Citrus Sinensis ID: 017387

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Local Sequence Feature Prediction

Residue Number Marker
--------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--
Protein Sequence
MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVRTSQLCF
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccEEEEEEcccEEEEEEcccccEEEEccccccccccccccEEccccEEEcccccEEEcccccEEEccccccccccccccccccccccEEEEEEEccEEEEEEcccccccccccccccccccccccccEEEEEEEEEEcccHHHHHHHccccccccccccccccccccccccEEEEEcccEEEEEEEccccccEEEEEccEEEEEEEEEEEcccccccccEEEEEEEEEEEcccccEEEEEEccccccHHcccccccEEEccccccc
Secondary Structure Prediction (SSPRO)
ccHHccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccHcccEEcccHHHcccccccccEEccccEEEEEccccccEEEEEcccccccccccccEEccccEEEEEEccEEEcccccEEEccccccccccccccccccccEEEccEEEEccEEEEEcccccHHHccccccccccccccccccEEEccEEcccccHHHHHHHccccccccEEEccccccccccccccEEEEEcccccccccccccccEEEEEEcccEEEEEEccccccccccccccEEEEEEEEEccccccEEEEEEcccccHHHHcHccHHHHHHHccccc
Coil and Loop (DISEMBL)
MALLLSttanittsprktlpflatgtpkrqITVKSLQKRsknlsplrvaappsdpaasdeetmrkdekedygslvddeygkessdskfswrdhwypvslvedldpnlptAFQLLGRDLVLwfdnnsnkwvafddkcphrlaplsegridenghlqcsyhgwsfdgcgsctripqaasegpearaiqspracatrfptmvsqgllfvwpdeygqeranatkppmlpdafdkpefssvtiqRDLFYGydtlmenvsdpshidfahhkvtgrrdrakplpfklessghwgfagandgnprisakfvapcyymnkieidtklpvvgdqKWIIWICsfnvpmapgktrSIVCSARnffqftmpgpawwqvrtsqlcf
Flexible Loop (DISEMBL)
MALLLSTtanittsprktlpflatgtpkrqiTVKSlqkrsknlsplrvaappsdpaasdeetmrkdekedygslvddeygkessdskfswrDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFtmpgpawwqvrtsqlcf
Low Complexity Region (SEG)
MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVaappsdpaasdEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVRTSQLCF
Disordered region (IsUnstruct)
***************************************************************************************FSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI*****************ACATRFPTMVSQGLLFVWPDEYG********************FSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKV***********FKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVRTS****
Disordered Region (DISOPRED)
*****************************************************************************************WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQA*************RACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVRTSQLCF
Disordered Region (DISEMBL)
MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSP**************************GSLVD***********FSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIP**************PRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVRTSQLCF
Disordered Region (DISPRO)
**************************************************************************************KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEA*AIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVRTSQLCF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVRTSQLCF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	372	2.2.26 [Sep-21-2011]
Q9FYC2	537	Pheophorbide a oxygenase,	yes	no	0.951	0.659	0.744	1e-161
Q8W496	559	Protochlorophyllide-depen	no	no	0.715	0.475	0.339	7e-46
O49931	553	Protein TIC 55, chloropla	N/A	no	0.653	0.439	0.312	7e-33
Q9SK50	539	Protein TIC 55, chloropla	no	no	0.650	0.448	0.317	5e-32
Q9XJ38	463	Chlorophyllide a oxygenas	N/A	no	0.532	0.427	0.317	3e-19
Q9ZWM5	645	Chlorophyllide a oxygenas	N/A	no	0.572	0.330	0.285	3e-15
Q9AHG3	346	Putative toluene-4-sulfon	no	no	0.435	0.468	0.294	6e-13
P71875	386	3-ketosteroid-9-alpha-mon	yes	no	0.424	0.409	0.289	1e-10
Q44256	432	3-chlorobenzoate-3,4-diox	no	no	0.432	0.372	0.298	3e-10
Q8S7E1	541	Chlorophyllide a oxygenas	no	no	0.301	0.207	0.272	7e-09

>sp|Q9FYC2|PAO_ARATH Pheophorbide a oxygenase, chloroplastic OS=Arabidopsis thaliana GN=PAO PE=1 SV=1

 Score =  568 bits (1464), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 274/368 (74%), Positives = 305/368 (82%), Gaps = 14/368 (3%)

Query: 1   MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNL-SPLRVAAPPSDPAASD 59
           + LL ST+A IT S  K +PFL+  T K  + V     RSK   +PLRVAAPPS P +  
Sbjct: 3   VVLLSSTSATITKSQSKKIPFLSPTT-KFPLKVSISPSRSKLFHNPLRVAAPPSVPTSDS 61

Query: 60  EETMRKDEKEDYGSLVDDEYG--KESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRD 117
            E  R          +++EYG  KE   S+F WRDHWYPVSLVEDLDPN+PT FQLLGRD
Sbjct: 62  TEEKR----------IEEEYGGDKEEEGSEFKWRDHWYPVSLVEDLDPNVPTPFQLLGRD 111

Query: 118 LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS 177
           LVLWFD N  KW AFDD CPHRLAPLSEGR+DENGHLQCSYHGWSF GCGSCTRIPQAA+
Sbjct: 112 LVLWFDRNDQKWAAFDDLCPHRLAPLSEGRLDENGHLQCSYHGWSFGGCGSCTRIPQAAT 171

Query: 178 EGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVT 237
            GPEARA++SPRACA +FPTMVSQGLLFVWPDE G +RAN+ +PP LPD FDKPEFS+VT
Sbjct: 172 SGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWDRANSIEPPRLPDDFDKPEFSTVT 231

Query: 238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPR 297
           IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFK+ESSG WGF GAND +PR
Sbjct: 232 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFQGANDDSPR 291

Query: 298 ISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM 357
           I+AKFVAPCY MNKIE+D KLP+VG+QKW+IWICSFN+PMAPGKTRSIVCSARNFFQF++
Sbjct: 292 ITAKFVAPCYSMNKIELDAKLPIVGNQKWVIWICSFNIPMAPGKTRSIVCSARNFFQFSV 351

Query: 358 PGPAWWQV 365
           PGPAWWQV
Sbjct: 352 PGPAWWQV 359

Catalyzes the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of pheophorbide a (pheide a) to a primary fluorescent catabolite (pFCC). Works in a two-step reaction with red chlorophyll catabolite reductase (RCCR). Creates the intermediate RCC through the opening of the porphyrin macrocycle by the introduction of one atom of molecular oxygen at the alpha-methine bridge. Seems to be specific for pheide a.
Arabidopsis thaliana (taxid: 3702)
EC: 1EC: .EC: 1EC: 4EC: .EC: 1EC: 2EC: .EC: 2EC: 0

>sp|Q8W496|PTC52_ARATH Protochlorophyllide-dependent translocon component 52, chloroplastic OS=Arabidopsis thaliana GN=PTC52 PE=2 SV=1

 Score =  184 bits (468), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 109/321 (33%), Positives = 160/321 (49%), Gaps = 55/321 (17%)

Query: 82  ESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA 141
           E    KF W  +WYPV  + DLD  +P   +++G DLV+W+D N  +W   DD CPHRLA
Sbjct: 73  EPGSDKFDWYANWYPVMPICDLDKKVPHGKKVMGIDLVVWWDRNEKQWKVMDDTCPHRLA 132

Query: 142 PLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ 201
           PLS+GRID+ G LQC YHGW F+G G C  IPQA  +GP     +  +AC   +P+ V  
Sbjct: 133 PLSDGRIDQWGRLQCVYHGWCFNGSGDCKLIPQAPPDGPPVHTFK--QACVAVYPSTVQH 190

Query: 202 GLLFVWP--DEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHI 259
            +++ WP  D   +      KPP +P+  D P F+ +   RD+ YGYD L+EN+ DP+H+
Sbjct: 191 EIIWFWPNSDPKYKNIIETNKPPYIPELED-PSFTKLMGNRDIPYGYDVLVENLMDPAHV 249

Query: 260 DFAHH------KVTGR-------------------------RDRAKPLPFKLESSGHWGF 288
            +AH+      K  G+                         R+  KPL   ++   + GF
Sbjct: 250 PYAHYGLMRFPKPKGKYIICISNSCFNPFTNLQILLAEKIDREGGKPLEINVKKLDNKGF 309

Query: 289 AGANDGNPRISAKFVAPCYY------MNKIEIDTKLPVVGDQKW-------IIWICSFNV 335
               +      + F+APC Y      + + E +   P   D+         +I+IC   +
Sbjct: 310 FSKQEWG---YSNFIAPCVYRSSTDPLPEQEHEYPAPAASDKAALSKRRLSLIFIC---I 363

Query: 336 PMAPGKTRSIVCSARNFFQFT 356
           P++PG++R I    RNF  F 
Sbjct: 364 PVSPGRSRLIWTFPRNFGVFI 384

Part of a translocon most abundantly expressed in etiolated plants and involved in the protochlorophyllide-dependent import of the precursor NADPH:protochlorophyllide oxidoreductase A (pPORA).

Arabidopsis thaliana (taxid: 3702)

>sp|O49931|TIC55_PEA Protein TIC 55, chloroplastic OS=Pisum sativum GN=TIC55 PE=1 SV=1

 Score =  141 bits (356), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 81/259 (31%), Positives = 139/259 (53%), Gaps = 16/259 (6%)

Query: 65  KDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDN 124
           +D+K   G   + E   E   + + W + WYP+ L +++  + P   ++  +++VL+ D 
Sbjct: 74  EDQKVLVGPSSEQERKGEREVADYDWTEEWYPLYLTKNVPHDAPLGLKVYDKNIVLFRDG 133

Query: 125 NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARA 184
           N +++  ++D+CPHRLA LSEG++ + G L+C YHGW F+G G C +IPQ  ++    ++
Sbjct: 134 N-DQFQCYEDRCPHRLAKLSEGQLID-GRLECLYHGWQFEGEGKCVKIPQLPADAKIPKS 191

Query: 185 IQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFY 244
                AC   +    SQG+L+VW     +   N +K P   + F +P F  ++   +L Y
Sbjct: 192 -----ACVKTYEVRDSQGVLWVWMSR--KTPPNVSKIPWFEN-FARPGFQDISTTHELPY 243

Query: 245 GYDTLMENVSDPSHIDFAHHKV--TGRRDRAKPLPFKLESSGHWGFAG----ANDGNPRI 298
            +  L+EN+ DP+H+  +H +   + +R+ A+ L F++      GFAG      DG+   
Sbjct: 244 DHSILLENLMDPAHVPISHDRTDWSAKREDAQALGFEVTERTDRGFAGWWGREKDGSKPN 303

Query: 299 SAKFVAPCYYMNKIEIDTK 317
             +F APC   N  EI  K
Sbjct: 304 FLRFEAPCVLQNNREIVDK 322

Involved in protein precursor import into chloroplasts. Part of the redox regulon consisting of TIC32, TIC 55 and TIC62.

Pisum sativum (taxid: 3888)

>sp|Q9SK50|TIC55_ARATH Protein TIC 55, chloroplastic OS=Arabidopsis thaliana GN=TIC55 PE=2 SV=1

 Score =  139 bits (349), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 85/268 (31%), Positives = 136/268 (50%), Gaps = 26/268 (9%)

Query: 62  TMRKDEKEDYGS-LVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVL 120
           T   D+ E  G  L++ E  K    + + W + WYP+ L +++  + P    +  R +VL
Sbjct: 55  TAVSDQTEGGGDVLLNPEEEKRVEVADYDWTEEWYPLYLTKNVPEDAPLGLTVYDRQIVL 114

Query: 121 WFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQ--AASE 178
           + D        ++D+CPHRLA LSEG++ + G L+C YHGW F+G G C +IPQ  A+++
Sbjct: 115 YKDGEGT-LRCYEDRCPHRLAKLSEGQLID-GRLECLYHGWQFEGEGKCVKIPQLPASAK 172

Query: 179 GPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLP--DAFDKPEFSSV 236
            P+A       AC   +    SQG+++VW             P  LP  + F +P F  +
Sbjct: 173 IPKA-------ACVKTYEVKDSQGVVWVW-----MSTKTPPNPEKLPWFENFARPGFFDI 220

Query: 237 TIQRDLFYGYDTLMENVSDPSHIDFAHHKV--TGRRDRAKPLPFKLESSGHWGFAGA--- 291
           +   +L Y +  L+EN+ DP+H+  +H +   T +R+ A+PL F++    + GFAG    
Sbjct: 221 STTHELPYDHSILLENLMDPAHVPISHDRTDFTAKREDAQPLVFEVTERSNRGFAGTWGR 280

Query: 292 --NDGNPRISAKFVAPCYYMNKIEIDTK 317
               G      +F APC   N  E + K
Sbjct: 281 EKEGGKGSNLLRFDAPCVLQNNREFEGK 308

Involved in protein precursor import into chloroplasts. Part of the redox regulon consisting of TIC32, TIC 55 and TIC62.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XJ38|CAO_DUNSA Chlorophyllide a oxygenase, chloroplastic OS=Dunaliella salina GN=CAO PE=2 SV=1

 Score = 96.3 bits (238), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 73/230 (31%), Positives = 99/230 (43%), Gaps = 32/230 (13%)

Query: 91  RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
           R+ WYP    + L+P +   F L G   VL+ D +S       D C HR  PLS G++  
Sbjct: 131 RNFWYPTEFAKKLEPGMMVPFDLFGVPWVLFRDEHSAP-TCIKDSCAHRACPLSLGKVI- 188

Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRAC----ATRFPTMVSQGLLFV 206
           NGH+QC YHGW FDG G+CT++P             S R C        P +   G ++V
Sbjct: 189 NGHVQCPYHGWEFDGSGACTKMP-------------STRMCHGVGVAALPCVEKDGFVWV 235

Query: 207 WPDEYGQERANA--TKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHH 264
           WP +          T PP   D   +       I  D+   +  LMEN+ D +H  F H 
Sbjct: 236 WPGDGPPPDLPPDFTAPPAGYDVHAE-------IMVDVPVEHGLLMENLLDLAHAPFTH- 287

Query: 265 KVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEI 314
             T    R  P+P  +        AG  D  P IS  F  PC  ++ I +
Sbjct: 288 --TTTFARGWPIPEAVRFHATKMLAGDWDPYP-ISMSFNPPCIALSTIGL 334

Catalyzes a two-step oxygenase reaction involved in the synthesis of chlorophyll b. Acts specifically on the non-esterified chlorophyllide a and not on chlorophyll a.

Dunaliella salina (taxid: 3046)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: 1

EC: 2

EC: 2

>sp|Q9ZWM5|CAO_CHLRE Chlorophyllide a oxygenase, chloroplastic OS=Chlamydomonas reinhardtii GN=CAO PE=2 SV=2

 Score = 83.2 bits (204), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 68/238 (28%), Positives = 101/238 (42%), Gaps = 25/238 (10%)

Query: 80  GKESS-DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPH 138
           G ESS + +   R+ WYP      L  +    F+L G   V+ F +   +     D+C H
Sbjct: 290 GLESSMEIEEGLRNFWYPAEFSARLPKDTLVPFELFGEPWVM-FRDEKGQPSCIRDECAH 348

Query: 139 RLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTM 198
           R  PLS G++ E G + C YHGW F+G G+CT++P      P  R +          P  
Sbjct: 349 RGCPLSLGKVVE-GQVMCPYHGWEFNGDGACTKMPST----PFCRNV-----GVAALPCA 398

Query: 199 VSQGLLFVWPDEYGQERANATKPPMLPDAFDKPE--FSSVTIQRDLFYGYDTLMENVSDP 256
              G ++VWP        +      LPD    PE       I  D+   +  L+EN+ D 
Sbjct: 399 EKDGFIWVWP-------GDGLPAETLPDFAQPPEGFLIHAEIMVDVPVEHGLLIENLLDL 451

Query: 257 SHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEI 314
           +H  F H   T    R  P+P  ++   +   +G  D  P I   F  PC  ++ I +
Sbjct: 452 AHAPFTH---TSTFARGWPVPDFVKFHANKALSGFWDPYP-IDMAFQPPCMTLSTIGL 505

Catalyzes a two-step oxygenase reaction involved in the synthesis of chlorophyll b. Acts specifically on the non-esterified chlorophyllide a and not on chlorophyll a.

Chlamydomonas reinhardtii (taxid: 3055)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: 1

EC: 2

EC: 2

>sp|Q9AHG3|TSAM2_COMTE Putative toluene-4-sulfonate monooxygenase system iron-sulfur subunit TsaM2 OS=Comamonas testosteroni GN=tsaM2 PE=5 SV=1

 Score = 75.5 bits (184), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 53/180 (29%), Positives = 83/180 (46%), Gaps = 18/180 (10%)

Query: 91  RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
           ++ WY   +  D     P A   L   +VL F  +    VA +D+C HRLAPLS G +++
Sbjct: 4   KNTWYVAGMATDCSRK-PLARTFLNEKVVL-FRTHDGHAVALEDRCCHRLAPLSLGDVED 61

Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
            G ++C YHG  F+  G+C  IP         +    P  C  RFP +   GLL++W  +
Sbjct: 62  AG-IRCRYHGMVFNASGACVEIP--------GQEQIPPGMCVRRFPLVERHGLLWIWMGD 112

Query: 211 YGQERANATKPPMLPDAF--DKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTG 268
               RAN   P  + D      PE+ + +        Y  +++N+ D +H+ + H    G
Sbjct: 113 --PARAN---PDDIVDELWNGAPEWRTDSGYIHYQANYQLIVDNLLDFTHLAWVHPTTLG 167

Involved in the toluene-4-sulfonate degradation pathway. Does not discriminate between the sulfonate and the carboxyl substituents and can also be involved in the p-toluenecarboxylate degradation pathway.

Comamonas testosteroni (taxid: 285)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 4

EC: .

EC: -

>sp|P71875|KSHA_MYCTU 3-ketosteroid-9-alpha-monooxygenase oxygenase subunit OS=Mycobacterium tuberculosis GN=kshA PE=1 SV=2

 Score = 67.8 bits (164), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 50/173 (28%), Positives = 81/173 (46%), Gaps = 15/173 (8%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           W+ + + +D     P   +  G  LV++ D++ +  V  D  C H    LSEG + +   
Sbjct: 26  WHCLGVAKDYLEGKPHGVEAFGTKLVVFADSHGDLKV-LDGYCRHMGGDLSEGTV-KGDE 83

Query: 154 LQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATR-FPTMVSQGLLFVWPDEYG 212
           + C +H W + G G C  +P A          ++PR   TR + T V  GLLFVW D  G
Sbjct: 84  VACPFHDWRWGGDGRCKLVPYAR---------RTPRMARTRSWTTDVRSGLLFVWHDHEG 134

Query: 213 QERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDT--LMENVSDPSHIDFAH 263
                A + P +P+A    E++     R L  G +   +++NV+D +H  + H
Sbjct: 135 NPPDPAVRIPEIPEA-ASDEWTDWRWNRILIEGSNCRDIIDNVTDMAHFFYIH 186

Catalyzes the opening of ring B of 1,4-androstadiene-3,17,-dione (ADD) and 4-androstene-3,17-dione (ADD) with concomitant aromatization of ring A. The ring B is subsequently hydroxylated to yield a catechol and then subject to meta-cleavage.

Mycobacterium tuberculosis (taxid: 1773)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: 1

EC: 4

EC: 2

>sp|Q44256|CBAA_COMTE 3-chlorobenzoate-3,4-dioxygenase oxygenase subunit OS=Comamonas testosteroni GN=cbaA PE=3 SV=1

 Score = 66.6 bits (161), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 52/174 (29%), Positives = 75/174 (43%), Gaps = 13/174 (7%)

Query: 91  RDHWYPVSLVEDLDPN-LPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID 149
           R++W P     +L+    P    LLG  LV  F   S      D +CPHR   L  GR++
Sbjct: 24  REYWIPALKSTELEAGGSPVRLLLLGEKLVA-FREPSGAVGVMDSRCPHRGVSLFMGRVE 82

Query: 150 ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD 209
           E G L+C YHGW F   G C  +P   S  PE     S R    R+P     G+++V+  
Sbjct: 83  EGG-LRCVYHGWKFSAEGKCVDMP---SVRPEDEFKNSVRVA--RYPVKEMAGVVWVY-- 134

Query: 210 EYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAH 263
             G  +     P +      + E   + +QR   +  +  +E   D SH +F H
Sbjct: 135 -MGTRKVLPELPRLEVLNLPENEVDVICLQRKSNWLQN--LEGEIDTSHFNFLH 185

Comamonas testosteroni (taxid: 285)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: -

EC: .

EC: -

>sp|Q8S7E1|CAO_ORYSJ Chlorophyllide a oxygenase, chloroplastic OS=Oryza sativa subsp. japonica GN=CAO PE=2 SV=1

 Score = 62.0 bits (149), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 40/147 (27%), Positives = 62/147 (42%), Gaps = 35/147 (23%)

Query: 89  SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDK----------CPH 138
           S ++ WYPV+   DL             D ++  D    +WV F  K          C H
Sbjct: 215 SLKNFWYPVAFSSDLK-----------DDTMVPIDCFEEQWVIFRGKDGRPGCVMNTCAH 263

Query: 139 RLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTM 198
           R  PL  G ++E G +QC YHGW +   G C ++P         R++          P  
Sbjct: 264 RACPLHLGSVNE-GRIQCPYHGWEYSTDGKCEKMPSTKMLNVRIRSL----------PCF 312

Query: 199 VSQGLLFVWPDEYGQERANATKPPMLP 225
             +G++++WP   G +   +T P +LP
Sbjct: 313 EQEGMVWIWP---GNDPPKSTIPSLLP 336

Catalyzes a two-step oxygenase reaction involved in the synthesis of chlorophyll b. Acts specifically on the non-esterified chlorophyllide a and not on chlorophyll a.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: 1

EC: 2

EC: 2

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	372
255565489	531	pheophorbide A oxygenase, putative [Rici	0.940	0.659	0.776	1e-166
224118438	535	predicted protein [Populus trichocarpa]	0.965	0.671	0.794	1e-160
226434019	539	pheide a oxyganase [Vitis vinifera]	0.965	0.666	0.766	1e-160
225436442	539	PREDICTED: pheophorbide a oxygenase, chl	0.965	0.666	0.766	1e-160
15230543	537	pheophorbide a oxygenase [Arabidopsis th	0.951	0.659	0.744	1e-159
37962886	537	accelerated cell death 1 [Arabidopsis th	0.951	0.659	0.741	1e-158
297815634	537	hypothetical protein ARALYDRAFT_905628 [	0.951	0.659	0.736	1e-158
89077587	538	chloroplast pheophorbide a oxygenase PaO	0.954	0.659	0.728	1e-157
407930081	537	lethal leaf spot 1-like protein [Capsicu	0.862	0.597	0.777	1e-154
449524120	545	PREDICTED: pheophorbide a oxygenase, chl	0.962	0.656	0.722	1e-154

>gi|255565489|ref|XP_002523735.1| pheophorbide A oxygenase, putative [Ricinus communis] gi|223537039|gb|EEF38675.1| pheophorbide A oxygenase, putative [Ricinus communis]

 Score =  589 bits (1518), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 288/371 (77%), Positives = 309/371 (83%), Gaps = 21/371 (5%)

Query: 1   MALLLS------TTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSD 54
           MALL+S      ++ ++T +  K   FL      R  + + L  R+  LSPL VAAPPS 
Sbjct: 1   MALLISASCMPKSSLSLTQTHFKDSIFLFN----RTFSCQKLPTRTYKLSPLHVAAPPS- 55

Query: 55  PAASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLL 114
           P+   EE  R          VDDE G+ES DSKFSWRDHWYPVSLVEDLDP LPT FQLL
Sbjct: 56  PSVEKEEEYR----------VDDESGQESVDSKFSWRDHWYPVSLVEDLDPGLPTPFQLL 105

Query: 115 GRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQ 174
           GRDLVLWFD  + +WVA DDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQ
Sbjct: 106 GRDLVLWFDTTNQEWVALDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQ 165

Query: 175 AASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFS 234
           A  EGPEARA++SPRACATRFPTMVSQGLLFVWPDE G ERA A+KPPMLPD FDKPEFS
Sbjct: 166 AMPEGPEARAVKSPRACATRFPTMVSQGLLFVWPDENGWERARASKPPMLPDNFDKPEFS 225

Query: 235 SVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDG 294
           +VTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPL FKLE SG WGFAGAN+G
Sbjct: 226 TVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLAFKLEGSGPWGFAGANEG 285

Query: 295 NPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQ 354
           NPRISAKFVAPCYY+NKIEIDTKLP+VGDQKW+IWICSFNVPMAPGKTRSIVCSARNF Q
Sbjct: 286 NPRISAKFVAPCYYINKIEIDTKLPIVGDQKWVIWICSFNVPMAPGKTRSIVCSARNFLQ 345

Query: 355 FTMPGPAWWQV 365
           FTMPGPAWWQV
Sbjct: 346 FTMPGPAWWQV 356

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118438|ref|XP_002331482.1| predicted protein [Populus trichocarpa] gi|222873560|gb|EEF10691.1| predicted protein [Populus trichocarpa]

 Score =  570 bits (1469), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 290/365 (79%), Positives = 316/365 (86%), Gaps = 6/365 (1%)

Query: 1   MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDE 60
           MALLLST A I+ S  +T P  +  +  +    K    R + +SPL VAAPPS  A S  
Sbjct: 1   MALLLST-ACISKSLTQTNPKASPFSLTKAFNTKQPITRVRKISPLHVAAPPSQSAPS-- 57

Query: 61  ETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVL 120
              +++E+E+YG  VDDE G+E  DSKF+WRDHWYPVSL+EDLDP LPT FQLLGRDLVL
Sbjct: 58  -VRKEEEEEEYG--VDDESGEEVIDSKFTWRDHWYPVSLLEDLDPLLPTPFQLLGRDLVL 114

Query: 121 WFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGP 180
           WFD  + +WVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQA  EGP
Sbjct: 115 WFDKANQEWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQALPEGP 174

Query: 181 EARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQR 240
           EARA++SPRACATRFPTMVSQGLLFVWPDE G ERA ATKPPMLPD F+KPEFS+VTIQR
Sbjct: 175 EARAVKSPRACATRFPTMVSQGLLFVWPDENGWERAQATKPPMLPDDFNKPEFSTVTIQR 234

Query: 241 DLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISA 300
           DLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPL FKLESSG WGFAGANDGNPRI+A
Sbjct: 235 DLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLEFKLESSGPWGFAGANDGNPRITA 294

Query: 301 KFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGP 360
           +FVAPCYY+NK+EIDTKLP+VGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGP
Sbjct: 295 EFVAPCYYVNKVEIDTKLPIVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGP 354

Query: 361 AWWQV 365
           AWWQV
Sbjct: 355 AWWQV 359

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226434019|gb|ACO56118.1| pheide a oxyganase [Vitis vinifera]

 Score =  570 bits (1469), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 283/369 (76%), Positives = 306/369 (82%), Gaps = 10/369 (2%)

Query: 1   MALLL---STTANI-TTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPA 56
           MA LL   +TTA +    P  T  FL++  P +         RS   SPLRVAAPP+ P 
Sbjct: 1   MAFLLYGCATTAALPGLFPNSTTCFLSSH-PSKPTNPSFRTTRSLTFSPLRVAAPPTQPV 59

Query: 57  ASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGR 116
            SD+     +E+ED    VDDE  + SS SKF WRDHWYPVSL+EDLD N PT FQLLGR
Sbjct: 60  TSDQS---NEEREDEIVAVDDE--RSSSSSKFLWRDHWYPVSLIEDLDTNRPTPFQLLGR 114

Query: 117 DLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA 176
           D+VLW D ++ +WVAFDDKCPHRLAPLSEGRIDENG+LQCSYHGWSFD CGSC RIPQA 
Sbjct: 115 DIVLWKDKSTAEWVAFDDKCPHRLAPLSEGRIDENGYLQCSYHGWSFDKCGSCKRIPQAL 174

Query: 177 SEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSV 236
            EGPEARA+ SPRACATRFPTMVSQGLLFVWPDE G ERA+ATKPPMLPD F+ PEFS+V
Sbjct: 175 PEGPEARAVGSPRACATRFPTMVSQGLLFVWPDENGWERASATKPPMLPDVFENPEFSTV 234

Query: 237 TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNP 296
           TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSG  GFAGANDGNP
Sbjct: 235 TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGPGGFAGANDGNP 294

Query: 297 RISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFT 356
           RISAKFVAPCYYMNKIEIDTKLP+VG+QKW IWICSFNVPMAPGKTRSIVCSARNFFQF+
Sbjct: 295 RISAKFVAPCYYMNKIEIDTKLPIVGEQKWKIWICSFNVPMAPGKTRSIVCSARNFFQFS 354

Query: 357 MPGPAWWQV 365
           MPGPAWWQV
Sbjct: 355 MPGPAWWQV 363

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436442|ref|XP_002274210.1| PREDICTED: pheophorbide a oxygenase, chloroplastic [Vitis vinifera] gi|297734893|emb|CBI17127.3| unnamed protein product [Vitis vinifera]

 Score =  570 bits (1468), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 283/369 (76%), Positives = 306/369 (82%), Gaps = 10/369 (2%)

Query: 1   MALLL---STTANI-TTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPA 56
           MA LL   +TTA +    P  T  FL++  P +         RS   SPLRVAAPP+ P 
Sbjct: 1   MAFLLYGCATTAALPGLFPNSTTCFLSSH-PSKPTNPSFRTTRSLTFSPLRVAAPPTQPV 59

Query: 57  ASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGR 116
            SD+     +E+ED    VDDE  + SS SKF WRDHWYPVSL+EDLD N PT FQLLGR
Sbjct: 60  TSDQS---NEEREDEVVAVDDE--RSSSSSKFLWRDHWYPVSLIEDLDTNRPTPFQLLGR 114

Query: 117 DLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA 176
           D+VLW D ++ +WVAFDDKCPHRLAPLSEGRIDENG+LQCSYHGWSFD CGSC RIPQA 
Sbjct: 115 DIVLWKDKSTAEWVAFDDKCPHRLAPLSEGRIDENGYLQCSYHGWSFDKCGSCKRIPQAL 174

Query: 177 SEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSV 236
            EGPEARA+ SPRACATRFPTMVSQGLLFVWPDE G ERA+ATKPPMLPD F+ PEFS+V
Sbjct: 175 PEGPEARAVGSPRACATRFPTMVSQGLLFVWPDENGWERASATKPPMLPDEFENPEFSTV 234

Query: 237 TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNP 296
           TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSG  GFAGANDGNP
Sbjct: 235 TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGPGGFAGANDGNP 294

Query: 297 RISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFT 356
           RISAKFVAPCYYMNKIEIDTKLP+VG+QKW IWICSFNVPMAPGKTRSIVCSARNFFQF+
Sbjct: 295 RISAKFVAPCYYMNKIEIDTKLPIVGEQKWKIWICSFNVPMAPGKTRSIVCSARNFFQFS 354

Query: 357 MPGPAWWQV 365
           MPGPAWWQV
Sbjct: 355 MPGPAWWQV 363

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15230543|ref|NP_190074.1| pheophorbide a oxygenase [Arabidopsis thaliana] gi|41688605|sp|Q9FYC2.1|PAO_ARATH RecName: Full=Pheophorbide a oxygenase, chloroplastic; Short=AtPaO; Short=Pheide a oxygenase; AltName: Full=Accelerated cell death 1; AltName: Full=Lethal leaf-spot 1 homolog; Short=Lls1; Flags: Precursor gi|9798391|emb|CAC03538.1| lethal leaf-spot 1 homolog Lls1 [Arabidopsis thaliana] gi|20260386|gb|AAM13091.1| lethal leaf-spot 1 homolog Lls1 [Arabidopsis thaliana] gi|332644443|gb|AEE77964.1| pheophorbide a oxygenase [Arabidopsis thaliana]

 Score =  568 bits (1464), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 274/368 (74%), Positives = 305/368 (82%), Gaps = 14/368 (3%)

Query: 1   MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNL-SPLRVAAPPSDPAASD 59
           + LL ST+A IT S  K +PFL+  T K  + V     RSK   +PLRVAAPPS P +  
Sbjct: 3   VVLLSSTSATITKSQSKKIPFLSPTT-KFPLKVSISPSRSKLFHNPLRVAAPPSVPTSDS 61

Query: 60  EETMRKDEKEDYGSLVDDEYG--KESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRD 117
            E  R          +++EYG  KE   S+F WRDHWYPVSLVEDLDPN+PT FQLLGRD
Sbjct: 62  TEEKR----------IEEEYGGDKEEEGSEFKWRDHWYPVSLVEDLDPNVPTPFQLLGRD 111

Query: 118 LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS 177
           LVLWFD N  KW AFDD CPHRLAPLSEGR+DENGHLQCSYHGWSF GCGSCTRIPQAA+
Sbjct: 112 LVLWFDRNDQKWAAFDDLCPHRLAPLSEGRLDENGHLQCSYHGWSFGGCGSCTRIPQAAT 171

Query: 178 EGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVT 237
            GPEARA++SPRACA +FPTMVSQGLLFVWPDE G +RAN+ +PP LPD FDKPEFS+VT
Sbjct: 172 SGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWDRANSIEPPRLPDDFDKPEFSTVT 231

Query: 238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPR 297
           IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFK+ESSG WGF GAND +PR
Sbjct: 232 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFQGANDDSPR 291

Query: 298 ISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM 357
           I+AKFVAPCY MNKIE+D KLP+VG+QKW+IWICSFN+PMAPGKTRSIVCSARNFFQF++
Sbjct: 292 ITAKFVAPCYSMNKIELDAKLPIVGNQKWVIWICSFNIPMAPGKTRSIVCSARNFFQFSV 351

Query: 358 PGPAWWQV 365
           PGPAWWQV
Sbjct: 352 PGPAWWQV 359

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|37962886|gb|AAR05797.1| accelerated cell death 1 [Arabidopsis thaliana]

 Score =  565 bits (1456), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 273/368 (74%), Positives = 304/368 (82%), Gaps = 14/368 (3%)

Query: 1   MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNL-SPLRVAAPPSDPAASD 59
           + LL ST+A IT S  K +PFL+  T K  + V     RSK   +PLRVAAPPS P +  
Sbjct: 3   VVLLSSTSATITKSQSKKIPFLSPTT-KFPLKVSISPSRSKLFHNPLRVAAPPSVPTSDS 61

Query: 60  EETMRKDEKEDYGSLVDDEYG--KESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRD 117
            E  R          +++EYG  KE   S+F WRDHWYPVSLVEDL PN+PT FQLLGRD
Sbjct: 62  TEEKR----------IEEEYGGDKEEEGSEFKWRDHWYPVSLVEDLVPNVPTPFQLLGRD 111

Query: 118 LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS 177
           LVLWFD N  KW AFDD CPHRLAPLSEGR+DENGHLQCSYHGWSF GCGSCTRIPQAA+
Sbjct: 112 LVLWFDRNDQKWAAFDDLCPHRLAPLSEGRLDENGHLQCSYHGWSFGGCGSCTRIPQAAT 171

Query: 178 EGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVT 237
            GPEARA++SPRACA +FPTMVSQGLLFVWPDE G +RAN+ +PP LPD FDKPEFS+VT
Sbjct: 172 SGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWDRANSIEPPRLPDDFDKPEFSTVT 231

Query: 238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPR 297
           IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFK+ESSG WGF GAND +PR
Sbjct: 232 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFQGANDDSPR 291

Query: 298 ISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM 357
           I+AKFVAPCY MNKIE+D KLP+VG+QKW+IWICSFN+PMAPGKTRSIVCSARNFFQF++
Sbjct: 292 ITAKFVAPCYSMNKIELDAKLPIVGNQKWVIWICSFNIPMAPGKTRSIVCSARNFFQFSV 351

Query: 358 PGPAWWQV 365
           PGPAWWQV
Sbjct: 352 PGPAWWQV 359

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297815634|ref|XP_002875700.1| hypothetical protein ARALYDRAFT_905628 [Arabidopsis lyrata subsp. lyrata] gi|297321538|gb|EFH51959.1| hypothetical protein ARALYDRAFT_905628 [Arabidopsis lyrata subsp. lyrata]

 Score =  565 bits (1455), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 271/368 (73%), Positives = 303/368 (82%), Gaps = 14/368 (3%)

Query: 1   MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLS-PLRVAAPPSDPAASD 59
           + LL ST+A IT S  K +PFL+  T K    V     RSK  + PLRVAAPPS P +  
Sbjct: 3   VVLLSSTSATITKSQSKKIPFLSPTT-KFPFKVSISPSRSKLFNNPLRVAAPPSIPTSDP 61

Query: 60  EETMRKDEKEDYGSLVDDEYG--KESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRD 117
            E  R          +++E+G   E  +S+F WRDHWYPVSLVEDLDPN+PT FQLLGRD
Sbjct: 62  AEEKR----------IEEEFGGDTEEEESEFKWRDHWYPVSLVEDLDPNVPTRFQLLGRD 111

Query: 118 LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS 177
           LVLWFD N  KW AFDD CPHRLAPLSEGR+DENGHLQCSYHGWSF GCGSCTRIPQAA+
Sbjct: 112 LVLWFDRNDQKWAAFDDLCPHRLAPLSEGRLDENGHLQCSYHGWSFSGCGSCTRIPQAAT 171

Query: 178 EGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVT 237
            GPEARA++SPRACA +FPTMVSQGLLFVWPDE G +RAN+ +PP LPD FD+PEFS+VT
Sbjct: 172 SGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWDRANSIEPPRLPDDFDRPEFSTVT 231

Query: 238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPR 297
           IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFK+ESSG WGF GAND NPR
Sbjct: 232 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFQGANDDNPR 291

Query: 298 ISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM 357
           I+AKFVAPCY +NKIEID KLP+ G+QKW+IWICSFN+PMAPGKTRSIVCSARNFFQF++
Sbjct: 292 ITAKFVAPCYSLNKIEIDAKLPIFGNQKWVIWICSFNIPMAPGKTRSIVCSARNFFQFSV 351

Query: 358 PGPAWWQV 365
           PGPAWWQV
Sbjct: 352 PGPAWWQV 359

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|89077587|gb|ABD60317.1| chloroplast pheophorbide a oxygenase PaO1 [Brassica napus]

 Score =  559 bits (1440), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 268/368 (72%), Positives = 301/368 (81%), Gaps = 13/368 (3%)

Query: 1   MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNL-SPLRVAAPPSDPAASD 59
           + L+ S +A +T S    +PFL+  + K    V    +R K L SPLRVAAPPS P +  
Sbjct: 3   VVLVSSASATLTKSKSIKIPFLSPNSAKFPSRVSISPQRPKLLDSPLRVAAPPSVPTSDP 62

Query: 60  EETMRKDEKEDYGSLVDDEYG--KESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRD 117
            E  R          +++E+G  KE   S+F WRDHWYPVSLVEDLDPN PT FQLLGRD
Sbjct: 63  AEESR----------IEEEHGGDKEEEGSEFKWRDHWYPVSLVEDLDPNSPTRFQLLGRD 112

Query: 118 LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS 177
           LVLWFD N  KW AFDD CPHRLAPLSEGR+DENGHLQCSYHGWSF GCGSCTRIPQAA+
Sbjct: 113 LVLWFDRNDQKWAAFDDLCPHRLAPLSEGRLDENGHLQCSYHGWSFAGCGSCTRIPQAAT 172

Query: 178 EGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVT 237
            GPEARA++SPRACA +FPTMVSQGLLFVWPDE G +RAN+ +PP LPD FDKPEFS+VT
Sbjct: 173 SGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWDRANSIEPPRLPDDFDKPEFSTVT 232

Query: 238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPR 297
           IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFK+ESSG WGF GAND  P+
Sbjct: 233 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFQGANDDGPK 292

Query: 298 ISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM 357
           I+AKFVAPCY +NKIEID KLP+VG+QKW+IWICSFN+PMAPGKTRSIVCSARNFFQF++
Sbjct: 293 ITAKFVAPCYSLNKIEIDAKLPIVGNQKWVIWICSFNIPMAPGKTRSIVCSARNFFQFSV 352

Query: 358 PGPAWWQV 365
           PGPAWWQV
Sbjct: 353 PGPAWWQV 360

Source: Brassica napus

Species: Brassica napus

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|407930081|gb|AFU51539.1| lethal leaf spot 1-like protein [Capsicum annuum]

 Score =  551 bits (1419), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 255/328 (77%), Positives = 288/328 (87%), Gaps = 7/328 (2%)

Query: 38  KRSKNLSPLRVAAPPSDPAASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPV 97
           ++ + + PLRV+APP+ P   ++E+          +++ D+    SS SKFSWRD+WYPV
Sbjct: 41  RKDRPIIPLRVSAPPTTPPIEEQES-------STSTVIQDDEQDLSSYSKFSWRDNWYPV 93

Query: 98  SLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCS 157
           SLVEDLDP+LPT FQLL RD+V+WFD + ++WV  DDKCPHRLAPLSEGR+DENGHLQCS
Sbjct: 94  SLVEDLDPSLPTPFQLLNRDMVIWFDKSGSQWVVLDDKCPHRLAPLSEGRLDENGHLQCS 153

Query: 158 YHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERAN 217
           YHGWSF+GCGSCTRIPQAASEGPEA+A QSPRA ATRFPTMVSQGLLFVWPDE G ERA 
Sbjct: 154 YHGWSFNGCGSCTRIPQAASEGPEAKAFQSPRATATRFPTMVSQGLLFVWPDENGWERAQ 213

Query: 218 ATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLP 277
           ATKPPMLP+ FDKPEF++VTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLP
Sbjct: 214 ATKPPMLPEDFDKPEFATVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLP 273

Query: 278 FKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPM 337
           FK+E+SG WGFAGAN+  P+ISAKFVAPCY MNKIEIDTKLP+VGDQKW+IWICSFNVPM
Sbjct: 274 FKMEASGPWGFAGANNDKPKISAKFVAPCYSMNKIEIDTKLPIVGDQKWVIWICSFNVPM 333

Query: 338 APGKTRSIVCSARNFFQFTMPGPAWWQV 365
           APGKTRSIVCSARNFFQF +PGPAWWQV
Sbjct: 334 APGKTRSIVCSARNFFQFAVPGPAWWQV 361

Source: Capsicum annuum

Species: Capsicum annuum

Genus: Capsicum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524120|ref|XP_004169071.1| PREDICTED: pheophorbide a oxygenase, chloroplastic-like [Cucumis sativus]

 Score =  550 bits (1416), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 261/361 (72%), Positives = 299/361 (82%), Gaps = 3/361 (0%)

Query: 5   LSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETMR 64
           L T++       + +P L          ++    R+  +SP+RVAAPP+ P+  D E   
Sbjct: 14  LITSSLYDVKSLRIVPSLIAVDRDPNFRLRKFCGRASGISPVRVAAPPTPPSTVDSENSE 73

Query: 65  KDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDN 124
             E +    +  DE G ESS + FSWRD+WYPVSL+EDLDP LPT FQLLGRD+V+WFD 
Sbjct: 74  VVESD---EVEVDESGNESSSTPFSWRDNWYPVSLIEDLDPALPTPFQLLGRDIVIWFDK 130

Query: 125 NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARA 184
           +  +WVAFDD+CPHRLAPLSEGRIDE G+LQCSYHGWSFDGCGSC +IPQA+SEGPE+RA
Sbjct: 131 SRGEWVAFDDRCPHRLAPLSEGRIDEGGNLQCSYHGWSFDGCGSCVKIPQASSEGPESRA 190

Query: 185 IQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFY 244
            QSPRACATRFPT+VSQGLLFVWPDE G ERANAT PP LPD FDKPEFSSVTIQRDLFY
Sbjct: 191 HQSPRACATRFPTLVSQGLLFVWPDENGWERANATTPPRLPDDFDKPEFSSVTIQRDLFY 250

Query: 245 GYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVA 304
           GYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKL+++G WGF+GAN GNPRISA+FVA
Sbjct: 251 GYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLDTNGPWGFSGANKGNPRISAEFVA 310

Query: 305 PCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQ 364
           PCYY+NK+EID+KLP++GDQKW+IWICSFNVPM PGKTRSIVCSARNFFQF+MPGPAWWQ
Sbjct: 311 PCYYINKVEIDSKLPLLGDQKWVIWICSFNVPMGPGKTRSIVCSARNFFQFSMPGPAWWQ 370

Query: 365 V 365
           V
Sbjct: 371 V 371

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	372
TAIR|locus:2082122	537	ACD1 "ACCELERATED CELL DEATH 1	0.956	0.662	0.732	2.1e-148
TAIR|locus:2131406	559	ACD1-LIKE "AT4G25650" [Arabido	0.483	0.322	0.437	5.3e-49
TAIR|locus:2047329	539	TIC55-II "translocon at the in	0.728	0.502	0.307	1.5e-33
UNIPROTKB|P71875	386	kshA "3-ketosteroid-9-alpha-mo	0.424	0.409	0.289	5.2e-11
UNIPROTKB|Q48IV9	354	vanA "Vanillate monooxygenase,	0.451	0.474	0.293	3.4e-10
TAIR|locus:2823671	536	CH1 "CHLORINA 1" [Arabidopsis	0.416	0.289	0.242	5.2e-09
UNIPROTKB|Q4KB09	352	vanA "Vanillate O-demethylase,	0.446	0.471	0.277	1.4e-08
UNIPROTKB|Q8G8B6	384	carAa "Carbazole 1,9a-dioxygen	0.475	0.460	0.277	8e-08
UNIPROTKB|Q4KAM4	363	prnD "Aminopyrrolnitrin oxidas	0.427	0.438	0.293	9.2e-08
UNIPROTKB|D5IGG0	378	carAa "Carbazole 1,9a-dioxygen	0.298	0.293	0.307	1.7e-07

TAIR|locus:2082122 ACD1 "ACCELERATED CELL DEATH 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1449 (515.1 bits), Expect = 2.1e-148, P = 2.1e-148
 Identities = 268/366 (73%), Positives = 298/366 (81%)

Query:     1 MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNL-SPLRVXXXXXXXXXXX 59
             + LL ST+A IT S  K +PFL+  T K  + V     RSK   +PLRV           
Sbjct:     3 VVLLSSTSATITKSQSKKIPFLSP-TTKFPLKVSISPSRSKLFHNPLRVAAPPSVPTS-- 59

Query:    60 EETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLV 119
             + T  K  +E+YG        KE   S+F WRDHWYPVSLVEDLDPN+PT FQLLGRDLV
Sbjct:    60 DSTEEKRIEEEYGG------DKEEEGSEFKWRDHWYPVSLVEDLDPNVPTPFQLLGRDLV 113

Query:   120 LWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEG 179
             LWFD N  KW AFDD CPHRLAPLSEGR+DENGHLQCSYHGWSF GCGSCTRIPQAA+ G
Sbjct:   114 LWFDRNDQKWAAFDDLCPHRLAPLSEGRLDENGHLQCSYHGWSFGGCGSCTRIPQAATSG 173

Query:   180 PEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQ 239
             PEARA++SPRACA +FPTMVSQGLLFVWPDE G +RAN+ +PP LPD FDKPEFS+VTIQ
Sbjct:   174 PEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWDRANSIEPPRLPDDFDKPEFSTVTIQ 233

Query:   240 RDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRIS 299
             RDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFK+ESSG WGF GAND +PRI+
Sbjct:   234 RDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFQGANDDSPRIT 293

Query:   300 AKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPG 359
             AKFVAPCY MNKIE+D KLP+VG+QKW+IWICSFN+PMAPGKTRSIVCSARNFFQF++PG
Sbjct:   294 AKFVAPCYSMNKIELDAKLPIVGNQKWVIWICSFNIPMAPGKTRSIVCSARNFFQFSVPG 353

Query:   360 PAWWQV 365
             PAWWQV
Sbjct:   354 PAWWQV 359

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0010277 "chlorophyllide a oxygenase [overall

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0009706 "chloroplast inner membrane" evidence=TAS

GO:0032441 "pheophorbide a oxygenase activity" evidence=IDA

GO:0051536 "iron-sulfur cluster binding" evidence=ISS

GO:0009908 "flower development" evidence=IMP

GO:0010154 "fruit development" evidence=IMP

GO:0015996 "chlorophyll catabolic process" evidence=IMP

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0008219 "cell death" evidence=IMP

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP

TAIR|locus:2131406 ACD1-LIKE "AT4G25650" [Arabidopsis thaliana (taxid:3702)]

 Score = 459 (166.6 bits), Expect = 5.3e-49, Sum P(2) = 5.3e-49
 Identities = 81/185 (43%), Positives = 113/185 (61%)

Query:    82 ESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA 141
             E    KF W  +WYPV  + DLD  +P   +++G DLV+W+D N  +W   DD CPHRLA
Sbjct:    73 EPGSDKFDWYANWYPVMPICDLDKKVPHGKKVMGIDLVVWWDRNEKQWKVMDDTCPHRLA 132

Query:   142 PLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ 201
             PLS+GRID+ G LQC YHGW F+G G C  IPQA  +GP     +  +AC   +P+ V  
Sbjct:   133 PLSDGRIDQWGRLQCVYHGWCFNGSGDCKLIPQAPPDGPPVHTFK--QACVAVYPSTVQH 190

Query:   202 GLLFVWP--DEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHI 259
              +++ WP  D   +      KPP +P+  D P F+ +   RD+ YGYD L+EN+ DP+H+
Sbjct:   191 EIIWFWPNSDPKYKNIIETNKPPYIPELED-PSFTKLMGNRDIPYGYDVLVENLMDPAHV 249

Query:   260 DFAHH 264
              +AH+
Sbjct:   250 PYAHY 254

GO:0009055 "electron carrier activity" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0010277 "chlorophyllide a oxygenase [overall

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009536 "plastid" evidence=IDA

TAIR|locus:2047329 TIC55-II "translocon at the inner envelope membrane of chloroplasts 55-II" [Arabidopsis thaliana (taxid:3702)]

 Score = 366 (133.9 bits), Expect = 1.5e-33, P = 1.5e-33
 Identities = 90/293 (30%), Positives = 146/293 (49%)

Query:    62 TMRKDEKEDYGS-LVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVL 120
             T   D+ E  G  L++ E  K    + + W + WYP+ L +++  + P    +  R +VL
Sbjct:    55 TAVSDQTEGGGDVLLNPEEEKRVEVADYDWTEEWYPLYLTKNVPEDAPLGLTVYDRQIVL 114

Query:   121 WFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGP 180
             + D        ++D+CPHRLA LSEG++ + G L+C YHGW F+G G C +IPQ  +   
Sbjct:   115 YKDGEGTLR-CYEDRCPHRLAKLSEGQLID-GRLECLYHGWQFEGEGKCVKIPQLPASAK 172

Query:   181 EARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQR 240
               +A     AC   +    SQG+++VW     +   N  K P   + F +P F  ++   
Sbjct:   173 IPKA-----ACVKTYEVKDSQGVVWVWMST--KTPPNPEKLPWFEN-FARPGFFDISTTH 224

Query:   241 DLFYGYDTLMENVSDPSHIDFAHHKV--TGRRDRAKPLPFKLESSGHWGFAGA----NDG 294
             +L Y +  L+EN+ DP+H+  +H +   T +R+ A+PL F++    + GFAG      +G
Sbjct:   225 ELPYDHSILLENLMDPAHVPISHDRTDFTAKREDAQPLVFEVTERSNRGFAGTWGREKEG 284

Query:   295 NPRISA-KFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIV 346
                 +  +F APC   N  E + K  V      + ++C    P   GK+  IV
Sbjct:   285 GKGSNLLRFDAPCVLQNNREFEGKDGVKNYFSGL-FLCR---PTGQGKSMLIV 333

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0010277 "chlorophyllide a oxygenase [overall

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0045036 "protein targeting to chloroplast" evidence=IMP

UNIPROTKB|P71875 kshA "3-ketosteroid-9-alpha-monooxygenase oxygenase subunit" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 178 (67.7 bits), Expect = 5.2e-11, P = 5.2e-11
 Identities = 50/173 (28%), Positives = 81/173 (46%)

Query:    94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
             W+ + + +D     P   +  G  LV++ D++ +  V  D  C H    LSEG + +   
Sbjct:    26 WHCLGVAKDYLEGKPHGVEAFGTKLVVFADSHGDLKV-LDGYCRHMGGDLSEGTV-KGDE 83

Query:   154 LQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATR-FPTMVSQGLLFVWPDEYG 212
             + C +H W + G G C  +P A          ++PR   TR + T V  GLLFVW D  G
Sbjct:    84 VACPFHDWRWGGDGRCKLVPYAR---------RTPRMARTRSWTTDVRSGLLFVWHDHEG 134

Query:   213 QERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDT--LMENVSDPSHIDFAH 263
                  A + P +P+A    E++     R L  G +   +++NV+D +H  + H
Sbjct:   135 NPPDPAVRIPEIPEAASD-EWTDWRWNRILIEGSNCRDIIDNVTDMAHFFYIH 186

GO:0005506 "iron ion binding" evidence=IDA

GO:0006707 "cholesterol catabolic process" evidence=IDA

GO:0009405 "pathogenesis" evidence=IDA

GO:0047086 "ketosteroid monooxygenase activity" evidence=IDA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IDA

GO:0070207 "protein homotrimerization" evidence=IPI

GO:0070723 "response to cholesterol" evidence=IEP

UNIPROTKB|Q48IV9 vanA "Vanillate monooxygenase, oxygenase subunit" [Pseudomonas syringae pv. phaseolicola 1448A (taxid:264730)]

 Score = 170 (64.9 bits), Expect = 3.4e-10, P = 3.4e-10
 Identities = 56/191 (29%), Positives = 84/191 (43%)

Query:    91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
             ++ WY V+   D   + P   Q+    +V + D N    VA +D CPHR APLS G + E
Sbjct:     4 KNAWY-VACTADEVADKPLGRQICNERMVFYRDQNQQV-VALEDFCPHRGAPLSLGYV-E 60

Query:   151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
             NG L C YHG    G G    +P     G   R    P  C   F  +   G ++VWP +
Sbjct:    61 NGQLVCGYHGLVMGGDGKTAAMP-----GQRVRGF--P--CNKTFAAVERYGFIWVWPGD 111

Query:   211 YGQERANATKPPMLPDAFDKPEFSSVTIQRDLFY---GYDTLMENVSDPSHIDFAHHKVT 267
               +E+A+    P L    +            LF+    Y  +++N+ D +H  + H    
Sbjct:   112 --REKAD----PALIHHLEWAVSDEWAYGGGLFHIQCDYRLMIDNLMDLTHETYVHASSI 165

Query:   268 GRR--DRAKPL 276
             G++  D A P+
Sbjct:   166 GQKEIDEAAPV 176

GO:0018489 "vanillate monooxygenase activity" evidence=ISS

GO:0042190 "vanillin catabolic process" evidence=ISS

TAIR|locus:2823671 CH1 "CHLORINA 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 5.2e-09, P = 5.2e-09
 Identities = 42/173 (24%), Positives = 74/173 (42%)

Query:    91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
             ++ WYPV+   DL  +     +   +  V+ F     K     + C HR  PL  G ++E
Sbjct:   218 KNFWYPVAFTADLKHDTMVPIECFEQPWVI-FRGEDGKPGCVRNTCAHRACPLDLGTVNE 276

Query:   151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
              G +QC YHGW +   G C ++P       + +++          P +  +G++++WP  
Sbjct:   277 -GRIQCPYHGWEYSTDGECKKMPSTKLLKVKIKSL----------PCLEQEGMIWIWP-- 323

Query:   211 YGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAH 263
              G E      P + P +          +  DL   +  L++N+ D +H  F H
Sbjct:   324 -GDEPPAPILPSLQPPS---GFLIHAELVMDLPVEHGLLLDNLLDLAHAPFTH 372

GO:0005506 "iron ion binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;ISS;IDA

GO:0010277 "chlorophyllide a oxygenase [overall

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0016705 "oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0015995 "chlorophyll biosynthetic process" evidence=RCA;IMP

GO:0009706 "chloroplast inner membrane" evidence=IDA

GO:0042651 "thylakoid membrane" evidence=IDA

GO:0009073 "aromatic amino acid family biosynthetic process" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0019344 "cysteine biosynthetic process" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

UNIPROTKB|Q4KB09 vanA "Vanillate O-demethylase, oxygenase subunit" [Pseudomonas protegens Pf-5 (taxid:220664)]

 Score = 156 (60.0 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 53/191 (27%), Positives = 82/191 (42%)

Query:    91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
             ++ WY     ++L    P   Q+ G  +V ++  +  +  A +D CPHR APLS G + E
Sbjct:     4 KNAWYVACTPDELQGK-PLGRQICGEHMV-FYRAHEGRVTAVEDFCPHRGAPLSLGYV-E 60

Query:   151 NGHLQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD 209
             NG+L C YHG    GC G    +P     G   R    P  C   F  +   G ++VWP 
Sbjct:    61 NGNLVCGYHGLVM-GCDGKTVEMP-----GQRVRGF--P--CNKTFAAVERYGFIWVWPG 110

