Contacts of the helix formed by residues 450 - 468 (chain B) in PDB entry 3C6G
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 GLY 450 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B PHE* 5.3 2.9 - - - -
149B TYR* 6.5 0.4 - - - -
448B CYS* 3.2 10.5 - - - -
449B LEU* 1.3 79.7 - - - +
451B GLU* 1.3 58.3 + - - +
452B HIS 3.4 2.5 - - - -
453B LEU* 3.4 8.9 + - - +
454B ALA* 2.9 32.6 + - - +
601B HEM 3.8 30.4 - - - +
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Residues in contact with GLU 451 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441B PHE* 3.5 47.2 - - + +
442B SER 5.6 0.5 - - - +
447B HIS* 4.7 10.3 - - + +
448B CYS* 3.7 14.3 - - - +
449B LEU 3.4 3.6 + - - -
450B GLY* 1.3 78.5 - - - +
452B HIS* 1.3 64.8 + - - +
454B ALA* 3.3 1.7 + - - +
455B ARG* 2.7 60.1 + - - +
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Residues in contact with HIS 452 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B TYR* 3.7 47.4 - + + +
352B TRP* 3.8 34.7 + + - -
449B LEU 5.3 0.2 + - - -
450B GLY 3.4 0.6 - - - -
451B GLU* 1.3 78.1 - - - +
453B LEU* 1.3 63.3 + - - +
455B ARG* 3.2 10.9 + - - +
456B MET* 3.0 40.0 + - - +
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Residues in contact with LEU 453 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B PHE* 3.7 31.9 - - + -
149B TYR* 4.3 21.3 - - + -
154B PHE* 3.7 30.5 - - + -
158B ILE* 4.8 3.6 - - + -
190B ILE* 3.9 19.3 - - + +
191B THR* 4.8 6.1 - - - +
194B ILE* 3.9 11.7 - - + -
450B GLY* 3.4 10.2 + - - +
451B GLU 3.3 0.2 - - - -
452B HIS* 1.3 79.2 - - - +
454B ALA* 1.3 57.2 + - - +
456B MET* 3.3 6.1 + - + +
457B GLU* 2.9 43.0 + - + +
601B HEM 4.5 9.4 - - + -
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Residues in contact with ALA 454 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315B THR* 4.3 5.0 - - - +
441B PHE* 3.9 9.2 - - + -
450B GLY 2.9 19.5 + - - +
451B GLU 3.5 4.3 - - - +
453B LEU* 1.3 77.8 - - - +
455B ARG* 1.3 57.3 + - - +
457B GLU* 3.4 12.4 + - - +
458B MET* 2.9 35.9 + - - +
601B HEM 3.7 39.2 - - + +
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Residues in contact with ARG 455 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352B TRP* 3.6 17.3 - - + -
366B HIS* 2.8 42.0 + - - -
369B LEU* 4.9 6.4 - - + +
438B LEU* 5.6 1.2 - - - +
440B PRO* 5.7 0.8 - - - +
441B PHE* 3.2 29.9 - - + -
451B GLU* 2.7 54.7 + - - +
452B HIS* 3.2 9.8 + - - +
454B ALA* 1.3 72.7 - - - +
456B MET* 1.3 63.6 + - - +
458B MET* 3.7 12.0 - - - +
459B PHE* 3.1 26.2 + - - +
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Residues in contact with MET 456 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B TYR* 3.9 28.9 - - + -
154B PHE* 4.9 2.5 - - + -
155B GLU* 4.2 25.6 - - + +
158B ILE* 4.1 25.4 - - + -
352B TRP* 3.7 41.7 - - + -
452B HIS* 3.0 32.4 + - - +
453B LEU* 3.6 11.4 - - + +
455B ARG* 1.3 76.6 - - - +
457B GLU* 1.3 62.8 + - - +
459B PHE* 3.9 0.3 - - - +
460B LEU* 3.0 36.3 + - + +
