Citrus Sinensis ID: 012708

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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-------380-------390-------400-------410-------420-------430-------440-------450-------46
Protein Sequence
MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTVLSKYAR
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccEEEEEEcccEEEEEEcccccEEEEEcccccccccccccEEccccEEEcccccEEEcccccEEEcccccccccccccccccccEEEEEEEEEEccEEEEEEcccccccccccccccccccccccccEEEEEEEEEEcccHHHHHHHccccccccccccccccccccccccEEEEEccccEEEEEEcccccccEEEEccEEEEEEEEEEEEccccccccEEEEEEEEEEEcccccEEEEEEEEcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHccccccccccHHHHHHHHHHHHHccccccccccccccccccHHcccccc
Secondary Structure Prediction (SSPRO)
ccEEEcccccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccccccccccccccccccccccccHcccEEEccHHHcccccccccEEccccEEEEEccccccEEEEccccccccccccccEEccccEEEEccccEEEcccccEEEcccccccccccccccccccEEEEccEEEEccEEEEEcccccHHHccccccccccccccccccEEEccEEEccccHHHHHHHccccccccEEcccccccccccccccEEEEEcccccccccccccccEEEEEEcccEEEEEEccccccccccccccEEEEEEEEEccccccEEEEEEccccccccccccHHHHHHcHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccccccHHHccccccHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHcc
Coil and Loop (DISEMBL)
MALLLSttanittsprktlpflatgtpkrqITVKSLQKRsknlsplrvaappsdpaasdeetmrkdekedygslvddeygkessdskfswrdhwypvslvedldpnlptAFQLLGRDLVLwfdnnsnkwvafddkcphrlaplsegridenghlqcsyhgwsfdgcgsctripqaasegpearaiqspracatrfptmvsqgllfvwpdeygqeranatkppmlpdafdkpefssvtiqRDLFYGydtlmenvsdpshidfahhkvtgrrdrakplpfklessghwgfagandgnprisakfvapcyymnkieidtklpvvgdqKWIIWICsfnvpmapgktrSIVCSARnffqftmpgpawwqvvprwhehwtsnkvydgdmiVLQGQEKIFLSKLmegsedvnkeytkitftpTQADRLVLAFRNWLrrhgnsqpewfgfssqqpspstvlskyar
Flexible Loop (DISEMBL)
MALLLSTtanittsprktlpflatgtpkrqiTVKSlqkrsknlsplrvaappsdpaasdeetmrkdekedygslvddeygkessdskfswrDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTkitftptqaDRLVLAFRNWLRRHGNsqpewfgfssqqpspstvlskyar
Low Complexity Region (SEG)
MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVaappsdpaasdEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTVLSKYAR
Disordered region (IsUnstruct)
***************************************************************************************FSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI*****************ACATRFPTMVSQGLLFVWPDEYG********************FSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKV***********FKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGN***EWF******************
Disordered Region (DISOPRED)
****************************************************************************************SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA***********PRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQP*****************KYA*
Disordered Region (DISEMBL)
MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSP**************************GSLVD***********FSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIP**************PRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFG*****************
Disordered Region (DISPRO)
*********NI***************************************************************************KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTV******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALLLSTTANITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETMRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTVLSKYAR
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	458	2.2.26 [Sep-21-2011]
Q9FYC2	537	Pheophorbide a oxygenase,	yes	no	0.969	0.826	0.754	0.0
Q8W496	559	Protochlorophyllide-depen	no	no	0.737	0.604	0.325	1e-56
O49931	553	Protein TIC 55, chloropla	N/A	no	0.768	0.636	0.287	3e-40
Q9SK50	539	Protein TIC 55, chloropla	no	no	0.755	0.641	0.286	5e-38
Q9XJ38	463	Chlorophyllide a oxygenas	N/A	no	0.633	0.626	0.274	6e-21
Q9ZWM5	645	Chlorophyllide a oxygenas	N/A	no	0.665	0.472	0.243	1e-16
Q9AHG3	346	Putative toluene-4-sulfon	no	no	0.353	0.468	0.294	6e-13
Q8S7E1	541	Chlorophyllide a oxygenas	no	no	0.635	0.537	0.230	2e-11
P71875	386	3-ketosteroid-9-alpha-mon	yes	no	0.344	0.409	0.289	1e-10
Q44256	432	3-chlorobenzoate-3,4-diox	no	no	0.351	0.372	0.298	5e-10

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

 Score =  716 bits (1847), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/460 (75%), Positives = 386/460 (83%), Gaps = 16/460 (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 PGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSE-DVNKEYTKITFTPT 416
           PGPAWWQVVPRW+EHWTSN VYDGDMIVLQGQEK+FL+K ME  + DVNK+YTK+TFTPT
Sbjct: 352 PGPAWWQVVPRWYEHWTSNLVYDGDMIVLQGQEKVFLAKSMESPDYDVNKQYTKLTFTPT 411

Query: 417 QADRLVLAFRNWLRRHGNSQPEWFGFS-SQQPSPSTVLSK 455
           QADR VLAFRNWLRRHG SQPEWFG + S QP PSTVL+K
Sbjct: 412 QADRFVLAFRNWLRRHGKSQPEWFGSTPSNQPLPSTVLTK 451

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 =  221 bits (562), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 132/406 (32%), Positives = 202/406 (49%), Gaps = 68/406 (16%)

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+  + P F+ +   RD+ YGYD L+EN+ DP+H+
Sbjct: 191 EIIWFWPNSDPKYKNIIETNKPPYIPE-LEDPSFTKLMGNRDIPYGYDVLVENLMDPAHV 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 PMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLS 395
           P++PG++R I    RNF  F        ++VPRW  H   N + D D+ +L  +E+  L 
Sbjct: 364 PVSPGRSRLIWTFPRNFGVFID------KIVPRWVFHIGQNTILDSDLHLLHVEERKILE 417

Query: 396 KLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFG 441
           +   G E+    + K  F PT++D  V+ FR W  ++  ++ +W G
Sbjct: 418 R---GPEN----WQKACFIPTKSDANVVTFRRWFNKYSEARVDWRG 456

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 =  166 bits (420), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 111/386 (28%), Positives = 191/386 (49%), Gaps = 34/386 (8%)

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 SAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMP 358
             +F APC   N  EI  K   +      +++C    P   GK+  IV      F  T  
Sbjct: 304 FLRFEAPCVLQNNREIVDKNGEINHFSG-LFLCR---PTGQGKSMLIV-----RFGATKR 354

Query: 359 GPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQA 418
            P   ++ P W+ H  ++KV++ DM  L  Q +I L + +   E        +      +
Sbjct: 355 SPL-IKLFPEWYFHQNASKVFEQDMGFLSSQNEILLKEKVPTKE--------LYLNLKSS 405

Query: 419 DRLVLAFRNWLRRHGNSQPEWFGFSS 444
           D  V  +R W+ + G+  P  FG S+
Sbjct: 406 DTWVAEYRKWMDKVGHGMPYHFGHST 431

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 =  159 bits (401), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 113/394 (28%), Positives = 187/394 (47%), Gaps = 48/394 (12%)

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 --NDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWI--IWICSFNVPMAPGKTRSIVC 347
               G      +F APC   N  E + K    G + +   +++C    P   GK+  IV 
Sbjct: 281 EKEGGKGSNLLRFDAPCVLQNNREFEGK---DGVKNYFSGLFLCR---PTGQGKSMLIV- 333

Query: 348 SARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKE 407
                F  T   P    V+P+W  H  + KV++ DM  L  Q ++ + + +   +     
Sbjct: 334 ----RFGVTKRSPL-VSVLPQWFWHQNACKVFEQDMGFLSSQNEVLMKEKVPTKD----- 383

Query: 408 YTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFG 441
              +      +D  V  +R W+ + G+  P  FG
Sbjct: 384 ---LYLNLKSSDTWVAEYRKWMDKVGHGMPYHFG 414

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 =  102 bits (254), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 97/354 (27%), Positives = 144/354 (40%), Gaps = 64/354 (18%)

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 KVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQ 324
             T    R  P+P  +        AG  D  P IS  F  PC  ++ I +     ++   
Sbjct: 288 --TTTFARGWPIPEAVRFHATKMLAGDWDPYP-ISMSFNPPCIALSTIGLSQPGKIMRGY 344

Query: 325 K--------WIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHW--T 374
           K          + +C   +P   G TR +   + +F+        W + VP     W   
Sbjct: 345 KAEECKRHLHQLHVC---MPSKEGHTRLLYRMSLDFW-------GWAKHVPFVDVLWKKI 394

Query: 375 SNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNW 428
           + +V   D++++ GQ+       M G +D          TP   D+L + +R W
Sbjct: 395 AGQVLGEDLVLVLGQQ-----ARMIGGDDT-------WCTPMPYDKLAVRYRRW 436

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 = 88.2 bits (217), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 88/362 (24%), Positives = 146/362 (40%), Gaps = 57/362 (15%)

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 SHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDT 316
           +H  F H   T    R  P+P  ++   +   +G  D  P I   F  PC  ++ I +  
Sbjct: 452 AHAPFTH---TSTFARGWPVPDFVKFHANKALSGFWDPYP-IDMAFQPPCMTLSTIGLAQ 507

Query: 317 KLPVV--------GDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPR 368
              ++         +    + +C   +P   G TR +   + +F         W + VP 
Sbjct: 508 PGKIMRGVTASQCKNHLHQLHVC---MPSKKGHTRLLYRMSLDFL-------PWMRHVPF 557

Query: 369 WHEHW--TSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFR 426
               W   + +V   D++++ GQ+     +++ G  + +         P   D+L + +R
Sbjct: 558 IDRIWKQVAAQVLGEDLVLVLGQQ----DRMLRGGSNWS--------NPAPYDKLAVRYR 605

Query: 427 NW 428
            W
Sbjct: 606 RW 607

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 = 75.9 bits (185), 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|Q8S7E1|CAO_ORYSJ Chlorophyllide a oxygenase, chloroplastic OS=Oryza sativa subsp. japonica GN=CAO PE=2 SV=1

 Score = 71.2 bits (173), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 82/355 (23%), Positives = 145/355 (40%), Gaps = 64/355 (18%)

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 VSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFS-SVTIQRDLFYGYDTLMENVSDPS 257
             +G++++WP   G +   +T P +LP +     F+    I  +L   +  L++N+ D +
Sbjct: 313 EQEGMVWIWP---GNDPPKSTIPSLLPPS----GFTIHAEIVMELPVEHGLLLDNLLDLA 365

Query: 258 HIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDT- 316
           H  F H     +      L   L  S   G  G  D  P I  +F  PC  ++ I I   
Sbjct: 366 HAPFTHTSTFAKGWSVPSLVKFLTPSS--GLQGYWDPYP-IDMEFRPPCMVLSTIGISKP 422

Query: 317 -KLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWT- 374
            KL     ++    +   ++ +   + ++     R  ++ ++    W + VP  H  W+ 
Sbjct: 423 GKLEGKSTKQCSTHLHQLHICLPSSRNKT-----RLLYRMSLDFAPWIKHVPFMHILWSH 477

Query: 375 -SNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNW 428
            + KV + D+ ++ GQ++    +++ G+   N         P   D+L + +R W
Sbjct: 478 FAEKVLNEDLRLVLGQQE----RMINGANVWN--------WPVSYDKLGIRYRLW 520

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

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

 Score = 68.2 bits (165), 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 NPPDPAVRIPEIPEAA-SDEWTDWRWNRILIEGSNCRDIIDNVTDMAHFFYIH 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 = 66.2 bits (160), Expect = 5e-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: -

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	458
255565489	531	pheophorbide A oxygenase, putative [Rici	0.958	0.826	0.789	0.0
226434019	539	pheide a oxyganase [Vitis vinifera]	0.980	0.833	0.784	0.0
225436442	539	PREDICTED: pheophorbide a oxygenase, chl	0.980	0.833	0.784	0.0
224118438	535	predicted protein [Populus trichocarpa]	0.980	0.839	0.791	0.0
449524120	545	PREDICTED: pheophorbide a oxygenase, chl	0.973	0.818	0.762	0.0
15230543	537	pheophorbide a oxygenase [Arabidopsis th	0.969	0.826	0.754	0.0
449443371	545	PREDICTED: pheophorbide a oxygenase, chl	0.973	0.818	0.760	0.0
37962886	537	accelerated cell death 1 [Arabidopsis th	0.969	0.826	0.752	0.0
297815634	537	hypothetical protein ARALYDRAFT_905628 [	0.969	0.826	0.747	0.0
407930081	537	lethal leaf spot 1-like protein [Capsicu	0.897	0.765	0.789	0.0

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

 Score =  747 bits (1929), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 364/461 (78%), Positives = 390/461 (84%), Gaps = 22/461 (4%)

Query: 1   MALLLSTTA------NITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSD 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 FTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFT 414
           FTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLS+  EGS +VN++YTK+TFT
Sbjct: 346 FTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSESKEGS-NVNEQYTKLTFT 404

Query: 415 PTQADRLVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTVLSK 455
           PTQADR VLAFRNWLRRHGNSQPEWF F  QQP PST+LSK
Sbjct: 405 PTQADRFVLAFRNWLRRHGNSQPEWFSFDGQQPLPSTILSK 445

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  733 bits (1893), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 360/459 (78%), Positives = 389/459 (84%), Gaps = 10/459 (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 MPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPT 416
           MPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSK  EGS DVN++YT+ITFTPT
Sbjct: 355 MPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKSKEGSADVNEQYTQITFTPT 414

Query: 417 QADRLVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTVLSK 455
           Q+DR VLAFRNWLRRHGNSQP+WFG S+Q P PSTVLSK
Sbjct: 415 QSDRFVLAFRNWLRRHGNSQPDWFGISNQGPLPSTVLSK 453

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 =  733 bits (1892), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 360/459 (78%), Positives = 389/459 (84%), Gaps = 10/459 (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 MPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPT 416
           MPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSK  EGS DVN++YT+ITFTPT
Sbjct: 355 MPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKSKEGSADVNEQYTQITFTPT 414

Query: 417 QADRLVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTVLSK 455
           Q+DR VLAFRNWLRRHGNSQP+WFG S+Q P PSTVLSK
Sbjct: 415 QSDRFVLAFRNWLRRHGNSQPDWFGISNQGPLPSTVLSK 453

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  720 bits (1858), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 360/455 (79%), Positives = 393/455 (86%), Gaps = 6/455 (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 AWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADR 420
           AWWQV PRWHEHWTSNKVYDGDMIVLQGQEK FLS+ M GS D+NK+YTK+TFTPTQADR
Sbjct: 355 AWWQVFPRWHEHWTSNKVYDGDMIVLQGQEKTFLSQSMGGSADINKQYTKLTFTPTQADR 414

Query: 421 LVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTVLSK 455
            VL FR WLRRHGNS+PEWFG + +Q  PS VLSK
Sbjct: 415 FVLEFRGWLRRHGNSKPEWFGLTDKQLFPSAVLSK 449

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  716 bits (1849), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 344/451 (76%), Positives = 382/451 (84%), Gaps = 5/451 (1%)

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 VVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLA 424
           VVPRWHEHWTSNKVYDGDMIVLQGQEKIFLS  MEGS DVNKEYTKITFTPTQADRLVLA
Sbjct: 371 VVPRWHEHWTSNKVYDGDMIVLQGQEKIFLS--MEGSTDVNKEYTKITFTPTQADRLVLA 428

Query: 425 FRNWLRRHGNSQPEWFGFSSQQPSPSTVLSK 455
           FRNWLRRHG  QPEWFG SSQQP PSTVLSK
Sbjct: 429 FRNWLRRHGKGQPEWFGASSQQPLPSTVLSK 459

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  716 bits (1847), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/460 (75%), Positives = 386/460 (83%), Gaps = 16/460 (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 PGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSE-DVNKEYTKITFTPT 416
           PGPAWWQVVPRW+EHWTSN VYDGDMIVLQGQEK+FL+K ME  + DVNK+YTK+TFTPT
Sbjct: 352 PGPAWWQVVPRWYEHWTSNLVYDGDMIVLQGQEKVFLAKSMESPDYDVNKQYTKLTFTPT 411

Query: 417 QADRLVLAFRNWLRRHGNSQPEWFGFS-SQQPSPSTVLSK 455
           QADR VLAFRNWLRRHG SQPEWFG + S QP PSTVL+K
Sbjct: 412 QADRFVLAFRNWLRRHGKSQPEWFGSTPSNQPLPSTVLTK 451

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443371|ref|XP_004139451.1| PREDICTED: pheophorbide a oxygenase, chloroplastic-like [Cucumis sativus]

 Score =  715 bits (1846), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 343/451 (76%), Positives = 381/451 (84%), Gaps = 5/451 (1%)

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 E S + FSWRD+WYPVSL+EDLDP LPT FQLLGRD+V+WFD 
Sbjct: 74  VVESD---EVEVDESGNEGSSTPFSWRDNWYPVSLIEDLDPALPTPFQLLGRDIVIWFDK 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 VVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLA 424
           VVPRWHEHWTSNKVYDGDMIVLQGQEKIFLS  MEGS DVNKEYTKITFTPTQADRLVLA
Sbjct: 371 VVPRWHEHWTSNKVYDGDMIVLQGQEKIFLS--MEGSTDVNKEYTKITFTPTQADRLVLA 428

Query: 425 FRNWLRRHGNSQPEWFGFSSQQPSPSTVLSK 455
           FRNWLRRHG  QPEWFG SSQQP PSTVLSK
Sbjct: 429 FRNWLRRHGKGQPEWFGASSQQPLPSTVLSK 459

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  712 bits (1839), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 346/460 (75%), Positives = 385/460 (83%), Gaps = 16/460 (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 PGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSE-DVNKEYTKITFTPT 416
           PGPAWWQVVPRW+EHWTSN VYDGDMIVLQGQEK+FL+K ME  + DVNK+YTK+TFTPT
Sbjct: 352 PGPAWWQVVPRWYEHWTSNLVYDGDMIVLQGQEKVFLAKSMESPDYDVNKQYTKLTFTPT 411

Query: 417 QADRLVLAFRNWLRRHGNSQPEWFGFS-SQQPSPSTVLSK 455
           QADR VLAFRNWLRRHG SQPEWFG + S QP PSTVL+K
Sbjct: 412 QADRFVLAFRNWLRRHGKSQPEWFGSTPSNQPLPSTVLTK 451

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 =  712 bits (1838), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 344/460 (74%), Positives = 384/460 (83%), Gaps = 16/460 (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 PGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSE-DVNKEYTKITFTPT 416
           PGPAWWQVVPRW+EHWTSN VYDGDMIVLQGQEK+FLSK ME  + DVNK+YTK+TFTPT
Sbjct: 352 PGPAWWQVVPRWYEHWTSNLVYDGDMIVLQGQEKVFLSKSMESPDYDVNKQYTKLTFTPT 411

Query: 417 QADRLVLAFRNWLRRHGNSQPEWFG-FSSQQPSPSTVLSK 455
           QADR VLAFRNWLRRHG SQPEWFG  ++ QP PSTVL+K
Sbjct: 412 QADRFVLAFRNWLRRHGKSQPEWFGSTTANQPLPSTVLTK 451

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  707 bits (1825), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/418 (78%), Positives = 366/418 (87%), Gaps = 7/418 (1%)

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 APGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKL 397
           APGKTRSIVCSARNFFQF +PGPAWWQV PRW EHWTSNKVYDGDMIVLQGQEKIFLSK 
Sbjct: 334 APGKTRSIVCSARNFFQFAVPGPAWWQVFPRWQEHWTSNKVYDGDMIVLQGQEKIFLSKS 393

Query: 398 MEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFGFSSQQPSPSTVLSK 455
            E   DVNK+YTK+TFTPTQADR VLAFRNWLRRHGNSQPEWFG +  QP PSTVLSK
Sbjct: 394 KENGTDVNKDYTKLTFTPTQADRFVLAFRNWLRRHGNSQPEWFGSTDNQPLPSTVLSK 451

Source: Capsicum annuum

Species: Capsicum annuum

Genus: Capsicum

Family: Solanaceae

Order: Solanales

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	458
TAIR|locus:2082122	537	ACD1 "ACCELERATED CELL DEATH 1	0.973	0.830	0.744	4.7e-190
TAIR|locus:2131406	559	ACD1-LIKE "AT4G25650" [Arabido	0.393	0.322	0.437	1.1e-58
TAIR|locus:2047329	539	TIC55-II "translocon at the in	0.687	0.584	0.303	1.1e-37
UNIPROTKB|P71875	386	kshA "3-ketosteroid-9-alpha-mo	0.344	0.409	0.289	9e-11
UNIPROTKB|Q48IV9	354	vanA "Vanillate monooxygenase,	0.366	0.474	0.293	5.7e-10
TAIR|locus:2823671	536	CH1 "CHLORINA 1" [Arabidopsis	0.338	0.289	0.242	8.4e-09
UNIPROTKB|Q4KB09	352	vanA "Vanillate O-demethylase,	0.362	0.471	0.277	2.1e-08
UNIPROTKB|Q8G8B6	384	carAa "Carbazole 1,9a-dioxygen	0.386	0.460	0.277	1.2e-07
UNIPROTKB|Q4KAM4	363	prnD "Aminopyrrolnitrin oxidas	0.347	0.438	0.293	1.4e-07
UNIPROTKB|D5IGG0	378	carAa "Carbazole 1,9a-dioxygen	0.242	0.293	0.307	2.6e-07

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

 Score = 1842 (653.5 bits), Expect = 4.7e-190, P = 4.7e-190
 Identities = 341/458 (74%), Positives = 379/458 (82%)

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 PAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSE-DVNKEYTKITFTPTQA 418
             PAWWQVVPRW+EHWTSN VYDGDMIVLQGQEK+FL+K ME  + DVNK+YTK+TFTPTQA
Sbjct:   354 PAWWQVVPRWYEHWTSNLVYDGDMIVLQGQEKVFLAKSMESPDYDVNKQYTKLTFTPTQA 413

Query:   419 DRLVLAFRNWLRRHGNSQPEWFGFS-SQQPSPSTVLSK 455
             DR VLAFRNWLRRHG SQPEWFG + S QP PSTVL+K
Sbjct:   414 DRFVLAFRNWLRRHGKSQPEWFGSTPSNQPLPSTVLTK 451

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 = 1.1e-58, Sum P(2) = 1.1e-58
 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 = 404 (147.3 bits), Expect = 1.1e-37, P = 1.1e-37
 Identities = 104/343 (30%), Positives = 169/343 (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-KFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFF 353
                 +  +F APC   N  E + K  V      + ++C    P   GK+  IV   R  F
Sbjct:   285 GKGSNLLRFDAPCVLQNNREFEGKDGVKNYFSGL-FLCR---PTGQGKSMLIV---R--F 335

Query:   354 QFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSK 396
               T   P    V+P+W  H  + KV++ DM  L  Q ++ + +
Sbjct:   336 GVTKRSPLV-SVLPQWFWHQNACKVFEQDMGFLSSQNEVLMKE 377

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 = 9.0e-11, P = 9.0e-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 = 5.7e-10, P = 5.7e-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 = 8.4e-09, P = 8.4e-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 = 2.1e-08, P = 2.1e-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 = 1.2e-07, P = 1.2e-07
 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 = 1.4e-07, P = 1.4e-07
 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 = 2.6e-07, P = 2.6e-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	0.7543	0.9694	0.8268	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
4th Layer	1.14.12.20	0.991
3rd Layer	1.14.12	0.976
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	458
PLN02518	539	PLN02518, PLN02518, pheophorbide a oxygenase	0.0
cd03480	138	cd03480, Rieske_RO_Alpha_PaO, Rieske non-heme iron	8e-83
COG4638	367	COG4638, HcaE, Phenylpropionate dioxygenase and re	1e-42
cd03469	118	cd03469, Rieske_RO_Alpha_N, Rieske non-heme iron o	7e-30
cd04338	134	cd04338, Rieske_RO_Alpha_Tic55, Tic55 is a 55kDa L	3e-28
pfam08417	91	pfam08417, PaO, Pheophorbide a oxygenase	1e-26
pfam00355	99	pfam00355, Rieske, Rieske [2Fe-2S] domain	5e-22
cd03479	144	cd03479, Rieske_RO_Alpha_PhDO_like, Rieske non-hem	5e-20
cd03532	116	cd03532, Rieske_RO_Alpha_VanA_DdmC, Rieske non-hem	2e-18
cd03467	98	cd03467, Rieske, Rieske domain; a [2Fe-2S] cluster	4e-18
cd04337	129	cd04337, Rieske_RO_Alpha_Cao, Cao (chlorophyll a o	2e-17
COG2146	106	COG2146, {NirD}, Ferredoxin subunits of nitrite re	5e-14
PLN00095	394	PLN00095, PLN00095, chlorophyllide a oxygenase; Pr	3e-13
cd03531	115	cd03531, Rieske_RO_Alpha_KSH, The alignment model	9e-12
cd03537	123	cd03537, Rieske_RO_Alpha_PrnD, This alignment mode	2e-11
PLN02281	536	PLN02281, PLN02281, chlorophyllide a oxygenase	3e-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

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

 Score =  853 bits (2204), Expect = 0.0
 Identities = 361/458 (78%), Positives = 387/458 (84%), Gaps = 8/458 (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 GPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQA 418
           GPAWWQ+VPRW+EHWTSNKVYDGDMIVLQGQEKIFLSK  EGS DVN +YTK+TFTPTQA
Sbjct: 356 GPAWWQLVPRWYEHWTSNKVYDGDMIVLQGQEKIFLSKSGEGSADVNAQYTKLTFTPTQA 415

Query: 419 DRLVLAFRNWLRRHGNSQPEWFG-FSSQQPSPSTVLSK 455
           DR VLAFRNWLRRHGNSQPEWFG  SSQQP PSTVLSK
Sbjct: 416 DRFVLAFRNWLRRHGNSQPEWFGETSSQQPLPSTVLSK 453

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 =  251 bits (642), Expect = 8e-83
 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 =  154 bits (390), Expect = 1e-42
 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 =  112 bits (282), Expect = 7e-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 = 3e-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|219832 pfam08417, PaO, Pheophorbide a oxygenase

 Score =  102 bits (256), Expect = 1e-26
 Identities = 29/95 (30%), Positives = 46/95 (48%), Gaps = 12/95 (12%)

Query: 302 FVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPA 361
           F APC  ++   +        + K  +    + +P++PGK+R +    RNF         
Sbjct: 1   FEAPCLLLSTGVLK------AECKKHLHTVFYCIPVSPGKSRLLARFPRNFKSP------ 48

Query: 362 WWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSK 396
             ++VPRW EH   NKV + DMI+L GQE+    +
Sbjct: 49  LLKLVPRWWEHIAQNKVLEEDMILLHGQERRLQRR 83

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

 Score = 89.9 bits (223), 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 = 85.8 bits (213), Expect = 5e-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 = 80.5 bits (199), 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 = 79.1 bits (195), Expect = 4e-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 = 77.9 bits (192), Expect = 2e-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 = 67.4 bits (165), Expect = 5e-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 = 70.9 bits (173), 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 = 9e-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 = 2e-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 = 3e-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|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 = 46.4 bits (111), 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 = 42.3 bits (100), 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 = 40.2 bits (95), 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 = 38.0 bits (89), Expect = 0.001
 Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 4/78 (5%)

Query: 97  VSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQC 156
           V  + DL         +    ++L       +  A   KCPH  APL++G +  +G ++C
Sbjct: 3   VCRLSDLGDGEMKEVDVGDGKVLLVRQGG--EVHAIGAKCPHYGAPLAKGVL-TDGRIRC 59

Query: 157 SYHGWSFDGC-GSCTRIP 173
            +HG  F+   G     P
Sbjct: 60  PWHGACFNLRTGDIEDAP 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	458
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
TIGR03229	433	benzo_1_2_benA benzoate 1,2-dioxygenase, large sub	100.0
TIGR03228	438	anthran_1_2_A anthranilate 1,2-dioxygenase, large	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
cd03537	123	Rieske_RO_Alpha_PrnD This alignment model represen	99.97
cd03480	138	Rieske_RO_Alpha_PaO Rieske non-heme iron oxygenase	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	99.97
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
cd03539	129	Rieske_RO_Alpha_S5H This alignment model represent	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
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 (	99.95
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	99.92
cd03529	103	Rieske_NirD Assimilatory nitrite reductase (NirD)	99.92
TIGR02377	101	MocE_fam_FeS Rieske [2Fe-2S] domain protein, MocE	99.91
TIGR02378	105	nirD_assim_sml nitrite reductase [NAD(P)H], small	99.91
PRK09965	106	3-phenylpropionate dioxygenase ferredoxin subunit;	99.9
cd03478	95	Rieske_AIFL_N AIFL (apoptosis-inducing factor like	99.89
PF13806	104	Rieske_2: Rieske-like [2Fe-2S] domain; PDB: 2JO6_A	99.88
PRK09511	108	nirD nitrite reductase small subunit; Provisional	99.87
PF00355	97	Rieske: Rieske [2Fe-2S] domain; InterPro: IPR01794	99.86
COG2146	106	{NirD} Ferredoxin subunits of nitrite reductase an	99.85
cd03467	98	Rieske Rieske domain; a [2Fe-2S] cluster binding d	99.84
cd03477	91	Rieske_YhfW_C YhfW family, C-terminal Rieske domai	99.82
cd03476	126	Rieske_ArOX_small Small subunit of Arsenite oxidas	99.77
cd08878	196	RHO_alpha_C_DMO-like C-terminal catalytic domain o	99.75
cd03471	126	Rieske_cytochrome_b6f Iron-sulfur protein (ISP) co	99.71
cd03473	107	Rieske_CMP_Neu5Ac_hydrolase_N Cytidine monophospha	99.69
TIGR02694	129	arsenite_ox_S arsenite oxidase, small subunit. Thi	99.67
cd03470	126	Rieske_cytochrome_bc1 Iron-sulfur protein (ISP) co	99.62
cd00680	188	RHO_alpha_C C-terminal catalytic domain of the oxy	99.55
PRK13474	178	cytochrome b6-f complex iron-sulfur subunit; Provi	99.5
cd08885	190	RHO_alpha_C_1 C-terminal catalytic domain of the o	99.46
cd08883	175	RHO_alpha_C_CMO-like C-terminal catalytic domain o	99.45
cd08886	182	RHO_alpha_C_2 C-terminal catalytic domain of the o	99.42
cd08887	185	RHO_alpha_C_3 C-terminal catalytic domain of the o	99.39
cd08884	205	RHO_alpha_C_GbcA-like C-terminal catalytic domain	99.35
TIGR01416	174	Rieske_proteo ubiquinol-cytochrome c reductase, ir	99.35
PF00848	209	Ring_hydroxyl_A: Ring hydroxylating alpha subunit	99.32
PF08417	92	PaO: Pheophorbide a oxygenase; InterPro: IPR013626	99.31
cd03475	171	Rieske_SoxF_SoxL SoxF and SoxL family, Rieske doma	98.93
cd08882	243	RHO_alpha_C_MupW-like C-terminal catalytic domain	98.82
cd08880	222	RHO_alpha_C_ahdA1c-like C-terminal catalytic domai	98.75
PF11723	240	Aromatic_hydrox: Homotrimeric ring hydroxylase; In	98.57
COG0723	177	QcrA Rieske Fe-S protein [Energy production and co	98.31
cd08881	206	RHO_alpha_C_NDO-like C-terminal catalytic domain o	98.2
cd08879	237	RHO_alpha_C_AntDO-like C-terminal catalytic domain	98.14
KOG1671	210	consensus Ubiquinol cytochrome c reductase, subuni	97.97
TIGR03171	321	soxL2 Rieske iron-sulfur protein SoxL2. This iron-	97.91
KOG1336	478	consensus Monodehydroascorbate/ferredoxin reductas	95.94

>PLN02518 pheophorbide a oxygenase

Probab=100.00  E-value=1.7e-78  Score=640.43  Aligned_cols=451  Identities=80%  Similarity=1.355  Sum_probs=361.8

Q ss_pred             Ccccccccc---eeccCCCccccccccCCCCcccccccccccccCCCcceecCCCCCCCCCccccccCCccccCCCccCc
Q 012708            1 MALLLSTTA---NITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETMRKDEKEDYGSLVDD   77 (458)
Q Consensus         1 ~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~   77 (458)
                      ||+++++++   ++|.+..++.+|+.+-+ .++.++.....+++..++++|+++|++++....+....++.     -.++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~   74 (539)
T PLN02518          1 MAVLLGIACNSLTLTSSTPKSTPFFIPAR-TIPFVSSSRPRRGKIFTPLRVAAPPSVPSEAALQQDEGEEQ-----RVEQ   74 (539)
T ss_pred             CceeeeccccchhhccCCCCCcceeeecc-eeccccccccccccccccceecCCCCCCccccccCCccccc-----cccc
Confidence            666655444   66777778888887644 55666666566667778899999988665422111111110     0112


Q ss_pred             cccccccccccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcC
Q 012708           78 EYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCS  157 (458)
Q Consensus        78 ~~~~~e~~~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~Cp  157 (458)
                      +....+.+.+|+|++.||+||.++||++|+++.++++|++|||||++.+|+++||+|+|||||++|+.|++++++.|+||
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            33333445679999999999999999889999999999999999973489999999999999999999999657899999


Q ss_pred             CCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCCCCCCCCCCceEE
Q 012708          158 YHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVT  237 (458)
Q Consensus       158 yHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~  237 (458)
                      ||||+||++|+|+.||+.+..++..++..+++.++++|||+|++|+||||+++++.+.++...+|.+++++++++|..+.
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            99999999999999998654433322224567799999999999999999987643334455667676578888888777


Q ss_pred             EEEEEecChhhhhhhccCCCcccccccccccCcCCCCCccEEEeecCccceeeecCCCCcEEEEEEcceeeeEEEEEccc
Q 012708          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTK  317 (458)
Q Consensus       238 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~gf~~~~~~~~~~~~~f~~P~~~~~~~~~~~~  317 (458)
                      ...+++++|++++||++|++|++|+|++++|.++...+.+++++..+.+||.+....+..+...|.+||++.+.+.+..+
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            77899999999999999999999999999999888877788888776778875433344456889999998877666544


Q ss_pred             CcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccchhHHHHhhhhHHHhhhc
Q 012708          318 LPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKL  397 (458)
Q Consensus       318 ~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~  397 (458)
                      .+..++....+++++++||+++++||+||+++|||+.+..+...|++++|+|+.|+.+++|++||+.+||+||+.+...+
T Consensus       315 ~~~~~~~~~~~~~~~~~tP~s~g~tr~f~~~~Rnf~~~~~~~~~~~k~~PrW~~h~~~n~Vl~~D~~~lh~Qe~~~~~~~  394 (539)
T PLN02518        315 LPIVGDQKWVIWICSFNVPMAPGKTRSIVCSARNFFQFSMPGPAWWQLVPRWYEHWTSNKVYDGDMIVLQGQEKIFLSKS  394 (539)
T ss_pred             ccCCCCcceEEEEEEEEEECCCCeEEEEEEecccchhccccchhhhhcCchHHHHhhhccchHhHHHHHHHHHHHHhhcc
Confidence            43335555567788899999999999999999999888777777889999999999999999999999999999998877


Q ss_pred             ccCCccccccccccccccCcccHHHHHHHHHHHHhcCCCCCCCCCC-CCCCCCCccccccc
Q 012708          398 MEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQPEWFGFS-SQQPSPSTVLSKYA  457 (458)
Q Consensus       398 ~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~~~~~p~w~~~~-~~~~~p~~~~~~~~  457 (458)
                      .+.+.+++++|++.+|+|+++|+.+++|||||+++|.++|.|++.. .+++||+++|||||
T Consensus       395 ~e~~~~v~~~w~k~~~~Pt~aD~~viayR~Wl~~~g~g~~~w~~~~~~~~~lp~~~~~~~~  455 (539)
T PLN02518        395 GEGSADVNAQYTKLTFTPTQADRFVLAFRNWLRRHGNSQPEWFGETSSQQPLPSTVLSKRQ  455 (539)
T ss_pred             ccccccchhhhhhhccCCCchhHHHHHHHHHHHHhCcCCCCcccCCcccCCCCCCCCCHHH
Confidence            6656688999999999999999999999999999999999999844 34578998889987

>PLN02281 chlorophyllide a oxygenase

Probab=100.00  E-value=6.2e-52  Score=431.18  Aligned_cols=304  Identities=23%  Similarity=0.461  Sum_probs=228.0

Q ss_pred             ccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCC
Q 012708           89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS  168 (458)
Q Consensus        89 ~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~  168 (458)
                      .|++.||+||.++||++|+++.++++|++|||||+ .+|+++|++|+|||||++|+.|++. ++.|+||||||+||.+|+
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            56899999999999988999999999999999998 8999999999999999999999996 789999999999999999


Q ss_pred             eeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCCCCCCCC-CCceEE-EEEEEecCh
Q 012708          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKP-EFSSVT-IQRDLFYGY  246 (458)
Q Consensus       169 ~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p~~~~~~-~~~~~~-~~~~~~~nw  246 (458)
                      |+.+|+..          +.+.++++|||+|++|+||||+++++       +.|.+| +++++ +|.... ..++++|||
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            99999763          23568999999999999999998643       124456 66665 554433 367899999


Q ss_pred             hhhhhhccCCCcccccccccccCcCCCCCccEEEeecCccceeeecCCCCcEEEEEEcceeeeEEEEEcc-cCc-c--cC
Q 012708          247 DTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDT-KLP-V--VG  322 (458)
Q Consensus       247 k~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~gf~~~~~~~~~~~~~f~~P~~~~~~~~~~~-~~p-~--~g  322 (458)
                      ++++||++|.||++|+|++++|..... +...+.... ..++.+..... ...++|.+||++...+.+.. +.. .  ..
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            999999999999999999999874322 222222211 11121111111 23588999999887665531 110 0  01


