -
443B HIS* 3.6 22.1 + + - -
444B HIS* 4.1 1.6 - - - -
445B SER* 2.9 51.1 + - - +
447B LEU 5.3 0.2 - - - -
449B SER* 2.8 34.3 - - - -
450B HIS* 1.3 73.9 - - - +
452B PHE* 1.3 64.3 + - - +
724B TYR* 3.9 5.4 - + - +
725B PHE 3.6 12.6 - - - +
726B ARG* 3.7 8.3 - - + +
727B GLY* 3.8 5.8 - - - +
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Residues in contact with PHE 452 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A THR* 3.4 35.2 - - + -
402A VAL* 4.2 8.7 - - + -
403A ASP* 3.8 13.7 - - - -
442B ARG* 3.5 34.8 - - + -
443B HIS 3.3 20.0 - - - -
444B HIS* 3.6 22.2 - - + +
451B TYR* 1.3 76.3 - - - +
453B GLY* 1.3 63.8 + - - +
454B GLY* 3.9 13.7 - - - -
723B ILE* 4.5 8.7 - - + -
724B TYR* 3.2 9.1 - - - -
725B PHE* 3.0 66.5 + + + -
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Residues in contact with GLY 453 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A LEU* 3.8 31.3 - - - +
693A ASN* 4.2 5.4 - - - +
441B ARG* 4.7 0.9 - - - -
442B ARG* 3.8 1.6 - - - -
443B HIS* 3.3 27.6 + - - +
452B PHE* 1.3 81.4 - - - +
454B GLY* 1.3 58.4 + - - -
723B ILE 3.3 9.0 - - - -
724B TYR* 3.8 3.1 - - - -
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Residues in contact with GLY 454 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A LEU 5.3 0.2 + - - -
402A VAL* 4.3 5.6 - - - -
441B ARG* 3.4 25.1 - - - +
442B ARG* 4.2 2.0 - - - -
452B PHE* 3.9 11.3 - - - -
453B GLY* 1.3 75.0 - - - -
455B LEU* 1.3 59.0 + - - +
722B SER* 3.7 2.3 + - - -
723B ILE* 2.7 42.6 + - - +
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Residues in contact with LEU 455 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A VAL* 3.9 7.8 - - - +
439B PRO* 3.4 1.0 - - - +
440B LEU* 2.5 62.1 + - + +
441B ARG* 3.1 24.4 + - + +
454B GLY* 1.3 74.8 - - - +
456B ALA* 1.3 69.5 + - - +
457B GLU* 5.3 0.4 - - - -
481B PRO* 5.2 5.6 - - + -
716B SER* 3.9 10.8 - - - +
719B SER* 3.5 29.2 - - - +
721B ASP* 3.7 15.3 - - + +
722B SER* 3.6 23.8 - - - +
723B ILE* 4.7 0.4 - - - +
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Residues in contact with ALA 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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401A GLY 3.5 25.4 - - - +
402A VAL* 3.7 20.2 - - + +
435B ASN* 4.8 14.4 - - - +
437B GLY 6.2 0.9 - - - -
438B LEU 4.7 2.0 - - - +
439B PRO* 3.8 8.5 - - - -
455B LEU* 1.3 88.8 - - - +
457B GLU* 1.3 62.9 + - - +
458B THR* 3.6 7.0 + - - -
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Residues in contact with GLU 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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696A THR* 4.1 10.6 + - - -
697A VAL* 3.3 21.6 + - - +
435B ASN* 3.6 6.3 - - - +
436B GLN* 3.1 43.8 + - + +
438B LEU* 3.1 24.1 + - - +
440B LEU* 3.7 21.3 - - + +
455B LEU* 3.4 2.8 + - - -
456B ALA* 1.3 72.7 - - - +
458B THR* 1.3 62.7 + - - +
459B VAL* 3.4 11.3 - - + +
480B HIS* 2.5 36.6 + - - -
481B PRO* 3.6 13.1 - - + +
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Residues in contact with THR 458 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312A PRO* 3.8 10.5 - - - +
313A PRO* 3.4 33.2 - - + -
322B ARG* 3.7 17.0 - - - +
433B GLU* 3.7 13.1 - - + +
434B GLN 3.5 6.5 - - - +
435B ASN* 3.3 23.1 + - - +
456B ALA 3.6 6.7 + - - -
457B GLU* 1.3 72.8 - - - +
459B VAL* 1.3 69.1 + - - +
479B PHE 5.0 0.2 - - - +
481B PRO* 3.6 20.5 - - - +
721B ASP* 5.9 0.2 - - - -
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Residues in contact with VAL 459 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433B GLU* 3.1 12.5 - - - +
434B GLN* 3.0 43.7 + - + +
436B GLN* 3.3 25.8 - - - +
457B GLU* 3.4 11.4 - - - +
458B THR* 1.3 75.2 - - - +
460B LEU* 1.3 61.6 + - - +
461B VAL* 4.3 7.6 - - + -
478B VAL* 3.7 15.9 - - + -
479B PHE 3.9 4.7 - - - +
480B HIS* 3.2 41.1 - - + +
481B PRO* 4.2 3.1 - - + -
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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
----------------------------------------------------------
323B PHE* 4.1 23.1 - - + -
330B VAL* 4.5 8.7 - - + -
332B SER* 4.4 20.6 - - - +
335B TRP* 4.5 8.7 - - + -
337B PHE* 4.1 29.4 - - + -
431B VAL* 4.3 10.8 - - + -
432B PHE 3.5 14.4 - - - +
433B GLU* 4.0 17.3 - - + -
459B VAL* 1.3 77.1 - - - +
