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(-) Description

Title :  CRYSTAL STRUCTURE OF NOVEL AMINO ACID BINDING PROTEIN FROM SHIGELLA FLEXNERI
 
Authors :  C. P. Fan, D. C. Wang
Date :  07 Sep 06  (Deposition) - 21 Aug 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Beta-Alpha Mixture, Protein Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. P. Fan, D. C. Wang
Structural And Functional Study Of Novel Amino Acid Binding Protein From Shigella Flexneri
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PUTATIVE PERIPLASMIC BINDING TRANSPORT PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B(+)
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 1-279
    Organism Scientific: SHIGELLA FLEXNERI 2A STR. 301
    Organism Taxid: 198214
    Strain: 2A 301

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 20)

Asymmetric Unit (3, 20)
No.NameCountTypeFull Name
1GLU2Mod. Amino AcidGLUTAMIC ACID
2MSE16Mod. Amino AcidSELENOMETHIONINE
3TRS2Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 1 (3, 10)
No.NameCountTypeFull Name
1GLU1Mod. Amino AcidGLUTAMIC ACID
2MSE8Mod. Amino AcidSELENOMETHIONINE
3TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 2 (3, 10)
No.NameCountTypeFull Name
1GLU1Mod. Amino AcidGLUTAMIC ACID
2MSE8Mod. Amino AcidSELENOMETHIONINE
3TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:105 , ASP A:227 , ASP A:275 , HOH A:1485 , HOH A:1524 , HOH A:1730BINDING SITE FOR RESIDUE TRS A 1296
2AC2SOFTWAREASP B:105 , ARG B:157 , ASP B:227 , ASP B:275 , HOH B:2471 , HOH B:2479 , HOH B:2719 , HOH B:2725BINDING SITE FOR RESIDUE TRS B 1197
3AC3SOFTWAREARG A:24 , SER A:72 , ARG A:75 , SER A:90 , THR A:91 , THR A:92 , ARG A:97 , THR A:139 , THR A:140 , HIS A:164 , MSE A:181 , ASP A:182 , LEU A:185 , TYR A:211BINDING SITE FOR RESIDUE GLU A 1401
4AC4SOFTWAREARG B:24 , SER B:72 , ARG B:75 , SER B:90 , THR B:91 , THR B:92 , ARG B:97 , THR B:139 , THR B:140 , HIS B:164 , MSE B:181 , ASP B:182 , LEU B:185 , TYR B:211BINDING SITE FOR RESIDUE GLU B 2401

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:88 -A:213
2B:88 -B:213

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Val A:28 -Pro A:29
2Pro A:252 -Pro A:253
3Val B:28 -Pro B:29
4Pro B:252 -Pro B:253

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2IA4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2IA4)

(-) Exons   (0, 0)

(no "Exon" information available for 2IA4)

(-) 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:277
 aligned with A0A0H2VVF4_S | A0A0H2VVF4 from UniProtKB/TrEMBL  Length:302

    Alignment length:277
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       
         A0A0H2VVF4_S    26 APAAGSTLDKIAKNGVIVVGHRESSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPITSQNRIPLLQNGTFDFECGSTTNNVERQKQAAFSDTIFVVGTRLLTKKGGDIKDFADLKGKAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWDIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQVQTSGEAEKWFDKWFKNPIPPKNLNMNFELSDEMKALFKEPNDKALN 302
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhheeeeee..ee...eee.....eehhhhhhhhhhhhhhhhhh.....eeeeee....hhhhhhhh....ee........hhhhh.eeeeeeeeeeeeeeee......hhhhhh..eeeee..hhhhhhhhhhhhhh....eeeee.hhhhhhhhhhh....eeeeehhhhhhhhh...hhh.eeee.....eeeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ia4 A   3 APAAGSTLDKIAKNGVIVVGHRESSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPITSQNRIPLLQNGTFDFECGSTTNNVERQKQAAFSDTIFVVGTRLLTKKGGDIKDFADLKGKAVVVTSGTTSEVLLNKLNEEQKmNmRIISAKDHGDSFRTLESGRAVAFmmDDALLAGERAKAKKPDNWDIVGKPQSQEAYGCmLRKDDPQFKKLmDDTIAQVQTSGEAEKWFDKWFKNPIPPKNLNmNFELSDEmKALFKEPNDKALN 279
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152 | |   162       172       182       192       202       212 |     222   |   232       242       252     | 262   |   272       
                                                                                                                                                                                 154-MSE                   180-MSE                           214-MSE     226-MSE                         258-MSE 266-MSE         
                                                                                                                                                                                   156-MSE                  181-MSE                                                                                              


Chain B from PDB  Type:PROTEIN  Length:278
 aligned with A0A0H2VVF4_S | A0A0H2VVF4 from UniProtKB/TrEMBL  Length:302

    Alignment length:278
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294        
         A0A0H2VVF4_S    25 AAPAAGSTLDKIAKNGVIVVGHRESSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPITSQNRIPLLQNGTFDFECGSTTNNVERQKQAAFSDTIFVVGTRLLTKKGGDIKDFADLKGKAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWDIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQVQTSGEAEKWFDKWFKNPIPPKNLNMNFELSDEMKALFKEPNDKALN 302
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhheeeeee..ee...eee.....eehhhhhhhhhhhhhhhhhh.....eeeeee....hhhhhhhh....ee........hhhhh.eeeeeeeeeeeeeeee......hhhhhh..eeeee..hhhhhhhhhhhhhh....eeeee.hhhhhhhhhhh....eeeeehhhhhhhhh...hhh.eeee.....eeeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ia4 B   2 AAPAAGSTLDKIAKNGVIVVGHRESSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPITSQNRIPLLQNGTFDFECGSTTNNVERQKQAAFSDTIFVVGTRLLTKKGGDIKDFADLKGKAVVVTSGTTSEVLLNKLNEEQKmNmRIISAKDHGDSFRTLESGRAVAFmmDDALLAGERAKAKKPDNWDIVGKPQSQEAYGCmLRKDDPQFKKLmDDTIAQVQTSGEAEKWFDKWFKNPIPPKNLNmNFELSDEmKALFKEPNDKALN 279
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151  | |  161       171       181       191       201       211  |    221    |  231       241       251      |261    |  271        
                                                                                                                                                                                  154-MSE                   180-MSE                           214-MSE     226-MSE                         258-MSE 266-MSE         
                                                                                                                                                                                    156-MSE                  181-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  (0, 0)

(no "SCOP Domain" information available for 2IA4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2IA4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2IA4)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2IA4)

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        A0A0H2VVF4_S | A0A0H2VVF4: 2vha

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