Contacts of the helix formed by residues 574 - 591 (chain A) in PDB entry 2X7G
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 THR 574 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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216A HIS* 3.4 64.9 + - + +
221A ILE 4.4 0.7 - - - +
222A ILE* 3.9 10.7 - - + +
548A VAL* 3.8 26.5 - - + -
573A SER* 1.3 78.9 + - - +
575A PRO* 1.3 74.4 - - - +
576A ALA 3.1 0.2 - - - -
577A ASP* 3.1 12.2 + - - +
578A ILE* 3.8 3.2 + - - +
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Residues in contact with PRO 575 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
565A GLU* 4.5 0.9 - - - +
573A SER* 3.1 16.4 - - - +
574A THR* 1.3 99.6 - - - +
576A ALA* 1.3 57.7 + - - +
578A ILE* 3.1 18.7 + - + +
579A TRP 3.2 4.7 + - - -
682A PRO* 3.8 34.8 - - + +
683A GLU* 5.6 0.9 - - - -
685A ARG* 2.8 39.4 + - + +
686A ALA 5.7 0.7 - - - +
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Residues in contact with ALA 576 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A ILE* 5.2 2.2 - - + -
224A THR* 6.0 0.4 - - - -
556A ILE* 4.4 7.9 - - + -
557A GLN* 3.0 34.7 + - - +
563A SER* 3.8 11.7 - - - +
565A GLU* 3.7 13.2 + - - +
572A TYR* 4.2 14.1 - - + -
573A SER 3.2 13.0 + - - +
574A THR 3.1 0.8 - - - -
575A PRO* 1.3 79.4 - - - +
577A ASP* 1.3 63.2 + - - +
579A TRP* 3.4 2.3 + - - +
580A SER* 3.2 13.7 + - - -
685A ARG* 4.0 1.6 - - - +
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Residues in contact with ASP 577 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A LEU* 4.0 12.1 - - + +
216A HIS* 2.7 35.9 + - + +
222A ILE* 3.7 9.5 - - - +
223A HIS* 2.9 30.3 + - - +
224A THR* 2.9 30.3 + - - -
226A ILE* 4.1 8.0 - - + +
557A GLN* 5.4 0.3 + - - -
574A THR 3.1 3.5 + - - +
576A ALA* 1.3 78.5 - - - +
578A ILE* 1.3 54.8 + - - +
580A SER* 3.7 7.4 + - - -
581A THR* 2.7 37.0 + - - -
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Residues in contact with ILE 578 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A LEU* 4.0 21.1 - - + -
212A LEU* 4.5 3.6 - - + -
216A HIS* 4.2 12.8 - - + +
574A THR 4.0 11.7 - - - +
575A PRO* 3.1 11.6 + - + +
577A ASP* 1.3 77.6 - - - +
579A TRP* 1.3 65.5 + - - +
581A THR* 3.2 4.9 + - - -
582A ALA* 3.0 22.3 + - - +
677A MET* 3.8 36.2 - - + +
685A ARG* 4.1 4.5 - - - -
686A ALA 3.4 25.6 - - - +
687A SER* 4.3 1.1 - - - -
688A ALA* 3.9 27.4 - - + +
691A CYS* 4.4 1.8 - - - -
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Residues in contact with TRP 579 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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561A TYR 3.7 11.0 - - - -
562A ARG 3.4 12.7 + - - -
563A SER* 3.5 26.7 - - - -
564A ILE* 3.9 24.0 - - + -
575A PRO 3.2 3.4 + - - -
576A ALA 3.7 7.9 - - - +
578A ILE* 1.3 77.8 - - - +
580A SER* 1.3 65.5 + - - +
582A ALA* 3.1 6.8 + - - +
583A CYS* 3.0 35.5 + - - -
595A PHE* 3.8 16.8 - + - -
613A ILE* 3.8 32.3 - - + -
617A LEU* 4.0 18.8 - - + -
677A MET 3.6 11.1 + - - -
678A LEU* 3.4 42.4 - - + -
