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(-) Description

Title :  CRYSTAL STRUCTURE OF NAPHTHALENE 1,2-DIOXYGENASE FROM RHODOCOCCUS SP.
 
Authors :  L. Gakhar, Z. A. Malik, C. C. Allen, D. A. Lipscomb, M. J. Larkin, S. Ramas
Date :  16 Sep 05  (Deposition) - 04 Oct 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Rieske Non-Heme Iron Oxygenase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Gakhar, Z. A. Malik, C. C. Allen, D. A. Lipscomb, M. J. Larkin, S. Ramaswamy
Structure And Increased Thermostability Of Rhodococcus Sp. Naphthalene 1, 2-Dioxygenase.
J. Bacteriol. V. 187 7222 2005
PubMed-ID: 16237006  |  Reference-DOI: 10.1128/JB.187.21.7222-7231.2005

(-) Compounds

Molecule 1 - NAPHTHALENE DIOXYGENASE LARGE SUBUNIT
    Chains: A, C, E
    EC Number: 1.14.12.12
    Organism Scientific: RHODOCOCCUS SP.
    Organism Taxid: 92694
    Strain: NCIMB12038
 
Molecule 2 - NAPHTHALENE DIOXYGENASE SMALL SUBUNIT
    Chains: B, D, F
    EC Number: 1.14.12.12
    Organism Scientific: RHODOCOCCUS SP.
    Organism Taxid: 92694
    Strain: NCIMB12038

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 19)

Asymmetric/Biological Unit (3, 19)
No.NameCountTypeFull Name
1FE3Ligand/IonFE (III) ION
2FES3Ligand/IonFE2/S2 (INORGANIC) CLUSTER
3MPD13Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:216 , HIS A:221 , ASP A:372 , HOH A:1961 , HOH A:1962BINDING SITE FOR RESIDUE FE A 502
02AC2SOFTWAREHIS C:216 , HIS C:221 , ASP C:372 , HOH C:1957 , HOH C:1958BINDING SITE FOR RESIDUE FE C 502
03AC3SOFTWAREHIS E:216 , HIS E:221 , ASP E:372 , HOH E:2010 , HOH E:2011BINDING SITE FOR RESIDUE FE E 502
04AC4SOFTWARECYS A:88 , HIS A:90 , ARG A:91 , CYS A:108 , HIS A:111 , GLY A:112 , TRP A:113BINDING SITE FOR RESIDUE FES A 501
05AC5SOFTWARECYS C:88 , HIS C:90 , ARG C:91 , CYS C:108 , TYR C:110 , HIS C:111 , TRP C:113BINDING SITE FOR RESIDUE FES C 501
06AC6SOFTWARECYS E:88 , HIS E:90 , ARG E:91 , CYS E:108 , HIS E:111 , TRP E:113BINDING SITE FOR RESIDUE FES E 501
07AC7SOFTWAREASP A:213 , HIS A:216 , THR A:217 , HIS A:221 , HIS A:295 , PHE A:362 , HOH A:1962BINDING SITE FOR RESIDUE MPD A 1700
08AC8SOFTWAREARG A:222 , ARG C:107 , PRO C:125BINDING SITE FOR RESIDUE MPD C 1701
09AC9SOFTWAREGLU A:226BINDING SITE FOR RESIDUE MPD A 1702
10BC1SOFTWAREGLU A:374 , ARG A:377 , ARG A:381 , ARG B:632 , GLY B:633 , VAL B:635 , GLN C:94BINDING SITE FOR RESIDUE MPD A 1703
11BC2SOFTWAREASP C:213 , ALA C:214 , HIS C:216 , THR C:217 , HIS C:295 , HOH C:1958BINDING SITE FOR RESIDUE MPD C 1704
12BC3SOFTWAREMET C:218 , ARG C:222 , ARG E:107BINDING SITE FOR RESIDUE MPD E 1705
13BC4SOFTWAREGLU C:374 , ARG C:377 , ARG C:381 , ARG D:632 , GLY D:633 , VAL D:635 , GLN E:94BINDING SITE FOR RESIDUE MPD C 1707
14BC5SOFTWAREASP E:213 , ALA E:214 , HIS E:216 , THR E:217 , HIS E:295 , HOH E:2010BINDING SITE FOR RESIDUE MPD E 1708
15BC6SOFTWAREARG A:107 , ARG E:222BINDING SITE FOR RESIDUE MPD A 1709
16BC7SOFTWAREVAL E:225BINDING SITE FOR RESIDUE MPD E 1710
17BC8SOFTWAREGLN A:94 , GLU E:374 , ARG E:377 , SER E:378 , ARG E:381 , ARG F:632 , GLY F:633BINDING SITE FOR RESIDUE MPD E 1711
18BC9SOFTWAREPRO E:231 , MET E:260 , PHE E:293 , HOH E:1778 , HOH E:1838BINDING SITE FOR RESIDUE MPD E 1712
19CC1SOFTWARETYR E:61 , VAL E:95 , CYS E:96 , ARG E:97 , ALA E:98 , HOH E:1807 , HOH E:1911 , GLU F:560BINDING SITE FOR RESIDUE MPD E 1713

