Contacts of the helix formed by residues 992 - 1013 (chain G) in PDB entry 1WQ1
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 992 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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718G MET 3.9 21.6 + - - -
720G GLU* 4.2 20.0 - - - +
723G TYR* 4.2 9.2 - - - -
990G ASP* 2.8 22.8 + - - -
991G LEU* 1.3 75.9 - - - +
993G ARG* 1.3 57.4 + - - +
995G LEU* 3.7 8.9 - - - +
996G ALA* 2.7 38.4 + - - +
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Residues in contact with ARG 993 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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990G ASP* 4.6 4.7 + - - +
991G LEU 2.8 5.9 + - - +
992G SER* 1.3 81.1 + - - +
994G ASP* 1.3 66.3 + - - +
996G ALA* 3.8 6.0 - - - +
997G ALA* 3.3 23.4 + - - +
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Residues in contact with ASP 994 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
755G ILE* 3.0 27.5 - - + +
758G ARG* 2.9 53.4 + - - +
759G ILE* 4.4 13.4 - - + +
990G ASP 6.0 0.7 - - - -
991G LEU* 2.7 22.8 + - + +
993G ARG* 1.3 83.5 - - - +
995G LEU* 1.3 62.2 + - - +
996G ALA 3.3 0.4 - - - -
997G ALA* 3.7 3.5 - - - -
998G LEU* 2.9 23.2 + - - +
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Residues in contact with LEU 995 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720G GLU* 4.9 7.9 - - - +
723G TYR* 3.8 33.0 - - + -
726G PHE* 3.9 11.5 - - + -
727G LYS* 3.7 33.9 - - + -
730G ILE* 3.8 28.3 - - + -
759G ILE* 4.2 13.2 - - + -
991G LEU* 3.3 30.1 + - + +
992G SER* 3.1 8.4 + - - +
994G ASP* 1.3 77.9 - - - +
996G ALA* 1.3 67.2 + - - +
998G LEU* 3.2 3.2 + - - +
999G HIS* 2.9 22.2 + - - +
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Residues in contact with ALA 996 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723G TYR* 3.9 25.6 - - - +
992G SER 2.7 21.9 + - - +
993G ARG* 3.8 7.6 - - - +
995G LEU* 1.3 74.3 - - - +
997G ALA* 1.3 57.2 + - - +
999G HIS* 2.9 5.7 + - - +
1000G GLU* 2.8 41.3 + - + +
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Residues in contact with ALA 997 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
751G LEU* 5.6 1.9 - - + +
755G ILE* 3.8 19.0 - - + +
758G ARG* 6.2 0.7 - - - +
993G ARG 3.3 17.2 + - - +
994G ASP* 3.8 6.7 - - - +
995G LEU 3.3 0.2 - - - -
996G ALA* 1.3 78.1 - - - +
998G LEU* 1.3 58.6 + - - +
1000G GLU* 3.7 18.4 + - - +
1001G ILE* 3.2 27.5 + - - +
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Residues in contact with LEU 998 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726G PHE* 4.6 5.8 - - + -
730G ILE* 3.4 37.2 - - + -
741G LEU* 4.5 11.2 - - + -
752G LEU* 3.3 34.5 - - + -
755G ILE* 3.7 12.6 - - + -
756G LEU* 3.9 13.7 - - + -
759G ILE* 3.8 16.4 - - + -
994G ASP 2.9 17.0 + - - +
995G LEU* 3.7 6.1 - - + +
996G ALA 3.1 0.2 - - - -
997G ALA* 1.3 74.7 - - - +
999G HIS* 1.3 65.3 + - - +
1001G ILE* 3.1 17.9 + - + +
1002G CYS* 3.1 17.1 + - - -
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Residues in contact with HIS 999 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718G MET* 6.1 0.9 - - + -
723G TYR* 5.0 8.5 - + + -
726G PHE* 3.8 21.7 - - + -
995G LEU 2.9 12.2 + - - +
996G ALA* 2.9 12.9 + - - +
