Citrus Sinensis ID: 013818

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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------
Protein Sequence
MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYMEALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDALEKGAKQLPFMKPM
Secondary Structure (PSIPRED)
cccHHHHHHHHcHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccccEEEEccEEEEEEcccccEEEEEcccccccccccccEEEccEEEcccccEEEcccccEEEccccccccccccEEEEEEEccEEEEEcccccccccccccccccccEEEEEEEEEEEcccHHHHHHHccccccccccccccccccccccccEEEEccccccEEEccccccEEEEccEEEEEEEEEEcccccccccccccccEEEEEEEEEEccccEEEEEEEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHcHHHHHHccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEEcccccccccccccccccccccccccccccccccccccHccEEEcccHHHcccccccccEHccccEEEEEcccccEEEEEcccccccccccccEEcccEEEEEEccEEEcccccEEEccccccccccEEEEcEEEEccEEEEEcccccccccccccccccccccccccEEEccccHHHHHHHccccccccEEEccccccccccccccEEccccccccccccccccccEEccccEEEEEcccccccccccccccccccEEEEEEEEEEcccccEEEEEEccccccccHcccccHHHHHHHHHccHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYMEALVNDrllqdrhtsgtdqtcaspstskqsldivkgklprkslnvsgpvqpyntrlknfwfpvafstdlkddtmvpfdcfeepwvifrgkdgipgcvqntcahracplhlgsvnegriqcpyhgweystdgkcekmpstqlrnvkikslpcfeqegmiwiwpgdepptatipcllppsgfeIHAEIVMELPIEHGLLLDNLLdlahapfthtstfakgwsvpslvkfltpasglqgywdpypidmefrppcmvlstigiskpgklegqntrqCATHLHqlhvclpssrkkTRLLYRMSLDFasvlkhvpFMQYLWRHFAEQVLNEDLRLVLGQqermnnganvwnlpvgydklgvRYRLWRDALEKGakqlpfmkpm
Flexible Loop (DISEMBL)
MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYMEALVNDRLLQDRHTsgtdqtcaspstskqsldivkgklprkslnvsgpvqpyntrlknFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTstfakgwsvPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHlhqlhvclpssrKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQErmnnganvwnlpvgYDKLGVRYRLWRDALekgakqlpfmkpm
Low Complexity Region (SEG)
MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYMEALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIHAEIVMELPIEHGllldnlldlAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDALEKGAKQLPFMKPM
Disordered region (IsUnstruct)
******VVEVLNPLARDYKSIGTM**********LAQAHRQVHISEARVATALDKLAYMEALVNDRLL**************************************PVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDALE************
Disordered Region (DISOPRED)
***HEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQ*HRQVHISEARVATALDKLAYMEALVND**********************************************NTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDALE***K****MKP*
Disordered Region (DISEMBL)
MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYMEALVNDRLLQDR******************LDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDALEKGAKQLPFMKPM
Disordered Region (DISPRO)
MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYMEALVNDRLLQDRHTSGTD*********************************YNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDALEKGAKQLPF****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLLHEKVVEVLNPLARDYKSxxxxxxxxxxxxxxxxxxxxxxxxxxxxVATALDKLAYMEALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDALEKGAKQLPFMKPM
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	436	2.2.26 [Sep-21-2011]
Q8S7E1	541	Chlorophyllide a oxygenas	yes	no	0.988	0.796	0.817	0.0
Q9MBA1	536	Chlorophyllide a oxygenas	yes	no	0.990	0.805	0.784	0.0
Q9ZWM5	645	Chlorophyllide a oxygenas	N/A	no	0.961	0.649	0.446	1e-117
Q9XJ38	463	Chlorophyllide a oxygenas	N/A	no	0.922	0.868	0.454	1e-105
Q9SK50	539	Protein TIC 55, chloropla	no	no	0.676	0.547	0.260	2e-23
O49931	553	Protein TIC 55, chloropla	N/A	no	0.678	0.535	0.253	6e-23
P12609	329	Vanillate O-demethylase o	N/A	no	0.493	0.653	0.248	7e-18
O05616	354	Vanillate O-demethylase o	N/A	no	0.470	0.579	0.288	1e-17
P94679	347	Toluene-4-sulfonate monoo	no	no	0.364	0.458	0.279	9e-15
Q44256	432	3-chlorobenzoate-3,4-diox	no	no	0.376	0.379	0.288	2e-14

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

 Score =  736 bits (1900), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/434 (81%), Positives = 392/434 (90%), Gaps = 3/434 (0%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           M+LH KVVEVLNPLAR++KSIGT++KELAELQE+LA+AH QVH+SE RV++ALDKLA ME
Sbjct: 101 MVLHNKVVEVLNPLAREFKSIGTLRKELAELQEELAKAHNQVHLSETRVSSALDKLAQME 160

Query: 61  ALVNDRLLQDRHTSGTDQTCAS--PSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNF 118
            LVNDRLLQD  +S +   C S  PSTS  S  +V  K PR+SLNVSGPVQPYN  LKNF
Sbjct: 161 TLVNDRLLQDGGSSASTAECTSLAPSTSSAS-RVVNKKPPRRSLNVSGPVQPYNPSLKNF 219

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W+PVAFS+DLKDDTMVP DCFEE WVIFRGKDG PGCV NTCAHRACPLHLGSVNEGRIQ
Sbjct: 220 WYPVAFSSDLKDDTMVPIDCFEEQWVIFRGKDGRPGCVMNTCAHRACPLHLGSVNEGRIQ 279

Query: 179 CPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSG 238
           CPYHGWEYSTDGKCEKMPST++ NV+I+SLPCFEQEGM+WIWPG++PP +TIP LLPPSG
Sbjct: 280 CPYHGWEYSTDGKCEKMPSTKMLNVRIRSLPCFEQEGMVWIWPGNDPPKSTIPSLLPPSG 339

Query: 239 FEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWD 298
           F IHAEIVMELP+EHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTP+SGLQGYWD
Sbjct: 340 FTIHAEIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPSSGLQGYWD 399

Query: 299 PYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSL 358
           PYPIDMEFRPPCMVLSTIGISKPGKLEG++T+QC+THLHQLH+CLPSSR KTRLLYRMSL
Sbjct: 400 PYPIDMEFRPPCMVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKTRLLYRMSL 459

Query: 359 DFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRL 418
           DFA  +KHVPFM  LW HFAE+VLNEDLRLVLGQQERM NGANVWN PV YDKLG+RYRL
Sbjct: 460 DFAPWIKHVPFMHILWSHFAEKVLNEDLRLVLGQQERMINGANVWNWPVSYDKLGIRYRL 519

Query: 419 WRDALEKGAKQLPF 432
           WRDA+E+G  +LPF
Sbjct: 520 WRDAIERGVDRLPF 533

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: 1EC: .EC: 1EC: 4EC: .EC: 1EC: 3EC: .EC: 1EC: 2EC: 2

>sp|Q9MBA1|CAO_ARATH Chlorophyllide a oxygenase, chloroplastic OS=Arabidopsis thaliana GN=CAO PE=1 SV=1

 Score =  706 bits (1822), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/432 (78%), Positives = 386/432 (89%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           M+LH+KVV+VLNPLAR+YKSIGT+KKELA LQE+L++AH+QVHISEARV+TALDKLA+ME
Sbjct: 103 MILHDKVVDVLNPLAREYKSIGTVKKELAGLQEELSKAHQQVHISEARVSTALDKLAHME 162

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LVNDRLL  R  +  D+  +S + S   LD  K     KSLNVSGPV PY+  LKNFW+
Sbjct: 163 ELVNDRLLPGRVVTELDKPSSSTTASAVELDREKTNTGAKSLNVSGPVPPYSPHLKNFWY 222

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAF+ DLK DTMVP +CFE+PWVIFRG+DG PGCV+NTCAHRACPL LG+VNEGRIQCP
Sbjct: 223 PVAFTADLKHDTMVPIECFEQPWVIFRGEDGKPGCVRNTCAHRACPLDLGTVNEGRIQCP 282

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEYSTDG+C+KMPST+L  VKIKSLPC EQEGMIWIWPGDEPP   +P L PPSGF 
Sbjct: 283 YHGWEYSTDGECKKMPSTKLLKVKIKSLPCLEQEGMIWIWPGDEPPAPILPSLQPPSGFL 342

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           IHAE+VM+LP+EHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTP SGLQGYWDPY
Sbjct: 343 IHAELVMDLPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPTSGLQGYWDPY 402

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEF+PPC+VLSTIGISKPGKLEG++T+QCATHLHQLHVCLPSS+ KTRLLYRMSLDF
Sbjct: 403 PIDMEFKPPCIVLSTIGISKPGKLEGKSTQQCATHLHQLHVCLPSSKNKTRLLYRMSLDF 462

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A +LK++PFM++LWRHFAEQVLNEDLRLVLGQQERM NGAN+WNLPV YDKLGVRYRLWR
Sbjct: 463 APILKNLPFMEHLWRHFAEQVLNEDLRLVLGQQERMLNGANIWNLPVAYDKLGVRYRLWR 522

Query: 421 DALEKGAKQLPF 432
           +A+++G  +LPF
Sbjct: 523 NAVDRGDDKLPF 534

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.

Arabidopsis thaliana (taxid: 3702)

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 =  422 bits (1086), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 210/470 (44%), Positives = 286/470 (60%), Gaps = 51/470 (10%)

Query: 4   HEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYM--EA 61
           + KV E L+  AR+  ++G ++ +L  L+  +AQA  ++ ++++RV   L ++  +  EA
Sbjct: 143 NRKVEESLSEEAREKTAVGDLRDQLESLRAQVAQAQERLAMTQSRVEQNLQRVNELKAEA 202

Query: 62  LVNDRLLQDRHTSGTDQTCASPST---------------------------SKQSLDIVK 94
              +R+ +       ++   + ST                            + +   V 
Sbjct: 203 TTLERMRKASDLDIKERERIAISTVAAKGPASSSSSAAAVSAPATSATLTVERPAATTVT 262

Query: 95  GKLPRKSLNVSGPVQPYNTR------------------LKNFWFPVAFSTDLKDDTMVPF 136
            ++P  S        P  ++                  L+NFW+P  FS  L  DT+VPF
Sbjct: 263 QEVPSTSYGTPVDRAPRRSKAAIRRSRGLESSMEIEEGLRNFWYPAEFSARLPKDTLVPF 322

Query: 137 DCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP 196
           + F EPWV+FR + G P C+++ CAHR CPL LG V EG++ CPYHGWE++ DG C KMP
Sbjct: 323 ELFGEPWVMFRDEKGQPSCIRDECAHRGCPLSLGKVVEGQVMCPYHGWEFNGDGACTKMP 382

Query: 197 STQL-RNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLL-PPSGFEIHAEIVMELPIEHG 254
           ST   RNV + +LPC E++G IW+WPGD  P  T+P    PP GF IHAEI++++P+EHG
Sbjct: 383 STPFCRNVGVAALPCAEKDGFIWVWPGDGLPAETLPDFAQPPEGFLIHAEIMVDVPVEHG 442

Query: 255 LLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLS 314
           LL++NLLDLAHAPFTHTSTFA+GW VP  VKF      L G+WDPYPIDM F+PPCM LS
Sbjct: 443 LLIENLLDLAHAPFTHTSTFARGWPVPDFVKFHA-NKALSGFWDPYPIDMAFQPPCMTLS 501

Query: 315 TIGISKPGK-LEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYL 373
           TIG+++PGK + G    QC  HLHQLHVC+PS +  TRLLYRMSLDF   ++HVPF+  +
Sbjct: 502 TIGLAQPGKIMRGVTASQCKNHLHQLHVCMPSKKGHTRLLYRMSLDFLPWMRHVPFIDRI 561

Query: 374 WRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDAL 423
           W+  A QVL EDL LVLGQQ+RM  G + W+ P  YDKL VRYR WR+ +
Sbjct: 562 WKQVAAQVLGEDLVLVLGQQDRMLRGGSNWSNPAPYDKLAVRYRRWRNGV 611

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

 Score =  380 bits (977), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/444 (45%), Positives = 273/444 (61%), Gaps = 42/444 (9%)

Query: 24  MKKELAELQEDLAQAHRQVHISEARVATALDKLAYMEA----LVNDRL-----------L 68
           M+ +L  LQ+++++A  ++  SEARVA  L ++  ++A    L   RL           +
Sbjct: 1   MQSKLLGLQDEISEARDKLRTSEARVAQNLKRVDELKAEAASLERMRLASSSSTDSTVSI 60

Query: 69  QDRHTSGTDQTCASPSTSKQS--LDIVKGK----------LPRKSLNVSGPVQPYNTR-- 114
             R  +    T + P   ++      V+G           +P+ S  V    +P ++R  
Sbjct: 61  ASRGGAAVAATTSVPDHVEREGIQSRVRGSGMASTSYPSHVPQPSQAVRRGPKPKDSRRL 120

Query: 115 ---------LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRAC 165
                    L+NFW+P  F+  L+   MVPFD F  PWV+FR +   P C++++CAHRAC
Sbjct: 121 RSSLELEDGLRNFWYPTEFAKKLEPGMMVPFDLFGVPWVLFRDEHSAPTCIKDSCAHRAC 180

Query: 166 PLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQL-RNVKIKSLPCFEQEGMIWIWPGDE 224
           PL LG V  G +QCPYHGWE+   G C KMPST++   V + +LPC E++G +W+WPGD 
Sbjct: 181 PLSLGKVINGHVQCPYHGWEFDGSGACTKMPSTRMCHGVGVAALPCVEKDGFVWVWPGDG 240

Query: 225 PPTATIPCLL-PPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSL 283
           PP    P    PP+G+++HAEI++++P+EHGLL++NLLDLAHAPFTHT+TFA+GW +P  
Sbjct: 241 PPPDLPPDFTAPPAGYDVHAEIMVDVPVEHGLLMENLLDLAHAPFTHTTTFARGWPIPEA 300

Query: 284 VKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGK-LEGQNTRQCATHLHQLHVC 342
           V+F      L G WDPYPI M F PPC+ LSTIG+S+PGK + G    +C  HLHQLHVC
Sbjct: 301 VRFHA-TKMLAGDWDPYPISMSFNPPCIALSTIGLSQPGKIMRGYKAEECKRHLHQLHVC 359

Query: 343 LPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANV 402
           +PS    TRLLYRMSLDF    KHVPF+  LW+  A QVL EDL LVLGQQ RM  G + 
Sbjct: 360 MPSKEGHTRLLYRMSLDFWGWAKHVPFVDVLWKKIAGQVLGEDLVLVLGQQARMIGGDDT 419

Query: 403 WNLPVGYDKLGVRYRLWRDALEKG 426
           W  P+ YDKL VRYR WR+ +  G
Sbjct: 420 WCTPMPYDKLAVRYRRWRNMVADG 443

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

 Score =  110 bits (276), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 87/334 (26%), Positives = 151/334 (45%), Gaps = 39/334 (11%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W+P+  + ++ +D  +    ++   V+++  +G   C ++ C HR   L  G + +GR++
Sbjct: 88  WYPLYLTKNVPEDAPLGLTVYDRQIVLYKDGEGTLRCYEDRCPHRLAKLSEGQLIDGRLE 147

Query: 179 CPYHGWEYSTDGKCEKMP----STQL-RNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCL 233
           C YHGW++  +GKC K+P    S ++ +   +K+    + +G++W+W   + P    P  
Sbjct: 148 CLYHGWQFEGEGKCVKIPQLPASAKIPKAACVKTYEVKDSQGVVWVWMSTKTPPN--PEK 205

Query: 234 LP-------PSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTST--FAKGWSVPSLV 284
           LP       P  F+I      ELP +H +LL+NL+D AH P +H  T   AK      LV
Sbjct: 206 LPWFENFARPGFFDI--STTHELPYDHSILLENLMDPAHVPISHDRTDFTAKREDAQPLV 263

Query: 285 KFLTPAS--GLQGYWDPYPID------MEFRPPCMVLSTIGISKPGKLEGQNTRQCATHL 336
             +T  S  G  G W            + F  PC++ +        + EG++  +   + 
Sbjct: 264 FEVTERSNRGFAGTWGREKEGGKGSNLLRFDAPCVLQNN------REFEGKDGVK--NYF 315

Query: 337 HQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQE-R 395
             L +C P+ + K+ L+ R  +   S L  V   Q+ W   A +V  +D+  +  Q E  
Sbjct: 316 SGLFLCRPTGQGKSMLIVRFGVTKRSPLVSV-LPQWFWHQNACKVFEQDMGFLSSQNEVL 374

Query: 396 MNNGANVWNLPVGY---DKLGVRYRLWRDALEKG 426
           M       +L +     D     YR W D +  G
Sbjct: 375 MKEKVPTKDLYLNLKSSDTWVAEYRKWMDKVGHG 408

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  108 bits (271), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 84/332 (25%), Positives = 149/332 (44%), Gaps = 36/332 (10%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W+P+  + ++  D  +    +++  V+FR  +    C ++ C HR   L  G + +GR++
Sbjct: 103 WYPLYLTKNVPHDAPLGLKVYDKNIVLFRDGNDQFQCYEDRCPHRLAKLSEGQLIDGRLE 162

Query: 179 CPYHGWEYSTDGKCEKMPSTQL-----RNVKIKSLPCFEQEGMIWIWPGDEPP--TATIP 231
           C YHGW++  +GKC K+P         ++  +K+    + +G++W+W   + P   + IP
Sbjct: 163 CLYHGWQFEGEGKCVKIPQLPADAKIPKSACVKTYEVRDSQGVLWVWMSRKTPPNVSKIP 222

Query: 232 CL--LPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTST--FAKGWSVPSLVKFL 287
                   GF+       ELP +H +LL+NL+D AH P +H  T   AK     +L   +
Sbjct: 223 WFENFARPGFQ-DISTTHELPYDHSILLENLMDPAHVPISHDRTDWSAKREDAQALGFEV 281

Query: 288 TPAS--GLQGYW-----DPYPIDMEFRPPCMVLSTIGI-SKPGKLEGQNTRQCATHLHQL 339
           T  +  G  G+W        P  + F  PC++ +   I  K G++          H   L
Sbjct: 282 TERTDRGFAGWWGREKDGSKPNFLRFEAPCVLQNNREIVDKNGEI---------NHFSGL 332

Query: 340 HVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQ-----QE 394
            +C P+ + K+ L+ R      S L  + F ++ +   A +V  +D+  +  Q     +E
Sbjct: 333 FLCRPTGQGKSMLIVRFGATKRSPLIKL-FPEWYFHQNASKVFEQDMGFLSSQNEILLKE 391

Query: 395 RMNNGANVWNLPVGYDKLGVRYRLWRDALEKG 426
           ++       NL    D     YR W D +  G
Sbjct: 392 KVPTKELYLNLKSS-DTWVAEYRKWMDKVGHG 422

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

Pisum sativum (taxid: 3888)

>sp|P12609|VANA_PSES9 Vanillate O-demethylase oxygenase subunit OS=Pseudomonas sp. (strain ATCC 19151) GN=vanA PE=3 SV=1

 Score = 92.4 bits (228), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 63/254 (24%), Positives = 104/254 (40%), Gaps = 39/254 (15%)

Query: 141 EPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQL 200
           E  VI+RG       +++ C HR  PL LGS+ +G++ C YHG     DG+   MP+ ++
Sbjct: 5   ERMVIYRGAGQRVAALEDFCPHRGAPLSLGSIQDGKLVCGYHGLVMDCDGRTASMPAQRV 64

Query: 201 RNVK-IKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE-----IHAEIVMELPIEHG 254
           +    I++ P  E+ G IW+WPGD       P L+P   +       +   +  +  ++ 
Sbjct: 65  QAFPCIRAFPAQERHGFIWVWPGD--AALADPALIPHLEWAENPAWAYGGGLYHIACDYR 122

Query: 255 LLLDNLLDLAHAPFTHTST------------------------FAKGWSVPSLVKFLTPA 290
           L++DNL+DL H  + H S+                        F +G   P   +     
Sbjct: 123 LMIDNLMDLTHETYVHASSIGQKEIDEAPVSTRVEGDRLITGRFMEGILAPPFWRAALRG 182

Query: 291 SGLQGYWDPYPIDM----EFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSS 346
           +GL    D  P+D      F PP  VL  +G++  G+        C      +    P +
Sbjct: 183 NGLA---DDVPVDRWQICRFTPPSHVLIEVGVAHAGRGGYDAPADCKASSIVVDFITPET 239

Query: 347 RKKTRLLYRMSLDF 360
                  + M+  F
Sbjct: 240 DTSIWYFWGMARSF 253

Pseudomonas sp. (strain ATCC 19151) (taxid: 315)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: 8

EC: 2

>sp|O05616|VANA_PSEUH Vanillate O-demethylase oxygenase subunit OS=Pseudomonas sp. (strain HR199 / DSM 7063) GN=vanA PE=3 SV=1

 Score = 91.3 bits (225), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 69/239 (28%), Positives = 103/239 (43%), Gaps = 34/239 (14%)

Query: 116 KNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEG 175
           KN W+ VA + D   D  +      E  V +RG +G    V++ C HR  PL LG V +G
Sbjct: 4   KNAWY-VACTPDEIADKPLGRQICNEKIVFYRGPEGRVAAVEDFCPHRGAPLSLGFVRDG 62

Query: 176 RIQCPYHGWEYSTDGKCEKMPSTQLRNVK-IKSLPCFEQEGMIWIWPGDEPPTATIPCLL 234
           ++ C YHG E   +GK   MP  +++    IKS    E+ G IW+WPGD       P L+
Sbjct: 63  KLICGYHGLEMGCEGKTLAMPGQRVQGFPCIKSYAVEERYGFIWVWPGDR--ELADPALI 120

Query: 235 PPSGFEIHAEI-----VMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVK---- 285
               +  + E      +  +  ++ L++DNL+DL H  + H S+  +     + V     
Sbjct: 121 HHLEWADNPEWAYGGGLYHIACDYRLMIDNLMDLTHETYVHASSIGQKEIDEAPVSTRVE 180

Query: 286 -----------------FLTPASGLQGYWDPYPIDM----EFRPPCMVLSTIGISKPGK 323
                            F   A    G  D  P+D      F PP  VL  +G++  GK
Sbjct: 181 GDTVITSRYMDNVMAPPFWRAALRGNGLADDVPVDRWQICRFAPPSHVLIEVGVAHAGK 239

Pseudomonas sp. (strain HR199 / DSM 7063) (taxid: 86003)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: 8

EC: 2

>sp|P94679|TSAM1_COMTE Toluene-4-sulfonate monooxygenase system iron-sulfur subunit TsaM1 OS=Comamonas testosteroni GN=tsaM1 PE=1 SV=1

 Score = 82.0 bits (201), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 81/168 (48%), Gaps = 9/168 (5%)

Query: 115 LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE 174
           ++N W+  A+ T++  + +       EP +++R   G    ++N C HR+ PLH+G    
Sbjct: 3   IRNCWYVAAWDTEIPAEGLFHRTLLNEPVLLYRDTQGRVVALENRCCHRSAPLHIGRQEG 62

Query: 175 GRIQCPYHGWEYSTDGKCEKMPSTQLRNVK--IKSLPCFEQEGMIWIWPGDEPPTATIPC 232
             ++C YHG +++  G C ++P  +    K  IKS P  E+  ++WIW GD  P    P 
Sbjct: 63  DCVRCLYHGLKFNPSGACVEIPGQEQIPPKTCIKSYPVVERNRLVWIWMGD--PARANPD 120

Query: 233 LLPPSGFEIHAEIVME-----LPIEHGLLLDNLLDLAHAPFTHTSTFA 275
            +    +    E  M+         + L++DNLLD  H  + H +T  
Sbjct: 121 DIVDYFWHDSPEWRMKPGYIHYQANYKLIVDNLLDFTHLAWVHPTTLG 168

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. Can use toluene-4-sulfonate, p-toluate, m-toluate and 4-ethylbenzoate as substrates, but not p-xylene, toluene and p-cresol. Catalyzes also the demethylation of 4-methoxybenzoate to 4-hydroxybenzoate.

Comamonas testosteroni (taxid: 285)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 4

EC: .

EC: -

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

 Score = 80.5 bits (197), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/177 (28%), Positives = 82/177 (46%), Gaps = 13/177 (7%)

Query: 106 GPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRA 164
           G   P    ++ +W P   ST+L+   + V      E  V FR   G  G + + C HR 
Sbjct: 14  GRGTPMGGLMREYWIPALKSTELEAGGSPVRLLLLGEKLVAFREPSGAVGVMDSRCPHRG 73

Query: 165 CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPST----QLRN-VKIKSLPCFEQEGMIWI 219
             L +G V EG ++C YHGW++S +GKC  MPS     + +N V++   P  E  G++W+
Sbjct: 74  VSLFMGRVEEGGLRCVYHGWKFSAEGKCVDMPSVRPEDEFKNSVRVARYPVKEMAGVVWV 133

Query: 220 WPGDEPPTATIPCL----LPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTS 272
           + G       +P L    LP +  ++   I ++        L+  +D +H  F H  
Sbjct: 134 YMGTRKVLPELPRLEVLNLPENEVDV---ICLQRKSNWLQNLEGEIDTSHFNFLHVG 187

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	436
224066823	472	predicted protein [Populus trichocarpa]	0.995	0.919	0.873	0.0
255545394	535	chlorophyll synthase, putative [Ricinus	0.997	0.813	0.862	0.0
356509409	530	PREDICTED: chlorophyllide a oxygenase, c	0.995	0.818	0.864	0.0
359492578	537	PREDICTED: chlorophyllide a oxygenase, c	0.995	0.808	0.860	0.0
356552681	534	PREDICTED: chlorophyllide a oxygenase, c	0.990	0.808	0.863	0.0
224082298	531	predicted protein [Populus trichocarpa]	0.990	0.813	0.870	0.0
356515896	530	PREDICTED: chlorophyllide a oxygenase, c	0.995	0.818	0.861	0.0
356549331	532	PREDICTED: chlorophyllide a oxygenase, c	0.990	0.812	0.858	0.0
449465447	534	PREDICTED: chlorophyllide a oxygenase, c	0.990	0.808	0.831	0.0
110289597	526	chlorophyll a oxygenase, putative, expre	0.988	0.819	0.817	0.0

>gi|224066823|ref|XP_002302233.1| predicted protein [Populus trichocarpa] gi|222843959|gb|EEE81506.1| predicted protein [Populus trichocarpa]

 Score =  769 bits (1985), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 379/434 (87%), Positives = 406/434 (93%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           M+LHEKVVEVLNPLARDYK IGTMKKELAELQ++LAQAHRQVHISEARVATALDKLAYME
Sbjct: 37  MILHEKVVEVLNPLARDYKCIGTMKKELAELQDELAQAHRQVHISEARVATALDKLAYME 96

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LVNDRLLQDR+ +  DQ   SPSTS QSLD VK K PRK+LNVSGPVQPY+ RLKNFW+
Sbjct: 97  ELVNDRLLQDRNQAEPDQESPSPSTSTQSLDTVKRKSPRKNLNVSGPVQPYHPRLKNFWY 156

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAFSTDLKDDTM+P DCFEEPWV+FRGKDG PGCV+NTCAHRACPLHLGSVNEGRIQCP
Sbjct: 157 PVAFSTDLKDDTMIPIDCFEEPWVLFRGKDGKPGCVRNTCAHRACPLHLGSVNEGRIQCP 216

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEYSTDGKCEKMPST+L +VK+KSLPCFEQEGMIWIWPG +PP A++P L PP GF+
Sbjct: 217 YHGWEYSTDGKCEKMPSTRLLDVKVKSLPCFEQEGMIWIWPGSDPPAASLPSLQPPPGFQ 276

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           +HAEIVMELP+EHGLLLDNLLDLAHAPFTHTSTFAKGW+VPSLVKFLTPASGLQGYWDPY
Sbjct: 277 VHAEIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWTVPSLVKFLTPASGLQGYWDPY 336

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEFRPPCMVLSTIGISKPGKLEGQ+TR+CATHLHQLHVCLPSSR+KTRLLYRMSLDF
Sbjct: 337 PIDMEFRPPCMVLSTIGISKPGKLEGQSTRECATHLHQLHVCLPSSRQKTRLLYRMSLDF 396

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A VLKH PFM YLW+HFAEQVLNEDLRLVLGQQERM NGANVWN PV YDKLGVRYRLWR
Sbjct: 397 AGVLKHFPFMHYLWKHFAEQVLNEDLRLVLGQQERMINGANVWNWPVSYDKLGVRYRLWR 456

Query: 421 DALEKGAKQLPFMK 434
           DA+E+GAKQLPF K
Sbjct: 457 DAVERGAKQLPFRK 470

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255545394|ref|XP_002513757.1| chlorophyll synthase, putative [Ricinus communis] gi|223546843|gb|EEF48340.1| chlorophyll synthase, putative [Ricinus communis]

 Score =  766 bits (1979), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/435 (86%), Positives = 406/435 (93%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           MLLHEKVV+VLNPLARDYKSIGT+KKELA LQE LAQAH+QVH+SEARV+TALDKLAYME
Sbjct: 100 MLLHEKVVDVLNPLARDYKSIGTVKKELAGLQEALAQAHQQVHLSEARVSTALDKLAYME 159

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
           ALVNDRLL DR T+ T  T  S ST+ QSLD V+ + PRKSLNVSGPVQPY++ LKNFW+
Sbjct: 160 ALVNDRLLPDRSTTETSHTSPSTSTAPQSLDTVQRRSPRKSLNVSGPVQPYHSHLKNFWY 219

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAFSTDLKDDTM+P DCFEEPWVIFRGKDG PGCVQNTCAHRACPLHLGSVNEGRIQCP
Sbjct: 220 PVAFSTDLKDDTMIPIDCFEEPWVIFRGKDGKPGCVQNTCAHRACPLHLGSVNEGRIQCP 279

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEY+TDGKCEKMPST+L NVKIKSLPCFEQEGMIW+WPG +PP AT+P L PP+GF 
Sbjct: 280 YHGWEYTTDGKCEKMPSTRLLNVKIKSLPCFEQEGMIWVWPGSDPPAATLPSLQPPAGFH 339

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           +HAEIVMELP+EHGLLLDNLLDLAHAPFTHTSTFAKGW+VPSLV FLTPASGLQGYWDPY
Sbjct: 340 VHAEIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWTVPSLVTFLTPASGLQGYWDPY 399

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEFRPPCMVLSTIGISKPGKLEG++TRQCATHLHQLHVCLPSSR+KTRLLYRMSLDF
Sbjct: 400 PIDMEFRPPCMVLSTIGISKPGKLEGKSTRQCATHLHQLHVCLPSSRQKTRLLYRMSLDF 459

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A +LKH+PFM+YLWRHFAEQVLNEDLRLV+GQQERM NGANVWNLPV YDKLGVRYRLWR
Sbjct: 460 APLLKHIPFMEYLWRHFAEQVLNEDLRLVVGQQERMINGANVWNLPVTYDKLGVRYRLWR 519

Query: 421 DALEKGAKQLPFMKP 435
           DA+E+GAKQ PF KP
Sbjct: 520 DAVERGAKQNPFSKP 534

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356509409|ref|XP_003523442.1| PREDICTED: chlorophyllide a oxygenase, chloroplastic-like [Glycine max]

 Score =  766 bits (1978), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/434 (86%), Positives = 408/434 (94%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           MLLHEKVVEVLNPLARDYKSIGTMKKELAELQE+LAQAH+QVHISEARV++ALDKLAYME
Sbjct: 97  MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEELAQAHQQVHISEARVSSALDKLAYME 156

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LVND+LLQ+R T+   QT +SPSTS + +DI K + PRKSL++SGPVQ Y+  LKNFW+
Sbjct: 157 ELVNDKLLQERSTTEVSQTSSSPSTSFKPVDIEKRRSPRKSLDISGPVQSYHPHLKNFWY 216

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAFSTDLKDDTM+P +CFEEPWVIFRGKDG PGCVQNTCAHRACPLHLGSVNEGRIQCP
Sbjct: 217 PVAFSTDLKDDTMIPIECFEEPWVIFRGKDGKPGCVQNTCAHRACPLHLGSVNEGRIQCP 276

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEY+TDGKCEKMPST+L NVKIKSLPCFE EGMIW+WPG++PPTAT+P LLPPSGFE
Sbjct: 277 YHGWEYTTDGKCEKMPSTRLLNVKIKSLPCFETEGMIWVWPGNDPPTATLPSLLPPSGFE 336

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           +HAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY
Sbjct: 337 VHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 396

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEFRPPCMVLSTIGISKPGKLEGQ+T QCATHLHQLHVCLPSS++KTRLLYRMSLDF
Sbjct: 397 PIDMEFRPPCMVLSTIGISKPGKLEGQSTSQCATHLHQLHVCLPSSKQKTRLLYRMSLDF 456

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A VLKH+PFMQ+LWR+FAEQVLNEDLRLVLGQQERMNNGANVWN PV YDKLG+RYRLWR
Sbjct: 457 APVLKHIPFMQHLWRYFAEQVLNEDLRLVLGQQERMNNGANVWNFPVSYDKLGIRYRLWR 516

Query: 421 DALEKGAKQLPFMK 434
           +ALE+G KQ PF K
Sbjct: 517 NALERGNKQPPFSK 530

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359492578|ref|XP_002284499.2| PREDICTED: chlorophyllide a oxygenase, chloroplastic-like [Vitis vinifera] gi|302141810|emb|CBI19013.3| unnamed protein product [Vitis vinifera]

 Score =  764 bits (1974), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/436 (86%), Positives = 407/436 (93%), Gaps = 2/436 (0%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           MLLHEKVVEVLNPLAR+YKSIGT+KK+LA LQE+LAQAHRQVHISEARV TALDKLAYME
Sbjct: 100 MLLHEKVVEVLNPLAREYKSIGTLKKDLAGLQEELAQAHRQVHISEARVGTALDKLAYME 159

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQ--SLDIVKGKLPRKSLNVSGPVQPYNTRLKNF 118
            LVNDRLLQDR+T+ ++QT  S S S    SLD+VK KLP+KSLNVSGPVQPY+ RLKNF
Sbjct: 160 ELVNDRLLQDRNTADSNQTSTSTSPSTSTASLDMVKRKLPQKSLNVSGPVQPYHPRLKNF 219

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W+PVAFSTDLKDDTM+P DCFEEPWV+FRG+DG PGCV+NTCAHRACPLHLGSVNEGRIQ
Sbjct: 220 WYPVAFSTDLKDDTMIPIDCFEEPWVVFRGQDGKPGCVRNTCAHRACPLHLGSVNEGRIQ 279

Query: 179 CPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSG 238
           CPYHGWEYSTDGKCEKMPST+L NVKIKSLPC EQEGMIWIWPG +PPTAT+P L PP G
Sbjct: 280 CPYHGWEYSTDGKCEKMPSTRLLNVKIKSLPCLEQEGMIWIWPGSDPPTATLPSLQPPPG 339

Query: 239 FEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWD 298
           F+IHAEIVMELP+EHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWD
Sbjct: 340 FKIHAEIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWD 399

Query: 299 PYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSL 358
           PYPIDMEFRPPCMVLSTIGISKPGKLEGQ+T+QCATHLHQLHVCLPSSR KTRLLYRMSL
Sbjct: 400 PYPIDMEFRPPCMVLSTIGISKPGKLEGQSTKQCATHLHQLHVCLPSSRDKTRLLYRMSL 459

Query: 359 DFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRL 418
           DFA VL+H+PFMQYLWR+FAE+VLNEDLRLVLGQQ+RM  GANVWN PV YDKLGVRYRL
Sbjct: 460 DFAPVLQHIPFMQYLWRYFAEKVLNEDLRLVLGQQDRMLMGANVWNCPVSYDKLGVRYRL 519

Query: 419 WRDALEKGAKQLPFMK 434
           WRDA+E+GAK+LPF +
Sbjct: 520 WRDAVERGAKRLPFTE 535

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552681|ref|XP_003544691.1| PREDICTED: chlorophyllide a oxygenase, chloroplastic-like [Glycine max]

 Score =  762 bits (1968), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 373/432 (86%), Positives = 402/432 (93%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           M LHEKVVEVLNPLAR+YKSIGT+KKELA LQ++LAQAHRQVHISEARV TALDKLAYME
Sbjct: 95  MHLHEKVVEVLNPLAREYKSIGTLKKELAGLQDELAQAHRQVHISEARVTTALDKLAYME 154

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LVNDRLLQDR T+   QT +SPSTS  SL I K + PRKSLNVSGPVQ Y+  LKNFW+
Sbjct: 155 ELVNDRLLQDRSTAEVAQTSSSPSTSANSLVIEKRRQPRKSLNVSGPVQSYHPHLKNFWY 214

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAFS DLKDDTM+P +CFEEPWVIFRGKDG PGCVQNTCAHRACPLHLGSVNEGRIQCP
Sbjct: 215 PVAFSNDLKDDTMIPIECFEEPWVIFRGKDGKPGCVQNTCAHRACPLHLGSVNEGRIQCP 274

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEY+TDGKCEKMPSTQ  NVKIKS+PCFE+EGMIWIWPG++PPTAT+P LLPPSGFE
Sbjct: 275 YHGWEYTTDGKCEKMPSTQQLNVKIKSVPCFEREGMIWIWPGNDPPTATLPSLLPPSGFE 334

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLV FLTPASGLQGYWDPY
Sbjct: 335 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVNFLTPASGLQGYWDPY 394

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEFRPPCMVLSTIGISKPG+LEGQ+TR+C+THLHQLHVCLPSS++KTRLLYRMSLDF
Sbjct: 395 PIDMEFRPPCMVLSTIGISKPGRLEGQSTRECSTHLHQLHVCLPSSKQKTRLLYRMSLDF 454

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A +LKH+P M+YLWRHFAEQVLNEDLRLV+GQQERMNNGANVWN PV YDKLGVRYR+WR
Sbjct: 455 APLLKHIPLMKYLWRHFAEQVLNEDLRLVVGQQERMNNGANVWNFPVAYDKLGVRYRMWR 514

Query: 421 DALEKGAKQLPF 432
           DALE+G KQLPF
Sbjct: 515 DALERGVKQLPF 526

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224082298|ref|XP_002306638.1| predicted protein [Populus trichocarpa] gi|222856087|gb|EEE93634.1| predicted protein [Populus trichocarpa]

 Score =  761 bits (1966), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 376/432 (87%), Positives = 402/432 (93%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           M+LHEKVVEVLNPLARDYKSIGTMKKELAELQ++L+QAHRQVHISEARV+TALDKLAYME
Sbjct: 100 MILHEKVVEVLNPLARDYKSIGTMKKELAELQDELSQAHRQVHISEARVSTALDKLAYME 159

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LVNDRLLQDR+ + +DQ   SPSTS QSLD VK K PRK+L VSGPVQPY+  LKNFW+
Sbjct: 160 ELVNDRLLQDRNPAESDQASPSPSTSTQSLDTVKNKSPRKNLKVSGPVQPYHPHLKNFWY 219

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAFSTDLKD TM+P DCFEEPWV+FRG DG PGCV+NTCAHRACPLHLGSVNEGR++CP
Sbjct: 220 PVAFSTDLKDGTMIPIDCFEEPWVLFRGMDGKPGCVRNTCAHRACPLHLGSVNEGRVRCP 279

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEYSTDGKCEKMPST+L NVKIKSLPCFEQEGMI +WPG +PP AT+P L PP GF+
Sbjct: 280 YHGWEYSTDGKCEKMPSTRLLNVKIKSLPCFEQEGMILVWPGSDPPAATLPSLQPPPGFQ 339

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           +HAEIVMELP+EHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY
Sbjct: 340 VHAEIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 399

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEFRPPCMVLSTIGISKPGKLEGQ+TR+CATHLHQLHVCLPSSR KTRLLYRMSLDF
Sbjct: 400 PIDMEFRPPCMVLSTIGISKPGKLEGQSTRECATHLHQLHVCLPSSRHKTRLLYRMSLDF 459

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A VLKHVPFM YLWRHFAEQVLNEDLRLVLGQQERM NGANVWN PV YDKLGVRYRLWR
Sbjct: 460 APVLKHVPFMHYLWRHFAEQVLNEDLRLVLGQQERMINGANVWNWPVSYDKLGVRYRLWR 519

Query: 421 DALEKGAKQLPF 432
           DA+EKGAKQLPF
Sbjct: 520 DAVEKGAKQLPF 531

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515896|ref|XP_003526633.1| PREDICTED: chlorophyllide a oxygenase, chloroplastic-like [Glycine max]

 Score =  761 bits (1966), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 374/434 (86%), Positives = 407/434 (93%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           MLLHEKVVEVLNPLARDYKSIGTMKKELA LQE+LA AH+QVHISEARV+TALDKLAYME
Sbjct: 97  MLLHEKVVEVLNPLARDYKSIGTMKKELAGLQEELALAHQQVHISEARVSTALDKLAYME 156

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LVND+LLQ+R T+   QT +SPSTS + +D+ K + PRKSL++SGPVQ Y+T LKNFW+
Sbjct: 157 ELVNDKLLQERTTTEVSQTSSSPSTSFKPVDVEKRRPPRKSLDISGPVQSYHTHLKNFWY 216

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAFSTDLKDDTM+P +CFEEPWVIFRGKDG PGCVQNTCAHRACPLHLGSV EGRIQCP
Sbjct: 217 PVAFSTDLKDDTMIPIECFEEPWVIFRGKDGKPGCVQNTCAHRACPLHLGSVKEGRIQCP 276

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEY+TDGKCEKMPST+L NVKIKSLPCFE+EGMIW+WPG++PPTAT+P LLPPSGFE
Sbjct: 277 YHGWEYTTDGKCEKMPSTRLLNVKIKSLPCFEKEGMIWVWPGNDPPTATLPSLLPPSGFE 336

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           +HAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY
Sbjct: 337 VHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 396

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEFRPPCMVLSTIGISKPGKLEGQ+T QCATHLHQLHVCLPSS++KTRLLYRMSLDF
Sbjct: 397 PIDMEFRPPCMVLSTIGISKPGKLEGQSTSQCATHLHQLHVCLPSSKQKTRLLYRMSLDF 456

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A VLKH+PFMQ+LWR+FAEQVLNEDLRLVLGQQERMNNGANVWN PV YDKLGVRYRLWR
Sbjct: 457 APVLKHIPFMQHLWRYFAEQVLNEDLRLVLGQQERMNNGANVWNFPVSYDKLGVRYRLWR 516

Query: 421 DALEKGAKQLPFMK 434
           +ALE+G KQ PF K
Sbjct: 517 NALEQGTKQPPFSK 530

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356549331|ref|XP_003543047.1| PREDICTED: chlorophyllide a oxygenase, chloroplastic-like [Glycine max]

 Score =  760 bits (1963), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 371/432 (85%), Positives = 401/432 (92%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           M LHEKVVEVLNPLAR+YKSIGT+KKELAELQ++LAQAH QVHISEARV TALDKLAYME
Sbjct: 95  MHLHEKVVEVLNPLAREYKSIGTLKKELAELQDELAQAHTQVHISEARVTTALDKLAYME 154

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LVNDRLLQDR T+   QT +SPSTS  SL   K + PRKSLNVSGPVQ Y+  LKNFW+
Sbjct: 155 ELVNDRLLQDRSTTDVAQTSSSPSTSANSLVTEKRRQPRKSLNVSGPVQSYHPHLKNFWY 214

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAFS DLKDDTM+P +CFEEPWVIFRGKDG PGCVQNTCAHRACPLHLGSVNEGRIQCP
Sbjct: 215 PVAFSNDLKDDTMIPIECFEEPWVIFRGKDGKPGCVQNTCAHRACPLHLGSVNEGRIQCP 274

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEY+TDGKCEKMPST+  NVKIKS+PCFE+EGMIWIWPG++PP AT+P +LPPSGFE
Sbjct: 275 YHGWEYTTDGKCEKMPSTRQLNVKIKSVPCFEKEGMIWIWPGNDPPAATLPSILPPSGFE 334

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLV FLTPASGLQGYWDPY
Sbjct: 335 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVNFLTPASGLQGYWDPY 394

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEFRPPCMVLSTIGISKPGKLEGQ+TR+C+THLHQLHVCLPSS++KTRLLYRMSLDF
Sbjct: 395 PIDMEFRPPCMVLSTIGISKPGKLEGQSTRECSTHLHQLHVCLPSSKQKTRLLYRMSLDF 454

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A +LKH+P M+YLWRHFAEQVLNEDLRLV+GQQERMNNGANVWN PV YDKLGVRYR+WR
Sbjct: 455 APLLKHIPLMKYLWRHFAEQVLNEDLRLVVGQQERMNNGANVWNFPVAYDKLGVRYRMWR 514

Query: 421 DALEKGAKQLPF 432
           DALE+GAKQLPF
Sbjct: 515 DALERGAKQLPF 526

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449465447|ref|XP_004150439.1| PREDICTED: chlorophyllide a oxygenase, chloroplastic-like [Cucumis sativus] gi|449513335|ref|XP_004164299.1| PREDICTED: chlorophyllide a oxygenase, chloroplastic-like [Cucumis sativus]

 Score =  760 bits (1962), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 359/432 (83%), Positives = 401/432 (92%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           MLLHEKVVEVLNPLARDYKSIGTMKKELA LQ++LA+AHRQVHISEARVATALDKLAYME
Sbjct: 99  MLLHEKVVEVLNPLARDYKSIGTMKKELAGLQDELAEAHRQVHISEARVATALDKLAYME 158

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LV+DRLLQDR+T+  D     P TS Q LD +    P+KSLNVSGPV+PY+ RLKNFW+
Sbjct: 159 ELVHDRLLQDRNTAELDSPSTLPGTSTQPLDSINRSSPKKSLNVSGPVEPYHPRLKNFWY 218

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAFS+DLK+D M+PFDCFEEPWV+FRGKDG PGC++NTCAHRACPLHLGSVN+GR+QCP
Sbjct: 219 PVAFSSDLKNDIMIPFDCFEEPWVLFRGKDGNPGCIRNTCAHRACPLHLGSVNDGRVQCP 278

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEYSTDGKCEKMPST+L NVKIKSLPCFE+EGMIW+WPG++PP A +P L PP GF+
Sbjct: 279 YHGWEYSTDGKCEKMPSTRLLNVKIKSLPCFEKEGMIWVWPGNDPPAANLPSLKPPPGFQ 338

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           IHAE+V+E+P+EHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY
Sbjct: 339 IHAELVIEIPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 398

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEFRPPCMVLSTIGISKPGKLEGQ+TR+C+THLHQLHVCLPS+R+KTRLLYRMSLDF
Sbjct: 399 PIDMEFRPPCMVLSTIGISKPGKLEGQSTRECSTHLHQLHVCLPSTRQKTRLLYRMSLDF 458

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A VLK +PFM YLWRHFAEQVLNEDLRLV+GQQERM NGAN+WN+PV YDKLGVRYRLWR
Sbjct: 459 APVLKQIPFMHYLWRHFAEQVLNEDLRLVIGQQERMVNGANIWNMPVSYDKLGVRYRLWR 518

Query: 421 DALEKGAKQLPF 432
           +A+E+GAKQLPF
Sbjct: 519 NAVEEGAKQLPF 530

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|110289597|gb|ABB48003.2| chlorophyll a oxygenase, putative, expressed [Oryza sativa Japonica Group]

 Score =  736 bits (1901), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/434 (81%), Positives = 392/434 (90%), Gaps = 3/434 (0%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           M+LH KVVEVLNPLAR++KSIGT++KELAELQE+LA+AH QVH+SE RV++ALDKLA ME
Sbjct: 86  MVLHNKVVEVLNPLAREFKSIGTLRKELAELQEELAKAHNQVHLSETRVSSALDKLAQME 145

Query: 61  ALVNDRLLQDRHTSGTDQTCAS--PSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNF 118
            LVNDRLLQD  +S +   C S  PSTS  S  +V  K PR+SLNVSGPVQPYN  LKNF
Sbjct: 146 TLVNDRLLQDGGSSASTAECTSLAPSTSSAS-RVVNKKPPRRSLNVSGPVQPYNPSLKNF 204

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W+PVAFS+DLKDDTMVP DCFEE WVIFRGKDG PGCV NTCAHRACPLHLGSVNEGRIQ
Sbjct: 205 WYPVAFSSDLKDDTMVPIDCFEEQWVIFRGKDGRPGCVMNTCAHRACPLHLGSVNEGRIQ 264