Q ss_pred             CCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCc
Q 012708          323 DQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSE  402 (458)
Q Consensus       323 ~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~  402 (458)
                      .....++.++.+||+++++||+||.+.|||... ..+.+|   ...|+.+ +.+.||+||+.|+|.||+.+....     
T Consensus       433 ~~~~~~~~~h~~TPeT~~sTryF~~~~Rnf~~~-~~d~~~---~~~~l~~-~~~~vF~ED~~iLEaQQ~~i~~~~-----  502 (536)
T PLN02281        433 QCATHLHQLHVCLPSSKNKTRLLYRMSLDFAPI-LKNLPF---MEHLWRH-FAEQVLNEDLRLVLGQQERMLNGA-----  502 (536)
T ss_pred             ccccceEEEEEEEECCCCeEEEEEEecccCccc-cccccc---hHHHHHH-HhhHhhHhHHHHHHHHHHHhhccc-----
Confidence            112234556677999999999999999999542 111222   2332322 356899999999999999886532     


Q ss_pred             cccccccccccccCcccHHHHHHHHHHHHh
Q 012708          403 DVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       403 ~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                             +..++++++|+++++|||||++.
T Consensus       503 -------~~~~l~l~aD~~~v~~RRWl~~~  525 (536)
T PLN02281        503 -------NIWNLPVAYDKLGVRYRLWRNAV  525 (536)
T ss_pred             -------ccccccchhhHHHHHHHHHHHHh
Confidence                   23467899999999999999987

>PLN00095 chlorophyllide a oxygenase; Provisional

Probab=100.00  E-value=4.8e-44  Score=357.81  Aligned_cols=281  Identities=23%  Similarity=0.401  Sum_probs=203.5

Q ss_pred             cCCceEEeeecCCC-CCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCC
Q 012708           90 WRDHWYPVSLVEDL-DPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS  168 (458)
Q Consensus        90 ~~~~W~~v~~~~dL-~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~  168 (458)
                      .++.||+||.++|| ++|+++.++++|++|||||+ .+|+++|++|.|||||++|+.|+++ ++.|+||||||+||.+|+
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 8999999999999999999999995 789999999999999999


Q ss_pred             eeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccc-----------cc----cCCCCCCCCCCCCCCC
Q 012708          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQER-----------AN----ATKPPMLPDAFDKPEF  233 (458)
Q Consensus       169 ~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~-----------~~----~~~~p~~p~~~~~~~~  233 (458)
                      |+.+|+....        ..+.++++|||++++|+||||+++.....           .+    ...++.++ +.  .+|
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            9999976432        23568999999999999999998643210           00    11222233 22  256


Q ss_pred             ceEE-EEEEEecChhhhhhhccCCCc-cccccccccc----CcCCCCCccEEEeecCccceeeecCCCCcEEEEEEccee
Q 012708          234 SSVT-IQRDLFYGYDTLMENVSDPSH-IDFAHHKVTG----RRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCY  307 (458)
Q Consensus       234 ~~~~-~~~~~~~nwk~~~EN~~D~~H-~~~vH~~~~~----~~~~~~~~~~~~~~~~~~gf~~~~~~~~~~~~~f~~P~~  307 (458)
                      .... ..++++|.|.++|||+||++| .+|+|+.++.    ++..+.+.+.++......++.+.++. ..+..+|.+||+
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            6543 357999999999999999999 5888887663    44443333333322323455554443 556788999999


Q ss_pred             eeEEEEEcccCcccCC-CcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccchhHHHH
Q 012708          308 YMNKIEIDTKLPVVGD-QKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVL  386 (458)
Q Consensus       308 ~~~~~~~~~~~p~~g~-~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~eD~~vl  386 (458)
                      +.++|.+..+ |-.+. ..+++..+++..|.++++||++++++++|..  +|  .|.+.++..+=..+.++|+.||..++
T Consensus       295 ~~s~i~l~~~-~g~~~~~~~~l~qlhvclP~~~G~tRll~R~~~dF~~--~~--~~~~~~~~~~w~~~a~~vl~e~l~~v  369 (394)
T PLN00095        295 IASTIALEDG-PGGGDGTDMNVEQLHVCLPAKPGLCRLLFRLAFDFVA--VP--EGAQAAAGDVWANLAMMVLKEELEDV  369 (394)
T ss_pred             eeeeeccccc-CCCCccccceeeeEEEEEecCCCceEEEEeecccccc--cH--HHhHhchHHHHHHHHHHHHHHHHHHH
Confidence            9998877421 10011 1345555566799999999999999999842  11  12222322111114678888998777


Q ss_pred             hhh
Q 012708          387 QGQ  389 (458)
Q Consensus       387 e~q  389 (458)
                      .+-
T Consensus       370 ~~~  372 (394)
T PLN00095        370 RAA  372 (394)
T ss_pred             hcc
Confidence            643

>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=2.9e-44  Score=368.95  Aligned_cols=330  Identities=24%  Similarity=0.363  Sum_probs=227.6

Q ss_pred             cccCCCccCccccccccccccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCcc
Q 012708           68 KEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR  147 (458)
Q Consensus        68 ~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~  147 (458)
                      .++...|+|+++++.|.+.  ++.++||+||++++|+++++++++++|++|||||+ .+|+|+||+|.|||||++||.|+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~--~~~~~Wy~v~~~~el~~~~~~~~~i~g~~lvi~R~-~dg~~~al~d~C~HRga~Ls~g~   80 (367)
T COG4638           4 RLPPPFYTDPELFQLELER--IFYKHWYVVAHSSELPKPDPLTVRIGGEPLVVVRD-KDGQVHALADVCPHRGARLSEGR   80 (367)
T ss_pred             cCCCccccCHHHHHHHHHH--hhhhCEEEEccHHHCCCCCceeEEEcCeEEEEEEC-CCCCEEEEeccCCCCCchhcccc
Confidence            5788899999999999765  55679999999999998899999999999999999 99999999999999999999999


Q ss_pred             ccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCCCC
Q 012708          148 IDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDA  227 (458)
Q Consensus       148 ~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p~~  227 (458)
                      +++.+.|+||||||+||++|+|+.+|+.......    ++++.++.+|||++++|+||||+++++.+ .+..++|..+.+
T Consensus        81 ~~~~~~l~CpyHgW~y~~~G~~~~ip~~~~~~~~----~~~~~~l~~~~~~~~~G~Iwi~~~~~~~~-~~~~~~p~~~~~  155 (367)
T COG4638          81 VGGKGRLTCPYHGWTYDLDGRLRGVPARGYPLDF----DKSEHGLKRYPVEERYGFIWIWLGDPPPA-AEAFLPPAEPYE  155 (367)
T ss_pred             CCCCceEecCCCceEECCCCcEecCCccccCCCC----CHhhCCccccceEEEccEEEEecCCCccC-hhHhcccccccc
Confidence            9744899999999999999999999953211111    22456899999999999999999988754 344555544422


Q ss_pred             CCCCCCceEEEEEEEecChhhhhhhccC-CCcccccccccccCcCCCCCccEEEeecCccc-------------------
Q 012708          228 FDKPEFSSVTIQRDLFYGYDTLMENVSD-PSHIDFAHHKVTGRRDRAKPLPFKLESSGHWG-------------------  287 (458)
Q Consensus       228 ~~~~~~~~~~~~~~~~~nwk~~~EN~~D-~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~g-------------------  287 (458)
                      .++............++|||.++||++| +||++++|+++++.........+.+.....+.                   
T Consensus       156 ~~~~~~~~~~~~~~~~~nwk~~vEn~~d~~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~p~~~~~~~  235 (367)
T COG4638         156 DDRSRLGGGSFTINVPGNWKLAVENNLDDPYHVPFVHPGLLGTEPHTEVGAYDVTAGGHWDVILATGNPFFQPLGSEASS  235 (367)
T ss_pred             cccccccCceEEEEecccceEEeeccCCccccccccCHHHhcccccccccccccccCCceeeeeccCCCccCCcchhhhc
Confidence            2222222223456788999999998888 99999999998875443221111111111000                   


Q ss_pred             --eeeec-CCCCcEEEEEEccee-eeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccc
Q 012708          288 --FAGAN-DGNPRISAKFVAPCY-YMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWW  363 (458)
Q Consensus       288 --f~~~~-~~~~~~~~~f~~P~~-~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~  363 (458)
                        +.+.. .........++.|+. ..+..         ...   ..+..+++|+++++|.+..........  ..+.   
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~---------~~~---~~~~~~~~p~~~~~~~~~~~~~~~~~~--~~~~---  298 (367)
T COG4638         236 YGFDGNYEVHVPGAYLLFLYPNSTVWNHV---------TVD---DVIVFFVQPIDEDETMVTLVWLVLPDL--VEGV---  298 (367)
T ss_pred             cccccccccccCceeEEEEcCCchheeee---------ccc---ceeEEEEEecCCceeEEEeeeeeccch--hhHH---
Confidence              10000 001223456677763 22221         111   234456799999999988753211110  1111   


Q ss_pred             cchhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHhcC
Q 012708          364 QVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGN  434 (458)
Q Consensus       364 ~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~~~  434 (458)
                      +.+..++.+ +.+.+++||..|+|.||+...+...+          .+ ..+...|...+++++|+.+...
T Consensus       299 ~~~~~~~~~-~~~~~~~qD~~i~e~~~~~~~~~~~~----------~~-~~~~~~~~~~~~~~~~~~~~~~  357 (367)
T COG4638         299 DYFDKLIRR-FRQEILDQDREILENQQPGRLSPALE----------RG-PYPIREDAGSVQFRRWLAERLV  357 (367)
T ss_pred             HHHHHHHHH-HhccCcHHHHHHHHHHhccccccccc----------CC-CccccccchhhHHHHHHHHHHh
Confidence            112222222 35679999999999999866554332          12 3456789999999999977643

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

Probab=100.00  E-value=3.5e-39  Score=334.89  Aligned_cols=198  Identities=13%  Similarity=0.156  Sum_probs=159.8

Q ss_pred             ccCCccccCCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCC
Q 012708           63 MRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA  141 (458)
Q Consensus        63 ~~~~~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga  141 (458)
                      ..+..+||.++|+|+++|+.|++.  +|.+.|+.||++++|+ +|+++++.++|++|||+|+ .+|+|+||.|+|||||+
T Consensus        10 ~~~~~~~~~~~Ytd~~~f~~E~~~--IF~~~W~~v~~~selp~~gd~~t~~~~~~~vvv~R~-~dG~i~af~N~C~HRga   86 (433)
T TIGR03229        10 EKGIFRCKREMFTDPELFDLEMKH--IFEGNWIYLAHESQIPNNNDYYTTYMGRQPIFIARN-KDGELNAFINACSHRGA   86 (433)
T ss_pred             ccCCccCChhhcCCHHHHHHHHHH--HhhhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEEC-CCCcEEEEeCcCCCCCC
Confidence            445568999999999999999876  6689999999999998 4899999999999999999 89999999999999999


Q ss_pred             CcCCccccCCCeEEcCCCCeEEcCCCCeeecCCCCC--CCcchhhcCC-CCCCceeEe-EEEECCeEEEecCCCcccccc
Q 012708          142 PLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS--EGPEARAIQS-PRACATRFP-TMVSQGLLFVWPDEYGQERAN  217 (458)
Q Consensus       142 ~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~--~~~~~~~~~~-~~~~l~~~p-v~e~~G~V~V~~~~~~~~~~~  217 (458)
                      +|+.|..++.+.|+||||||+||.+|+|+.+|....  ++..   ++. ...+|..++ |+.++|+|||++++++++ ++
T Consensus        87 ~L~~~~~g~~~~~~CPyHgW~f~~~G~l~~vP~~~~~~~~~~---fd~~~~~~L~~v~rve~y~GfIFv~l~~~~~~-l~  162 (433)
T TIGR03229        87 MLCRHKRGNKTTYTCPFHGWTFNNSGKLLKVKDPEDAGYPEC---FNKDGSHDLKKVARFESYRGFLFGSLNPDVLP-LE  162 (433)
T ss_pred             CcccccccCCCEEEcCCCCCEecCCcceEeCCCcccccCccc---cCcHhhcCCccceEEEEECCEEEEEcCCCCCC-HH
Confidence            999987755679999999999999999999997432  2211   122 356899996 677799999999988754 45


Q ss_pred             cCCCCCCCCCCC---C---CCCceEE--EEEEEecChhhhhhhccCCCccccccccccc
Q 012708          218 ATKPPMLPDAFD---K---PEFSSVT--IQRDLFYGYDTLMENVSDPSHIDFAHHKVTG  268 (458)
Q Consensus       218 ~~~~p~~p~~~~---~---~~~~~~~--~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~  268 (458)
                      +++.+. .+.++   +   .++..+.  ..+.++||||+++||++|+||++++|.++..
T Consensus       163 e~Lg~~-~~~ld~~~~~~~~~~~~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~  220 (433)
T TIGR03229       163 EHLGET-AKIIDMIVDQSPDGLEVLRGSSTYTYEGNWKLQAENGADGYHVSAVHWNYAA  220 (433)
T ss_pred             HHhhhH-HHHHHHHhhcCcCCCeEEeeeEEEEecCchhhhHHhccCcccchhhcccHHH
Confidence            555542 21221   1   2333332  3578899999999999999999999988753

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).

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

Probab=100.00  E-value=3.1e-39  Score=335.05  Aligned_cols=199  Identities=13%  Similarity=0.160  Sum_probs=160.1

Q ss_pred             ccCCccccCCCccCccccccccccccccCCceEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCC
Q 012708           63 MRKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA  141 (458)
Q Consensus        63 ~~~~~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga  141 (458)
                      ..+..+|+.+.|+|+++|++|++.  +|.+.|++||++++|++ |+++++.+++++|||+|+ .+|+|+||.|+|||||+
T Consensus        10 ~~~~~~v~~~~ytd~~if~~E~~~--IF~~~W~~v~h~selp~~GDy~t~~ig~~pviv~R~-~dG~i~a~~N~C~HRGa   86 (438)
T TIGR03228        10 NDGVFRIARDMFTEPELFDLEMEL--IFEKNWIYACHESELPNNHDFVTVRAGRQPMIVTRD-GKGELHALVNACQHRGA   86 (438)
T ss_pred             ccCceecChheECCHHHHHHHHHH--HHhhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEEC-CCCCEEEEcccCCCCCC
Confidence            344558999999999999999876  56899999999999985 999999999999999999 89999999999999999


Q ss_pred             CcCC-ccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCC
Q 012708          142 PLSE-GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATK  220 (458)
Q Consensus       142 ~L~~-G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~  220 (458)
                      +|+. +.. +...|+||||||+||.||+|+.||......+.   ++....+|..++|.+++|+||+++++++.+.+++++
T Consensus        87 ~L~~~~~G-n~~~~~CPYHgW~y~~dG~L~~vp~~~~y~~~---fd~~~~~L~~~rv~~y~GfIFv~l~~~a~~~l~e~l  162 (438)
T TIGR03228        87 TLTRVGKG-NQSTFTCPFHAWCYKSDGRLVKVKAPGEYCEG---FDKATRGLKKARIASYRGFVFVSLDVAATDSLEDFL  162 (438)
T ss_pred             ccccCCcc-ccCEEEcCCCCCcccCCCceeecCcccccCCC---CChhhCCCcceeEEEECCEEEEEeCCCCCCCHHHHh
Confidence            9997 444 46789999999999999999999965433221   234577898999999999999999987532345555


Q ss_pred             CCCCC--CCCC----CCCCceEE--EEEEEecChhhhhhhccCCCccccccccccc
Q 012708          221 PPMLP--DAFD----KPEFSSVT--IQRDLFYGYDTLMENVSDPSHIDFAHHKVTG  268 (458)
Q Consensus       221 ~p~~p--~~~~----~~~~~~~~--~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~  268 (458)
                      .+...  +.+.    ..++..+.  ..+.++||||+++||++|+||++++|.++++
T Consensus       163 g~~~~~ld~~~~~~~~g~le~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~  218 (438)
T TIGR03228       163 GDARVFLDMMVAQSPTGELEVLPGKSAYTYAGNWKLQNENGLDGYHVSTVHYNYVA  218 (438)
T ss_pred             hhHHHHHHHHhhccCcCceEEecceEEEEeCCchHHHHHhccccccchhhChhhHh
Confidence            44211  0111    11243332  2568899999999999999999999998753

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.

>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=1.8e-33  Score=253.51  Aligned_cols=142  Identities=18%  Similarity=0.305  Sum_probs=123.0

Q ss_pred             cccCCCccCccccccccccccccC-CceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCC
Q 012708           68 KEDYGSLVDDEYGKESSDSKFSWR-DHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (458)
Q Consensus        68 ~~~~~~y~~~~~~~~e~~~~~~~~-~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~  145 (458)
                      +||.++|+|+++++.|++.  +|+ +.|+.||++++|+ +|+++.+.++|++|+|+|+ .+|+++|+.|+|||||++|+.
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 RVPYKVFTDRAYFDREQER--IFRGKTWSYVGLEAEIPNAGDFKSTFVGDTPVVVTRA-EDGSLHAWVNRCAHRGALVCR   77 (150)
T ss_pred             CCChhhccCHHHHHHHHHh--hhCCCceEEEEEHHHCCCCCCEEEEEECCceEEEEEC-CCCCEEEEcccCcCCCCEecc
Confidence            4789999999999999866  777 9999999999998 5999999999999999998 799999999999999999999


Q ss_pred             ccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCc---chhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGP---EARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       146 G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~---~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      |..+.++.|+||||||+||++|+|+.+|......+   ....+.+...+|++|+|.+++|+|||++++++
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            86544679999999999999999999997654311   00112355678999999999999999999765

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=1.1e-31  Score=237.68  Aligned_cols=120  Identities=36%  Similarity=0.881  Sum_probs=107.4

Q ss_pred             cccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC
Q 012708           86 SKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG  165 (458)
Q Consensus        86 ~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~  165 (458)
                      .+++|++.|++||.++||++|..+.++++|++|+|+|+ .+|+++||+|+|||||++|+.|.+. ++.|+||||||+||.
T Consensus        10 ~~~~~~~~W~~v~~~~el~~~~~~~~~v~g~~ivl~r~-~~G~v~A~~n~CpHrga~L~~G~~~-~~~i~CP~Hgw~Fd~   87 (134)
T cd04338          10 AEYDWREEWYPLYLLKDVPTDAPLGLSVYDEPFVLFRD-QNGQLRCLEDRCPHRLAKLSEGQLI-DGKLECLYHGWQFGG   87 (134)
T ss_pred             cccccccCcEEEEEHHHCCCCCCEEEEECCceEEEEEc-CCCCEEEEcCcCCCCcCcccCCeec-CCEEEccCCCCEECC
Confidence            46789999999999999998889999999999999998 7999999999999999999999985 789999999999999


Q ss_pred             CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          166 CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       166 ~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      +|+|+.+|..+....     .+...+|++|+|++++|+|||++++..
T Consensus        88 ~G~~~~~P~~~~~~~-----~~~~~~l~~y~v~~~~G~V~V~~~~~~  129 (134)
T cd04338          88 EGKCVKIPQLPADAK-----IPKNACVKSYEVRDSQGVVWMWMSEAT  129 (134)
T ss_pred             CCCEEECCCCCccCC-----CCcccCcceEeEEEECCEEEEEcCCCC
Confidence            999999997653221     134567999999999999999998754

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.

>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=5.7e-31  Score=229.13  Aligned_cols=117  Identities=29%  Similarity=0.610  Sum_probs=101.9

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeee
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTR  171 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~  171 (458)
                      +.||+|+.+++|+ ++++.++++|++|||||+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|+|+.
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 789999999999999998 8999999999999999999999996 789999999999999999999


Q ss_pred             cCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      ||+.+...+.... .+...++++|||+|++|+||||++++.
T Consensus        79 iP~~~~~~~~~~~-~p~~~~~~~~pv~e~~G~Vwv~~g~~~  118 (123)
T cd03537          79 IPGHSTAVRRLEP-VPRGARQPTLVTAERYGYVWVWYGSPQ  118 (123)
T ss_pred             CCCCccccccccc-CCcccccccEeEEEECCEEEEEcCCCC
Confidence            9986542111100 245678999999999999999998653

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.

>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=1e-30  Score=232.60  Aligned_cols=123  Identities=69%  Similarity=1.351  Sum_probs=108.8

Q ss_pred             cccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECC-CCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEc
Q 012708           86 SKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN-SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFD  164 (458)
Q Consensus        86 ~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~-~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd  164 (458)
                      .++.|++.|++||.++||++|+++.++++|++|+|+|+ . +|+++|++|+|||||++|+.|.+..++.|+||||||+||
T Consensus        10 ~~~~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~v~r~-~~dG~~~A~~n~CpHrga~L~~G~~~~~~~i~CP~Hgw~Fd   88 (138)
T cd03480          10 DKFDWREVWYPVAYVEDLDPSRPTPFTLLGRDLVIWWD-RNSQQWRAFDDQCPHRLAPLSEGRIDEEGCLECPYHGWSFD   88 (138)
T ss_pred             ccCCCccceEEEEEHHHCCCCCcEEEEECCeeEEEEEE-CCCCEEEEEcCCCcCCcCccccceEcCCCEEEeCCCCCEEC
Confidence            35788999999999999999999999999999999998 6 999999999999999999999885457999999999999


Q ss_pred             CCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          165 GCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       165 ~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      .+|+|+.+|+....+..   ..+...+|++|||++++|+|||+++++.
T Consensus        89 ~tG~~~~~P~~~~~g~~---~~~~~~~l~~ypv~v~~g~V~V~~~~~~  133 (138)
T cd03480          89 GSGSCQRIPQAAEGGKA---HTSPRACVASLPTAVRQGLLFVWPGEPE  133 (138)
T ss_pred             CCCCEEECCCCcccccc---CCCcccccceEeEEEECCEEEEecCChH
Confidence            99999999986554321   1234678999999999999999998754

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

>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=3.1e-31  Score=237.99  Aligned_cols=139  Identities=17%  Similarity=0.264  Sum_probs=117.6

Q ss_pred             CCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCcc-c
Q 012708           71 YGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR-I  148 (458)
Q Consensus        71 ~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~-~  148 (458)
                      .++|+|+++++.|++.  +|.+.|+.||++++|+ +|+++.+.++|++|+|+|+ .+|+++|+.|+|||||++|+.+. .
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 KDVYTDPEIFALEMER--LFGNAWIYVGHESQVPNPGDYITTRIGDQPVVMVRH-TDGSVHVLYNRCPHKGTKIVSDGCG   78 (146)
T ss_pred             CceEcCHHHHHHHHHH--HhhcCCEEEEEHHHCCCCCCEEEEEECCeeEEEEEC-CCCCEEEEeccCcCCCCEeeccccc
Confidence            5789999999999876  6699999999999998 6999999999999999998 79999999999999999997554 3


Q ss_pred             cCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeE-eEEEECCeEEEecCCCc
Q 012708          149 DENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRF-PTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       149 ~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~-pv~e~~G~V~V~~~~~~  212 (458)
                      ..++.|+||||||+||.||+|+.+|....+............+|..+ .|++++|+|||++++++
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            22457999999999999999999998765431100001246789999 79999999999999865

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=99.97  E-value=7.2e-30  Score=220.31  Aligned_cols=111  Identities=31%  Similarity=0.657  Sum_probs=102.0

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeec
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~i  172 (458)
                      .|+.||.++||++|+++.++++|++|+|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||++|+|+.+
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 7999999999999999999999995 7899999999999999999999


Q ss_pred             CCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcc
Q 012708          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQ  213 (458)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~  213 (458)
                      |+....        +...++++|||++++|+|||++++++.
T Consensus        79 p~~~~~--------p~~~~l~~ypv~~~~g~v~v~~~~~~~  111 (115)
T cd03531          79 PYARRV--------PPLARTRAWPTLERNGQLFVWHDPEGN  111 (115)
T ss_pred             CcccCC--------CcccccceEeEEEECCEEEEECCCCCC
Confidence            976432        345679999999999999999998763

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=1.2e-29  Score=223.21  Aligned_cols=114  Identities=35%  Similarity=0.806  Sum_probs=103.5

Q ss_pred             ccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCC
Q 012708           87 KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC  166 (458)
Q Consensus        87 ~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~  166 (458)
                      ...+++.|++||.+++|++|+++.++++|++++|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+
T Consensus        11 ~~~~~~~W~~v~~~~el~~g~~~~~~v~g~~l~l~r~-~~g~v~A~~n~CpH~g~~L~~G~~~-~~~i~CP~Hgw~Fd~t   88 (129)
T cd04337          11 EPGLRNFWYPVEFSKDLKMDTMVPFELFGQPWVLFRD-EDGTPGCIRDECAHRACPLSLGKVI-EGRIQCPYHGWEYDGD   88 (129)
T ss_pred             cchhhCccEEEEEHHHCCCCCeEEEEECCcEEEEEEC-CCCcEEEEeCcCCCCcCCcccCcEe-CCEEEeCCCCCEECCC
Confidence            3467999999999999999999999999999999998 7999999999999999999999985 7899999999999999


Q ss_pred             CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       167 G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      |+|+.+|...          +...+|++|||++++|+||||++++.
T Consensus        89 G~~~~~P~~~----------~~~~~l~~y~v~v~~g~V~V~~~~~~  124 (129)
T cd04337          89 GECTKMPSTK----------CLNVGIAALPCMEQDGMIWVWPGDDP  124 (129)
T ss_pred             CCEEeCCcCC----------CccCCcceEeEEEECCEEEEEcCCCC
Confidence            9999998643          13457999999999999999997643

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=1.4e-29  Score=226.86  Aligned_cols=117  Identities=32%  Similarity=0.646  Sum_probs=105.0

Q ss_pred             cccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCC
Q 012708           88 FSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC  166 (458)
Q Consensus        88 ~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~  166 (458)
                      .++++.|++||.+++|+ +|+++.+.++|++|+|+|+ .+|+++|+.|+|||||++|+.|.+. ++.|+||||||+||.+
T Consensus        16 ~~~~~~W~~v~~~~eL~~~g~~~~~~~~g~~i~v~r~-~~G~v~A~~n~CpHrG~~L~~G~~~-~~~i~CP~Hgw~F~~~   93 (144)
T cd03479          16 ELLRRYWQPVALSSELTEDGQPVRVRLLGEDLVAFRD-TSGRVGLLDEHCPHRGASLVFGRVE-ECGLRCCYHGWKFDVD   93 (144)
T ss_pred             hHhhCceEEEEEHHHCCCCCCEEEEEECCcEEEEEEe-CCCCEEEEcCcCCCCCCcccCCccc-CCEEEccCCCcEECCC
Confidence            36789999999999999 6999999999999999998 8999999999999999999999985 7899999999999999


Q ss_pred             CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCC
Q 012708          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (458)
Q Consensus       167 G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~  211 (458)
                      |+|+.+|+.+.....     +...+|++|+|++++|+|||++++.
T Consensus        94 G~~~~~P~~~~~~~~-----~~~~~l~~~~v~~~~G~I~V~~~~~  133 (144)
T cd03479          94 GQCLEMPSEPPDSQL-----KQKVRQPAYPVRERGGLVWAYMGPA  133 (144)
T ss_pred             CCEEECCCCccccCC-----ccccCcceEeEEEECCEEEEECCCC
Confidence            999999976543211     3566899999999999999999864

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

>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=2.2e-29  Score=221.47  Aligned_cols=119  Identities=17%  Similarity=0.300  Sum_probs=102.0

Q ss_pred             eEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeec
Q 012708           94 WYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (458)
Q Consensus        94 W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~i  172 (458)
                      |++||+++||+ +|+++++.+++++|+|+|+ .+|+++||.|+|||||++|+.|.+++.+.|+||||||+||++|+|+.+
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-------chhhcCCCCCCceeEeEEEECCeEEEecCCCcc
Q 012708          173 PQAASEGP-------EARAIQSPRACATRFPTMVSQGLLFVWPDEYGQ  213 (458)
Q Consensus       173 P~~~~~~~-------~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~  213 (458)
                      |.......       ....+++.+.+|.+++|++++|+|||++++++.
T Consensus        80 p~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~~  127 (129)
T cd03539          80 PFRRGVKKDGKVNGGMPKDFKTKDHGLTKLKVATRGGVVFASFDHDVE  127 (129)
T ss_pred             cccccccccccccccccCCcChHHCCCceeeEeEECCEEEEEeCCCCC
Confidence            98644210       001123456789999999999999999998753

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.

>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=4e-29  Score=216.03  Aligned_cols=112  Identities=34%  Similarity=0.792  Sum_probs=102.4

Q ss_pred             cCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCe
Q 012708           90 WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSC  169 (458)
Q Consensus        90 ~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~  169 (458)
                      +++.|++||.++||+ |+.+.+.++|++++|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|+|
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            578999999999998 999999999999999998 7999999999999999999999995 7899999999999999999


Q ss_pred             eecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      +.+|.....        +...+|++|||++++|+|||+++++.
T Consensus        79 ~~~p~~~~~--------~~~~~l~~~~v~~~~g~v~v~~~~~~  113 (116)
T cd03532          79 VHMPGQERV--------PAKACVRSYPVVERDALIWIWMGDAA  113 (116)
T ss_pred             EeCCCCCCC--------CCccccccCCEEEECCEEEEEcCCcc
Confidence            999976432        34678999999999999999998654

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=9.4e-29  Score=219.56  Aligned_cols=118  Identities=29%  Similarity=0.582  Sum_probs=102.6

Q ss_pred             ccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccc-cCCCeEEcCCCCeEEcC
Q 012708           87 KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI-DENGHLQCSYHGWSFDG  165 (458)
Q Consensus        87 ~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~-~~~~~l~CpyHGw~Fd~  165 (458)
                      ++.|++.|++||++++|++|+++.++++|++|+|+|.  +|+++|++|+|||||++|+.|.. .+++.|+||||||+||+
T Consensus         8 ~~~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~l~r~--~g~v~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~Fdl   85 (136)
T cd03548           8 KWGFRNHWYPALFSHELEEGEPKGIQLCGEPILLRRV--DGKVYALKDRCLHRGVPLSKKPECFTKGTITCWYHGWTYRL   85 (136)
T ss_pred             ccCcccCcEEEEEHHHCCCCCeEEEEECCcEEEEEec--CCEEEEEeCcCcCCCCccccCcccccCCEEEecCCccEEeC
Confidence            4577999999999999999999999999999999994  89999999999999999999863 24679999999999998


Q ss_pred             -CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          166 -CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       166 -~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                       +|+|+.+|..+...      .....+|++|||++++|+|||++++..
T Consensus        86 ~tG~~~~~~~~p~~~------~~~~~~L~~ypv~~~~g~V~v~~~~~~  127 (136)
T cd03548          86 DDGKLVTILANPDDP------LIGRTGLKTYPVEEAKGMIFVFVGDGD  127 (136)
T ss_pred             CCccEEEcccCCCcc------ccccCCCceEeEEEECCEEEEEeCCcc
Confidence             89999998654321      123568999999999999999998754

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

>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=7.5e-29  Score=214.52  Aligned_cols=113  Identities=21%  Similarity=0.295  Sum_probs=102.9

Q ss_pred             ceEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeee
Q 012708           93 HWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTR  171 (458)
Q Consensus        93 ~W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~  171 (458)
                      .|++||++++|++ |++++++++|++|+|+|+ .+|+++|+.|+|||||++|+.|.+. ++.|+||||||+||++|+|+.
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            5999999999985 889999999999999998 8999999999999999999999885 679999999999999999999


Q ss_pred             cCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCC
Q 012708          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (458)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~  211 (458)
                      +|........    +....+|.+++|.+++|+|||+++++
T Consensus        79 ~P~~~~~~~~----~~~~~~L~~~~~~~~~g~vfv~~~~~  114 (118)
T cd03541          79 ATQATGIQNF----NPKELGLVPLKVAEWGPFVLISVDRS  114 (118)
T ss_pred             CCCcccccCC----CHHHCCCceEeEEEECCEEEEEeCCC
Confidence            9987665432    45678899999999999999999875

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=6.1e-29  Score=218.33  Aligned_cols=121  Identities=14%  Similarity=0.274  Sum_probs=104.2

Q ss_pred             ccCCceEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCC
Q 012708           89 SWRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCG  167 (458)
Q Consensus        89 ~~~~~W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G  167 (458)
                      +|.+.|+.||+++||++ |+.+.+.++|++|+|+|+ .+|+++|++|+|||||++|+.|..++++.|+||||||+||.+|
T Consensus         4 i~~~~W~~v~~~~el~~~g~~~~~~~~~~~i~l~r~-~~g~i~A~~n~C~Hrg~~L~~g~~g~~~~i~CP~Hgw~fd~~G   82 (128)
T cd03472           4 VFARSWLLLGHETHIPKAGDYLTTYMGEDPVIVVRQ-KDGSIRVFLNQCRHRGMRICRSDAGNAKAFTCTYHGWAYDTAG   82 (128)
T ss_pred             hhhCCCeEeEEHHHCCCCCCEEEEEECCceEEEEEC-CCCCEEEEhhhCcCCCCeeeccCCCCcCEEECCcCCeEECCCc
Confidence            56899999999999986 777888899999999998 7999999999999999999998875456899999999999999


Q ss_pred             CeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          168 SCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       168 ~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      +|+.+|..+...+.  .+......|+.++|.+++|+|||++++++
T Consensus        83 ~~~~~P~~~~~~~~--~~~~~~~~l~~~~v~~~~g~vfv~~~~~~  125 (128)
T cd03472          83 NLVNVPFEKEAFCD--GLDKADWGPLQARVETYKGLIFANWDAEA  125 (128)
T ss_pred             CEEeccCccccccc--CCCHHHCCCcceeEeEECCEEEEEcCCCC
Confidence            99999986542110  12345567999999999999999999875

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=1.7e-27  Score=207.89  Aligned_cols=118  Identities=16%  Similarity=0.315  Sum_probs=100.0

Q ss_pred             CceEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCee
Q 012708           92 DHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCT  170 (458)
Q Consensus        92 ~~W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~  170 (458)
                      +.|+.||+++||++ |+...+.++|++|+|+|+ .+|+++|+.|+|||||++|+.|.+++.+.|+||||||+||.+|+|+
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             ecCCCCCCCcchhhcCCCCCCceeEeE-EEECCeEEEecCCCc
Q 012708          171 RIPQAASEGPEARAIQSPRACATRFPT-MVSQGLLFVWPDEYG  212 (458)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv-~e~~G~V~V~~~~~~  212 (458)
                      .+|......+.  .+.....+|++|++ ++++|+|||++++++
T Consensus        80 ~~p~~~~~~~~--~~~~~~~~L~~~~~~e~~~g~vfv~l~~~~  120 (123)
T cd03535          80 GVPAQQEAYGG--GFDKSQWGLRPAPNLDSYNGLIFGSLDPKA  120 (123)
T ss_pred             eCCCccccccc--CcCHHHCCCccceeEEEECCEEEEEeCCCC
Confidence            99976542111  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=1.7e-27  Score=207.87  Aligned_cols=118  Identities=16%  Similarity=0.217  Sum_probs=100.5

Q ss_pred             eEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeec
Q 012708           94 WYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (458)
Q Consensus        94 W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~i  172 (458)
                      |+.||+++||++ |++..+.++|++|+|+|+ .+|+++|+.|+|||||++|+.|..++...|+||||||+||.+|+|+.+
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            999999999997 778888999999999998 799999999999999999999877544679999999999999999999


Q ss_pred             CCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcc
Q 012708          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQ  213 (458)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~  213 (458)
                      |........ +...+...+|++|+|++++|+|||++++++.
T Consensus        80 p~~~~~~~~-~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~~  119 (123)
T cd03536          80 PVEKECMHG-KMRTKAELGLHKARVTLYGGLIFATWNIDGP  119 (123)
T ss_pred             Ccccccccc-CCCCHHHCCCcceeEEEECCEEEEEeCCCCC
Confidence            986442110 1113456789999999999999999998653

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=99.95  E-value=1.7e-27  Score=206.02  Aligned_cols=114  Identities=33%  Similarity=0.548  Sum_probs=101.4

Q ss_pred             eEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeec
Q 012708           94 WYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (458)
Q Consensus        94 W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~i  172 (458)
                      |++||.+++|+ +|+.+.+.++|++++|+|+ .+|+++|+.|+|||+|++|+.|.+.+++.|+||||||+||++|+|+.+
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 8999999999999999997 799999999999999999999988336899999999999999999999


Q ss_pred             CCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      |......    ...+...+|++|+|++++|+|||+++++.
T Consensus        80 P~~~~~~----~~~~~~~~L~~~~v~~~~g~v~v~~~~~~  115 (118)
T cd03469          80 PREEGFP----GFDKEKLGLRTVPVEEWGGLIFVNLDPDA  115 (118)
T ss_pred             CcccccC----CCCHHHCCCeEEEEEEECCEEEEEcCCCC
Confidence            9765421    11245668999999999999999998764

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=6.5e-26  Score=197.74  Aligned_cols=115  Identities=19%  Similarity=0.319  Sum_probs=97.7

Q ss_pred             eEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeec
Q 012708           94 WYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI  172 (458)
Q Consensus        94 W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~i  172 (458)
                      |+.||+++||++ |+++.+.+.|++|+|+|+ .+|+++|+.|.|||||++|+.|..++++.|+||||||+||.||+|+.+
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            899999999996 888999999999999998 799999999999999999999877555699999999999999999999


Q ss_pred             CCCCC--CCcchhhcCCC-CCCceeEe-EEEECCeEEEecCCCc
Q 012708          173 PQAAS--EGPEARAIQSP-RACATRFP-TMVSQGLLFVWPDEYG  212 (458)
Q Consensus       173 P~~~~--~~~~~~~~~~~-~~~l~~~p-v~e~~G~V~V~~~~~~  212 (458)
                      |....  ++..   +++. +.+|..++ +++++|+|||++++++
T Consensus        80 p~~~~~~y~~~---~~~~~~~~L~~~~~~~~~~g~v~~~~~~~~  120 (123)
T cd03542          80 KDPKTAGYPEG---FNCDGSHDLTKVARFESYRGFLFGSLNADV  120 (123)
T ss_pred             CcccccCcCcc---cChhhcCCCccceeEEEECCEEEEEcCCCC
Confidence            96432  2211   2233 56899985 6677999999999765

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=4e-25  Score=184.92  Aligned_cols=97  Identities=30%  Similarity=0.559  Sum_probs=89.2

