Contacts of the strand formed by residues 423 - 444 (chain C) 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 LYS 423 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173C PHE* 6.3 0.4 - - - -
414C HIS* 3.4 3.5 - - - +
415C PHE* 3.0 66.9 + - + -
417C LEU 3.7 8.5 + - - -
418C GLU* 5.1 1.0 + - - +
419C SER* 3.7 23.4 + - - +
421C ALA* 3.7 18.4 - - + +
422C PRO* 1.3 78.4 - - - +
424C THR* 1.3 66.3 + - - +
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Residues in contact with THR 424 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C ARG* 3.7 22.5 + - - +
412C ASP* 3.7 26.2 - - + +
413C TRP 3.2 6.7 - - - +
414C HIS* 3.1 37.7 + - + +
415C PHE* 4.1 1.8 - - - -
422C PRO 5.3 0.5 + - - -
423C LYS* 1.3 79.7 - - - +
425C ILE* 1.3 68.3 + - - +
426C ARG* 4.0 5.2 + - + +
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Residues in contact with ILE 425 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393C LYS 4.6 7.9 - - - +
395C THR* 3.0 42.4 - - + +
396C THR 4.3 0.2 - - - -
397C PRO* 3.7 29.8 - - + -
412C ASP* 3.3 4.7 - - - -
413C TRP* 2.8 39.9 + - + +
415C PHE* 3.5 28.5 - - + -
424C THR* 1.3 72.2 - - - +
426C ARG* 1.3 67.3 + - - +
428C ALA* 3.7 17.0 + - + -
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Residues in contact with ARG 426 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397C PRO* 3.3 23.8 - - + +
412C ASP* 3.3 21.1 - - - +
424C THR* 4.0 4.4 + - + +
425C ILE* 1.3 73.1 - - - +
427C ASP* 1.3 85.3 + - - +
428C ALA 3.1 0.7 + - - -
728D ASP* 5.0 17.3 + - - +
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Residues in contact with ASP 427 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397C PRO* 5.3 0.8 - - + +
398C LEU* 2.7 43.9 + - - +
400C ARG* 3.0 40.7 + - - -
410C TYR* 3.6 24.0 - - + +
411C VAL 2.8 16.7 + - - +
412C ASP* 3.2 10.5 + - - +
426C ARG* 1.3 83.4 - - - +
428C ALA* 1.3 63.4 - - - +
429C PHE 3.3 6.1 - - - -
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Residues in contact with ALA 428 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341C LEU* 5.3 0.2 - - + -
395C THR* 4.3 16.9 + - + +
396C THR 4.5 3.6 - - - +
398C LEU* 3.4 17.3 - - - +
411C VAL 2.6 8.0 + - - +
413C TRP* 3.8 22.7 - - + -
425C ILE* 3.8 27.1 - - + +
426C ARG 3.1 3.0 + - - -
427C ASP* 1.3 74.8 - - - +
429C PHE* 1.3 67.3 + - + +
464C SER* 3.6 16.4 + - - +
465C MET 4.3 1.4 + - - -
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Residues in contact with PHE 429 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ASP* 4.3 0.7 - - - -
339C PHE* 3.8 33.0 - + + -
340C GLY* 3.5 29.4 - - - -
341C LEU* 3.5 35.9 - - + -
347C PRO* 5.7 1.3 - - + -
398C LEU* 3.7 0.4 - - - -
410C TYR* 3.6 2.4 - - - +
411C VAL* 2.8 37.5 + - + +
412C ASP 3.8 15.9 - - - -
413C TRP* 3.8 25.4 - + + -
427C ASP* 3.9 3.8 - - - -
428C ALA* 1.3 85.5 - - + +
430C CYS* 1.3 64.0 + - - +
431C VAL* 5.3 3.1 - - + -
462C VAL* 5.0 8.5 - - + -
463C ARG 3.3 8.1 - - - +
464C SER* 4.4 12.8 - - - -
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Residues in contact with CYS 430 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398C LEU* 3.3 12.1 - - + -
404C CYS* 2.0 53.6 - - + -
408C ALA* 4.7 2.2 - - + -
409C THR 3.3 7.0 - - - +
410C TYR* 3.9 13.2 - - + -
429C PHE* 1.3 73.8 - - - +
431C VAL* 1.3 61.8 + - - +
432C PHE* 4.0 8.7 - - - -
461C VAL 3.8 0.7 - - - +
462C VAL* 3.7 1.4 - - - -
463C ARG* 3.0 39.9 + - - +
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Residues in contact with VAL 431 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323C PHE* 3.5 27.0 - - + -