Query:   210 EYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFY---GYDTLMENVSDPSHIDFAHHKV 266
             +       A   P L    +  +         LF+    Y  +++N+ D +H  + H   
Sbjct:   111 D------QALADPALIHHLEWADNDQWAYGGGLFHIQCDYRLMIDNLMDLTHETYVHASS 164

Query:   267 TGRR--DRAKP 275
              G++  D A P
Sbjct:   165 IGQKEIDEAPP 175

GO:0006725 "cellular aromatic compound metabolic process" evidence=ISS

GO:0018489 "vanillate monooxygenase activity" evidence=ISS

UNIPROTKB|Q8G8B6 carAa "Carbazole 1,9a-dioxygenase, terminal oxygenase component CarAa" [Pseudomonas resinovorans (taxid:53412)]

 Score = 150 (57.9 bits), Expect = 8.0e-08, P = 8.0e-08
 Identities = 56/202 (27%), Positives = 84/202 (41%)

Query:    85 DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
             D+K  +R+HWYPV   +++D   P   +LLG +L++  +    K     D+C HR   LS
Sbjct:    20 DAKLGFRNHWYPVMFSKEIDEGEPKTLKLLGENLLV--NRIDGKLYCLKDRCLHRGVQLS 77

Query:   145 -EGRIDENGHLQCSYHGWSF---DG--CGSCTRIPQAASEGPEARAIQSPRACATRFPTM 198
              +        + C YH W++   DG  C   T  P +A  G         R     +P  
Sbjct:    78 VKVECKTKSTITCWYHAWTYRWEDGVLCDILTN-PTSAQIG---------RQKLKTYPVQ 127

Query:   199 VSQGLLFVW-PDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPS 257
              ++G +F++  D      A  T P  L D  D        I +     +   +EN  DPS
Sbjct:   128 EAKGCVFIYLGDGDPPPLARDTPPNFLDD--DMEILGKNQIIKS---NWRLAVENGFDPS 182

Query:   258 HIDFAHHKVTGR-RDRAKPLPF 278
             HI      +  +  D A PL F
Sbjct:   183 HIYIHKDSILVKDNDLALPLGF 204

GO:0018564 "carbazole 1,9a-dioxygenase activity" evidence=IDA

GO:0046232 "carbazole catabolic process" evidence=IDA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IDA

UNIPROTKB|Q4KAM4 prnD "Aminopyrrolnitrin oxidase PrnD" [Pseudomonas protegens Pf-5 (taxid:220664)]

 Score = 149 (57.5 bits), Expect = 9.2e-08, P = 9.2e-08
 Identities = 51/174 (29%), Positives = 77/174 (44%)

Query:    94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
             WY V++  +   + P    L GR  V W    + + V  D  C H  A L++GRI ++G 
Sbjct:    29 WY-VAMRSNGLRDKPKELTLFGRPYVAW-RAATGQAVVMDRHCSHLGANLADGRI-KDGC 85

Query:   154 LQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQS-PRACATRFPTMVSQ---GLLFVWPD 209
             +QC +H W +D  G C  IP   SE    R ++  PRA   R PT+V+    G ++VW  
Sbjct:    86 IQCPFHHWRYDEQGKCVHIP-GHSE--VVRQLEPVPRAA--RQPTLVTTERYGYVWVW-- 138

Query:   210 EYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAH 263
              YG  +     P +     D  +F  +    +       ++EN  D  H    H
Sbjct:   139 -YGSPQPLHPLPEITAADVDNGDFMHLHFAFETTTAVLRIVENFYDAQHATPVH 191

GO:0003824 "catalytic activity" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0019748 "secondary metabolic process" evidence=ISS

UNIPROTKB|D5IGG0 carAa "Carbazole 1,9a-dioxygenase, terminal oxygenase component CarAa" [Sphingomonas sp. (taxid:28214)]

 Score = 147 (56.8 bits), Expect = 1.7e-07, P = 1.7e-07
 Identities = 39/127 (30%), Positives = 63/127 (49%)

Query:    86 SKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE 145
             +K  +R+HWYPV L  ++    P   +LLG  ++L  +    K  A  D+C HR   LS+
Sbjct:    21 AKLGFRNHWYPVRLASEIAEGTPVPVKLLGEKILL--NRVGGKVYAIQDRCLHRGVTLSD 78

Query:   146 GRID--ENGHLQCSYHGWSF---DGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS 200
              R++      + C YHGW++   DG     R+    +  P +  +Q  R     FP   +
Sbjct:    79 -RVECYSKNTISCWYHGWTYRWDDG-----RLVDILTN-PGS--VQIGRRALKTFPVEEA 129

Query:   201 QGLLFVW 207
             +GL+FV+
Sbjct:   130 KGLIFVY 136

GO:0018564 "carbazole 1,9a-dioxygenase activity" evidence=ISS

GO:0046232 "carbazole catabolic process" evidence=IDA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FYC2	PAO_ARATH	1, ., 1, 4, ., 1, 2, ., 2, 0	0.7445	0.9516	0.6592	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	1.14.12	0.963
3rd Layer	1.14.13	LOW CONFIDENCE prediction!
3rd Layer	1.14.13.82	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	372
PLN02518	539	PLN02518, PLN02518, pheophorbide a oxygenase	0.0
cd03480	138	cd03480, Rieske_RO_Alpha_PaO, Rieske non-heme iron	7e-84
COG4638	367	COG4638, HcaE, Phenylpropionate dioxygenase and re	8e-44
cd03469	118	cd03469, Rieske_RO_Alpha_N, Rieske non-heme iron o	3e-30
cd04338	134	cd04338, Rieske_RO_Alpha_Tic55, Tic55 is a 55kDa L	1e-28
pfam00355	99	pfam00355, Rieske, Rieske [2Fe-2S] domain	5e-22
cd03479	144	cd03479, Rieske_RO_Alpha_PhDO_like, Rieske non-hem	4e-20
cd03532	116	cd03532, Rieske_RO_Alpha_VanA_DdmC, Rieske non-hem	2e-18
cd03467	98	cd03467, Rieske, Rieske domain; a [2Fe-2S] cluster	5e-18
cd04337	129	cd04337, Rieske_RO_Alpha_Cao, Cao (chlorophyll a o	3e-17
COG2146	106	COG2146, {NirD}, Ferredoxin subunits of nitrite re	8e-14
PLN00095	394	PLN00095, PLN00095, chlorophyllide a oxygenase; Pr	3e-13
cd03531	115	cd03531, Rieske_RO_Alpha_KSH, The alignment model	8e-12
cd03537	123	cd03537, Rieske_RO_Alpha_PrnD, This alignment mode	1e-11
PLN02281	536	PLN02281, PLN02281, chlorophyllide a oxygenase	2e-11
pfam08417	91	pfam08417, PaO, Pheophorbide a oxygenase	8e-11
cd03548	136	cd03548, Rieske_RO_Alpha_OMO_CARDO, Rieske non-hem	2e-09
cd03530	98	cd03530, Rieske_NirD_small_Bacillus, Small subunit	1e-06
cd03474	108	cd03474, Rieske_T4moC, Toluene-4-monooxygenase eff	4e-05
cd03528	98	cd03528, Rieske_RO_ferredoxin, Rieske non-heme iro	2e-04
cd03478	95	cd03478, Rieske_AIFL_N, AIFL (apoptosis-inducing f	0.001
cd03535	123	cd03535, Rieske_RO_Alpha_NDO, Rieske non-heme iron	0.004

>gnl|CDD|215283 PLN02518, PLN02518, pheophorbide a oxygenase

 Score =  669 bits (1728), Expect = 0.0
 Identities = 281/367 (76%), Positives = 304/367 (82%), Gaps = 7/367 (1%)

Query: 1   MALLLSTTANIT--TSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAAS 58
           MA+LL    N    TS                    S  +R K  +PLRVAAPPS P+ +
Sbjct: 1   MAVLLGIACNSLTLTSSTPKSTPFFIPARTIPFVSSSRPRRGKIFTPLRVAAPPSVPSEA 60

Query: 59  DEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDL 118
             +    DE E+    V+ E G+ESSDSKFSWRDHWYPVSLVEDLDP++PT FQLLGRDL
Sbjct: 61  ALQQ---DEGEEQR--VEQELGQESSDSKFSWRDHWYPVSLVEDLDPSVPTPFQLLGRDL 115

Query: 119 VLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASE 178
           VLW D N  +WVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA E
Sbjct: 116 VLWKDPNQGEWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAPE 175

Query: 179 GPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTI 238
           GPEARA++SPRACA +FPTMVSQGLLFVWPDE G ERA ATKPPMLPD FD PEFS+VTI
Sbjct: 176 GPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWERAQATKPPMLPDEFDDPEFSTVTI 235

Query: 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRI 298
           QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFK+ESSG WGFAGAN  NPRI
Sbjct: 236 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFAGANSDNPRI 295

Query: 299 SAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMP 358
           +AKFVAPCYY+NKIEIDTKLP+VGDQKW+IWICSFNVPMAPGKTRSIVCSARNFFQF+MP
Sbjct: 296 TAKFVAPCYYINKIEIDTKLPIVGDQKWVIWICSFNVPMAPGKTRSIVCSARNFFQFSMP 355

Query: 359 GPAWWQV 365
           GPAWWQ+
Sbjct: 356 GPAWWQL 362

Length = 539

>gnl|CDD|239562 cd03480, Rieske_RO_Alpha_PaO, Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic cyanobacterial photosynthesizers including LLS1 (lethal leaf spot 1, also known as PaO) and ACD1 (accelerated cell death 1)

 Score =  250 bits (641), Expect = 7e-84
 Identities = 89/136 (65%), Positives = 98/136 (72%), Gaps = 3/136 (2%)

Query: 82  ESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA 141
            S   KF WR+ WYPV+ VEDLDP+ PT F LLGRDLV+W+D NS +W AFDD+CPHRLA
Sbjct: 6   GSDSDKFDWREVWYPVAYVEDLDPSRPTPFTLLGRDLVIWWDRNSQQWRAFDDQCPHRLA 65

Query: 142 PLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ 201
           PLSEGRIDE G L+C YHGWSFDG GSC RIPQAA  G    A  SPRAC    PT V Q
Sbjct: 66  PLSEGRIDEEGCLECPYHGWSFDGSGSCQRIPQAAEGGK---AHTSPRACVASLPTAVRQ 122

Query: 202 GLLFVWPDEYGQERAN 217
           GLLFVWP E    +A 
Sbjct: 123 GLLFVWPGEPENAKAT 138

ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PaO expression increases upon physical wounding of plant leaves and is thought to catalyze a key step in chlorophyll degradation. The Arabidopsis-accelerated cell death gene ACD1 is involved in oxygenation of PaO. Length = 138

>gnl|CDD|226985 COG4638, HcaE, Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]

 Score =  155 bits (393), Expect = 8e-44
 Identities = 51/200 (25%), Positives = 80/200 (40%), Gaps = 7/200 (3%)

Query: 90  WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID 149
           +  HWY V+   +L    P   ++ G  LV+   +   +  A  D CPHR A LSEGR+ 
Sbjct: 24  FYKHWYVVAHSSELPKPDPLTVRIGGEPLVVV-RDKDGQVHALADVCPHRGARLSEGRVG 82

Query: 150 ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD 209
             G L C YHGW++D  G    +P                    R+P     G +++W  
Sbjct: 83  GKGRLTCPYHGWTYDLDGRLRGVPARG----YPLDFDKSEHGLKRYPVEERYGFIWIWLG 138

Query: 210 EYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSD-PSHIDFAHHKVTG 268
           +       A  PP  P   D+      +   ++   +   +EN  D P H+ F H  + G
Sbjct: 139 DPPPAAE-AFLPPAEPYEDDRSRLGGGSFTINVPGNWKLAVENNLDDPYHVPFVHPGLLG 197

Query: 269 RRDRAKPLPFKLESSGHWGF 288
                +   + + + GHW  
Sbjct: 198 TEPHTEVGAYDVTAGGHWDV 217

Length = 367

>gnl|CDD|239551 cd03469, Rieske_RO_Alpha_N, Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms

 Score =  111 bits (281), Expect = 3e-30
 Identities = 38/118 (32%), Positives = 50/118 (42%), Gaps = 6/118 (5%)

Query: 94  WYPVSLVEDL-DPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENG 152
           WY V    +L +P      +L G  LVL  D +  +  AF + CPHR A L EGR    G
Sbjct: 1   WYFVGHSSELPEPGDYVTLELGGEPLVLVRDRD-GEVRAFHNVCPHRGARLCEGRGGNAG 59

Query: 153 HLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
            L C YHGW++D  G    +P+              +      P     GL+FV  D 
Sbjct: 60  RLVCPYHGWTYDLDGKLVGVPRE----EGFPGFDKEKLGLRTVPVEEWGGLIFVNLDP 113

These enzymes enable microorganisms to tolerate and even exclusively utilize aromatic compounds for growth. ROs consist of two or three components: reductase, oxygenase, and ferredoxin (in some cases) components. The oxygenase component may contain alpha and beta subunits, with the beta subunit having a purely structural function. Some oxygenase components contain only an alpha subunit. The oxygenase alpha subunit has two domains, an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from the reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Reduced pyridine nucleotide is used as the initial source of two electrons for dioxygen activation. Length = 118

>gnl|CDD|239830 cd04338, Rieske_RO_Alpha_Tic55, Tic55 is a 55kDa LLS1-related non-heme iron oxygenase associated with protein transport through the plant inner chloroplast membrane

 Score =  108 bits (271), Expect = 1e-28
 Identities = 45/133 (33%), Positives = 74/133 (55%), Gaps = 7/133 (5%)

Query: 78  EYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCP 137
           E+    + +++ WR+ WYP+ L++D+  + P    +     VL+ D N  +    +D+CP
Sbjct: 2   EFETPENVAEYDWREEWYPLYLLKDVPTDAPLGLSVYDEPFVLFRDQN-GQLRCLEDRCP 60

Query: 138 HRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPT 197
           HRLA LSEG++ + G L+C YHGW F G G C +IPQ  ++    +      AC   +  
Sbjct: 61  HRLAKLSEGQLID-GKLECLYHGWQFGGEGKCVKIPQLPADAKIPKN-----ACVKSYEV 114

Query: 198 MVSQGLLFVWPDE 210
             SQG++++W  E
Sbjct: 115 RDSQGVVWMWMSE 127

This domain represents the N-terminal Rieske domain of the Tic55 oxygenase alpha subunit. Tic55 is closely related to the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic cyanobacterial photosynthesizers including LLS1 (lethal leaf spot 1, also known as PaO), Ptc52, and ACD1 (accelerated cell death 1). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Length = 134

>gnl|CDD|215875 pfam00355, Rieske, Rieske [2Fe-2S] domain

 Score = 89.1 bits (221), Expect = 5e-22
 Identities = 28/84 (33%), Positives = 35/84 (41%), Gaps = 3/84 (3%)

Query: 93  HWYPVSLVEDLDPNLPT-AFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR-IDE 150
            W PV    +L          L G D V+   +   +  A  + C HR APLS G   +E
Sbjct: 1   VWVPVCHESELPEPGDFKTVDLDGEDPVVVRRDKDGEVRALSNVCTHRGAPLSRGGVGNE 60

Query: 151 NGHLQCSYHGWSFDGC-GSCTRIP 173
            G  +C YHGW FD   G     P
Sbjct: 61  KGGFECPYHGWRFDLSTGKLVGGP 84

The rieske domain has a [2Fe-2S] centre. Two conserved cysteines that one Fe ion while the other Fe ion is coordinated by two conserved histidines. Length = 99

>gnl|CDD|239561 cd03479, Rieske_RO_Alpha_PhDO_like, Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3,4-dioxygenase (CBDO), phenoxybenzoate dioxygenase (POB-dioxygenase) and 3-nitrobenzoate oxygenase (MnbA)

 Score = 85.4 bits (212), Expect = 4e-20
 Identities = 47/139 (33%), Positives = 69/139 (49%), Gaps = 19/139 (13%)

Query: 91  RDHWYPVSLVEDL-DPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID 149
           R +W PV+L  +L +   P   +LLG DLV + D +    +  D+ CPHR A L  GR++
Sbjct: 19  RRYWQPVALSSELTEDGQPVRVRLLGEDLVAFRDTSGRVGL-LDEHCPHRGASLVFGRVE 77

Query: 150 ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW-- 207
           E G L+C YHGW FD  G C  +P   SE P+++  Q  +     +P     GL++ +  
Sbjct: 78  ECG-LRCCYHGWKFDVDGQCLEMP---SEPPDSQLKQ--KVRQPAYPVRERGGLVWAYMG 131

Query: 208 PDEYGQERANATKPPMLPD 226
           P E         + P  P 
Sbjct: 132 PAE---------EAPEFPR 141

ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PhDO and CBDO are two-component RO systems, containing oxygenase and reductase components. PhDO catalyzes the dihydroxylation of phthalate to form the 4,5-dihydro-cis-dihydrodiol of phthalate (DHD). CBDO, together with CbaC dehydrogenase, converts the environmental pollutant 3CBA to protocatechuate (PCA) and 5-Cl-PCA, which are then metabolized by the chromosomal PCA meta (extradiol) ring fission pathway. POB-dioxygenase catalyzes the initial catabolic step in the angular dioxygenation of phenoxybenzoate, converting mono- and dichlorinated phenoxybenzoates to protocatechuate and chlorophenols. These phenoxybenzoates are metabolic products formed during the degradation of pyrethroid insecticides. Length = 144

>gnl|CDD|239608 cd03532, Rieske_RO_Alpha_VanA_DdmC, Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

 Score = 79.7 bits (197), Expect = 2e-18
 Identities = 41/118 (34%), Positives = 60/118 (50%), Gaps = 11/118 (9%)

Query: 91  RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
           R+ WY  +  ++L  + P A  LLG  +VL +     +  A +D+CPHR APLS+G + E
Sbjct: 3   RNAWYVAAWADELG-DKPLARTLLGEPVVL-YRTQDGRVAALEDRCPHRSAPLSKGSV-E 59

Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP 208
            G L C YHG  FD  G C  +P     G E       +AC   +P +    L+++W 
Sbjct: 60  GGGLVCGYHGLEFDSDGRCVHMP-----GQERV---PAKACVRSYPVVERDALIWIWM 109

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Vanillate-O-demethylase is a heterodimeric enzyme consisting of a terminal oxygenase (VanA) and reductase (VanB) components. This enzyme reductively catalyzes the conversion of vanillate into protocatechuate and formaldehyde. Protocatechuate and vanillate are important intermediate metabolites in the degradation pathway of lignin-derived compounds such as ferulic acid and vanillin by soil microbes. DDmC is the oxygenase component of a three-component dicamba O-demethylase found in Pseudomonas maltophila, that catalyzes the conversion of a widely used herbicide called herbicide dicamba (2-methoxy-3,6-dichlorobenzoic acid) to DCSA (3,6-dichlorosalicylic acid). Length = 116

>gnl|CDD|239550 cd03467, Rieske, Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes

 Score = 78.3 bits (193), Expect = 5e-18
 Identities = 28/115 (24%), Positives = 42/115 (36%), Gaps = 18/115 (15%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           W  V  + +L P       + G  +V+       +  A  ++C H+  PLSEG   E+G 
Sbjct: 1   WVVVGALSELPPGGGRVVVVGGGPVVVVRREG-GEVYALSNRCTHQGCPLSEGE-GEDGC 58

Query: 154 LQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW 207
           + C  HG  FD   G     P                    ++P  V +G   VW
Sbjct: 59  IVCPCHGSRFDLRTGEVVSGP--------------APRPLPKYPVKV-EGDGVVW 98

The Rieske domain can be divided into two subdomains, with an incomplete six-stranded, antiparallel beta-barrel at one end, and an iron-sulfur cluster binding subdomain at the other. The Rieske iron-sulfur center contains a [2Fe-2S] cluster, which is involved in electron transfer, and is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In RO systems, the N-terminal Rieske domain of the alpha subunit acts as an electron shuttle that accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron in the alpha subunit C-terminal domain to be used for catalysis. Length = 98

>gnl|CDD|239829 cd04337, Rieske_RO_Alpha_Cao, Cao (chlorophyll a oxygenase) is a rieske non-heme iron-sulfur protein located within the plastid-envelope inner and thylakoid membranes, that catalyzes the conversion of chlorophyllide a to chlorophyllide b

 Score = 77.1 bits (190), Expect = 3e-17
 Identities = 42/118 (35%), Positives = 60/118 (50%), Gaps = 12/118 (10%)

Query: 91  RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
           R+ WYPV   +DL  +    F+L G+  VL+ D +        D+C HR  PLS G++ E
Sbjct: 15  RNFWYPVEFSKDLKMDTMVPFELFGQPWVLFRDEDG-TPGCIRDECAHRACPLSLGKVIE 73

Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP 208
            G +QC YHGW +DG G CT++P          A+          P M   G+++VWP
Sbjct: 74  -GRIQCPYHGWEYDGDGECTKMPSTKCLNVGIAAL----------PCMEQDGMIWVWP 120

CAO is found not only in plants but also in chlorophytes and prochlorophytes. This domain represents the N-terminal rieske domain of the oxygenase alpha subunit. ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Cao is closely related to several other plant RO's including Tic 55, a 55 kDa protein associated with protein transport through the inner chloroplast membrane; Ptc 52, a novel 52 kDa protein isolated from chloroplasts; and LLS1/Pao (Lethal-leaf spot 1/pheophorbide a oxygenase). Length = 129

>gnl|CDD|225057 COG2146, {NirD}, Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]

 Score = 66.6 bits (163), Expect = 8e-14
 Identities = 31/118 (26%), Positives = 46/118 (38%), Gaps = 16/118 (13%)

Query: 93  HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENG 152
           +W  +  V+DL         + G    L       +  A D++CPH  APLS G ++ + 
Sbjct: 4   NWIRICKVDDLPEGGGVRVLVGGGRFAL-VVRADGEVFAIDNRCPHAGAPLSRGLVEGDE 62

Query: 153 HLQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD 209
            + C  HG  FD   G C        E P  + +         +P  V  G +FV  D
Sbjct: 63  TVVCPLHGARFDLRTGECL-------EPPAGKTL-------KTYPVRVEGGRVFVDLD 106

Length = 106

>gnl|CDD|165668 PLN00095, PLN00095, chlorophyllide a oxygenase; Provisional

 Score = 70.1 bits (171), Expect = 3e-13
 Identities = 54/205 (26%), Positives = 80/205 (39%), Gaps = 33/205 (16%)

Query: 47  RVAAPPSDPAASDEETMRKDEKEDYGSLVDDEY-------GKESSDSKFSWRDHWYPVSL 99
           R AA     AA  +    K +K   G++ DD         G + + +    R HW+PV+ 
Sbjct: 22  RCAAGARSRAARAQRAGAKAKK---GAVDDDASTRARGAPGVDGAGATADARAHWFPVAF 78

Query: 100 VEDL-DPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSY 158
              L D +   AF L     VL+ D +        D+C HR  PLS G++  +G  QC Y
Sbjct: 79  AAGLRDEDALIAFDLFNVPWVLFRDADGEAG-CIKDECAHRACPLSLGKL-VDGKAQCPY 136

Query: 159 HGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANA 218
           HGW ++  G C ++P                  A   P +   G +F+W  E        
Sbjct: 137 HGWEYETGGECAKMPSCKK--------FLKGVFADAAPVIERDGFIFLWAGESD------ 182

Query: 219 TKPPMLPDAFDKPEFSSVTIQRDLF 243
                 P  F  PE +  +I  D+ 
Sbjct: 183 ------PADFVGPEAACESIDDDVL 201

Length = 394

>gnl|CDD|239607 cd03531, Rieske_RO_Alpha_KSH, The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH)

 Score = 61.3 bits (149), Expect = 8e-12
 Identities = 36/121 (29%), Positives = 51/121 (42%), Gaps = 10/121 (8%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           W+ + L  D     P   +  G  LV++ D++    V  D  C H    LS+G +  +  
Sbjct: 2   WHCLGLARDFRDGKPHGVEAFGTKLVVFADSDGALNV-LDAYCRHMGGDLSQGTVKGD-E 59

Query: 154 LQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQ 213
           + C +H W + G G C  IP A    P AR           +PT+   G LFVW D  G 
Sbjct: 60  IACPFHDWRWGGDGRCKAIPYARRVPPLAR--------TRAWPTLERNGQLFVWHDPEGN 111

Query: 214 E 214
            
Sbjct: 112 P 112

The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway, catalyzing the 9 alpha-hydroxylation of 4-androstene-3,17-dione (AD) and 1,4-androstadiene-3,17-dione (ADD). KSH is a two-component class IA monooxygenase, with terminal oxygenase (KshA) and oxygenase reductase (KshB) components. KSH activity has been found in many actino- and proteo- bacterial genera including Rhodococcus, Nocardia, Arthrobacter, Mycobacterium, and Burkholderia. Length = 115

>gnl|CDD|239611 cd03537, Rieske_RO_Alpha_PrnD, This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD)

 Score = 60.7 bits (147), Expect = 1e-11
 Identities = 38/132 (28%), Positives = 58/132 (43%), Gaps = 13/132 (9%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           WY V++  D   + PT   L GR  V W    + + V  D  C H  A L++GR+ ++G 
Sbjct: 4   WY-VAMRSDDLKDKPTELTLFGRPCVAWRGA-TGRAVVMDRHCSHLGANLADGRV-KDGC 60

Query: 154 LQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQ 213
           +QC +H W +D  G C  IP  ++       +    A      T    G ++VW   YG 
Sbjct: 61  IQCPFHHWRYDEQGQCVHIPGHSTAVRRLEPV-PRGARQPTLVTAERYGYVWVW---YG- 115

Query: 214 ERANATKPPMLP 225
                +  P+ P
Sbjct: 116 -----SPQPLHP 122

PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation of the amino group in aminopyrrolnitrin to a nitro group, forming the antibiotic pyrrolnitrin. The biosynthesis of pyrrolnitrin is one of the best examples of enzyme-catalyzed arylamine oxidation. Although arylamine oxygenases are widely distributed within the microbial world and used in a variety of metabolic reactions, PrnD represents one of only two known examples of arylamine oxygenases or N-oxygenases involved in arylnitro group formation, the other being AurF involved in aureothin biosynthesis. Length = 123

>gnl|CDD|177920 PLN02281, PLN02281, chlorophyllide a oxygenase

 Score = 65.1 bits (158), Expect = 2e-11
 Identities = 54/224 (24%), Positives = 91/224 (40%), Gaps = 21/224 (9%)

Query: 91  RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
           ++ WYPV+   DL  +     +   +  V+ F     K     + C HR  PL  G ++E
Sbjct: 218 KNFWYPVAFTADLKHDTMVPIECFEQPWVI-FRGEDGKPGCVRNTCAHRACPLDLGTVNE 276

Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
            G +QC YHGW +   G C ++P       + +++          P +  +G++++WP  
Sbjct: 277 -GRIQCPYHGWEYSTDGECKKMPSTKLLKVKIKSL----------PCLEQEGMIWIWP-- 323

Query: 211 YGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRR 270
            G E      P + P +          +  DL   +  L++N+ D +H  F H     + 
Sbjct: 324 -GDEPPAPILPSLQPPS---GFLIHAELVMDLPVEHGLLLDNLLDLAHAPFTHTSTFAKG 379

Query: 271 DRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEI 314
                L   L  +   G  G  D  P I  +F  PC  ++ I I
Sbjct: 380 WSVPSLVKFLTPTS--GLQGYWDPYP-IDMEFKPPCIVLSTIGI 420

Length = 536

>gnl|CDD|219832 pfam08417, PaO, Pheophorbide a oxygenase

 Score = 57.7 bits (140), Expect = 8e-11
 Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 7/64 (10%)

Query: 302 FVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM-PGP 360
           F APC  ++   +        + K  +    + +P++PGK+R +    RNF    +   P
Sbjct: 1   FEAPCLLLSTGVLK------AECKKHLHTVFYCIPVSPGKSRLLARFPRNFKSPLLKLVP 54

Query: 361 AWWQ 364
            WW+
Sbjct: 55  RWWE 58

This domain is found in bacterial and plant proteins to the C-terminus of a Rieske 2Fe-2S domain (pfam00355). One of the proteins the domain is found in is Pheophorbide a oxygenase (PaO) which seems to be a key regulator of chlorophyll catabolism. Arabidopsis PaO (AtPaO) is a Rieske-type 2Fe-2S enzyme that is identical to Arabidopsis accelerated cell death 1 and homologous to lethal leaf spot 1 (LLS1) of maize, in which the domain described here is also found. Length = 91

>gnl|CDD|239617 cd03548, Rieske_RO_Alpha_OMO_CARDO, Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

 Score = 55.1 bits (133), Expect = 2e-09
 Identities = 28/81 (34%), Positives = 41/81 (50%), Gaps = 3/81 (3%)

Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           D+K+ +R+HWYP     +L+   P   QL G  ++L       K  A  D+C HR  PLS
Sbjct: 6   DAKWGFRNHWYPALFSHELEEGEPKGIQLCGEPILL--RRVDGKVYALKDRCLHRGVPLS 63

Query: 145 EG-RIDENGHLQCSYHGWSFD 164
           +       G + C YHGW++ 
Sbjct: 64  KKPECFTKGTITCWYHGWTYR 84

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. OMO catalyzes the NADH-dependent oxidation of the N-heterocyclic aromatic compound 2-oxoquinoline to 8-hydroxy-2-oxoquinoline, the second step in the bacterial degradation of quinoline. OMO consists of a reductase component (OMR) and an oxygenase component (OMO) that together function to shuttle electrons from the reduced pyridine nucleotide to the active site of OMO, where O2 activation and 2-oxoquinoline hydroxylation occurs. CARDO, which contains oxygenase (CARDO-O), ferredoxin (CARDO-F) and ferredoxin reductase (CARDO-R) components, catalyzes the dihydroxylation at the C1 and C9a positions of carbazole. The oxygenase component of OMO and CARDO contain only alpha subunits arranged in a trimeric structure. Length = 136

>gnl|CDD|239606 cd03530, Rieske_NirD_small_Bacillus, Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain

 Score = 46.1 bits (110), Expect = 1e-06
 Identities = 30/114 (26%), Positives = 47/114 (41%), Gaps = 18/114 (15%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           W  +  +ED+ P      Q  G ++ + F    ++  A +++CPH+  PLSEG I    +
Sbjct: 1   WIDIGALEDIPPRGARKVQTGGGEIAV-FRTADDEVFALENRCPHKGGPLSEG-IVHGEY 58

Query: 154 LQCSYHGWSFD-GCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFV 206
           + C  H W  D   G      Q   EG           C   FP  V  G +++
Sbjct: 59  VTCPLHNWVIDLETGEA----QGPDEG-----------CVRTFPVKVEDGRVYL 97

The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Length = 98

>gnl|CDD|239556 cd03474, Rieske_T4moC, Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer

 Score = 41.9 bits (99), Expect = 4e-05
 Identities = 17/39 (43%), Positives = 19/39 (48%), Gaps = 1/39 (2%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSC 169
           AF   CPH+  PL+EG  D  G L C  H W FD     
Sbjct: 37  AFQGICPHQEIPLAEGGFD-GGVLTCRAHLWQFDADTGE 74

T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent hydroxylation of toluene to form p-cresol. T4mo consists of an NADH oxidoreductase (T4moF), a diiron hydroxylase (T4moH), a catalytic effector protein (T4moD), and a Rieske ferredoxin (T4moC). T4moC contains a Rieske domain and functions as an obligate electron carrier between T4moF and T4moH. Rieske ferredoxins are found as subunits of membrane oxidase complexes, cis-dihydrodiol-forming aromatic dioxygenases, bacterial assimilatory nitrite reductases, and arsenite oxidase. Rieske ferredoxins are also found as soluble electron carriers in bacterial dioxygenase and monooxygenase complexes. Length = 108

>gnl|CDD|239604 cd03528, Rieske_RO_ferredoxin, Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO)

 Score = 39.8 bits (94), Expect = 2e-04
 Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 3/71 (4%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           W  V  V++L    P    + GR + ++      ++ A DD C H  A LSEG + E G 
Sbjct: 1   WVRVCAVDELPEGEPKRVDVGGRPIAVY--RVDGEFYATDDLCTHGDASLSEGYV-EGGV 57

Query: 154 LQCSYHGWSFD 164
           ++C  HG  FD
Sbjct: 58  IECPLHGGRFD 68

The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable microorganisms to tolerate and even exclusively utilize aromatic compounds for growth. ROs consist of two or three components: reductase, oxygenase, and ferredoxin (in some cases) components. The ferredoxin component contains either a plant-type or Rieske-type [2Fe-2S] cluster. The Rieske ferredoxin component in this family carries an electron from the RO reductase component to the terminal RO oxygenase component. BPDO degrades biphenyls and polychlorinated biphenyls. BPDO ferredoxin (BphF) has structural features consistent with a minimal and perhaps archetypical Rieske protein in that the insertions that give other Rieske proteins unique structural features are missing. CARDO catalyzes dihydroxylation at the C1 and C9a positions of carbazole. Rieske ferredoxins are found as subunits of membrane oxidase complexes, cis-dihydrodiol-forming aromatic dioxygenases, bacterial assimilatory nitrite reductases, and arsenite oxidase. Rieske ferredoxins are also found as soluble electron carriers in bacterial dioxygenase and monooxygenase complexes. Length = 98

>gnl|CDD|239560 cd03478, Rieske_AIFL_N, AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox)

 Score = 37.6 bits (88), Expect = 0.001
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 2/44 (4%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC-GSCTRIP 173
           A   KCPH  APL++G +  +G ++C +HG  F+   G     P
Sbjct: 35  AIGAKCPHYGAPLAKGVL-TDGRIRCPWHGACFNLRTGDIEDAP 77

The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. AIFL shares 35% homology with human AIF (apoptosis-inducing factor), mainly in the Pyr_redox domain. AIFL is predominantly localized to the mitochondria. AIFL induces apoptosis in a caspase-dependent manner. Length = 95

>gnl|CDD|239609 cd03535, Rieske_RO_Alpha_NDO, Rieske non-heme iron oxygenase (RO) family, Nathphalene 1,2-dioxygenase (NDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

 Score = 36.6 bits (85), Expect = 0.004
 Identities = 12/43 (27%), Positives = 19/43 (44%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIP 173
           A  + C HR   +    +    H +C YHGW++   G    +P
Sbjct: 40  AMFNSCRHRGMQVCRAEMGNTSHFRCPYHGWTYRNTGRLVGVP 82

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. NDO is a three-component RO system consisting of a reductase, a ferredoxin, and a hetero-hexameric alpha-beta subunit oxygenase component. NDO catalyzes the oxidation of naphthalene to cis-(1R,2S)-dihydroxy-1,2-dihydronaphthalene (naphthalene cis-dihydrodiol) with the consumption of O2 and NAD(P)H. NDO has a relaxed substrate specificity and can oxidize almost 100 substrates. Included in its varied activities are the enantiospecific cis-dihydroxylation of polycyclic aromatic hydrocarbons and benzocycloalkenes, benzylic hydroxylation, N- and O-dealkylation, sulfoxidation and desaturation reactions. Length = 123

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	372
PLN02518	539	pheophorbide a oxygenase	100.0
PLN02281	536	chlorophyllide a oxygenase	100.0
PLN00095	394	chlorophyllide a oxygenase; Provisional	100.0
COG4638	367	HcaE Phenylpropionate dioxygenase and related ring	100.0
TIGR03228	438	anthran_1_2_A anthranilate 1,2-dioxygenase, large	100.0
TIGR03229	433	benzo_1_2_benA benzoate 1,2-dioxygenase, large sub	100.0
cd03545	150	Rieske_RO_Alpha_OHBDO_like Rieske non-heme iron ox	100.0
cd04338	134	Rieske_RO_Alpha_Tic55 Tic55 is a 55kDa LLS1-relate	99.97
cd03480	138	Rieske_RO_Alpha_PaO Rieske non-heme iron oxygenase	99.97
cd03537	123	Rieske_RO_Alpha_PrnD This alignment model represen	99.97
cd03538	146	Rieske_RO_Alpha_AntDO Rieske non-heme iron oxygena	99.97
cd03531	115	Rieske_RO_Alpha_KSH The alignment model represents	99.96
cd04337	129	Rieske_RO_Alpha_Cao Cao (chlorophyll a oxygenase)	99.96
cd03479	144	Rieske_RO_Alpha_PhDO_like Rieske non-heme iron oxy	99.96
cd03532	116	Rieske_RO_Alpha_VanA_DdmC Rieske non-heme iron oxy	99.96
cd03548	136	Rieske_RO_Alpha_OMO_CARDO Rieske non-heme iron oxy	99.96
cd03539	129	Rieske_RO_Alpha_S5H This alignment model represent	99.96
cd03541	118	Rieske_RO_Alpha_CMO Rieske non-heme iron oxygenase	99.96
cd03472	128	Rieske_RO_Alpha_BPDO_like Rieske non-heme iron oxy	99.96
cd03535	123	Rieske_RO_Alpha_NDO Rieske non-heme iron oxygenase	99.95
cd03536	123	Rieske_RO_Alpha_DTDO This alignment model represen	99.95
cd03469	118	Rieske_RO_Alpha_N Rieske non-heme iron oxygenase (	99.94
cd03542	123	Rieske_RO_Alpha_HBDO Rieske non-heme iron oxygenas	99.93
cd03528	98	Rieske_RO_ferredoxin Rieske non-heme iron oxygenas	99.92
cd03530	98	Rieske_NirD_small_Bacillus Small subunit of nitrit	99.92
cd03474	108	Rieske_T4moC Toluene-4-monooxygenase effector prot	99.91
cd03529	103	Rieske_NirD Assimilatory nitrite reductase (NirD)	99.91
TIGR02377	101	MocE_fam_FeS Rieske [2Fe-2S] domain protein, MocE	99.91
TIGR02378	105	nirD_assim_sml nitrite reductase [NAD(P)H], small	99.9
PRK09965	106	3-phenylpropionate dioxygenase ferredoxin subunit;	99.89
cd03478	95	Rieske_AIFL_N AIFL (apoptosis-inducing factor like	99.89
PF13806	104	Rieske_2: Rieske-like [2Fe-2S] domain; PDB: 2JO6_A	99.86
PRK09511	108	nirD nitrite reductase small subunit; Provisional	99.86
PF00355	97	Rieske: Rieske [2Fe-2S] domain; InterPro: IPR01794	99.85
COG2146	106	{NirD} Ferredoxin subunits of nitrite reductase an	99.83
cd03467	98	Rieske Rieske domain; a [2Fe-2S] cluster binding d	99.83
cd03477	91	Rieske_YhfW_C YhfW family, C-terminal Rieske domai	99.81
cd03476	126	Rieske_ArOX_small Small subunit of Arsenite oxidas	99.75
cd03471	126	Rieske_cytochrome_b6f Iron-sulfur protein (ISP) co	99.69
cd03473	107	Rieske_CMP_Neu5Ac_hydrolase_N Cytidine monophospha	99.67
TIGR02694	129	arsenite_ox_S arsenite oxidase, small subunit. Thi	99.65
cd03470	126	Rieske_cytochrome_bc1 Iron-sulfur protein (ISP) co	99.59
PRK13474	178	cytochrome b6-f complex iron-sulfur subunit; Provi	99.46
TIGR01416	174	Rieske_proteo ubiquinol-cytochrome c reductase, ir	99.31
cd08878	196	RHO_alpha_C_DMO-like C-terminal catalytic domain o	99.24
cd03475	171	Rieske_SoxF_SoxL SoxF and SoxL family, Rieske doma	98.89
cd00680	188	RHO_alpha_C C-terminal catalytic domain of the oxy	98.88
cd08885	190	RHO_alpha_C_1 C-terminal catalytic domain of the o	98.59
PF08417	92	PaO: Pheophorbide a oxygenase; InterPro: IPR013626	98.58
cd08886	182	RHO_alpha_C_2 C-terminal catalytic domain of the o	98.54
cd08883	175	RHO_alpha_C_CMO-like C-terminal catalytic domain o	98.46
cd08887	185	RHO_alpha_C_3 C-terminal catalytic domain of the o	98.4
COG0723	177	QcrA Rieske Fe-S protein [Energy production and co	98.28
cd08884	205	RHO_alpha_C_GbcA-like C-terminal catalytic domain	98.1
PF00848	209	Ring_hydroxyl_A: Ring hydroxylating alpha subunit	98.04
KOG1671	210	consensus Ubiquinol cytochrome c reductase, subuni	97.94
TIGR03171	321	soxL2 Rieske iron-sulfur protein SoxL2. This iron-	97.82
cd08880	222	RHO_alpha_C_ahdA1c-like C-terminal catalytic domai	97.65
cd08879	237	RHO_alpha_C_AntDO-like C-terminal catalytic domain	97.04
cd08882	243	RHO_alpha_C_MupW-like C-terminal catalytic domain	96.98
cd08881	206	RHO_alpha_C_NDO-like C-terminal catalytic domain o	96.94
PF11723	240	Aromatic_hydrox: Homotrimeric ring hydroxylase; In	96.78
KOG1336	478	consensus Monodehydroascorbate/ferredoxin reductas	95.71

>PLN02518 pheophorbide a oxygenase

Probab=100.00  E-value=5.4e-64  Score=516.63  Aligned_cols=364  Identities=76%  Similarity=1.324  Sum_probs=280.1

Q ss_pred             Ccccccccc---ccccCCCcccccccCCCCCceeeccccccccccCCcceeeCCCCCCCCChhhhhhhccccccCCcccc
Q 017387            1 MALLLSTTA---NITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETMRKDEKEDYGSLVDD   77 (372)
Q Consensus         1 ~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~Y~d~   77 (372)
                      ||+++++..   ++|.+..+..+|+.+-+ +++.+....+.+++..++++++++|+.++++..+.+...+..     .++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~   74 (539)
T PLN02518          1 MAVLLGIACNSLTLTSSTPKSTPFFIPAR-TIPFVSSSRPRRGKIFTPLRVAAPPSVPSEAALQQDEGEEQR-----VEQ   74 (539)
T ss_pred             CceeeeccccchhhccCCCCCcceeeecc-eeccccccccccccccccceecCCCCCCccccccCCcccccc-----ccc
Confidence            666655444   66777778888887644 666666665666666788899999887654321111111100     112


Q ss_pred             ccCCCCCCCceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeee
Q 017387           78 EYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCS  157 (372)
Q Consensus        78 ~~~~~e~~~~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CP  157 (372)
                      +....+.+..|.|+++||+||.++||++|+++.++++|++|||||+..+|+++||+|+|||||++|+.|++++++.|+||
T Consensus        75 ~~~~~~~~~~f~~~~~Wy~Va~~~dL~~g~p~~~~llG~~lVl~Rd~~~G~~~A~~d~CPHRgapLS~G~v~~~g~L~Cp  154 (539)
T PLN02518         75 ELGQESSDSKFSWRDHWYPVSLVEDLDPSVPTPFQLLGRDLVLWKDPNQGEWVAFDDKCPHRLAPLSEGRIDENGHLQCS  154 (539)
T ss_pred             cccccccchhhhhhhhCEEEEEHHHCCCCCeEEEEECCEEEEEEEECCCCeEEEEcccCcCcCCCcccceecCCCEEEcC
Confidence            33334445678999999999999999889999999999999999962489999999999999999999998656799999


Q ss_pred             eeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCCCcceEE
Q 017387          158 YHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVT  237 (372)
Q Consensus       158 yHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~  237 (372)
                      ||||+||++|+|+.||+....++..++..+++.++++|||+|++|+||||+++++.+.++...+|.+++++++++|..+.
T Consensus       155 YHGW~Fd~~G~c~~IP~~~~~~~~~~~~~~~~a~v~sypv~e~~GlIwV~~~~~~~~~a~~~~~P~~~~~~~~~~~~~~~  234 (539)
T PLN02518        155 YHGWSFDGCGSCTRIPQAAPEGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWERAQATKPPMLPDEFDDPEFSTVT  234 (539)
T ss_pred             CCCCEEcCCCCeeecccccccccccccccCcccccceEeEEEECCEEEEEeCCccccccccccCCCCcccccCCCceeEE
Confidence            99999999999999997654333222223567789999999999999999997643334556667776678888888776


Q ss_pred             EeeeccchhhhhhccCCCCCcccccccccccCccCCCCCCeeecccCccccccCCCCCCeeEEeeeccceeeeeeeeccc
Q 017387          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTK  317 (372)
Q Consensus       238 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~gf~~~~~~~~~~~~~f~~P~~~~~~~~~~~~  317 (372)
                      ...+++++|++++||++|++|++|+|++++|+++.+.+.+++++..+.+||.+..........+|.+||++.+.+.+..+
T Consensus       235 ~~~~~~~~~~~l~EN~lD~sH~pfvH~~~~G~~~~~~~~~~~v~~~~~~Gf~g~~~~~~~~~~~F~~P~~~~~~~~~~~~  314 (539)
T PLN02518        235 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFAGANSDNPRITAKFVAPCYYINKIEIDTK  314 (539)
T ss_pred             EEEEEecCchhHHHhCCccchhceeccccccCccccccccceEEEcCCCcccccccCCCceEEEEECCeEEEEeeeeecc
Confidence            67789999999999999999999999999999988888788887776778875433444556899999998877666544


Q ss_pred             CcccccceEEEEEEeeeccCCCCCceeEEeeccceeeeecC-------CCcee-eeeeccc
Q 017387          318 LPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMP-------GPAWW-QVRTSQL  370 (372)
Q Consensus       318 ~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~~~~-------~p~w~-~~~~~~~  370 (372)
                      .+..++....+++++++||+++++||+||.++|||+.|..+       .|+|| |+..|++
T Consensus       315 ~~~~~~~~~~~~~~~~~tP~s~g~tr~f~~~~Rnf~~~~~~~~~~~k~~PrW~~h~~~n~V  375 (539)
T PLN02518        315 LPIVGDQKWVIWICSFNVPMAPGKTRSIVCSARNFFQFSMPGPAWWQLVPRWYEHWTSNKV  375 (539)
T ss_pred             ccCCCCcceEEEEEEEEEECCCCeEEEEEEecccchhccccchhhhhcCchHHHHhhhccc
Confidence            43334555677888999999999999999999999887643       68888 6665543

>PLN02281 chlorophyllide a oxygenase

Probab=100.00  E-value=1.1e-46  Score=382.90  Aligned_cols=244  Identities=23%  Similarity=0.489  Sum_probs=186.5

Q ss_pred             eecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCc
Q 017387           89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS  168 (372)
Q Consensus        89 ~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~  168 (372)
                      .+++.||+||.++||++|+++.++++|++|||||+ .+|+++|++|+|||||++|+.|.++ ++.|+||||||+||.+|+
T Consensus       216 ~lrn~Wy~Va~s~EL~~g~~~~v~llG~~IVL~R~-~dG~v~A~~D~CPHRgaPLs~G~v~-g~~L~CPYHGW~FD~dG~  293 (536)
T PLN02281        216 HLKNFWYPVAFTADLKHDTMVPIECFEQPWVIFRG-EDGKPGCVRNTCAHRACPLDLGTVN-EGRIQCPYHGWEYSTDGE  293 (536)
T ss_pred             hhhcccEEEEEHHHCCCCCeEEEEECCEEEEEEEC-CCCeEEEEeCcCcCCCCccccceee-CCEEEeCCCCCEECCCCC
Confidence            46999999999999988999999999999999998 8999999999999999999999996 689999999999999999


Q ss_pred             ccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCC-CcceEE-Eeeeccchh
Q 017387          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKP-EFSSVT-IQRDLFYGY  246 (372)
Q Consensus       169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~-~~~~~~-~~~~~~~nw  246 (372)
                      |+.+|+.+          +.+.++++|||+|++|+||||+++++       ..|.++ +++++ +|.... ...++++||
T Consensus       294 cv~iP~~~----------~~~~~l~sYPV~e~~GlVwV~lgd~~-------~aP~~p-~ld~p~~~~~~~~~~~~~~~nw  355 (536)
T PLN02281        294 CKKMPSTK----------LLKVKIKSLPCLEQEGMIWIWPGDEP-------PAPILP-SLQPPSGFLIHAELVMDLPVEH  355 (536)
T ss_pred             EeeCCCCc----------cccCCcceEeEEEECCEEEEEeCCCC-------CCCCCc-cccCcccceEEEEEEEEecCCH
Confidence            99999753          23568999999999999999998653       124455 56655 554433 357899999


Q ss_pred             hhhhccCCCCCcccccccccccCccCCCCCCeeecccCccccccCCCCCCeeEEeeeccceeeeeeeecccCccc--cc-
Q 017387          247 DTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVV--GD-  323 (372)
Q Consensus       247 k~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~gf~~~~~~~~~~~~~f~~P~~~~~~~~~~~~~p~~--g~-  323 (372)
                      ++++||++|+||++|+|++++|..... +...+.... ..++....... ...++|++||++...+.+.......  ++ 
T Consensus       356 kllvENllD~~H~~fvH~~t~g~~~~~-p~~v~~~~~-~~~~~p~~~~~-pv~~~f~aP~~v~l~i~~~~~G~~~~~~~~  432 (536)
T PLN02281        356 GLLLDNLLDLAHAPFTHTSTFAKGWSV-PSLVKFLTP-TSGLQGYWDPY-PIDMEFKPPCIVLSTIGISKPGKLEGKSTQ  432 (536)
T ss_pred             HHHHHhccccccccccCcccccCcccC-CceeEEecc-cCCCCcccccC-CceEEEECcEEEEEeeccccCCcccccccc
Confidence            999999999999999999999974333 222222211 11121111111 2368999999988766553211100  11 


Q ss_pred             -ceEEEEEEeeeccCCCCCceeEEeeccceeee
Q 017387          324 -QKWIIWICSFNVPMAPGKTRSIVCSARNFFQF  355 (372)
Q Consensus       324 -~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~  355 (372)
                       ....++.++++||+++++||+||.+.|||...
T Consensus       433 ~~~~~~~~~h~~TPeT~~sTryF~~~~Rnf~~~  465 (536)
T PLN02281        433 QCATHLHQLHVCLPSSKNKTRLLYRMSLDFAPI  465 (536)
T ss_pred             ccccceEEEEEEEECCCCeEEEEEEecccCccc
Confidence             12234566777999999999999999999765

>PLN00095 chlorophyllide a oxygenase; Provisional

Probab=100.00  E-value=9.2e-46  Score=362.11  Aligned_cols=250  Identities=25%  Similarity=0.453  Sum_probs=191.2

Q ss_pred             ecccceeeeeeccC-CCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCc
Q 017387           90 WRDHWYPVSLVEDL-DPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS  168 (372)
Q Consensus        90 ~~~~W~~V~~~~eL-~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~  168 (372)
                      .+++||+|+.++|| ++|+++.++++|++|+|||+ .+|+++|++|.|||||++|+.|+++ ++.|+||||||+||.+|+
T Consensus        69 ~r~~WypVa~ssdL~~~g~~~~f~L~GepIVL~Rd-~dGqv~Af~N~CPHRGapLSeG~v~-~g~L~CPYHGW~FD~~G~  146 (394)
T PLN00095         69 ARAHWFPVAFAAGLRDEDALIAFDLFNVPWVLFRD-ADGEAGCIKDECAHRACPLSLGKLV-DGKAQCPYHGWEYETGGE  146 (394)
T ss_pred             hhcCeEEEEEHHHCCCCCceEEEEECCEEEEEEEC-CCCCEEEEeccCCCCCCccccCccc-CCEEEecCCCcEECCCCC
Confidence            37899999999999 57999999999999999999 8999999999999999999999996 789999999999999999


Q ss_pred             ccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhh----------h-c----cCCCCCCCCCCCCCCc
Q 017387          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQER----------A-N----ATKPPMLPDAFDKPEF  233 (372)
Q Consensus       169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~----------~-~----~~~~p~~p~~~~~~~~  233 (372)
                      |+.+|+....        .++.++++|||++++|+||||+++.....          . +    ...++.++ +.  .+|
T Consensus       147 C~~iP~~~~~--------~~~~~v~tYPV~e~dGlVwVw~G~~~p~dflg~~~~~e~~~~~~~~~~~P~~~~-~~--~gf  215 (394)
T PLN00095        147 CAKMPSCKKF--------LKGVFADAAPVIERDGFIFLWAGESDPADFVGPEAACESIDDDVLAANEPGMFA-PG--EGF  215 (394)
T ss_pred             EeeCCCcccc--------ccccccceEEEEEECCEEEEEeCCcchhhhccccccccccccchhhccCCcccC-CC--CCc
Confidence            9999975432        23467999999999999999998643210          0 0    11222333 22  256


Q ss_pred             ceEEE-eeeccchhhhhhccCCCCCc-ccccccccc----cCccCCCCCCeeecccCccccccCCCCCCeeEEeeeccce
Q 017387          234 SSVTI-QRDLFYGYDTLMENVSDPSH-IDFAHHKVT----GRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCY  307 (372)
Q Consensus       234 ~~~~~-~~~~~~nwk~~~EN~lD~~H-~~~vH~~~~----g~~~~~~~~~~~v~~~~~~gf~~~~~~~~~~~~~f~~P~~  307 (372)
                      ..... .+|++++|.+++||+||++| .+|+|+.++    +++.++.+.++++......++.+..+. ..+.++|.+||+
T Consensus       216 ~~~aev~~Dlp~d~~~L~ENllD~aH~a~~~~t~tf~~~~~~r~~~~~~~~~~~~~~~~~l~g~~~~-~p~~~~F~ppc~  294 (394)
T PLN00095        216 TPMAEVIADIKLDADEVLERLLAIGERARREATVSFDVSDAKRGRDALFPVDGTKIIAKVLRGGRDA-VPQSATFKPACV  294 (394)
T ss_pred             eEEEEEEEeccccHHHHHHhhcCccccCCccCceeeecccccccccCccchhhhhhhhhhheeeccc-CCcceeEcCcee
Confidence            55433 57999999999999999999 488887666    455555555544443434455544333 567799999999


Q ss_pred             eeeeeeecccCcccccc-eEEEEEEeeeccCCCCCceeEEeeccceee
Q 017387          308 YMNKIEIDTKLPVVGDQ-KWIIWICSFNVPMAPGKTRSIVCSARNFFQ  354 (372)
Q Consensus       308 ~~~~~~~~~~~p~~g~~-~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~  354 (372)
                      +.++|.+..+ |-.+++ ..+++..++++|.++++||+++++++||..
T Consensus       295 ~~s~i~l~~~-~g~~~~~~~~l~qlhvclP~~~G~tRll~R~~~dF~~  341 (394)
T PLN00095        295 IASTIALEDG-PGGGDGTDMNVEQLHVCLPAKPGLCRLLFRLAFDFVA  341 (394)
T ss_pred             eeeeeccccc-CCCCccccceeeeEEEEEecCCCceEEEEeecccccc
Confidence            9998887432 111111 245556667799999999999999999965

>COG4638 HcaE Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]

Probab=100.00  E-value=1.8e-41  Score=337.55  Aligned_cols=198  Identities=27%  Similarity=0.459  Sum_probs=160.6

Q ss_pred             ccccCCccccccCCCCCCCceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCc
Q 017387           68 KEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR  147 (372)
Q Consensus        68 ~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~  147 (372)
                      +++...|+|++.+++|.+.+|  .++||+||+++||+++++++++++|++|||+|+ .+|+++||.|.|||||++||.|+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~--~~~Wy~v~~~~el~~~~~~~~~i~g~~lvi~R~-~dg~~~al~d~C~HRga~Ls~g~   80 (367)
T COG4638           4 RLPPPFYTDPELFQLELERIF--YKHWYVVAHSSELPKPDPLTVRIGGEPLVVVRD-KDGQVHALADVCPHRGARLSEGR   80 (367)
T ss_pred             cCCCccccCHHHHHHHHHHhh--hhCEEEEccHHHCCCCCceeEEEcCeEEEEEEC-CCCCEEEEeccCCCCCchhcccc
Confidence            567889999999999998877  669999999999998899999999999999999 89999999999999999999999


Q ss_pred             cCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCC
Q 017387          148 IDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDA  227 (372)
Q Consensus       148 v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~  227 (372)
                      +++.+.|+||||||+||++|+|+.+|+......    ..+++.++++|||++++|+||||+++++.+ .+..++|..+.+
T Consensus        81 ~~~~~~l~CpyHgW~y~~~G~~~~ip~~~~~~~----~~~~~~~l~~~~~~~~~G~Iwi~~~~~~~~-~~~~~~p~~~~~  155 (367)
T COG4638          81 VGGKGRLTCPYHGWTYDLDGRLRGVPARGYPLD----FDKSEHGLKRYPVEERYGFIWIWLGDPPPA-AEAFLPPAEPYE  155 (367)
T ss_pred             CCCCceEecCCCceEECCCCcEecCCccccCCC----CCHhhCCccccceEEEccEEEEecCCCccC-hhHhcccccccc
Confidence            975489999999999999999999995321111    123456899999999999999999987643 334444444312


Q ss_pred             CCCCCcceEEEeeeccchhhhhhccCCC-CCcccccccccccCccCC
Q 017387          228 FDKPEFSSVTIQRDLFYGYDTLMENVSD-PSHIDFAHHKVTGRRDRA  273 (372)
Q Consensus       228 ~~~~~~~~~~~~~~~~~nwk~~~EN~lD-~~H~~~vH~~~~g~~~~~  273 (372)
                      .++...........+++|||.++||++| +||++++|+++++.....
T Consensus       156 ~~~~~~~~~~~~~~~~~nwk~~vEn~~d~~~H~~~vH~~~~~~~~~~  202 (367)
T COG4638         156 DDRSRLGGGSFTINVPGNWKLAVENNLDDPYHVPFVHPGLLGTEPHT  202 (367)
T ss_pred             cccccccCceEEEEecccceEEeeccCCccccccccCHHHhcccccc
Confidence            2222222223346788999999998887 999999999998865443

>TIGR03228 anthran_1_2_A anthranilate 1,2-dioxygenase, large subunit

Probab=100.00  E-value=8.6e-41  Score=337.75  Aligned_cols=199  Identities=13%  Similarity=0.151  Sum_probs=159.4

Q ss_pred             hccccccCCccccccCCCCCCCceeecccceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCC
Q 017387           65 KDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPL  143 (372)
Q Consensus        65 ~~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~L  143 (372)
                      ...+|+.+.|+|+++|++|++++|  .+.|+.||+++||++ |+++++.+++++|+|+|+ ++|+++||.|+|||||++|
T Consensus        12 ~~~~v~~~~ytd~~if~~E~~~IF--~~~W~~v~h~selp~~GDy~t~~ig~~pviv~R~-~dG~i~a~~N~C~HRGa~L   88 (438)
T TIGR03228        12 GVFRIARDMFTEPELFDLEMELIF--EKNWIYACHESELPNNHDFVTVRAGRQPMIVTRD-GKGELHALVNACQHRGATL   88 (438)
T ss_pred             CceecChheECCHHHHHHHHHHHH--hhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEEC-CCCCEEEEcccCCCCCCcc
Confidence            345799999999999999999988  899999999999985 999999999999999999 8999999999999999999


Q ss_pred             CCCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCC
Q 017387          144 SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPM  223 (372)
Q Consensus       144 s~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~  223 (372)
                      +....++.+.|+||||||+||.||+|+.+|......+.   +++...+|+.++|++++|+|||++++++.+++++++.+.
T Consensus        89 ~~~~~Gn~~~~~CPYHgW~y~~dG~L~~vp~~~~y~~~---fd~~~~~L~~~rv~~y~GfIFv~l~~~a~~~l~e~lg~~  165 (438)
T TIGR03228        89 TRVGKGNQSTFTCPFHAWCYKSDGRLVKVKAPGEYCEG---FDKATRGLKKARIASYRGFVFVSLDVAATDSLEDFLGDA  165 (438)
T ss_pred             ccCCccccCEEEcCCCCCcccCCCceeecCcccccCCC---CChhhCCCcceeEEEECCEEEEEeCCCCCCCHHHHhhhH
Confidence            97433346789999999999999999999965332221   234567788899999999999999987532344555432


Q ss_pred             CC--CCCC----CCCcceEE--EeeeccchhhhhhccCCCCCcccccccccccC
Q 017387          224 LP--DAFD----KPEFSSVT--IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGR  269 (372)
Q Consensus       224 ~p--~~~~----~~~~~~~~--~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~  269 (372)
                      ..  +.+.    ..+++.+.  ..+.+++|||+++||++|.||++++|.++++.
T Consensus       166 ~~~ld~~~~~~~~g~le~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~~  219 (438)
T TIGR03228       166 RVFLDMMVAQSPTGELEVLPGKSAYTYAGNWKLQNENGLDGYHVSTVHYNYVAT  219 (438)
T ss_pred             HHHHHHHhhccCcCceEEecceEEEEeCCchHHHHHhccccccchhhChhhHhh
Confidence            11  0111    11233332  24688999999999999999999999987643

Anthranilate (2-aminobenzoate) is an intermediate of tryptophan (Trp) biosynthesis and degradation. Members of this family are the large subunit of anthranilate 1,2-dioxygenase, which acts in Trp degradation by converting anthranilate to catechol. Closely related paralogs typically are the benzoate 1,2-dioxygenase large subunit, among the larger set of ring-hydroxylating dioxygenases.

