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(-) Description

Title :  CRYSTAL STRUCTURE OF STS042, A STAND-ALONE RAM MODULE PROTEIN, FROM HYPERTHERMOPHILIC ARCHAEON SULFOLOBUS TOKODAII STRAIN7.
 
Authors :  K. Miyazono, M. Tsujimura, Y. Kawarabayasi, M. Tanokura
Date :  19 Oct 07  (Deposition) - 11 Mar 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D  (2x)
Biol. Unit 2:  E,F,G,H  (2x)
Keywords :  Sard, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Miyazono, M. Tsujimura, Y. Kawarabayasi, M. Tanokura
Crystal Structure Of Sts042, A Stand-Alone Ram Module Protein, From Hyperthermophilic Archaeon Sulfolobus Tokodai Strain7
Proteins V. 71 1557 2008
PubMed-ID: 18300246  |  Reference-DOI: 10.1002/PROT.21987

(-) Compounds

Molecule 1 - 83AA LONG HYPOTHETICAL TRANSCRIPTIONAL REGULATOR ASNC
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21(+)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: SULFOLOBUS TOKODAII
    Organism Taxid: 273063
    Strain: 7
    Synonym: STAND-ALONE RAM MODULE PROTEIN

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (2x): ABCD    
Biological Unit 2 (2x):     EFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 32)

Asymmetric Unit (2, 32)
No.NameCountTypeFull Name
1ILE8Mod. Amino AcidISOLEUCINE
2MSE24Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 32)
No.NameCountTypeFull Name
1ILE8Mod. Amino AcidISOLEUCINE
2MSE24Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 32)
No.NameCountTypeFull Name
1ILE8Mod. Amino AcidISOLEUCINE
2MSE24Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:69 , THR A:71 , GLU D:15 , TYR D:35 , GLY D:36 , TYR D:38 , ASP D:39BINDING SITE FOR RESIDUE ILE A 84
2AC2SOFTWARELYS B:53 , THR B:57 , THR B:69 , THR B:71 , GLU C:15 , GLY C:36 , TYR C:38 , ASP C:39BINDING SITE FOR RESIDUE ILE B 84
3AC3SOFTWAREGLU A:15 , TYR A:35 , GLY A:36 , TYR A:38 , ASP A:39 , LYS C:53 , THR C:69 , THR C:71BINDING SITE FOR RESIDUE ILE A 85
4AC4SOFTWAREGLU B:15 , TYR B:35 , GLY B:36 , TYR B:38 , ASP B:39 , THR D:69 , THR D:71BINDING SITE FOR RESIDUE ILE B 85
5AC5SOFTWARELYS E:53 , THR E:57 , THR E:69 , LEU E:70 , THR E:71BINDING SITE FOR RESIDUE ILE E 84
6AC6SOFTWARELYS F:53 , THR F:69 , THR F:71BINDING SITE FOR RESIDUE ILE F 84
7AC7SOFTWAREGLU E:15 , TYR E:35 , GLY E:36 , TYR E:38 , ASP E:39 , THR G:69 , THR G:71BINDING SITE FOR RESIDUE ILE G 84
8AC8SOFTWAREGLU F:15 , GLY F:36 , TYR F:38 , ASP F:39 , LYS H:53 , THR H:69 , THR H:71BINDING SITE FOR RESIDUE ILE F 85

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ZBC)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ZBC)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2ZBC)

(-) 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:83
 aligned with Q975W5_SULTO | Q975W5 from UniProtKB/TrEMBL  Length:83

    Alignment length:84
                                                                                                            83  
                                    11        21        31        41        51        61        71        81 |  
          Q975W5_SULTO    2 ASAIVLINTDAGGEDEVFERLKSMSEVTEVHVVYGVYDIVVKVEADSMDKLKDFVTNTIRKLPKVRSTLTMIIVEGKSLVKK--  -
               SCOP domains ------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhh....eeeeee......eeeeee..hhhhhhhhhhhhhhhh..eeeeeeee.........-.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------ Transcript
                  2zbc A  2 ASAIVLINTDAGGEDEVFERLKSmSEVTEVHVVYGVYDIVVKVEADSmDKLKDFVTNTIRKLPKVRSTLTmIIVEGKSLVK-II 85
                                    11        21   |    31        41       |51        61        71|       81| | 
                                                  25-MSE                  49-MSE                 72-MSE    82 | 
                                                                                                             84 


