Contacts of the helix formed by residues 618 - 635 (chain B) in PDB entry 1OH7
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 618 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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616B ASN* 2.8 18.3 + - - -
617B MET* 1.3 69.8 - - - +
619B GLY* 1.3 51.7 + - - -
620B LYS 3.5 0.2 - - - -
621B SER* 3.6 12.8 - - - -
622B THR* 2.5 40.8 + - - -
625B ARG* 5.0 3.5 + - - -
760B HIS* 5.2 1.8 - - - -
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Residues in contact with GLY 619 (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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616B ASN 3.0 8.5 + - - -
617B MET 3.0 5.9 + - - -
618B GLY* 1.3 74.8 - - - +
620B LYS* 1.3 65.8 + - - +
622B THR* 3.6 1.6 + - - -
623B TYR* 3.1 23.4 + - - +
747B LEU* 4.0 18.2 - - - +
759B MET 5.6 0.4 - - - -
760B HIS* 4.2 25.1 + - - +
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Residues in contact with LYS 620 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
612B ILE* 2.9 38.4 + - + +
613B THR 3.5 12.4 - - - -
614B GLY 2.8 26.7 + - - -
615B PRO 3.4 9.9 - - - +
616B ASN* 3.6 17.3 + - - +
619B GLY* 1.3 75.2 - - - +
621B SER* 1.3 63.1 + - - +
623B TYR* 3.2 9.7 - - - +
624B MET* 2.9 27.4 + - - +
694B GLU* 2.8 27.2 + - - +
726B ALA* 3.8 19.7 - - + -
727B THR 2.9 12.1 + - - +
747B LEU* 3.2 22.4 - - + +
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Residues in contact with SER 621 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
616B ASN* 2.9 29.3 + - - -
618B GLY* 3.5 8.6 + - - -
619B GLY 3.2 0.6 - - - -
620B LYS* 1.3 78.4 - - - +
622B THR* 1.3 56.1 - - - +
624B MET* 3.3 6.0 + - - +
625B ARG* 3.0 55.6 + - - +
657B VAL* 3.7 14.6 - - - +
693B ASP* 3.4 14.0 + - - -
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Residues in contact with THR 622 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585B HIS* 3.5 38.7 - - + -
588B VAL* 4.0 12.6 - - + +
596B PHE* 4.0 20.9 - - + -
618B GLY* 2.5 25.4 + - - -
619B GLY* 3.9 5.2 - - - -
621B SER* 1.3 75.7 - - - +
623B TYR* 1.3 58.7 + - - +
624B MET 3.1 0.3 + - - -
625B ARG* 3.2 8.7 + - - +
626B GLN* 2.8 33.2 + - - +
760B HIS* 4.7 10.1 + - - +
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Residues in contact with TYR 623 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599B ASN* 3.5 26.7 - - + +
600B PRO 2.7 29.7 + - - -
601B LEU* 3.2 24.4 - - + +
610B LEU* 4.5 4.5 - - + +
612B ILE* 4.2 29.2 - - + -
619B GLY 3.1 12.6 + - - +
620B LYS* 3.2 11.7 - - - +
622B THR* 1.3 76.9 - - - +
624B MET* 1.3 58.6 + - - +
626B GLN* 3.4 21.8 + - - +
627B THR* 3.1 26.5 + - - -
724B LEU* 4.4 13.7 - - + -
745B VAL* 5.3 0.4 - - + +
747B LEU* 5.9 0.4 - - + -
762B VAL* 3.6 39.9 - - + +
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Residues in contact with MET 624 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
612B ILE* 4.5 8.5 - - + -
620B LYS 2.9 22.9 + - - +
621B SER* 3.7 6.7 - - - +
622B THR 3.2 0.2 - - - -
623B TYR* 1.3 70.5 - - - +
625B ARG* 1.3 67.5 + - - +
