Contacts of the strand formed by residues 357 - 372 (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 GLU 357 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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352C VAL 3.4 0.3 - - - +
353C ARG* 2.9 4.2 - - - -
354C PHE 2.8 36.6 + - - +
355C GLN 3.4 1.9 + - - +
356C GLY* 1.3 77.7 - - - +
358C ARG* 1.3 72.0 + - - +
359C LEU* 3.5 7.0 + - + +
533C ALA* 3.5 28.3 - - - +
601C ARG* 3.2 21.7 + - - -
710C PHE* 3.6 23.2 - - + -
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Residues in contact with ARG 358 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C LEU* 3.8 19.4 - - - +
113C LEU* 4.1 4.4 - - - +
114C ASP* 2.5 40.0 + - - +
351C ASP* 2.9 33.2 + - - +
352C VAL 2.9 10.1 - - - +
353C ARG* 3.3 19.5 - - + +
356C GLY 3.9 2.2 + - - -
357C GLU* 1.3 79.7 - - - +
359C LEU* 1.3 59.8 + - - +
360C VAL 3.2 32.5 - - - +
361C TYR* 3.9 13.7 - - - +
531C ASP* 3.2 28.4 + - + +
533C ALA* 4.3 3.5 + - - -
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Residues in contact with LEU 359 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335C TRP* 3.8 30.7 - - + -
352C VAL 2.9 8.8 + - - +
354C PHE* 4.2 12.3 - - + -
357C GLU* 3.9 13.5 - - + +
358C ARG* 1.3 77.0 - - - +
360C VAL* 1.3 65.1 + - + +
485C ILE* 4.0 9.4 - - + -
530C LEU* 3.4 13.2 - - + +
531C ASP 2.7 32.8 + - - -
532C VAL* 3.9 3.6 + - - +
603C TYR* 3.2 38.1 - - + +
710C PHE* 3.8 31.6 - - + -
711C PHE* 5.4 0.7 - - + -
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Residues in contact with VAL 360 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352C VAL* 3.3 24.1 + - + -
358C ARG* 3.2 18.3 - - - +
359C LEU* 1.3 85.3 - - + +
361C TYR* 1.3 61.0 + - - +
362C GLU 2.9 24.0 - - - +
363C ILE* 3.2 30.1 - - + -
485C ILE* 4.1 13.5 - - + -
529C ASP 2.8 31.0 - - - +
530C LEU* 3.1 26.0 - - + +
531C ASP* 4.0 0.2 - - - -
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Residues in contact with TYR 361 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C PHE* 3.0 41.9 - + - -
104C PRO 4.1 6.5 + - - -
106C LYS* 3.4 34.4 - - + -
109C ALA* 3.1 18.7 - - + +
110C LEU* 3.3 36.1 - - + -
113C LEU* 5.5 1.6 - - + -
350C PHE* 3.2 16.0 - + - +
351C ASP* 3.0 21.8 + - - -
358C ARG* 3.9 7.0 - - - +
360C VAL* 1.3 73.9 - - - +
362C GLU* 1.3 69.4 + - + +
529C ASP* 2.9 26.4 + - - +
531C ASP* 2.7 22.3 + - - +
637C ARG* 4.1 9.6 - - - -
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Residues in contact with GLU 362 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C LEU* 5.5 5.3 - - - +
349C ILE 3.1 9.6 - - - +
350C PHE* 3.4 35.3 - - + +
360C VAL* 2.9 6.9 - - - +
361C TYR* 1.3 95.7 - - + +
363C ILE* 1.3 74.4 + - - +
364C SER* 2.7 24.8 + - - +
366C GLN* 4.3 1.9 + - - -
527C LYS* 3.4 37.3 + - - +
529C ASP* 2.9 30.7 + - - +
637C ARG* 5.0 1.9 + - - -
642C PRO 5.2 0.2 - - - +
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Residues in contact with ILE 363 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348C ARG* 3.5 1.4 - - - -
349C ILE* 2.7 45.3 + - + +
352C VAL* 5.0 5.4 - - + -
360C VAL* 3.2 35.4 - - + -
362C GLU* 1.3 78.9 - - - +
364C SER* 1.3 61.5 + - - +
485C ILE* 4.6 14.4 - - + -
487C ILE* 4.3 28.5 - - + -
526C PHE* 5.5 2.0 - - + -
527C LYS 3.3 9.4 - - - +
528C VAL* 4.0 17.5 - - + -
703C PHE* 4.7 2.5 - - + -
705C LEU* 3.6 21.5 - - + -
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Residues in contact with SER 364 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345C SER* 4.7 3.4 - - - -
347C PRO 3.4 5.4 - - - -
348C ARG* 3.4 23.8 - - - -
362C GLU* 2.7 25.6 + - - -
363C ILE* 1.3 75.7 - - - +
365C LEU* 1.3 64.1 + - - +
366C GLN* 3.1 19.3 + - - -
526C PHE* 3.4 10.3 - - - +
527C LYS* 2.8 32.8 + - - +
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Residues in contact with LEU 365 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345C SER* 3.0 38.8 + - - +
347C PRO* 2.9 29.1 + - + +
364C SER* 1.3 85.0 + - - +
