Contacts of the strand formed by residues 451 - 468 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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443A HIS* 3.3 29.5 + + - -
444A HIS* 4.9 1.8 + - - -
445A SER* 2.8 50.6 + - - +
449A SER* 3.2 19.0 + - - +
450A HIS* 1.3 74.8 - - - +
452A PHE* 1.3 58.6 + - - +
724A TYR* 3.0 22.0 - + + +
725A PHE 3.3 9.9 - - - +
726A ARG* 4.1 4.3 - - + +
727A GLY 5.3 0.9 - - - -
235B GLY* 3.5 14.1 - - - -
236B ALA* 3.3 31.5 - - - -
237B GLY* 3.2 19.7 + - - -
238B PHE* 5.9 0.3 - - - -
239B PHE* 3.8 4.5 - - - -
302B LEU* 3.3 34.5 - - + -
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Residues in contact with PHE 452 (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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442A ARG* 3.6 40.4 - - + -
443A HIS 3.0 22.7 - - - -
444A HIS* 3.4 25.1 - - + +
451A TYR* 1.3 76.9 - - - +
453A GLY* 1.3 58.5 + - - +
454A GLY* 3.6 22.9 - - - -
723A ILE* 5.0 2.7 - - + -
724A TYR* 3.2 22.1 - - - -
725A PHE* 2.9 58.1 + + + -
399B THR* 3.3 33.2 - - + -
402B VAL* 4.2 7.6 - - + -
403B ASP* 4.0 4.3 - - - -
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Residues in contact with GLY 453 (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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441A ARG* 4.5 7.0 - - - -
442A ARG* 3.3 3.8 + - - -
443A HIS* 3.0 31.5 + - - +
452A PHE* 1.3 80.4 - - - +
454A GLY* 1.3 57.2 + - - -
723A ILE 3.2 9.9 - - - -
724A TYR* 4.1 3.6 - - - -
302B LEU* 4.0 23.1 - - - +
693B ASN* 4.3 3.5 - - - +
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Residues in contact with GLY 454 (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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441A ARG* 3.5 16.2 + - - -
442A ARG* 4.1 0.9 - - - -
452A PHE* 3.6 10.2 - - - -
453A GLY* 1.3 75.0 - - - -
455A LEU* 1.3 65.4 + - - +
722A SER* 3.7 4.2 + - - -
723A ILE* 3.0 31.4 + - - +
402B VAL* 3.6 16.8 - - - -
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Residues in contact with LEU 455 (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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439A PRO* 4.3 0.4 - - - -
440A LEU* 2.7 51.9 + - + +
441A ARG* 3.3 20.3 + - + +
454A GLY* 1.3 76.9 - - - +
456A ALA* 1.3 76.1 + - - +
457A GLU* 5.4 0.2 - - - -
481A PRO* 5.4 4.5 - - + -
716A SER* 4.1 8.3 - - - +
719A SER* 3.4 28.0 - - - +
721A ASP* 3.0 44.6 - - + +
722A SER* 3.5 2.5 - - - +
723A ILE* 5.0 0.9 - - - +
402B VAL* 3.0 11.4 - - - +
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Residues in contact with ALA 456 (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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435A ASN* 4.4 13.9 - - - +
437A GLY* 5.5 1.3 - - - -
438A LEU 3.5 12.3 - - - +
439A PRO* 3.7 1.3 - - - -
455A LEU* 1.3 87.0 - - - +
457A GLU* 1.3 62.5 + - - +
458A THR* 3.8 5.1 + - - -
401B GLY 3.7 17.3 - - - +
402B VAL* 3.3 29.7 - - - +
404B CYS 6.3 0.9 - - - -
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Residues in contact with GLU 457 (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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435A ASN* 3.8 3.8 - - - +
436A GLN* 2.9 43.9 + - + +
438A LEU* 2.8 23.9 + - + +
439A PRO 4.5 0.9 - - - -
440A LEU* 3.6 30.9 - - + +
455A LEU* 3.3 3.4 + - - -
456A ALA* 1.3 72.7 - - - +
458A THR* 1.3 68.0 + - - +
459A VAL* 3.4 12.5 - - + +
480A HIS* 2.8 27.5 + - - +
481A PRO* 3.2 21.3 - - + +
696B THR* 4.5 6.1 + - - -
697B VAL* 3.6 11.4 + - - +
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Residues in contact with THR 458 (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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322A ARG* 4.2 6.5 - - - +
433A GLU* 3.3 39.7 - - + +
434A GLN 3.4 7.0 - - - +
435A ASN* 3.7 13.0 + - - +
456A ALA 3.8 5.0 + - - -
457A GLU* 1.3 76.3 + - - +
459A VAL* 1.3 64.1 + - - +
481A PRO* 3.4 24.0 - - - +
312B PRO* 3.8 16.8 - - - +
313B PRO* 3.8 14.6 - - + -
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Residues in contact with VAL 459 (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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432A PHE 4.0 0.2 - - - +
433A GLU* 3.1 8.2 - - - +
434A GLN* 2.7 41.0 + - + +
436A GLN* 3.3 41.5 - - + +
457A GLU* 3.4 25.8 - - - +
458A THR* 1.3 75.9 - - - +
460A LEU* 1.3 59.0 + - - +
461A VAL* 3.8 13.2 + - + -
478A VAL* 3.3 25.6 - - + -
479A PHE 3.6 5.8 - - - +
480A HIS* 3.5 11.7 - - + +
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Residues in contact with LEU 460 (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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323A PHE* 4.1 23.1 - - + -