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2B1X)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Phe A:299 -Pro A:300
2Asp B:597 -Pro B:598
3Phe C:299 -Pro C:300
4Asp D:597 -Pro D:598
5Phe E:299 -Pro E:300
6Asp F:597 -Pro F:598

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2B1X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2B1X)

(-) Exons   (0, 0)

(no "Exon" information available for 2B1X)

(-) 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:441
 aligned with Q9X3R9_9NOCA | Q9X3R9 from UniProtKB/TrEMBL  Length:470

    Alignment length:441
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440 
         Q9X3R9_9NOCA     1 MLSNELRQTLQKGLHDVNSDWTVPAAIINDPEVHDVERERIFGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDPHADSLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVELGLAPPDPQFALYGEHIHTGHGHGLGIIGPPPGMPLPEFMGLPENIVEELERRLTPEQVEIFRPTAFIHGTVFPNLSIGNFLMGKDHLSAPTAFLTLRLWHPLGPDKMEVMSFFLVEKDAPDWFKDESYKSYLRTFGISGGFEQDDAENWRSITRVMGGQFAKTGELNYQMGRGVLEPDPNWTGPGEAYPLDYAEANQRNFLEYWMQLMLAESPL 441
               SCOP domains d2b1xa1 A:1-162 Naphthalene 1,2-dioxygenase alpha subunit, N-domain                                                                                               d2b1xa2 A:163-441 Naphthalene 1,2-dioxygenase alpha subunit, C-domain                                                                                                                                                                                                                   SCOP domains
               CATH domains --------------------------------------------2b1xA02 A:45-170 'Rieske'-like iron-sulphur domains                                                                           ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh....eee.hhh.hhhhhhhhhhhh.....eeeee.hhh....eeeeeee..eeeeeee.....eeeee..............eee..eee......eee....eee............hhhhhh.....eeeee..eeeee......hhhhhhh.hhhhhhhhhh.....eee....eeeee...hhhhhhhhhhh..hhhhhhhhhhhh.......hhhh.eeeee.....eeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee...eeeeeeee........eeeeeeeeeeeee..eeeeeeeeeee...hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...hhhh.eee..................eee.....hhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x A   1 MLSNELRQTLQKGLHDVNSDWTVPAAIINDPEVHDVERERIFGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDPHADSLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVELGLAPPDPQFALYGEHIHTGHGHGLGIIGPPPGMPLPEFMGLPENIVEELERRLTPEQVEIFRPTAFIHGTVFPNLSIGNFLMGKDHLSAPTAFLTLRLWHPLGPDKMEVMSFFLVEKDAPDWFKDESYKSYLRTFGISGGFEQDDAENWRSITRVMGGQFAKTGELNYQMGRGVLEPDPNWTGPGEAYPLDYAEANQRNFLEYWMQLMLAESPL 441
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440 


Chain B from PDB  Type:PROTEIN  Length:167
 aligned with Q7BSK6_9NOCA | Q7BSK6 from UniProtKB/TrEMBL  Length:172

    Alignment length:167
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       
         Q7BSK6_9NOCA     6 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 172
               SCOP domains d2b1xb1 B:513-679 Naphthalene 1,2-dioxygenase beta subunit                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh.hhhhhhh.eeeeeeeeeeee..........eeeeeeeeeehhhhhhhhhhhhh...hhhhh...eeeeeeeeeeeee.....eeeeeeeeeeeee.......eeeeeeeeeeeeee..eeeeeeeeeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x B 513 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 679
                                   522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       


Chain B from PDB  Type:PROTEIN  Length:167
 aligned with Q9WVZ0_9NOCA | Q9WVZ0 from UniProtKB/TrEMBL  Length:172

    Alignment length:167
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       
         Q9WVZ0_9NOCA     6 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 172
               SCOP domains d2b1xb1 B:513-679 Naphthalene 1,2-dioxygenase beta subunit                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh.hhhhhhh.eeeeeeeeeeee..........eeeeeeeeeehhhhhhhhhhhhh...hhhhh...eeeeeeeeeeeee.....eeeeeeeeeeeee.......eeeeeeeeeeeeee..eeeeeeeeeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x B 513 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 679
                                   522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       


