Contacts of the strand formed by residues 530 - 546 (chain C) in PDB entry 1HWL
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 VAL 530 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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492C VAL* 3.6 12.9 - - + +
495C ARG* 3.0 33.9 + - - +
519C TYR* 3.5 33.4 - - + -
522C VAL* 4.2 6.1 - - + -
523C MET* 4.1 22.7 - - + -
527C CYS* 4.0 33.0 - - + -
528C GLU 4.0 7.4 - - - +
529C ASN* 1.3 75.0 - - - +
531C ILE* 1.3 61.8 + - - +
532C GLY 3.6 16.2 - - - +
537D PRO* 5.3 1.3 - - + -
538D VAL 3.4 7.2 - - - +
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Residues in contact with ILE 531 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
492C VAL* 3.9 11.0 - - - -
495C ARG* 4.0 18.2 - - + -
496C ARG* 2.9 42.3 + - + +
499C LEU* 4.1 15.3 - - + -
509C LEU* 4.4 2.7 - - + -
512C LEU* 3.6 21.7 - - + +
529C ASN 3.7 4.3 - - - +
530C VAL* 1.3 77.2 - - - +
532C GLY* 1.3 57.2 + - - +
538D VAL* 2.9 30.8 + - + +
540D VAL* 3.3 36.1 - - + -
820D MET* 4.1 19.7 - - + -
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Residues in contact with GLY 532 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
492C VAL* 4.1 0.8 - - - +
496C ARG* 4.6 0.2 - - - -
512C LEU* 4.6 2.5 - - - -
513C PRO 3.3 13.0 - - - -
514C TYR* 3.7 2.5 - - - -
519C TYR* 3.6 19.3 - - - -
530C VAL* 3.6 14.1 - - - +
531C ILE* 1.3 81.9 - - - +
533C TYR* 1.3 62.0 + - - +
537D PRO* 3.8 1.9 - - - +
538D VAL* 2.9 23.7 + - - -
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Residues in contact with TYR 533 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
512C LEU* 3.6 9.3 - - - +
513C PRO* 3.1 55.2 + - + +
514C TYR* 3.7 22.0 - - - -
515C ARG 3.9 12.8 + - - -
517C TYR* 3.8 39.5 - + + -
519C TYR* 4.0 1.6 - - - -
532C GLY* 1.3 74.4 - - - +
534C MET* 1.3 59.1 + - - +
535C PRO* 3.6 14.9 - - + +
533D TYR* 4.1 25.5 + + - -
535D PRO* 3.6 24.0 - - + -
536D ILE 3.3 16.6 - - - +
537D PRO* 4.4 2.7 - - + -
538D VAL* 3.9 5.6 - - - +
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Residues in contact with MET 534 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
512C LEU* 3.7 10.8 - - + -
533C TYR* 1.3 71.8 - - - +
535C PRO* 1.3 61.5 - - - +
536C ILE* 3.5 7.6 + - + +
534D MET 3.2 5.2 - - - +
535D PRO* 4.3 1.1 - - - -
536D ILE* 2.8 43.2 + - + +
538D VAL* 3.7 12.3 - - + +
556D ALA* 4.6 4.5 - - + -
762D ILE 3.6 19.5 - - - +
763D ALA* 3.2 23.1 - - - +
813D PRO* 3.5 25.6 - - - +
814D GLN* 3.3 40.2 - - - +
817D CYS* 3.6 14.8 - - - -
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Residues in contact with PRO 535 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513C PRO* 3.8 18.6 - - + -
533C TYR* 3.6 17.5 - - + +
534C MET* 1.3 82.1 - - - +
536C ILE* 1.3 66.6 + - - +
537C PRO* 3.9 5.1 - - - +
517D TYR* 3.7 30.9 + - + -
533D TYR* 3.6 25.1 - - + -
534D MET 3.6 4.9 - - - +
535D PRO* 4.4 0.7 - - + -
811D LEU* 5.2 0.2 - - - +
813D PRO* 3.7 24.2 - - + -
814D GLN* 3.8 13.5 + - - +
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Residues in contact with ILE 536 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534C MET* 3.8 20.6 - - + -
535C PRO* 1.3 79.7 - - - +
537C PRO* 1.3 73.4 - - + +
538C VAL* 3.7 1.7 - - - +
556C ALA* 3.8 16.6 - - + +
557C THR* 3.6 28.7 - - - +
558C THR* 4.5 7.2 - - + -
762C ILE* 4.2 12.8 - - + -
533D TYR* 3.2 2.0 - - - -
534D MET* 2.7 42.8 + - + +
536D ILE* 3.9 17.0 - - + -
762D ILE* 4.1 16.8 - - + +
814D GLN* 4.2 8.7 - - - +
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Residues in contact with PRO 537 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
535C PRO 3.9 6.3 - - - +
536C ILE* 1.3 86.1 - - + +
538C VAL* 1.3 58.7 + - - +
539C GLY 4.1 0.7 - - - -
555C MET 3.6 0.5 - - - +
556C ALA* 3.2 2.4 - - - -
557C THR 3.0 47.2 + - - +
558C THR* 3.9 11.9 - - + -
517D TYR* 4.2 8.5 - - + +
519D TYR* 6.2 0.7 - - + -
522D VAL* 3.7 32.5 - - + -
526D CYS* 5.0 1.8 - - + -
527D CYS* 3.8 18.6 - - + -
530D VAL* 5.1 3.1 - - + -
532D GLY 3.8 8.3 - - - +
533D TYR* 4.3 3.1 - - + -
811D LEU* 4.3 7.2 - - + -
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Residues in contact with VAL 538 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536C ILE 3.7 3.1 - - - +
