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(-) Description

Title :  CRYSTAL STRUCTURE OF FMN-BINDING PROTEIN (YP_005476) FROM THERMUS THERMOPHILUS WITH BOUND 1-CYCLOHEX-2-ENONE
 
Authors :  T. Pavkov-Keller, G. Steinkellner, C. C. Gruber, K. Steiner, C. Winkle O. Schwamberger, H. Schwab, K. Faber, K. Gruber
Date :  21 Feb 13  (Deposition) - 14 May 14  (Release) - 02 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  C,D  (1x)
Biol. Unit 2:  A,B  (1x)
Keywords :  Fmn-Binding Protein, Cyclohexenone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Steinkellner, C. C. Gruber, T. Pavkov-Keller, A. Binter, K. Steiner, C. Winkler, A. Lyskowski, O. Schwamberger, M. Oberer, H. Schwab, K. Faber, P. Macheroux, K. Gruber
Identification Of Promiscuous Ene-Reductase Activity By Mining Structural Databases Using Active Site Constellations.
Nat. Commun. V. 5 4150 2014
PubMed-ID: 24954722  |  Reference-DOI: 10.1038/NCOMMS5150

(-) Compounds

Molecule 1 - FLAVOREDOXIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 262724
    Strain: HB27

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x):   CD
Biological Unit 2 (1x): AB  

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1A2Q4Ligand/IonCYCLOHEX-2-EN-1-ONE
2FMN4Ligand/IonFLAVIN MONONUCLEOTIDE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1A2Q2Ligand/IonCYCLOHEX-2-EN-1-ONE
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1A2Q2Ligand/IonCYCLOHEX-2-EN-1-ONE
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:17 , TRP A:39 , ARG A:58 , HIS A:131 , FMN A:300 , HOH A:2151BINDING SITE FOR RESIDUE A2Q A 200
2AC2SOFTWAREASN A:33 , CYS A:35 , PRO A:36 , ALA A:37 , VAL A:38 , TRP A:39 , SER A:53 , ILE A:54 , SER A:55 , ARG A:58 , PHE A:59 , THR A:60 , GLY A:87 , HIS A:89 , SER A:90 , GLY A:91 , LYS A:96 , HIS A:131 , TYR A:162 , TYR A:168 , A2Q A:200 , HOH A:2094 , HOH A:2163BINDING SITE FOR RESIDUE FMN A 300
3AC3SOFTWAREVAL B:38 , TRP B:39 , ARG B:58 , HIS B:131 , FMN B:300 , HOH B:2018 , HOH B:2120BINDING SITE FOR RESIDUE A2Q B 200
4AC4SOFTWAREASN B:33 , CYS B:35 , PRO B:36 , ALA B:37 , VAL B:38 , TRP B:39 , SER B:53 , ILE B:54 , SER B:55 , ARG B:58 , PHE B:59 , THR B:60 , GLY B:87 , HIS B:89 , SER B:90 , GLY B:91 , LYS B:96 , HIS B:131 , TYR B:162 , TYR B:168 , A2Q B:200 , HOH B:2079 , HOH B:2132 , HOH B:2133BINDING SITE FOR RESIDUE FMN B 300
5AC5SOFTWARETRP C:39 , ARG C:58 , HIS C:131 , FMN C:300 , HOH C:2025 , HOH C:2030 , HOH C:2186BINDING SITE FOR RESIDUE A2Q C 200
6AC6SOFTWAREASN C:33 , CYS C:35 , PRO C:36 , ALA C:37 , VAL C:38 , TRP C:39 , SER C:53 , ILE C:54 , SER C:55 , ARG C:58 , PHE C:59 , THR C:60 , LEU C:86 , GLY C:87 , HIS C:89 , SER C:90 , GLY C:91 , LYS C:96 , HIS C:131 , TYR C:162 , TYR C:168 , A2Q C:200 , HOH C:2118 , HOH C:2188 , HOH C:2189BINDING SITE FOR RESIDUE FMN C 300
7AC7SOFTWAREVAL D:38 , TRP D:39 , ARG D:58 , HIS D:131 , FMN D:300 , HOH D:2014 , HOH D:2134BINDING SITE FOR RESIDUE A2Q D 200
8AC8SOFTWAREASN D:33 , CYS D:35 , PRO D:36 , ALA D:37 , VAL D:38 , TRP D:39 , SER D:53 , ILE D:54 , SER D:55 , ARG D:58 , PHE D:59 , THR D:60 , GLY D:87 , HIS D:89 , SER D:90 , GLY D:91 , LYS D:96 , HIS D:131 , TYR D:162 , TYR D:168 , A2Q D:200 , HOH D:2081 , HOH D:2135BINDING SITE FOR RESIDUE FMN D 300