>TIGR03229 benzo_1_2_benA benzoate 1,2-dioxygenase, large subunit

Probab=100.00  E-value=2.5e-39  Score=327.16  Aligned_cols=198  Identities=15%  Similarity=0.180  Sum_probs=158.3

Q ss_pred             hccccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCC
Q 017387           65 KDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPL  143 (372)
Q Consensus        65 ~~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~L  143 (372)
                      ...++|.++|+|++++++|++++|  .+.|+.||+++||+ +|+++++.++|++|+|+|+ ++|+++||.|+|||||++|
T Consensus        12 ~~~~~~~~~Ytd~~~f~~E~~~IF--~~~W~~v~~~selp~~gd~~t~~~~~~~vvv~R~-~dG~i~af~N~C~HRga~L   88 (433)
T TIGR03229        12 GIFRCKREMFTDPELFDLEMKHIF--EGNWIYLAHESQIPNNNDYYTTYMGRQPIFIARN-KDGELNAFINACSHRGAML   88 (433)
T ss_pred             CCccCChhhcCCHHHHHHHHHHHh--hhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEEC-CCCcEEEEeCcCCCCCCCc
Confidence            345799999999999999999988  89999999999998 4899999999999999999 8999999999999999999


Q ss_pred             CCCccCCCCceeeeeeceeecCCCcccccCccccC-CcccccccC-cccccccCC-ceeecceEEEecCCcchhhhccCC
Q 017387          144 SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASE-GPEARAIQS-PRACATRFP-TMVSQGLLFVWPDEYGQERANATK  220 (372)
Q Consensus       144 s~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~-~~~~~~~~~-~~~~l~~~p-v~e~~G~I~V~~~~~~~~~~~~~~  220 (372)
                      +.|..++.+.|+||||||+||.+|+|+.+|..... .+.  .++. ...+|+.++ ++.++|+|||++++++. ++++++
T Consensus        89 ~~~~~g~~~~~~CPyHgW~f~~~G~l~~vP~~~~~~~~~--~fd~~~~~~L~~v~rve~y~GfIFv~l~~~~~-~l~e~L  165 (433)
T TIGR03229        89 CRHKRGNKTTYTCPFHGWTFNNSGKLLKVKDPEDAGYPE--CFNKDGSHDLKKVARFESYRGFLFGSLNPDVL-PLEEHL  165 (433)
T ss_pred             ccccccCCCEEEcCCCCCEecCCcceEeCCCcccccCcc--ccCcHhhcCCccceEEEEECCEEEEEcCCCCC-CHHHHh
Confidence            99877656789999999999999999999974321 111  1112 356799995 77779999999998764 344555


Q ss_pred             CCCCCCCCC---C---CCcceEE--EeeeccchhhhhhccCCCCCcccccccccccC
Q 017387          221 PPMLPDAFD---K---PEFSSVT--IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGR  269 (372)
Q Consensus       221 ~p~~p~~~~---~---~~~~~~~--~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~  269 (372)
                      .+... .++   +   .++..+.  ..+.++||||+++||++|+||++++|.+++..
T Consensus       166 g~~~~-~ld~~~~~~~~~~~~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~~  221 (433)
T TIGR03229       166 GETAK-IIDMIVDQSPDGLEVLRGSSTYTYEGNWKLQAENGADGYHVSAVHWNYAAT  221 (433)
T ss_pred             hhHHH-HHHHHhhcCcCCCeEEeeeEEEEecCchhhhHHhccCcccchhhcccHHHh
Confidence            44211 121   1   2233332  24678999999999999999999999887643

Benzoate 1,2-dioxygenase (EC 1.14.12.10) belongs to the larger family of aromatic ring-hydroxylating dioxygenases. Members of this family all act on benzoate, but may have additional activities on various benozate analogs. This model describes the large subunit. Between the trusted and noise cutoffs are similar enzymes, likely to act on benzoate but perhaps best identified according to some other activity, such as 2-chlorobenzoate 1,2-dioxygenase (1.14.12.13).

>cd03545 Rieske_RO_Alpha_OHBDO_like Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H), terephthalate 1,2-dioxygenase system (TERDOS) and similar proteins

Probab=100.00  E-value=1.3e-34  Score=254.46  Aligned_cols=142  Identities=19%  Similarity=0.321  Sum_probs=123.5

Q ss_pred             ccccCCccccccCCCCCCCceeec-ccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCC
Q 017387           68 KEDYGSLVDDEYGKESSDSKFSWR-DHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (372)
Q Consensus        68 ~v~~~~Y~d~~~~~~e~~~~f~~~-~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~  145 (372)
                      +||.+.|+|+++++.|++.+|  + +.|+.|+++++|+ +|+++.+.++|++|+|+|+ .+|+++|+.|+|||||++|+.
T Consensus         1 ~~~~~~y~d~~~~~~E~~~if--~~~~W~~v~~~~el~~~g~~~~~~i~g~~iiv~r~-~~g~v~A~~n~CpHrg~~L~~   77 (150)
T cd03545           1 RVPYKVFTDRAYFDREQERIF--RGKTWSYVGLEAEIPNAGDFKSTFVGDTPVVVTRA-EDGSLHAWVNRCAHRGALVCR   77 (150)
T ss_pred             CCChhhccCHHHHHHHHHhhh--CCCceEEEEEHHHCCCCCCEEEEEECCceEEEEEC-CCCCEEEEcccCcCCCCEecc
Confidence            478899999999999998877  7 9999999999998 5999999999999999998 799999999999999999999


Q ss_pred             CccCCCCceeeeeeceeecCCCcccccCccccCCcc---cccccCcccccccCCceeecceEEEecCCcc
Q 017387          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPE---ARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       146 G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~---~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |..+.++.|+||||||+||++|+|+.+|......+.   .....+.+.+|++|+|++++|+|||++++++
T Consensus        78 g~~g~~~~i~CP~Hgw~Fdl~G~~~~ip~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~ifv~l~~~~  147 (150)
T cd03545          78 ERRGNDGSLTCVYHQWAYDLKGNLKGVPFRRGLKGQGGMPKDFDMKQHGLEKLRVETVGGLVFASFSDEV  147 (150)
T ss_pred             cccCCCCEEECCCCCCEECCCCCEEECccccccccccccccCcCHHHCCCcceeEeEECCEEEEEeCCCC
Confidence            876546789999999999999999999986543211   1112355678999999999999999999764

ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. OHBDO converts 2-chlorobenzoate (2-CBA) to catechol as well as 2,4-dCBA and 2,5-dCBA to 4-chlorocatechol, as part of the chlorobenzoate degradation pathway. Although ortho-substituted chlorobe

>cd04338 Rieske_RO_Alpha_Tic55 Tic55 is a 55kDa LLS1-related non-heme iron oxygenase associated with protein transport through the plant inner chloroplast membrane

Probab=99.97  E-value=5.5e-32  Score=233.66  Aligned_cols=119  Identities=36%  Similarity=0.885  Sum_probs=105.7

Q ss_pred             ceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCC
Q 017387           87 KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC  166 (372)
Q Consensus        87 ~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~d  166 (372)
                      .++|++.|++|+.++||++|..+.++++|++|+|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+
T Consensus        11 ~~~~~~~W~~v~~~~el~~~~~~~~~v~g~~ivl~r~-~~G~v~A~~n~CpHrga~L~~G~~~-~~~i~CP~Hgw~Fd~~   88 (134)
T cd04338          11 EYDWREEWYPLYLLKDVPTDAPLGLSVYDEPFVLFRD-QNGQLRCLEDRCPHRLAKLSEGQLI-DGKLECLYHGWQFGGE   88 (134)
T ss_pred             ccccccCcEEEEEHHHCCCCCCEEEEECCceEEEEEc-CCCCEEEEcCcCCCCcCcccCCeec-CCEEEccCCCCEECCC
Confidence            4577999999999999998888999999999999998 7999999999999999999999986 6799999999999999


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |+|+.+|.......     .+.+.+|++|+|++++|+|||++++.+
T Consensus        89 G~~~~~P~~~~~~~-----~~~~~~l~~y~v~~~~G~V~V~~~~~~  129 (134)
T cd04338          89 GKCVKIPQLPADAK-----IPKNACVKSYEVRDSQGVVWMWMSEAT  129 (134)
T ss_pred             CCEEECCCCCccCC-----CCcccCcceEeEEEECCEEEEEcCCCC
Confidence            99999997643211     134567999999999999999998653

This domain represents the N-terminal Rieske domain of the Tic55 oxygenase alpha subunit. Tic55 is closely related to the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic cyanobacterial photosynthesizers including LLS1 (lethal leaf spot 1, also known as PaO), Ptc52, and ACD1 (accelerated cell death 1). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis.

>cd03480 Rieske_RO_Alpha_PaO Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic cyanobacterial photosynthesizers including LLS1 (lethal leaf spot 1, also known as PaO) and ACD1 (accelerated cell death 1)

Probab=99.97  E-value=1.8e-31  Score=231.51  Aligned_cols=122  Identities=70%  Similarity=1.360  Sum_probs=107.3

Q ss_pred             ceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCC-CCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC
Q 017387           87 KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN-SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG  165 (372)
Q Consensus        87 ~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~-~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~  165 (372)
                      .+.|++.|++|+.++||++|+++.++++|++|+|+|+ . +|+++|++|+|||||++|+.|.+..++.|+||||||+||.
T Consensus        11 ~~~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~v~r~-~~dG~~~A~~n~CpHrga~L~~G~~~~~~~i~CP~Hgw~Fd~   89 (138)
T cd03480          11 KFDWREVWYPVAYVEDLDPSRPTPFTLLGRDLVIWWD-RNSQQWRAFDDQCPHRLAPLSEGRIDEEGCLECPYHGWSFDG   89 (138)
T ss_pred             cCCCccceEEEEEHHHCCCCCcEEEEECCeeEEEEEE-CCCCEEEEEcCCCcCCcCccccceEcCCCEEEeCCCCCEECC
Confidence            4567999999999999999999999999999999998 6 9999999999999999999998754579999999999999


Q ss_pred             CCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          166 CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       166 dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      +|+|+.+|.....+..   ..+...+|++|||++++|+|||+++++.
T Consensus        90 tG~~~~~P~~~~~g~~---~~~~~~~l~~ypv~v~~g~V~V~~~~~~  133 (138)
T cd03480          90 SGSCQRIPQAAEGGKA---HTSPRACVASLPTAVRQGLLFVWPGEPE  133 (138)
T ss_pred             CCCEEECCCCcccccc---CCCcccccceEeEEEECCEEEEecCChH
Confidence            9999999976543321   1234578999999999999999998754

ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PaO expression increases upon physical wounding of plant leaves and is thought to catalyze a key step in chlorophyll degradation. The

>cd03537 Rieske_RO_Alpha_PrnD This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD)

Probab=99.97  E-value=1.5e-31  Score=227.38  Aligned_cols=117  Identities=29%  Similarity=0.602  Sum_probs=101.4

Q ss_pred             ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccc
Q 017387           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTR  171 (372)
Q Consensus        92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~  171 (372)
                      +.||+|+.++||+ ++++.++++|++|||||+ .+|+++|++|+|||||++|+.|.++ ++.|+||||||+||.+|+|+.
T Consensus         2 ~~W~~v~~~~~l~-~~~~~~~~~g~~ivl~r~-~~g~v~a~~n~CpHrg~~Ls~G~v~-~~~l~CpyHGw~Fd~~G~~~~   78 (123)
T cd03537           2 ASWYVAMRSDDLK-DKPTELTLFGRPCVAWRG-ATGRAVVMDRHCSHLGANLADGRVK-DGCIQCPFHHWRYDEQGQCVH   78 (123)
T ss_pred             CcEEEEEEHHHcC-CCcEEEEECCeEEEEEEc-cCCEEEEEcCCCCCCCCCccCCEEe-CCEEECCCCCCEECCCCCEEE
Confidence            5799999999996 788999999999999998 7999999999999999999999996 689999999999999999999


Q ss_pred             cCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      +|+.....+... ..+++.++++|||+|++|+||||++++.
T Consensus        79 iP~~~~~~~~~~-~~p~~~~~~~~pv~e~~G~Vwv~~g~~~  118 (123)
T cd03537          79 IPGHSTAVRRLE-PVPRGARQPTLVTAERYGYVWVWYGSPQ  118 (123)
T ss_pred             CCCCcccccccc-cCCcccccccEeEEEECCEEEEEcCCCC
Confidence            997643211110 0245678999999999999999998753

PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation of the amino group in aminopyrrolnitrin to a nitro group, forming the antibiotic pyrrolnitrin. The biosynthesis of pyrrolnitrin is one of the best examples of enzyme-catalyzed arylamine oxidation. Although arylamine oxygenases are widely distributed within the microbial world and used in a variety of metabolic reactions, PrnD represents one of only two known examples of arylamine oxygenases or N-oxygenases involved in arylnitro group formation, the other being AurF involved in aureothin biosynthesis.

>cd03538 Rieske_RO_Alpha_AntDO Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

Probab=99.97  E-value=8.8e-32  Score=235.58  Aligned_cols=139  Identities=17%  Similarity=0.275  Sum_probs=117.6

Q ss_pred             cCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccC
Q 017387           71 YGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID  149 (372)
Q Consensus        71 ~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~  149 (372)
                      .++|+|+++++.|++.+|  .+.|+.|+++++|+ +|+++.++++|++|+|+|+ .+|+++|+.|+|||||++|+.+..+
T Consensus         2 ~~~y~~~~~~~~e~~~i~--~~~W~~v~~~~elp~~G~~~~~~i~g~~i~v~r~-~~g~v~A~~n~CpHrg~~L~~~~~g   78 (146)
T cd03538           2 KDVYTDPEIFALEMERLF--GNAWIYVGHESQVPNPGDYITTRIGDQPVVMVRH-TDGSVHVLYNRCPHKGTKIVSDGCG   78 (146)
T ss_pred             CceEcCHHHHHHHHHHHh--hcCCEEEEEHHHCCCCCCEEEEEECCeeEEEEEC-CCCCEEEEeccCcCCCCEeeccccc
Confidence            468999999999998877  99999999999998 6999999999999999998 7999999999999999999765432


Q ss_pred             -CCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccC-CceeecceEEEecCCcc
Q 017387          150 -ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRF-PTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       150 -~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~-pv~e~~G~I~V~~~~~~  212 (372)
                       .++.|+||||||+||.+|+|+.+|..+.+.+..........+|+++ .|++++|+|||++++++
T Consensus        79 ~~~~~i~CP~Hgw~Fd~~G~~~~~p~~~~~~~~~~~~~~~~~~L~~~~~v~~~~g~ifv~~~~~~  143 (146)
T cd03538          79 NTGKFFRCPYHAWSFKTDGSLLAIPLKKGYEGTGFDPSHADKGMQRVGAVDIYRGFVFARLSPSG  143 (146)
T ss_pred             ccCCEEECCCCCCEECCCCCEEECCchhcCCcccCCcchhhCCCCcceeEEEECCEEEEEcCCCC
Confidence             2457999999999999999999998765431100001246789999 79999999999999764

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. AntDO converts anthranilate to catechol, a naturally occurring compound formed through tryptophan degradation and an important intermediate in the metabolism of many N-heterocyclic compounds such as indole, o-nitrobenzoate, carbazole, and quinaldine.

>cd03531 Rieske_RO_Alpha_KSH The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH)

Probab=99.96  E-value=1.8e-30  Score=218.48  Aligned_cols=110  Identities=31%  Similarity=0.661  Sum_probs=101.1

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i  172 (372)
                      .|+.|+.++||++|+++.++++|++|+|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|+|+.+
T Consensus         1 gW~~v~~~~dl~~g~~~~~~~~g~~i~l~r~-~~g~~~a~~n~CpH~ga~L~~G~~~-~~~i~CP~Hg~~fd~~G~~~~~   78 (115)
T cd03531           1 GWHCLGLARDFRDGKPHGVEAFGTKLVVFAD-SDGALNVLDAYCRHMGGDLSQGTVK-GDEIACPFHDWRWGGDGRCKAI   78 (115)
T ss_pred             CcEEEEEHHHCCCCCeEEEEECCeEEEEEEC-CCCCEEEEcCcCCCCCCCCccCccc-CCEEECCCCCCEECCCCCEEEC
Confidence            5999999999999999999999999999998 7999999999999999999999986 6799999999999999999999


Q ss_pred             CccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |.....        +...++++|+|++++|+|||++++++
T Consensus        79 p~~~~~--------p~~~~l~~ypv~~~~g~v~v~~~~~~  110 (115)
T cd03531          79 PYARRV--------PPLARTRAWPTLERNGQLFVWHDPEG  110 (115)
T ss_pred             CcccCC--------CcccccceEeEEEECCEEEEECCCCC
Confidence            975432        34567999999999999999999875

The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway, catalyzing the 9 alpha-hydroxylation of 4-androstene-3,17-dione (AD) and 1,4-androstadiene-3,17-dione (ADD). KSH is a two-component class IA monooxygenase, with terminal oxygenase (KshA) and oxygenase reductase (KshB) components. KSH activity has been found in many actino- and proteo- bacterial genera including Rhodococcus, Nocardia, Arthrobacter, Mycobacterium, and Burkholderia.

>cd04337 Rieske_RO_Alpha_Cao Cao (chlorophyll a oxygenase) is a rieske non-heme iron-sulfur protein located within the plastid-envelope inner and thylakoid membranes, that catalyzes the conversion of chlorophyllide a to chlorophyllide b

Probab=99.96  E-value=2.7e-30  Score=221.73  Aligned_cols=111  Identities=36%  Similarity=0.841  Sum_probs=101.5

Q ss_pred             eecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCc
Q 017387           89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS  168 (372)
Q Consensus        89 ~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~  168 (372)
                      .+++.|++|+.++||++|+++.++++|++++|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|+
T Consensus        13 ~~~~~W~~v~~~~el~~g~~~~~~v~g~~l~l~r~-~~g~v~A~~n~CpH~g~~L~~G~~~-~~~i~CP~Hgw~Fd~tG~   90 (129)
T cd04337          13 GLRNFWYPVEFSKDLKMDTMVPFELFGQPWVLFRD-EDGTPGCIRDECAHRACPLSLGKVI-EGRIQCPYHGWEYDGDGE   90 (129)
T ss_pred             hhhCccEEEEEHHHCCCCCeEEEEECCcEEEEEEC-CCCcEEEEeCcCCCCcCCcccCcEe-CCEEEeCCCCCEECCCCC
Confidence            45999999999999999999999999999999998 7999999999999999999999885 689999999999999999


Q ss_pred             ccccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      |+.+|..+          +...+|++|++++++|+||||++++
T Consensus        91 ~~~~P~~~----------~~~~~l~~y~v~v~~g~V~V~~~~~  123 (129)
T cd04337          91 CTKMPSTK----------CLNVGIAALPCMEQDGMIWVWPGDD  123 (129)
T ss_pred             EEeCCcCC----------CccCCcceEeEEEECCEEEEEcCCC
Confidence            99988642          1245799999999999999999865

CAO is found not only in plants but also in chlorophytes and prochlorophytes. This domain represents the N-terminal rieske domain of the oxygenase alpha subunit. ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Cao is closely related to several other plant RO's including Tic 55, a 55 kDa protein associated with protein transport through the inner

>cd03479 Rieske_RO_Alpha_PhDO_like Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3,4-dioxygenase (CBDO), phenoxybenzoate dioxygenase (POB-dioxygenase) and 3-nitrobenzoate oxygenase (MnbA)

Probab=99.96  E-value=5.7e-30  Score=223.65  Aligned_cols=116  Identities=33%  Similarity=0.666  Sum_probs=103.5

Q ss_pred             eecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCC
Q 017387           89 SWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCG  167 (372)
Q Consensus        89 ~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG  167 (372)
                      ++++.|++|+.+++|+ +|+++.++++|++|+|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|
T Consensus        17 ~~~~~W~~v~~~~eL~~~g~~~~~~~~g~~i~v~r~-~~G~v~A~~n~CpHrG~~L~~G~~~-~~~i~CP~Hgw~F~~~G   94 (144)
T cd03479          17 LLRRYWQPVALSSELTEDGQPVRVRLLGEDLVAFRD-TSGRVGLLDEHCPHRGASLVFGRVE-ECGLRCCYHGWKFDVDG   94 (144)
T ss_pred             HhhCceEEEEEHHHCCCCCCEEEEEECCcEEEEEEe-CCCCEEEEcCcCCCCCCcccCCccc-CCEEEccCCCcEECCCC
Confidence            3489999999999999 6999999999999999998 7999999999999999999999986 68999999999999999


Q ss_pred             cccccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          168 SCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       168 ~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      +|+.+|..+....     .+.+.+|++|+|++++|+|||++++.
T Consensus        95 ~~~~~P~~~~~~~-----~~~~~~l~~~~v~~~~G~I~V~~~~~  133 (144)
T cd03479          95 QCLEMPSEPPDSQ-----LKQKVRQPAYPVRERGGLVWAYMGPA  133 (144)
T ss_pred             CEEECCCCccccC-----CccccCcceEeEEEECCEEEEECCCC
Confidence            9999997554221     13566899999999999999999864

ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PhDO and CBDO are two-component RO systems, containing oxygenase and reductase components. PhDO catalyzes the dihydroxylation of phthalate to form th

>cd03532 Rieske_RO_Alpha_VanA_DdmC Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

Probab=99.96  E-value=8.1e-30  Score=214.73  Aligned_cols=112  Identities=34%  Similarity=0.792  Sum_probs=101.9

Q ss_pred             ecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcc
Q 017387           90 WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSC  169 (372)
Q Consensus        90 ~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c  169 (372)
                      +++.|++|+.++||+ |+++.++++|++++|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|+|
T Consensus         2 ~~~~W~~v~~~~el~-~~~~~~~~~g~~i~l~r~-~~g~~~a~~n~CpH~g~~L~~G~~~-~~~i~Cp~Hg~~fd~~G~~   78 (116)
T cd03532           2 PRNAWYVAAWADELG-DKPLARTLLGEPVVLYRT-QDGRVAALEDRCPHRSAPLSKGSVE-GGGLVCGYHGLEFDSDGRC   78 (116)
T ss_pred             cCCcEEEEEEHHHcC-CCcEEEEECCceEEEEEC-CCCCEEEeCCcCCCCCCCccCCccc-CCEEEeCCCCcEEcCCCCE
Confidence            478999999999998 999999999999999998 7999999999999999999999996 6899999999999999999


Q ss_pred             cccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      +.+|.....        +...+|++|+|++++|+|||++++++
T Consensus        79 ~~~p~~~~~--------~~~~~l~~~~v~~~~g~v~v~~~~~~  113 (116)
T cd03532          79 VHMPGQERV--------PAKACVRSYPVVERDALIWIWMGDAA  113 (116)
T ss_pred             EeCCCCCCC--------CCccccccCCEEEECCEEEEEcCCcc
Confidence            999975431        34568999999999999999998754

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Vanillate-O-demethylase is a heterodimeric enzyme consisting of a terminal oxygenase (VanA) and reductase (VanB) components. This enzyme reductively catalyzes the conversion of vanillate into protocatechuate and formaldehyde. Protocatechuate and vanillate are important intermediate metabolites in the degrad

>cd03548 Rieske_RO_Alpha_OMO_CARDO Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

Probab=99.96  E-value=1.1e-29  Score=219.79  Aligned_cols=117  Identities=28%  Similarity=0.578  Sum_probs=101.2

Q ss_pred             eeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCcc-CCCCceeeeeeceeecC-
Q 017387           88 FSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI-DENGHLQCSYHGWSFDG-  165 (372)
Q Consensus        88 f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v-~~~~~i~CPyHGw~Fd~-  165 (372)
                      +.|++.|++|+.++||++|+++.++++|++|+|+|.  +|+++|++|+|||||++|+.|.. ..++.|+||||||+||+ 
T Consensus         9 ~~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~l~r~--~g~v~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~Fdl~   86 (136)
T cd03548           9 WGFRNHWYPALFSHELEEGEPKGIQLCGEPILLRRV--DGKVYALKDRCLHRGVPLSKKPECFTKGTITCWYHGWTYRLD   86 (136)
T ss_pred             cCcccCcEEEEEHHHCCCCCeEEEEECCcEEEEEec--CCEEEEEeCcCcCCCCccccCcccccCCEEEecCCccEEeCC
Confidence            356999999999999999999999999999999995  89999999999999999999863 23679999999999998 


Q ss_pred             CCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          166 CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       166 dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      +|+|+.+|..+...      .+...+|++|+|++++|+|||++++..
T Consensus        87 tG~~~~~~~~p~~~------~~~~~~L~~ypv~~~~g~V~v~~~~~~  127 (136)
T cd03548          87 DGKLVTILANPDDP------LIGRTGLKTYPVEEAKGMIFVFVGDGD  127 (136)
T ss_pred             CccEEEcccCCCcc------ccccCCCceEeEEEECCEEEEEeCCcc
Confidence            89999988643211      123567999999999999999998754

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. OMO catalyzes the NADH-dependent oxidation of the N-heterocyclic aromatic compound 2-oxoquinoline to 8-hydroxy-2-oxoquinoline, the second step in the bacterial degradation of quinoline. OMO consists of a reductase component (OMR) and an oxygenase component (OMO) that together function to shuttle electrons from the

>cd03539 Rieske_RO_Alpha_S5H This alignment model represents the N-terminal rieske iron-sulfur domain of the oxygenase alpha subunit (NagG) of salicylate 5-hydroxylase (S5H)

Probab=99.96  E-value=5.4e-30  Score=219.83  Aligned_cols=118  Identities=17%  Similarity=0.298  Sum_probs=101.3

Q ss_pred             ceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387           94 WYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (372)
Q Consensus        94 W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i  172 (372)
                      |++||+++||+ +|+++.+.+++++|+|+|+ .+|+++||.|+|||||++|+.|..++.+.|+||||||+||++|+|+.+
T Consensus         1 W~~v~~~~~l~~~g~~~~~~~~~~~v~v~r~-~dg~v~A~~n~C~Hrg~~L~~g~~~~~~~l~CPyHgw~fdl~G~l~~~   79 (129)
T cd03539           1 WCYVGLEAEIPNPGDFKRTLIGERSVIMTRD-PDGGINVVENVCAHRGMRFCRERNGNAKDFVCPYHQWNYSLKGDLQGV   79 (129)
T ss_pred             CEEEEEHHHCCCCCCEEEEEECCcEEEEEEC-CCCCEEEEeccCcCCCCEeeeeccCccCEEECCCCCCEECCCCCEeec
Confidence            99999999998 4999999999999999998 899999999999999999999887545689999999999999999999


Q ss_pred             CccccCCc-------ccccccCcccccccCCceeecceEEEecCCcc
Q 017387          173 PQAASEGP-------EARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       173 P~~~~~~~-------~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |+......       ....+++.+.+|++++|++++|+|||++++++
T Consensus        80 p~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~  126 (129)
T cd03539          80 PFRRGVKKDGKVNGGMPKDFKTKDHGLTKLKVATRGGVVFASFDHDV  126 (129)
T ss_pred             cccccccccccccccccCCcChHHCCCceeeEeEECCEEEEEeCCCC
Confidence            98644210       00112345678999999999999999999765

S5H converts salicylate (2-hydroxybenzoate), a metabolic intermediate of phenanthrene, to gentisate (2,5-dihydroxybenzoate) as part of an alternate pathway for naphthalene catabolism. S5H is a multicomponent enzyme made up of NagGH (the oxygenase components), NagAa (the ferredoxin reductase component), and NagAb (the ferredoxin component). The oxygenase component is made up of alpha (NagG) and beta (NagH) subunits.

>cd03541 Rieske_RO_Alpha_CMO Rieske non-heme iron oxygenase (RO) family, Choline monooxygenase (CMO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

Probab=99.96  E-value=9.6e-30  Score=214.98  Aligned_cols=113  Identities=21%  Similarity=0.295  Sum_probs=102.4

Q ss_pred             cceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccc
Q 017387           93 HWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTR  171 (372)
Q Consensus        93 ~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~  171 (372)
                      .|++|++++||++ |++++++++|++|+|+|+ .+|+++|+.|+|||||++|+.|.++ ++.|+||||||+||++|+|+.
T Consensus         1 ~W~~v~~~~el~~~g~~~~~~~~g~~i~v~r~-~dg~v~A~~n~C~Hrg~~L~~g~~~-~~~i~CP~Hgw~f~l~G~l~~   78 (118)
T cd03541           1 GWQVAGYSDQVKEKNQYFTGRLGNVEYVVCRD-GNGKLHAFHNVCTHRASILACGSGK-KSCFVCPYHGWVYGLDGSLTK   78 (118)
T ss_pred             CCEEEEEHHHCCCCCCeEEEEECCeEEEEEEC-CCCCEEEEeCCCCCCcCCccCCccc-cCEEEeCCCCCEEcCCCeEEe
Confidence            5999999999984 889999999999999998 8999999999999999999999886 679999999999999999999


Q ss_pred             cCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      +|........    +....+|++++|++++|||||+++++
T Consensus        79 ~P~~~~~~~~----~~~~~~L~~~~~~~~~g~vfv~~~~~  114 (118)
T cd03541          79 ATQATGIQNF----NPKELGLVPLKVAEWGPFVLISVDRS  114 (118)
T ss_pred             CCCcccccCC----CHHHCCCceEeEEEECCEEEEEeCCC
Confidence            9987665332    35678899999999999999999875

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. CMO is a novel RO found in certain plants which catalyzes the first step in betaine synthesis. CMO is not found in animals or bacteria. In these organisms, the first step in betaine synthesis is catalyzed by either the membrane-bound choline dehydrogenase (CDH) or the soluble choline oxidase (COX).

>cd03472 Rieske_RO_Alpha_BPDO_like Rieske non-heme iron oxygenase (RO) family, Biphenyl dioxygenase (BPDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of BPDO and similar proteins including cumene dioxygenase (CumDO), nitrobenzene dioxygenase (NBDO), alkylbenzene dioxygenase (AkbDO) and dibenzofuran 4,4a-dioxygenase (DFDO)

Probab=99.96  E-value=1.6e-29  Score=216.63  Aligned_cols=120  Identities=14%  Similarity=0.279  Sum_probs=102.7

Q ss_pred             ecccceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCc
Q 017387           90 WRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS  168 (372)
Q Consensus        90 ~~~~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~  168 (372)
                      |.+.|+.|+.++||++ |++..++++|++|+|+|+ .+|+++|+.|+|||||++|+.|..++++.|+||||||+||.+|+
T Consensus         5 ~~~~W~~v~~~~el~~~g~~~~~~~~~~~i~l~r~-~~g~i~A~~n~C~Hrg~~L~~g~~g~~~~i~CP~Hgw~fd~~G~   83 (128)
T cd03472           5 FARSWLLLGHETHIPKAGDYLTTYMGEDPVIVVRQ-KDGSIRVFLNQCRHRGMRICRSDAGNAKAFTCTYHGWAYDTAGN   83 (128)
T ss_pred             hhCCCeEeEEHHHCCCCCCEEEEEECCceEEEEEC-CCCCEEEEhhhCcCCCCeeeccCCCCcCEEECCcCCeEECCCcC
Confidence            4899999999999985 777788899999999998 79999999999999999999998754568999999999999999


Q ss_pred             ccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |+.+|..+...+.  ........|+.++|.+++|+|||++++++
T Consensus        84 ~~~~P~~~~~~~~--~~~~~~~~l~~~~v~~~~g~vfv~~~~~~  125 (128)
T cd03472          84 LVNVPFEKEAFCD--GLDKADWGPLQARVETYKGLIFANWDAEA  125 (128)
T ss_pred             EEeccCccccccc--CCCHHHCCCcceeEeEECCEEEEEcCCCC
Confidence            9999986542111  12245567999999999999999999864

ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. BPDO degrades biphenyls and polychlorinated biphenyls (PCB's) while CumDO degrades cumene (isopropylbenzene), an aromatic hydrocarbon that is i

>cd03535 Rieske_RO_Alpha_NDO Rieske non-heme iron oxygenase (RO) family, Nathphalene 1,2-dioxygenase (NDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

Probab=99.95  E-value=3.4e-28  Score=207.02  Aligned_cols=118  Identities=16%  Similarity=0.315  Sum_probs=99.8

Q ss_pred             ccceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccc
Q 017387           92 DHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCT  170 (372)
Q Consensus        92 ~~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~  170 (372)
                      +.|+.|++++||++ |+...+.++|++|+|+|+ .+|+++|++|+|||||++|+.|..++++.|+||||||+||.+|+|+
T Consensus         1 ~~w~~v~~~~el~~~g~~~~~~~~~~~iiv~r~-~~g~~~A~~n~CpHrg~~L~~g~~~~~~~i~Cp~Hgw~Fd~tG~~~   79 (123)
T cd03535           1 RAWVFLGHESEIPNAGDYVVRYIGDDSFIVCRD-EDGEIRAMFNSCRHRGMQVCRAEMGNTSHFRCPYHGWTYRNTGRLV   79 (123)
T ss_pred             CCCEEEEEHHHCCCCCCEEEEEECCeEEEEEEC-CCCCEEEEcccCccCCCEeeccccCCCCEEECCcCCCEECCCcCEe
Confidence            47999999999986 778888899999999998 7999999999999999999999886446899999999999999999


Q ss_pred             ccCccccCCcccccccCcccccccCCc-eeecceEEEecCCcc
Q 017387          171 RIPQAASEGPEARAIQSPRACATRFPT-MVSQGLLFVWPDEYG  212 (372)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv-~e~~G~I~V~~~~~~  212 (372)
                      .+|......+.  ...+...+|++|++ ++++|+|||+|++++
T Consensus        80 ~~p~~~~~~~~--~~~~~~~~L~~~~~~e~~~g~vfv~l~~~~  120 (123)
T cd03535          80 GVPAQQEAYGG--GFDKSQWGLRPAPNLDSYNGLIFGSLDPKA  120 (123)
T ss_pred             eCCCccccccc--CcCHHHCCCccceeEEEECCEEEEEeCCCC
Confidence            99976543221  12345678999985 558999999999764

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. NDO is a three-component RO system consisting of a reductase, a ferredoxin, and a hetero-hexameric alpha-beta subunit oxygenase component. NDO catalyzes the oxidation of naphthalene to cis-(1R,2S)-dihydroxy-1,2-dihydronaphthalene (naphthalene cis-dihydrodiol) with the consumption of O2 and NAD(P)H. NDO has a relaxed substrate specificity and can oxidize almost 1

>cd03536 Rieske_RO_Alpha_DTDO This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit (DitA) of diterpenoid dioxygenase (DTDO)

Probab=99.95  E-value=5.7e-28  Score=205.64  Aligned_cols=117  Identities=16%  Similarity=0.219  Sum_probs=99.8

Q ss_pred             ceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387           94 WYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (372)
Q Consensus        94 W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i  172 (372)
                      |+.||.++||++ |++..+.++|++|+|+|+ .+|+++|+.|+|||||++|+.|..++...|+||||||+||.+|+|+.+
T Consensus         1 w~~v~~~~el~~~g~~~~~~~~~~~i~v~r~-~~g~v~A~~n~CpH~g~~L~~~~~~~~~~i~Cp~Hgw~fd~~G~~~~~   79 (123)
T cd03536           1 WVLLGHESEIPNKGDFMVRDMGSDSVIVARD-KDGEIHVSLNVCPHRGMRISTTDGGNTQIHVCIYHGWAFRPNGDFIGA   79 (123)
T ss_pred             CEEeEEHHHCCCCCCEEEEEECCceEEEEEC-CCCCEEEEeeeCCCCCCCcccccCCCcCEEECCcCCCEECCCCcEEEC
Confidence            999999999986 778888899999999998 799999999999999999999877544579999999999999999999


Q ss_pred             CccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |..+..... +...+...+|++|+|++++|+|||++++++
T Consensus        80 p~~~~~~~~-~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~  118 (123)
T cd03536          80 PVEKECMHG-KMRTKAELGLHKARVTLYGGLIFATWNIDG  118 (123)
T ss_pred             Ccccccccc-CCCCHHHCCCcceeEEEECCEEEEEeCCCC
Confidence            986542111 112345678999999999999999999764

DTDO is a novel aromatic-ring-hydroxylating dioxygenase found in Pseudomonas and other proteobacteria that degrades dehydroabietic acid (DhA). Specifically, DitA hydroxylates 7-oxodehydroabietic acid to 7-oxo-11,12-dihydroxy-8, 13-abietadien acid. The ditA1 and ditA2 genes encode the alpha and beta subunits of the oxygenase component of DTDO while the ditA3 gene encodes the ferredoxin component of DTDO. The organization of the genes encoding the various diterpenoid dioxygenase components, the phylogenetic distinctiveness of both the alpha subunit and the ferredoxin component, and the unusual iron-sulfur cluster of the ferredoxin all suggest that this enzyme belongs to a new class of aromatic ring-hydroxylating dioxygenases.

>cd03469 Rieske_RO_Alpha_N Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms

Probab=99.94  E-value=5.1e-28  Score=203.37  Aligned_cols=114  Identities=33%  Similarity=0.548  Sum_probs=100.9

Q ss_pred             ceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387           94 WYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (372)
Q Consensus        94 W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i  172 (372)
                      |++||.++||+ +|+.+.++++|++|+|+|+ .+|+++|+.|+|||||++|+.|.+..++.|+||||||+||++|+|+.+
T Consensus         1 w~~v~~~~el~~~g~~~~~~~~~~~i~v~r~-~~g~~~a~~n~CpH~g~~L~~g~~~~~~~i~Cp~Hg~~Fd~~G~~~~~   79 (118)
T cd03469           1 WYFVGHSSELPEPGDYVTLELGGEPLVLVRD-RDGEVRAFHNVCPHRGARLCEGRGGNAGRLVCPYHGWTYDLDGKLVGV   79 (118)
T ss_pred             CEEeEEHHHCCCCCCEEEEEECCccEEEEEC-CCCCEEEEEEeCCCCCCEeeeccCCCCCEEECCCCCCEECCCCcEEeC
Confidence            99999999999 8999999999999999998 799999999999999999999988336899999999999999999999


Q ss_pred             CccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |......    ...+...+|++|+|++++|+|||+++++.
T Consensus        80 P~~~~~~----~~~~~~~~L~~~~v~~~~g~v~v~~~~~~  115 (118)
T cd03469          80 PREEGFP----GFDKEKLGLRTVPVEEWGGLIFVNLDPDA  115 (118)
T ss_pred             CcccccC----CCCHHHCCCeEEEEEEECCEEEEEcCCCC
Confidence            9754421    11245678999999999999999998754

These enzymes enable microorganisms to tolerate and even exclusively utilize aromatic compounds for growth. ROs consist of two or three components: reductase, oxygenase, and ferredoxin (in some cases) components. The oxygenase component may contain alpha and beta subunits, with the beta subunit having a purely structural function. Some oxygenase components contain only an alpha subunit. The oxygenase alpha subunit has two domains, an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from the reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Reduced pyridine nucleotide is used as the i

>cd03542 Rieske_RO_Alpha_HBDO Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth

Probab=99.93  E-value=1.6e-26  Score=196.68  Aligned_cols=116  Identities=21%  Similarity=0.354  Sum_probs=97.1

Q ss_pred             ceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387           94 WYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (372)
Q Consensus        94 W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i  172 (372)
                      |+.||+.+||++ |+++.+++.|++|+|+|+ .+|+++|+.|.|||||++|+.|..+.++.|+||||||+||.||+|+.+
T Consensus         1 w~~v~~~~elp~~g~~~~~~~~~~~i~l~r~-~~g~v~A~~n~C~Hrg~~L~~g~~~~~~~i~CP~Hg~~Fd~~G~~~~~   79 (123)
T cd03542           1 WVYLAHESQIPNNNDYFTTTIGRQPVVITRD-KDGELNAFINACSHRGAMLCRRKQGNKGTFTCPFHGWTFSNTGKLLKV   79 (123)
T ss_pred             CEEeEEHHHCCCCCCEEEEEECCcEEEEEEC-CCCCEEEEcccCcCCCCccccccccCCCEEECcCCCCEecCCccEEEC
Confidence            899999999986 888999999999999998 799999999999999999999987545689999999999999999999


Q ss_pred             CccccC-CcccccccCc-ccccccCC-ceeecceEEEecCCcc
Q 017387          173 PQAASE-GPEARAIQSP-RACATRFP-TMVSQGLLFVWPDEYG  212 (372)
Q Consensus       173 P~~~~~-~~~~~~~~~~-~~~l~~~p-v~e~~G~I~V~~~~~~  212 (372)
                      |..... .+.  .+++. ..+|+.++ +++++|||||++++++
T Consensus        80 p~~~~~~y~~--~~~~~~~~~L~~~~~~~~~~g~v~~~~~~~~  120 (123)
T cd03542          80 KDPKTAGYPE--GFNCDGSHDLTKVARFESYRGFLFGSLNADV  120 (123)
T ss_pred             CcccccCcCc--ccChhhcCCCccceeEEEECCEEEEEcCCCC
Confidence            964321 111  12233 46799985 6677999999999764

The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. HBDO catalyzes the double hydroxylation of 2-halobenzoates with concomitant release of halogenide and carbon dioxide, yielding catechol.

>cd03528 Rieske_RO_ferredoxin Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO)

Probab=99.92  E-value=8.8e-26  Score=183.82  Aligned_cols=97  Identities=30%  Similarity=0.559  Sum_probs=89.0

Q ss_pred             ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccccc
Q 017387           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI  172 (372)
Q Consensus        94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~i  172 (372)
                      |++|+.++||++|+++.++++|++++|+|+  +|+++|++|+|||||++|+.|.+. ++.|+||||||+||+ +|+|+..
T Consensus         1 w~~v~~~~~l~~g~~~~~~~~g~~~~v~r~--~~~~~a~~~~CpH~g~~L~~g~~~-~~~i~Cp~Hg~~fd~~~G~~~~~   77 (98)
T cd03528           1 WVRVCAVDELPEGEPKRVDVGGRPIAVYRV--DGEFYATDDLCTHGDASLSEGYVE-GGVIECPLHGGRFDLRTGKALSL   77 (98)
T ss_pred             CeEEEEhhhcCCCCEEEEEECCeEEEEEEE--CCEEEEECCcCCCCCCCCCCCeEe-CCEEEeCCcCCEEECCCCcccCC
Confidence            999999999999999999999999999998  679999999999999999999875 679999999999999 9999987


Q ss_pred             CccccCCcccccccCcccccccCCceeecceEEEe
Q 017387          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (372)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~  207 (372)
                      |..              ..|++|++++++|.|||.
T Consensus        78 p~~--------------~~L~~~~v~~~~g~v~v~   98 (98)
T cd03528          78 PAT--------------EPLKTYPVKVEDGDVYVD   98 (98)
T ss_pred             CCC--------------CCcceEeEEEECCEEEEC
Confidence            642              358999999999999983

The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable microorganisms to tolerate and even exclusively utilize aromatic compounds for growth. ROs consist of two or three components: reductase, oxygenase, and ferredoxin (in some cases) components. The ferredoxin component contains either a plant-type or Rieske-type [2Fe-2S] cluster. The Rieske ferredoxin component in this family carries an electron from the RO reductase component to the terminal RO oxygenase component. BPDO degrades biphenyls and polychlorinated biphenyls. BPDO ferredoxin (BphF) has structural features consistent with a minimal and perhaps archetypical Rieske protein in that the in

>cd03530 Rieske_NirD_small_Bacillus Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain

Probab=99.92  E-value=1.5e-25  Score=182.72  Aligned_cols=97  Identities=27%  Similarity=0.642  Sum_probs=87.3

Q ss_pred             ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccccc
Q 017387           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI  172 (372)
Q Consensus        94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~i  172 (372)
                      |+.|+.++||++|+.+.+++.|++|+|+|+ .+|+++|++|+|||||++|+.|.++ ++.|+||||||+||+ +|.+.. 
T Consensus         1 w~~v~~~~~l~~~~~~~~~~~g~~i~l~r~-~~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~Cp~Hg~~Fdl~~G~~~~-   77 (98)
T cd03530           1 WIDIGALEDIPPRGARKVQTGGGEIAVFRT-ADDEVFALENRCPHKGGPLSEGIVH-GEYVTCPLHNWVIDLETGEAQG-   77 (98)
T ss_pred             CEEEEEHHHCCCCCcEEEEECCEEEEEEEe-CCCCEEEEcCcCCCCCCCccCCEEc-CCEEECCCCCCEEECCCCCCCC-
Confidence            999999999999999999999999999998 6799999999999999999999986 689999999999999 777642 


Q ss_pred             CccccCCcccccccCcccccccCCceeecceEEEe
Q 017387          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (372)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~  207 (372)
                      |              +..+|++|||++++|.|||.
T Consensus        78 p--------------~~~~l~~y~v~v~~g~v~v~   98 (98)
T cd03530          78 P--------------DEGCVRTFPVKVEDGRVYLG   98 (98)
T ss_pred             C--------------CCCccceEeEEEECCEEEEC
Confidence            2              12469999999999999984

The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium.

>cd03474 Rieske_T4moC Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer

Probab=99.91  E-value=5.3e-25  Score=182.78  Aligned_cols=101  Identities=28%  Similarity=0.502  Sum_probs=89.3

Q ss_pred             ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCC-Cccccc
Q 017387           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC-GSCTRI  172 (372)
Q Consensus        94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~d-G~c~~i  172 (372)
                      |+.|+.++||++|+++.+++.|++++|+|. .+|+++|+.|+|||||++|+.|.++ ++.|+||||||+||++ |.|+. 
T Consensus         1 w~~v~~~~~l~~g~~~~~~~~~~~~~~~~~-~~g~~~A~~n~CpH~g~~L~~g~~~-g~~i~CP~Hg~~Fdl~~G~~~~-   77 (108)
T cd03474           1 FTKVCSLDDVWEGEMELVDVDGEEVLLVAP-EGGEFRAFQGICPHQEIPLAEGGFD-GGVLTCRAHLWQFDADTGEGLN-   77 (108)
T ss_pred             CeEeeehhccCCCceEEEEECCeEEEEEEc-cCCeEEEEcCcCCCCCCCcccCccc-CCEEEeCCcCCEEECCCccccC-
Confidence            899999999999999999999998989888 7999999999999999999999975 5799999999999995 55542 


Q ss_pred             CccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      |              +..+|++|+|++++|.|||+++++
T Consensus        78 ~--------------~~~~L~~~~v~v~~g~v~v~~~~~  102 (108)
T cd03474          78 P--------------RDCRLARYPVKVEGGDILVDTEGV  102 (108)
T ss_pred             C--------------CCCccceEeEEEECCEEEEeCCCc
Confidence            2              234699999999999999999754

T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent hydroxylation of toluene to form p-cresol. T4mo consists of an NADH oxidoreductase (T4moF), a diiron hydroxylase (T4moH), a catalytic effector protein (T4moD), and a Rieske ferredoxin (T4moC). T4moC contains a Rieske domain and functions as an obligate electron carrier between T4moF and T4moH. Rieske ferredoxins are found as subunits of membrane oxidase complexes, cis-dihydrodiol-forming aromatic dioxygenases, bacterial assimilatory nitrite reductases, and arsenite oxidase. Rieske ferredoxins are also found as soluble electron carriers in bacterial dioxygenase and monooxygenase complexes.

>cd03529 Rieske_NirD Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium

Probab=99.91  E-value=6.8e-25  Score=180.87  Aligned_cols=98  Identities=21%  Similarity=0.317  Sum_probs=87.3

Q ss_pred             ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccC-CCCCccC---CCCceeeeeeceeecC-CCc
Q 017387           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRID---ENGHLQCSYHGWSFDG-CGS  168 (372)
Q Consensus        94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~-Ls~G~v~---~~~~i~CPyHGw~Fd~-dG~  168 (372)
                      |++|+.++||++|+.+.++++|++|+|+|. .+|+++|++|+|||+|++ |+.|.+.   +++.|+||||||+||+ +|+
T Consensus         1 w~~v~~~~~l~~g~~~~~~~~g~~i~l~r~-~~g~~~A~~~~CpH~g~~ll~~G~~~~~~~~~~i~Cp~Hg~~Fdl~tG~   79 (103)
T cd03529           1 WQTVCALDDLPPGSGVAALVGDTQIAIFRL-PGREVYAVQNMDPHSRANVLSRGIVGDIGGEPVVASPLYKQHFSLKTGR   79 (103)
T ss_pred             CEEEeEHHHCCCCCcEEEEECCEEEEEEEe-CCCeEEEEeCcCCCCCCcccCCceEcccCCCeEEECCCCCCEEEcCCCC
Confidence            999999999999999999999999999998 667999999999999997 8888764   2348999999999997 999


Q ss_pred             ccccCccccCCcccccccCcccccccCCceeecceEEEe
Q 017387          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (372)
Q Consensus       169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~  207 (372)
                      |+..|.               .+|++|+|++++|.|||.
T Consensus        80 ~~~~p~---------------~~l~~y~v~~~~g~v~v~  103 (103)
T cd03529          80 CLEDED---------------VSVATFPVRVEDGEVYVK  103 (103)
T ss_pred             ccCCCC---------------ccEeeEeEEEECCEEEEC
Confidence            987552               358999999999999984

Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while fungal proteins have a C-terminal Rieske domain in addition to several other domains. The fungal NirD is involved in nutrient acquisition, functioning at the soil/fungus interface to control nutrient exchange between the fungus and the host plant. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The Rieske [2Fe-2S] cluster is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In this family, only a few members contain these residues. Other members may have lost the ability to bind the Rieske [2Fe-2S] cluster.

>TIGR02377 MocE_fam_FeS Rieske [2Fe-2S] domain protein, MocE subfamily

Probab=99.91  E-value=1.6e-24  Score=178.22  Aligned_cols=100  Identities=22%  Similarity=0.427  Sum_probs=91.1

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCcccc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR  171 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~  171 (372)
                      .|+.|+..+||++|..+.++++|++|+|+|. .+|+++|++|+|||+|++|+.|.+. ++.|+||+|||+||+ +|+|+.
T Consensus         1 ~w~~v~~~~dl~~g~~~~~~~~g~~i~l~r~-~~g~~~A~~~~CpH~g~~L~~G~~~-~~~i~CP~Hg~~Fdl~tG~~~~   78 (101)
T TIGR02377         1 NWVKACDADDIGREDVARFDHGGRTFAIYRT-PDDQYYATDGLCTHEYAHLADGLVM-DTTVECPKHAGCFDYRTGEALN   78 (101)
T ss_pred             CcEEEEEHHHcCCCCEEEEEECCeEEEEEEe-CCCEEEEEcCcCCCCCCCCCCCEEc-CCEEECCccCCEEECCCCcccC
Confidence            4999999999999999999999999999997 6899999999999999999999996 689999999999998 899997


Q ss_pred             cCccccCCcccccccCcccccccCCceeecceEEEec
Q 017387          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP  208 (372)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~  208 (372)
                      .|..              ..|++|||++++|.|||.+
T Consensus        79 ~p~~--------------~~l~~y~v~v~~g~v~V~~  101 (101)
T TIGR02377        79 PPVC--------------VNLKTYPVKVVDGAVYVDI  101 (101)
T ss_pred             CCcc--------------CCcceEeEEEECCEEEEeC
Confidence            6642              2589999999999999964

This model describes a subfamily of the Rieske-like [2Fe-2S] family of ferredoxins that includes MocE, part of the rhizopine (3-O-methyl-scyllo-inosamine) catabolic cluster in Rhizobium. Members of this family are related to, yet distinct from, the small subunit of nitrite reductase [NAD(P)H].

>TIGR02378 nirD_assim_sml nitrite reductase [NAD(P)H], small subunit

Probab=99.90  E-value=2.3e-24  Score=178.17  Aligned_cols=99  Identities=18%  Similarity=0.398  Sum_probs=88.4

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCcc-ccCCCCCccCCCCc----eeeeeeceeecC-C
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHR-LAPLSEGRIDENGH----LQCSYHGWSFDG-C  166 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHR-ga~Ls~G~v~~~~~----i~CPyHGw~Fd~-d  166 (372)
                      .|++|+.++||++|..+.+.+.|++|+|+|+ .+|+++|++|+|||+ +.+|+.|.+. ++.    |+||||||+||+ +
T Consensus         1 ~w~~v~~~~el~~g~~~~~~v~g~~l~v~r~-~~~~~~a~~~~CpH~g~~~L~~g~~~-~~~~~~~i~Cp~Hg~~Fdl~t   78 (105)
T TIGR02378         1 TWQDICAIDDIPEETGVCVLLGDTQIAIFRV-PGDQVFAIQNMCPHKRAFVLSRGIVG-DAQGELWVACPLHKRNFRLED   78 (105)
T ss_pred             CcEEEEEHHHCCCCCcEEEEECCEEEEEEEe-CCCcEEEEeCcCCCCCCccccceEEc-cCCCcEEEECCcCCCEEEcCC
Confidence            5999999999999999999999999999998 688999999999999 8999999875 344    999999999999 8


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEec
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP  208 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~  208 (372)
                      |+|+..|               ..+|++|||++++|.|||.+
T Consensus        79 G~~~~~~---------------~~~L~~y~v~v~~g~v~v~~  105 (105)
T TIGR02378        79 GRCLEDD---------------SGSVRTYEVRVEDGRVYVAL  105 (105)
T ss_pred             ccccCCC---------------CccEeeEeEEEECCEEEEeC
Confidence            9988533               23699999999999999964

This model describes NirD, the small subunit of nitrite reductase [NAD(P)H] (the assimilatory nitrite reductase), which associates with NirB, the large subunit (TIGR02374). In a few bacteria such as Klebsiella pneumoniae and in Fungi, the two regions are fused.

