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(-) Description

Title :  CIRCULAR PERMUTED STREPTAVIDIN A50/N49
 
Authors :  I. Le Trong, V. Chu, Y. Xing, T. P. Lybrand, P. S. Stayton, R. E. Stenkamp
Date :  31 Jul 12  (Deposition) - 05 Jun 13  (Release) - 05 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Biotin-Binding Protein, Biotin, Circular Permutation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Le Trong, V. Chu, Y. Xing, T. P. Lybrand, P. S. Stayton, R. E. Stenkam
Structural Consequences Of Cutting A Binding Loop: Two Circularly Permuted Variants Of Streptavidin.
Acta Crystallogr. , Sect. D V. 69 968 2013
PubMed-ID: 23695241  |  Reference-DOI: 10.1107/S0907444913003855

(-) Compounds

Molecule 1 - STREPTAVIDIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 561
    Organism Scientific: STREPTOMYCES AVIDINII
    Organism Taxid: 1895

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 9)

Asymmetric Unit (4, 9)
No.NameCountTypeFull Name
1BTN2Ligand/IonBIOTIN
2EOH1Ligand/IonETHANOL
3GOL3Ligand/IonGLYCEROL
4SO43Ligand/IonSULFATE ION
Biological Unit 1 (4, 18)
No.NameCountTypeFull Name
1BTN4Ligand/IonBIOTIN
2EOH2Ligand/IonETHANOL
3GOL6Ligand/IonGLYCEROL
4SO46Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:79 , SER A:88 , THR A:90 , TRP A:108 , ASP A:128 , ASN A:223 , LEU A:225 , SER A:227 , TYR A:243 , SER A:245 , VAL A:247 , GLY A:248 , ASN A:249 , HOH A:5199 , HOH A:5212 , TRP B:120 , GOL B:5002BINDING SITE FOR RESIDUE BTN A 5001
2AC2SOFTWARETRP A:120 , HOH A:5200 , BTN B:5001 , HOH B:6096 , HOH B:6121 , HOH B:6145 , HOH B:6168BINDING SITE FOR RESIDUE GOL A 5002
3AC3SOFTWARELYS A:80 , ASN A:81 , ASN A:82 , HOH A:5107 , HOH A:5108 , HOH A:5127 , HOH A:5248 , HOH A:5252 , VAL B:55 , SER B:62 , ASP B:236 , HOH B:6007 , HOH B:6108BINDING SITE FOR RESIDUE GOL A 5003
4AC4SOFTWAREALA A:50 , ASN A:82 , TYR A:83 , HOH A:5112 , ARG B:53 , THR B:242 , HOH B:6165BINDING SITE FOR RESIDUE SO4 A 5004
5AC5SOFTWARETRP A:120 , GOL A:5002 , TRP B:79 , SER B:88 , THR B:90 , TRP B:108 , ASP B:128 , ASN B:223 , LEU B:225 , SER B:227 , TYR B:243 , SER B:245 , VAL B:247 , GLY B:248 , ASN B:249 , HOH B:6121 , HOH B:6141BINDING SITE FOR RESIDUE BTN B 5001
6AC6SOFTWAREBTN A:5001 , HOH A:5212 , HOH A:5249 , TRP B:120 , HOH B:6077 , HOH B:6129 , HOH B:6146 , HOH B:6169BINDING SITE FOR RESIDUE GOL B 5002
7AC7SOFTWARELYS A:121 , HOH A:5114 , ARG B:84 , GLY B:248 , HOH B:6102 , HOH B:6145BINDING SITE FOR RESIDUE SO4 B 5003
8AC8SOFTWAREASN A:118 , GLU B:51 , SER B:52 , ARG B:84 , HOH B:6094 , HOH B:6133 , HOH B:6160 , HOH B:6162 , HOH B:6163BINDING SITE FOR RESIDUE SO4 B 5004
9AC9SOFTWAREGLY B:234 , ASP B:236 , GLY B:237 , ALA B:238 , HOH B:6073 , HOH B:6173BINDING SITE FOR RESIDUE EOH B 5005