Query: 179 CPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSG 238
           CPYHGWEYSTDGKCEKMPST++ NV+I+SLPCFEQEGM+WIWPG++PP +TIP LLPPSG
Sbjct: 265 CPYHGWEYSTDGKCEKMPSTKMLNVRIRSLPCFEQEGMVWIWPGNDPPKSTIPSLLPPSG 324

Query: 239 FEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWD 298
           F IHAEIVMELP+EHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTP+SGLQGYWD
Sbjct: 325 FTIHAEIVMELPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPSSGLQGYWD 384

Query: 299 PYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSL 358
           PYPIDMEFRPPCMVLSTIGISKPGKLEG++T+QC+THLHQLH+CLPSSR KTRLLYRMSL
Sbjct: 385 PYPIDMEFRPPCMVLSTIGISKPGKLEGKSTKQCSTHLHQLHICLPSSRNKTRLLYRMSL 444

Query: 359 DFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRL 418
           DFA  +KHVPFM  LW HFAE+VLNEDLRLVLGQQERM NGANVWN PV YDKLG+RYRL
Sbjct: 445 DFAPWIKHVPFMHILWSHFAEKVLNEDLRLVLGQQERMINGANVWNWPVSYDKLGIRYRL 504

Query: 419 WRDALEKGAKQLPF 432
           WRDA+E+G  +LPF
Sbjct: 505 WRDAIERGVDRLPF 518

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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	436
TAIR|locus:2823671	536	CH1 "CHLORINA 1" [Arabidopsis	0.990	0.805	0.763	3e-188
TAIR|locus:2047329	539	TIC55-II "translocon at the in	0.692	0.560	0.244	5.6e-19
UNIPROTKB|Q4KB09	352	vanA "Vanillate O-demethylase,	0.247	0.306	0.345	1.9e-12
UNIPROTKB|Q48IV9	354	vanA "Vanillate monooxygenase,	0.245	0.302	0.330	7.5e-12
UNIPROTKB|Q4KAM4	363	prnD "Aminopyrrolnitrin oxidas	0.270	0.325	0.296	9.3e-09
TAIR|locus:2131406	559	ACD1-LIKE "AT4G25650" [Arabido	0.263	0.205	0.251	2.2e-08
UNIPROTKB|D5IGG0	378	carAa "Carbazole 1,9a-dioxygen	0.293	0.338	0.304	2.3e-08
TAIR|locus:2082122	537	ACD1 "ACCELERATED CELL DEATH 1	0.245	0.199	0.311	4.6e-08
FB|FBgn0259697	429	nvd "neverland" [Drosophila me	0.458	0.466	0.267	6.6e-08
UNIPROTKB|F1NKZ9	409	LOC427775 "Uncharacterized pro	0.282	0.300	0.305	3.6e-07

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

 Score = 1825 (647.5 bits), Expect = 3.0e-188, P = 3.0e-188
 Identities = 330/432 (76%), Positives = 377/432 (87%)

Query:     1 MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
             M+LH+KVV+VLNPLAR+YKSIGT+KKELA LQE+L++AH+QVHISEARV+TALDKLA+ME
Sbjct:   103 MILHDKVVDVLNPLAREYKSIGTVKKELAGLQEELSKAHQQVHISEARVSTALDKLAHME 162

Query:    61 ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
              LVNDRLL  R  +  D+  +S + S   LD  K     KSLNVSGPV PY+  LKNFW+
Sbjct:   163 ELVNDRLLPGRVVTELDKPSSSTTASAVELDREKTNTGAKSLNVSGPVPPYSPHLKNFWY 222

Query:   121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
             PVAF+ DLK DTMVP +CFE+PWVIFRG+DG PGCV+NTCAHRACPL LG+VNEGRIQCP
Sbjct:   223 PVAFTADLKHDTMVPIECFEQPWVIFRGEDGKPGCVRNTCAHRACPLDLGTVNEGRIQCP 282

Query:   181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
             YHGWEYSTDG+C+KMPST+L  VKIKSLPC EQEGMIWIWPGDEPP   +P L PPSGF 
Sbjct:   283 YHGWEYSTDGECKKMPSTKLLKVKIKSLPCLEQEGMIWIWPGDEPPAPILPSLQPPSGFL 342

Query:   241 IHAEIVMELPIEHGXXXXXXXXXAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
             IHAE+VM+LP+EHG         AHAPFTHTSTFAKGWSVPSLVKFLTP SGLQGYWDPY
Sbjct:   343 IHAELVMDLPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPTSGLQGYWDPY 402

Query:   301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
             PIDMEF+PPC+VLSTIGISKPGKLEG++T+QCATHLHQLHVCLPSS+ KTRLLYRMSLDF
Sbjct:   403 PIDMEFKPPCIVLSTIGISKPGKLEGKSTQQCATHLHQLHVCLPSSKNKTRLLYRMSLDF 462

Query:   361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
             A +LK++PFM++LWRHFAEQVLNEDLRLVLGQQERM NGAN+WNLPV YDKLGVRYRLWR
Sbjct:   463 APILKNLPFMEHLWRHFAEQVLNEDLRLVLGQQERMLNGANIWNLPVAYDKLGVRYRLWR 522

Query:   421 DALEKGAKQLPF 432
             +A+++G  +LPF
Sbjct:   523 NAVDRGDDKLPF 534

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

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

 Score = 253 (94.1 bits), Expect = 5.6e-19, P = 5.6e-19
 Identities = 80/327 (24%), Positives = 137/327 (41%)

Query:   119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
             W+P+  + ++ +D  +    ++   V+++  +G   C ++ C HR   L  G + +GR++
Sbjct:    88 WYPLYLTKNVPEDAPLGLTVYDRQIVLYKDGEGTLRCYEDRCPHRLAKLSEGQLIDGRLE 147

Query:   179 CPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCF------EQEGMIWIWPGDE-PPTAT-I 230
             C YHGW++  +GKC K+P     + KI    C       + +G++W+W   + PP    +
Sbjct:   148 CLYHGWQFEGEGKCVKIPQLPA-SAKIPKAACVKTYEVKDSQGVVWVWMSTKTPPNPEKL 206

Query:   231 PCL---LPPSGFEIHAEIVMELPIEHGXXXXXXXXXAHAPFTHTST-F-AKGWSVPSLVK 285
             P       P  F+I      ELP +H          AH P +H  T F AK      LV 
Sbjct:   207 PWFENFARPGFFDIST--THELPYDHSILLENLMDPAHVPISHDRTDFTAKREDAQPLVF 264

Query:   286 FLTPAS--GLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCL 343
              +T  S  G  G W       +        +   +    + EG++  +   +   L +C 
Sbjct:   265 EVTERSNRGFAGTWGREKEGGKGSNLLRFDAPCVLQNNREFEGKDGVK--NYFSGLFLCR 322

Query:   344 PSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQE-RMNNGANV 402
             P+ + K+ L+ R  +   S L  V   Q+ W   A +V  +D+  +  Q E  M      
Sbjct:   323 PTGQGKSMLIVRFGVTKRSPLVSV-LPQWFWHQNACKVFEQDMGFLSSQNEVLMKEKVPT 381

Query:   403 WNLPVGY---DKLGVRYRLWRDALEKG 426
              +L +     D     YR W D +  G
Sbjct:   382 KDLYLNLKSSDTWVAEYRKWMDKVGHG 408

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

 Score = 186 (70.5 bits), Expect = 1.9e-12, Sum P(2) = 1.9e-12
 Identities = 38/110 (34%), Positives = 54/110 (49%)

Query:   116 KNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEG 175
             KN W+      +L+   +    C E   V +R  +G    V++ C HR  PL LG V  G
Sbjct:     4 KNAWYVACTPDELQGKPLGRQICGEH-MVFYRAHEGRVTAVEDFCPHRGAPLSLGYVENG 62

Query:   176 RIQCPYHGWEYSTDGKCEKMPSTQLRNVKI-KSLPCFEQEGMIWIWPGDE 224
              + C YHG     DGK  +MP  ++R     K+    E+ G IW+WPGD+
Sbjct:    63 NLVCGYHGLVMGCDGKTVEMPGQRVRGFPCNKTFAAVERYGFIWVWPGDQ 112

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

GO:0018489 "vanillate monooxygenase activity" evidence=ISS

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

 Score = 176 (67.0 bits), Expect = 7.5e-12, Sum P(2) = 7.5e-12
 Identities = 36/109 (33%), Positives = 54/109 (49%)

Query:   116 KNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEG 175
             KN W+    + ++ D  +    C  E  V +R ++     +++ C HR  PL LG V  G
Sbjct:     4 KNAWYVACTADEVADKPLGRQIC-NERMVFYRDQNQQVVALEDFCPHRGAPLSLGYVENG 62

Query:   176 RIQCPYHGWEYSTDGKCEKMPSTQLRNVKI-KSLPCFEQEGMIWIWPGD 223
             ++ C YHG     DGK   MP  ++R     K+    E+ G IW+WPGD
Sbjct:    63 QLVCGYHGLVMGGDGKTAAMPGQRVRGFPCNKTFAAVERYGFIWVWPGD 111

GO:0018489 "vanillate monooxygenase activity" evidence=ISS

GO:0042190 "vanillin catabolic process" evidence=ISS

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

 Score = 159 (61.0 bits), Expect = 9.3e-09, Sum P(2) = 9.3e-09
 Identities = 38/128 (29%), Positives = 55/128 (42%)

Query:   113 TRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV 172
             TR+   W+    S  L+D        F  P+V +R   G    +   C+H    L  G +
Sbjct:    23 TRVAASWYVAMRSNGLRDKPK-ELTLFGRPYVAWRAATGQAVVMDRHCSHLGANLADGRI 81

Query:   173 NEGRIQCPYHGWEYSTDGKCEKMPS-----TQL----RNVKIKSLPCFEQEGMIWIWPGD 223
              +G IQCP+H W Y   GKC  +P       QL    R  +  +L   E+ G +W+W G 
Sbjct:    82 KDGCIQCPFHHWRYDEQGKCVHIPGHSEVVRQLEPVPRAARQPTLVTTERYGYVWVWYGS 141

Query:   224 EPPTATIP 231
               P   +P
Sbjct:   142 PQPLHPLP 149

GO:0003824 "catalytic activity" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0019748 "secondary metabolic process" evidence=ISS

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

 Score = 137 (53.3 bits), Expect = 2.2e-08, Sum P(2) = 2.2e-08
 Identities = 33/131 (25%), Positives = 55/131 (41%)

Query:   156 VQNTCAHRACPLHLGSVNE-GRIQCPYHGWEYSTDGKCEKMPSTQ--------LRNVKIK 206
             + +TC HR  PL  G +++ GR+QC YHGW ++  G C+ +P            +   + 
Sbjct:   123 MDDTCPHRLAPLSDGRIDQWGRLQCVYHGWCFNGSGDCKLIPQAPPDGPPVHTFKQACVA 182

Query:   207 SLPCFEQEGMIWIWPGDEPPTATI-----PCLLPPSGFEIHAEIV--MELPIEHGXXXXX 259
               P   Q  +IW WP  +P    I     P  +P        +++   ++P  +      
Sbjct:   183 VYPSTVQHEIIWFWPNSDPKYKNIIETNKPPYIPELEDPSFTKLMGNRDIPYGYDVLVEN 242

Query:   260 XXXXAHAPFTH 270
                 AH P+ H
Sbjct:   243 LMDPAHVPYAH 253

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

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

 Score = 156 (60.0 bits), Expect = 2.3e-08, P = 2.3e-08
 Identities = 43/141 (30%), Positives = 70/141 (49%)

Query:   109 QPY-NTRL--KNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRAC 165
             +PY   +L  +N W+PV  ++++ + T VP     E  ++     G    +Q+ C HR  
Sbjct:    16 EPYIRAKLGFRNHWYPVRLASEIAEGTPVPVKLLGEK-ILLNRVGGKVYAIQDRCLHRGV 74

Query:   166 PL--HLGSVNEGRIQCPYHGWEYS-TDGKCEKM---P-STQLRNVKIKSLPCFEQEGMIW 218
              L   +   ++  I C YHGW Y   DG+   +   P S Q+    +K+ P  E +G+I+
Sbjct:    75 TLSDRVECYSKNTISCWYHGWTYRWDDGRLVDILTNPGSVQIGRRALKTFPVEEAKGLIF 134

Query:   219 IWPGDEPPTATIPCLLPPSGF 239
             ++ GD  PT  I  + PP GF
Sbjct:   135 VYVGDGEPTPLIEDV-PP-GF 153

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

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

 Score = 156 (60.0 bits), Expect = 4.6e-08, P = 4.6e-08
 Identities = 38/122 (31%), Positives = 57/122 (46%)

Query:   116 KNFWFPVAFSTDLKDDTMVPFDCFEEPWVI-FRGKDGIPGCVQNTCAHRACPLHLGSVNE 174
             ++ W+PV+   DL  +   PF       V+ F   D       + C HR  PL  G ++E
Sbjct:    85 RDHWYPVSLVEDLDPNVPTPFQLLGRDLVLWFDRNDQKWAAFDDLCPHRLAPLSEGRLDE 144

Query:   175 -GRIQCPYHGWEYSTDGKCEKMPST-----QLRNVK------IKSLPCFEQEGMIWIWPG 222
              G +QC YHGW +   G C ++P       + R VK      IK  P    +G++++WP 
Sbjct:   145 NGHLQCSYHGWSFGGCGSCTRIPQAATSGPEARAVKSPRACAIK-FPTMVSQGLLFVWP- 202

Query:   223 DE 224
             DE
Sbjct:   203 DE 204

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

FB|FBgn0259697 nvd "neverland" [Drosophila melanogaster (taxid:7227)]

 Score = 153 (58.9 bits), Expect = 6.6e-08, P = 6.6e-08
 Identities = 60/224 (26%), Positives = 92/224 (41%)

Query:   117 NFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLG-SVNEG 175
             N W+ +  S+ LK        C  E  VIFR K  I   +   C H    L +G SV + 
Sbjct:    95 NGWYGILKSSQLKAGEATCVSCLGEDLVIFRSKKDIVFILDAYCPHLGANLGIGGSVADD 154

Query:   176 RIQCPYHGWEY-STDGKCEKMP-STQL-RNVKIKSLPCFEQEGMIWIWPGDEPPTATIPC 232
              + CP+H W++  TDG C  +P ST + +  K+K     E +G I+IW   E     +P 
Sbjct:   155 CVICPFHQWKFRGTDGLCINIPYSTSVPKGSKLKKWISQEVDGFIFIWYHAEQ--TELPW 212

Query:   233 LLP-PSG-------FEIHAEIVMELPIEHGXXXXXXXXXAHAPFTHTSTFAKG-WSVPSL 283
              LP P G       +  H E  +   I+           AH    H   F  G W+    
Sbjct:   213 DLPVPMGEIDDTFVYHGHNEFYINCHIQE--IPENGADIAHFNAIHKKNFINGSWAQKKR 270

Query:   284 VKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQ 327
             + F   +   +  W P+   +++      L+ + +S   KL G+
Sbjct:   271 L-FGLGSHHWKARWSPFTGKLKY------LAEVNLSHTFKLFGK 307

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

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

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0007552 "metamorphosis" evidence=IMP

GO:0035264 "multicellular organism growth" evidence=IMP

GO:0002168 "instar larval development" evidence=IMP

GO:0045456 "ecdysteroid biosynthetic process" evidence=IMP

UNIPROTKB|F1NKZ9 LOC427775 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 146 (56.5 bits), Expect = 3.6e-07, P = 3.6e-07
 Identities = 40/131 (30%), Positives = 57/131 (43%)

Query:    94 KGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIP 153
             +G   R+S        PY     N W+ V  S  L    +       E    FR +DG  
Sbjct:    51 RGLSARRSRRPGALPPPY----PNGWYRVLDSAQLPRGAVRSLALLGERLAAFRTQDGQA 106

Query:   154 GCVQNTCAHRACPLHLGSVNEGR-IQCPYHGWEY-STDGKCEKMP-STQLRN-VKIKSLP 209
               V   C H    L  G    G  I+CP+HGW +   DGKC  +P + ++ +  K++S P
Sbjct:   107 HVVDAYCPHLGADLAAGGRVVGSCIECPFHGWRFRGEDGKCTHIPYAGKVPDFAKVRSWP 166

Query:   210 CFEQEGMIWIW 220
             C E  GM+ +W
Sbjct:   167 CCEVNGMLLLW 177

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

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

---

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)
Q8S7E1	CAO_ORYSJ	1, ., 1, 4, ., 1, 3, ., 1, 2, 2	0.8179	0.9885	0.7966	yes	no
Q9MBA1	CAO_ARATH	1, ., 1, 4, ., 1, 3, ., 1, 2, 2	0.7847	0.9908	0.8059	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	1.13.12	0.976
3rd Layer	1.13.12.14	0.991

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.II.1788.1 hypothetical protein (506 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	436
PLN02281	536	PLN02281, PLN02281, chlorophyllide a oxygenase	0.0
cd04337	129	cd04337, Rieske_RO_Alpha_Cao, Cao (chlorophyll a o	3e-84
PLN00095	394	PLN00095, PLN00095, chlorophyllide a oxygenase; Pr	1e-68
COG4638	367	COG4638, HcaE, Phenylpropionate dioxygenase and re	2e-32
cd03469	118	cd03469, Rieske_RO_Alpha_N, Rieske non-heme iron o	9e-32
cd03479	144	cd03479, Rieske_RO_Alpha_PhDO_like, Rieske non-hem	4e-28
cd03532	116	cd03532, Rieske_RO_Alpha_VanA_DdmC, Rieske non-hem	3e-26
cd04338	134	cd04338, Rieske_RO_Alpha_Tic55, Tic55 is a 55kDa L	1e-24
pfam08417	91	pfam08417, PaO, Pheophorbide a oxygenase	2e-22
cd03480	138	cd03480, Rieske_RO_Alpha_PaO, Rieske non-heme iron	2e-18
pfam00355	99	pfam00355, Rieske, Rieske [2Fe-2S] domain	7e-18
cd03467	98	cd03467, Rieske, Rieske domain; a [2Fe-2S] cluster	2e-17
cd03548	136	cd03548, Rieske_RO_Alpha_OMO_CARDO, Rieske non-hem	1e-13
cd03537	123	cd03537, Rieske_RO_Alpha_PrnD, This alignment mode	2e-13
PLN02518	539	PLN02518, PLN02518, pheophorbide a oxygenase	5e-13
cd03531	115	cd03531, Rieske_RO_Alpha_KSH, The alignment model	2e-10
COG2146	106	COG2146, {NirD}, Ferredoxin subunits of nitrite re	2e-08
cd03478	95	cd03478, Rieske_AIFL_N, AIFL (apoptosis-inducing f	2e-08
cd03542	123	cd03542, Rieske_RO_Alpha_HBDO, Rieske non-heme iro	2e-07
cd08878	196	cd08878, RHO_alpha_C_DMO-like, C-terminal catalyti	4e-07
cd03535	123	cd03535, Rieske_RO_Alpha_NDO, Rieske non-heme iron	7e-07
cd03541	118	cd03541, Rieske_RO_Alpha_CMO, Rieske non-heme iron	8e-07
cd03528	98	cd03528, Rieske_RO_ferredoxin, Rieske non-heme iro	3e-06
TIGR03229	433	TIGR03229, benzo_1_2_benA, benzoate 1,2-dioxygenas	1e-05
cd00680	188	cd00680, RHO_alpha_C, C-terminal catalytic domain	3e-05
cd03538	146	cd03538, Rieske_RO_Alpha_AntDO, Rieske non-heme ir	9e-05
cd03545	150	cd03545, Rieske_RO_Alpha_OHBDO_like, Rieske non-he	3e-04
cd03472	128	cd03472, Rieske_RO_Alpha_BPDO_like, Rieske non-hem	4e-04
cd03539	129	cd03539, Rieske_RO_Alpha_S5H, This alignment model	4e-04
cd03530	98	cd03530, Rieske_NirD_small_Bacillus, Small subunit	4e-04
TIGR03228	438	TIGR03228, anthran_1_2_A, anthranilate 1,2-dioxyge	7e-04

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

 Score =  720 bits (1859), Expect = 0.0
 Identities = 339/432 (78%), Positives = 386/432 (89%)

Query: 1   MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYME 60
           M+LH+KVV+VLNPLAR+YKSIGT+KKELA LQE+L++AH+QVHISEARV+TALDKLA+ME
Sbjct: 103 MILHDKVVDVLNPLAREYKSIGTVKKELAGLQEELSKAHQQVHISEARVSTALDKLAHME 162

Query: 61  ALVNDRLLQDRHTSGTDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWF 120
            LVNDRLL  R  +  D+  +S + S   LD  K     KSLNVSGPV PY+  LKNFW+
Sbjct: 163 ELVNDRLLPGRVVTELDKPSSSTTASAVELDREKTNTGAKSLNVSGPVPPYSPHLKNFWY 222

Query: 121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP 180
           PVAF+ DLK DTMVP +CFE+PWVIFRG+DG PGCV+NTCAHRACPL LG+VNEGRIQCP
Sbjct: 223 PVAFTADLKHDTMVPIECFEQPWVIFRGEDGKPGCVRNTCAHRACPLDLGTVNEGRIQCP 282

Query: 181 YHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFE 240
           YHGWEYSTDG+C+KMPST+L  VKIKSLPC EQEGMIWIWPGDEPP   +P L PPSGF 
Sbjct: 283 YHGWEYSTDGECKKMPSTKLLKVKIKSLPCLEQEGMIWIWPGDEPPAPILPSLQPPSGFL 342

Query: 241 IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPY 300
           IHAE+VM+LP+EHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTP SGLQGYWDPY
Sbjct: 343 IHAELVMDLPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPTSGLQGYWDPY 402

Query: 301 PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF 360
           PIDMEF+PPC+VLSTIGISKPGKLEG++T+QCATHLHQLHVCLPSS+ KTRLLYRMSLDF
Sbjct: 403 PIDMEFKPPCIVLSTIGISKPGKLEGKSTQQCATHLHQLHVCLPSSKNKTRLLYRMSLDF 462

Query: 361 ASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWR 420
           A +LK++PFM++LWRHFAEQVLNEDLRLVLGQQERM NGAN+WNLPV YDKLGVRYRLWR
Sbjct: 463 APILKNLPFMEHLWRHFAEQVLNEDLRLVLGQQERMLNGANIWNLPVAYDKLGVRYRLWR 522

Query: 421 DALEKGAKQLPF 432
           +A+++G  +LPF
Sbjct: 523 NAVDRGDDKLPF 534

Length = 536

>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 =  253 bits (648), Expect = 3e-84
 Identities = 81/129 (62%), Positives = 96/129 (74%)

Query: 102 LNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCA 161
             V G        L+NFW+PV FS DLK DTMVPF+ F +PWV+FR +DG PGC+++ CA
Sbjct: 1   SRVLGSSLELEPGLRNFWYPVEFSKDLKMDTMVPFELFGQPWVLFRDEDGTPGCIRDECA 60

Query: 162 HRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWP 221
           HRACPL LG V EGRIQCPYHGWEY  DG+C KMPST+  NV I +LPC EQ+GMIW+WP
Sbjct: 61  HRACPLSLGKVIEGRIQCPYHGWEYDGDGECTKMPSTKCLNVGIAALPCMEQDGMIWVWP 120

Query: 222 GDEPPTATI 230
           GD+PP A  
Sbjct: 121 GDDPPAALP 129

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|165668 PLN00095, PLN00095, chlorophyllide a oxygenase; Provisional

 Score =  222 bits (567), Expect = 1e-68
 Identities = 104/306 (33%), Positives = 156/306 (50%), Gaps = 38/306 (12%)

Query: 116 KNFWFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE 174
           +  WFPVAF+  L+D D ++ FD F  PWV+FR  DG  GC+++ CAHRACPL LG + +
Sbjct: 70  RAHWFPVAFAAGLRDEDALIAFDLFNVPWVLFRDADGEAGCIKDECAHRACPLSLGKLVD 129

Query: 175 GRIQCPYHGWEYSTDGKCEKMPSTQ--LRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPC 232
           G+ QCPYHGWEY T G+C KMPS +  L+ V   + P  E++G I++W G+  P   +  
Sbjct: 130 GKAQCPYHGWEYETGGECAKMPSCKKFLKGVFADAAPVIERDGFIFLWAGESDPADFVGP 189

Query: 233 -------------------LLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTST 273
                                P  GF   AE++ ++ ++   +L+ LL +        +T
Sbjct: 190 EAACESIDDDVLAANEPGMFAPGEGFTPMAEVIADIKLDADEVLERLLAIGERA-RREAT 248

Query: 274 FAKGWSVPSLVK-FLTPASG-------LQGYWDPYPIDMEFRPPCMVLSTIGIS-KPGKL 324
            +   S     +  L P  G       L+G  D  P    F+P C++ STI +   PG  
Sbjct: 249 VSFDVSDAKRGRDALFPVDGTKIIAKVLRGGRDAVPQSATFKPACVIASTIALEDGPGGG 308

Query: 325 EGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQ-YLWRHFAEQVLN 383
           +G +      ++ QLHVCLP+     RLL+R++ DF +V +        +W + A  VL 
Sbjct: 309 DGTD-----MNVEQLHVCLPAKPGLCRLLFRLAFDFVAVPEGAQAAAGDVWANLAMMVLK 363

Query: 384 EDLRLV 389
           E+L  V
Sbjct: 364 EELEDV 369

Length = 394

>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 =  125 bits (316), Expect = 2e-32
 Identities = 77/338 (22%), Positives = 115/338 (34%), Gaps = 43/338 (12%)

Query: 116 KNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-NE 174
              W+ VA S++L     +      EP V+ R KDG    + + C HR   L  G V  +
Sbjct: 25  YKHWYVVAHSSELPKPDPLTVRIGGEPLVVVRDKDGQVHALADVCPHRGARLSEGRVGGK 84

Query: 175 GRIQCPYHGWEYSTDGKCEKMPSTQLR------NVKIKSLPCFEQEGMIWIWPGDEPPTA 228
           GR+ CPYHGW Y  DG+   +P+             +K  P  E+ G IWIW GD PP A
Sbjct: 85  GRLTCPYHGWTYDLDGRLRGVPARGYPLDFDKSEHGLKRYPVEERYGFIWIWLGDPPPAA 144

Query: 229 TIPCLLPPSGFEIHAEIVM-------ELPIEHGLLLDNLLD-LAHAPFTHTST--FAKGW 278
                LPP+         +        +P    L ++N LD   H PF H          
Sbjct: 145 --EAFLPPAEPYEDDRSRLGGGSFTINVPGNWKLAVENNLDDPYHVPFVHPGLLGTEPHT 202

Query: 279 SVPSLVKFLTPASGLQGYWD-PYPIDMEFRPPCMVLSTIGISKPGKLEGQNTR-QCATHL 336
            V +          +      P+   +                 G  E            
Sbjct: 203 EVGAYDVTAGGHWDVILATGNPFFQPLGS-------EASSYGFDGNYEVHVPGAYLLFLY 255

Query: 337 HQLHVC-------------LPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLN 383
               V               P    +T +     +    V   V +   L R F +++L+
Sbjct: 256 PNSTVWNHVTVDDVIVFFVQPIDEDETMVTLVWLVLPDLVEG-VDYFDKLIRRFRQEILD 314

Query: 384 EDLRLVLGQQERMNNGANVWNL-PVGYDKLGVRYRLWR 420
           +D  ++  QQ    + A      P+  D   V++R W 
Sbjct: 315 QDREILENQQPGRLSPALERGPYPIREDAGSVQFRRWL 352

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 =  116 bits (294), Expect = 9e-32
 Identities = 36/116 (31%), Positives = 55/116 (47%), Gaps = 8/116 (6%)

Query: 119 WFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-NEGR 176
           W+ V  S++L +    V  +   EP V+ R +DG      N C HR   L  G   N GR
Sbjct: 1   WYFVGHSSELPEPGDYVTLELGGEPLVLVRDRDGEVRAFHNVCPHRGARLCEGRGGNAGR 60

Query: 177 IQCPYHGWEYSTDGKCEKMPSTQ------LRNVKIKSLPCFEQEGMIWIWPGDEPP 226
           + CPYHGW Y  DGK   +P  +         + ++++P  E  G+I++    + P
Sbjct: 61  LVCPYHGWTYDLDGKLVGVPREEGFPGFDKEKLGLRTVPVEEWGGLIFVNLDPDAP 116

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|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 =  108 bits (271), Expect = 4e-28
 Identities = 44/129 (34%), Positives = 63/129 (48%), Gaps = 8/129 (6%)

Query: 106 GPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRA 164
           GP  P    L+ +W PVA S++L  D   V      E  V FR   G  G +   C HR 
Sbjct: 9   GPGTPMGELLRRYWQPVALSSELTEDGQPVRVRLLGEDLVAFRDTSGRVGLLDEHCPHRG 68

Query: 165 CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP-----STQLRNVKIKSLPCFEQEGMIWI 219
             L  G V E  ++C YHGW++  DG+C +MP     S   + V+  + P  E+ G++W 
Sbjct: 69  ASLVFGRVEECGLRCCYHGWKFDVDGQCLEMPSEPPDSQLKQKVRQPAYPVRERGGLVWA 128

Query: 220 W--PGDEPP 226
           +  P +E P
Sbjct: 129 YMGPAEEAP 137

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 =  102 bits (255), Expect = 3e-26
 Identities = 39/113 (34%), Positives = 61/113 (53%), Gaps = 3/113 (2%)

Query: 115 LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE 174
            +N W+  A++ +L  D  +      EP V++R +DG    +++ C HR+ PL  GSV  
Sbjct: 2   PRNAWYVAAWADEL-GDKPLARTLLGEPVVLYRTQDGRVAALEDRCPHRSAPLSKGSVEG 60

Query: 175 GRIQCPYHGWEYSTDGKCEKMP--STQLRNVKIKSLPCFEQEGMIWIWPGDEP 225
           G + C YHG E+ +DG+C  MP          ++S P  E++ +IWIW GD  
Sbjct: 61  GGLVCGYHGLEFDSDGRCVHMPGQERVPAKACVRSYPVVERDALIWIWMGDAA 113

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|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 = 98.0 bits (244), Expect = 1e-24
 Identities = 39/126 (30%), Positives = 71/126 (56%), Gaps = 11/126 (8%)

Query: 108 VQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPL 167
           V  Y+ R +  W+P+    D+  D  +    ++EP+V+FR ++G   C+++ C HR   L
Sbjct: 9   VAEYDWREE--WYPLYLLKDVPTDAPLGLSVYDEPFVLFRDQNGQLRCLEDRCPHRLAKL 66

Query: 168 HLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQL-------RNVKIKSLPCFEQEGMIWIW 220
             G + +G+++C YHGW++  +GKC K+P  QL       +N  +KS    + +G++W+W
Sbjct: 67  SEGQLIDGKLECLYHGWQFGGEGKCVKIP--QLPADAKIPKNACVKSYEVRDSQGVVWMW 124

Query: 221 PGDEPP 226
             +  P
Sbjct: 125 MSEATP 130

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 = 90.8 bits (226), Expect = 2e-22
 Identities = 37/103 (35%), Positives = 53/103 (51%), Gaps = 17/103 (16%)

Query: 306 FRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFAS-VL 364
           F  PC++LST  +            +C  HLH +  C+P S  K+RLL R   +F S +L
Sbjct: 1   FEAPCLLLSTGVL----------KAECKKHLHTVFYCIPVSPGKSRLLARFPRNFKSPLL 50

Query: 365 KHVPFMQYLWRHFA-EQVLNEDLRLVLGQQERM--NNGANVWN 404
           K VP     W H A  +VL ED+ L+ GQ+ R+    G++ W 
Sbjct: 51  KLVP---RWWEHIAQNKVLEEDMILLHGQERRLQRRGGSDNWQ 90

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|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 = 80.8 bits (200), Expect = 2e-18
 Identities = 34/116 (29%), Positives = 56/116 (48%), Gaps = 9/116 (7%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVI-FRGKDGIPGCVQNTCAHRACPLHLGSVNE-GR 176
           W+PVA+  DL      PF       VI +           + C HR  PL  G ++E G 
Sbjct: 18  WYPVAYVEDLDPSRPTPFTLLGRDLVIWWDRNSQQWRAFDDQCPHRLAPLSEGRIDEEGC 77

Query: 177 IQCPYHGWEYSTDGKCEKMP--STQLRNVK-----IKSLPCFEQEGMIWIWPGDEP 225
           ++CPYHGW +   G C+++P  +   +        + SLP   ++G++++WPG+  
Sbjct: 78  LECPYHGWSFDGSGSCQRIPQAAEGGKAHTSPRACVASLPTAVRQGLLFVWPGEPE 133

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

 Score = 78.3 bits (193), Expect = 7e-18
 Identities = 30/89 (33%), Positives = 42/89 (47%), Gaps = 5/89 (5%)

Query: 119 WFPVAFSTDLKDDT-MVPFDCF-EEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV--NE 174
           W PV   ++L +       D   E+P V+ R KDG    + N C HR  PL  G V   +
Sbjct: 2   WVPVCHESELPEPGDFKTVDLDGEDPVVVRRDKDGEVRALSNVCTHRGAPLSRGGVGNEK 61

Query: 175 GRIQCPYHGWEYS-TDGKCEKMPSTQLRN 202
           G  +CPYHGW +  + GK    P+ +   
Sbjct: 62  GGFECPYHGWRFDLSTGKLVGGPAPRPLK 90

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|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 = 77.1 bits (190), Expect = 2e-17
 Identities = 27/105 (25%), Positives = 40/105 (38%), Gaps = 10/105 (9%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W  V   ++L             P V+ R + G    + N C H+ CPL  G   +G I 
Sbjct: 1   WVVVGALSELPPGGGRVVVVGGGPVVVVRREGGEVYALSNRCTHQGCPLSEGEGEDGCIV 60

Query: 179 CPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFE--QEGMIWIW 220
           CP HG  +    G+    P+ +        LP +    EG   +W
Sbjct: 61  CPCHGSRFDLRTGEVVSGPAPR-------PLPKYPVKVEGDGVVW 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|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 = 67.1 bits (164), Expect = 1e-13
 Identities = 41/135 (30%), Positives = 60/135 (44%), Gaps = 16/135 (11%)

Query: 109 QPYNTR---LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRAC 165
           QPY       +N W+P  FS +L++          EP ++ R  DG    +++ C HR  
Sbjct: 2   QPYIDAKWGFRNHWYPALFSHELEEGEPKGIQLCGEP-ILLRRVDGKVYALKDRCLHRGV 60

Query: 166 PL--HLGSVNEGRIQCPYHGWEYS-TDGKCEKM----PSTQLRNVKIKSLPCFEQEGMIW 218
           PL        +G I C YHGW Y   DGK   +        +    +K+ P  E +GMI+
Sbjct: 61  PLSKKPECFTKGTITCWYHGWTYRLDDGKLVTILANPDDPLIGRTGLKTYPVEEAKGMIF 120

Query: 219 IWPGDE-----PPTA 228
           ++ GD      PP A
Sbjct: 121 VFVGDGDYADPPPLA 135

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|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 = 66.5 bits (162), Expect = 2e-13
 Identities = 36/117 (30%), Positives = 49/117 (41%), Gaps = 10/117 (8%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W+    S DLKD        F  P V +RG  G    +   C+H    L  G V +G IQ
Sbjct: 4   WYVAMRSDDLKDKP-TELTLFGRPCVAWRGATGRAVVMDRHCSHLGANLADGRVKDGCIQ 62

Query: 179 CPYHGWEYSTDGKCEKMPSTQL---------RNVKIKSLPCFEQEGMIWIWPGDEPP 226
           CP+H W Y   G+C  +P             R  +  +L   E+ G +W+W G   P
Sbjct: 63  CPFHHWRYDEQGQCVHIPGHSTAVRRLEPVPRGARQPTLVTAERYGYVWVWYGSPQP 119

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|215283 PLN02518, PLN02518, pheophorbide a oxygenase

 Score = 70.7 bits (173), Expect = 5e-13
 Identities = 64/236 (27%), Positives = 95/236 (40%), Gaps = 45/236 (19%)

Query: 116 KNFWFPVAFSTDLKDDTMVPF-----------DCFEEPWVIFRGKDGIPGCVQNTCAHRA 164
           ++ W+PV+   DL      PF           D  +  WV F  K          C HR 
Sbjct: 88  RDHWYPVSLVEDLDPSVPTPFQLLGRDLVLWKDPNQGEWVAFDDK----------CPHRL 137

Query: 165 CPLHLGSVNE-GRIQCPYHGWEYSTDGKCEKMPST-----QLRNVK-----IKSLPCFEQ 213
            PL  G ++E G +QC YHGW +   G C ++P       + R VK         P    
Sbjct: 138 APLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAPEGPEARAVKSPRACAIKFPTMVS 197

Query: 214 EGMIWIWP---GDEPPTATIPCLLPPSGFEIHA----EIVMELPIEHGLLLDNLLDLAHA 266
           +G++++WP   G E   AT P +LP   F+        I  +L   +  L++N+ D +H 
Sbjct: 198 QGLLFVWPDENGWERAQATKPPMLPDE-FDDPEFSTVTIQRDLFYGYDTLMENVSDPSHI 256

Query: 267 PFTHTSTFAKGWSVPSLVKFLTPASGLQGYW----DPYPIDMEFRPPCMVLSTIGI 318
            F H     +      L  F   +SG  G+     D   I  +F  PC  ++ I I
Sbjct: 257 DFAHHKVTGRRDRAKPL-PFKVESSGPWGFAGANSDNPRITAKFVAPCYYINKIEI 311

Length = 539

>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 = 57.4 bits (139), Expect = 2e-10
 Identities = 29/114 (25%), Positives = 50/114 (43%), Gaps = 5/114 (4%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W  +  + D +D      + F    V+F   DG    +   C H    L  G+V    I 
Sbjct: 2   WHCLGLARDFRDGKPHGVEAFGTKLVVFADSDGALNVLDAYCRHMGGDLSQGTVKGDEIA 61

Query: 179 CPYHGWEYSTDGKCEKMPSTQL--RNVKIKSLPCFEQEGMIWIW---PGDEPPT 227
           CP+H W +  DG+C+ +P  +      + ++ P  E+ G +++W    G+ PP 
Sbjct: 62  CPFHDWRWGGDGRCKAIPYARRVPPLARTRAWPTLERNGQLFVWHDPEGNPPPP 115

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

 Score = 51.6 bits (124), Expect = 2e-08
 Identities = 23/104 (22%), Positives = 41/104 (39%), Gaps = 6/104 (5%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-NEGRI 177
           W  +    DL +   V        + +    DG    + N C H   PL  G V  +  +
Sbjct: 5   WIRICKVDDLPEGGGVRVLVGGGRFALVVRADGEVFAIDNRCPHAGAPLSRGLVEGDETV 64

Query: 178 QCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIW 220
            CP HG  +    G+C + P+ +     +K+ P   + G +++ 
Sbjct: 65  VCPLHGARFDLRTGECLEPPAGK----TLKTYPVRVEGGRVFVD 104

Length = 106

>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 = 51.1 bits (123), Expect = 2e-08
 Identities = 27/92 (29%), Positives = 42/92 (45%), Gaps = 9/92 (9%)

Query: 122 VAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPY 181
           V   +DL D  M   D  +   ++ R    +   +   C H   PL  G + +GRI+CP+
Sbjct: 3   VCRLSDLGDGEMKEVDVGDGKVLLVRQGGEV-HAIGAKCPHYGAPLAKGVLTDGRIRCPW 61

Query: 182 HGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFE 212
           HG  ++   G  E  P+       + SLPC+E
Sbjct: 62  HGACFNLRTGDIEDAPA-------LDSLPCYE 86

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

>gnl|CDD|239615 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

 Score = 49.4 bits (118), Expect = 2e-07
 Identities = 23/55 (41%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 141 EPWVIFRGKDGIPGCVQNTCAHRACPL-HLGSVNEGRIQCPYHGWEYSTDGKCEK 194
           +P VI R KDG      N C+HR   L      N+G   CP+HGW +S  GK  K
Sbjct: 24  QPVVITRDKDGELNAFINACSHRGAMLCRRKQGNKGTFTCPFHGWTFSNTGKLLK 78

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. Length = 123

>gnl|CDD|176887 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

 Score = 49.7 bits (119), Expect = 4e-07
 Identities = 29/166 (17%), Positives = 49/166 (29%), Gaps = 34/166 (20%)

Query: 255 LLLDNLLDLAHAPFTHTSTF---AKGWSVPSLVKF-------------------LTPASG 292
            +++NL+D +H  F H S+    A         +                         G
Sbjct: 14  QVVENLMDPSHVSFVHRSSIGRDAADLPSGPPKEVEEVPRGVTYRRWREDEDPPPFGFEG 73

Query: 293 LQGYWDPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRL 352
               W      +EF  P ++L   G++  G      TR+    +   H   P     T  
Sbjct: 74  PVDRW----RVIEFLLPNVLLIDPGVAPAG------TREQGVRMRVTHWITPIDETTTHY 123

Query: 353 LYRMSLDFASVLKHVPFMQYLWRHFAE--QVLNEDLRLVLGQQERM 396
            +    +FA   +     +      +      NED   V  QQ  +
Sbjct: 124 FWFFVRNFAPDEEKKDDEELTETLRSGLSGAFNEDKEAVEAQQRII 169

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 and have an N-terminal domain, which binds a Rieske-like 2Fe-2S cluster, and the C-terminal catalytic domain which binds the non-heme Fe(II). The Fe(II) is co-ordinated by conserved His and Asp residues. Oxygenases belonging to this subgroup include the alpha subunits of carbazole 1,9a-dioxygenase, phthalate dioxygenase, vanillate O-demethylase, Pseudomonas putida 2-oxoquinoline 8-monooxygenase, and Comamonas testosteroni T-2 p-toluenesulfonate dioxygenase. It also includes the C-terminal domain of the lignin biphenyl-specific O-demethylase (LigX) of the 5,5'-dehydrodivanillic acid O- demethylation system of Sphingomonas paucimobilis SYK-6. This subfamily belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Length = 196

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

 Score = 47.8 bits (114), Expect = 7e-07
 Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 5/59 (8%)

Query: 144 VIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQ 199
           ++ R +DG    + N+C HR    C   +G  N    +CPYHGW Y   G+   +P+ Q
Sbjct: 29  IVCRDEDGEIRAMFNSCRHRGMQVCRAEMG--NTSHFRCPYHGWTYRNTGRLVGVPAQQ 85

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

>gnl|CDD|239614 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

 Score = 47.5 bits (113), Expect = 8e-07
 Identities = 22/60 (36%), Positives = 27/60 (45%), Gaps = 3/60 (5%)

Query: 143 WVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDG---KCEKMPSTQ 199
           +V+ R  +G      N C HRA  L  GS  +    CPYHGW Y  DG   K  +    Q
Sbjct: 27  YVVCRDGNGKLHAFHNVCTHRASILACGSGKKSCFVCPYHGWVYGLDGSLTKATQATGIQ 86

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). Length = 118

>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 = 45.2 bits (108), Expect = 3e-06
 Identities = 24/103 (23%), Positives = 40/103 (38%), Gaps = 6/103 (5%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W  V    +L +      D    P  ++R          + C H    L  G V  G I+
Sbjct: 1   WVRVCAVDELPEGEPKRVDVGGRPIAVYRVDGEF-YATDDLCTHGDASLSEGYVEGGVIE 59

Query: 179 CPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIW 220
           CP HG  +    GK   +P+T      +K+ P   ++G +++ 
Sbjct: 60  CPLHGGRFDLRTGKALSLPAT----EPLKTYPVKVEDGDVYVD 98

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|132273 TIGR03229, benzo_1_2_benA, benzoate 1,2-dioxygenase, large subunit

 Score = 46.8 bits (111), Expect = 1e-05
 Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 141 EPWVIFRGKDGIPGCVQNTCAHRACPL-HLGSVNEGRIQCPYHGWEYSTDGKCEKM 195
           +P  I R KDG      N C+HR   L      N+    CP+HGW ++  GK  K+
Sbjct: 62  QPIFIARNKDGELNAFINACSHRGAMLCRHKRGNKTTYTCPFHGWTFNNSGKLLKV 117

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) [Energy metabolism, Other]. Length = 433

>gnl|CDD|176852 cd00680, RHO_alpha_C, C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases

 Score = 44.5 bits (105), Expect = 3e-05
 Identities = 40/190 (21%), Positives = 59/190 (31%), Gaps = 36/190 (18%)

Query: 255 LLLDNLLDLAHAPFTHTSTFAKGWSVPSL--------VKFLTPASGLQGYWDPYPIDMEF 306
           L ++N L+  H P  H  T A G  +P L             P  GL  +W         
Sbjct: 13  LAVENFLECYHVPTVHPDTLATGLPLPLLFGDHYRVDDTGEGPGEGLSRHWGDGKG---- 68

Query: 307 RPPCMVLSTIGISKPGKLEGQNTRQCAT----------HLHQLHVCLPSSRKKTRLLYRM 356
                       S    L+                      Q+   +P    KTRL  R+
Sbjct: 69  ----------PQSALPGLKPGGYLYLYLFPNLMIGLYPDSLQVQQFVPIGPNKTRLEVRL 118

Query: 357 SLDFASVLKHVPFMQY-LWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVR 415
                   +     +         QVL+ED+ L    Q  + +GA     P+   + G+R
Sbjct: 119 YRPKDEDAREEFDAELESLAGILRQVLDEDIELCERIQRGLRSGAFRG-GPLSPLEEGIR 177

Query: 416 --YRLWRDAL 423
             +R  R AL
Sbjct: 178 HFHRWLRRAL 187

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-terminal domain which binds the non-heme Fe(II). The Fe(II) is co-ordinated by conserved His and Asp residues. Oxygenases belonging to this family include the alpha subunits of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase, Stenotrophomonas maltophilia dicamba O-demethylase, Ralstonia sp. U2 salicylate-5-hydroxylase, Cycloclasticus sp. strain A5 polycyclic aromatic hydrocarbon dioxygenase, toluene 2,3-dioxygenase from Pseudomonas putida F1, dioxin dioxygenase of Sphingomonas sp. Strain RW1, plant choline monooxygenase, and the polycyclic aromatic hydrocarbon (PAH)-degrading ring-hydroxylating dioxygenase from Sphingomonas CHY-1. This group also includes the C-terminal catalytic domains of MupW, part of the mupirocin biosynthetic gene cluster in Pseudomonas fluorescens, and Pseudomonas aeruginosa GbcA (glycine betaine catabolism A). This family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Length = 188

>gnl|CDD|239612 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

 Score = 42.1 bits (99), Expect = 9e-05
 Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 2/53 (3%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRACPLHL-GSVNEGRI-QCPYHGWEYSTDG 190
           ++P V+ R  DG    + N C H+   +   G  N G+  +CPYH W + TDG
Sbjct: 45  DQPVVMVRHTDGSVHVLYNRCPHKGTKIVSDGCGNTGKFFRCPYHAWSFKTDG 97

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. Length = 146

>gnl|CDD|239616 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

 Score = 40.5 bits (95), Expect = 3e-04
 Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 5/60 (8%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP 196
           + P V+ R +DG      N CAHR    C    G  N+G + C YH W Y   G  + +P
Sbjct: 48  DTPVVVTRAEDGSLHAWVNRCAHRGALVCRERRG--NDGSLTCVYHQWAYDLKGNLKGVP 105

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 chlorobenzoates appear to be particularly recalcitrant to biodegradation, several strains utilize 2-CBA and the dCBA derivatives as a sole carbon and energy source. 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. TERDOS is present in gram-positive bacteria and proteobacteria where it converts terephthalate (1,4-dicarboxybenzene) to protocatechuate as part of the terephthalate degradation pathway. The oxygenase component of TERDOS, called TerZ, is a hetero-hexamer with 3 alpha (TerZalpha) and 3 beta (TerZbeta) subunits. Length = 150

>gnl|CDD|239554 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)

 Score = 39.8 bits (93), Expect = 4e-04
 Identities = 22/60 (36%), Positives = 26/60 (43%), Gaps = 5/60 (8%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP 196
           E+P ++ R KDG      N C HR    C    G  N     C YHGW Y T G    +P
Sbjct: 31  EDPVIVVRQKDGSIRVFLNQCRHRGMRICRSDAG--NAKAFTCTYHGWAYDTAGNLVNVP 88