>PRK09965 3-phenylpropionate dioxygenase ferredoxin subunit; Provisional

Probab=99.89  E-value=8.8e-24  Score=175.22  Aligned_cols=102  Identities=25%  Similarity=0.366  Sum_probs=90.3

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCcccc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR  171 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~  171 (372)
                      .|+.|+..+||++|..+.+.++ ++|+|+|.  +|+++|++|+|||+|++|+.|.+.+++.|+||+|||+||+ +|+|+.
T Consensus         2 ~~~~v~~~~~l~~g~~~~~~~~-~~i~v~~~--~g~~~A~~~~CpH~g~~L~~G~~~~~~~i~Cp~Hg~~Fd~~tG~~~~   78 (106)
T PRK09965          2 NRIYACPVADLPEGEALRVDTS-PVIALFNV--GGEFYAIDDRCSHGNASLSEGYLEDDATVECPLHAASFCLRTGKALC   78 (106)
T ss_pred             CcEEeeeHHHcCCCCeEEEeCC-CeEEEEEE--CCEEEEEeCcCCCCCCCCCceEECCCCEEEcCCCCCEEEcCCCCeeC
Confidence            4999999999999988888877 89999996  8999999999999999999999864378999999999998 899986


Q ss_pred             cCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      .|.              ..+|++|+|++++|.|||.+.++
T Consensus        79 ~p~--------------~~~l~~y~v~v~~g~v~v~~~~~  104 (106)
T PRK09965         79 LPA--------------TDPLRTYPVHVEGGDIFIDLPEA  104 (106)
T ss_pred             CCC--------------CCCcceEeEEEECCEEEEEccCC
Confidence            553              23699999999999999988653

>cd03478 Rieske_AIFL_N AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox)

Probab=99.89  E-value=9.3e-24  Score=171.36  Aligned_cols=93  Identities=24%  Similarity=0.435  Sum_probs=85.1

Q ss_pred             eeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCcccccCc
Q 017387           96 PVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRIPQ  174 (372)
Q Consensus        96 ~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~iP~  174 (372)
                      .|+.++||++|+++.++++|++|+|+|.  +|+++|++|+|||+|++|+.|.+. ++.|+||||||+||+ +|+|+..|.
T Consensus         2 ~v~~~~~l~~g~~~~~~~~~~~v~v~r~--~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~CP~Hg~~Fdl~tG~~~~~p~   78 (95)
T cd03478           2 VVCRLSDLGDGEMKEVDVGDGKVLLVRQ--GGEVHAIGAKCPHYGAPLAKGVLT-DGRIRCPWHGACFNLRTGDIEDAPA   78 (95)
T ss_pred             ceeehhhCCCCCEEEEEeCCcEEEEEEE--CCEEEEEcCcCcCCCCccCCCeEe-CCEEEcCCCCCEEECCCCcCcCCCc
Confidence            3789999999999999999999999997  899999999999999999999986 689999999999998 999998774


Q ss_pred             cccCCcccccccCcccccccCCceeecceEE
Q 017387          175 AASEGPEARAIQSPRACATRFPTMVSQGLLF  205 (372)
Q Consensus       175 ~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~  205 (372)
                      .              ..|++|++++++|.||
T Consensus        79 ~--------------~~l~~~~v~~~~g~i~   95 (95)
T cd03478          79 L--------------DSLPCYEVEVEDGRVY   95 (95)
T ss_pred             c--------------CCcceEEEEEECCEEC
Confidence            2              2489999999999997

The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. AIFL shares 35% homology with human AIF (apoptosis-inducing factor), mainly in the Pyr_redox domain. AIFL is predominantly localized to the mitochondria. AIFL induces apoptosis in a caspase-dependent manner.

>PF13806 Rieske_2: Rieske-like [2Fe-2S] domain; PDB: 2JO6_A 3C0D_A 3D89_A 2JZA_A

Probab=99.86  E-value=1.8e-22  Score=167.02  Aligned_cols=98  Identities=34%  Similarity=0.720  Sum_probs=89.8

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCc-cccCCCCCccCCCC----ceeeeeeceeecC-C
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPH-RLAPLSEGRIDENG----HLQCSYHGWSFDG-C  166 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpH-Rga~Ls~G~v~~~~----~i~CPyHGw~Fd~-d  166 (372)
                      .|+.||..+||++|..+.+.+.|++|+|||. .+|+++|++|+||| ++++|+.|.++ +.    .|.||+|+|.||+ +
T Consensus         1 ~W~~v~~~~~L~~~~~~~~~v~g~~Ialf~~-~~~~vyAi~n~Cph~~~~~Ls~G~i~-~~~g~~~V~CPlH~~~f~L~t   78 (104)
T PF13806_consen    1 SWVPVCPLDDLPPGEGRAVEVDGRQIALFRV-RDGEVYAIDNRCPHSQAGPLSDGLIG-DGNGEPCVACPLHKWRFDLRT   78 (104)
T ss_dssp             SEEEEEETTTSCTTSEEEEEETTEEEEEEEE-STTEEEEEESBETTTTSSCGCGSEEE-ECTTEEEEEETTTTEEEETTT
T ss_pred             CeeEeccHHHCCCCCcEEEEECCeEEEEEEe-CCCCEEEEeccCCccCCcccceeEEc-cCCCCEEEECCCCCCeEECCC
Confidence            5999999999999999999999999999998 79999999999999 89999999986 34    8999999999999 8


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEe
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~  207 (372)
                      |+|+..|               ..+|++|||++++|.|||.
T Consensus        79 G~~~~~~---------------~~~l~~ypvrv~~g~V~V~  104 (104)
T PF13806_consen   79 GECLEDP---------------DVSLRTYPVRVEDGQVYVE  104 (104)
T ss_dssp             TEESSEC---------------SEBSBEEEEEECTTEEEEE
T ss_pred             cCcCCCC---------------CCcEEeEEEEEECCEEEEC
Confidence            9998633               2469999999999999984

>PRK09511 nirD nitrite reductase small subunit; Provisional

Probab=99.86  E-value=3.4e-22  Score=166.39  Aligned_cols=100  Identities=17%  Similarity=0.282  Sum_probs=86.8

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccC-CCCCccCC-CC--ceeeeeeceeecC-CC
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRIDE-NG--HLQCSYHGWSFDG-CG  167 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~-Ls~G~v~~-~~--~i~CPyHGw~Fd~-dG  167 (372)
                      .|..||..+||++|..+.+.++|++|+|+|...+|+++|++|+|||.|++ |+.|.+++ ++  .|+||+|||+||+ +|
T Consensus         3 ~~~~v~~~~dl~~g~~~~v~v~g~~i~l~~~~~~g~~~A~~n~CpH~~~~~L~~G~~~~~~g~~~V~CP~H~~~Fdl~TG   82 (108)
T PRK09511          3 QWKDICKIDDILPGTGVCALVGDEQVAIFRPYHDEQVFAISNIDPFFQASVLSRGLIAEHQGELWVASPLKKQRFRLSDG   82 (108)
T ss_pred             cceEeeEHhHcCCCceEEEEECCEEEEEEEECCCCEEEEEeCcCCCCCCcccCCceEccCCCeEEEECCCCCCEEECCCc
Confidence            49999999999999999999999999999941379999999999999985 99998842 22  4999999999999 89


Q ss_pred             cccccCccccCCcccccccCcccccccCCceeecceEEEe
Q 017387          168 SCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (372)
Q Consensus       168 ~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~  207 (372)
                      +|+..|               ..+|++|||++++|.|||.
T Consensus        83 ~~~~~~---------------~~~l~typV~ve~g~V~v~  107 (108)
T PRK09511         83 LCMEDE---------------QFSVKHYDARVKDGVVQLR  107 (108)
T ss_pred             ccCCCC---------------CccEeeEeEEEECCEEEEe
Confidence            998533               2369999999999999984

>PF00355 Rieske: Rieske [2Fe-2S] domain; InterPro: IPR017941 There are multiple types of iron-sulphur clusters which are grouped into three main categories based on their atomic content: [2Fe-2S], [3Fe-4S], [4Fe-4S] (see PDOC00176 from PROSITEDOC), and other hybrid or mixed metal types

Probab=99.85  E-value=4.9e-22  Score=161.33  Aligned_cols=94  Identities=32%  Similarity=0.626  Sum_probs=78.5

Q ss_pred             cceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCc-cCCCCceeeeeeceeecCC-Ccc
Q 017387           93 HWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR-IDENGHLQCSYHGWSFDGC-GSC  169 (372)
Q Consensus        93 ~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~-v~~~~~i~CPyHGw~Fd~d-G~c  169 (372)
                      +|++|+.++||++ |+...+.+ |...++++. .+|+++|++|+|||+|++|+.|. ...++.|+||||||+||++ |+|
T Consensus         1 ~W~~v~~~~el~~~~~~~~~~~-~~~~v~~~~-~~g~~~A~~~~CpH~g~~l~~~~~~~~~~~i~Cp~Hg~~Fd~~tG~~   78 (97)
T PF00355_consen    1 QWVPVCRSSELPEPGDVKRVDV-GGKLVLVRR-SDGEIYAFSNRCPHQGCPLSEGPFSEDGGVIVCPCHGWRFDLDTGEC   78 (97)
T ss_dssp             SEEEEEEGGGSHSTTEEEEEEE-TTEEEEEEE-TTTEEEEEESB-TTTSBBGGCSSEETTTTEEEETTTTEEEETTTSBE
T ss_pred             CEEEeeEHHHCCCCCCEEEEEc-CCcEEEEEe-CCCCEEEEEccCCccceeEcceecccccCEEEeCCcCCEEeCCCceE
Confidence            5999999999998 88888888 666666666 79999999999999999999994 3235799999999999996 999


Q ss_pred             cccCccccCCcccccccCcccccccCCceeecc
Q 017387          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQG  202 (372)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G  202 (372)
                      +..|...              +++.|||+++++
T Consensus        79 ~~~p~~~--------------~l~~~~v~ve~~   97 (97)
T PF00355_consen   79 VGGPAPR--------------PLPLYPVKVEGD   97 (97)
T ss_dssp             EESTTCS--------------BSTEEEEEEETT
T ss_pred             ecCCCCC--------------CcCCCCeEEeCC
Confidence            9987532              588999998864

Two general types of [2Fe-2S] clusters are known and they differ in their coordinating residues. The ferredoxin-type [2Fe-2S] clusters are coordinated to the protein by four cysteine residues (see PDOC00175 from PROSITEDOC). The Rieske-type [2Fe-2S] cluster is coordinated to its protein by two cysteine residues and two histidine residues [, ]. The structure of several Rieske domains has been solved []. It contains three layers of antiparallel beta sheets forming two beta sandwiches. Both beta sandwiches share the central sheet 2. The metal-binding site is at the top of the beta sandwich formed by the sheets 2 and 3. The Fe1 iron of the Rieske cluster is coordinated by two cysteines while the other iron Fe2 is coordinated by two histidines. Two inorganic sulphide ions bridge the two iron ions forming a flat, rhombic cluster. Rieske-type iron-sulphur clusters are common to electron transfer chains of mitochondria and chloroplast and to non-haem iron oxygenase systems: The Rieske protein of the Ubiquinol-cytochrome c reductase (1.10.2.2 from EC) (also known as the bc1 complex or complex III), a complex of the electron transport chains of mitochondria and of some aerobic prokaryotes; it catalyses the oxidoreduction of ubiquinol and cytochrome c. The Rieske protein of chloroplastic plastoquinone-plastocyanin reductase (1.10.99.1 from EC) (also known as the b6f complex). It is functionally similar to the bc1 complex and catalyses the oxidoreduction of plastoquinol and cytochrome f. Bacterial naphthalene 1,2-dioxygenase subunit alpha, a component of the naphthalene dioxygenase (NDO) multicomponent enzyme system which catalyses the incorporation of both atoms of molecular oxygen into naphthalene to form cis-naphthalene dihydrodiol. Bacterial 3-phenylpropionate dioxygenase ferredoxin subunit. Bacterial toluene monoxygenase. Bacterial biphenyl dioxygenase. ; GO: 0016491 oxidoreductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process; PDB: 2XRX_A 2XR8_O 2XSH_G 2XSO_I 2YFI_C 2YFL_A 2YFJ_K 1G8J_D 1G8K_D 1NYK_B ....

>COG2146 {NirD} Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]

Probab=99.83  E-value=7.4e-21  Score=157.84  Aligned_cols=103  Identities=29%  Similarity=0.515  Sum_probs=88.2

Q ss_pred             ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccc
Q 017387           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCT  170 (372)
Q Consensus        92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~  170 (372)
                      ..|+.+|..+||+++..+.+.+.+..+++++. .+|+++|++|+|||.|++|+.|.+.++..|+||.|+|.||+ +|+|+
T Consensus         3 ~~w~~~c~~~dl~~~~~~~v~~~~~~~~~~~~-~~g~v~A~~n~CpH~~~~l~~g~v~~~~~i~Cp~H~a~Fdl~tG~~~   81 (106)
T COG2146           3 MNWIRICKVDDLPEGGGVRVLVGGGRFALVVR-ADGEVFAIDNRCPHAGAPLSRGLVEGDETVVCPLHGARFDLRTGECL   81 (106)
T ss_pred             CceEEEEehHhcCCCCceEEEecCCEEEEEEe-cCCEEEEEeCcCCCCCCcccccEeCCCCEEECCccCCEEEcCCCcee
Confidence            57999999999999888888884435666666 69999999999999999999999974346999999999999 89999


Q ss_pred             ccCccccCCcccccccCcccccccCCceeecceEEEecC
Q 017387          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (372)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~  209 (372)
                      .-|...              .|++||+++.+|.|||.++
T Consensus        82 ~~p~~~--------------~l~~y~vrve~g~v~v~~~  106 (106)
T COG2146          82 EPPAGK--------------TLKTYPVRVEGGRVFVDLD  106 (106)
T ss_pred             cCCCCC--------------ceeEEeEEEECCEEEEecC
Confidence            866421              1999999999999999863

>cd03467 Rieske Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes

Probab=99.83  E-value=6.6e-21  Score=155.17  Aligned_cols=95  Identities=26%  Similarity=0.489  Sum_probs=85.2

Q ss_pred             ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccccc
Q 017387           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI  172 (372)
Q Consensus        94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~i  172 (372)
                      |++++..++|++|+.+.+.+.|.+++|+|+ .+|+++|++|+|||+|++|..|... ++.|+||+|||+||+ +|+|+..
T Consensus         1 w~~~~~~~~~~~~~~~~~~~~~~~~~v~~~-~~~~~~a~~~~CpH~g~~l~~~~~~-~~~i~Cp~H~~~f~~~~G~~~~~   78 (98)
T cd03467           1 WVVVGALSELPPGGGRVVVVGGGPVVVVRR-EGGEVYALSNRCTHQGCPLSEGEGE-DGCIVCPCHGSRFDLRTGEVVSG   78 (98)
T ss_pred             CEEeeeccccCCCceEEEEECCeEEEEEEe-CCCEEEEEcCcCCCCCccCCcCccC-CCEEEeCCCCCEEeCCCccCcCC
Confidence            899999999998999999999999999998 7889999999999999999999864 689999999999999 9999987


Q ss_pred             CccccCCcccccccCcccccccCCceeec-ceE
Q 017387          173 PQAASEGPEARAIQSPRACATRFPTMVSQ-GLL  204 (372)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~-G~I  204 (372)
                      |.              ...|++|++++.+ +.|
T Consensus        79 p~--------------~~~l~~~~v~~~~~~~~   97 (98)
T cd03467          79 PA--------------PRPLPKYPVKVEGDGVV   97 (98)
T ss_pred             CC--------------CCCcCEEEEEEeCCceE
Confidence            64              2458899999994 444

The Rieske domain can be divided into two subdomains, with an incomplete six-stranded, antiparallel beta-barrel at one end, and an iron-sulfur cluster binding subdomain at the other. The Rieske iron-sulfur center contains a [2Fe-2S] cluster, which is involved in electron transfer, and is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In RO systems, the N-terminal Rieske domain of the alpha subunit acts as an electron shuttle that accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron in the alpha subunit C-terminal domain to be used for catalysis.

>cd03477 Rieske_YhfW_C YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain

Probab=99.81  E-value=1.5e-20  Score=151.89  Aligned_cols=87  Identities=17%  Similarity=0.239  Sum_probs=76.5

Q ss_pred             eeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccc
Q 017387           97 VSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA  176 (372)
Q Consensus        97 V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~  176 (372)
                      ++.++||++|+.+.+.+.|++|+|+|+ .+|+++|+.|+|||+|++|+.|..  ++.|+||||||+||.+|+|+..|.. 
T Consensus         2 ~~~~~dl~~g~~~~~~~~g~~v~v~r~-~~g~~~A~~~~CpH~g~~l~~g~~--~~~i~CP~Hg~~Fd~~G~~~~~Pa~-   77 (91)
T cd03477           2 ITDIEDLAPGEGGVVNIGGKRLAVYRD-EDGVLHTVSATCTHLGCIVHWNDA--EKSWDCPCHGSRFSYDGEVIEGPAV-   77 (91)
T ss_pred             ccchhhcCCCCeEEEEECCEEEEEEEC-CCCCEEEEcCcCCCCCCCCcccCC--CCEEECCCCCCEECCCCcEeeCCCC-
Confidence            578899999999999999999999998 799999999999999999998865  4699999999999999999987743 


Q ss_pred             cCCcccccccCcccccccCCceee
Q 017387          177 SEGPEARAIQSPRACATRFPTMVS  200 (372)
Q Consensus       177 ~~~~~~~~~~~~~~~l~~~pv~e~  200 (372)
                                   ..|++|+|.-.
T Consensus        78 -------------~~l~~y~v~~~   88 (91)
T cd03477          78 -------------SGLKPADDAPI   88 (91)
T ss_pred             -------------CCCCeeEeecc
Confidence                         24778877643

The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. It is commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes. YhfW is found in bacteria, some eukaryotes and archaea.

>cd03476 Rieske_ArOX_small Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate

Probab=99.75  E-value=1.7e-18  Score=147.91  Aligned_cols=96  Identities=23%  Similarity=0.283  Sum_probs=83.0

Q ss_pred             eeeeeeccCCCCCCcchhhcc--cceEEEEeCC---------CCceEEcccCCCccccCCCCCccCCCCceeeeeeceee
Q 017387           95 YPVSLVEDLDPNLPTAFQLLG--RDLVLWFDNN---------SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSF  163 (372)
Q Consensus        95 ~~V~~~~eL~~g~~~~~~~~g--~~lvl~R~~~---------~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~F  163 (372)
                      +.||..++|++|+.+.+++.+  ++++|+|. .         +|+++|++|+|||+|++|+.|.  +++.|+||+|||+|
T Consensus         4 ~~v~~~~~l~~g~~~~~~~~~~~~~i~v~r~-~~~~~~~~~~~g~~~A~~~~CpH~g~~L~~g~--~~~~v~CP~Hg~~F   80 (126)
T cd03476           4 VKVANLSQLSPGQPVTFNYPDESSPCVLVKL-GVPVPGGVGPDNDIVAFSALCTHMGCPLTYDP--SNKTFVCPCHFSQF   80 (126)
T ss_pred             eEEeeHHHCCCCCeEEEEcCCCCCcEEEEEC-CccccCccccCCEEEEEeCcCCCCCccccccc--cCCEEEccCcCCEE
Confidence            357899999999999999887  89999996 3         6899999999999999999986  36789999999999


Q ss_pred             cC--CCcccccCccccCCcccccccCcccccccCCceee--cceEEEe
Q 017387          164 DG--CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS--QGLLFVW  207 (372)
Q Consensus       164 d~--dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~I~V~  207 (372)
                      |+  +|+|+..|.              ...|++|+++++  +|.|||-
T Consensus        81 dl~tgG~~~~gPa--------------~~~L~~ypv~ve~~~g~V~~~  114 (126)
T cd03476          81 DPARGGQMVSGQA--------------TQNLPQIVLEYDEASGDIYAV  114 (126)
T ss_pred             eCCCCCeEEcCCC--------------CCCCCeEEEEEECCCCEEEEE
Confidence            99  378887553              246999999999  9999984

It consists of two subunits, a large subunit similar to members of the DMSO reductase family of molybdenum enzymes and a small subunit with a Rieske-type [2Fe-2S] cluster. The large subunit of ArOX contains the molybdenum site at which the oxidation of arsenite occurs. The small subunit contains a domain homologous to the Rieske domains of the cytochrome bc(1) and cytochrome b6f complexes as well as naphthalene 1,2-dioxygenase. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer.

>cd03471 Rieske_cytochrome_b6f Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer

Probab=99.69  E-value=3.8e-17  Score=139.08  Aligned_cols=89  Identities=15%  Similarity=0.215  Sum_probs=71.3

Q ss_pred             CCCCCcchh--hcccceEEEEeCCCCce--EEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccccCC
Q 017387          104 DPNLPTAFQ--LLGRDLVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEG  179 (372)
Q Consensus       104 ~~g~~~~~~--~~g~~lvl~R~~~~G~v--~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~  179 (372)
                      .+|++..++  ..+..|+|++  .+|++  +|++|+|||+|++|+.+..  ++.|+||+|||+||.+|+++..|.     
T Consensus        21 ~~~~~~~~~~~~~~~~Ilv~~--~dg~i~~~A~~~~CpH~G~~l~~~~~--~~~i~CP~Hg~~Fd~tG~~~~gPa-----   91 (126)
T cd03471          21 NPGDRSLVQGLKGDPTYLIVE--EDKTIANYGINAVCTHLGCVVPWNAA--ENKFKCPCHGSQYDATGKVVRGPA-----   91 (126)
T ss_pred             CCCCeEEEEEecCCeEEEEEe--CCCeEEEEEecCCCcCCCCCcCccCC--CCEEEcCCCCCEECCCCCEecCCC-----
Confidence            357776665  3455556655  48877  8999999999999998754  469999999999999999987653     


Q ss_pred             cccccccCcccccccCCceeecceEEEecCC
Q 017387          180 PEARAIQSPRACATRFPTMVSQGLLFVWPDE  210 (372)
Q Consensus       180 ~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~  210 (372)
                               ...|++|+|++++|.|||.+..
T Consensus        92 ---------~~~L~~y~V~vedg~I~V~~~~  113 (126)
T cd03471          92 ---------PLSLALVHATVDDDKVVLSPWT  113 (126)
T ss_pred             ---------CCCCceEeEEEECCEEEEEECc
Confidence                     2458999999999999997654

The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium, contains four large subunits, including cytochrome f, cytochrome b6, the Rieske ISP, and subunit IV; as well as four small hydrophobic subunits, PetG, PetL, PetM, and PetN. Rieske ISP, one of the large subunits of the cytochrome bc-type complexes, is involved in respiratory and photosynthetic electron transfer. The core of the chloroplast b6f complex is similar to the analogous respiratory cytochrome bc(1) complex, but the domain arrangement outside the core and the complement of prosthetic groups are strikingly different.

>cd03473 Rieske_CMP_Neu5Ac_hydrolase_N Cytidine monophosphate-N-acetylneuraminic acid (CMP Neu5Ac) hydroxylase family, N-terminal Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer

Probab=99.67  E-value=4.1e-17  Score=134.29  Aligned_cols=72  Identities=17%  Similarity=0.379  Sum_probs=64.7

Q ss_pred             eccCCCCCCcchhh-cccceEEEEeCCCCceEEcccCCCccccCCCCC--ccCCCCceeeeeeceeecC-CCcccccCc
Q 017387          100 VEDLDPNLPTAFQL-LGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEG--RIDENGHLQCSYHGWSFDG-CGSCTRIPQ  174 (372)
Q Consensus       100 ~~eL~~g~~~~~~~-~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G--~v~~~~~i~CPyHGw~Fd~-dG~c~~iP~  174 (372)
                      ..+|++|..+.+.+ .|.+|+|+|.  +|+++|++|+|||+|++|+.|  .++ ++.|+||+|||+||+ +|+++.-|.
T Consensus        14 l~eL~~G~~~~v~v~~g~~I~V~~~--~G~~~A~~n~CpH~g~pL~~g~g~~~-g~~V~CP~Hg~~FDLrTG~~~~~p~   89 (107)
T cd03473          14 VANLKEGINFFRNKEDGKKYIIYKS--KSELKACKNQCKHQGGLFIKDIEDLD-GRTVRCTKHNWKLDVSTMKYVNPPD   89 (107)
T ss_pred             HhcCCCCceEEEEecCCcEEEEEEE--CCEEEEEcCCCCCCCccccCCcceEe-CCEEEeCCCCCEEEcCCCCCccCCc
Confidence            47899999999999 9999999996  899999999999999999995  474 678999999999999 899987553

CMP Neu5Ac hydroxylase is the key enzyme for the synthesis of N-glycolylneuraminic acid (NeuGc) from N-acetylneuraminic acid (Neu5Ac), NeuGc and Neu5Ac are members of a family of cell surface sugars called sialic acids. All mammals except humans have both NeuGc variants on their cell surfaces. In humans, the gene encoding CMP Neu5Ac hydroxylase has a mutation within its coding region that abolishes NeuGc production.

>TIGR02694 arsenite_ox_S arsenite oxidase, small subunit

Probab=99.65  E-value=2.3e-16  Score=135.20  Aligned_cols=95  Identities=24%  Similarity=0.274  Sum_probs=79.0

Q ss_pred             eeeeeeccCCCCCCcchhhcc--cceEEEEeC--------CCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeec
Q 017387           95 YPVSLVEDLDPNLPTAFQLLG--RDLVLWFDN--------NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFD  164 (372)
Q Consensus        95 ~~V~~~~eL~~g~~~~~~~~g--~~lvl~R~~--------~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd  164 (372)
                      +.||..+||++|+++.+.+.+  .+++|+|..        .+|+++|++|+|||.|++|+.+.  +++.|.||.|||+||
T Consensus         7 ~~v~~~~dl~~g~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~G~~~A~~~~CpH~g~~L~~~~--~~~~i~CP~Hga~Fd   84 (129)
T TIGR02694         7 NRVANISELKLNEPLDFNYPDASSPGVLLKLGTPVEGGVGPDGDIVAFSTLCTHMGCPVSYSA--DNKTFNCPCHFSVFD   84 (129)
T ss_pred             eEEEeHHHCCCCCCEEEecCCCCCCEEEEecCCcccCccccCCEEEEEeCcCCCCCccccccc--CCCEEEcCCCCCEEC
Confidence            358999999999999998765  478888720        37999999999999999999875  357999999999999


Q ss_pred             CC--CcccccCccccCCcccccccCcccccccCCceee-cceEE
Q 017387          165 GC--GSCTRIPQAASEGPEARAIQSPRACATRFPTMVS-QGLLF  205 (372)
Q Consensus       165 ~d--G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~-~G~I~  205 (372)
                      .+  |+|+..|.              ..+|++|++++. +|.||
T Consensus        85 l~tgG~~~~gP~--------------~~~L~~y~v~v~~~G~V~  114 (129)
T TIGR02694        85 PEKGGQQVWGQA--------------TQNLPQIVLRVADNGDIF  114 (129)
T ss_pred             CCCCCcEECCCC--------------CCCCCeeEEEEECCCeEE
Confidence            96  68886552              246999999997 58998

This model represents the small subunit of an arsenite oxidase complex. It is a Rieske protein and appears to rely on the Tat (twin-arginine translocation) system to cross the membrane. Although this enzyme could run in the direction of arsenate reduction to arsenite in principle, the relevant biological function is arsenite oxidation for energy metabolism, not arsenic resistance. Homologs to both large (TIGR02693) and small subunits that score in the gray zone between the set trusted and noise bit score cutoffs for the respective models are found in Aeropyrum pernix K1 and in Sulfolobus tokodaii str. 7.

>cd03470 Rieske_cytochrome_bc1 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer

Probab=99.59  E-value=2.1e-15  Score=128.88  Aligned_cols=92  Identities=14%  Similarity=0.230  Sum_probs=78.0

Q ss_pred             eeccCCCCCCcchhhcccceEEEEeCC----------------------------CCceEEcccCCCccccCCCCCccCC
Q 017387           99 LVEDLDPNLPTAFQLLGRDLVLWFDNN----------------------------SNKWVAFDDKCPHRLAPLSEGRIDE  150 (372)
Q Consensus        99 ~~~eL~~g~~~~~~~~g~~lvl~R~~~----------------------------~G~v~A~~n~CpHRga~Ls~G~v~~  150 (372)
                      ..++|++|+.+.+.+.|++|+|+|. .                            +|+++|+.++|||.|+.+..+... 
T Consensus         5 dl~~l~~G~~~~v~w~Gkpv~I~~r-t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~CtH~gc~~~~~~~~-   82 (126)
T cd03470           5 DLSKIEEGQLITVEWRGKPVFIRRR-TPEEIAEAKAVDLSLLDDPDPAANRVRSGKPEWLVVIGICTHLGCVPTYRAGD-   82 (126)
T ss_pred             EhhhCCCCCEEEEEECCeEEEEEEC-CHHHHhhhhhcchhhcCCccccccccccCCCcEEEEeCcCCCCCCeeccccCC-
Confidence            4688999999999999999999994 2                            579999999999999998877653 


Q ss_pred             CCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeec-ceEEE
Q 017387          151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ-GLLFV  206 (372)
Q Consensus       151 ~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~-G~I~V  206 (372)
                      ++.+.||+|||+||++|+.+..|.              ...|+.|+++..+ +.|+|
T Consensus        83 ~~~~~CPcHgs~Fdl~G~~~~gPa--------------~~~L~~~p~~~~~~~~l~i  125 (126)
T cd03470          83 YGGFFCPCHGSHYDASGRIRKGPA--------------PLNLEVPPYKFLSDTTIVI  125 (126)
T ss_pred             CCEEEecCcCCEECCCCeEecCCC--------------CCCCCeeeEEEecCCEEEe
Confidence            579999999999999999887653              2368999999877 67665

The bc(1) complex is a multisubunit enzyme found in many different organisms including uni- and multi-cellular eukaryotes, plants (in their mitochondria) and bacteria. The cytochrome bc(1) and b6f complexes are central components of the respiratory and photosynthetic electron transport chains, respectively, which carry out similar core electron and proton transfer steps. The bc(1) and b6f complexes share a common core structure of three catalytic subunits: cyt b, the Rieske ISP, and either a cyt c1 in the bc(1) complex or cyt f in the b6f complex, which are arranged in an integral membrane-bound dimeric complex. While the core of the b6f complex is similar to that of the bc(1) complex, the domain arrangement outside the core and the complement of prosthetic groups are strikingly different.

>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional

Probab=99.46  E-value=1.2e-13  Score=124.90  Aligned_cols=87  Identities=17%  Similarity=0.242  Sum_probs=71.4

Q ss_pred             CCCCCcchh-hcccc-eEEEEeCCCCce--EEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccccCC
Q 017387          104 DPNLPTAFQ-LLGRD-LVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEG  179 (372)
Q Consensus       104 ~~g~~~~~~-~~g~~-lvl~R~~~~G~v--~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~  179 (372)
                      ++|++..+. +.|.+ +++.+  .+|++  +|+++.|||.|++|+.+..  ++.|.||+||++||.+|+.+..|.     
T Consensus        73 ~~g~~~~v~~~~g~~~~lv~~--~~g~~~~~a~~~~CtH~gc~l~~~~~--~~~~~CP~Hgs~Fd~tG~~~~gPa-----  143 (178)
T PRK13474         73 PAGDRSLVQGLKGDPTYLVVE--EDGTIASYGINAVCTHLGCVVPWNSG--ENKFQCPCHGSQYDATGKVVRGPA-----  143 (178)
T ss_pred             CCCCcEEEEEcCCCeEEEEEe--CCCEEEEEEecCCCCCCCCccccccC--CCEEEecCcCCEECCCCCCccCCC-----
Confidence            567777665 66777 56665  48999  6789999999999998875  359999999999999999886553     


Q ss_pred             cccccccCcccccccCCceeecceEEEec
Q 017387          180 PEARAIQSPRACATRFPTMVSQGLLFVWP  208 (372)
Q Consensus       180 ~~~~~~~~~~~~l~~~pv~e~~G~I~V~~  208 (372)
                               ...|++|+|++++|.|+|.+
T Consensus       144 ---------~~~L~~y~v~v~~g~v~v~~  163 (178)
T PRK13474        144 ---------PLSLALVHVTVEDDKVLFSP  163 (178)
T ss_pred             ---------CCCCCeEeEEEECCEEEEEE
Confidence                     34689999999999999977

>TIGR01416 Rieske_proteo ubiquinol-cytochrome c reductase, iron-sulfur subunit

Probab=99.31  E-value=3.2e-12  Score=115.16  Aligned_cols=96  Identities=16%  Similarity=0.224  Sum_probs=76.0

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCC---------------------------------CCceEEcccCCCcc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN---------------------------------SNKWVAFDDKCPHR  139 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~---------------------------------~G~v~A~~n~CpHR  139 (372)
                      .|+.| ..++|++|+.+.+.+.|++|+|+|...                                 +++++|+.+.|||.
T Consensus        40 ~~~~v-~l~eL~pG~~~~v~~~GkpI~I~~~t~~~~~~~~~~~~~~l~Dp~~~~~~~~~~~~~r~~~~~~~a~~~~CtH~  118 (174)
T TIGR01416        40 APTEV-DVSKIQPGQQLTVEWRGKPVFIRRRTKKEIDALKALDLGALKDPNSEAQQPDYARVKRSGKPEWLVVIGICTHL  118 (174)
T ss_pred             CcEEE-EHHHCCCCCeEEEEECCeEEEEEeCCHHHhhhhhccchhhcCCCcccccCcchhhhhhccCCcEEEEEeccCCC
Confidence            57777 789999999999999999999988411                                 48999999999999


Q ss_pred             ccCC-CCCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecce
Q 017387          140 LAPL-SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGL  203 (372)
Q Consensus       140 ga~L-s~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~  203 (372)
                      |+.+ ..+..+..+.+.||+||++||.+|+.+..|.              ...|..|+++..++.
T Consensus       119 Gc~~~~~~~~~~~~~~~CPcHgs~Fd~~G~~~~gpa--------------~~~L~~~~~~~~~~~  169 (174)
T TIGR01416       119 GCIPTYGPEEGDKGGFFCPCHGSHYDTAGRVRKGPA--------------PLNLPVPPYKFLSDT  169 (174)
T ss_pred             CCccccccCCCCCCEEEeCCCCCEECCCCcEecCCC--------------CCCCCCCCEEEcCCC
Confidence            9755 4444432468999999999999998886553              345889998876653

Most members of this family have a recognizable twin-arginine translocation (tat) signal sequence (DeltaPh-dependent translocation in chloroplast) for transport across the membrane with the 2Fe-2S group already bound. These signal sequences include a motif resembling RRxFLK before the transmembrane helix.

>cd08878 RHO_alpha_C_DMO-like C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases

Probab=99.24  E-value=1.3e-11  Score=110.26  Aligned_cols=114  Identities=19%  Similarity=0.247  Sum_probs=74.0

Q ss_pred             eeeccchhhhhhccCCCCCcccccccccccCccCC--CCCCeeecccCcccccc----CCC---------CC-CeeEEee
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRA--KPLPFKLESSGHWGFAG----AND---------GN-PRISAKF  302 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~--~~~~~~v~~~~~~gf~~----~~~---------~~-~~~~~~f  302 (372)
                      .++++|||++++||++|++|++|||.+++|..+..  ....++++..+ .|+..    ...         .. ......|
T Consensus         5 ~~~~~~n~~~~~EN~~D~~H~~fvH~~~~g~~~~~~~~~~~~~~~~~~-~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (196)
T cd08878           5 YRHIDCNWLQVVENLMDPSHVSFVHRSSIGRDAADLPSGPPKEVEEVP-RGVTYRRWREDEDPPPFGFEGPVDRWRVIEF   83 (196)
T ss_pred             cEEecCCcEEEehhCccccchhhhChhhhCccccccccCCCceEEEeC-CEEEEEEEecCCCCCCCCCCCCccEEEEEEE
Confidence            35789999999999999999999999999987654  33445554332 23211    000         11 1234789


Q ss_pred             eccceeeeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeeccceeee
Q 017387          303 VAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQF  355 (372)
Q Consensus       303 ~~P~~~~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~  355 (372)
                      ++|++....+......  ..+....+.++++++|+++++||++|...||+...
T Consensus        84 ~~P~~~~~~~~~~~~~--~~~~~~~~~~~~~~tPid~~~~~~~~~~~~~~~~~  134 (196)
T cd08878          84 LLPNVLLIDPGVAPAG--TREQGVRMRVTHWITPIDETTTHYFWFFVRNFAPD  134 (196)
T ss_pred             ECCEEEEEecccccCC--cCCCcceEEEEEEEccCCCCeEEEEEEeccCCCCC
Confidence            9998866433221000  01112234556778999999999999999998553

C-terminal catalytic domain of the oxygenase alpha subunit of Stenotrophomonas maltophilia dicamba O-demethylase (DMO) and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components an

>cd03475 Rieske_SoxF_SoxL SoxF and SoxL family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer

Probab=98.89  E-value=4e-09  Score=94.15  Aligned_cols=66  Identities=18%  Similarity=0.229  Sum_probs=49.9

Q ss_pred             CCceEEcccCCCccccCCCC---------------CccCCCCceeeeeeceeecC-CCc-ccccCccccCCcccccccCc
Q 017387          126 SNKWVAFDDKCPHRLAPLSE---------------GRIDENGHLQCSYHGWSFDG-CGS-CTRIPQAASEGPEARAIQSP  188 (372)
Q Consensus       126 ~G~v~A~~n~CpHRga~Ls~---------------G~v~~~~~i~CPyHGw~Fd~-dG~-c~~iP~~~~~~~~~~~~~~~  188 (372)
                      +|+++|++++|+|+|++|..               |... ++.|.||+|||+||+ +|. .+..|              +
T Consensus        74 ~g~IvA~S~iCpHlGc~l~~~~~y~~~~~~~~~~~g~~~-~~~i~CPcHgS~FD~~tGg~v~~GP--------------A  138 (171)
T cd03475          74 NKSIVAFSAICQHLGCQPPPIVSYPSYYPPDKAPGLASK-GAVIHCCCHGSTYDPYKGGVVLTGP--------------A  138 (171)
T ss_pred             CCEEEEEeCcCCCCCCccccccccccccccccccccccc-CCEEEcCCCCCEEeCCCCCeEcCCC--------------C
Confidence            68999999999999998763               4343 578999999999999 454 43323              2


Q ss_pred             ccccccCCceeec--ceEEE
Q 017387          189 RACATRFPTMVSQ--GLLFV  206 (372)
Q Consensus       189 ~~~l~~~pv~e~~--G~I~V  206 (372)
                      ...|..|.+++++  |.||+
T Consensus       139 ~~pLp~~~L~~d~~~d~iyA  158 (171)
T cd03475         139 PRPLPAVILEYDSSTDDLYA  158 (171)
T ss_pred             CCCcCEeEEEEeCCCCcEEE
Confidence            3458899888884  77775

SoxF is a subunit of the terminal oxidase supercomplex SoxM in the plasma membrane of Sulfolobus acidocaldarius that combines features of a cytochrome bc(1) complex and a cytochrome. The Rieske domain of SoxF has a 12 residue insertion which is not found in eukaryotic and bacterial Rieske proteins and is thought to influence the redox properties of the iron-sulfur cluster. SoxL is a Rieske protein which may be part of an archaeal bc-complex homologue whose physiological function is still unknown. SoxL has two features not seen in other Rieske proteins; (i) a significantly greater distance between the two cluster-binding sites and (ii) an unexpected Pro - Asp substitution at one of the cluster binding sites. SoxF and SoxL are found in archaea and in bacteria.

>cd00680 RHO_alpha_C C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases

Probab=98.88  E-value=4.4e-09  Score=93.27  Aligned_cols=103  Identities=14%  Similarity=0.075  Sum_probs=61.8

Q ss_pred             eeeccchhhhhhccCCCCCcccccccccccCcc---CCCCCCeeeccc---Ccccc----ccCC--------CCCCeeEE
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRD---RAKPLPFKLESS---GHWGF----AGAN--------DGNPRISA  300 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~---~~~~~~~~v~~~---~~~gf----~~~~--------~~~~~~~~  300 (372)
                      ..+++||||+++||++|+||++++|+++++...   ......+.+...   ...++    ....        ........
T Consensus         4 ~~~~~~NWK~~~En~~E~YH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (188)
T cd00680           4 EYEVDCNWKLAVENFLECYHVPTVHPDTLATGLPLPLLFGDHYRVDDTGEGPGEGLSRHWGDGKGPQSALPGLKPGGYLY   83 (188)
T ss_pred             EEEeccCceEehhhccccccccccChhhhccccccCcccCCceEEEeccCCCCChhhcccchhhhcccccccccccCeEE
Confidence            467899999999999999999999999987531   001111222110   00011    0000        01112346


Q ss_pred             eeeccceeeeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeeccceee
Q 017387          301 KFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQ  354 (372)
Q Consensus       301 ~f~~P~~~~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~  354 (372)
                      .++.|++++...         . .   .+++..++|+++++|++++.++++...
T Consensus        84 ~~~fPn~~~~~~---------~-~---~~~~~~~~P~~~~~t~~~~~~~~~~~~  124 (188)
T cd00680          84 LYLFPNLMIGLY---------P-D---SLQVQQFVPIGPNKTRLEVRLYRPKDE  124 (188)
T ss_pred             EEECCcEeeeec---------C-C---EEEEEEEEecCCCcEEEEEEEEEeccc
Confidence            778898875421         1 1   233445689999999999987766543

C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC), and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-like 2Fe-2S cluster, and a C-te

>cd08885 RHO_alpha_C_1 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases

Probab=98.59  E-value=1.1e-07  Score=85.88  Aligned_cols=32  Identities=16%  Similarity=0.048  Sum_probs=28.9

Q ss_pred             eeeccchhhhhhccCCCCCcccccccccccCc
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRR  270 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~  270 (372)
                      .++++||||+++||++|+||++.+|+++++..
T Consensus         5 ~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~   36 (190)
T cd08885           5 EEVWDTNWKVLAENFMEGYHLPGLHPGTLHPF   36 (190)
T ss_pred             eeeccCCchhhHhhcCccccccccccchhhcc
Confidence            46789999999999999999999999988643

C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and

>PF08417 PaO: Pheophorbide a oxygenase; InterPro: IPR013626 This domain is found in bacterial and plant proteins to the C terminus of a Rieske 2Fe-2S domain (IPR005806 from INTERPRO)

Probab=98.58  E-value=2.6e-08  Score=80.56  Aligned_cols=65  Identities=23%  Similarity=0.388  Sum_probs=47.4

Q ss_pred             eeccceeeeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeeccceeeeec-CCCcee-eeeeccc
Q 017387          302 FVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM-PGPAWW-QVRTSQL  370 (372)
Q Consensus       302 f~~P~~~~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~~~-~~p~w~-~~~~~~~  370 (372)
                      |.+||++.++....    ...+.+..++.+++++|++||+||+++.+++||..+.. ..|+|| |+.+|++
T Consensus         1 F~pPc~v~~~~~~~----~~~~~~~~~~~~~~~vP~~pG~~Rli~r~~~~f~~~~~k~~P~wl~H~~~n~V   67 (92)
T PF08417_consen    1 FIPPCLVRSTEEGP----KKKSCGKRLHQVFYCVPTGPGRCRLIWRFPRNFPAWIFKLIPRWLSHLTSNKV   67 (92)
T ss_pred             CCCCEEEEEecccc----ccCCCCCEEEEEEEEEECCCCeEEEEEEehhhhhhHHhhcCCHHHHHHhhCcc
Confidence            78999988651111    11223345666778899999999999999999955544 699999 7766765

One of the proteins the domain is found in is Pheophorbide a oxygenase (PaO) which seems to be a key regulator of chlorophyll catabolism. Arabidopsis PaO (AtPaO) is a Rieske-type 2Fe-2S enzyme that is identical to Arabidopsis accelerated cell death 1 and homologous to lethal leaf spot 1 (LLS1) of maize [], in which the domain described here is also found. ; GO: 0010277 chlorophyllide a oxygenase [overall] activity, 0055114 oxidation-reduction process

>cd08886 RHO_alpha_C_2 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases

Probab=98.54  E-value=1.8e-07  Score=84.58  Aligned_cols=98  Identities=14%  Similarity=0.160  Sum_probs=56.5

Q ss_pred             EeeeccchhhhhhccCCCCCcccccccccccCccCCCCCCeeecccCcc-------ccccCC--C-C-CCeeEEeeeccc
Q 017387          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHW-------GFAGAN--D-G-NPRISAKFVAPC  306 (372)
Q Consensus       238 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~-------gf~~~~--~-~-~~~~~~~f~~P~  306 (372)
                      ..++++||||+++||++|+||++++|+++++.....   .+.++..+.+       ++....  . . ......-++.|+
T Consensus         4 ~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN   80 (182)
T cd08886           4 LTSEIKANWKNVVDNYLECYHCHTAHPDFVDSLDMD---TYKHTTHGNYSSQMANYGSAENSEYSVKPDADFAFYWLWPN   80 (182)
T ss_pred             EEEEeecccEEEEecCCccccCcccChhHHhccccc---ccEEEecCcEEEEEeccccccccccccccCcceeEEEEeCC
Confidence            356789999999999999999999999998653221   1212111111       111000  0 0 111234567798


Q ss_pred             eeeeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeec
Q 017387          307 YYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSA  349 (372)
Q Consensus       307 ~~~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~  349 (372)
                      ++++.   ..     +..   .+.+..+.|+++++|++.+.++
T Consensus        81 ~~i~~---~~-----~~~---~~~~~~~~P~~p~~t~~~~~~~  112 (182)
T cd08886          81 TMLNV---YP-----GAG---NMGVINIIPVDAETTLQHYDFY  112 (182)
T ss_pred             EEEEe---eC-----CCC---eEEEEEEEeCCCCeEEEEEEEE
Confidence            87642   10     111   1223345899999999876543

C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and

>cd08883 RHO_alpha_C_CMO-like C-terminal catalytic domain of plant choline monooxygenase (CMO) and related aromatic ring hydroxylating dioxygenases

Probab=98.46  E-value=3.6e-07  Score=81.96  Aligned_cols=96  Identities=13%  Similarity=0.160  Sum_probs=56.0

Q ss_pred             eeeccchhhhhhccCCCCCcccccccccccCccCCCCCCeeecccCcc---cc--ccC-C----CCCCeeEEeeecccee
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHW---GF--AGA-N----DGNPRISAKFVAPCYY  308 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~---gf--~~~-~----~~~~~~~~~f~~P~~~  308 (372)
                      ..++++|||+++||++|+||++++|+++++.....   .+.++..+..   +.  ... .    ........-++.|+++
T Consensus         5 ~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN~~   81 (175)
T cd08883           5 EYVIECNWKVYVDNYLEGYHVPFAHPGLAAVLDYA---TYRTELFEYVSLQSAPARAEEGSFFYRLGNAALYAWIYPNLM   81 (175)
T ss_pred             EeeeecCceEEehhcCCcccCcccchhHHhhcccC---ceEEEEcCcEEEEEecccCCCCccccccCcCeEEEEECCCEe
Confidence            45789999999999999999999999998542221   2222211110   00  000 0    0011122456789987


Q ss_pred             eeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeecc
Q 017387          309 MNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSAR  350 (372)
Q Consensus       309 ~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~r  350 (372)
                      ++..         ++ .  +. +..+.|+++++|++.+.++.
T Consensus        82 i~~~---------~~-~--~~-~~~~~P~~p~~t~~~~~~~~  110 (175)
T cd08883          82 LNRY---------PP-G--MD-VNVVLPLGPERCKVVFDYFV  110 (175)
T ss_pred             eeec---------CC-e--EE-EEEEEeCCCCcEEEEEEEEE
Confidence            6421         11 1  22 22347999999999776543

C-terminal catalytic domain of plant choline monooxygenase and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-like 2Fe-2S cluster, and a C-

>cd08887 RHO_alpha_C_3 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases

Probab=98.40  E-value=6e-07  Score=80.42  Aligned_cols=32  Identities=9%  Similarity=0.178  Sum_probs=28.9

Q ss_pred             eeeccchhhhhhccCCCCCcccccccccccCc
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRR  270 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~  270 (372)
                      ..+++||||+++||++|+||++++|+++++..
T Consensus         5 ~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~   36 (185)
T cd08887           5 RFDVAANWKLALDGFLEGYHFKVLHKNTIAPY   36 (185)
T ss_pred             eeecCCCceEehhhcccccccchhchhhhccc
Confidence            45789999999999999999999999998753

C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and

>COG0723 QcrA Rieske Fe-S protein [Energy production and conversion]

Probab=98.28  E-value=8.6e-07  Score=80.02  Aligned_cols=67  Identities=19%  Similarity=0.265  Sum_probs=50.9

Q ss_pred             ceEEcccCCCccccCCCC-CccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecc-eEE
Q 017387          128 KWVAFDDKCPHRLAPLSE-GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQG-LLF  205 (372)
Q Consensus       128 ~v~A~~n~CpHRga~Ls~-G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G-~I~  205 (372)
                      +|.|+...|.|.|+.... +.. ..+.+.||+||.+||.+|+.+..|..              ..|..++++...+ .+.
T Consensus       100 ~~~a~~~iCtHlGC~~~~~~~~-~~~~~~CPCHGS~yd~~g~vv~GPA~--------------~~L~~~~~~~~~d~~~~  164 (177)
T COG0723         100 EIVAYSAICTHLGCTVPWNNAG-AEGGFFCPCHGSRYDPDGGVVKGPAP--------------RPLPIPPLEYDSDKLYL  164 (177)
T ss_pred             cEEEEeeeccCCCCccCcccCC-CCCeEEccCCCCeEcCCCCeeCCCCC--------------CCcCCceEEEeCCceEE
Confidence            466999999999999998 333 35799999999999999997776543              3477778777766 343


Q ss_pred             EecC
Q 017387          206 VWPD  209 (372)
Q Consensus       206 V~~~  209 (372)
                      +-.+
T Consensus       165 ~~~~  168 (177)
T COG0723         165 IGLG  168 (177)
T ss_pred             EEec
Confidence            4333

>cd08884 RHO_alpha_C_GbcA-like C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases

Probab=98.10  E-value=6.6e-06  Score=75.73  Aligned_cols=30  Identities=13%  Similarity=0.183  Sum_probs=27.5

Q ss_pred             eeeccchhhhhhccCCCCCccccccccccc
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTG  268 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g  268 (372)
                      .+.++||||+++||++|+||++++|+++..
T Consensus        15 ~~~~~~NWK~~~en~~e~yH~~~~H~~~~~   44 (205)
T cd08884          15 SYEVAANWKLVVENYRECYHCAGVHPELAR   44 (205)
T ss_pred             EEEEccCceehhHhCcccccCccccHHHHh
Confidence            567899999999999999999999999774

C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components an

>PF00848 Ring_hydroxyl_A: Ring hydroxylating alpha subunit (catalytic domain); InterPro: IPR015879 Aromatic ring hydroxylating dioxygenases are multicomponent 1,2-dioxygenase complexes that convert closed-ring structures to non-aromatic cis-diols []

Probab=98.04  E-value=4.6e-07  Score=81.19  Aligned_cols=31  Identities=19%  Similarity=0.315  Sum_probs=26.8

Q ss_pred             eeeccchhhhhhccCCCCCcccccccccccC
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGR  269 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~  269 (372)
                      .++++||||+++||++|+||++++|+++++.
T Consensus        11 ~~~~~~NWK~~~EN~~e~YH~~~~H~~~~~~   41 (209)
T PF00848_consen   11 RYEVDCNWKLAVENFLEGYHVPFLHPSTLGF   41 (209)
T ss_dssp             HHHESS-HHHHHHHHHHCTTHHHHTHHHHHH
T ss_pred             EEEecccceEHHHhCcccccccccccchhhh
Confidence            3578999999999999999999999998653

The complex has both hydroxylase and electron transfer components. The hydroxylase component is itself composed of two subunits: an alpha-subunit of about 50 kDa, and a beta-subunit of about 20 kDa. The electron transfer component is either composed of two subunits: a ferredoxin and a ferredoxin reductase or by a single bifunctional ferredoxin/reductase subunit. Sequence analysis of hydroxylase subunits of ring hydroxylating systems (including toluene, benzene and napthalene 1,2-dioxygenases) suggests they are derived from a common ancestor []. The alpha-subunit binds both a Rieske-like 2Fe-2S cluster and an iron atom: conserved Cys and His residues in the N-terminal region may provide 2Fe-2S ligands, while conserved His and Tyr residues may coordinate the iron. The beta subunit may be responsible for the substrate specificity of the dioxygenase system [].; GO: 0005506 iron ion binding, 0016708 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of two atoms of oxygen into one donor, 0051537 2 iron, 2 sulfur cluster binding, 0019439 aromatic compound catabolic process, 0055114 oxidation-reduction process; PDB: 1WQL_A 3EN1_A 3EQQ_A 2CKF_A 2BMR_A 2BMQ_A 2BMO_A 2GBW_E 2GBX_C 2XRX_A ....

>KOG1671 consensus Ubiquinol cytochrome c reductase, subunit RIP1 [Energy production and conversion]

Probab=97.94  E-value=1.1e-05  Score=73.04  Aligned_cols=75  Identities=20%  Similarity=0.356  Sum_probs=59.8

Q ss_pred             eeccCCCCCCcchhhcccceEEE--------------------------EeCCCCceEEcccCCCccccCCCCCccCCCC
Q 017387           99 LVEDLDPNLPTAFQLLGRDLVLW--------------------------FDNNSNKWVAFDDKCPHRLAPLSEGRIDENG  152 (372)
Q Consensus        99 ~~~eL~~g~~~~~~~~g~~lvl~--------------------------R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~  152 (372)
                      ..++||+|+-++++..|+++++-                          |. ++-++.++..+|.|-|+-......+ .|
T Consensus        91 ~l~~IPeGk~~~~kwrGkpvfirhrt~~ei~~~r~V~~s~lrDPq~d~~rv-k~~ewl~~igVCThLGCVp~~~AGd-~g  168 (210)
T KOG1671|consen   91 KLSDIPEGKTVAFKWRGKPVFIRHRTKAEIEGERNVPQSTLRDPQDDVDRV-KKPEWLVVIGVCTHLGCVPIANAGD-YG  168 (210)
T ss_pred             eeecCCCCCCcceeccCCceEEeeccccccccccccchhhccCchhhhhhc-cCcceEEEEeeeccccccccccccc-cC
Confidence            35677778888888888888873                          44 4556899999999999977654443 56


Q ss_pred             ceeeeeeceeecCCCcccccCcc
Q 017387          153 HLQCSYHGWSFDGCGSCTRIPQA  175 (372)
Q Consensus       153 ~i~CPyHGw~Fd~dG~c~~iP~~  175 (372)
                      ..-||+||..||..|+..+.|+.
T Consensus       169 g~~CPCHGSHYdasGRIrkGPAP  191 (210)
T KOG1671|consen  169 GYYCPCHGSHYDASGRIRKGPAP  191 (210)
T ss_pred             ceecccccccccccCceecCCCC
Confidence            89999999999999999998853

>TIGR03171 soxL2 Rieske iron-sulfur protein SoxL2

Probab=97.82  E-value=2.3e-05  Score=76.16  Aligned_cols=69  Identities=14%  Similarity=0.187  Sum_probs=48.2

Q ss_pred             CCceEEcccCCCccccCCCCC------c---------------------cCC---CCceeeeeeceeecCC--CcccccC
Q 017387          126 SNKWVAFDDKCPHRLAPLSEG------R---------------------IDE---NGHLQCSYHGWSFDGC--GSCTRIP  173 (372)
Q Consensus       126 ~G~v~A~~n~CpHRga~Ls~G------~---------------------v~~---~~~i~CPyHGw~Fd~d--G~c~~iP  173 (372)
                      ++.|.|++.+|+|.|+++..-      .                     -.+   .+.|.||+||.+||.+  |+.+..|
T Consensus       175 ~~~IVAyS~IC~H~GC~~~~~~~Ypp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CPCHgS~FD~~~gg~Vv~GP  254 (321)
T TIGR03171       175 NKSIVAYSAICQHLGCTPPYIHFYPPNYVNPSQLTAPEPDQLTAQALLAAKQANVPALIHCDCHGSTYDPYHGAAVLTGP  254 (321)
T ss_pred             CCCEEEEecccCcCCCCcchhhccCcccccccccccccccccchhhhhhhhccCCCCeEECCCCCCEECCCCCCceeCCC
Confidence            578999999999999988321      0                     000   1389999999999994  4677665


Q ss_pred             ccccCCcccccccCcccccccCCceee--cceEEEec
Q 017387          174 QAASEGPEARAIQSPRACATRFPTMVS--QGLLFVWP  208 (372)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~I~V~~  208 (372)
                      ..              ..|..++++..  .|.|++-=
T Consensus       255 A~--------------rpLp~i~l~~d~~~~~l~AvG  277 (321)
T TIGR03171       255 TV--------------RPLPAVILEWDSSTDYLYAIG  277 (321)
T ss_pred             CC--------------CCCCcceEEEeCCCCeEEEEe
Confidence            43              23667777665  46676633

This iron-sulfur protein is found in a contiguous genomic region with subunits of cytochrome b558/566 in several archaeal species, and appears to be part of a cytochrome bc1-analogous system.