Q ss_pred             eEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeeec
Q 012708           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI  172 (458)
Q Consensus        94 W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~i  172 (458)
                      |++||.++||++|+.+.+++.|++++|+|+  +|+++|++|+|||+|++|+.|.+. ++.|+||||||+||+ +|+|+..
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            999999999999999999999999999997  679999999999999999999875 679999999999999 9999987


Q ss_pred             CCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEe
Q 012708          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (458)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~  207 (458)
                      |..              ..|++|+|++++|.|||.
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=7.2e-25  Score=183.60  Aligned_cols=97  Identities=27%  Similarity=0.642  Sum_probs=87.5

Q ss_pred             eEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeeec
Q 012708           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI  172 (458)
Q Consensus        94 W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~i  172 (458)
                      |+.||.++||++|+.+.+.+.|++++|+|+ .+|+++|++|+|||+|++|+.|.+. ++.|+||||||+||+ +|.|.. 
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 6799999999999999999999985 789999999999999 677642 


Q ss_pred             CCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEe
Q 012708          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (458)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~  207 (458)
                      |              +..+|++|||++++|.|||.
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              12468999999999999984

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=99.92  E-value=1.4e-24  Score=185.08  Aligned_cols=102  Identities=27%  Similarity=0.482  Sum_probs=90.2

Q ss_pred             eEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCC-CCeeec
Q 012708           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC-GSCTRI  172 (458)
Q Consensus        94 W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~-G~~~~i  172 (458)
                      |+.||.++||++|+.+.+.+.|.+++|+|+ .+|+++|+.|+|||||++|+.|.+. ++.|+||||||+||++ |.|.. 
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            899999999999999999999999999998 8999999999999999999999974 6799999999999995 55442 


Q ss_pred             CCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      |              +..+|++|+|++++|.|||++++.+
T Consensus        78 ~--------------~~~~L~~~~v~v~~g~v~v~~~~~~  103 (108)
T cd03474          78 P--------------RDCRLARYPVKVEGGDILVDTEGVL  103 (108)
T ss_pred             C--------------CCCccceEeEEEECCEEEEeCCCcC
Confidence            2              2347999999999999999997543

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=99.92  E-value=1.5e-24  Score=183.49  Aligned_cols=98  Identities=21%  Similarity=0.317  Sum_probs=87.6

Q ss_pred             eEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCC-cCCcccc---CCCeEEcCCCCeEEcC-CCC
Q 012708           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRID---ENGHLQCSYHGWSFDG-CGS  168 (458)
Q Consensus        94 W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~-L~~G~~~---~~~~l~CpyHGw~Fd~-~G~  168 (458)
                      |++||.++||++|+.+.++++|++|+|+|. .+|+++|++|+|||+|++ |+.|.+.   +++.|+||||||+||+ +|+
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 677999999999999997 8888764   2348999999999997 899


Q ss_pred             eeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEe
Q 012708          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (458)
Q Consensus       169 ~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~  207 (458)
                      |+..|.               .+|++|||++++|.|||.
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            997652               358999999999999983

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=5.1e-24  Score=179.67  Aligned_cols=100  Identities=22%  Similarity=0.427  Sum_probs=91.5

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeee
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR  171 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~  171 (458)
                      .|+.+|..+||++|..+.+.+.|.+|+|+|. .+|+++|++|+|||+|++|+.|.+. ++.|+||+|||+||+ +|+|+.
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 6899999999999999999999995 789999999999998 899997


Q ss_pred             cCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEec
Q 012708          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP  208 (458)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~  208 (458)
                      .|..              ..|++|||++++|.|||.+
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              3589999999999999864

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=99.91  E-value=5.7e-24  Score=180.49  Aligned_cols=99  Identities=18%  Similarity=0.398  Sum_probs=88.7

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCC-CCCcCCccccCCCe----EEcCCCCeEEcC-C
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHR-LAPLSEGRIDENGH----LQCSYHGWSFDG-C  166 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHr-ga~L~~G~~~~~~~----l~CpyHGw~Fd~-~  166 (458)
                      .|++||.++||++|..+.+.+.|++|+|+|+ .+|+++|++|+|||+ +++|+.|.+. ++.    |+||||||+||+ +
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 689999999999999 8899999875 333    999999999999 8


Q ss_pred             CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEec
Q 012708          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP  208 (458)
Q Consensus       167 G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~  208 (458)
                      |+|+..|               ..+|++|||++++|.|||.+
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=99.90  E-value=2.5e-23  Score=176.94  Aligned_cols=102  Identities=25%  Similarity=0.366  Sum_probs=90.5

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeee
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR  171 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~  171 (458)
                      .|+.||.++||++|..+.+.+. ++|+|+|.  +|+++|++|+|||+|++|+.|.+.+++.|+||+|||+||+ +|+|+.
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            4999999999999999989887 89999995  8999999999999999999999963379999999999999 899986


Q ss_pred             cCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCC
Q 012708          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (458)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~  211 (458)
                      .|.              ..+|++|+|++++|.|||.+.+.
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              24699999999999999998653

>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=3.8e-23  Score=172.20  Aligned_cols=92  Identities=24%  Similarity=0.446  Sum_probs=84.9

Q ss_pred             eeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeeecCCC
Q 012708           97 VSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRIPQA  175 (458)
Q Consensus        97 v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~iP~~  175 (458)
                      ||.++||++|+.+.+.++|++|+|+|.  +|+++|++|+|||+|++|+.|.+. ++.|+||||||+||+ +|+|+..|..
T Consensus         3 v~~~~~l~~g~~~~~~~~~~~v~v~r~--~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~CP~Hg~~Fdl~tG~~~~~p~~   79 (95)
T cd03478           3 VCRLSDLGDGEMKEVDVGDGKVLLVRQ--GGEVHAIGAKCPHYGAPLAKGVLT-DGRIRCPWHGACFNLRTGDIEDAPAL   79 (95)
T ss_pred             eeehhhCCCCCEEEEEeCCcEEEEEEE--CCEEEEEcCcCcCCCCccCCCeEe-CCEEEcCCCCCEEECCCCcCcCCCcc
Confidence            789999999999999999999999996  799999999999999999999986 789999999999998 9999987743


Q ss_pred             CCCCcchhhcCCCCCCceeEeEEEECCeEE
Q 012708          176 ASEGPEARAIQSPRACATRFPTMVSQGLLF  205 (458)
Q Consensus       176 ~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~  205 (458)
                                    ..|++|+|++++|.||
T Consensus        80 --------------~~l~~~~v~~~~g~i~   95 (95)
T cd03478          80 --------------DSLPCYEVEVEDGRVY   95 (95)
T ss_pred             --------------CCcceEEEEEECCEEC
Confidence                          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=99.88  E-value=4.6e-22  Score=168.37  Aligned_cols=98  Identities=34%  Similarity=0.720  Sum_probs=90.0

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCC-CCCCcCCccccCCC----eEEcCCCCeEEcC-C
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPH-RLAPLSEGRIDENG----HLQCSYHGWSFDG-C  166 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpH-rga~L~~G~~~~~~----~l~CpyHGw~Fd~-~  166 (458)
                      +|+.||.++||++|..+.+.+.|++|+|||. .+|+++|++|+||| ++++|+.|.+. +.    +|.||+|+|.||+ +
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            5999999999999999999999999999997 69999999999999 89999999986 44    8999999999999 8


Q ss_pred             CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEe
Q 012708          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (458)
Q Consensus       167 G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~  207 (458)
                      |+|+..|               ..+|++|||++++|.|||.
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               2478999999999999984

>PRK09511 nirD nitrite reductase small subunit; Provisional

Probab=99.87  E-value=6.6e-22  Score=168.67  Aligned_cols=100  Identities=17%  Similarity=0.282  Sum_probs=87.1

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCC-cCCccccC-CC--eEEcCCCCeEEcC-CC
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRIDE-NG--HLQCSYHGWSFDG-CG  167 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~-L~~G~~~~-~~--~l~CpyHGw~Fd~-~G  167 (458)
                      .|..||..+||++|..+.+.++|++|+|||...+|+++|++|+|||.|++ |+.|.+.+ ++  .|+||+|||+||+ +|
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             CeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEe
Q 012708          168 SCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (458)
Q Consensus       168 ~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~  207 (458)
                      +|+.-|               ..+|++|||++++|.|||.
T Consensus        83 ~~~~~~---------------~~~l~typV~ve~g~V~v~  107 (108)
T PRK09511         83 LCMEDE---------------QFSVKHYDARVKDGVVQLR  107 (108)
T ss_pred             ccCCCC---------------CccEeeEeEEEECCEEEEe
Confidence            998532               2369999999999999985

>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=99.86  E-value=1.5e-21  Score=162.91  Aligned_cols=94  Identities=32%  Similarity=0.626  Sum_probs=79.1

Q ss_pred             ceEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCcc-ccCCCeEEcCCCCeEEcCC-CCe
Q 012708           93 HWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR-IDENGHLQCSYHGWSFDGC-GSC  169 (458)
Q Consensus        93 ~W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~-~~~~~~l~CpyHGw~Fd~~-G~~  169 (458)
                      +|++||.+++|++ |+.+.+.+ |...++++. .+|+++|+.|+|||+|++|+.|. ..+++.|+||||||+||++ |+|
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 88889999 555555556 79999999999999999999994 3335799999999999996 999


Q ss_pred             eecCCCCCCCcchhhcCCCCCCceeEeEEEECC
Q 012708          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQG  202 (458)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G  202 (458)
                      +..|...              +++.|||+++++
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            9988542              578999999874

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=99.85  E-value=6.8e-21  Score=161.71  Aligned_cols=104  Identities=29%  Similarity=0.505  Sum_probs=89.4

Q ss_pred             CCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCe
Q 012708           91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSC  169 (458)
Q Consensus        91 ~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~  169 (458)
                      ...|+.+|..+||+++..+.+.+.+..+++++. .+|+++|++|+|||.|++|+.|.+.+...|+||.|+|.||+ +|+|
T Consensus         2 ~~~w~~~c~~~dl~~~~~~~v~~~~~~~~~~~~-~~g~v~A~~n~CpH~~~~l~~g~v~~~~~i~Cp~H~a~Fdl~tG~~   80 (106)
T COG2146           2 MMNWIRICKVDDLPEGGGVRVLVGGGRFALVVR-ADGEVFAIDNRCPHAGAPLSRGLVEGDETVVCPLHGARFDLRTGEC   80 (106)
T ss_pred             CCceEEEEehHhcCCCCceEEEecCCEEEEEEe-cCCEEEEEeCcCCCCCCcccccEeCCCCEEECCccCCEEEcCCCce
Confidence            358999999999999999988885536666666 79999999999999999999999974446999999999999 8999


Q ss_pred             eecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecC
Q 012708          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (458)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~  209 (458)
                      +.-|+..              .|++|||++.+|.|||.++
T Consensus        81 ~~~p~~~--------------~l~~y~vrve~g~v~v~~~  106 (106)
T COG2146          81 LEPPAGK--------------TLKTYPVRVEGGRVFVDLD  106 (106)
T ss_pred             ecCCCCC--------------ceeEEeEEEECCEEEEecC
Confidence            9876431              1899999999999999863

>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=99.84  E-value=1.9e-20  Score=156.63  Aligned_cols=95  Identities=26%  Similarity=0.489  Sum_probs=85.8

Q ss_pred             eEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeeec
Q 012708           94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI  172 (458)
Q Consensus        94 W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~i  172 (458)
                      |++++..++|++|+.+.+.+.|.+++|+|+ .+|+++|++|+|||+|++|..|.+. ++.|+||+|||+||+ ||+|+..
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            899999999999999999999999999998 7889999999999999999999864 789999999999999 9999987


Q ss_pred             CCCCCCCcchhhcCCCCCCceeEeEEEEC-CeE
Q 012708          173 PQAASEGPEARAIQSPRACATRFPTMVSQ-GLL  204 (458)
Q Consensus       173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~-G~V  204 (458)
                      |.              ...|.+|++++.+ +.|
T Consensus        79 p~--------------~~~l~~~~v~~~~~~~~   97 (98)
T cd03467          79 PA--------------PRPLPKYPVKVEGDGVV   97 (98)
T ss_pred             CC--------------CCCcCEEEEEEeCCceE
Confidence            64              2468999999994 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=99.82  E-value=4.2e-20  Score=152.73  Aligned_cols=87  Identities=17%  Similarity=0.239  Sum_probs=77.5

Q ss_pred             eeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeecCCCC
Q 012708           97 VSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA  176 (458)
Q Consensus        97 v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~  176 (458)
                      +|.++||++|+.+.+.+.|++|+|+|+ .+|+++|+.|+|||+|++|+.|..  ++.|+||||||+||.+|+|+..|.. 
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            578999999999999999999999998 799999999999999999998865  4699999999999999999987743 


Q ss_pred             CCCcchhhcCCCCCCceeEeEEEE
Q 012708          177 SEGPEARAIQSPRACATRFPTMVS  200 (458)
Q Consensus       177 ~~~~~~~~~~~~~~~l~~~pv~e~  200 (458)
                                   ..|.+|+|.-.
T Consensus        78 -------------~~l~~y~v~~~   88 (91)
T cd03477          78 -------------SGLKPADDAPI   88 (91)
T ss_pred             -------------CCCCeeEeecc
Confidence                         35788988643

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=99.77  E-value=2.5e-18  Score=150.37  Aligned_cols=96  Identities=23%  Similarity=0.292  Sum_probs=83.7

Q ss_pred             EEeeecCCCCCCCcEEEEECC--eEEEEEEECC---------CCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEE
Q 012708           95 YPVSLVEDLDPNLPTAFQLLG--RDLVLWFDNN---------SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSF  163 (458)
Q Consensus        95 ~~v~~~~dL~~g~~~~~~~~g--~~lvl~R~~~---------~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~F  163 (458)
                      +.||.+++|++|+.+.+.+.|  ++++|+|. .         +|+++|++|+|||+|++|+.|.  +++.|+||+|||+|
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            358999999999999999887  89999996 3         6999999999999999999976  36799999999999


Q ss_pred             cCC--CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEE--CCeEEEe
Q 012708          164 DGC--GSCTRIPQAASEGPEARAIQSPRACATRFPTMVS--QGLLFVW  207 (458)
Q Consensus       164 d~~--G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~V~V~  207 (458)
                      |++  |+|+..|.              ...|++||++++  +|.|||-
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            993  78987653              246899999999  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.

>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=99.75  E-value=1.7e-17  Score=153.70  Aligned_cols=174  Identities=18%  Similarity=0.226  Sum_probs=111.3

Q ss_pred             EEEEecChhhhhhhccCCCcccccccccccCcCCC--CCccEEEeecCccceee---ec-C---------CC-CcEEEEE
Q 012708          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRA--KPLPFKLESSGHWGFAG---AN-D---------GN-PRISAKF  302 (458)
Q Consensus       239 ~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~--~~~~~~~~~~~~~gf~~---~~-~---------~~-~~~~~~f  302 (458)
                      .++++|||+.++||+||++|++|||.+++|..+..  ....++++... .|+..   .. .         .. ......|
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            45789999999999999999999999999987654  23345554332 23211   00 0         11 1224679


Q ss_pred             EcceeeeEEEEEc-ccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccch
Q 012708          303 VAPCYYMNKIEID-TKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDG  381 (458)
Q Consensus       303 ~~P~~~~~~~~~~-~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~e  381 (458)
                      ++||+....+... .+.   .+....+.++..++|+++++|+++|.+.+++.... .......+...+..  ....|+.|
T Consensus        84 ~~P~~~~~~~~~~~~~~---~~~~~~~~~~~~~tPid~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~--~~~~v~~e  157 (196)
T cd08878          84 LLPNVLLIDPGVAPAGT---REQGVRMRVTHWITPIDETTTHYFWFFVRNFAPDE-EKKDDEELTETLRS--GLSGAFNE  157 (196)
T ss_pred             ECCEEEEEecccccCCc---CCCcceEEEEEEEccCCCCeEEEEEEeccCCCCCc-cccCCHHHHHHHHH--Hhhhhchh
Confidence            9999876543211 000   01112345567789999999999999888874310 00000112223322  46789999


Q ss_pred             hHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHh
Q 012708          382 DMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       382 D~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      |+.|+|+||+.+....           .+  .....+|+++++||||++++
T Consensus       158 D~~i~e~q~~~~~~~~-----------~~--~~l~~~D~~~~~~Rr~l~~~  195 (196)
T cd08878         158 DKEAVEAQQRIIDRDP-----------TR--EHLGLSDKGIVRFRRLLRRL  195 (196)
T ss_pred             HHHHHHHHHHHHhcCC-----------cc--cccccccHHHHHHHHHHHHh
Confidence            9999999999876531           11  23455999999999999986

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

>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=99.71  E-value=9.5e-17  Score=139.59  Aligned_cols=88  Identities=15%  Similarity=0.209  Sum_probs=71.3

Q ss_pred             CCCcEEEE--ECCeEEEEEEECCCCeE--EEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCc
Q 012708          105 PNLPTAFQ--LLGRDLVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGP  180 (458)
Q Consensus       105 ~g~~~~~~--~~g~~lvl~R~~~~G~v--~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~  180 (458)
                      +|++..++  ..+..|+|++  .+|++  +|++|.|||+|++|+.+..  ++.|+||+|||+||.+|+++..|.      
T Consensus        22 ~~~~~~~~~~~~~~~Ilv~~--~dg~i~~~A~~~~CpH~G~~l~~~~~--~~~i~CP~Hg~~Fd~tG~~~~gPa------   91 (126)
T cd03471          22 PGDRSLVQGLKGDPTYLIVE--EDKTIANYGINAVCTHLGCVVPWNAA--ENKFKCPCHGSQYDATGKVVRGPA------   91 (126)
T ss_pred             CCCeEEEEEecCCeEEEEEe--CCCeEEEEEecCCCcCCCCCcCccCC--CCEEEcCCCCCEECCCCCEecCCC------
Confidence            57776665  4455556555  58977  8999999999999998754  469999999999999999987653      


Q ss_pred             chhhcCCCCCCceeEeEEEECCeEEEecCC
Q 012708          181 EARAIQSPRACATRFPTMVSQGLLFVWPDE  210 (458)
Q Consensus       181 ~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~  210 (458)
                              ...|..|+|++++|.|||.+-.
T Consensus        92 --------~~~L~~y~V~vedg~I~V~~~~  113 (126)
T cd03471          92 --------PLSLALVHATVDDDKVVLSPWT  113 (126)
T ss_pred             --------CCCCceEeEEEECCEEEEEECc
Confidence                    2468999999999999998653

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=99.69  E-value=6.4e-17  Score=135.69  Aligned_cols=71  Identities=17%  Similarity=0.380  Sum_probs=64.3

Q ss_pred             cCCCCCCCcEEEEE-CCeEEEEEEECCCCeEEEEecCCCCCCCCcCCc--cccCCCeEEcCCCCeEEcC-CCCeeecC
Q 012708          100 VEDLDPNLPTAFQL-LGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEG--RIDENGHLQCSYHGWSFDG-CGSCTRIP  173 (458)
Q Consensus       100 ~~dL~~g~~~~~~~-~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G--~~~~~~~l~CpyHGw~Fd~-~G~~~~iP  173 (458)
                      ..+|++|..+.+.+ .|++|+|+|.  +|+++|++|+|||+|++|+.|  .++ ++.|+||+|||+||+ +|+++.-|
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   88 (107)
T cd03473          14 VANLKEGINFFRNKEDGKKYIIYKS--KSELKACKNQCKHQGGLFIKDIEDLD-GRTVRCTKHNWKLDVSTMKYVNPP   88 (107)
T ss_pred             HhcCCCCceEEEEecCCcEEEEEEE--CCEEEEEcCCCCCCCccccCCcceEe-CCEEEeCCCCCEEEcCCCCCccCC
Confidence            37899999999999 9999999995  899999999999999999995  474 789999999999999 89998644

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=99.67  E-value=3e-16  Score=137.59  Aligned_cols=95  Identities=24%  Similarity=0.274  Sum_probs=79.7

Q ss_pred             EEeeecCCCCCCCcEEEEECC--eEEEEEEEC--------CCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEc
Q 012708           95 YPVSLVEDLDPNLPTAFQLLG--RDLVLWFDN--------NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFD  164 (458)
Q Consensus        95 ~~v~~~~dL~~g~~~~~~~~g--~~lvl~R~~--------~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd  164 (458)
                      ..||.++||++|+++.+.+.+  .+++|+|..        .+|+++|++|.|||.|++|+.+.  +++.|.||+|||+||
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            358999999999999999865  478898720        38999999999999999999875  367999999999999


Q ss_pred             CC--CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEE-CCeEE
Q 012708          165 GC--GSCTRIPQAASEGPEARAIQSPRACATRFPTMVS-QGLLF  205 (458)
Q Consensus       165 ~~--G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~-~G~V~  205 (458)
                      ++  |+|+..|.              ..+|.+|+|++. +|.||
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            95  68886552              246899999997 59998

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=99.62  E-value=3.1e-15  Score=130.86  Aligned_cols=93  Identities=13%  Similarity=0.217  Sum_probs=79.1

Q ss_pred             eecCCCCCCCcEEEEECCeEEEEEEECC----------------------------CCeEEEEecCCCCCCCCcCCcccc
Q 012708           98 SLVEDLDPNLPTAFQLLGRDLVLWFDNN----------------------------SNKWVAFDDKCPHRLAPLSEGRID  149 (458)
Q Consensus        98 ~~~~dL~~g~~~~~~~~g~~lvl~R~~~----------------------------~G~v~A~~n~CpHrga~L~~G~~~  149 (458)
                      ..+++|++|+.+.+.+.|++|+|+|. .                            +|+++|+.+.|||.|+.+..+.+ 
T Consensus         4 vdl~~l~~G~~~~v~w~Gkpv~I~~r-t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~CtH~gc~~~~~~~-   81 (126)
T cd03470           4 VDLSKIEEGQLITVEWRGKPVFIRRR-TPEEIAEAKAVDLSLLDDPDPAANRVRSGKPEWLVVIGICTHLGCVPTYRAG-   81 (126)
T ss_pred             EEhhhCCCCCEEEEEECCeEEEEEEC-CHHHHhhhhhcchhhcCCccccccccccCCCcEEEEeCcCCCCCCeeccccC-
Confidence            35688999999999999999999993 2                            67999999999999998887765 


Q ss_pred             CCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEEC-CeEEE
Q 012708          150 ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ-GLLFV  206 (458)
Q Consensus       150 ~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~-G~V~V  206 (458)
                      +++.+.||+|||+||++|+.+..|.              ...|..||+++.+ +.|+|
T Consensus        82 ~~~~~~CPcHgs~Fdl~G~~~~gPa--------------~~~L~~~p~~~~~~~~l~i  125 (126)
T cd03470          82 DYGGFFCPCHGSHYDASGRIRKGPA--------------PLNLEVPPYKFLSDTTIVI  125 (126)
T ss_pred             CCCEEEecCcCCEECCCCeEecCCC--------------CCCCCeeeEEEecCCEEEe
Confidence            3679999999999999999887653              2468999999877 67654

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.

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

Probab=99.55  E-value=3e-14  Score=131.04  Aligned_cols=164  Identities=15%  Similarity=0.133  Sum_probs=101.1

Q ss_pred             EEEEEecChhhhhhhccCCCcccccccccccCcC---CCCCccEEEeecC---ccc----eeeec--------CCCCcEE
Q 012708          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRD---RAKPLPFKLESSG---HWG----FAGAN--------DGNPRIS  299 (458)
Q Consensus       238 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~---~~~~~~~~~~~~~---~~g----f~~~~--------~~~~~~~  299 (458)
                      ...+++||||+++||++|+||++++|+++++...   ......+.+....   ..+    +....        .......
T Consensus         3 ~~~~~~~NWK~~~En~~E~YH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (188)
T cd00680           3 YEYEVDCNWKLAVENFLECYHVPTVHPDTLATGLPLPLLFGDHYRVDDTGEGPGEGLSRHWGDGKGPQSALPGLKPGGYL   82 (188)
T ss_pred             eEEEeccCceEehhhccccccccccChhhhccccccCcccCCceEEEeccCCCCChhhcccchhhhcccccccccccCeE
Confidence            3568899999999999999999999999987421   0011122222110   001    11000        0111234


Q ss_pred             EEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhc--cccc
Q 012708          300 AKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHW--TSNK  377 (458)
Q Consensus       300 ~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~--~~~~  377 (458)
                      ..+++||+.+...          ..   .+++..++|+++++|++.+.++......  ..    +...+++...  +...
T Consensus        83 ~~~~fPn~~~~~~----------~~---~~~~~~~~P~~~~~t~~~~~~~~~~~~~--~~----~~~~~~~~~~~~~~~~  143 (188)
T cd00680          83 YLYLFPNLMIGLY----------PD---SLQVQQFVPIGPNKTRLEVRLYRPKDED--AR----EEFDAELESLAGILRQ  143 (188)
T ss_pred             EEEECCcEeeeec----------CC---EEEEEEEEecCCCcEEEEEEEEEecccc--cc----hhhHHHHHHhHHHHHH
Confidence            6789999986531          11   2334567999999999999876543210  00    1112222211  3568


Q ss_pred             ccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHh
Q 012708          378 VYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       378 V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      |++||+.++|+||+++.+...+          .+.+  ...+..+..|++|+++.
T Consensus       144 v~~ED~~~~e~~Q~gl~s~~~~----------~~~l--~~~E~~i~~f~~~~~~~  186 (188)
T cd00680         144 VLDEDIELCERIQRGLRSGAFR----------GGPL--SPLEEGIRHFHRWLRRA  186 (188)
T ss_pred             HHHHHHHHHHHHhccccCCcCC----------CCCC--CcccccHHHHHHHHHHh
Confidence            8999999999999999876432          3333  23468999999999875

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

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

Probab=99.50  E-value=1.6e-13  Score=126.98  Aligned_cols=87  Identities=17%  Similarity=0.242  Sum_probs=72.5

Q ss_pred             CCCCcEEEE-ECCeE-EEEEEECCCCeE--EEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCC
Q 012708          104 DPNLPTAFQ-LLGRD-LVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEG  179 (458)
Q Consensus       104 ~~g~~~~~~-~~g~~-lvl~R~~~~G~v--~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~  179 (458)
                      ++|++..+. +.|.+ +++++  .+|++  +|+++.|||.|++|+.+..  ++.|.||+|||+||.+|+.+..|.     
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            568888776 67777 55555  58999  6779999999999998875  359999999999999999887553     


Q ss_pred             cchhhcCCCCCCceeEeEEEECCeEEEec
Q 012708          180 PEARAIQSPRACATRFPTMVSQGLLFVWP  208 (458)
Q Consensus       180 ~~~~~~~~~~~~l~~~pv~e~~G~V~V~~  208 (458)
                               ...|+.|+|++++|.|+|.+
T Consensus       144 ---------~~~L~~y~v~v~~g~v~v~~  163 (178)
T PRK13474        144 ---------PLSLALVHVTVEDDKVLFSP  163 (178)
T ss_pred             ---------CCCCCeEeEEEECCEEEEEE
Confidence                     34689999999999999987

>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=99.46  E-value=4.5e-13  Score=125.03  Aligned_cols=166  Identities=12%  Similarity=0.009  Sum_probs=96.7

Q ss_pred             EEEEEecChhhhhhhccCCCcccccccccccCcCCCCCccE--------EEeec------Cccc-eeeecC--C--CCcE
Q 012708          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPF--------KLESS------GHWG-FAGAND--G--NPRI  298 (458)
Q Consensus       238 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~--------~~~~~------~~~g-f~~~~~--~--~~~~  298 (458)
                      ..++++||||+++|||+|+||++.+|+++++.........+        .....      .... ......  +  ....
T Consensus         4 ~~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (190)
T cd08885           4 EEEVWDTNWKVLAENFMEGYHLPGLHPGTLHPFMPAELSYFRPEDGRGFTRHKGTKHFNETIEPAHPPNPGLTEEWRRRL   83 (190)
T ss_pred             eeeeccCCchhhHhhcCccccccccccchhhccCchhhcccccCCCcceeeeecccccccCccccCCCCCCCChhhhcce
Confidence            45788999999999999999999999998754322110000        00000      0000 000000  0  0112


Q ss_pred             EEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccc
Q 012708          299 SAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKV  378 (458)
Q Consensus       299 ~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V  378 (458)
                      ...+++||++++..          ...   +.+..+.|+++++|++.+..+..-..   .+..........+. .....|
T Consensus        84 ~~~~iFPN~~i~~~----------~~~---~~~~~~~P~~~~~t~~~~~~~~~~~~---~~~~~~~~~~~~~~-~~~~~v  146 (190)
T cd08885          84 VLFAIFPTHLLALT----------PDY---VWWLSLLPEGAGRVRVRWGVLVAPEA---ADDPEAAEYIAELK-ALLDAI  146 (190)
T ss_pred             EEEEECCcEEEEec----------CCe---EEEEEEEecCCCeEEEEEEEEEcchh---cccchhHHHHHHHH-HHHHHH
Confidence            35668999987631          121   22334689999999998865432110   10000000011111 124578


Q ss_pred             cchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHh
Q 012708          379 YDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       379 ~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      ++||..+++.+|+++.+...          ..+++.  ..+..+.+|++||.+.
T Consensus       147 ~~ED~~~~e~~Q~Gl~S~~~----------~~g~l~--~~E~~i~~fh~~l~~~  188 (190)
T cd08885         147 NDEDRLVVEGVQRGLGSRFA----------VPGRLS--HLERPIWQFQRYLASR  188 (190)
T ss_pred             HHHHHHHHHHhcccccCCCC----------CCCCCC--cccccHHHHHHHHHHH
Confidence            99999999999999988643          344443  3589999999999875

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=99.45  E-value=1.3e-12  Score=120.64  Aligned_cols=160  Identities=13%  Similarity=0.130  Sum_probs=97.9

Q ss_pred             EEEEEecChhhhhhhccCCCcccccccccccCcCCCCCccEEEeecCcc---cee--eecC----C-CCcEEEEEEccee
Q 012708          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHW---GFA--GAND----G-NPRISAKFVAPCY  307 (458)
Q Consensus       238 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~---gf~--~~~~----~-~~~~~~~f~~P~~  307 (458)
                      ...+++||||+++||++|+||++++|++++.....   ..+.++..+..   +..  ....    . .......+++||+
T Consensus         4 ~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN~   80 (175)
T cd08883           4 REYVIECNWKVYVDNYLEGYHVPFAHPGLAAVLDY---ATYRTELFEYVSLQSAPARAEEGSFFYRLGNAALYAWIYPNL   80 (175)
T ss_pred             EEeeeecCceEEehhcCCcccCcccchhHHhhccc---CceEEEEcCcEEEEEecccCCCCccccccCcCeEEEEECCCE
Confidence            35678999999999999999999999999754221   12222211110   010  0000    0 0112356688999


Q ss_pred             eeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccchhHHHHh
Q 012708          308 YMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQ  387 (458)
Q Consensus       308 ~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~eD~~vle  387 (458)
                      .++..         + ..  +. +..+.|+++++|++.+.++....    . ......+...+.   ...|+.||..+++
T Consensus        81 ~i~~~---------~-~~--~~-~~~~~P~~p~~t~~~~~~~~~~~----~-~~~~~~~~~~~~---~~~v~~ED~~i~e  139 (175)
T cd08883          81 MLNRY---------P-PG--MD-VNVVLPLGPERCKVVFDYFVDDS----D-GSDEAFIAESIE---SDRVQKEDIEICE  139 (175)
T ss_pred             eeeec---------C-Ce--EE-EEEEEeCCCCcEEEEEEEEEecc----c-cchhHHHHHHHH---HHHHHHHHHHHHH
Confidence            87631         2 21  22 23468999999999876553321    1 000011112111   4578999999999


Q ss_pred             hhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHh
Q 012708          388 GQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       388 ~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      .+|+++.+.+.+          .+++ +...+..+..|++|+++.
T Consensus       140 ~vQ~Gl~S~~~~----------~G~l-~~~~E~~v~~Fh~~l~~~  173 (175)
T cd08883         140 SVQRGLESGAYD----------PGRF-SPKRENGVHHFHRLLAQA  173 (175)
T ss_pred             HHhhhhcCCCCC----------CCCC-CCccchHHHHHHHHHHHh
Confidence            999999886532          3433 223588999999999875

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-

>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=99.42  E-value=1.6e-12  Score=121.03  Aligned_cols=161  Identities=12%  Similarity=0.092  Sum_probs=97.8

Q ss_pred             EEEEEecChhhhhhhccCCCcccccccccccCcCCCCCccEEEeecCccc-------eeeec----CCCCcEEEEEEcce
Q 012708          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWG-------FAGAN----DGNPRISAKFVAPC  306 (458)
Q Consensus       238 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~g-------f~~~~----~~~~~~~~~f~~P~  306 (458)
                      ..+++.||||+++||++|+||++++|+++++.....   .+..+..+.+.       +....    .........+++||
T Consensus         4 ~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN   80 (182)
T cd08886           4 LTSEIKANWKNVVDNYLECYHCHTAHPDFVDSLDMD---TYKHTTHGNYSSQMANYGSAENSEYSVKPDADFAFYWLWPN   80 (182)
T ss_pred             EEEEeecccEEEEecCCccccCcccChhHHhccccc---ccEEEecCcEEEEEeccccccccccccccCcceeEEEEeCC
Confidence            467889999999999999999999999998653221   12222111111       10000    00112235678899


Q ss_pred             eeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhccccccc-chhHHH
Q 012708          307 YYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVY-DGDMIV  385 (458)
Q Consensus       307 ~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~-~eD~~v  385 (458)
                      ++++..        .+...   +.+..+.|+++++|++.+.++..-   ..+....    ...+.  +...|+ +||..+
T Consensus        81 ~~i~~~--------~~~~~---~~~~~~~P~~p~~t~~~~~~~~~~---~~~~~~~----~~~~~--~~~~v~~~ED~~l  140 (182)
T cd08886          81 TMLNVY--------PGAGN---MGVINIIPVDAETTLQHYDFYFRD---EELTDEE----KELIE--YYRQVLQPEDLEL  140 (182)
T ss_pred             EEEEee--------CCCCe---EEEEEEEeCCCCeEEEEEEEEecC---CCccHHH----HHHHH--HHHHhcchhhHHH
Confidence            987632        12111   223456899999999877544111   1111111    11111  345677 999999


Q ss_pred             HhhhhHHHhhhcccCCcccccccccccccc-----CcccHHHHHHHHHHHH
Q 012708          386 LQGQEKIFLSKLMEGSEDVNKEYTKITFTP-----TQADRLVLAFRNWLRR  431 (458)
Q Consensus       386 le~qq~~~~~~~~~~~~~~~~~~~~~~~~~-----~~aD~~v~afRrwl~~  431 (458)
                      +|.+|+++.+...          ..+++.+     ...+.++.+|.+||++
T Consensus       141 ~e~vQ~Gl~S~~~----------~~g~l~~~~~~~~~~E~~v~~fh~~l~~  181 (182)
T cd08886         141 VESVQRGLKSRAF----------GQGRIVVDPSGSGISEHAVHHFHGLVLE  181 (182)
T ss_pred             HHHHhcccccCCC----------CCceeccCcccCCccchhHHHHHHHHhc
Confidence            9999999987643          3454431     2458999999999975

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

>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=99.39  E-value=1.3e-12  Score=121.05  Aligned_cols=165  Identities=12%  Similarity=0.032  Sum_probs=97.2

Q ss_pred             EEEEEecChhhhhhhccCCCcccccccccccCcCCCCCccEEEeecC-ccce--------eeecCCC-----CcEEEEEE
Q 012708          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSG-HWGF--------AGANDGN-----PRISAKFV  303 (458)
Q Consensus       238 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~~~~~-~~gf--------~~~~~~~-----~~~~~~f~  303 (458)
                      ...+++||||+++||++|+||++++|+++++.........++..... ..++        .......     ......++
T Consensus         4 ~~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~~~~~~~~~~~~g~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   83 (185)
T cd08887           4 RRFDVAANWKLALDGFLEGYHFKVLHKNTIAPYFYDNLSVYDAFGPHSRIVFPRKSIESLRDLPEDEWDLRRHLTVIYTL   83 (185)
T ss_pred             eeeecCCCceEehhhcccccccchhchhhhcccccCCceEEeccCCeeeeecchhhHHHHhcCChhHCCccCCeeEEEEE
Confidence            35678999999999999999999999999864332221112111000 0000        0000000     01123467


Q ss_pred             cceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhccc-ccccchh
Q 012708          304 APCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTS-NKVYDGD  382 (458)
Q Consensus       304 ~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~-~~V~~eD  382 (458)
                      +||+.++..         + .   .+....+.|+++++|.+.+.++....   .+.+...+.......  .. ..|..||
T Consensus        84 FPN~~i~~~---------~-~---~~~~~~~~P~~~~~t~~~~~~~~~~~---~~~~~~~~~~~~~~~--~~~~~v~~ED  145 (185)
T cd08887          84 FPNVSLLVQ---------P-D---HLEIIQIEPGSPDRTRVTVYLLIPPP---PDTEEARAYWDKNWD--FLMAVVLDED  145 (185)
T ss_pred             CCceEEEec---------C-C---eEEEEEEEcCCCCceEEEEEEEecCC---CCcHHHHHHHHHHHH--HHHhhhHHHH
Confidence            899887531         2 1   12234568999999999886543221   111111111111111  12 5789999


Q ss_pred             HHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHh
Q 012708          383 MIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       383 ~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      ..+++.+|+++.+...+          .+.  ....+..+.+|++|+++.
T Consensus       146 ~~~~e~~Q~Gl~s~~~~----------~~~--l~~~E~~i~~fh~~~~~~  183 (185)
T cd08887         146 FEVAEEIQRGLASGAND----------HLT--FGRNESALQHFHRWLERA  183 (185)
T ss_pred             HHHHHHHhhhhhcCCCC----------ceE--eecCCHHHHHHHHHHHHH
Confidence            99999999999876432          222  245799999999999875

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

>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=99.35  E-value=7.6e-12  Score=118.60  Aligned_cols=164  Identities=14%  Similarity=0.125  Sum_probs=97.3

Q ss_pred             EEEEEecChhhhhhhccCCCccccccccccc-CcC--CCCCc-------cEEEee---------cCccce------eeec
Q 012708          238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTG-RRD--RAKPL-------PFKLES---------SGHWGF------AGAN  292 (458)
Q Consensus       238 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~-~~~--~~~~~-------~~~~~~---------~~~~gf------~~~~  292 (458)
                      ..+.++||||+++||++|+||++++|+++.. ..+  .....       .+....         ....+-      .+..
T Consensus        14 ~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~   93 (205)
T cd08884          14 ISYEVAANWKLVVENYRECYHCAGVHPELARSLSEFDDGGNPDPEAGGADFRGRRGPLRGGAESFTMDGKAVAPPLPGLT   93 (205)
T ss_pred             eEEEEccCceehhHhCcccccCccccHHHHhhcccccccccccccccccceeeecccccCCceeecCCCCcccCCCCCCC
Confidence            4678899999999999999999999999764 111  10000       000000         000000      0000


Q ss_pred             C-CCCcEEEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhh
Q 012708          293 D-GNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHE  371 (458)
Q Consensus       293 ~-~~~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~  371 (458)
                      . ........+++||++++..         ++    .+.+..+.|+++++|++.+.++..-..  ......  .......
T Consensus        94 ~~~~~~~~~~~lfPN~~~~~~---------~d----~~~~~~~~P~~p~~t~~~~~~~~~~~~--~~~~~~--~~~~~~~  156 (205)
T cd08884          94 EADDRGALYYTLYPNSFLHLH---------PD----HVVTFRVLPLSPDETLVRCKWLVHPDA--VEGVDY--DLDDLVE  156 (205)
T ss_pred             ccccCceEEEEeCCcEEEEEc---------CC----EEEEEEEEeCCCCceEEEEEEEECCch--hccccc--CHHHHHH
Confidence            1 1112345678899977531         22    123345689999999998865432111  011111  0112111


Q ss_pred             hcccccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHh
Q 012708          372 HWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       372 ~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                        +...|+.||..|+|.+|+++.+...          ..+++.+  .+.++.+|.+|+++.
T Consensus       157 --~~~~v~~ED~~i~e~vQ~Gl~S~~~----------~~g~l~~--~E~~v~~F~~~~~~~  203 (205)
T cd08884         157 --VWDATNRQDWAICERNQRGVNSPAY----------RPGPYSP--MEGGVLAFDRWYLER  203 (205)
T ss_pred             --HHHHHHHHHHHHHHHhcccccCCCc----------CCCCcCC--ccHHHHHHHHHHHHH
Confidence              3458899999999999999987643          3554533  589999999999875

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

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

Probab=99.35  E-value=5.1e-12  Score=116.64  Aligned_cols=96  Identities=16%  Similarity=0.224  Sum_probs=77.7

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECC---------------------------------CCeEEEEecCCCCC
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN---------------------------------SNKWVAFDDKCPHR  139 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~---------------------------------~G~v~A~~n~CpHr  139 (458)
                      .|+.| ..++|++|+.+.+.+.|++|+|+|...                                 +++++|+.+.|||.
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            57888 799999999999999999999998411                                 48999999999999


Q ss_pred             CCCc-CCccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCe
Q 012708          140 LAPL-SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGL  203 (458)
Q Consensus       140 ga~L-~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~  203 (458)
                      |+.+ ..+.....+.+.||+||++||.+|+.+..|.              ...|..||++..++.
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 4444432468999999999999999887553              346889999887654

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.