Chain C from PDB  Type:PROTEIN  Length:441
 aligned with Q9X3R9_9NOCA | Q9X3R9 from UniProtKB/TrEMBL  Length:470

    Alignment length:441
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440 
         Q9X3R9_9NOCA     1 MLSNELRQTLQKGLHDVNSDWTVPAAIINDPEVHDVERERIFGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDPHADSLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVELGLAPPDPQFALYGEHIHTGHGHGLGIIGPPPGMPLPEFMGLPENIVEELERRLTPEQVEIFRPTAFIHGTVFPNLSIGNFLMGKDHLSAPTAFLTLRLWHPLGPDKMEVMSFFLVEKDAPDWFKDESYKSYLRTFGISGGFEQDDAENWRSITRVMGGQFAKTGELNYQMGRGVLEPDPNWTGPGEAYPLDYAEANQRNFLEYWMQLMLAESPL 441
               SCOP domains d2b1xc1 C:1-162 Naphthalene 1,2-dioxygenase alpha subunit, N-domain                                                                                               d2b1xc2 C:163-441 Naphthalene 1,2-dioxygenase alpha subunit, C-domain                                                                                                                                                                                                                   SCOP domains
               CATH domains --------------------------------------------2b1xC02 C:45-170 'Rieske'-like iron-sulphur domains                                                                           ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh....eee.hhh.hhhhhhhhhhhh.....eeeee.hhh....eeeeeee..eeeeeee.....eeeee..............eee..eee......eee....eee............hhhhh......eeeee..eeeee......hhhhhhh.hhhhhhhhhh.....eee....eeeee..hhhhhhhhhhhh..hhhhhhhhhhhh.......hhhh.eeeee.....eeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee...eeeeeeee........eeeeeeeeeeeee..eeeeeeeeeee...hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...hhhh.eee..................eee.....hhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x C   1 MLSNELRQTLQKGLHDVNSDWTVPAAIINDPEVHDVERERIFGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDPHADSLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVELGLAPPDPQFALYGEHIHTGHGHGLGIIGPPPGMPLPEFMGLPENIVEELERRLTPEQVEIFRPTAFIHGTVFPNLSIGNFLMGKDHLSAPTAFLTLRLWHPLGPDKMEVMSFFLVEKDAPDWFKDESYKSYLRTFGISGGFEQDDAENWRSITRVMGGQFAKTGELNYQMGRGVLEPDPNWTGPGEAYPLDYAEANQRNFLEYWMQLMLAESPL 441
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440 


Chain D from PDB  Type:PROTEIN  Length:167
 aligned with Q7BSK6_9NOCA | Q7BSK6 from UniProtKB/TrEMBL  Length:172

    Alignment length:167
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       
         Q7BSK6_9NOCA     6 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 172
               SCOP domains d2b1xd_ D: automated matches                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh.hhhhhhh.eeeeeeeeeeee..........eeeeeeeeeehhhhhhhhhhhhh...hhhhh...eeeeeeeeeeeee.....eeeeeeeeeeeee.......eeeeeeeeeeeeee..eeeeeeeeeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x D 513 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 679
                                   522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       


Chain D from PDB  Type:PROTEIN  Length:167
 aligned with Q9WVZ0_9NOCA | Q9WVZ0 from UniProtKB/TrEMBL  Length:172

    Alignment length:167
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       
         Q9WVZ0_9NOCA     6 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 172
               SCOP domains d2b1xd_ D: automated matches                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh.hhhhhhh.eeeeeeeeeeee..........eeeeeeeeeehhhhhhhhhhhhh...hhhhh...eeeeeeeeeeeee.....eeeeeeeeeeeee.......eeeeeeeeeeeeee..eeeeeeeeeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x D 513 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 679
                                   522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       


Chain E from PDB  Type:PROTEIN  Length:441
 aligned with Q9X3R9_9NOCA | Q9X3R9 from UniProtKB/TrEMBL  Length:470

