Contacts of the helix formed by residues 591 - 605 (chain B) in PDB entry 2O2C
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 591 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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590B HIS* 1.3 79.8 - - - +
592B SER* 1.3 59.8 + - - +
593B SER* 3.0 32.6 + - - -
594B THR* 2.9 26.4 + - - -
595B ASN* 3.0 24.7 + - - -
75C PHE* 3.9 15.8 - - + -
485C GLU* 4.0 11.7 + - - +
488C MET* 3.1 30.4 - - + +
489C ILE* 4.7 7.5 - - + +
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Residues in contact with SER 592 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591B ASP* 1.3 72.4 - - - +
593B SER* 1.3 55.6 + - - +
595B ASN* 3.8 10.1 - - - +
596B GLY* 3.0 24.8 + - - -
75C PHE* 3.3 18.5 + - - +
78C ASP 4.5 1.7 + - - -
79C SER 3.8 19.8 + - - -
80C GLU* 5.1 0.7 - - - -
81C ARG* 3.8 4.7 + - - +
82C GLY* 3.1 32.5 + - - -
83C GLN* 6.1 2.3 - - - +
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Residues in contact with SER 593 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591B ASP* 3.0 11.5 + - - -
592B SER* 1.3 76.3 + - - +
594B THR* 1.3 61.3 + - - +
596B GLY* 3.2 2.3 + - - -
597B LEU* 3.0 33.5 + - - +
75C PHE* 3.7 9.0 - - - -
82C GLY* 4.1 5.6 - - - -
102C ASP* 2.7 23.9 + - - +
104C SER* 3.2 23.8 + - - -
105C LYS* 2.7 27.5 + - - -
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Residues in contact with THR 594 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577B ILE* 4.3 7.4 - - + -
590B HIS* 3.7 29.8 - - + +
591B ASP* 2.9 26.5 + - - -
593B SER* 1.3 74.3 - - - +
595B ASN* 1.3 62.5 + - - +
597B LEU* 3.4 9.0 + - - +
598B ILE* 3.0 39.7 + - + +
105C LYS* 3.7 9.5 + - - -
481C PHE* 4.5 8.5 + - + +
485C GLU* 3.6 23.0 - - + +
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Residues in contact with ASN 595 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587B VAL* 3.6 25.7 - - - +
588B ASN* 3.5 17.4 + - - +
589B ASN 3.7 1.0 + - - -
590B HIS* 3.0 48.5 + - - +
591B ASP 3.0 17.3 + - - +
592B SER* 3.8 8.3 - - - +
594B THR* 1.3 76.9 - - - +
596B GLY* 1.3 56.3 + - - +
598B ILE* 3.9 0.9 - - - +
599B ASN* 2.9 38.9 + - - +
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Residues in contact with GLY 596 (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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592B SER 3.0 16.9 + - - -
593B SER 3.7 2.7 - - - -
595B ASN* 1.3 76.2 - - - +
597B LEU* 1.3 58.2 + - - +
599B ASN* 3.8 7.4 - - - +
600B MET* 3.0 33.5 + - - +
82C GLY 6.5 0.4 - - - -
83C GLN* 5.7 6.7 - - - -
100C PHE* 5.7 3.8 - - - -
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Residues in contact with LEU 597 (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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593B SER* 3.0 33.9 + - - +
594B THR* 3.8 4.9 - - - +
596B GLY* 1.3 73.1 - - - +
598B ILE* 1.3 59.5 + - - +
600B MET* 3.4 5.4 + - - +
601B PHE* 3.0 27.7 + - - +
100C PHE* 3.8 28.7 - - + -
102C ASP* 3.9 8.3 - - + +
105C LYS* 3.8 13.7 - - - +
481C PHE* 3.7 27.1 - - + -
484C THR* 4.9 2.9 - - - +
528C THR* 3.6 36.1 - - + +
530C LEU* 4.2 15.4 - - + +
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Residues in contact with ILE 598 (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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577B ILE* 3.8 23.1 - - + -
580B GLN* 4.1 6.1 - - + +
581B LEU* 3.9 11.7 - - + -
587B VAL* 3.8 23.1 - - + -
590B HIS* 3.9 20.2 - - + +
594B THR* 3.0 37.2 + - + +
597B LEU* 1.3 74.9 - - - +
599B ASN* 1.3 58.6 + - - +
601B PHE* 3.3 7.4 + - - +