>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=99.32  E-value=3.6e-12  Score=118.63  Aligned_cols=165  Identities=17%  Similarity=0.164  Sum_probs=96.7

Q ss_pred             EEEecChhhhhhhccCCCcccccccccccCcCCCCCc---cEEEeecCccceee-----------------e--------
Q 012708          240 RDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPL---PFKLESSGHWGFAG-----------------A--------  291 (458)
Q Consensus       240 ~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~---~~~~~~~~~~gf~~-----------------~--------  291 (458)
                      ++++||||+++||++|+||++++|+++++........   ...++..+..+...                 .        
T Consensus        12 ~~~~~NWK~~~EN~~e~YH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (209)
T PF00848_consen   12 YEVDCNWKLAVENFLEGYHVPFLHPSTLGFFDPSNDEQAEIASVEFFGGHGSVWAGRMREEPQPEPSERRAWKGRPFPPG   91 (209)
T ss_dssp             HHESS-HHHHHHHHHHCTTHHHHTHHHHHHHSCTTGGHHEEEEEEEESSTCEEETHHHHHHHHHHHHHHHHSHHHHHHHH
T ss_pred             EEecccceEHHHhCcccccccccccchhhhhhccccccccccccccccccccccccccccccccccchhhhhhhhhcccc
Confidence            4589999999999999999999999986533222111   01111111111100                 0        


Q ss_pred             -c-CCCCcEEEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhh
Q 012708          292 -N-DGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRW  369 (458)
Q Consensus       292 -~-~~~~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~  369 (458)
                       . .........+++||+.+...         +... .   +..+.|++|++|.+.+........  ...+.+.+.+.+.
T Consensus        92 ~~~~~~~~~~~~~iFPn~~i~~~---------~~~~-~---~~~~~P~~p~~t~~~~~~~~~~~~--~~~~~~~~~~~~~  156 (209)
T PF00848_consen   92 LPDDQRMGYRNYVIFPNLSIIVY---------PDHF-T---VRTIIPIGPDRTEVWSWWFVPKDE--GAPPEFREARIRN  156 (209)
T ss_dssp             HHHHHHTSEEEEEETTTEEEEE----------TTTT-E---EEEEEEESTTEEEEEEEEEEETT----STHHHHHHHHHH
T ss_pred             ccccccccccceeeCCCEEEEec---------cccc-E---EEEEEECCCCeEEEEEEEEEeCCc--ccchhhHHHHHHH
Confidence             0 00112347789999987621         2221 1   234589999999998876533321  0111221212221


Q ss_pred             hhhcccccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHh
Q 012708          370 HEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       370 ~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      ...+.  .|+.||+.++|++|+++.+.+.+          ++. +....|..+..|++|+++.
T Consensus       157 ~~~~~--~~~~ED~~~~e~~Q~gl~s~~~~----------~~~-~~~~~E~~v~~f~~~~~~~  206 (209)
T PF00848_consen  157 WDRFF--GVFAEDIEIVERQQRGLRSRGFD----------PGR-LSGTSERGVRHFHRWWRRY  206 (209)
T ss_dssp             HHHHH--STHHHHHHHHHHHHHHTTSSTSC----------TSE-ESSCSSHHHHHHHHHHHHH
T ss_pred             HHhcC--cHHHHHHHHHHHHHHHHcCCCCC----------CCC-CCCcCCHHHHHHHHHHHHH
Confidence            11111  18999999999999999875432          333 3356899999999999875

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 ....

>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=99.31  E-value=4.7e-12  Score=104.91  Aligned_cols=86  Identities=33%  Similarity=0.499  Sum_probs=67.1

Q ss_pred             EEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccch
Q 012708          302 FVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDG  381 (458)
Q Consensus       302 f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~e  381 (458)
                      |++||++.+......    ..+....+..+++++|++||+||++++++++|..      .+.+.+|+|+.|+.++.|++|
T Consensus         1 F~pPc~v~~~~~~~~----~~~~~~~~~~~~~~vP~~pG~~Rli~r~~~~f~~------~~~k~~P~wl~H~~~n~VLd~   70 (92)
T PF08417_consen    1 FIPPCLVRSTEEGPK----KKSCGKRLHQVFYCVPTGPGRCRLIWRFPRNFPA------WIFKLIPRWLSHLTSNKVLDQ   70 (92)
T ss_pred             CCCCEEEEEeccccc----cCCCCCEEEEEEEEEECCCCeEEEEEEehhhhhh------HHhhcCCHHHHHHhhCcccHH
Confidence            678999887611111    1223334666778899999999999999999832      244789999999999999999


Q ss_pred             hHHHHhhhhHHHhhhc
Q 012708          382 DMIVLQGQEKIFLSKL  397 (458)
Q Consensus       382 D~~vle~qq~~~~~~~  397 (458)
                      |+.+|+.||+.+.+.+
T Consensus        71 Dl~lLh~Qe~~l~~~g   86 (92)
T PF08417_consen   71 DLYLLHGQERRLAREG   86 (92)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999999998753

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

>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=98.93  E-value=6.6e-09  Score=94.80  Aligned_cols=66  Identities=18%  Similarity=0.233  Sum_probs=50.5

Q ss_pred             CCeEEEEecCCCCCCCCcCC---------------ccccCCCeEEcCCCCeEEcC-CCC-eeecCCCCCCCcchhhcCCC
Q 012708          126 SNKWVAFDDKCPHRLAPLSE---------------GRIDENGHLQCSYHGWSFDG-CGS-CTRIPQAASEGPEARAIQSP  188 (458)
Q Consensus       126 ~G~v~A~~n~CpHrga~L~~---------------G~~~~~~~l~CpyHGw~Fd~-~G~-~~~iP~~~~~~~~~~~~~~~  188 (458)
                      +|+++|+.+.|+|+|++|..               |.. .++.|.||+|||+||+ +|. .+..|              +
T Consensus        74 ~g~IvA~S~iCpHlGc~l~~~~~y~~~~~~~~~~~g~~-~~~~i~CPcHgS~FD~~tGg~v~~GP--------------A  138 (171)
T cd03475          74 NKSIVAFSAICQHLGCQPPPIVSYPSYYPPDKAPGLAS-KGAVIHCCCHGSTYDPYKGGVVLTGP--------------A  138 (171)
T ss_pred             CCEEEEEeCcCCCCCCcccccccccccccccccccccc-cCCEEEcCCCCCEEeCCCCCeEcCCC--------------C
Confidence            68999999999999998752               444 3679999999999999 564 33222              2


Q ss_pred             CCCceeEeEEEEC--CeEEE
Q 012708          189 RACATRFPTMVSQ--GLLFV  206 (458)
Q Consensus       189 ~~~l~~~pv~e~~--G~V~V  206 (458)
                      ...|..|.+++++  |.||+
T Consensus       139 ~~pLp~~~L~~d~~~d~iyA  158 (171)
T cd03475         139 PRPLPAVILEYDSSTDDLYA  158 (171)
T ss_pred             CCCcCEeEEEEeCCCCcEEE
Confidence            3468999998884  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.

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

Probab=98.82  E-value=3.8e-08  Score=95.93  Aligned_cols=109  Identities=17%  Similarity=0.094  Sum_probs=61.7

Q ss_pred             EEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEee--cCCCeEEEEEEeeccccccCCCCccc--ccchhhhhhhccc
Q 012708          300 AKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVP--MAPGKTRSIVCSARNFFQFTMPGPAW--WQVVPRWHEHWTS  375 (458)
Q Consensus       300 ~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tP--v~p~~trv~~~~~R~f~~~~~p~~~~--~~~~~r~~~~~~~  375 (458)
                      ..+++||+.+..          +...  + ++..+.|  ++|++|.+...++.....-..+....  .+...........
T Consensus       129 ~~~lFPN~~i~~----------~p~~--~-~~~r~~P~~~dpd~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (243)
T cd08882         129 HYTLFPNFTILP----------GPDG--L-LVYRFRPHGDDPEKCIFDIWSLERYPEGAEPPEPPEEHEVFSDAPELGGL  195 (243)
T ss_pred             eEEECCCccccC----------CCCc--c-EEEEeecCCCCCCeEEEEEEEEEECCCCCCCCCCCccccccccccccccc
Confidence            456889887652          2221  1 2234578  69999998776543321100000000  0111111110013


Q ss_pred             ccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHh
Q 012708          376 NKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       376 ~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      ..|++||..+++.+|+++.+.+.+          .+.+ .-.-+..+.+|.+||+++
T Consensus       196 ~~V~~ED~~~~e~vQ~Gl~S~~~~----------~~~l-~~~EE~~I~~FH~~l~~~  241 (243)
T cd08882         196 GLVLDQDFSNLPAVQKGMHSRGFG----------GLVL-ANQEESRIRHFHEVLDDY  241 (243)
T ss_pred             cchhHhHHHHHHHHHHHhccCCCC----------Cccc-CchHHHHHHHHHHHHHHH
Confidence            589999999999999999986543          2222 112248999999999876

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

>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=98.75  E-value=9.2e-08  Score=91.94  Aligned_cols=174  Identities=12%  Similarity=0.064  Sum_probs=90.7

Q ss_pred             EEEecChhhhhhhccCCCccccccc--ccccCcCCCCCccEEEeecCcc---------------c-------eee-----
Q 012708          240 RDLFYGYDTLMENVSDPSHIDFAHH--KVTGRRDRAKPLPFKLESSGHW---------------G-------FAG-----  290 (458)
Q Consensus       240 ~~~~~nwk~~~EN~~D~~H~~~vH~--~~~~~~~~~~~~~~~~~~~~~~---------------g-------f~~-----  290 (458)
                      ..+++|||+.+||+.|+||++.+|.  .++|...........++..+.-               +       |..     
T Consensus         6 ~~~~~nwk~~~~~~~~~yh~~~~h~~~~t~g~~~~~~~~~~~~~~~g~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   85 (222)
T cd08880           6 QRIPGNWKLYAENVKDPYHASLLHLFFVTFGLWRADQKSSIIDDEHGRHSVMTSTKSGDDEAAEKDSEEIRSFRDDFTLL   85 (222)
T ss_pred             eecCCCcHHHHHhccCcchHHHHhhhheeeecccCCCCCceEEecCCCceEEEEecCCCcccccchHHHHHHHhhccccC
Confidence            4678999999999999999999999  6665422111101222211100               0       000     


Q ss_pred             -e--------cCCCCcEEEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcc
Q 012708          291 -A--------NDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPA  361 (458)
Q Consensus       291 -~--------~~~~~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~  361 (458)
                       .        ..+........++||+.+...         . ..   +.+..+.|+++++|++.+.+...-.    ..+.
T Consensus        86 d~~~~~~~~e~~~~~~~~~~~iFPNl~l~~~---------~-~~---l~v~~~~P~gpd~t~~~~~~~~~~~----~~~e  148 (222)
T cd08880          86 DPSLLDGRAEFDDDITLVIQSIFPSLVVQQI---------Q-NT---LAVRHIIPKGPDSFELVWTYFGYED----DDEE  148 (222)
T ss_pred             CHHHHhhhHhhcCCCceEEEEECCCEEEecc---------C-Cc---EEEEEEEecCCCeEEEEEEEEEecC----CCHH
Confidence             0        000111235568898876421         1 11   2223468999999998776431111    1111


Q ss_pred             cccchhhhhhhcc-cccccchhHHHHhhhhHHHhhhcccCCcccccc--ccccccccCcccHHHHHHHHHHHHh
Q 012708          362 WWQVVPRWHEHWT-SNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKE--YTKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       362 ~~~~~~r~~~~~~-~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~--~~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      ..+...+-..... ...|..||..+++.+|+++.+...+.+ .+...  .... .-....+..+.+|-+|.++.
T Consensus       149 ~~~~~~~~~~~~gp~g~v~~ED~ei~e~vQ~Gl~s~~~~~~-~~~~g~~~~~~-~~~~~~E~~ir~f~~~y~~~  220 (222)
T cd08880         149 MTRLRLRQANLVGPAGFVSMEDGEAIEFVQRGVEGDGGDRS-VIEMGGGDVES-SDHMVTEAAIRGFWKYYRKV  220 (222)
T ss_pred             HHHHHHHHhcccCCcCCCccchHHHHHHhCchhcCCCcccc-hhhhCCCCCCC-cCcccCcHHHHHHHHHHHHH
Confidence            1111111011001 246889999999999999987654300 00000  0000 11123577888887776654

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

>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=98.57  E-value=1.5e-06  Score=82.42  Aligned_cols=188  Identities=19%  Similarity=0.270  Sum_probs=95.7

Q ss_pred             CCCCCCCCCCceEEEEEEEecChhhhhhhccCCCcccccccccccC--cCCCCCcc--------E-EE--eecCcccee-
Q 012708          224 LPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGR--RDRAKPLP--------F-KL--ESSGHWGFA-  289 (458)
Q Consensus       224 ~p~~~~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~--~~~~~~~~--------~-~~--~~~~~~gf~-  289 (458)
                      +|+.|.+.+.........+.|||...+||.+|..|+ |+|..+.-.  .+.+-++.        + ++  +..++-|+. 
T Consensus        14 lP~~fld~~~~~~g~~~~~~~NWR~a~ENGfD~~H~-fiHk~s~~v~~~D~~lplG~~p~d~~~~t~~v~d~~gPKG~~~   92 (240)
T PF11723_consen   14 LPPGFLDDDIVIFGMHREINANWRLAAENGFDPGHI-FIHKDSIWVHANDWALPLGFRPTDSDGMTKVVEDEDGPKGVMD   92 (240)
T ss_dssp             S-TTTTSTTEEEEEEEEEESS-HHHHHHHHT-TTGG-GGGTT-HHHHHTTBEE-SEEEESSCCCEEEEEC-STSS-EEEE
T ss_pred             CCccccCCcceEEeeeeeccccchhhhhhCcCcceE-EEecCcceEEecceecccccccCCcccceEEEecCCCCceeee
Confidence            444566666666666788999999999999999998 999974211  01000000        1 11  111221211 


Q ss_pred             -----------eecCCC--------Cc---EEEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEE
Q 012708          290 -----------GANDGN--------PR---ISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVC  347 (458)
Q Consensus       290 -----------~~~~~~--------~~---~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~  347 (458)
                                 +...+.        +.   ..+..-.|++....       +...+.   +.-.-+++|++..+.+++..
T Consensus        93 ~~~~~~~pi~e~~i~g~~~~~~~~~~~~~~~~iSiwlPgVL~V~-------~~P~p~---~~qyEwYVPID~~~h~Y~q~  162 (240)
T PF11723_consen   93 RLTEHYEPIFENEIDGEKVRNGNTNPVAVAMRISIWLPGVLMVE-------NWPYPD---FTQYEWYVPIDEDTHRYFQL  162 (240)
T ss_dssp             -CHHHEEEESEEEETTEEEEE-BESSBE--SEEEEETTTEEEEE-------S-SSTT---EEEEEEEEEEETTEEEEEEE
T ss_pred             cccccceEEEecccCCceeecCCCCCceeEEEeeEeccceeecc-------cCCCCC---eeEEEEEEEecccceeeEeE
Confidence                       000000        00   11222223332210       111222   22234579999999999987


Q ss_pred             eeccccccCCCCcccc-cchhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHH
Q 012708          348 SARNFFQFTMPGPAWW-QVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFR  426 (458)
Q Consensus       348 ~~R~f~~~~~p~~~~~-~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afR  426 (458)
                      ..+.-... -...+|. +.-..|.. ...+...++|+.+.|++|+-+.+..         .|..  ....+.|..|+++|
T Consensus       163 l~~~~~t~-ee~~~f~~~f~~~~~~-~~l~gFN~~D~wAREamq~fY~d~~---------Gw~~--E~L~~~D~sIi~WR  229 (240)
T PF11723_consen  163 LGKVCPTE-EERKAFEYEFEEQWKP-LALHGFNDDDIWAREAMQPFYADDT---------GWDR--EQLFEPDKSIIAWR  229 (240)
T ss_dssp             EEEE-SSH-HHHHHHHHHHHHTHHH-HTTTTTTHHHHHHHHHHHHHHHTSH---------HHHH------GGGHHHHHHH
T ss_pred             EeeecCCH-HHHHHHHHHHHHHhHH-hhccCCCchhHHHHHHhhhhhhccC---------CCCH--HHhcCcchhHHHHH
Confidence            76543110 0001111 11112211 2356788999999999998776521         2333  34678999999999


Q ss_pred             HHHHHhcCC
Q 012708          427 NWLRRHGNS  435 (458)
Q Consensus       427 rwl~~~~~~  435 (458)
                      |...++..|
T Consensus       230 kLas~~nrg  238 (240)
T PF11723_consen  230 KLASEHNRG  238 (240)
T ss_dssp             HHHHHH-SE
T ss_pred             HHHHHhhcc
Confidence            999998654

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.

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

Probab=98.31  E-value=1.2e-06  Score=81.34  Aligned_cols=80  Identities=19%  Similarity=0.221  Sum_probs=57.2

Q ss_pred             CeEEEEEEECCCC-----eEEEEecCCCCCCCCcCC-ccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCC
Q 012708          115 GRDLVLWFDNNSN-----KWVAFDDKCPHRLAPLSE-GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSP  188 (458)
Q Consensus       115 g~~lvl~R~~~~G-----~v~A~~n~CpHrga~L~~-G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~  188 (458)
                      +.+...+++ .++     +|.|+...|.|.|+.... +.. ..+.+.||+||.+||.+|+.+..|..             
T Consensus        83 ~~~~~~~~~-~~~~~~~~~~~a~~~iCtHlGC~~~~~~~~-~~~~~~CPCHGS~yd~~g~vv~GPA~-------------  147 (177)
T COG0723          83 GPKGGVTRD-GDGGVGNKEIVAYSAICTHLGCTVPWNNAG-AEGGFFCPCHGSRYDPDGGVVKGPAP-------------  147 (177)
T ss_pred             cccccceec-ccCCCCCccEEEEeeeccCCCCccCcccCC-CCCeEEccCCCCeEcCCCCeeCCCCC-------------
Confidence            344444444 344     455999999999999988 344 35799999999999999997776543             


Q ss_pred             CCCceeEeEEEECC-eEEEecCC
Q 012708          189 RACATRFPTMVSQG-LLFVWPDE  210 (458)
Q Consensus       189 ~~~l~~~pv~e~~G-~V~V~~~~  210 (458)
                       ..|..++++..++ .+.+-.+.
T Consensus       148 -~~L~~~~~~~~~d~~~~~~~~~  169 (177)
T COG0723         148 -RPLPIPPLEYDSDKLYLIGLGT  169 (177)
T ss_pred             -CCcCCceEEEeCCceEEEEecc
Confidence             3577888877776 44444443

>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=98.20  E-value=3.7e-06  Score=79.94  Aligned_cols=136  Identities=11%  Similarity=-0.002  Sum_probs=71.6

Q ss_pred             EEEEecChhhhhhhcc-CCCcccccccccccCcCCCCCccEEEeecCcccee--eecCCC------CcEEEEEEcceeee
Q 012708          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFA--GANDGN------PRISAKFVAPCYYM  309 (458)
Q Consensus       239 ~~~~~~nwk~~~EN~~-D~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~gf~--~~~~~~------~~~~~~f~~P~~~~  309 (458)
                      ...++||||+++|||+ |.||+.++|.+++............   ....|..  ....+.      ......+++||+.+
T Consensus        10 ~~~~~~NWK~~~en~~~d~yH~~~~H~~~~~~~~~~~~~~~~---~~~~g~~~~~~~~GHg~~~~~~~~~~~~iFPN~~~   86 (206)
T cd08881          10 KWVIKANWKLAAENFAGDGYHTGTTHASALEAGLPPDAADLP---PIDLGLQFTAPWHGHGLGFFLDSPQHGTIFPNLSF   86 (206)
T ss_pred             EEEecCcceehhhccccccccchhhhHHHHHhhCCcccccCC---CCCCCcEEEeCCCCeEEEEeccCcceeeECCcchh
Confidence            5678999999999999 9999999999976322211000000   0001110  000000      01124567788765


Q ss_pred             EEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcc--cccccchhHHHHh
Q 012708          310 NKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWT--SNKVYDGDMIVLQ  387 (458)
Q Consensus       310 ~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~--~~~V~~eD~~vle  387 (458)
                      ...          .    .+.+..+.|+++++|.+.+.+....   +.++ ...+.+.+.....+  .-.+-.+|..+++
T Consensus        87 ~~~----------~----~~~~r~~~P~gp~~tev~~~~~~~k---da~e-~~~~~~~~~~~~~~gpaG~~~~DD~e~~e  148 (206)
T cd08881          87 LPG----------Y----FNTLRVWHPRGPDETEVWTWTLVDK---DAPE-EVKDRVRRQYTRTFGPAGTFEQDDGENWE  148 (206)
T ss_pred             hhc----------c----CceEEEEEeCCCCeEEEEEEEEecC---CCCH-HHHHHHHHHHHhccCCcCCCcCchHHHHH
Confidence            421          1    1122234799999999877654332   1121 11111111111001  1124469999999


Q ss_pred             hhhHHHhh
Q 012708          388 GQEKIFLS  395 (458)
Q Consensus       388 ~qq~~~~~  395 (458)
                      .+|+++..
T Consensus       149 ~~Q~g~~~  156 (206)
T cd08881         149 EITRVARG  156 (206)
T ss_pred             HHHHhhcc
Confidence            99998874

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

>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=98.14  E-value=4e-06  Score=81.42  Aligned_cols=30  Identities=20%  Similarity=0.206  Sum_probs=27.3

Q ss_pred             EEEEecChhhhhhhccCCCccccccccccc
Q 012708          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTG  268 (458)
Q Consensus       239 ~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~  268 (458)
                      .+.++||||+++||+.|.||++++|.+++.
T Consensus         5 ~~~~~~nWK~~~en~~d~yH~~~~H~~~~~   34 (237)
T cd08879           5 RYRYRGNWKLQLENGTDGYHPPFVHASYVA   34 (237)
T ss_pred             EEEeeceEEEEeeecCccccCccccHHHHH
Confidence            457899999999999999999999999863

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

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

Probab=97.97  E-value=9.6e-06  Score=74.73  Aligned_cols=75  Identities=19%  Similarity=0.347  Sum_probs=60.6

Q ss_pred             ecCCCCCCCcEEEEECCeEEEEE--------------------------EECCCCeEEEEecCCCCCCCCcCCccccCCC
Q 012708           99 LVEDLDPNLPTAFQLLGRDLVLW--------------------------FDNNSNKWVAFDDKCPHRLAPLSEGRIDENG  152 (458)
Q Consensus        99 ~~~dL~~g~~~~~~~~g~~lvl~--------------------------R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~  152 (458)
                      ..++||+|+-++++-.|+++++-                          |. ++-++.++..+|.|.|+-...-.. +.|
T Consensus        91 ~l~~IPeGk~~~~kwrGkpvfirhrt~~ei~~~r~V~~s~lrDPq~d~~rv-k~~ewl~~igVCThLGCVp~~~AG-d~g  168 (210)
T KOG1671|consen   91 KLSDIPEGKTVAFKWRGKPVFIRHRTKAEIEGERNVPQSTLRDPQDDVDRV-KKPEWLVVIGVCTHLGCVPIANAG-DYG  168 (210)
T ss_pred             eeecCCCCCCcceeccCCceEEeeccccccccccccchhhccCchhhhhhc-cCcceEEEEeeecccccccccccc-ccC
Confidence            45678888888888888888883                          44 455689999999999996664444 356


Q ss_pred             eEEcCCCCeEEcCCCCeeecCCC
Q 012708          153 HLQCSYHGWSFDGCGSCTRIPQA  175 (458)
Q Consensus       153 ~l~CpyHGw~Fd~~G~~~~iP~~  175 (458)
                      ..-||+||..||..|+....|+.
T Consensus       169 g~~CPCHGSHYdasGRIrkGPAP  191 (210)
T KOG1671|consen  169 GYYCPCHGSHYDASGRIRKGPAP  191 (210)
T ss_pred             ceecccccccccccCceecCCCC
Confidence            89999999999999999998854

>TIGR03171 soxL2 Rieske iron-sulfur protein SoxL2

Probab=97.91  E-value=2.6e-05  Score=77.35  Aligned_cols=67  Identities=15%  Similarity=0.193  Sum_probs=47.8

Q ss_pred             CCeEEEEecCCCCCCCCcCCc----------------------------ccc--CCCeEEcCCCCeEEcCC--CCeeecC
Q 012708          126 SNKWVAFDDKCPHRLAPLSEG----------------------------RID--ENGHLQCSYHGWSFDGC--GSCTRIP  173 (458)
Q Consensus       126 ~G~v~A~~n~CpHrga~L~~G----------------------------~~~--~~~~l~CpyHGw~Fd~~--G~~~~iP  173 (458)
                      ++.|.||...|+|.|+++..-                            ...  ..+.|.||+||.+||.+  |+.+..|
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                            110  01389999999999994  4677665


Q ss_pred             CCCCCCcchhhcCCCCCCceeEeEEEE--CCeEEE
Q 012708          174 QAASEGPEARAIQSPRACATRFPTMVS--QGLLFV  206 (458)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~V~V  206 (458)
                      ..              ..|..++++..  +|.|++
T Consensus       255 A~--------------rpLp~i~l~~d~~~~~l~A  275 (321)
T TIGR03171       255 TV--------------RPLPAVILEWDSSTDYLYA  275 (321)
T ss_pred             CC--------------CCCCcceEEEeCCCCeEEE
Confidence            43              34677777775  566665

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.

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

Probab=95.94  E-value=0.0037  Score=65.43  Aligned_cols=39  Identities=33%  Similarity=0.665  Sum_probs=33.4

Q ss_pred             CCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeeecCCCCC
Q 012708          138 HRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRIPQAAS  177 (458)
Q Consensus       138 Hrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~iP~~~~  177 (458)
                      |.|+||..|-. ..++++|||||.+|+. +|...+-|....
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            99999999955 5899999999999999 788877776543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	458
3gke_A	349	Crystal Structure Of Dicamba Monooxygenase Length =		1e-15
2zyl_A	386	Crystal Structure Of 3-Ketosteroid-9-Alpha-Hydroxyl		9e-12
1ww9_A	392	Crystal Structure Of The Terminal Oxygenase Compone		5e-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		1e-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 = 81.3 bits (199), 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 = 68.2 bits (165), Expect = 9e-12,   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 = 59.3 bits (142), Expect = 5e-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 = 55.1 bits (131), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 53/199 (26%), Positives = 82/199 (41%), Gaps = 19/199 (9%)
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 SEG-RIDENGHLQCSYHGWSFD-GCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ 201
           S+         + C YHGW++    G    I    +      ++Q  R     +P    +
Sbjct: 80  SDKVECYSKATISCWYHGWTYRWDNGKLVDILTNPT------SVQIGRHALKTYPVREEK 133
Query: 202 GLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDF 261
           GL+F++  +          PP   DA    + +     R +   +   +EN  D  H+ F
Sbjct: 134 GLVFLFVGDQEPHDLAEDVPPGFLDA----DLAVHGQHRVVDANWRMGVENGFDAGHV-F 188
Query: 262 AHHK--VTGRRDRAKPLPF 278
            H    +    D A PL F
Sbjct: 189 IHKSSILLDGNDIALPLGF 207

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-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 = 47.4 bits (111), 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	458
3gke_A	349	DDMC; rieske cluster, non-heme mononuclear iron, o	7e-76
3gkq_A	389	Terminal oxygenase component of carbazole 1,9A- di	3e-70
2zyl_A	386	Possible oxidoreductase; KSHA, cholesterol, rieske	2e-66
2de6_A	392	Terminal oxygenase component of carbazole; electro	9e-66
3gcf_A	394	Terminal oxygenase component of carbazole 1,9A- di	8e-64
1z01_A	446	2-OXO-1,2-dihydroquinoline 8-monooxygenase, oxygen	1e-57
3d89_A	157	Rieske domain-containing protein; CAsp target, rie	1e-17
1fqt_A	112	Rieske-type ferredoxin of biphenyl dioxygenase; 2F	7e-16
3dqy_A	106	Toluene 1,2-dioxygenase system ferredoxin subunit;	9e-16
2i7f_A	108	Ferredoxin component of dioxygenase; rieske ferred	1e-15
3gce_A	121	Ferredoxin component of carbazole 1,9A- dioxygenas	1e-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	1e-14
2jo6_A	113	Nitrite reductase [NAD(P)H] small subunit; all bet	3e-12
2jza_A	130	Nitrite reductase [NAD(P)H] small subunit; ISP dom	3e-12
3c0d_A	119	Putative nitrite reductase NADPH (small subunit) o	4e-10
1uli_A	460	Biphenyl dioxygenase large subunit; alpha3 BETA3 h	8e-06
2gbw_A	454	Biphenyl 2,3-dioxygenase alpha subunit; rieske oxy	2e-05
3gzx_A	457	Biphenyl dioxygenase subunit alpha; rieskie, non-h	4e-05
2bmo_A	447	Oxygenase-alpha NBDO; nitrobenzene dioxygenase, ni	4e-05
2b1x_A	470	Naphthalene dioxygenase large subunit; rieske non-	5e-05
3vca_A	412	Ring-hydroxylating dioxygenase; rieske-type, monon	1e-04
3n0q_A	409	Putative aromatic-ring hydroxylating dioxygenase;	2e-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 =  240 bits (614), Expect = 7e-76
 Identities = 67/360 (18%), Positives = 109/360 (30%), Gaps = 51/360 (14%)

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 IEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHE 371
           I +        +Q           P           S+RNF             +     
Sbjct: 232 IAV-APEGTPKEQSIHSRGTHILTPETEASCHYFFGSSRNFGI-------DDPEMDGVLR 283

Query: 372 HWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRR 431
            W +  +   D +V++  E+    +      +  +            D   +     + +
Sbjct: 284 SWQAQALVKEDKVVVEAIER----RRAYVEANGIRPA------MLSCDEAAVRVSREIEK 333

>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 =  226 bits (578), Expect = 3e-70
 Identities = 68/377 (18%), Positives = 119/377 (31%), Gaps = 53/377 (14%)

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 LPVVGDQKWIIWICS---------------------FNVPMAPGKTRSIVCSARNFFQFT 356
           +      K +    S                     + VP+  G    +    R      
Sbjct: 250 IQGHMGSKMVAISISVWLPGVLKVDPFPDPTLTQFEWYVPIDEGHHLYLQMLGRRVGSEE 309

Query: 357 MPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPT 416
                  +   +W E    N   D D++  +  E               +E         
Sbjct: 310 EARSFEAEFREKWVEL-ALNGFNDDDILARRSMEPF-----YADDRGWREEV------LF 357

Query: 417 QADRLVLAFRNWLRRHG 433
           ++DR ++ +R    ++ 
Sbjct: 358 ESDRAIIEWRRLASQYN 374

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

 Score =  217 bits (553), Expect = 2e-66
 Identities = 63/359 (17%), Positives = 118/359 (32%), Gaps = 46/359 (12%)

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 EIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEH 372
                    G+ K    + + + P+                +           + R    
Sbjct: 243 HNR-----YGNYKSESILINCHYPVTQNSFVLQWGVIVEKPKGM--SEEMTDKLSRVFTE 295

Query: 373 WTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRR 431
              +K +  D+ + + + +I    L+E                   D  V   R W  +
Sbjct: 296 G-VSKGFLQDVEIWKHKTRIDNPLLVEE------------------DGAVYQLRRWYEQ 335

>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 =  215 bits (549), Expect = 9e-66
 Identities = 58/378 (15%), Positives = 106/378 (28%), Gaps = 55/378 (14%)

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 HHKVTGRRDRAKPLPFKLESSGHWGFA-----------------GANDGNPRISAKFVAP 305
           H      +D    LP      G                          G P         
Sbjct: 187 HKDSILVKDNDLALPLGFAPGGDRKQQTRVVDDDVVGRKGVYDLIGEHGVPVFEGTIGGE 246

Query: 306 C-----YYMNKIEIDTKLP------VVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQ 354
                 Y    +  D  +       V       +    + VP+            +    
Sbjct: 247 VVREGAYGEKIVANDISIWLPGVLKVNPFPNPDMMQFEWYVPIDENTHYYFQTLGKPCAN 306

Query: 355 FTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFT 414
                    +   +W          + D+   +              +    E       
Sbjct: 307 DEERKKYEQEFESKWKPM-ALEGFNNDDIWAREAMVDF-----YADDKGWVNEI------ 354

Query: 415 PTQADRLVLAFRNWLRRH 432
             ++D  ++A+R     H
Sbjct: 355 LFESDEAIVAWRKLASEH 372

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

 Score =  210 bits (535), Expect = 8e-64
 Identities = 64/367 (17%), Positives = 121/367 (32%), Gaps = 33/367 (8%)

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------AWWQVVPRWHEH 372
            + G++K +    S      PG  +          Q+    P       ++QV+ R  E 
Sbjct: 254 ELTGEEKKVAAQVSV---WLPGVLKVDPFPDPTLIQYEFYVPISETQHEYFQVLQRKVEG 310

Query: 373 WTSNKVYDGDMIVL--QGQEKIFLSKLMEGSEDVNKEYTKITFTPT----QADRLVLAFR 426
               K ++ +            F    +   E   + Y +            D  ++ +R
Sbjct: 311 PEDVKTFEVEFEERWRDDALHGFNDDDVWAREAQQEFYGERDGWSKEQLFPPDMCIVKWR 370

Query: 427 NWLRRHG 433
                 G
Sbjct: 371 TLASERG 377

>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 =  195 bits (497), Expect = 1e-57
 Identities = 68/430 (15%), Positives = 120/430 (27%), Gaps = 78/430 (18%)

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 HKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIE-IDTKLPVVG 322
                           L +S        +D  P+   +++    +   +E  +  L V G
Sbjct: 227 DNTIVHAMDWVLPLGLLPTSDDCIAVVEDDDGPKGMMQWLFTDKWAPVLENQELGLKVEG 286

Query: 323 DQKWIIWI-----CSFNVPMAPG--------------KTRSIVCSARNFFQFTMPGPAWW 363
            +               V   P                T                   + 
Sbjct: 287 LKGRHYRTSVVLPGVLMVENWPEEHVVQYEWYVPITDDTHEYWEILVRVCPTDEDRKKFQ 346

Query: 364 QVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVL 423
                 ++    +   D D+   +  +              + E           D   +
Sbjct: 347 YRYDHMYKPLCLHGFNDSDLYAREAMQNF-----YYDGTGWDDEQL------VATDISPI 395

Query: 424 AFRNWLRRHG 433
            +R    R  
Sbjct: 396 TWRKLASRWN 405

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

 Score = 78.8 bits (194), 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 = 72.3 bits (178), Expect = 7e-16
 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 = 71.9 bits (177), Expect = 9e-16
 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

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

 Score = 71.5 bits (176), Expect = 1e-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

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

 Score = 72.0 bits (177), Expect = 1e-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