    Alignment length:441
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440 
         Q9X3R9_9NOCA     1 MLSNELRQTLQKGLHDVNSDWTVPAAIINDPEVHDVERERIFGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDPHADSLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVELGLAPPDPQFALYGEHIHTGHGHGLGIIGPPPGMPLPEFMGLPENIVEELERRLTPEQVEIFRPTAFIHGTVFPNLSIGNFLMGKDHLSAPTAFLTLRLWHPLGPDKMEVMSFFLVEKDAPDWFKDESYKSYLRTFGISGGFEQDDAENWRSITRVMGGQFAKTGELNYQMGRGVLEPDPNWTGPGEAYPLDYAEANQRNFLEYWMQLMLAESPL 441
               SCOP domains d2b1xe1 E:1-162 Naphthalene 1,2-dioxygenase alpha subunit, N-domain                                                                                               d2b1xe2 E:163-441 Naphthalene 1,2-dioxygenase alpha subunit, C-domain                                                                                                                                                                                                                   SCOP domains
               CATH domains --------------------------------------------2b1xE02 E:45-170 'Rieske'-like iron-sulphur domains                                                                           ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh....eee.hhh.hhhhhhhhhhhh.....eeeee.hhh....eeeeeee..eeeeeee.....eeeee..............eee..eee......eee....eee............hhhhh......eeeee..eeeee......hhhhhhh.hhhhhhhhhh.....eee....eeeee...hhhhhhhhhhh..hhhhhhhhhhhh.......hhhh.eeeee.....eeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee...eeeeeeee........eeeeeeeeeeeee..eeeeeeeeeee...hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh...hhhh.eee..................eee.....hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x E   1 MLSNELRQTLQKGLHDVNSDWTVPAAIINDPEVHDVERERIFGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDPHADSLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVELGLAPPDPQFALYGEHIHTGHGHGLGIIGPPPGMPLPEFMGLPENIVEELERRLTPEQVEIFRPTAFIHGTVFPNLSIGNFLMGKDHLSAPTAFLTLRLWHPLGPDKMEVMSFFLVEKDAPDWFKDESYKSYLRTFGISGGFEQDDAENWRSITRVMGGQFAKTGELNYQMGRGVLEPDPNWTGPGEAYPLDYAEANQRNFLEYWMQLMLAESPL 441
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440 


Chain F from PDB  Type:PROTEIN  Length:167
 aligned with Q7BSK6_9NOCA | Q7BSK6 from UniProtKB/TrEMBL  Length:172

    Alignment length:167
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       
         Q7BSK6_9NOCA     6 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 172
               SCOP domains d2b1xf_ F: automated matches                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh.hhhhhhh.eeeeeeeeeeee..........eeeeeeeeeeehhhhhhhhhhhh...hhhhh...eeeeeeeeeeeee.....eeeeeeeeeeeee.......eeeeeeeeeeeeee..eeeeeeeeeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x F 513 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 679
                                   522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       


Chain F from PDB  Type:PROTEIN  Length:167
 aligned with Q9WVZ0_9NOCA | Q9WVZ0 from UniProtKB/TrEMBL  Length:172

    Alignment length:167
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       
         Q9WVZ0_9NOCA     6 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 172
               SCOP domains d2b1xf_ F: automated matches                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh.hhhhhhh.eeeeeeeeeeee..........eeeeeeeeeeehhhhhhhhhhhh...hhhhh...eeeeeeeeeeeee.....eeeeeeeeeeeee.......eeeeeeeeeeeeee..eeeeeeeeeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b1x F 513 RVSDTTVREITEWLYMEAELLDAGKYREWLALVTEDLSYVVPIRVTREREAVTDVVEGMTHMDDDADSMEMRVLRLETEYAWAEDPPSRSRHFVTNVRVATGDSEDEFKVTSNLLLYRTRGDVATYDVLSGERTDVLRRAGDSFLMAKRVVLLDQTTIMTHNLALIM 679
                                   522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672
   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  (4, 9)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2B1X)

(-) Gene Ontology  (12, 18)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,C,E   (Q9X3R9_9NOCA | Q9X3R9)
molecular function
    GO:0051537    2 iron, 2 sulfur cluster binding    Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0051213    dioxygenase activity    Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.
    GO:0016705    oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen    Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from each of two donors, and molecular oxygen is reduced or incorporated into a donor.
    GO:0016708    oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of two atoms of oxygen into one donor    Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from NADH or NADPH and one other donor, and two atoms of oxygen are incorporated into one donor.
biological process
    GO:0019439    aromatic compound catabolic process    The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring.
    GO:0006725    cellular aromatic compound metabolic process    The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells.
    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.

Chain B,D,F   (Q7BSK6_9NOCA | Q7BSK6)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0051213    dioxygenase activity    Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
biological process
    GO:0006725    cellular aromatic compound metabolic process    The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells.
    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.

Chain B,D,F   (Q9WVZ0_9NOCA | Q9WVZ0)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
biological process
    GO:0006725    cellular aromatic compound metabolic process    The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells.
    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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  2b1x
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  1.14.12.12
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q9WVZ0_9NOCA | Q9WVZ0: 2b24
UniProtKB/TrEMBL
        Q7BSK6_9NOCA | Q7BSK6: 2b24
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(-) Related Entries Specified in the PDB File

2b24 CRYSTAL STRUCTURE OF NAPHTHALENE 1,2-DIOXYGENASE FROM RHODOCOCCUS SP. BOUND TO INDOLE