998G LEU* 1.3 76.5 - - - +
1000G GLU* 1.3 61.9 + - + +
1002G CYS* 2.9 7.2 + - - +
1003G VAL* 2.8 44.9 + - + +
1030G THR* 3.0 45.1 - - + +
1033G LEU* 3.4 34.2 + - + +
1034G GLN* 3.7 10.7 + - - +
1037G GLN* 4.8 14.9 + - - -
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Residues in contact with GLU1000 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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996G ALA* 2.8 30.2 + - - +
997G ALA* 3.8 17.5 - - - +
998G LEU 3.2 0.2 - - - -
999G HIS* 1.3 81.9 - - + +
1001G ILE* 1.3 57.9 + - + +
1003G VAL* 3.6 10.7 + - + +
1004G ALA* 3.1 26.7 + - - +
1037G GLN* 5.1 10.3 + - - +
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Residues in contact with ILE1001 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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741G LEU* 4.8 7.5 - - + +
745G CYS* 4.4 17.5 - - - -
748G ASP* 4.5 10.1 - - + +
751G LEU* 3.8 22.0 - - + -
752G LEU* 3.9 26.9 - - + +
755G ILE* 3.6 28.7 - - + -
997G ALA 3.2 10.5 + - - +
998G LEU* 3.1 11.1 + - + +
1000G GLU* 1.3 75.5 - - + +
1002G CYS* 1.3 63.2 + - - +
1004G ALA* 3.9 5.4 - - - -
1005G HIS* 3.0 39.9 + - + +
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Residues in contact with CYS1002 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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726G PHE* 4.0 25.1 - - - -
737G VAL* 5.9 1.1 - - - -
741G LEU* 4.3 21.3 - - - -
998G LEU* 3.1 20.6 + - - -
999G HIS* 2.9 9.5 + - - +
1001G ILE* 1.3 76.7 - - - +
1003G VAL* 1.3 60.9 + - - +
1004G ALA 3.2 0.2 - - - -
1005G HIS 3.1 3.3 + - - -
1006G SER* 2.8 30.5 + - - -
1009G LEU* 3.9 14.3 - - + +
1026G LEU* 4.6 10.8 - - - -
1030G THR* 3.6 21.2 - - + +
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Residues in contact with VAL1003 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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999G HIS* 2.8 46.5 + - + +
1000G GLU* 3.7 10.8 - - + +
1002G CYS* 1.3 74.5 - - - +
1004G ALA* 1.3 57.8 + - - +
1006G SER* 2.8 30.4 + - - -
1007G ASP* 4.7 2.1 - - - +
1030G THR* 3.9 6.2 - - + +
1034G GLN* 4.0 34.8 - - + +
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Residues in contact with ALA1004 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
748G ASP* 5.2 2.2 - - - +
1000G GLU 3.1 14.6 + - - +
1001G ILE* 3.9 8.7 - - - +
1002G CYS 3.2 0.4 - - - -
1003G VAL* 1.3 80.2 - - - +
1005G HIS* 1.3 73.4 + - + +
1006G SER 3.6 0.7 - - - -
1007G ASP* 4.5 8.3 - - - +
1008G GLU* 4.8 1.4 - - - +
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Residues in contact with HIS1005 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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744G VAL* 3.1 43.2 + - + -
745G CYS* 3.9 11.7 - - - -
746G GLY 5.0 0.4 + - - -
747G GLN 6.0 0.2 + - - -
748G ASP* 2.9 30.0 + - - -
1001G ILE* 3.0 31.0 + - + +
1002G CYS 3.1 6.3 + - - +
1003G VAL 3.0 0.4 - - - -
1004G ALA* 1.3 88.6 + - + +
1006G SER* 1.3 55.5 + - - +
1007G ASP* 3.5 3.4 - - - -
1008G GLU* 3.1 32.4 + - + +
1009G LEU* 2.9 33.2 + - + +
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Residues in contact with SER1006 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1002G CYS 2.8 9.9 + - - -