461B VAL* 1.3 61.2 + - - +
477B THR 3.5 3.1 - - - +
478B VAL* 3.6 0.2 - - - -
479B PHE* 2.8 50.5 + - + +
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Residues in contact with VAL 461 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430B CYS 3.8 0.4 - - - +
431B VAL* 3.2 8.5 - - - +
432B PHE* 2.8 74.0 + - + -
434B GLN* 5.0 1.3 - - + -
459B VAL* 4.1 12.1 - - + -
460B LEU* 1.3 76.9 - - - +
462B VAL* 1.3 74.3 + - - +
463B ARG* 4.0 4.0 - - - +
476B ASP* 3.8 24.5 - - - +
477B THR 3.5 4.7 - - - +
478B VAL* 4.0 24.7 - - + -
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Residues in contact with VAL 462 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337B PHE* 3.4 34.1 - - + -
339B PHE* 4.7 15.7 - - + -
349B ILE* 4.6 12.1 - - + -
429B PHE* 5.1 10.5 - - + -
430B CYS 3.5 4.3 - - - +
431B VAL* 3.7 24.2 - - + -
460B LEU* 5.4 0.7 - - + -
461B VAL* 1.3 81.4 - - - +
463B ARG* 1.3 64.1 + - - +
475B TRP 3.3 5.0 - - - +
477B THR* 3.1 40.2 + - - +
479B PHE* 4.5 3.1 - - + -
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Residues in contact with ARG 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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437A GLY 2.9 30.1 + - - -
438A LEU* 3.4 24.0 - - - +
439A PRO* 3.5 3.2 - - - +
398B LEU* 3.8 2.4 - - + +
403B ASP 2.7 37.8 + - - -
404B CYS* 4.0 5.8 - - - +
429B PHE* 3.1 9.9 - - - +
430B CYS* 2.8 41.9 + - - -
432B PHE* 3.2 23.1 - - - -
461B VAL* 4.0 5.0 - - + +
462B VAL* 1.3 77.2 - - - +
464B SER* 1.3 74.8 + - - +
465B MET* 3.6 16.8 - - + -
474B VAL* 3.9 11.9 - - + -
475B TRP 3.5 3.4 - - - +
476B ASP* 2.8 33.1 + - - +
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Residues in contact with SER 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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341B LEU* 3.6 18.9 - - - +
347B PRO* 3.9 20.3 - - - +
395B THR* 3.9 8.5 + - - +
398B LEU* 4.3 2.5 - - - -
428B ALA 3.2 19.0 + - - -
429B PHE* 4.0 13.0 - - - -
463B ARG* 1.3 79.6 - - - +
465B MET* 1.3 67.4 + - - +
475B TRP* 2.9 33.1 + - - -
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Residues in contact with MET 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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439A PRO* 3.7 17.0 - - + -
442A ARG* 3.3 47.1 - - - +
395B THR* 3.1 10.6 + - - +
396B THR* 3.0 25.9 + - - +
398B LEU* 3.5 15.0 - - + +
403B ASP* 3.5 40.6 - - + +
428B ALA 4.1 4.0 + - - -
463B ARG* 3.6 15.3 - - - -
464B SER* 1.3 83.8 + - - +
466B SER* 1.3 61.2 - - - +
467B THR 4.0 0.2 - - - -
472B ASP* 5.5 0.2 - - - -
473B TYR 3.0 11.4 - - - +
474B VAL* 3.9 16.6 - - + -
475B TRP* 4.5 0.4 - - - -
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Residues in contact with SER 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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347B PRO* 5.9 0.2 - - - -
391B MET* 3.6 40.9 + - - +
394B TYR* 3.5 6.2 + - - +
395B THR* 4.0 1.8 - - - +
465B MET* 1.3 73.2 - - - +
467B THR* 1.3 57.4 + - - +
468B LEU* 3.5 14.0 + - - +
472B ASP* 3.3 0.9 - - - -
473B TYR* 2.6 43.5 + - - -
475B TRP* 3.3 22.8 - - - +
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Residues in contact with THR 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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442A ARG* 3.0 15.9 + - - -
443A HIS* 3.7 15.7 - - + -
444A HIS 3.6 13.9 - - - +
394B TYR* 2.7 26.6 + - - +
396B THR* 3.0 21.1 - - + +
465B MET 4.0 0.6 + - - -
466B SER* 1.3 69.0 - - - +
468B LEU* 1.3 58.4 + - - +
469B LEU 3.3 11.4 + - - +
471B PAQ 3.5 7.4 - - - +
472B ASP* 2.4 38.6 + - - +
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Residues in contact with LEU 468 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386B ASP* 3.3 31.4 - - + +
389B PHE* 3.6 31.2 - - + -
390B GLY 4.1 6.5 - - - +
391B MET* 4.3 5.4 - - - -
394B TYR* 3.8 20.2 - - + -
466B SER* 3.5 13.5 + - - +
467B THR* 1.3 67.9 - - - +
469B LEU* 1.3 67.5 + - - +
470B ASN 2.8 10.7 + - - -
471B PAQ 3.1 40.1 + - + +
473B TYR* 3.1 36.8 - - + -
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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
------------------------------------------------------------
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