Contacts of the helix formed by residues 582 - 600 (chain P) in PDB entry 1HI0
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 SER 582 (chain P).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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572P GLU* 3.0 17.2 + - - -
575P TRP* 4.2 0.9 - - - -
576P TRP* 3.6 10.0 - - - +
581P GLU* 1.3 73.8 - - - +
583P TYR* 1.3 64.3 + - - +
584P ARG* 3.2 10.6 + - - +
585P ALA* 2.9 32.8 + - - +
586P TYR* 3.0 21.0 + - - +
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Residues in contact with TYR 583 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40P TYR* 4.2 4.0 + + - -
525P GLN* 2.7 36.4 + - - +
526P PHE* 3.4 24.3 - + - -
551P TRP* 3.7 13.7 - + - -
568P LEU* 5.8 1.3 - - + -
571P ILE* 3.4 27.4 - - + -
572P GLU* 3.1 13.8 + - - +
575P TRP* 3.5 50.8 - + + -
581P GLU 3.5 4.6 + - - -
582P SER* 1.3 71.9 - - - +
584P ARG* 1.3 65.9 + - - +
586P TYR* 3.0 12.6 + + - +
587P ARG* 2.9 61.8 + - + +
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Residues in contact with ARG 584 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
551P TRP* 4.2 22.6 - - + -
568P LEU* 5.4 8.5 + - - +
569P GLU* 6.1 1.6 - - - +
572P GLU* 2.9 48.4 + - - +
582P SER* 3.5 5.8 + - - +
583P TYR* 1.3 77.9 - - - +
585P ALA* 1.3 57.3 + - - +
587P ARG* 3.3 2.8 + - - +
588P GLU* 2.9 53.9 + - - +
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Residues in contact with ALA 585 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582P SER* 2.9 27.8 + - - +
584P ARG* 1.3 75.7 - - - +
586P TYR* 1.3 65.9 + - - +
588P GLU* 3.1 11.6 + - - +
589P ASP* 2.9 33.9 + - - +
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Residues in contact with TYR 586 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40P TYR* 3.2 32.2 - + - +
41P GLU 4.0 11.7 + - - -
43P LEU* 4.4 9.0 - - + +
575P TRP* 3.9 35.0 - + - +
581P GLU* 5.7 7.4 - - + +
582P SER 3.0 13.6 + - - +
583P TYR* 3.2 14.8 - + - +
585P ALA* 1.3 78.7 - - - +
587P ARG* 1.3 75.5 + - - +
589P ASP* 3.2 8.0 + - + +
590P MET* 3.0 46.5 + - + +
593P ARG* 4.6 9.6 + - - -
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Residues in contact with ARG 587 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40P TYR* 3.3 27.8 + - - -
525P GLN* 4.4 9.7 - - - +
547P PRO 4.0 11.3 + - - -
548P GLY 4.0 5.5 + - - -
550P ALA* 4.8 4.9 - - - +
551P TRP* 3.4 51.2 - - + +
583P TYR* 2.9 61.8 + - + +
584P ARG 3.9 0.2 - - - +
586P TYR* 1.3 85.8 - - - +
588P GLU* 1.3 58.2 + - - +
590P MET* 3.6 27.7 - - - +
591P LEU* 2.8 29.5 + - - +
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Residues in contact with GLU 588 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
551P TRP* 3.6 17.6 + - + +
584P ARG* 2.9 43.8 + - - +
585P ALA* 3.3 11.3 - - - +
587P ARG* 1.3 76.0 - - - +
589P ASP* 1.3 63.2 + - - +
591P LEU* 3.2 10.1 - - + +
592P LYS* 2.9 37.9 + - + +
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Residues in contact with ASP 589 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585P ALA* 2.9 23.2 + - - +
586P TYR* 3.2 9.3 + - + +
588P GLU* 1.3 74.6 - - - +
590P MET* 1.3 69.2 + - - +
592P LYS* 3.0 26.9 + - - +
593P ARG* 2.8 42.2 + - - +
38Q GLU* 5.5 7.9 - - - +
534Q SER* 5.3 1.2 + - - -
535Q GLY* 5.2 5.9 + - - -
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Residues in contact with MET 590 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40P TYR* 3.7 31.6 - - + -
41P GLU* 5.6 1.6 - - - +
547P PRO* 4.3 3.6 - - + -
548P GLY* 3.7 21.3 - - - +
586P TYR* 3.0 49.7 + - + +
587P ARG* 3.6 33.7 - - - +
589P ASP* 1.3 74.9 - - - +
591P LEU* 1.3 57.6 + - - +
593P ARG* 3.3 29.7 + - - +
594P ASP* 2.9 37.0 + - - +
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Residues in contact with LEU 591 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
548P GLY 3.5 21.9 + - - +
549P LEU* 4.2 9.4 - - + -
551P TRP* 3.9 22.4 - - + -
552P ALA* 4.1 19.3 - - + +
587P ARG 2.8 14.7 + - - +
588P GLU* 3.2 15.0 - - + +
590P MET* 1.3 77.0 - - - +
592P LYS* 1.3 58.8 + - + +
594P ASP* 3.7 0.7 - - - +
595P THR* 2.8 50.3 + - - +
611P LEU* 3.8 17.3 - - + -
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Residues in contact with LYS 592 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588P GLU* 2.9 21.5 + - + +