1003G VAL* 2.8 19.9 + - - -
1004G ALA 3.6 0.6 - - - -
1005G HIS* 1.3 73.3 - - - +
1007G ASP* 1.3 69.8 + - - +
1009G LEU* 2.9 5.1 + - - -
1010G ARG* 2.8 37.6 + - - +
1027G LEU* 3.5 21.8 - - - +
1030G THR* 5.4 5.5 - - - +
1031G GLU* 6.1 0.9 - - - +
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Residues in contact with ASP1007 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1003G VAL 4.7 1.4 - - - +
1004G ALA 4.5 6.8 - - - +
1005G HIS* 4.5 2.3 - - - -
1006G SER* 1.3 80.1 + - - +
1008G GLU* 1.3 80.0 + - - +
1010G ARG* 2.9 28.4 + - - +
1011G THR* 3.1 14.9 + - - -
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Residues in contact with GLU1008 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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744G VAL* 3.5 26.9 - - + +
1004G ALA 4.8 1.6 - - - +
1005G HIS* 3.1 38.1 - - - +
1006G SER 3.2 0.8 - - - -
1007G ASP* 1.3 91.0 + - + +
1009G LEU* 1.3 61.4 + - - +
1011G THR* 3.3 10.6 + - - +
1012G LEU* 3.2 25.5 + - - +
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Residues in contact with LEU1009 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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740G ALA* 4.0 23.8 - - + -
741G LEU* 4.5 11.9 - - + +
744G VAL* 3.5 26.5 - - + -
1002G CYS* 3.9 23.8 - - + +
1005G HIS* 2.9 32.9 + - + +
1006G SER* 3.5 4.9 - - - +
1008G GLU* 1.3 73.5 - - - +
1010G ARG* 1.3 60.2 + - - +
1012G LEU* 3.4 6.4 + - + +
1013G SER* 2.9 29.5 + - - -
1023G LEU* 4.6 6.8 - - + +
1026G LEU* 4.4 21.5 - - + -
1027G LEU* 3.9 16.6 - - + +
1030G THR* 6.0 0.7 - - - +
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Residues in contact with ARG1010 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1006G SER* 2.8 35.0 + - - +
1007G ASP* 2.9 14.3 + - - +
1009G LEU* 1.3 75.8 - - - +
1011G THR* 1.3 62.0 + - - +
1013G SER* 2.8 22.8 + - - +
1014G ASN* 3.1 19.5 + - - +
1027G LEU* 3.6 25.9 + - + +
1031G GLU* 4.1 30.5 + - - +
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Residues in contact with THR1011 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1007G ASP 3.1 10.8 + - - -
1008G GLU* 3.3 12.8 + - - -
1010G ARG* 1.3 76.9 - - - +
1012G LEU* 1.3 62.7 + - + +
1014G ASN* 3.4 22.0 + - - +
1015G GLU* 4.0 4.7 + - - +
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Residues in contact with LEU1012 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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740G ALA* 4.0 18.6 - - + +
743G HIS* 4.2 20.9 - - + -
744G VAL* 3.4 33.9 - - + -
1008G GLU 3.2 11.2 + - - +
1009G LEU* 3.4 8.9 + - + +
1011G THR* 1.3 77.1 - - + +
1013G SER* 1.3 63.5 + - - +
1014G ASN 3.2 0.4 + - - -
1015G GLU* 3.5 22.1 + - + +
1023G LEU* 3.7 19.4 - - + +
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Residues in contact with SER1013 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1009G LEU 2.9 15.0 + - - -
1010G ARG* 2.8 21.3 + - - -
1012G LEU* 1.3 76.2 - - - +
1014G ASN* 1.3 64.7 + - - +
1015G GLU 3.2 1.7 + - - -
1020G GLN* 3.1 30.5 + - - +
1023G LEU* 3.9 29.6 - - - +
1024G LYS* 4.4 7.3 - - - +
1027G LEU* 3.6 15.0 - - - +
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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