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 intermediate in size between ethylbenzene and biphenyl. NBDO catalyzes the initial reaction in nitrobenzene degradation, oxidizing the aromatic rings of mono- and dinitrotoluenes to form catechol and nitrite. NBDO belongs to the naphthalene subfamily of ROs. AkbDO is involved in alkylbenzene catabolism, converting o-xylene to 2,3- and 3,4-dimethylphenol and ethylbenzene to cis-dihydrodiol. DFDO is involved in dibenzofuran degradation. Length = 128

>gnl|CDD|239613 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)

 Score = 39.9 bits (93), Expect = 4e-04
 Identities = 25/68 (36%), Positives = 30/68 (44%), Gaps = 7/68 (10%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP 196
           E   ++ R  DG    V+N CAHR    C    G  N     CPYH W YS  G  + +P
Sbjct: 23  ERSVIMTRDPDGGINVVENVCAHRGMRFCRERNG--NAKDFVCPYHQWNYSLKGDLQGVP 80

Query: 197 STQLRNVK 204
               R VK
Sbjct: 81  F--RRGVK 86

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. Length = 129

>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 = 39.1 bits (92), Expect = 4e-04
 Identities = 14/40 (35%), Positives = 20/40 (50%)

Query: 145 IFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGW 184
           +FR  D     ++N C H+  PL  G V+   + CP H W
Sbjct: 27  VFRTADDEVFALENRCPHKGGPLSEGIVHGEYVTCPLHNW 66

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|132272 TIGR03228, anthran_1_2_A, anthranilate 1,2-dioxygenase, large subunit

 Score = 41.5 bits (97), Expect = 7e-04
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 141 EPWVIFRGKDGIPGCVQNTCAHRACPL-HLGSVNEGRIQCPYHGWEYSTDGKCEKM 195
           +P ++ R   G    + N C HR   L  +G  N+    CP+H W Y +DG+  K+
Sbjct: 62  QPMIVTRDGKGELHALVNACQHRGATLTRVGKGNQSTFTCPFHAWCYKSDGRLVKV 117

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 [Energy metabolism, Amino acids and amines]. Length = 438

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	436
PLN02281	536	chlorophyllide a oxygenase	100.0
PLN00095	394	chlorophyllide a oxygenase; Provisional	100.0
PLN02518	539	pheophorbide a oxygenase	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
cd04337	129	Rieske_RO_Alpha_Cao Cao (chlorophyll a oxygenase)	99.97
cd03537	123	Rieske_RO_Alpha_PrnD This alignment model represen	99.97
cd03479	144	Rieske_RO_Alpha_PhDO_like Rieske non-heme iron oxy	99.97
cd03545	150	Rieske_RO_Alpha_OHBDO_like Rieske non-heme iron ox	99.97
cd04338	134	Rieske_RO_Alpha_Tic55 Tic55 is a 55kDa LLS1-relate	99.96
cd03531	115	Rieske_RO_Alpha_KSH The alignment model represents	99.96
cd03532	116	Rieske_RO_Alpha_VanA_DdmC Rieske non-heme iron oxy	99.95
cd03480	138	Rieske_RO_Alpha_PaO Rieske non-heme iron oxygenase	99.95
cd03541	118	Rieske_RO_Alpha_CMO Rieske non-heme iron oxygenase	99.95
cd03538	146	Rieske_RO_Alpha_AntDO Rieske non-heme iron oxygena	99.95
cd03539	129	Rieske_RO_Alpha_S5H This alignment model represent	99.95
cd03548	136	Rieske_RO_Alpha_OMO_CARDO Rieske non-heme iron oxy	99.95
cd03472	128	Rieske_RO_Alpha_BPDO_like Rieske non-heme iron oxy	99.94
cd03469	118	Rieske_RO_Alpha_N Rieske non-heme iron oxygenase (	99.94
cd03535	123	Rieske_RO_Alpha_NDO Rieske non-heme iron oxygenase	99.93
cd03536	123	Rieske_RO_Alpha_DTDO This alignment model represen	99.93
cd03542	123	Rieske_RO_Alpha_HBDO Rieske non-heme iron oxygenas	99.92
cd03528	98	Rieske_RO_ferredoxin Rieske non-heme iron oxygenas	99.92
cd03530	98	Rieske_NirD_small_Bacillus Small subunit of nitrit	99.91
cd03474	108	Rieske_T4moC Toluene-4-monooxygenase effector prot	99.91
TIGR02377	101	MocE_fam_FeS Rieske [2Fe-2S] domain protein, MocE	99.91
cd03529	103	Rieske_NirD Assimilatory nitrite reductase (NirD)	99.9
cd03478	95	Rieske_AIFL_N AIFL (apoptosis-inducing factor like	99.9
TIGR02378	105	nirD_assim_sml nitrite reductase [NAD(P)H], small	99.89
PRK09965	106	3-phenylpropionate dioxygenase ferredoxin subunit;	99.89
PF00355	97	Rieske: Rieske [2Fe-2S] domain; InterPro: IPR01794	99.86
PF13806	104	Rieske_2: Rieske-like [2Fe-2S] domain; PDB: 2JO6_A	99.85
PRK09511	108	nirD nitrite reductase small subunit; Provisional	99.85
cd03467	98	Rieske Rieske domain; a [2Fe-2S] cluster binding d	99.84
COG2146	106	{NirD} Ferredoxin subunits of nitrite reductase an	99.84
cd03477	91	Rieske_YhfW_C YhfW family, C-terminal Rieske domai	99.84
cd03476	126	Rieske_ArOX_small Small subunit of Arsenite oxidas	99.79
cd08878	196	RHO_alpha_C_DMO-like C-terminal catalytic domain o	99.76
cd03471	126	Rieske_cytochrome_b6f Iron-sulfur protein (ISP) co	99.76
TIGR02694	129	arsenite_ox_S arsenite oxidase, small subunit. Thi	99.71
cd03470	126	Rieske_cytochrome_bc1 Iron-sulfur protein (ISP) co	99.7
cd03473	107	Rieske_CMP_Neu5Ac_hydrolase_N Cytidine monophospha	99.68
cd00680	188	RHO_alpha_C C-terminal catalytic domain of the oxy	99.64
PRK13474	178	cytochrome b6-f complex iron-sulfur subunit; Provi	99.6
cd08885	190	RHO_alpha_C_1 C-terminal catalytic domain of the o	99.56
cd08887	185	RHO_alpha_C_3 C-terminal catalytic domain of the o	99.5
TIGR01416	174	Rieske_proteo ubiquinol-cytochrome c reductase, ir	99.49
cd08883	175	RHO_alpha_C_CMO-like C-terminal catalytic domain o	99.49
cd08884	205	RHO_alpha_C_GbcA-like C-terminal catalytic domain	99.45
cd08886	182	RHO_alpha_C_2 C-terminal catalytic domain of the o	99.44
PF00848	209	Ring_hydroxyl_A: Ring hydroxylating alpha subunit	99.29
cd03475	171	Rieske_SoxF_SoxL SoxF and SoxL family, Rieske doma	99.28
COG0723	177	QcrA Rieske Fe-S protein [Energy production and co	99.03
PF08417	92	PaO: Pheophorbide a oxygenase; InterPro: IPR013626	98.94
cd08880	222	RHO_alpha_C_ahdA1c-like C-terminal catalytic domai	98.91
cd08882	243	RHO_alpha_C_MupW-like C-terminal catalytic domain	98.76
KOG1671	210	consensus Ubiquinol cytochrome c reductase, subuni	98.74
TIGR03171	321	soxL2 Rieske iron-sulfur protein SoxL2. This iron-	98.68
cd08879	237	RHO_alpha_C_AntDO-like C-terminal catalytic domain	98.61
cd08881	206	RHO_alpha_C_NDO-like C-terminal catalytic domain o	98.49
PF11723	240	Aromatic_hydrox: Homotrimeric ring hydroxylase; In	98.34
KOG1336	478	consensus Monodehydroascorbate/ferredoxin reductas	94.7
PRK14127	109	cell division protein GpsB; Provisional	89.85

>PLN02281 chlorophyllide a oxygenase

Probab=100.00  E-value=3.6e-95  Score=747.17  Aligned_cols=433  Identities=78%  Similarity=1.346  Sum_probs=375.0

Q ss_pred             CchhhHHHHhhChhhhhccchhhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhhHHHHHHhhhhhhhcccCCCCC-Ccc
Q 013818            1 MLLHEKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVATALDKLAYMEALVNDRLLQDRHTSGT-DQT   79 (436)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~   79 (436)
                      |+||+||||||||||||+|||||||||||||||||+|||+|||+||||||++|+||++||+|+|+++|+|++.++. .|.
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (536)
T PLN02281        103 MILHDKVVDVLNPLAREYKSIGTVKKELAGLQEELSKAHQQVHISEARVSTALDKLAHMEELVNDRLLPGRVVTELDKPS  182 (536)
T ss_pred             HHHhHHHHHHhhhHHHhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhccCCCccccccccc
Confidence            7899999999999999999999999999999999999999999999999999999999999999999998876555 666


Q ss_pred             CCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecC
Q 013818           80 CASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNT  159 (436)
Q Consensus        80 ~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~  159 (436)
                      |+.++++ ...+...++..++++++++++.++..++++.||++|.++||++|+++.++++|++++|||+.+|+++|+.|+
T Consensus       183 ~~~~~~~-~~~~~~~~~~~~~~~~~~~p~~P~~~~lrn~Wy~Va~s~EL~~g~~~~v~llG~~IVL~R~~dG~v~A~~D~  261 (536)
T PLN02281        183 SSTTASA-VELDREKTNTGAKSLNVSGPVPPYSPHLKNFWYPVAFTADLKHDTMVPIECFEQPWVIFRGEDGKPGCVRNT  261 (536)
T ss_pred             cCCcCcc-hhhhhhhcccccccccccCCCCCcchhhhcccEEEEEHHHCCCCCeEEEEECCEEEEEEECCCCeEEEEeCc
Confidence            6666655 455667777788999999999999999999999999999999899999999999999999999999999999


Q ss_pred             CCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCCccccccccccCCeeeecCeEEEcCCCCCCCCCCCCCCCCCCc
Q 013818          160 CAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGF  239 (436)
Q Consensus       160 CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~~~~~~~~lp~~~~~~~~  239 (436)
                      |||||++|+.|.++++.|+||||||+||.+|+|+.+|+.+....++++|||++++|+||||++++++.+.+|++..+.++
T Consensus       262 CPHRgaPLs~G~v~g~~L~CPYHGW~FD~dG~cv~iP~~~~~~~~l~sYPV~e~~GlVwV~lgd~~~aP~~p~ld~p~~~  341 (536)
T PLN02281        262 CAHRACPLDLGTVNEGRIQCPYHGWEYSTDGECKKMPSTKLLKVKIKSLPCLEQEGMIWIWPGDEPPAPILPSLQPPSGF  341 (536)
T ss_pred             CcCCCCccccceeeCCEEEeCCCCCEECCCCCEeeCCCCccccCCcceEeEEEECCEEEEEeCCCCCCCCCccccCcccc
Confidence            99999999999999999999999999999999999998765567899999999999999999876554456665544466


Q ss_pred             EEeEEEEEEeecCchhhhhccCCCCCCCCCCcccccCCCCCCceeeeecCCCCCCccccCCCccceecCCeeEEEEeeec
Q 013818          240 EIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGIS  319 (436)
Q Consensus       240 ~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~f~~P~~~~~~~~~~  319 (436)
                      .......+++++||++++||++|+||++|+|.++++..+..+..++...+...+.++|...+..++|.+||++...+++.
T Consensus       342 ~~~~~~~~~~~~nwkllvENllD~~H~~fvH~~t~g~~~~~p~~v~~~~~~~~~~p~~~~~pv~~~f~aP~~v~l~i~~~  421 (536)
T PLN02281        342 LIHAELVMDLPVEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLTPTSGLQGYWDPYPIDMEFKPPCIVLSTIGIS  421 (536)
T ss_pred             eEEEEEEEEecCCHHHHHHhccccccccccCcccccCcccCCceeEEecccCCCCcccccCCceEEEECcEEEEEeeccc
Confidence            65555678999999999999999999999999999987666665555444444555665545568899999998888887


Q ss_pred             CCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHHHHHHHHHHHhhHHHHHHHHHhhccCC
Q 013818          320 KPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNG  399 (436)
Q Consensus       320 ~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~~~~~~~~v~~ED~~ile~qq~~l~~g  399 (436)
                      .+|+..+......+.++..++.|||+++++||+||.+.+||..+.+..++...++..+...+|+||+.|+|+||+++..+
T Consensus       422 ~~G~~~~~~~~~~~~~~~~~h~~TPeT~~sTryF~~~~Rnf~~~~~d~~~~~~~l~~~~~~vF~ED~~iLEaQQ~~i~~~  501 (536)
T PLN02281        422 KPGKLEGKSTQQCATHLHQLHVCLPSSKNKTRLLYRMSLDFAPILKNLPFMEHLWRHFAEQVLNEDLRLVLGQQERMLNG  501 (536)
T ss_pred             cCCccccccccccccceEEEEEEEECCCCeEEEEEEecccCccccccccchHHHHHHHhhHhhHhHHHHHHHHHHHhhcc
Confidence            77765433333445567789999999999999999999999776444444445466778899999999999999999988


Q ss_pred             CCCCCccccCCHHHHHHHHHHHHHHccCCCCCCCC
Q 013818          400 ANVWNLPVGYDKLGVRYRLWRDALEKGAKQLPFMK  434 (436)
Q Consensus       400 ~~~~~l~~~aD~~~v~~Rrwl~~l~~g~~~~p~~~  434 (436)
                      ...+++++++|+++++||||++++.+|.+++||++
T Consensus       502 ~~~~~l~l~aD~~~v~~RRWl~~~~~~~~~~pf~~  536 (536)
T PLN02281        502 ANIWNLPVAYDKLGVRYRLWRNAVDRGDDKLPFSG  536 (536)
T ss_pred             cccccccchhhHHHHHHHHHHHHhhcccCCCCCCC
Confidence            78888999999999999999999999999999984

>PLN00095 chlorophyllide a oxygenase; Provisional

Probab=100.00  E-value=4.5e-50  Score=397.29  Aligned_cols=272  Identities=37%  Similarity=0.762  Sum_probs=225.1

Q ss_pred             ccccccCceEEeeeCCCC-CCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecC
Q 013818          111 YNTRLKNFWFPVAFSTDL-KDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTD  189 (436)
Q Consensus       111 ~~~~~~~~W~~v~~~~~l-~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~  189 (436)
                      ......+.||+|+.++|| ++|++..++++|++++|||+.+|+++|+.|.|||||++|+.|.++++.|+||||||+||.+
T Consensus        65 ~~~~~r~~WypVa~ssdL~~~g~~~~f~L~GepIVL~Rd~dGqv~Af~N~CPHRGapLSeG~v~~g~L~CPYHGW~FD~~  144 (394)
T PLN00095         65 ATADARAHWFPVAFAAGLRDEDALIAFDLFNVPWVLFRDADGEAGCIKDECAHRACPLSLGKLVDGKAQCPYHGWEYETG  144 (394)
T ss_pred             CCCchhcCeEEEEEHHHCCCCCceEEEEECCEEEEEEECCCCCEEEEeccCCCCCCccccCcccCCEEEecCCCcEECCC
Confidence            345568999999999999 6799999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCccccCCccc--cccccccCCeeeecCeEEEcCCCCCCCC------------------CCCC-CCCCCCcEEeEEEEEE
Q 013818          190 GKCEKMPSTQL--RNVKIKSLPCFEQEGMIWIWPGDEPPTA------------------TIPC-LLPPSGFEIHAEIVME  248 (436)
Q Consensus       190 G~~~~~P~~~~--~~~~l~~~pv~e~~G~I~v~~~~~~~~~------------------~lp~-~~~~~~~~~~~~~~~~  248 (436)
                      |+|+.+|+.+.  .+.++++|||++++|+||||+++..+..                  .+|. +.+..+|..+.+..++
T Consensus       145 G~C~~iP~~~~~~~~~~v~tYPV~e~dGlVwVw~G~~~p~dflg~~~~~e~~~~~~~~~~~P~~~~~~~gf~~~aev~~D  224 (394)
T PLN00095        145 GECAKMPSCKKFLKGVFADAAPVIERDGFIFLWAGESDPADFVGPEAACESIDDDVLAANEPGMFAPGEGFTPMAEVIAD  224 (394)
T ss_pred             CCEeeCCCccccccccccceEEEEEECCEEEEEeCCcchhhhccccccccccccchhhccCCcccCCCCCceEEEEEEEe
Confidence            99999997532  3467899999999999999998644320                  2333 3344688877777789


Q ss_pred             eecCchhhhhccCCCCC-CCCCCcccccC----C---CCCCceeeeecCCCCCCccccCCCccceecCCeeEEEEeeecC
Q 013818          249 LPIEHGLLLDNLLDLAH-APFTHTSTFAK----G---WSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISK  320 (436)
Q Consensus       249 ~~~nwk~~~EN~~D~~H-~~~vH~~t~~~----~---~~~p~~~~~~~~~~~~~~~~~~~~~~~~f~~P~~~~~~~~~~~  320 (436)
                      +++.|.+++||++|++| .+|+|+.||..    .   +..+.... .....++.+.|++++++|+|.+||++.+++++.+
T Consensus       225 lp~d~~~L~ENllD~aH~a~~~~t~tf~~~~~~r~~~~~~~~~~~-~~~~~~l~g~~~~~p~~~~F~ppc~~~s~i~l~~  303 (394)
T PLN00095        225 IKLDADEVLERLLAIGERARREATVSFDVSDAKRGRDALFPVDGT-KIIAKVLRGGRDAVPQSATFKPACVIASTIALED  303 (394)
T ss_pred             ccccHHHHHHhhcCccccCCccCceeeecccccccccCccchhhh-hhhhhhheeecccCCcceeEcCceeeeeeecccc
Confidence            99999999999999999 69999988851    1   11121111 1224467888999999999999999999999865


Q ss_pred             -CCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchh---hccCcchHHHHHHHHHHHHHhhHHHHHH
Q 013818          321 -PGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFAS---VLKHVPFMQYLWRHFAEQVLNEDLRLVL  390 (436)
Q Consensus       321 -~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~---~~~~~p~~~~~~~~~~~~v~~ED~~ile  390 (436)
                       ||+..     .|..|++++|+|.|.++++||++++|++||..   +...+|.  ..|..+..+|+.||++++.
T Consensus       304 ~~g~~~-----~~~~~l~qlhvclP~~~G~tRll~R~~~dF~~~~~~~~~~~~--~~w~~~a~~vl~e~l~~v~  370 (394)
T PLN00095        304 GPGGGD-----GTDMNVEQLHVCLPAKPGLCRLLFRLAFDFVAVPEGAQAAAG--DVWANLAMMVLKEELEDVR  370 (394)
T ss_pred             cCCCCc-----cccceeeeEEEEEecCCCceEEEEeecccccccHHHhHhchH--HHHHHHHHHHHHHHHHHHh
Confidence             65533     34568999999999999999999999999975   5555554  6888999999999999875

>PLN02518 pheophorbide a oxygenase

Probab=100.00  E-value=1.6e-49  Score=416.28  Aligned_cols=309  Identities=22%  Similarity=0.428  Sum_probs=225.4

Q ss_pred             cccccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEc-CCCcEEEEecCCCCCCCCCCCCccc-CCeEeCcCCCceee
Q 013818          110 PYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRG-KDGIPGCVQNTCAHRACPLHLGSVN-EGRIQCPYHGWEYS  187 (436)
Q Consensus       110 ~~~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~-~dG~~~a~~n~CpHrg~~L~~g~~~-~~~l~CpyHgw~f~  187 (436)
                      .....+.+.||+||.++||++|++..++++|+++||||+ .+|+++||.|+|||||++|+.|.++ ++.|+||||||+||
T Consensus        82 ~~~f~~~~~Wy~Va~~~dL~~g~p~~~~llG~~lVl~Rd~~~G~~~A~~d~CPHRgapLS~G~v~~~g~L~CpYHGW~Fd  161 (539)
T PLN02518         82 DSKFSWRDHWYPVSLVEDLDPSVPTPFQLLGRDLVLWKDPNQGEWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFD  161 (539)
T ss_pred             chhhhhhhhCEEEEEHHHCCCCCeEEEEECCEEEEEEEECCCCeEEEEcccCcCcCCCcccceecCCCEEEcCCCCCEEc
Confidence            334678999999999999988999999999999999998 8999999999999999999999985 67999999999999


Q ss_pred             cCCCccccCCccc----------cccccccCCeeeecCeEEEcCCCCC----CCCCCCCC---CCCCCcEEeEEEEEEee
Q 013818          188 TDGKCEKMPSTQL----------RNVKIKSLPCFEQEGMIWIWPGDEP----PTATIPCL---LPPSGFEIHAEIVMELP  250 (436)
Q Consensus       188 ~~G~~~~~P~~~~----------~~~~l~~~pv~e~~G~I~v~~~~~~----~~~~lp~~---~~~~~~~~~~~~~~~~~  250 (436)
                      .+|+|+.+|+...          ...++++|||++++|+||||++++.    +...+|.+   .++.+|... ....+++
T Consensus       162 ~~G~c~~IP~~~~~~~~~~~~~~~~a~v~sypv~e~~GlIwV~~~~~~~~~a~~~~~P~~~~~~~~~~~~~~-~~~~~~~  240 (539)
T PLN02518        162 GCGSCTRIPQAAPEGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWERAQATKPPMLPDEFDDPEFSTV-TIQRDLF  240 (539)
T ss_pred             CCCCeeecccccccccccccccCcccccceEeEEEECCEEEEEeCCccccccccccCCCCcccccCCCceeE-EEEEEEe
Confidence            9999999997421          2357999999999999999998642    11234433   233455432 3356889


Q ss_pred             cCchhhhhccCCCCCCCCCCcccccCCCC-CCceeeeec-CCCCCCccc-cCCCccceecCCeeEEEEeeecCCCCcCCC
Q 013818          251 IEHGLLLDNLLDLAHAPFTHTSTFAKGWS-VPSLVKFLT-PASGLQGYW-DPYPIDMEFRPPCMVLSTIGISKPGKLEGQ  327 (436)
Q Consensus       251 ~nwk~~~EN~~D~~H~~~vH~~t~~~~~~-~p~~~~~~~-~~~~~~~~~-~~~~~~~~f~~P~~~~~~~~~~~~g~~~~~  327 (436)
                      ++|++++||++|++|++|+|++++|.... .+...+... ...++.+.+ ........|.+||++...+++. .+ .+..
T Consensus       241 ~~~~~l~EN~lD~sH~pfvH~~~~G~~~~~~~~~~~v~~~~~~Gf~g~~~~~~~~~~~F~~P~~~~~~~~~~-~~-~~~~  318 (539)
T PLN02518        241 YGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFAGANSDNPRITAKFVAPCYYINKIEID-TK-LPIV  318 (539)
T ss_pred             cCchhHHHhCCccchhceeccccccCccccccccceEEEcCCCcccccccCCCceEEEEECCeEEEEeeeee-cc-ccCC
Confidence            99999999999999999999999987431 121112111 112232222 1222357899999876655543 11 0000


Q ss_pred             CcccccceeEEEEEeecCCCCceeeeeeeeccchhh-------ccCcchHHHHHH-HHHHHHHhhHHHHHHHHHhhccCC
Q 013818          328 NTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASV-------LKHVPFMQYLWR-HFAEQVLNEDLRLVLGQQERMNNG  399 (436)
Q Consensus       328 ~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~-------~~~~p~~~~~~~-~~~~~v~~ED~~ile~qq~~l~~g  399 (436)
                        ......+..+++++|+++++||++|.+.+||...       .+.+|   .++. .-..+|++||+.++++|++.+...
T Consensus       319 --~~~~~~~~~~~~~tP~s~g~tr~f~~~~Rnf~~~~~~~~~~~k~~P---rW~~h~~~n~Vl~~D~~~lh~Qe~~~~~~  393 (539)
T PLN02518        319 --GDQKWVIWICSFNVPMAPGKTRSIVCSARNFFQFSMPGPAWWQLVP---RWYEHWTSNKVYDGDMIVLQGQEKIFLSK  393 (539)
T ss_pred             --CCcceEEEEEEEEEECCCCeEEEEEEecccchhccccchhhhhcCc---hHHHHhhhccchHhHHHHHHHHHHHHhhc
Confidence              0011234556788999999999999999887322       12233   2222 225789999999999998876431


Q ss_pred             -C-----------CCCCccccCCHHHHHHHHHHHHHHcc
Q 013818          400 -A-----------NVWNLPVGYDKLGVRYRLWRDALEKG  426 (436)
Q Consensus       400 -~-----------~~~~l~~~aD~~~v~~Rrwl~~l~~g  426 (436)
                       .           ..+++|+++|+.+++||||+++++.|
T Consensus       394 ~~e~~~~v~~~w~k~~~~Pt~aD~~viayR~Wl~~~g~g  432 (539)
T PLN02518        394 SGEGSADVNAQYTKLTFTPTQADRFVLAFRNWLRRHGNS  432 (539)
T ss_pred             cccccccchhhhhhhccCCCchhHHHHHHHHHHHHhCcC
Confidence             1           12368999999999999999998654

>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=6.7e-41  Score=341.03  Aligned_cols=325  Identities=23%  Similarity=0.354  Sum_probs=219.0

Q ss_pred             ccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEe
Q 013818           78 QTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQ  157 (436)
Q Consensus        78 ~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~  157 (436)
                      ..+...++|+++|+.+...+|.                 +.||+||+++||+++++++++++|+++||+|+.||+++||.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~-----------------~~Wy~v~~~~el~~~~~~~~~i~g~~lvi~R~~dg~~~al~   66 (367)
T COG4638           4 RLPPPFYTDPELFQLELERIFY-----------------KHWYVVAHSSELPKPDPLTVRIGGEPLVVVRDKDGQVHALA   66 (367)
T ss_pred             cCCCccccCHHHHHHHHHHhhh-----------------hCEEEEccHHHCCCCCceeEEEcCeEEEEEECCCCCEEEEe
Confidence            4566788999999999999875                 47999999999998899999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCcccC-CeEeCcCCCceeecCCCccccCC--cc----ccccccccCCeeeecCeEEEcCCCCCCC---
Q 013818          158 NTCAHRACPLHLGSVNE-GRIQCPYHGWEYSTDGKCEKMPS--TQ----LRNVKIKSLPCFEQEGMIWIWPGDEPPT---  227 (436)
Q Consensus       158 n~CpHrg~~L~~g~~~~-~~l~CpyHgw~f~~~G~~~~~P~--~~----~~~~~l~~~pv~e~~G~I~v~~~~~~~~---  227 (436)
                      |+|||||++|+.|.+.+ +.|+||||||+||.+|+|+.+|.  ..    ....++++||+++++|+||||+++++++   
T Consensus        67 d~C~HRga~Ls~g~~~~~~~l~CpyHgW~y~~~G~~~~ip~~~~~~~~~~~~~~l~~~~~~~~~G~Iwi~~~~~~~~~~~  146 (367)
T COG4638          67 DVCPHRGARLSEGRVGGKGRLTCPYHGWTYDLDGRLRGVPARGYPLDFDKSEHGLKRYPVEERYGFIWIWLGDPPPAAEA  146 (367)
T ss_pred             ccCCCCCchhccccCCCCceEecCCCceEECCCCcEecCCccccCCCCCHhhCCccccceEEEccEEEEecCCCccChhH
Confidence            99999999999999988 89999999999999999999994  22    1236899999999999999999987633   


Q ss_pred             CCCCCCC-CCCCcEEe-EEEEEEeecCchhhhhccCC-CCCCCCCCcccccCCCCCC---ceeee--------ecCCCCC
Q 013818          228 ATIPCLL-PPSGFEIH-AEIVMELPIEHGLLLDNLLD-LAHAPFTHTSTFAKGWSVP---SLVKF--------LTPASGL  293 (436)
Q Consensus       228 ~~lp~~~-~~~~~~~~-~~~~~~~~~nwk~~~EN~~D-~~H~~~vH~~t~~~~~~~p---~~~~~--------~~~~~~~  293 (436)
                      ...|... ...++... .......++|||+++||++| +||++++|+++.+......   ..+..        .......
T Consensus       147 ~~~p~~~~~~~~~~~~~~~~~~~~~~nwk~~vEn~~d~~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~  226 (367)
T COG4638         147 FLPPAEPYEDDRSRLGGGSFTINVPGNWKLAVENNLDDPYHVPFVHPGLLGTEPHTEVGAYDVTAGGHWDVILATGNPFF  226 (367)
T ss_pred             hcccccccccccccccCceEEEEecccceEEeeccCCccccccccCHHHhcccccccccccccccCCceeeeeccCCCcc
Confidence            1122222 22233323 45567889999999998887 9999999998776432110   00000        0000000


Q ss_pred             Cc-cccC----CCccceecCCeeEEEEeeecCCCC-cCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCc
Q 013818          294 QG-YWDP----YPIDMEFRPPCMVLSTIGISKPGK-LEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHV  367 (436)
Q Consensus       294 ~~-~~~~----~~~~~~f~~P~~~~~~~~~~~~g~-~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~  367 (436)
                      .. .+..    +........+....   -+..|.. ..    ..............|+++++|.+......... .....
T Consensus       227 ~p~~~~~~~~~~~~~~~~~~~~~~~---~~~~p~~~~~----~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~-~~~~~  298 (367)
T COG4638         227 QPLGSEASSYGFDGNYEVHVPGAYL---LFLYPNSTVW----NHVTVDDVIVFFVQPIDEDETMVTLVWLVLPD-LVEGV  298 (367)
T ss_pred             CCcchhhhccccccccccccCceeE---EEEcCCchhe----eeecccceeEEEEEecCCceeEEEeeeeeccc-hhhHH
Confidence            00 0000    00000000111100   0111110 00    00011123455679999999988765332111 11222


Q ss_pred             chHHHHHHHHHHHHHhhHHHHHHHHHhhccCCCC-CCCccccCCHHHHHHHHHHHHHHccC
Q 013818          368 PFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGAN-VWNLPVGYDKLGVRYRLWRDALEKGA  427 (436)
Q Consensus       368 p~~~~~~~~~~~~v~~ED~~ile~qq~~l~~g~~-~~~l~~~aD~~~v~~Rrwl~~l~~g~  427 (436)
                      ..+...+..+...+++||..|+|.||+++.+... ....+...|...+++++|+.+.....
T Consensus       299 ~~~~~~~~~~~~~~~~qD~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  359 (367)
T COG4638         299 DYFDKLIRRFRQEILDQDREILENQQPGRLSPALERGPYPIREDAGSVQFRRWLAERLVLY  359 (367)
T ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhcccccccccCCCccccccchhhHHHHHHHHHHhhh
Confidence            3334555667788999999999999997665444 33467788999999999987554333

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

Probab=100.00  E-value=3.6e-38  Score=324.22  Aligned_cols=179  Identities=20%  Similarity=0.263  Sum_probs=151.2

Q ss_pred             ccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEE
Q 013818           78 QTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCV  156 (436)
Q Consensus        78 ~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~  156 (436)
                      .++...++|+++|+.|+++||.                 +.|++||+.++|+ +|+++++.++|++|+|+|+.||+++||
T Consensus        15 ~~~~~~Ytd~~~f~~E~~~IF~-----------------~~W~~v~~~selp~~gd~~t~~~~~~~vvv~R~~dG~i~af   77 (433)
T TIGR03229        15 RCKREMFTDPELFDLEMKHIFE-----------------GNWIYLAHESQIPNNNDYYTTYMGRQPIFIARNKDGELNAF   77 (433)
T ss_pred             cCChhhcCCHHHHHHHHHHHhh-----------------hCCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCCcEEEE
Confidence            4778899999999999999986                 4599999999998 589999999999999999999999999


Q ss_pred             ecCCCCCCCCCCCCc-ccCCeEeCcCCCceeecCCCccccCCccc----------cccccccCC-eeeecCeEEEcCCCC
Q 013818          157 QNTCAHRACPLHLGS-VNEGRIQCPYHGWEYSTDGKCEKMPSTQL----------RNVKIKSLP-CFEQEGMIWIWPGDE  224 (436)
Q Consensus       157 ~n~CpHrg~~L~~g~-~~~~~l~CpyHgw~f~~~G~~~~~P~~~~----------~~~~l~~~p-v~e~~G~I~v~~~~~  224 (436)
                      .|+|||||++|+.|. ++.+.|+||||||+||.||+|+++|....          ...+|..++ ++.+.|+|||+++++
T Consensus        78 ~N~C~HRga~L~~~~~g~~~~~~CPyHgW~f~~~G~l~~vP~~~~~~~~~~fd~~~~~~L~~v~rve~y~GfIFv~l~~~  157 (433)
T TIGR03229        78 INACSHRGAMLCRHKRGNKTTYTCPFHGWTFNNSGKLLKVKDPEDAGYPECFNKDGSHDLKKVARFESYRGFLFGSLNPD  157 (433)
T ss_pred             eCcCCCCCCCcccccccCCCEEEcCCCCCEecCCcceEeCCCcccccCccccCcHhhcCCccceEEEEECCEEEEEcCCC
Confidence            999999999999864 56679999999999999999999997321          146799997 556789999999876


Q ss_pred             CCCCCCCCCCCC-------------CCcEEe-EEEEEEeecCchhhhhccCCCCCCCCCCccccc
Q 013818          225 PPTATIPCLLPP-------------SGFEIH-AEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFA  275 (436)
Q Consensus       225 ~~~~~lp~~~~~-------------~~~~~~-~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~  275 (436)
                      ++  +|++++++             .++... +...++++||||+++||++|+||++++|..++.
T Consensus       158 ~~--~l~e~Lg~~~~~ld~~~~~~~~~~~~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~  220 (433)
T TIGR03229       158 VL--PLEEHLGETAKIIDMIVDQSPDGLEVLRGSSTYTYEGNWKLQAENGADGYHVSAVHWNYAA  220 (433)
T ss_pred             CC--CHHHHhhhHHHHHHHHhhcCcCCCeEEeeeEEEEecCchhhhHHhccCcccchhhcccHHH
Confidence            54  46665542             233333 345788999999999999999999999987654

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=7.2e-38  Score=321.82  Aligned_cols=180  Identities=19%  Similarity=0.311  Sum_probs=154.4

Q ss_pred             ccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEE
Q 013818           78 QTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCV  156 (436)
Q Consensus        78 ~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~  156 (436)
                      .++...++|+++|+.|+++||.                 +.|++||++++|+ +|+++++.+++++|+|+|+.||+++||
T Consensus        15 ~v~~~~ytd~~if~~E~~~IF~-----------------~~W~~v~h~selp~~GDy~t~~ig~~pviv~R~~dG~i~a~   77 (438)
T TIGR03228        15 RIARDMFTEPELFDLEMELIFE-----------------KNWIYACHESELPNNHDFVTVRAGRQPMIVTRDGKGELHAL   77 (438)
T ss_pred             ecChheECCHHHHHHHHHHHHh-----------------hCCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCCCEEEE
Confidence            4778899999999999999985                 5699999999998 599999999999999999999999999


Q ss_pred             ecCCCCCCCCCCC-CcccCCeEeCcCCCceeecCCCccccCCcc-------ccccccccCCeeeecCeEEEcCCCCCCCC
Q 013818          157 QNTCAHRACPLHL-GSVNEGRIQCPYHGWEYSTDGKCEKMPSTQ-------LRNVKIKSLPCFEQEGMIWIWPGDEPPTA  228 (436)
Q Consensus       157 ~n~CpHrg~~L~~-g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~-------~~~~~l~~~pv~e~~G~I~v~~~~~~~~~  228 (436)
                      .|+|||||++|+. +.++.+.|+||||||+|+.||+|+++|...       ....+|+.++|.+++|+||++++++++ .
T Consensus        78 ~N~C~HRGa~L~~~~~Gn~~~~~CPYHgW~y~~dG~L~~vp~~~~y~~~fd~~~~~L~~~rv~~y~GfIFv~l~~~a~-~  156 (438)
T TIGR03228        78 VNACQHRGATLTRVGKGNQSTFTCPFHAWCYKSDGRLVKVKAPGEYCEGFDKATRGLKKARIASYRGFVFVSLDVAAT-D  156 (438)
T ss_pred             cccCCCCCCccccCCccccCEEEcCCCCCcccCCCceeecCcccccCCCCChhhCCCcceeEEEECCEEEEEeCCCCC-C
Confidence            9999999999997 788888999999999999999999998642       135678889999999999999987642 2


Q ss_pred             CCCCCCCC--------------CCcEEe-EEEEEEeecCchhhhhccCCCCCCCCCCccccc
Q 013818          229 TIPCLLPP--------------SGFEIH-AEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFA  275 (436)
Q Consensus       229 ~lp~~~~~--------------~~~~~~-~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~  275 (436)
                      ++++++++              .++.+. +...+.++||||+.+||++|+||++++|..+++
T Consensus       157 ~l~e~lg~~~~~ld~~~~~~~~g~le~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~  218 (438)
T TIGR03228       157 SLEDFLGDARVFLDMMVAQSPTGELEVLPGKSAYTYAGNWKLQNENGLDGYHVSTVHYNYVA  218 (438)
T ss_pred             CHHHHhhhHHHHHHHHhhccCcCceEEecceEEEEeCCchHHHHHhccccccchhhChhhHh
Confidence            46665532              124433 345688999999999999999999999988754

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.

>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=99.97  E-value=4.4e-31  Score=230.11  Aligned_cols=123  Identities=65%  Similarity=1.381  Sum_probs=113.5

Q ss_pred             ccCCCCcccccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCC
Q 013818          104 VSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHG  183 (436)
Q Consensus       104 ~~~~~~~~~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHg  183 (436)
                      +.++..++...+++.|++|+.+++|++|+++.++++|++++|+|+.+|+++|++|+|||+|++|+.|.++++.|+|||||
T Consensus         3 ~~~~~~~~~~~~~~~W~~v~~~~el~~g~~~~~~v~g~~l~l~r~~~g~v~A~~n~CpH~g~~L~~G~~~~~~i~CP~Hg   82 (129)
T cd04337           3 VLGSSLELEPGLRNFWYPVEFSKDLKMDTMVPFELFGQPWVLFRDEDGTPGCIRDECAHRACPLSLGKVIEGRIQCPYHG   82 (129)
T ss_pred             ccccCccccchhhCccEEEEEHHHCCCCCeEEEEECCcEEEEEECCCCcEEEEeCcCCCCcCCcccCcEeCCEEEeCCCC
Confidence            34566788899999999999999999999999999999999999999999999999999999999999988999999999


Q ss_pred             ceeecCCCccccCCccccccccccCCeeeecCeEEEcCCCCCC
Q 013818          184 WEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       184 w~f~~~G~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |+||.+|+|+.+|..+....++++||+++++|+||||+++++|
T Consensus        83 w~Fd~tG~~~~~P~~~~~~~~l~~y~v~v~~g~V~V~~~~~~p  125 (129)
T cd04337          83 WEYDGDGECTKMPSTKCLNVGIAALPCMEQDGMIWVWPGDDPP  125 (129)
T ss_pred             CEECCCCCEEeCCcCCCccCCcceEeEEEECCEEEEEcCCCCC
Confidence            9999999999999765445689999999999999999987654

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

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

Probab=99.97  E-value=1.8e-30  Score=223.90  Aligned_cols=109  Identities=33%  Similarity=0.739  Sum_probs=99.9

Q ss_pred             CceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccC
Q 013818          117 NFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP  196 (436)
Q Consensus       117 ~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P  196 (436)
                      ..||+++.+++|+ ++++.+++.|++++|+|+.+|+++|+.|+|||||++|+.|.++++.|+||||||+||.+|+|+.+|
T Consensus         2 ~~W~~v~~~~~l~-~~~~~~~~~g~~ivl~r~~~g~v~a~~n~CpHrg~~Ls~G~v~~~~l~CpyHGw~Fd~~G~~~~iP   80 (123)
T cd03537           2 ASWYVAMRSDDLK-DKPTELTLFGRPCVAWRGATGRAVVMDRHCSHLGANLADGRVKDGCIQCPFHHWRYDEQGQCVHIP   80 (123)
T ss_pred             CcEEEEEEHHHcC-CCcEEEEECCeEEEEEEccCCEEEEEcCCCCCCCCCccCCEEeCCEEECCCCCCEECCCCCEEECC
Confidence            4799999999996 678899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Cccc---------cccccccCCeeeecCeEEEcCCCCCC
Q 013818          197 STQL---------RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       197 ~~~~---------~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      +...         ...++++|||+|++|+||||++++.|
T Consensus        81 ~~~~~~~~~~~~p~~~~~~~~pv~e~~G~Vwv~~g~~~~  119 (123)
T cd03537          81 GHSTAVRRLEPVPRGARQPTLVTAERYGYVWVWYGSPQP  119 (123)
T ss_pred             CCcccccccccCCcccccccEeEEEECCEEEEEcCCCCc
Confidence            7431         23689999999999999999987655

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.

>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=99.97  E-value=2e-30  Score=230.29  Aligned_cols=132  Identities=33%  Similarity=0.714  Sum_probs=117.4

Q ss_pred             ccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCc
Q 013818          102 LNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCP  180 (436)
Q Consensus       102 ~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~Cp  180 (436)
                      ++.+++..++...+.+.|++|+.+++|+ +|+++.+.+.|.+++|+|+.+|+++|++|+|||||++|+.|.+.++.|+||
T Consensus         5 ~~~~~~~~~~~~~~~~~W~~v~~~~eL~~~g~~~~~~~~g~~i~v~r~~~G~v~A~~n~CpHrG~~L~~G~~~~~~i~CP   84 (144)
T cd03479           5 LTRVGPGTPMGELLRRYWQPVALSSELTEDGQPVRVRLLGEDLVAFRDTSGRVGLLDEHCPHRGASLVFGRVEECGLRCC   84 (144)
T ss_pred             eeecCCCCchhhHhhCceEEEEEHHHCCCCCCEEEEEECCcEEEEEEeCCCCEEEEcCcCCCCCCcccCCcccCCEEEcc
Confidence            3456888899999999999999999999 699999999999999999999999999999999999999999888999999


Q ss_pred             CCCceeecCCCccccCCccc-----cccccccCCeeeecCeEEEcCCCCCCCCCCCCC
Q 013818          181 YHGWEYSTDGKCEKMPSTQL-----RNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCL  233 (436)
Q Consensus       181 yHgw~f~~~G~~~~~P~~~~-----~~~~l~~~pv~e~~G~I~v~~~~~~~~~~lp~~  233 (436)
                      ||||+||.+|+|+.+|+...     ...+|++|+|++++|+|||++++..+++++|++
T Consensus        85 ~Hgw~F~~~G~~~~~P~~~~~~~~~~~~~l~~~~v~~~~G~I~V~~~~~~~~p~~~~~  142 (144)
T cd03479          85 YHGWKFDVDGQCLEMPSEPPDSQLKQKVRQPAYPVRERGGLVWAYMGPAEEAPEFPRY  142 (144)
T ss_pred             CCCcEECCCCCEEECCCCccccCCccccCcceEeEEEECCEEEEECCCCCCCCCCCCC
Confidence            99999999999999997542     245799999999999999999864443445554

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

>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=99.97  E-value=3.4e-30  Score=230.04  Aligned_cols=132  Identities=21%  Similarity=0.361  Sum_probs=117.0

Q ss_pred             cCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEEe
Q 013818           79 TCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQ  157 (436)
Q Consensus        79 ~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~~  157 (436)
                      +++..++|+++|+.|++++|+                .+.|++|+++++|+ +|+++++.++|.+|+|+|+.+|+++|+.
T Consensus         2 ~~~~~y~d~~~~~~E~~~if~----------------~~~W~~v~~~~el~~~g~~~~~~i~g~~iiv~r~~~g~v~A~~   65 (150)
T cd03545           2 VPYKVFTDRAYFDREQERIFR----------------GKTWSYVGLEAEIPNAGDFKSTFVGDTPVVVTRAEDGSLHAWV   65 (150)
T ss_pred             CChhhccCHHHHHHHHHhhhC----------------CCceEEEEEHHHCCCCCCEEEEEECCceEEEEECCCCCEEEEc
Confidence            467789999999999999985                25699999999998 5999999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCc-ccCCeEeCcCCCceeecCCCccccCCcc-------------ccccccccCCeeeecCeEEEcCCC
Q 013818          158 NTCAHRACPLHLGS-VNEGRIQCPYHGWEYSTDGKCEKMPSTQ-------------LRNVKIKSLPCFEQEGMIWIWPGD  223 (436)
Q Consensus       158 n~CpHrg~~L~~g~-~~~~~l~CpyHgw~f~~~G~~~~~P~~~-------------~~~~~l~~~pv~e~~G~I~v~~~~  223 (436)
                      |+|||||++|+.|. ++++.|+||||||+||.+|+|+.+|..+             ....+|++|+|.+++|+|||++++
T Consensus        66 n~CpHrg~~L~~g~~g~~~~i~CP~Hgw~Fdl~G~~~~ip~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~ifv~l~~  145 (150)
T cd03545          66 NRCAHRGALVCRERRGNDGSLTCVYHQWAYDLKGNLKGVPFRRGLKGQGGMPKDFDMKQHGLEKLRVETVGGLVFASFSD  145 (150)
T ss_pred             ccCcCCCCEecccccCCCCEEECCCCCCEECCCCCEEECccccccccccccccCcCHHHCCCcceeEeEECCEEEEEeCC
Confidence            99999999999874 4568999999999999999999999742             124689999999999999999987


Q ss_pred             CCC
Q 013818          224 EPP  226 (436)
Q Consensus       224 ~~~  226 (436)
                      +++
T Consensus       146 ~~~  148 (150)
T cd03545         146 EVE  148 (150)
T ss_pred             CCC
Confidence            644

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=99.96  E-value=6.4e-30  Score=224.26  Aligned_cols=115  Identities=30%  Similarity=0.839  Sum_probs=104.8

Q ss_pred             cccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCC
Q 013818          112 NTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGK  191 (436)
Q Consensus       112 ~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~  191 (436)
                      ...|++.|++|+.++||++|....++++|++|+|+|+.+|+++|+.|+|||||++|+.|.+.++.|+||||||+||.+|+
T Consensus        11 ~~~~~~~W~~v~~~~el~~~~~~~~~v~g~~ivl~r~~~G~v~A~~n~CpHrga~L~~G~~~~~~i~CP~Hgw~Fd~~G~   90 (134)
T cd04338          11 EYDWREEWYPLYLLKDVPTDAPLGLSVYDEPFVLFRDQNGQLRCLEDRCPHRLAKLSEGQLIDGKLECLYHGWQFGGEGK   90 (134)
T ss_pred             ccccccCcEEEEEHHHCCCCCCEEEEECCceEEEEEcCCCCEEEEcCcCCCCcCcccCCeecCCEEEccCCCCEECCCCC
Confidence            45678999999999999988889999999999999999999999999999999999999999899999999999999999


Q ss_pred             ccccCCccc-----cccccccCCeeeecCeEEEcCCCCCC
Q 013818          192 CEKMPSTQL-----RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       192 ~~~~P~~~~-----~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |+.+|....     ...+|++|||++++|+|||++++.++
T Consensus        91 ~~~~P~~~~~~~~~~~~~l~~y~v~~~~G~V~V~~~~~~~  130 (134)
T cd04338          91 CVKIPQLPADAKIPKNACVKSYEVRDSQGVVWMWMSEATP  130 (134)
T ss_pred             EEECCCCCccCCCCcccCcceEeEEEECCEEEEEcCCCCC
Confidence            999997531     24669999999999999999987654

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.