Chain B from PDB  Type:PROTEIN  Length:83
 aligned with Q975W5_SULTO | Q975W5 from UniProtKB/TrEMBL  Length:83

    Alignment length:83
                                                                                                            83 
                                    11        21        31        41        51        61        71        81 | 
          Q975W5_SULTO    2 ASAIVLINTDAGGEDEVFERLKSMSEVTEVHVVYGVYDIVVKVEADSMDKLKDFVTNTIRKLPKVRSTLTMIIVEGKSLVKK-  -
               SCOP domains ----------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhh...eeeeee......eeeeee..hhhhhhhhhhhhhhhh..eeeeeeee........... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  2zbc B  2 ASAIVLINTDAGGEDEVFERLKSmSEVTEVHVVYGVYDIVVKVEADSmDKLKDFVTNTIRKLPKVRSTLTmIIVEGKSLVKII 85
                                    11        21   |    31        41       |51        61        71|       81|| 
                                                  25-MSE                  49-MSE                 72-MSE    82| 
                                                                                                            84 


Chain C from PDB  Type:PROTEIN  Length:81
 aligned with Q975W5_SULTO | Q975W5 from UniProtKB/TrEMBL  Length:83

    Alignment length:81
                                    11        21        31        41        51        61        71        81 
          Q975W5_SULTO    2 ASAIVLINTDAGGEDEVFERLKSMSEVTEVHVVYGVYDIVVKVEADSMDKLKDFVTNTIRKLPKVRSTLTMIIVEGKSLVK 82
               SCOP domains --------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhh...eeeeee......eeeeee..hhhhhhhhhhhhhhhh..eeeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                  2zbc C  2 ASAIVLINTDAGGEDEVFERLKSmSEVTEVHVVYGVYDIVVKVEADSmDKLKDFVTNTIRKLPKVRSTLTmIIVEGKSLVK 82
                                    11        21   |    31        41       |51        61        71|       81 
                                                  25-MSE                  49-MSE                 72-MSE      


Chain D from PDB  Type:PROTEIN  Length:81
 aligned with Q975W5_SULTO | Q975W5 from UniProtKB/TrEMBL  Length:83

    Alignment length:81
                                    11        21        31        41        51        61        71        81 
          Q975W5_SULTO    2 ASAIVLINTDAGGEDEVFERLKSMSEVTEVHVVYGVYDIVVKVEADSMDKLKDFVTNTIRKLPKVRSTLTMIIVEGKSLVK 82
               SCOP domains --------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhh...eeeeee......eeeeee..hhhhhhhhhhhhhhhh..eeeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                  2zbc D  2 ASAIVLINTDAGGEDEVFERLKSmSEVTEVHVVYGVYDIVVKVEADSmDKLKDFVTNTIRKLPKVRSTLTmIIVEGKSLVK 82
                                    11        21   |    31        41       |51        61        71|       81 
                                                  25-MSE                  49-MSE                 72-MSE      


Chain E from PDB  Type:PROTEIN  Length:82
 aligned with Q975W5_SULTO | Q975W5 from UniProtKB/TrEMBL  Length:83

    Alignment length:82
                                    11        21        31        41        51        61        71        81  
          Q975W5_SULTO    2 ASAIVLINTDAGGEDEVFERLKSMSEVTEVHVVYGVYDIVVKVEADSMDKLKDFVTNTIRKLPKVRSTLTMIIVEGKSLVKK 83
               SCOP domains ---------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhh...eeeeeee.....eeeeee..hhhhhhhhhhhhhhhh..eeeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------- Transcript
                  2zbc E  2 ASAIVLINTDAGGEDEVFERLKSmSEVTEVHVVYGVYDIVVKVEADSmDKLKDFVTNTIRKLPKVRSTLTmIIVEGKSLVKI 84
                                    11        21   |    31        41       |51        61        71|       81||
                                                  25-MSE                  49-MSE                 72-MSE    82|
                                                                                                            84