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Residues in contact with GLU 457 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B ILE* 5.0 5.8 - - + -
187B VAL* 3.2 27.5 - - - +
190B ILE* 3.1 49.3 - - + +
191B THR* 4.7 3.4 + - - -
315B THR* 4.0 17.3 + - + -
453B LEU* 2.9 39.4 + - + +
454B ALA* 3.6 9.1 - - - +
456B MET* 1.3 70.2 - - - +
458B MET* 1.3 65.7 + - - +
460B LEU* 4.9 1.8 - - - -
461B PHE* 2.9 42.9 + - + +
601B HEM 4.3 5.5 - - - +
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Residues in contact with MET 458 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315B THR* 4.5 11.2 - - + +
318B VAL* 3.8 31.9 - - + -
319B LEU* 3.9 11.9 - - + +
365B LEU* 3.4 49.1 - - + +
369B LEU* 4.2 22.4 - - + -
441B PHE* 5.0 3.8 - - - -
454B ALA 2.9 26.4 + - - +
455B ARG* 3.7 13.9 - - - +
457B GLU* 1.3 72.0 - - - +
459B PHE* 1.3 58.7 + - - +
462B PHE* 2.9 36.7 + - - +
601B HEM 4.7 6.7 - - + -
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Residues in contact with PHE 459 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344B MET* 3.6 25.6 - - + -
351B SER 3.3 23.8 - - - -
352B TRP* 4.0 17.3 - + + -
355B LYS* 3.8 35.0 - - + -
358B MET* 3.9 13.9 - - + -
361B THR* 4.0 14.8 - - + -
362B GLU* 5.2 5.2 - - + -
365B LEU* 3.9 23.1 - - + -
455B ARG 3.1 14.6 + - - +
456B MET 3.9 2.7 - - - +
458B MET* 1.3 80.4 - - - +
460B LEU* 1.3 65.8 + - + +
462B PHE* 3.9 0.2 - - - +
463B THR* 2.7 52.9 + - + +
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Residues in contact with LEU 460 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155B GLU* 4.3 20.0 - - + +
158B ILE* 3.7 43.7 - - + -
159B LEU* 5.1 5.6 - - + -
162B THR* 3.9 5.2 - - + +
350B PRO* 4.1 13.8 - - + +
351B SER* 3.8 29.6 - - - +
352B TRP* 3.9 3.1 - - + +
456B MET* 3.0 29.1 + - + +
457B GLU 4.2 0.2 - - - +
459B PHE* 1.3 92.1 - - + +
461B PHE* 1.3 58.1 + - - +
463B THR* 3.4 2.1 + - - -
464B ALA* 2.9 34.0 + - - +
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Residues in contact with PHE 461 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B ILE* 4.4 7.6 - - + -
161B GLU* 3.9 18.2 - - + -
162B THR* 3.7 32.3 - - + -
165B PHE* 4.2 23.6 - + + -
186B ALA* 3.7 33.9 - - + -
187B VAL* 4.6 7.6 - - + -
190B ILE* 3.9 20.4 - - + -
319B LEU* 3.9 26.7 - - + -
457B GLU* 2.9 39.5 + - + +
460B LEU* 1.3 74.5 - - - +
462B PHE* 1.3 65.0 + - - +
464B ALA* 4.0 0.5 - - - +
465B LEU* 3.1 28.2 + - - +
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Residues in contact with PHE 462 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319B LEU* 4.3 10.7 - - + +
322B ALA* 4.0 28.5 - - + -
323B ILE* 5.1 2.9 - - + -
326B MET* 3.8 27.6 - - + -
336B VAL* 3.9 24.7 - - + -
361B THR* 4.2 14.6 - - + -
364B VAL* 4.1 13.2 - - + -
365B LEU* 3.9 27.6 - - + -
458B MET 2.9 20.8 + - - +
459B PHE 3.9 1.6 - - - +
461B PHE* 1.3 77.0 - - - +
463B THR* 1.3 64.2 + - + +
465B LEU* 3.8 9.8 - - + +
466B LEU* 3.1 50.4 + - + +