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

Probab=99.96  E-value=4.7e-29  Score=213.22  Aligned_cols=109  Identities=25%  Similarity=0.638  Sum_probs=101.2

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPS  197 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~  197 (436)
                      +|++|+.++||++|+++.+++.|++++|+|+.+|+++|++|+|||||++|+.|.++++.|+||||||+||.+|+|+.+|.
T Consensus         1 gW~~v~~~~dl~~g~~~~~~~~g~~i~l~r~~~g~~~a~~n~CpH~ga~L~~G~~~~~~i~CP~Hg~~fd~~G~~~~~p~   80 (115)
T cd03531           1 GWHCLGLARDFRDGKPHGVEAFGTKLVVFADSDGALNVLDAYCRHMGGDLSQGTVKGDEIACPFHDWRWGGDGRCKAIPY   80 (115)
T ss_pred             CcEEEEEHHHCCCCCeEEEEECCeEEEEEECCCCCEEEEcCcCCCCCCCCccCcccCCEEECCCCCCEECCCCCEEECCc
Confidence            59999999999999999999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             ccc--cccccccCCeeeecCeEEEcCCCCCC
Q 013818          198 TQL--RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       198 ~~~--~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      .+.  ...++++|||++++|+|||+++++..
T Consensus        81 ~~~~p~~~~l~~ypv~~~~g~v~v~~~~~~~  111 (115)
T cd03531          81 ARRVPPLARTRAWPTLERNGQLFVWHDPEGN  111 (115)
T ss_pred             ccCCCcccccceEeEEEECCEEEEECCCCCC
Confidence            542  24678999999999999999987653

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.

>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=99.95  E-value=1.8e-28  Score=209.93  Aligned_cols=110  Identities=35%  Similarity=0.819  Sum_probs=101.8

Q ss_pred             ccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccc
Q 013818          115 LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEK  194 (436)
Q Consensus       115 ~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~  194 (436)
                      +++.|++++.++||+ |++..+.+.|.+++|+|+.+|+++|++|+|||||++|+.|.+.++.|+||||||+||.+|+|+.
T Consensus         2 ~~~~W~~v~~~~el~-~~~~~~~~~g~~i~l~r~~~g~~~a~~n~CpH~g~~L~~G~~~~~~i~Cp~Hg~~fd~~G~~~~   80 (116)
T cd03532           2 PRNAWYVAAWADELG-DKPLARTLLGEPVVLYRTQDGRVAALEDRCPHRSAPLSKGSVEGGGLVCGYHGLEFDSDGRCVH   80 (116)
T ss_pred             cCCcEEEEEEHHHcC-CCcEEEEECCceEEEEECCCCCEEEeCCcCCCCCCCccCCcccCCEEEeCCCCcEEcCCCCEEe
Confidence            568899999999998 8899999999999999999999999999999999999999998899999999999999999999


Q ss_pred             cCCcc--ccccccccCCeeeecCeEEEcCCCCC
Q 013818          195 MPSTQ--LRNVKIKSLPCFEQEGMIWIWPGDEP  225 (436)
Q Consensus       195 ~P~~~--~~~~~l~~~pv~e~~G~I~v~~~~~~  225 (436)
                      +|...  ....+|++|||++++|+|||++++++
T Consensus        81 ~p~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~  113 (116)
T cd03532          81 MPGQERVPAKACVRSYPVVERDALIWIWMGDAA  113 (116)
T ss_pred             CCCCCCCCCccccccCCEEEECCEEEEEcCCcc
Confidence            99864  23568999999999999999998653

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

>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=99.95  E-value=1.3e-28  Score=217.02  Aligned_cols=113  Identities=30%  Similarity=0.797  Sum_probs=102.0

Q ss_pred             cccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcC-CCcEEEEecCCCCCCCCCCCCccc-CCeEeCcCCCceeecCCC
Q 013818          114 RLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGK-DGIPGCVQNTCAHRACPLHLGSVN-EGRIQCPYHGWEYSTDGK  191 (436)
Q Consensus       114 ~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~-dG~~~a~~n~CpHrg~~L~~g~~~-~~~l~CpyHgw~f~~~G~  191 (436)
                      .+++.|++|+.++||++|+++.+++.|++|+|+|+. +|+++|+.|+|||||++|+.|.+. ++.|+||||||+||.+|+
T Consensus        13 ~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~v~r~~~dG~~~A~~n~CpHrga~L~~G~~~~~~~i~CP~Hgw~Fd~tG~   92 (138)
T cd03480          13 DWREVWYPVAYVEDLDPSRPTPFTLLGRDLVIWWDRNSQQWRAFDDQCPHRLAPLSEGRIDEEGCLECPYHGWSFDGSGS   92 (138)
T ss_pred             CCccceEEEEEHHHCCCCCcEEEEECCeeEEEEEECCCCEEEEEcCCCcCCcCccccceEcCCCEEEeCCCCCEECCCCC
Confidence            457889999999999999999999999999999986 999999999999999999999875 469999999999999999


Q ss_pred             ccccCCccc-------cccccccCCeeeecCeEEEcCCCCCC
Q 013818          192 CEKMPSTQL-------RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       192 ~~~~P~~~~-------~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |+.+|....       ...+|++|||++++|+|||++++.++
T Consensus        93 ~~~~P~~~~~g~~~~~~~~~l~~ypv~v~~g~V~V~~~~~~~  134 (138)
T cd03480          93 CQRIPQAAEGGKAHTSPRACVASLPTAVRQGLLFVWPGEPEN  134 (138)
T ss_pred             EEECCCCccccccCCCcccccceEeEEEECCEEEEecCChHh
Confidence            999997531       23679999999999999999987544

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

>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=99.95  E-value=4.2e-28  Score=207.83  Aligned_cols=108  Identities=25%  Similarity=0.410  Sum_probs=99.9

Q ss_pred             ceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccC
Q 013818          118 FWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP  196 (436)
Q Consensus       118 ~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P  196 (436)
                      +|+.|+++++|+ +|+++++++.|.+++|+|+.+|+++|+.|+|||||++|+.|.++++.|+||||||+||.+|+|+.+|
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~~~P   80 (118)
T cd03541           1 GWQVAGYSDQVKEKNQYFTGRLGNVEYVVCRDGNGKLHAFHNVCTHRASILACGSGKKSCFVCPYHGWVYGLDGSLTKAT   80 (118)
T ss_pred             CCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCCCEEEEeCCCCCCcCCccCCccccCEEEeCCCCCEEcCCCeEEeCC
Confidence            499999999998 5889999999999999999999999999999999999999999889999999999999999999999


Q ss_pred             Cccc------cccccccCCeeeecCeEEEcCCCCC
Q 013818          197 STQL------RNVKIKSLPCFEQEGMIWIWPGDEP  225 (436)
Q Consensus       197 ~~~~------~~~~l~~~pv~e~~G~I~v~~~~~~  225 (436)
                      ....      ...+|.+++|.+++|||||+++++.
T Consensus        81 ~~~~~~~~~~~~~~L~~~~~~~~~g~vfv~~~~~~  115 (118)
T cd03541          81 QATGIQNFNPKELGLVPLKVAEWGPFVLISVDRSL  115 (118)
T ss_pred             CcccccCCCHHHCCCceEeEEEECCEEEEEeCCCc
Confidence            8642      3588999999999999999997643

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).

>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=99.95  E-value=6.1e-28  Score=214.66  Aligned_cols=127  Identities=20%  Similarity=0.371  Sum_probs=111.6

Q ss_pred             CCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEEecCCC
Q 013818           83 PSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCA  161 (436)
Q Consensus        83 ~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~Cp  161 (436)
                      .++|+++|+.|++++|.                 +.|++|++.++|+ +|+++++.+.|++|+|+|+.+|+++|+.|+||
T Consensus         4 ~y~~~~~~~~e~~~i~~-----------------~~W~~v~~~~elp~~G~~~~~~i~g~~i~v~r~~~g~v~A~~n~Cp   66 (146)
T cd03538           4 VYTDPEIFALEMERLFG-----------------NAWIYVGHESQVPNPGDYITTRIGDQPVVMVRHTDGSVHVLYNRCP   66 (146)
T ss_pred             eEcCHHHHHHHHHHHhh-----------------cCCEEEEEHHHCCCCCCEEEEEECCeeEEEEECCCCCEEEEeccCc
Confidence            57899999999999875                 5699999999998 69999999999999999999999999999999


Q ss_pred             CCCCCCCCC-ccc-CCeEeCcCCCceeecCCCccccCCccc----------cccccccC-CeeeecCeEEEcCCCCCC
Q 013818          162 HRACPLHLG-SVN-EGRIQCPYHGWEYSTDGKCEKMPSTQL----------RNVKIKSL-PCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       162 Hrg~~L~~g-~~~-~~~l~CpyHgw~f~~~G~~~~~P~~~~----------~~~~l~~~-pv~e~~G~I~v~~~~~~~  226 (436)
                      |||++|+.+ .+. ++.|+||||||+||.||+|+.+|..+.          ...+|..+ .|++++|+|||++++++|
T Consensus        67 Hrg~~L~~~~~g~~~~~i~CP~Hgw~Fd~~G~~~~~p~~~~~~~~~~~~~~~~~~L~~~~~v~~~~g~ifv~~~~~~~  144 (146)
T cd03538          67 HKGTKIVSDGCGNTGKFFRCPYHAWSFKTDGSLLAIPLKKGYEGTGFDPSHADKGMQRVGAVDIYRGFVFARLSPSGP  144 (146)
T ss_pred             CCCCEeecccccccCCEEECCCCCCEECCCCCEEECCchhcCCcccCCcchhhCCCCcceeEEEECCEEEEEcCCCCC
Confidence            999999754 343 568999999999999999999997541          24689999 688999999999987643

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.

>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=99.95  E-value=8.4e-28  Score=209.40  Aligned_cols=108  Identities=22%  Similarity=0.416  Sum_probs=97.2

Q ss_pred             eEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcc-cCCeEeCcCCCceeecCCCccccC
Q 013818          119 WFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-NEGRIQCPYHGWEYSTDGKCEKMP  196 (436)
Q Consensus       119 W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~-~~~~l~CpyHgw~f~~~G~~~~~P  196 (436)
                      |++||+++||+ +|++.++.+++.+|+|+|+.||+++||.|+|||||++|+.|.. +++.|+||||||+||.+|+|+.+|
T Consensus         1 W~~v~~~~~l~~~g~~~~~~~~~~~v~v~r~~dg~v~A~~n~C~Hrg~~L~~g~~~~~~~l~CPyHgw~fdl~G~l~~~p   80 (129)
T cd03539           1 WCYVGLEAEIPNPGDFKRTLIGERSVIMTRDPDGGINVVENVCAHRGMRFCRERNGNAKDFVCPYHQWNYSLKGDLQGVP   80 (129)
T ss_pred             CEEEEEHHHCCCCCCEEEEEECCcEEEEEECCCCCEEEEeccCcCCCCEeeeeccCccCEEECCCCCCEECCCCCEeecc
Confidence            99999999998 5999999999999999999999999999999999999998764 456899999999999999999999


Q ss_pred             Ccc-----------------ccccccccCCeeeecCeEEEcCCCCCC
Q 013818          197 STQ-----------------LRNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       197 ~~~-----------------~~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      ..+                 ....+|++++|++++|+|||+++++++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~~  127 (129)
T cd03539          81 FRRGVKKDGKVNGGMPKDFKTKDHGLTKLKVATRGGVVFASFDHDVE  127 (129)
T ss_pred             ccccccccccccccccCCcChHHCCCceeeEeEECCEEEEEeCCCCC
Confidence            742                 124679999999999999999987654

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.

>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=99.95  E-value=2e-27  Score=209.02  Aligned_cols=111  Identities=32%  Similarity=0.644  Sum_probs=99.0

Q ss_pred             cccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCc--ccCCeEeCcCCCceeec-CC
Q 013818          114 RLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGS--VNEGRIQCPYHGWEYST-DG  190 (436)
Q Consensus       114 ~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~--~~~~~l~CpyHgw~f~~-~G  190 (436)
                      .+++.|++|+.+++|++|+++.+++.|++++|+| .+|+++|+.|+|||||++|+.|.  +.++.|+||||||+||. +|
T Consensus        10 ~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~l~r-~~g~v~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~Fdl~tG   88 (136)
T cd03548          10 GFRNHWYPALFSHELEEGEPKGIQLCGEPILLRR-VDGKVYALKDRCLHRGVPLSKKPECFTKGTITCWYHGWTYRLDDG   88 (136)
T ss_pred             CcccCcEEEEEHHHCCCCCeEEEEECCcEEEEEe-cCCEEEEEeCcCcCCCCccccCcccccCCEEEecCCccEEeCCCc
Confidence            5788999999999999999999999999999999 69999999999999999999885  45789999999999996 89


Q ss_pred             CccccCCccc----cccccccCCeeeecCeEEEcCCCCC
Q 013818          191 KCEKMPSTQL----RNVKIKSLPCFEQEGMIWIWPGDEP  225 (436)
Q Consensus       191 ~~~~~P~~~~----~~~~l~~~pv~e~~G~I~v~~~~~~  225 (436)
                      +|+.+|..+.    ...+|++|||++++|+|||++++..
T Consensus        89 ~~~~~~~~p~~~~~~~~~L~~ypv~~~~g~V~v~~~~~~  127 (136)
T cd03548          89 KLVTILANPDDPLIGRTGLKTYPVEEAKGMIFVFVGDGD  127 (136)
T ss_pred             cEEEcccCCCccccccCCCceEeEEEECCEEEEEeCCcc
Confidence            9998775432    1457999999999999999997643

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

>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=99.94  E-value=2.5e-27  Score=206.13  Aligned_cols=113  Identities=23%  Similarity=0.409  Sum_probs=99.6

Q ss_pred             cccCceEEeeeCCCCCC-CCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcc-cCCeEeCcCCCceeecCCC
Q 013818          114 RLKNFWFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-NEGRIQCPYHGWEYSTDGK  191 (436)
Q Consensus       114 ~~~~~W~~v~~~~~l~~-g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~-~~~~l~CpyHgw~f~~~G~  191 (436)
                      .+.+.|+.|++++||++ |++..+.++|.+|+|+|+.+|+++|+.|+|||||++|+.|.. +++.|+||||||+||.||+
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~   83 (128)
T cd03472           4 VFARSWLLLGHETHIPKAGDYLTTYMGEDPVIVVRQKDGSIRVFLNQCRHRGMRICRSDAGNAKAFTCTYHGWAYDTAGN   83 (128)
T ss_pred             hhhCCCeEeEEHHHCCCCCCEEEEEECCceEEEEECCCCCEEEEhhhCcCCCCeeeccCCCCcCEEECCcCCeEECCCcC
Confidence            46788999999999985 777888899999999999999999999999999999999864 4468999999999999999


Q ss_pred             ccccCCccc--------cccccccCCeeeecCeEEEcCCCCCC
Q 013818          192 CEKMPSTQL--------RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       192 ~~~~P~~~~--------~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |+++|..+.        ...+|+.++|.+++|+|||++++++|
T Consensus        84 ~~~~P~~~~~~~~~~~~~~~~l~~~~v~~~~g~vfv~~~~~~~  126 (128)
T cd03472          84 LVNVPFEKEAFCDGLDKADWGPLQARVETYKGLIFANWDAEAP  126 (128)
T ss_pred             EEeccCcccccccCCCHHHCCCcceeEeEECCEEEEEcCCCCC
Confidence            999998532        13568999999999999999987654

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

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

Probab=99.94  E-value=4.6e-27  Score=201.44  Aligned_cols=107  Identities=33%  Similarity=0.669  Sum_probs=99.3

Q ss_pred             eEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcc-cCCeEeCcCCCceeecCCCccccC
Q 013818          119 WFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-NEGRIQCPYHGWEYSTDGKCEKMP  196 (436)
Q Consensus       119 W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~-~~~~l~CpyHgw~f~~~G~~~~~P  196 (436)
                      |++||.+++|+ +|+.+.+.+.|.+++|+|+.+|+++|+.|+|||+|++|+.|.+ +++.|+||||||+||.+|+|+.+|
T Consensus         1 w~~v~~~~el~~~g~~~~~~~~~~~i~v~r~~~g~~~a~~n~CpH~g~~L~~g~~~~~~~i~Cp~Hg~~Fd~~G~~~~~P   80 (118)
T cd03469           1 WYFVGHSSELPEPGDYVTLELGGEPLVLVRDRDGEVRAFHNVCPHRGARLCEGRGGNAGRLVCPYHGWTYDLDGKLVGVP   80 (118)
T ss_pred             CEEeEEHHHCCCCCCEEEEEECCccEEEEECCCCCEEEEEEeCCCCCCEeeeccCCCCCEEECCCCCCEECCCCcEEeCC
Confidence            99999999999 8999999999999999999899999999999999999999988 789999999999999999999999


Q ss_pred             Cccc------cccccccCCeeeecCeEEEcCCCCC
Q 013818          197 STQL------RNVKIKSLPCFEQEGMIWIWPGDEP  225 (436)
Q Consensus       197 ~~~~------~~~~l~~~pv~e~~G~I~v~~~~~~  225 (436)
                      +...      ...+|++|||++++|+|||+++++.
T Consensus        81 ~~~~~~~~~~~~~~L~~~~v~~~~g~v~v~~~~~~  115 (118)
T cd03469          81 REEGFPGFDKEKLGLRTVPVEEWGGLIFVNLDPDA  115 (118)
T ss_pred             cccccCCCCHHHCCCeEEEEEEECCEEEEEcCCCC
Confidence            8642      2467999999999999999998754

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

>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=99.93  E-value=2.4e-26  Score=198.79  Aligned_cols=110  Identities=21%  Similarity=0.505  Sum_probs=96.2

Q ss_pred             CceEEeeeCCCCCC-CCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccC-CeEeCcCCCceeecCCCccc
Q 013818          117 NFWFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE-GRIQCPYHGWEYSTDGKCEK  194 (436)
Q Consensus       117 ~~W~~v~~~~~l~~-g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~-~~l~CpyHgw~f~~~G~~~~  194 (436)
                      +.|+.+++++||++ |++..+.+.|.+++|+|+.+|+++|+.|+|||||++|+.|...+ +.|+||||||+||.||+|+.
T Consensus         1 ~~w~~v~~~~el~~~g~~~~~~~~~~~iiv~r~~~g~~~A~~n~CpHrg~~L~~g~~~~~~~i~Cp~Hgw~Fd~tG~~~~   80 (123)
T cd03535           1 RAWVFLGHESEIPNAGDYVVRYIGDDSFIVCRDEDGEIRAMFNSCRHRGMQVCRAEMGNTSHFRCPYHGWTYRNTGRLVG   80 (123)
T ss_pred             CCCEEEEEHHHCCCCCCEEEEEECCeEEEEEECCCCCEEEEcccCccCCCEeeccccCCCCEEECCcCCCEECCCcCEee
Confidence            36999999999986 78888889999999999999999999999999999999987654 68999999999999999999


Q ss_pred             cCCccc--------cccccccCCee-eecCeEEEcCCCCCC
Q 013818          195 MPSTQL--------RNVKIKSLPCF-EQEGMIWIWPGDEPP  226 (436)
Q Consensus       195 ~P~~~~--------~~~~l~~~pv~-e~~G~I~v~~~~~~~  226 (436)
                      +|..+.        ...+|+++++. +++|+|||+++++++
T Consensus        81 ~p~~~~~~~~~~~~~~~~L~~~~~~e~~~g~vfv~l~~~~~  121 (123)
T cd03535          81 VPAQQEAYGGGFDKSQWGLRPAPNLDSYNGLIFGSLDPKAP  121 (123)
T ss_pred             CCCcccccccCcCHHHCCCccceeEEEECCEEEEEeCCCCC
Confidence            997442        24679999865 589999999987543

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=99.93  E-value=3.3e-26  Score=197.95  Aligned_cols=108  Identities=19%  Similarity=0.358  Sum_probs=96.0

Q ss_pred             eEEeeeCCCCCC-CCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCccc-CCeEeCcCCCceeecCCCccccC
Q 013818          119 WFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVN-EGRIQCPYHGWEYSTDGKCEKMP  196 (436)
Q Consensus       119 W~~v~~~~~l~~-g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~-~~~l~CpyHgw~f~~~G~~~~~P  196 (436)
                      |+.+|+++||++ |++..+.+.|.+++|+|+.+|+++|+.|+|||||++|+.|... ...|+||||||+||.+|+|+.+|
T Consensus         1 w~~v~~~~el~~~g~~~~~~~~~~~i~v~r~~~g~v~A~~n~CpH~g~~L~~~~~~~~~~i~Cp~Hgw~fd~~G~~~~~p   80 (123)
T cd03536           1 WVLLGHESEIPNKGDFMVRDMGSDSVIVARDKDGEIHVSLNVCPHRGMRISTTDGGNTQIHVCIYHGWAFRPNGDFIGAP   80 (123)
T ss_pred             CEEeEEHHHCCCCCCEEEEEECCceEEEEECCCCCEEEEeeeCCCCCCCcccccCCCcCEEECCcCCCEECCCCcEEECC
Confidence            899999999986 8888889999999999998999999999999999999987654 35799999999999999999999


Q ss_pred             Cccc---------cccccccCCeeeecCeEEEcCCCCCC
Q 013818          197 STQL---------RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       197 ~~~~---------~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      ..+.         ...+|++|+|++++|+|||+++++++
T Consensus        81 ~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~~  119 (123)
T cd03536          81 VEKECMHGKMRTKAELGLHKARVTLYGGLIFATWNIDGP  119 (123)
T ss_pred             ccccccccCCCCHHHCCCcceeEEEECCEEEEEeCCCCC
Confidence            7531         23679999999999999999987643

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.

>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=99.92  E-value=3.6e-25  Score=191.19  Aligned_cols=108  Identities=24%  Similarity=0.468  Sum_probs=93.9

Q ss_pred             eEEeeeCCCCCC-CCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcc-cCCeEeCcCCCceeecCCCccccC
Q 013818          119 WFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-NEGRIQCPYHGWEYSTDGKCEKMP  196 (436)
Q Consensus       119 W~~v~~~~~l~~-g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~-~~~~l~CpyHgw~f~~~G~~~~~P  196 (436)
                      |+.||+.+||++ |++..+.+.|.+++|+|+.+|+++|+.|+|||||++|+.|.. +++.|+||||||+||.||+|+.+|
T Consensus         1 w~~v~~~~elp~~g~~~~~~~~~~~i~l~r~~~g~v~A~~n~C~Hrg~~L~~g~~~~~~~i~CP~Hg~~Fd~~G~~~~~p   80 (123)
T cd03542           1 WVYLAHESQIPNNNDYFTTTIGRQPVVITRDKDGELNAFINACSHRGAMLCRRKQGNKGTFTCPFHGWTFSNTGKLLKVK   80 (123)
T ss_pred             CEEeEEHHHCCCCCCEEEEEECCcEEEEEECCCCCEEEEcccCcCCCCccccccccCCCEEECcCCCCEecCCccEEECC
Confidence            899999999985 888999999999999999999999999999999999998754 456999999999999999999999


Q ss_pred             Cccc----------cccccccCC-eeeecCeEEEcCCCCCC
Q 013818          197 STQL----------RNVKIKSLP-CFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       197 ~~~~----------~~~~l~~~p-v~e~~G~I~v~~~~~~~  226 (436)
                      ....          ...+|..++ ++.++|||||++++++|
T Consensus        81 ~~~~~~y~~~~~~~~~~~L~~~~~~~~~~g~v~~~~~~~~~  121 (123)
T cd03542          81 DPKTAGYPEGFNCDGSHDLTKVARFESYRGFLFGSLNADVA  121 (123)
T ss_pred             cccccCcCcccChhhcCCCccceeEEEECCEEEEEcCCCCC
Confidence            6321          135788886 55678999999987654

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=5.4e-25  Score=182.47  Aligned_cols=96  Identities=27%  Similarity=0.530  Sum_probs=90.6

Q ss_pred             eEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCccccCC
Q 013818          119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKMPS  197 (436)
Q Consensus       119 W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~P~  197 (436)
                      |++++.++||++|+.+.+.+.|.+++|+|+ +|+++|++|+|||+|++|+.|.+.++.|.||||||+||. +|+|+.+|+
T Consensus         1 w~~v~~~~~l~~g~~~~~~~~g~~~~v~r~-~~~~~a~~~~CpH~g~~L~~g~~~~~~i~Cp~Hg~~fd~~~G~~~~~p~   79 (98)
T cd03528           1 WVRVCAVDELPEGEPKRVDVGGRPIAVYRV-DGEFYATDDLCTHGDASLSEGYVEGGVIECPLHGGRFDLRTGKALSLPA   79 (98)
T ss_pred             CeEEEEhhhcCCCCEEEEEECCeEEEEEEE-CCEEEEECCcCCCCCCCCCCCeEeCCEEEeCCcCCEEECCCCcccCCCC
Confidence            899999999999999999999999999997 669999999999999999999888899999999999996 999999997


Q ss_pred             ccccccccccCCeeeecCeEEE
Q 013818          198 TQLRNVKIKSLPCFEQEGMIWI  219 (436)
Q Consensus       198 ~~~~~~~l~~~pv~e~~G~I~v  219 (436)
                      .    ..|++||+++.+|.|||
T Consensus        80 ~----~~L~~~~v~~~~g~v~v   97 (98)
T cd03528          80 T----EPLKTYPVKVEDGDVYV   97 (98)
T ss_pred             C----CCcceEeEEEECCEEEE
Confidence            4    47999999999999998

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=99.91  E-value=1.4e-24  Score=180.12  Aligned_cols=97  Identities=21%  Similarity=0.459  Sum_probs=89.2

Q ss_pred             eEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCccccCC
Q 013818          119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKMPS  197 (436)
Q Consensus       119 W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~P~  197 (436)
                      |+.++.++||++|+.+.+.+.|++++|+|+.+|+++|++|+|||+|++|+.|.++++.|+||||||+||. +|.+.. |.
T Consensus         1 w~~v~~~~~l~~~~~~~~~~~g~~i~l~r~~~g~~~A~~~~CpH~g~~L~~g~~~~~~i~Cp~Hg~~Fdl~~G~~~~-p~   79 (98)
T cd03530           1 WIDIGALEDIPPRGARKVQTGGGEIAVFRTADDEVFALENRCPHKGGPLSEGIVHGEYVTCPLHNWVIDLETGEAQG-PD   79 (98)
T ss_pred             CEEEEEHHHCCCCCcEEEEECCEEEEEEEeCCCCEEEEcCcCCCCCCCccCCEEcCCEEECCCCCCEEECCCCCCCC-CC
Confidence            8999999999999899999999999999998899999999999999999999998899999999999996 888764 43


Q ss_pred             ccccccccccCCeeeecCeEEEc
Q 013818          198 TQLRNVKIKSLPCFEQEGMIWIW  220 (436)
Q Consensus       198 ~~~~~~~l~~~pv~e~~G~I~v~  220 (436)
                      .    .+|++||+++++|.|||.
T Consensus        80 ~----~~l~~y~v~v~~g~v~v~   98 (98)
T cd03530          80 E----GCVRTFPVKVEDGRVYLG   98 (98)
T ss_pred             C----CccceEeEEEECCEEEEC
Confidence            2    479999999999999984

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

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

Probab=99.91  E-value=2.3e-24  Score=182.09  Aligned_cols=103  Identities=21%  Similarity=0.374  Sum_probs=92.3

Q ss_pred             eEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCccccCC
Q 013818          119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKMPS  197 (436)
Q Consensus       119 W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~P~  197 (436)
                      |+.++.++||++|+.+.+.+.|.+++++|..+|+++|+.|+|||+|++|+.|..+++.|+||||||+||. +|.|.. |.
T Consensus         1 w~~v~~~~~l~~g~~~~~~~~~~~~~~~~~~~g~~~A~~n~CpH~g~~L~~g~~~g~~i~CP~Hg~~Fdl~~G~~~~-~~   79 (108)
T cd03474           1 FTKVCSLDDVWEGEMELVDVDGEEVLLVAPEGGEFRAFQGICPHQEIPLAEGGFDGGVLTCRAHLWQFDADTGEGLN-PR   79 (108)
T ss_pred             CeEeeehhccCCCceEEEEECCeEEEEEEccCCeEEEEcCcCCCCCCCcccCcccCCEEEeCCcCCEEECCCccccC-CC
Confidence            8899999999999999999999999999989999999999999999999999988889999999999996 666654 43


Q ss_pred             ccccccccccCCeeeecCeEEEcCCCCCC
Q 013818          198 TQLRNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       198 ~~~~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                          ..+|++|||++++|.|||++++.++
T Consensus        80 ----~~~L~~~~v~v~~g~v~v~~~~~~~  104 (108)
T cd03474          80 ----DCRLARYPVKVEGGDILVDTEGVLP  104 (108)
T ss_pred             ----CCccceEeEEEECCEEEEeCCCcCc
Confidence                3589999999999999999975443

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.

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

Probab=99.91  E-value=4e-24  Score=178.62  Aligned_cols=100  Identities=21%  Similarity=0.391  Sum_probs=93.1

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceee-cCCCccccC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYS-TDGKCEKMP  196 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~-~~G~~~~~P  196 (436)
                      .|+.++..+||++|..+.+.+.|.+++|+|..+|+++|++|+|||+|++|+.|.++++.|.||+|||+|| .||+|+..|
T Consensus         1 ~w~~v~~~~dl~~g~~~~~~~~g~~i~l~r~~~g~~~A~~~~CpH~g~~L~~G~~~~~~i~CP~Hg~~Fdl~tG~~~~~p   80 (101)
T TIGR02377         1 NWVKACDADDIGREDVARFDHGGRTFAIYRTPDDQYYATDGLCTHEYAHLADGLVMDTTVECPKHAGCFDYRTGEALNPP   80 (101)
T ss_pred             CcEEEEEHHHcCCCCEEEEEECCeEEEEEEeCCCEEEEEcCcCCCCCCCCCCCEEcCCEEECCccCCEEECCCCcccCCC
Confidence            3999999999999999999999999999998799999999999999999999999999999999999999 599999988


Q ss_pred             CccccccccccCCeeeecCeEEEcC
Q 013818          197 STQLRNVKIKSLPCFEQEGMIWIWP  221 (436)
Q Consensus       197 ~~~~~~~~l~~~pv~e~~G~I~v~~  221 (436)
                      +.    ..|++||+++.+|.|||.+
T Consensus        81 ~~----~~l~~y~v~v~~g~v~V~~  101 (101)
T TIGR02377        81 VC----VNLKTYPVKVVDGAVYVDI  101 (101)
T ss_pred             cc----CCcceEeEEEECCEEEEeC
Confidence            74    3799999999999999853

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].

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

Probab=99.90  E-value=1.8e-23  Score=175.18  Aligned_cols=96  Identities=24%  Similarity=0.324  Sum_probs=87.6

Q ss_pred             eEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCC-CCCCccc----CCeEeCcCCCceee-cCCCc
Q 013818          119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACP-LHLGSVN----EGRIQCPYHGWEYS-TDGKC  192 (436)
Q Consensus       119 W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~-L~~g~~~----~~~l~CpyHgw~f~-~~G~~  192 (436)
                      |+.|+.++||++|+.+.+.+.|++++|+|..+|+++|+.|+|||+|++ |+.|.+.    ++.|+||||||+|| .+|+|
T Consensus         1 w~~v~~~~~l~~g~~~~~~~~g~~i~l~r~~~g~~~A~~~~CpH~g~~ll~~G~~~~~~~~~~i~Cp~Hg~~Fdl~tG~~   80 (103)
T cd03529           1 WQTVCALDDLPPGSGVAALVGDTQIAIFRLPGREVYAVQNMDPHSRANVLSRGIVGDIGGEPVVASPLYKQHFSLKTGRC   80 (103)
T ss_pred             CEEEeEHHHCCCCCcEEEEECCEEEEEEEeCCCeEEEEeCcCCCCCCcccCCceEcccCCCeEEECCCCCCEEEcCCCCc
Confidence            899999999999999999999999999998777999999999999997 7878653    24899999999999 69999


Q ss_pred             cccCCccccccccccCCeeeecCeEEE
Q 013818          193 EKMPSTQLRNVKIKSLPCFEQEGMIWI  219 (436)
Q Consensus       193 ~~~P~~~~~~~~l~~~pv~e~~G~I~v  219 (436)
                      +..|.     .+|++|||++++|.|||
T Consensus        81 ~~~p~-----~~l~~y~v~~~~g~v~v  102 (103)
T cd03529          81 LEDED-----VSVATFPVRVEDGEVYV  102 (103)
T ss_pred             cCCCC-----ccEeeEeEEEECCEEEE
Confidence            99885     37999999999999998

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.

>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=99.90  E-value=1.5e-23  Score=172.97  Aligned_cols=93  Identities=26%  Similarity=0.489  Sum_probs=86.9

Q ss_pred             EeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCccccCCcc
Q 013818          121 PVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKMPSTQ  199 (436)
Q Consensus       121 ~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~P~~~  199 (436)
                      .|+.++||++|+.+.+.+.|.+++|+|. +|+++|++|+|||+|++|+.|.+.++.|+||||||+||. +|+|+.+|.. 
T Consensus         2 ~v~~~~~l~~g~~~~~~~~~~~v~v~r~-~g~~~A~~~~CpH~g~~L~~g~~~~~~i~CP~Hg~~Fdl~tG~~~~~p~~-   79 (95)
T cd03478           2 VVCRLSDLGDGEMKEVDVGDGKVLLVRQ-GGEVHAIGAKCPHYGAPLAKGVLTDGRIRCPWHGACFNLRTGDIEDAPAL-   79 (95)
T ss_pred             ceeehhhCCCCCEEEEEeCCcEEEEEEE-CCEEEEEcCcCcCCCCccCCCeEeCCEEEcCCCCCEEECCCCcCcCCCcc-
Confidence            3688999999999999999999999997 999999999999999999999988899999999999996 9999999974 


Q ss_pred             ccccccccCCeeeecCeEE
Q 013818          200 LRNVKIKSLPCFEQEGMIW  218 (436)
Q Consensus       200 ~~~~~l~~~pv~e~~G~I~  218 (436)
                         ..|++||+++++|.||
T Consensus        80 ---~~l~~~~v~~~~g~i~   95 (95)
T cd03478          80 ---DSLPCYEVEVEDGRVY   95 (95)
T ss_pred             ---CCcceEEEEEECCEEC
Confidence               3699999999999997

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.

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

Probab=99.89  E-value=2.5e-23  Score=174.92  Aligned_cols=99  Identities=23%  Similarity=0.412  Sum_probs=90.0

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCC-CCCCCCCcccCCe----EeCcCCCceeec-CCC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHR-ACPLHLGSVNEGR----IQCPYHGWEYST-DGK  191 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHr-g~~L~~g~~~~~~----l~CpyHgw~f~~-~G~  191 (436)
                      .|++|+.++||++|+.+.+.+.|.+++|+|..+|+++|+.|+|||+ +++|+.|.+.++.    |+||||||+||. +|+
T Consensus         1 ~w~~v~~~~el~~g~~~~~~v~g~~l~v~r~~~~~~~a~~~~CpH~g~~~L~~g~~~~~~~~~~i~Cp~Hg~~Fdl~tG~   80 (105)
T TIGR02378         1 TWQDICAIDDIPEETGVCVLLGDTQIAIFRVPGDQVFAIQNMCPHKRAFVLSRGIVGDAQGELWVACPLHKRNFRLEDGR   80 (105)
T ss_pred             CcEEEEEHHHCCCCCcEEEEECCEEEEEEEeCCCcEEEEeCcCCCCCCccccceEEccCCCcEEEECCcCCCEEEcCCcc
Confidence            4999999999999999999999999999998889999999999999 8999998776555    999999999995 899


Q ss_pred             ccccCCccccccccccCCeeeecCeEEEcC
Q 013818          192 CEKMPSTQLRNVKIKSLPCFEQEGMIWIWP  221 (436)
Q Consensus       192 ~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~  221 (436)
                      |+..|.     .+|++||+++++|.|||.+
T Consensus        81 ~~~~~~-----~~L~~y~v~v~~g~v~v~~  105 (105)
T TIGR02378        81 CLEDDS-----GSVRTYEVRVEDGRVYVAL  105 (105)
T ss_pred             ccCCCC-----ccEeeEeEEEECCEEEEeC
Confidence            998764     3799999999999999964

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

>PRK09965 3-phenylpropionate dioxygenase ferredoxin subunit; Provisional

Probab=99.89  E-value=3.5e-23  Score=174.42  Aligned_cols=100  Identities=20%  Similarity=0.364  Sum_probs=90.6

Q ss_pred             eEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccC-CeEeCcCCCceeec-CCCccccC
Q 013818          119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE-GRIQCPYHGWEYST-DGKCEKMP  196 (436)
Q Consensus       119 W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~-~~l~CpyHgw~f~~-~G~~~~~P  196 (436)
                      |+.++..+||++|..+.+.+. .+++|+|. +|+++|++|+|||+|++|+.|.+++ +.|+||||||+||. +|+|+..|
T Consensus         3 ~~~v~~~~~l~~g~~~~~~~~-~~i~v~~~-~g~~~A~~~~CpH~g~~L~~G~~~~~~~i~Cp~Hg~~Fd~~tG~~~~~p   80 (106)
T PRK09965          3 RIYACPVADLPEGEALRVDTS-PVIALFNV-GGEFYAIDDRCSHGNASLSEGYLEDDATVECPLHAASFCLRTGKALCLP   80 (106)
T ss_pred             cEEeeeHHHcCCCCeEEEeCC-CeEEEEEE-CCEEEEEeCcCCCCCCCCCceEECCCCEEEcCCCCCEEEcCCCCeeCCC
Confidence            899999999999998888876 88999985 9999999999999999999998887 79999999999995 99999888


Q ss_pred             CccccccccccCCeeeecCeEEEcCCCC
Q 013818          197 STQLRNVKIKSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       197 ~~~~~~~~l~~~pv~e~~G~I~v~~~~~  224 (436)
                      ..    .+|++|++++.+|.|||.+...
T Consensus        81 ~~----~~l~~y~v~v~~g~v~v~~~~~  104 (106)
T PRK09965         81 AT----DPLRTYPVHVEGGDIFIDLPEA  104 (106)
T ss_pred             CC----CCcceEeEEEECCEEEEEccCC
Confidence            63    4799999999999999988543

>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=8.8e-22  Score=162.79  Aligned_cols=93  Identities=31%  Similarity=0.661  Sum_probs=79.6

Q ss_pred             ceEEeeeCCCCCC-CCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCc--ccCCeEeCcCCCceeecC-CCcc
Q 013818          118 FWFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGS--VNEGRIQCPYHGWEYSTD-GKCE  193 (436)
Q Consensus       118 ~W~~v~~~~~l~~-g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~--~~~~~l~CpyHgw~f~~~-G~~~  193 (436)
                      .|++|+.++||++ |+...+.+ |...++++..+|+++|++|+|||+|++|+.|.  .+++.|+||||||+||.+ |+|+
T Consensus         1 ~W~~v~~~~el~~~~~~~~~~~-~~~~v~~~~~~g~~~A~~~~CpH~g~~l~~~~~~~~~~~i~Cp~Hg~~Fd~~tG~~~   79 (97)
T PF00355_consen    1 QWVPVCRSSELPEPGDVKRVDV-GGKLVLVRRSDGEIYAFSNRCPHQGCPLSEGPFSEDGGVIVCPCHGWRFDLDTGECV   79 (97)
T ss_dssp             SEEEEEEGGGSHSTTEEEEEEE-TTEEEEEEETTTEEEEEESB-TTTSBBGGCSSEETTTTEEEETTTTEEEETTTSBEE
T ss_pred             CEEEeeEHHHCCCCCCEEEEEc-CCcEEEEEeCCCCEEEEEccCCccceeEcceecccccCEEEeCCcCCEEeCCCceEe
Confidence            4999999999998 88888888 55555555789999999999999999999994  456799999999999975 9999


Q ss_pred             ccCCccccccccccCCeeeecC
Q 013818          194 KMPSTQLRNVKIKSLPCFEQEG  215 (436)
Q Consensus       194 ~~P~~~~~~~~l~~~pv~e~~G  215 (436)
                      .+|+..    +++.|||+++++
T Consensus        80 ~~p~~~----~l~~~~v~ve~~   97 (97)
T PF00355_consen   80 GGPAPR----PLPLYPVKVEGD   97 (97)
T ss_dssp             ESTTCS----BSTEEEEEEETT
T ss_pred             cCCCCC----CcCCCCeEEeCC
Confidence            999853    789999988763

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 ....

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

Probab=99.85  E-value=2.4e-21  Score=162.39  Aligned_cols=98  Identities=28%  Similarity=0.612  Sum_probs=91.1

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCC-CCCCCCCCcccCC----eEeCcCCCceeec-CCC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAH-RACPLHLGSVNEG----RIQCPYHGWEYST-DGK  191 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpH-rg~~L~~g~~~~~----~l~CpyHgw~f~~-~G~  191 (436)
                      .|+.||..+||++|..+.+.+.|++|+|||..+|+++|++|+||| ++++|+.|.+.+.    .+.||+|+|+||+ +|+
T Consensus         1 ~W~~v~~~~~L~~~~~~~~~v~g~~Ialf~~~~~~vyAi~n~Cph~~~~~Ls~G~i~~~~g~~~V~CPlH~~~f~L~tG~   80 (104)
T PF13806_consen    1 SWVPVCPLDDLPPGEGRAVEVDGRQIALFRVRDGEVYAIDNRCPHSQAGPLSDGLIGDGNGEPCVACPLHKWRFDLRTGE   80 (104)
T ss_dssp             SEEEEEETTTSCTTSEEEEEETTEEEEEEEESTTEEEEEESBETTTTSSCGCGSEEEECTTEEEEEETTTTEEEETTTTE
T ss_pred             CeeEeccHHHCCCCCcEEEEECCeEEEEEEeCCCCEEEEeccCCccCCcccceeEEccCCCCEEEECCCCCCeEECCCcC
Confidence            499999999999999999999999999999889999999999999 8999999998765    9999999999994 999


Q ss_pred             ccccCCccccccccccCCeeeecCeEEEc
Q 013818          192 CEKMPSTQLRNVKIKSLPCFEQEGMIWIW  220 (436)
Q Consensus       192 ~~~~P~~~~~~~~l~~~pv~e~~G~I~v~  220 (436)
                      |+..|.     .++++|||++.+|.|||.
T Consensus        81 ~~~~~~-----~~l~~ypvrv~~g~V~V~  104 (104)
T PF13806_consen   81 CLEDPD-----VSLRTYPVRVEDGQVYVE  104 (104)
T ss_dssp             ESSECS-----EBSBEEEEEECTTEEEEE
T ss_pred             cCCCCC-----CcEEeEEEEEECCEEEEC
Confidence            998665     479999999999999984

>PRK09511 nirD nitrite reductase small subunit; Provisional

Probab=99.85  E-value=5.4e-21  Score=161.52  Aligned_cols=98  Identities=19%  Similarity=0.238  Sum_probs=87.7

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEc-CCCcEEEEecCCCCCCCC-CCCCcccC---C-eEeCcCCCceee-cCC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRG-KDGIPGCVQNTCAHRACP-LHLGSVNE---G-RIQCPYHGWEYS-TDG  190 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~-~dG~~~a~~n~CpHrg~~-L~~g~~~~---~-~l~CpyHgw~f~-~~G  190 (436)
                      .|+.||..+||++|+.+.+.+.|++|+|+|. .+|+++|++|+|||.|++ |+.|.+.+   + .++||+|||+|| .+|
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            4999999999999999999999999999995 689999999999999985 99998742   2 599999999999 599


Q ss_pred             CccccCCccccccccccCCeeeecCeEEEc
Q 013818          191 KCEKMPSTQLRNVKIKSLPCFEQEGMIWIW  220 (436)
Q Consensus       191 ~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~  220 (436)
                      +|+..|.     ..|++|||++.+|.|||.
T Consensus        83 ~~~~~~~-----~~l~typV~ve~g~V~v~  107 (108)
T PRK09511         83 LCMEDEQ-----FSVKHYDARVKDGVVQLR  107 (108)
T ss_pred             ccCCCCC-----ccEeeEeEEEECCEEEEe
Confidence            9998664     379999999999999984

>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=6.1e-21  Score=158.17  Aligned_cols=95  Identities=25%  Similarity=0.468  Sum_probs=87.6

Q ss_pred             eEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCccccCC
Q 013818          119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKMPS  197 (436)
Q Consensus       119 W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~P~  197 (436)
                      |++++..++|++|+...+.+.|.+++|+|..+|+++|++|+|||+|++|..+..+++.|+||+|||+||. ||+|+..|+
T Consensus         1 w~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~a~~~~CpH~g~~l~~~~~~~~~i~Cp~H~~~f~~~~G~~~~~p~   80 (98)
T cd03467           1 WVVVGALSELPPGGGRVVVVGGGPVVVVRREGGEVYALSNRCTHQGCPLSEGEGEDGCIVCPCHGSRFDLRTGEVVSGPA   80 (98)
T ss_pred             CEEeeeccccCCCceEEEEECCeEEEEEEeCCCEEEEEcCcCCCCCccCCcCccCCCEEEeCCCCCEEeCCCccCcCCCC
Confidence            8899999999999999999999999999998899999999999999999999888899999999999997 999999997


Q ss_pred             ccccccccccCCeeeec-CeE
Q 013818          198 TQLRNVKIKSLPCFEQE-GMI  217 (436)
Q Consensus       198 ~~~~~~~l~~~pv~e~~-G~I  217 (436)
                          ...|.+||+++.+ +.|
T Consensus        81 ----~~~l~~~~v~~~~~~~~   97 (98)
T cd03467          81 ----PRPLPKYPVKVEGDGVV   97 (98)
T ss_pred             ----CCCcCEEEEEEeCCceE
Confidence                3589999999884 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.