366C GLN* 1.3 67.9 + - - +
367C GLU 3.3 22.7 - - - +
391C MET* 4.0 9.9 - - + -
475C TRP* 3.4 43.5 - - + -
524C ALA* 4.3 9.9 - - + -
525C HIS 3.5 7.6 - - - +
526C PHE* 4.1 23.1 - - + -
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Residues in contact with GLN 366 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344C PHE 5.0 0.7 - - - +
345C SER* 4.3 21.7 + - - -
362C GLU* 4.3 1.6 + - - -
364C SER* 3.1 21.6 + - - -
365C LEU* 1.3 79.1 + - - +
367C GLU* 1.3 69.6 + - - +
387C GLY* 5.7 0.2 - - - -
391C MET* 5.0 0.3 - - - +
525C HIS 2.9 15.7 + - - +
526C PHE 4.2 0.2 - - - -
527C LYS* 3.5 34.7 - - + +
642C PRO 3.7 11.1 + - - -
643C SER* 2.8 38.2 + - - +
644C SER* 2.9 26.5 + - - +
645C SER* 4.3 8.8 + - - +
677C TRP* 4.1 3.6 - - + -
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Residues in contact with GLU 367 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365C LEU* 3.3 13.0 - - - +
366C GLN* 1.3 85.2 - - + +
368C ALA* 1.3 85.3 + - - +
385C VAL* 3.3 19.6 - - + +
387C GLY* 2.5 39.2 + - - -
391C MET* 3.7 9.2 - - - -
524C ALA* 3.5 1.4 - - - -
525C HIS* 3.1 25.6 + - + -
627C TRP* 3.7 26.2 - - + +
644C SER* 4.8 0.2 - - - +
645C SER* 3.0 36.2 + - - +
646C SER 4.2 5.7 + - - +
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Residues in contact with ALA 368 (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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367C GLU* 1.3 96.2 + - - +
369C LEU* 1.3 62.0 + - - +
385C VAL* 3.5 3.1 - - - -
386C ASP* 3.1 30.6 + - + +
391C MET* 3.5 19.0 - - + +
473C TYR* 4.2 15.3 - - + +
475C TRP* 4.8 11.4 - - + -
523C SER 3.5 7.4 - - - +
524C ALA* 4.4 2.0 - - + +
627C TRP* 4.5 0.4 - - - -
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Residues in contact with LEU 369 (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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368C ALA* 1.3 77.5 - - - +
370C ALA* 1.3 65.9 - - - +
371C ILE* 3.9 22.4 - - + +
383C ARG 4.3 4.9 - - - -
384C TYR 3.0 32.5 - - - +
385C VAL* 4.0 15.7 - - + -
386C ASP* 4.7 0.7 - - - -
473C TYR* 4.1 7.8 + - - -
521C THR 4.2 0.2 - - - -
522C HIS* 3.5 3.3 - - - +
523C SER* 2.8 37.2 + - - +
625C PHE* 4.1 18.2 - - + -
627C TRP* 3.9 10.1 - - + -
628C GLU* 3.6 46.2 - - + +
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Residues in contact with ALA 370 (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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369C LEU* 1.3 79.6 - - - +
371C ILE* 1.3 62.3 + - - +
372C TYR* 3.7 16.1 - - + +
382C THR 3.6 4.5 - - - +
384C TYR* 3.1 31.7 + - + -
386C ASP* 4.7 0.2 - - - +
471C PAQ 3.5 25.8 - - + +
473C TYR* 4.6 3.1 - - - +
520C HIS* 5.4 0.4 - - + -
521C THR 2.8 11.2 - - - +
522C HIS* 4.3 11.7 - - + +
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Residues in contact with ILE 371 (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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369C LEU* 3.9 23.3 - - + -
370C ALA* 1.3 73.3 - - - +
372C TYR* 1.3 63.7 + - - +
382C THR 3.7 2.5 - - - -
383C ARG* 3.7 28.3 - - + +
520C HIS* 3.1 3.1 - - - -
521C THR* 2.8 45.2 + - - +
615C LEU* 3.7 30.5 - - + +
625C PHE* 4.1 10.1 - - + -
628C GLU* 3.8 19.5 - - - +
546D PHE* 4.0 23.6 - - + -
562D LEU* 3.4 6.1 - - + +
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Residues in contact with TYR 372 (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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370C ALA* 3.7 15.5 - - + -
371C ILE* 1.3 73.6 - - - +
373C GLY* 1.3 59.9 + - - +
379C ALA* 3.7 17.4 - - - +
382C THR* 2.8 35.9 + - + +
383C ARG* 2.7 25.6 + - - -
384C TYR* 3.6 24.2 - + - -
470C ASN* 3.7 9.2 + - - -
471C PAQ 3.1 31.3 + + - -
495C ILE* 5.8 0.2 - - - -
496C SER* 3.9 18.5 + - - -
518C THR* 3.1 29.4 - - - -
519C VAL 3.5 5.6 - - - -
520C HIS* 3.2 33.5 + + + -
562D LEU* 3.5 14.2 - - - +
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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