>cd08880 RHO_alpha_C_ahdA1c-like C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp

Probab=97.65  E-value=9.3e-05  Score=69.19  Aligned_cols=30  Identities=27%  Similarity=0.352  Sum_probs=27.2

Q ss_pred             eeccchhhhhhccCCCCCccccccc--ccccC
Q 017387          240 RDLFYGYDTLMENVSDPSHIDFAHH--KVTGR  269 (372)
Q Consensus       240 ~~~~~nwk~~~EN~lD~~H~~~vH~--~~~g~  269 (372)
                      ..+++|||+.+||++|.||++.+|.  .++|.
T Consensus         6 ~~~~~nwk~~~~~~~~~yh~~~~h~~~~t~g~   37 (222)
T cd08880           6 QRIPGNWKLYAENVKDPYHASLLHLFFVTFGL   37 (222)
T ss_pred             eecCCCcHHHHHhccCcchHHHHhhhheeeec
Confidence            4678999999999999999999999  77765

strain P2 and related proteins. C-terminal catalytic domain of the large subunit (ahdA1c) of the AhdA3A4A2cA1c salicylate 1-hydroxylase complex from Sphingomonas sp. strain P2, and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). AhdA3A4A2cA1c is one of three known isofunctional salicylate 1-hydroxylase complexes in strain P2, involved in phenanthrene degradation, which catalyze the monooxygenation of salicylate, the metabolite of phenanthene degradation, to produce catechol. This complex prefers salicylate over other substituted salicylates; the other two salicylate 1-hydroxylases have different substrate preferences. RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative deg

>cd08879 RHO_alpha_C_AntDO-like C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases

Probab=97.04  E-value=0.00015  Score=68.41  Aligned_cols=30  Identities=20%  Similarity=0.206  Sum_probs=27.2

Q ss_pred             eeeccchhhhhhccCCCCCccccccccccc
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTG  268 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g  268 (372)
                      .+.++||||+++||+.|.||++++|.+++.
T Consensus         5 ~~~~~~nWK~~~en~~d~yH~~~~H~~~~~   34 (237)
T cd08879           5 RYRYRGNWKLQLENGTDGYHPPFVHASYVA   34 (237)
T ss_pred             EEEeeceEEEEeeecCccccCccccHHHHH
Confidence            356899999999999999999999999874

C-terminal catalytic domain of the oxygenase alpha subunit of anthranilate 1,2-dioxygenase (AntDO) and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are

>cd08882 RHO_alpha_C_MupW-like C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases

Probab=96.98  E-value=0.00027  Score=67.06  Aligned_cols=30  Identities=13%  Similarity=0.223  Sum_probs=27.1

Q ss_pred             eeeccchhhhhhccCCCCCccccccccccc
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTG  268 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g  268 (372)
                      ...++||||+++|||+|.||+.++|+++..
T Consensus         5 ~~~~~~NWK~~~en~~e~yH~~~~H~~~~~   34 (243)
T cd08882           5 TKVLPCNWKVAQEAFNESYHVPTTHPQLLP   34 (243)
T ss_pred             EEEecCCCeeeHHhcCCcccCcccchhHHH
Confidence            457899999999999999999999999753

C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas fluorescens MupW and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-l

>cd08881 RHO_alpha_C_NDO-like C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases

Probab=96.94  E-value=0.00021  Score=66.13  Aligned_cols=30  Identities=17%  Similarity=0.148  Sum_probs=27.2

Q ss_pred             eeeccchhhhhhccCC-CCCccccccccccc
Q 017387          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKVTG  268 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~l-D~~H~~~vH~~~~g  268 (372)
                      .+.++||||+++|||+ |.||++++|.+++.
T Consensus        10 ~~~~~~NWK~~~en~~~d~yH~~~~H~~~~~   40 (206)
T cd08881          10 KWVIKANWKLAAENFAGDGYHTGTTHASALE   40 (206)
T ss_pred             EEEecCcceehhhccccccccchhhhHHHHH
Confidence            4578999999999999 99999999999874

C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). This domain binds non-heme Fe(II). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents form the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are th

>PF11723 Aromatic_hydrox: Homotrimeric ring hydroxylase; InterPro: IPR021028 This entry represents the catalytic domain from a family of homotrimeric enzymes that hydroxylate aromatic compounds, including 2-oxo-1,2-dihydroquinoline 8-monooxygenase from Pseudomonas putida and carbazole 1,9a-dioxygenase from Janthinobacterium

Probab=96.78  E-value=0.00093  Score=62.44  Aligned_cols=43  Identities=28%  Similarity=0.461  Sum_probs=31.1

Q ss_pred             CCCCCCCCCcceEEEeeeccchhhhhhccCCCCCcccccccccc
Q 017387          224 LPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVT  267 (372)
Q Consensus       224 ~p~~~~~~~~~~~~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~  267 (372)
                      +|+.|.+.+.........+.+||...+||.+|+.|+ |+|..+.
T Consensus        14 lP~~fld~~~~~~g~~~~~~~NWR~a~ENGfD~~H~-fiHk~s~   56 (240)
T PF11723_consen   14 LPPGFLDDDIVIFGMHREINANWRLAAENGFDPGHI-FIHKDSI   56 (240)
T ss_dssp             S-TTTTSTTEEEEEEEEEESS-HHHHHHHHT-TTGG-GGGTT-H
T ss_pred             CCccccCCcceEEeeeeeccccchhhhhhCcCcceE-EEecCcc
Confidence            444555666665566678999999999999999998 9999753

The catalytic domain is found C-termnial to the iron-sulphur-binding Rieske domain and is composed of antiparallel beta sheets and alpha helices []. It is part of a much larger superfamily of lipid binding domains which form a common fold that works as a versatile scaffold for binding bulky ligands [].; PDB: 1Z03_D 1Z01_E 1Z02_F 2DE6_A 2DE7_C 1WW9_A 2DE5_C 3GKQ_F 3GCF_L.

>KOG1336 consensus Monodehydroascorbate/ferredoxin reductase [General function prediction only]

Probab=95.71  E-value=0.0049  Score=63.12  Aligned_cols=39  Identities=33%  Similarity=0.665  Sum_probs=33.8

Q ss_pred             ccccCCCCCccCCCCceeeeeeceeecC-CCcccccCcccc
Q 017387          138 HRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRIPQAAS  177 (372)
Q Consensus       138 HRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~iP~~~~  177 (372)
                      |+|+||..|-. ..++++||+||.+|+. +|..-+-|....
T Consensus         1 hygapl~~g~~-s~g~v~cpwhgacfn~~~gdiedfP~~~s   40 (478)
T KOG1336|consen    1 HYGAPLAKGVL-SRGRVRCPWHGACFNLSTGDIEDFPGLDS   40 (478)
T ss_pred             CCCcchhhccc-cCCcccccccceeecCCcCchhhCcCccc
Confidence            99999999965 5899999999999999 798888776543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	372
3gke_A	349	Crystal Structure Of Dicamba Monooxygenase Length =		1e-15
2zyl_A	386	Crystal Structure Of 3-Ketosteroid-9-Alpha-Hydroxyl		1e-11
1ww9_A	392	Crystal Structure Of The Terminal Oxygenase Compone		6e-09
3gkq_A	389	Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase Fr		8e-08
3gcf_A	394	Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase Fr		2e-07
1z01_A	446	2-Oxoquinoline 8-Monooxygenase Component: Active Si		2e-05

>pdb|3GKE|A Chain A, Crystal Structure Of Dicamba Monooxygenase Length = 349

Iteration: 1
 Score = 80.5 bits (197), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 55/175 (31%), Positives = 78/175 (44%), Gaps = 17/175 (9%)
Query: 91  RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
           R+ WY  +L E+L    P    +L   L L +        A  D CPHR APLS+G I  
Sbjct: 6   RNAWYVAALPEELSEK-PLGRTILDTPLAL-YRQPDGVVAALLDICPHRFAPLSDG-ILV 62
Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
           NGHLQC YHG  FDG G C   P      P +  ++S       FP +    L+++WP +
Sbjct: 63  NGHLQCPYHGLEFDGGGQCVHNPHGNGARPASLNVRS-------FPVVERDALIWIWPGD 115
Query: 211 YGQERANATKPPMLPDAFDK--PEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAH 263
                     P  +PD   +  P + +V     +   Y  L++N+ D  H  + H
Sbjct: 116 -----PALADPGAIPDFGCRVDPAYRTVGGYGHVDCNYKLLVDNLMDLGHAQYVH 165

>pdb|2ZYL|A Chain A, Crystal Structure Of 3-Ketosteroid-9-Alpha-Hydroxylase (Ksha) From M. Tuberculosis Length = 386

Iteration: 1
 Score = 67.8 bits (164), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/173 (28%), Positives = 81/173 (46%), Gaps = 15/173 (8%)
Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           W+ + + +D     P   +  G  LV++ D++ +  V  D  C H    LSEG + +   
Sbjct: 26  WHCLGVAKDYLEGKPHGVEAFGTKLVVFADSHGDLKV-LDGYCRHMGGDLSEGTV-KGDE 83
Query: 154 LQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATR-FPTMVSQGLLFVWPDEYG 212
           + C +H W + G G C  +P A          ++PR   TR + T V  GLLFVW D  G
Sbjct: 84  VACPFHDWRWGGDGRCKLVPYAR---------RTPRMARTRSWTTDVRSGLLFVWHDHEG 134
Query: 213 QERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDT--LMENVSDPSHIDFAH 263
                A + P +P+A    E++     R L  G +   +++NV+D +H  + H
Sbjct: 135 NPPDPAVRIPEIPEAA-SDEWTDWRWNRILIEGSNCRDIIDNVTDMAHFFYIH 186

>pdb|1WW9|A Chain A, Crystal Structure Of The Terminal Oxygenase Component Of Carbazole 1, 9a-dioxygenase, A Non-heme Iron Oxygenase System Catalyzing The Novel Angular Dioxygenation For Carbazole And Dioxin Length = 392

Iteration: 1
 Score = 58.5 bits (140), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 51/209 (24%), Positives = 85/209 (40%), Gaps = 29/209 (13%)
Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           D+K  +R+HWYPV   ++++   P   +LLG +L++  +    K     D+C HR   LS
Sbjct: 20  DAKLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLV--NRIDGKLYCLKDRCLHRGVQLS 77
Query: 145 -EGRIDENGHLQCSYHGWSF---DG--CGSCTRIPQAASEGPEARAIQSPRACATRFPTM 198
            +        + C YH W++   DG  C   T  P +A  G         R     +P  
Sbjct: 78  VKVECKTKSTITCWYHAWTYRWEDGVLCDILTN-PTSAQIG---------RQKLKTYPVQ 127
Query: 199 VSQGLLFVWPDEYGQERANATKPPMLPDA---FDKPEFSSVTIQRDLFYGYDTLMENVSD 255
            ++G +F++         +   PP+  D    F   +   +   + +   +   +EN  D
Sbjct: 128 EAKGCVFIY-------LGDGDPPPLARDTPPNFLDDDMEILGKNQIIKSNWRLAVENGFD 180
Query: 256 PSHIDFAHHKVTGRRDRAKPLPFKLESSG 284
           PSHI + H      +D    LP      G
Sbjct: 181 PSHI-YIHKDSILVKDNDLALPLGFAPGG 208

>pdb|3GKQ|A Chain A, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From Novosphingobium Sp. Ka1 Length = 389

Iteration: 1
 Score = 54.7 bits (130), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 53/200 (26%), Positives = 85/200 (42%), Gaps = 21/200 (10%)
Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWV-AFDDKCPHRLAPL 143
           D+K  +R+HWYPV L  ++    P   QLLG  ++L   N  +  V A  D+C HR   L
Sbjct: 23  DAKLGFRNHWYPVRLSAEVAEASPVPVQLLGEKVLL---NRVDGVVHAIADRCLHRGVTL 79
Query: 144 SEGRID--ENGHLQCSYHGWSFD-GCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS 200
           S+ +++      + C YHGW++    G    I    +      ++Q  R     +P    
Sbjct: 80  SD-KVECYSKATISCWYHGWTYRWDNGKLVDILTNPT------SVQIGRHALKTYPVREE 132
Query: 201 QGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHID 260
           +GL+F++  +          PP   DA    + +     R +   +   +EN  D  H+ 
Sbjct: 133 KGLVFLFVGDQEPHDLAEDVPPGFLDA----DLAVHGQHRVVDANWRMGVENGFDAGHV- 187
Query: 261 FAHHK--VTGRRDRAKPLPF 278
           F H    +    D A PL F
Sbjct: 188 FIHKSSILLDGNDIALPLGF 207

>pdb|3GCF|A Chain A, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From Nocardioides Aromaticivorans Ic177 Length = 394

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 51/196 (26%), Positives = 83/196 (42%), Gaps = 28/196 (14%)
Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           ++   + +HW+P +   +L      A  +LG  ++L       K +A  D C HR  P S
Sbjct: 26  EATLGFDNHWHPAAFDHELAEGEFVAVTMLGEKVLLTRAKGEVKAIA--DGCAHRGVPFS 83
Query: 145 -EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSP------RACATRFPT 197
            E    + G + C YHGW++D             +G     + SP      +     +P 
Sbjct: 84  KEPLCFKAGTVSCWYHGWTYD-----------LDDGRLVDVLTSPGSPVIGKIGIKVYPV 132
Query: 198 MVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPS 257
            V+QG++FV+    G E  +A     LP  F   +   + I+R +   +   +EN  D +
Sbjct: 133 QVAQGVVFVF---IGDEEPHALSED-LPPGFLDEDTHLLGIRRTVQSNWRLGVENGFDTT 188
Query: 258 HIDFAHHK---VTGRR 270
           HI F H     V+G R
Sbjct: 189 HI-FMHRNSPWVSGNR 203

>pdb|1Z01|A Chain A, 2-Oxoquinoline 8-Monooxygenase Component: Active Site Modulation By Rieske-[2fe-2s] Center OxidationREDUCTION Length = 446

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 44/154 (28%), Positives = 66/154 (42%), Gaps = 13/154 (8%)
Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           D+ + + +HWYP     +L+ +     Q+ G  +VL   N   K  A  D+C HR   LS
Sbjct: 35  DAAWGFINHWYPALFTHELEEDQVQGIQICGVPIVLRRVN--GKVFALKDQCLHRGVRLS 92
Query: 145 EG-RIDENGHLQCSYHGWSFD-GCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQG 202
           E         + C YHG++FD   G    I       PE + I +     T +P     G
Sbjct: 93  EKPTCFTKSTISCWYHGFTFDLETGKLVTI----VANPEDKLIGT--TGVTTYPVHEVNG 146
Query: 203 LLFVWPDEYGQERANATKPPMLPDA-FDKPEFSS 235
           ++FV+  E   +  +   PP+  D  F  PE S 
Sbjct: 147 MIFVFVRE--DDFPDEDVPPLAHDLPFRFPERSE 178

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	372
3gke_A	349	DDMC; rieske cluster, non-heme mononuclear iron, o	5e-68
2zyl_A	386	Possible oxidoreductase; KSHA, cholesterol, rieske	3e-62
2de6_A	392	Terminal oxygenase component of carbazole; electro	9e-62
3gkq_A	389	Terminal oxygenase component of carbazole 1,9A- di	1e-59
3gcf_A	394	Terminal oxygenase component of carbazole 1,9A- di	2e-57
1z01_A	446	2-OXO-1,2-dihydroquinoline 8-monooxygenase, oxygen	2e-55
3d89_A	157	Rieske domain-containing protein; CAsp target, rie	1e-17
1fqt_A	112	Rieske-type ferredoxin of biphenyl dioxygenase; 2F	1e-15
3dqy_A	106	Toluene 1,2-dioxygenase system ferredoxin subunit;	1e-15
3gce_A	121	Ferredoxin component of carbazole 1,9A- dioxygenas	2e-15
2i7f_A	108	Ferredoxin component of dioxygenase; rieske ferred	2e-15
1vm9_A	111	Toluene-4-monooxygenase system protein C; structur	3e-15
2de6_D	115	Ferredoxin component of carbazole; electron transf	1e-14
2qpz_A	103	Naphthalene 1,2-dioxygenase system ferredoxin subu	2e-14
2jo6_A	113	Nitrite reductase [NAD(P)H] small subunit; all bet	4e-12
2jza_A	130	Nitrite reductase [NAD(P)H] small subunit; ISP dom	4e-12
3c0d_A	119	Putative nitrite reductase NADPH (small subunit) o	4e-10
1uli_A	460	Biphenyl dioxygenase large subunit; alpha3 BETA3 h	4e-06
2gbw_A	454	Biphenyl 2,3-dioxygenase alpha subunit; rieske oxy	9e-06
3gzx_A	457	Biphenyl dioxygenase subunit alpha; rieskie, non-h	2e-05
2bmo_A	447	Oxygenase-alpha NBDO; nitrobenzene dioxygenase, ni	2e-05
2b1x_A	470	Naphthalene dioxygenase large subunit; rieske non-	3e-05
3vca_A	412	Ring-hydroxylating dioxygenase; rieske-type, monon	9e-05
3n0q_A	409	Putative aromatic-ring hydroxylating dioxygenase;	1e-04
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	7e-04

>3gke_A DDMC; rieske cluster, non-heme mononuclear iron, oxygenase, oxidoreductase; 1.75A {Stenotrophomonas maltophilia} PDB: 3gb4_A 3gl0_A* 3gl2_A* 3gob_A* 3gte_A 3gts_A* Length = 349

 Score =  217 bits (554), Expect = 5e-68
 Identities = 62/281 (22%), Positives = 91/281 (32%), Gaps = 34/281 (12%)

Query: 91  RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
           R+ WY  +L E+L    P    +L   L L+         A  D CPHR APLS+G +  
Sbjct: 6   RNAWYVAALPEELSEK-PLGRTILDTPLALYRQP-DGVVAALLDICPHRFAPLSDGIL-V 62

Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
           NGHLQC YHG  FDG G C   P      P              FP +    L+++WP +
Sbjct: 63  NGHLQCPYHGLEFDGGGQCVHNPHGNGARP-------ASLNVRSFPVVERDALIWIWPGD 115

Query: 211 YGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRR 270
                A+    P        P + +V     +   Y  L++N+ D  H  + H       
Sbjct: 116 --PALADPGAIPDFGC-RVDPAYRTVGGYGHVDCNYKLLVDNLMDLGHAQYVHRANAQTD 172

Query: 271 DRAKPLPFKLE----------------SSGHWGFAGANDGNP---RISAKFVAPCYYMNK 311
              +    ++                  S            P       ++      +N 
Sbjct: 173 AFDRL-EREVIVGDGEIQALMKIPGGTPSVLMAKFLRGANTPVDAWNDIRWNKVSAMLNF 231

Query: 312 IEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNF 352
           I +        +Q           P           S+RNF
Sbjct: 232 IAV-APEGTPKEQSIHSRGTHILTPETEASCHYFFGSSRNF 271

>2zyl_A Possible oxidoreductase; KSHA, cholesterol, rieske; 2.30A {Mycobacterium tuberculosis} Length = 386

 Score =  203 bits (518), Expect = 3e-62
 Identities = 54/294 (18%), Positives = 99/294 (33%), Gaps = 25/294 (8%)

Query: 82  ESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA 141
           ++      +   W+ + + +D     P   +  G  LV++ D+        D  C H   
Sbjct: 14  DAGALPTRYARGWHCLGVAKDYLEGKPHGVEAFGTKLVVFADS-HGDLKVLDGYCRHMGG 72

Query: 142 PLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ 201
            LSEG + +   + C +H W + G G C  +P A              A    + T V  
Sbjct: 73  DLSEGTV-KGDEVACPFHDWRWGGDGRCKLVPYARRT--------PRMARTRSWTTDVRS 123

Query: 202 GLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYD--TLMENVSDPSHI 259
           GLLFVW D  G     A + P +P+A    E++     R L  G +   +++NV+D +H 
Sbjct: 124 GLLFVWHDHEGNPPDPAVRIPEIPEAAS-DEWTDWRWNRILIEGSNCRDIIDNVTDMAHF 182

Query: 260 DFAHHKVTGRRDRAKPLPFKLESSGHWG-------FAGANDGNPRISAKFVAPCYYMNKI 312
            + H  +              +   + G            + +    A +  P + +N +
Sbjct: 183 FYIHFGLPTYFKNVFEGHIASQYLHNVGRPDVDDLGTSYGEAHLDSEASYFGPSFMINWL 242

Query: 313 EIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVR 366
                    G+ K    + + + P+                +           R
Sbjct: 243 HNR-----YGNYKSESILINCHYPVTQNSFVLQWGVIVEKPKGMSEEMTDKLSR 291

>2de6_A Terminal oxygenase component of carbazole; electron transfer complex, rieske non-heme iron oxygenase system, terminal oxygenase; 1.80A {Janthinobacterium} SCOP: b.33.1.2 d.129.3.3 PDB: 1ww9_A 2de5_A 2de7_A* Length = 392

 Score =  202 bits (515), Expect = 9e-62
 Identities = 44/206 (21%), Positives = 75/206 (36%), Gaps = 15/206 (7%)

Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           D+K  +R+HWYPV   ++++   P   +LLG +L++       K     D+C HR   LS
Sbjct: 20  DAKLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNRI--DGKLYCLKDRCLHRGVQLS 77

Query: 145 EGR-IDENGHLQCSYHGWSFDG-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQG 202
                     + C YH W++    G    I    +           R     +P   ++G
Sbjct: 78  VKVECKTKSTITCWYHAWTYRWEDGVLCDILTNPTSAQ------IGRQKLKTYPVQEAKG 131

Query: 203 LLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFA 262
            +F++      +          P  F   +   +   + +   +   +EN  DPSHI + 
Sbjct: 132 CVFIYLG----DGDPPPLARDTPPNFLDDDMEILGKNQIIKSNWRLAVENGFDPSHI-YI 186

Query: 263 HHKVTGRRDRAKPLPFKLESSGHWGF 288
           H      +D    LP      G    
Sbjct: 187 HKDSILVKDNDLALPLGFAPGGDRKQ 212

>3gkq_A Terminal oxygenase component of carbazole 1,9A- dioxygenase; rieske nonheme iron oxygenase, electron transfer, putidaredoxin-type ferredoxin; 2.10A {Sphingomonas} Length = 389

 Score =  196 bits (500), Expect = 1e-59
 Identities = 60/297 (20%), Positives = 96/297 (32%), Gaps = 31/297 (10%)

Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           D+K  +R+HWYPV L  ++    P   QLLG  ++L   +      A  D+C HR   LS
Sbjct: 23  DAKLGFRNHWYPVRLSAEVAEASPVPVQLLGEKVLLNRVD--GVVHAIADRCLHRGVTLS 80

Query: 145 EGR-IDENGHLQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQG 202
           +         + C YHGW++    G    I    +           R     +P    +G
Sbjct: 81  DKVECYSKATISCWYHGWTYRWDNGKLVDILTNPTSVQI------GRHALKTYPVREEKG 134

Query: 203 LLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFA 262
           L+F++      ++        +P  F   + +     R +   +   +EN  D  H+ F 
Sbjct: 135 LVFLFVG----DQEPHDLAEDVPPGFLDADLAVHGQHRVVDANWRMGVENGFDAGHV-FI 189

Query: 263 HHKVTGRR--DRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPC---YYMNKIEIDTK 317
           H         D A PL F          +   +G P+     +       +   IE    
Sbjct: 190 HKSSILLDGNDIALPLGFAPGDPEQLTRSVTGEGAPKGVFDLLGEHSVPIFEATIEGQPA 249

Query: 318 LPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPA--------WWQVR 366
           +      K +    S      PG  +          QF    P             R
Sbjct: 250 IQGHMGSKMVAISISV---WLPGVLKVDPFPDPTLTQFEWYVPIDEGHHLYLQMLGR 303

>3gcf_A Terminal oxygenase component of carbazole 1,9A- dioxygenase; rieske oxygenase, 2Fe-2S, electron transfer, oxidoreductase; 2.30A {Nocardioides aromaticivorans} Length = 394

 Score =  191 bits (485), Expect = 2e-57
 Identities = 53/282 (18%), Positives = 98/282 (34%), Gaps = 21/282 (7%)

Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           ++   + +HW+P +   +L      A  +LG  ++L       +  A  D C HR  P S
Sbjct: 26  EATLGFDNHWHPAAFDHELAEGEFVAVTMLGEKVLLTRAK--GEVKAIADGCAHRGVPFS 83

Query: 145 EGRI-DENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGL 203
           +  +  + G + C YHGW++D           +   P        +     +P  V+QG+
Sbjct: 84  KEPLCFKAGTVSCWYHGWTYDLDDGRLVDVLTSPGSPV-----IGKIGIKVYPVQVAQGV 138

Query: 204 LFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAH 263
           +FV+      +         LP  F   +   + I+R +   +   +EN  D +HI F H
Sbjct: 139 VFVFIG----DEEPHALSEDLPPGFLDEDTHLLGIRRTVQSNWRLGVENGFDTTHI-FMH 193

Query: 264 HKVTGRRDRAKPLPFKLESSGHWGFAGANDGNP-----RISAKFVAPCYYMNKIEIDTKL 318
                        P+    +        ++  P     R+S  ++         E     
Sbjct: 194 RNSPWVSGNRLAFPYGFVPADRDAMQVYDENWPKGVLDRLSENYMPVFEATLDGETVLSA 253

Query: 319 PVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGP 360
            + G++K +    S      PG  +          Q+    P
Sbjct: 254 ELTGEEKKVAAQVSV---WLPGVLKVDPFPDPTLIQYEFYVP 292

>1z01_A 2-OXO-1,2-dihydroquinoline 8-monooxygenase, oxygenase component; rieske center, oxygen binding/activation, substrate bound complex; 1.80A {Pseudomonas putida} SCOP: b.33.1.2 d.129.3.3 PDB: 1z02_A 1z03_A* Length = 446

 Score =  186 bits (474), Expect = 2e-55
 Identities = 60/313 (19%), Positives = 102/313 (32%), Gaps = 47/313 (15%)

Query: 47  RVAAPPSDPAASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPN 106
           +V    SD  A++ +T  + +                 D+ + + +HWYP     +L+ +
Sbjct: 11  QVKTGISDARANNAKTQSQYQPYK--------------DAAWGFINHWYPALFTHELEED 56

Query: 107 LPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID-ENGHLQCSYHGWSFDG 165
                Q+ G  +VL     + K  A  D+C HR   LSE         + C YHG++FD 
Sbjct: 57  QVQGIQICGVPIVLR--RVNGKVFALKDQCLHRGVRLSEKPTCFTKSTISCWYHGFTFDL 114

Query: 166 C-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPML 224
             G    I     +              T +P     G++FV+  E   +  +   PP+ 
Sbjct: 115 ETGKLVTIVANPEDKL------IGTTGVTTYPVHEVNGMIFVFVRE--DDFPDEDVPPLA 166

Query: 225 PDA----------FDKPEFSSV-----------TIQRDLFYGYDTLMENVSDPSHIDFAH 263
            D           F  P + S             + R  F  +    EN  D +HI    
Sbjct: 167 HDLPFRFPERSEQFPHPLWPSSPSVLDDNAVVHGMHRTGFGNWRIACENGFDNAHILVHK 226

Query: 264 HKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGD 323
                           L +S        +D  P+   +++    +   +E       V  
Sbjct: 227 DNTIVHAMDWVLPLGLLPTSDDCIAVVEDDDGPKGMMQWLFTDKWAPVLENQELGLKVEG 286

Query: 324 QKWIIWICSFNVP 336
            K   +  S  +P
Sbjct: 287 LKGRHYRTSVVLP 299

>3d89_A Rieske domain-containing protein; CAsp target, rieske ferredoxin, [2Fe-2S] cluster, protein ST initiative, PSI; 2.07A {Mus musculus} Length = 157

 Score = 78.5 bits (193), Expect = 1e-17
 Identities = 20/126 (15%), Positives = 41/126 (32%), Gaps = 6/126 (4%)

Query: 93  HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE-- 150
               V   ED+  +      +  R++V++   +  ++ A D +C H   PL  G I++  
Sbjct: 16  TSVCVGREEDIRKSERMTAVVHDREVVIF--YHKGEYHAMDIRCYHSGGPLHLGEIEDFN 73

Query: 151 -NGHLQCSYHGWSFD-GCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP 208
               + C +H +      G          +        S           V  G ++V  
Sbjct: 74  GQSCIVCPWHKYKITLATGEGLYQSINPKDPSAKPKWCSKGVKQRIHTVKVDNGNIYVTL 133

Query: 209 DEYGQE 214
            +   +
Sbjct: 134 SKEPFK 139

>1fqt_A Rieske-type ferredoxin of biphenyl dioxygenase; 2Fe-2S cluster, beta sandwich, oxido; 1.60A {Burkholderia xenovorans} SCOP: b.33.1.1 PDB: 2e4q_A 2e4p_A 2yvj_B* Length = 112

 Score = 71.5 bits (176), Expect = 1e-15
 Identities = 22/118 (18%), Positives = 38/118 (32%), Gaps = 17/118 (14%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           +  V    D+        +  G  + ++  N   +  A  D+C H    LS+G   E   
Sbjct: 6   FTRVCDRRDVPEGEALKVESGGTSVAIF--NVDGELFATQDRCTHGDWSLSDGGYLEGDV 63

Query: 154 LQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
           ++CS H   F    G            P   A++        FP  +    + V  + 
Sbjct: 64  VECSLHMGKFCVRTG-------KVKSPPPCEALKI-------FPIRIEDNDVLVDFEA 107

>3dqy_A Toluene 1,2-dioxygenase system ferredoxin subunit; rieske, iron-sulfur cluster, 2Fe-2S, aromatic hydrocarbons catabolism, electron transport; 1.20A {Pseudomonas putida} Length = 106

 Score = 71.1 bits (175), Expect = 1e-15
 Identities = 23/118 (19%), Positives = 40/118 (33%), Gaps = 18/118 (15%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           W  +    DL P     ++     +++   N   ++ A  D C H    LS+G + +   
Sbjct: 2   WTYILRQGDLPPGEMQRYEGGPEPVMVC--NVDGEFFAVQDTCTHGDWALSDGYL-DGDI 58

Query: 154 LQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
           ++C+ H   F    G            P  + I+        FP  V    + V  D 
Sbjct: 59  VECTLHFGKFCVRTGKVKA-------LPACKPIKV-------FPIKVEGDEVHVDLDN 102

>3gce_A Ferredoxin component of carbazole 1,9A- dioxygenase; rieske ferredoxin, 2Fe-2S, electron transfer, oxidoreductase; 2.00A {Nocardioides aromaticivorans} Length = 121

 Score = 71.2 bits (175), Expect = 2e-15
 Identities = 26/119 (21%), Positives = 47/119 (39%), Gaps = 18/119 (15%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID-ENG 152
              V+ ++ L P +PTAF + G ++++    + +   A  + C H  A L  G    E+ 
Sbjct: 11  PVRVATLDQLKPGVPTAFDVDGDEVMVV--RDGDSVYAISNLCSHAEAYLDMGVFHAESL 68

Query: 153 HLQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
            ++C  H   FD   G+ T         P    ++        +  +V    + V P E
Sbjct: 69  EIECPLHVGRFDVRTGAPTA-------LPCVLPVR-------AYDVVVDGTEILVAPKE 113

>2i7f_A Ferredoxin component of dioxygenase; rieske ferredoxin, oxidoreductase; HET: CIT; 1.90A {Sphingobium yanoikuyae} Length = 108

 Score = 70.8 bits (174), Expect = 2e-15
 Identities = 21/119 (17%), Positives = 40/119 (33%), Gaps = 17/119 (14%)

Query: 93  HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENG 152
           +   +  V  +    P A        +  + N   +    D+ C H  A L++G  D   
Sbjct: 3   NKLRLCQVASVKDGEPVAVYQEKMPALAVY-NVDGEVFVTDNLCTHGNAMLTDGYQD-GT 60

Query: 153 HLQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
            ++C +HG SFD   G+    P               +     +P  +  G + +   +
Sbjct: 61  IIECPFHGGSFDIATGAAKAFP--------------CQIPIKTYPVTIEDGWVCIDQPK 105

>1vm9_A Toluene-4-monooxygenase system protein C; structural genomics, CESG, protein structure initiative, PSI, ferredoxin, FES, [2Fe-2S] cluster; 1.48A {Pseudomonas mendocina} SCOP: b.33.1.1 PDB: 2q3w_A 1sjg_A Length = 111

 Score = 70.0 bits (172), Expect = 3e-15
 Identities = 24/126 (19%), Positives = 45/126 (35%), Gaps = 17/126 (13%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           +  +  ++D+       F+      VL  ++  +   A+   CPH+   LSEG  +  G 
Sbjct: 2   FEKICSLDDIWVGEMETFETSDGTEVLIVNSEEHGVKAYQAMCPHQEILLSEGSYE-GGV 60

Query: 154 LQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212
           + C  H W+F+   G            P         A    +P  V    ++V      
Sbjct: 61  ITCRAHLWTFNDGTGHGI--------NP-------DDAALAEYPVEVKGDDIYVSTKGIL 105

Query: 213 QERANA 218
             +A++
Sbjct: 106 PNKAHS 111

>2de6_D Ferredoxin component of carbazole; electron transfer complex, rieske non-heme iron oxygenase system, terminal oxygenase; 1.80A {Pseudomonas resinovorans} PDB: 2de5_D 1vck_A 2de7_D* Length = 115

 Score = 68.5 bits (168), Expect = 1e-14
 Identities = 25/126 (19%), Positives = 47/126 (37%), Gaps = 17/126 (13%)

Query: 92  DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDEN 151
             W  V    D+ P        +G   +  +    +++ A +D C H +A LSEG + + 
Sbjct: 3   QIWLKVCAASDMQPGTIRRVNRVGAAPLAVY-RVGDQFYATEDTCTHGIASLSEGTL-DG 60

Query: 152 GHLQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
             ++C +HG +F+ C G     P                     F   V +G ++V  ++
Sbjct: 61  DVIECPFHGGAFNVCTGMPASSP--------------CTVPLGVFEVEVKEGEVYVAGEK 106

Query: 211 YGQERA 216
             +   
Sbjct: 107 KLEHHH 112

>2qpz_A Naphthalene 1,2-dioxygenase system ferredoxin subunit; rieske ferredoxin, 2Fe-2S, aromatic hydrocarbons catabolism, electron transport, iron; 1.85A {Pseudomonas putida} Length = 103

 Score = 67.6 bits (166), Expect = 2e-14
 Identities = 22/114 (19%), Positives = 41/114 (35%), Gaps = 18/114 (15%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           W     + D+         + G++L L+      +  A D+ C H  A +S+G + E   
Sbjct: 4   WIEAVALSDILEGDVLGVTVEGKELALY--EVEGEIYATDNLCTHGSARMSDGYL-EGRE 60

Query: 154 LQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFV 206
           ++C  H   FD C G            P  + I+        +P  +    + +
Sbjct: 61  IECPLHQGRFDVCTGKALC-------APVTQNIK-------TYPVKIENLRVMI 100

>2jo6_A Nitrite reductase [NAD(P)H] small subunit; all beta, ISP domain, rieske iron-sulfur protein, 3-layer sandwich, structural genomics, PSI-2; NMR {Escherichia coli} SCOP: b.33.1.3 Length = 113

 Score = 61.7 bits (150), Expect = 4e-12
 Identities = 17/120 (14%), Positives = 38/120 (31%), Gaps = 20/120 (16%)

Query: 93  HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA-PLSEGRIDEN 151
            W  +  ++D+ P       L    + ++   +S++  A  +  P   +  LS G I E+
Sbjct: 6   QWKDICKIDDILPETGVCALLGDEQVAIFRPYHSDQVFAISNIDPFFESSVLSRGLIAEH 65

Query: 152 GH---LQCSYHGWSFD-GCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW 207
                +        F    G C               ++  +     +   V  G++ + 
Sbjct: 66  QGELWVASPLKKQRFRLSDGLC---------------MEDEQFSVKHYEARVKDGVVQLR 110

>2jza_A Nitrite reductase [NAD(P)H] small subunit; ISP domain, rieske iron-sulfur protein, 3-layer beta- sandwich; NMR {Pectobacterium atrosepticum SCRI1043} SCOP: b.33.1.3 Length = 130

 Score = 62.1 bits (151), Expect = 4e-12
 Identities = 17/140 (12%), Positives = 37/140 (26%), Gaps = 23/140 (16%)

Query: 93  HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI---- 148
            W  V  ++D+ P       +  + + ++   N  +  A  +  P   A +    I    
Sbjct: 3   QWTTVCKLDDILPGTGVCALVEQQQIAVFRPRNDEQVYAISNIDPFAQASVLSRGIVAEH 62

Query: 149 DENGHLQCSYHGWSFD-GCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW 207
            ++  +        F    G C               ++        + T V+ G + + 
Sbjct: 63  QDDLWVASPLKKQHFRLYDGFC---------------LEDGAYSVAAYDTQVTNGNVQIS 107

Query: 208 PDEYGQERANATKPPMLPDA 227
                           LP  
Sbjct: 108 I---ADSDVAVDNSQPLPLE 124

>3c0d_A Putative nitrite reductase NADPH (small subunit) oxidoreductase protein; NESG, VPR162, Q87HB1, XRAY, structure; 2.40A {Vibrio parahaemolyticus rimd 2210633} SCOP: b.33.1.3 Length = 119

 Score = 55.9 bits (135), Expect = 4e-10
 Identities = 17/122 (13%), Positives = 33/122 (27%), Gaps = 21/122 (17%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
              +  ++DL P +     + G  + L F    +   A  D  P   A +    I  + +
Sbjct: 6   KVKLCQLDDLMPFIGATVLIEGERVAL-FYIPDSGVYAVQDWDPIGKAYVMSRGIVGDIN 64

Query: 154 ----LQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP 208
               +    +   F    G C               ++    C   +   V    +    
Sbjct: 65  GEMCVASPLYKQHFSLKSGQC---------------LEDEAHCLKTWRVTVDDNQVCYLA 109

Query: 209 DE 210
            E
Sbjct: 110 KE 111

>1uli_A Biphenyl dioxygenase large subunit; alpha3 BETA3 hetero hexamer, oxidoreductase; 2.20A {Rhodococcus SP} SCOP: b.33.1.2 d.129.3.3 PDB: 1ulj_A* 3en1_A* 3eqq_A Length = 460

 Score = 47.2 bits (112), Expect = 4e-06
 Identities = 24/143 (16%), Positives = 39/143 (27%), Gaps = 15/143 (10%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQS--- 187
            F ++C HR   +            CSYHGW++D  G+   +P      P  R       
Sbjct: 93  VFLNQCRHRGMRICRADGGNAKSFTCSYHGWAYDTGGNLVSVPFEEQAFPGLRKEDWGPL 152

Query: 188 PRACATRFPTMVSQGLLFVWPDEYGQ--ERANATKPPMLPDAFDKPEFSSVTIQRDLFYG 245
                T       +GL+F   D      +         +    D+ E  +  I     + 
Sbjct: 153 QARVETY------KGLIFANWDADAPDLDTYLGEAKFYMDHMLDRTEAGTEAIPGIQKWV 206

Query: 246 YDT----LMENVSDPSHIDFAHH 264
                    E      +      
Sbjct: 207 IPCNWKFAAEQFCSDMYHAGTTS 229

>2gbw_A Biphenyl 2,3-dioxygenase alpha subunit; rieske oxygenase, oxidoreductase, non heme iron; 1.70A {Sphingobium yanoikuyae} PDB: 2gbx_A* 2ckf_A Length = 454

 Score = 46.4 bits (110), Expect = 9e-06
 Identities = 24/140 (17%), Positives = 42/140 (30%), Gaps = 9/140 (6%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRA 190
           AF + C HR   +            C+YHGW F   GS   +P  +       ++   + 
Sbjct: 75  AFINSCSHRGNQICHADSGNAKAFVCNYHGWVFGQDGSLVDVPLESRCYHN--SLDKQKL 132

Query: 191 CATRFPTMVSQGLLFVWPDEYGQERANATKP--PMLPDAFDKPEFSSVTIQRDLFYGYDT 248
            A        +G +F   D       +        L   ++        +   +      
Sbjct: 133 AAKSVRVETYKGFIFGCHDPEAPSLEDYLGEFRYYLDTIWEGAGGGMELLGPPMKSLLQC 192

Query: 249 ----LMEN-VSDPSHIDFAH 263
                 EN + D  H+ + H
Sbjct: 193 NWKVPAENFIGDGYHVGWTH 212

>3gzx_A Biphenyl dioxygenase subunit alpha; rieskie, non-heme iron, 2Fe-2S, aromatic hydroc catabolism, iron, iron-sulfur, metal-binding, NAD; HET: BNL MES; 1.58A {Comamonas testosteroni} PDB: 3gzy_A* 1wql_A 2xso_A 2xsh_A 2xrx_A* 2xr8_A* 2yfi_A 2yfj_A* Length = 457

 Score = 45.3 bits (107), Expect = 2e-05
 Identities = 26/176 (14%), Positives = 50/176 (28%), Gaps = 14/176 (7%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRA 190
            F ++C HR   +            C+YHGW++D  G+   +P       + +       
Sbjct: 95  VFLNQCRHRGMRIVRSDGGNAKAFTCTYHGWAYDIAGNLVNVPFEKEAFCDKKEGDCGFD 154

Query: 191 CATRFPTMVS----QGLLFVWPDEYGQ--ERANATKPPMLPDAFDKPEFSSVTIQRDLFY 244
            A   P        +GL+F   D      +   +   P +    D+ E  +  I     +
Sbjct: 155 KADWGPLQARVETYKGLVFANWDPEAPDLKTYLSDAMPYMDVMLDRTEAGTEAIGGIQKW 214

Query: 245 GYDT----LMENVSDPSHIDFAHH----KVTGRRDRAKPLPFKLESSGHWGFAGAN 292
                     E      +           + G          +L  +G+   +   
Sbjct: 215 VIPCNWKFAAEQFCSDMYHAGTMSHLSGVLAGLPPEMDLTQIQLSKNGNQFRSAWG 270

>2bmo_A Oxygenase-alpha NBDO; nitrobenzene dioxygenase, nitroarene, rieske non-heme dioxygenase, substrate specificity iron- sulfur, metal-binding, NAD; 1.2A {Comamonas SP} SCOP: b.33.1.2 d.129.3.3 PDB: 2bmq_A 2bmr_A* 2hmj_A 2hml_A* 2hmn_A* 1o7n_A 1ndo_A 1o7g_A* 1o7h_A 1o7m_A 1eg9_A 1o7p_A* 1o7w_A 1uuv_A 1uuw_A 2hmk_A* 2hmm_A* 2hmo_A* Length = 447

 Score = 45.2 bits (107), Expect = 2e-05
 Identities = 13/51 (25%), Positives = 17/51 (33%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPE 181
           AF + C HR   L            C YHGW +   G    +P       +
Sbjct: 74  AFLNVCRHRGKTLVHAEAGNAKGFVCGYHGWGYGSNGELQSVPFEKELYGD 124

>2b1x_A Naphthalene dioxygenase large subunit; rieske non-heme iron oxygenase, oxidoreductase; 2.00A {Rhodococcus SP} SCOP: b.33.1.2 d.129.3.3 PDB: 2b24_A Length = 470

 Score = 44.5 bits (105), Expect = 3e-05
 Identities = 29/176 (16%), Positives = 49/176 (27%), Gaps = 18/176 (10%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGP-----EARAI 185
              + C HR   +    +    H +C YHGW++   GS   +P                +
Sbjct: 83  GHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNL 142

Query: 186 QSPRACATRFPTMVSQGLLFVWPDEYGQERAN--ATKPPMLPDAFDKPEFSSVTIQRDLF 243
           +     A+       +GL+F   D +     +        L    D+ +     +     
Sbjct: 143 RPMPNLASY------KGLIFGSLDPHADSLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQR 196

Query: 244 YGYDT----LMEN-VSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDG 294
           +  D       +N V D  H    H  +           F L         G   G
Sbjct: 197 WVIDANWKLGADNFVGDAYHTMMTHRSMVELGLAPPDPQFALYGEHIHTGHGHGLG 252

>3vca_A Ring-hydroxylating dioxygenase; rieske-type, mononuclear non-heme iron, N-demethylase, oxido; 1.59A {Sinorhizobium meliloti} PDB: 3vcp_A Length = 412

 Score = 43.2 bits (102), Expect = 9e-05
 Identities = 12/44 (27%), Positives = 20/44 (45%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQ 174
           AF + C HR + + + R  +   L C YH W+++  G       
Sbjct: 81  AFHNSCRHRGSLICKARQGQVAKLVCPYHQWTYELDGKLIWAND 124

>3n0q_A Putative aromatic-ring hydroxylating dioxygenase; rieske [2Fe-2S] domain, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.80A {Ruegeria SP} Length = 409

 Score = 42.8 bits (101), Expect = 1e-04
 Identities = 12/43 (27%), Positives = 20/43 (46%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIP 173
           AF + C HR + + + +   N  L C YH W+++  G      
Sbjct: 79  AFHNACRHRGSVICKAKKGNNPKLVCPYHQWTYELDGRLLWAR 121

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 38.8 bits (89), Expect = 7e-04
 Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 8/36 (22%)

Query: 28 KRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETM 63
          K+ +  K LQ      + L++ A  S PA + + TM
Sbjct: 19 KQAL--KKLQ------ASLKLYADDSAPALAIKATM 46

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	372
3gke_A	349	DDMC; rieske cluster, non-heme mononuclear iron, o	100.0
2zyl_A	386	Possible oxidoreductase; KSHA, cholesterol, rieske	100.0
1z01_A	446	2-OXO-1,2-dihydroquinoline 8-monooxygenase, oxygen	100.0
3n0q_A	409	Putative aromatic-ring hydroxylating dioxygenase;	100.0
3gcf_A	394	Terminal oxygenase component of carbazole 1,9A- di	100.0
3vca_A	412	Ring-hydroxylating dioxygenase; rieske-type, monon	100.0
2de6_A	392	Terminal oxygenase component of carbazole; electro	100.0
3gkq_A	389	Terminal oxygenase component of carbazole 1,9A- di	100.0
3gzx_A	457	Biphenyl dioxygenase subunit alpha; rieskie, non-h	100.0
2bmo_A	447	Oxygenase-alpha NBDO; nitrobenzene dioxygenase, ni	100.0
2gbw_A	454	Biphenyl 2,3-dioxygenase alpha subunit; rieske oxy	100.0
2b1x_A	470	Naphthalene dioxygenase large subunit; rieske non-	100.0
1uli_A	460	Biphenyl dioxygenase large subunit; alpha3 BETA3 h	100.0
2i7f_A	108	Ferredoxin component of dioxygenase; rieske ferred	99.94
3dqy_A	106	Toluene 1,2-dioxygenase system ferredoxin subunit;	99.94
2qpz_A	103	Naphthalene 1,2-dioxygenase system ferredoxin subu	99.94
1fqt_A	112	Rieske-type ferredoxin of biphenyl dioxygenase; 2F	99.94
1vm9_A	111	Toluene-4-monooxygenase system protein C; structur	99.94
2de6_D	115	Ferredoxin component of carbazole; electron transf	99.94
2jza_A	130	Nitrite reductase [NAD(P)H] small subunit; ISP dom	99.94
3gce_A	121	Ferredoxin component of carbazole 1,9A- dioxygenas	99.93
2jo6_A	113	Nitrite reductase [NAD(P)H] small subunit; all bet	99.93
4aiv_A	119	Probable nitrite reductase [NAD(P)H] small subuni;	99.93
3d89_A	157	Rieske domain-containing protein; CAsp target, rie	99.93
3c0d_A	119	Putative nitrite reductase NADPH (small subunit) o	99.93
1rie_A	129	Rieske iron-sulfur protein; oxidoreductase, cytoch	99.84
1rfs_A	139	Rieske protein; iron-sulfur protein, electron tran	99.84
1g8k_B	133	Arsenite oxidase; molybdopterin, [3Fe-4S] cluster,	99.82
3azc_A	133	Cytochrome B6-F complex iron-sulfur subunit; riesk	99.68
4aay_B	175	AROB; oxidoreductase, rieske, iron sulfur, molybdo	99.78
1pp9_E	196	Ubiquinol-cytochrome C reductase iron-sulfur SUBU	99.72
3cx5_E	185	Cytochrome B-C1 complex subunit rieske, mitochondr	99.72
2qjy_C	187	Ubiquinol-cytochrome C reductase iron-sulfur SUBU;	99.71
1vf5_D	179	Rieske iron-sulfur protein; photosynthesis, membra	99.71
2nwf_A	141	Ubiquinol-cytochrome C reductase iron-sulfur SUBU;	99.71
1nyk_A	165	Rieske iron-sulfur protein; beta barrel, iron sulf	99.7
1jm1_A	204	Rieske iron-sulfur protein SOXF; electron transpor	99.61

>3gke_A DDMC; rieske cluster, non-heme mononuclear iron, oxygenase, oxidoreductase; 1.75A {Stenotrophomonas maltophilia} PDB: 3gb4_A 3gl0_A* 3gl2_A* 3gob_A* 3gte_A 3gts_A*

Probab=100.00  E-value=6.4e-47  Score=373.36  Aligned_cols=257  Identities=24%  Similarity=0.373  Sum_probs=194.5

Q ss_pred             ecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcc
Q 017387           90 WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSC  169 (372)
Q Consensus        90 ~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c  169 (372)
                      +++.||+||+++|| +|+++.++++|++|+|||+ .+|+++|+.|+|||||++|+.|.++ ++.|+||||||+||++|+|
T Consensus         5 ~~~~W~~v~~~~el-~g~~~~~~~~g~~vvv~R~-~~G~v~a~~n~CpHrg~~L~~G~~~-~~~i~CpyHgw~fd~~G~~   81 (349)
T 3gke_A            5 VRNAWYVAALPEEL-SEKPLGRTILDTPLALYRQ-PDGVVAALLDICPHRFAPLSDGILV-NGHLQCPYHGLEFDGGGQC   81 (349)
T ss_dssp             CCSSCEEEECGGGC-CSSCEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCGGGCEEE-TTEEECTTTCCEECTTCCE
T ss_pred             cccccEEEEEHHHC-CCCeEEEEECCEEEEEEEc-CCCcEEEEeCcCCCCCcCCccCCcc-ceEEEECCCCCEEcCCCCc
Confidence            48999999999999 8999999999999999998 7999999999999999999999986 7899999999999999999


Q ss_pred             cccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCCCcceEEEeeeccchhhhh
Q 017387          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTL  249 (372)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~~nwk~~  249 (372)
                      +.+|+...  .     .+.+.+|++|+|++++|+||||+++++.  ++...+|.++ .+++++|......++++||||++
T Consensus        82 ~~~P~~~~--~-----~~~~~~l~~~~v~~~~G~V~v~~~~~~~--~~~~~~p~~~-~~~~~~~~~~~~~~~~~~nwk~~  151 (349)
T 3gke_A           82 VHNPHGNG--A-----RPASLNVRSFPVVERDALIWIWPGDPAL--ADPGAIPDFG-CRVDPAYRTVGGYGHVDCNYKLL  151 (349)
T ss_dssp             EECCSTTC--C-----CCGGGCCCBCCEEEETTEEEECCSCGGG--CCGGGSCCCG-GGGCTTSEEEEEEEEESSCHHHH
T ss_pred             cccCcccc--c-----cccccccceeeEEEECCEEEEeeCCCCC--CcccccCCcc-ccCCCCCEEEeEEEEEecCHHhH
Confidence            99995211  1     1356789999999999999999998652  1222345555 56666776555567899999999


Q ss_pred             hccCCCCCcccccccccccCccCCCCCCeeecccCcccc---------------ccCC---CCC--CeeEEeeeccceee
Q 017387          250 MENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGF---------------AGAN---DGN--PRISAKFVAPCYYM  309 (372)
Q Consensus       250 ~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~gf---------------~~~~---~~~--~~~~~~f~~P~~~~  309 (372)
                      +||++|+||++++|++++|..+.... +++++..+ .++               ....   .+.  ....++|.+|++..
T Consensus       152 ~EN~~D~~H~~~~H~~~~~~~~~~~~-~~~v~~~~-~~v~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~P~~~~  229 (349)
T 3gke_A          152 VDNLMDLGHAQYVHRANAQTDAFDRL-EREVIVGD-GEIQALMKIPGGTPSVLMAKFLRGANTPVDAWNDIRWNKVSAML  229 (349)
T ss_dssp             HHHHHCGGGHHHHTHHHHCCTTGGGC-EEEEEECS-SEEEEEEEEEEECCCHHHHHHTTTCCSCEEEEEEEEEETTTEEE
T ss_pred             HHhccccccchhccchhhcCccccCC-CCEEEEcC-CEEEEEEEecCCCCChHHHhhcccCCCCceeEEEEEEECCEEEE
Confidence            99999999999999999998765432 23443321 111               0000   111  12458999999876


Q ss_pred             eeeeec-ccCcccccceEEEEEEeeeccCCCCCceeEEeeccceeeeec-CCCcee
Q 017387          310 NKIEID-TKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM-PGPAWW  363 (372)
Q Consensus       310 ~~~~~~-~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~~~-~~p~w~  363 (372)
                      ..+.+. .+.|  ...+..+++++++||+++++||+||.++|||..... ..+.|.
T Consensus       230 ~~~~~~~~g~p--~~~~~~~~~~~~~tP~s~~~tr~~~~~~rn~~~~d~~~~~~~~  283 (349)
T 3gke_A          230 NFIAVAPEGTP--KEQSIHSRGTHILTPETEASCHYFFGSSRNFGIDDPEMDGVLR  283 (349)
T ss_dssp             EEEEEEETTSC--GGGSEEEEEEEEEEEEETTEEEEEEEEEESSSTTCHHHHHHHH
T ss_pred             EEEecccCCCC--CCCceEEEEEEEEecCCCCeEEEEEEEEecCccCchhhhHHHH
Confidence            555442 1112  122345667788899999999999999999975422 234444

>2zyl_A Possible oxidoreductase; KSHA, cholesterol, rieske; 2.30A {Mycobacterium tuberculosis}

Probab=100.00  E-value=1.3e-41  Score=339.63  Aligned_cols=246  Identities=21%  Similarity=0.349  Sum_probs=176.1

Q ss_pred             cccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccc
Q 017387           91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCT  170 (372)
Q Consensus        91 ~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~  170 (372)
                      .+.|++||++++|++|+++.++++|++|+|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||++|+|+
T Consensus        23 ~~~W~~v~~~~el~~g~~~~~~~~g~~vvl~R~-~~G~v~a~~n~CpHrga~L~~g~~~-~~~i~CpyHgw~f~~~G~~~  100 (386)
T 2zyl_A           23 ARGWHCLGVAKDYLEGKPHGVEAFGTKLVVFAD-SHGDLKVLDGYCRHMGGDLSEGTVK-GDEVACPFHDWRWGGDGRCK  100 (386)
T ss_dssp             CSEEEEEEEGGGGCSSSCEEEEETTEEEEEEEC-TTSCEEEEESBCTTTCCBGGGSEEE-TTEEECTTTCCEEETTSBEE
T ss_pred             hcceEEEEEHHHCCCCCeEEEEECCeEEEEEEC-CCCCEEEEcCcCCCCCCCCCCCccc-CCEEEeCCCCCEECCCCCcc
Confidence            789999999999998999999999999999998 8999999999999999999999986 67999999999999999999