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

Probab=99.84  E-value=7.7e-21  Score=159.83  Aligned_cols=101  Identities=23%  Similarity=0.436  Sum_probs=90.2

Q ss_pred             CceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCC-eEeCcCCCceee-cCCCccc
Q 013818          117 NFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEG-RIQCPYHGWEYS-TDGKCEK  194 (436)
Q Consensus       117 ~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~-~l~CpyHgw~f~-~~G~~~~  194 (436)
                      ..|+.+|..++|+++..+.+.+.+..+++++..+|+++|+.|+|||.|++|+.|.+.+. .++||+|+|.|| .||+|+.
T Consensus         3 ~~w~~~c~~~dl~~~~~~~v~~~~~~~~~~~~~~g~v~A~~n~CpH~~~~l~~g~v~~~~~i~Cp~H~a~Fdl~tG~~~~   82 (106)
T COG2146           3 MNWIRICKVDDLPEGGGVRVLVGGGRFALVVRADGEVFAIDNRCPHAGAPLSRGLVEGDETVVCPLHGARFDLRTGECLE   82 (106)
T ss_pred             CceEEEEehHhcCCCCceEEEecCCEEEEEEecCCEEEEEeCcCCCCCCcccccEeCCCCEEECCccCCEEEcCCCceec
Confidence            46999999999999888888884436777777899999999999999999999999876 599999999999 5999999


Q ss_pred             cCCccccccccccCCeeeecCeEEEcC
Q 013818          195 MPSTQLRNVKIKSLPCFEQEGMIWIWP  221 (436)
Q Consensus       195 ~P~~~~~~~~l~~~pv~e~~G~I~v~~  221 (436)
                      .|+..    .|++||+++.+|.|||.+
T Consensus        83 ~p~~~----~l~~y~vrve~g~v~v~~  105 (106)
T COG2146          83 PPAGK----TLKTYPVRVEGGRVFVDL  105 (106)
T ss_pred             CCCCC----ceeEEeEEEECCEEEEec
Confidence            99864    299999999999999976

>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=99.84  E-value=5.3e-21  Score=156.55  Aligned_cols=88  Identities=24%  Similarity=0.393  Sum_probs=79.6

Q ss_pred             eeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCCcccc
Q 013818          122 VAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLR  201 (436)
Q Consensus       122 v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~  201 (436)
                      ++.++||++|+...+.+.|++++|+|+.+|+++|+.|+|||+|++|+.|.. ++.|.||||||+||.||+|+..|+.   
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 ITDIEDLAPGEGGVVNIGGKRLAVYRDEDGVLHTVSATCTHLGCIVHWNDA-EKSWDCPCHGSRFSYDGEVIEGPAV---   77 (91)
T ss_pred             ccchhhcCCCCeEEEEECCEEEEEEECCCCCEEEEcCcCCCCCCCCcccCC-CCEEECCCCCCEECCCCcEeeCCCC---
Confidence            467899999999999999999999999999999999999999999999875 4799999999999999999999974   


Q ss_pred             ccccccCCeeeec
Q 013818          202 NVKIKSLPCFEQE  214 (436)
Q Consensus       202 ~~~l~~~pv~e~~  214 (436)
                       ..|.+|++...+
T Consensus        78 -~~l~~y~v~~~~   89 (91)
T cd03477          78 -SGLKPADDAPID   89 (91)
T ss_pred             -CCCCeeEeeccc
Confidence             378899987543

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=99.79  E-value=3.2e-19  Score=154.50  Aligned_cols=96  Identities=21%  Similarity=0.323  Sum_probs=85.8

Q ss_pred             EEeeeCCCCCCCCeEEEEEcC--eeEEEEEcC---------CCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec
Q 013818          120 FPVAFSTDLKDDTMVPFDCFE--EPWVIFRGK---------DGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST  188 (436)
Q Consensus       120 ~~v~~~~~l~~g~~~~~~~~g--~~vvv~R~~---------dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~  188 (436)
                      +.+|..++|++|+.+.+.+.+  .+++|+|..         +|+++|++|+|||+||+|+++. +++.|.||+|||+||.
T Consensus         4 ~~v~~~~~l~~g~~~~~~~~~~~~~i~v~r~~~~~~~~~~~~g~~~A~~~~CpH~g~~L~~g~-~~~~v~CP~Hg~~Fdl   82 (126)
T cd03476           4 VKVANLSQLSPGQPVTFNYPDESSPCVLVKLGVPVPGGVGPDNDIVAFSALCTHMGCPLTYDP-SNKTFVCPCHFSQFDP   82 (126)
T ss_pred             eEEeeHHHCCCCCeEEEEcCCCCCcEEEEECCccccCccccCCEEEEEeCcCCCCCccccccc-cCCEEEccCcCCEEeC
Confidence            367899999999999999887  899999974         7999999999999999999987 6789999999999996


Q ss_pred             --CCCccccCCccccccccccCCeeee--cCeEEEc
Q 013818          189 --DGKCEKMPSTQLRNVKIKSLPCFEQ--EGMIWIW  220 (436)
Q Consensus       189 --~G~~~~~P~~~~~~~~l~~~pv~e~--~G~I~v~  220 (436)
                        +|.|+..|+.    ..|+.||+++.  +|.|||.
T Consensus        83 ~tgG~~~~gPa~----~~L~~ypv~ve~~~g~V~~~  114 (126)
T cd03476          83 ARGGQMVSGQAT----QNLPQIVLEYDEASGDIYAV  114 (126)
T ss_pred             CCCCeEEcCCCC----CCCCeEEEEEECCCCEEEEE
Confidence              5799988863    48999999999  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=99.76  E-value=6.4e-18  Score=155.23  Aligned_cols=171  Identities=21%  Similarity=0.214  Sum_probs=111.3

Q ss_pred             EEEeecCchhhhhccCCCCCCCCCCcccccCCCCC---CceeeeecCCCCC-----------C--ccccC--CCccceec
Q 013818          246 VMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSV---PSLVKFLTPASGL-----------Q--GYWDP--YPIDMEFR  307 (436)
Q Consensus       246 ~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~---p~~~~~~~~~~~~-----------~--~~~~~--~~~~~~f~  307 (436)
                      .++++|||++++||++|++|++|||.++++.....   +...++.....+.           .  ++-+.  ......|.
T Consensus         5 ~~~~~~n~~~~~EN~~D~~H~~fvH~~~~g~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (196)
T cd08878           5 YRHIDCNWLQVVENLMDPSHVSFVHRSSIGRDAADLPSGPPKEVEEVPRGVTYRRWREDEDPPPFGFEGPVDRWRVIEFL   84 (196)
T ss_pred             cEEecCCcEEEehhCccccchhhhChhhhCccccccccCCCceEEEeCCEEEEEEEecCCCCCCCCCCCCccEEEEEEEE
Confidence            46789999999999999999999999999864321   1111111000000           0  00000  01224678


Q ss_pred             CCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhc--cCcchHHHHHHHHHHHHHhhH
Q 013818          308 PPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVL--KHVPFMQYLWRHFAEQVLNED  385 (436)
Q Consensus       308 ~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~--~~~p~~~~~~~~~~~~v~~ED  385 (436)
                      +|++.........+|.      ......+..++.++|+++++|++++.+++++....  ...+.+...+..+...|+.||
T Consensus        85 ~P~~~~~~~~~~~~~~------~~~~~~~~~~~~~tPid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~eD  158 (196)
T cd08878          85 LPNVLLIDPGVAPAGT------REQGVRMRVTHWITPIDETTTHYFWFFVRNFAPDEEKKDDEELTETLRSGLSGAFNED  158 (196)
T ss_pred             CCEEEEEecccccCCc------CCCcceEEEEEEEccCCCCeEEEEEEeccCCCCCccccCCHHHHHHHHHHhhhhchhH
Confidence            8987765544333322      11123456678899999999999998887765421  112233444455778999999


Q ss_pred             HHHHHHHHhhccCCCCCCCccccCCHHHHHHHHHHHHH
Q 013818          386 LRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDAL  423 (436)
Q Consensus       386 ~~ile~qq~~l~~g~~~~~l~~~aD~~~v~~Rrwl~~l  423 (436)
                      +.|+|+||+++... ...+....+|+++++||||++++
T Consensus       159 ~~i~e~q~~~~~~~-~~~~~l~~~D~~~~~~Rr~l~~~  195 (196)
T cd08878         159 KEAVEAQQRIIDRD-PTREHLGLSDKGIVRFRRLLRRL  195 (196)
T ss_pred             HHHHHHHHHHHhcC-CcccccccccHHHHHHHHHHHHh
Confidence            99999999998764 22345667999999999999875

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=99.76  E-value=3.1e-18  Score=147.41  Aligned_cols=91  Identities=18%  Similarity=0.355  Sum_probs=74.7

Q ss_pred             CCCCeEEEE-EcCeeEEEEEcCCCcE--EEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCCcccccccc
Q 013818          129 KDDTMVPFD-CFEEPWVIFRGKDGIP--GCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKI  205 (436)
Q Consensus       129 ~~g~~~~~~-~~g~~vvv~R~~dG~~--~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l  205 (436)
                      .+|++..+. ..+.+.++.+..+|++  +|++|+|||+||+|+.+.. ++.|+||||||+||.+|+++..|..    ..|
T Consensus        21 ~~~~~~~~~~~~~~~~Ilv~~~dg~i~~~A~~~~CpH~G~~l~~~~~-~~~i~CP~Hg~~Fd~tG~~~~gPa~----~~L   95 (126)
T cd03471          21 NPGDRSLVQGLKGDPTYLIVEEDKTIANYGINAVCTHLGCVVPWNAA-ENKFKCPCHGSQYDATGKVVRGPAP----LSL   95 (126)
T ss_pred             CCCCeEEEEEecCCeEEEEEeCCCeEEEEEecCCCcCCCCCcCccCC-CCEEEcCCCCCEECCCCCEecCCCC----CCC
Confidence            467777766 4455555555579977  8999999999999998765 4799999999999999999988863    489


Q ss_pred             ccCCeeeecCeEEEcCCCC
Q 013818          206 KSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       206 ~~~pv~e~~G~I~v~~~~~  224 (436)
                      ..|+|++.+|.|||.+..+
T Consensus        96 ~~y~V~vedg~I~V~~~~~  114 (126)
T cd03471          96 ALVHATVDDDKVVLSPWTE  114 (126)
T ss_pred             ceEeEEEECCEEEEEECcc
Confidence            9999999999999975443

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.

>TIGR02694 arsenite_ox_S arsenite oxidase, small subunit

Probab=99.71  E-value=2.8e-17  Score=142.70  Aligned_cols=94  Identities=21%  Similarity=0.355  Sum_probs=81.9

Q ss_pred             EeeeCCCCCCCCeEEEEEcC--eeEEEEEc---------CCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecC
Q 013818          121 PVAFSTDLKDDTMVPFDCFE--EPWVIFRG---------KDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTD  189 (436)
Q Consensus       121 ~v~~~~~l~~g~~~~~~~~g--~~vvv~R~---------~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~  189 (436)
                      .+|..+||++|+++.+.+.+  .+++++|.         .+|+++|++|+|||.|++|+++. ++..|.||+|||+||.+
T Consensus         8 ~v~~~~dl~~g~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~G~~~A~~~~CpH~g~~L~~~~-~~~~i~CP~Hga~Fdl~   86 (129)
T TIGR02694         8 RVANISELKLNEPLDFNYPDASSPGVLLKLGTPVEGGVGPDGDIVAFSTLCTHMGCPVSYSA-DNKTFNCPCHFSVFDPE   86 (129)
T ss_pred             EEEeHHHCCCCCCEEEecCCCCCCEEEEecCCcccCccccCCEEEEEeCcCCCCCccccccc-CCCEEEcCCCCCEECCC
Confidence            68999999999999999865  47888884         59999999999999999999876 66899999999999964


Q ss_pred             --CCccccCCccccccccccCCeeee-cCeEEE
Q 013818          190 --GKCEKMPSTQLRNVKIKSLPCFEQ-EGMIWI  219 (436)
Q Consensus       190 --G~~~~~P~~~~~~~~l~~~pv~e~-~G~I~v  219 (436)
                        |+|+..|..    .+|++||+++. +|.||.
T Consensus        87 tgG~~~~gP~~----~~L~~y~v~v~~~G~V~~  115 (129)
T TIGR02694        87 KGGQQVWGQAT----QNLPQIVLRVADNGDIFA  115 (129)
T ss_pred             CCCcEECCCCC----CCCCeeEEEEECCCeEEE
Confidence              699988863    48999999996 589994

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=99.70  E-value=6.9e-17  Score=139.89  Aligned_cols=92  Identities=21%  Similarity=0.324  Sum_probs=81.5

Q ss_pred             eCCCCCCCCeEEEEEcCeeEEEEEcC----------------------------CCcEEEEecCCCCCCCCCCCCcccCC
Q 013818          124 FSTDLKDDTMVPFDCFEEPWVIFRGK----------------------------DGIPGCVQNTCAHRACPLHLGSVNEG  175 (436)
Q Consensus       124 ~~~~l~~g~~~~~~~~g~~vvv~R~~----------------------------dG~~~a~~n~CpHrg~~L~~g~~~~~  175 (436)
                      ..++|++|+.+.+.+.|++|+|+|..                            +|+++|+.++|||.||.+.++.+.++
T Consensus         5 dl~~l~~G~~~~v~w~Gkpv~I~~rt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~CtH~gc~~~~~~~~~~   84 (126)
T cd03470           5 DLSKIEEGQLITVEWRGKPVFIRRRTPEEIAEAKAVDLSLLDDPDPAANRVRSGKPEWLVVIGICTHLGCVPTYRAGDYG   84 (126)
T ss_pred             EhhhCCCCCEEEEEECCeEEEEEECCHHHHhhhhhcchhhcCCccccccccccCCCcEEEEeCcCCCCCCeeccccCCCC
Confidence            46889999999999999999999953                            67999999999999999998876778


Q ss_pred             eEeCcCCCceeecCCCccccCCccccccccccCCeeeec-CeEEE
Q 013818          176 RIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQE-GMIWI  219 (436)
Q Consensus       176 ~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e~~-G~I~v  219 (436)
                      .|.||||||+||.+|+.+.+|+.    ..|+.||++..+ +.|+|
T Consensus        85 ~~~CPcHgs~Fdl~G~~~~gPa~----~~L~~~p~~~~~~~~l~i  125 (126)
T cd03470          85 GFFCPCHGSHYDASGRIRKGPAP----LNLEVPPYKFLSDTTIVI  125 (126)
T ss_pred             EEEecCcCCEECCCCeEecCCCC----CCCCeeeEEEecCCEEEe
Confidence            99999999999999999998874    589999998766 67765

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.

>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=99.68  E-value=8.8e-17  Score=133.50  Aligned_cols=73  Identities=15%  Similarity=0.344  Sum_probs=66.4

Q ss_pred             CCCCCCCCeEEEEE-cCeeEEEEEcCCCcEEEEecCCCCCCCCCCCC--cccCCeEeCcCCCceee-cCCCccccCCc
Q 013818          125 STDLKDDTMVPFDC-FEEPWVIFRGKDGIPGCVQNTCAHRACPLHLG--SVNEGRIQCPYHGWEYS-TDGKCEKMPST  198 (436)
Q Consensus       125 ~~~l~~g~~~~~~~-~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g--~~~~~~l~CpyHgw~f~-~~G~~~~~P~~  198 (436)
                      ..+|++|..+.+.+ .|.+|+|++. +|+++|++|+|||.|++|+.|  .++++.|+||+|||+|| .+|+++..|..
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~~   90 (107)
T cd03473          14 VANLKEGINFFRNKEDGKKYIIYKS-KSELKACKNQCKHQGGLFIKDIEDLDGRTVRCTKHNWKLDVSTMKYVNPPDS   90 (107)
T ss_pred             HhcCCCCceEEEEecCCcEEEEEEE-CCEEEEEcCCCCCCCccccCCcceEeCCEEEeCCCCCEEEcCCCCCccCCcc
Confidence            47899999999999 9999999995 999999999999999999994  58888999999999999 59999987753

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.

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

Probab=99.64  E-value=3.4e-15  Score=136.14  Aligned_cols=161  Identities=20%  Similarity=0.198  Sum_probs=98.5

Q ss_pred             EEEEeecCchhhhhccCCCCCCCCCCcccccCCC-----CCCceeeeecC----CCCCCcccc-------------CCCc
Q 013818          245 IVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGW-----SVPSLVKFLTP----ASGLQGYWD-------------PYPI  302 (436)
Q Consensus       245 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~-----~~p~~~~~~~~----~~~~~~~~~-------------~~~~  302 (436)
                      ..++++||||+++||++|+||++++|+.+++...     ..+.. ....+    .......|.             ....
T Consensus         3 ~~~~~~~NWK~~~En~~E~YH~~~~H~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (188)
T cd00680           3 YEYEVDCNWKLAVENFLECYHVPTVHPDTLATGLPLPLLFGDHY-RVDDTGEGPGEGLSRHWGDGKGPQSALPGLKPGGY   81 (188)
T ss_pred             eEEEeccCceEehhhccccccccccChhhhccccccCcccCCce-EEEeccCCCCChhhcccchhhhcccccccccccCe
Confidence            3578999999999999999999999999987421     11111 11110    000000010             0011


Q ss_pred             cceecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhh-ccCcchHHHHHHHHHHHH
Q 013818          303 DMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASV-LKHVPFMQYLWRHFAEQV  381 (436)
Q Consensus       303 ~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~-~~~~p~~~~~~~~~~~~v  381 (436)
                      ...+.+||+++...                 .....++.++|+++++|++.+.++...... .+........+..+...|
T Consensus        82 ~~~~~fPn~~~~~~-----------------~~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v  144 (188)
T cd00680          82 LYLYLFPNLMIGLY-----------------PDSLQVQQFVPIGPNKTRLEVRLYRPKDEDAREEFDAELESLAGILRQV  144 (188)
T ss_pred             EEEEECCcEeeeec-----------------CCEEEEEEEEecCCCcEEEEEEEEEecccccchhhHHHHHHhHHHHHHH
Confidence            24456787765432                 123456778999999999999887653321 111111111122356889


Q ss_pred             HhhHHHHHHHHHhhccCCCCCCCccccCCHHHHHHHHHHHHH
Q 013818          382 LNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDAL  423 (436)
Q Consensus       382 ~~ED~~ile~qq~~l~~g~~~~~l~~~aD~~~v~~Rrwl~~l  423 (436)
                      +.||+.++|+||+++.++.............+..|.+|+++.
T Consensus       145 ~~ED~~~~e~~Q~gl~s~~~~~~~l~~~E~~i~~f~~~~~~~  186 (188)
T cd00680         145 LDEDIELCERIQRGLRSGAFRGGPLSPLEEGIRHFHRWLRRA  186 (188)
T ss_pred             HHHHHHHHHHHhccccCCcCCCCCCCcccccHHHHHHHHHHh
Confidence            999999999999999987543322223456888888887754

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=99.60  E-value=3.5e-15  Score=136.80  Aligned_cols=88  Identities=19%  Similarity=0.377  Sum_probs=74.6

Q ss_pred             CCCCeEEEE-EcCeeEEEEEcCCCcE--EEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCCcccccccc
Q 013818          129 KDDTMVPFD-CFEEPWVIFRGKDGIP--GCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKI  205 (436)
Q Consensus       129 ~~g~~~~~~-~~g~~vvv~R~~dG~~--~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l  205 (436)
                      ++|+...+. +.|.+.++++..+|++  +|++++|||.||+|.++..+ +.+.||||||+||.+|.++..|..    ..|
T Consensus        73 ~~g~~~~v~~~~g~~~~lv~~~~g~~~~~a~~~~CtH~gc~l~~~~~~-~~~~CP~Hgs~Fd~tG~~~~gPa~----~~L  147 (178)
T PRK13474         73 PAGDRSLVQGLKGDPTYLVVEEDGTIASYGINAVCTHLGCVVPWNSGE-NKFQCPCHGSQYDATGKVVRGPAP----LSL  147 (178)
T ss_pred             CCCCcEEEEEcCCCeEEEEEeCCCEEEEEEecCCCCCCCCccccccCC-CEEEecCcCCEECCCCCCccCCCC----CCC
Confidence            667777776 6777745555569999  67799999999999998754 699999999999999999998874    489


Q ss_pred             ccCCeeeecCeEEEcC
Q 013818          206 KSLPCFEQEGMIWIWP  221 (436)
Q Consensus       206 ~~~pv~e~~G~I~v~~  221 (436)
                      +.|++++.+|.|+|.+
T Consensus       148 ~~y~v~v~~g~v~v~~  163 (178)
T PRK13474        148 ALVHVTVEDDKVLFSP  163 (178)
T ss_pred             CeEeEEEECCEEEEEE
Confidence            9999999999999965

>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=99.56  E-value=1e-13  Score=128.29  Aligned_cols=163  Identities=12%  Similarity=0.069  Sum_probs=96.3

Q ss_pred             EEEEEeecCchhhhhccCCCCCCCCCCcccccCCCCC----------CceeeeecCCC---CCCccccC---------CC
Q 013818          244 EIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSV----------PSLVKFLTPAS---GLQGYWDP---------YP  301 (436)
Q Consensus       244 ~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~----------p~~~~~~~~~~---~~~~~~~~---------~~  301 (436)
                      ...++++||||+++||++|+||++++|++|++.....          +.......+..   .......+         ..
T Consensus         3 ~~~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (190)
T cd08885           3 REEEVWDTNWKVLAENFMEGYHLPGLHPGTLHPFMPAELSYFRPEDGRGFTRHKGTKHFNETIEPAHPPNPGLTEEWRRR   82 (190)
T ss_pred             eeeeeccCCchhhHhhcCccccccccccchhhccCchhhcccccCCCcceeeeecccccccCccccCCCCCCCChhhhcc
Confidence            3467899999999999999999999999988642110          00000001100   00000000         00


Q ss_pred             ccceecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhc-cCcchHHHHHHHHHHH
Q 013818          302 IDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVL-KHVPFMQYLWRHFAEQ  380 (436)
Q Consensus       302 ~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~-~~~p~~~~~~~~~~~~  380 (436)
                      ....+.+||+++...    +             ....++.+.|+++++|++.+.++..-.... .........+..+...
T Consensus        83 ~~~~~iFPN~~i~~~----~-------------~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (190)
T cd08885          83 LVLFAIFPTHLLALT----P-------------DYVWWLSLLPEGAGRVRVRWGVLVAPEAADDPEAAEYIAELKALLDA  145 (190)
T ss_pred             eEEEEECCcEEEEec----C-------------CeEEEEEEEecCCCeEEEEEEEEEcchhcccchhHHHHHHHHHHHHH
Confidence            112346787766432    1             123455678999999999887654321110 0111112223335678


Q ss_pred             HHhhHHHHHHHHHhhccCCCCCCCccccCCHHHHHHHHHHHHH
Q 013818          381 VLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDAL  423 (436)
Q Consensus       381 v~~ED~~ile~qq~~l~~g~~~~~l~~~aD~~~v~~Rrwl~~l  423 (436)
                      |+.||..++|.+|+++.++..........+.++..|.+|+++.
T Consensus       146 v~~ED~~~~e~~Q~Gl~S~~~~~g~l~~~E~~i~~fh~~l~~~  188 (190)
T cd08885         146 INDEDRLVVEGVQRGLGSRFAVPGRLSHLERPIWQFQRYLASR  188 (190)
T ss_pred             HHHHHHHHHHHhcccccCCCCCCCCCCcccccHHHHHHHHHHH
Confidence            9999999999999999986543222224577888899997753

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=99.50  E-value=2.7e-13  Score=124.56  Aligned_cols=161  Identities=18%  Similarity=0.199  Sum_probs=96.5

Q ss_pred             EEEEeecCchhhhhccCCCCCCCCCCcccccCCCCCCc-eeeeecCCC-------C-------CCccccCC-Cc-cceec
Q 013818          245 IVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPS-LVKFLTPAS-------G-------LQGYWDPY-PI-DMEFR  307 (436)
Q Consensus       245 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~p~-~~~~~~~~~-------~-------~~~~~~~~-~~-~~~f~  307 (436)
                      ..++++||||+++||++|+||++++|++|++....... ..+...+..       .       ...-|... .. ...+.
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            46789999999999999999999999999864211010 001100000       0       00001000 00 12345


Q ss_pred             CCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCc-chHHHHHHHHH-HHHHhhH
Q 013818          308 PPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHV-PFMQYLWRHFA-EQVLNED  385 (436)
Q Consensus       308 ~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~-p~~~~~~~~~~-~~v~~ED  385 (436)
                      +||+++...                 .....+..+.|.++++|.+.+.++.......... ......+ .+. ..|..||
T Consensus        84 FPN~~i~~~-----------------~~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~v~~ED  145 (185)
T cd08887          84 FPNVSLLVQ-----------------PDHLEIIQIEPGSPDRTRVTVYLLIPPPPDTEEARAYWDKNW-DFLMAVVLDED  145 (185)
T ss_pred             CCceEEEec-----------------CCeEEEEEEEcCCCCceEEEEEEEecCCCCcHHHHHHHHHHH-HHHHhhhHHHH
Confidence            777765432                 1123456679999999999887764322111111 1111222 233 6899999


Q ss_pred             HHHHHHHHhhccCCCCCCCccccCCHHHHHHHHHHHHH
Q 013818          386 LRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDAL  423 (436)
Q Consensus       386 ~~ile~qq~~l~~g~~~~~l~~~aD~~~v~~Rrwl~~l  423 (436)
                      ..++|.+|+++.++...+......+..+..|.+|+++.
T Consensus       146 ~~~~e~~Q~Gl~s~~~~~~~l~~~E~~i~~fh~~~~~~  183 (185)
T cd08887         146 FEVAEEIQRGLASGANDHLTFGRNESALQHFHRWLERA  183 (185)
T ss_pred             HHHHHHHhhhhhcCCCCceEeecCCHHHHHHHHHHHHH
Confidence            99999999999987654433345677888999998754

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

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

Probab=99.49  E-value=1.2e-13  Score=126.25  Aligned_cols=93  Identities=20%  Similarity=0.265  Sum_probs=78.6

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcC----------------------------------CCcEEEEecCCCCC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGK----------------------------------DGIPGCVQNTCAHR  163 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~----------------------------------dG~~~a~~n~CpHr  163 (436)
                      .|+.| ..++|++|+.+.+.+.|.+++|+|..                                  +++++|++++|||.
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            36677 78999999999999999999999851                                  48999999999999


Q ss_pred             CCCCCC-Cccc-CCeEeCcCCCceeecCCCccccCCccccccccccCCeeeecC
Q 013818          164 ACPLHL-GSVN-EGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEG  215 (436)
Q Consensus       164 g~~L~~-g~~~-~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e~~G  215 (436)
                      ||.+.+ +... .+.|.|||||++||.+|+.+..|+.    ..|..||++..++
T Consensus       119 Gc~~~~~~~~~~~~~~~CPcHgs~Fd~~G~~~~gpa~----~~L~~~~~~~~~~  168 (174)
T TIGR01416       119 GCIPTYGPEEGDKGGFFCPCHGSHYDTAGRVRKGPAP----LNLPVPPYKFLSD  168 (174)
T ss_pred             CCccccccCCCCCCEEEeCCCCCEECCCCcEecCCCC----CCCCCCCEEEcCC
Confidence            998765 3332 4689999999999999999998874    4899999986554

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.

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

Probab=99.49  E-value=5.8e-13  Score=121.94  Aligned_cols=160  Identities=15%  Similarity=0.166  Sum_probs=95.8

Q ss_pred             EEEEEeecCchhhhhccCCCCCCCCCCcccccCCCCCCceee-------eecCCCC-CCccccCCC--ccceecCCeeEE
Q 013818          244 EIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVK-------FLTPASG-LQGYWDPYP--IDMEFRPPCMVL  313 (436)
Q Consensus       244 ~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~p~~~~-------~~~~~~~-~~~~~~~~~--~~~~f~~P~~~~  313 (436)
                      ...+++++|||+++||++|+||++++|++|++..........       ...+... ....+....  ....+.+||+++
T Consensus         3 ~~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN~~i   82 (175)
T cd08883           3 RREYVIECNWKVYVDNYLEGYHVPFAHPGLAAVLDYATYRTELFEYVSLQSAPARAEEGSFFYRLGNAALYAWIYPNLML   82 (175)
T ss_pred             cEEeeeecCceEEehhcCCcccCcccchhHHhhcccCceEEEEcCcEEEEEecccCCCCccccccCcCeEEEEECCCEee
Confidence            346788999999999999999999999998854211000000       0001000 011111111  113456888876


Q ss_pred             EEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHHHHHHHHHHHhhHHHHHHHHH
Q 013818          314 STIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQ  393 (436)
Q Consensus       314 ~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~~~~~~~~v~~ED~~ile~qq  393 (436)
                      ...    |            . ...++.+.|+++++|++.+.++..... ..........+ . .+.|+.||..|+|.+|
T Consensus        83 ~~~----~------------~-~~~~~~~~P~~p~~t~~~~~~~~~~~~-~~~~~~~~~~~-~-~~~v~~ED~~i~e~vQ  142 (175)
T cd08883          83 NRY----P------------P-GMDVNVVLPLGPERCKVVFDYFVDDSD-GSDEAFIAESI-E-SDRVQKEDIEICESVQ  142 (175)
T ss_pred             eec----C------------C-eEEEEEEEeCCCCcEEEEEEEEEeccc-cchhHHHHHHH-H-HHHHHHHHHHHHHHHh
Confidence            532    1            1 233455789999999998877643221 01111112222 2 5789999999999999


Q ss_pred             hhccCCCCC-CCccccCCHHHHHHHHHHHHH
Q 013818          394 ERMNNGANV-WNLPVGYDKLGVRYRLWRDAL  423 (436)
Q Consensus       394 ~~l~~g~~~-~~l~~~aD~~~v~~Rrwl~~l  423 (436)
                      ++|.++... ..+....+.++..|.+|+++.
T Consensus       143 ~Gl~S~~~~~G~l~~~~E~~v~~Fh~~l~~~  173 (175)
T cd08883         143 RGLESGAYDPGRFSPKRENGVHHFHRLLAQA  173 (175)
T ss_pred             hhhcCCCCCCCCCCCccchHHHHHHHHHHHh
Confidence            999987532 222223367788899997754

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-

>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=99.45  E-value=1.9e-12  Score=121.68  Aligned_cols=167  Identities=13%  Similarity=0.026  Sum_probs=97.8

Q ss_pred             CcEEeEEEEEEeecCchhhhhccCCCCCCCCCCcccccC-----CCCCCc-------eeee----------ecCCCC---
Q 013818          238 GFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAK-----GWSVPS-------LVKF----------LTPASG---  292 (436)
Q Consensus       238 ~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~-----~~~~p~-------~~~~----------~~~~~~---  292 (436)
                      .++......++++||||+++||++|+||++++|+++...     ....+.       ....          ......   
T Consensus         7 ~~~~~~~~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (205)
T cd08884           7 NLKVAHRISYEVAANWKLVVENYRECYHCAGVHPELARSLSEFDDGGNPDPEAGGADFRGRRGPLRGGAESFTMDGKAVA   86 (205)
T ss_pred             hcEEccceEEEEccCceehhHhCcccccCccccHHHHhhcccccccccccccccccceeeecccccCCceeecCCCCccc
Confidence            455556678899999999999999999999999976531     000000       0000          000000   


Q ss_pred             --CCccccCC--CccceecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcc
Q 013818          293 --LQGYWDPY--PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVP  368 (436)
Q Consensus       293 --~~~~~~~~--~~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p  368 (436)
                        +.+.....  .....+.+||+++...                 .....++.+.|+++++|++.+.++......... .
T Consensus        87 p~~~~~~~~~~~~~~~~~lfPN~~~~~~-----------------~d~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~-~  148 (205)
T cd08884          87 PPLPGLTEADDRGALYYTLYPNSFLHLH-----------------PDHVVTFRVLPLSPDETLVRCKWLVHPDAVEGV-D  148 (205)
T ss_pred             CCCCCCCccccCceEEEEeCCcEEEEEc-----------------CCEEEEEEEEeCCCCceEEEEEEEECCchhccc-c
Confidence              00000000  1123345777765432                 123446667999999999988776532221111 1


Q ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHhhccCCCCCCCccccCCHHHHHHHHHHHH
Q 013818          369 FMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLWRDA  422 (436)
Q Consensus       369 ~~~~~~~~~~~~v~~ED~~ile~qq~~l~~g~~~~~l~~~aD~~~v~~Rrwl~~  422 (436)
                      +.......+.+.|..||..|+|.+|+++.++..........+.++..|.+|+.+
T Consensus       149 ~~~~~~~~~~~~v~~ED~~i~e~vQ~Gl~S~~~~~g~l~~~E~~v~~F~~~~~~  202 (205)
T cd08884         149 YDLDDLVEVWDATNRQDWAICERNQRGVNSPAYRPGPYSPMEGGVLAFDRWYLE  202 (205)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHhcccccCCCcCCCCcCCccHHHHHHHHHHHH
Confidence            111222346689999999999999999998654321222346777788888764

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

>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=99.44  E-value=9.8e-13  Score=121.35  Aligned_cols=160  Identities=14%  Similarity=0.019  Sum_probs=94.3

Q ss_pred             EEEEEeecCchhhhhccCCCCCCCCCCcccccCCCCCCceeeeec-----------CCCCCCccccCCCccceecCCeeE
Q 013818          244 EIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPSLVKFLT-----------PASGLQGYWDPYPIDMEFRPPCMV  312 (436)
Q Consensus       244 ~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~p~~~~~~~-----------~~~~~~~~~~~~~~~~~f~~P~~~  312 (436)
                      ...++++||||+++||++|+||++++|+.+++.............           +................+.+||++
T Consensus         3 ~~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN~~   82 (182)
T cd08886           3 RLTSEIKANWKNVVDNYLECYHCHTAHPDFVDSLDMDTYKHTTHGNYSSQMANYGSAENSEYSVKPDADFAFYWLWPNTM   82 (182)
T ss_pred             eEEEEeecccEEEEecCCccccCcccChhHHhcccccccEEEecCcEEEEEeccccccccccccccCcceeEEEEeCCEE
Confidence            356789999999999999999999999998854211111011000           000000000001112345678877


Q ss_pred             EEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHHHHHHHHHHH-hhHHHHHHH
Q 013818          313 LSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVL-NEDLRLVLG  391 (436)
Q Consensus       313 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~~~~~~~~v~-~ED~~ile~  391 (436)
                      ++..    |+           .....++.+.|+++++|++.+.++..-  ......  ......+...|+ .||..++|+
T Consensus        83 i~~~----~~-----------~~~~~~~~~~P~~p~~t~~~~~~~~~~--~~~~~~--~~~~~~~~~~v~~~ED~~l~e~  143 (182)
T cd08886          83 LNVY----PG-----------AGNMGVINIIPVDAETTLQHYDFYFRD--EELTDE--EKELIEYYRQVLQPEDLELVES  143 (182)
T ss_pred             EEee----CC-----------CCeEEEEEEEeCCCCeEEEEEEEEecC--CCccHH--HHHHHHHHHHhcchhhHHHHHH
Confidence            6542    11           012345668999999999987765321  111111  111224567787 999999999


Q ss_pred             HHhhccCCCCCC-Ccc------ccCCHHHHHHHHHHHH
Q 013818          392 QQERMNNGANVW-NLP------VGYDKLGVRYRLWRDA  422 (436)
Q Consensus       392 qq~~l~~g~~~~-~l~------~~aD~~~v~~Rrwl~~  422 (436)
                      +|+++.++.... .+.      ...+.++..|.+|+++
T Consensus       144 vQ~Gl~S~~~~~g~l~~~~~~~~~~E~~v~~fh~~l~~  181 (182)
T cd08886         144 VQRGLKSRAFGQGRIVVDPSGSGISEHAVHHFHGLVLE  181 (182)
T ss_pred             HhcccccCCCCCceeccCcccCCccchhHHHHHHHHhc
Confidence            999999865322 122      1346788888898764

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

>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=99.29  E-value=3.9e-12  Score=117.43  Aligned_cols=159  Identities=16%  Similarity=0.145  Sum_probs=95.0

Q ss_pred             EEEeecCchhhhhccCCCCCCCCCCcccccCCCCCCc------eeeeecCCCCCC-------------cccc--------
Q 013818          246 VMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPS------LVKFLTPASGLQ-------------GYWD--------  298 (436)
Q Consensus       246 ~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~p~------~~~~~~~~~~~~-------------~~~~--------  298 (436)
                      .++++||||+++||++|+||++++|+++++.......      ......+.....             ....        
T Consensus        11 ~~~~~~NWK~~~EN~~e~YH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (209)
T PF00848_consen   11 RYEVDCNWKLAVENFLEGYHVPFLHPSTLGFFDPSNDEQAEIASVEFFGGHGSVWAGRMREEPQPEPSERRAWKGRPFPP   90 (209)
T ss_dssp             HHHESS-HHHHHHHHHHCTTHHHHTHHHHHHHSCTTGGHHEEEEEEEESSTCEEETHHHHHHHHHHHHHHHHSHHHHHHH
T ss_pred             EEEecccceEHHHhCcccccccccccchhhhhhccccccccccccccccccccccccccccccccccchhhhhhhhhccc
Confidence            4568999999999999999999999988653211111      111111111000             0000        


Q ss_pred             ------CCCccceecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHH
Q 013818          299 ------PYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQY  372 (436)
Q Consensus       299 ------~~~~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~  372 (436)
                            .......+.+||+++...    ++            + ..++.+.|+++++|.+.+..+......  ..+.+.+
T Consensus        91 ~~~~~~~~~~~~~~iFPn~~i~~~----~~------------~-~~~~~~~P~~p~~t~~~~~~~~~~~~~--~~~~~~~  151 (209)
T PF00848_consen   91 GLPDDQRMGYRNYVIFPNLSIIVY----PD------------H-FTVRTIIPIGPDRTEVWSWWFVPKDEG--APPEFRE  151 (209)
T ss_dssp             HHHHHHHTSEEEEEETTTEEEEE-----TT------------T-TEEEEEEEESTTEEEEEEEEEEETT----STHHHHH
T ss_pred             cccccccccccceeeCCCEEEEec----cc------------c-cEEEEEEECCCCeEEEEEEEEEeCCcc--cchhhHH
Confidence                  001123466888876532    11            1 125677999999999998776543211  2222233


Q ss_pred             HHHHHHHH---HHhhHHHHHHHHHhhccCCCC-CCCccccCCHHHHHHHHHHHHH
Q 013818          373 LWRHFAEQ---VLNEDLRLVLGQQERMNNGAN-VWNLPVGYDKLGVRYRLWRDAL  423 (436)
Q Consensus       373 ~~~~~~~~---v~~ED~~ile~qq~~l~~g~~-~~~l~~~aD~~~v~~Rrwl~~l  423 (436)
                      .+......   |+.||..++|++|+++.++.. ...+....|..+..|++|++++
T Consensus       152 ~~~~~~~~~~~~~~ED~~~~e~~Q~gl~s~~~~~~~~~~~~E~~v~~f~~~~~~~  206 (209)
T PF00848_consen  152 ARIRNWDRFFGVFAEDIEIVERQQRGLRSRGFDPGRLSGTSERGVRHFHRWWRRY  206 (209)
T ss_dssp             HHHHHHHHHHSTHHHHHHHHHHHHHHTTSSTSCTSEESSCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHHHHcCCCCCCCCCCCcCCHHHHHHHHHHHHH
Confidence            33222233   899999999999999988543 2223457888999999886654

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 ....

>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=99.28  E-value=1.9e-11  Score=110.23  Aligned_cols=68  Identities=16%  Similarity=0.243  Sum_probs=54.4

Q ss_pred             cCCCcEEEEecCCCCCCCCCCC---------------CcccCCeEeCcCCCceeec-CC-CccccCCccccccccccCCe
Q 013818          148 GKDGIPGCVQNTCAHRACPLHL---------------GSVNEGRIQCPYHGWEYST-DG-KCEKMPSTQLRNVKIKSLPC  210 (436)
Q Consensus       148 ~~dG~~~a~~n~CpHrg~~L~~---------------g~~~~~~l~CpyHgw~f~~-~G-~~~~~P~~~~~~~~l~~~pv  210 (436)
                      +.+|+++|++++|||+||+|..               |...++.|.||||||+||. +| ..+..|+.    ..|..|++
T Consensus        72 Gp~g~IvA~S~iCpHlGc~l~~~~~y~~~~~~~~~~~g~~~~~~i~CPcHgS~FD~~tGg~v~~GPA~----~pLp~~~L  147 (171)
T cd03475          72 GPNKSIVAFSAICQHLGCQPPPIVSYPSYYPPDKAPGLASKGAVIHCCCHGSTYDPYKGGVVLTGPAP----RPLPAVIL  147 (171)
T ss_pred             CCCCEEEEEeCcCCCCCCcccccccccccccccccccccccCCEEEcCCCCCEEeCCCCCeEcCCCCC----CCcCEeEE
Confidence            3589999999999999998763               3445789999999999996 45 56666764    47899998


Q ss_pred             eee--cCeEEE
Q 013818          211 FEQ--EGMIWI  219 (436)
Q Consensus       211 ~e~--~G~I~v  219 (436)
                      +..  .|.||+
T Consensus       148 ~~d~~~d~iyA  158 (171)
T cd03475         148 EYDSSTDDLYA  158 (171)
T ss_pred             EEeCCCCcEEE
Confidence            876  378886

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.

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

Probab=99.03  E-value=3.9e-10  Score=103.67  Aligned_cols=79  Identities=25%  Similarity=0.352  Sum_probs=61.2

Q ss_pred             CeeEEEEEcCCCc-----EEEEecCCCCCCCCCCC-CcccCCeEeCcCCCceeecCCCccccCCccccccccccCCeeee
Q 013818          140 EEPWVIFRGKDGI-----PGCVQNTCAHRACPLHL-GSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQ  213 (436)
Q Consensus       140 g~~vvv~R~~dG~-----~~a~~n~CpHrg~~L~~-g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e~  213 (436)
                      +.+...+++.+|.     +.|++.+|+|.||.+.+ +....+.|.|||||++||.+|+.+..|+.    ..|..+++...
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~a~~~iCtHlGC~~~~~~~~~~~~~~CPCHGS~yd~~g~vv~GPA~----~~L~~~~~~~~  158 (177)
T COG0723          83 GPKGGVTRDGDGGVGNKEIVAYSAICTHLGCTVPWNNAGAEGGFFCPCHGSRYDPDGGVVKGPAP----RPLPIPPLEYD  158 (177)
T ss_pred             cccccceecccCCCCCccEEEEeeeccCCCCccCcccCCCCCeEEccCCCCeEcCCCCeeCCCCC----CCcCCceEEEe
Confidence            4455555555554     44999999999999999 55567999999999999999999999984    47888888766


Q ss_pred             cCeE-EEcCC
Q 013818          214 EGMI-WIWPG  222 (436)
Q Consensus       214 ~G~I-~v~~~  222 (436)
                      .+.+ .+-.+
T Consensus       159 ~d~~~~~~~~  168 (177)
T COG0723         159 SDKLYLIGLG  168 (177)
T ss_pred             CCceEEEEec
Confidence            6633 34343

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

Probab=98.94  E-value=3.3e-09  Score=86.99  Aligned_cols=88  Identities=36%  Similarity=0.769  Sum_probs=65.5

Q ss_pred             ecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccc-hhhccCcchHHHHHHHH-HHHHHh
Q 013818          306 FRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDF-ASVLKHVPFMQYLWRHF-AEQVLN  383 (436)
Q Consensus       306 f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~-~~~~~~~p~~~~~~~~~-~~~v~~  383 (436)
                      |.+||++.+....        .....++.+++++++|+|+++++||+++++.++| ..+.+.+|   .++.++ ..+|++
T Consensus         1 F~pPc~v~~~~~~--------~~~~~~~~~~~~~~~~vP~~pG~~Rli~r~~~~f~~~~~k~~P---~wl~H~~~n~VLd   69 (92)
T PF08417_consen    1 FIPPCLVRSTEEG--------PKKKSCGKRLHQVFYCVPTGPGRCRLIWRFPRNFPAWIFKLIP---RWLSHLTSNKVLD   69 (92)
T ss_pred             CCCCEEEEEeccc--------cccCCCCCEEEEEEEEEECCCCeEEEEEEehhhhhhHHhhcCC---HHHHHHhhCcccH
Confidence            6799998766111        0112334578889999999999999999999998 34445556   444444 489999


Q ss_pred             hHHHHHHHHHhhccC-CCCCCC
Q 013818          384 EDLRLVLGQQERMNN-GANVWN  404 (436)
Q Consensus       384 ED~~ile~qq~~l~~-g~~~~~  404 (436)
                      ||+.++..||+.+.. |.+.|.
T Consensus        70 ~Dl~lLh~Qe~~l~~~g~~~W~   91 (92)
T PF08417_consen   70 QDLYLLHGQERRLAREGADNWQ   91 (92)
T ss_pred             HHHHHHHHHHHHHHHhccCcCC
Confidence            999999999999987 766663

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

>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=98.91  E-value=2.9e-09  Score=101.33  Aligned_cols=32  Identities=28%  Similarity=0.334  Sum_probs=29.0

Q ss_pred             EEEEeecCchhhhhccCCCCCCCCCCc--ccccC
Q 013818          245 IVMELPIEHGLLLDNLLDLAHAPFTHT--STFAK  276 (436)
Q Consensus       245 ~~~~~~~nwk~~~EN~~D~~H~~~vH~--~t~~~  276 (436)
                      .++.+++|||+.+||+.|.||++++|.  .||+.
T Consensus         4 ~~~~~~~nwk~~~~~~~~~yh~~~~h~~~~t~g~   37 (222)
T cd08880           4 YRQRIPGNWKLYAENVKDPYHASLLHLFFVTFGL   37 (222)
T ss_pred             eeeecCCCcHHHHHhccCcchHHHHhhhheeeec
Confidence            457889999999999999999999999  88865

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

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

Probab=98.76  E-value=4.5e-08  Score=94.52  Aligned_cols=85  Identities=9%  Similarity=-0.036  Sum_probs=52.4

Q ss_pred             EEEEeec--CCCCceeeeeeeeccchhhccCc------chHHHHHHHH--HHHHHhhHHHHHHHHHhhccCCCCCCCccc
Q 013818          338 QLHVCLP--SSRKKTRLLYRMSLDFASVLKHV------PFMQYLWRHF--AEQVLNEDLRLVLGQQERMNNGANVWNLPV  407 (436)
Q Consensus       338 ~~~~~~P--~s~~~tr~~~~~~~~~~~~~~~~------p~~~~~~~~~--~~~v~~ED~~ile~qq~~l~~g~~~~~l~~  407 (436)
                      .++.+.|  .++++|.+...++....+.....      ..+... ..+  ...|++||..+++.+|++|.++........
T Consensus       146 ~~~r~~P~~~dpd~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~V~~ED~~~~e~vQ~Gl~S~~~~~~~l~  224 (243)
T cd08882         146 LVYRFRPHGDDPEKCIFDIWSLERYPEGAEPPEPPEEHEVFSDA-PELGGLGLVLDQDFSNLPAVQKGMHSRGFGGLVLA  224 (243)
T ss_pred             EEEEeecCCCCCCeEEEEEEEEEECCCCCCCCCCCccccccccc-cccccccchhHhHHHHHHHHHHHhccCCCCCcccC
Confidence            3445677  59999998776654332221110      011111 122  368999999999999999998654322222


Q ss_pred             cCC-HHHHHHHHHHHHH
Q 013818          408 GYD-KLGVRYRLWRDAL  423 (436)
Q Consensus       408 ~aD-~~~v~~Rrwl~~l  423 (436)
                      ... ..+..|.+|+++.
T Consensus       225 ~~EE~~I~~FH~~l~~~  241 (243)
T cd08882         225 NQEESRIRHFHEVLDDY  241 (243)
T ss_pred             chHHHHHHHHHHHHHHH
Confidence            333 6788888988764

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

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

Probab=98.74  E-value=1.1e-08  Score=92.89  Aligned_cols=75  Identities=27%  Similarity=0.392  Sum_probs=64.0

Q ss_pred             eCCCCCCCCeEEEEEcCeeEEEE--------------------------EcCCCcEEEEecCCCCCCCCCCCCcccCCeE
Q 013818          124 FSTDLKDDTMVPFDCFEEPWVIF--------------------------RGKDGIPGCVQNTCAHRACPLHLGSVNEGRI  177 (436)
Q Consensus       124 ~~~~l~~g~~~~~~~~g~~vvv~--------------------------R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l  177 (436)
                      ...+||+|.-.++.-.|+|+++-                          |.++=++.++..+|+|.||......++.+.+
T Consensus        91 ~l~~IPeGk~~~~kwrGkpvfirhrt~~ei~~~r~V~~s~lrDPq~d~~rvk~~ewl~~igVCThLGCVp~~~AGd~gg~  170 (210)
T KOG1671|consen   91 KLSDIPEGKTVAFKWRGKPVFIRHRTKAEIEGERNVPQSTLRDPQDDVDRVKKPEWLVVIGVCTHLGCVPIANAGDYGGY  170 (210)
T ss_pred             eeecCCCCCCcceeccCCceEEeeccccccccccccchhhccCchhhhhhccCcceEEEEeeeccccccccccccccCce
Confidence            45678888888888888888873                          3344567899999999999999988888899


Q ss_pred             eCcCCCceeecCCCccccCCc
Q 013818          178 QCPYHGWEYSTDGKCEKMPST  198 (436)
Q Consensus       178 ~CpyHgw~f~~~G~~~~~P~~  198 (436)
                      .|||||+.||..|+...+|+.
T Consensus       171 ~CPCHGSHYdasGRIrkGPAP  191 (210)
T KOG1671|consen  171 YCPCHGSHYDASGRIRKGPAP  191 (210)
T ss_pred             ecccccccccccCceecCCCC
Confidence            999999999999999999973

>TIGR03171 soxL2 Rieske iron-sulfur protein SoxL2

Probab=98.68  E-value=3.6e-08  Score=96.48  Aligned_cols=69  Identities=14%  Similarity=0.216  Sum_probs=53.0

Q ss_pred             cCCCcEEEEecCCCCCCCCCCCC------c----------------------cc---CCeEeCcCCCceeecC--CCccc
Q 013818          148 GKDGIPGCVQNTCAHRACPLHLG------S----------------------VN---EGRIQCPYHGWEYSTD--GKCEK  194 (436)
Q Consensus       148 ~~dG~~~a~~n~CpHrg~~L~~g------~----------------------~~---~~~l~CpyHgw~f~~~--G~~~~  194 (436)
                      ++++.|.||+.+|+|+||++..-      .                      -.   .+.|.|||||++||.+  |+.+.
T Consensus       173 Gp~~~IVAyS~IC~H~GC~~~~~~~Ypp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CPCHgS~FD~~~gg~Vv~  252 (321)
T TIGR03171       173 GPNKSIVAYSAICQHLGCTPPYIHFYPPNYVNPSQLTAPEPDQLTAQALLAAKQANVPALIHCDCHGSTYDPYHGAAVLT  252 (321)
T ss_pred             CCCCCEEEEecccCcCCCCcchhhccCcccccccccccccccccchhhhhhhhccCCCCeEECCCCCCEECCCCCCceeC
Confidence            46789999999999999998331      0                      00   1489999999999963  57999


Q ss_pred             cCCccccccccccCCeeee--cCeEEEc
Q 013818          195 MPSTQLRNVKIKSLPCFEQ--EGMIWIW  220 (436)
Q Consensus       195 ~P~~~~~~~~l~~~pv~e~--~G~I~v~  220 (436)
                      +|+.+    .|..++++..  .|.|++-
T Consensus       253 GPA~r----pLp~i~l~~d~~~~~l~Av  276 (321)
T TIGR03171       253 GPTVR----PLPAVILEWDSSTDYLYAI  276 (321)
T ss_pred             CCCCC----CCCcceEEEeCCCCeEEEE
Confidence            99854    6888888765  4677763

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.