>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 = 70.8 bits (174), 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 = 68.9 bits (169), 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 = 68.4 bits (168), Expect = 1e-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 = 62.1 bits (151), Expect = 3e-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 = 62.5 bits (152), Expect = 3e-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 = 56.3 bits (136), 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 = 8e-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 = 46.0 bits (109), Expect = 2e-05
 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 = 44.9 bits (106), Expect = 4e-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 = 44.8 bits (106), Expect = 4e-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 = 5e-05
 Identities = 12/43 (27%), Positives = 19/43 (44%)

Query: 131 AFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIP 173
              + C HR   +    +    H +C YHGW++   GS   +P
Sbjct: 83  GHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVP 125

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

 Score = 42.8 bits (101), Expect = 1e-04
 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 = 2e-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 = 39.2 bits (90), 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	458
3gke_A	349	DDMC; rieske cluster, non-heme mononuclear iron, o	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
2zyl_A	386	Possible oxidoreductase; KSHA, cholesterol, rieske	100.0
3vca_A	412	Ring-hydroxylating dioxygenase; rieske-type, monon	100.0
2de6_A	392	Terminal oxygenase component of carbazole; electro	100.0
3gcf_A	394	Terminal oxygenase component of carbazole 1,9A- di	100.0
3gkq_A	389	Terminal oxygenase component of carbazole 1,9A- di	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
3gzx_A	457	Biphenyl dioxygenase subunit alpha; rieskie, non-h	100.0
1uli_A	460	Biphenyl dioxygenase large subunit; alpha3 BETA3 h	100.0
2bmo_A	447	Oxygenase-alpha NBDO; nitrobenzene dioxygenase, ni	100.0
2qpz_A	103	Naphthalene 1,2-dioxygenase system ferredoxin subu	99.95
1vm9_A	111	Toluene-4-monooxygenase system protein C; structur	99.94
1fqt_A	112	Rieske-type ferredoxin of biphenyl dioxygenase; 2F	99.94
3dqy_A	106	Toluene 1,2-dioxygenase system ferredoxin subunit;	99.94
2i7f_A	108	Ferredoxin component of dioxygenase; rieske ferred	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
2jo6_A	113	Nitrite reductase [NAD(P)H] small subunit; all bet	99.94
3gce_A	121	Ferredoxin component of carbazole 1,9A- dioxygenas	99.94
3d89_A	157	Rieske domain-containing protein; CAsp target, rie	99.94
3c0d_A	119	Putative nitrite reductase NADPH (small subunit) o	99.93
4aiv_A	119	Probable nitrite reductase [NAD(P)H] small subuni;	99.93
1rie_A	129	Rieske iron-sulfur protein; oxidoreductase, cytoch	99.85
1rfs_A	139	Rieske protein; iron-sulfur protein, electron tran	99.84
1g8k_B	133	Arsenite oxidase; molybdopterin, [3Fe-4S] cluster,	99.83
4aay_B	175	AROB; oxidoreductase, rieske, iron sulfur, molybdo	99.79
3azc_A	133	Cytochrome B6-F complex iron-sulfur subunit; riesk	99.67
3cx5_E	185	Cytochrome B-C1 complex subunit rieske, mitochondr	99.73
1pp9_E	196	Ubiquinol-cytochrome C reductase iron-sulfur SUBU	99.73
2nwf_A	141	Ubiquinol-cytochrome C reductase iron-sulfur SUBU;	99.73
2qjy_C	187	Ubiquinol-cytochrome C reductase iron-sulfur SUBU;	99.73
1nyk_A	165	Rieske iron-sulfur protein; beta barrel, iron sulf	99.71
1vf5_D	179	Rieske iron-sulfur protein; photosynthesis, membra	99.67
1jm1_A	204	Rieske iron-sulfur protein SOXF; electron transpor	99.57

>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=5.9e-53  Score=429.10  Aligned_cols=310  Identities=21%  Similarity=0.325  Sum_probs=235.8

Q ss_pred             ccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCC
Q 012708           89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS  168 (458)
Q Consensus        89 ~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~  168 (458)
                      .+++.|++||+++|| +|+++.++++|++|+|||+ .+|+++|+.|+|||||++|+.|.+. ++.|+||||||+||++|+
T Consensus         4 ~~~~~W~~v~~~~el-~g~~~~~~~~g~~vvv~R~-~~G~v~a~~n~CpHrg~~L~~G~~~-~~~i~CpyHgw~fd~~G~   80 (349)
T 3gke_A            4 FVRNAWYVAALPEEL-SEKPLGRTILDTPLALYRQ-PDGVVAALLDICPHRFAPLSDGILV-NGHLQCPYHGLEFDGGGQ   80 (349)
T ss_dssp             CCCSSCEEEECGGGC-CSSCEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCGGGCEEE-TTEEECTTTCCEECTTCC
T ss_pred             ccccccEEEEEHHHC-CCCeEEEEECCEEEEEEEc-CCCcEEEEeCcCCCCCcCCccCCcc-ceEEEECCCCCEEcCCCC
Confidence            458999999999999 8999999999999999998 8999999999999999999999986 789999999999999999


Q ss_pred             eeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCCCCCCCCCCceEEEEEEEecChhh
Q 012708          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDT  248 (458)
Q Consensus       169 ~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~~nwk~  248 (458)
                      |+.+|+...  .     .+...+|++|||++++|+||||+++++.+  +...+|.++ ++++++|......++++||||.
T Consensus        81 ~~~~P~~~~--~-----~~~~~~l~~~~v~~~~G~V~v~~~~~~~~--~~~~~p~~~-~~~~~~~~~~~~~~~~~~nwk~  150 (349)
T 3gke_A           81 CVHNPHGNG--A-----RPASLNVRSFPVVERDALIWIWPGDPALA--DPGAIPDFG-CRVDPAYRTVGGYGHVDCNYKL  150 (349)
T ss_dssp             EEECCSTTC--C-----CCGGGCCCBCCEEEETTEEEECCSCGGGC--CGGGSCCCG-GGGCTTSEEEEEEEEESSCHHH
T ss_pred             ccccCcccc--c-----cccccccceeeEEEECCEEEEeeCCCCCC--cccccCCcc-ccCCCCCEEEeEEEEEecCHHh
Confidence            999996221  1     13467899999999999999999886522  222345566 6666778766567789999999


Q ss_pred             hhhhccCCCcccccccccccCcCCCCCccEEEeecCccceeee---------------c---CCC-C-cEEEEEEcceee
Q 012708          249 LMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGA---------------N---DGN-P-RISAKFVAPCYY  308 (458)
Q Consensus       249 ~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~gf~~~---------------~---~~~-~-~~~~~f~~P~~~  308 (458)
                      ++||++|+||++++|+++++..+.... +++++..+ .++...               .   ++. . ...++|..||+.
T Consensus       151 ~~EN~~D~~H~~~~H~~~~~~~~~~~~-~~~v~~~~-~~v~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~P~~~  228 (349)
T 3gke_A          151 LVDNLMDLGHAQYVHRANAQTDAFDRL-EREVIVGD-GEIQALMKIPGGTPSVLMAKFLRGANTPVDAWNDIRWNKVSAM  228 (349)
T ss_dssp             HHHHHHCGGGHHHHTHHHHCCTTGGGC-EEEEEECS-SEEEEEEEEEEECCCHHHHHHTTTCCSCEEEEEEEEEETTTEE
T ss_pred             HHHhccccccchhccchhhcCccccCC-CCEEEEcC-CEEEEEEEecCCCCChHHHhhcccCCCCceeEEEEEEECCEEE
Confidence            999999999999999999987664422 23444322 222110               0   111 1 135789999997


Q ss_pred             eEEEEE-cccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhccccccc-chhHHHH
Q 012708          309 MNKIEI-DTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVY-DGDMIVL  386 (458)
Q Consensus       309 ~~~~~~-~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~-~eD~~vl  386 (458)
                      ...+.+ ..+.|  .....++++++++||+++++||++|.++|||..   .++   .+...|..  +..+|| +||+.||
T Consensus       229 ~~~~~~~~~g~p--~~~~~~~~~~~~~tP~s~~~tr~~~~~~rn~~~---~d~---~~~~~~~~--~~~~if~~ED~~il  298 (349)
T 3gke_A          229 LNFIAVAPEGTP--KEQSIHSRGTHILTPETEASCHYFFGSSRNFGI---DDP---EMDGVLRS--WQAQALVKEDKVVV  298 (349)
T ss_dssp             EEEEEEEETTSC--GGGSEEEEEEEEEEEEETTEEEEEEEEEESSST---TCH---HHHHHHHH--HHHHHTTTHHHHHH
T ss_pred             EEEEecccCCCC--CCCceEEEEEEEEecCCCCeEEEEEEEEecCcc---Cch---hhhHHHHH--HHhhhhhhhhHHHH
Confidence            765544 22222  122345667788899999999999999999853   111   12234433  467898 9999999


Q ss_pred             hhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHhc
Q 012708          387 QGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHG  433 (458)
Q Consensus       387 e~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~~  433 (458)
                      |+||+++...+..          ...++++++|+++++|||||+++.
T Consensus       299 e~Qq~~l~~~~~~----------~~~~~~~~~D~~~v~~Rr~l~~l~  335 (349)
T 3gke_A          299 EAIERRRAYVEAN----------GIRPAMLSCDEAAVRVSREIEKLE  335 (349)
T ss_dssp             HHHHHTHHHHHHT----------TCCCCCCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCCcc----------ccccccccccHHHHHHHHHHHHHH
Confidence            9999998764311          123578999999999999999885

>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=3.9e-46  Score=390.57  Aligned_cols=336  Identities=18%  Similarity=0.250  Sum_probs=230.1

Q ss_pred             CccccCCCccCccccc--cccccccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCc
Q 012708           66 DEKEDYGSLVDDEYGK--ESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPL  143 (458)
Q Consensus        66 ~~~~~~~~y~~~~~~~--~e~~~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L  143 (458)
                      ..++|.+  +|+++++  .|++  ++|++.|++||++++|++|+++.++++|++|||+|.  +|+++|+.|+|||||++|
T Consensus        18 ~~~~p~~--~~~~~~~~~~e~~--~if~~~W~~v~~~~el~~g~~~~~~~~g~~vvl~r~--~G~v~a~~n~CpHrga~L   91 (446)
T 1z01_A           18 DARANNA--KTQSQYQPYKDAA--WGFINHWYPALFTHELEEDQVQGIQICGVPIVLRRV--NGKVFALKDQCLHRGVRL   91 (446)
T ss_dssp             TTSSSCH--HHHGGGHHHHHCT--TCBCSEEEEEEEGGGSCBTCEEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCG
T ss_pred             cccCCcc--cCHHHhhhhhhhh--hhhhhceEEEEEHHHCCCCCeEEEEECCEEEEEEEe--CCEEEEEeCcCCCCcCCC
Confidence            3456777  9999999  7754  477999999999999998999999999999999995  899999999999999999


Q ss_pred             CCccc-cCCCeEEcCCCCeEEcC-CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc-----cccc
Q 012708          144 SEGRI-DENGHLQCSYHGWSFDG-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG-----QERA  216 (458)
Q Consensus       144 ~~G~~-~~~~~l~CpyHGw~Fd~-~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~-----~~~~  216 (458)
                      +.|.+ .+++.|+||||||+||+ +|+|+.+|+.+...      .+...+|++|||++++|+||||+++++     .+.+
T Consensus        92 ~~g~~~~~~~~i~CpyHgw~fd~~~G~~~~~p~~p~~~------~~~~~~l~~~~v~~~~G~V~v~~~~~~~p~~~~~~l  165 (446)
T 1z01_A           92 SEKPTCFTKSTISCWYHGFTFDLETGKLVTIVANPEDK------LIGTTGVTTYPVHEVNGMIFVFVREDDFPDEDVPPL  165 (446)
T ss_dssp             GGSCCCSSTTEEECTTTCEEEETTTCBEEEETTCTTCT------TTTSCBCCEECEEEETTEEEEEECCTTCCGGGCCCG
T ss_pred             CCCccCCCCCEEEeCCCCeEEeCCCCCccccCCCcccc------CcccCCCcEEEEEEECCEEEEEeCCccccccCCCCh
Confidence            99974 24689999999999998 99999998754321      245678999999999999999998642     1112


Q ss_pred             ccCCCCCCCC--------------CCCCCCCceEEEEEEEecChhhhhhhccCCCcccccccccccCcCCCCCccEEE--
Q 012708          217 NATKPPMLPD--------------AFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKL--  280 (458)
Q Consensus       217 ~~~~~p~~p~--------------~~~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~--  280 (458)
                      .+.+++.+++              .+.+.++.......+++||||+++||++|+||+ ++|+++++..+......+.+  
T Consensus       166 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~-~vH~~~~~~~~~~~~~~~~~~~  244 (446)
T 1z01_A          166 AHDLPFRFPERSEQFPHPLWPSSPSVLDDNAVVHGMHRTGFGNWRIACENGFDNAHI-LVHKDNTIVHAMDWVLPLGLLP  244 (446)
T ss_dssp             GGGSCCCTTTTTTTSCCTTSCCCCCTTSTTEEEEEEEEEEESCHHHHHTTTTCTTGG-GGGTTCHHHHHTTCCCCSEEEE
T ss_pred             hHhccchhhhhhhccccccccccccccCCCeEEEeEEEEEcCCHHHHHHhccchhhh-hhhhhhhhcccccccccccccc
Confidence            2233322321              222344544444568999999999999999999 99999875432211111111  


Q ss_pred             --------ee--cCccceeee-------------------cCCC-CcEEEEEEcceeeeEEEEEcccCcccCCCcEEEEE
Q 012708          281 --------ES--SGHWGFAGA-------------------NDGN-PRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWI  330 (458)
Q Consensus       281 --------~~--~~~~gf~~~-------------------~~~~-~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i  330 (458)
                              ..  .+..|+...                   ..+. ......+.+|++++...     .|  ...   +.+
T Consensus       245 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~~~~~P~~~~~~~-----~p--~~~---~~~  314 (446)
T 1z01_A          245 TSDDCIAVVEDDDGPKGMMQWLFTDKWAPVLENQELGLKVEGLKGRHYRTSVVLPGVLMVEN-----WP--EEH---VVQ  314 (446)
T ss_dssp             CSTTSEEEECCSSSCCEEEECTTSTTEEEECEETTTTEECCCCCCCCCEEEEETTTEEEEET-----CS--STT---CEE
T ss_pred             cCCCceeEEEecCCCCEEEEEecCccccchhhhhhhccccccCCceEEEeeeecCceEEEec-----cC--CCC---eEE
Confidence                    00  011121100                   0011 11245677898875421     11  112   234


Q ss_pred             EEEEeecCCCeEEEEEEeeccccccCCCCcccccch---hhhhhhcccccccchhHHHHhhhhHHHhhhcccCCcccccc
Q 012708          331 CSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVV---PRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKE  407 (458)
Q Consensus       331 ~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~---~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~  407 (458)
                      +..++|+++++|++++.+++++..    .......+   ..++.......++.||+.++|+||+++....         .
T Consensus       315 ~~~~~Pi~~~~t~~~~~~~~~~~~----~e~~~~~~~~~~~~~~~~~~~~~~~ED~~i~e~~q~~~~~~~---------~  381 (446)
T 1z01_A          315 YEWYVPITDDTHEYWEILVRVCPT----DEDRKKFQYRYDHMYKPLCLHGFNDSDLYAREAMQNFYYDGT---------G  381 (446)
T ss_dssp             EEEEEESSSSEEEEEEEEEEECCS----HHHHHHHHHHHHTTHHHHTTTTHHHHHHHHHHHHHHHHHTSH---------H
T ss_pred             EEEEEECCCCcEEEEEEEecCCCC----HHHHHHHHHHHHHHhhhhccCCCCcchHHHHHHHHHHhcccc---------c
Confidence            456799999999999888877631    11111111   1121122234577999999999999875421         1


Q ss_pred             ccccccccCcccHHHHHHHHHHHHhcCCCCCC
Q 012708          408 YTKITFTPTQADRLVLAFRNWLRRHGNSQPEW  439 (458)
Q Consensus       408 ~~~~~~~~~~aD~~v~afRrwl~~~~~~~p~w  439 (458)
                      |.+  +++..+|+++++||||++++..+.-.+
T Consensus       382 ~~~--~~l~~~D~~i~~~Rr~l~~~~~~~~~~  411 (446)
T 1z01_A          382 WDD--EQLVATDISPITWRKLASRWNRGIAKP  411 (446)
T ss_dssp             HHH--CCCCGGGHHHHHHHHHHHHHCSCBCCC
T ss_pred             ccc--ccCchhhHHHHHHHHHHHHHHhhccCc
Confidence            211  457789999999999999997775444

>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=2.7e-47  Score=394.08  Aligned_cols=325  Identities=16%  Similarity=0.165  Sum_probs=231.5

Q ss_pred             CccccCCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcC
Q 012708           66 DEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (458)
Q Consensus        66 ~~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~  144 (458)
                      ...||.++|+|+++++.|++.  +|++.|++||++++|+ +|++++++++|++|+|+|+ .+|+++||.|+|||||++|+
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 GHALDQAFYTDAEVFQTDLQE--IFYKEWLFAIPACELDKPGSYVTHQVGNYNVIIVRG-ADNVIRAFHNACRHRGSVIC   92 (409)
T ss_dssp             TBCCCHHHHHCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESCCTTTCCCSC
T ss_pred             cccCCHHHcCCHHHHHHHHHH--HHhcCCEEEEEHHHCCCCCCeEEEEECCEEEEEEEc-CCCCEEeecCcCCcCcCCcc
Confidence            457899999999999999866  6699999999999998 5999999999999999998 89999999999999999999


Q ss_pred             C-ccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCC
Q 012708          145 E-GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPM  223 (458)
Q Consensus       145 ~-G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~  223 (458)
                      . |.+. ++.|+||||||+||++|+|+.+|+....      +++++.+|++|+|++++|+|||++++++++ +++++.+ 
T Consensus        93 ~~g~~~-~~~i~CpyHgw~fd~dG~~~~~P~~~~~------~~~~~~~L~~~~v~~~~G~Vfv~~~~~~~~-l~~~l~~-  163 (409)
T 3n0q_A           93 KAKKGN-NPKLVCPYHQWTYELDGRLLWARDMGPD------FEPSRHGLKTVHCRELAGLIYICLADEAPD-FERFAEV-  163 (409)
T ss_dssp             CSSEEE-CSSEECTTTCCEECTTSCEEECTTCCTT------CCGGGCSCCEEEEEEETTEEEEECSSSCCC-CHHHHHH-
T ss_pred             CcCccC-CCEEEECCCCCEEeCCCCcccCCcCCcc------cCcccCCCceEEEEEECCEEEEEeCCCCCC-hHHhhhh-
Confidence            6 7664 6799999999999999999999975321      134577899999999999999999887643 2222211 


Q ss_pred             CCCCCC---CCCCceE-EEEEEEecChhhhhhhccCCCcccccccccccCcCC--------------------------C
Q 012708          224 LPDAFD---KPEFSSV-TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDR--------------------------A  273 (458)
Q Consensus       224 ~p~~~~---~~~~~~~-~~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~--------------------------~  273 (458)
                      +.+.++   ..++... ...++++||||+++||++|+||++++|+++++....                          +
T Consensus       164 ~~~~l~~~~~~~~~~~~~~~~~~~~NWK~~~EN~~D~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  243 (409)
T 3n0q_A          164 ARPYLEVHDLSNAKVAHESSIVERGNWKLVWENNRECYHCGGNHPALCRTFPDDPSVTGIEGGETPSNLQAHFDRCEQAG  243 (409)
T ss_dssp             HHHHHHTTCGGGEEEEEEEEEEESSCHHHHHHHHTCCTTHHHHCTTGGGTSCCCHHHHSCCCSCCCHHHHHHHHHHHHTT
T ss_pred             hhhhhccccCCCeEEeeEEEEEEecchHhhhhhccccccccccCcchhhccccccccccccccccccchhhhhhhhhccC
Confidence            111222   2233322 245778999999999999999999999998763210                          0


Q ss_pred             CCc--------cEEEeecCc----cceee--e----------cCCCCcEEEEEEcceeeeEEEEEcccCcccCCCcEEEE
Q 012708          274 KPL--------PFKLESSGH----WGFAG--A----------NDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIW  329 (458)
Q Consensus       274 ~~~--------~~~~~~~~~----~gf~~--~----------~~~~~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~  329 (458)
                      .+.        .+.+.....    ..+..  .          ..........+++||++++..         .+    .+
T Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~g~~~~~~~~~~~~~~~~~~~~~~~~Pn~~~~~~---------pd----~~  310 (409)
T 3n0q_A          244 MPSGFHLSGDGQFRVARMPLKEGAESYTMDGKTAVRRWLGRAAFADAGSLLKFHYPTTWNHFL---------SD----HS  310 (409)
T ss_dssp             CCCCCEECTTSSEEEEEECCSTTCCSSSTTSSCSCSSCSSCCSSSCCCEEEEEETTTEEEEEC---------SS----CE
T ss_pred             CcceeecccccceeeeeecccccccccccCCccccccccCCCcccCCceEEEEECCeEEEEEC---------CC----EE
Confidence            010        111111000    00100  0          001112346789999987642         22    13


Q ss_pred             EEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCcccccccc
Q 012708          330 ICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYT  409 (458)
Q Consensus       330 i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~  409 (458)
                      +++.+.|+++++|++.+.+++.-..  +.+.++.  +..+..  +...|..||..|+|.+|+++.+..          |.
T Consensus       311 ~~~~~~P~~p~~t~~~~~~~~~~~~--~~~~d~~--~~~~~~--~~~~~~~ED~~l~e~~Q~G~~s~~----------y~  374 (409)
T 3n0q_A          311 IVFRVTPISPTETEVTTKWLVHKDA--VEGVDYD--LQRLTE--VWIATNDEDREVVEFNQMGINSPA----------YE  374 (409)
T ss_dssp             EEEEEEEEETTEEEEEEEEEEETTC--CBTTTBC--HHHHHH--HHHHHHHHHHHHHHHHHHHHTSTT----------CC
T ss_pred             EEEEEEECCCCeEEEEEEEEEcCcc--cccchhh--HHHHHH--HHHHHHHHHHHHHHHHhhhhcCCC----------CC
Confidence            3456789999999999876654321  1111221  122111  346788999999999999998865          44


Q ss_pred             ccccccCcccHHHHHHHHHHHHh
Q 012708          410 KITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       410 ~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      .|++.+ ..|.++..|.+|+.+.
T Consensus       375 ~G~~s~-~~E~~v~~F~~w~~~~  396 (409)
T 3n0q_A          375 PGPYSP-TQESGVLQFVEWYLST  396 (409)
T ss_dssp             CCBCCT-TTSHHHHHHHHHHHHH
T ss_pred             CCCCCC-CccHhHHHHHHHHHHH
Confidence            666654 3699999999999876

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

Probab=100.00  E-value=2.5e-46  Score=385.11  Aligned_cols=310  Identities=19%  Similarity=0.296  Sum_probs=216.0

Q ss_pred             ccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCC
Q 012708           89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS  168 (458)
Q Consensus        89 ~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~  168 (458)
                      +|.+.|++||++++|++|+++.++++|++|||||+ .+|+++|+.|+|||||++|+.|.+. ++.|+||||||+||++|+
T Consensus        21 ~f~~~W~~v~~~~el~~g~~~~~~~~g~~vvl~R~-~~G~v~a~~n~CpHrga~L~~g~~~-~~~i~CpyHgw~f~~~G~   98 (386)
T 2zyl_A           21 RYARGWHCLGVAKDYLEGKPHGVEAFGTKLVVFAD-SHGDLKVLDGYCRHMGGDLSEGTVK-GDEVACPFHDWRWGGDGR   98 (386)
T ss_dssp             SCCSEEEEEEEGGGGCSSSCEEEEETTEEEEEEEC-TTSCEEEEESBCTTTCCBGGGSEEE-TTEEECTTTCCEEETTSB
T ss_pred             hhhcceEEEEEHHHCCCCCeEEEEECCeEEEEEEC-CCCCEEEEcCcCCCCCCCCCCCccc-CCEEEeCCCCCEECCCCC
Confidence            56789999999999999999999999999999998 8999999999999999999999986 679999999999999999


Q ss_pred             eeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCCCCCCCCCCceE-EEEEEEe-cCh
Q 012708          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSV-TIQRDLF-YGY  246 (458)
Q Consensus       169 ~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~-~~~~~~~-~nw  246 (458)
                      |+.+|+....        +...+|++|||++++|+||||+++++.+...+..+|.++ .+++++|... ....+++ |||
T Consensus        99 ~~~~P~~~~~--------~~~~~l~~~~v~~~~G~v~v~~~~~~~~~~~~~~~p~~~-~~~~~~~~~~~~~~~~~~~~nw  169 (386)
T 2zyl_A           99 CKLVPYARRT--------PRMARTRSWTTDVRSGLLFVWHDHEGNPPDPAVRIPEIP-EAASDEWTDWRWNRILIEGSNC  169 (386)
T ss_dssp             EEECTTCSSC--------CTTCBCCEECEEEETTEEEEEECTTCCCCCGGGCCCCCG-GGGCTTBCCCEEEEEEEESSCG
T ss_pred             ccccCccccc--------CcccCcceEeEEEECCEEEEEECCccCCCcccccCcccc-cccCCCceEEEEEEEEEcCcCH
Confidence            9999986432        345789999999999999999987643222334456566 6666666643 3467888 999


Q ss_pred             hhhhhhccCCCcccccccccccCcC--CCCCccEE-EeecCcccee--eecCCCC--cEEEEEEcceeeeEEEEEcccCc
Q 012708          247 DTLMENVSDPSHIDFAHHKVTGRRD--RAKPLPFK-LESSGHWGFA--GANDGNP--RISAKFVAPCYYMNKIEIDTKLP  319 (458)
Q Consensus       247 k~~~EN~~D~~H~~~vH~~~~~~~~--~~~~~~~~-~~~~~~~gf~--~~~~~~~--~~~~~f~~P~~~~~~~~~~~~~p  319 (458)
                      |.++||++|+||++++|+++.+...  .......+ +...+...+.  +...+..  .....|+.|+++++.+....   
T Consensus       170 k~~~EN~~D~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~P~~~~~~~~~~~---  246 (386)
T 2zyl_A          170 RDIIDNVTDMAHFFYIHFGLPTYFKNVFEGHIASQYLHNVGRPDVDDLGTSYGEAHLDSEASYFGPSFMINWLHNRY---  246 (386)
T ss_dssp             GGGGGGGGCSTHHHHTTCEEEEEEEEEEETTEEEEEEEEEECTTSSSCCSSSCCEEEEEEEEEESSSEEEEEEEEEE---
T ss_pred             HhHhhhcccccchhhhCcCccccccccccCceeEEEecCCCCCchhhcccccCcceeeEEEEEECCeEEEEEeeecc---
Confidence            9999999999999999998743210  00000000 0000000000  0000111  12367889998876543221   


Q ss_pred             ccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccchhHHHHhhhhHHHhhhccc
Q 012708          320 VVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLME  399 (458)
Q Consensus       320 ~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~  399 (458)
                       .|. ....++++.++|+++++|++++.+++++.. ..++... ..+.+.+. .+...+|.||+.|++.|++...     
T Consensus       247 -~g~-~~~~~~~~~~~Pv~~~~t~~~~~~~~~~~~-~~~~~~~-~~~~~~~~-~~~~~vf~ED~~I~e~q~~~~~-----  316 (386)
T 2zyl_A          247 -GNY-KSESILINCHYPVTQNSFVLQWGVIVEKPK-GMSEEMT-DKLSRVFT-EGVSKGFLQDVEIWKHKTRIDN-----  316 (386)
T ss_dssp             -TTE-EEEEEEEEEEEEEETTEEEEEEEEEEBCCC-CCC--CT-HHHHHHHH-HHHHHHHHHHHHHHTTCCCCSS-----
T ss_pred             -CCc-ceeEEEEEEEEEccCCEEEEEEEEEEecCC-CCChhhH-HHHHHHHH-HHHHHhhHHHHHHHHhcccccC-----
Confidence             121 112334456799999999999987766521 1111100 11111111 1356789999999999864211     


Q ss_pred             CCccccccccccccccCcccHHHHHHHHHHHHhcCC
Q 012708          400 GSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNS  435 (458)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~~~~  435 (458)
                                   .++...|+++++||||++++...
T Consensus       317 -------------p~~~~~D~~~~~fRrw~~~~~~~  339 (386)
T 2zyl_A          317 -------------PLLVEEDGAVYQLRRWYEQFYVD  339 (386)
T ss_dssp             -------------CCCCGGGCSHHHHHHHHHGGGSC
T ss_pred             -------------CccCcccHHHHHHHHHHHHhCCc
Confidence                         23567899999999999998554

>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=4.2e-47  Score=392.96  Aligned_cols=325  Identities=14%  Similarity=0.172  Sum_probs=231.4

Q ss_pred             CccccCCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcC
Q 012708           66 DEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (458)
Q Consensus        66 ~~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~  144 (458)
                      ...||.++|+|+++++.|++.  +|++.|++||++++|+ +|+++.++++|++|+|+|+ .+|+++||.|+|||||++|+
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 GFSLEQPFYTSPEVYALDLQH--IFYKQWLYAVPVCQLAKAGSYTTLRVGAYEVVIVRS-RDGEVRAFHNSCRHRGSLIC   94 (412)
T ss_dssp             TBCCCHHHHHCHHHHHHHHHH--TTTTSCEEEEEGGGGCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCSC
T ss_pred             cCcCCHHHcCCHHHHHHHHHH--HHhccCEEEEEHHHCCCCCCeEEEEECCEEEEEEEc-CCCCEEEecccCCCCCCEee
Confidence            457899999999999999866  6699999999999998 5999999999999999998 89999999999999999998


Q ss_pred             -CccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCC
Q 012708          145 -EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPM  223 (458)
Q Consensus       145 -~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~  223 (458)
                       .|.+. ++.|+||||||+||++|+|+.+|+....      +++++.+|++|+|++++|+|||++++++++ +++++.+ 
T Consensus        95 ~~g~~~-~~~i~CPyHgw~fdldG~~~~~P~~~~~------~~~~~~~L~~~~v~~~~G~V~v~~~~~~p~-l~~~l~~-  165 (412)
T 3vca_A           95 KARQGQ-VAKLVCPYHQWTYELDGKLIWANDMGPD------FDASKYGLKPVNLRNLDGLIYICLSDTPPD-FQTFAQL-  165 (412)
T ss_dssp             CSSEEE-CSSEECTTTCCEECTTSCEEECTTCCTT------CCGGGCSCCEEEEEEETTEEEEECSSSCCC-CHHHHHH-
T ss_pred             cccccC-CCEEEcCCCCCEEcCCCccccCCccccc------cCcccCCCcEEEEEEECCEEEEEecCCCCC-HHHHhhh-
Confidence             67775 6799999999999999999999975321      134567899999999999999999887643 2222211 


Q ss_pred             CCCCCCC---CCCceE-EEEEEEecChhhhhhhccCCCcccccccccccCcCC---------------------------
Q 012708          224 LPDAFDK---PEFSSV-TIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDR---------------------------  272 (458)
Q Consensus       224 ~p~~~~~---~~~~~~-~~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~---------------------------  272 (458)
                      +...++.   .++... ...++++||||+++||++|+||++++|+++++....                           
T Consensus       166 ~~~~l~~~~~~~~~~~~~~~~~~~~NWK~~~EN~~D~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (412)
T 3vca_A          166 ARPYLEVHDLKDAKVAFTSTIIEKGNWKLVWENNRECYHCSSNHPALCRSFPLDPEVAGVQADGGVSKKLQAHFDRCEAA  245 (412)
T ss_dssp             HHHHHHTTCGGGEEEEEEEEEEESSCHHHHHHHHTCCTTHHHHCHHHHTTSCCCHHHHCC----CCCHHHHHHHHHHHHT
T ss_pred             hHHhhccccCCCeEEeEEEEEEEccCchhhHhhccccccCcccCcchhhcccccccccccccccccccchhhhhhhhhcc
Confidence            1112222   223322 345788999999999999999999999998653210                           


Q ss_pred             CCCccE--------EEeecCc----ccee--ee----------cCCCCcEEEEEEcceeeeEEEEEcccCcccCCCcEEE
Q 012708          273 AKPLPF--------KLESSGH----WGFA--GA----------NDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWII  328 (458)
Q Consensus       273 ~~~~~~--------~~~~~~~----~gf~--~~----------~~~~~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~  328 (458)
                      +.+..+        .+.....    ..+.  +.          ..........+++||++++..         .+.    
T Consensus       246 g~~~~~~~~~~g~~~~~~~~~~~~~~s~~~~g~~~~~~~~~~~~~~~~~~~~~~~~Pn~~~~~~---------pd~----  312 (412)
T 3vca_A          246 GTPAQFVLAGDGQYRLARMPLQEKALSYTMDGKAAVSRHLGRVAPPDAGTLLMFHYPSTWNHFL---------PDH----  312 (412)
T ss_dssp             TCCCSCEECTTSSEEEEEECCSTTCCSSSSSSSCSCSSCSSCCCSTTCCEEEEEETTTEEEEEC---------SSC----
T ss_pred             CCcccccccccCceeeeeecccccccccccCccccccccccCCcccCCceEEEEECCeEEEEEC---------CCE----
Confidence            001011        1110000    0010  00          001112346789999987632         221    


Q ss_pred             EEEEEEeecCCCeEEEEEEeeccccccCCCCcccccchhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCccccccc
Q 012708          329 WICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEY  408 (458)
Q Consensus       329 ~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~  408 (458)
                      ++++.+.|+++++|++.+.+++.-..  +.+.+..  +..+..  +.+.|..||..|+|.+|+++.+..          |
T Consensus       313 ~~~~~~~P~~~~~t~v~~~~~~~~d~--~~~~d~~--~~~~~~--~~~~~~~ED~~l~e~~Q~G~~S~~----------y  376 (412)
T 3vca_A          313 SLTFRVMPISPTETEVTTTWLVHKDA--VEGVDYD--LKRLTE--VWIATNDEDREIVETNQQGILSPA----------Y  376 (412)
T ss_dssp             EEEEEEEEEETTEEEEEEEEEEETTC--CBTTTBC--HHHHHH--HHHHHHHHHHHHHHHHHHHHTSTT----------C
T ss_pred             EEEEEEEECCCCeEEEEEEEEEcccc--ccCccHH--HHHHHH--HHHHHHHHHHHHHHHhhhhhcCCC----------C
Confidence            33456789999999998766644321  1111211  222211  356789999999999999998865          4


Q ss_pred             cccccccCcccHHHHHHHHHHHHh
Q 012708          409 TKITFTPTQADRLVLAFRNWLRRH  432 (458)
Q Consensus       409 ~~~~~~~~~aD~~v~afRrwl~~~  432 (458)
                      ..|++.+ ..|.++..|.+|+.+.
T Consensus       377 ~~G~~sp-~~E~~v~~F~~w~~~~  399 (412)
T 3vca_A          377 VPGPYSP-GQESGVMQFVDWYAAS  399 (412)
T ss_dssp             CCCBCCT-TTCHHHHHHHHHHHHH
T ss_pred             CCCCCCC-CcchhHHHHHHHHHHH
Confidence            4666644 3599999999999865

>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=1.6e-45  Score=379.98  Aligned_cols=311  Identities=17%  Similarity=0.291  Sum_probs=214.7

Q ss_pred             ccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCcccc-CCCeEEcCCCCeEEcC
Q 012708           87 KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID-ENGHLQCSYHGWSFDG  165 (458)
Q Consensus        87 ~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~-~~~~l~CpyHGw~Fd~  165 (458)
                      +.+|++.|++||++++|++|+++.++++|++|||||+  +|+++|+.|+|||||++|+.|.+. +++.|+||||||+||+
T Consensus        22 ~~~~~~~W~~v~~~~el~~g~~~~~~~~g~~vvl~R~--~G~v~a~~n~CpHrga~L~~g~~~~~~~~i~CpyHgw~f~~   99 (392)
T 2de6_A           22 KLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNRI--DGKLYCLKDRCLHRGVQLSVKVECKTKSTITCWYHAWTYRW   99 (392)
T ss_dssp             TTCBSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGGGCCCCSTTEEECTTTCEEEET
T ss_pred             hhhhccccEEEEEHHHCCCCCeEEEEECCEEEEEEEe--CCEEEEEeCcCCCCCCCCcCCcccCCCCEEEeCCCCCEEcC
Confidence            4578999999999999998999999999999999995  899999999999999999999863 3579999999999998


Q ss_pred             -CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCCCCCCCCCCceEEEEEEEec
Q 012708          166 -CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFY  244 (458)
Q Consensus       166 -~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~~  244 (458)
                       +|+|+.+|+.+...      .+++.+|++|||++++|+|||+++++..+.+.+    .+++++.++++.......+++|
T Consensus       100 ~~G~~~~~p~~p~~~------~~~~~~l~~~~v~~~~G~v~v~~~~~~~~~l~~----~l~~~~~~~~~~~~~~~~~~~~  169 (392)
T 2de6_A          100 EDGVLCDILTNPTSA------QIGRQKLKTYPVQEAKGCVFIYLGDGDPPPLAR----DTPPNFLDDDMEILGKNQIIKS  169 (392)
T ss_dssp             TTCBEEEETTCTTCT------TTTSCBCCBCCEEEETTEEEEEESSSSCCCGGG----GSCTTTTCTTEEEEEEEEEESS
T ss_pred             CCCccccccCCcccc------ccccCCCceEeEEEECCEEEEEeCCCCCCChhH----hccccccCCCeEEEEEEEEEec
Confidence             99999998764321      245678999999999999999997643221221    2322555566665555678999


Q ss_pred             ChhhhhhhccCCCcccccccccccCcCCCC-------------CccEEEeecC--ccceeee------------cC----
Q 012708          245 GYDTLMENVSDPSHIDFAHHKVTGRRDRAK-------------PLPFKLESSG--HWGFAGA------------ND----  293 (458)
Q Consensus       245 nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~-------------~~~~~~~~~~--~~gf~~~------------~~----  293 (458)
                      |||.++||++|+||+ ++|+++++..+...             ...++++...  ..|+...            ..    
T Consensus       170 nwk~~~EN~~D~~H~-~~H~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~g~~g~~~~~~~~~~p~~~~~~~~~~~  248 (392)
T 2de6_A          170 NWRLAVENGFDPSHI-YIHKDSILVKDNDLALPLGFAPGGDRKQQTRVVDDDVVGRKGVYDLIGEHGVPVFEGTIGGEVV  248 (392)
T ss_dssp             CHHHHHHHHHCGGGG-GGGTTCHHHHHTTBEECSEEECCSCGGGGEEEECCCTTCCCEEEECGGGTCEEECEEEETTEEE
T ss_pred             ChHhhhHhcchhhhh-hhhcchhccccccccccccccccccccceEEeccCCccCCcceeeecCCcccccccccccccee
Confidence            999999999999999 99999865422110             1122232110  1111100            00    