325C VAL* 4.5 8.3 - - + -
330C VAL* 4.2 31.0 - - + -
339C PHE* 4.4 11.4 - - + -
409C THR* 2.7 42.4 + - - +
411C VAL* 5.1 4.7 - - + -
429C PHE* 5.3 0.4 - - + -
430C CYS* 1.3 81.7 - - - +
432C PHE* 1.3 65.3 + - - +
460C LEU* 4.2 7.0 - - + -
461C VAL 3.2 13.7 - - - +
462C VAL* 4.3 18.8 - - + -
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Residues in contact with PHE 432 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317C TYR* 3.4 13.7 - - - +
323C PHE* 3.5 6.3 - - - -
405C PRO* 3.5 40.6 - - + -
407C LEU 4.2 2.0 - - - +
408C ALA* 3.6 14.4 - - + -
430C CYS* 4.0 24.5 - - - -
431C VAL* 1.3 81.5 - - - +
433C GLU* 1.3 71.7 + - - +
434C GLN* 3.9 15.7 - - + -
460C LEU* 2.9 22.7 - - - +
461C VAL* 2.9 54.7 + - + -
463C ARG* 4.1 19.7 - - - -
436D GLN 5.6 0.2 - - - -
437D GLY* 4.6 3.8 - - - -
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Residues in contact with GLU 433 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315C GLN* 3.3 14.4 + - - -
317C TYR* 2.7 37.0 + - + -
322C ARG* 3.0 56.6 + - - +
323C PHE* 3.9 9.4 - - + -
405C PRO* 5.6 0.3 - - - +
432C PHE* 1.3 82.7 - - - +
434C GLN* 1.3 60.6 + - - +
458C THR* 3.3 24.2 - - + +
459C VAL 3.1 9.9 - - - +
460C LEU* 4.5 5.2 - - + -
313D PRO* 4.0 4.7 - - + +
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Residues in contact with GLN 434 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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315C GLN* 2.7 33.6 + - - +
405C PRO* 3.9 22.5 - - - +
432C PHE* 3.9 15.3 - - + -
433C GLU* 1.3 74.0 - - - +
435C ASN* 1.3 73.1 + - - +
436C GLN* 2.9 25.9 + - - +
458C THR* 4.1 2.0 - - - -
459C VAL* 2.5 44.6 + - + -
461C VAL* 4.7 0.9 - - + -
315D GLN* 3.5 4.6 - - - +
434D GLN* 3.8 1.0 - - - +
435D ASN 3.2 22.8 + - - -
436D GLN* 3.9 18.8 + - - +
437D GLY* 4.0 4.0 - - - -
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Residues in contact with ASN 435 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315C GLN* 2.6 29.6 + - - +
434C GLN* 1.3 79.6 + - - +
436C GLN* 1.3 60.5 + - - +
437C GLY* 3.1 25.8 + - - +
456C ALA* 4.6 10.7 - - - +
457C GLU 3.7 8.8 - - - +
458C THR* 3.7 11.0 + - - +
313D PRO* 3.4 29.5 + - + +
314D LEU* 5.2 0.4 - - - +
315D GLN* 3.3 35.4 - - - +
405D PRO* 4.7 6.7 - - - +
434D GLN* 3.2 4.7 + - - -
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Residues in contact with GLN 436 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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434C GLN* 2.9 30.7 + - - +
435C ASN* 1.3 72.5 - - - +
437C GLY* 1.3 60.4 + - - +
438C LEU* 4.2 13.8 - - + +
457C GLU* 2.7 51.2 + - + +
459C VAL* 3.5 28.4 - - + +
478C VAL* 5.2 1.2 - - - +
480C HIS* 4.8 6.3 - - - -
434D GLN* 3.7 17.1 + - - +
436D GLN* 5.2 1.7 - - - +
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Residues in contact with GLY 437 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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435C ASN* 3.1 17.5 + - - -
436C GLN* 1.3 78.7 - - - +
438C LEU* 1.3 56.5 + - - +
456C ALA* 5.5 3.6 - - - -
457C GLU 4.0 1.0 + - - -
402D VAL 5.6 0.7 - - - -
403D ASP 5.1 0.7 - - - -
404D CYS* 5.5 0.4 - - - -
405D PRO* 3.7 34.2 - - - +
432D PHE* 3.9 3.3 - - - -
434D GLN* 3.9 6.7 - - - -
463D ARG* 2.9 25.3 + - - -
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Residues in contact with LEU 438 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435C ASN* 4.9 0.2 + - - -
436C GLN* 3.2 11.8 - - + +
437C GLY* 1.3 80.4 - - - +