>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=98.61  E-value=1.4e-07  Score=90.76  Aligned_cols=31  Identities=32%  Similarity=0.273  Sum_probs=28.1

Q ss_pred             EEEEeecCchhhhhccCCCCCCCCCCccccc
Q 013818          245 IVMELPIEHGLLLDNLLDLAHAPFTHTSTFA  275 (436)
Q Consensus       245 ~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~  275 (436)
                      .++.++||||+.+||+.|.||++++|.+++.
T Consensus         4 ~~~~~~~nWK~~~en~~d~yH~~~~H~~~~~   34 (237)
T cd08879           4 HRYRYRGNWKLQLENGTDGYHPPFVHASYVA   34 (237)
T ss_pred             eEEEeeceEEEEeeecCccccCccccHHHHH
Confidence            4678999999999999999999999998774

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

>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=98.49  E-value=3.8e-07  Score=85.84  Aligned_cols=132  Identities=14%  Similarity=0.015  Sum_probs=71.0

Q ss_pred             EEEEEeecCchhhhhccC-CCCCCCCCCcccccCCCCCCceeeeecCCCCC------Cccc--cCC-CccceecCCeeEE
Q 013818          244 EIVMELPIEHGLLLDNLL-DLAHAPFTHTSTFAKGWSVPSLVKFLTPASGL------QGYW--DPY-PIDMEFRPPCMVL  313 (436)
Q Consensus       244 ~~~~~~~~nwk~~~EN~~-D~~H~~~vH~~t~~~~~~~p~~~~~~~~~~~~------~~~~--~~~-~~~~~f~~P~~~~  313 (436)
                      ..++.++||||+++||++ |.||++++|.+++........ ........+.      .|..  ... .....+.+||+.+
T Consensus         8 ~~~~~~~~NWK~~~en~~~d~yH~~~~H~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~GHg~~~~~~~~~~~~iFPN~~~   86 (206)
T cd08881           8 PQKWVIKANWKLAAENFAGDGYHTGTTHASALEAGLPPDA-ADLPPIDLGLQFTAPWHGHGLGFFLDSPQHGTIFPNLSF   86 (206)
T ss_pred             cEEEEecCcceehhhccccccccchhhhHHHHHhhCCccc-ccCCCCCCCcEEEeCCCCeEEEEeccCcceeeECCcchh
Confidence            467889999999999998 999999999988743211100 0000000000      0000  000 0011223444432


Q ss_pred             EEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHHHHHHHHHH-------HhhHH
Q 013818          314 STIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQV-------LNEDL  386 (436)
Q Consensus       314 ~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~~~~~~~~v-------~~ED~  386 (436)
                      ...                 . ...+....|.++++|.+.+.++...  ..+  +.++..+.......       -.||.
T Consensus        87 ~~~-----------------~-~~~~r~~~P~gp~~tev~~~~~~~k--da~--e~~~~~~~~~~~~~~gpaG~~~~DD~  144 (206)
T cd08881          87 LPG-----------------Y-FNTLRVWHPRGPDETEVWTWTLVDK--DAP--EEVKDRVRRQYTRTFGPAGTFEQDDG  144 (206)
T ss_pred             hhc-----------------c-CceEEEEEeCCCCeEEEEEEEEecC--CCC--HHHHHHHHHHHHhccCCcCCCcCchH
Confidence            110                 0 2335556899999999776555321  111  12222222222332       24999


Q ss_pred             HHHHHHHhhccC
Q 013818          387 RLVLGQQERMNN  398 (436)
Q Consensus       387 ~ile~qq~~l~~  398 (436)
                      ++++.+|+++..
T Consensus       145 e~~e~~Q~g~~~  156 (206)
T cd08881         145 ENWEEITRVARG  156 (206)
T ss_pred             HHHHHHHHhhcc
Confidence            999999999874

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

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

Probab=98.34  E-value=1.3e-06  Score=81.95  Aligned_cols=186  Identities=18%  Similarity=0.214  Sum_probs=95.3

Q ss_pred             CCcEEeEEEEEEeecCchhhhhccCCCCCCCCCCccccc---CCCCCC---------ceeeeecCCCCCCccccCCC---
Q 013818          237 SGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFA---KGWSVP---------SLVKFLTPASGLQGYWDPYP---  301 (436)
Q Consensus       237 ~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~---~~~~~p---------~~~~~~~~~~~~~~~~~~~~---  301 (436)
                      .+..+. .....+.|||.+.+||.+|+.|+ |+|+.+.-   ..+..|         ..++......++.|..+.+.   
T Consensus        21 ~~~~~~-g~~~~~~~NWR~a~ENGfD~~H~-fiHk~s~~v~~~D~~lplG~~p~d~~~~t~~v~d~~gPKG~~~~~~~~~   98 (240)
T PF11723_consen   21 DDIVIF-GMHREINANWRLAAENGFDPGHI-FIHKDSIWVHANDWALPLGFRPTDSDGMTKVVEDEDGPKGVMDRLTEHY   98 (240)
T ss_dssp             TTEEEE-EEEEEESS-HHHHHHHHT-TTGG-GGGTT-HHHHHTTBEE-SEEEESSCCCEEEEEC-STSS-EEEE-CHHHE
T ss_pred             CcceEE-eeeeeccccchhhhhhCcCcceE-EEecCcceEEecceecccccccCCcccceEEEecCCCCceeeecccccc
Confidence            344444 45678999999999999999998 99985421   111111         11122222334444332110   


Q ss_pred             --c----------cceecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcch
Q 013818          302 --I----------DMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPF  369 (436)
Q Consensus       302 --~----------~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~  369 (436)
                        +          ...-..|..+...+++.-||-+.....  -..++.++-..+|+++++.+++..+...-. ..++...
T Consensus        99 ~pi~e~~i~g~~~~~~~~~~~~~~~~iSiwlPgVL~V~~~--P~p~~~qyEwYVPID~~~h~Y~q~l~~~~~-t~ee~~~  175 (240)
T PF11723_consen   99 EPIFENEIDGEKVRNGNTNPVAVAMRISIWLPGVLMVENW--PYPDFTQYEWYVPIDEDTHRYFQLLGKVCP-TEEERKA  175 (240)
T ss_dssp             EEESEEEETTEEEEE-BESSBE--SEEEEETTTEEEEES---SSTTEEEEEEEEEEETTEEEEEEEEEEE-S-SHHHHHH
T ss_pred             eEEEecccCCceeecCCCCCceeEEEeeEeccceeecccC--CCCCeeEEEEEEEecccceeeEeEEeeecC-CHHHHHH
Confidence              0          000001222222223333331110000  014567777779999999999876654321 1111111


Q ss_pred             ----HHHHHH-HHHHHHHhhHHHHHHHHHhhccCCCC-CCCccccCCHHHHHHHHHHHHHHccC
Q 013818          370 ----MQYLWR-HFAEQVLNEDLRLVLGQQERMNNGAN-VWNLPVGYDKLGVRYRLWRDALEKGA  427 (436)
Q Consensus       370 ----~~~~~~-~~~~~v~~ED~~ile~qq~~l~~g~~-~~~l~~~aD~~~v~~Rrwl~~l~~g~  427 (436)
                          +...|+ .+...+.+.|+...|+.|+=...+.. ..|.....|..++++||...+..+|.
T Consensus       176 f~~~f~~~~~~~~l~gFN~~D~wAREamq~fY~d~~Gw~~E~L~~~D~sIi~WRkLas~~nrgI  239 (240)
T PF11723_consen  176 FEYEFEEQWKPLALHGFNDDDIWAREAMQPFYADDTGWDREQLFEPDKSIIAWRKLASEHNRGI  239 (240)
T ss_dssp             HHHHHHHTHHHHTTTTTTHHHHHHHHHHHHHHHTSHHHHH----GGGHHHHHHHHHHHHH-SEB
T ss_pred             HHHHHHHHhHHhhccCCCchhHHHHHHhhhhhhccCCCCHHHhcCcchhHHHHHHHHHHhhccC
Confidence                112222 23456788999999999977665321 12466789999999999999888774

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

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

Probab=94.70  E-value=0.017  Score=60.12  Aligned_cols=38  Identities=34%  Similarity=0.829  Sum_probs=34.5

Q ss_pred             CCCCCCCCCcccCCeEeCcCCCceee-cCCCccccCCcc
Q 013818          162 HRACPLHLGSVNEGRIQCPYHGWEYS-TDGKCEKMPSTQ  199 (436)
Q Consensus       162 Hrg~~L~~g~~~~~~l~CpyHgw~f~-~~G~~~~~P~~~  199 (436)
                      |.|+||..|-...++++||+||..|+ .+|....-|+..
T Consensus         1 hygapl~~g~~s~g~v~cpwhgacfn~~~gdiedfP~~~   39 (478)
T KOG1336|consen    1 HYGAPLAKGVLSRGRVRCPWHGACFNLSTGDIEDFPGLD   39 (478)
T ss_pred             CCCcchhhccccCCcccccccceeecCCcCchhhCcCcc
Confidence            89999999977789999999999999 599999999854

>PRK14127 cell division protein GpsB; Provisional

Probab=89.85  E-value=0.93  Score=38.25  Aligned_cols=43  Identities=30%  Similarity=0.493  Sum_probs=24.7

Q ss_pred             hHHHHhhChhhhhccchhhHHHHHHHHHHHHHHHHHHhhhhHHHHH
Q 013818            5 EKVVEVLNPLARDYKSIGTMKKELAELQEDLAQAHRQVHISEARVA   50 (436)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   50 (436)
                      +.|-+-|..+|.++.   +|-+|++.|++|+++...++.-.+++++
T Consensus        26 ~EVD~FLd~V~~dye---~l~~e~~~Lk~e~~~l~~~l~e~~~~~~   68 (109)
T PRK14127         26 DEVDKFLDDVIKDYE---AFQKEIEELQQENARLKAQVDELTKQVS   68 (109)
T ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            457777777777754   4455555555555555555544444443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	436
3gke_A	349	Crystal Structure Of Dicamba Monooxygenase Length =		6e-16
3gkq_A	389	Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase Fr		3e-09
3gcf_A	394	Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase Fr		1e-07
1ww9_A	392	Crystal Structure Of The Terminal Oxygenase Compone		2e-06
3n0q_A	409	Crystal Structure Of A Putative Aromatic-Ring Hydro		3e-06
3vca_A	412	Quaternary Ammonium Oxidative Demethylation: X-Ray		4e-06
2zyl_A	386	Crystal Structure Of 3-Ketosteroid-9-Alpha-Hydroxyl		5e-06

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

Iteration: 1
 Score = 82.0 bits (201), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 40/132 (30%), Positives = 66/132 (50%), Gaps = 6/132 (4%)
Query: 113 TRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV 172
           T ++N W+  A   +L +  +      + P  ++R  DG+   + + C HR  PL  G +
Sbjct: 3   TFVRNAWYVAALPEELSEKPL-GRTILDTPLALYRQPDGVVAALLDICPHRFAPLSDGIL 61
Query: 173 NEGRIQCPYHGWEYSTDGKCEKMP---STQLRNVKIKSLPCFEQEGMIWIWPGDEPPTAT 229
             G +QCPYHG E+   G+C   P     +  ++ ++S P  E++ +IWIWPGD  P   
Sbjct: 62  VNGHLQCPYHGLEFDGGGQCVHNPHGNGARPASLNVRSFPVVERDALIWIWPGD--PALA 119
Query: 230 IPCLLPPSGFEI 241
            P  +P  G  +
Sbjct: 120 DPGAIPDFGCRV 131

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

Iteration: 1
 Score = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 115 LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPL--HLGSV 172
            +N W+PV  S ++ + + VP     E  V+    DG+   + + C HR   L   +   
Sbjct: 28  FRNHWYPVRLSAEVAEASPVPVQLLGEK-VLLNRVDGVVHAIADRCLHRGVTLSDKVECY 86
Query: 173 NEGRIQCPYHGWEYSTD-GKCEKM----PSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP 226
           ++  I C YHGW Y  D GK   +     S Q+    +K+ P  E++G+++++ GD+ P
Sbjct: 87  SKATISCWYHGWTYRWDNGKLVDILTNPTSVQIGRHALKTYPVREEKGLVFLFVGDQEP 145

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 47/171 (27%), Positives = 69/171 (40%), Gaps = 21/171 (12%)
Query: 76  TDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVP 135
           T Q  + P+ +  S  +   K PR      G          N W P AF  +L +   V 
Sbjct: 3   TSQEISDPAQATSSAQV---KWPRYLEATLG--------FDNHWHPAAFDHELAEGEFVA 51
Query: 136 FDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV--NEGRIQCPYHGWEYS-TDGKC 192
                E  ++ R K G    + + CAHR  P     +    G + C YHGW Y   DG+ 
Sbjct: 52  VTMLGEKVLLTRAK-GEVKAIADGCAHRGVPFSKEPLCFKAGTVSCWYHGWTYDLDDGRL 110
Query: 193 EKM----PSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGF 239
             +     S  +  + IK  P    +G+++++ GDE P A    L  P GF
Sbjct: 111 VDVLTSPGSPVIGKIGIKVYPVQVAQGVVFVFIGDEEPHALSEDL--PPGF 159

>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 = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 41/141 (29%), Positives = 65/141 (46%), Gaps = 13/141 (9%)
Query: 115 LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLG--SV 172
            +N W+PV FS ++ +          E  ++ R  DG   C+++ C HR   L +     
Sbjct: 25  FRNHWYPVMFSKEINEGEPKTLKLLGENLLVNR-IDGKLYCLKDRCLHRGVQLSVKVECK 83
Query: 173 NEGRIQCPYHGWEYS-TDGK-CEKM---PSTQLRNVKIKSLPCFEQEGMIWIW--PGDEP 225
            +  I C YH W Y   DG  C+ +    S Q+   K+K+ P  E +G ++I+   GD P
Sbjct: 84  TKSTITCWYHAWTYRWEDGVLCDILTNPTSAQIGRQKLKTYPVQEAKGCVFIYLGDGDPP 143
Query: 226 PTATIPCLLPPSGFEIHAEIV 246
           P A      PP+  +   EI+
Sbjct: 144 PLARD---TPPNFLDDDMEIL 161

>pdb|3N0Q|A Chain A, Crystal Structure Of A Putative Aromatic-Ring Hydroxylating Dioxygenase (Tm1040_3219) From Silicibacter Sp. Tm1040 At 1 Resolution Length = 409

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 41/90 (45%), Gaps = 9/90 (10%)
Query: 144 VIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKC----EKMP 196
           +I RG D +     N C HR    C    G  N  ++ CPYH W Y  DG+     +  P
Sbjct: 68  IIVRGADNVIRAFHNACRHRGSVICKAKKG--NNPKLVCPYHQWTYELDGRLLWARDXGP 125
Query: 197 STQLRNVKIKSLPCFEQEGMIWIWPGDEPP 226
             +     +K++ C E  G+I+I   DE P
Sbjct: 126 DFEPSRHGLKTVHCRELAGLIYICLADEAP 155

>pdb|3VCA|A Chain A, Quaternary Ammonium Oxidative Demethylation: X-Ray Crystallographic, Resonance Raman And Uv-Visible Spectroscopic Analysis Of A Rieske- Type Demethylase Length = 412

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 32/106 (30%), Positives = 43/106 (40%), Gaps = 9/106 (8%)
Query: 144 VIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKC----EKMP 196
           VI R +DG      N+C HR    C    G V   ++ CPYH W Y  DGK     +  P
Sbjct: 70  VIVRSRDGEVRAFHNSCRHRGSLICKARQGQV--AKLVCPYHQWTYELDGKLIWANDMGP 127
Query: 197 STQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLPPSGFEIH 242
                   +K +     +G+I+I   D PP       L     E+H
Sbjct: 128 DFDASKYGLKPVNLRNLDGLIYICLSDTPPDFQTFAQLARPYLEVH 173

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 30/125 (24%), Positives = 52/125 (41%), Gaps = 6/125 (4%)
Query: 113 TRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV 172
           TR    W  +  + D  +      + F    V+F    G    +   C H    L  G+V
Sbjct: 20  TRYARGWHCLGVAKDYLEGKPHGVEAFGTKLVVFADSHGDLKVLDGYCRHMGGDLSEGTV 79
Query: 173 NEGRIQCPYHGWEYSTDGKCEKMPSTQL--RNVKIKSLPCFEQEGMIWIW---PGDEP-P 226
               + CP+H W +  DG+C+ +P  +   R  + +S     + G++++W    G+ P P
Sbjct: 80  KGDEVACPFHDWRWGGDGRCKLVPYARRTPRMARTRSWTTDVRSGLLFVWHDHEGNPPDP 139
Query: 227 TATIP 231
              IP
Sbjct: 140 AVRIP 144

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	436
3gke_A	349	DDMC; rieske cluster, non-heme mononuclear iron, o	1e-82
3gcf_A	394	Terminal oxygenase component of carbazole 1,9A- di	2e-64
3gkq_A	389	Terminal oxygenase component of carbazole 1,9A- di	3e-63
2zyl_A	386	Possible oxidoreductase; KSHA, cholesterol, rieske	2e-53
1z01_A	446	2-OXO-1,2-dihydroquinoline 8-monooxygenase, oxygen	8e-52
2de6_A	392	Terminal oxygenase component of carbazole; electro	6e-51
1vm9_A	111	Toluene-4-monooxygenase system protein C; structur	1e-15
3dqy_A	106	Toluene 1,2-dioxygenase system ferredoxin subunit;	2e-15
2i7f_A	108	Ferredoxin component of dioxygenase; rieske ferred	2e-14
2qpz_A	103	Naphthalene 1,2-dioxygenase system ferredoxin subu	3e-14
2de6_D	115	Ferredoxin component of carbazole; electron transf	1e-13
2b1x_A	470	Naphthalene dioxygenase large subunit; rieske non-	1e-13
2gbw_A	454	Biphenyl 2,3-dioxygenase alpha subunit; rieske oxy	2e-13
2bmo_A	447	Oxygenase-alpha NBDO; nitrobenzene dioxygenase, ni	2e-13
3vca_A	412	Ring-hydroxylating dioxygenase; rieske-type, monon	2e-13
3n0q_A	409	Putative aromatic-ring hydroxylating dioxygenase;	4e-13
3gce_A	121	Ferredoxin component of carbazole 1,9A- dioxygenas	7e-13
3gzx_A	457	Biphenyl dioxygenase subunit alpha; rieskie, non-h	9e-13
3d89_A	157	Rieske domain-containing protein; CAsp target, rie	1e-12
1fqt_A	112	Rieske-type ferredoxin of biphenyl dioxygenase; 2F	3e-12
1uli_A	460	Biphenyl dioxygenase large subunit; alpha3 BETA3 h	6e-12
2jo6_A	113	Nitrite reductase [NAD(P)H] small subunit; all bet	2e-10
2jza_A	130	Nitrite reductase [NAD(P)H] small subunit; ISP dom	4e-10
3c0d_A	119	Putative nitrite reductase NADPH (small subunit) o	1e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06

>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 =  257 bits (657), Expect = 1e-82
 Identities = 76/355 (21%), Positives = 132/355 (37%), Gaps = 56/355 (15%)

Query: 115 LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE 174
           ++N W+  A   +L +   +     + P  ++R  DG+   + + C HR  PL  G +  
Sbjct: 5   VRNAWYVAALPEELSE-KPLGRTILDTPLALYRQPDGVVAALLDICPHRFAPLSDGILVN 63

Query: 175 GRIQCPYHGWEYSTDGKCEKMPSTQ---LRNVKIKSLPCFEQEGMIWIWPGDEPPTATIP 231
           G +QCPYHG E+   G+C   P        ++ ++S P  E++ +IWIWPGD       P
Sbjct: 64  GHLQCPYHGLEFDGGGQCVHNPHGNGARPASLNVRSFPVVERDALIWIWPGDPALAD--P 121

Query: 232 CLLPPSGFEIHAE-----IVMELPIEHGLLLDNLLDLAHAPFTHTSTFA----------- 275
             +P  G  +            +   + LL+DNL+DL HA + H +              
Sbjct: 122 GAIPDFGCRVDPAYRTVGGYGHVDCNYKLLVDNLMDLGHAQYVHRANAQTDAFDRLEREV 181

Query: 276 --------------KGWSVPSLVKFLTPASGLQGYWDPYPIDMEFRPPCMVLSTIGISKP 321
                          G     + KFL  A+     W     D+ +     +L+ I ++  
Sbjct: 182 IVGDGEIQALMKIPGGTPSVLMAKFLRGANTPVDAW----NDIRWNKVSAMLNFIAVAPE 237

Query: 322 GKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQ- 380
           G       ++ + H    H+  P +       +  S +F       P M  + R +  Q 
Sbjct: 238 GT-----PKEQSIHSRGTHILTPETEASCHYFFGSSRNFG---IDDPEMDGVLRSWQAQA 289

Query: 381 VLNEDLRLVLGQQERMNNGANVWN---LPVGYDKLGVRYRLWRDAL---EKGAKQ 429
           ++ ED  +V   + R              +  D+  VR     + L   E    +
Sbjct: 290 LVKEDKVVVEAIERRRAY-VEANGIRPAMLSCDEAAVRVSREIEKLEQLEAARLE 343

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

 Score =  211 bits (538), Expect = 2e-64
 Identities = 66/358 (18%), Positives = 110/358 (30%), Gaps = 45/358 (12%)

Query: 115 LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-- 172
             N W P AF  +L +   V      E  ++ R   G    + + CAHR  P     +  
Sbjct: 31  FDNHWHPAAFDHELAEGEFVAVTMLGEKVLLTRA-KGEVKAIADGCAHRGVPFSKEPLCF 89

Query: 173 NEGRIQCPYHGWEYS-TDGKCEKMP----STQLRNVKIKSLPCFEQEGMIWIWPGDEPPT 227
             G + C YHGW Y   DG+   +     S  +  + IK  P    +G+++++ GDE P 
Sbjct: 90  KAGTVSCWYHGWTYDLDDGRLVDVLTSPGSPVIGKIGIKVYPVQVAQGVVFVFIGDEEPH 149

Query: 228 ATIPCLLPP--SGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTF----------- 274
           A    L P           I   +     L ++N  D  H  F H ++            
Sbjct: 150 ALSEDLPPGFLDEDTHLLGIRRTVQSNWRLGVENGFDTTHI-FMHRNSPWVSGNRLAFPY 208

Query: 275 -------------AKGWSVPSLVK-FLTPASGLQGYWDPYPIDMEFRPPCM--VLSTIGI 318
                         + W    L +         +   D   +           V + + +
Sbjct: 209 GFVPADRDAMQVYDENWPKGVLDRLSENYMPVFEATLDGETVLSAELTGEEKKVAAQVSV 268

Query: 319 SKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFAS---VLKHVPFMQYLWR 375
             PG L+          L Q    +P S  +      +         V       +  WR
Sbjct: 269 WLPGVLKVDPFP--DPTLIQYEFYVPISETQHEYFQVLQRKVEGPEDVKTFEVEFEERWR 326

Query: 376 HFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGY--DKLGVRYRLWRDALEKGAKQLP 431
             A    N+D       Q+      + W+    +  D   V++R       +G +   
Sbjct: 327 DDALHGFNDDDVWAREAQQEFYGERDGWSKEQLFPPDMCIVKWRTLASERGRGVRAAR 384

>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 =  207 bits (529), Expect = 3e-63
 Identities = 66/375 (17%), Positives = 130/375 (34%), Gaps = 47/375 (12%)

Query: 97  LPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCV 156
           +  +      P        +N W+PV  S ++ + + VP     E  ++ R  DG+   +
Sbjct: 10  IAERRTRAWAPYIDAKLGFRNHWYPVRLSAEVAEASPVPVQLLGEKVLLNR-VDGVVHAI 68

Query: 157 QNTCAHRACPLHLG--SVNEGRIQCPYHGWEYSTD-GKCEKMPS----TQLRNVKIKSLP 209
            + C HR   L       ++  I C YHGW Y  D GK   + +     Q+    +K+ P
Sbjct: 69  ADRCLHRGVTLSDKVECYSKATISCWYHGWTYRWDNGKLVDILTNPTSVQIGRHALKTYP 128

Query: 210 CFEQEGMIWIWPGDEPPTATIPCLLP---PSGFEIHAEIVMELPIEHGLLLDNLLDLAHA 266
             E++G+++++ GD+ P      + P    +   +H +    +     + ++N  D  H 
Sbjct: 129 VREEKGLVFLFVGDQEPHDLAEDVPPGFLDADLAVHGQ-HRVVDANWRMGVENGFDAGHV 187

Query: 267 PFTHTSTF---AKGWSVP---------SLVKFLTPASGLQGYWD--------PYPIDMEF 306
            F H S+        ++P          L + +T     +G +D         +   +E 
Sbjct: 188 -FIHKSSILLDGNDIALPLGFAPGDPEQLTRSVTGEGAPKGVFDLLGEHSVPIFEATIEG 246

Query: 307 RPPC-------MVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLD 359
           +P         MV  +I +  PG L+          L Q    +P        L  +   
Sbjct: 247 QPAIQGHMGSKMVAISISVWLPGVLKVDPFPD--PTLTQFEWYVPIDEGHHLYLQMLGRR 304

Query: 360 FASVLKHVPFMQYLWRHFAE----QVLNEDLRLVLGQQERMNNGANVWN-LPVGYDKLGV 414
             S  +   F       + E       ++D+      +    +       +    D+  +
Sbjct: 305 VGSEEEARSFEAEFREKWVELALNGFNDDDILARRSMEPFYADDRGWREEVLFESDRAII 364

Query: 415 RYRLWRDALEKGAKQ 429
            +R       +G + 
Sbjct: 365 EWRRLASQYNRGIQT 379

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

 Score =  181 bits (462), Expect = 2e-53
 Identities = 57/335 (17%), Positives = 107/335 (31%), Gaps = 38/335 (11%)

Query: 107 PVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACP 166
                 TR    W  +  + D  +      + F    V+F    G    +   C H    
Sbjct: 14  DAGALPTRYARGWHCLGVAKDYLEGKPHGVEAFGTKLVVFADSHGDLKVLDGYCRHMGGD 73

Query: 167 LHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQL--RNVKIKSLPCFEQEGMIWIWPGDE 224
           L  G+V    + CP+H W +  DG+C+ +P  +   R  + +S     + G++++W   E
Sbjct: 74  LSEGTVKGDEVACPFHDWRWGGDGRCKLVPYARRTPRMARTRSWTTDVRSGLLFVWHDHE 133

Query: 225 --PPTA-----TIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTST---- 273
             PP        IP        +     ++        ++DN+ D+AH  + H       
Sbjct: 134 GNPPDPAVRIPEIPEAASDEWTDWRWNRILIEGSNCRDIIDNVTDMAHFFYIHFGLPTYF 193

Query: 274 ---FAKGWSVPSLVKFLTPASGLQGYWDPYP---IDMEFRPPCMVLSTIGISKPGKLEGQ 327
              F    +   L     P     G          +  +  P  +++ +           
Sbjct: 194 KNVFEGHIASQYLHNVGRPDVDDLGTSYGEAHLDSEASYFGPSFMINWLHNRYGNYKSES 253

Query: 328 NTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLN---E 384
               C           P ++    L + + ++    +        L R F E V     +
Sbjct: 254 ILINCHY---------PVTQNSFVLQWGVIVEKPKGMSE-EMTDKLSRVFTEGVSKGFLQ 303

Query: 385 DLRLVLGQQERMNNGANVWNLPVGYDKLGVRYRLW 419
           D+  +   + R++N      L V  D    + R W
Sbjct: 304 DVE-IWKHKTRIDNP-----LLVEEDGAVYQLRRW 332

>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 =  179 bits (455), Expect = 8e-52
 Identities = 60/380 (15%), Positives = 112/380 (29%), Gaps = 64/380 (16%)

Query: 98  PRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQ 157
             K+ +   P +       N W+P  F+ +L++D +        P V+ R  +G    ++
Sbjct: 23  NAKTQSQYQPYKDAAWGFINHWYPALFTHELEEDQVQGIQICGVPIVLRR-VNGKVFALK 81

Query: 158 NTCAHRACPLHLGSV--NEGRIQCPYHGWEYSTD-GKCEKMPS----TQLRNVKIKSLPC 210
           + C HR   L        +  I C YHG+ +  + GK   + +      +    + + P 
Sbjct: 82  DQCLHRGVRLSEKPTCFTKSTISCWYHGFTFDLETGKLVTIVANPEDKLIGTTGVTTYPV 141

Query: 211 FEQEGMIWIWPGD-EPPTATIPCLLPPSGFEIHAE------------------------I 245
            E  GMI+++  + + P   +P L     F                             +
Sbjct: 142 HEVNGMIFVFVREDDFPDEDVPPLAHDLPFRFPERSEQFPHPLWPSSPSVLDDNAVVHGM 201

Query: 246 VMELPIEHGLLLDNLLDLAHAPFTHTSTF--AKGWSVPSLVKFLTPASGLQGYWDPYPID 303
                    +  +N  D AH      +T   A  W +P  +   +         D  P  
Sbjct: 202 HRTGFGNWRIACENGFDNAHILVHKDNTIVHAMDWVLPLGLLPTSDDCIAVVEDDDGPKG 261

Query: 304 M------EFRPPCMVLSTIGISK--------------PGKLEGQNTRQCATHLHQLHVCL 343
           M      +   P +    +G+                PG L  +N      H+ Q    +
Sbjct: 262 MMQWLFTDKWAPVLENQELGLKVEGLKGRHYRTSVVLPGVLMVENWP--EEHVVQYEWYV 319

Query: 344 PSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAE----QVLNEDLRLVLGQQERMNNG 399
           P +         +     +      F       +         + DL      Q    +G
Sbjct: 320 PITDDTHEYWEILVRVCPTDEDRKKFQYRYDHMYKPLCLHGFNDSDLYAREAMQNFYYDG 379

Query: 400 ANVWNLPVGY--DKLGVRYR 417
              W+       D   + +R
Sbjct: 380 TG-WDDEQLVATDISPITWR 398

>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 =  175 bits (446), Expect = 6e-51
 Identities = 65/369 (17%), Positives = 114/369 (30%), Gaps = 52/369 (14%)

Query: 106 GPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRAC 165
            P        +N W+PV FS ++ +          E  ++ R  DG   C+++ C HR  
Sbjct: 16  APYVDAKLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNR-IDGKLYCLKDRCLHRGV 74

Query: 166 PLHLG--SVNEGRIQCPYHGWEYS-TDGKCEKMPS----TQLRNVKIKSLPCFEQEGMIW 218
            L +      +  I C YH W Y   DG    + +     Q+   K+K+ P  E +G ++
Sbjct: 75  QLSVKVECKTKSTITCWYHAWTYRWEDGVLCDILTNPTSAQIGRQKLKTYPVQEAKGCVF 134

Query: 219 IWPGDEPPTA----TIPCLLPPSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTF 274
           I+ GD  P      T P  L     EI       +     L ++N  D +H      S  
Sbjct: 135 IYLGDGDPPPLARDTPPNFLDD-DMEILG-KNQIIKSNWRLAVENGFDPSHIYIHKDSIL 192

Query: 275 AKGWSVPSLVKFLT----------------------------PASGLQGYWDPYPIDMEF 306
            K   +   + F                                   +G      +    
Sbjct: 193 VKDNDLALPLGFAPGGDRKQQTRVVDDDVVGRKGVYDLIGEHGVPVFEGTIGGEVVREGA 252

Query: 307 RPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKH 366
               +V + I I  PG L+            + +V  P           +    A+  + 
Sbjct: 253 YGEKIVANDISIWLPGVLKVNPFPNPDMMQFEWYV--PIDENTHYYFQTLGKPCANDEER 310

Query: 367 VPFMQYLWRHFAEQVL----NEDLRLVLGQQERMNNGANVWNLPVGY--DKLGVRYR-LW 419
             + Q     +    L    N+D+       +   +    W   + +  D+  V +R L 
Sbjct: 311 KKYEQEFESKWKPMALEGFNNDDIWAREAMVDFYADDKG-WVNEILFESDEAIVAWRKLA 369

Query: 420 RDALEKGAK 428
            +  +    
Sbjct: 370 SEHNQGIQT 378

>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 = 71.9 bits (177), Expect = 1e-15
 Identities = 20/115 (17%), Positives = 36/115 (31%), Gaps = 11/115 (9%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFE-EPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRI 177
           +  +    D+    M  F+  +    +I   ++      Q  C H+   L  GS   G I
Sbjct: 2   FEKICSLDDIWVGEMETFETSDGTEVLIVNSEEHGVKAYQAMCPHQEILLSEGSYEGGVI 61

Query: 178 QCPYHGWEYS-TDGKCEKMPSTQLR--NVKIKSLPCFEQEGMIWIWPGDEPPTAT 229
            C  H W ++   G         L    V++       +   I++      P   
Sbjct: 62  TCRAHLWTFNDGTGHGINPDDAALAEYPVEV-------KGDDIYVSTKGILPNKA 109

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

 Score = 71.1 bits (175), Expect = 2e-15
 Identities = 20/105 (19%), Positives = 39/105 (37%), Gaps = 12/105 (11%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W  +    DL    M  ++   EP ++          VQ+TC H    L  G ++   ++
Sbjct: 2   WTYILRQGDLPPGEMQRYEGGPEPVMVCNVDGEF-FAVQDTCTHGDWALSDGYLDGDIVE 60

Query: 179 CPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFE---QEGMIWI 219
           C  H  ++    GK + +P+        K +  F    +   + +
Sbjct: 61  CTLHFGKFCVRTGKVKALPAC-------KPIKVFPIKVEGDEVHV 98

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

 Score = 68.5 bits (168), Expect = 2e-14
 Identities = 25/111 (22%), Positives = 41/111 (36%), Gaps = 8/111 (7%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
              +     +KD   V     + P +     DG      N C H    L  G  +   I+
Sbjct: 4   KLRLCQVASVKDGEPVAVYQEKMPALAVYNVDGEVFVTDNLCTHGNAMLTDGYQDGTIIE 63

Query: 179 CPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTA 228
           CP+HG  +    G  +  P      + IK+ P   ++G + I   D+P  +
Sbjct: 64  CPFHGGSFDIATGAAKAFPCQ----IPIKTYPVTIEDGWVCI---DQPKES 107

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

 Score = 67.6 bits (166), Expect = 3e-14
 Identities = 16/105 (15%), Positives = 36/105 (34%), Gaps = 12/105 (11%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           W      +D+ +  ++      +   ++  +  I     N C H +  +  G +    I+
Sbjct: 4   WIEAVALSDILEGDVLGVTVEGKELALYEVEGEI-YATDNLCTHGSARMSDGYLEGREIE 62

Query: 179 CPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFE---QEGMIWI 219
           CP H   +    GK    P T       +++  +    +   + I
Sbjct: 63  CPLHQGRFDVCTGKALCAPVT-------QNIKTYPVKIENLRVMI 100

>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 = 65.8 bits (161), Expect = 1e-13
 Identities = 22/115 (19%), Positives = 46/115 (40%), Gaps = 7/115 (6%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWV-IFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRI 177
           W  V  ++D++  T+   +      + ++R  D      ++TC H    L  G+++   I
Sbjct: 5   WLKVCAASDMQPGTIRRVNRVGAAPLAVYRVGDQF-YATEDTCTHGIASLSEGTLDGDVI 63

Query: 178 QCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIP 231
           +CP+HG  ++   G     P T    V +       +EG +++    +       
Sbjct: 64  ECPFHGGAFNVCTGMPASSPCT----VPLGVFEVEVKEGEVYVAGEKKLEHHHHH 114

>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 = 71.1 bits (174), Expect = 1e-13
 Identities = 39/190 (20%), Positives = 69/190 (36%), Gaps = 30/190 (15%)

Query: 119 WFPVAFSTDLKD--DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRA---CPLHLGSVN 173
           W  +A  +++ +  D +V     E+ +++ R + G      N C HR    C   +G  N
Sbjct: 46  WVFLAHESEIPERGDYVV-RYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMG--N 102

Query: 174 EGRIQCPYHGWEYSTDGKCEKMPSTQ--------LRNVKIKSLPCFEQ-EGMIWIWPGDE 224
               +CPYHGW YS  G    +P+ +          +  ++ +P     +G+I+      
Sbjct: 103 TSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDPH 162

Query: 225 PP---------TATIPCLLPPSGFEIHAEIVMELPIEHG---LLLDN-LLDLAHAPFTHT 271
                         +  +L  S   +      +  +      L  DN + D  H   TH 
Sbjct: 163 ADSLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHR 222

Query: 272 STFAKGWSVP 281
           S    G + P
Sbjct: 223 SMVELGLAPP 232

>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 = 71.0 bits (174), Expect = 2e-13
 Identities = 30/160 (18%), Positives = 53/160 (33%), Gaps = 26/160 (16%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP 196
           E+  ++    DG      N+C+HR    C    G  N     C YHGW +  DG    +P
Sbjct: 60  EDKVILSHQSDGTFRAFINSCSHRGNQICHADSG--NAKAFVCNYHGWVFGQDGSLVDVP 117

Query: 197 STQ--------LRNVKIKSLPCFEQEGMIWIWPGDEPP---------TATIPCLLPPSGF 239
                       + +  KS+     +G I+     E P            +  +   +G 
Sbjct: 118 LESRCYHNSLDKQKLAAKSVRVETYKGFIFGCHDPEAPSLEDYLGEFRYYLDTIWEGAGG 177

Query: 240 EIHAEIVMELPIEHG---LLLDN-LLDLAHAPFTHTSTFA 275
            +         +      +  +N + D  H  +TH +  +
Sbjct: 178 GMELLGPPMKSLLQCNWKVPAENFIGDGYHVGWTHAAALS 217

>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 = 71.0 bits (174), Expect = 2e-13
 Identities = 37/168 (22%), Positives = 60/168 (35%), Gaps = 28/168 (16%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP 196
            +  ++ R  DG      N C HR         G  N     C YHGW Y ++G+ + +P
Sbjct: 59  VDEVIVSRQNDGSVRAFLNVCRHRGKTLVHAEAG--NAKGFVCGYHGWGYGSNGELQSVP 116

Query: 197 STQ--------LRNVKIKSLPCFEQ-EGMIWIWPGDEPPT------ATIPCLLPPSGFEI 241
             +         + + +K +P  E   G I+     E P            L P   +  
Sbjct: 117 FEKELYGDAIKKKCLGLKEVPRIESFHGFIYGCFDAEAPPLIDYLGDAAWYLEPTFKYSG 176

Query: 242 HAEIV---MELPIEHG---LLLDNLL-DLAHAPFTHTSTFAKGWSVPS 282
             E+V    ++ +         +N + D  H  +TH +    G SV S
Sbjct: 177 GLELVGPPGKVVV-KANWKSFAENFVGDGYHVGWTHAAALRAGQSVFS 223

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

 Score = 70.2 bits (172), Expect = 2e-13
 Identities = 32/185 (17%), Positives = 53/185 (28%), Gaps = 42/185 (22%)

Query: 119 WFPVAFSTDLKD--DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPL-HLGSVNEG 175
           W        L                 VI R +DG      N+C HR   +         
Sbjct: 44  WLYAVPVCQLAKAGSY-TTLRVGAYEVVIVRSRDGEVRAFHNSCRHRGSLICKARQGQVA 102

Query: 176 RIQCPYHGWEYSTDGKCEKMPSTQ---------LRNVKIKSLPCFEQEGMIWI-WPGDEP 225
           ++ CPYH W Y  DGK                 L+ V +++L     +G+I+I      P
Sbjct: 103 KLVCPYHQWTYELDGKLIWANDMGPDFDASKYGLKPVNLRNL-----DGLIYICLSDTPP 157

Query: 226 PTATIPCLLPPSGFEIHAEIVMELPIEHG---------------LLLDNLLDLAHAPFTH 270
              T          ++    +    ++                 L+ +N  +  H    H
Sbjct: 158 DFQTF--------AQLARPYLEVHDLKDAKVAFTSTIIEKGNWKLVWENNRECYHCSSNH 209

Query: 271 TSTFA 275
            +   
Sbjct: 210 PALCR 214

>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 = 69.7 bits (171), Expect = 4e-13
 Identities = 32/180 (17%), Positives = 54/180 (30%), Gaps = 32/180 (17%)

Query: 119 WFPVAFSTDLKD--DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPL-HLGSVNEG 175
           W     + +L       V         +I RG D +     N C HR   +      N  
Sbjct: 42  WLFAIPACELDKPGSY-VTHQVGNYNVIIVRGADNVIRAFHNACRHRGSVICKAKKGNNP 100

Query: 176 RIQCPYHGWEYSTDGKCEKMPSTQ----LRNVKIKSLPCFEQEGMIWI-WPGDEPPTATI 230
           ++ CPYH W Y  DG+                 +K++ C E  G+I+I    + P     
Sbjct: 101 KLVCPYHQWTYELDGRLLWARDMGPDFEPSRHGLKTVHCRELAGLIYICLADEAPDFERF 160

Query: 231 PCLLPPSGFEIHAEIVMELPIEHG---------------LLLDNLLDLAHAPFTHTSTFA 275
                    E+    +    + +                L+ +N  +  H    H +   
Sbjct: 161 --------AEVARPYLEVHDLSNAKVAHESSIVERGNWKLVWENNRECYHCGGNHPALCR 212

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

 Score = 64.3 bits (157), Expect = 7e-13
 Identities = 22/113 (19%), Positives = 37/113 (32%), Gaps = 10/113 (8%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE--GR 176
              VA    LK      FD   +  ++ R  D +   + N C+H    L +G  +     
Sbjct: 11  PVRVATLDQLKPGVPTAFDVDGDEVMVVRDGDSV-YAISNLCSHAEAYLDMGVFHAESLE 69

Query: 177 IQCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWP--GDEPP 226
           I+CP H   +    G    +P        +++         I + P   D   
Sbjct: 70  IECPLHVGRFDVRTGAPTALPCVL----PVRAYDVVVDGTEILVAPKEADHHH 118

>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 = 68.8 bits (168), Expect = 9e-13
 Identities = 27/172 (15%), Positives = 45/172 (26%), Gaps = 31/172 (18%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP 196
           E+P ++ R KD       N C HR         G  N     C YHGW Y   G    +P
Sbjct: 80  EDPVIMVRQKDQSIKVFLNQCRHRGMRIVRSDGG--NAKAFTCTYHGWAYDIAGNLVNVP 137

Query: 197 STQ--------------LRNVKIKSLPCFEQEGMIWIWPGDEPP---------TATIPCL 233
             +                +           +G+++     E P            +  +
Sbjct: 138 FEKEAFCDKKEGDCGFDKADWGPLQARVETYKGLVFANWDPEAPDLKTYLSDAMPYMDVM 197

Query: 234 LPPSGFE---IHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSVPS 282
           L  +      I       +P       +      +   T +        +P 
Sbjct: 198 LDRTEAGTEAIGGIQKWVIPCNWKFAAEQFCSDMYHAGTMSHLSGVLAGLPP 249

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

 Score = 64.6 bits (157), Expect = 1e-12
 Identities = 24/125 (19%), Positives = 40/125 (32%), Gaps = 16/125 (12%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV----NE 174
              V    D++    +     +   VIF  K      +   C H   PLHLG +     +
Sbjct: 17  SVCVGREEDIRKSERMTAVVHDREVVIFYHKGEY-HAMDIRCYHSGGPLHLGEIEDFNGQ 75

Query: 175 GRIQCPYHGWEYS-TDGKCEKMPST----------QLRNVKIKSLPCFEQEGMIWIWPGD 223
             I CP+H ++ +   G+                   + VK +        G I++    
Sbjct: 76  SCIVCPWHKYKITLATGEGLYQSINPKDPSAKPKWCSKGVKQRIHTVKVDNGNIYVTLSK 135

Query: 224 EPPTA 228
           EP   
Sbjct: 136 EPFKC 140

>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 = 62.3 bits (152), Expect = 3e-12
 Identities = 18/106 (16%), Positives = 36/106 (33%), Gaps = 13/106 (12%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGR-I 177
           +  V    D+ +   +  +       IF     +    Q+ C H    L  G   EG  +
Sbjct: 6   FTRVCDRRDVPEGEALKVESGGTSVAIFNVDGEL-FATQDRCTHGDWSLSDGGYLEGDVV 64

Query: 178 QCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFE---QEGMIWI 219
           +C  H  ++    GK +  P         ++L  F    ++  + +
Sbjct: 65  ECSLHMGKFCVRTGKVKSPPPC-------EALKIFPIRIEDNDVLV 103

>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 = 66.1 bits (161), Expect = 6e-12
 Identities = 24/97 (24%), Positives = 35/97 (36%), Gaps = 12/97 (12%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRA---CPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMP 196
           E+P ++ R K+G      N C HR    C    G  N     C YHGW Y T G    +P
Sbjct: 78  EDPVMVVRQKNGEIRVFLNQCRHRGMRICRADGG--NAKSFTCSYHGWAYDTGGNLVSVP 135

Query: 197 STQ-------LRNVKIKSLPCFEQEGMIWIWPGDEPP 226
             +         +           +G+I+     + P
Sbjct: 136 FEEQAFPGLRKEDWGPLQARVETYKGLIFANWDADAP 172

>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 = 56.7 bits (137), Expect = 2e-10
 Identities = 19/111 (17%), Positives = 37/111 (33%), Gaps = 12/111 (10%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFR-GKDGIPGCVQNTCAH-RACPLHLGSVNEGR 176
           W  +    D+  +T V     +E   IFR         + N      +  L  G + E +
Sbjct: 7   WKDICKIDDILPETGVCALLGDEQVAIFRPYHSDQVFAISNIDPFFESSVLSRGLIAEHQ 66

Query: 177 ----IQCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPG 222
               +  P     +  +DG C +          +K      ++G++ +  G
Sbjct: 67  GELWVASPLKKQRFRLSDGLCMEDEQ-----FSVKHYEARVKDGVVQLRGG 112

>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 = 56.4 bits (136), Expect = 4e-10
 Identities = 24/131 (18%), Positives = 38/131 (29%), Gaps = 12/131 (9%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFR-GKDGIPGCVQNTCAH-RACPLHLGSVNEGR 176
           W  V    D+   T V     ++   +FR   D     + N     +A  L  G V E +
Sbjct: 4   WTTVCKLDDILPGTGVCALVEQQQIAVFRPRNDEQVYAISNIDPFAQASVLSRGIVAEHQ 63

Query: 177 ----IQCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTATIP 231
               +  P     +   DG C +  +       + +       G + I   D        
Sbjct: 64  DDLWVASPLKKQHFRLYDGFCLEDGA-----YSVAAYDTQVTNGNVQISIADSDVAVDNS 118

Query: 232 CLLPPSGFEIH 242
             LP      H
Sbjct: 119 QPLPLEHHHHH 129

>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 = 54.7 bits (132), Expect = 1e-09
 Identities = 16/107 (14%), Positives = 31/107 (28%), Gaps = 11/107 (10%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAH-RACPLHLGSV----N 173
              +    DL            E   +F   D     VQ+     +A  +  G V     
Sbjct: 6   KVKLCQLDDLMPFIGATVLIEGERVALFYIPDSGVYAVQDWDPIGKAYVMSRGIVGDING 65

Query: 174 EGRIQCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWI 219
           E  +  P +   +S   G+C +  +       +K+      +  +  
Sbjct: 66  EMCVASPLYKQHFSLKSGQCLEDEA-----HCLKTWRVTVDDNQVCY 107

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 49.9 bits (118), Expect = 1e-06
 Identities = 73/493 (14%), Positives = 142/493 (28%), Gaps = 138/493 (27%)