Q ss_pred             -----CC--CcEEEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccccc-
Q 012708          294 -----GN--PRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWWQV-  365 (458)
Q Consensus       294 -----~~--~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~~~-  365 (458)
                           +.  ......+.+|+++...  .   .|  +..   +.++..++|+++++|++++.++|++..    ....... 
T Consensus       249 ~~~~~g~~~~~~~~~~~~P~~~~~~--~---~p--~~~---~~~~~~~~Pi~~~~t~~~~~~~~~~~~----~~~~~~~~  314 (392)
T 2de6_A          249 REGAYGEKIVANDISIWLPGVLKVN--P---FP--NPD---MMQFEWYVPIDENTHYYFQTLGKPCAN----DEERKKYE  314 (392)
T ss_dssp             EECEECSBCCCCEEEEETTTEEEEE--S---CS--STT---CEEEEEEEEEETTEEEEEEEEEEECSS----HHHHHHHH
T ss_pred             eccccCCcccceeEEEecccceecc--c---cC--CCC---EEEEEEEeecCCCcEEEEEEEecCCCC----HHHHHHHH
Confidence                 00  1123455577765321  1   11  112   223456799999999999988887631    1111010 


Q ss_pred             ---hhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHhcCCC
Q 012708          366 ---VPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNSQ  436 (458)
Q Consensus       366 ---~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~~~~~  436 (458)
                         ...|.. .....++.||+.++|+||+.+....         .|.+  .++.++|+++++|||||++++.+.
T Consensus       315 ~~~~~~~~~-~~~~~~~~qD~~i~e~qq~~~~~~~---------~~~~--e~~~~~D~~~~~~Rr~l~~~~~~~  376 (392)
T 2de6_A          315 QEFESKWKP-MALEGFNNDDIWAREAMVDFYADDK---------GWVN--EILFESDEAIVAWRKLASEHNQGI  376 (392)
T ss_dssp             HHHHHTHHH-HTTTTTTHHHHHHHHHTHHHHHTST---------HHHH--CCCCGGGHHHHHHHHHHHHHCSCB
T ss_pred             HHHHHHHHH-hhccCCChhhHHHHHhhhhhhhccc---------cCcc--ceecchhHHHHHHHHHHHHHhhhh
Confidence               111111 1234678999999999999775421         1211  356789999999999999997663

>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=3.6e-42  Score=350.39  Aligned_cols=319  Identities=18%  Similarity=0.305  Sum_probs=224.4

Q ss_pred             ccccccccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccc-cCCCeEEcCCC
Q 012708           81 KESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI-DENGHLQCSYH  159 (458)
Q Consensus        81 ~~e~~~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~-~~~~~l~CpyH  159 (458)
                      +...+.+++|++.|++||+++||++|+++.++++|++|+|+|.  +|+++|+.|+|||||++|+.|.+ ..++.|+||||
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            4444456788999999999999999999999999999999995  89999999999999999999973 24679999999


Q ss_pred             CeEEcC-CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCCCCCCCCCCceEEE
Q 012708          160 GWSFDG-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTI  238 (458)
Q Consensus       160 Gw~Fd~-~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~  238 (458)
                      ||+||+ +|+|+.+|+.+...      .+...+|++|||++++|+|||++++++.+.+.+    .+++.+.+.++.....
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 89999999765421      245678999999999999999997543222222    2333455566665556


Q ss_pred             EEEEecChhhhhhhccCCCcccccccccccCcCCCCCccEEEeecCccceeeec--------------------------
Q 012708          239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGAN--------------------------  292 (458)
Q Consensus       239 ~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~gf~~~~--------------------------  292 (458)
                      ..+++||||.++||++|.||+ ++|+++++..+......+.+...+..++.+..                          
T Consensus       170 ~~~i~~NWK~~~EN~lD~yH~-~vH~~ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kg~~~~~~~~~~pv~~~~~~~~  248 (394)
T 3gcf_A          170 RRTVQSNWRLGVENGFDTTHI-FMHRNSPWVSGNRLAFPYGFVPADRDAMQVYDENWPKGVLDRLSENYMPVFEATLDGE  248 (394)
T ss_dssp             EEEESSCHHHHHHHHSCSSGG-GGGTTCHHHHHTTBCCCSEEEECSTTSEEEECSSSSCEEEECHHHHEEEECEEEETTE
T ss_pred             EEEEecCchhhHhhccccchh-hCchhhhcccccccccCcceeEcCCceEEeccCCCCcchhhhhhcccccccccccccc
Confidence            678999999999999999999 99999987654444444444332111111110                          


Q ss_pred             -------CCC---CcEEEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCccc
Q 012708          293 -------DGN---PRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAW  362 (458)
Q Consensus       293 -------~~~---~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~  362 (458)
                             .+.   ......+..|++....     ..   +...+  .....++|+++++++++..+++...... ...+|
T Consensus       249 ~~~~~~~~~~~~~~~~~~s~~lP~v~~v~-----~~---p~~~~--~~~~~~vPid~~~~~~~~~~~~~~~~~~-~~~~~  317 (394)
T 3gcf_A          249 TVLSAELTGEEKKVAAQVSVWLPGVLKVD-----PF---PDPTL--IQYEFYVPISETQHEYFQVLQRKVEGPE-DVKTF  317 (394)
T ss_dssp             EEEECCCCSSCBCCCSEEEEETTTEEEEE-----SC---SSTTC--EEEEEEEESSSSCEEEEEEEEEECSSHH-HHHHH
T ss_pred             ccccccccCcccccceeEEEEecCeeEec-----cC---CCCCe--EEEEEEeeccCCeEEEEEEEEEECCCHH-HHHHH
Confidence                   011   1134667777765432     11   22122  2224569999999999988776652200 00112


Q ss_pred             c-cchhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHhcCC
Q 012708          363 W-QVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNS  435 (458)
Q Consensus       363 ~-~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~~~~  435 (458)
                      . +.-.+|..+ ..+..+++|+.+-|++|.=+.+..         .|..  ......|..|+++||...++..|
T Consensus       318 ~~~~~~~~~~~-~~~~f~~~d~~ar~~~~~~y~~~~---------g~~~--e~l~~~d~~~~~~r~~~~~~~~~  379 (394)
T 3gcf_A          318 EVEFEERWRDD-ALHGFNDDDVWAREAQQEFYGERD---------GWSK--EQLFPPDMCIVKWRTLASERGRG  379 (394)
T ss_dssp             HHHHHHTHHHH-TTTTTTHHHHHHHHHHHHHHHHSC---------HHHH--CCCCGGGHHHHHHHHHHHHHCSE
T ss_pred             HHHHHHHhHHH-hhcccchhhHHHHHHHHHhhcccC---------CCCh--hhccCcchhHHHHHHHHHHhccc
Confidence            1 111233222 246778999999999998776532         2443  34677899999999999999655

>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=3.3e-41  Score=342.42  Aligned_cols=314  Identities=20%  Similarity=0.327  Sum_probs=219.0

Q ss_pred             cccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccc-cCCCeEEcCCCCeEEc
Q 012708           86 SKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI-DENGHLQCSYHGWSFD  164 (458)
Q Consensus        86 ~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~-~~~~~l~CpyHGw~Fd  164 (458)
                      .+.+|++.|++||+++||++|+++.++++|++|+|+|.  +|+++|+.|+|||||++|+.|.+ .+++.|+||||||+||
T Consensus        24 ~e~if~~~W~~V~~~~ELp~G~~~~v~i~G~~VvV~R~--dG~v~A~~N~CpHRGa~Ls~G~~~~~~~~I~CPyHGW~Fd  101 (389)
T 3gkq_A           24 AKLGFRNHWYPVRLSAEVAEASPVPVQLLGEKVLLNRV--DGVVHAIADRCLHRGVTLSDKVECYSKATISCWYHGWTYR  101 (389)
T ss_dssp             CTTCBSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGGGCCCSBTTEEECTTTCEEEE
T ss_pred             hhhhhcCccEEEEEHHHCCCCCeEEEEECCEEEEEEEe--CCeEEEeCCcCCCCCCCccCCcccCcCCEEECCCCCCEEE
Confidence            45578999999999999999999999999999999994  89999999999999999999973 2367999999999999


Q ss_pred             C-CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCCCCCCCCCCceEEEEEEEe
Q 012708          165 G-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLF  243 (458)
Q Consensus       165 ~-~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~  243 (458)
                      + +|+|+.+|+.+...      .+...+|++|||++++|+|||+++++..+.+.+    .+++.+.+.++.......+++
T Consensus       102 l~dG~cv~iP~~P~~~------~~~~~~L~~ypV~e~~G~VfV~lgd~~~ppL~e----~l~~~~~~~~~~~~~~~~~i~  171 (389)
T 3gkq_A          102 WDNGKLVDILTNPTSV------QIGRHALKTYPVREEKGLVFLFVGDQEPHDLAE----DVPPGFLDADLAVHGQHRVVD  171 (389)
T ss_dssp             TTTCBEEEETTCTTCT------TTTSCBCCBCCEEEETTEEEEEESSSCCCCGGG----GSCTTTTCTTEEEEEEEEEES
T ss_pred             CCCCCeecccCCcccc------cccccCCcEEEEEEECCeEEEecCCCCCCCchh----hcchhccCCceEEEeEEEEEe
Confidence            9 89999999765421      245678999999999999999997543221222    233345556666555667899


Q ss_pred             cChhhhhhhccCCCcccccccccccCcCCCCCccEEE-------------eecCccceeee-------------------
Q 012708          244 YGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKL-------------ESSGHWGFAGA-------------------  291 (458)
Q Consensus       244 ~nwk~~~EN~~D~~H~~~vH~~~~~~~~~~~~~~~~~-------------~~~~~~gf~~~-------------------  291 (458)
                      ||||.++||++|+||+ ++|+++++..+......+.+             +....-|+...                   
T Consensus       172 ~NWK~~~EN~lD~yH~-~vH~~si~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~kg~~~~~~~~~~~~~~~~~~~~~~~  250 (389)
T 3gkq_A          172 ANWRMGVENGFDAGHV-FIHKSSILLDGNDIALPLGFAPGDPEQLTRSVTGEGAPKGVFDLLGEHSVPIFEATIEGQPAI  250 (389)
T ss_dssp             SCHHHHHHHHTCSGGG-GGGTTCHHHHHTTBCBCSEEEECCGGGSEEEECCTTSCCEEEECSGGGEEEESEEEETTEEEE
T ss_pred             cCchhhHHhcchhchh-hCccccccccccccccccccccCCCcceEEEEcCCCCCccHHhhhhccccccccccccCcccc
Confidence            9999999999999999 99999876543222222221             11112221110                   


Q ss_pred             --cCCC--CcEEEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEeeccccccCCCCcccc-cch
Q 012708          292 --NDGN--PRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMPGPAWW-QVV  366 (458)
Q Consensus       292 --~~~~--~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~~~~~-~~~  366 (458)
                        ..+.  ....+.+..|++....   .     ++...+.  ....++|+++++++++..+.+...... ...+|. +.-
T Consensus       251 ~~~~~~~~~~~~~s~~lP~v~~v~---~-----~~~~~~~--~~~~~vpi~~~~~~y~~~~~~~~~~~~-~~~~~~~~~~  319 (389)
T 3gkq_A          251 QGHMGSKMVAISISVWLPGVLKVD---P-----FPDPTLT--QFEWYVPIDEGHHLYLQMLGRRVGSEE-EARSFEAEFR  319 (389)
T ss_dssp             ECBCCSBCCCCEEEEETTTEEEEE---S-----CSSTTCE--EEEEEEEEETTEEEEEEEEEEECSSHH-HHHHHHHHHH
T ss_pred             cCCCCCcccceeEEEEecCeeEec---c-----CCCCCeE--EEEEEeeccCCeEEEEEEEEEEcCCHH-HHHHHHHHHH
Confidence              0011  1234677888876532   1     1221222  223569999999999988776652200 001121 111


Q ss_pred             hhhhhhcccccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHHHHHhcCC
Q 012708          367 PRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNWLRRHGNS  435 (458)
Q Consensus       367 ~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrwl~~~~~~  435 (458)
                      .+|..+ ..+..+++|+.+-|++|.=+.+..         .|..  ......|..|+++||...++..|
T Consensus       320 ~~~~~~-~~~~f~~~d~~ar~~~~~~y~~~~---------g~~~--e~l~~~d~~~~~wr~~~~~~~~~  376 (389)
T 3gkq_A          320 EKWVEL-ALNGFNDDDILARRSMEPFYADDR---------GWRE--EVLFESDRAIIEWRRLASQYNRG  376 (389)
T ss_dssp             HTHHHH-TTTTTTHHHHHHHHHHHHHHHTSH---------HHHH--CCCCGGGHHHHHHHHHHHHHCSC
T ss_pred             HHHHHH-hhccccchhHHHHHHHHHhhccCC---------CCCh--hhccCcchhHHHHHHHHHHhccc
Confidence            223222 245777999999999998776532         2443  34677899999999999999665

>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=4.6e-40  Score=345.38  Aligned_cols=195  Identities=14%  Similarity=0.247  Sum_probs=156.3

Q ss_pred             ccccCCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCC
Q 012708           67 EKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (458)
Q Consensus        67 ~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~  145 (458)
                      ..||.++|+|+++++.|++.  +|.+.|++||++++|+ +|+++.+.++|++|+|+|+ .+|+++||.|+|||||++|+.
T Consensus        13 ~~~~~~~y~~~~~~~~E~~~--if~~~W~~v~~~~el~~~g~~~~~~~~~~~vvv~R~-~~G~v~a~~n~CpHrga~L~~   89 (454)
T 2gbw_A           13 ASQSRQVFWDEDVYALEIER--IFSRAWLMLGHESLVPKPGDFITTYMAEDKVILSHQ-SDGTFRAFINSCSHRGNQICH   89 (454)
T ss_dssp             TEEEGGGGTCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCSCC
T ss_pred             CccCHHHcCCHHHHHHHHHH--HhhcCcEEEeEHHHCCCCCCeEEEEECCeEEEEEEc-CCCCEEEEeccCCCCCCCCcc
Confidence            57999999999999999765  6699999999999999 5999999999999999998 899999999999999999999


Q ss_pred             ccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCC
Q 012708          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLP  225 (458)
Q Consensus       146 G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p  225 (458)
                      |.+++++.|+||||||+||++|+|+.+|+.....+.  .+++.+.+|++|+|++++|+|||++++++++ +++++.+ +.
T Consensus        90 g~~g~~~~i~CpyHgw~f~~~G~~~~~P~~~~~~~~--~~~~~~~~l~~~~v~~~~G~v~v~~~~~~p~-~~~~l~~-~~  165 (454)
T 2gbw_A           90 ADSGNAKAFVCNYHGWVFGQDGSLVDVPLESRCYHN--SLDKQKLAAKSVRVETYKGFIFGCHDPEAPS-LEDYLGE-FR  165 (454)
T ss_dssp             CSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTT--CCCGGGCCCCEEEEEEETTEEEEECCTTCCC-HHHHHGG-GH
T ss_pred             cccCCcCEEEeCCCCCEecCCCCcccCCcccccccc--cCCHhhCCCeeEEEEEECCEEEEEeCCCCCC-HHHHhhh-hH
Confidence            887446799999999999999999999976432110  1234567899999999999999999887543 2222221 11


Q ss_pred             CCC----CC--CCCceE--EEEEEEecChhhhhhhc-cCCCccccccccccc
Q 012708          226 DAF----DK--PEFSSV--TIQRDLFYGYDTLMENV-SDPSHIDFAHHKVTG  268 (458)
Q Consensus       226 ~~~----~~--~~~~~~--~~~~~~~~nwk~~~EN~-~D~~H~~~vH~~~~~  268 (458)
                      ..+    +.  .++..+  ....+++||||+++||+ +|+||++++|..+++
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            011    11  223333  23568899999999999 799999999966543

>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=2.8e-39  Score=340.70  Aligned_cols=197  Identities=14%  Similarity=0.214  Sum_probs=156.7

Q ss_pred             CCccccCCCccCccccccccccccccCCceEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCc
Q 012708           65 KDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPL  143 (458)
Q Consensus        65 ~~~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L  143 (458)
                      +...||.++|+|+++|+.|++.  +|.+.|++||++++|++ |+++.++++|++|||+|+ .+|+|+||.|+|||||++|
T Consensus        19 ~~~~lp~~~Ytd~~~~~~E~~~--if~~~W~~v~~~~el~~~g~~~~~~~~g~~vvv~R~-~~G~v~a~~n~C~Hrga~L   95 (470)
T 2b1x_A           19 SDWTVPAAIINDPEVHDVERER--IFGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRD-EGGEIRGHLNACRHRGMQV   95 (470)
T ss_dssp             TTCEEEGGGSSCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCS
T ss_pred             CCCcCCHHHcCCHHHHHHHHHH--HhhcCCeEeeeHHHCCCCCCeEEEEECCeEEEEEEc-CCCCEEEEecccCCCCCEe
Confidence            3568999999999999999866  66999999999999985 889999999999999998 8999999999999999999


Q ss_pred             CCccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeE-eEEEECCeEEEecCCCcccccccCCCC
Q 012708          144 SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRF-PTMVSQGLLFVWPDEYGQERANATKPP  222 (458)
Q Consensus       144 ~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~-pv~e~~G~V~V~~~~~~~~~~~~~~~p  222 (458)
                      +.|.+++.+.|+||||||+||++|+|+.+|+.....+.  .+++...+|..+ .|++++|+|||++++++.+ +++++.+
T Consensus        96 ~~g~~~~~~~i~CpyHgw~f~~~G~~~~~P~~~~~~~~--~~~~~~~~l~~~p~ve~~~G~Vfv~~~~~~~~-~~~~l~~  172 (470)
T 2b1x_A           96 CRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGN--QLKKSDWNLRPMPNLASYKGLIFGSLDPHADS-LEDYLGD  172 (470)
T ss_dssp             CCSSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTT--CCCGGGGSCCBCSEEEEETTEEEEESCTTCCC-HHHHHGG
T ss_pred             eccCcCCCCEEEECCCCCeecCCCceeecCcccccccc--cCCHhhCCCcccceEEEECCEEEEEeCCCCCC-HHHHhcc
Confidence            99988645799999999999999999999985432110  123446789999 6777899999999877543 2222221


Q ss_pred             CCCCCC------CCCCCceE--EEEEEEecChhhhhhhc-cCCCccccccccccc
Q 012708          223 MLPDAF------DKPEFSSV--TIQRDLFYGYDTLMENV-SDPSHIDFAHHKVTG  268 (458)
Q Consensus       223 ~~p~~~------~~~~~~~~--~~~~~~~~nwk~~~EN~-~D~~H~~~vH~~~~~  268 (458)
                       +...+      ...++...  ....+++||||+++||+ +|+||++++|+++++
T Consensus       173 -~~~~~d~~~~~~~~~~~~~~~~~~~~~~~NWk~~~EN~~~D~yH~~~~H~~~~~  226 (470)
T 2b1x_A          173 -LKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVE  226 (470)
T ss_dssp             -GHHHHHHHHCSSSSCEEECSCCEEEEESSCTHHHHHHHHHCCTTHHHHTHHHHH
T ss_pred             -hhHHHHHHhccCCCCeEEEeeeEEEEeccCHhhhhhccccccCcccccChhhhh
Confidence             11001      12234333  24568899999999999 999999999999754

>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=8.2e-40  Score=342.09  Aligned_cols=198  Identities=14%  Similarity=0.174  Sum_probs=159.3

Q ss_pred             CccccCCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcC
Q 012708           66 DEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (458)
Q Consensus        66 ~~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~  144 (458)
                      ...||.++|+|+++|+.|++.  +|.+.|++||++++|+ +|++++++++|++|||+|+ .+|+|+||.|+|||||++|+
T Consensus        32 ~~~~~~~~Ytd~~~~~~E~~~--if~~~W~~v~~~~elp~~G~~~~~~i~~~~vvv~R~-~dG~v~A~~n~C~Hrga~L~  108 (457)
T 3gzx_A           32 NGKLDARIYADQDLYQLELER--VFGRSWLMLGHETHIPKIGDYLTTYMGEDPVIMVRQ-KDQSIKVFLNQCRHRGMRIV  108 (457)
T ss_dssp             TTEEEGGGGTCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESCCTTTCCCSC
T ss_pred             CCcCCHHHcCCHHHHHHHHHH--HHhcCCEEEeEHHHcCCCCCeEEEEECCEEEEEEEC-CCCeEEEEeCcCCCCCcCcc
Confidence            457899999999999999876  6699999999999998 5999999999999999999 89999999999999999999


Q ss_pred             CccccCCCeEEcCCCCeEEcCCCCeeecCCCCC-CCc--chhh-cCCCCCCceeEeEEEECCeEEEecCCCcccccccCC
Q 012708          145 EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS-EGP--EARA-IQSPRACATRFPTMVSQGLLFVWPDEYGQERANATK  220 (458)
Q Consensus       145 ~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~-~~~--~~~~-~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~  220 (458)
                      .|..+.++.|+||||||+||++|+|+.+|+... .+.  .... +++.+.+|++|+|.+++|+||||+++++++ +++++
T Consensus       109 ~g~~g~~~~i~CpyHgw~fd~~G~~~~~P~~~~~~~~~~~~~~~~~~~~~~L~~~~v~e~~G~Vfv~~~~~ap~-l~e~l  187 (457)
T 3gzx_A          109 RSDGGNAKAFTCTYHGWAYDIAGNLVNVPFEKEAFCDKKEGDCGFDKADWGPLQARVETYKGLVFANWDPEAPD-LKTYL  187 (457)
T ss_dssp             CSSEEECSEEECTTTCCEEETTSCEEECTTHHHHTCSSSTTTTSCCGGGCCCCEEEEEEETTEEEEESCTTSCC-HHHHT
T ss_pred             CCCCCcCCEEEcCCCCCEecCCCcceecCccccccccccccccccChhhCCCceEeEEEECCEEEEecCCCCCC-hHHHH
Confidence            987544679999999999999999999998542 100  0000 134567899999999999999999987654 34454


Q ss_pred             CCCCCCCC----CC--CCCceE--EEEEEEecChhhhhhhc-cCCCccc-cccccccc
Q 012708          221 PPMLPDAF----DK--PEFSSV--TIQRDLFYGYDTLMENV-SDPSHID-FAHHKVTG  268 (458)
Q Consensus       221 ~p~~p~~~----~~--~~~~~~--~~~~~~~~nwk~~~EN~-~D~~H~~-~vH~~~~~  268 (458)
                      .+ +...+    +.  .++..+  .....++||||+++||+ +|+||++ ++|.++++
T Consensus       188 g~-~~~~ld~~~~~~~~~~~~~~~~~~~~~~~NWKl~~EN~~~D~yH~~~~~H~~~~~  244 (457)
T 3gzx_A          188 SD-AMPYMDVMLDRTEAGTEAIGGIQKWVIPCNWKFAAEQFCSDMYHAGTMSHLSGVL  244 (457)
T ss_dssp             TT-CHHHHHHHHSSSTTCEEECSCCEEEEESSCHHHHHHHHHHBCTTTTTTTTHHHHH
T ss_pred             hh-hHHHHHHHhccCCCceEEEcceEEEEEccccchhhhccccccCCcccceehhhhh
Confidence            43 22111    21  133333  24578899999999999 8999999 99998654

>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=7.8e-38  Score=328.83  Aligned_cols=193  Identities=14%  Similarity=0.193  Sum_probs=154.1

Q ss_pred             ccccCCCccCccccccccccccccCCceEEeeecCCCCC-CCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCC
Q 012708           67 EKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE  145 (458)
Q Consensus        67 ~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~  145 (458)
                      ..||.++|+|+++++.|++.  +|.+.|++||++++|++ |+++.+.++|++|+|+|+ .+|+++||.|+|||||++|+.
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 GRLDPRIYTDEALYEQELER--IFGRSWLLMGHETQIPKAGDFMTNYMGEDPVMVVRQ-KNGEIRVFLNQCRHRGMRICR  107 (460)
T ss_dssp             TEECGGGGTCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESCCTTTCCCSCC
T ss_pred             CcCCHHHcCCHHHHHHHHHH--hhhcCceEEEEHHHCCCCCCeEEEEECCeEEEEEEc-CCCCEEEEeeeCCCCCCCCcc
Confidence            57899999999999999765  66999999999999984 888999999999999998 899999999999999999999


Q ss_pred             ccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcccccccCCCCCCC
Q 012708          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLP  225 (458)
Q Consensus       146 G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~~~~~~~~p~~p  225 (458)
                      |.+++++.|+||||||+||++|+|+.+|+.....+   .+++.+.+|++|+|++++|+|||++++++++ +++++.+ +.
T Consensus       108 g~~g~~~~i~CpyHgw~fd~~G~~~~~P~~~~~~~---~~~~~~~~L~~~~v~~~~G~V~v~~~~~~p~-l~~~l~~-~~  182 (460)
T 1uli_A          108 ADGGNAKSFTCSYHGWAYDTGGNLVSVPFEEQAFP---GLRKEDWGPLQARVETYKGLIFANWDADAPD-LDTYLGE-AK  182 (460)
T ss_dssp             SSEEECSCEECTTTCCEECTTCCEEECTTHHHHCT---TCCGGGSSCCEEEEEEETTEEEEECCTTSCC-HHHHHTT-HH
T ss_pred             ccCCCCCEEEcCCCCCEEeCCCCEeeCCccccccC---CCCHhHcCCceeeEEEECCEEEEEeCCCCCC-HHHHhcc-hH
Confidence            88754579999999999999999999997532101   1234567899999999999999999887543 2223222 11


Q ss_pred             CC----CCC--CCCceE--EEEEEEecChhhhhhhc-cCCCcc-cccccccc
Q 012708          226 DA----FDK--PEFSSV--TIQRDLFYGYDTLMENV-SDPSHI-DFAHHKVT  267 (458)
Q Consensus       226 ~~----~~~--~~~~~~--~~~~~~~~nwk~~~EN~-~D~~H~-~~vH~~~~  267 (458)
                      ..    ++.  ..+..+  ....+++||||+++||+ +|+||+ .++|...+
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  122221  23568899999999999 799999 69998554

>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=5.3e-39  Score=336.70  Aligned_cols=195  Identities=15%  Similarity=0.178  Sum_probs=156.3

Q ss_pred             cccc-CCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcC
Q 012708           67 EKED-YGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (458)
Q Consensus        67 ~~~~-~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~  144 (458)
                      ..|| .++|+|+++++.|++.  +|.+.|++||++++|+ +|+++.+.++|++|||+|+ .+|+|+||.|+|||||++|+
T Consensus        11 ~~~~~~~~y~~~~~~~~E~~~--if~~~W~~v~~~~el~~~g~~~~~~~~~~~vvv~R~-~~G~v~a~~n~CpHrga~L~   87 (447)
T 2bmo_A           11 GLTQKLLIHGDKELFQHELKT--IFARNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQ-NDGSVRAFLNVCRHRGKTLV   87 (447)
T ss_dssp             GCEEEGGGGTCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESBCTTTCCBCC
T ss_pred             CCCCccceeCCHHHHHHHHHH--hhccCCeEEeEHHHCCCCCCeEEEEECCeeEEEEEC-CCCCEEEEeccCcCCCCCcc
Confidence            4789 9999999999999765  6699999999999998 5999999999999999999 89999999999999999999


Q ss_pred             CccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEe-EEEECCeEEEecCCCcccccccCCCCC
Q 012708          145 EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFP-TMVSQGLLFVWPDEYGQERANATKPPM  223 (458)
Q Consensus       145 ~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~p-v~e~~G~V~V~~~~~~~~~~~~~~~p~  223 (458)
                      .|.+++++.|+||||||+||++|+|+.+|+.....+.  .+++.+.+|++|| |++++|+|||++++++.+ +++++.+ 
T Consensus        88 ~g~~g~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~--~~~~~~~~l~~~~~v~~~~G~v~v~~~~~~~~-l~~~l~~-  163 (447)
T 2bmo_A           88 HAEAGNAKGFVCGYHGWGYGSNGELQSVPFEKELYGD--AIKKKCLGLKEVPRIESFHGFIYGCFDAEAPP-LIDYLGD-  163 (447)
T ss_dssp             CSSEEECSEEECTTTCCEEETTSCEEECTTHHHHTGG--GCCGGGCCCCBCSEEEEETTEEEEESCTTCCC-HHHHHTT-
T ss_pred             ccccCCcCeEECCCCcchhcCCCcccccCcccccccc--cCCHhHCCCcccceEEEECCEEEEEcCCCCCC-HHHHhcc-
Confidence            9987546799999999999999999999975321010  1234567899998 999999999999887543 2223222 


Q ss_pred             CCCCC----C-CCCCceE--EEEEEEecChhhhhhhc-cCCCccccccccccc
Q 012708          224 LPDAF----D-KPEFSSV--TIQRDLFYGYDTLMENV-SDPSHIDFAHHKVTG  268 (458)
Q Consensus       224 ~p~~~----~-~~~~~~~--~~~~~~~~nwk~~~EN~-~D~~H~~~vH~~~~~  268 (458)
                      +...+    + ..++..+  ....+++||||+++||+ +|+||++++|..+++
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            11011    1 2234443  23568899999999999 799999999976554

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

Probab=99.95  E-value=5.1e-27  Score=197.17  Aligned_cols=101  Identities=19%  Similarity=0.337  Sum_probs=93.3

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCee
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCT  170 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~  170 (458)
                      ..|+.||.++||++|+++.++++|++|+|+|.  +|+++|++|+|||||++|+.|.+. ++.|+||||||+||+ +|+|+
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            36999999999999999999999999999995  899999999999999999999985 689999999999999 99999


Q ss_pred             ecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecC
Q 012708          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (458)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~  209 (458)
                      .+|..              .+|++|+|++++|.|||+++
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            98743              36899999999999999874

>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=5.3e-27  Score=199.78  Aligned_cols=103  Identities=21%  Similarity=0.411  Sum_probs=94.4

Q ss_pred             ceEEeeecCCCCCCCcEEEEE-CCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCC-CCee
Q 012708           93 HWYPVSLVEDLDPNLPTAFQL-LGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC-GSCT  170 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~-~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~-G~~~  170 (458)
                      .|+.||.++||++|+.+.+++ +|++|+|+|+ .+|+++|+.|+|||||++|+.|.++ ++.|+||||||+||++ |+|+
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 7999999999999999999999985 6899999999999995 9999


Q ss_pred             ecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      . |.              ..+|++|+|++++|+|||++++++
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              236899999999999999998764

>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=7.8e-27  Score=199.09  Aligned_cols=104  Identities=18%  Similarity=0.226  Sum_probs=95.2

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCc-cccCCCeEEcCCCCeEEcC-CCCe
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEG-RIDENGHLQCSYHGWSFDG-CGSC  169 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G-~~~~~~~l~CpyHGw~Fd~-~G~~  169 (458)
                      ..|+.||.++||++|+.+.+++.|++|+|+|+  +|+++|++|+|||||++|+.| .+. ++.|+||||||+||+ +|+|
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             eecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      +.+|+.              .+|++|+|++++|+|||+++++.
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            998742              35899999999999999997654

>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=4e-27  Score=198.86  Aligned_cols=102  Identities=22%  Similarity=0.291  Sum_probs=94.5

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeee
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR  171 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~  171 (458)
                      +|+.||.++||++|+.+.+.++|++|+|+|.  +|+++|++|+|||||++|+.|.+. ++.|+||||||+||+ +|+|+.
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            5999999999999999999999999999995  899999999999999999999985 689999999999997 999999


Q ss_pred             cCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCC
Q 012708          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (458)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~  211 (458)
                      +|+.              .+|++|+|++++|.|||++++.
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            8753              3689999999999999999764

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

Probab=99.94  E-value=4e-27  Score=199.55  Aligned_cols=102  Identities=21%  Similarity=0.329  Sum_probs=93.4

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeE-EEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCee
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRD-LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCT  170 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~-lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~  170 (458)
                      .|+.||.++||++|+.+.+++.|++ |+|+|+  +|+++|++|+|||||++|+.|.+. ++.|+||||||+||+ +|+|+
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  899999999999999999999986 689999999999998 99999


Q ss_pred             ecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCC
Q 012708          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (458)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~  211 (458)
                      .+|..              .+|++|+|++++|+|||+++++
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            87743              3689999999999999999764

>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=7.1e-27  Score=200.37  Aligned_cols=104  Identities=25%  Similarity=0.471  Sum_probs=95.0

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCe-EEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCe
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGR-DLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSC  169 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~-~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~  169 (458)
                      +.|+.||.++||++|+++.++++|+ +|+|+|+  +|+++|+.|+|||||++|+.|.+. ++.|+||||||+||+ +|+|
T Consensus         3 ~~w~~v~~~~el~~g~~~~~~~~g~~~v~v~r~--~g~~~A~~n~CpH~g~~L~~g~~~-~~~i~CP~Hg~~Fdl~tG~~   79 (115)
T 2de6_D            3 QIWLKVCAASDMQPGTIRRVNRVGAAPLAVYRV--GDQFYATEDTCTHGIASLSEGTLD-GDVIECPFHGGAFNVCTGMP   79 (115)
T ss_dssp             -CCEEEEEGGGCCTTEEEEEEETTEEEEEEEEE--TTEEEEEESBCTTSSCBGGGSEEE-TTEEECTTTCCEEETTTCCE
T ss_pred             cceEEeEEHHHCCCCCeEEEEECCccEEEEEEE--CCEEEEEeCCCCCCCCCCcCCEEe-CCEEECCCCCCEEcCCCcCE
Confidence            5799999999999999999999999 9999997  899999999999999999999986 689999999999998 9999


Q ss_pred             eecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      +.+|+.              .+|++|+|++++|.|||+++++.
T Consensus        80 ~~~P~~--------------~~L~~~~v~~~~g~V~v~~~~~~  108 (115)
T 2de6_D           80 ASSPCT--------------VPLGVFEVEVKEGEVYVAGEKKL  108 (115)
T ss_dssp             EETTCC--------------SCCCEEEEEESSSEEEEEEEEC-
T ss_pred             eCCCCc--------------CCCCEEEEEEECCEEEEecCCcc
Confidence            998753              35899999999999999997654

>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=9.5e-27  Score=203.89  Aligned_cols=107  Identities=16%  Similarity=0.211  Sum_probs=95.6

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCC-eEEEEecCCCCCCC-CcCCccccC--C-CeEEcCCCCeEEcC-
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSN-KWVAFDDKCPHRLA-PLSEGRIDE--N-GHLQCSYHGWSFDG-  165 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G-~v~A~~n~CpHrga-~L~~G~~~~--~-~~l~CpyHGw~Fd~-  165 (458)
                      ..|+.||.++||++|+.+.++++|++|+|||+ .+| +++|+.|+|||||+ +|+.|.+.+  + ..|+||||||+||+ 
T Consensus         2 ~~w~~v~~~~el~~g~~~~~~~~g~~i~v~r~-~~g~~v~A~~n~CpH~g~~~L~~G~~~~~~g~~~i~CP~Hg~~Fdl~   80 (130)
T 2jza_A            2 SQWTTVCKLDDILPGTGVCALVEQQQIAVFRP-RNDEQVYAISNIDPFAQASVLSRGIVAEHQDDLWVASPLKKQHFRLY   80 (130)
T ss_dssp             CSEEEEEETTTSCTTBCCEEEETTEEEEEEBC-SSSSCCEEEBCCCTTTSSGGGTSSEEEESSSSEEEECSSSCCEEETT
T ss_pred             CceEEEEEHHHCCCCCeEEEEECCcEEEEEEE-CCCCEEEEEeCcCCCCCCCcCCCccCcccCCCeEEECCCCCCEEeCC
Confidence            36999999999999999999999999999997 678 99999999999999 599998852  2 38999999999999 


Q ss_pred             CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCccc
Q 012708          166 CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQE  214 (458)
Q Consensus       166 ~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~~  214 (458)
                      +|+|+.+|.               .+|++|+|++++|+|||++++++.+
T Consensus        81 tG~~~~~P~---------------~~L~~~~v~v~~g~V~V~~~~~~~~  114 (130)
T 2jza_A           81 DGFCLEDGA---------------YSVAAYDTQVTNGNVQISIADSDVA  114 (130)
T ss_dssp             TCCBSSCCS---------------SCCBCCCEEESSSEEEEECCCCCCC
T ss_pred             CcCCCCCCc---------------CcceEEEEEEECCEEEEEeCCCCCC
Confidence            999998774               3589999999999999999877644

>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=99.94  E-value=1.4e-26  Score=197.83  Aligned_cols=103  Identities=17%  Similarity=0.263  Sum_probs=92.8

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCC-eEEEEecCCCCCCC-CcCCccccC-CC--eEEcCCCCeEEcC-
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSN-KWVAFDDKCPHRLA-PLSEGRIDE-NG--HLQCSYHGWSFDG-  165 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G-~v~A~~n~CpHrga-~L~~G~~~~-~~--~l~CpyHGw~Fd~-  165 (458)
                      ..|+.||.++||++|+++.++++|++|+|||+ .+| +++|+.|+|||||+ +|+.|.+.+ ++  .|+||||||+||+ 
T Consensus         5 ~~w~~v~~~~el~~g~~~~~~~~g~~i~v~r~-~~g~~~~A~~n~CpH~g~~~L~~G~~~~~~g~~~i~CP~Hg~~Fd~~   83 (113)
T 2jo6_A            5 SQWKDICKIDDILPETGVCALLGDEQVAIFRP-YHSDQVFAISNIDPFFESSVLSRGLIAEHQGELWVASPLKKQRFRLS   83 (113)
T ss_dssp             CCCEEEEETTTSCTTEEEEEEETTEEEEEEEC-SSSSCCEEEESSCSSSCCSCSTTSEEEEETTEEEEEETTTTEEEETT
T ss_pred             chheEEeeHHHCCCCCeEEEEECCEEEEEEEE-CCCCEEEEEeCcCCCCCCcccCCeEEeccCCCcEEECCCCCCEEeCC
Confidence            45999999999999999999999999999997 699 69999999999999 799998852 23  8999999999999 