626B GLN 3.1 1.6 - - - -
627B THR* 3.0 16.1 + - - -
657B VAL* 3.5 14.1 - - + -
691B LEU* 3.0 35.6 - - + +
692B MET 3.1 50.0 - - - +
693B ASP* 4.0 2.7 - - + +
724B LEU* 3.7 32.5 - - + +
726B ALA* 3.7 20.6 - - - -
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Residues in contact with ARG 625 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276B ASN* 3.2 27.2 + - + +
277B LEU* 4.2 11.8 - - + +
278B GLU* 6.2 0.2 - - - -
283B LEU* 5.6 7.5 - - - +
585B HIS* 4.3 18.4 + - - +
618B GLY* 5.0 3.4 + - - -
621B SER* 3.0 35.7 + - - +
622B THR* 3.9 9.8 + - - +
624B MET* 1.3 77.2 - - - +
626B GLN* 1.3 57.1 + - - +
628B ALA* 3.2 6.7 + - - +
629B LEU* 2.9 31.7 + - + +
655B THR* 5.8 0.7 - - - -
657B VAL* 3.7 45.7 + - + +
658B GLY* 5.0 3.6 - - - +
691B LEU* 4.2 6.3 - - + -
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Residues in contact with GLN 626 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
580B ILE* 5.4 3.0 - - + +
583B GLY* 3.0 33.5 + - - -
584B ARG 3.7 9.6 - - - +
585B HIS* 3.5 33.2 + - + +
596B PHE* 3.9 13.9 - - - -
599B ASN* 4.4 12.1 + - - +
622B THR* 2.8 12.3 + - - +
623B TYR* 3.4 37.2 + - - +
624B MET 3.1 0.2 - - - -
625B ARG* 1.3 75.4 - - - +
627B THR* 1.3 64.8 + - - +
629B LEU* 3.8 5.7 - - - +
630B ILE* 2.9 40.1 + - + +
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Residues in contact with THR 627 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578B ILE* 3.9 25.8 - - + +
580B ILE* 4.7 5.5 - - + +
601B LEU* 3.3 35.0 - - + +
603B LEU* 5.6 0.4 - - + -
623B TYR* 3.1 15.1 + - - -
624B MET 3.0 9.1 + - - -
626B GLN* 1.3 80.1 - - - +
628B ALA* 1.3 65.7 + - - +
630B ILE* 3.9 4.8 - - - +
631B ALA* 3.0 26.2 + - - +
689B LEU* 4.0 10.5 - - + -
691B LEU* 4.6 1.1 - - - -
724B LEU* 3.4 17.4 - - + +
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Residues in contact with ALA 628 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277B LEU* 3.7 25.4 - - + +
624B MET 3.2 1.4 + - - -
625B ARG 3.2 9.1 + - - +
627B THR* 1.3 81.9 - - - +
629B LEU* 1.3 57.7 + - - +
631B ALA* 3.5 2.4 + - - +
632B LEU* 2.8 27.3 + - - +
653B ILE* 4.2 10.6 - - + +
655B THR* 4.2 5.4 - - + -
689B LEU* 3.8 10.7 - - + +
691B LEU* 3.6 23.1 - - + -
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Residues in contact with LEU 629 (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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277B LEU* 3.9 40.6 - - + +
279B ILE* 5.4 1.1 - - + -
291B LEU* 4.0 28.5 - - + -
585B HIS* 3.4 35.0 - - + +
586B PRO* 3.9 24.7 - - + -
587B VAL* 5.1 2.0 - - + -
625B ARG* 2.9 22.7 + - + +
626B GLN 3.2 3.3 + - - +
628B ALA* 1.3 74.8 - - - +
630B ILE* 1.3 59.3 + - - +
632B LEU* 3.4 7.3 - - + +
633B MET* 2.8 40.2 + - - +
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Residues in contact with ILE 630 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578B ILE* 5.8 0.9 - - + -
580B ILE* 4.1 24.2 - - + -
583B GLY* 4.3 7.6 - - - -
584B ARG 3.6 31.6 - - - +
586B PRO* 5.0 1.6 - - + -
626B GLN* 2.9 24.1 + - + +
627B THR 3.9 2.5 - - - +
629B LEU* 1.3 73.8 - - - +
