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(-) Description

Title :  CRYSTAL STRUCTURE OF PSPTO -PSP PROTEIN IN COMPLEX WITH D-BETA-GLUCOSE FROM PSEUDOMONAS SYRINGAE PV. TOMATO STR. DC3000
 
Authors :  H. M. Zhang, M. Li, W. R. Chang
Date :  25 Sep 09  (Deposition) - 16 Jun 10  (Release) - 12 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Psp, Glucose Binding, Er Stressor, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. M. Zhang, Y. Gao, M. Li, W. R. Chang
Crystal Structure Of The Pspto-Psp Protein From Pseudomonas Syringae Pv. Tomato Str. Dc3000 In Complex With D-Glucose
Biochem. Biophys. Res. Commun. V. 397 82 2010
PubMed-ID: 20478270  |  Reference-DOI: 10.1016/J.BBRC.2010.05.071

(-) Compounds

Molecule 1 - ENDORIBONUCLEASE L-PSP, PUTATIVE
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PHAT2
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PSPTO0072
    Organism Scientific: PSEUDOMONAS SYRINGAE PV. TOMATO
    Organism Taxid: 323
    Strain: DC3000
    Synonym: PERCHLORIC ACID-SOLUBLE PROTEIN

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 15)

Asymmetric/Biological Unit (2, 15)
No.NameCountTypeFull Name
1BGC3Ligand/IonBETA-D-GLUCOSE
2MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:18 , GLY A:32 , ILE A:34 , ARG A:113 , GLU A:118 , HOH A:216 , HOH A:219 , PHE C:85 , ARG C:103BINDING SITE FOR RESIDUE BGC A 127
2AC2SOFTWAREPHE A:85 , ARG A:103 , TYR B:18 , GLY B:32 , ILE B:34 , ARG B:113 , GLU B:118 , HOH B:156 , HOH B:158 , HOH B:239BINDING SITE FOR RESIDUE BGC B 127
3AC3SOFTWAREPHE B:85 , ARG B:103 , TYR C:18 , GLY C:32 , ILE C:34 , ARG C:113 , GLU C:118 , HOH C:131 , HOH C:215 , HOH C:244BINDING SITE FOR RESIDUE BGC C 127

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3K0T)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Gln A:98 -Pro A:99
2Gln B:98 -Pro B:99
3Gln C:98 -Pro C:99

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3K0T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3K0T)

(-) Exons   (0, 0)

(no "Exon" information available for 3K0T)

(-) Sequences/Alignments

Asymmetric/Biological 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:123
 aligned with Q88BE5_PSESM | Q88BE5 from UniProtKB/TrEMBL  Length:126

    Alignment length:123
                                    12        22        32        42        52        62        72        82        92       102       112       122   
         Q88BE5_PSESM     3 KTVITSDKAPAAIGPYSQAIKAGNTVYMSGQIPLDPSTMELVEGIEAQITQVFENLKSVAQAAGGSFKDIVKLNIFLTDLGHFAKVNEIMGSYFSQPYPARAAIGVAALPRGAQVEMDAILVI 125
               SCOP domains d3k0ta_ A: automated matches                                                                                                SCOP domains
               CATH domains 3k0tA00 A:3-125  [code=3.30.1330.40, no name defined]                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eeee..eeeeeee............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhh........eeeeee...hhhhh.eeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k0t A   3 KTVITSDKAPAAIGPYSQAIKAGNTVYmSGQIPLDPSTmELVEGIEAQITQVFENLKSVAQAAGGSFKDIVKLNIFLTDLGHFAKVNEImGSYFSQPYPARAAIGVAALPRGAQVEmDAILVI 125
                                    12        22       |32        42        52        62        72        82        92       102       112      |122   
                                                      30-MSE     41-MSE                                             92-MSE                    119-MSE  


Chain B from PDB  Type:PROTEIN  Length:123
 aligned with Q88BE5_PSESM | Q88BE5 from UniProtKB/TrEMBL  Length:126

    Alignment length:123
                                    12        22        32        42        52        62        72        82        92       102       112       122   
         Q88BE5_PSESM     3 KTVITSDKAPAAIGPYSQAIKAGNTVYMSGQIPLDPSTMELVEGIEAQITQVFENLKSVAQAAGGSFKDIVKLNIFLTDLGHFAKVNEIMGSYFSQPYPARAAIGVAALPRGAQVEMDAILVI 125
               SCOP domains d3k0tb_ B: automated matches                                                                                                SCOP domains
               CATH domains 3k0tB00 B:3-125  [code=3.30.1330.40, no name defined]                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eeee..eeeeeee..ee....ee..hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhh.....eeeeee...hhhhh.eeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k0t B   3 KTVITSDKAPAAIGPYSQAIKAGNTVYmSGQIPLDPSTmELVEGIEAQITQVFENLKSVAQAAGGSFKDIVKLNIFLTDLGHFAKVNEImGSYFSQPYPARAAIGVAALPRGAQVEmDAILVI 125
                                    12        22       |32        42        52        62        72        82        92       102       112      |122   
                                                      30-MSE     41-MSE                                             92-MSE                    119-MSE  


Chain C from PDB  Type:PROTEIN  Length:124
 aligned with Q88BE5_PSESM | Q88BE5 from UniProtKB/TrEMBL  Length:126

    Alignment length:124
                                    12        22        32        42        52        62        72        82        92       102       112       122    
         Q88BE5_PSESM     3 KTVITSDKAPAAIGPYSQAIKAGNTVYMSGQIPLDPSTMELVEGIEAQITQVFENLKSVAQAAGGSFKDIVKLNIFLTDLGHFAKVNEIMGSYFSQPYPARAAIGVAALPRGAQVEMDAILVIE 126
               SCOP domains d3k0tc_ C: automated matches                                                                                                 SCOP domains
               CATH domains 3k0tC00 C:3-126  [code=3.30.1330.40, no name defined]                                                                        CATH domains
           Pfam domains (1) -----Ribonuc_L-PSP-3k0tC01 C:8-125                                                                                         - Pfam domains (1)
           Pfam domains (2) -----Ribonuc_L-PSP-3k0tC02 C:8-125                                                                                         - Pfam domains (2)
           Pfam domains (3) -----Ribonuc_L-PSP-3k0tC03 C:8-125                                                                                         - Pfam domains (3)
         Sec.struct. author .eee..............eeee..eeeeeee..ee....ee..hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhh.....eeeeee...hhhhh.eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k0t C   3 KTVITSDKAPAAIGPYSQAIKAGNTVYmSGQIPLDPSTmELVEGIEAQITQVFENLKSVAQAAGGSFKDIVKLNIFLTDLGHFAKVNEImGSYFSQPYPARAAIGVAALPRGAQVEmDAILVIE 126
                                    12        22       |32        42        52        62        72        82        92       102       112      |122    
                                                      30-MSE     41-MSE                                             92-MSE                    119-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Ribonuc_L-PSP] (16)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3K0T)

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