439C PRO* 1.3 76.4 - - + +
456C ALA* 4.1 3.5 - - - +
457C GLU* 2.8 35.9 + - - +
402D VAL 4.4 0.4 - - - -
463D ARG* 3.3 27.8 - - - +
474D VAL* 4.7 3.6 - - + -
476D ASP* 3.7 14.4 - - - +
490D TYR* 3.7 46.0 - - + +
696D THR* 3.9 18.2 - - + +
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Residues in contact with PRO 439 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438C LEU* 1.3 96.2 - - + +
440C LEU* 1.3 54.1 + - - +
441C ARG 4.0 2.5 - - - +
442C ARG* 4.0 25.6 - - + -
455C LEU 4.1 2.2 - - - +
456C ALA* 3.5 9.4 - - - -
457C GLU* 4.4 0.6 - - - +
402D VAL* 3.6 16.8 - - + +
403D ASP 3.6 19.1 - - - +
463D ARG* 3.6 5.4 - - - +
465D MET* 3.8 22.7 - - + -
474D VAL* 5.0 8.5 - - + -
492D THR* 5.9 0.4 - - + -
696D THR* 2.8 33.7 + - + +
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Residues in contact with LEU 440 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439C PRO* 1.3 73.0 - - - +
441C ARG* 1.3 56.7 - - - +
455C LEU* 2.7 29.2 + - + +
457C GLU* 3.6 27.4 - - + +
481C PRO* 3.5 29.4 - - + -
482C SER* 4.7 3.1 - - - +
716C SER* 3.7 31.6 - - - +
695D VAL* 3.0 21.4 - - + -
696D THR* 2.8 34.2 + - - +
697D VAL* 3.6 31.2 - - + -
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Residues in contact with ARG 441 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439C PRO* 4.0 2.0 - - - +
440C LEU* 1.3 79.7 - - + +
442C ARG* 1.3 68.3 + - - +
453C GLY 4.9 2.0 - - - -
454C GLY* 3.4 14.7 + - - +
455C LEU* 3.2 37.5 + - + +
714C ASP* 3.7 13.2 + - - +
716C SER* 2.4 57.3 + - - +
717C PHE* 3.4 20.2 + - - +
722C SER* 2.9 30.3 + - - -
302D LEU* 4.8 13.6 + - - +
492D THR* 3.5 8.5 - - - -
692D PRO* 4.9 4.4 - - - +
693D ASN* 3.7 28.7 - - + -
694D THR 4.1 3.4 - - - +
695D VAL* 4.6 2.9 - - + -
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Residues in contact with ARG 442 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439C PRO* 4.0 15.7 - - + -
441C ARG* 1.3 79.5 - - - +
443C HIS* 1.3 58.9 + - - +
444C HIS* 3.4 19.9 + - - +
452C PHE* 3.7 13.8 - - + -
453C GLY 3.4 8.1 - - - -
454C GLY* 4.4 1.1 - - - -
396D THR* 2.5 22.4 + - - -
397D PRO 3.6 14.6 + - - -
402D VAL* 4.9 0.4 - - + -
403D ASP* 2.9 35.3 + - - +
465D MET* 3.1 27.2 - - - +
467D THR* 3.0 11.5 + - - -
472D ASP* 2.8 56.0 + - - +
492D THR* 3.1 19.7 + - + +
493D GLY* 3.7 1.6 - - - -
693D ASN* 3.3 8.6 + - - -
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Residues in contact with HIS 443 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442C ARG* 1.3 73.1 - - - +
444C HIS* 1.3 60.8 + - - +
445C SER* 3.9 12.3 + - - -
451C TYR* 3.2 38.0 + + - -
452C PHE* 3.2 8.7 - - - -
453C GLY 2.9 33.6 + - - +
239D PHE* 3.9 7.5 - + - -
302D LEU* 4.5 3.5 - - + +
467D THR* 3.8 19.3 - - + -
469D LEU 3.8 8.7 + - - -
470D ASN 3.1 23.0 + - - -
472D ASP* 2.8 22.1 + - - +
493D GLY* 4.2 0.2 - - - -
494D TYR* 3.4 25.9 + + + -
693D ASN* 3.3 15.7 + - - +
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Residues in contact with HIS 444 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442C ARG* 3.4 24.8 - - - +
443C HIS* 1.3 75.1 - - - +
445C SER* 1.3 61.6 + - - +
446C ASP* 3.4 20.9 + - - -
451C TYR 3.9 1.6 - - - -
452C PHE* 3.3 27.7 - + + -
725C PHE* 5.4 2.0 - + - -
727C GLY 4.3 11.4 - - - -
728C ASP* 6.1 0.4 - - - -
1745C CU 2.5 27.1 - - - -
396D THR* 3.8 17.7 - - - +
397D PRO* 3.5 29.4 + - + +
399D THR* 4.1 5.5 + - - -
467D THR* 3.5 22.5 + - - +
472D ASP* 3.4 5.9 + - - -
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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