602B ASN* 3.0 47.7 + - - +
481C PHE* 4.1 22.9 - - + -
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Residues in contact with ASN 599 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585B MET 3.9 7.2 - - - +
586B ARG* 3.3 37.1 - - + +
587B VAL* 2.8 42.9 + - - +
595B ASN* 2.9 29.5 + - - +
596B GLY* 3.8 6.7 - - - +
597B LEU 3.3 0.2 - - - -
598B ILE* 1.3 76.0 - - - +
600B MET* 1.3 61.4 + - - +
602B ASN* 3.5 2.3 + - - +
603B GLU* 3.1 33.8 + - - +
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Residues in contact with MET 600 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596B GLY 3.0 17.7 + - - +
597B LEU* 3.7 4.9 - - - +
598B ILE 3.3 0.2 - - - -
599B ASN* 1.3 73.1 - - - +
601B PHE* 1.3 67.5 + - - +
603B GLU* 3.4 22.4 + - - +
604B LEU* 3.4 14.8 + - + +
88C LYS* 4.0 17.5 - - + +
98C PHE* 3.9 35.7 - - + -
100C PHE* 3.7 48.2 - - + -
463C ILE* 3.9 9.1 - - + +
530C LEU* 4.1 7.6 - - + -
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Residues in contact with PHE 601 (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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581B LEU* 4.0 31.9 - - + -
597B LEU 3.0 14.3 + - - +
598B ILE 3.3 8.3 + - - +
600B MET* 1.3 76.4 - - - +
602B ASN* 1.3 70.5 + - - +
604B LEU 3.3 0.2 + - - -
605B SER* 2.8 47.6 + - - -
606B HIS* 6.0 0.4 - - - -
463C ILE* 3.4 51.5 - - + +
473C HIS* 4.1 11.4 - - - -
474C LYS* 4.9 6.3 - - + -
477C MET* 3.7 33.2 - - + -
481C PHE* 3.7 24.2 - + + -
530C LEU* 4.8 0.9 - - + +
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Residues in contact with ASN 602 (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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580B GLN 2.8 23.0 + - - -
581B LEU* 3.4 9.4 - - - +
582B ARG 3.1 32.6 + - - +
583B PRO* 3.5 6.2 - - - +
584B GLY* 2.8 22.7 + - - -
585B MET* 3.0 31.2 + - - +
587B VAL* 5.1 0.4 - - - +
598B ILE* 3.0 27.2 + - - +
599B ASN 3.9 1.8 - - - +
601B PHE* 1.3 83.6 - - - +
603B GLU* 1.3 63.1 + - - +
605B SER* 3.7 8.8 + - - -
606B HIS 5.5 0.3 + - - -
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Residues in contact with GLU 603 (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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584B GLY* 4.8 7.4 - - - +
586B ARG* 5.6 4.2 + - - -
599B ASN* 3.1 28.2 + - - +
600B MET* 3.6 14.1 - - - +
601B PHE 3.3 0.2 - - - -
602B ASN* 1.3 77.9 - - - +
604B LEU* 1.3 74.7 + - + +
605B SER 3.8 0.2 - - - -
606B HIS 5.4 0.5 + - - -
88C LYS* 5.8 1.9 + - - -
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Residues in contact with LEU 604 (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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600B MET* 3.4 14.3 + - + +
601B PHE 3.3 3.3 + - - -
603B GLU* 1.3 92.8 - - + +
605B SER* 1.3 58.2 + - - +
606B HIS 3.2 6.1 + - - -
88C LYS* 4.7 7.2 - - - +
96C GLU* 5.7 4.5 - - - +
98C PHE* 3.4 37.9 - - + -
463C ILE* 3.7 14.8 - - + -
464C GLN* 2.9 28.2 + - - +
532C LYS* 4.5 25.5 - - + +
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Residues in contact with SER 605 (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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581B LEU 6.1 0.2 - - - -
582B ARG 4.9 0.3 - - - -
583B PRO* 4.1 2.4 - - - +
601B PHE* 2.8 44.3 + - - -
602B ASN* 3.7 14.4 + - - -
603B GLU 3.8 0.8 - - - -
604B LEU* 1.3 71.6 - - - +
606B HIS* 1.3 93.9 + - - +
463C ILE* 3.6 13.2 - - - +
464C GLN* 4.0 14.8 + - - +
468C LYS* 5.3 4.0 + - - -
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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