330A VAL* 4.3 11.7 - - + -
332A SER* 4.0 22.9 - - - +
335A TRP* 4.5 14.1 - - + -
337A PHE* 4.3 22.9 - - + -
431A VAL* 4.3 9.9 - - + -
432A PHE 2.9 28.9 - - - +
433A GLU* 4.4 7.0 - - + -
459A VAL* 1.3 72.7 - - - +
461A VAL* 1.3 65.4 + - - +
478A VAL* 3.3 5.5 - - - +
479A PHE* 2.9 48.1 + - + +
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Residues in contact with VAL 461 (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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430A CYS 3.7 0.4 - - - +
431A VAL* 3.1 10.8 - - - +
432A PHE* 2.9 72.4 + - + +
434A GLN* 4.6 1.3 - - + -
459A VAL* 3.8 22.0 - - + +
460A LEU* 1.3 80.5 - - - +
462A VAL* 1.3 75.0 + - - +
463A ARG* 4.1 6.3 - - + +
476A ASP* 4.0 16.8 - - - +
477A THR 3.7 7.2 - - - +
478A VAL* 4.2 13.5 - - + -
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Residues in contact with VAL 462 (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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337A PHE* 3.3 35.9 - - + -
339A PHE* 4.3 25.1 - - + -
349A ILE* 4.3 2.2 - - + -
429A PHE* 5.0 8.1 - - + -
430A CYS 3.4 3.1 - - - +
431A VAL* 4.3 19.3 - - + -
460A LEU* 5.6 0.7 - - + -
461A VAL* 1.3 80.3 - - - +
463A ARG* 1.3 65.8 + - - +
475A TRP 3.7 3.1 - - - +
476A ASP* 3.9 0.5 - - - -
477A THR* 3.0 40.8 + - + +
479A PHE* 4.0 11.2 - - + -
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Residues in contact with ARG 463 (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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398A LEU* 4.5 2.9 - - + -
403A ASP 2.5 38.8 + - - -
404A CYS* 3.9 10.0 - - - +
428A ALA 3.9 0.2 - - - +
429A PHE* 3.2 10.4 - - - +
430A CYS* 2.8 44.1 + - - -
432A PHE* 4.2 16.1 - - - -
461A VAL* 4.4 5.4 - - + +
462A VAL* 1.3 77.4 - - - +
464A SER* 1.3 79.5 + - - +
465A MET* 3.9 7.0 - - + -
474A VAL* 3.8 15.4 - - + +
475A TRP 3.3 11.4 - - - +
476A ASP* 3.0 21.7 + - - +
436B GLN 5.7 0.2 + - - -
437B GLY 2.8 24.7 + - - -
438B LEU* 3.4 32.6 - - - +
439B PRO* 3.9 1.6 - - - +
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Residues in contact with SER 464 (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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341A LEU* 3.8 15.5 - - - +
347A PRO* 4.2 19.6 - - - +
395A THR* 3.5 15.8 + - - -
398A LEU* 4.6 1.1 - - - -
428A ALA 3.6 12.8 + - - -
429A PHE* 4.2 14.3 - - - -
463A ARG* 1.3 81.1 - - - +
465A MET* 1.3 67.7 + - - +
466A SER* 4.9 0.7 + - - -
475A TRP* 2.9 36.3 + - - -
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Residues in contact with MET 465 (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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395A THR* 3.2 8.4 + - - -
396A THR* 2.8 27.2 + - - +
398A LEU* 3.8 12.0 - - + +
403A ASP* 3.6 38.4 - - + +
428A ALA 4.3 1.4 + - - -
463A ARG* 3.9 5.2 - - + -
464A SER* 1.3 79.6 + - - +
466A SER* 1.3 62.2 + - - +
472A ASP* 5.3 1.1 - - + -
473A TYR 3.1 12.6 - - - +
474A VAL* 3.7 36.6 - - + -
439B PRO* 3.8 14.6 - - + -
442B ARG* 3.3 46.9 - - - +
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Residues in contact with SER 466 (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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341A LEU* 5.7 0.3 - - - +
347A PRO* 5.1 1.0 - - - +
391A MET* 2.6 43.1 + - - +
394A TYR* 3.3 9.4 - - - -
395A THR* 3.7 3.1 - - - +
464A SER* 4.9 1.0 + - - -
465A MET* 1.3 75.4 - - - +
467A THR* 1.3 61.7 + - - +
468A LEU* 3.8 2.8 + - - -
472A ASP* 2.9 3.7 - - - -
473A TYR* 2.7 43.7 + - - +
475A TRP* 3.1 23.0 + - - +
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Residues in contact with THR 467 (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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394A TYR* 2.6 30.7 + - - +
396A THR* 2.6 41.0 + - - +
466A SER* 1.3 73.4 - - - +
468A LEU* 1.3 56.6 + - - +
469A LEU 3.2 12.6 + - - +
471A PAQ 3.6 2.9 - - - +
472A ASP* 2.8 30.3 + - - +
442B ARG* 3.4 3.1 + - - -
443B HIS* 3.6 14.6 - - + -
444B HIS 3.2 16.6 + - - +
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Residues in contact with LEU 468 (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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386A ASP* 3.1 31.4 - - + +
389A PHE* 3.4 33.2 - - + -
390A GLY 4.3 3.6 - - - +
391A MET* 4.1 11.0 - - + -
394A TYR* 3.7 23.8 - - + -
466A SER* 3.8 2.8 - - - -
467A THR* 1.3 70.2 - - - +
469A LEU* 1.3 59.9 + - - +
470A ASN 2.8 17.8 + - - -
471A PAQ 3.0 47.0 + - + +
473A TYR* 3.2 28.9 - - + -
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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