Contacts of the helix formed by residues 582 - 600 (chain Q) 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 Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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572Q GLU* 3.0 18.3 + - - -
575Q TRP* 4.2 0.9 - - - -
576Q TRP* 3.6 9.4 - - - +
581Q GLU* 1.3 73.9 - - - +
583Q TYR* 1.3 63.2 + - - +
584Q ARG* 3.2 10.0 + - - +
585Q ALA* 2.9 33.0 + - - +
586Q TYR* 3.0 20.4 + - - +
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Residues in contact with TYR 583 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40Q TYR* 4.2 3.8 + + - -
525Q GLN* 2.7 37.2 + - - +
526Q PHE* 3.4 23.7 - + - -
551Q TRP* 3.7 12.8 - + - -
568Q LEU* 5.8 1.1 - - + -
571Q ILE* 3.4 26.5 - - + -
572Q GLU* 3.1 13.8 + - - +
575Q TRP* 3.5 50.4 - + + +
581Q GLU 3.5 5.1 + - - -
582Q SER* 1.3 72.1 - - - +
584Q ARG* 1.3 64.5 + - - +
586Q TYR* 3.0 12.3 + + - +
587Q ARG* 2.9 62.1 + - + +
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Residues in contact with ARG 584 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
551Q TRP* 4.2 21.6 - - + -
568Q LEU* 5.4 7.9 + - - +
569Q GLU* 6.1 1.8 - - - +
572Q GLU* 2.9 48.1 + - - +
582Q SER* 3.5 6.1 + - - +
583Q TYR* 1.3 78.8 - - - +
585Q ALA* 1.3 57.3 + - - +
587Q ARG* 3.3 2.8 + - - +
588Q GLU* 2.9 53.3 + - - +
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Residues in contact with ALA 585 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607P ARG* 5.4 7.9 - - - +
582Q SER* 2.9 28.8 + - - +
584Q ARG* 1.3 75.3 - - - +
586Q TYR* 1.3 66.4 + - - +
588Q GLU* 3.1 12.2 + - - +
589Q ASP* 2.9 33.7 + - - +
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Residues in contact with TYR 586 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600P ARG* 5.8 6.3 - - - -
40Q TYR* 3.2 32.1 - + - +
41Q GLU 4.0 11.9 + - - -
43Q LEU* 4.4 8.6 - - + +
575Q TRP* 3.9 37.2 - + - +
581Q GLU* 5.7 7.2 - - + +
582Q SER 3.0 13.2 + - - +
583Q TYR* 3.2 12.6 - + - +
585Q ALA* 1.3 78.5 - - - +
587Q ARG* 1.3 76.7 + - - +
589Q ASP* 3.2 8.6 + - + +
590Q MET* 3.0 47.0 + - + +
593Q ARG* 4.6 9.8 + - - -
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Residues in contact with ARG 587 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40Q TYR* 3.3 28.9 + - - -
525Q GLN* 4.4 10.1 - - - +
547Q PRO 4.0 11.5 + - - -
548Q GLY 4.0 5.7 + - - -
550Q ALA* 4.8 4.9 - - - +
551Q TRP* 3.4 51.8 - - + +
583Q TYR* 2.9 62.8 + - + +
584Q ARG 3.9 0.2 - - - +
586Q TYR* 1.3 86.3 - - - +
588Q GLU* 1.3 58.0 + - - +
590Q MET* 3.4 27.1 + - - +
591Q LEU* 2.8 29.1 + - - +
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Residues in contact with GLU 588 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
551Q TRP* 3.6 17.9 + - + +
584Q ARG* 2.9 44.8 + - - +
585Q ALA* 3.1 10.9 + - - +
587Q ARG* 1.3 75.3 - - - +
589Q ASP* 1.3 63.3 + - - +
591Q LEU* 3.2 10.5 - - + +
592Q LYS* 2.9 37.2 + - + +
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Residues in contact with ASP 589 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607P ARG* 4.0 37.0 + - - +
608P GLN* 4.8 1.8 - - - +
585Q ALA* 2.9 22.3 + - - +
586Q TYR* 3.6 8.8 - - + +
588Q GLU* 1.3 74.6 - - - +
590Q MET* 1.3 68.7 + - - +
592Q LYS* 3.0 27.5 + - - +
593Q ARG* 2.8 42.7 + - - +
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Residues in contact with MET 590 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40Q TYR* 3.7 32.1 - - + -
41Q GLU* 5.6 2.5 - - - +
547Q PRO* 4.3 3.6 - - + -
548Q GLY* 3.7 20.4 - - - +
586Q TYR* 3.0 49.5 + - + +
587Q ARG* 3.6 33.0 - - - +
589Q ASP* 1.3 75.6 - - - +
591Q LEU* 1.3 57.1 + - - +
593Q ARG* 3.3 29.7 - - - +
594Q ASP* 2.9 37.8 + - - +
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Residues in contact with LEU 591 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
548Q GLY 3.5 22.6 + - - +
549Q LEU* 4.2 9.4 - - + -
551Q TRP* 3.9 22.0 - - + -
552Q ALA* 4.1 17.7 - - + +
587Q ARG 2.8 15.5 + - - +
588Q GLU* 3.2 15.0 - - + +
