Contacts of the strand formed by residues 711 - 728 (chain B) in PDB entry 7CN9
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 711 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
708B SER* 2.3 48.5 + - - +
709B ASN 3.8 0.4 - - - -
710B ASN* 1.3 76.1 - - - +
712B ILE* 1.3 65.0 + - - +
1074B ASN* 5.5 1.1 - - - -
1075B PHE 3.0 22.4 - - - -
1076B THR* 4.9 1.3 - - - -
1077B THR* 3.2 1.1 + - - -
895C GLN* 4.2 18.6 + - - +
897C PRO* 4.2 4.4 - - - +
1d NAG 3.1 27.1 - - - +
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Residues in contact with ILE 712 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
711B SER* 1.3 75.9 - - - +
713B ALA* 1.3 72.0 + - - +
714B ILE* 3.6 8.3 + - + +
1073B LYS 3.7 9.9 - - - +
1074B ASN* 4.2 2.1 - - - -
1075B PHE* 3.6 14.1 + - - +
1077B THR* 3.1 37.6 - - + +
1094B VAL* 4.4 19.7 - - + -
1095B PHE 4.6 1.8 - - - +
895C GLN* 3.3 17.8 + - - +
896C ILE* 3.5 22.7 - - + -
897C PRO* 3.5 11.4 - - + -
900C MET* 3.6 29.8 - - + -
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Residues in contact with ALA 713 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712B ILE* 1.3 75.9 - - - +
714B ILE* 1.3 62.0 + - - +
715B PRO* 3.8 1.0 - - - +
1072B GLU* 4.8 6.3 - - + -
1073B LYS 4.0 7.2 - - - +
1074B ASN* 5.0 3.4 - - - +
887C THR* 4.9 2.1 - - - +
894C LEU* 3.1 34.3 - - + +
895C GLN* 2.9 50.0 + - - +
896C ILE* 5.6 0.9 - - - +
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Residues in contact with ILE 714 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712B ILE* 3.6 5.8 + - + +
713B ALA* 1.3 73.2 - - - +
715B PRO* 1.3 83.8 - - + +
1072B GLU* 4.1 1.6 - - - -
1073B LYS 3.0 24.7 + - - -
1075B PHE* 3.4 34.2 - - + -
1094B VAL* 5.9 5.8 - - + -
1096B VAL* 5.4 4.7 - - + -
1105B THR* 5.4 2.2 - - + -
1106B GLN 4.0 7.6 - - - +
1107B ARG* 4.1 6.7 - - - +
1108B ASN 3.9 9.4 - - - +
1109B PHE 3.3 29.8 - - - +
1110B TYR* 3.5 20.4 - - + +
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Residues in contact with PRO 715 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713B ALA 3.8 6.7 - - - +
714B ILE* 1.3 94.0 - - + +
716B THR* 1.3 55.5 + - - +
717B ASN 3.9 4.7 - - - +
1069B PRO* 3.6 32.8 - - + -
1070B ALA 3.9 11.2 - - - +
1072B GLU* 3.7 10.1 - - - -
1107B ARG 5.6 0.2 - - - +
1108B ASN* 3.8 24.5 - - + +
1109B PHE* 3.5 1.4 - - - -
1110B TYR* 2.5 36.6 + - - +
887C THR* 6.0 0.7 - - + -
894C LEU* 3.9 13.5 - - + -
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Residues in contact with THR 716 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
714B ILE 4.4 0.4 - - - +
715B PRO* 1.3 77.8 - - - +
717B ASN* 1.3 64.1 + - - +
718B PHE* 5.5 0.5 - - - -
1071B GLN* 2.6 30.1 + - - +
1072B GLU 4.1 0.2 - - - -
1073B LYS* 3.6 37.2 - - + +
1109B PHE* 3.2 27.6 - - - -
1110B TYR* 3.7 25.4 - - + -
1W NAG 5.2 5.4 - - - +
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Residues in contact with ASN 717 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
715B PRO* 3.9 5.2 - - - +
716B THR* 1.3 86.8 + - - +
718B PHE* 1.3 82.7 + - - +
719B THR* 5.7 0.4 - - - +
1069B PRO* 3.7 1.9 - - - +
1070B ALA* 2.7 33.6 + - - +
1071B GLN* 3.9 20.4 + - + +
1109B PHE* 5.8 0.2 - - - -
1W NAG 1.4 76.9 + - + +
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Residues in contact with PHE 718 (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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716B THR 5.5 0.2 - - - -
717B ASN* 1.3 97.7 + - - +
719B THR* 1.3 80.0 + - - +
720B ILE* 4.3 8.3 - - + -
906B PHE* 5.0 11.7 - + - -
915B VAL* 5.2 15.3 - - + -
916B LEU* 6.5 0.7 - - - -
919B ASN* 4.9 14.4 - - + -
923B ILE* 3.5 34.8 - - + -
926B GLN* 4.4 7.1 + - - +
1067B TYR* 3.2 46.2 - + + +
1068B VAL 3.4 14.1 - - - +
1069B PRO* 4.0 4.0 - - + -
1070B ALA* 4.1 4.0 - - - +
1109B PHE* 5.3 11.0 - + + -
1W NAG 4.6 2.4 - - - +
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Residues in contact with THR 719 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717B ASN* 5.7 0.2 - - - +
718B PHE* 1.3 89.2 - - - +
720B ILE* 1.3 66.2 + - - +
721B SER* 3.6 11.1 + - - -
926B GLN* 4.0 15.9 - - - +
1067B TYR* 3.7 1.6 - - - -
1068B VAL* 2.9 39.9 + - - +
1070B ALA* 5.3 9.3 - - + +
1071B GLN* 5.4 3.6 - - - +
1W NAG 5.2 13.5 - - - +