Q ss_pred             ccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCCCcceE-EEeeecc-chhhh
Q 017387          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSV-TIQRDLF-YGYDT  248 (372)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~-~~~~~~~-~nwk~  248 (372)
                      .+|+....        ++..+|++|||++++|+||||+++++.++.++..+|.++ .+++++|... .....++ ||||+
T Consensus       101 ~~P~~~~~--------~~~~~l~~~~v~~~~G~v~v~~~~~~~~~~~~~~~p~~~-~~~~~~~~~~~~~~~~~~~~nwk~  171 (386)
T 2zyl_A          101 LVPYARRT--------PRMARTRSWTTDVRSGLLFVWHDHEGNPPDPAVRIPEIP-EAASDEWTDWRWNRILIEGSNCRD  171 (386)
T ss_dssp             ECTTCSSC--------CTTCBCCEECEEEETTEEEEEECTTCCCCCGGGCCCCCG-GGGCTTBCCCEEEEEEEESSCGGG
T ss_pred             ccCccccc--------CcccCcceEeEEEECCEEEEEECCccCCCcccccCcccc-cccCCCceEEEEEEEEEcCcCHHh
Confidence            99975432        345689999999999999999986542222233455555 5556666543 3356788 99999


Q ss_pred             hhccCCCCCcccccccccccCccC--CCCCCee-ecccCccccc--cCCCCCC--eeEEeeeccceeeeeeeecccCccc
Q 017387          249 LMENVSDPSHIDFAHHKVTGRRDR--AKPLPFK-LESSGHWGFA--GANDGNP--RISAKFVAPCYYMNKIEIDTKLPVV  321 (372)
Q Consensus       249 ~~EN~lD~~H~~~vH~~~~g~~~~--~~~~~~~-v~~~~~~gf~--~~~~~~~--~~~~~f~~P~~~~~~~~~~~~~p~~  321 (372)
                      ++||++|+||++++|+++.+....  ......+ +...+...+.  ....+..  .....|+.|+++++.+....    .
T Consensus       172 ~~EN~~D~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~P~~~~~~~~~~~----~  247 (386)
T 2zyl_A          172 IIDNVTDMAHFFYIHFGLPTYFKNVFEGHIASQYLHNVGRPDVDDLGTSYGEAHLDSEASYFGPSFMINWLHNRY----G  247 (386)
T ss_dssp             GGGGGGCSTHHHHTTCEEEEEEEEEEETTEEEEEEEEEECTTSSSCCSSSCCEEEEEEEEEESSSEEEEEEEEEE----T
T ss_pred             HhhhcccccchhhhCcCccccccccccCceeEEEecCCCCCchhhcccccCcceeeEEEEEECCeEEEEEeeecc----C
Confidence            999999999999999987542110  0000000 0000000010  0011111  22467889998765433221    1


Q ss_pred             ccceEEEEEEeeeccCCCCCceeEEeeccce
Q 017387          322 GDQKWIIWICSFNVPMAPGKTRSIVCSARNF  352 (372)
Q Consensus       322 g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf  352 (372)
                      | ......+++.++|+++++|++++.+++++
T Consensus       248 g-~~~~~~~~~~~~Pv~~~~t~~~~~~~~~~  277 (386)
T 2zyl_A          248 N-YKSESILINCHYPVTQNSFVLQWGVIVEK  277 (386)
T ss_dssp             T-EEEEEEEEEEEEEEETTEEEEEEEEEEBC
T ss_pred             C-cceeEEEEEEEEEccCCEEEEEEEEEEec
Confidence            2 11122344566899999999999887766

>1z01_A 2-OXO-1,2-dihydroquinoline 8-monooxygenase, oxygenase component; rieske center, oxygen binding/activation, substrate bound complex; 1.80A {Pseudomonas putida} SCOP: b.33.1.2 d.129.3.3 PDB: 1z02_A 1z03_A*

Probab=100.00  E-value=1.6e-41  Score=344.95  Aligned_cols=262  Identities=21%  Similarity=0.290  Sum_probs=183.2

Q ss_pred             ccccCCccccccCC--CCCCCceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCC
Q 017387           68 KEDYGSLVDDEYGK--ESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (372)
Q Consensus        68 ~v~~~~Y~d~~~~~--~e~~~~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~  145 (372)
                      ++|.+  +|+++++  .|++.+|  ++.|++||+++||++|+++.++++|++|||+|.  +|+++|+.|+|||||++|+.
T Consensus        20 ~~p~~--~~~~~~~~~~e~~~if--~~~W~~v~~~~el~~g~~~~~~~~g~~vvl~r~--~G~v~a~~n~CpHrga~L~~   93 (446)
T 1z01_A           20 RANNA--KTQSQYQPYKDAAWGF--INHWYPALFTHELEEDQVQGIQICGVPIVLRRV--NGKVFALKDQCLHRGVRLSE   93 (446)
T ss_dssp             SSSCH--HHHGGGHHHHHCTTCB--CSEEEEEEEGGGSCBTCEEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGG
T ss_pred             cCCcc--cCHHHhhhhhhhhhhh--hhceEEEEEHHHCCCCCeEEEEECCEEEEEEEe--CCEEEEEeCcCCCCcCCCCC
Confidence            44555  7899998  7777655  999999999999988999999999999999996  89999999999999999999


Q ss_pred             Ccc-CCCCceeeeeeceeecC-CCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc-----hhhhcc
Q 017387          146 GRI-DENGHLQCSYHGWSFDG-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG-----QERANA  218 (372)
Q Consensus       146 G~v-~~~~~i~CPyHGw~Fd~-dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~-----~~~~~~  218 (372)
                      |.+ +.++.|+||||||+||+ +|+|+.+|+.+..      ..+.+.+|++|+|++++|+||||+++++     .+.+.+
T Consensus        94 g~~~~~~~~i~CpyHgw~fd~~~G~~~~~p~~p~~------~~~~~~~l~~~~v~~~~G~V~v~~~~~~~p~~~~~~l~~  167 (446)
T 1z01_A           94 KPTCFTKSTISCWYHGFTFDLETGKLVTIVANPED------KLIGTTGVTTYPVHEVNGMIFVFVREDDFPDEDVPPLAH  167 (446)
T ss_dssp             SCCCSSTTEEECTTTCEEEETTTCBEEEETTCTTC------TTTTSCBCCEECEEEETTEEEEEECCTTCCGGGCCCGGG
T ss_pred             CccCCCCCEEEeCCCCeEEeCCCCCccccCCCccc------cCcccCCCcEEEEEEECCEEEEEeCCccccccCCCChhH
Confidence            974 34689999999999998 9999999865321      1235678999999999999999998642     111222


Q ss_pred             CCCCCCCC--------------CCCCCCcceEEEeeeccchhhhhhccCCCCCcccccccccccCccCCCCCCe------
Q 017387          219 TKPPMLPD--------------AFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPF------  278 (372)
Q Consensus       219 ~~~p~~p~--------------~~~~~~~~~~~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~------  278 (372)
                      .+++.+++              .+.+.++.......+++||||+++||++|+||+ ++|+++++..+......+      
T Consensus       168 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~-~vH~~~~~~~~~~~~~~~~~~~~~  246 (446)
T 1z01_A          168 DLPFRFPERSEQFPHPLWPSSPSVLDDNAVVHGMHRTGFGNWRIACENGFDNAHI-LVHKDNTIVHAMDWVLPLGLLPTS  246 (446)
T ss_dssp             GSCCCTTTTTTTSCCTTSCCCCCTTSTTEEEEEEEEEEESCHHHHHTTTTCTTGG-GGGTTCHHHHHTTCCCCSEEEECS
T ss_pred             hccchhhhhhhccccccccccccccCCCeEEEeEEEEEcCCHHHHHHhccchhhh-hhhhhhhhcccccccccccccccC
Confidence            23222221              122334443334567999999999999999999 999998764332211111      


Q ss_pred             -------eecccCccccccC-------------------CCCC-CeeEEeeeccceeeeeeeecccCcccccceEEEEEE
Q 017387          279 -------KLESSGHWGFAGA-------------------NDGN-PRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWIC  331 (372)
Q Consensus       279 -------~v~~~~~~gf~~~-------------------~~~~-~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~~~  331 (372)
                             +++ .+..|+...                   ..+. ....+.|..|++++...     .|  ...   +.++
T Consensus       247 ~~~~~~~~~~-~~~~g~~~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~~~~~P~~~~~~~-----~p--~~~---~~~~  315 (446)
T 1z01_A          247 DDCIAVVEDD-DGPKGMMQWLFTDKWAPVLENQELGLKVEGLKGRHYRTSVVLPGVLMVEN-----WP--EEH---VVQY  315 (446)
T ss_dssp             TTSEEEECCS-SSCCEEEECTTSTTEEEECEETTTTEECCCCCCCCCEEEEETTTEEEEET-----CS--STT---CEEE
T ss_pred             CCceeEEEec-CCCCEEEEEecCccccchhhhhhhccccccCCceEEEeeeecCceEEEec-----cC--CCC---eEEE
Confidence                   111 011121000                   0011 11345667888764321     01  111   2334


Q ss_pred             eeeccCCCCCceeEEeecccee
Q 017387          332 SFNVPMAPGKTRSIVCSARNFF  353 (372)
Q Consensus       332 ~~~tP~~~~~tr~~~~~~rnf~  353 (372)
                      ..++|+++++|++++.++|++.
T Consensus       316 ~~~~Pi~~~~t~~~~~~~~~~~  337 (446)
T 1z01_A          316 EWYVPITDDTHEYWEILVRVCP  337 (446)
T ss_dssp             EEEEESSSSEEEEEEEEEEECC
T ss_pred             EEEEECCCCcEEEEEEEecCCC
Confidence            5569999999999998888764

>3n0q_A Putative aromatic-ring hydroxylating dioxygenase; rieske [2Fe-2S] domain, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.80A {Ruegeria SP}

Probab=100.00  E-value=1.1e-42  Score=349.64  Aligned_cols=192  Identities=17%  Similarity=0.217  Sum_probs=156.4

Q ss_pred             ccccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCC
Q 017387           66 DEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (372)
Q Consensus        66 ~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls  144 (372)
                      ...+|.++|+|++++++|++++|  ++.|++||+++||+ +|++++++++|++|+|+|+ .+|+++||.|+|||||++|+
T Consensus        16 ~~~lp~~~Y~d~~~~~~E~~~if--~~~W~~v~~~~elp~~G~~~~~~i~g~~vvv~R~-~dG~v~A~~n~C~Hrga~L~   92 (409)
T 3n0q_A           16 GHALDQAFYTDAEVFQTDLQEIF--YKEWLFAIPACELDKPGSYVTHQVGNYNVIIVRG-ADNVIRAFHNACRHRGSVIC   92 (409)
T ss_dssp             TBCCCHHHHHCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESCCTTTCCCSC
T ss_pred             cccCCHHHcCCHHHHHHHHHHHH--hcCCEEEEEHHHCCCCCCeEEEEECCEEEEEEEc-CCCCEEeecCcCCcCcCCcc
Confidence            45789999999999999998877  99999999999998 5999999999999999999 89999999999999999999


Q ss_pred             C-CccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCC--
Q 017387          145 E-GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKP--  221 (372)
Q Consensus       145 ~-G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~--  221 (372)
                      . |.+. ++.|+||||||+||++|+|+.+|.....      .++++.+|++|+|++++|+|||++++++.+ +++.+.  
T Consensus        93 ~~g~~~-~~~i~CpyHgw~fd~dG~~~~~P~~~~~------~~~~~~~L~~~~v~~~~G~Vfv~~~~~~~~-l~~~l~~~  164 (409)
T 3n0q_A           93 KAKKGN-NPKLVCPYHQWTYELDGRLLWARDMGPD------FEPSRHGLKTVHCRELAGLIYICLADEAPD-FERFAEVA  164 (409)
T ss_dssp             CSSEEE-CSSEECTTTCCEECTTSCEEECTTCCTT------CCGGGCSCCEEEEEEETTEEEEECSSSCCC-CHHHHHHH
T ss_pred             CcCccC-CCEEEECCCCCEEeCCCCcccCCcCCcc------cCcccCCCceEEEEEECCEEEEEeCCCCCC-hHHhhhhh
Confidence            6 6664 6799999999999999999999965321      124577899999999999999999886521 111111  


Q ss_pred             -CCCCCCCCCCCcceE-EEeeeccchhhhhhccCCCCCcccccccccccC
Q 017387          222 -PMLPDAFDKPEFSSV-TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGR  269 (372)
Q Consensus       222 -p~~p~~~~~~~~~~~-~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~  269 (372)
                       +.+. .++..++... ...++++||||+++||++|+||++++|+++++.
T Consensus       165 ~~~l~-~~~~~~~~~~~~~~~~~~~NWK~~~EN~~D~yH~~~~H~~~~~~  213 (409)
T 3n0q_A          165 RPYLE-VHDLSNAKVAHESSIVERGNWKLVWENNRECYHCGGNHPALCRT  213 (409)
T ss_dssp             HHHHH-TTCGGGEEEEEEEEEEESSCHHHHHHHHTCCTTHHHHCTTGGGT
T ss_pred             hhhhc-cccCCCeEEeeEEEEEEecchHhhhhhccccccccccCcchhhc
Confidence             1111 1222233322 234678999999999999999999999998764

>3gcf_A Terminal oxygenase component of carbazole 1,9A- dioxygenase; rieske oxygenase, 2Fe-2S, electron transfer, oxidoreductase; 2.30A {Nocardioides aromaticivorans}

Probab=100.00  E-value=5e-41  Score=333.44  Aligned_cols=188  Identities=22%  Similarity=0.408  Sum_probs=150.2

Q ss_pred             CCCCCCceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCcc-CCCCceeeeee
Q 017387           81 KESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI-DENGHLQCSYH  159 (372)
Q Consensus        81 ~~e~~~~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v-~~~~~i~CPyH  159 (372)
                      +...|..++|++.|++||.++||++|+++.++++|++|+|+|.  +|+++|+.|+|||||++|+.|.+ ..++.|+||||
T Consensus        22 ~~yLE~~~if~~~W~~V~~~~ELp~G~~~~v~i~G~~VvV~R~--dG~v~A~~N~CpHRGa~Ls~G~~~~~~~~I~CPyH   99 (394)
T 3gcf_A           22 PRYLEATLGFDNHWHPAAFDHELAEGEFVAVTMLGEKVLLTRA--KGEVKAIADGCAHRGVPFSKEPLCFKAGTVSCWYH   99 (394)
T ss_dssp             HHHHHCTTCEESEEEEEEEGGGCCBTCEEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGGSCBCSSTTEEECTTT
T ss_pred             hhhhhhhhhhcccCEEEEEHHHCCCCCeEEEEECCEEEEEEEe--CCeEEEeeCcCCCCCCCCcCCcccCcCCEEECCCC
Confidence            3334445566999999999999999999999999999999996  99999999999999999999974 23679999999


Q ss_pred             ceeecC-CCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCCCcceEEE
Q 017387          160 GWSFDG-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTI  238 (372)
Q Consensus       160 Gw~Fd~-dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~  238 (372)
                      ||+||+ +|+|+.+|..+...      .+.+.+|++|+|++++|+|||++++++.+.+.+    .+++.+.+.++.....
T Consensus       100 GW~Fdl~dG~cv~iP~~p~~~------~~~~~~L~~ypV~e~~G~VfV~lgd~~~ppL~e----~L~~~~~d~~~~~~~~  169 (394)
T 3gcf_A          100 GWTYDLDDGRLVDVLTSPGSP------VIGKIGIKVYPVQVAQGVVFVFIGDEEPHALSE----DLPPGFLDEDTHLLGI  169 (394)
T ss_dssp             CEEEETTTCBEEEETTSTTCT------TTTSCBCCEECEEEETTEEEEEESSSCCCCGGG----GSCTTTTCTTEEEEEE
T ss_pred             CcEEECCCCceeccCCCcccc------cccccCceEEEEEEECCcEEEecCCCCCCCchh----hcchhhcCCceEEEeE
Confidence            999999 89999999754321      235678999999999999999997643222222    2333455556665555


Q ss_pred             eeeccchhhhhhccCCCCCcccccccccccCccCCCCCCeeec
Q 017387          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLE  281 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~  281 (372)
                      ..+++||||+++||++|.||+ ++|+++++..+...+.++.+.
T Consensus       170 ~~~i~~NWK~~~EN~lD~yH~-~vH~~ti~~~~~~~~~~~~~~  211 (394)
T 3gcf_A          170 RRTVQSNWRLGVENGFDTTHI-FMHRNSPWVSGNRLAFPYGFV  211 (394)
T ss_dssp             EEEESSCHHHHHHHHSCSSGG-GGGTTCHHHHHTTBCCCSEEE
T ss_pred             EEEEecCchhhHhhccccchh-hCchhhhcccccccccCccee
Confidence            678999999999999999999 999999987655555555443

>3vca_A Ring-hydroxylating dioxygenase; rieske-type, mononuclear non-heme iron, N-demethylase, oxido; 1.59A {Sinorhizobium meliloti} PDB: 3vcp_A

Probab=100.00  E-value=1.6e-42  Score=348.63  Aligned_cols=192  Identities=14%  Similarity=0.156  Sum_probs=156.2

Q ss_pred             ccccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCC
Q 017387           66 DEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (372)
Q Consensus        66 ~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls  144 (372)
                      ...+|.++|+|++++++|++++|  ++.|++||+++||+ +|+++.++++|++|+|+|+ .+|+++|+.|+|||||++|+
T Consensus        18 ~~~lp~~~Y~d~~~~~~E~~~if--~~~W~~v~~~~elp~~G~~~~~~i~g~~vvv~R~-~dG~v~A~~n~CpHrga~L~   94 (412)
T 3vca_A           18 GFSLEQPFYTSPEVYALDLQHIF--YKQWLYAVPVCQLAKAGSYTTLRVGAYEVVIVRS-RDGEVRAFHNSCRHRGSLIC   94 (412)
T ss_dssp             TBCCCHHHHHCHHHHHHHHHHTT--TTSCEEEEEGGGGCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCSC
T ss_pred             cCcCCHHHcCCHHHHHHHHHHHH--hccCEEEEEHHHCCCCCCeEEEEECCEEEEEEEc-CCCCEEEecccCCCCCCEee
Confidence            46789999999999999998877  89999999999998 5999999999999999999 89999999999999999998


Q ss_pred             -CCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCC-
Q 017387          145 -EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPP-  222 (372)
Q Consensus       145 -~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p-  222 (372)
                       .|.+. ++.|+||||||+||++|+|+.+|.....      .++++.+|++|+|++++|+|||++++++.+ .++.+.+ 
T Consensus        95 ~~g~~~-~~~i~CPyHgw~fdldG~~~~~P~~~~~------~~~~~~~L~~~~v~~~~G~V~v~~~~~~p~-l~~~l~~~  166 (412)
T 3vca_A           95 KARQGQ-VAKLVCPYHQWTYELDGKLIWANDMGPD------FDASKYGLKPVNLRNLDGLIYICLSDTPPD-FQTFAQLA  166 (412)
T ss_dssp             CSSEEE-CSSEECTTTCCEECTTSCEEECTTCCTT------CCGGGCSCCEEEEEEETTEEEEECSSSCCC-CHHHHHHH
T ss_pred             cccccC-CCEEEcCCCCCEEcCCCccccCCccccc------cCcccCCCcEEEEEEECCEEEEEecCCCCC-HHHHhhhh
Confidence             67765 6799999999999999999999965321      124567899999999999999999876521 1111111 


Q ss_pred             --CCCCCCCCCCcceE-EEeeeccchhhhhhccCCCCCcccccccccccC
Q 017387          223 --MLPDAFDKPEFSSV-TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGR  269 (372)
Q Consensus       223 --~~p~~~~~~~~~~~-~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~  269 (372)
                        .+. .++..++... ...++++||||+++||++|+||++++|+++++.
T Consensus       167 ~~~l~-~~~~~~~~~~~~~~~~~~~NWK~~~EN~~D~yH~~~~H~~~~~~  215 (412)
T 3vca_A          167 RPYLE-VHDLKDAKVAFTSTIIEKGNWKLVWENNRECYHCSSNHPALCRS  215 (412)
T ss_dssp             HHHHH-TTCGGGEEEEEEEEEEESSCHHHHHHHHTCCTTHHHHCHHHHTT
T ss_pred             HHhhc-cccCCCeEEeEEEEEEEccCchhhHhhccccccCcccCcchhhc
Confidence              111 1222223221 235678999999999999999999999998763

>2de6_A Terminal oxygenase component of carbazole; electron transfer complex, rieske non-heme iron oxygenase system, terminal oxygenase; 1.80A {Janthinobacterium} SCOP: b.33.1.2 d.129.3.3 PDB: 1ww9_A 2de5_A 2de7_A*

Probab=100.00  E-value=2.5e-40  Score=330.80  Aligned_cols=169  Identities=23%  Similarity=0.422  Sum_probs=139.0

Q ss_pred             eecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccC-CCCceeeeeeceeecC-C
Q 017387           89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID-ENGHLQCSYHGWSFDG-C  166 (372)
Q Consensus        89 ~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~-~~~~i~CPyHGw~Fd~-d  166 (372)
                      .|++.|++||+++||++|+++.++++|++|+|+|+  +|+++|+.|+|||||++|+.|.+. .++.|+||||||+||+ +
T Consensus        24 ~~~~~W~~v~~~~el~~g~~~~~~~~g~~vvl~R~--~G~v~a~~n~CpHrga~L~~g~~~~~~~~i~CpyHgw~f~~~~  101 (392)
T 2de6_A           24 GFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNRI--DGKLYCLKDRCLHRGVQLSVKVECKTKSTITCWYHAWTYRWED  101 (392)
T ss_dssp             CBSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGGGCCCCSTTEEECTTTCEEEETTT
T ss_pred             hhccccEEEEEHHHCCCCCeEEEEECCEEEEEEEe--CCEEEEEeCcCCCCCCCCcCCcccCCCCEEEeCCCCCEEcCCC
Confidence            45999999999999988999999999999999996  899999999999999999999863 3579999999999998 9


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCCCcceEEEeeeccchh
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGY  246 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~~nw  246 (372)
                      |+|+.+|+.+..      ..+++.+|++|+|++++|+|||++++++.+.+.    +.+++++.+.++.......+++|||
T Consensus       102 G~~~~~p~~p~~------~~~~~~~l~~~~v~~~~G~v~v~~~~~~~~~l~----~~l~~~~~~~~~~~~~~~~~~~~nw  171 (392)
T 2de6_A          102 GVLCDILTNPTS------AQIGRQKLKTYPVQEAKGCVFIYLGDGDPPPLA----RDTPPNFLDDDMEILGKNQIIKSNW  171 (392)
T ss_dssp             CBEEEETTCTTC------TTTTSCBCCBCCEEEETTEEEEEESSSSCCCGG----GGSCTTTTCTTEEEEEEEEEESSCH
T ss_pred             CccccccCCccc------cccccCCCceEeEEEECCEEEEEeCCCCCCChh----HhccccccCCCeEEEEEEEEEecCh
Confidence            999999875431      124567899999999999999999764321122    1232245555665544456899999


Q ss_pred             hhhhccCCCCCcccccccccccCc
Q 017387          247 DTLMENVSDPSHIDFAHHKVTGRR  270 (372)
Q Consensus       247 k~~~EN~lD~~H~~~vH~~~~g~~  270 (372)
                      |+++||++|+||+ ++|+++++..
T Consensus       172 k~~~EN~~D~~H~-~~H~~~~~~~  194 (392)
T 2de6_A          172 RLAVENGFDPSHI-YIHKDSILVK  194 (392)
T ss_dssp             HHHHHHHHCGGGG-GGGTTCHHHH
T ss_pred             HhhhHhcchhhhh-hhhcchhccc
Confidence            9999999999999 9999987643

>3gkq_A Terminal oxygenase component of carbazole 1,9A- dioxygenase; rieske nonheme iron oxygenase, electron transfer, putidaredoxin-type ferredoxin; 2.10A {Sphingomonas}

Probab=100.00  E-value=1e-39  Score=323.32  Aligned_cols=176  Identities=24%  Similarity=0.407  Sum_probs=142.9

Q ss_pred             CCCCceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCcc-CCCCceeeeeece
Q 017387           83 SSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI-DENGHLQCSYHGW  161 (372)
Q Consensus        83 e~~~~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v-~~~~~i~CPyHGw  161 (372)
                      |++.+  |++.|++||+++||++|+++.++++|++|+|+|.  +|+++|+.|+|||||++|+.|.+ ..++.|+||||||
T Consensus        23 E~e~i--f~~~W~~V~~~~ELp~G~~~~v~i~G~~VvV~R~--dG~v~A~~N~CpHRGa~Ls~G~~~~~~~~I~CPyHGW   98 (389)
T 3gkq_A           23 DAKLG--FRNHWYPVRLSAEVAEASPVPVQLLGEKVLLNRV--DGVVHAIADRCLHRGVTLSDKVECYSKATISCWYHGW   98 (389)
T ss_dssp             HCTTC--BSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGGGCCCSBTTEEECTTTCE
T ss_pred             hhhhh--hcCccEEEEEHHHCCCCCeEEEEECCEEEEEEEe--CCeEEEeCCcCCCCCCCccCCcccCcCCEEECCCCCC
Confidence            44444  4999999999999999999999999999999995  89999999999999999999973 2367999999999


Q ss_pred             eecC-CCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCCCcceEEEee
Q 017387          162 SFDG-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQR  240 (372)
Q Consensus       162 ~Fd~-dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~  240 (372)
                      +||+ +|+|+.+|..+...      .+.+.+|++|+|++++|+|||++++++.+.+.+    .+++.+.+.++.......
T Consensus        99 ~Fdl~dG~cv~iP~~P~~~------~~~~~~L~~ypV~e~~G~VfV~lgd~~~ppL~e----~l~~~~~~~~~~~~~~~~  168 (389)
T 3gkq_A           99 TYRWDNGKLVDILTNPTSV------QIGRHALKTYPVREEKGLVFLFVGDQEPHDLAE----DVPPGFLDADLAVHGQHR  168 (389)
T ss_dssp             EEETTTCBEEEETTCTTCT------TTTSCBCCBCCEEEETTEEEEEESSSCCCCGGG----GSCTTTTCTTEEEEEEEE
T ss_pred             EEECCCCCeecccCCcccc------cccccCCcEEEEEEECCeEEEecCCCCCCCchh----hcchhccCCceEEEeEEE
Confidence            9999 89999999754321      235678999999999999999997543212222    233345555666555567


Q ss_pred             eccchhhhhhccCCCCCcccccccccccCccCC
Q 017387          241 DLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRA  273 (372)
Q Consensus       241 ~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~  273 (372)
                      +++||||+++||++|+||+ ++|+++++..+..
T Consensus       169 ~i~~NWK~~~EN~lD~yH~-~vH~~si~~~~~~  200 (389)
T 3gkq_A          169 VVDANWRMGVENGFDAGHV-FIHKSSILLDGND  200 (389)
T ss_dssp             EESSCHHHHHHHHTCSGGG-GGGTTCHHHHHTT
T ss_pred             EEecCchhhHHhcchhchh-hCccccccccccc
Confidence            8999999999999999999 9999998754433

>3gzx_A Biphenyl dioxygenase subunit alpha; rieskie, non-heme iron, 2Fe-2S, aromatic hydroc catabolism, iron, iron-sulfur, metal-binding, NAD; HET: BNL MES; 1.58A {Comamonas testosteroni} PDB: 3gzy_A* 1wql_A 2xso_A 2xsh_A 2xrx_A* 2xr8_A* 2yfi_A 2yfj_A* 2yfl_A*

Probab=100.00  E-value=5.1e-41  Score=341.47  Aligned_cols=197  Identities=14%  Similarity=0.156  Sum_probs=158.2

Q ss_pred             cccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCC
Q 017387           67 EKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (372)
Q Consensus        67 ~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~  145 (372)
                      .++|.++|+|++++++|++++|  .+.|++||+++||+ +|++++++++|++|+|+|+ .+|+++||.|+|||||++|+.
T Consensus        33 ~~~~~~~Ytd~~~~~~E~~~if--~~~W~~v~~~~elp~~G~~~~~~i~~~~vvv~R~-~dG~v~A~~n~C~Hrga~L~~  109 (457)
T 3gzx_A           33 GKLDARIYADQDLYQLELERVF--GRSWLMLGHETHIPKIGDYLTTYMGEDPVIMVRQ-KDQSIKVFLNQCRHRGMRIVR  109 (457)
T ss_dssp             TEEEGGGGTCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESCCTTTCCCSCC
T ss_pred             CcCCHHHcCCHHHHHHHHHHHH--hcCCEEEeEHHHcCCCCCeEEEEECCEEEEEEEC-CCCeEEEEeCcCCCCCcCccC
Confidence            4689999999999999999887  99999999999997 5999999999999999999 899999999999999999999


Q ss_pred             CccCCCCceeeeeeceeecCCCcccccCccccCCc----ccccccCcccccccCCceeecceEEEecCCcchhhhccCCC
Q 017387          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGP----EARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKP  221 (372)
Q Consensus       146 G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~----~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~  221 (372)
                      |..+.++.|+||||||+||++|+|+.+|......+    ....+++.+.+|++|+|++++|+||||+++++. .++++++
T Consensus       110 g~~g~~~~i~CpyHgw~fd~~G~~~~~P~~~~~~~~~~~~~~~~~~~~~~L~~~~v~e~~G~Vfv~~~~~ap-~l~e~lg  188 (457)
T 3gzx_A          110 SDGGNAKAFTCTYHGWAYDIAGNLVNVPFEKEAFCDKKEGDCGFDKADWGPLQARVETYKGLVFANWDPEAP-DLKTYLS  188 (457)
T ss_dssp             SSEEECSEEECTTTCCEEETTSCEEECTTHHHHTCSSSTTTTSCCGGGCCCCEEEEEEETTEEEEESCTTSC-CHHHHTT
T ss_pred             CCCCcCCEEEcCCCCCEecCCCcceecCccccccccccccccccChhhCCCceEeEEEECCEEEEecCCCCC-ChHHHHh
Confidence            87544679999999999999999999998642111    000012456789999999999999999998753 2334443


Q ss_pred             CCCCCCC----CC--CCcceE--EEeeeccchhhhhhccC-CCCCccc-cccccccc
Q 017387          222 PMLPDAF----DK--PEFSSV--TIQRDLFYGYDTLMENV-SDPSHID-FAHHKVTG  268 (372)
Q Consensus       222 p~~p~~~----~~--~~~~~~--~~~~~~~~nwk~~~EN~-lD~~H~~-~vH~~~~g  268 (372)
                      + +...+    +.  .++..+  ...+.++||||+++||+ +|+||++ ++|.++++
T Consensus       189 ~-~~~~ld~~~~~~~~~~~~~~~~~~~~~~~NWKl~~EN~~~D~yH~~~~~H~~~~~  244 (457)
T 3gzx_A          189 D-AMPYMDVMLDRTEAGTEAIGGIQKWVIPCNWKFAAEQFCSDMYHAGTMSHLSGVL  244 (457)
T ss_dssp             T-CHHHHHHHHSSSTTCEEECSCCEEEEESSCHHHHHHHHHHBCTTTTTTTTHHHHH
T ss_pred             h-hHHHHHHHhccCCCceEEEcceEEEEEccccchhhhccccccCCcccceehhhhh
Confidence            2 21111    11  123333  23467899999999999 8999999 99998764

>2bmo_A Oxygenase-alpha NBDO; nitrobenzene dioxygenase, nitroarene, rieske non-heme dioxygenase, substrate specificity iron- sulfur, metal-binding, NAD; 1.2A {Comamonas SP} SCOP: b.33.1.2 d.129.3.3 PDB: 2bmq_A 2bmr_A* 2hmj_A 2hml_A* 2hmn_A* 1o7n_A 1ndo_A 1o7g_A* 1o7h_A 1o7m_A 1eg9_A 1o7p_A* 1o7w_A 1uuv_A 1uuw_A 2hmk_A* 2hmm_A* 2hmo_A*

Probab=100.00  E-value=2.2e-40  Score=336.50  Aligned_cols=195  Identities=15%  Similarity=0.182  Sum_probs=156.4

Q ss_pred             cccc-cCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCC
Q 017387           67 EKED-YGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (372)
Q Consensus        67 ~~v~-~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls  144 (372)
                      .++| .++|+|++++++|++.+|  .+.|++||+++||+ +|+++.++++|++|+|+|+ .+|+++||.|+|||||++|+
T Consensus        11 ~~~~~~~~y~~~~~~~~E~~~if--~~~W~~v~~~~el~~~g~~~~~~~~~~~vvv~R~-~~G~v~a~~n~CpHrga~L~   87 (447)
T 2bmo_A           11 GLTQKLLIHGDKELFQHELKTIF--ARNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQ-NDGSVRAFLNVCRHRGKTLV   87 (447)
T ss_dssp             GCEEEGGGGTCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESBCTTTCCBCC
T ss_pred             CCCCccceeCCHHHHHHHHHHhh--ccCCeEEeEHHHCCCCCCeEEEEECCeeEEEEEC-CCCCEEEEeccCcCCCCCcc
Confidence            4788 999999999999998877  89999999999998 5999999999999999998 89999999999999999999


Q ss_pred             CCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCC-ceeecceEEEecCCcchhhhccCCCCC
Q 017387          145 EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFP-TMVSQGLLFVWPDEYGQERANATKPPM  223 (372)
Q Consensus       145 ~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~p-v~e~~G~I~V~~~~~~~~~~~~~~~p~  223 (372)
                      .|.++.++.|+||||||+||++|+|+.+|......+.  .+++.+.+|++|+ |++++|+|||++++++. ..++++++ 
T Consensus        88 ~g~~g~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~--~~~~~~~~l~~~~~v~~~~G~v~v~~~~~~~-~l~~~l~~-  163 (447)
T 2bmo_A           88 HAEAGNAKGFVCGYHGWGYGSNGELQSVPFEKELYGD--AIKKKCLGLKEVPRIESFHGFIYGCFDAEAP-PLIDYLGD-  163 (447)
T ss_dssp             CSSEEECSEEECTTTCCEEETTSCEEECTTHHHHTGG--GCCGGGCCCCBCSEEEEETTEEEEESCTTCC-CHHHHHTT-
T ss_pred             ccccCCcCeEECCCCcchhcCCCcccccCcccccccc--cCCHhHCCCcccceEEEECCEEEEEcCCCCC-CHHHHhcc-
Confidence            9987546799999999999999999999975421110  1234567899998 99999999999987642 22222221 


Q ss_pred             CCCCC----C-CCCcceE--EEeeeccchhhhhhccC-CCCCccccccccccc
Q 017387          224 LPDAF----D-KPEFSSV--TIQRDLFYGYDTLMENV-SDPSHIDFAHHKVTG  268 (372)
Q Consensus       224 ~p~~~----~-~~~~~~~--~~~~~~~~nwk~~~EN~-lD~~H~~~vH~~~~g  268 (372)
                      +...+    + ..++..+  ....+++||||+++||+ +|+||++++|..+++
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~nwk~~~EN~~~D~yH~~~~H~~~l~  216 (447)
T 2bmo_A          164 AAWYLEPTFKYSGGLELVGPPGKVVVKANWKSFAENFVGDGYHVGWTHAAALR  216 (447)
T ss_dssp             HHHHHHHHHTTTSCEEEEEEEEEEEESSCHHHHHHHHHHBCTTHHHHTHHHHH
T ss_pred             HHHHHHHHhccCCCeEEeeeeEEEEECCCcchhhhcCCCCCCCCcccchhhhh
Confidence            10001    1 2234433  23468899999999999 799999999977665

>2gbw_A Biphenyl 2,3-dioxygenase alpha subunit; rieske oxygenase, oxidoreductase, non heme iron; 1.70A {Sphingobium yanoikuyae} PDB: 2gbx_A* 2ckf_A

Probab=100.00  E-value=9.8e-40  Score=332.38  Aligned_cols=195  Identities=15%  Similarity=0.254  Sum_probs=155.9

Q ss_pred             cccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCC
Q 017387           67 EKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (372)
Q Consensus        67 ~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~  145 (372)
                      .++|.++|+|++++++|++.+|  .+.|++||+++||+ +|+++.+.++|++|+|+|+ .+|+++|+.|+|||||++|+.
T Consensus        13 ~~~~~~~y~~~~~~~~E~~~if--~~~W~~v~~~~el~~~g~~~~~~~~~~~vvv~R~-~~G~v~a~~n~CpHrga~L~~   89 (454)
T 2gbw_A           13 ASQSRQVFWDEDVYALEIERIF--SRAWLMLGHESLVPKPGDFITTYMAEDKVILSHQ-SDGTFRAFINSCSHRGNQICH   89 (454)
T ss_dssp             TEEEGGGGTCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCSCC
T ss_pred             CccCHHHcCCHHHHHHHHHHHh--hcCcEEEeEHHHCCCCCCeEEEEECCeEEEEEEc-CCCCEEEEeccCCCCCCCCcc
Confidence            4789999999999999998877  89999999999998 5999999999999999999 899999999999999999999


Q ss_pred             CccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCC
Q 017387          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLP  225 (372)
Q Consensus       146 G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p  225 (372)
                      |..+.++.|+||||||+||++|+|+.+|......+.  .+++.+.+|++|+|++++|+|||++++++. ..++++++ +.
T Consensus        90 g~~g~~~~i~CpyHgw~f~~~G~~~~~P~~~~~~~~--~~~~~~~~l~~~~v~~~~G~v~v~~~~~~p-~~~~~l~~-~~  165 (454)
T 2gbw_A           90 ADSGNAKAFVCNYHGWVFGQDGSLVDVPLESRCYHN--SLDKQKLAAKSVRVETYKGFIFGCHDPEAP-SLEDYLGE-FR  165 (454)
T ss_dssp             CSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTT--CCCGGGCCCCEEEEEEETTEEEEECCTTCC-CHHHHHGG-GH
T ss_pred             cccCCcCEEEeCCCCCEecCCCCcccCCcccccccc--cCCHhhCCCeeEEEEEECCEEEEEeCCCCC-CHHHHhhh-hH
Confidence            887546799999999999999999999976432110  122456789999999999999999987642 12222211 10


Q ss_pred             CC----CCC--CCcceE--EEeeeccchhhhhhccC-CCCCccccccccccc
Q 017387          226 DA----FDK--PEFSSV--TIQRDLFYGYDTLMENV-SDPSHIDFAHHKVTG  268 (372)
Q Consensus       226 ~~----~~~--~~~~~~--~~~~~~~~nwk~~~EN~-lD~~H~~~vH~~~~g  268 (372)
                      ..    ++.  .++..+  ....+++||||+++||+ +|+||++++|+.+++
T Consensus       166 ~~l~~~~~~~~~~~~~~~~~~~~~~~~Nwk~~~EN~~~D~yH~~~~H~~~~~  217 (454)
T 2gbw_A          166 YYLDTIWEGAGGGMELLGPPMKSLLQCNWKVPAENFIGDGYHVGWTHAAALS  217 (454)
T ss_dssp             HHHHHHHTTTTTCEEEEEEEEEEEESSCTHHHHHHHHHBCTTHHHHTHHHHH
T ss_pred             HHHHHHHhcCCCceEEEeeEEEEEeCCCccchhhhcCCccCCCCcCCHhHHh
Confidence            01    111  223332  23467899999999999 799999999977654

>2b1x_A Naphthalene dioxygenase large subunit; rieske non-heme iron oxygenase, oxidoreductase; 2.00A {Rhodococcus SP} SCOP: b.33.1.2 d.129.3.3 PDB: 2b24_A

Probab=100.00  E-value=4.9e-39  Score=328.59  Aligned_cols=197  Identities=14%  Similarity=0.218  Sum_probs=155.3

Q ss_pred             ccccccCCccccccCCCCCCCceeecccceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCC
Q 017387           66 DEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (372)
Q Consensus        66 ~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls  144 (372)
                      ..++|.++|+|++++++|++.+|  .+.|++||+++||++ |+++.++++|++|+|+|+ .+|+++||.|+|||||++|+
T Consensus        20 ~~~lp~~~Ytd~~~~~~E~~~if--~~~W~~v~~~~el~~~g~~~~~~~~g~~vvv~R~-~~G~v~a~~n~C~Hrga~L~   96 (470)
T 2b1x_A           20 DWTVPAAIINDPEVHDVERERIF--GHAWVFLAHESEIPERGDYVVRYISEDQFIVCRD-EGGEIRGHLNACRHRGMQVC   96 (470)
T ss_dssp             TCEEEGGGSSCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCSC
T ss_pred             CCcCCHHHcCCHHHHHHHHHHHh--hcCCeEeeeHHHCCCCCCeEEEEECCeEEEEEEc-CCCCEEEEecccCCCCCEee
Confidence            56899999999999999998877  999999999999985 899999999999999998 89999999999999999999


Q ss_pred             CCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccC-CceeecceEEEecCCcchhhhccCCCCC
Q 017387          145 EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRF-PTMVSQGLLFVWPDEYGQERANATKPPM  223 (372)
Q Consensus       145 ~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~-pv~e~~G~I~V~~~~~~~~~~~~~~~p~  223 (372)
                      .|.+++.+.|+||||||+||++|+|+.+|......+.  .+++.+.+|..+ .|++++|+|||++++++. ..++++.+.
T Consensus        97 ~g~~~~~~~i~CpyHgw~f~~~G~~~~~P~~~~~~~~--~~~~~~~~l~~~p~ve~~~G~Vfv~~~~~~~-~~~~~l~~~  173 (470)
T 2b1x_A           97 RAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGN--QLKKSDWNLRPMPNLASYKGLIFGSLDPHAD-SLEDYLGDL  173 (470)
T ss_dssp             CSSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTT--CCCGGGGSCCBCSEEEEETTEEEEESCTTCC-CHHHHHGGG
T ss_pred             ccCcCCCCEEEECCCCCeecCCCceeecCcccccccc--cCCHhhCCCcccceEEEECCEEEEEeCCCCC-CHHHHhcch
Confidence            9988644789999999999999999999975432110  122456778888 577789999999987642 122222210


Q ss_pred             CC--C---CCCCCCcceE--EEeeeccchhhhhhccC-CCCCccccccccccc
Q 017387          224 LP--D---AFDKPEFSSV--TIQRDLFYGYDTLMENV-SDPSHIDFAHHKVTG  268 (372)
Q Consensus       224 ~p--~---~~~~~~~~~~--~~~~~~~~nwk~~~EN~-lD~~H~~~vH~~~~g  268 (372)
                      ..  +   +....++...  ...++++||||+++||+ +|+||++++|+++++
T Consensus       174 ~~~~d~~~~~~~~~~~~~~~~~~~~~~~NWk~~~EN~~~D~yH~~~~H~~~~~  226 (470)
T 2b1x_A          174 KFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVE  226 (470)
T ss_dssp             HHHHHHHHCSSSSCEEECSCCEEEEESSCTHHHHHHHHHCCTTHHHHTHHHHH
T ss_pred             hHHHHHHhccCCCCeEEEeeeEEEEeccCHhhhhhccccccCcccccChhhhh
Confidence            00  0   0012233322  23457899999999999 999999999999764

>1uli_A Biphenyl dioxygenase large subunit; alpha3 BETA3 hetero hexamer, oxidoreductase; 2.20A {Rhodococcus SP} SCOP: b.33.1.2 d.129.3.3 PDB: 1ulj_A* 3en1_A* 3eqq_A

Probab=100.00  E-value=6.4e-38  Score=319.57  Aligned_cols=193  Identities=15%  Similarity=0.191  Sum_probs=153.4

Q ss_pred             cccccCCccccccCCCCCCCceeecccceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCC
Q 017387           67 EKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (372)
Q Consensus        67 ~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~  145 (372)
                      .++|.++|+|++++++|++.+|  .+.|++||+++||++ |+++.+.++|++|+|+|+ .+|+++||.|+|||||++|+.
T Consensus        31 ~~~p~~~y~d~~~~~~E~~~if--~~~W~~v~~~~el~~~g~~~~~~i~~~~vvv~R~-~~G~v~a~~n~CpHrga~L~~  107 (460)
T 1uli_A           31 GRLDPRIYTDEALYEQELERIF--GRSWLLMGHETQIPKAGDFMTNYMGEDPVMVVRQ-KNGEIRVFLNQCRHRGMRICR  107 (460)
T ss_dssp             TEECGGGGTCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESCCTTTCCCSCC
T ss_pred             CcCCHHHcCCHHHHHHHHHHhh--hcCceEEEEHHHCCCCCCeEEEEECCeEEEEEEc-CCCCEEEEeeeCCCCCCCCcc
Confidence            4789999999999999998877  999999999999984 888999999999999998 899999999999999999999


Q ss_pred             CccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCC
Q 017387          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLP  225 (372)
Q Consensus       146 G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p  225 (372)
                      |..+.++.|+||||||+||++|+|+.+|......+.   +++.+.+|++|+|++++|+|||++++++. .+++++++ +.
T Consensus       108 g~~g~~~~i~CpyHgw~fd~~G~~~~~P~~~~~~~~---~~~~~~~L~~~~v~~~~G~V~v~~~~~~p-~l~~~l~~-~~  182 (460)
T 1uli_A          108 ADGGNAKSFTCSYHGWAYDTGGNLVSVPFEEQAFPG---LRKEDWGPLQARVETYKGLIFANWDADAP-DLDTYLGE-AK  182 (460)
T ss_dssp             SSEEECSCEECTTTCCEECTTCCEEECTTHHHHCTT---CCGGGSSCCEEEEEEETTEEEEECCTTSC-CHHHHHTT-HH
T ss_pred             ccCCCCCEEEcCCCCCEEeCCCCEeeCCccccccCC---CCHhHcCCceeeEEEECCEEEEEeCCCCC-CHHHHhcc-hH
Confidence            987545799999999999999999999975421111   22456789999999999999999987643 22222221 11


Q ss_pred             CC----CCC--CCcceE--EEeeeccchhhhhhccC-CCCCcc-cccccccc
Q 017387          226 DA----FDK--PEFSSV--TIQRDLFYGYDTLMENV-SDPSHI-DFAHHKVT  267 (372)
Q Consensus       226 ~~----~~~--~~~~~~--~~~~~~~~nwk~~~EN~-lD~~H~-~~vH~~~~  267 (372)
                      ..    ++.  .++..+  ...++++||||+++||+ +|+||+ .++|...+
T Consensus       183 ~~l~~~~~~~~~~~~~~~~~~~~~~~~Nwk~~~EN~~~D~yH~~~~~H~~~~  234 (460)
T 1uli_A          183 FYMDHMLDRTEAGTEAIPGIQKWVIPCNWKFAAEQFCSDMYHAGTTSHLSGI  234 (460)
T ss_dssp             HHHHHHHCSSTTCEEECSCCEEEEECSCHHHHHHHHHHBHHHHHTTTTHHHH
T ss_pred             HHHHHHhhcCCCceEEEeeEEEEEeccCHHHHHhhcCCCCCCchhhhhhhcc
Confidence            01    111  112221  22457899999999999 799999 69998655

>2i7f_A Ferredoxin component of dioxygenase; rieske ferredoxin, oxidoreductase; HET: CIT; 1.90A {Sphingobium yanoikuyae}

Probab=99.94  E-value=7.6e-28  Score=198.55  Aligned_cols=102  Identities=21%  Similarity=0.329  Sum_probs=93.1

Q ss_pred             cceeeeeeccCCCCCCcchhhcccc-eEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRD-LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCT  170 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~-lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~  170 (372)
                      .|+.|+.++||++|+++.++++|++ |+|+|+  +|+++|++|+|||||++|+.|.++ ++.|+||||||+||+ +|+|+
T Consensus         3 ~w~~v~~~~~l~~g~~~~~~~~g~~~v~v~r~--~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~Cp~Hg~~Fdl~tG~~~   79 (108)
T 2i7f_A            3 NKLRLCQVASVKDGEPVAVYQEKMPALAVYNV--DGEVFVTDNLCTHGNAMLTDGYQD-GTIIECPFHGGSFDIATGAAK   79 (108)
T ss_dssp             CEEEEEEGGGCBTTBCEEECCTTSSCEEEEEE--TTEEEEEESBCSSSSCBGGGSEEE-TTEEECSSTTCEEETTTCCBC
T ss_pred             ccEEEEEHhHcCCCCeEEEEECCeeEEEEEEE--CCEEEEEeCcCCCCCCCCCCCEEe-CCEEEcCCCCCEEeCCCcCEe
Confidence            5999999999999999999999999 999997  899999999999999999999886 679999999999998 99999


Q ss_pred             ccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      ..|..              .+|++|+|++++|+|||+++++
T Consensus        80 ~~P~~--------------~~L~~~~v~~~~g~v~v~~~~~  106 (108)
T 2i7f_A           80 AFPCQ--------------IPIKTYPVTIEDGWVCIDQPKE  106 (108)
T ss_dssp             STTCC--------------SCCCEECEEEETTEEEEECC--
T ss_pred             CCCCC--------------CCccEEeEEEECCEEEEeCCCC
Confidence            87742              3589999999999999999865

>3dqy_A Toluene 1,2-dioxygenase system ferredoxin subunit; rieske, iron-sulfur cluster, 2Fe-2S, aromatic hydrocarbons catabolism, electron transport; 1.20A {Pseudomonas putida} SCOP: b.33.1.0 PDB: 4emj_B*

Probab=99.94  E-value=8.5e-28  Score=197.61  Aligned_cols=102  Identities=22%  Similarity=0.291  Sum_probs=94.2

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCcccc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR  171 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~  171 (372)
                      +|+.|+.++||++|+++.++++|++|+|+|.  +|+++|++|+|||||++|+.|.++ ++.|+||||||+||+ +|+|+.
T Consensus         1 ~W~~v~~~~~l~~g~~~~~~~~g~~i~v~r~--~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~Cp~Hg~~Fdl~~G~~~~   77 (106)
T 3dqy_A            1 TWTYILRQGDLPPGEMQRYEGGPEPVMVCNV--DGEFFAVQDTCTHGDWALSDGYLD-GDIVECTLHFGKFCVRTGKVKA   77 (106)
T ss_dssp             CCEEEEEGGGSCTTCEEEECCSSSCEEEEEE--TTEEEEEESBCSSSSCBGGGSEEE-TTEEECTTTCCEEETTTCCEEE
T ss_pred             CcEEEEEHHHCCCCCEEEEEECCEEEEEEEE--CCEEEEEeCcCCCCCCCCcCcEEe-CCEEECCCCCCEEeCCCCCEeC
Confidence            5999999999999999999999999999996  899999999999999999999986 679999999999997 999998


Q ss_pred             cCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      .|..              .+|++|+|++++|.|||++++.
T Consensus        78 ~P~~--------------~~L~~~~v~~~~g~v~v~~~~~  103 (106)
T 3dqy_A           78 LPAC--------------KPIKVFPIKVEGDEVHVDLDNG  103 (106)
T ss_dssp             TTCC--------------SCCCEECEEEETTEEEECGGGC
T ss_pred             CCCC--------------CCccEEEEEEECCEEEEEcccc
Confidence            8752              3589999999999999999764

>2qpz_A Naphthalene 1,2-dioxygenase system ferredoxin subunit; rieske ferredoxin, 2Fe-2S, aromatic hydrocarbons catabolism, electron transport, iron; 1.85A {Pseudomonas putida}

Probab=99.94  E-value=9e-28  Score=196.36  Aligned_cols=101  Identities=19%  Similarity=0.337  Sum_probs=92.9

Q ss_pred             ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccc
Q 017387           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCT  170 (372)
Q Consensus        92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~  170 (372)
                      ..|+.|+.++||++|+++.++++|++|+|+|.  +|+++|++|+|||||++|+.|.++ ++.|+||||||+||+ +|+|+
T Consensus         2 ~~w~~v~~~~~l~~g~~~~~~~~g~~i~v~r~--~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~Cp~Hg~~Fd~~~G~~~   78 (103)
T 2qpz_A            2 VKWIEAVALSDILEGDVLGVTVEGKELALYEV--EGEIYATDNLCTHGSARMSDGYLE-GREIECPLHQGRFDVCTGKAL   78 (103)
T ss_dssp             CCEEEEEETTSCCTTCEEEEEETTEEEEEEEE--TTEEEEEESBCSSSSCBGGGSEEE-TTEEECTTTTCEEETTTCCEE
T ss_pred             CccEEEEEHHHcCCCCEEEEEECCEEEEEEEE--CCEEEEECCcCCCCCCCCCCCeEe-CCEEECCCCCCEEeCCCCCEe
Confidence            36999999999999999999999999999996  899999999999999999999885 689999999999999 99999


Q ss_pred             ccCccccCCcccccccCcccccccCCceeecceEEEecC
Q 017387          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (372)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~  209 (372)
                      ..|..              .+|++|+|++++|.|||+++
T Consensus        79 ~~P~~--------------~~L~~~~v~~~~g~v~v~~~  103 (103)
T 2qpz_A           79 CAPVT--------------QNIKTYPVKIENLRVMIDLS  103 (103)
T ss_dssp             ETTCC--------------SCCCEECEEEETTEEEEECC
T ss_pred             CCCCC--------------CCCCEEeEEEECCEEEEEcC
Confidence            87742              35899999999999999874

>1fqt_A Rieske-type ferredoxin of biphenyl dioxygenase; 2Fe-2S cluster, beta sandwich, oxido; 1.60A {Burkholderia xenovorans} SCOP: b.33.1.1 PDB: 2e4q_A 2e4p_A 2yvj_B*

Probab=99.94  E-value=1.6e-27  Score=197.94  Aligned_cols=104  Identities=18%  Similarity=0.226  Sum_probs=94.8

Q ss_pred             ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCC-ccCCCCceeeeeeceeecC-CCcc
Q 017387           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEG-RIDENGHLQCSYHGWSFDG-CGSC  169 (372)
Q Consensus        92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G-~v~~~~~i~CPyHGw~Fd~-dG~c  169 (372)
                      ..|+.|+.++||++|+++.++++|++|+|+|+  +|+++|++|+|||||++|+.| .++ ++.|+||||||+||+ +|+|
T Consensus         4 ~~w~~v~~~~~l~~g~~~~~~~~g~~i~v~r~--~g~~~A~~n~CpH~g~~L~~g~~~~-~~~i~CP~Hg~~Fd~~tG~~   80 (112)
T 1fqt_A            4 MKFTRVCDRRDVPEGEALKVESGGTSVAIFNV--DGELFATQDRCTHGDWSLSDGGYLE-GDVVECSLHMGKFCVRTGKV   80 (112)
T ss_dssp             CCCEEEEEGGGSCTTCEEEEEETTEEEEEEEE--TTEEEEEESBCTTSSCBSSTTCCEE-TTEEECTTTCCEEETTTCCE
T ss_pred             cceEEeEeHHHCCCCCeEEEEECCEEEEEEEE--CCEEEEEECCCCCCCcCCCCCCEEc-CCEEECCCCCCEEeCCCCcE
Confidence            36999999999999999999999999999997  899999999999999999999 775 679999999999999 8999


Q ss_pred             cccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      +..|..              .+|++|+|++++|+|||+++++.
T Consensus        81 ~~~P~~--------------~~L~~~~v~~~~g~v~v~~~~~~  109 (112)
T 1fqt_A           81 KSPPPC--------------EALKIFPIRIEDNDVLVDFEAGY  109 (112)
T ss_dssp             EESSCC--------------SCCCBCCEEEETTEEEECTTCCB
T ss_pred             eCCCCC--------------CCccEEEEEEECCEEEEEecccc
Confidence            988742              35899999999999999998653

>1vm9_A Toluene-4-monooxygenase system protein C; structural genomics, CESG, protein structure initiative, PSI, ferredoxin, FES, [2Fe-2S] cluster; 1.48A {Pseudomonas mendocina} SCOP: b.33.1.1 PDB: 2q3w_A 1sjg_A

Probab=99.94  E-value=1.7e-27  Score=197.35  Aligned_cols=103  Identities=21%  Similarity=0.411  Sum_probs=93.8

Q ss_pred             cceeeeeeccCCCCCCcchhh-cccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCC-Cccc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQL-LGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC-GSCT  170 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~-~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~d-G~c~  170 (372)
                      .|+.|+.++||++|+++.+++ +|++|+|+|+ .+|+++|++|+|||||++|+.|.++ ++.|+||||||+||++ |+|+
T Consensus         1 ~W~~v~~~~~l~~g~~~~~~~~~g~~v~v~r~-~~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~Cp~Hg~~Fd~~tG~~~   78 (111)
T 1vm9_A            1 SFEKICSLDDIWVGEMETFETSDGTEVLIVNS-EEHGVKAYQAMCPHQEILLSEGSYE-GGVITCRAHLWTFNDGTGHGI   78 (111)
T ss_dssp             CCEEEEEGGGSCTTCEEEEECTTCCEEEEEEE-TTTEEEEEESBCSSSSCBGGGSEEE-TTEEECTTTCCEEETTTCBBS
T ss_pred             CcEEEEEHHHCCCCCeEEEEEcCCCEEEEEEe-CCCeEEEEeCcCCCCCcCCCCceEc-CCEEEcCCCCCEEeCCCccCC
Confidence            599999999999999999999 9999999998 7999999999999999999999886 6799999999999995 9999