679A GLU 4.2 2.0 - - - -
680A MET* 4.5 1.8 - - + -
685A ARG* 3.8 23.8 - - - +
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Residues in contact with SER 580 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224A THR 5.6 0.3 - - - -
226A ILE* 3.6 31.4 + - - +
557A GLN* 2.8 22.3 + - - +
561A TYR* 2.7 31.9 + - - +
576A ALA 3.2 2.3 + - - -
577A ASP* 3.7 10.4 + - - -
579A TRP* 1.3 79.1 - - - +
581A THR* 1.3 55.9 + - - +
583A CYS* 3.2 8.1 + - - +
584A MET* 2.8 29.7 + - - +
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Residues in contact with THR 581 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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205A ILE* 4.1 27.3 - - + +
208A VAL* 4.4 7.4 - - + -
209A LEU* 4.3 10.3 - - + -
212A LEU* 3.2 19.3 - - - +
226A ILE* 3.8 12.4 - - - +
577A ASP 2.7 22.7 + - - -
578A ILE* 3.2 7.1 + - - -
580A SER* 1.3 73.3 - - - +
582A ALA* 1.3 59.8 - - - +
584A MET* 3.2 10.2 + - + +
585A ALA* 2.8 28.6 + - - +
677A MET* 3.9 16.4 - - + -
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Residues in contact with ALA 582 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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578A ILE 3.0 6.4 + - - +
579A TRP 3.4 8.5 - - - +
581A THR* 1.3 76.5 - - - +
583A CYS* 1.3 63.3 + - - +
585A ALA* 3.3 1.1 + - - -
586A PHE* 3.2 21.8 + - - +
594A LEU* 4.8 3.3 - - - +
674A LEU* 3.7 24.8 - - + +
677A MET* 3.7 32.2 - - + +
678A LEU* 3.8 20.6 - - + -
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Residues in contact with CYS 583 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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560A GLN 3.8 16.8 - - - +
561A TYR* 3.9 19.8 - - + -
579A TRP* 3.0 41.3 + - - -
580A SER* 3.4 9.0 - - - +
582A ALA* 1.3 77.5 - - - +
584A MET* 1.3 60.9 + - - +
586A PHE* 3.6 2.9 + - - +
587A GLU* 3.3 22.0 + - - +
594A LEU* 4.4 21.4 + - + +
595A PHE* 3.9 20.0 - - - -
678A LEU* 4.4 2.7 - - - +
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Residues in contact with MET 584 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A LEU* 5.3 0.4 - - - -
204A ILE* 5.7 0.2 - - + -
205A ILE* 3.7 23.3 - - + -
208A VAL* 4.1 21.8 - - + -
226A ILE* 3.7 20.9 - - + -
227A LYS* 3.6 11.4 - - - -
228A PRO* 3.5 43.5 - - + -
231A ILE* 3.9 10.8 - - + -
561A TYR* 4.3 9.1 - - + -
580A SER 2.8 18.3 + - - +
581A THR* 3.2 4.5 + - + +
583A CYS* 1.3 71.8 - - - +
585A ALA* 1.3 60.1 + - - +
587A GLU* 3.3 4.4 + - - +
588A LEU* 2.8 41.1 + - + +
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Residues in contact with ALA 585 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A VAL* 3.9 3.5 - - + +
205A ILE* 3.7 32.5 - - + -
581A THR 2.8 17.8 + - - +
582A ALA* 3.3 5.4 + - - +
584A MET* 1.3 76.6 - - - +
586A PHE* 1.3 62.0 + - - +
588A LEU* 3.3 5.2 + - - +
589A ALA* 3.1 24.6 + - - +
670A PHE* 3.6 12.8 - - + -
673A PHE* 5.1 3.1 - - + -
674A LEU* 4.2 15.0 - - + -
677A MET* 6.0 0.2 - - + -
696A TRP* 5.5 0.2 - - + -