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Tyr A:17 -Pro A:18
2Asp A:46 -Pro A:47
3Tyr B:17 -Pro B:18
4Asp B:46 -Pro B:47
5Tyr C:17 -Pro C:18
6Asp C:46 -Pro C:47
7Tyr D:17 -Pro D:18
8Asp D:46 -Pro D:47

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3ZOH)

(-) 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:178
 aligned with Q72HI0_THET2 | Q72HI0 from UniProtKB/TrEMBL  Length:178

    Alignment length:178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170        
         Q72HI0_THET2     1 MRSYRAQGPLPGFYHYYPGVPAVVGVRVEERVNFCPAVWNTGLSADPPLFGVSISPKRFTHGLLLKARRFSASFHPFGQKDLVHWLGSHSGREVDKGQAPHFLGHTGVPILEGAYAAYELELLEVHTFGDHDLFVGRVVAVWEEEGLLDEKGRPKPGLALLYYGKGLYGRPAEETFAP 178
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee................eeeeeee..eeeeeee..eeeee....eeeeee...hhhhhhhhhhheeeeee....hhhhhhhhh.......hhhhh.eee.....eee....eeeeeeeeeeeee..eeeeeeeeeeeee.................eeee..eee......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zoh A   1 MRSYRAQGPLPGFYHYYPGVPAVVGVRVEERVNFCPAVWNTGLSADPPLFGVSISPKRFTHGLLLKARRFSASFHPFGQKDLVHWLGSHSGREVDKGQAPHFLGHTGVPILEGAYAAYELELLEVHTFGDHDLFVGRVVAVWEEEGLLDEKGRPKPGLALLYYGKGLYGRPAEETFAP 178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170        


Chain B from PDB  Type:PROTEIN  Length:178
 aligned with Q72HI0_THET2 | Q72HI0 from UniProtKB/TrEMBL  Length:178

    Alignment length:178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170        
         Q72HI0_THET2     1 MRSYRAQGPLPGFYHYYPGVPAVVGVRVEERVNFCPAVWNTGLSADPPLFGVSISPKRFTHGLLLKARRFSASFHPFGQKDLVHWLGSHSGREVDKGQAPHFLGHTGVPILEGAYAAYELELLEVHTFGDHDLFVGRVVAVWEEEGLLDEKGRPKPGLALLYYGKGLYGRPAEETFAP 178
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee................eeeeeee..eeeeeee..eeeee....eeeeee...hhhhhhhhhhheeeeee....hhhhhhhhh.......hhhhh.eee.....eee....eeeeeeeeeeeee..eeeeeeeeeeeee.hhh.............eeee..eee......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zoh B   1 MRSYRAQGPLPGFYHYYPGVPAVVGVRVEERVNFCPAVWNTGLSADPPLFGVSISPKRFTHGLLLKARRFSASFHPFGQKDLVHWLGSHSGREVDKGQAPHFLGHTGVPILEGAYAAYELELLEVHTFGDHDLFVGRVVAVWEEEGLLDEKGRPKPGLALLYYGKGLYGRPAEETFAP 178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170        


Chain C from PDB  Type:PROTEIN  Length:178
 aligned with Q72HI0_THET2 | Q72HI0 from UniProtKB/TrEMBL  Length:178