Chain F from PDB  Type:PROTEIN  Length:83
 aligned with Q975W5_SULTO | Q975W5 from UniProtKB/TrEMBL  Length:83

    Alignment length:83
                                                                                                            83 
                                    11        21        31        41        51        61        71        81 | 
          Q975W5_SULTO    2 ASAIVLINTDAGGEDEVFERLKSMSEVTEVHVVYGVYDIVVKVEADSMDKLKDFVTNTIRKLPKVRSTLTMIIVEGKSLVKK-  -
               SCOP domains ----------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhh...eeeeeee.....eeeeee..hhhhhhhhhhhhhhhh..eeeeeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                  2zbc F  2 ASAIVLINTDAGGEDEVFERLKSmSEVTEVHVVYGVYDIVVKVEADSmDKLKDFVTNTIRKLPKVRSTLTmIIVEGKSLVKII 85
                                    11        21   |    31        41       |51        61        71|       81|| 
                                                  25-MSE                  49-MSE                 72-MSE    82| 
                                                                                                            84 


Chain G from PDB  Type:PROTEIN  Length:82
 aligned with Q975W5_SULTO | Q975W5 from UniProtKB/TrEMBL  Length:83

    Alignment length:82
                                    11        21        31        41        51        61        71        81  
          Q975W5_SULTO    2 ASAIVLINTDAGGEDEVFERLKSMSEVTEVHVVYGVYDIVVKVEADSMDKLKDFVTNTIRKLPKVRSTLTMIIVEGKSLVKK 83
               SCOP domains ---------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhh....eeeeeee.....eeeeee..hhhhhhhhhhhhhhhh..eeeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------- Transcript
                  2zbc G  2 ASAIVLINTDAGGEDEVFERLKSmSEVTEVHVVYGVYDIVVKVEADSmDKLKDFVTNTIRKLPKVRSTLTmIIVEGKSLVKI 84
                                    11        21   |    31        41       |51        61        71|       81||
                                                  25-MSE                  49-MSE                 72-MSE    82|
                                                                                                            84


Chain H from PDB  Type:PROTEIN  Length:81
 aligned with Q975W5_SULTO | Q975W5 from UniProtKB/TrEMBL  Length:83

    Alignment length:81
                                    11        21        31        41        51        61        71        81 
          Q975W5_SULTO    2 ASAIVLINTDAGGEDEVFERLKSMSEVTEVHVVYGVYDIVVKVEADSMDKLKDFVTNTIRKLPKVRSTLTMIIVEGKSLVK 82
               SCOP domains --------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----AsnC_trans_reg-2zbcH01 H:6-77                                           ----- Pfam domains (1)
           Pfam domains (2) ----AsnC_trans_reg-2zbcH02 H:6-77                                           ----- Pfam domains (2)
           Pfam domains (3) ----AsnC_trans_reg-2zbcH03 H:6-77                                           ----- Pfam domains (3)
           Pfam domains (4) ----AsnC_trans_reg-2zbcH04 H:6-77                                           ----- Pfam domains (4)
           Pfam domains (5) ----AsnC_trans_reg-2zbcH05 H:6-77                                           ----- Pfam domains (5)
           Pfam domains (6) ----AsnC_trans_reg-2zbcH06 H:6-77                                           ----- Pfam domains (6)
           Pfam domains (7) ----AsnC_trans_reg-2zbcH07 H:6-77                                           ----- Pfam domains (7)
           Pfam domains (8) ----AsnC_trans_reg-2zbcH08 H:6-77                                           ----- Pfam domains (8)
         Sec.struct. author .eeeeeeee...hhhhhhhhhhh...eeeeeee.....eeeeee..hhhhhhhhhhhhhhhh..eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                  2zbc H  2 ASAIVLINTDAGGEDEVFERLKSmSEVTEVHVVYGVYDIVVKVEADSmDKLKDFVTNTIRKLPKVRSTLTmIIVEGKSLVK 82
                                    11        21   |    31        41       |51        61        71|       81 
                                                  25-MSE                  49-MSE                 72-MSE
   Legend:   → Mismatch (orange background)
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    → 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 2ZBC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 8)

Asymmetric Unit
(-)
Clan: Dim_A_B_barrel (36)

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