590Q MET* 1.3 76.9 - - - +
592Q LYS* 1.3 58.4 + - + +
594Q ASP* 3.7 0.9 - - - +
595Q THR* 2.8 49.9 + - - +
611Q LEU* 3.8 17.0 - - + -
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Residues in contact with LYS 592 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607P ARG* 5.6 4.9 - - - +
588Q GLU* 2.9 20.6 + - + +
589Q ASP* 3.0 28.3 + - - +
591Q LEU* 1.3 75.0 - - + +
593Q ARG* 1.3 65.4 + - + +
595Q THR* 3.1 7.7 + - - -
596Q LEU* 3.0 32.7 + - + +
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Residues in contact with ARG 593 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596P LEU* 6.1 0.6 - - - +
608P GLN* 2.1 56.0 + - - +
41Q GLU* 3.3 32.5 + - - +
586Q TYR* 4.6 10.1 + - - -
589Q ASP* 2.8 26.6 + - - +
590Q MET* 3.3 48.8 - - - +
592Q LYS* 1.3 72.0 - - - +
594Q ASP* 1.3 61.8 + - - +
596Q LEU* 3.1 13.0 + - - +
597Q GLU* 3.0 27.0 + - - +
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Residues in contact with ASP 594 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41Q GLU* 5.4 2.6 - - - +
539Q ARG* 2.8 29.2 + - - -
546Q PHE* 3.1 21.3 - - + -
547Q PRO* 3.1 4.7 - - - +
548Q GLY* 2.6 30.5 + - - -
549Q LEU* 4.0 15.7 - - + -
590Q MET* 2.9 24.0 + - - +
591Q LEU 3.9 2.0 - - - +
593Q ARG* 1.3 73.4 - - - +
595Q THR* 1.3 61.0 + - - +
597Q GLU* 3.6 4.4 - - - +
598Q LEU* 2.8 31.9 + - - +
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Residues in contact with THR 595 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
549Q LEU* 4.0 7.2 - - - +
591Q LEU* 2.8 45.4 + - - +
592Q LYS* 3.1 7.3 + - - -
594Q ASP* 1.3 73.5 - - - +
596Q LEU* 1.3 67.9 + - + +
598Q LEU* 3.4 10.6 + - + +
599Q SER* 3.5 11.3 + - - -
605Q MET* 5.1 2.6 - - + +
608Q GLN 6.1 0.4 - - - +
609Q ALA 4.7 4.6 - - - +
610Q GLY* 4.6 10.3 - - - -
611Q LEU* 3.5 38.3 - - + +
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Residues in contact with LEU 596 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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592Q LYS* 3.0 20.6 + - + +
593Q ARG* 3.4 9.6 - - - +
595Q THR* 1.3 80.0 - - + +
597Q GLU* 1.3 61.7 + - - +
599Q SER* 2.5 27.3 + - - -
600Q ARG* 3.8 4.4 + - - +
608Q GLN* 3.7 40.2 - - + +
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Residues in contact with GLU 597 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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539Q ARG* 3.5 42.3 + - - +
546Q PHE* 4.1 4.0 - - + -
593Q ARG 3.0 13.7 + - - +
594Q ASP* 3.6 10.5 - - - +
596Q LEU* 1.3 77.1 - - - +
598Q LEU* 1.3 57.7 + - - +
600Q ARG* 2.8 69.7 + - - +
601Q TYR* 3.4 11.9 + - + -
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Residues in contact with LEU 598 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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546Q PHE* 3.4 43.0 - - + -
549Q LEU* 4.0 9.6 - - + -
594Q ASP 2.8 22.0 + - - +
595Q THR 3.6 5.4 - - - +
596Q LEU 3.2 0.2 - - - -
597Q GLU* 1.3 73.3 - - - +
599Q SER* 1.3 53.3 + - - +
601Q TYR* 2.6 30.6 + - + +
602Q VAL* 3.1 27.2 + - + -
605Q MET* 3.6 11.7 - - + -
611Q LEU* 4.4 7.2 - - + -
614Q LEU* 3.6 31.4 - - + -
622Q LEU* 3.8 20.0 - - + -
644Q VAL* 5.4 1.3 - - + -
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Residues in contact with SER 599 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595Q THR 3.5 6.9 + - - -
596Q LEU* 2.5 24.6 + - - +
598Q LEU* 1.3 77.4 - - - +
600Q ARG* 1.3 60.1 + - - +
601Q TYR 3.0 0.2 - - - -
602Q VAL 2.9 21.4 - - - +
605Q MET* 4.0 22.9 - - - +
606Q ALA 3.6 24.2 - - - -
607Q ARG* 3.9 18.1 + - - +
608Q GLN* 4.0 8.6 + - - -
609Q ALA 5.0 0.7 - - - -
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Residues in contact with ARG 600 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596Q LEU 4.8 2.4 + - - +
597Q GLU* 2.8 59.7 + - - +
599Q SER* 1.3 80.4 + - - +
601Q TYR* 1.3 70.8 + - + +
607Q ARG* 6.5 0.7 - - - -
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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