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Residues in contact with PHE 586 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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582A ALA 3.2 12.2 + - - +
583A CYS 3.7 7.4 - - - +
585A ALA* 1.3 76.5 - - - +
587A GLU* 1.3 54.0 + - - +
589A ALA* 3.1 1.6 + - - +
590A THR* 2.8 52.0 + - + +
592A ASP 3.5 15.0 - - - -
593A TYR 4.0 3.4 - - - -
594A LEU* 3.6 50.5 - - + -
652A LEU* 3.9 20.6 - - + -
655A VAL* 3.9 21.5 - - + -
656A LEU* 4.1 21.5 - - + -
660A TYR* 4.1 16.6 - + - -
670A PHE* 4.1 9.8 - + - -
674A LEU* 4.6 11.0 - - + +
1711A EDO 4.0 5.2 - - - -
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Residues in contact with GLU 587 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185A LEU* 4.4 11.6 - - - +
188A ILE* 4.0 19.2 - - + +
228A PRO* 3.8 14.6 - - + +
561A TYR* 2.6 38.5 + - - -
583A CYS 3.3 8.7 + - - +
584A MET 3.3 8.0 + - - +
586A PHE* 1.3 79.1 - - - +
588A LEU* 1.3 60.2 + - - +
590A THR* 3.9 0.4 - - - -
591A GLY* 2.8 34.2 + - - +
592A ASP 3.1 25.6 - - - +
593A TYR* 3.7 22.2 - - - +
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Residues in contact with LEU 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184A LEU* 4.2 22.4 - - + +
188A ILE* 3.6 28.9 - - + -
195A GLY* 3.3 4.2 - - - -
196A LEU* 2.8 49.6 + - + +
201A VAL* 3.9 14.1 - - + -
204A ILE* 3.7 33.0 - - + -
205A ILE* 4.1 14.8 - - + -
228A PRO* 4.5 3.8 - - + -
584A MET* 2.8 38.6 + - + +
585A ALA 3.8 4.5 - - - +
586A PHE 3.3 0.4 - - - -
587A GLU* 1.3 74.3 - - - +
589A ALA* 1.3 51.3 - - - +
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Residues in contact with ALA 589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194A GLN 3.9 6.9 - - - +
195A GLY* 4.3 2.7 - - - -
196A LEU 4.2 8.7 - - - +
198A VAL* 5.0 5.6 - - + +
201A VAL* 4.0 15.0 - - + -
585A ALA 3.1 16.6 + - - +
586A PHE 3.6 4.3 - - - +
587A GLU 3.1 0.4 - - - -
588A LEU* 1.3 80.2 - - - +
590A THR* 1.3 59.7 + - + +
662A TRP* 4.1 22.2 + - + -
670A PHE* 3.7 23.8 - - + -
696A TRP* 6.3 0.2 - - + -
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Residues in contact with THR 590 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193A TYR 3.4 10.2 - - - +
194A GLN* 3.4 16.5 - - - +
586A PHE* 2.8 39.1 + - + +
589A ALA* 1.3 82.3 - - + +
591A GLY* 1.3 60.3 + - - +
592A ASP* 3.2 20.6 + - - +
656A LEU* 4.3 11.0 - - + -
660A TYR* 3.8 50.3 - - + -
662A TRP* 4.6 4.5 - - + +
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Residues in contact with GLY 591 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188A ILE* 3.9 17.3 - - - +
193A TYR* 3.3 35.0 - - - +
195A GLY* 3.8 9.6 - - - -
587A GLU* 2.8 22.2 + - - +
590A THR* 1.3 76.9 - - - +
592A ASP* 1.3 60.5 + - - +
593A TYR 4.4 0.2 + - - -
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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
------------------------------------------------------------
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