Query: 3   LHEKVVEVLNPLARDYKSI------GTMKKELAELQEDLAQAHR-------QVH-ISEAR 48
            + K+ + L  L R  K++      G+ K  +A    D+  +++       ++  ++   
Sbjct: 136 PYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVAL---DVCLSYKVQCKMDFKIFWLNLKN 191

Query: 49  VATALDKLAYMEALVNDRLLQDRHTSGTDQTCASP----STSKQSLDIVKGKLPRKSL-- 102
             +    L  ++ L+    +    TS +D +        S   +   ++K K     L  
Sbjct: 192 CNSPETVLEMLQKLL--YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV 249

Query: 103 --NVSGP--VQPYN--------TRLKNFWFPVAFSTDLKDDTMVPFD----CFEEP---- 142
             NV        +N        TR K     V         T +  D             
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQ----VTDFLSAATTTHISLDHHSMTLTPDEVKS 305

Query: 143 ----WVIFRGKDGIPGCVQNTCAHRAC---PLHLGSVNEGRIQCPYHGWEYSTDGKCEKM 195
               ++  R +D +P               P  L  + E         W+      C+K+
Sbjct: 306 LLLKYLDCRPQD-LP--------REVLTTNPRRLSIIAESIRDGLAT-WDNWKHVNCDKL 355

Query: 196 PSTQLRNVKIKSLPCFEQEGMIW---IWPGDEP-PTATIPCLLPPSGFEIHAEIVMEL-- 249
             T +    +  L   E   M     ++P     PT  +  +           +V +L  
Sbjct: 356 --TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413

Query: 250 -------PIE-----HGLLLDNLLDLAHAPFTHTS-----TFAKGWSVPSLVKFLTPASG 292
                  P E       + L+  + L +    H S        K +    L+        
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP-----PY 468

Query: 293 LQGYW-----------DPYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATH-----L 336
           L  Y+           +       FR   +    +      K+   +T   A+      L
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE----QKIRHDSTAWNASGSILNTL 524

Query: 337 HQL-----HVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLG 391
            QL     ++C  +  K  RL+  + LDF            L +     + ++   L+  
Sbjct: 525 QQLKFYKPYIC-DNDPKYERLVNAI-LDF------------LPKIEENLICSKYTDLL-- 568

Query: 392 QQERMNNGANVWN 404
           +   M     ++ 
Sbjct: 569 RIALMAEDEAIFE 581

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	436
3gke_A	349	DDMC; rieske cluster, non-heme mononuclear iron, o	100.0
3n0q_A	409	Putative aromatic-ring hydroxylating dioxygenase;	100.0
2zyl_A	386	Possible oxidoreductase; KSHA, cholesterol, rieske	100.0
1z01_A	446	2-OXO-1,2-dihydroquinoline 8-monooxygenase, oxygen	100.0
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
2bmo_A	447	Oxygenase-alpha NBDO; nitrobenzene dioxygenase, ni	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
2qpz_A	103	Naphthalene 1,2-dioxygenase system ferredoxin subu	99.95
1fqt_A	112	Rieske-type ferredoxin of biphenyl dioxygenase; 2F	99.94
2i7f_A	108	Ferredoxin component of dioxygenase; rieske ferred	99.94
2de6_D	115	Ferredoxin component of carbazole; electron transf	99.94
1vm9_A	111	Toluene-4-monooxygenase system protein C; structur	99.94
3dqy_A	106	Toluene 1,2-dioxygenase system ferredoxin subunit;	99.94
3gce_A	121	Ferredoxin component of carbazole 1,9A- dioxygenas	99.94
3c0d_A	119	Putative nitrite reductase NADPH (small subunit) o	99.93
2jo6_A	113	Nitrite reductase [NAD(P)H] small subunit; all bet	99.93
2jza_A	130	Nitrite reductase [NAD(P)H] small subunit; ISP dom	99.93
3d89_A	157	Rieske domain-containing protein; CAsp target, rie	99.92
4aiv_A	119	Probable nitrite reductase [NAD(P)H] small subuni;	99.92
4aay_B	175	AROB; oxidoreductase, rieske, iron sulfur, molybdo	99.89
1rie_A	129	Rieske iron-sulfur protein; oxidoreductase, cytoch	99.87
1rfs_A	139	Rieske protein; iron-sulfur protein, electron tran	99.85
1g8k_B	133	Arsenite oxidase; molybdopterin, [3Fe-4S] cluster,	99.85
3azc_A	133	Cytochrome B6-F complex iron-sulfur subunit; riesk	99.7
3cx5_E	185	Cytochrome B-C1 complex subunit rieske, mitochondr	99.79
2nwf_A	141	Ubiquinol-cytochrome C reductase iron-sulfur SUBU;	99.78
2qjy_C	187	Ubiquinol-cytochrome C reductase iron-sulfur SUBU;	99.78
1pp9_E	196	Ubiquinol-cytochrome C reductase iron-sulfur SUBU	99.78
1nyk_A	165	Rieske iron-sulfur protein; beta barrel, iron sulf	99.76
1vf5_D	179	Rieske iron-sulfur protein; photosynthesis, membra	99.74
1jm1_A	204	Rieske iron-sulfur protein SOXF; electron transpor	99.64

>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=2e-53  Score=428.69  Aligned_cols=301  Identities=24%  Similarity=0.445  Sum_probs=234.9

Q ss_pred             cccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCC
Q 013818          112 NTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGK  191 (436)
Q Consensus       112 ~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~  191 (436)
                      ..++++.|++||+++|| +|+++.++++|++|+|+|+.+|+++|+.|+|||||++|+.|.++++.|+||||||+||.||+
T Consensus         2 ~~~~~~~W~~v~~~~el-~g~~~~~~~~g~~vvv~R~~~G~v~a~~n~CpHrg~~L~~G~~~~~~i~CpyHgw~fd~~G~   80 (349)
T 3gke_A            2 ATFVRNAWYVAALPEEL-SEKPLGRTILDTPLALYRQPDGVVAALLDICPHRFAPLSDGILVNGHLQCPYHGLEFDGGGQ   80 (349)
T ss_dssp             CCCCCSSCEEEECGGGC-CSSCEEEEETTEEEEEEECTTSCEEEEESSCTTTCCCGGGCEEETTEEECTTTCCEECTTCC
T ss_pred             CcccccccEEEEEHHHC-CCCeEEEEECCEEEEEEEcCCCcEEEEeCcCCCCCcCCccCCccceEEEECCCCCEEcCCCC
Confidence            45678999999999999 89999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCC-cc--ccccccccCCeeeecCeEEEcCCCCC-CC-CCCCCCC--CCCCcEEeEEEEEEeecCchhhhhccCCCC
Q 013818          192 CEKMPS-TQ--LRNVKIKSLPCFEQEGMIWIWPGDEP-PT-ATIPCLL--PPSGFEIHAEIVMELPIEHGLLLDNLLDLA  264 (436)
Q Consensus       192 ~~~~P~-~~--~~~~~l~~~pv~e~~G~I~v~~~~~~-~~-~~lp~~~--~~~~~~~~~~~~~~~~~nwk~~~EN~~D~~  264 (436)
                      |+.+|+ ..  ....+|++|||++++|+||||+++++ +. ..+|++.  +..++.+. ...++++||||+++||++|+|
T Consensus        81 ~~~~P~~~~~~~~~~~l~~~~v~~~~G~V~v~~~~~~~~~~~~~p~~~~~~~~~~~~~-~~~~~~~~nwk~~~EN~~D~~  159 (349)
T 3gke_A           81 CVHNPHGNGARPASLNVRSFPVVERDALIWIWPGDPALADPGAIPDFGCRVDPAYRTV-GGYGHVDCNYKLLVDNLMDLG  159 (349)
T ss_dssp             EEECCSTTCCCCGGGCCCBCCEEEETTEEEECCSCGGGCCGGGSCCCGGGGCTTSEEE-EEEEEESSCHHHHHHHHHCGG
T ss_pred             ccccCccccccccccccceeeEEEECCEEEEeeCCCCCCcccccCCccccCCCCCEEE-eEEEEEecCHHhHHHhccccc
Confidence            999995 22  13578999999999999999998754 21 1245442  23567655 456789999999999999999


Q ss_pred             CCCCCCcccccCCCC--CCceeeeecCCCCC-----------Ccccc------CCC----ccceecCCeeEEEEeeecCC
Q 013818          265 HAPFTHTSTFAKGWS--VPSLVKFLTPASGL-----------QGYWD------PYP----IDMEFRPPCMVLSTIGISKP  321 (436)
Q Consensus       265 H~~~vH~~t~~~~~~--~p~~~~~~~~~~~~-----------~~~~~------~~~----~~~~f~~P~~~~~~~~~~~~  321 (436)
                      |++++|+++++....  ++..++. . ..++           ..+|.      ...    ..++|.+|+++...+++..+
T Consensus       160 H~~~~H~~~~~~~~~~~~~~~v~~-~-~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~P~~~~~~~~~~~~  237 (349)
T 3gke_A          160 HAQYVHRANAQTDAFDRLEREVIV-G-DGEIQALMKIPGGTPSVLMAKFLRGANTPVDAWNDIRWNKVSAMLNFIAVAPE  237 (349)
T ss_dssp             GHHHHTHHHHCCTTGGGCEEEEEE-C-SSEEEEEEEEEEECCCHHHHHHTTTCCSCEEEEEEEEEETTTEEEEEEEEEET
T ss_pred             cchhccchhhcCccccCCCCEEEE-c-CCEEEEEEEecCCCCChHHHhhcccCCCCceeEEEEEEECCEEEEEEEecccC
Confidence            999999999987542  1221111 0 0000           01111      001    24678899998777777665


Q ss_pred             CCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHHHHHHHHHHH-hhHHHHHHHHHhhccCCC
Q 013818          322 GKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVL-NEDLRLVLGQQERMNNGA  400 (436)
Q Consensus       322 g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~~~~~~~~v~-~ED~~ile~qq~~l~~g~  400 (436)
                      |..     ...+.++..+++|||+++++|+++|.+++||..++   +.+...+..+..+|| +||+.|||+||+++....
T Consensus       238 g~p-----~~~~~~~~~~~~~tP~s~~~tr~~~~~~rn~~~~d---~~~~~~~~~~~~~if~~ED~~ile~Qq~~l~~~~  309 (349)
T 3gke_A          238 GTP-----KEQSIHSRGTHILTPETEASCHYFFGSSRNFGIDD---PEMDGVLRSWQAQALVKEDKVVVEAIERRRAYVE  309 (349)
T ss_dssp             TSC-----GGGSEEEEEEEEEEEEETTEEEEEEEEEESSSTTC---HHHHHHHHHHHHHHTTTHHHHHHHHHHHTHHHHH
T ss_pred             CCC-----CCCceEEEEEEEEecCCCCeEEEEEEEEecCccCc---hhhhHHHHHHHhhhhhhhhHHHHHHHHHHhhcCC
Confidence            541     12234567789999999999999999999987543   233455667888999 999999999999987632


Q ss_pred             --CCCCccccCCHHHHHHHHHHHHHH
Q 013818          401 --NVWNLPVGYDKLGVRYRLWRDALE  424 (436)
Q Consensus       401 --~~~~l~~~aD~~~v~~Rrwl~~l~  424 (436)
                        ...++++.+|+++++||||++++.
T Consensus       310 ~~~~~~~~~~~D~~~v~~Rr~l~~l~  335 (349)
T 3gke_A          310 ANGIRPAMLSCDEAAVRVSREIEKLE  335 (349)
T ss_dssp             HTTCCCCCCGGGHHHHHHHHHHHHHH
T ss_pred             ccccccccccccHHHHHHHHHHHHHH
Confidence              223589999999999999998774

>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=3.3e-44  Score=367.53  Aligned_cols=311  Identities=18%  Similarity=0.173  Sum_probs=226.1

Q ss_pred             CccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEE
Q 013818           77 DQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGC  155 (436)
Q Consensus        77 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a  155 (436)
                      ..++.+.++|+++|+.|++++|+                 +.|++||++++|+ +|++++++++|++++|+|+.||+++|
T Consensus        17 ~~lp~~~Y~d~~~~~~E~~~if~-----------------~~W~~v~~~~elp~~G~~~~~~i~g~~vvv~R~~dG~v~A   79 (409)
T 3n0q_A           17 HALDQAFYTDAEVFQTDLQEIFY-----------------KEWLFAIPACELDKPGSYVTHQVGNYNVIIVRGADNVIRA   79 (409)
T ss_dssp             BCCCHHHHHCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             ccCCHHHcCCHHHHHHHHHHHHh-----------------cCCEEEEEHHHCCCCCCeEEEEECCEEEEEEEcCCCCEEe
Confidence            45677788999999999999885                 6699999999998 59999999999999999999999999


Q ss_pred             EecCCCCCCCCCCC-CcccCCeEeCcCCCceeecCCCccccCCcc----ccccccccCCeeeecCeEEEcCCCCCCCCCC
Q 013818          156 VQNTCAHRACPLHL-GSVNEGRIQCPYHGWEYSTDGKCEKMPSTQ----LRNVKIKSLPCFEQEGMIWIWPGDEPPTATI  230 (436)
Q Consensus       156 ~~n~CpHrg~~L~~-g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~----~~~~~l~~~pv~e~~G~I~v~~~~~~~~~~l  230 (436)
                      |.|+|||||++|+. |.++++.|+||||||+||.||+|+.+|+..    ....+|++|||++++|+|||++++++|  ++
T Consensus        80 ~~n~C~Hrga~L~~~g~~~~~~i~CpyHgw~fd~dG~~~~~P~~~~~~~~~~~~L~~~~v~~~~G~Vfv~~~~~~~--~l  157 (409)
T 3n0q_A           80 FHNACRHRGSVICKAKKGNNPKLVCPYHQWTYELDGRLLWARDMGPDFEPSRHGLKTVHCRELAGLIYICLADEAP--DF  157 (409)
T ss_dssp             EESCCTTTCCCSCCSSEEECSSEECTTTCCEECTTSCEEECTTCCTTCCGGGCSCCEEEEEEETTEEEEECSSSCC--CC
T ss_pred             ecCcCCcCcCCccCcCccCCCEEEECCCCCEEeCCCCcccCCcCCcccCcccCCCceEEEEEECCEEEEEeCCCCC--Ch
Confidence            99999999999996 888889999999999999999999999753    246789999999999999999987654  35


Q ss_pred             CCCCC----------CCCcEEeEEEEEEeecCchhhhhccCCCCCCCCCCcccccCCCCC--------------------
Q 013818          231 PCLLP----------PSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSV--------------------  280 (436)
Q Consensus       231 p~~~~----------~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~--------------------  280 (436)
                      +++++          ...+.+.....++++||||+++||++|+||++++|+++++.-...                    
T Consensus       158 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~NWK~~~EN~~D~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  237 (409)
T 3n0q_A          158 ERFAEVARPYLEVHDLSNAKVAHESSIVERGNWKLVWENNRECYHCGGNHPALCRTFPDDPSVTGIEGGETPSNLQAHFD  237 (409)
T ss_dssp             HHHHHHHHHHHHTTCGGGEEEEEEEEEEESSCHHHHHHHHTCCTTHHHHCTTGGGTSCCCHHHHSCCCSCCCHHHHHHHH
T ss_pred             HHhhhhhhhhhccccCCCeEEeeEEEEEEecchHhhhhhccccccccccCcchhhccccccccccccccccccchhhhhh
Confidence            44321          123455556678899999999999999999999999886531100                    


Q ss_pred             -------Cceee------e---ecCC-C-----CCCc---c---ccC---C--CccceecCCeeEEEEeeecCCCCcCCC
Q 013818          281 -------PSLVK------F---LTPA-S-----GLQG---Y---WDP---Y--PIDMEFRPPCMVLSTIGISKPGKLEGQ  327 (436)
Q Consensus       281 -------p~~~~------~---~~~~-~-----~~~~---~---~~~---~--~~~~~f~~P~~~~~~~~~~~~g~~~~~  327 (436)
                             +....      +   ..+. .     ...+   +   ...   .  .....+..||+.+...           
T Consensus       238 ~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~g~~~~~~~~~~~~~~~~~~~~~~~~Pn~~~~~~-----------  306 (409)
T 3n0q_A          238 RCEQAGMPSGFHLSGDGQFRVARMPLKEGAESYTMDGKTAVRRWLGRAAFADAGSLLKFHYPTTWNHFL-----------  306 (409)
T ss_dssp             HHHHTTCCCCCEECTTSSEEEEEECCSTTCCSSSTTSSCSCSSCSSCCSSSCCCEEEEEETTTEEEEEC-----------
T ss_pred             hhhccCCcceeecccccceeeeeecccccccccccCCccccccccCCCcccCCceEEEEECCeEEEEEC-----------
Confidence                   00000      0   0000 0     0000   0   000   0  0112345677665432           


Q ss_pred             CcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHHHHHHHHHHHhhHHHHHHHHHhhccCCCCCC-Ccc
Q 013818          328 NTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVW-NLP  406 (436)
Q Consensus       328 ~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~~~~~~~~v~~ED~~ile~qq~~l~~g~~~~-~l~  406 (436)
                            .+.+.++.+.|+++++|++.+.++.........--.+ ..+..+.+.|..||..|+|..|+++.++.... .++
T Consensus       307 ------pd~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~d~~~-~~~~~~~~~~~~ED~~l~e~~Q~G~~s~~y~~G~~s  379 (409)
T 3n0q_A          307 ------SDHSIVFRVTPISPTETEVTTKWLVHKDAVEGVDYDL-QRLTEVWIATNDEDREVVEFNQMGINSPAYEPGPYS  379 (409)
T ss_dssp             ------SSCEEEEEEEEEETTEEEEEEEEEEETTCCBTTTBCH-HHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCCBCC
T ss_pred             ------CCEEEEEEEEECCCCeEEEEEEEEEcCcccccchhhH-HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCC
Confidence                  1234567789999999999988775322111000112 23345668899999999999999999865422 233


Q ss_pred             ccCCHHHHHHHHHHH-HHH
Q 013818          407 VGYDKLGVRYRLWRD-ALE  424 (436)
Q Consensus       407 ~~aD~~~v~~Rrwl~-~l~  424 (436)
                      ...+.++..|.+|+. ++.
T Consensus       380 ~~~E~~v~~F~~w~~~~l~  398 (409)
T 3n0q_A          380 PTQESGVLQFVEWYLSTLK  398 (409)
T ss_dssp             TTTSHHHHHHHHHHHHHHH
T ss_pred             CCccHhHHHHHHHHHHHHH
Confidence            346899999999955 444

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

Probab=100.00  E-value=8.4e-44  Score=363.04  Aligned_cols=300  Identities=16%  Similarity=0.281  Sum_probs=211.5

Q ss_pred             cccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCC
Q 013818          112 NTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGK  191 (436)
Q Consensus       112 ~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~  191 (436)
                      +..+.+.|++||++++|++|+++.++++|++++|+|+.+|+++|+.|+|||||++|+.|.++++.|+||||||+||.+|+
T Consensus        19 ~~~f~~~W~~v~~~~el~~g~~~~~~~~g~~vvl~R~~~G~v~a~~n~CpHrga~L~~g~~~~~~i~CpyHgw~f~~~G~   98 (386)
T 2zyl_A           19 PTRYARGWHCLGVAKDYLEGKPHGVEAFGTKLVVFADSHGDLKVLDGYCRHMGGDLSEGTVKGDEVACPFHDWRWGGDGR   98 (386)
T ss_dssp             CSSCCSEEEEEEEGGGGCSSSCEEEEETTEEEEEEECTTSCEEEEESBCTTTCCBGGGSEEETTEEECTTTCCEEETTSB
T ss_pred             chhhhcceEEEEEHHHCCCCCeEEEEECCeEEEEEECCCCCEEEEcCcCCCCCCCCCCCcccCCEEEeCCCCCEECCCCC
Confidence            45667899999999999999999999999999999999999999999999999999999998899999999999999999


Q ss_pred             ccccCCccc--cccccccCCeeeecCeEEEcCCCCC-CC---CCCCCCCC--CCCcEEeEEEEEEee-cCchhhhhccCC
Q 013818          192 CEKMPSTQL--RNVKIKSLPCFEQEGMIWIWPGDEP-PT---ATIPCLLP--PSGFEIHAEIVMELP-IEHGLLLDNLLD  262 (436)
Q Consensus       192 ~~~~P~~~~--~~~~l~~~pv~e~~G~I~v~~~~~~-~~---~~lp~~~~--~~~~~~~~~~~~~~~-~nwk~~~EN~~D  262 (436)
                      |+.+|+...  ...++++|||++++|+||||++++. ++   ..+|++..  ..++.......++++ ||||+++||++|
T Consensus        99 ~~~~P~~~~~~~~~~l~~~~v~~~~G~v~v~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~nwk~~~EN~~D  178 (386)
T 2zyl_A           99 CKLVPYARRTPRMARTRSWTTDVRSGLLFVWHDHEGNPPDPAVRIPEIPEAASDEWTDWRWNRILIEGSNCRDIIDNVTD  178 (386)
T ss_dssp             EEECTTCSSCCTTCBCCEECEEEETTEEEEEECTTCCCCCGGGCCCCCGGGGCTTBCCCEEEEEEEESSCGGGGGGGGGC
T ss_pred             ccccCcccccCcccCcceEeEEEECCEEEEEECCccCCCcccccCcccccccCCCceEEEEEEEEEcCcCHHhHhhhccc
Confidence            999998642  2468999999999999999997542 21   12343321  234544445567889 999999999999


Q ss_pred             CCCCCCCCcccccCC---CCCCceeeee--cCCCCCC--c-cccC--CCccceecCCeeEEEEeeecCCCCcCCCCcccc
Q 013818          263 LAHAPFTHTSTFAKG---WSVPSLVKFL--TPASGLQ--G-YWDP--YPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQC  332 (436)
Q Consensus       263 ~~H~~~vH~~t~~~~---~~~p~~~~~~--~~~~~~~--~-~~~~--~~~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~  332 (436)
                      +||++++|+++....   ..........  .+.....  + .++.  ......|..|++++..+....++.         
T Consensus       179 ~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~P~~~~~~~~~~~~g~---------  249 (386)
T 2zyl_A          179 MAHFFYIHFGLPTYFKNVFEGHIASQYLHNVGRPDVDDLGTSYGEAHLDSEASYFGPSFMINWLHNRYGNY---------  249 (386)
T ss_dssp             STHHHHTTCEEEEEEEEEEETTEEEEEEEEEECTTSSSCCSSSCCEEEEEEEEEESSSEEEEEEEEEETTE---------
T ss_pred             ccchhhhCcCccccccccccCceeEEEecCCCCCchhhcccccCcceeeEEEEEECCeEEEEEeeeccCCc---------
Confidence            999999999753210   0000000110  0000000  0 0000  011245667887665544333221         


Q ss_pred             cceeEEEEEeecCCCCceeeeeeeeccchhhcc--CcchHHHHHHHHHHHHHhhHHHHHHHHHhhccCCCCCCCccccCC
Q 013818          333 ATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLK--HVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANVWNLPVGYD  410 (436)
Q Consensus       333 ~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~--~~p~~~~~~~~~~~~v~~ED~~ile~qq~~l~~g~~~~~l~~~aD  410 (436)
                      ......++.++|+++++|++++.+++++.+...  ....+...+..+..+++.||..|++.||+...      .++...|
T Consensus       250 ~~~~~~~~~~~Pv~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vf~ED~~I~e~q~~~~~------p~~~~~D  323 (386)
T 2zyl_A          250 KSESILINCHYPVTQNSFVLQWGVIVEKPKGMSEEMTDKLSRVFTEGVSKGFLQDVEIWKHKTRIDN------PLLVEED  323 (386)
T ss_dssp             EEEEEEEEEEEEEETTEEEEEEEEEEBCCCCCC--CTHHHHHHHHHHHHHHHHHHHHHHTTCCCCSS------CCCCGGG
T ss_pred             ceeEEEEEEEEEccCCEEEEEEEEEEecCCCCChhhHHHHHHHHHHHHHHhhHHHHHHHHhcccccC------CccCccc
Confidence            112344667799999999999988765532111  11122233445678899999999998765422      2556789


Q ss_pred             HHHHHHHHHHHHHHcc
Q 013818          411 KLGVRYRLWRDALEKG  426 (436)
Q Consensus       411 ~~~v~~Rrwl~~l~~g  426 (436)
                      .++++||+|++++-..
T Consensus       324 ~~~~~fRrw~~~~~~~  339 (386)
T 2zyl_A          324 GAVYQLRRWYEQFYVD  339 (386)
T ss_dssp             CSHHHHHHHHHGGGSC
T ss_pred             HHHHHHHHHHHHhCCc
Confidence            9999999999876443

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

Probab=100.00  E-value=1.3e-43  Score=368.02  Aligned_cols=308  Identities=17%  Similarity=0.264  Sum_probs=214.1

Q ss_pred             CChhhhH--hhhcccCcccccccCCCCcccccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCC
Q 013818           85 TSKQSLD--IVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAH  162 (436)
Q Consensus        85 ~~~~~~~--~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpH  162 (436)
                      +|+++|+  .|++.+|+                 +.|++||++++|++|++++++++|++++|+| .+|+++|+.|+|||
T Consensus        25 ~~~~~~~~~~e~~~if~-----------------~~W~~v~~~~el~~g~~~~~~~~g~~vvl~r-~~G~v~a~~n~CpH   86 (446)
T 1z01_A           25 KTQSQYQPYKDAAWGFI-----------------NHWYPALFTHELEEDQVQGIQICGVPIVLRR-VNGKVFALKDQCLH   86 (446)
T ss_dssp             HHHGGGHHHHHCTTCBC-----------------SEEEEEEEGGGSCBTCEEEEEETTEEEEEEE-ETTEEEEEESSCTT
T ss_pred             cCHHHhhhhhhhhhhhh-----------------hceEEEEEHHHCCCCCeEEEEECCEEEEEEE-eCCEEEEEeCcCCC
Confidence            8999999  88888764                 6799999999999899999999999999999 79999999999999


Q ss_pred             CCCCCCCCc--ccCCeEeCcCCCceeec-CCCccccCCccc----cccccccCCeeeecCeEEEcCCCCC----CCCCCC
Q 013818          163 RACPLHLGS--VNEGRIQCPYHGWEYST-DGKCEKMPSTQL----RNVKIKSLPCFEQEGMIWIWPGDEP----PTATIP  231 (436)
Q Consensus       163 rg~~L~~g~--~~~~~l~CpyHgw~f~~-~G~~~~~P~~~~----~~~~l~~~pv~e~~G~I~v~~~~~~----~~~~lp  231 (436)
                      ||++|+.|.  ++++.|+||||||+||. +|+|+.+|+.+.    ...+|++|||++++|+||||++++.    .+++++
T Consensus        87 rga~L~~g~~~~~~~~i~CpyHgw~fd~~~G~~~~~p~~p~~~~~~~~~l~~~~v~~~~G~V~v~~~~~~~p~~~~~~l~  166 (446)
T 1z01_A           87 RGVRLSEKPTCFTKSTISCWYHGFTFDLETGKLVTIVANPEDKLIGTTGVTTYPVHEVNGMIFVFVREDDFPDEDVPPLA  166 (446)
T ss_dssp             TCCCGGGSCCCSSTTEEECTTTCEEEETTTCBEEEETTCTTCTTTTSCBCCEECEEEETTEEEEEECCTTCCGGGCCCGG
T ss_pred             CcCCCCCCccCCCCCEEEeCCCCeEEeCCCCCccccCCCccccCcccCCCcEEEEEEECCEEEEEeCCccccccCCCChh
Confidence            999999997  46789999999999997 999999986431    2578999999999999999997642    111222


Q ss_pred             CCCC----------------------CCCcEEeEEEEEEeecCchhhhhccCCCCCCCCCCcccccCC---CCCCce---
Q 013818          232 CLLP----------------------PSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKG---WSVPSL---  283 (436)
Q Consensus       232 ~~~~----------------------~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~---~~~p~~---  283 (436)
                      +.++                      ..++.+. ....+++||||+++||++|+||+ ++|+++++..   ...+..   
T Consensus       167 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~nwk~~~EN~~D~~H~-~vH~~~~~~~~~~~~~~~~~~~  244 (446)
T 1z01_A          167 HDLPFRFPERSEQFPHPLWPSSPSVLDDNAVVH-GMHRTGFGNWRIACENGFDNAHI-LVHKDNTIVHAMDWVLPLGLLP  244 (446)
T ss_dssp             GGSCCCTTTTTTTSCCTTSCCCCCTTSTTEEEE-EEEEEEESCHHHHHTTTTCTTGG-GGGTTCHHHHHTTCCCCSEEEE
T ss_pred             HhccchhhhhhhccccccccccccccCCCeEEE-eEEEEEcCCHHHHHHhccchhhh-hhhhhhhhcccccccccccccc
Confidence            1111                      1345443 34568999999999999999999 9999887521   111100   


Q ss_pred             -----eeeecCCCCCCcc------------cc--------C----CCccceecCCeeEEEEeeecCCCCcCCCCcccccc
Q 013818          284 -----VKFLTPASGLQGY------------WD--------P----YPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCAT  334 (436)
Q Consensus       284 -----~~~~~~~~~~~~~------------~~--------~----~~~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~  334 (436)
                           ...+....+..+.            +.        .    ....+.+.+|++++...   .|.           .
T Consensus       245 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~~~~~P~~~~~~~---~p~-----------~  310 (446)
T 1z01_A          245 TSDDCIAVVEDDDGPKGMMQWLFTDKWAPVLENQELGLKVEGLKGRHYRTSVVLPGVLMVEN---WPE-----------E  310 (446)
T ss_dssp             CSTTSEEEECCSSSCCEEEECTTSTTEEEECEETTTTEECCCCCCCCCEEEEETTTEEEEET---CSS-----------T
T ss_pred             cCCCceeEEEecCCCCEEEEEecCccccchhhhhhhccccccCCceEEEeeeecCceEEEec---cCC-----------C
Confidence                 0011000000000            00        0    00122344666553321   110           1


Q ss_pred             eeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHHH----HHH-HHHHHhhHHHHHHHHHhhccCCCC-CCCcccc
Q 013818          335 HLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLW----RHF-AEQVLNEDLRLVLGQQERMNNGAN-VWNLPVG  408 (436)
Q Consensus       335 ~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~~----~~~-~~~v~~ED~~ile~qq~~l~~g~~-~~~l~~~  408 (436)
                      .+.+++.++|+++++|++++.+++++... .....+...+    ... ...|..||+.|+|+||+++..+.. ..+++..
T Consensus       311 ~~~~~~~~~Pi~~~~t~~~~~~~~~~~~~-e~~~~~~~~~~~~~~~~~~~~~~~ED~~i~e~~q~~~~~~~~~~~~~l~~  389 (446)
T 1z01_A          311 HVVQYEWYVPITDDTHEYWEILVRVCPTD-EDRKKFQYRYDHMYKPLCLHGFNDSDLYAREAMQNFYYDGTGWDDEQLVA  389 (446)
T ss_dssp             TCEEEEEEEESSSSEEEEEEEEEEECCSH-HHHHHHHHHHHTTHHHHTTTTHHHHHHHHHHHHHHHHHTSHHHHHCCCCG
T ss_pred             CeEEEEEEEECCCCcEEEEEEEecCCCCH-HHHHHHHHHHHHHhhhhccCCCCcchHHHHHHHHHHhccccccccccCch
Confidence            23456788999999999988777654311 0111011100    011 134679999999999999877543 3457889


Q ss_pred             CCHHHHHHHHHHHHHHccC
Q 013818          409 YDKLGVRYRLWRDALEKGA  427 (436)
Q Consensus       409 aD~~~v~~Rrwl~~l~~g~  427 (436)
                      +|+++++||||++++..+.
T Consensus       390 ~D~~i~~~Rr~l~~~~~~~  408 (446)
T 1z01_A          390 TDISPITWRKLASRWNRGI  408 (446)
T ss_dssp             GGHHHHHHHHHHHHHCSCB
T ss_pred             hhHHHHHHHHHHHHHHhhc
Confidence            9999999999999886554

>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=6.3e-44  Score=365.80  Aligned_cols=309  Identities=17%  Similarity=0.161  Sum_probs=224.1

Q ss_pred             CccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEE
Q 013818           77 DQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGC  155 (436)
Q Consensus        77 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a  155 (436)
                      ..++...++|+++|+.|++++|+                 +.|++||++++|+ +|++++++++|++|+|+|+.+|+++|
T Consensus        19 ~~lp~~~Y~d~~~~~~E~~~if~-----------------~~W~~v~~~~elp~~G~~~~~~i~g~~vvv~R~~dG~v~A   81 (412)
T 3vca_A           19 FSLEQPFYTSPEVYALDLQHIFY-----------------KQWLYAVPVCQLAKAGSYTTLRVGAYEVVIVRSRDGEVRA   81 (412)
T ss_dssp             BCCCHHHHHCHHHHHHHHHHTTT-----------------TSCEEEEEGGGGCSTTEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             CcCCHHHcCCHHHHHHHHHHHHh-----------------ccCEEEEEHHHCCCCCCeEEEEECCEEEEEEEcCCCCEEE
Confidence            34566778999999999999985                 5699999999998 59999999999999999999999999


Q ss_pred             EecCCCCCCCCCC-CCcccCCeEeCcCCCceeecCCCccccCCcc----ccccccccCCeeeecCeEEEcCCCCCCCCCC
Q 013818          156 VQNTCAHRACPLH-LGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQ----LRNVKIKSLPCFEQEGMIWIWPGDEPPTATI  230 (436)
Q Consensus       156 ~~n~CpHrg~~L~-~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~----~~~~~l~~~pv~e~~G~I~v~~~~~~~~~~l  230 (436)
                      +.|+|||||++|+ .|.++++.|+||||||+||.||+|+.+|+..    ....+|++|||++++|+|||++++++|  ++
T Consensus        82 ~~n~CpHrga~L~~~g~~~~~~i~CPyHgw~fdldG~~~~~P~~~~~~~~~~~~L~~~~v~~~~G~V~v~~~~~~p--~l  159 (412)
T 3vca_A           82 FHNSCRHRGSLICKARQGQVAKLVCPYHQWTYELDGKLIWANDMGPDFDASKYGLKPVNLRNLDGLIYICLSDTPP--DF  159 (412)
T ss_dssp             EESSCTTTCCCSCCSSEEECSSEECTTTCCEECTTSCEEECTTCCTTCCGGGCSCCEEEEEEETTEEEEECSSSCC--CC
T ss_pred             ecccCCCCCCEeecccccCCCEEEcCCCCCEEcCCCccccCCccccccCcccCCCcEEEEEEECCEEEEEecCCCC--CH
Confidence            9999999999998 6888889999999999999999999999753    235789999999999999999987654  35


Q ss_pred             CCCCC----------CCCcEEeEEEEEEeecCchhhhhccCCCCCCCCCCcccccCCCCC--------------------
Q 013818          231 PCLLP----------PSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKGWSV--------------------  280 (436)
Q Consensus       231 p~~~~----------~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~~~~--------------------  280 (436)
                      +++++          ...+.+.....++++||||+++||++|+||++++|+++++.-...                    
T Consensus       160 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~NWK~~~EN~~D~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  239 (412)
T 3vca_A          160 QTFAQLARPYLEVHDLKDAKVAFTSTIIEKGNWKLVWENNRECYHCSSNHPALCRSFPLDPEVAGVQADGGVSKKLQAHF  239 (412)
T ss_dssp             HHHHHHHHHHHHTTCGGGEEEEEEEEEEESSCHHHHHHHHTCCTTHHHHCHHHHTTSCCCHHHHCC----CCCHHHHHHH
T ss_pred             HHHhhhhHHhhccccCCCeEEeEEEEEEEccCchhhHhhccccccCcccCcchhhcccccccccccccccccccchhhhh
Confidence            44332          123445556678899999999999999999999999775521100                    


Q ss_pred             --------Ccee------ee---ecCCC-C-----CCc---c---ccC---C--CccceecCCeeEEEEeeecCCCCcCC
Q 013818          281 --------PSLV------KF---LTPAS-G-----LQG---Y---WDP---Y--PIDMEFRPPCMVLSTIGISKPGKLEG  326 (436)
Q Consensus       281 --------p~~~------~~---~~~~~-~-----~~~---~---~~~---~--~~~~~f~~P~~~~~~~~~~~~g~~~~  326 (436)
                              +...      .+   ..+.. +     ..+   +   ...   .  .....+.+||+.+...          
T Consensus       240 ~~~~~~g~~~~~~~~~~g~~~~~~~~~~~~~~s~~~~g~~~~~~~~~~~~~~~~~~~~~~~~Pn~~~~~~----------  309 (412)
T 3vca_A          240 DRCEAAGTPAQFVLAGDGQYRLARMPLQEKALSYTMDGKAAVSRHLGRVAPPDAGTLLMFHYPSTWNHFL----------  309 (412)
T ss_dssp             HHHHHTTCCCSCEECTTSSEEEEEECCSTTCCSSSSSSSCSCSSCSSCCCSTTCCEEEEEETTTEEEEEC----------
T ss_pred             hhhhccCCcccccccccCceeeeeecccccccccccCccccccccccCCcccCCceEEEEECCeEEEEEC----------
Confidence                    0000      00   00000 0     000   0   000   0  0112345677665432          


Q ss_pred             CCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHHHHHHHHHHHhhHHHHHHHHHhhccCCCCC-CCc
Q 013818          327 QNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYLWRHFAEQVLNEDLRLVLGQQERMNNGANV-WNL  405 (436)
Q Consensus       327 ~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~~~~~~~~v~~ED~~ile~qq~~l~~g~~~-~~l  405 (436)
                             .+...++.+.|+++++|++.+.++.........-..+ +.+..+.+.+..||..|+|..|+++.++... ..+
T Consensus       310 -------pd~~~~~~~~P~~~~~t~v~~~~~~~~d~~~~~d~~~-~~~~~~~~~~~~ED~~l~e~~Q~G~~S~~y~~G~~  381 (412)
T 3vca_A          310 -------PDHSLTFRVMPISPTETEVTTTWLVHKDAVEGVDYDL-KRLTEVWIATNDEDREIVETNQQGILSPAYVPGPY  381 (412)
T ss_dssp             -------SSCEEEEEEEEEETTEEEEEEEEEEETTCCBTTTBCH-HHHHHHHHHHHHHHHHHHHHHHHHHTSTTCCCCBC
T ss_pred             -------CCEEEEEEEEECCCCeEEEEEEEEEccccccCccHHH-HHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCC
Confidence                   1234567789999999999987775321111000112 2334567889999999999999999986532 223


Q ss_pred             cccCCHHHHHHHHHHHH
Q 013818          406 PVGYDKLGVRYRLWRDA  422 (436)
Q Consensus       406 ~~~aD~~~v~~Rrwl~~  422 (436)
                      +...+.++..|.+|+.+
T Consensus       382 sp~~E~~v~~F~~w~~~  398 (412)
T 3vca_A          382 SPGQESGVMQFVDWYAA  398 (412)
T ss_dssp             CTTTCHHHHHHHHHHHH
T ss_pred             CCCcchhHHHHHHHHHH
Confidence            33358999999999653

>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-43  Score=361.91  Aligned_cols=298  Identities=19%  Similarity=0.314  Sum_probs=205.4

Q ss_pred             cccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcc--cCCeEeCcCCCceeec-
Q 013818          112 NTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV--NEGRIQCPYHGWEYST-  188 (436)
Q Consensus       112 ~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~--~~~~l~CpyHgw~f~~-  188 (436)
                      ...+.+.|++||++++|++|+++.++++|++++|+| .+|+++|+.|+|||||++|+.|.+  +++.|+||||||+||. 
T Consensus        22 ~~~~~~~W~~v~~~~el~~g~~~~~~~~g~~vvl~R-~~G~v~a~~n~CpHrga~L~~g~~~~~~~~i~CpyHgw~f~~~  100 (392)
T 2de6_A           22 KLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNR-IDGKLYCLKDRCLHRGVQLSVKVECKTKSTITCWYHAWTYRWE  100 (392)
T ss_dssp             TTCBSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEE-ETTEEEEEESSCTTTCCCGGGGCCCCSTTEEECTTTCEEEETT
T ss_pred             hhhhccccEEEEEHHHCCCCCeEEEEECCEEEEEEE-eCCEEEEEeCcCCCCCCCCcCCcccCCCCEEEeCCCCCEEcCC
Confidence            455788999999999999899999999999999999 599999999999999999999875  4689999999999997 


Q ss_pred             CCCccccCCccc----cccccccCCeeeecCeEEEcCCCCCCCCCCCCCC----CCCCcEEeEEEEEEeecCchhhhhcc
Q 013818          189 DGKCEKMPSTQL----RNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLL----PPSGFEIHAEIVMELPIEHGLLLDNL  260 (436)
Q Consensus       189 ~G~~~~~P~~~~----~~~~l~~~pv~e~~G~I~v~~~~~~~~~~lp~~~----~~~~~~~~~~~~~~~~~nwk~~~EN~  260 (436)
                      +|+|+.+|+.+.    ...+|++|||++++|+|||+++++.++ ++++.+    ...++.+. ....+++||||+++||+
T Consensus       101 ~G~~~~~p~~p~~~~~~~~~l~~~~v~~~~G~v~v~~~~~~~~-~l~~~l~~~~~~~~~~~~-~~~~~~~~nwk~~~EN~  178 (392)
T 2de6_A          101 DGVLCDILTNPTSAQIGRQKLKTYPVQEAKGCVFIYLGDGDPP-PLARDTPPNFLDDDMEIL-GKNQIIKSNWRLAVENG  178 (392)
T ss_dssp             TCBEEEETTCTTCTTTTSCBCCBCCEEEETTEEEEEESSSSCC-CGGGGSCTTTTCTTEEEE-EEEEEESSCHHHHHHHH
T ss_pred             CCccccccCCccccccccCCCceEeEEEECCEEEEEeCCCCCC-ChhHhccccccCCCeEEE-EEEEEEecChHhhhHhc
Confidence            999999986432    357899999999999999999764322 233222    12456654 34678999999999999


Q ss_pred             CCCCCCCCCCcccccCCCC---CCc---------eeeeecCCCC--CCcc---ccC------------------------
Q 013818          261 LDLAHAPFTHTSTFAKGWS---VPS---------LVKFLTPASG--LQGY---WDP------------------------  299 (436)
Q Consensus       261 ~D~~H~~~vH~~t~~~~~~---~p~---------~~~~~~~~~~--~~~~---~~~------------------------  299 (436)
                      +|+||+ ++|+++++....   .+.         ..........  ..++   +..                        
T Consensus       179 ~D~~H~-~~H~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~g~~g~~~~~~~~~~p~~~~~~~~~~~~~~~~g~~~  257 (392)
T 2de6_A          179 FDPSHI-YIHKDSILVKDNDLALPLGFAPGGDRKQQTRVVDDDVVGRKGVYDLIGEHGVPVFEGTIGGEVVREGAYGEKI  257 (392)
T ss_dssp             HCGGGG-GGGTTCHHHHHTTBEECSEEECCSCGGGGEEEECCCTTCCCEEEECGGGTCEEECEEEETTEEEEECEECSBC
T ss_pred             chhhhh-hhhcchhccccccccccccccccccccceEEeccCCccCCcceeeecCCccccccccccccceeeccccCCcc
Confidence            999999 999988653110   000         0000000000  0000   000                        


Q ss_pred             CCccceecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcc-hHHH---HHH
Q 013818          300 YPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVP-FMQY---LWR  375 (436)
Q Consensus       300 ~~~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p-~~~~---~~~  375 (436)
                      .+....+.+|+.....   ..|+           ..+.++..++|+++++|++++.+++++... .... +...   .+.
T Consensus       258 ~~~~~~~~~P~~~~~~---~~p~-----------~~~~~~~~~~Pi~~~~t~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  322 (392)
T 2de6_A          258 VANDISIWLPGVLKVN---PFPN-----------PDMMQFEWYVPIDENTHYYFQTLGKPCAND-EERKKYEQEFESKWK  322 (392)
T ss_dssp             CCCEEEEETTTEEEEE---SCSS-----------TTCEEEEEEEEEETTEEEEEEEEEEECSSH-HHHHHHHHHHHHTHH
T ss_pred             cceeEEEecccceecc---ccCC-----------CCEEEEEEEeecCCCcEEEEEEEecCCCCH-HHHHHHHHHHHHHHH
Confidence            0111223345443211   0111           123456678999999999988777655421 1111 1101   011


Q ss_pred             H-HHHHHHhhHHHHHHHHHhhccCCCC-CCCccccCCHHHHHHHHHHHHHHccCC
Q 013818          376 H-FAEQVLNEDLRLVLGQQERMNNGAN-VWNLPVGYDKLGVRYRLWRDALEKGAK  428 (436)
Q Consensus       376 ~-~~~~v~~ED~~ile~qq~~l~~g~~-~~~l~~~aD~~~v~~Rrwl~~l~~g~~  428 (436)
                      . ....|+.||+.|+|+||+.+..+.. ..+++..+|+++++||||++++..+..
T Consensus       323 ~~~~~~~~~qD~~i~e~qq~~~~~~~~~~~e~~~~~D~~~~~~Rr~l~~~~~~~~  377 (392)
T 2de6_A          323 PMALEGFNNDDIWAREAMVDFYADDKGWVNEILFESDEAIVAWRKLASEHNQGIQ  377 (392)
T ss_dssp             HHTTTTTTHHHHHHHHHTHHHHHTSTHHHHCCCCGGGHHHHHHHHHHHHHCSCBC
T ss_pred             HhhccCCChhhHHHHHhhhhhhhccccCccceecchhHHHHHHHHHHHHHhhhhc
Confidence            1 1234678999999999998876543 445788999999999999999876654

>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=2.2e-39  Score=326.82  Aligned_cols=302  Identities=20%  Similarity=0.323  Sum_probs=211.9

Q ss_pred             ccccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCc--ccCCeEeCcCCCceeec
Q 013818          111 YNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGS--VNEGRIQCPYHGWEYST  188 (436)
Q Consensus       111 ~~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~--~~~~~l~CpyHgw~f~~  188 (436)
                      ....+++.|++||+++||++|+++.++++|++|+|+| .+|+++|+.|+|||||++|+.|.  ++++.|+||||||+||.
T Consensus        27 ~~~if~~~W~~V~~~~ELp~G~~~~v~i~G~~VvV~R-~dG~v~A~~N~CpHRGa~Ls~G~~~~~~~~I~CPyHGW~Fdl  105 (394)
T 3gcf_A           27 ATLGFDNHWHPAAFDHELAEGEFVAVTMLGEKVLLTR-AKGEVKAIADGCAHRGVPFSKEPLCFKAGTVSCWYHGWTYDL  105 (394)
T ss_dssp             CTTCEESEEEEEEEGGGCCBTCEEEEEETTEEEEEEE-ETTEEEEEESSCTTTCCCGGGSCBCSSTTEEECTTTCEEEET
T ss_pred             hhhhhcccCEEEEEHHHCCCCCeEEEEECCEEEEEEE-eCCeEEEeeCcCCCCCCCCcCCcccCcCCEEECCCCCcEEEC
Confidence            3456778999999999999999999999999999999 79999999999999999999986  46789999999999997


Q ss_pred             -CCCccccCCccc----cccccccCCeeeecCeEEEcCCCCCCCCCCCCCCC----CCCcEEeEEEEEEeecCchhhhhc
Q 013818          189 -DGKCEKMPSTQL----RNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLP----PSGFEIHAEIVMELPIEHGLLLDN  259 (436)
Q Consensus       189 -~G~~~~~P~~~~----~~~~l~~~pv~e~~G~I~v~~~~~~~~~~lp~~~~----~~~~~~~~~~~~~~~~nwk~~~EN  259 (436)
                       +|+|+.+|+.+.    ...+|++|||++++|+|||+++++++ +++++.++    ..++.+.. ...+++||||+++||
T Consensus       106 ~dG~cv~iP~~p~~~~~~~~~L~~ypV~e~~G~VfV~lgd~~~-ppL~e~L~~~~~d~~~~~~~-~~~~i~~NWK~~~EN  183 (394)
T 3gcf_A          106 DDGRLVDVLTSPGSPVIGKIGIKVYPVQVAQGVVFVFIGDEEP-HALSEDLPPGFLDEDTHLLG-IRRTVQSNWRLGVEN  183 (394)
T ss_dssp             TTCBEEEETTSTTCTTTTSCBCCEECEEEETTEEEEEESSSCC-CCGGGGSCTTTTCTTEEEEE-EEEEESSCHHHHHHH
T ss_pred             CCCceeccCCCcccccccccCceEEEEEEECCcEEEecCCCCC-CCchhhcchhhcCCceEEEe-EEEEEecCchhhHhh
Confidence             899999987542    35789999999999999999976432 23443222    24555443 467899999999999