537C PRO* 1.3 71.7 - - - +
539C GLY* 1.3 69.4 + - - +
554C PRO* 4.2 10.3 - - + -
555C MET 3.5 13.0 - - - +
556C ALA* 4.3 8.1 - - + -
763C ALA* 4.9 1.6 - - + -
817C CYS* 4.4 5.8 - - - -
512D LEU* 4.5 4.0 - - + -
527D CYS* 4.1 2.2 - - - -
530D VAL* 3.4 3.6 - - - -
531D ILE* 2.9 47.1 + - + -
532D GLY 2.9 16.8 + - - +
533D TYR 3.9 3.1 - - - -
534D MET* 3.6 44.4 - - + +
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Residues in contact with GLY 539 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
538C VAL* 1.3 74.8 - - - +
540C VAL* 1.3 64.8 + - - +
554C PRO* 3.5 4.7 - - - +
555C MET 2.8 35.1 + - - -
563C VAL* 4.2 6.5 - - - -
527D CYS* 3.7 8.6 - - - -
528D GLU 3.3 21.5 - - - -
529D ASN 3.3 4.5 - - - -
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Residues in contact with VAL 540 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
539C GLY* 1.3 74.7 - - - +
541C ALA* 1.3 69.1 + - - +
542C GLY 4.2 0.4 + - - -
552C GLN* 3.9 28.7 - - + +
553C VAL 3.4 15.3 - - - +
554C PRO* 4.8 0.4 - - + -
563C VAL* 3.5 7.2 - - - +
567C ASN* 4.1 1.6 - - - +
820C MET* 4.7 4.7 - - - -
499D LEU* 4.0 13.2 - - + -
529D ASN* 3.1 39.5 + - + +
531D ILE* 3.3 47.6 - - + -
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Residues in contact with ALA 541 (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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540C VAL* 1.3 77.4 - - - +
542C GLY* 1.3 57.7 + - - +
553C VAL* 2.8 42.2 + - + +
555C MET* 3.9 25.5 - - - -
563C VAL* 4.3 3.4 - - + +
566C THR* 4.0 18.4 - - + -
567C ASN* 3.4 17.7 - - - +
570C CYS* 4.4 5.8 - - - -
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Residues in contact with GLY 542 (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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540C VAL* 4.3 0.4 + - - +
541C ALA* 1.3 76.5 - - - +
543C PRO* 1.3 79.4 - - - +
544C LEU 3.7 1.1 - - - -
551C PHE 3.9 2.0 - - - -
552C GLN* 4.0 10.1 + - - +
567C ASN* 2.7 24.2 + - - +
570C CYS* 4.2 9.8 - - - -
502D LYS* 6.0 0.2 + - - -
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Residues in contact with PRO 543 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542C GLY* 1.3 84.0 - - - +
544C LEU* 1.3 61.1 + - - +
545C CYS* 3.7 11.3 + - - -
550C GLU* 3.6 34.8 - - + +
551C PHE 3.3 7.9 - - - +
552C GLN* 3.5 21.1 - - - +
570C CYS* 3.6 17.5 - - - +
571C ARG* 5.6 0.2 - - - -
574C GLY* 5.7 0.2 - - - -
502D LYS* 5.9 5.8 - - + +
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Residues in contact with LEU 544 (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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542C GLY* 3.7 0.2 - - - -
543C PRO* 1.3 71.4 - - - +
545C CYS* 1.3 65.2 + - - +
546C LEU* 3.3 24.2 + - + -
549C LYS 3.4 0.2 - - - +
550C GLU* 3.3 2.9 - - - -
551C PHE* 2.8 45.3 + - + +
553C VAL* 4.3 12.8 - - + -
570C CYS* 3.9 24.0 - - + -
573C ILE* 4.4 17.0 - - + -
579C ALA* 5.8 1.8 - - + -
841C ILE* 3.9 9.6 - - + +
844C GLY* 3.9 21.3 - - - +
845C THR* 3.5 33.2 - - - +
848C ALA* 4.5 0.7 - - + -
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Residues in contact with CYS 545 (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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543C PRO* 3.7 12.7 + - - -
544C LEU* 1.3 73.2 - - - +
546C LEU* 1.3 58.8 + - - +
548C GLU* 5.2 1.6 - - - -
549C LYS 3.3 8.1 - - - +
550C GLU* 4.1 22.0 - - + -
570C CYS 5.3 0.8 + - - -
573C ILE* 4.0 5.5 - - + +
574C GLY* 3.8 25.6 - - - +
577C GLY 5.4 0.2 - - - -
578C GLY* 3.4 18.7 - - - +
579C ALA* 2.8 29.0 + - - +
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Residues in contact with LEU 546 (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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544C LEU* 3.3 17.6 + - + +
545C CYS* 1.3 74.9 - - - +
547C ASP* 1.3 90.6 + - - +
548C GLU 3.2 1.1 - - - -
549C LYS* 3.0 26.0 + - - +
551C PHE* 3.9 23.2 - - + -
579C ALA* 3.4 20.9 - - + +
581C SER* 3.8 16.8 - - - +
708C CYS* 4.0 13.2 - - - -
837C GLN* 4.8 1.6 - - - +
840C ARG* 3.5 34.1 - - + +
841C ILE* 3.9 10.5 - - + -
844C GLY* 4.6 2.9 - - - -
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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