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Residues in contact with THR 463 (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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340B ILE* 3.5 13.5 - - + +
344B MET* 3.7 19.6 - - + +
350B PRO* 3.6 16.2 - - - +
358B MET* 4.5 6.1 - - + -
361B THR* 4.0 17.5 - - + -
459B PHE* 2.7 56.7 + - + +
460B LEU* 3.4 4.9 + - - -
462B PHE* 1.3 76.4 - - + +
464B ALA* 1.3 65.8 + - - -
467B GLN* 3.0 26.9 + - - +
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Residues in contact with ALA 464 (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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159B LEU* 5.1 0.9 - - + -
162B THR* 3.7 29.6 - - + +
166B ASN* 3.1 20.9 + - - +
350B PRO* 3.9 21.1 - - + -
460B LEU 2.9 21.6 + - - +
461B PHE 4.3 1.1 - - - +
463B THR* 1.3 77.1 + - - +
465B LEU* 1.3 61.0 + - - +
467B GLN* 3.8 7.3 - - - +
468B ARG* 3.6 14.6 + - - +
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Residues in contact with LEU 465 (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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165B PHE* 3.9 11.0 - - + -
166B ASN* 3.8 13.2 + - - +
169B ILE* 3.4 33.9 - - + -
179B PHE* 4.0 8.1 - - + -
319B LEU* 6.5 0.9 - - + -
323B ILE* 3.9 25.6 - - + -
461B PHE 3.1 21.0 + - - +
462B PHE* 3.8 9.2 - - + +
463B THR 3.1 0.4 - - - -
464B ALA* 1.3 77.8 - - - +
466B LEU* 1.3 61.9 + - + +
468B ARG 3.3 1.6 + - - -
469B PHE* 2.9 39.8 + - + +
471B LEU* 3.7 28.3 - - + -
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Residues in contact with LEU 466 (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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326B MET* 4.1 9.9 - - + -
333B GLN* 3.8 29.4 - - + +
336B VAL* 3.8 16.4 - - + -
337B GLN* 3.1 20.9 + - + +
340B ILE* 3.8 11.0 - - + -
462B PHE* 3.1 50.9 + - + +
465B LEU* 1.3 78.1 - - + +
467B GLN* 1.3 66.7 + - - +
469B PHE 3.1 15.5 - - - +
471B LEU* 3.4 35.2 - - + -
501B ARG* 3.2 4.0 - - - -
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Residues in contact with GLN 467 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340B ILE* 3.6 23.4 - - + +
341B ASP* 5.5 0.2 - - - +
344B MET* 4.2 2.8 - - - +
345B GLY 3.0 23.8 + - - -
346B PRO* 3.3 23.3 + - + +
347B ASN* 4.5 3.2 - - - -
348B GLY 2.9 30.6 + - - +
350B PRO* 3.7 16.3 - - - +
463B THR 3.0 19.5 + - - +
464B ALA* 3.8 8.3 - - - +
466B LEU* 1.3 73.9 - - - +
468B ARG* 1.3 63.5 + - + +
501B ARG* 3.2 30.4 + - - +
502B HIS* 4.9 2.8 - - - -
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Residues in contact with ARG 468 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B LYS* 4.8 3.8 + - - +
166B ASN* 3.4 26.2 + - - +
167B ASP* 2.9 29.7 + - - +
170B GLU* 3.6 29.7 - - - +
464B ALA 3.6 11.9 + - - +
465B LEU 3.3 2.0 + - - -
466B LEU 3.2 0.2 - - - -
467B GLN* 1.3 84.1 - - + +
469B PHE* 1.3 87.1 + - + +
500B ARG* 3.3 10.8 - - + +
501B ARG* 3.1 23.9 + - - +
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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