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(-) Description

Title :  CRYSTAL STRUCTURE OF ABC-TYPE SUGAR TRANSPORT SYSTEM, PERIPLASMIC COMPONENT FROM HAHELLA CHEJUENSIS
 
Authors :  A. Bagaria, D. Kumaran, S. K. Burley, S. Swaminathan, New York Sgx Re Center For Structural Genomics (Nysgxrc)
Date :  23 Nov 09  (Deposition) - 15 Dec 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A  (1x)
Biol. Unit 3:  B  (1x)
Keywords :  Abc-Type Sugar Transport System, Periplasmic Component, Psi-Ii, 11023L, Structural Genomics, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Bagaria, D. Kumaran, S. K. Burley, S. Swaminathan
Crystal Structure Of Abc-Type Sugar Transport System, Periplasmic Component From Hahella Chejuensis
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ABC-TYPE SUGAR TRANSPORT SYSTEM, PERIPLASMIC COMPONENT
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSGX3(BC)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: ABC-TYPE SUGAR TRANSPORT
    Gene: HCH_06819
    Organism Scientific: HAHELLA CHEJUENSIS
    Organism Taxid: 349521
    Strain: KCTC 2396

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (1x): A 
Biological Unit 3 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 10)

Asymmetric Unit (2, 10)
No.NameCountTypeFull Name
1BDR2Ligand/IonBETA-D-RIBOFURANOSYL
2MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 10)
No.NameCountTypeFull Name
1BDR2Ligand/IonBETA-D-RIBOFURANOSYL
2MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
1BDR1Ligand/IonBETA-D-RIBOFURANOSYL
2MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (2, 5)
No.NameCountTypeFull Name
1BDR1Ligand/IonBETA-D-RIBOFURANOSYL
2MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:19 , LYS A:46 , TYR A:52 , ASP A:129 , LEU A:173 , ASN A:177 , SER A:179 , ARG A:183 , ASN A:233 , ASP A:259 , GLN A:279BINDING SITE FOR RESIDUE BDR A 1
2AC2SOFTWAREHOH B:21 , LYS B:46 , TYR B:52 , ASP B:129 , ASN B:177 , SER B:179 , ARG B:183 , ASN B:233 , ASP B:259 , GLN B:279BINDING SITE FOR RESIDUE BDR B 1

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3KSM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3KSM)

(-) 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:276
 aligned with Q2S7D2_HAHCH | Q2S7D2 from UniProtKB/TrEMBL  Length:318

    Alignment length:276
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308      
         Q2S7D2_HAHCH    39 PKLLLVLKGDSNAYWRQVYLGAQKAADEAGVTLLHRSTKDDGDIAGQIQILSYHLSQAPPDALILAPNSAEDLTPSVAQYRARNIPVLVVDSDLAGDAHQGLVATDNYAAGQLAARALLATLDLSKERNIALLRLRAGNASTDQREQGFLDVLRKHDKIRIIAAPYAGDDRGAARSEMLRLLKETPTIDGLFTPNESTTIGALVAIRQSGMSKQFGFIGFDQTEELEAAMYAGEISNLVVQNPEYMGYLAVQRALDLVRGKPIPAFTDTGVRLLQP 314
               SCOP domains d3ksma_ A: automated matches                                                                                                                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhhhhhhhh.eeee.......hhhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhh...eeee..........eeee.hhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhhh....eeeee......hhhhhhhhhhhhhhhh....eee..hhhhhhhhhhhhhhh......eeeee..hhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhh......eee...ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3ksm A  39 PKLLLVLKGDSNAYWRQVYLGAQKAADEAGVTLLHRSTKDDGDIAGQIQILSYHLSQAPPDALILAPNSAEDLTPSVAQYRARNIPVLVVDSDLAGDAHQGLVATDNYAAGQLAARALLATLDLSKERNIALLRLRAGNASTDQREQGFLDVLRKHDKIRIIAAPYAGDDRGAARSEmLRLLKETPTIDGLFTPNESTTIGALVAIRQSGmSKQFGFIGFDQTEELEAAmYAGEISNLVVQNPEYmGYLAVQRALDLVRGKPIPAFTDTGVRLLQE 314
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248|      258       268       278     | 288       298       308      
                                                                                                                                                                                                           216-MSE                          249-MSE            268-MSE         284-MSE                          


Chain B from PDB  Type:PROTEIN  Length:274
 aligned with Q2S7D2_HAHCH | Q2S7D2 from UniProtKB/TrEMBL  Length:318

    Alignment length:275
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309     
         Q2S7D2_HAHCH    40 KLLLVLKGDSNAYWRQVYLGAQKAADEAGVTLLHRSTKDDGDIAGQIQILSYHLSQAPPDALILAPNSAEDLTPSVAQYRARNIPVLVVDSDLAGDAHQGLVATDNYAAGQLAARALLATLDLSKERNIALLRLRAGNASTDQREQGFLDVLRKHDKIRIIAAPYAGDDRGAARSEMLRLLKETPTIDGLFTPNESTTIGALVAIRQSGMSKQFGFIGFDQTEELEAAMYAGEISNLVVQNPEYMGYLAVQRALDLVRGKPIPAFTDTGVRLLQP 314
               SCOP domains d3ksmb_ B: automated matches                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -Peripla_BP_4-3ksmB01 B:41-300                                                                                                                                                                                                                                       -------------- Pfam domains (1)
           Pfam domains (2) -Peripla_BP_4-3ksmB02 B:41-300                                                                                                                                                                                                                                       -------------- Pfam domains (2)
         Sec.struct. author .eeee......hhhhhhhhhhhhhhhhhh..eee.......hhhhhhhhhhhhhhh.-..eeee.......hhhhhhhhhhh...eeee..........eeee.hhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhhh....eeeee......hhhhhhhhhhhhhhhh....eee..hhhhhhhhhhhhhhh......eeeee..hhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhhh.....eee...ee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ksm B  40 KLLLVLKGDSNAYWRQVYLGAQKAADEAGVTLLHRSTKDDGDIAGQIQILSYHLSQA-PDALILAPNSAEDLTPSVAQYRARNIPVLVVDSDLAGDAHQGLVATDNYAAGQLAARALLATLDLSKERNIALLRLRAGNASTDQREQGFLDVLRKHDKIRIIAAPYAGDDRGAARSEmLRLLKETPTIDGLFTPNESTTIGALVAIRQSGmSKQFGFIGFDQTEELEAAmYAGEISNLVVQNPEYmGYLAVQRALDLVRGKPIPAFTDTGVRLLQE 314
                                    49        59        69        79        89      | 99       109       119       129       139       149       159       169       179       189       199       209      |219       229       239       249       259       269       279    |  289       299       309     
                                                                                   96 |                                                                                                                   216-MSE                          249-MSE            268-MSE         284-MSE                          
                                                                                     98
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3KSM)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Periplas_BP (97)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q2S7D2_HAHCH | Q2S7D2)
biological process
    GO:0008643    carbohydrate transport    The directed movement of carbohydrate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carbohydrates are any of a group of organic compounds based of the general formula Cx(H2O)y.

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