631B ALA* 1.3 61.0 + - - +
633B MET* 4.7 0.7 - - - -
634B ALA* 2.8 30.3 + - - +
640B VAL* 3.7 12.4 - - + +
641B PRO* 3.8 27.6 - - + +
642B ALA* 4.8 0.9 - - + -
645B VAL* 3.9 31.6 - - + -
647B ILE* 5.3 0.7 - - + -
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Residues in contact with ALA 631 (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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267B ILE* 4.8 0.2 - - - +
578B ILE* 5.3 3.3 - - + +
627B THR 3.0 18.4 + - - +
628B ALA 3.5 4.3 - - - +
630B ILE* 1.3 78.7 - - - +
632B LEU* 1.3 63.0 + - - +
634B ALA* 3.6 0.3 - - - +
635B TYR* 3.1 30.8 + - + +
647B ILE* 3.8 28.5 - - + -
650B ILE* 5.5 4.0 - - + -
653B ILE* 4.4 11.0 - - + -
689B LEU* 4.2 15.0 - - + -
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Residues in contact with LEU 632 (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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267B ILE* 5.6 0.2 - - - -
269B MET* 3.5 40.2 - - + -
277B LEU* 5.0 4.7 - - + -
279B ILE* 4.8 5.2 - - + -
291B LEU* 4.2 20.4 - - + -
311B LEU* 3.6 22.7 - - + +
314B PRO* 3.8 17.1 - - + +
628B ALA 2.8 19.4 + - - +
629B LEU* 3.4 17.7 - - + +
630B ILE 3.2 0.2 - - - -
631B ALA* 1.3 76.5 - - - +
633B MET* 1.3 63.5 - - - +
635B TYR* 3.2 13.7 + - - +
636B ILE* 3.3 21.1 + - + +
653B ILE* 4.9 8.7 - - + -
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Residues in contact with MET 633 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291B LEU* 4.0 12.8 - - + -
295B LEU* 3.9 24.0 - - + -
311B LEU* 5.3 1.1 - - + -
567B TYR* 3.5 25.8 - - + +
586B PRO* 3.9 28.3 - - - -
629B LEU 2.8 24.3 + - - +
632B LEU* 1.3 78.5 - - + +
634B ALA* 1.3 67.8 + - - +
636B ILE* 3.1 14.9 + - + +
638B SER* 3.2 23.8 + - - +
639B TYR 3.5 20.4 - - - +
640B VAL* 3.8 11.9 - - + -
641B PRO* 4.0 13.9 - - + -
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Residues in contact with ALA 634 (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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321B LEU* 4.2 0.5 - - - +
325B GLN* 4.6 1.2 + - - -
570B PRO* 4.1 22.9 - - + -
572B PHE* 3.9 17.1 - - + -
630B ILE 2.8 21.8 + - - +
631B ALA* 3.6 7.6 - - - +
633B MET* 1.3 73.3 - - - +
635B TYR* 1.3 62.8 + - + +
637B GLY* 3.2 17.5 + - - -
638B SER 4.2 1.5 + - - +
640B VAL* 3.5 9.3 - - + +
645B VAL* 5.3 1.6 - - + -
647B ILE* 4.2 23.1 - - + -
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Residues in contact with TYR 635 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267B ILE* 3.5 29.6 - - + -
314B PRO* 3.0 7.9 - - + +
315B VAL 3.0 42.9 + - - +
316B ARG* 4.1 17.3 - - + -
318B THR* 4.5 5.0 - - + +
321B LEU* 3.3 25.6 - - + +
572B PHE* 4.0 21.4 - + - +
631B ALA* 3.1 22.0 + - + +
632B LEU 3.4 5.2 - - - -
633B MET 3.1 1.0 - - - -
634B ALA* 1.3 81.9 - - + +
636B ILE* 1.3 56.5 + - - -
637B GLY 3.5 0.2 - - - -
647B ILE* 3.9 18.4 - - + -
648B GLY 2.6 37.2 + - - -
649B PRO* 3.3 6.2 - - + +
650B ILE* 4.2 14.6 - - + -
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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