Q ss_pred             ccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      . |.              ...|++|+|++++|+|||++++++
T Consensus        79 ~-p~--------------~~~L~~~~v~~~~g~v~v~~~~~~  105 (111)
T 1vm9_A           79 N-PD--------------DAALAEYPVEVKGDDIYVSTKGIL  105 (111)
T ss_dssp             S-SS--------------SCBCCEECEEEETTEEEECCTTCC
T ss_pred             C-CC--------------cCCcCEEEEEEECCEEEEeccCcC
Confidence            7 42              236899999999999999998653

>2de6_D Ferredoxin component of carbazole; electron transfer complex, rieske non-heme iron oxygenase system, terminal oxygenase; 1.80A {Pseudomonas resinovorans} PDB: 2de5_D 1vck_A 2de7_D*

Probab=99.94  E-value=1e-27  Score=200.24  Aligned_cols=105  Identities=25%  Similarity=0.468  Sum_probs=94.6

Q ss_pred             cccceeeeeeccCCCCCCcchhhccc-ceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCc
Q 017387           91 RDHWYPVSLVEDLDPNLPTAFQLLGR-DLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGS  168 (372)
Q Consensus        91 ~~~W~~V~~~~eL~~g~~~~~~~~g~-~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~  168 (372)
                      .+.|++|+.++||++|+++.++++|+ +|+|+|+  +|+++|++|+|||||++|+.|.+. ++.|+||||||+||+ +|+
T Consensus         2 ~~~w~~v~~~~el~~g~~~~~~~~g~~~v~v~r~--~g~~~A~~n~CpH~g~~L~~g~~~-~~~i~CP~Hg~~Fdl~tG~   78 (115)
T 2de6_D            2 NQIWLKVCAASDMQPGTIRRVNRVGAAPLAVYRV--GDQFYATEDTCTHGIASLSEGTLD-GDVIECPFHGGAFNVCTGM   78 (115)
T ss_dssp             --CCEEEEEGGGCCTTEEEEEEETTEEEEEEEEE--TTEEEEEESBCTTSSCBGGGSEEE-TTEEECTTTCCEEETTTCC
T ss_pred             CcceEEeEEHHHCCCCCeEEEEECCccEEEEEEE--CCEEEEEeCCCCCCCCCCcCCEEe-CCEEECCCCCCEEcCCCcC
Confidence            36799999999999999999999999 9999997  899999999999999999999886 689999999999998 999


Q ss_pred             ccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |+..|..              .+|++|+|++++|+|||+++++.
T Consensus        79 ~~~~P~~--------------~~L~~~~v~~~~g~V~v~~~~~~  108 (115)
T 2de6_D           79 PASSPCT--------------VPLGVFEVEVKEGEVYVAGEKKL  108 (115)
T ss_dssp             EEETTCC--------------SCCCEEEEEESSSEEEEEEEEC-
T ss_pred             EeCCCCc--------------CCCCEEEEEEECCEEEEecCCcc
Confidence            9988742              35899999999999999997653

>2jza_A Nitrite reductase [NAD(P)H] small subunit; ISP domain, rieske iron-sulfur protein, 3-layer beta- sandwich; NMR {Pectobacterium atrosepticum SCRI1043} SCOP: b.33.1.3

Probab=99.94  E-value=5.3e-27  Score=200.18  Aligned_cols=104  Identities=16%  Similarity=0.221  Sum_probs=93.8

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCC-ceEEcccCCCcccc-CCCCCccCC--C-CceeeeeeceeecC-C
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSN-KWVAFDDKCPHRLA-PLSEGRIDE--N-GHLQCSYHGWSFDG-C  166 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G-~v~A~~n~CpHRga-~Ls~G~v~~--~-~~i~CPyHGw~Fd~-d  166 (372)
                      .|+.||.++||++|+++.++++|++|+|+|+ .+| +++|+.|+|||||+ +|+.|.+.+  + ..|+||||||+||+ +
T Consensus         3 ~w~~v~~~~el~~g~~~~~~~~g~~i~v~r~-~~g~~v~A~~n~CpH~g~~~L~~G~~~~~~g~~~i~CP~Hg~~Fdl~t   81 (130)
T 2jza_A            3 QWTTVCKLDDILPGTGVCALVEQQQIAVFRP-RNDEQVYAISNIDPFAQASVLSRGIVAEHQDDLWVASPLKKQHFRLYD   81 (130)
T ss_dssp             SEEEEEETTTSCTTBCCEEEETTEEEEEEBC-SSSSCCEEEBCCCTTTSSGGGTSSEEEESSSSEEEECSSSCCEEETTT
T ss_pred             ceEEEEEHHHCCCCCeEEEEECCcEEEEEEE-CCCCEEEEEeCcCCCCCCCcCCCccCcccCCCeEEECCCCCCEEeCCC
Confidence            6999999999999999999999999999997 678 89999999999999 599998752  2 38999999999999 9


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |+|+..|.               .+|++|+|++++|+|||++++++
T Consensus        82 G~~~~~P~---------------~~L~~~~v~v~~g~V~V~~~~~~  112 (130)
T 2jza_A           82 GFCLEDGA---------------YSVAAYDTQVTNGNVQISIADSD  112 (130)
T ss_dssp             CCBSSCCS---------------SCCBCCCEEESSSEEEEECCCCC
T ss_pred             cCCCCCCc---------------CcceEEEEEEECCEEEEEeCCCC
Confidence            99998774               35899999999999999998765

>3gce_A Ferredoxin component of carbazole 1,9A- dioxygenase; rieske ferredoxin, 2Fe-2S, electron transfer, oxidoreductase; 2.00A {Nocardioides aromaticivorans}

Probab=99.93  E-value=5.6e-27  Score=197.59  Aligned_cols=103  Identities=25%  Similarity=0.402  Sum_probs=93.1

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCC--ccCCCCceeeeeeceeecC-CCcc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEG--RIDENGHLQCSYHGWSFDG-CGSC  169 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G--~v~~~~~i~CPyHGw~Fd~-dG~c  169 (372)
                      .|++|+.++||++|+++.++++|++|+|+|+  +|+++|++|+|||||++|+.|  .+. ++.|+||||||+||+ +|+|
T Consensus        10 ~w~~v~~~~el~~g~~~~~~~~g~~v~v~r~--~g~~~A~~n~CpH~g~~L~~G~~~~~-~~~i~CP~Hg~~Fdl~tG~~   86 (121)
T 3gce_A           10 TPVRVATLDQLKPGVPTAFDVDGDEVMVVRD--GDSVYAISNLCSHAEAYLDMGVFHAE-SLEIECPLHVGRFDVRTGAP   86 (121)
T ss_dssp             CCEEEEEGGGSCTTCCEEEEETTEEEEEEEE--TTEEEEEESBCSSSSCBGGGSEEETT-TTEEECTTTCCEEETTTCCE
T ss_pred             CcEEEEEHHHCCCCCEEEEEECCEEEEEEEE--CCEEEEEeCcCCCCCCCCCCCceeec-CCEEEcCCCCCEEcCCCccE
Confidence            5999999999999999999999999999997  899999999999999999999  775 689999999999997 9999


Q ss_pred             cccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      +..|..              .+|++|+|++++|.|||+++.+.
T Consensus        87 ~~~P~~--------------~~L~~~~v~v~~g~V~v~~~~~~  115 (121)
T 3gce_A           87 TALPCV--------------LPVRAYDVVVDGTEILVAPKEAD  115 (121)
T ss_dssp             EETTCC--------------SCCCBCCEEEETTEEEECCC---
T ss_pred             eCCCCc--------------CCcceEEEEEECCEEEEEECccc
Confidence            988752              35899999999999999998764

>2jo6_A Nitrite reductase [NAD(P)H] small subunit; all beta, ISP domain, rieske iron-sulfur protein, 3-layer sandwich, structural genomics, PSI-2; NMR {Escherichia coli} SCOP: b.33.1.3

Probab=99.93  E-value=5e-27  Score=195.16  Aligned_cols=101  Identities=18%  Similarity=0.266  Sum_probs=91.7

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCC-ceEEcccCCCcccc-CCCCCccCC-CC--ceeeeeeceeecC-C
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSN-KWVAFDDKCPHRLA-PLSEGRIDE-NG--HLQCSYHGWSFDG-C  166 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G-~v~A~~n~CpHRga-~Ls~G~v~~-~~--~i~CPyHGw~Fd~-d  166 (372)
                      .|+.|+.++||++|+++.++++|++|+|||+ .+| +++|++|+|||||+ +|+.|.+.+ ++  .|+||||||+||+ +
T Consensus         6 ~w~~v~~~~el~~g~~~~~~~~g~~i~v~r~-~~g~~~~A~~n~CpH~g~~~L~~G~~~~~~g~~~i~CP~Hg~~Fd~~t   84 (113)
T 2jo6_A            6 QWKDICKIDDILPETGVCALLGDEQVAIFRP-YHSDQVFAISNIDPFFESSVLSRGLIAEHQGELWVASPLKKQRFRLSD   84 (113)
T ss_dssp             CCEEEEETTTSCTTEEEEEEETTEEEEEEEC-SSSSCCEEEESSCSSSCCSCSTTSEEEEETTEEEEEETTTTEEEETTT
T ss_pred             hheEEeeHHHCCCCCeEEEEECCEEEEEEEE-CCCCEEEEEeCcCCCCCCcccCCeEEeccCCCcEEECCCCCCEEeCCC
Confidence            5999999999999999999999999999998 799 69999999999999 799998752 23  7999999999999 9


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEecC
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~  209 (372)
                      |+|+..|.               .+|++|+|++++|+|||+++
T Consensus        85 G~~~~~P~---------------~~l~~~~v~v~~g~V~v~~~  112 (113)
T 2jo6_A           85 GLCMEDEQ---------------FSVKHYEARVKDGVVQLRGG  112 (113)
T ss_dssp             TEETTTTT---------------TCCCEEEEEEETTEEEEECC
T ss_pred             ccCCCCCc---------------ccccEEeEEEECCEEEEEcC
Confidence            99998773               35899999999999999985

>4aiv_A Probable nitrite reductase [NAD(P)H] small subuni; oxidoreductase, nitrite metabolism; 2.00A {Mycobacterium tuberculosis}

Probab=99.93  E-value=5.9e-27  Score=197.10  Aligned_cols=104  Identities=19%  Similarity=0.208  Sum_probs=88.9

Q ss_pred             cccceeeeeeccCCCCCCcchhh-cccceEEEEeCCCCceEEcccCCCccccCCCCCccCC----CCceeeeeeceeecC
Q 017387           91 RDHWYPVSLVEDLDPNLPTAFQL-LGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE----NGHLQCSYHGWSFDG  165 (372)
Q Consensus        91 ~~~W~~V~~~~eL~~g~~~~~~~-~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~----~~~i~CPyHGw~Fd~  165 (372)
                      .++|++||.++||++|..+.+.+ +|++|+|||+ .+|+++|++|+|||||++|+.|.+.+    +..|+||||||+||+
T Consensus         7 ~~~W~~Vc~~~dL~~g~~~~~~~~~G~~v~l~r~-~dG~v~A~~n~CpH~ga~L~~~~~~~~~~~~~~i~CP~Hg~~Fdl   85 (119)
T 4aiv_A            7 IQVWTTACAYDHLIPGRGVGVLLDDGSQVALFRL-DDGSVHAVGNVDPFSGAAVMSRGIVGDRGGRAMVQSPILKQAFAL   85 (119)
T ss_dssp             EEEEEEEEEGGGSCTTCCEEEECTTSCEEEEEEC-TTSCEEEEESBCTTTCCBCGGGSEEEEETTEEEEECTTTCCEEET
T ss_pred             ccceeEeeEHHHcCCCCceEEEEcCCcEEEEEEc-CCCeEEEEECCCCCCCCccccCceeccccCCCEEECCCCCCEEeC
Confidence            35799999999999998888877 4799999998 79999999999999999998876532    235999999999997


Q ss_pred             -CCcccccCccccCCcccccccCcccccccCCcee-ecceEEEecCC
Q 017387          166 -CGSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFVWPDE  210 (372)
Q Consensus       166 -dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~I~V~~~~  210 (372)
                       +|+|+..|.               .+|++|||++ .+|.|||.+.+
T Consensus        86 ~tG~~~~~p~---------------~~l~~ypv~ve~dG~V~V~~~a  117 (119)
T 4aiv_A           86 DDGSCLDDPR---------------VSVPVYPARVTPEGRIQVARVA  117 (119)
T ss_dssp             TTCBBSSCTT---------------CBCCEECEEECTTSEEEEEEEE
T ss_pred             CCCcCcCCCC---------------CccceEEEEEEeCCEEEEecCC
Confidence             899997663               3589999985 48999998753

>3d89_A Rieske domain-containing protein; CAsp target, rieske ferredoxin, [2Fe-2S] cluster, protein ST initiative, PSI; 2.07A {Mus musculus}

Probab=99.93  E-value=1e-27  Score=210.80  Aligned_cols=117  Identities=21%  Similarity=0.321  Sum_probs=96.7

Q ss_pred             cccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCC--C-CceeeeeeceeecC-C
Q 017387           91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE--N-GHLQCSYHGWSFDG-C  166 (372)
Q Consensus        91 ~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~--~-~~i~CPyHGw~Fd~-d  166 (372)
                      .+.|+.||.++||++|+++.++++|++|+|+|.  +|+++|+.|+|||||++|+.|.+.+  + +.|+||||||+||+ +
T Consensus        14 ~~~W~~v~~~~el~~g~~~~~~~~g~~i~v~r~--~G~v~A~~n~CpH~g~~L~~G~~~~~~g~~~i~CP~Hgw~Fdl~t   91 (157)
T 3d89_A           14 KYTSVCVGREEDIRKSERMTAVVHDREVVIFYH--KGEYHAMDIRCYHSGGPLHLGEIEDFNGQSCIVCPWHKYKITLAT   91 (157)
T ss_dssp             CCSCEEEEEHHHHHHHSEEEEEETTEEEEEEEE--TTEEEEEESBCTTTCCBGGGSEEEEETTEEEEECTTTCCEEETTT
T ss_pred             CCceEEEEEHHHCCCCCeEEEEECCEEEEEEEE--CCEEEEEeCCCCCCCCCCcCCEecCcCCCCEEECCCCCCEEecCC
Confidence            678999999999988899999999999999996  8999999999999999999998752  1 58999999999999 9


Q ss_pred             Ccccc--c-CccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          167 GSCTR--I-PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       167 G~c~~--i-P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |+|+.  + |......+   ...+...+|++|+|++++|+|||++++++
T Consensus        92 G~~~~~~i~P~~~~~~~---~~~~~~~~L~~~~v~v~~G~V~V~~~~~~  137 (157)
T 3d89_A           92 GEGLYQSINPKDPSAKP---KWCSKGVKQRIHTVKVDNGNIYVTLSKEP  137 (157)
T ss_dssp             CEEEEEECCCC-----C---EEEEEEECSCEEEEEEETTEEEEECCCCS
T ss_pred             cCEEEeccCCCcccccc---ccccccCcceEEEEEEECCEEEEEeCCCC
Confidence            99986  3 64211000   00123467999999999999999998754

>3c0d_A Putative nitrite reductase NADPH (small subunit) oxidoreductase protein; NESG, VPR162, Q87HB1, XRAY, structure; 2.40A {Vibrio parahaemolyticus rimd 2210633} SCOP: b.33.1.3

Probab=99.93  E-value=5.7e-27  Score=196.93  Aligned_cols=104  Identities=16%  Similarity=0.202  Sum_probs=94.4

Q ss_pred             ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCcccc-CCCCCccCCC---CceeeeeeceeecC-C
Q 017387           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA-PLSEGRIDEN---GHLQCSYHGWSFDG-C  166 (372)
Q Consensus        92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga-~Ls~G~v~~~---~~i~CPyHGw~Fd~-d  166 (372)
                      ..|+.|+.++||++|+++.++++|++|+|||+ .+|+++|++|+|||||+ +|+.|.+.++   ..|+||||||+||+ +
T Consensus         4 ~~w~~v~~~~el~~g~~~~~~~~g~~v~v~r~-~~G~~~A~~n~CpH~g~~~L~~G~~~~~~g~~~i~CP~Hg~~Fdl~t   82 (119)
T 3c0d_A            4 LTKVKLCQLDDLMPFIGATVLIEGERVALFYI-PDSGVYAVQDWDPIGKAYVMSRGIVGDINGEMCVASPLYKQHFSLKS   82 (119)
T ss_dssp             CCEEEEEEGGGSCBTCCEEEEETTEEEEEEEE-TTTEEEEEESEETTTTEECGGGSEEEESSSSEEEECTTTCCEEETTT
T ss_pred             CccEEEEEHHHCCCCCeEEEEECCeEEEEEEe-cCCeEEEEeCCCCCCCCccCCCeEEcCCCCCeEEECCCCCCEEECCC
Confidence            57999999999999999999999999999998 79999999999999999 8999988521   28999999999999 9


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      |+|+..|.               .+|++|+|++++|.|||++++.
T Consensus        83 G~~~~~P~---------------~~l~~~~v~v~~g~V~v~~~~~  112 (119)
T 3c0d_A           83 GQCLEDEA---------------HCLKTWRVTVDDNQVCYLAKEL  112 (119)
T ss_dssp             CBBSSCTT---------------CBCCEECEEESSSEEEEECCCC
T ss_pred             CcCCCCCC---------------ceeeEEEEEEECCEEEEEeCCc
Confidence            99998773               2589999999999999999765

>1rie_A Rieske iron-sulfur protein; oxidoreductase, cytochrome BC1 complex, histidine ligands, rieske iron-sulfur cluster, electron transport; 1.50A {Bos taurus} SCOP: b.33.1.1

Probab=99.84  E-value=1.3e-21  Score=166.73  Aligned_cols=97  Identities=20%  Similarity=0.285  Sum_probs=86.5

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCC--------------------------CCceEEcccCCCccccCCCCC
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN--------------------------SNKWVAFDDKCPHRLAPLSEG  146 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~--------------------------~G~v~A~~n~CpHRga~Ls~G  146 (372)
                      .|..| ..++|++|+.+.+.+.|++|+|+|. .                          +|+++|+.|+|||+|++|+.|
T Consensus         5 ~~~~v-~~s~l~~G~~~~v~~~g~pv~v~r~-~~~~~~~~~~~~~~~l~dp~~~~~r~~~g~~~a~~~~C~H~g~~l~~g   82 (129)
T 1rie_A            5 SKIEI-KLSDIPEGKNMAFKWRGKPLFVRHR-TKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIAN   82 (129)
T ss_dssp             SSEEE-EGGGSCTTCEEEEEETTEEEEEEEC-CHHHHHHHHTCCGGGCSSCCCGGGTCSSTTEEEEECCCTTTSCCCEET
T ss_pred             CceEe-eHHHCCCCCEEEEEECCeEEEEEEC-CHHHHhhhhccccceecCcccccccccCCeEEEEECccCCCCeecccc
Confidence            56777 8999999999999999999999995 4                          899999999999999999999


Q ss_pred             ccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCcee-ecceEEE
Q 017387          147 RIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFV  206 (372)
Q Consensus       147 ~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~I~V  206 (372)
                      ... ++.|+||||||+||.+|+|+..|..              ..|++|++++ ++|.|+|
T Consensus        83 ~~~-~~~i~CP~Hg~~fd~~G~~~~~P~~--------------~~l~~~~v~v~~~~~v~v  128 (129)
T 1rie_A           83 AGD-FGGYYCPCHGSHYDASGRIRKGPAP--------------LNLEVPSYEFTSDDMVIV  128 (129)
T ss_dssp             CTT-TEEEEETTTTEEEETTCCEEESSCC--------------SCCCCCCEEESSSSEEEE
T ss_pred             cCC-CCEEEcCCCCCEEcCCCCEeeCCCC--------------CCCCceeEEEEeCCEEEE
Confidence            875 5789999999999999999987742              2488999999 8999987

>1rfs_A Rieske protein; iron-sulfur protein, electron transport; 1.83A {Spinacia oleracea} SCOP: b.33.1.1 PDB: 1q90_C*

Probab=99.84  E-value=6.3e-22  Score=170.73  Aligned_cols=102  Identities=17%  Similarity=0.188  Sum_probs=87.8

Q ss_pred             cccceeeee-eccCCCCCCcchh-hcccceEEEEeCCCCce--EEcccCCCccccCCCCCccCCCCceeeeeeceeecCC
Q 017387           91 RDHWYPVSL-VEDLDPNLPTAFQ-LLGRDLVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC  166 (372)
Q Consensus        91 ~~~W~~V~~-~~eL~~g~~~~~~-~~g~~lvl~R~~~~G~v--~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~d  166 (372)
                      ...|+.++. .+||++|..+.+. +.|++++++|+ .+|++  +|++|+|||||++|+.|..  ++.|+||||||+||.+
T Consensus        19 ~g~~i~v~~~~~dlp~g~~~~~~~~~g~~~ilv~~-~~G~i~~~A~~n~CpH~g~~L~~g~~--~~~i~CP~Hg~~Fd~t   95 (139)
T 1rfs_A           19 LGNDVIAAEWLKTHAPGDRTLTQGLKGDPTYLVVE-SDKTLATFGINAVCTHLGCVVPFNAA--ENKFICPCHGSQYNNQ   95 (139)
T ss_dssp             TSCBCBHHHHHHHSCTTCEEEEECGGGCEEEEEBC-TTSSBCSEEEECBCTTTCCBCCEETT--TTEEECTTTCCEEETT
T ss_pred             CCCEEEeehhHhhCCCCccEEEEecCCCeEEEEEe-CCCcEEEEEEeCcCCCCCCCCccCCC--CCEEEcCCCCCEECCC
Confidence            457888888 8999986665554 67888888888 79999  9999999999999998873  5799999999999999


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEecC
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~  209 (372)
                      |+|+..|..              ..|++|+|++++|.|||.+-
T Consensus        96 G~~~~~P~~--------------~~L~~~~v~v~~g~V~V~~~  124 (139)
T 1rfs_A           96 GRVVRGPAP--------------LSLALAHCDVDDGKVVFVPW  124 (139)
T ss_dssp             CCEEESSCC--------------SCCCEEEEEEETTEEEEEEC
T ss_pred             CCCccCCCC--------------CCCCEEEEEEECCEEEEEeC
Confidence            999988742              35899999999999999874

>1g8k_B Arsenite oxidase; molybdopterin, [3Fe-4S] cluster, [2Fe-2S] rieske, oxidoreductase; HET: MGD; 1.64A {Alcaligenes faecalis} SCOP: b.33.1.1 PDB: 1g8j_B*

Probab=99.82  E-value=4.6e-21  Score=164.05  Aligned_cols=98  Identities=21%  Similarity=0.189  Sum_probs=85.7

Q ss_pred             cceeeeeeccCCCCCCcchhhc--ccceEEEEeCC---------CCceEEcccCCCccccCCCCCccCCCCceeeeeece
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLL--GRDLVLWFDNN---------SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGW  161 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~--g~~lvl~R~~~---------~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw  161 (372)
                      -|+.||.++||++|+++.+++.  |++++|+|. .         +|+++|+.|+|||+|++|+.+ . .++.|+||||||
T Consensus         7 p~~~v~~~~dl~~g~~~~~~~~~~g~~v~v~r~-~~~~~~~~~~~g~~~A~~n~CpH~g~~L~~~-~-~~~~i~CP~Hg~   83 (133)
T 1g8k_B            7 PATAVSVAKNLAANEPVSFTYPDTSSPCVAVKL-GAPVPGGVGPDDDIVAYSVLCTHMGCPTSYD-S-SSKTFSCPCHFT   83 (133)
T ss_dssp             CCEEEEEGGGCCBTCCEEEECSSTTSEEEEEEC-SSCCTTCBTTTTCEEEEECBCTTTCCBCEEE-T-TTTEEECTTTCC
T ss_pred             CceeEEEHHHCCCCCeEEEEecCCCceEEEEEc-cccccccccCCCEEEEEeCcCCCCCCCCCcc-c-CCCEEECCCCCC
Confidence            5899999999999999998885  899999997 5         899999999999999999974 3 357999999999


Q ss_pred             eecC--CCcccccCccccCCcccccccCcccccccCCceee--cceEEEe
Q 017387          162 SFDG--CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS--QGLLFVW  207 (372)
Q Consensus       162 ~Fd~--dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~I~V~  207 (372)
                      +||.  +|+|+..|..              ..|++|+++++  +|.|||.
T Consensus        84 ~Fd~~~~G~~~~gP~~--------------~~L~~~~v~v~~~g~~V~v~  119 (133)
T 1g8k_B           84 EFDAEKAGQMICGEAT--------------ADLPRVLLRYDAASDALTAV  119 (133)
T ss_dssp             EEEGGGTTEEEESSCS--------------SCCCEEEEEEETTTTEEEEE
T ss_pred             EECCCCCCCEEcCCCC--------------CCCCEEEEEEECCCCEEEEE
Confidence            9999  8999987742              24889999998  6789984

>3azc_A Cytochrome B6-F complex iron-sulfur subunit; rieske, thermosynechococcus elongatu photosynthesis, electron transport; 2.00A {Thermosynechococcus elongatus}

Probab=99.68  E-value=2.8e-21  Score=165.33  Aligned_cols=103  Identities=16%  Similarity=0.186  Sum_probs=81.9

Q ss_pred             ccceee-eeeccCCCCCCcchh-hcccceEEEEeCCCCc--eEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCC
Q 017387           92 DHWYPV-SLVEDLDPNLPTAFQ-LLGRDLVLWFDNNSNK--WVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCG  167 (372)
Q Consensus        92 ~~W~~V-~~~~eL~~g~~~~~~-~~g~~lvl~R~~~~G~--v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG  167 (372)
                      ..++.+ ...+++++|+...++ +.|.+++++|. .+|+  ++|+.|+|||||++|+.|. . ++.|+||||||+||.+|
T Consensus        14 g~~v~~~~~~~~l~~g~~~~v~~l~g~~~vlv~~-~~G~~~v~A~~n~CpH~g~~L~~g~-~-~~~i~CP~Hg~~Fd~tG   90 (133)
T 3azc_A           14 GNDIKVSEYLAKHLPGDRSLAQGIKGDPTYVIVT-EDHQIANYGLNAVCTHLGCVVPWNV-S-ENKFICPCHGSQYDSTG   90 (133)
Confidence            345544 445677777777665 44555555555 5888  9999999999999999987 3 57999999999999999


Q ss_pred             cccccCccccCCcccccccCcccccccCCcee-ecceEEEecCCc
Q 017387          168 SCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFVWPDEY  211 (372)
Q Consensus       168 ~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~I~V~~~~~  211 (372)
                      +|+..|..              .+|++|+|++ ++|.|||.++.+
T Consensus        91 ~~~~~P~~--------------~~L~~ypv~v~~~g~V~V~~~~e  121 (133)
T 3azc_A           91 KVVRGPAP--------------LSLALVKATVTEDDKLVFTPWTE  121 (133)
Confidence            99988742              3589999999 999999998653

>4aay_B AROB; oxidoreductase, rieske, iron sulfur, molybdopterin; HET: MGD; 2.70A {Rhizobium species}

Probab=99.78  E-value=7.9e-20  Score=163.28  Aligned_cols=99  Identities=22%  Similarity=0.234  Sum_probs=84.5

Q ss_pred             cceeeeeeccCCCCCCcchhhcc--cceEEEEeC--------CCCceEEcccCCCccccCCCCCccCCCCceeeeeecee
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLG--RDLVLWFDN--------NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWS  162 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g--~~lvl~R~~--------~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~  162 (372)
                      -+..||.++||++|+++.+++.|  ++++|+|..        .+|+++|++|+|||||++|+.| . +++.|+||||||+
T Consensus        50 p~~~v~~~~dL~~g~~~~v~~~~~~~pv~v~R~g~~~~~~r~~~G~v~A~~n~CpH~G~~L~~g-~-~~~~i~CP~Hg~~  127 (175)
T 4aay_B           50 PANRLANISELTLNEPLDVAYPDEDAAGVLLKLGTRVEGGVGPDGDIVGFSTICPHKGFPLSYS-A-DNKTFNCPGHFSV  127 (175)
T ss_dssp             CCEEEEEGGGCBBTBCEEEESSSTTSEEEEEECSSCCTTCBTTTTCEEEEECBCTTTCCBCEEE-T-TTTEEECTTTCCE
T ss_pred             CcceEEEHHHCCCCCEEEEEECCCCCEEEEEEcccccccccCCCCEEEEEeCCCCCCCCCCccC-C-CCCEEEcCCCCCE
Confidence            34579999999999999999975  579999951        2899999999999999999998 4 3679999999999


Q ss_pred             ecCC--CcccccCccccCCcccccccCcccccccCCcee-ecceEEEe
Q 017387          163 FDGC--GSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFVW  207 (372)
Q Consensus       163 Fd~d--G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~I~V~  207 (372)
                      ||.+  |+|+..|..              ..|++|++++ .+|.||+-
T Consensus       128 Fd~~~tG~~~~gPa~--------------~~L~~y~v~vd~dG~V~av  161 (175)
T 4aay_B          128 FDPEKGGQQVWGQAT--------------QNLPQYVLRVADNGDIFAE  161 (175)
T ss_dssp             EEGGGTTEEEECSCS--------------SCCCBEEEEECTTSEEEEE
T ss_pred             ECCCCCceEecCCCC--------------CCcCEEEEEEEcCCEEEEE
Confidence            9996  999988752              2488999999 58889864

>1pp9_E Ubiquinol-cytochrome C reductase iron-sulfur SUBU mitochondrial; cytochrome BC1, membrane protein, heme protein, rieske iron protein, cytochrome B, complex III; HET: BHG HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: b.33.1.1 f.23.12.1 PDB: 1bgy_E* 1be3_E* 1l0n_E* 1ntk_E* 1ntm_E* 1ntz_E* 1nu1_E* 1l0l_E* 1ppj_E* 1qcr_E* 1sqb_E* 1sqp_E* 1sqq_E* 1sqv_E* 1sqx_E* 2a06_E* 2fyu_E* 2ybb_E* 1bcc_E* 2bcc_E* ...

Probab=99.72  E-value=4.2e-18  Score=154.68  Aligned_cols=94  Identities=20%  Similarity=0.288  Sum_probs=83.5

Q ss_pred             eeeeccCCCCCCcchhhcccceEEEEeCC--------------------------CCceEEcccCCCccccCCCCCccCC
Q 017387           97 VSLVEDLDPNLPTAFQLLGRDLVLWFDNN--------------------------SNKWVAFDDKCPHRLAPLSEGRIDE  150 (372)
Q Consensus        97 V~~~~eL~~g~~~~~~~~g~~lvl~R~~~--------------------------~G~v~A~~n~CpHRga~Ls~G~v~~  150 (372)
                      .+.+++|++|+.+.+++.|++|+|+|. .                          +|+++|+.|+|||+|++|+.|..+ 
T Consensus        75 ~v~ls~l~~G~~~~v~~~G~pV~V~r~-t~~~i~~~~~~~~~~l~dp~~~~~r~~~ge~~a~~~~CtH~G~~l~~~~~~-  152 (196)
T 1pp9_E           75 EIKLSDIPEGKNMAFKWRGKPLFVRHR-TKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIANAGD-  152 (196)
T ss_dssp             EEEGGGSCTTCEEEEEETTEEEEEEEC-CHHHHHHHHHSCTTTCSSCCCGGGTCSSTTEEEEECCCTTTSCCCEETCST-
T ss_pred             EEEHHHCCCCCeEEEEECCEEEEEEEC-CHHHHhhhhccccccccCcccccccccCCeEEEEECccCCCCeeccccCCC-
Confidence            478999999999999999999999985 2                          799999999999999999998764 


Q ss_pred             CCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCcee-ecceEEE
Q 017387          151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFV  206 (372)
Q Consensus       151 ~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~I~V  206 (372)
                      .+.|.||||||+||.+|+++..|..              ..|..|++++ .+|.|+|
T Consensus       153 ~~~~~CP~HGs~FD~~G~v~~gPa~--------------~~L~~~p~~v~~d~~I~v  195 (196)
T 1pp9_E          153 FGGYYCPCHGSHYDASGRIRKGPAP--------------LNLEVPSYEFTSDDMVIV  195 (196)
T ss_dssp             TSSEEETTTTEEECTTCCEEESSCC--------------SCCCCCCEEEETTTEEEE
T ss_pred             CCEEEeCCCCCEECCCCCCccCCCC--------------CCCcceeEEEEECCEEEE
Confidence            5789999999999999999987742              2488999998 7899987

>3cx5_E Cytochrome B-C1 complex subunit rieske, mitochondrial; complex III, electron transfer complex, cytochrome BC1 complex, mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces cerevisiae} SCOP: b.33.1.1 f.23.12.1 PDB: 1kb9_E* 1kyo_E* 1p84_E* 2ibz_E* 1ezv_E* 3cxh_E*

Probab=99.72  E-value=6.4e-18  Score=152.29  Aligned_cols=97  Identities=14%  Similarity=0.187  Sum_probs=82.6

Q ss_pred             ccceeeeeeccCCCCCCcchhhcccceEEEEeCC--------------------------CCceEEcccCCCccccC-CC
Q 017387           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN--------------------------SNKWVAFDDKCPHRLAP-LS  144 (372)
Q Consensus        92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~--------------------------~G~v~A~~n~CpHRga~-Ls  144 (372)
                      ..|+.| .+++|++|+.+.+++.|++|+|+|. .                          +|+++|+.|+|+|+|+. +.
T Consensus        61 ~~~v~V-~~s~l~~G~~~~v~~~g~pv~v~r~-~~~~i~~~~~~~~~~l~dp~~~~~r~~~g~~~a~~~iCtHlGc~p~~  138 (185)
T 3cx5_E           61 MAKVEV-NLAAIPLGKNVVVKWQGKPVFIRHR-TPHEIQEANSVDMSALKDPQTDADRVKDPQWLIMLGICTHLGCVPIG  138 (185)
T ss_dssp             CCCEEE-EGGGCCTTCEEEEEETTEEEEEEEC-CHHHHHHHHCSCGGGCSSCCCSTTTCSSTTEEEEECCCTTTSCCCEE
T ss_pred             cCcEEE-EHHHCCCCCeEEEEECCeEEEEEEC-CHHHhhhhhhcchhhhcCcccccccccCCeEEEEecccCCCCceecc
Confidence            479999 6999999999999999999999996 3                          58999999999999995 54


Q ss_pred             CCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEE
Q 017387          145 EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFV  206 (372)
Q Consensus       145 ~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V  206 (372)
                      .+ . +.+.|.||||||+||.+|+|+..|..              ..|..+++++.+|.|||
T Consensus       139 ~~-~-~~~~~~CPcHGs~FD~~G~v~~gPa~--------------~~L~v~p~~v~~~~I~v  184 (185)
T 3cx5_E          139 EA-G-DFGGWFCPCHGSHYDISGRIRKGPAP--------------LNLEIPAYEFDGDKVIV  184 (185)
T ss_dssp             EE-T-TTTEEEETTTTEEECTTCCEEESSCC--------------SCCCCCCEEEETTEEEE
T ss_pred             CC-C-CCCEEEcCCCCCEECCCCCEecCCCC--------------CCcceEEEEEECCEEEE
Confidence            43 2 35789999999999999999988742              24777888888999987

>2qjy_C Ubiquinol-cytochrome C reductase iron-sulfur SUBU; cytochrome B, 8 TM helixces cytochrome C1, 1 C-TERM TM helix 1 N-TERM TM helix; HET: BGL HEM SMA LOP UQ2; 2.40A {Rhodobacter sphaeroides} PDB: 2fyn_C* 2qjk_C* 2qjp_C* 1zrt_E* 2yiu_C*

Probab=99.71  E-value=5.3e-18  Score=153.05  Aligned_cols=98  Identities=16%  Similarity=0.280  Sum_probs=81.7

Q ss_pred             ceeeeeeccCCCCCCcchhhcccceEEEEe------------------C---------------------CCCceEEccc
Q 017387           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFD------------------N---------------------NSNKWVAFDD  134 (372)
Q Consensus        94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~------------------~---------------------~~G~v~A~~n  134 (372)
                      |+.| ..++|++|+.+.+++.|++|+|+|.                  +                     .+|+++|+.|
T Consensus        49 ~v~v-~ls~l~~G~~~~v~~~g~pv~i~rrt~~~i~~~~~~~~~~l~dp~~~~~~~p~~~~~~~~~r~~~~~g~~~a~~~  127 (187)
T 2qjy_C           49 SIFV-DVSSVEPGVQLTVKFLGKPIFIRRRTEADIELGRSVQLGQLVDTNARNANIDAGAEATDQNRTLDEAGEWLVMWG  127 (187)
T ss_dssp             CEEE-ECTTCCTTEEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSCCBCCBTTSCTTCBCCGGGGSSSTTCCEEEEEC
T ss_pred             cEEE-EHHHCCCCCeEEEEECCEEEEEEECCHHHhhhhhccchhhccCcccccccccccccccccccccCCCCeEEEEeC
Confidence            5554 7899999999999999999999992                  0                     2799999999


Q ss_pred             CCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceee-cceEEE
Q 017387          135 KCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS-QGLLFV  206 (372)
Q Consensus       135 ~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~-~G~I~V  206 (372)
                      +|||+|++|+.|..+..+.|.||||||+||.+|+|+..|..              ..|..|++++. +|.|+|
T Consensus       128 ~C~H~G~~l~~~~~g~~~~~~CP~Hg~~Fd~~G~~~~gPa~--------------~~L~~~~~~v~~d~~i~i  186 (187)
T 2qjy_C          128 VCTHLGCSPIGGVSGDFGGWFCPCHGSHYDSAGRIRKGPAP--------------ENLPIPLAKFIDETTIQL  186 (187)
T ss_dssp             CCTTTSCCCEEEEETTTTEEEETTTTEEECTTSCEEESSCC--------------SCCCBCSEEEEETTEEEE
T ss_pred             ccCCCCeECccCcCCCcCEEEeCCCCCEECCCCeEeCCCCC--------------CCCceEEEEEEeCCEEEE
Confidence            99999999998422223789999999999999999987742              24889999986 688887

>1vf5_D Rieske iron-sulfur protein; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: b.33.1.1 f.23.12.1 PDB: 2d2c_D* 2e74_D* 2e75_D* 2e76_D* 2zt9_D*

Probab=99.71  E-value=2.1e-18  Score=154.60  Aligned_cols=92  Identities=16%  Similarity=0.261  Sum_probs=80.5

Q ss_pred             eccCCCCCCcchh-hcccceEEEEeCCCCce--EEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccc
Q 017387          100 VEDLDPNLPTAFQ-LLGRDLVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA  176 (372)
Q Consensus       100 ~~eL~~g~~~~~~-~~g~~lvl~R~~~~G~v--~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~  176 (372)
                      .++|++|+...+. +.|++++++|+ .+|++  +|+.|+|||+|++|+.+..  ++.|.||||||+||.+|+|+..|.. 
T Consensus        70 ~~~l~~g~~~~~~~~~g~~~~lv~~-~~g~~~~~a~~~~CtH~G~~l~~~~~--~~~~~CP~Hgs~Fd~~G~~~~gPa~-  145 (179)
T 1vf5_D           70 LESHNAGDRVLVQGLKGDPTYIVVE-SKEAIRDYGINAVCTHLGCVVPWNAA--ENKFKCPCHGSQYDETGRVIRGPAP-  145 (179)
T ss_dssp             HHCCCTTCCCEESCSSSSCEECCBC-TTCCBCSCCCBCBCTTTSCBCCBCSS--SSSEECTTTCCEECSSSCCCSSSCC-
T ss_pred             ccccCCCceEEEeccCCCeEEEEEE-CCCcEEEEEEeCccCCCCCCCcccCC--CCEEECCCCCCEECCCCcEecCCCC-
Confidence            5678888887776 78999999998 79997  9999999999999998873  5789999999999999999987742 


Q ss_pred             cCCcccccccCcccccccCCceeecceEEEec
Q 017387          177 SEGPEARAIQSPRACATRFPTMVSQGLLFVWP  208 (372)
Q Consensus       177 ~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~  208 (372)
                                   ..|..|++++++|.|||.+
T Consensus       146 -------------~~L~~~~v~v~~g~v~v~~  164 (179)
T 1vf5_D          146 -------------LSLALCHATVQDDNIVLTP  164 (179)
T ss_dssp             -------------SCCBCCCCCCSSSSCCCCC
T ss_pred             -------------CCCCeEEEEEECCEEEEEe
Confidence                         2589999999999999976

>2nwf_A Ubiquinol-cytochrome C reductase iron-sulfur SUBU; rieske [2Fe-2S] ISP, oxidoreductase; HET: GOL; 1.10A {Rhodobacter sphaeroides} PDB: 2nuk_A 2nve_A 2num_A 2nvg_A 2nvf_A

Probab=99.71  E-value=6.4e-18  Score=145.92  Aligned_cols=93  Identities=16%  Similarity=0.280  Sum_probs=74.5

Q ss_pred             eeccCCCCCCcchhhcccceEEEEe---------------------------------------CCCCceEEcccCCCcc
Q 017387           99 LVEDLDPNLPTAFQLLGRDLVLWFD---------------------------------------NNSNKWVAFDDKCPHR  139 (372)
Q Consensus        99 ~~~eL~~g~~~~~~~~g~~lvl~R~---------------------------------------~~~G~v~A~~n~CpHR  139 (372)
                      .+++|++|+.++++..|++|+|.|.                                       ..+|+++|+.|+|||+
T Consensus         7 d~s~l~~g~~~~v~wrgkPv~i~~rt~~~~~~~~~~~~~~l~Dp~~~~~~~p~~~y~~~~~R~~~~~g~~~a~~~~C~H~   86 (141)
T 2nwf_A            7 DVSSVEPGVQLTVKFLGKPIFIRRRTEADIELGRSVQLGQLVDTNARNANIDAGAEATDQNRTLDEAGEWLVMWGVCTHL   86 (141)
T ss_dssp             ECTTCCTTEEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSCCBCCBTTSCTTCBCCGGGGSSSTTSCEEEEECCCTTT
T ss_pred             ecccCCCCCEEEEEECCEEEEEEECCHHHHhhhhcccccccCCcccccccCCccccccchhccccCCCcEEEEeCcCCCC
Confidence            4566666777777777777777663                                       0278999999999999


Q ss_pred             ccCCCC-CccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCcee-ecceEEE
Q 017387          140 LAPLSE-GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFV  206 (372)
Q Consensus       140 ga~Ls~-G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~I~V  206 (372)
                      |++|+. +... ++.|.||||||+||.+|+|+..|..              ..|..|++++ .+|.|+|
T Consensus        87 G~~l~~~~~~~-~~~~~CP~Hgs~Fd~~G~~~~gPa~--------------~~L~~~pv~v~~d~~i~v  140 (141)
T 2nwf_A           87 GCVPIGGVSGD-FGGWFCPCHGSHWDSAGRIRKGPAP--------------ENLPIPLAKFIDETTIQL  140 (141)
T ss_dssp             CCCCEEEEETT-TTEEEETTTTEEECTTSCEEESSCC--------------SCCCBCSEEESSSSEEEE
T ss_pred             CeEccccCccC-CCEEEcCCCCCEECCCCCCccCCCC--------------CCCCceeEEEEECCEEEE
Confidence            999998 5543 5789999999999999999987742              2488999998 7899987

>1nyk_A Rieske iron-sulfur protein; beta barrel, iron sulfur cluster, electron transport; 1.31A {Thermus thermophilus} SCOP: b.33.1.1 PDB: 3fou_A

Probab=99.70  E-value=9.8e-18  Score=148.41  Aligned_cols=70  Identities=23%  Similarity=0.307  Sum_probs=60.8

Q ss_pred             CceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCC-Cc-ccccCccccCCcccccccCcccccccCCceeecceE
Q 017387          127 NKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC-GS-CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLL  204 (372)
Q Consensus       127 G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~d-G~-c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I  204 (372)
                      +.++|+.|+|||||++|+.|..+ ++.|+||||||+||++ |. |+..|..              ..|..|++++++|.|
T Consensus        78 ~gv~A~~~~CpH~G~~L~~g~~~-~~~i~CP~Hgs~Fd~~tG~~~~~gPa~--------------~~L~~~~v~v~~g~V  142 (165)
T 1nyk_A           78 EGVVAYSAVCTHLGCIVSQWVAD-EEAALCPCHGGVYDLRHGAQVIAGPPP--------------RPVPQLPVRVEDGVL  142 (165)
T ss_dssp             TTEEEEECBCTTTCCBCCEEEGG-GTEEECTTTCCEEEGGGTTEEEESSCS--------------SCCCEECEEEETTEE
T ss_pred             CCEEEEEeecCCCCeEcccccCC-CCEEECCCCCCEEcCCCCCeeecCCCC--------------CCCcEEEEEEECCEE
Confidence            34999999999999999988875 6799999999999995 86 9887742              358999999999999


Q ss_pred             EEecCCc
Q 017387          205 FVWPDEY  211 (372)
Q Consensus       205 ~V~~~~~  211 (372)
                      ||+++..
T Consensus       143 ~v~~~~~  149 (165)
T 1nyk_A          143 VAAGEFL  149 (165)
T ss_dssp             EECSSCS
T ss_pred             EEEecCc
Confidence            9999764

>1jm1_A Rieske iron-sulfur protein SOXF; electron transport, respiratory chain, oxidoreductase; 1.11A {Sulfolobus acidocaldarius} SCOP: b.33.1.1

Probab=99.61  E-value=3.5e-17  Score=149.49  Aligned_cols=86  Identities=16%  Similarity=0.169  Sum_probs=71.5

Q ss_pred             CcchhhcccceEEEEeCC------------CCceEEcccCCCccccCCCCCcc----------CCCCceeeeeeceeecC
Q 017387          108 PTAFQLLGRDLVLWFDNN------------SNKWVAFDDKCPHRLAPLSEGRI----------DENGHLQCSYHGWSFDG  165 (372)
Q Consensus       108 ~~~~~~~g~~lvl~R~~~------------~G~v~A~~n~CpHRga~Ls~G~v----------~~~~~i~CPyHGw~Fd~  165 (372)
                      .+.+++.+.+++++|+ .            +|+++|+.|+|||+|++|+.|.+          ..++.|+||||||+||+
T Consensus        55 ~~~v~v~~~~i~v~r~-~~~~~r~~ggvg~~g~i~A~~n~CpH~G~~L~~g~~~p~~~~~~~~~~~~~i~CP~Hgs~FDl  133 (204)
T 1jm1_A           55 QQITEIPNPYYGKYAG-PLGQIQTIKGVGPNGTIFAFSDVCVHLGCQLPAQVIVSSESDPGLYAKGADLHCPCHGSIYAL  133 (204)
T ss_dssp             SCCCEEECTTTTSSCT-TGGGCCEEECBTTTTCEEEEESBCTTTCCBCCTTEEESSTTSSEEETTTTEEECTTTCCEEEG
T ss_pred             cceEeeCCceEEEEec-CccccccccccccCCEEEEEeCcCCCCCcCccccccccccccccccCCCCEEECCCCCCEEeC
Confidence            4567889999999987 5            69999999999999999999853          23578999999999999


Q ss_pred             C--CcccccCccccCCcccccccCcccccccCCceee--cceEEEec
Q 017387          166 C--GSCTRIPQAASEGPEARAIQSPRACATRFPTMVS--QGLLFVWP  208 (372)
Q Consensus       166 d--G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~I~V~~  208 (372)
                      +  |+|+..|..              ..|+.|+++++  +|.|||..
T Consensus       134 ~tGG~v~~gPa~--------------~~L~~~~v~v~~~~g~v~v~g  166 (204)
T 1jm1_A          134 KDGGVVVSGPAP--------------RPLPIVILDYDSSTGDIYAVG  166 (204)
T ss_dssp             GGTSEEEESSCC--------------SCCCBEEEEECTTTCEEEEEE
T ss_pred             CCCCeEecCCCC--------------CCCCeEeeEEEecCCEEEEEe
Confidence            6  799987742              24777887766  89999875

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	372
d1z01a1	148	b.33.1.2 (A:16-163) 2-oxo-1,2-dihydroquinoline 8-m	3e-24
d2de6a1	142	b.33.1.2 (A:1-142) Terminal oxygenase component of	7e-24
d1fqta_	109	b.33.1.1 (A:) Rieske-type ferredoxin associated wi	1e-15
d1vm9a_	109	b.33.1.1 (A:) Toluene-4-monooxygenase system prote	2e-13
d2jo6a1	108	b.33.1.3 (A:1-108) NADH-nitrite reductase small su	2e-13
d2jzaa1	122	b.33.1.3 (A:1-122) NADH-nitrite reductase small su	2e-12
d1rfsa_	127	b.33.1.1 (A:) ISP subunit from chloroplast cytochr	1e-10
d1ulia1	154	b.33.1.2 (A:17-170) Biphenyl dioxygenase large sub	3e-10
d3c0da1	108	b.33.1.3 (A:4-111) NADH-nitrite reductase small su	3e-10
d2b1xa1	162	b.33.1.2 (A:1-162) Naphthalene 1,2-dioxygenase alp	6e-09
d2e74d1	134	b.33.1.1 (D:46-179) ISP subunit from the cytochrom	4e-08
d2bmoa1	150	b.33.1.2 (A:3-152) Nitrobenzene dioxygenase alpha	5e-08
d1g8kb_	133	b.33.1.1 (B:) Arsenite oxidase Rieske subunit {Alc	5e-07
d1nyka_	156	b.33.1.1 (A:) Soluble Rieske protein {Thermus ther	8e-06
d1z01a2	279	d.129.3.3 (A:164-442) 2-oxo-1,2-dihydroquinoline 8	2e-05

>d1z01a1 b.33.1.2 (A:16-163) 2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase component OxoO {Pseudomonas putida [TaxId: 303]} Length = 148

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: 2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase component OxoO
species: Pseudomonas putida [TaxId: 303]

 Score = 94.8 bits (235), Expect = 3e-24
 Identities = 34/127 (26%), Positives = 51/127 (40%), Gaps = 8/127 (6%)

Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           D+ + + +HWYP     +L+ +     Q+ G  +VL   N   K  A  D+C HR   LS
Sbjct: 20  DAAWGFINHWYPALFTHELEEDQVQGIQICGVPIVLRRVN--GKVFALKDQCLHRGVRLS 77

Query: 145 EGRID-ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGL 203
           E         + C YHG++FD          A  E              T +P     G+
Sbjct: 78  EKPTCFTKSTISCWYHGFTFDLETGKLVTIVANPEDKLI-----GTTGVTTYPVHEVNGM 132

Query: 204 LFVWPDE 210
           +FV+  E
Sbjct: 133 IFVFVRE 139

>d2de6a1 b.33.1.2 (A:1-142) Terminal oxygenase component of carbazole CarAa {Janthinobacterium sp. j3 [TaxId: 213804]} Length = 142

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: Terminal oxygenase component of carbazole CarAa
species: Janthinobacterium sp. j3 [TaxId: 213804]

 Score = 93.7 bits (232), Expect = 7e-24
 Identities = 29/127 (22%), Positives = 51/127 (40%), Gaps = 8/127 (6%)

Query: 85  DSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144
           D+K  +R+HWYPV   ++++   P   +LLG +L++       K     D+C HR   LS
Sbjct: 20  DAKLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVN--RIDGKLYCLKDRCLHRGVQLS 77

Query: 145 EG-RIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGL 203
                     + C YH W++                      Q  R     +P   ++G 
Sbjct: 78  VKVECKTKSTITCWYHAWTYRWEDGVLCDILTNPTSA-----QIGRQKLKTYPVQEAKGC 132

Query: 204 LFVWPDE 210
           +F++  +
Sbjct: 133 VFIYLGD 139

>d1fqta_ b.33.1.1 (A:) Rieske-type ferredoxin associated with biphenyl dioxygenase {Burkholderia cepacia [TaxId: 292]} Length = 109

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Rieske-type ferredoxin associated with biphenyl dioxygenase
species: Burkholderia cepacia [TaxId: 292]

 Score = 70.1 bits (171), Expect = 1e-15
 Identities = 21/117 (17%), Positives = 36/117 (30%), Gaps = 17/117 (14%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           +  V    D+        +  G  + ++  +   +  A  D+C H    LS+G   E   
Sbjct: 3   FTRVCDRRDVPEGEALKVESGGTSVAIFNVDG--ELFATQDRCTHGDWSLSDGGYLEGDV 60

Query: 154 LQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD 209
           ++CS H   F    G     P              P      FP  +    + V  +
Sbjct: 61  VECSLHMGKFCVRTGKVKSPP--------------PCEALKIFPIRIEDNDVLVDFE 103

>d1vm9a_ b.33.1.1 (A:) Toluene-4-monooxygenase system protein C, TmoC {Pseudomonas mendocina [TaxId: 300]} Length = 109

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Toluene-4-monooxygenase system protein C, TmoC
species: Pseudomonas mendocina [TaxId: 300]

 Score = 64.3 bits (156), Expect = 2e-13
 Identities = 23/123 (18%), Positives = 42/123 (34%), Gaps = 15/123 (12%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGH 153
           +  +  ++D+       F+      VL  ++  +   A+   CPH+   LSEG  +  G 
Sbjct: 2   FEKICSLDDIWVGEMETFETSDGTEVLIVNSEEHGVKAYQAMCPHQEILLSEGSYE-GGV 60

Query: 154 LQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQ 213
           + C  H W+F+        P                A    +P  V    ++V       
Sbjct: 61  ITCRAHLWTFNDGTGHGINP--------------DDAALAEYPVEVKGDDIYVSTKGILP 106

Query: 214 ERA 216
            +A
Sbjct: 107 NKA 109

>d2jo6a1 b.33.1.3 (A:1-108) NADH-nitrite reductase small subunit NirD {Escherichia coli [TaxId: 562]} Length = 108

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: NirD-like
domain: NADH-nitrite reductase small subunit NirD
species: Escherichia coli [TaxId: 562]

 Score = 64.0 bits (155), Expect = 2e-13
 Identities = 13/119 (10%), Positives = 32/119 (26%), Gaps = 20/119 (16%)

Query: 93  HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI---- 148
            W  +  ++D+ P       L    + ++   +S++  A  +  P   + +    +    
Sbjct: 3   QWKDICKIDDILPETGVCALLGDEQVAIFRPYHSDQVFAISNIDPFFESSVLSRGLIAEH 62

Query: 149 DENGHLQCSYHGWSFDGC-GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFV 206
                +        F    G C    Q                    +   V  G++ +
Sbjct: 63  QGELWVASPLKKQRFRLSDGLCMEDEQ---------------FSVKHYEARVKDGVVQL 106

>d2jzaa1 b.33.1.3 (A:1-122) NADH-nitrite reductase small subunit NirD {Erwinia carotovora [TaxId: 554]} Length = 122

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: NirD-like
domain: NADH-nitrite reductase small subunit NirD
species: Erwinia carotovora [TaxId: 554]

 Score = 61.6 bits (148), Expect = 2e-12
 Identities = 15/135 (11%), Positives = 36/135 (26%), Gaps = 20/135 (14%)

Query: 93  HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR----I 148
            W  V  ++D+ P       +  + + ++   N  +  A  +  P   A +         
Sbjct: 3   QWTTVCKLDDILPGTGVCALVEQQQIAVFRPRNDEQVYAISNIDPFAQASVLSRGIVAEH 62

Query: 149 DENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP 208
            ++  +        F           A                   + T V+ G + +  
Sbjct: 63  QDDLWVASPLKKQHFRLYDGFCLEDGA--------------YSVAAYDTQVTNGNVQISI 108

Query: 209 DEYGQERANATKPPM 223
            +   + A     P+
Sbjct: 109 AD--SDVAVDNSQPL 121

>d1rfsa_ b.33.1.1 (A:) ISP subunit from chloroplast cytochrome bf complex {Spinach (Spinacia oleracea) [TaxId: 3562]} Length = 127

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit from chloroplast cytochrome bf complex
species: Spinach (Spinacia oleracea) [TaxId: 3562]

 Score = 56.6 bits (136), Expect = 1e-10
 Identities = 19/120 (15%), Positives = 29/120 (24%), Gaps = 20/120 (16%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRD---LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
                 ++   P   T  Q L  D   LV+  D  +      +  C H    +     + 
Sbjct: 11  VIAAEWLKTHAPGDRTLTQGLKGDPTYLVVESDK-TLATFGINAVCTHLGCVVPFNAAE- 68

Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
                C  HG  ++  G   R P                         V  G +   P  
Sbjct: 69  -NKFICPCHGSQYNNQGRVVRGP--------------APLSLALAHCDVDDGKVVFVPWT 113

>d1ulia1 b.33.1.2 (A:17-170) Biphenyl dioxygenase large subunit BphA1, N-terminal domain {Rhodococcus sp. (strain RHA1) [TaxId: 101510]} Length = 154

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: Biphenyl dioxygenase large subunit BphA1, N-terminal domain
species: Rhodococcus sp. (strain RHA1) [TaxId: 101510]

 Score = 55.9 bits (134), Expect = 3e-10
 Identities = 22/121 (18%), Positives = 41/121 (33%), Gaps = 3/121 (2%)