589P ASP* 3.0 25.7 + - - +
591P LEU* 1.3 75.5 - - + +
593P ARG* 1.3 64.6 + - - +
595P THR* 3.1 7.5 + - - -
596P LEU* 3.0 33.2 + - + +
38Q GLU* 5.5 5.2 - - - +
41Q GLU* 5.9 2.2 - - - +
534Q SER* 3.0 51.4 + - - -
535Q GLY* 3.6 7.1 - - - +
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Residues in contact with ARG 593 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41P GLU* 3.3 29.3 + - - +
586P TYR* 4.6 10.7 + - - -
589P ASP* 2.8 29.2 + - - +
590P MET* 3.3 49.0 - - - +
592P LYS* 1.3 72.4 - - - +
594P ASP* 1.3 61.7 + - - +
596P LEU* 3.1 6.4 + - - +
597P GLU* 3.0 27.5 + - - +
38Q GLU* 4.2 14.1 + - - +
42Q GLY* 3.7 37.0 - - - +
44Q LEU* 3.6 38.1 - - + +
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Residues in contact with ASP 594 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41P GLU* 5.4 2.4 - - - +
539P ARG* 2.8 29.3 + - - -
546P PHE* 3.1 20.8 - - + -
547P PRO* 3.1 4.2 - - - +
548P GLY* 2.6 31.2 + - - -
549P LEU* 4.0 15.9 - - + -
590P MET* 2.9 23.1 + - - +
591P LEU 3.9 2.0 - - - +
593P ARG* 1.3 74.8 - - - +
595P THR* 1.3 61.9 + - - +
597P GLU* 3.6 4.9 - - - +
598P LEU* 2.8 32.1 + - - +
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Residues in contact with THR 595 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
549P LEU* 4.0 7.0 - - - +
591P LEU* 2.8 46.3 + - - +
592P LYS* 3.6 7.1 - - - -
594P ASP* 1.3 73.8 - - - +
596P LEU* 1.3 67.9 + - + +
598P LEU* 3.4 10.1 + - + +
599P SER* 3.5 12.1 + - - -
605P MET* 5.1 2.6 - - + +
608P GLN 6.4 0.4 - - - -
609P ALA 4.7 5.0 - - - +
610P GLY* 4.6 9.2 - - - -
611P LEU* 3.5 38.4 - - + +
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Residues in contact with LEU 596 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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592P LYS* 3.0 15.9 + - + +
593P ARG 3.4 6.1 - - - +
595P THR* 1.3 81.2 - - + +
597P GLU* 1.3 61.2 + - - +
599P SER* 2.5 28.3 + - - +
600P ARG* 3.8 4.2 + - - +
608P GLN* 3.7 39.0 - - + +
41Q GLU* 3.6 24.9 - - + +
42Q GLY* 3.4 36.1 - - - +
593Q ARG* 6.1 0.4 - - - +
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Residues in contact with GLU 597 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
539P ARG* 3.5 37.1 + - - +
546P PHE* 4.1 3.8 - - + -
593P ARG 3.0 13.7 + - - +
594P ASP* 3.6 11.7 - - - +
596P LEU* 1.3 76.4 - - - +
598P LEU* 1.3 57.4 + - - +
600P ARG* 2.8 54.0 + - - +
601P TYR* 3.4 11.4 + - + -
42Q GLY 4.2 13.3 - - - +
43Q LEU* 6.1 0.5 - - - +
47Q ASP* 4.7 1.0 - - - +
49Q ARG* 2.6 44.8 + - - -
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Residues in contact with LEU 598 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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546P PHE* 3.4 42.3 - - + -
549P LEU* 4.0 9.6 - - + -
594P ASP 2.8 20.8 + - - +
595P THR* 3.6 5.6 - - - +
596P LEU 3.2 0.2 - - - -
597P GLU* 1.3 72.3 - - - +
599P SER* 1.3 54.2 + - - +
601P TYR* 2.6 29.9 + - + +
602P VAL* 3.1 27.1 + - + -
605P MET* 3.6 12.3 - - + -
611P LEU* 4.4 6.5 - - + -
614P LEU* 3.6 32.1 - - + -
622P LEU* 3.8 20.6 - - + -
644P VAL* 5.4 1.3 - - + -
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Residues in contact with SER 599 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595P THR 3.5 6.9 + - - -
596P LEU* 2.5 25.3 + - - +
598P LEU* 1.3 77.9 - - - +
600P ARG* 1.3 59.6 + - - +
601P TYR 3.0 0.2 - - - -
602P VAL 2.9 20.8 - - - +
605P MET* 4.0 23.4 - - - +
606P ALA 3.6 23.6 - - - -
607P ARG* 3.9 18.6 + - - +
608P GLN* 4.0 8.4 + - - -
609P ALA 5.0 0.9 - - - -
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Residues in contact with ARG 600 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596P LEU 4.8 2.6 + - - +
597P GLU* 2.8 56.7 + - - +
599P SER* 1.3 81.4 + - - +
601P TYR* 1.3 71.6 + - + +
607P ARG* 6.5 0.7 - - - -
49Q ARG* 3.3 20.8 - - - +
575Q TRP* 5.6 4.8 - - - +
579Q PHE* 3.9 29.4 + - - +
581Q GLU* 3.5 42.0 + - - +
586Q TYR* 5.8 6.9 - - - -
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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) + - + + + + + -
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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