    Alignment length:178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170        
         Q72HI0_THET2     1 MRSYRAQGPLPGFYHYYPGVPAVVGVRVEERVNFCPAVWNTGLSADPPLFGVSISPKRFTHGLLLKARRFSASFHPFGQKDLVHWLGSHSGREVDKGQAPHFLGHTGVPILEGAYAAYELELLEVHTFGDHDLFVGRVVAVWEEEGLLDEKGRPKPGLALLYYGKGLYGRPAEETFAP 178
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee................eeeeeee..eeeeeee..eeeee....eeeeee...hhhhhhhhhhheeeeee....hhhhhhhhh.......hhhhh.eee.....eee....eeeeeeeeeeeee..eeeeeeeeeeeee.................eeee..eee......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zoh C   1 MRSYRAQGPLPGFYHYYPGVPAVVGVRVEERVNFCPAVWNTGLSADPPLFGVSISPKRFTHGLLLKARRFSASFHPFGQKDLVHWLGSHSGREVDKGQAPHFLGHTGVPILEGAYAAYELELLEVHTFGDHDLFVGRVVAVWEEEGLLDEKGRPKPGLALLYYGKGLYGRPAEETFAP 178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170        


Chain D from PDB  Type:PROTEIN  Length:178
 aligned with Q72HI0_THET2 | Q72HI0 from UniProtKB/TrEMBL  Length:178

    Alignment length:178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170        
         Q72HI0_THET2     1 MRSYRAQGPLPGFYHYYPGVPAVVGVRVEERVNFCPAVWNTGLSADPPLFGVSISPKRFTHGLLLKARRFSASFHPFGQKDLVHWLGSHSGREVDKGQAPHFLGHTGVPILEGAYAAYELELLEVHTFGDHDLFVGRVVAVWEEEGLLDEKGRPKPGLALLYYGKGLYGRPAEETFAP 178
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee................eeeeeee..eeeeeee..eeeee....eeeeee...hhhhhhhhhhheeeeee....hhhhhhhhh.......hhhhh.eee.....eee....eeeeeeeeeeeee..eeeeeeeeeeeee.................eeee..eee......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zoh D   1 MRSYRAQGPLPGFYHYYPGVPAVVGVRVEERVNFCPAVWNTGLSADPPLFGVSISPKRFTHGLLLKARRFSASFHPFGQKDLVHWLGSHSGREVDKGQAPHFLGHTGVPILEGAYAAYELELLEVHTFGDHDLFVGRVVAVWEEEGLLDEKGRPKPGLALLYYGKGLYGRPAEETFAP 178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   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 3ZOH)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3ZOH)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q72HI0_THET2 | Q72HI0)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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 Related Entries

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

UniProtKB/TrEMBL
        Q72HI0_THET2 | Q72HI0: 3zoe 3zof

(-) Related Entries Specified in the PDB File

3zoc CRYSTAL STRUCTURE OF FMN-BINDING PROTEIN (NP_142786.1) FROM PYROCOCCUS HORIKOSHII WITH BOUND P- HYDROXYBENZALDEHYDE
3zod CRYSTAL STRUCTURE OF FMN-BINDING PROTEIN (NP_142786.1) FROM PYROCOCCUS HORIKOSHII WITH BOUND BENZENE-1,4-DIOL
3zoe CRYSTAL STRUCTURE OF FMN-BINDING PROTEIN (YP_005476) FROM THERMUS THERMOPHILUS WITH BOUND P-HYDROXYBENZALDEHYDE
3zof CRYSTAL STRUCTURE OF FMN-BINDING PROTEIN (YP_005476) FROM THERMUS THERMOPHILUS WITH BOUND BENZENE-1,4-DIOL
3zog CRYSTAL STRUCTURE OF FMN-BINDING PROTEIN (NP_142786.1) FROM PYROCOCCUS HORIKOSHII WITH BOUND 1-CYCLOHEX-2- ENONE