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4GDA)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4GDA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4GDA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GDA)

(-) Exons   (0, 0)

(no "Exon" information available for 4GDA)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:124
                                                                                                                                                            
               SCOP domains d4gdaa_ A: automated matches                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee..........eeeeeeeeee....eeeeeeeeeeeee.....eeeeeeeeee..hhhhhhh.eeeeeeeeee....hhhhhheeeee....eeeeee....eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gda A  50 AESRYVLTGRYDSAPATDGSGTALGWTVAWKNNYRNAHSATTWSGQYVGGAEARINTQWLLTSGTTEANAWKSTLVGHDTFTKVKPSAEAGITGTWYNQLGSTFIVTAGADGALTGTYESAVGN 249
                                    59        69        79        89        99       109       119       129     ||215       225       235       245    
                                                                                                               135|                                     
                                                                                                                212                                     


Chain B from PDB  Type:PROTEIN  Length:123
                                                                                                                                                           
               SCOP domains d4gdab_ B: automated matches                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee..........eeeeeeeeee....eeeeeeeeeeeee.....eeeeeeeeee..hhhhhhh.eeeeeeeee..........eeeee....eeeeee....eeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gda B  50 AESRYVLTGRYDSAPATDGSGTALGWTVAWKNNYRNAHSATTWSGQYVGGAEARINTQWLLTSGTTEANAWKSTLVGHDTFTKVKPAEAGITGTWYNQLGSTFIVTAGADGALTGTYESAVGN 249
                                    59        69        79        89        99       109       119       129     ||216       226       236       246   
                                                                                                               135|                                    
                                                                                                                213
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4GDA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4GDA)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        SAV_STRAV | P22629: 1df8 1hqq 1hxl 1hxz 1hy2 1i9h 1kff 1kl3 1kl4 1kl5 1lcv 1lcw 1lcz 1luq 1mep 1mk5 1mm9 1moy 1n43 1n4j 1n7y 1n9m 1n9y 1nbx 1nc9 1ndj 1nqm 1pts 1rst 1rsu 1rxh 1rxj 1rxk 1sld 1sle 1slf 1slg 1sre 1srf 1srg 1srh 1sri 1srj 1stp 1str 1sts 1swa 1swb 1swc 1swd 1swe 1swf 1swg 1swh 1swj 1swk 1swl 1swn 1swo 1swp 1swq 1swr 1sws 1swt 1swu 1vwa 1vwb 1vwc 1vwd 1vwe 1vwf 1vwg 1vwh 1vwi 1vwj 1vwk 1vwl 1vwm 1vwn 1vwo 1vwp 1vwq 1vwr 2bc3 2f01 2g5l 2gh7 2iza 2izb 2izc 2izd 2ize 2izf 2izg 2izh 2izi 2izj 2izk 2izl 2qcb 2rta 2rtb 2rtc 2rtd 2rte 2rtf 2rtg 2rth 2rti 2rtj 2rtk 2rtl 2rtm 2rtn 2rto 2rtp 2rtq 2rtr 2wpu 2y3e 2y3f 3mg5 3pk2 3rdm 3rdo 3rdq 3rds 3rdu 3rdx 3re5 3re6 3ry1 3ry2 3t6f 3t6l 3wyp 3wyq 3wzn 3wzo 3wzp 3wzq 3x00 4bx5 4bx6 4bx7 4cpe 4cpf 4cph 4cpi 4dne 4ekv 4gd9 4gjs 4gjv 4irw 4jo6 4oka 4y59 4y5d 4yvb 5b5f 5b5g 5cse 5f2b 5jd2 5k49 5k67 5k68 5l3y 5to2

(-) Related Entries Specified in the PDB File

1swf CIRCULAR PERMUTED STREPTAVIDIN E51/A46