Q ss_pred             CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCC
Q 012708          166 CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDE  210 (458)
Q Consensus       166 ~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~  210 (458)
                      +|+|+.+|.               .+|++|||++++|+|||++++
T Consensus        84 tG~~~~~P~---------------~~l~~~~v~v~~g~V~v~~~~  113 (113)
T 2jo6_A           84 DGLCMEDEQ---------------FSVKHYEARVKDGVVQLRGGS  113 (113)
T ss_dssp             TTEETTTTT---------------TCCCEEEEEEETTEEEEECCC
T ss_pred             CccCCCCCc---------------ccccEEeEEEECCEEEEEcCC
Confidence            999998774               358999999999999999853

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

Probab=99.94  E-value=2.7e-26  Score=198.56  Aligned_cols=104  Identities=25%  Similarity=0.400  Sum_probs=93.9

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCc--cccCCCeEEcCCCCeEEcC-CCC
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEG--RIDENGHLQCSYHGWSFDG-CGS  168 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G--~~~~~~~l~CpyHGw~Fd~-~G~  168 (458)
                      ..|+.||.++||++|+++.++++|++|+|+|+  +|+++|+.|+|||||++|+.|  .+. ++.|+||||||+||+ +|+
T Consensus         9 ~~w~~v~~~~el~~g~~~~~~~~g~~v~v~r~--~g~~~A~~n~CpH~g~~L~~G~~~~~-~~~i~CP~Hg~~Fdl~tG~   85 (121)
T 3gce_A            9 STPVRVATLDQLKPGVPTAFDVDGDEVMVVRD--GDSVYAISNLCSHAEAYLDMGVFHAE-SLEIECPLHVGRFDVRTGA   85 (121)
T ss_dssp             CCCEEEEEGGGSCTTCCEEEEETTEEEEEEEE--TTEEEEEESBCSSSSCBGGGSEEETT-TTEEECTTTCCEEETTTCC
T ss_pred             cCcEEEEEHHHCCCCCEEEEEECCEEEEEEEE--CCEEEEEeCcCCCCCCCCCCCceeec-CCEEEcCCCCCEEcCCCcc
Confidence            46999999999999999999999999999996  899999999999999999999  774 789999999999997 999


Q ss_pred             eeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       169 ~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      |+.+|+.              .+|++|+|++++|.|||+++.+.
T Consensus        86 ~~~~P~~--------------~~L~~~~v~v~~g~V~v~~~~~~  115 (121)
T 3gce_A           86 PTALPCV--------------LPVRAYDVVVDGTEILVAPKEAD  115 (121)
T ss_dssp             EEETTCC--------------SCCCBCCEEEETTEEEECCC---
T ss_pred             EeCCCCc--------------CCcceEEEEEECCEEEEEECccc
Confidence            9998753              36899999999999999997654

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

Probab=99.94  E-value=3.7e-27  Score=213.08  Aligned_cols=119  Identities=20%  Similarity=0.299  Sum_probs=97.4

Q ss_pred             cCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccC--C-CeEEcCCCCeEEcC-
Q 012708           90 WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE--N-GHLQCSYHGWSFDG-  165 (458)
Q Consensus        90 ~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~--~-~~l~CpyHGw~Fd~-  165 (458)
                      ..+.|+.||.++||++|+++.++++|++|+|+|.  +|+++||.|+|||||++|+.|.+.+  + +.|+||||||+||+ 
T Consensus        13 ~~~~W~~v~~~~el~~g~~~~~~~~g~~i~v~r~--~G~v~A~~n~CpH~g~~L~~G~~~~~~g~~~i~CP~Hgw~Fdl~   90 (157)
T 3d89_A           13 KKYTSVCVGREEDIRKSERMTAVVHDREVVIFYH--KGEYHAMDIRCYHSGGPLHLGEIEDFNGQSCIVCPWHKYKITLA   90 (157)
T ss_dssp             -CCSCEEEEEHHHHHHHSEEEEEETTEEEEEEEE--TTEEEEEESBCTTTCCBGGGSEEEEETTEEEEECTTTCCEEETT
T ss_pred             CCCceEEEEEHHHCCCCCeEEEEECCEEEEEEEE--CCEEEEEeCCCCCCCCCCcCCEecCcCCCCEEECCCCCCEEecC
Confidence            3678999999999988999999999999999995  8999999999999999999998752  2 58999999999999 


Q ss_pred             CCCeee--c-CCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCcc
Q 012708          166 CGSCTR--I-PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQ  213 (458)
Q Consensus       166 ~G~~~~--i-P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~~  213 (458)
                      +|+|+.  | |......+   .+++...+|++|+|++++|+|||++++++.
T Consensus        91 tG~~~~~~i~P~~~~~~~---~~~~~~~~L~~~~v~v~~G~V~V~~~~~~~  138 (157)
T 3d89_A           91 TGEGLYQSINPKDPSAKP---KWCSKGVKQRIHTVKVDNGNIYVTLSKEPF  138 (157)
T ss_dssp             TCEEEEEECCCC-----C---EEEEEEECSCEEEEEEETTEEEEECCCCSS
T ss_pred             CcCEEEeccCCCcccccc---ccccccCcceEEEEEEECCEEEEEeCCCCc
Confidence            999996  3 64211000   001224679999999999999999987653

>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=1.6e-26  Score=199.30  Aligned_cols=105  Identities=16%  Similarity=0.206  Sum_probs=94.8

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCC-CcCCccccCC--C-eEEcCCCCeEEcC-C
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLA-PLSEGRIDEN--G-HLQCSYHGWSFDG-C  166 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga-~L~~G~~~~~--~-~l~CpyHGw~Fd~-~  166 (458)
                      ..|+.||.++||++|+++.++++|++|+|||+ .+|+++|+.|+|||||+ +|+.|.+.++  . .|+||||||+||+ +
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  2 8999999999999 9


Q ss_pred             CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       167 G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      |+|+.+|.               .+|++|||++++|.|||++++..
T Consensus        83 G~~~~~P~---------------~~l~~~~v~v~~g~V~v~~~~~~  113 (119)
T 3c0d_A           83 GQCLEDEA---------------HCLKTWRVTVDDNQVCYLAKELE  113 (119)
T ss_dssp             CBBSSCTT---------------CBCCEECEEESSSEEEEECCCC-
T ss_pred             CcCCCCCC---------------ceeeEEEEEEECCEEEEEeCCcc
Confidence            99998774               25899999999999999997653

>4aiv_A Probable nitrite reductase [NAD(P)H] small subuni; oxidoreductase, nitrite metabolism; 2.00A {Mycobacterium tuberculosis}

Probab=99.93  E-value=1.9e-26  Score=198.80  Aligned_cols=103  Identities=19%  Similarity=0.221  Sum_probs=89.1

Q ss_pred             CceEEeeecCCCCCCCcEEEEEC-CeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccC----CCeEEcCCCCeEEcC-
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLL-GRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE----NGHLQCSYHGWSFDG-  165 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~-g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~----~~~l~CpyHGw~Fd~-  165 (458)
                      +.|++||.++||++|..+.+.+. |++|+|||+ .+|+++|++|+|||||++|+.|.+.+    ...|+||||||+||+ 
T Consensus         8 ~~W~~Vc~~~dL~~g~~~~~~~~~G~~v~l~r~-~dG~v~A~~n~CpH~ga~L~~~~~~~~~~~~~~i~CP~Hg~~Fdl~   86 (119)
T 4aiv_A            8 QVWTTACAYDHLIPGRGVGVLLDDGSQVALFRL-DDGSVHAVGNVDPFSGAAVMSRGIVGDRGGRAMVQSPILKQAFALD   86 (119)
T ss_dssp             EEEEEEEEGGGSCTTCCEEEECTTSCEEEEEEC-TTSCEEEEESBCTTTCCBCGGGSEEEEETTEEEEECTTTCCEEETT
T ss_pred             cceeEeeEHHHcCCCCceEEEEcCCcEEEEEEc-CCCeEEEEECCCCCCCCccccCceeccccCCCEEECCCCCCEEeCC
Confidence            57999999999999999988885 799999998 79999999999999999998776531    236999999999997 


Q ss_pred             CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEE-CCeEEEecCC
Q 012708          166 CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS-QGLLFVWPDE  210 (458)
Q Consensus       166 ~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~-~G~V~V~~~~  210 (458)
                      +|+|+..|.               .+|++|||+++ +|+|||.+.+
T Consensus        87 tG~~~~~p~---------------~~l~~ypv~ve~dG~V~V~~~a  117 (119)
T 4aiv_A           87 DGSCLDDPR---------------VSVPVYPARVTPEGRIQVARVA  117 (119)
T ss_dssp             TCBBSSCTT---------------CBCCEECEEECTTSEEEEEEEE
T ss_pred             CCcCcCCCC---------------CccceEEEEEEeCCEEEEecCC
Confidence            899997663               35899999865 7999998754

>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=99.85  E-value=2.8e-21  Score=168.88  Aligned_cols=98  Identities=19%  Similarity=0.272  Sum_probs=87.6

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECC--------------------------CCeEEEEecCCCCCCCCcCC
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN--------------------------SNKWVAFDDKCPHRLAPLSE  145 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~--------------------------~G~v~A~~n~CpHrga~L~~  145 (458)
                      ..|..+ .+++|++|+.+.+.+.|++++|+|. .                          +|+++|+.|+|||+|++|+.
T Consensus         4 ~~~~~v-~~s~l~~G~~~~v~~~g~pv~v~r~-~~~~~~~~~~~~~~~l~dp~~~~~r~~~g~~~a~~~~C~H~g~~l~~   81 (129)
T 1rie_A            4 MSKIEI-KLSDIPEGKNMAFKWRGKPLFVRHR-TKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIA   81 (129)
T ss_dssp             CSSEEE-EGGGSCTTCEEEEEETTEEEEEEEC-CHHHHHHHHTCCGGGCSSCCCGGGTCSSTTEEEEECCCTTTSCCCEE
T ss_pred             cCceEe-eHHHCCCCCEEEEEECCeEEEEEEC-CHHHHhhhhccccceecCcccccccccCCeEEEEECccCCCCeeccc
Confidence            357777 8999999999999999999999995 4                          89999999999999999999


Q ss_pred             ccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEE-ECCeEEE
Q 012708          146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFV  206 (458)
Q Consensus       146 G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~V~V  206 (458)
                      |.+. ++.|+||||||+||++|+|+..|..              ..|..||+++ .+|.|||
T Consensus        82 g~~~-~~~i~CP~Hg~~fd~~G~~~~~P~~--------------~~l~~~~v~v~~~~~v~v  128 (129)
T 1rie_A           82 NAGD-FGGYYCPCHGSHYDASGRIRKGPAP--------------LNLEVPSYEFTSDDMVIV  128 (129)
T ss_dssp             TCTT-TEEEEETTTTEEEETTCCEEESSCC--------------SCCCCCCEEESSSSEEEE
T ss_pred             ccCC-CCEEEcCCCCCEEcCCCCEeeCCCC--------------CCCCceeEEEEeCCEEEE
Confidence            9874 6799999999999999999988753              2588999999 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=1.7e-21  Score=172.36  Aligned_cols=102  Identities=17%  Similarity=0.188  Sum_probs=88.8

Q ss_pred             CCceEEeee-cCCCCCCCcEEEE-ECCeEEEEEEECCCCeE--EEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCC
Q 012708           91 RDHWYPVSL-VEDLDPNLPTAFQ-LLGRDLVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC  166 (458)
Q Consensus        91 ~~~W~~v~~-~~dL~~g~~~~~~-~~g~~lvl~R~~~~G~v--~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~  166 (458)
                      ...|+.++. ++||++|..+.+. +.|++++++|+ .+|++  +|++|+|||||++|+.|..  ++.|+||||||+||.+
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            467888888 8999987776665 67888888887 79999  9999999999999998873  5799999999999999


Q ss_pred             CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecC
Q 012708          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (458)
Q Consensus       167 G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~  209 (458)
                      |+|+..|..              .+|++|+|++++|.|||.+-
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            999998742              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=99.83  E-value=1.1e-20  Score=165.99  Aligned_cols=99  Identities=21%  Similarity=0.178  Sum_probs=87.1

Q ss_pred             CceEEeeecCCCCCCCcEEEEEC--CeEEEEEEECC---------CCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCC
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLL--GRDLVLWFDNN---------SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHG  160 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~--g~~lvl~R~~~---------~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHG  160 (458)
                      --|+.||.++||++|+.+.+.+.  |++++|+|. .         +|+++|+.|+|||+|++|+.+ . +++.|+|||||
T Consensus         6 ~p~~~v~~~~dl~~g~~~~~~~~~~g~~v~v~r~-~~~~~~~~~~~g~~~A~~n~CpH~g~~L~~~-~-~~~~i~CP~Hg   82 (133)
T 1g8k_B            6 YPATAVSVAKNLAANEPVSFTYPDTSSPCVAVKL-GAPVPGGVGPDDDIVAYSVLCTHMGCPTSYD-S-SSKTFSCPCHF   82 (133)
T ss_dssp             CCCEEEEEGGGCCBTCCEEEECSSTTSEEEEEEC-SSCCTTCBTTTTCEEEEECBCTTTCCBCEEE-T-TTTEEECTTTC
T ss_pred             CCceeEEEHHHCCCCCeEEEEecCCCceEEEEEc-cccccccccCCCEEEEEeCcCCCCCCCCCcc-c-CCCEEECCCCC
Confidence            35899999999999999999985  999999996 4         899999999999999999974 3 36799999999


Q ss_pred             eEEcC--CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEE--CCeEEEe
Q 012708          161 WSFDG--CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS--QGLLFVW  207 (458)
Q Consensus       161 w~Fd~--~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~V~V~  207 (458)
                      |+||+  +|+|+..|..              ..|++|+|++.  +|.|||.
T Consensus        83 ~~Fd~~~~G~~~~gP~~--------------~~L~~~~v~v~~~g~~V~v~  119 (133)
T 1g8k_B           83 TEFDAEKAGQMICGEAT--------------ADLPRVLLRYDAASDALTAV  119 (133)
T ss_dssp             CEEEGGGTTEEEESSCS--------------SCCCEEEEEEETTTTEEEEE
T ss_pred             CEECCCCCCCEEcCCCC--------------CCCCEEEEEEECCCCEEEEE
Confidence            99999  8999988743              25899999999  6789985

>4aay_B AROB; oxidoreductase, rieske, iron sulfur, molybdopterin; HET: MGD; 2.70A {Rhizobium species}

Probab=99.79  E-value=1.4e-19  Score=165.68  Aligned_cols=99  Identities=22%  Similarity=0.234  Sum_probs=85.4

Q ss_pred             ceEEeeecCCCCCCCcEEEEECC--eEEEEEEEC--------CCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeE
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLG--RDLVLWFDN--------NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWS  162 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g--~~lvl~R~~--------~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~  162 (458)
                      -+..||.++||++|+.+.+++.|  ++++|+|..        .+|+++|++|+|||+|++|+.| . +++.|+||||||+
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            45579999999999999999975  589999951        2899999999999999999998 4 4679999999999


Q ss_pred             EcCC--CCeeecCCCCCCCcchhhcCCCCCCceeEeEEE-ECCeEEEe
Q 012708          163 FDGC--GSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFVW  207 (458)
Q Consensus       163 Fd~~--G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~V~V~  207 (458)
                      ||++  |+|+..|+.              ..|++|+|++ .+|.||+-
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  999998753              3589999999 68999854

>3azc_A Cytochrome B6-F complex iron-sulfur subunit; rieske, thermosynechococcus elongatu photosynthesis, electron transport; 2.00A {Thermosynechococcus elongatus}

Probab=99.67  E-value=5.2e-21  Score=167.51  Aligned_cols=102  Identities=17%  Similarity=0.203  Sum_probs=82.4

Q ss_pred             CceEEee-ecCCCCCCCcEEEE-ECCeEEEEEEECCCCe--EEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCC
Q 012708           92 DHWYPVS-LVEDLDPNLPTAFQ-LLGRDLVLWFDNNSNK--WVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCG  167 (458)
Q Consensus        92 ~~W~~v~-~~~dL~~g~~~~~~-~~g~~lvl~R~~~~G~--v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G  167 (458)
                      ..++.+. ..++|++|+.+.+. +.|.+++++|. .+|+  ++|+.|+|||||++|+.|. . ++.|+||||||+||.+|
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            4555544 55678888777766 44555566655 6898  9999999999999999987 3 57999999999999999


Q ss_pred             CeeecCCCCCCCcchhhcCCCCCCceeEeEEE-ECCeEEEecCC
Q 012708          168 SCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFVWPDE  210 (458)
Q Consensus       168 ~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~V~V~~~~  210 (458)
                      +|+.+|+.              .+|++|||++ ++|.|||.++.
T Consensus        91 ~~~~~P~~--------------~~L~~ypv~v~~~g~V~V~~~~  120 (133)
T 3azc_A           91 KVVRGPAP--------------LSLALVKATVTEDDKLVFTPWT  120 (133)
Confidence            99988743              2589999999 99999999864

>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=99.73  E-value=1.2e-17  Score=154.38  Aligned_cols=98  Identities=14%  Similarity=0.183  Sum_probs=83.1

Q ss_pred             CCceEEeeecCCCCCCCcEEEEECCeEEEEEEECC--------------------------CCeEEEEecCCCCCCCC-c
Q 012708           91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN--------------------------SNKWVAFDDKCPHRLAP-L  143 (458)
Q Consensus        91 ~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~--------------------------~G~v~A~~n~CpHrga~-L  143 (458)
                      ...|+.| .+++|++|+.+.+.+.|++++|+|. .                          +|+++|+.|+|+|+|+. |
T Consensus        60 a~~~v~V-~~s~l~~G~~~~v~~~g~pv~v~r~-~~~~i~~~~~~~~~~l~dp~~~~~r~~~g~~~a~~~iCtHlGc~p~  137 (185)
T 3cx5_E           60 AMAKVEV-NLAAIPLGKNVVVKWQGKPVFIRHR-TPHEIQEANSVDMSALKDPQTDADRVKDPQWLIMLGICTHLGCVPI  137 (185)
T ss_dssp             CCCCEEE-EGGGCCTTCEEEEEETTEEEEEEEC-CHHHHHHHHCSCGGGCSSCCCSTTTCSSTTEEEEECCCTTTSCCCE
T ss_pred             ccCcEEE-EHHHCCCCCeEEEEECCeEEEEEEC-CHHHhhhhhhcchhhhcCcccccccccCCeEEEEecccCCCCceec
Confidence            3579999 6999999999999999999999995 3                          59999999999999995 5


Q ss_pred             CCccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEE
Q 012708          144 SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFV  206 (458)
Q Consensus       144 ~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V  206 (458)
                      ..+ . +.+.|.||||||+||++|+|+..|..              ..|..+|+++.+|.|||
T Consensus       138 ~~~-~-~~~~~~CPcHGs~FD~~G~v~~gPa~--------------~~L~v~p~~v~~~~I~v  184 (185)
T 3cx5_E          138 GEA-G-DFGGWFCPCHGSHYDISGRIRKGPAP--------------LNLEIPAYEFDGDKVIV  184 (185)
T ss_dssp             EEE-T-TTTEEEETTTTEEECTTCCEEESSCC--------------SCCCCCCEEEETTEEEE
T ss_pred             cCC-C-CCCEEEcCCCCCEECCCCCEecCCCC--------------CCcceEEEEEECCEEEE
Confidence            543 2 35799999999999999999998743              24667777778999987

>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=99.73  E-value=6.5e-18  Score=157.34  Aligned_cols=94  Identities=20%  Similarity=0.288  Sum_probs=84.0

Q ss_pred             eeecCCCCCCCcEEEEECCeEEEEEEECC--------------------------CCeEEEEecCCCCCCCCcCCccccC
Q 012708           97 VSLVEDLDPNLPTAFQLLGRDLVLWFDNN--------------------------SNKWVAFDDKCPHRLAPLSEGRIDE  150 (458)
Q Consensus        97 v~~~~dL~~g~~~~~~~~g~~lvl~R~~~--------------------------~G~v~A~~n~CpHrga~L~~G~~~~  150 (458)
                      .+.+++|++|+.+.+.+.|++|+|+|. .                          +|+++|+.|+|||+|++|+.|..+ 
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            589999999999999999999999984 3                          899999999999999999998774 


Q ss_pred             CCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEE-ECCeEEE
Q 012708          151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFV  206 (458)
Q Consensus       151 ~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~V~V  206 (458)
                      .+.|.||||||+||.+|+++..|..              ..|..||+++ .+|.|+|
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            5789999999999999999998753              2588999998 7899987

>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=99.73  E-value=1e-17  Score=148.25  Aligned_cols=94  Identities=15%  Similarity=0.267  Sum_probs=81.5

Q ss_pred             eecCCCCCCCcEEEEECCeEEEEEEE---------------------------------------CCCCeEEEEecCCCC
Q 012708           98 SLVEDLDPNLPTAFQLLGRDLVLWFD---------------------------------------NNSNKWVAFDDKCPH  138 (458)
Q Consensus        98 ~~~~dL~~g~~~~~~~~g~~lvl~R~---------------------------------------~~~G~v~A~~n~CpH  138 (458)
                      ..+++|++|+.+++...|++|.|.|.                                       ..+|+++|+.|+|||
T Consensus         6 vd~s~l~~g~~~~v~wrgkPv~i~~rt~~~~~~~~~~~~~~l~Dp~~~~~~~p~~~y~~~~~R~~~~~g~~~a~~~~C~H   85 (141)
T 2nwf_A            6 VDVSSVEPGVQLTVKFLGKPIFIRRRTEADIELGRSVQLGQLVDTNARNANIDAGAEATDQNRTLDEAGEWLVMWGVCTH   85 (141)
T ss_dssp             EECTTCCTTEEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSCCBCCBTTSCTTCBCCGGGGSSSTTSCEEEEECCCTT
T ss_pred             EecccCCCCCEEEEEECCEEEEEEECCHHHHhhhhcccccccCCcccccccCCccccccchhccccCCCcEEEEeCcCCC
Confidence            46789999999999999999999983                                       017899999999999


Q ss_pred             CCCCcCC-ccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEE-ECCeEEE
Q 012708          139 RLAPLSE-GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMV-SQGLLFV  206 (458)
Q Consensus       139 rga~L~~-G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e-~~G~V~V  206 (458)
                      +|++|+. +.. +.+.|.||||||+||++|+|+..|..              ..|..||+++ .+|.|+|
T Consensus        86 ~G~~l~~~~~~-~~~~~~CP~Hgs~Fd~~G~~~~gPa~--------------~~L~~~pv~v~~d~~i~v  140 (141)
T 2nwf_A           86 LGCVPIGGVSG-DFGGWFCPCHGSHWDSAGRIRKGPAP--------------ENLPIPLAKFIDETTIQL  140 (141)
T ss_dssp             TCCCCEEEEET-TTTEEEETTTTEEECTTSCEEESSCC--------------SCCCBCSEEESSSSEEEE
T ss_pred             CCeEccccCcc-CCCEEEcCCCCCEECCCCCCccCCCC--------------CCCCceeEEEEECCEEEE
Confidence            9999998 655 35799999999999999999998753              2588999999 7999987

>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=99.73  E-value=1.2e-17  Score=154.60  Aligned_cols=99  Identities=16%  Similarity=0.275  Sum_probs=82.8

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEE------------------C---------------------CCCeEEEEe
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFD------------------N---------------------NSNKWVAFD  133 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~------------------~---------------------~~G~v~A~~  133 (458)
                      .|..| .+++|++|+.+.+.+.|++|+|+|.                  +                     .+|+++|+.
T Consensus        48 ~~v~v-~ls~l~~G~~~~v~~~g~pv~i~rrt~~~i~~~~~~~~~~l~dp~~~~~~~p~~~~~~~~~r~~~~~g~~~a~~  126 (187)
T 2qjy_C           48 ASIFV-DVSSVEPGVQLTVKFLGKPIFIRRRTEADIELGRSVQLGQLVDTNARNANIDAGAEATDQNRTLDEAGEWLVMW  126 (187)
T ss_dssp             CCEEE-ECTTCCTTEEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSCCBCCBTTSCTTCBCCGGGGSSSTTCCEEEEE
T ss_pred             ccEEE-EHHHCCCCCeEEEEECCEEEEEEECCHHHhhhhhccchhhccCcccccccccccccccccccccCCCCeEEEEe
Confidence            36654 8999999999999999999999992                  0                     279999999


Q ss_pred             cCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEE-CCeEEE
Q 012708          134 DKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS-QGLLFV  206 (458)
Q Consensus       134 n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~-~G~V~V  206 (458)
                      |+|||+|++|+.|..++.+.|.||||||+||++|+|+..|..              ..|..||+++. +|.|+|
T Consensus       127 ~~C~H~G~~l~~~~~g~~~~~~CP~Hg~~Fd~~G~~~~gPa~--------------~~L~~~~~~v~~d~~i~i  186 (187)
T 2qjy_C          127 GVCTHLGCSPIGGVSGDFGGWFCPCHGSHYDSAGRIRKGPAP--------------ENLPIPLAKFIDETTIQL  186 (187)
T ss_dssp             CCCTTTSCCCEEEEETTTTEEEETTTTEEECTTSCEEESSCC--------------SCCCBCSEEEEETTEEEE
T ss_pred             CccCCCCeECccCcCCCcCEEEeCCCCCEECCCCeEeCCCCC--------------CCCceEEEEEEeCCEEEE
Confidence            999999999998422224799999999999999999988743              25889999986 688887

>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=99.71  E-value=1.4e-17  Score=151.22  Aligned_cols=98  Identities=22%  Similarity=0.291  Sum_probs=75.7

Q ss_pred             ecCCCCCCCcEEEEECCeE-------------EEEEEECC------------CCeEEEEecCCCCCCCCcCCccccCCCe
Q 012708           99 LVEDLDPNLPTAFQLLGRD-------------LVLWFDNN------------SNKWVAFDDKCPHRLAPLSEGRIDENGH  153 (458)
Q Consensus        99 ~~~dL~~g~~~~~~~~g~~-------------lvl~R~~~------------~G~v~A~~n~CpHrga~L~~G~~~~~~~  153 (458)
                      ..++|++|+.+.+..-|.+             +++.|- .            .+.++||.|+|||+|++|+.|.++ ++.
T Consensus        26 ~~sdl~~G~~~~~~~~g~p~~~~~r~~~~~~~~~~~~~-~p~~~~~~~~~~~~~gv~A~~~~CpH~G~~L~~g~~~-~~~  103 (165)
T 1nyk_A           26 RLEELKPGDPFVLAYPMDPKTKVVKSGEAKNTLLVARF-DPEELAPEVAQHAAEGVVAYSAVCTHLGCIVSQWVAD-EEA  103 (165)
T ss_dssp             BGGGCCTTSCCEEEEEECTTTCCBCTTSGGGCEEEEEC-CGGGSCHHHHTTCBTTEEEEECBCTTTCCBCCEEEGG-GTE
T ss_pred             cHHHCCCCCEEEEEeCCCcchhhccCcchhcchheecc-ChhhcCccccccccCCEEEEEeecCCCCeEcccccCC-CCE
Confidence            5666777776666543332             445552 1            233999999999999999998885 679


Q ss_pred             EEcCCCCeEEcCC-CC-eeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          154 LQCSYHGWSFDGC-GS-CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       154 l~CpyHGw~Fd~~-G~-~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      |+||||||+||++ |. |+..|+.              .+|..|++++++|.|||+++...
T Consensus       104 i~CP~Hgs~Fd~~tG~~~~~gPa~--------------~~L~~~~v~v~~g~V~v~~~~~~  150 (165)
T 1nyk_A          104 ALCPCHGGVYDLRHGAQVIAGPPP--------------RPVPQLPVRVEDGVLVAAGEFLG  150 (165)
T ss_dssp             EECTTTCCEEEGGGTTEEEESSCS--------------SCCCEECEEEETTEEEECSSCSS
T ss_pred             EECCCCCCEEcCCCCCeeecCCCC--------------CCCcEEEEEEECCEEEEEecCcc
Confidence            9999999999994 86 9988742              36899999999999999997643

>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=99.67  E-value=3.9e-18  Score=157.07  Aligned_cols=92  Identities=16%  Similarity=0.261  Sum_probs=80.3

Q ss_pred             cCCCCCCCcEEEE-ECCeEEEEEEECCCCeE--EEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeecCCCC
Q 012708          100 VEDLDPNLPTAFQ-LLGRDLVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA  176 (458)
Q Consensus       100 ~~dL~~g~~~~~~-~~g~~lvl~R~~~~G~v--~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~  176 (458)
                      .++|++|+.+.+. +.|++++++|+ .+|++  +|+.|+|||+|++|+.+..  ++.|.||||||+||.+|+|+..|.. 
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            4678888887776 77899999998 89998  9999999999999998873  5789999999999999999987742 


Q ss_pred             CCCcchhhcCCCCCCceeEeEEEECCeEEEec
Q 012708          177 SEGPEARAIQSPRACATRFPTMVSQGLLFVWP  208 (458)
Q Consensus       177 ~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~  208 (458)
                                   ..|..||+++++|.|||.+
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                         3589999999999999876

>1jm1_A Rieske iron-sulfur protein SOXF; electron transport, respiratory chain, oxidoreductase; 1.11A {Sulfolobus acidocaldarius} SCOP: b.33.1.1

Probab=99.57  E-value=5.1e-16  Score=145.44  Aligned_cols=86  Identities=16%  Similarity=0.169  Sum_probs=71.9

Q ss_pred             cEEEEECCeEEEEEEECC------------CCeEEEEecCCCCCCCCcCCccc----------cCCCeEEcCCCCeEEcC
Q 012708          108 PTAFQLLGRDLVLWFDNN------------SNKWVAFDDKCPHRLAPLSEGRI----------DENGHLQCSYHGWSFDG  165 (458)
Q Consensus       108 ~~~~~~~g~~lvl~R~~~------------~G~v~A~~n~CpHrga~L~~G~~----------~~~~~l~CpyHGw~Fd~  165 (458)
                      .+.+++.+.+++++|+ .            +|+++|+.|+|||+|++|+.|.+          .+++.|+||||||+||+
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            3567788888888886 4            79999999999999999998863          23679999999999999


Q ss_pred             C--CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEE--CCeEEEec
Q 012708          166 C--GSCTRIPQAASEGPEARAIQSPRACATRFPTMVS--QGLLFVWP  208 (458)
Q Consensus       166 ~--G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~V~V~~  208 (458)
                      +  |+|+..|..              ..|+.|++.++  +|.|||..
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  699988743              24788888887  89999876

---

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	458
d1z01a1	148	b.33.1.2 (A:16-163) 2-oxo-1,2-dihydroquinoline 8-m	7e-24
d2de6a1	142	b.33.1.2 (A:1-142) Terminal oxygenase component of	1e-23
d1fqta_	109	b.33.1.1 (A:) Rieske-type ferredoxin associated wi	2e-15
d1vm9a_	109	b.33.1.1 (A:) Toluene-4-monooxygenase system prote	1e-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	1e-12
d1rfsa_	127	b.33.1.1 (A:) ISP subunit from chloroplast cytochr	1e-10
d3c0da1	108	b.33.1.3 (A:4-111) NADH-nitrite reductase small su	3e-10
d1ulia1	154	b.33.1.2 (A:17-170) Biphenyl dioxygenase large sub	5e-10
d2b1xa1	162	b.33.1.2 (A:1-162) Naphthalene 1,2-dioxygenase alp	8e-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	7e-08
d1z01a2	279	d.129.3.3 (A:164-442) 2-oxo-1,2-dihydroquinoline 8	2e-07
d1g8kb_	133	b.33.1.1 (B:) Arsenite oxidase Rieske subunit {Alc	4e-07
d1nyka_	156	b.33.1.1 (A:) Soluble Rieske protein {Thermus ther	8e-06

>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 = 7e-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 = 94.0 bits (233), Expect = 1e-23
 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 = 2e-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 = 64.7 bits (157), Expect = 1e-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 = 62.3 bits (150), Expect = 1e-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 = 57.0 bits (137), 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

>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 = 55.2 bits (132), 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

>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 = 5e-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

>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 = 8e-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 = 7e-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

>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 = 50.1 bits (119), Expect = 2e-07
 Identities = 32/257 (12%), Positives = 63/257 (24%), Gaps = 40/257 (15%)

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 KLPVVGDQKW-------IIWICSFNVPMAPGK-----------TRSIVCSARNFFQFTMP 358
           +L +  +          ++      V   P +           T           +    
Sbjct: 116 ELGLKVEGLKGRHYRTSVVLPGVLMVENWPEEHVVQYEWYVPITDDTHEYWEILVRVCPT 175

Query: 359 GPAWWQVVPRWHEHWTS---NKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTP 415
                +   R+   +     +   D D+   +  +  +           + E        
Sbjct: 176 DEDRKKFQYRYDHMYKPLCLHGFNDSDLYAREAMQNFYYDGT-----GWDDEQ------L 224

Query: 416 TQADRLVLAFRNWLRRH 432
              D   + +R    R 
Sbjct: 225 VATDISPITWRKLASRW 241

>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 = 46.9 bits (111), Expect = 4e-07
 Identities = 20/97 (20%), Positives = 29/97 (29%), Gaps = 15/97 (15%)

Query: 95  YPVSLV---EDLDPNLPTAFQLLGRD----------LVLWFDNNSNKWVAFDDKCPHRLA 141
           YP + V   ++L  N P +F                 V       +  VA+   C H   
Sbjct: 6   YPATAVSVAKNLAANEPVSFTYPDTSSPCVAVKLGAPVPGGVGPDDDIVAYSVLCTHMGC 65

Query: 142 PLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASE 178
           P S      +    C  H   FD   +   I   A+ 
Sbjct: 66  PTSYDS--SSKTFSCPCHFTEFDAEKAGQMICGEATA 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 = 43.5 bits (102), 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

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	458
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
d2jo6a1	108	NADH-nitrite reductase small subunit NirD {Escheri	99.92
d1vm9a_	109	Toluene-4-monooxygenase system protein C, TmoC {Ps	99.92
d1fqta_	109	Rieske-type ferredoxin associated with biphenyl di	99.92
d3c0da1	108	NADH-nitrite reductase small subunit NirD {Vibrio	99.9
d1rfsa_	127	ISP subunit from chloroplast cytochrome bf complex	99.76
d1g8kb_	133	Arsenite oxidase Rieske subunit {Alcaligenes faeca	99.7
d2e74d1	134	ISP subunit from the cytochrome b6f complex, solub	99.68
d1z01a2	279	2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygen	99.54
d1nyka_	156	Soluble Rieske protein {Thermus thermophilus [TaxI	99.52
d3cx5e1	129	ISP subunit of the mitochondrial cytochrome bc1-co	99.17
d1riea_	127	ISP subunit of the mitochondrial cytochrome bc1-co	99.04
d1jm1a_	202	Rieske protein II (SoxF) {Archaeon Sulfolobus acid	98.79
d2de6a2	242	Terminal oxygenase component of carbazole CarAa {J	97.99
d2b1xa2	279	Naphthalene 1,2-dioxygenase alpha subunit, C-domai	97.97
d2bmoa2	287	Nitrobenzene dioxygenase alpha subunit, NBDO-alpha	97.94
d1wqla2	279	Large subunit of cumene dioxygenase cumA1 {Pseudom	97.6
d1ulia2	281	Biphenyl dioxygenase large subunit BphA1, C-termin	97.49

>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=1.2e-36  Score=272.00  Aligned_cols=142  Identities=15%  Similarity=0.252  Sum_probs=124.6

Q ss_pred             cCCccccCCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCC
Q 012708           64 RKDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP  142 (458)
Q Consensus        64 ~~~~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~  142 (458)
                      ....+||.+.|+|+++++.|++.  +|++.|++||++++|+ +|++++++++|++|+|+|+ ++|+++||.|+|||||++
T Consensus        12 ~~~~~l~~~~Y~~~~~~~~E~~~--if~~~W~~v~~~~el~~~g~~~~~~i~~~~ilv~R~-~~g~i~af~N~C~HRG~~   88 (154)
T d1ulia1          12 ERTGRLDPRIYTDEALYEQELER--IFGRSWLLMGHETQIPKAGDFMTNYMGEDPVMVVRQ-KNGEIRVFLNQCRHRGMR   88 (154)
T ss_dssp             TTTTEECGGGGTCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESCCTTTCCC
T ss_pred             hhcCcCCHHHcCCHHHHHHHHHH--HhccCCEEEEEhhhCCCCcceeeeecCCcceeEEee-cccceeeeecccccCCce
Confidence            34567999999999999999866  6799999999999998 4999999999999999999 899999999999999999


Q ss_pred             cCCccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCC
Q 012708          143 LSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (458)
Q Consensus       143 L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~  211 (458)
                      |+.|..+.++.|+||||||+||.+|+|+.+|......+.   ....+.+|..++|++++|+||||++++
T Consensus        89 L~~~~~g~~~~l~CpYHgW~f~~~G~~~~iP~~~~~~~~---~~~~~~~L~~~~v~~~~G~Ifv~~d~D  154 (154)
T d1ulia1          89 ICRADGGNAKSFTCSYHGWAYDTGGNLVSVPFEEQAFPG---LRKEDWGPLQARVETYKGLIFANWDAD  154 (154)
T ss_dssp             SCCSSEEECSCEECTTTCCEECTTCCEEECTTHHHHCTT---CCGGGSSCCEEEEEEETTEEEEECCTT
T ss_pred             eeecCCCccceEEeeeceeEEecCCccccCCcccccCCC---CChHHCCCeEEeEEEECCEEEEEeCCC
Confidence            998776556789999999999999999999975442221   134567899999999999999999863

>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=2.9e-35  Score=265.07  Aligned_cols=141  Identities=16%  Similarity=0.292  Sum_probs=122.2