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Residues in contact with ILE 720 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718B PHE* 4.2 17.2 - - + -
719B THR* 1.3 78.7 - - - +
721B SER* 1.3 68.4 + - - +
722B VAL* 5.8 1.3 - - + -
906B PHE* 5.1 9.4 - - + -
923B ILE* 4.1 20.9 - - + +
926B GLN* 4.3 16.1 + - + +
927B PHE* 3.5 57.2 - - + +
930B ALA* 4.9 7.5 - - + +
1049B LEU* 5.2 9.9 - - + -
1065B VAL* 5.1 11.7 - - + -
1066B THR 3.2 8.1 - - - +
1067B TYR* 5.1 6.3 - - + -
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Residues in contact with SER 721 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719B THR* 3.6 15.8 + - - -
720B ILE* 1.3 81.7 + - - +
722B VAL* 1.3 69.0 + - - +
723B THR* 5.3 4.0 + - - -
930B ALA* 5.0 3.4 - - - -
1064B HIS 3.3 0.3 - - - +
1065B VAL* 3.2 6.5 - - - -
1066B THR* 2.9 37.0 + - - -
1068B VAL* 4.5 13.0 - - - +
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Residues in contact with VAL 722 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720B ILE* 5.8 2.7 - - + -
721B SER* 1.3 78.8 - - - +
723B THR* 1.3 72.7 + - - +
927B PHE* 5.3 1.1 - - + +
930B ALA* 3.4 40.1 - - + +
931B ILE* 3.8 23.3 - - + +
934B ILE* 4.5 18.6 - - + +
1063B LEU* 5.4 5.4 - - + -
1064B HIS 3.0 16.2 - - - +
1065B VAL* 4.1 13.5 - - + -
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Residues in contact with THR 723 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
721B SER* 5.3 3.6 - - - -
722B VAL* 1.3 82.4 - - - +
724B THR* 1.3 70.9 + - - +
934B ILE* 4.8 3.5 - - - +
1045B LYS* 4.5 26.8 + - + +
1063B LEU* 3.1 30.0 - - - +
1064B HIS* 3.6 29.5 + - - +
1066B THR* 4.9 7.5 + - - +
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Residues in contact with THR 724 (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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723B THR* 1.3 88.4 - - - +
725B GLU* 1.3 63.7 + - - +
726B ILE* 4.8 7.3 - - - +
934B ILE* 3.5 31.6 - - + -
938B LEU* 4.9 13.4 - - + +
944B ALA* 5.5 4.5 + - - +
1061B VAL* 4.9 5.8 - - - -
1062B PHE 3.5 5.6 - - - -
1063B LEU* 3.8 9.9 - - + -
1064B HIS* 5.1 2.0 - - - -
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Residues in contact with GLU 725 (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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724B THR* 1.3 76.0 - - - +
726B ILE* 1.3 63.9 + - - +
727B LEU* 3.1 41.8 + - + +
947B LYS* 5.6 4.9 - - - +
1028B LYS* 3.2 21.8 - - - -
1041B ASP 5.6 0.2 - - - +
1042B PHE 4.1 14.4 - - - +
1043B CYS* 5.8 0.2 - - - -
1045B LYS* 5.2 4.9 + - - -
1061B VAL* 3.2 2.3 - - - +
1062B PHE* 2.9 39.8 + - + +
1064B HIS* 4.3 18.4 + - + +
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Residues in contact with ILE 726 (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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724B THR* 4.8 8.3 - - - +
725B GLU* 1.3 75.9 - - - +
727B LEU* 1.3 66.5 + - - +
728B PRO* 3.9 1.9 - - - +
944B ALA 3.0 29.2 - - - +
945B LEU* 3.6 22.0 - - + -
947B LYS* 3.4 50.1 - - + +
948B LEU* 3.4 27.5 - - + +
1060B VAL 3.7 4.5 - - - -
1061B VAL* 3.5 26.2 - - + -
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Residues in contact with LEU 727 (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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725B GLU* 3.1 36.6 - - + +
726B ILE* 1.3 82.6 - - - +
728B PRO* 1.3 72.4 - - + +
947B LYS* 5.3 4.0 - - - -
948B LEU* 3.4 4.7 - - - +
1021B SER* 5.4 2.2 - - - +
1024B LEU* 5.6 5.8 - - + -
1025B ALA* 3.8 19.7 - - + +
1028B LYS* 3.6 15.7 - - + -
1059B GLY* 3.6 1.0 - - - -
1060B VAL* 2.9 46.9 + - + +
1062B PHE* 3.5 24.0 - - + -
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Residues in contact with PRO 728 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726B ILE 3.9 2.7 - - - +
727B LEU* 1.3 95.1 - - + +
729B VAL* 1.3 58.6 + - - +
730B SER 5.1 0.4 - - - +
947B LYS* 4.4 4.3 - - + +
948B LEU* 3.3 13.6 - - + -
951B VAL* 3.5 35.2 - - + -
1017B GLU* 6.0 0.2 - - - +
1018B ILE* 3.5 26.6 - - + +
1021B SER* 4.3 23.4 + - - +
1022B ALA* 4.8 0.5 - - - -
1025B ALA* 5.0 1.4 - - - +
1058B HIS 4.7 1.3 - - - +
1059B GLY* 4.5 3.4 - - - -
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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