Query: 90  WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID 149
           +   W  +     +          +G D V+     + +   F ++C HR   +      
Sbjct: 36  FGRSWLLMGHETQIPKAGDFMTNYMGEDPVMVVRQKNGEIRVFLNQCRHRGMRICRADGG 95

Query: 150 ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD 209
                 CSYHGW++D  G+   +P      P    ++       +      +GL+F   D
Sbjct: 96  NAKSFTCSYHGWAYDTGGNLVSVPFEEQAFPG---LRKEDWGPLQARVETYKGLIFANWD 152

Query: 210 E 210
            
Sbjct: 153 A 153

>d3c0da1 b.33.1.3 (A:4-111) NADH-nitrite reductase small subunit NirD {Vibrio parahaemolyticus [TaxId: 670]} Length = 108

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: NirD-like
domain: NADH-nitrite reductase small subunit NirD
species: Vibrio parahaemolyticus [TaxId: 670]

 Score = 54.8 bits (131), Expect = 3e-10
 Identities = 14/121 (11%), Positives = 30/121 (24%), Gaps = 19/121 (15%)

Query: 94  WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI----D 149
              +  ++DL P +     + G  + L++  + +   A  D  P   A +    I    +
Sbjct: 3   KVKLCQLDDLMPFIGATVLIEGERVALFYIPD-SGVYAVQDWDPIGKAYVMSRGIVGDIN 61

Query: 150 ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD 209
               +    +   F                           C   +   V    +     
Sbjct: 62  GEMCVASPLYKQHFSLKSGQCLED--------------EAHCLKTWRVTVDDNQVCYLAK 107

Query: 210 E 210
           E
Sbjct: 108 E 108

>d2b1xa1 b.33.1.2 (A:1-162) Naphthalene 1,2-dioxygenase alpha subunit, N-domain {Rhodococcus sp. ncimb12038 [TaxId: 92694]} Length = 162

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: Naphthalene 1,2-dioxygenase alpha subunit, N-domain
species: Rhodococcus sp. ncimb12038 [TaxId: 92694]

 Score = 52.6 bits (125), Expect = 6e-09
 Identities = 21/121 (17%), Positives = 44/121 (36%), Gaps = 3/121 (2%)

Query: 90  WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID 149
           +   W  ++   ++        + +  D  +   +   +     + C HR   +    + 
Sbjct: 42  FGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMG 101

Query: 150 ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS-QGLLFVWP 208
              H +C YHGW++   GS   +P  A +      ++         P + S +GL+F   
Sbjct: 102 NTSHFRCPYHGWTYSNTGSLVGVP--AGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSL 159

Query: 209 D 209
           D
Sbjct: 160 D 160

>d2e74d1 b.33.1.1 (D:46-179) ISP subunit from the cytochrome b6f complex, soluble domain {Mastigocladus laminosus [TaxId: 83541]} Length = 134

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit from the cytochrome b6f complex, soluble domain
species: Mastigocladus laminosus [TaxId: 83541]

 Score = 49.7 bits (118), Expect = 4e-08
 Identities = 14/120 (11%), Positives = 30/120 (25%), Gaps = 21/120 (17%)

Query: 96  PVSLVEDLDPNLPTAFQLLGRDL-----VLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE 150
            V + + L+ +      L+         ++     + +    +  C H    +     + 
Sbjct: 18  NVKVSKFLESHNAGDRVLVQGLKGDPTYIVVESKEAIRDYGINAVCTHLGCVVPWNAAE- 76

Query: 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE 210
               +C  HG  +D  G   R P                         V    + + P  
Sbjct: 77  -NKFKCPCHGSQYDETGKVIRGPA--------------PLSLALCHATVQDDNIVLTPWT 121

>d2bmoa1 b.33.1.2 (A:3-152) Nitrobenzene dioxygenase alpha subunit, NBDO-alpha {Comamonas sp. JS765 [TaxId: 58226]} Length = 150

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: Nitrobenzene dioxygenase alpha subunit, NBDO-alpha
species: Comamonas sp. JS765 [TaxId: 58226]

 Score = 49.4 bits (117), Expect = 5e-08
 Identities = 24/121 (19%), Positives = 39/121 (32%), Gaps = 3/121 (2%)

Query: 90  WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID 149
           +  +W  ++    +          +G D V+    N     AF + C HR   L      
Sbjct: 31  FARNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQNDGSVRAFLNVCRHRGKTLVHAEAG 90

Query: 150 ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS-QGLLFVWP 208
                 C YHGW +   G    +P    +     AI+         P + S  G ++   
Sbjct: 91  NAKGFVCGYHGWGYGSNGELQSVPFE--KELYGDAIKKKCLGLKEVPRIESFHGFIYGCF 148

Query: 209 D 209
           D
Sbjct: 149 D 149

>d1g8kb_ b.33.1.1 (B:) Arsenite oxidase Rieske subunit {Alcaligenes faecalis [TaxId: 511]} Length = 133

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Arsenite oxidase Rieske subunit
species: Alcaligenes faecalis [TaxId: 511]

 Score = 46.2 bits (109), Expect = 5e-07
 Identities = 16/75 (21%), Positives = 24/75 (32%), Gaps = 3/75 (4%)

Query: 104 DPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSF 163
           D + P     LG  +      + +  VA+   C H   P S      +    C  H   F
Sbjct: 29  DTSSPCVAVKLGAPVPGGVGPD-DDIVAYSVLCTHMGCPTSYDS--SSKTFSCPCHFTEF 85

Query: 164 DGCGSCTRIPQAASE 178
           D   +   I   A+ 
Sbjct: 86  DAEKAGQMICGEATA 100

>d1nyka_ b.33.1.1 (A:) Soluble Rieske protein {Thermus thermophilus [TaxId: 274]} Length = 156

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Soluble Rieske protein
species: Thermus thermophilus [TaxId: 274]

 Score = 43.1 bits (101), Expect = 8e-06
 Identities = 18/87 (20%), Positives = 28/87 (32%), Gaps = 13/87 (14%)

Query: 123 DNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEA 182
            + +   VA+   C H    +S+   D      C  HG  +D       I      GP  
Sbjct: 74  QHAAEGVVAYSAVCTHLGCIVSQWVAD-EEAALCPCHGGVYDLRHGAQVI-----AGPPP 127

Query: 183 RAIQSPRACATRFPTMVSQGLLFVWPD 209
           R +        + P  V  G+L    +
Sbjct: 128 RPVP-------QLPVRVEDGVLVAAGE 147

>d1z01a2 d.129.3.3 (A:164-442) 2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase component OxoO {Pseudomonas putida [TaxId: 303]} Length = 279

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: Bet v1-like
family: Ring hydroxylating alpha subunit catalytic domain
domain: 2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase component OxoO
species: Pseudomonas putida [TaxId: 303]

 Score = 43.5 bits (102), Expect = 2e-05
 Identities = 24/141 (17%), Positives = 42/141 (29%), Gaps = 9/141 (6%)

Query: 199 VSQGLLFVWPDEYGQERANATKPPMLPDA--FDKPEFSSVTIQRDLFYGYDTLMENVSDP 256
           ++  L F +P     ER+     P+ P +            + R  F  +    EN  D 
Sbjct: 2   LAHDLPFRFP-----ERSEQFPHPLWPSSPSVLDDNAVVHGMHRTGFGNWRIACENGFDN 56

Query: 257 SHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDT 316
           +HI   H   T        LP  L  +     A   D +                +  + 
Sbjct: 57  AHI-LVHKDNTIVHAMDWVLPLGLLPTSDDCIAVVEDDDGPKGMMQWLFTDKWAPVLENQ 115

Query: 317 KLPVVGDQKWII-WICSFNVP 336
           +L +  +      +  S  +P
Sbjct: 116 ELGLKVEGLKGRHYRTSVVLP 136

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	372
d1ulia1	154	Biphenyl dioxygenase large subunit BphA1, N-termin	100.0
d2b1xa1	162	Naphthalene 1,2-dioxygenase alpha subunit, N-domai	100.0
d2bmoa1	150	Nitrobenzene dioxygenase alpha subunit, NBDO-alpha	100.0
d2de6a1	142	Terminal oxygenase component of carbazole CarAa {J	99.97
d1z01a1	148	2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygen	99.97
d2jzaa1	122	NADH-nitrite reductase small subunit NirD {Erwinia	99.93
d1vm9a_	109	Toluene-4-monooxygenase system protein C, TmoC {Ps	99.92
d2jo6a1	108	NADH-nitrite reductase small subunit NirD {Escheri	99.91
d1fqta_	109	Rieske-type ferredoxin associated with biphenyl di	99.91
d3c0da1	108	NADH-nitrite reductase small subunit NirD {Vibrio	99.9
d1rfsa_	127	ISP subunit from chloroplast cytochrome bf complex	99.76
d2e74d1	134	ISP subunit from the cytochrome b6f complex, solub	99.69
d1g8kb_	133	Arsenite oxidase Rieske subunit {Alcaligenes faeca	99.68
d1nyka_	156	Soluble Rieske protein {Thermus thermophilus [TaxI	99.5
d3cx5e1	129	ISP subunit of the mitochondrial cytochrome bc1-co	99.1
d1riea_	127	ISP subunit of the mitochondrial cytochrome bc1-co	98.95
d1z01a2	279	2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygen	98.88
d1jm1a_	202	Rieske protein II (SoxF) {Archaeon Sulfolobus acid	98.7
d2bmoa2	287	Nitrobenzene dioxygenase alpha subunit, NBDO-alpha	96.49
d2de6a2	242	Terminal oxygenase component of carbazole CarAa {J	96.33
d2b1xa2	279	Naphthalene 1,2-dioxygenase alpha subunit, C-domai	96.09
d1ulia2	281	Biphenyl dioxygenase large subunit BphA1, C-termin	95.65
d1wqla2	279	Large subunit of cumene dioxygenase cumA1 {Pseudom	94.91

>d1ulia1 b.33.1.2 (A:17-170) Biphenyl dioxygenase large subunit BphA1, N-terminal domain {Rhodococcus sp. (strain RHA1) [TaxId: 101510]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: Biphenyl dioxygenase large subunit BphA1, N-terminal domain
species: Rhodococcus sp. (strain RHA1) [TaxId: 101510]

Probab=100.00  E-value=9.8e-38  Score=272.18  Aligned_cols=140  Identities=16%  Similarity=0.246  Sum_probs=124.4

Q ss_pred             ccccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCC
Q 017387           66 DEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (372)
Q Consensus        66 ~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls  144 (372)
                      ..++|.++|+|++++++|++.+|  ++.|++||+++||+ +|++++++++|++|+|+|+ ++|+++||.|+|||||++|+
T Consensus        14 ~~~l~~~~Y~~~~~~~~E~~~if--~~~W~~v~~~~el~~~g~~~~~~i~~~~ilv~R~-~~g~i~af~N~C~HRG~~L~   90 (154)
T d1ulia1          14 TGRLDPRIYTDEALYEQELERIF--GRSWLLMGHETQIPKAGDFMTNYMGEDPVMVVRQ-KNGEIRVFLNQCRHRGMRIC   90 (154)
T ss_dssp             TTEECGGGGTCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESCCTTTCCCSC
T ss_pred             cCcCCHHHcCCHHHHHHHHHHHh--ccCCEEEEEhhhCCCCcceeeeecCCcceeEEee-cccceeeeecccccCCceee
Confidence            45689999999999999999887  99999999999997 5999999999999999999 89999999999999999999


Q ss_pred             CCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          145 EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       145 ~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      .|..+.++.|+||||||+||.+|+|+.+|..+...+..   .+.+.+|+.++|++++|+||||++++
T Consensus        91 ~~~~g~~~~l~CpYHgW~f~~~G~~~~iP~~~~~~~~~---~~~~~~L~~~~v~~~~G~Ifv~~d~D  154 (154)
T d1ulia1          91 RADGGNAKSFTCSYHGWAYDTGGNLVSVPFEEQAFPGL---RKEDWGPLQARVETYKGLIFANWDAD  154 (154)
T ss_dssp             CSSEEECSCEECTTTCCEECTTCCEEECTTHHHHCTTC---CGGGSSCCEEEEEEETTEEEEECCTT
T ss_pred             ecCCCccceEEeeeceeEEecCCccccCCcccccCCCC---ChHHCCCeEEeEEEECCEEEEEeCCC
Confidence            87765567899999999999999999999765432221   24567899999999999999999863

>d2b1xa1 b.33.1.2 (A:1-162) Naphthalene 1,2-dioxygenase alpha subunit, N-domain {Rhodococcus sp. ncimb12038 [TaxId: 92694]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: Naphthalene 1,2-dioxygenase alpha subunit, N-domain
species: Rhodococcus sp. ncimb12038 [TaxId: 92694]

Probab=100.00  E-value=1.4e-36  Score=266.96  Aligned_cols=142  Identities=16%  Similarity=0.298  Sum_probs=123.7

Q ss_pred             hccccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCC
Q 017387           65 KDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPL  143 (372)
Q Consensus        65 ~~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~L  143 (372)
                      .+..+|..+|+|++++++|++++|  ++.|++||+++||+ +|++++++++|++|+|+|+ ++|+++||.|+|||||++|
T Consensus        19 ~~~~lP~~~Y~d~~~f~~E~~~if--~~~W~~v~~~~el~~~g~~~~~~~~~~~~vv~R~-~dG~i~a~~N~C~HRG~~l   95 (162)
T d2b1xa1          19 SDWTVPAAIINDPEVHDVERERIF--GHAWVFLAHESEIPERGDYVVRYISEDQFIVCRD-EGGEIRGHLNACRHRGMQV   95 (162)
T ss_dssp             TTCEEEGGGSSCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCS
T ss_pred             hcccCCHHHcCCHHHHHHHHHHHH--cCCCEEEEEHHHcCCccceeeEeecCCceEEEec-CCcceEEeecccccCcccc
Confidence            345789999999999999998887  99999999999997 5999999999999999999 8999999999999999999


Q ss_pred             CCCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCC-ceeecceEEEecCCc
Q 017387          144 SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFP-TMVSQGLLFVWPDEY  211 (372)
Q Consensus       144 s~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~p-v~e~~G~I~V~~~~~  211 (372)
                      +.|..+.++.|+||||||+||.+|+|+.+|......+.  .......+|+.++ |++++|+|||+||++
T Consensus        96 ~~~~~g~~~~i~CpYHgW~yd~~G~l~~~P~~~~~~~~--~~~~~~~~L~~~~~v~~~~GlIfv~ldPn  162 (162)
T d2b1xa1          96 CRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGN--QLKKSDWNLRPMPNLASYKGLIFGSLDPH  162 (162)
T ss_dssp             CCSSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTT--CCCGGGGSCCBCSEEEEETTEEEEESCTT
T ss_pred             cccccCccccccCCCceeEEcCCCCeEECCCcccCCCC--CCChhhcCCeeeeeEEEECCEEEEEcCCC
Confidence            99886556789999999999999999999976543221  1224456788885 899999999999863

>d2bmoa1 b.33.1.2 (A:3-152) Nitrobenzene dioxygenase alpha subunit, NBDO-alpha {Comamonas sp. JS765 [TaxId: 58226]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: Nitrobenzene dioxygenase alpha subunit, NBDO-alpha
species: Comamonas sp. JS765 [TaxId: 58226]

Probab=100.00  E-value=3.2e-36  Score=261.32  Aligned_cols=139  Identities=17%  Similarity=0.252  Sum_probs=121.6

Q ss_pred             cccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCC
Q 017387           67 EKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (372)
Q Consensus        67 ~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~  145 (372)
                      ..++...|+|++++++|++.+|  .+.|++||+++||+ +|++++++++|++|+|+|+ ++|+++||.|+|||||++|+.
T Consensus        10 ~~~~~~~y~D~~~f~~E~~~if--~~~W~~v~~~~elp~~Gd~~~~~i~~~~~vv~R~-~dg~i~af~N~C~HRG~~L~~   86 (150)
T d2bmoa1          10 LTQKLLIHGDKELFQHELKTIF--ARNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQ-NDGSVRAFLNVCRHRGKTLVH   86 (150)
T ss_dssp             CEEEGGGGTCHHHHHHHHHHTT--TTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESBCTTTCCBCCC
T ss_pred             CcCCccccCCHHHHHHHHHHHH--HcCCeEeehHHHcCCCcceeeeeecCceeEEEec-CCCchhhhhhhcccccccccc
Confidence            4456678999999999999887  99999999999997 5999999999999999999 899999999999999999999


Q ss_pred             CccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCC-ceeecceEEEecCC
Q 017387          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFP-TMVSQGLLFVWPDE  210 (372)
Q Consensus       146 G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~p-v~e~~G~I~V~~~~  210 (372)
                      |..+..+.|+||||||+||.+|+|+.+|......+.  .......+|..++ |++++|+|||+||.
T Consensus        87 ~~~g~~~~i~CpYHgW~yd~~G~l~~~P~~~~~~~~--~~~~~~~~L~~~~~ve~~~G~Ifv~lda  150 (150)
T d2bmoa1          87 AEAGNAKGFVCGYHGWGYGSNGELQSVPFEKELYGD--AIKKKCLGLKEVPRIESFHGFIYGCFDA  150 (150)
T ss_dssp             SSEEECSEEECTTTCCEEETTSCEEECTTHHHHTGG--GCCGGGCCCCBCSEEEEETTEEEEESCT
T ss_pred             cccccccceEecccceeeccccchhcCCCccccCCC--CCChhhCCCcccceEEEECCEEEEecCC
Confidence            987656789999999999999999999986543221  1234567799997 88899999999973

>d2de6a1 b.33.1.2 (A:1-142) Terminal oxygenase component of carbazole CarAa {Janthinobacterium sp. j3 [TaxId: 213804]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: Terminal oxygenase component of carbazole CarAa
species: Janthinobacterium sp. j3 [TaxId: 213804]

Probab=99.97  E-value=4e-33  Score=239.50  Aligned_cols=117  Identities=25%  Similarity=0.524  Sum_probs=102.7

Q ss_pred             ceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccC-CCCceeeeeeceeecC
Q 017387           87 KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID-ENGHLQCSYHGWSFDG  165 (372)
Q Consensus        87 ~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~-~~~~i~CPyHGw~Fd~  165 (372)
                      .+.|+++|++||+++||++|+++.++++|++|+|+|+  +|+++|++|+|||||++|+.|... .++.|+||||||+||+
T Consensus        22 ~~~f~~~W~~v~~~~el~~g~~~~~~i~g~~ivv~r~--~g~v~a~~n~CpHrga~L~~g~~~~~~~~i~Cp~Hgw~fdl   99 (142)
T d2de6a1          22 KLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNRI--DGKLYCLKDRCLHRGVQLSVKVECKTKSTITCWYHAWTYRW   99 (142)
T ss_dssp             TTCBSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGGGCCCCSTTEEECTTTCEEEET
T ss_pred             hcCCcccCEEEEEHHHCCCCCeEEEEECCEEEEEEEc--CCEEEEEeCccCCCCccCCccccccccCEEeccceeeEEec
Confidence            3456999999999999999999999999999999997  799999999999999999988643 3568999999999998


Q ss_pred             -CCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          166 -CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       166 -dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                       +|.|+.+|..+....      ..+.+|++|+|+|++|+|||+++++
T Consensus       100 ~~G~~~~~p~~~~~~~------~~~~~l~~y~v~e~~G~I~v~l~d~  140 (142)
T d2de6a1         100 EDGVLCDILTNPTSAQ------IGRQKLKTYPVQEAKGCVFIYLGDG  140 (142)
T ss_dssp             TTCBEEEETTCTTCTT------TTSCBCCBCCEEEETTEEEEEESSS
T ss_pred             cCCceEecCCCcccCC------ccccCCCEEeEEEECCEEEEEeCCC
Confidence             799999987654322      3456899999999999999999864

>d1z01a1 b.33.1.2 (A:16-163) 2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase component OxoO {Pseudomonas putida [TaxId: 303]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Ring hydroxylating alpha subunit ISP domain
domain: 2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase component OxoO
species: Pseudomonas putida [TaxId: 303]

Probab=99.97  E-value=2.8e-31  Score=229.44  Aligned_cols=116  Identities=28%  Similarity=0.502  Sum_probs=100.9

Q ss_pred             eecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccC-CCCceeeeeeceeecC-C
Q 017387           89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID-ENGHLQCSYHGWSFDG-C  166 (372)
Q Consensus        89 ~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~-~~~~i~CPyHGw~Fd~-d  166 (372)
                      .|+++||+||.++||++|+++.++++|++|||+|.  +|+++|+.|+|||||++|+.|... .++.|+||||||+||+ +
T Consensus        24 ~~~~~W~~v~~~~el~~g~~~~~~i~g~~vvl~~~--~g~i~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~fd~~~  101 (148)
T d1z01a1          24 GFINHWYPALFTHELEEDQVQGIQICGVPIVLRRV--NGKVFALKDQCLHRGVRLSEKPTCFTKSTISCWYHGFTFDLET  101 (148)
T ss_dssp             CBCSEEEEEEEGGGSCBTCEEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGGSCCCSSTTEEECTTTCEEEETTT
T ss_pred             CcccccEEEEEHHHCCCCCeEEEEECCEEEEEEEE--CCEEEEEEeecCccccEeEccccccccCEEEecccCCEEecCc
Confidence            35899999999999999999999999999998875  899999999999999999998642 3568999999999998 5


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |.|+.+|......      .+.+.+|++|+|+|++|+||||+++++
T Consensus       102 G~~~~~p~~~~~~------~~~~~~l~~y~v~~~~g~I~v~l~~~~  141 (148)
T d1z01a1         102 GKLVTIVANPEDK------LIGTTGVTTYPVHEVNGMIFVFVREDD  141 (148)
T ss_dssp             CBEEEETTCTTCT------TTTSCBCCEECEEEETTEEEEEECCTT
T ss_pred             ceEeccccccccc------CCccCCcceEEEEEECCEEEEEeCCCC
Confidence            9999888754321      245678999999999999999998654

>d2jzaa1 b.33.1.3 (A:1-122) NADH-nitrite reductase small subunit NirD {Erwinia carotovora [TaxId: 554]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: NirD-like
domain: NADH-nitrite reductase small subunit NirD
species: Erwinia carotovora [TaxId: 554]

Probab=99.93  E-value=1.5e-26  Score=193.28  Aligned_cols=106  Identities=16%  Similarity=0.229  Sum_probs=92.5

Q ss_pred             ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccC-CCCCccC---CCCceeeeeeceeecC-C
Q 017387           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRID---ENGHLQCSYHGWSFDG-C  166 (372)
Q Consensus        92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~-Ls~G~v~---~~~~i~CPyHGw~Fd~-d  166 (372)
                      ..|+.||.++||++|+.+.+++.|++|+|||.+.+|+++|++|+|||+|++ |+.|.+.   +++.|+||||||+||+ +
T Consensus         2 s~W~~Vc~~~dl~~g~~~~v~v~g~~v~l~~~~~~g~v~A~~~~CpH~g~~ll~~G~v~~~~~~~~i~Cp~Hg~~F~l~t   81 (122)
T d2jzaa1           2 SQWTTVCKLDDILPGTGVCALVEQQQIAVFRPRNDEQVYAISNIDPFAQASVLSRGIVAEHQDDLWVASPLKKQHFRLYD   81 (122)
T ss_dssp             CSEEEEEETTTSCTTBCCEEEETTEEEEEEBCSSSSCCEEEBCCCTTTSSGGGTSSEEEESSSSEEEECSSSCCEEETTT
T ss_pred             CCcEEEEEHHHcCCCCeEEEEECCEEEEEEEEcCCCEEEEEecCCCcccccccccceeeeccCCCEEECCCCCCeeeccc
Confidence            369999999999999999999999999999952478999999999999998 7888763   2346999999999998 7


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~  212 (372)
                      |+|+..|.               .+|++|+|++++|.|||++.+.+
T Consensus        82 G~~~~~p~---------------~~l~~~~v~v~~g~V~v~~~~~~  112 (122)
T d2jzaa1          82 GFCLEDGA---------------YSVAAYDTQVTNGNVQISIADSD  112 (122)
T ss_dssp             CCBSSCCS---------------SCCBCCCEEESSSEEEEECCCCC
T ss_pred             ceeeeccc---------------cCCCccceEEECCEEEEEeCCcC
Confidence            99997653               35899999999999999997654

>d1vm9a_ b.33.1.1 (A:) Toluene-4-monooxygenase system protein C, TmoC {Pseudomonas mendocina [TaxId: 300]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Toluene-4-monooxygenase system protein C, TmoC
species: Pseudomonas mendocina [TaxId: 300]

Probab=99.92  E-value=5.4e-26  Score=186.10  Aligned_cols=102  Identities=21%  Similarity=0.396  Sum_probs=91.5

Q ss_pred             cceeeeeeccCCCCCCcchhh-cccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQL-LGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCT  170 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~-~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~  170 (372)
                      .|..||.++||++|+.+.+++ +|++++|+|. .+|+++|+.|+|||||++|+.|.+. ++.|+||||||+||+ +|+|+
T Consensus         1 ~w~~vc~~~dl~~g~~~~~~~~~g~~v~v~r~-~~g~~~A~~~~CpH~g~~l~~g~~~-~~~i~Cp~Hg~~F~l~~G~~~   78 (109)
T d1vm9a_           1 SFEKICSLDDIWVGEMETFETSDGTEVLIVNS-EEHGVKAYQAMCPHQEILLSEGSYE-GGVITCRAHLWTFNDGTGHGI   78 (109)
T ss_dssp             CCEEEEEGGGSCTTCEEEEECTTCCEEEEEEE-TTTEEEEEESBCSSSSCBGGGSEEE-TTEEECTTTCCEEETTTCBBS
T ss_pred             CeeEEEEHHHCCCCCeEEEEecCCeEEEEEEe-CCCeEEEEEeeCCCCCccceeEecc-CCEEEcccCCceEECCCccCC
Confidence            599999999999999999997 4799999998 7999999999999999999999986 689999999999998 79887


Q ss_pred             ccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      ..|               ...|++|+|++++|.|||.+++.
T Consensus        79 ~p~---------------~~~L~~~~v~v~~g~v~V~~~~~  104 (109)
T d1vm9a_          79 NPD---------------DAALAEYPVEVKGDDIYVSTKGI  104 (109)
T ss_dssp             SSS---------------SCBCCEECEEEETTEEEECCTTC
T ss_pred             CCC---------------CCCccEEeEEEECCEEEEEeCCC
Confidence            422               23589999999999999998654

>d2jo6a1 b.33.1.3 (A:1-108) NADH-nitrite reductase small subunit NirD {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: NirD-like
domain: NADH-nitrite reductase small subunit NirD
species: Escherichia coli [TaxId: 562]

Probab=99.91  E-value=5.5e-26  Score=185.84  Aligned_cols=101  Identities=18%  Similarity=0.260  Sum_probs=87.7

Q ss_pred             ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccC-CCCCccCC---CCceeeeeeceeecC-C
Q 017387           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRIDE---NGHLQCSYHGWSFDG-C  166 (372)
Q Consensus        92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~-Ls~G~v~~---~~~i~CPyHGw~Fd~-d  166 (372)
                      ..|++||.++||++|+++.+.++|++|+|||...+|+++|++|+|||+|++ |+.|.+..   +..|+||||||+||+ +
T Consensus         2 s~W~~vc~~~dl~~g~~~~~~~~g~~i~l~r~~~~g~v~A~~~~CpH~g~~ll~~G~~~~~~~~~~i~Cp~Hg~~F~l~t   81 (108)
T d2jo6a1           2 SQWKDICKIDDILPETGVCALLGDEQVAIFRPYHSDQVFAISNIDPFFESSVLSRGLIAEHQGELWVASPLKKQRFRLSD   81 (108)
T ss_dssp             CCCEEEEETTTSCTTEEEEEEETTEEEEEEECSSSSCCEEEESSCSSSCCSCSTTSEEEEETTEEEEEETTTTEEEETTT
T ss_pred             CCCEEEeEHHHCCCCCeEEEEECCEEEEEEEECcCCEEEEEECcCCCCCCccccceeEeccccCCEEECCCCCceEECCC
Confidence            379999999999999999999999999999942578999999999999998 77776632   236999999999998 8


Q ss_pred             CcccccCccccCCcccccccCcccccccCCceeecceEEEe
Q 017387          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (372)
Q Consensus       167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~  207 (372)
                      |+|+..|.               .+|++|||++++|.|||.
T Consensus        82 G~~~~~p~---------------~~l~~y~v~v~~g~V~V~  107 (108)
T d2jo6a1          82 GLCMEDEQ---------------FSVKHYEARVKDGVVQLR  107 (108)
T ss_dssp             TEETTTTT---------------TCCCEEEEEEETTEEEEE
T ss_pred             ccCCCCCC---------------CcccEEeEEEECCEEEEe
Confidence            99987542               358999999999999984

>d1fqta_ b.33.1.1 (A:) Rieske-type ferredoxin associated with biphenyl dioxygenase {Burkholderia cepacia [TaxId: 292]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Rieske-type ferredoxin associated with biphenyl dioxygenase
species: Burkholderia cepacia [TaxId: 292]

Probab=99.91  E-value=1.4e-25  Score=183.71  Aligned_cols=103  Identities=19%  Similarity=0.232  Sum_probs=93.7

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCcccc
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR  171 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~  171 (372)
                      .|+.||.++||++|+.+.+++.|++|+|+|.  +|+++|++|+|||+|++|+.|....++.|+||+|||+||+ +|+|+.
T Consensus         2 ~w~~v~~~~dl~~g~~~~~~~~~~~i~v~r~--~~~~~A~~~~CpH~g~~l~~g~~~~~~~i~Cp~H~~~F~l~tG~~~~   79 (109)
T d1fqta_           2 KFTRVCDRRDVPEGEALKVESGGTSVAIFNV--DGELFATQDRCTHGDWSLSDGGYLEGDVVECSLHMGKFCVRTGKVKS   79 (109)
T ss_dssp             CCEEEEEGGGSCTTCEEEEEETTEEEEEEEE--TTEEEEEESBCTTSSCBSSTTCCEETTEEECTTTCCEEETTTCCEEE
T ss_pred             cEEEeeEHHHCCCCCEEEEEECCEEEEEEEE--CCEEEEEEeeccccCcccccceeecCCEEEccccCCEEECCCccCcc
Confidence            6999999999999999999999999999998  7899999999999999999987644679999999999998 899998


Q ss_pred             cCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                      .|..              ..|++|++++++|.|||+++.+
T Consensus        80 ~p~~--------------~~l~~~~v~~~~g~i~v~~~~~  105 (109)
T d1fqta_          80 PPPC--------------EALKIFPIRIEDNDVLVDFEAG  105 (109)
T ss_dssp             SSCC--------------SCCCBCCEEEETTEEEECTTCC
T ss_pred             CCCC--------------CCCCEEeEEEECCEEEEEeCCC
Confidence            7642              2488999999999999999865

>d3c0da1 b.33.1.3 (A:4-111) NADH-nitrite reductase small subunit NirD {Vibrio parahaemolyticus [TaxId: 670]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: NirD-like
domain: NADH-nitrite reductase small subunit NirD
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=99.90  E-value=5.9e-25  Score=179.63  Aligned_cols=101  Identities=15%  Similarity=0.163  Sum_probs=88.2

Q ss_pred             cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccC----CCCceeeeeeceeecC-CC
Q 017387           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID----ENGHLQCSYHGWSFDG-CG  167 (372)
Q Consensus        93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~----~~~~i~CPyHGw~Fd~-dG  167 (372)
                      .|+.||.++||++|+.+.+.++|++|+|||. .+|+++|++|+|||+|++|..+.+.    ++..|+||||||+||+ +|
T Consensus         2 ~~v~vc~~~dl~~g~~~~~~~~g~~i~v~r~-~~g~~~A~~~~CpH~g~~L~~~g~~~~~~~~~~i~Cp~Hg~~Fdl~tG   80 (108)
T d3c0da1           2 TKVKLCQLDDLMPFIGATVLIEGERVALFYI-PDSGVYAVQDWDPIGKAYVMSRGIVGDINGEMCVASPLYKQHFSLKSG   80 (108)
T ss_dssp             CEEEEEEGGGSCBTCCEEEEETTEEEEEEEE-TTTEEEEEESEETTTTEECGGGSEEEESSSSEEEECTTTCCEEETTTC
T ss_pred             CcEEEEEHHHCCCCCEEEEEECCEEEEEEEe-CCCCEEEEEccCCCCCcccccccEEEecCCceEEeccccccEEeccCC
Confidence            6899999999999999999999999999998 7899999999999999998765432    2236999999999998 89


Q ss_pred             cccccCccccCCcccccccCcccccccCCceeecceEEEecC
Q 017387          168 SCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (372)
Q Consensus       168 ~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~  209 (372)
                      +|+..|.               .+|++|+|++++|.|||...
T Consensus        81 ~~~~~p~---------------~~l~~y~v~v~~g~V~V~~~  107 (108)
T d3c0da1          81 QCLEDEA---------------HCLKTWRVTVDDNQVCYLAK  107 (108)
T ss_dssp             BBSSCTT---------------CBCCEECEEESSSEEEEECC
T ss_pred             ccccCCC---------------CcccEEeEEEECCEEEEEec
Confidence            9986442               35899999999999999764

>d1rfsa_ b.33.1.1 (A:) ISP subunit from chloroplast cytochrome bf complex {Spinach (Spinacia oleracea) [TaxId: 3562]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit from chloroplast cytochrome bf complex
species: Spinach (Spinacia oleracea) [TaxId: 3562]

Probab=99.76  E-value=1.1e-19  Score=152.22  Aligned_cols=96  Identities=17%  Similarity=0.196  Sum_probs=76.5

Q ss_pred             eccCCCCCCcc-hhhcccceEEEEeC-CCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCcccc
Q 017387          100 VEDLDPNLPTA-FQLLGRDLVLWFDN-NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS  177 (372)
Q Consensus       100 ~~eL~~g~~~~-~~~~g~~lvl~R~~-~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~  177 (372)
                      ..+.+.|+... ..+.|++++|++.. .+|+++||+|+|||||++|..|..  ++.|+||||||+||.+|+|+..|..  
T Consensus        17 l~~~~~G~~~l~~~~~g~~~~lvv~~d~~~~v~A~~~~C~H~g~~l~~~~~--~~~~~Cp~Hg~~Fd~~G~~~~~Pa~--   92 (127)
T d1rfsa_          17 LKTHAPGDRTLTQGLKGDPTYLVVESDKTLATFGINAVCTHLGCVVPFNAA--ENKFICPCHGSQYNNQGRVVRGPAP--   92 (127)
T ss_dssp             HHHSCTTCEEEEECGGGCEEEEEBCTTSSBCSEEEECBCTTTCCBCCEETT--TTEEECTTTCCEEETTCCEEESSCC--
T ss_pred             ecccCCCcceeeeeecCCceEEEEEeCCCCEEEEEcCCCCCCCCCccCccc--CCeEEcCCCCeEECCCCCCCcCCCC--
Confidence            35566666543 45677777666551 344899999999999999998865  4689999999999999999988753  


Q ss_pred             CCcccccccCcccccccCCceeecceEEEecCCc
Q 017387          178 EGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       178 ~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                                  ..|.+|+|++++|.|||....+
T Consensus        93 ------------~~L~~~~v~v~~g~i~v~~~~~  114 (127)
T d1rfsa_          93 ------------LSLALAHCDVDDGKVVFVPWTE  114 (127)
T ss_dssp             ------------SCCCEEEEEEETTEEEEEECCS
T ss_pred             ------------CCcceEeEEEECCEEEEEcCCc
Confidence                        3589999999999999987654

>d2e74d1 b.33.1.1 (D:46-179) ISP subunit from the cytochrome b6f complex, soluble domain {Mastigocladus laminosus [TaxId: 83541]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit from the cytochrome b6f complex, soluble domain
species: Mastigocladus laminosus [TaxId: 83541]

Probab=99.69  E-value=4.3e-18  Score=143.72  Aligned_cols=93  Identities=15%  Similarity=0.181  Sum_probs=70.9

Q ss_pred             cCCCCCC-cchhhcccc--eEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccccC
Q 017387          102 DLDPNLP-TAFQLLGRD--LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASE  178 (372)
Q Consensus       102 eL~~g~~-~~~~~~g~~--lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~  178 (372)
                      ..++|.. ....+.|++  +++.|+ .+|+++||+|+|||+|++|+.|..  ++.|+||||||+||.+|+|+..|..   
T Consensus        27 ~~~~g~~~l~~~~~g~~~~~~v~~~-~~g~~~A~~~~C~H~G~~l~~g~~--~~~~~Cp~Hg~~Fd~~G~~~~gPa~---  100 (134)
T d2e74d1          27 SHNAGDRVLVQGLKGDPTYIVVESK-EAIRDYGINAVCTHLGCVVPWNAA--ENKFKCPCHGSQYDETGKVIRGPAP---  100 (134)
T ss_dssp             SSCSTTCEEEECGGGCEEEEC------CCCSEEEECBCTTTCCBCCBCTT--TSCEEETTTTEEECSSSCBCSSSCC---
T ss_pred             ccCCCceEeeeecCCCceEEEEEeC-CCCcEEEEeccccCCEEEcccccc--CCccCCCCCCcEECCCCCEEeCCCC---
Confidence            3344443 344556666  555566 689999999999999999999975  4689999999999999999987742   


Q ss_pred             CcccccccCcccccccCCceeecceEEEecCCc
Q 017387          179 GPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (372)
Q Consensus       179 ~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~  211 (372)
                                 .+|++|+|++.+|.|||....+
T Consensus       101 -----------~~L~~y~v~v~~~~i~V~p~~~  122 (134)
T d2e74d1         101 -----------LSLALCHATVQDDNIVLTPWTE  122 (134)
T ss_dssp             -----------SCCCEEEEECCTTSCEEEECCS
T ss_pred             -----------CCcceeeEEEECCEEEEeCCcc
Confidence                       3589999999999999987543

>d1g8kb_ b.33.1.1 (B:) Arsenite oxidase Rieske subunit {Alcaligenes faecalis [TaxId: 511]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Arsenite oxidase Rieske subunit
species: Alcaligenes faecalis [TaxId: 511]

Probab=99.68  E-value=4e-18  Score=143.64  Aligned_cols=78  Identities=23%  Similarity=0.283  Sum_probs=66.7

Q ss_pred             eeeeeccCCCCCCcchhh--cccceEEEEeC--------CCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC
Q 017387           96 PVSLVEDLDPNLPTAFQL--LGRDLVLWFDN--------NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG  165 (372)
Q Consensus        96 ~V~~~~eL~~g~~~~~~~--~g~~lvl~R~~--------~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~  165 (372)
                      .|+.+++|++|+++.+..  .+.+.+++|..        .+|+++||+|+|||+|++|+.+..  ++.|+||||||+||.
T Consensus        10 ~v~~~~~l~~~~p~~f~yp~~~~p~~lVr~g~~v~~~~g~~g~i~A~~~~CpH~g~~l~~~~~--~~~i~Cp~Hg~~Fd~   87 (133)
T d1g8kb_          10 AVSVAKNLAANEPVSFTYPDTSSPCVAVKLGAPVPGGVGPDDDIVAYSVLCTHMGCPTSYDSS--SKTFSCPCHFTEFDA   87 (133)
T ss_dssp             EEEEGGGCCBTCCEEEECSSTTSEEEEEECSSCCTTCBTTTTCEEEEECBCTTTCCBCEEETT--TTEEECTTTCCEEEG
T ss_pred             heEEHHHCCCCCCEEEeccCCCCCEEEEEcCCceeEEECCCCEEEEEehhcCCCCcccccCcc--cCEEECCCCCeEEec
Confidence            499999999999988774  67889999852        258999999999999999997764  468999999999997


Q ss_pred             --CCcccccCcc
Q 017387          166 --CGSCTRIPQA  175 (372)
Q Consensus       166 --dG~c~~iP~~  175 (372)
                        +|+++..|..
T Consensus        88 ~~~G~~~~gPa~   99 (133)
T d1g8kb_          88 EKAGQMICGEAT   99 (133)
T ss_dssp             GGTTEEEESSCS
T ss_pred             CCCceEeCCCCC
Confidence              5999988754

>d1nyka_ b.33.1.1 (A:) Soluble Rieske protein {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Soluble Rieske protein
species: Thermus thermophilus [TaxId: 274]

Probab=99.50  E-value=5.4e-15  Score=127.53  Aligned_cols=69  Identities=22%  Similarity=0.302  Sum_probs=58.4

Q ss_pred             CCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC--CCcccccCccccCCcccccccCcccccccCCceeecce
Q 017387          126 SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG--CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGL  203 (372)
Q Consensus       126 ~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~--dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~  203 (372)
                      .+.|+||.|+|+|+|++|+.+... ++.|.||||||+||.  .|+++..|..              ..|.+|++++++|.
T Consensus        77 ~d~i~A~~~~CtH~g~~l~~~~~~-~~~~~Cp~Hgs~FD~~~gg~v~~gPa~--------------~~L~~~~~~~~~g~  141 (156)
T d1nyka_          77 AEGVVAYSAVCTHLGCIVSQWVAD-EEAALCPCHGGVYDLRHGAQVIAGPPP--------------RPVPQLPVRVEDGV  141 (156)
T ss_dssp             BTTEEEEECBCTTTCCBCCEEEGG-GTEEECTTTCCEEEGGGTTEEEESSCS--------------SCCCEECEEEETTE
T ss_pred             CCcEEEEcccCccccccccccccc-CCeeeccccceEEecCCCceEeCCCCC--------------CCCCEEEEEEECCE
Confidence            345999999999999999998875 679999999999998  4777766532              35899999999999


Q ss_pred             EEEecC
Q 017387          204 LFVWPD  209 (372)
Q Consensus       204 I~V~~~  209 (372)
                      |||.-+
T Consensus       142 i~v~~d  147 (156)
T d1nyka_         142 LVAAGE  147 (156)
T ss_dssp             EEECSS
T ss_pred             EEEeec
Confidence            999654

>d3cx5e1 b.33.1.1 (E:87-215) ISP subunit of the mitochondrial cytochrome bc1-complex, water-soluble domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit of the mitochondrial cytochrome bc1-complex, water-soluble domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.10  E-value=3.8e-11  Score=99.72  Aligned_cols=92  Identities=14%  Similarity=0.189  Sum_probs=69.9

Q ss_pred             eccCCCCCCcchhhcccceEEEEeC-------------------------CCCceEEcccCCCccccCCCCCccCCCCce
Q 017387          100 VEDLDPNLPTAFQLLGRDLVLWFDN-------------------------NSNKWVAFDDKCPHRLAPLSEGRIDENGHL  154 (372)
Q Consensus       100 ~~eL~~g~~~~~~~~g~~lvl~R~~-------------------------~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i  154 (372)
                      .++|++|+.+.+..-|++++|.|..                         .++++.++..+|+|.|+.+....-. .+.+
T Consensus        12 is~l~pG~~~~V~WrGkPVfI~~Rt~e~i~~~~~~~~~~l~dp~~~~~r~~~~~~~v~~~~CtHlGC~~~~~~~~-~~~~   90 (129)
T d3cx5e1          12 LAAIPLGKNVVVKWQGKPVFIRHRTPHEIQEANSVDMSALKDPQTDADRVKDPQWLIMLGICTHLGCVPIGEAGD-FGGW   90 (129)
T ss_dssp             GGGCCTTCEEEEEETTEEEEEEECCHHHHHHHHCSCGGGCSSCCCSTTTCSSTTEEEEECCCTTTSCCCEEEETT-TTEE
T ss_pred             hhhCCCCCeEEEEeCCceEEEEecCHHHhhhccccccccccccccchhccccccEEEEEeeccCcceeeeeccCc-CCeE
Confidence            4556666666666666666665421                         4578999999999999988765432 4689


Q ss_pred             eeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEE
Q 017387          155 QCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFV  206 (372)
Q Consensus       155 ~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V  206 (372)
                      .||+||.+||.+|+.+..|..              ..|..|++++.++-|.|
T Consensus        91 ~CPCHgs~fd~~G~v~~GPA~--------------~~L~~~~~~~~~~~i~i  128 (129)
T d3cx5e1          91 FCPCHGSHYDISGRIRKGPAP--------------LNLEIPAYEFDGDKVIV  128 (129)
T ss_dssp             EETTTTEEECTTCCEEESSCC--------------SCCCCCCEEEETTEEEE
T ss_pred             EEcCcCCCCCCCCCEEeCCCC--------------CCCCCCcEEEECCEEEE
Confidence            999999999999999987643              34788999999887765

>d1riea_ b.33.1.1 (A:) ISP subunit of the mitochondrial cytochrome bc1-complex, water-soluble domain {Cow (Bos taurus) [TaxId: 9913]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit of the mitochondrial cytochrome bc1-complex, water-soluble domain
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.95  E-value=3.7e-10  Score=93.23  Aligned_cols=88  Identities=19%  Similarity=0.293  Sum_probs=65.1

Q ss_pred             eccCCCCCCcchhhcccceEEEEeC-------------------------CCCceEEcccCCCccccCCCCCccCCCCce
Q 017387          100 VEDLDPNLPTAFQLLGRDLVLWFDN-------------------------NSNKWVAFDDKCPHRLAPLSEGRIDENGHL  154 (372)
Q Consensus       100 ~~eL~~g~~~~~~~~g~~lvl~R~~-------------------------~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i  154 (372)
                      +++|++|+.+.+..-|++|.|.|..                         .++++.|+...|+|.|+........ .+.+
T Consensus         9 lS~lepG~~~~V~WrGkPvfV~rRt~e~i~~~~~~~~~~l~dp~~~~~r~~~~~~~~~~~~CtHlGC~~~~~~~~-~~~f   87 (127)
T d1riea_           9 LSDIPEGKNMAFKWRGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIANAGD-FGGY   87 (127)
T ss_dssp             GGGSCTTCEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSSCCCGGGTCSSTTEEEEECCCTTTSCCCEETCTT-TEEE
T ss_pred             hhhCCCCCEEEEEECCceeEEEecCHHHhhhhhccchhhhcCccccccccccceEEEEEeccCCCCceeeccccc-CCeE
Confidence            4566666666666667776666521                         3688999999999999976543322 3579


Q ss_pred             eeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecc
Q 017387          155 QCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQG  202 (372)
Q Consensus       155 ~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G  202 (372)
                      .||+||.+||.+|+.+..|..              ..|..++++..++
T Consensus        88 ~CPCHgs~fd~~Grv~~GPAp--------------~~L~~p~~~~~~d  121 (127)
T d1riea_          88 YCPCHGSHYDASGRIRKGPAP--------------LNLEVPSYEFTSD  121 (127)
T ss_dssp             EETTTTEEEETTCCEEESSCC--------------SCCCCCCEEESSS
T ss_pred             EecCcCCcCCCCCCEEcCCCC--------------CCCCCCcEEEeCC
Confidence            999999999999999987743              2477788877764

>d1z01a2 d.129.3.3 (A:164-442) 2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase component OxoO {Pseudomonas putida [TaxId: 303]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: Bet v1-like
family: Ring hydroxylating alpha subunit catalytic domain
domain: 2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase component OxoO
species: Pseudomonas putida [TaxId: 303]

Probab=98.88  E-value=1.9e-09  Score=100.52  Aligned_cols=65  Identities=22%  Similarity=0.223  Sum_probs=49.5

Q ss_pred             ecceEEEecCCcchhhhccCCCCCCCCCCCCCCcceEEEeeeccchhhhhhccCCCCCccccccccccc
Q 017387          200 SQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTG  268 (372)
Q Consensus       200 ~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g  268 (372)
                      .+|++||+++..+  ..+..+.|.+| .+.+++.........++|||...+||.+|++|+ |+|.++.+
T Consensus         3 ~~~~~~~~~~~~~--~~~~p~~p~~p-~~~~~~~~~~~~~~~~~~NWlQ~~En~iD~aH~-fLH~~s~~   67 (279)
T d1z01a2           3 AHDLPFRFPERSE--QFPHPLWPSSP-SVLDDNAVVHGMHRTGFGNWRIACENGFDNAHI-LVHKDNTI   67 (279)
T ss_dssp             GGGSCCCTTTTTT--TSCCTTSCCCC-CTTSTTEEEEEEEEEEESCHHHHHTTTTCTTGG-GGGTTCHH
T ss_pred             ccCCceecCCccc--cCCCCCCCCCC-cccCCCceEEEEEEEeecchhhhhhcCcChhhe-eeeccccc
Confidence            4789999987654  22223335566 577777776666788999999999999999998 99997643

>d1jm1a_ b.33.1.1 (A:) Rieske protein II (SoxF) {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: Rieske protein II (SoxF)
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=98.70  E-value=3.4e-09  Score=94.10  Aligned_cols=71  Identities=21%  Similarity=0.271  Sum_probs=55.1

Q ss_pred             CCCceEEcccCCCccccCCCCCcc----------CCCCceeeeeeceeecC--CCcccccCccccCCcccccccCccccc
Q 017387          125 NSNKWVAFDDKCPHRLAPLSEGRI----------DENGHLQCSYHGWSFDG--CGSCTRIPQAASEGPEARAIQSPRACA  192 (372)
Q Consensus       125 ~~G~v~A~~n~CpHRga~Ls~G~v----------~~~~~i~CPyHGw~Fd~--dG~c~~iP~~~~~~~~~~~~~~~~~~l  192 (372)
                      .+|+|+||.++|+|.|+++.....          ..++.|.||+||++||+  +|+++..|..              ..|
T Consensus        81 p~~~ivA~s~iCtHlGC~~~~~~~~~~~~~~~~~~~~~~i~CpcHgS~FD~~~gG~v~~GPA~--------------~pL  146 (202)
T d1jm1a_          81 PNGTIFAFSDVCVHLGCQLPAQVIVSSESDPGLYAKGADLHCPCHGSIYALKDGGVVVSGPAP--------------RPL  146 (202)
T ss_dssp             TTTCEEEEESBCTTTCCBCCTTEEESSTTSSEEETTTTEEECTTTCCEEEGGGTSEEEESSCC--------------SCC
T ss_pred             CCCeEEEEeCcCCCCCCcccccccccccccccccCCCCEEEccCcCCEEcCCCCCeEeCCCCC--------------CCc
Confidence            478999999999999999975421          13568999999999998  4899887743              237


Q ss_pred             ccCCceee--cceEE-EecC
Q 017387          193 TRFPTMVS--QGLLF-VWPD  209 (372)
Q Consensus       193 ~~~pv~e~--~G~I~-V~~~  209 (372)
                      ..++++++  .|.|| |-+.
T Consensus       147 p~v~Le~d~~~g~iyAvG~~  166 (202)
T d1jm1a_         147 PIVILDYDSSTGDIYAVGTN  166 (202)
T ss_dssp             CBEEEEECTTTCEEEEEEES
T ss_pred             CccEEEEeCCCCeEEEEEcc
Confidence            78888876  48999 5444

>d2bmoa2 d.129.3.3 (A:153-439) Nitrobenzene dioxygenase alpha subunit, NBDO-alpha {Comamonas sp. JS765 [TaxId: 58226]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: Bet v1-like
family: Ring hydroxylating alpha subunit catalytic domain
domain: Nitrobenzene dioxygenase alpha subunit, NBDO-alpha
species: Comamonas sp. JS765 [TaxId: 58226]

Probab=96.49  E-value=0.00012  Score=66.66  Aligned_cols=29  Identities=17%  Similarity=0.293  Sum_probs=25.7

Q ss_pred             eeeccchhhhhhccCC-CCCcccccccccc
Q 017387          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKVT  267 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~l-D~~H~~~vH~~~~  267 (372)
                      ...++||||+.+||++ |.||+.++|+.++
T Consensus        34 r~~~~~NWKl~~ENf~~D~YH~~~~H~s~~   63 (287)
T d2bmoa2          34 KVVVKANWKSFAENFVGDGYHVGWTHAAAL   63 (287)
T ss_dssp             EEEESSCHHHHHHHHHHBCTTHHHHTHHHH
T ss_pred             EEEECCCcchHhhcccccccCCCccchhHH
Confidence            4578999999999986 9999999998754

>d2de6a2 d.129.3.3 (A:143-384) Terminal oxygenase component of carbazole CarAa {Janthinobacterium sp. j3 [TaxId: 213804]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: Bet v1-like
family: Ring hydroxylating alpha subunit catalytic domain
domain: Terminal oxygenase component of carbazole CarAa
species: Janthinobacterium sp. j3 [TaxId: 213804]

Probab=96.33  E-value=0.002  Score=56.46  Aligned_cols=40  Identities=23%  Similarity=0.324  Sum_probs=31.9

Q ss_pred             CCCCCCcceEEEeeeccchhhhhhccCCCCCcccccccccc
Q 017387          227 AFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVT  267 (372)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~  267 (372)
                      .+-|.+.......+.+.+||.+.+||..|..|+ |+|..+.
T Consensus        10 ~fLd~d~v~~G~~r~~~aNWRla~ENGFD~~Hi-~iHkds~   49 (242)
T d2de6a2          10 NFLDDDMEILGKNQIIKSNWRLAVENGFDPSHI-YIHKDSI   49 (242)
T ss_dssp             TTTCTTEEEEEEEEEESSCHHHHHHHHHCGGGG-GGGTTCH
T ss_pred             cccCCCceeeccccccccceEEeeccCcCcccE-EEecCCc
Confidence            444555554555678999999999999999999 9999864

>d2b1xa2 d.129.3.3 (A:163-441) Naphthalene 1,2-dioxygenase alpha subunit, C-domain {Rhodococcus sp. ncimb12038 [TaxId: 92694]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: Bet v1-like
family: Ring hydroxylating alpha subunit catalytic domain
domain: Naphthalene 1,2-dioxygenase alpha subunit, C-domain
species: Rhodococcus sp. ncimb12038 [TaxId: 92694]

Probab=96.09  E-value=0.00028  Score=64.17  Aligned_cols=29  Identities=14%  Similarity=0.155  Sum_probs=25.6

Q ss_pred             eeeccchhhhhhccCC-CCCcccccccccc
Q 017387          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKVT  267 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~l-D~~H~~~vH~~~~  267 (372)
                      ...++||||+.+||++ |.||+.++|.+..
T Consensus        34 r~~i~~NWKl~~EN~~~D~YH~~~tH~S~~   63 (279)
T d2b1xa2          34 RWVIDANWKLGADNFVGDAYHTMMTHRSMV   63 (279)
T ss_dssp             EEEESSCTHHHHHHHHHCCTTHHHHTHHHH
T ss_pred             EEEEcCCCchhhhcCCCcCCCccccchhHH
Confidence            3578999999999987 9999999998754

>d1ulia2 d.129.3.3 (A:171-451) Biphenyl dioxygenase large subunit BphA1, C-terminal domain {Rhodococcus sp. (strain RHA1) [TaxId: 101510]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: Bet v1-like
family: Ring hydroxylating alpha subunit catalytic domain
domain: Biphenyl dioxygenase large subunit BphA1, C-terminal domain
species: Rhodococcus sp. (strain RHA1) [TaxId: 101510]

Probab=95.65  E-value=0.00038  Score=63.05  Aligned_cols=29  Identities=14%  Similarity=0.078  Sum_probs=25.2

Q ss_pred             eeeccchhhhhhccCC-CCCcccccccccc
Q 017387          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKVT  267 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~l-D~~H~~~vH~~~~  267 (372)
                      ...++||||+.+||++ |.||+.++|..+.
T Consensus        34 r~~~~~NWKl~~ENf~~D~YH~~~~H~~~~   63 (281)
T d1ulia2          34 KWVIPCNWKFAAEQFCSDMYHAGTTSHLSG   63 (281)
T ss_dssp             EEEECSCHHHHHHHHHHBHHHHHTTTTHHH
T ss_pred             EEEecCCCeehhhcCCCCCccchhhhhhHH
Confidence            3568999999999988 9999999998753

>d1wqla2 d.129.3.3 (A:181-459) Large subunit of cumene dioxygenase cumA1 {Pseudomonas fluorescens [TaxId: 294]}

class: Alpha and beta proteins (a+b)
fold: TBP-like
superfamily: Bet v1-like
family: Ring hydroxylating alpha subunit catalytic domain
domain: Large subunit of cumene dioxygenase cumA1
species: Pseudomonas fluorescens [TaxId: 294]

Probab=94.91  E-value=0.0011  Score=59.89  Aligned_cols=28  Identities=14%  Similarity=0.088  Sum_probs=24.2

Q ss_pred             eeeccchhhhhhccCC-CCCccccccccc
Q 017387          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKV  266 (372)
Q Consensus       239 ~~~~~~nwk~~~EN~l-D~~H~~~vH~~~  266 (372)
                      ...++||||+.+|||. |.||+..+|+..
T Consensus        34 r~~~~~NWKl~~ENf~~D~YH~~~~hh~~   62 (279)
T d1wqla2          34 KTVIPCNWKFAAEQFCSDMYHAGTMAHLS   62 (279)
T ss_dssp             EEEESSCHHHHHHHHHHBCHHHHTTTTHH
T ss_pred             EeeecCCceehhhcCCCCCcChhhhhhhh
Confidence            3578999999999986 999999888764