Q ss_pred             CccccCCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcC
Q 012708           66 DEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS  144 (458)
Q Consensus        66 ~~~~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~  144 (458)
                      ...+|..+|+|+++++.|++.  +|.+.|++||+++||+ +|+++++.++|++|||+|+ .+|+++||.|+|||||++|+
T Consensus        20 ~~~lP~~~Y~d~~~f~~E~~~--if~~~W~~v~~~~el~~~g~~~~~~~~~~~~vv~R~-~dG~i~a~~N~C~HRG~~l~   96 (162)
T d2b1xa1          20 DWTVPAAIINDPEVHDVERER--IFGHAWVFLAHESEIPERGDYVVRYISEDQFIVCRD-EGGEIRGHLNACRHRGMQVC   96 (162)
T ss_dssp             TCEEEGGGSSCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESSCTTTCCCSC
T ss_pred             cccCCHHHcCCHHHHHHHHHH--HHcCCCEEEEEHHHcCCccceeeEeecCCceEEEec-CCcceEEeecccccCccccc
Confidence            346899999999999999866  6699999999999998 5999999999999999999 89999999999999999999


Q ss_pred             CccccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEe-EEEECCeEEEecCCC
Q 012708          145 EGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFP-TMVSQGLLFVWPDEY  211 (458)
Q Consensus       145 ~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~p-v~e~~G~V~V~~~~~  211 (458)
                      .|..+.++.|+||||||+||.+|+|+.+|......+.  .+.....+|..++ |++++|+|||++|++
T Consensus        97 ~~~~g~~~~i~CpYHgW~yd~~G~l~~~P~~~~~~~~--~~~~~~~~L~~~~~v~~~~GlIfv~ldPn  162 (162)
T d2b1xa1          97 RAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGN--QLKKSDWNLRPMPNLASYKGLIFGSLDPH  162 (162)
T ss_dssp             CSSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTT--CCCGGGGSCCBCSEEEEETTEEEEESCTT
T ss_pred             ccccCccccccCCCceeEEcCCCCeEECCCcccCCCC--CCChhhcCCeeeeeEEEECCEEEEEcCCC
Confidence            9876557789999999999999999999976543221  1234456788885 899999999999864

>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=1e-34  Score=257.97  Aligned_cols=137  Identities=17%  Similarity=0.254  Sum_probs=119.3

Q ss_pred             ccCCCccCccccccccccccccCCceEEeeecCCCC-CCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCcc
Q 012708           69 EDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR  147 (458)
Q Consensus        69 ~~~~~y~~~~~~~~e~~~~~~~~~~W~~v~~~~dL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~  147 (458)
                      .+...|+|+++|+.|.+.  +|.+.|++||+++||+ +|++++++++|++|+|+|+ .+|+++||.|+|||||++|+.|.
T Consensus        12 ~~~~~y~D~~~f~~E~~~--if~~~W~~v~~~~elp~~Gd~~~~~i~~~~~vv~R~-~dg~i~af~N~C~HRG~~L~~~~   88 (150)
T d2bmoa1          12 QKLLIHGDKELFQHELKT--IFARNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQ-NDGSVRAFLNVCRHRGKTLVHAE   88 (150)
T ss_dssp             EEGGGGTCHHHHHHHHHH--TTTTSCEEEEEGGGSCSTTEEEEEEETTEEEEEEEC-TTSCEEEEESBCTTTCCBCCCSS
T ss_pred             CCccccCCHHHHHHHHHH--HHHcCCeEeehHHHcCCCcceeeeeecCceeEEEec-CCCchhhhhhhcccccccccccc
Confidence            355689999999999876  6799999999999998 5999999999999999999 89999999999999999999998


Q ss_pred             ccCCCeEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEe-EEEECCeEEEecCC
Q 012708          148 IDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFP-TMVSQGLLFVWPDE  210 (458)
Q Consensus       148 ~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~p-v~e~~G~V~V~~~~  210 (458)
                      .+..+.|+||||||+||.+|+|+.+|......+.  .+.....+|..+| |++++|+|||++|.
T Consensus        89 ~g~~~~i~CpYHgW~yd~~G~l~~~P~~~~~~~~--~~~~~~~~L~~~~~ve~~~G~Ifv~lda  150 (150)
T d2bmoa1          89 AGNAKGFVCGYHGWGYGSNGELQSVPFEKELYGD--AIKKKCLGLKEVPRIESFHGFIYGCFDA  150 (150)
T ss_dssp             EEECSEEECTTTCCEEETTSCEEECTTHHHHTGG--GCCGGGCCCCBCSEEEEETTEEEEESCT
T ss_pred             cccccceEecccceeeccccchhcCCCccccCCC--CCChhhCCCcccceEEEECCEEEEecCC
Confidence            7556799999999999999999999976543211  1234567899997 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=8.9e-32  Score=237.30  Aligned_cols=118  Identities=25%  Similarity=0.522  Sum_probs=104.3

Q ss_pred             cccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCcccc-CCCeEEcCCCCeEEc
Q 012708           86 SKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID-ENGHLQCSYHGWSFD  164 (458)
Q Consensus        86 ~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~-~~~~l~CpyHGw~Fd  164 (458)
                      .++.|+++|++||+++||++|+++.++++|++|+|+|+  +|+++||.|+|||||++|+.|... .+++|+||||||+||
T Consensus        21 ~~~~f~~~W~~v~~~~el~~g~~~~~~i~g~~ivv~r~--~g~v~a~~n~CpHrga~L~~g~~~~~~~~i~Cp~Hgw~fd   98 (142)
T d2de6a1          21 AKLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNRI--DGKLYCLKDRCLHRGVQLSVKVECKTKSTITCWYHAWTYR   98 (142)
T ss_dssp             CTTCBSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEEE--TTEEEEEESSCTTTCCCGGGGCCCCSTTEEECTTTCEEEE
T ss_pred             hhcCCcccCEEEEEHHHCCCCCeEEEEECCEEEEEEEc--CCEEEEEeCccCCCCccCCccccccccCEEeccceeeEEe
Confidence            35678999999999999999999999999999999996  799999999999999999988643 356899999999999


Q ss_pred             C-CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCC
Q 012708          165 G-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (458)
Q Consensus       165 ~-~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~  211 (458)
                      + +|.|+.+|..+....      ..+.+|++|||+|++|+|||++++.
T Consensus        99 l~~G~~~~~p~~~~~~~------~~~~~l~~y~v~e~~G~I~v~l~d~  140 (142)
T d2de6a1          99 WEDGVLCDILTNPTSAQ------IGRQKLKTYPVQEAKGCVFIYLGDG  140 (142)
T ss_dssp             TTTCBEEEETTCTTCTT------TTSCBCCBCCEEEETTEEEEEESSS
T ss_pred             ccCCceEecCCCcccCC------ccccCCCEEeEEEECCEEEEEeCCC
Confidence            8 799999998755432      3466899999999999999999764

>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=8.2e-31  Score=232.68  Aligned_cols=119  Identities=27%  Similarity=0.503  Sum_probs=103.5

Q ss_pred             cccccCCceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCcccc-CCCeEEcCCCCeEEc
Q 012708           86 SKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID-ENGHLQCSYHGWSFD  164 (458)
Q Consensus        86 ~~~~~~~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~-~~~~l~CpyHGw~Fd  164 (458)
                      .+..|.++|++||.++||++|+++.++++|++|||+|  .+|+++||.|+|||||++|+.|.+. .++.|+||||||+||
T Consensus        21 ~~~~~~~~W~~v~~~~el~~g~~~~~~i~g~~vvl~~--~~g~i~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~fd   98 (148)
T d1z01a1          21 AAWGFINHWYPALFTHELEEDQVQGIQICGVPIVLRR--VNGKVFALKDQCLHRGVRLSEKPTCFTKSTISCWYHGFTFD   98 (148)
T ss_dssp             CTTCBCSEEEEEEEGGGSCBTCEEEEEETTEEEEEEE--ETTEEEEEESSCTTTCCCGGGSCCCSSTTEEECTTTCEEEE
T ss_pred             hhcCcccccEEEEEHHHCCCCCeEEEEECCEEEEEEE--ECCEEEEEEeecCccccEeEccccccccCEEEecccCCEEe
Confidence            3445789999999999999999999999999999877  4899999999999999999998742 467999999999999


Q ss_pred             C-CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          165 G-CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       165 ~-~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      + +|.|..+|..+...      .+.+.+|++|+|+|++|+||||+++++
T Consensus        99 ~~~G~~~~~p~~~~~~------~~~~~~l~~y~v~~~~g~I~v~l~~~~  141 (148)
T d1z01a1          99 LETGKLVTIVANPEDK------LIGTTGVTTYPVHEVNGMIFVFVREDD  141 (148)
T ss_dssp             TTTCBEEEETTCTTCT------TTTSCBCCEECEEEETTEEEEEECCTT
T ss_pred             cCcceEeccccccccc------CCccCCcceEEEEEECCEEEEEeCCCC
Confidence            8 59999998765432      245778999999999999999998754

>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=1.7e-26  Score=198.08  Aligned_cols=106  Identities=16%  Similarity=0.229  Sum_probs=93.0

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCC-cCCcccc---CCCeEEcCCCCeEEcC-C
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRID---ENGHLQCSYHGWSFDG-C  166 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~-L~~G~~~---~~~~l~CpyHGw~Fd~-~  166 (458)
                      ..|+.||.++||++|+.+.+++.|++|+|||.+.+|+++|++|+|||+|++ |+.|.+.   +++.|+||||||+||+ +
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            479999999999999999999999999999952478999999999999998 7888763   2347999999999998 7


Q ss_pred             CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       167 G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      |+|+..|.               .+|++|+|++++|.|||++.+..
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

>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=99.92  E-value=8.9e-26  Score=189.38  Aligned_cols=101  Identities=18%  Similarity=0.260  Sum_probs=88.0

Q ss_pred             CceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCC-cCCccccC---CCeEEcCCCCeEEcC-C
Q 012708           92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRIDE---NGHLQCSYHGWSFDG-C  166 (458)
Q Consensus        92 ~~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~-L~~G~~~~---~~~l~CpyHGw~Fd~-~  166 (458)
                      ..|++||.++||++|+.+.+.++|++|+|||...+|+++|++|+|||+|++ |+.|.+.+   +..|+||||||+||+ +
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            479999999999999999999999999999942579999999999999998 77776632   236999999999998 8


Q ss_pred             CCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEe
Q 012708          167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW  207 (458)
Q Consensus       167 G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~  207 (458)
                      |+|+..|.               .+|++|||++++|.|||.
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            99986542               368999999999999984

>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=1.5e-25  Score=188.25  Aligned_cols=103  Identities=20%  Similarity=0.378  Sum_probs=92.4

Q ss_pred             ceEEeeecCCCCCCCcEEEEE-CCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCee
Q 012708           93 HWYPVSLVEDLDPNLPTAFQL-LGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCT  170 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~-~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~  170 (458)
                      .|..||.++||++|+.+.+.+ .|++++|+|. .+|+++|+.|+|||||++|+.|.+. ++.|+||||||+||+ +|+|+
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            599999999999999999998 4799999998 8999999999999999999999986 689999999999998 79887


Q ss_pred             ecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                      ..               +..+|++|+|++++|.|||++++..
T Consensus        79 ~p---------------~~~~L~~~~v~v~~g~v~V~~~~~~  105 (109)
T d1vm9a_          79 NP---------------DDAALAEYPVEVKGDDIYVSTKGIL  105 (109)
T ss_dssp             SS---------------SSCBCCEECEEEETTEEEECCTTCC
T ss_pred             CC---------------CCCCccEEeEEEECCEEEEEeCCCC
Confidence            42               2346999999999999999996543

>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=99.92  E-value=4.7e-25  Score=185.23  Aligned_cols=103  Identities=19%  Similarity=0.232  Sum_probs=93.9

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC-CCCeee
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR  171 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~-~G~~~~  171 (458)
                      .|+.||.++||++|+.+.+++.|++|+|+|.  +|+++|++|+|||+|++|+.|.+.+++.|+||||||+||+ +|+|+.
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            6999999999999999999999999999996  6899999999999999999887545779999999999998 899998


Q ss_pred             cCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecCCC
Q 012708          172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY  211 (458)
Q Consensus       172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~  211 (458)
                      .|..              ..|++|+|++++|.|||+++.+
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            7743              2588999999999999999864

>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=1.3e-24  Score=182.12  Aligned_cols=101  Identities=15%  Similarity=0.173  Sum_probs=88.1

Q ss_pred             ceEEeeecCCCCCCCcEEEEECCeEEEEEEECCCCeEEEEecCCCCCCCCcCCccc-c---CCCeEEcCCCCeEEcC-CC
Q 012708           93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI-D---ENGHLQCSYHGWSFDG-CG  167 (458)
Q Consensus        93 ~W~~v~~~~dL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~-~---~~~~l~CpyHGw~Fd~-~G  167 (458)
                      .|+.||.++||++|+.+.+.+.|++|+|||. .+|+++|++|+|||+|++|..+.+ .   ++..|+||||||+||+ +|
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 799999999999999999765443 2   2346999999999998 89


Q ss_pred             CeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEEecC
Q 012708          168 SCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD  209 (458)
Q Consensus       168 ~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~  209 (458)
                      +|+..|.               .+|++|||++++|.|||...
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=3.1e-19  Score=152.98  Aligned_cols=97  Identities=18%  Similarity=0.205  Sum_probs=77.6

Q ss_pred             cCCCCCCCcEEEE-ECCeEEEEEEEC-CCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeecCCCCC
Q 012708          100 VEDLDPNLPTAFQ-LLGRDLVLWFDN-NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAS  177 (458)
Q Consensus       100 ~~dL~~g~~~~~~-~~g~~lvl~R~~-~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~  177 (458)
                      ..+.++|+...+. +.|++++|++.+ .+|+++||+|+|||+|++|..|..  ++.|+||||||+||.+|+|+..|..  
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            3456667765554 677776666651 344899999999999999998865  4699999999999999999998753  


Q ss_pred             CCcchhhcCCCCCCceeEeEEEECCeEEEecCCCc
Q 012708          178 EGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG  212 (458)
Q Consensus       178 ~~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~~~  212 (458)
                                  ..|.+|+|++++|.|||....+.
T Consensus        93 ------------~~L~~~~v~v~~g~i~v~~~~~~  115 (127)
T d1rfsa_          93 ------------LSLALAHCDVDDGKVVFVPWTET  115 (127)
T ss_dssp             ------------SCCCEEEEEEETTEEEEEECCSC
T ss_pred             ------------CCcceEeEEEECCEEEEEcCCcc
Confidence                        35899999999999999986543

>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=99.70  E-value=8.6e-18  Score=144.89  Aligned_cols=91  Identities=22%  Similarity=0.224  Sum_probs=75.6

Q ss_pred             EEeeecCCCCCCCcEEEEE--CCeEEEEEEEC--------CCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEc
Q 012708           95 YPVSLVEDLDPNLPTAFQL--LGRDLVLWFDN--------NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFD  164 (458)
Q Consensus        95 ~~v~~~~dL~~g~~~~~~~--~g~~lvl~R~~--------~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd  164 (458)
                      ..|+.+++|++|+++.+..  .+.+.+++|..        .+|+++||+|+|||+|++|+.+..  ++.|+||||||+||
T Consensus         9 ~~v~~~~~l~~~~p~~f~yp~~~~p~~lVr~g~~v~~~~g~~g~i~A~~~~CpH~g~~l~~~~~--~~~i~Cp~Hg~~Fd   86 (133)
T d1g8kb_           9 TAVSVAKNLAANEPVSFTYPDTSSPCVAVKLGAPVPGGVGPDDDIVAYSVLCTHMGCPTSYDSS--SKTFSCPCHFTEFD   86 (133)
T ss_dssp             EEEEEGGGCCBTCCEEEECSSTTSEEEEEECSSCCTTCBTTTTCEEEEECBCTTTCCBCEEETT--TTEEECTTTCCEEE
T ss_pred             hheEEHHHCCCCCCEEEeccCCCCCEEEEEcCCceeEEECCCCEEEEEehhcCCCCcccccCcc--cCEEECCCCCeEEe
Confidence            3499999999999999885  78899999852        258999999999999999997754  56999999999999


Q ss_pred             C--CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEEC
Q 012708          165 G--CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ  201 (458)
Q Consensus       165 ~--~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~  201 (458)
                      +  +|+|+..|...              .|+.|++++.+
T Consensus        87 ~~~~G~~~~gPa~~--------------~L~~~~v~ve~  111 (133)
T d1g8kb_          87 AEKAGQMICGEATA--------------DLPRVLLRYDA  111 (133)
T ss_dssp             GGGTTEEEESSCSS--------------CCCEEEEEEET
T ss_pred             cCCCceEeCCCCCC--------------CCCeEeEEEEC
Confidence            7  59999887542              36777777664

>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=99.68  E-value=1.2e-17  Score=144.46  Aligned_cols=92  Identities=15%  Similarity=0.198  Sum_probs=70.4

Q ss_pred             CCCCCCcE-EEEECCeE--EEEEEECCCCeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcCCCCeeecCCCCCC
Q 012708          102 DLDPNLPT-AFQLLGRD--LVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASE  178 (458)
Q Consensus       102 dL~~g~~~-~~~~~g~~--lvl~R~~~~G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~~G~~~~iP~~~~~  178 (458)
                      ..++|... ...+.|.+  +++.|+ .+|+++||+|+|||+|++|+.|..  ++.|+||||||+||.+|+|+..|..   
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            33445443 44455666  555577 789999999999999999999875  4689999999999999999987743   


Q ss_pred             CcchhhcCCCCCCceeEeEEEECCeEEEecCC
Q 012708          179 GPEARAIQSPRACATRFPTMVSQGLLFVWPDE  210 (458)
Q Consensus       179 ~~~~~~~~~~~~~l~~~pv~e~~G~V~V~~~~  210 (458)
                                 .+|++|+|++.+|.|||.+..
T Consensus       101 -----------~~L~~y~v~v~~~~i~V~p~~  121 (134)
T d2e74d1         101 -----------LSLALCHATVQDDNIVLTPWT  121 (134)
T ss_dssp             -----------SCCCEEEEECCTTSCEEEECC
T ss_pred             -----------CCcceeeEEEECCEEEEeCCc
Confidence                       358999999999999998754

>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=99.54  E-value=2.6e-14  Score=138.10  Aligned_cols=206  Identities=15%  Similarity=0.151  Sum_probs=120.5

Q ss_pred             CCeEEEecCCCcccccccCCCCCCCCCCCCCCCceEEEEEEEecChhhhhhhccCCCcccccccccccCcC--CCCCccE
Q 012708          201 QGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRD--RAKPLPF  278 (458)
Q Consensus       201 ~G~V~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~~~~--~~~~~~~  278 (458)
                      +|++||+++..+.  .+..+.|.+| .|.+++.........+.|||...+||.+|++|+ |+|.+..+...  ......+
T Consensus         4 ~~~~~~~~~~~~~--~~~p~~p~~p-~~~~~~~~~~~~~~~~~~NWlQ~~En~iD~aH~-fLH~~s~~~~~~d~~~~~g~   79 (279)
T d1z01a2           4 HDLPFRFPERSEQ--FPHPLWPSSP-SVLDDNAVVHGMHRTGFGNWRIACENGFDNAHI-LVHKDNTIVHAMDWVLPLGL   79 (279)
T ss_dssp             GGSCCCTTTTTTT--SCCTTSCCCC-CTTSTTEEEEEEEEEEESCHHHHHTTTTCTTGG-GGGTTCHHHHHTTCCCCSEE
T ss_pred             cCCceecCCcccc--CCCCCCCCCC-cccCCCceEEEEEEEeecchhhhhhcCcChhhe-eeeccccccccccccccccc
Confidence            5889999876552  2333445566 577888877777888999999999999999998 99997643211  1111111


Q ss_pred             EEe----------ecCccc--------------------eeeecCCCCcEEEEEEcceeeeEEEEEcccCcccCCCcEEE
Q 012708          279 KLE----------SSGHWG--------------------FAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVVGDQKWII  328 (458)
Q Consensus       279 ~~~----------~~~~~g--------------------f~~~~~~~~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~  328 (458)
                      +-.          .....|                    +.............+..||+.+..    . .|  ...   +
T Consensus        80 ~~~~~~~~~~~~~~~~p~g~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~P~~~~v~----~-~p--~~~---~  149 (279)
T d1z01a2          80 LPTSDDCIAVVEDDDGPKGMMQWLFTDKWAPVLENQELGLKVEGLKGRHYRTSVVLPGVLMVE----N-WP--EEH---V  149 (279)
T ss_dssp             EECSTTSEEEECCSSSCCEEEECTTSTTEEEECEETTTTEECCCCCCCCCEEEEETTTEEEEE----T-CS--STT---C
T ss_pred             ccccccccceeeccCCCcceeeeeccccccceeecccCceecccccccccccceecCceeecc----C-CC--CCC---c
Confidence            100          001111                    110001111223567778775421    0 01  222   1


Q ss_pred             EEEEEEeecCCCeEEEEEEeeccccccCCCC--cccc-cchhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCcccc
Q 012708          329 WICSFNVPMAPGKTRSIVCSARNFFQFTMPG--PAWW-QVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVN  405 (458)
Q Consensus       329 ~i~~~~tPv~p~~trv~~~~~R~f~~~~~p~--~~~~-~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~  405 (458)
                      .+..+++|+++++|++++.++|.+..   +.  ..|. +....|.. ..-..+..||+.++|+|++.+.....       
T Consensus       150 ~~~~w~VPIDD~~t~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~-~~~~g~~~qD~~a~es~gpi~~~~~d-------  218 (279)
T d1z01a2         150 VQYEWYVPITDDTHEYWEILVRVCPT---DEDRKKFQYRYDHMYKP-LCLHGFNDSDLYAREAMQNFYYDGTG-------  218 (279)
T ss_dssp             EEEEEEEESSSSEEEEEEEEEEECCS---HHHHHHHHHHHHTTHHH-HTTTTHHHHHHHHHHHHHHHHHTSHH-------
T ss_pred             eEEEEEcccCCCcEEEEEEEeecCCC---hhhhhHHHHHHHHhhcc-cccCCCchhhHHHHHccCcccccCCC-------
Confidence            23345699999999988877776521   11  0111 11111111 12334668999999999998643210       


Q ss_pred             ccccccccccCcccHHHHHHHHHHHHhcCC
Q 012708          406 KEYTKITFTPTQADRLVLAFRNWLRRHGNS  435 (458)
Q Consensus       406 ~~~~~~~~~~~~aD~~v~afRrwl~~~~~~  435 (458)
                        |++  ..+.++|++|+.|||.|++...+
T Consensus       219 --rt~--E~L~~sD~~Iv~~Rrll~~~~r~  244 (279)
T d1z01a2         219 --WDD--EQLVATDISPITWRKLASRWNRG  244 (279)
T ss_dssp             --HHH--CCCCGGGHHHHHHHHHHHHHCSC
T ss_pred             --Ccc--cccccccHHHHHHHHHHHHHHHh
Confidence              111  35688999999999999998655

>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=99.52  E-value=9e-15  Score=129.32  Aligned_cols=69  Identities=22%  Similarity=0.278  Sum_probs=58.8

Q ss_pred             CeEEEEecCCCCCCCCcCCccccCCCeEEcCCCCeEEcC--CCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeE
Q 012708          127 NKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG--CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLL  204 (458)
Q Consensus       127 G~v~A~~n~CpHrga~L~~G~~~~~~~l~CpyHGw~Fd~--~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V  204 (458)
                      +.|+||.|+|+|+|++|+.+... ++.|.||||||+||.  +|+++..|..              ..|.+|++++++|.|
T Consensus        78 d~i~A~~~~CtH~g~~l~~~~~~-~~~~~Cp~Hgs~FD~~~gg~v~~gPa~--------------~~L~~~~~~~~~g~i  142 (156)
T d1nyka_          78 EGVVAYSAVCTHLGCIVSQWVAD-EEAALCPCHGGVYDLRHGAQVIAGPPP--------------RPVPQLPVRVEDGVL  142 (156)
T ss_dssp             TTEEEEECBCTTTCCBCCEEEGG-GTEEECTTTCCEEEGGGTTEEEESSCS--------------SCCCEECEEEETTEE
T ss_pred             CcEEEEcccCccccccccccccc-CCeeeccccceEEecCCCceEeCCCCC--------------CCCCEEEEEEECCEE
Confidence            45899999999999999998885 679999999999998  4777776632              368999999999999


Q ss_pred             EEecCC
Q 012708          205 FVWPDE  210 (458)
Q Consensus       205 ~V~~~~  210 (458)
                      ||.-+-
T Consensus       143 ~v~~d~  148 (156)
T d1nyka_         143 VAAGEF  148 (156)
T ss_dssp             EECSSC
T ss_pred             EEeecC
Confidence            997543

>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=99.17  E-value=4.6e-11  Score=101.38  Aligned_cols=94  Identities=13%  Similarity=0.164  Sum_probs=77.6

Q ss_pred             eecCCCCCCCcEEEEECCeEEEEEEEC-------------------------CCCeEEEEecCCCCCCCCcCCccccCCC
Q 012708           98 SLVEDLDPNLPTAFQLLGRDLVLWFDN-------------------------NSNKWVAFDDKCPHRLAPLSEGRIDENG  152 (458)
Q Consensus        98 ~~~~dL~~g~~~~~~~~g~~lvl~R~~-------------------------~~G~v~A~~n~CpHrga~L~~G~~~~~~  152 (458)
                      -.+++|++|+.+.+.--|+++.|+|..                         .++++.++...|+|.|+.+..... +.+
T Consensus        10 VDis~l~pG~~~~V~WrGkPVfI~~Rt~e~i~~~~~~~~~~l~dp~~~~~r~~~~~~~v~~~~CtHlGC~~~~~~~-~~~   88 (129)
T d3cx5e1          10 VNLAAIPLGKNVVVKWQGKPVFIRHRTPHEIQEANSVDMSALKDPQTDADRVKDPQWLIMLGICTHLGCVPIGEAG-DFG   88 (129)
T ss_dssp             EEGGGCCTTCEEEEEETTEEEEEEECCHHHHHHHHCSCGGGCSSCCCSTTTCSSTTEEEEECCCTTTSCCCEEEET-TTT
T ss_pred             EehhhCCCCCeEEEEeCCceEEEEecCHHHhhhccccccccccccccchhccccccEEEEEeeccCcceeeeeccC-cCC
Confidence            357788899999999999999988631                         347899999999999998876544 246


Q ss_pred             eEEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECCeEEE
Q 012708          153 HLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFV  206 (458)
Q Consensus       153 ~l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~V~V  206 (458)
                      .+.||+||.+||.+|+.+..|..              ..|..||+++.++-|.|
T Consensus        89 ~~~CPCHgs~fd~~G~v~~GPA~--------------~~L~~~~~~~~~~~i~i  128 (129)
T d3cx5e1          89 GWFCPCHGSHYDISGRIRKGPAP--------------LNLEIPAYEFDGDKVIV  128 (129)
T ss_dssp             EEEETTTTEEECTTCCEEESSCC--------------SCCCCCCEEEETTEEEE
T ss_pred             eEEEcCcCCCCCCCCCEEeCCCC--------------CCCCCCcEEEECCEEEE
Confidence            89999999999999999987643              35889999999988765

>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=99.04  E-value=3.9e-10  Score=95.12  Aligned_cols=89  Identities=18%  Similarity=0.274  Sum_probs=71.9

Q ss_pred             ecCCCCCCCcEEEEECCeEEEEEEEC-------------------------CCCeEEEEecCCCCCCCCcCCccccCCCe
Q 012708           99 LVEDLDPNLPTAFQLLGRDLVLWFDN-------------------------NSNKWVAFDDKCPHRLAPLSEGRIDENGH  153 (458)
Q Consensus        99 ~~~dL~~g~~~~~~~~g~~lvl~R~~-------------------------~~G~v~A~~n~CpHrga~L~~G~~~~~~~  153 (458)
                      .+++|++|+.+.+.--|++|.|.|..                         .++++.|+...|+|.|+....... +.+.
T Consensus         8 DlS~lepG~~~~V~WrGkPvfV~rRt~e~i~~~~~~~~~~l~dp~~~~~r~~~~~~~~~~~~CtHlGC~~~~~~~-~~~~   86 (127)
T d1riea_           8 KLSDIPEGKNMAFKWRGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIANAG-DFGG   86 (127)
T ss_dssp             EGGGSCTTCEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSSCCCGGGTCSSTTEEEEECCCTTTSCCCEETCT-TTEE
T ss_pred             ehhhCCCCCEEEEEECCceeEEEecCHHHhhhhhccchhhhcCccccccccccceEEEEEeccCCCCceeecccc-cCCe
Confidence            46788899999999999999998731                         268899999999999997654332 2357


Q ss_pred             EEcCCCCeEEcCCCCeeecCCCCCCCcchhhcCCCCCCceeEeEEEECC
Q 012708          154 LQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQG  202 (458)
Q Consensus       154 l~CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G  202 (458)
                      +.||+||.+||.+|+.+..|..              ..|..+|++..++
T Consensus        87 f~CPCHgs~fd~~Grv~~GPAp--------------~~L~~p~~~~~~d  121 (127)
T d1riea_          87 YYCPCHGSHYDASGRIRKGPAP--------------LNLEVPSYEFTSD  121 (127)
T ss_dssp             EEETTTTEEEETTCCEEESSCC--------------SCCCCCCEEESSS
T ss_pred             EEecCcCCcCCCCCCEEcCCCC--------------CCCCCCcEEEeCC
Confidence            9999999999999999988743              3477788887764

>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=98.79  E-value=3.7e-09  Score=96.07  Aligned_cols=72  Identities=21%  Similarity=0.267  Sum_probs=56.6

Q ss_pred             CCCeEEEEecCCCCCCCCcCCccc----------cCCCeEEcCCCCeEEcC--CCCeeecCCCCCCCcchhhcCCCCCCc
Q 012708          125 NSNKWVAFDDKCPHRLAPLSEGRI----------DENGHLQCSYHGWSFDG--CGSCTRIPQAASEGPEARAIQSPRACA  192 (458)
Q Consensus       125 ~~G~v~A~~n~CpHrga~L~~G~~----------~~~~~l~CpyHGw~Fd~--~G~~~~iP~~~~~~~~~~~~~~~~~~l  192 (458)
                      .+|+|+||.++|+|.|+++.....          .+++.|.||+||++||+  +|+++..|..              ..|
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            478999999999999999975321          13578999999999998  4899887743              248


Q ss_pred             eeEeEEEE--CCeEE-EecCC
Q 012708          193 TRFPTMVS--QGLLF-VWPDE  210 (458)
Q Consensus       193 ~~~pv~e~--~G~V~-V~~~~  210 (458)
                      ..++++++  .|.|| |-++.
T Consensus       147 p~v~Le~d~~~g~iyAvG~~~  167 (202)
T d1jm1a_         147 PIVILDYDSSTGDIYAVGTNA  167 (202)
T ss_dssp             CBEEEEECTTTCEEEEEEESS
T ss_pred             CccEEEEeCCCCeEEEEEccC
Confidence            89999886  48999 55543

>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=97.99  E-value=2.5e-05  Score=70.20  Aligned_cols=186  Identities=13%  Similarity=0.157  Sum_probs=103.2

Q ss_pred             CCCCCCCceEEEEEEEecChhhhhhhccCCCccccccccccc-----------Cc--CCCCCccEEEee--cCccc----
Q 012708          227 AFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTG-----------RR--DRAKPLPFKLES--SGHWG----  287 (458)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~~~~-----------~~--~~~~~~~~~~~~--~~~~g----  287 (458)
                      .|-+.+.......+.+.+||.+.+||..|..|+ |+|..++-           -.  +...-..+.+..  .++-|    
T Consensus        10 ~fLd~d~v~~G~~r~~~aNWRla~ENGFD~~Hi-~iHkds~~v~~~d~~lPlG~~P~~~~~~~~~~~~ed~~gPKGv~~l   88 (242)
T d2de6a2          10 NFLDDDMEILGKNQIIKSNWRLAVENGFDPSHI-YIHKDSILVKDNDLALPLGFAPGGDRKQQTRVVDDDVVGRKGVYDL   88 (242)
T ss_dssp             TTTCTTEEEEEEEEEESSCHHHHHHHHHCGGGG-GGGTTCHHHHHTTBEECSEEECCSCGGGGEEEECCCTTCCCEEEEC
T ss_pred             cccCCCceeeccccccccceEEeeccCcCcccE-EEecCCceEEeccccccccceecCCCceEEEEeccCCCCCcchhhc
Confidence            555656555556788999999999999999999 99998531           10  000001121111  11111    


Q ss_pred             --------eeeecCC----------C-CcEEEEEEcceeeeEEEEEcccCcccCCCcEEEEEEEEEeecCCCeEEEEEEe
Q 012708          288 --------FAGANDG----------N-PRISAKFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCS  348 (458)
Q Consensus       288 --------f~~~~~~----------~-~~~~~~f~~P~~~~~~~~~~~~~p~~g~~~~~~~i~~~~tPv~p~~trv~~~~  348 (458)
                              |.+...+          + ....+....|++....     .-|  .+..   .-.-.++|+++++.+++..+
T Consensus        89 ~~~~~~Pv~e~~~~g~~~~~~~~g~~~~~~~~SiwLPGVL~Ve-----~~P--~p~~---~qyEwYVPId~~~h~Y~q~l  158 (242)
T d2de6a2          89 IGEHGVPVFEGTIGGEVVREGAYGEKIVANDISIWLPGVLKVN-----PFP--NPDM---MQFEWYVPIDENTHYYFQTL  158 (242)
T ss_dssp             GGGTCEEECEEEETTEEEEECEECSBCCCCEEEEETTTEEEEE-----SCS--STTC---EEEEEEEEEETTEEEEEEEE
T ss_pred             ccccceeeccCccCcceeeccccCCccCceeeEEEccceeEec-----CCC--CCCc---eEEEEEEEecCCcEEEEEEE
Confidence                    1110000          0 1113444556554321     011  2222   11234699999999999887


Q ss_pred             eccccccCCCCcccccchhhhhhhcccccccchhHHHHhhhhHHHhhhcccCCccccccccccccccCcccHHHHHHHHH
Q 012708          349 ARNFFQFTMPGPAWWQVVPRWHEHWTSNKVYDGDMIVLQGQEKIFLSKLMEGSEDVNKEYTKITFTPTQADRLVLAFRNW  428 (458)
Q Consensus       349 ~R~f~~~~~p~~~~~~~~~r~~~~~~~~~V~~eD~~vle~qq~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~~v~afRrw  428 (458)
                      .|.-.. .....+|.......+.-+..+...++|+.+-|++|.=+....         .|.+  ......|..|+++||.
T Consensus       159 ~k~~~t-~ee~~~F~~efe~~wk~~al~gFNddDi~AReamq~FY~dd~---------GW~~--E~L~~pD~~Ii~WRkl  226 (242)
T d2de6a2         159 GKPCAN-DEERKKYEQEFESKWKPMALEGFNNDDIWAREAMVDFYADDK---------GWVN--EILFESDEAIVAWRKL  226 (242)
T ss_dssp             EEECSS-HHHHHHHHHHHHHTHHHHTTTTTTHHHHHHHHHTHHHHHTST---------HHHH--CCCCGGGHHHHHHHHH
T ss_pred             EeecCC-HHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHhhhhhccCC---------CCcH--hhccCccccHHHHHHH
Confidence            765311 000011211111111112345677999999999998766531         2543  3457789999999999


Q ss_pred             HHHhcCC
Q 012708          429 LRRHGNS  435 (458)
Q Consensus       429 l~~~~~~  435 (458)
                      ..++..|
T Consensus       227 aS~~nRG  233 (242)
T d2de6a2         227 ASEHNQG  233 (242)
T ss_dssp             HHHHCSC
T ss_pred             HHHhccc
Confidence            9998655

>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=97.97  E-value=4.8e-05  Score=71.67  Aligned_cols=29  Identities=14%  Similarity=0.155  Sum_probs=26.1

Q ss_pred             EEEEecChhhhhhhcc-CCCcccccccccc
Q 012708          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKVT  267 (458)
Q Consensus       239 ~~~~~~nwk~~~EN~~-D~~H~~~vH~~~~  267 (458)
                      ...++||||+.+||++ |.||+.++|.+..
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            5678999999999987 9999999999853

>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=97.94  E-value=3.1e-05  Score=72.97  Aligned_cols=29  Identities=17%  Similarity=0.293  Sum_probs=25.8

Q ss_pred             EEEEecChhhhhhhcc-CCCcccccccccc
Q 012708          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKVT  267 (458)
Q Consensus       239 ~~~~~~nwk~~~EN~~-D~~H~~~vH~~~~  267 (458)
                      ...++||||+++|||+ |.||+.++|++++
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            4678999999999996 9999999999753

>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=97.60  E-value=7e-05  Score=70.47  Aligned_cols=28  Identities=14%  Similarity=0.088  Sum_probs=24.4

Q ss_pred             EEEEecChhhhhhhcc-CCCccccccccc
Q 012708          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKV  266 (458)
Q Consensus       239 ~~~~~~nwk~~~EN~~-D~~H~~~vH~~~  266 (458)
                      ...++||||+.+|||. |.||+..+|...
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            4678999999999986 999998888764

>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=97.49  E-value=7.3e-05  Score=70.23  Aligned_cols=28  Identities=14%  Similarity=0.094  Sum_probs=25.3

Q ss_pred             EEEEecChhhhhhhcc-CCCccccccccc
Q 012708          239 QRDLFYGYDTLMENVS-DPSHIDFAHHKV  266 (458)
Q Consensus       239 ~~~~~~nwk~~~EN~~-D~~H~~~vH~~~  266 (458)
                      ...++||||+.+|||+ |.||+..+|...
T Consensus        34 r~~~~~NWKl~~ENf~~D~YH~~~~H~~~   62 (281)
T d1ulia2          34 KWVIPCNWKFAAEQFCSDMYHAGTTSHLS   62 (281)
T ss_dssp             EEEECSCHHHHHHHHHHBHHHHHTTTTHH
T ss_pred             EEEecCCCeehhhcCCCCCccchhhhhhH
Confidence            4678999999999988 999999999875