Q ss_pred             cCCCCCCCCCCcccccCC---CCCCcee--------eeecCCCCCCccccC-----------------------------
Q 013818          260 LLDLAHAPFTHTSTFAKG---WSVPSLV--------KFLTPASGLQGYWDP-----------------------------  299 (436)
Q Consensus       260 ~~D~~H~~~vH~~t~~~~---~~~p~~~--------~~~~~~~~~~~~~~~-----------------------------  299 (436)
                      ++|+||+ ++|+++++..   ...+..+        ... +.....|.++.                             
T Consensus       184 ~lD~yH~-~vH~~ti~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~kg~~~~~~~~~~pv~~~~~~~~~~~~~~~~~~~~~  261 (394)
T 3gcf_A          184 GFDTTHI-FMHRNSPWVSGNRLAFPYGFVPADRDAMQVY-DENWPKGVLDRLSENYMPVFEATLDGETVLSAELTGEEKK  261 (394)
T ss_dssp             HSCSSGG-GGGTTCHHHHHTTBCCCSEEEECSTTSEEEE-CSSSSCEEEECHHHHEEEECEEEETTEEEEECCCCSSCBC
T ss_pred             ccccchh-hCchhhhcccccccccCcceeEcCCceEEec-cCCCCcchhhhhhccccccccccccccccccccccCcccc
Confidence            9999999 9999988641   1111111        011 11122221111                             


Q ss_pred             CCccceecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcch---HHHHHHH
Q 013818          300 YPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPF---MQYLWRH  376 (436)
Q Consensus       300 ~~~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~---~~~~~~~  376 (436)
                      .+....+..|++.... .+..             .+++++-..+|+++++++|+..+...+........+   ++..|..
T Consensus       262 ~~~~~s~~lP~v~~v~-~~p~-------------~~~~~~~~~vPid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (394)
T 3gcf_A          262 VAAQVSVWLPGVLKVD-PFPD-------------PTLIQYEFYVPISETQHEYFQVLQRKVEGPEDVKTFEVEFEERWRD  327 (394)
T ss_dssp             CCSEEEEETTTEEEEE-SCSS-------------TTCEEEEEEEESSSSCEEEEEEEEEECSSHHHHHHHHHHHHHTHHH
T ss_pred             cceeEEEEecCeeEec-cCCC-------------CCeEEEEEEeeccCCeEEEEEEEEEECCCHHHHHHHHHHHHHHhHH
Confidence            0112333445443322 1111             146667777999999999997776544322111111   1112221


Q ss_pred             H-HHHHHhhHHHHHHHHHhhccCCCC-CCCccccCCHHHHHHHHHHHHHHccCCCCC
Q 013818          377 F-AEQVLNEDLRLVLGQQERMNNGAN-VWNLPVGYDKLGVRYRLWRDALEKGAKQLP  431 (436)
Q Consensus       377 ~-~~~v~~ED~~ile~qq~~l~~g~~-~~~l~~~aD~~~v~~Rrwl~~l~~g~~~~p  431 (436)
                      . ...+.++|+..-|++|+=+..+.. ..+.....|..+|++||...+..+|...-|
T Consensus       328 ~~~~~f~~~d~~ar~~~~~~y~~~~g~~~e~l~~~d~~~~~~r~~~~~~~~~~~~~~  384 (394)
T 3gcf_A          328 DALHGFNDDDVWAREAQQEFYGERDGWSKEQLFPPDMCIVKWRTLASERGRGVRAAR  384 (394)
T ss_dssp             HTTTTTTHHHHHHHHHHHHHHHHSCHHHHCCCCGGGHHHHHHHHHHHHHCSEECC--
T ss_pred             HhhcccchhhHHHHHHHHHhhcccCCCChhhccCcchhHHHHHHHHHHhcccCCCCC
Confidence            1 356788999999999987765422 225677899999999999999988876544

>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=5.1e-39  Score=323.32  Aligned_cols=302  Identities=19%  Similarity=0.362  Sum_probs=214.2

Q ss_pred             cccccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCc--ccCCeEeCcCCCceee
Q 013818          110 PYNTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGS--VNEGRIQCPYHGWEYS  187 (436)
Q Consensus       110 ~~~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~--~~~~~l~CpyHgw~f~  187 (436)
                      +....+++.|++||+++||++|+++.++++|++|+|+| .+|+++|+.|+|||||++|+.|.  ++++.|+||||||+||
T Consensus        23 E~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           23 DAKLGFRNHWYPVRLSAEVAEASPVPVQLLGEKVLLNR-VDGVVHAIADRCLHRGVTLSDKVECYSKATISCWYHGWTYR  101 (389)
T ss_dssp             HCTTCBSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEE-ETTEEEEEESSCTTTCCCGGGGCCCSBTTEEECTTTCEEEE
T ss_pred             hhhhhhcCccEEEEEHHHCCCCCeEEEEECCEEEEEEE-eCCeEEEeCCcCCCCCCCccCCcccCcCCEEECCCCCCEEE
Confidence            34456678999999999999999999999999999999 79999999999999999999986  4678999999999999


Q ss_pred             c-CCCccccCCccc----cccccccCCeeeecCeEEEcCCCCCCCCCCCCCCC----CCCcEEeEEEEEEeecCchhhhh
Q 013818          188 T-DGKCEKMPSTQL----RNVKIKSLPCFEQEGMIWIWPGDEPPTATIPCLLP----PSGFEIHAEIVMELPIEHGLLLD  258 (436)
Q Consensus       188 ~-~G~~~~~P~~~~----~~~~l~~~pv~e~~G~I~v~~~~~~~~~~lp~~~~----~~~~~~~~~~~~~~~~nwk~~~E  258 (436)
                      . +|+|+.+|+.+.    ...+|++|||++++|+|||+++++++ +++++.++    ..++.+.+ ..++++||||+++|
T Consensus       102 l~dG~cv~iP~~P~~~~~~~~~L~~ypV~e~~G~VfV~lgd~~~-ppL~e~l~~~~~~~~~~~~~-~~~~i~~NWK~~~E  179 (389)
T 3gkq_A          102 WDNGKLVDILTNPTSVQIGRHALKTYPVREEKGLVFLFVGDQEP-HDLAEDVPPGFLDADLAVHG-QHRVVDANWRMGVE  179 (389)
T ss_dssp             TTTCBEEEETTCTTCTTTTSCBCCBCCEEEETTEEEEEESSSCC-CCGGGGSCTTTTCTTEEEEE-EEEEESSCHHHHHH
T ss_pred             CCCCCeecccCCcccccccccCCcEEEEEEECCeEEEecCCCCC-CCchhhcchhccCCceEEEe-EEEEEecCchhhHH
Confidence            7 899999987542    35789999999999999999976432 23443322    24565544 46789999999999


Q ss_pred             ccCCCCCCCCCCcccccCC---CCCCc---------eeeeecCCCCCCccccCC--------------------------
Q 013818          259 NLLDLAHAPFTHTSTFAKG---WSVPS---------LVKFLTPASGLQGYWDPY--------------------------  300 (436)
Q Consensus       259 N~~D~~H~~~vH~~t~~~~---~~~p~---------~~~~~~~~~~~~~~~~~~--------------------------  300 (436)
                      |++|+||+ ++|+++++..   ...+.         ............|.++.+                          
T Consensus       180 N~lD~yH~-~vH~~si~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~kg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (389)
T 3gkq_A          180 NGFDAGHV-FIHKSSILLDGNDIALPLGFAPGDPEQLTRSVTGEGAPKGVFDLLGEHSVPIFEATIEGQPAIQGHMGSKM  258 (389)
T ss_dssp             HHTCSGGG-GGGTTCHHHHHTTBCBCSEEEECCGGGSEEEECCTTSCCEEEECSGGGEEEESEEEETTEEEEECBCCSBC
T ss_pred             hcchhchh-hCccccccccccccccccccccCCCcceEEEEcCCCCCccHHhhhhccccccccccccCcccccCCCCCcc
Confidence            99999999 9999987631   11111         111222222334432211                          


Q ss_pred             -CccceecCCeeEEEEeeecCCCCcCCCCcccccceeEEEEEeecCCCCceeeeeeeeccchhhccCcch---HHHHHHH
Q 013818          301 -PIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCATHLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPF---MQYLWRH  376 (436)
Q Consensus       301 -~~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~---~~~~~~~  376 (436)
                       .....+..|++.... .+..             .++.++-..+|+++++++|+..+...+........+   ++..|..
T Consensus       259 ~~~~~s~~lP~v~~v~-~~~~-------------~~~~~~~~~vpi~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~  324 (389)
T 3gkq_A          259 VAISISVWLPGVLKVD-PFPD-------------PTLTQFEWYVPIDEGHHLYLQMLGRRVGSEEEARSFEAEFREKWVE  324 (389)
T ss_dssp             CCCEEEEETTTEEEEE-SCSS-------------TTCEEEEEEEEEETTEEEEEEEEEEECSSHHHHHHHHHHHHHTHHH
T ss_pred             cceeEEEEecCeeEec-cCCC-------------CCeEEEEEEeeccCCeEEEEEEEEEEcCCHHHHHHHHHHHHHHHHH
Confidence             112334455544332 1111             246677777999999999997777544322111111   1112221


Q ss_pred             H-HHHHHhhHHHHHHHHHhhccCCCC-CCCccccCCHHHHHHHHHHHHHHccCCC
Q 013818          377 F-AEQVLNEDLRLVLGQQERMNNGAN-VWNLPVGYDKLGVRYRLWRDALEKGAKQ  429 (436)
Q Consensus       377 ~-~~~v~~ED~~ile~qq~~l~~g~~-~~~l~~~aD~~~v~~Rrwl~~l~~g~~~  429 (436)
                      . ...+.++|+..-|++|+=+..+.. ..+.....|..+|+.||...+..+|...
T Consensus       325 ~~~~~f~~~d~~ar~~~~~~y~~~~g~~~e~l~~~d~~~~~wr~~~~~~~~~~~~  379 (389)
T 3gkq_A          325 LALNGFNDDDILARRSMEPFYADDRGWREEVLFESDRAIIEWRRLASQYNRGIQT  379 (389)
T ss_dssp             HTTTTTTHHHHHHHHHHHHHHHTSHHHHHCCCCGGGHHHHHHHHHHHHHCSCBCC
T ss_pred             HhhccccchhHHHHHHHHHhhccCCCCChhhccCcchhHHHHHHHHHHhccccCC
Confidence            1 356788999999999987765421 2256778999999999999998888654

>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=3.4e-38  Score=328.22  Aligned_cols=180  Identities=18%  Similarity=0.302  Sum_probs=153.9

Q ss_pred             CccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEE
Q 013818           77 DQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGC  155 (436)
Q Consensus        77 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a  155 (436)
                      ..++.+.++|+++|+.|++++|.                 +.|++||++++|+ +|+++++.++|.+|+|+|+.+|+++|
T Consensus        13 ~~~~~~~y~~~~~~~~E~~~if~-----------------~~W~~v~~~~el~~~g~~~~~~~~~~~vvv~R~~~G~v~a   75 (454)
T 2gbw_A           13 ASQSRQVFWDEDVYALEIERIFS-----------------RAWLMLGHESLVPKPGDFITTYMAEDKVILSHQSDGTFRA   75 (454)
T ss_dssp             TEEEGGGGTCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             CccCHHHcCCHHHHHHHHHHHhh-----------------cCcEEEeEHHHCCCCCCeEEEEECCeEEEEEEcCCCCEEE
Confidence            35677889999999999999885                 5699999999998 69999999999999999999999999


Q ss_pred             EecCCCCCCCCCCCCcc-cCCeEeCcCCCceeecCCCccccCCccc--------cccccccCCeeeecCeEEEcCCCCCC
Q 013818          156 VQNTCAHRACPLHLGSV-NEGRIQCPYHGWEYSTDGKCEKMPSTQL--------RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       156 ~~n~CpHrg~~L~~g~~-~~~~l~CpyHgw~f~~~G~~~~~P~~~~--------~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      +.|+|||||++|+.|.. +++.|+||||||+||.||+|+.+|+...        ...+|++|+|++++|+|||++++++|
T Consensus        76 ~~n~CpHrga~L~~g~~g~~~~i~CpyHgw~f~~~G~~~~~P~~~~~~~~~~~~~~~~l~~~~v~~~~G~v~v~~~~~~p  155 (454)
T 2gbw_A           76 FINSCSHRGNQICHADSGNAKAFVCNYHGWVFGQDGSLVDVPLESRCYHNSLDKQKLAAKSVRVETYKGFIFGCHDPEAP  155 (454)
T ss_dssp             EESSCTTTCCCSCCCSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTTCCCGGGCCCCEEEEEEETTEEEEECCTTCC
T ss_pred             EeccCCCCCCCCcccccCCcCEEEeCCCCCEecCCCCcccCCcccccccccCCHhhCCCeeEEEEEECCEEEEEeCCCCC
Confidence            99999999999999865 6789999999999999999999997531        24679999999999999999987654


Q ss_pred             CCCCCCCCC-------------CCCcEEe-EEEEEEeecCchhhhhcc-CCCCCCCCCCccccc
Q 013818          227 TATIPCLLP-------------PSGFEIH-AEIVMELPIEHGLLLDNL-LDLAHAPFTHTSTFA  275 (436)
Q Consensus       227 ~~~lp~~~~-------------~~~~~~~-~~~~~~~~~nwk~~~EN~-~D~~H~~~vH~~t~~  275 (436)
                        +++++++             +.++.+. ....++++||||+++||+ +|+||++++|..+++
T Consensus       156 --~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~Nwk~~~EN~~~D~yH~~~~H~~~~~  217 (454)
T 2gbw_A          156 --SLEDYLGEFRYYLDTIWEGAGGGMELLGPPMKSLLQCNWKVPAENFIGDGYHVGWTHAAALS  217 (454)
T ss_dssp             --CHHHHHGGGHHHHHHHHTTTTTCEEEEEEEEEEEESSCTHHHHHHHHHBCTTHHHHTHHHHH
T ss_pred             --CHHHHhhhhHHHHHHHHhcCCCceEEEeeEEEEEeCCCccchhhhcCCccCCCCcCCHhHHh
Confidence              3554432             1345544 356778999999999999 799999999976654

>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=1.9e-38  Score=329.54  Aligned_cols=180  Identities=19%  Similarity=0.291  Sum_probs=153.8

Q ss_pred             ccC-CCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEE
Q 013818           78 QTC-ASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGC  155 (436)
Q Consensus        78 ~~~-~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a  155 (436)
                      .++ ...++|+++|+.|++++|.                 +.|++||++++|+ +|+++++.++|.+|+|+|+.+|+++|
T Consensus        12 ~~~~~~~y~~~~~~~~E~~~if~-----------------~~W~~v~~~~el~~~g~~~~~~~~~~~vvv~R~~~G~v~a   74 (447)
T 2bmo_A           12 LTQKLLIHGDKELFQHELKTIFA-----------------RNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQNDGSVRA   74 (447)
T ss_dssp             CEEEGGGGTCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             CCCccceeCCHHHHHHHHHHhhc-----------------cCCeEEeEHHHCCCCCCeEEEEECCeeEEEEECCCCCEEE
Confidence            456 7789999999999999885                 5699999999998 69999999999999999999999999


Q ss_pred             EecCCCCCCCCCCCCcc-cCCeEeCcCCCceeecCCCccccCCcc--------ccccccccCC-eeeecCeEEEcCCCCC
Q 013818          156 VQNTCAHRACPLHLGSV-NEGRIQCPYHGWEYSTDGKCEKMPSTQ--------LRNVKIKSLP-CFEQEGMIWIWPGDEP  225 (436)
Q Consensus       156 ~~n~CpHrg~~L~~g~~-~~~~l~CpyHgw~f~~~G~~~~~P~~~--------~~~~~l~~~p-v~e~~G~I~v~~~~~~  225 (436)
                      |.|+|||||++|+.|.. +++.|+||||||+||.||+|+.+|+..        ....+|++|| |++++|+|||++++++
T Consensus        75 ~~n~CpHrga~L~~g~~g~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~~~~~~~~~l~~~~~v~~~~G~v~v~~~~~~  154 (447)
T 2bmo_A           75 FLNVCRHRGKTLVHAEAGNAKGFVCGYHGWGYGSNGELQSVPFEKELYGDAIKKKCLGLKEVPRIESFHGFIYGCFDAEA  154 (447)
T ss_dssp             EESBCTTTCCBCCCSSEEECSEEECTTTCCEEETTSCEEECTTHHHHTGGGCCGGGCCCCBCSEEEEETTEEEEESCTTC
T ss_pred             EeccCcCCCCCccccccCCcCeEECCCCcchhcCCCcccccCcccccccccCCHhHCCCcccceEEEECCEEEEEcCCCC
Confidence            99999999999999875 568999999999999999999999753        2246899999 9999999999998765


Q ss_pred             CCCCCCCCCC------------CCCcEEe-EEEEEEeecCchhhhhcc-CCCCCCCCCCcccccC
Q 013818          226 PTATIPCLLP------------PSGFEIH-AEIVMELPIEHGLLLDNL-LDLAHAPFTHTSTFAK  276 (436)
Q Consensus       226 ~~~~lp~~~~------------~~~~~~~-~~~~~~~~~nwk~~~EN~-~D~~H~~~vH~~t~~~  276 (436)
                      |  +++++++            ..++.+. ....++++||||+++||+ +|+||++++|..+++.
T Consensus       155 ~--~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nwk~~~EN~~~D~yH~~~~H~~~l~~  217 (447)
T 2bmo_A          155 P--PLIDYLGDAAWYLEPTFKYSGGLELVGPPGKVVVKANWKSFAENFVGDGYHVGWTHAAALRA  217 (447)
T ss_dssp             C--CHHHHHTTHHHHHHHHHTTTSCEEEEEEEEEEEESSCHHHHHHHHHHBCTTHHHHTHHHHHH
T ss_pred             C--CHHHHhccHHHHHHHHhccCCCeEEeeeeEEEEECCCcchhhhcCCCCCCCCcccchhhhhc
Confidence            4  3444432            2345554 355778999999999999 7999999999766653

>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=6.1e-38  Score=327.55  Aligned_cols=181  Identities=19%  Similarity=0.333  Sum_probs=152.0

Q ss_pred             CCccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCCC-CCeEEEEEcCeeEEEEEcCCCcEE
Q 013818           76 TDQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPG  154 (436)
Q Consensus        76 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~~-g~~~~~~~~g~~vvv~R~~dG~~~  154 (436)
                      ...++.+.++|+++|+.|++++|+                 +.|++||++++|++ |++++++++|.+|+|+|+.+|+++
T Consensus        20 ~~~lp~~~Ytd~~~~~~E~~~if~-----------------~~W~~v~~~~el~~~g~~~~~~~~g~~vvv~R~~~G~v~   82 (470)
T 2b1x_A           20 DWTVPAAIINDPEVHDVERERIFG-----------------HAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIR   82 (470)
T ss_dssp             TCEEEGGGSSCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEE
T ss_pred             CCcCCHHHcCCHHHHHHHHHHHhh-----------------cCCeEeeeHHHCCCCCCeEEEEECCeEEEEEEcCCCCEE
Confidence            345677889999999999999875                 56999999999985 889999999999999999999999


Q ss_pred             EEecCCCCCCCCCCCCccc-CCeEeCcCCCceeecCCCccccCCccc--------cccccccCC-eeeecCeEEEcCCCC
Q 013818          155 CVQNTCAHRACPLHLGSVN-EGRIQCPYHGWEYSTDGKCEKMPSTQL--------RNVKIKSLP-CFEQEGMIWIWPGDE  224 (436)
Q Consensus       155 a~~n~CpHrg~~L~~g~~~-~~~l~CpyHgw~f~~~G~~~~~P~~~~--------~~~~l~~~p-v~e~~G~I~v~~~~~  224 (436)
                      ||.|+|||||++|+.|.+. ++.|+||||||+||.||+|+.+|+.+.        .+.+|..+| |++++|+|||+++++
T Consensus        83 a~~n~C~Hrga~L~~g~~~~~~~i~CpyHgw~f~~~G~~~~~P~~~~~~~~~~~~~~~~l~~~p~ve~~~G~Vfv~~~~~  162 (470)
T 2b1x_A           83 GHLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDPH  162 (470)
T ss_dssp             EEESSCTTTCCCSCCSSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTTCCCGGGGSCCBCSEEEEETTEEEEESCTT
T ss_pred             EEecccCCCCCEeeccCcCCCCEEEECCCCCeecCCCceeecCcccccccccCCHhhCCCcccceEEEECCEEEEEeCCC
Confidence            9999999999999998754 479999999999999999999998531        246788885 566799999999876


Q ss_pred             CCCCCCCCCCC-------------CCCcEEeE-EEEEEeecCchhhhhcc-CCCCCCCCCCccccc
Q 013818          225 PPTATIPCLLP-------------PSGFEIHA-EIVMELPIEHGLLLDNL-LDLAHAPFTHTSTFA  275 (436)
Q Consensus       225 ~~~~~lp~~~~-------------~~~~~~~~-~~~~~~~~nwk~~~EN~-~D~~H~~~vH~~t~~  275 (436)
                      +|  +++++++             ..++.+.. ...++++||||+++||+ +|+||++++|+++++
T Consensus       163 ~~--~~~~~l~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~NWk~~~EN~~~D~yH~~~~H~~~~~  226 (470)
T 2b1x_A          163 AD--SLEDYLGDLKFYLDIVLDRSDAGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSMVE  226 (470)
T ss_dssp             CC--CHHHHHGGGHHHHHHHHCSSSSCEEECSCCEEEEESSCTHHHHHHHHHCCTTHHHHTHHHHH
T ss_pred             CC--CHHHHhcchhHHHHHHhccCCCCeEEEeeeEEEEeccCHhhhhhccccccCcccccChhhhh
Confidence            54  3444322             23455543 55678999999999999 999999999998654

>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=1.8e-37  Score=321.41  Aligned_cols=180  Identities=18%  Similarity=0.274  Sum_probs=155.7

Q ss_pred             CccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEE
Q 013818           77 DQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGC  155 (436)
Q Consensus        77 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a  155 (436)
                      ..++...++|+++|+.|++++|+                 +.|++||++++|+ +|++++++++|++|+|+|+.||+++|
T Consensus        33 ~~~~~~~Ytd~~~~~~E~~~if~-----------------~~W~~v~~~~elp~~G~~~~~~i~~~~vvv~R~~dG~v~A   95 (457)
T 3gzx_A           33 GKLDARIYADQDLYQLELERVFG-----------------RSWLMLGHETHIPKIGDYLTTYMGEDPVIMVRQKDQSIKV   95 (457)
T ss_dssp             TEEEGGGGTCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             CcCCHHHcCCHHHHHHHHHHHHh-----------------cCCEEEeEHHHcCCCCCeEEEEECCEEEEEEECCCCeEEE
Confidence            45677889999999999999985                 6699999999997 69999999999999999999999999


Q ss_pred             EecCCCCCCCCCCCCc-ccCCeEeCcCCCceeecCCCccccCCcc--------------ccccccccCCeeeecCeEEEc
Q 013818          156 VQNTCAHRACPLHLGS-VNEGRIQCPYHGWEYSTDGKCEKMPSTQ--------------LRNVKIKSLPCFEQEGMIWIW  220 (436)
Q Consensus       156 ~~n~CpHrg~~L~~g~-~~~~~l~CpyHgw~f~~~G~~~~~P~~~--------------~~~~~l~~~pv~e~~G~I~v~  220 (436)
                      |.|+|||||++|+.|. ++++.|+||||||+||.+|+|+.+|+.+              +...+|++|||.+++|+||||
T Consensus        96 ~~n~C~Hrga~L~~g~~g~~~~i~CpyHgw~fd~~G~~~~~P~~~~~~~~~~~~~~~~~~~~~~L~~~~v~e~~G~Vfv~  175 (457)
T 3gzx_A           96 FLNQCRHRGMRIVRSDGGNAKAFTCTYHGWAYDIAGNLVNVPFEKEAFCDKKEGDCGFDKADWGPLQARVETYKGLVFAN  175 (457)
T ss_dssp             EESCCTTTCCCSCCSSEEECSEEECTTTCCEEETTSCEEECTTHHHHTCSSSTTTTSCCGGGCCCCEEEEEEETTEEEEE
T ss_pred             EeCcCCCCCcCccCCCCCcCCEEEcCCCCCEecCCCcceecCccccccccccccccccChhhCCCceEeEEEECCEEEEe
Confidence            9999999999999986 6778999999999999999999999853              124678999999999999999


Q ss_pred             CCCCCCCCCCCCCCCC-------------CCcEEe-EEEEEEeecCchhhhhcc-CCCCCCC-CCCccccc
Q 013818          221 PGDEPPTATIPCLLPP-------------SGFEIH-AEIVMELPIEHGLLLDNL-LDLAHAP-FTHTSTFA  275 (436)
Q Consensus       221 ~~~~~~~~~lp~~~~~-------------~~~~~~-~~~~~~~~~nwk~~~EN~-~D~~H~~-~vH~~t~~  275 (436)
                      +++++|  ++++++++             .++.+. +...+.++||||+++||+ +|+||++ ++|.++++
T Consensus       176 ~~~~ap--~l~e~lg~~~~~ld~~~~~~~~~~~~~~~~~~~~~~~NWKl~~EN~~~D~yH~~~~~H~~~~~  244 (457)
T 3gzx_A          176 WDPEAP--DLKTYLSDAMPYMDVMLDRTEAGTEAIGGIQKWVIPCNWKFAAEQFCSDMYHAGTMSHLSGVL  244 (457)
T ss_dssp             SCTTSC--CHHHHTTTCHHHHHHHHSSSTTCEEECSCCEEEEESSCHHHHHHHHHHBCTTTTTTTTHHHHH
T ss_pred             cCCCCC--ChHHHHhhhHHHHHHHhccCCCceEEEcceEEEEEccccchhhhccccccCCcccceehhhhh
Confidence            987654  45555432             245544 256788999999999999 8999999 99997765

>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=2.4e-36  Score=314.63  Aligned_cols=179  Identities=19%  Similarity=0.291  Sum_probs=151.1

Q ss_pred             CccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEE
Q 013818           77 DQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGC  155 (436)
Q Consensus        77 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a  155 (436)
                      ..++.+.++|+++|+.|++++|.                 +.|++||++++|+ +|+++++.++|.+|+|+|+.+|+++|
T Consensus        31 ~~~p~~~y~d~~~~~~E~~~if~-----------------~~W~~v~~~~el~~~g~~~~~~i~~~~vvv~R~~~G~v~a   93 (460)
T 1uli_A           31 GRLDPRIYTDEALYEQELERIFG-----------------RSWLLMGHETQIPKAGDFMTNYMGEDPVMVVRQKNGEIRV   93 (460)
T ss_dssp             TEECGGGGTCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             CcCCHHHcCCHHHHHHHHHHhhh-----------------cCceEEEEHHHCCCCCCeEEEEECCeEEEEEEcCCCCEEE
Confidence            35677789999999999999875                 5699999999998 58899999999999999999999999


Q ss_pred             EecCCCCCCCCCCCCcc-cCCeEeCcCCCceeecCCCccccCCcc-------ccccccccCCeeeecCeEEEcCCCCCCC
Q 013818          156 VQNTCAHRACPLHLGSV-NEGRIQCPYHGWEYSTDGKCEKMPSTQ-------LRNVKIKSLPCFEQEGMIWIWPGDEPPT  227 (436)
Q Consensus       156 ~~n~CpHrg~~L~~g~~-~~~~l~CpyHgw~f~~~G~~~~~P~~~-------~~~~~l~~~pv~e~~G~I~v~~~~~~~~  227 (436)
                      |.|+|||||++|+.|.. +++.|+||||||+||.||+|+.+|+..       ....+|++|+|++++|+|||++++++| 
T Consensus        94 ~~n~CpHrga~L~~g~~g~~~~i~CpyHgw~fd~~G~~~~~P~~~~~~~~~~~~~~~L~~~~v~~~~G~V~v~~~~~~p-  172 (460)
T 1uli_A           94 FLNQCRHRGMRICRADGGNAKSFTCSYHGWAYDTGGNLVSVPFEEQAFPGLRKEDWGPLQARVETYKGLIFANWDADAP-  172 (460)
T ss_dssp             EESCCTTTCCCSCCSSEEECSCEECTTTCCEECTTCCEEECTTHHHHCTTCCGGGSSCCEEEEEEETTEEEEECCTTSC-
T ss_pred             EeeeCCCCCCCCccccCCCCCEEEcCCCCCEEeCCCCEeeCCccccccCCCCHhHcCCceeeEEEECCEEEEEeCCCCC-
Confidence            99999999999999865 567999999999999999999999753       124679999999999999999987654 


Q ss_pred             CCCCCCCCC-------------CCcEEe-EEEEEEeecCchhhhhcc-CCCCCC-CCCCcccc
Q 013818          228 ATIPCLLPP-------------SGFEIH-AEIVMELPIEHGLLLDNL-LDLAHA-PFTHTSTF  274 (436)
Q Consensus       228 ~~lp~~~~~-------------~~~~~~-~~~~~~~~~nwk~~~EN~-~D~~H~-~~vH~~t~  274 (436)
                       ++++++++             .++.+. ....++++||||+++||+ +|+||+ .++|..++
T Consensus       173 -~l~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~Nwk~~~EN~~~D~yH~~~~~H~~~~  234 (460)
T 1uli_A          173 -DLDTYLGEAKFYMDHMLDRTEAGTEAIPGIQKWVIPCNWKFAAEQFCSDMYHAGTTSHLSGI  234 (460)
T ss_dssp             -CHHHHHTTHHHHHHHHHCSSTTCEEECSCCEEEEECSCHHHHHHHHHHBHHHHHTTTTHHHH
T ss_pred             -CHHHHhcchHHHHHHHhhcCCCceEEEeeEEEEEeccCHHHHHhhcCCCCCCchhhhhhhcc
Confidence             34444321             234432 345678999999999999 799999 69998665

>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=2.2e-27  Score=197.57  Aligned_cols=100  Identities=19%  Similarity=0.325  Sum_probs=94.6

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCccccC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKMP  196 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~P  196 (436)
                      .|++++.++||++|+++.+++.|++++|+| .+|+++|++|+|||+|++|+.|.++++.|+||||||+||. ||+|+.+|
T Consensus         3 ~w~~v~~~~~l~~g~~~~~~~~g~~i~v~r-~~g~~~A~~~~CpH~g~~L~~g~~~~~~i~Cp~Hg~~Fd~~~G~~~~~P   81 (103)
T 2qpz_A            3 KWIEAVALSDILEGDVLGVTVEGKELALYE-VEGEIYATDNLCTHGSARMSDGYLEGREIECPLHQGRFDVCTGKALCAP   81 (103)
T ss_dssp             CEEEEEETTSCCTTCEEEEEETTEEEEEEE-ETTEEEEEESBCSSSSCBGGGSEEETTEEECTTTTCEEETTTCCEEETT
T ss_pred             ccEEEEEHHHcCCCCEEEEEECCEEEEEEE-ECCEEEEECCcCCCCCCCCCCCeEeCCEEECCCCCCEEeCCCCCEeCCC
Confidence            599999999999999999999999999999 7999999999999999999999988899999999999997 99999999


Q ss_pred             CccccccccccCCeeeecCeEEEcCC
Q 013818          197 STQLRNVKIKSLPCFEQEGMIWIWPG  222 (436)
Q Consensus       197 ~~~~~~~~l~~~pv~e~~G~I~v~~~  222 (436)
                      +.    .+|++|||++++|.|||+++
T Consensus        82 ~~----~~L~~~~v~~~~g~v~v~~~  103 (103)
T 2qpz_A           82 VT----QNIKTYPVKIENLRVMIDLS  103 (103)
T ss_dssp             CC----SCCCEECEEEETTEEEEECC
T ss_pred             CC----CCCCEEeEEEECCEEEEEcC
Confidence            74    47999999999999999874

>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=5.6e-27  Score=198.18  Aligned_cols=102  Identities=18%  Similarity=0.243  Sum_probs=95.7

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCC-cccCCeEeCcCCCceeec-CCCcccc
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLG-SVNEGRIQCPYHGWEYST-DGKCEKM  195 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g-~~~~~~l~CpyHgw~f~~-~G~~~~~  195 (436)
                      .|++|+.++||++|+++.+++.|++++|+|. +|+++|++|+|||+|++|+.| .++++.|+||||||+||. ||+|+.+
T Consensus         5 ~w~~v~~~~~l~~g~~~~~~~~g~~i~v~r~-~g~~~A~~n~CpH~g~~L~~g~~~~~~~i~CP~Hg~~Fd~~tG~~~~~   83 (112)
T 1fqt_A            5 KFTRVCDRRDVPEGEALKVESGGTSVAIFNV-DGELFATQDRCTHGDWSLSDGGYLEGDVVECSLHMGKFCVRTGKVKSP   83 (112)
T ss_dssp             CCEEEEEGGGSCTTCEEEEEETTEEEEEEEE-TTEEEEEESBCTTSSCBSSTTCCEETTEEECTTTCCEEETTTCCEEES
T ss_pred             ceEEeEeHHHCCCCCeEEEEECCEEEEEEEE-CCEEEEEECCCCCCCcCCCCCCEEcCCEEECCCCCCEEeCCCCcEeCC
Confidence            5999999999999999999999999999998 999999999999999999999 778899999999999998 8999999


Q ss_pred             CCccccccccccCCeeeecCeEEEcCCCC
Q 013818          196 PSTQLRNVKIKSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       196 P~~~~~~~~l~~~pv~e~~G~I~v~~~~~  224 (436)
                      |+.    .+|++|||++++|+|||+++++
T Consensus        84 P~~----~~L~~~~v~~~~g~v~v~~~~~  108 (112)
T 1fqt_A           84 PPC----EALKIFPIRIEDNDVLVDFEAG  108 (112)
T ss_dssp             SCC----SCCCBCCEEEETTEEEECTTCC
T ss_pred             CCC----CCccEEEEEEECCEEEEEeccc
Confidence            974    4799999999999999998654

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

Probab=99.94  E-value=1.4e-27  Score=200.48  Aligned_cols=102  Identities=24%  Similarity=0.380  Sum_probs=94.8

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCee-EEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCcccc
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEP-WVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKM  195 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~-vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~  195 (436)
                      .|++|+.++||++|+++.+++.|++ ++|+|+ +|+++|++|+|||+|++|+.|.++++.|+||||||+||. ||+|+.+
T Consensus         3 ~w~~v~~~~~l~~g~~~~~~~~g~~~v~v~r~-~g~~~A~~~~CpH~g~~L~~g~~~~~~i~Cp~Hg~~Fdl~tG~~~~~   81 (108)
T 2i7f_A            3 NKLRLCQVASVKDGEPVAVYQEKMPALAVYNV-DGEVFVTDNLCTHGNAMLTDGYQDGTIIECPFHGGSFDIATGAAKAF   81 (108)
T ss_dssp             CEEEEEEGGGCBTTBCEEECCTTSSCEEEEEE-TTEEEEEESBCSSSSCBGGGSEEETTEEECSSTTCEEETTTCCBCST
T ss_pred             ccEEEEEHhHcCCCCeEEEEECCeeEEEEEEE-CCEEEEEeCcCCCCCCCCCCCEEeCCEEEcCCCCCEEeCCCcCEeCC
Confidence            4999999999999999999999999 999998 999999999999999999999888899999999999995 9999999


Q ss_pred             CCccccccccccCCeeeecCeEEEcCCCC
Q 013818          196 PSTQLRNVKIKSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       196 P~~~~~~~~l~~~pv~e~~G~I~v~~~~~  224 (436)
                      |+.    .+|++|||++++|+|||+++++
T Consensus        82 P~~----~~L~~~~v~~~~g~v~v~~~~~  106 (108)
T 2i7f_A           82 PCQ----IPIKTYPVTIEDGWVCIDQPKE  106 (108)
T ss_dssp             TCC----SCCCEECEEEETTEEEEECC--
T ss_pred             CCC----CCccEEeEEEECCEEEEeCCCC
Confidence            974    4799999999999999998654

>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=1.4e-27  Score=202.98  Aligned_cols=104  Identities=21%  Similarity=0.463  Sum_probs=96.1

Q ss_pred             cCceEEeeeCCCCCCCCeEEEEEcCe-eEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCcc
Q 013818          116 KNFWFPVAFSTDLKDDTMVPFDCFEE-PWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCE  193 (436)
Q Consensus       116 ~~~W~~v~~~~~l~~g~~~~~~~~g~-~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~  193 (436)
                      .+.|++|+.++||++|+++.+++.|+ +++|+|+ +|+++|++|+|||+|++|+.|.++++.|+||||||+||. ||+|+
T Consensus         2 ~~~w~~v~~~~el~~g~~~~~~~~g~~~v~v~r~-~g~~~A~~n~CpH~g~~L~~g~~~~~~i~CP~Hg~~Fdl~tG~~~   80 (115)
T 2de6_D            2 NQIWLKVCAASDMQPGTIRRVNRVGAAPLAVYRV-GDQFYATEDTCTHGIASLSEGTLDGDVIECPFHGGAFNVCTGMPA   80 (115)
T ss_dssp             --CCEEEEEGGGCCTTEEEEEEETTEEEEEEEEE-TTEEEEEESBCTTSSCBGGGSEEETTEEECTTTCCEEETTTCCEE
T ss_pred             CcceEEeEEHHHCCCCCeEEEEECCccEEEEEEE-CCEEEEEeCCCCCCCCCCcCCEEeCCEEECCCCCCEEcCCCcCEe
Confidence            46799999999999999999999999 9999998 999999999999999999999988899999999999996 99999


Q ss_pred             ccCCccccccccccCCeeeecCeEEEcCCCC
Q 013818          194 KMPSTQLRNVKIKSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       194 ~~P~~~~~~~~l~~~pv~e~~G~I~v~~~~~  224 (436)
                      .+|+.    .+|++|||++++|.|||++++.
T Consensus        81 ~~P~~----~~L~~~~v~~~~g~V~v~~~~~  107 (115)
T 2de6_D           81 SSPCT----VPLGVFEVEVKEGEVYVAGEKK  107 (115)
T ss_dssp             ETTCC----SCCCEEEEEESSSEEEEEEEEC
T ss_pred             CCCCc----CCCCEEEEEEECCEEEEecCCc
Confidence            99984    4799999999999999998654

>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=3.7e-27  Score=198.90  Aligned_cols=104  Identities=19%  Similarity=0.292  Sum_probs=96.1

Q ss_pred             ceEEeeeCCCCCCCCeEEEEE-cCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCcccc
Q 013818          118 FWFPVAFSTDLKDDTMVPFDC-FEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKM  195 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~-~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~  195 (436)
                      .|+.|+.++||++|+++.+++ .|++++|+|+.+|+++|++|+|||+|++|+.|.++++.|+||||||+||. +|+|+. 
T Consensus         1 ~W~~v~~~~~l~~g~~~~~~~~~g~~v~v~r~~~g~~~A~~~~CpH~g~~L~~g~~~~~~i~Cp~Hg~~Fd~~tG~~~~-   79 (111)
T 1vm9_A            1 SFEKICSLDDIWVGEMETFETSDGTEVLIVNSEEHGVKAYQAMCPHQEILLSEGSYEGGVITCRAHLWTFNDGTGHGIN-   79 (111)
T ss_dssp             CCEEEEEGGGSCTTCEEEEECTTCCEEEEEEETTTEEEEEESBCSSSSCBGGGSEEETTEEECTTTCCEEETTTCBBSS-
T ss_pred             CcEEEEEHHHCCCCCeEEEEEcCCCEEEEEEeCCCeEEEEeCcCCCCCcCCCCceEcCCEEEcCCCCCEEeCCCccCCC-
Confidence            499999999999999999999 99999999988999999999999999999999988899999999999998 599998 


Q ss_pred             CCccccccccccCCeeeecCeEEEcCCCCCC
Q 013818          196 PSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       196 P~~~~~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |+    ..+|++|||++.+|+|||++++.++
T Consensus        80 p~----~~~L~~~~v~~~~g~v~v~~~~~~~  106 (111)
T 1vm9_A           80 PD----DAALAEYPVEVKGDDIYVSTKGILP  106 (111)
T ss_dssp             SS----SCBCCEECEEEETTEEEECCTTCCC
T ss_pred             CC----cCCcCEEEEEEECCEEEEeccCcCC
Confidence            75    3589999999999999999976543

>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=3.5e-27  Score=197.41  Aligned_cols=101  Identities=23%  Similarity=0.347  Sum_probs=95.1

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceee-cCCCccccC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYS-TDGKCEKMP  196 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~-~~G~~~~~P  196 (436)
                      .|+.|+.++||++|+++.+.+.|.+++|+| .+|+++|++|+|||+|++|+.|.++++.|+||||||+|| .||+|+.+|
T Consensus         1 ~W~~v~~~~~l~~g~~~~~~~~g~~i~v~r-~~g~~~A~~~~CpH~g~~L~~g~~~~~~i~Cp~Hg~~Fdl~~G~~~~~P   79 (106)
T 3dqy_A            1 TWTYILRQGDLPPGEMQRYEGGPEPVMVCN-VDGEFFAVQDTCTHGDWALSDGYLDGDIVECTLHFGKFCVRTGKVKALP   79 (106)
T ss_dssp             CCEEEEEGGGSCTTCEEEECCSSSCEEEEE-ETTEEEEEESBCSSSSCBGGGSEEETTEEECTTTCCEEETTTCCEEETT
T ss_pred             CcEEEEEHHHCCCCCEEEEEECCEEEEEEE-ECCEEEEEeCcCCCCCCCCcCcEEeCCEEECCCCCCEEeCCCCCEeCCC
Confidence            499999999999999999999999999999 699999999999999999999998889999999999999 599999999


Q ss_pred             CccccccccccCCeeeecCeEEEcCCC
Q 013818          197 STQLRNVKIKSLPCFEQEGMIWIWPGD  223 (436)
Q Consensus       197 ~~~~~~~~l~~~pv~e~~G~I~v~~~~  223 (436)
                      +.    .+|++||+++.+|.|||++++
T Consensus        80 ~~----~~L~~~~v~~~~g~v~v~~~~  102 (106)
T 3dqy_A           80 AC----KPIKVFPIKVEGDEVHVDLDN  102 (106)
T ss_dssp             CC----SCCCEECEEEETTEEEECGGG
T ss_pred             CC----CCccEEEEEEECCEEEEEccc
Confidence            84    489999999999999999854

>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=1.9e-26  Score=197.71  Aligned_cols=102  Identities=20%  Similarity=0.317  Sum_probs=94.8

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCC--cccCCeEeCcCCCceee-cCCCccc
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLG--SVNEGRIQCPYHGWEYS-TDGKCEK  194 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g--~~~~~~l~CpyHgw~f~-~~G~~~~  194 (436)
                      .|++|+.++||++|+++.+++.|++++|+|. +|+++|++|+|||+|++|+.|  .++++.|+||||||+|| .+|+|+.
T Consensus        10 ~w~~v~~~~el~~g~~~~~~~~g~~v~v~r~-~g~~~A~~n~CpH~g~~L~~G~~~~~~~~i~CP~Hg~~Fdl~tG~~~~   88 (121)
T 3gce_A           10 TPVRVATLDQLKPGVPTAFDVDGDEVMVVRD-GDSVYAISNLCSHAEAYLDMGVFHAESLEIECPLHVGRFDVRTGAPTA   88 (121)
T ss_dssp             CCEEEEEGGGSCTTCCEEEEETTEEEEEEEE-TTEEEEEESBCSSSSCBGGGSEEETTTTEEECTTTCCEEETTTCCEEE
T ss_pred             CcEEEEEHHHCCCCCEEEEEECCEEEEEEEE-CCEEEEEeCcCCCCCCCCCCCceeecCCEEEcCCCCCEEcCCCccEeC
Confidence            5999999999999999999999999999996 999999999999999999999  88889999999999999 5999999


Q ss_pred             cCCccccccccccCCeeeecCeEEEcCCCC
Q 013818          195 MPSTQLRNVKIKSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       195 ~P~~~~~~~~l~~~pv~e~~G~I~v~~~~~  224 (436)
                      +|+.    .+|++|||++++|.|||+++..
T Consensus        89 ~P~~----~~L~~~~v~v~~g~V~v~~~~~  114 (121)
T 3gce_A           89 LPCV----LPVRAYDVVVDGTEILVAPKEA  114 (121)
T ss_dssp             TTCC----SCCCBCCEEEETTEEEECCC--
T ss_pred             CCCc----CCcceEEEEEECCEEEEEECcc
Confidence            9984    4899999999999999998654

>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=1.8e-26  Score=197.27  Aligned_cols=103  Identities=14%  Similarity=0.016  Sum_probs=95.0

Q ss_pred             CceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCC-CCCCCcccCC----eEeCcCCCceeec-CC
Q 013818          117 NFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRAC-PLHLGSVNEG----RIQCPYHGWEYST-DG  190 (436)
Q Consensus       117 ~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~-~L~~g~~~~~----~l~CpyHgw~f~~-~G  190 (436)
                      ..|++|+.++||++|+++.+.+.|.+++|+|+.+|+++|++|+|||+|+ +|+.|.+++.    .|+||||||+||. ||
T Consensus         4 ~~w~~v~~~~el~~g~~~~~~~~g~~v~v~r~~~G~~~A~~n~CpH~g~~~L~~G~~~~~~g~~~i~CP~Hg~~Fdl~tG   83 (119)
T 3c0d_A            4 LTKVKLCQLDDLMPFIGATVLIEGERVALFYIPDSGVYAVQDWDPIGKAYVMSRGIVGDINGEMCVASPLYKQHFSLKSG   83 (119)
T ss_dssp             CCEEEEEEGGGSCBTCCEEEEETTEEEEEEEETTTEEEEEESEETTTTEECGGGSEEEESSSSEEEECTTTCCEEETTTC
T ss_pred             CccEEEEEHHHCCCCCeEEEEECCeEEEEEEecCCeEEEEeCCCCCCCCccCCCeEEcCCCCCeEEECCCCCCEEECCCC
Confidence            4699999999999999999999999999999989999999999999999 8999987532    8999999999997 99


Q ss_pred             CccccCCccccccccccCCeeeecCeEEEcCCCC
Q 013818          191 KCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       191 ~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~~~  224 (436)
                      +|+.+|+     .+|++|||++.+|.|||++++.
T Consensus        84 ~~~~~P~-----~~l~~~~v~v~~g~V~v~~~~~  112 (119)
T 3c0d_A           84 QCLEDEA-----HCLKTWRVTVDDNQVCYLAKEL  112 (119)
T ss_dssp             BBSSCTT-----CBCCEECEEESSSEEEEECCCC
T ss_pred             cCCCCCC-----ceeeEEEEEEECCEEEEEeCCc
Confidence            9999997     4799999999999999998653

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

Probab=99.93  E-value=3e-26  Score=193.97  Aligned_cols=100  Identities=18%  Similarity=0.203  Sum_probs=92.5

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCC-cEEEEecCCCCCCC-CCCCCccc---CC-eEeCcCCCceeec-CC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDG-IPGCVQNTCAHRAC-PLHLGSVN---EG-RIQCPYHGWEYST-DG  190 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG-~~~a~~n~CpHrg~-~L~~g~~~---~~-~l~CpyHgw~f~~-~G  190 (436)
                      .|+.|+.++||++|+++.+++.|.+++|+|+.+| +++|++|+|||+|+ +|+.|.+.   +. .|+||||||+||. ||
T Consensus         6 ~w~~v~~~~el~~g~~~~~~~~g~~i~v~r~~~g~~~~A~~n~CpH~g~~~L~~G~~~~~~g~~~i~CP~Hg~~Fd~~tG   85 (113)
T 2jo6_A            6 QWKDICKIDDILPETGVCALLGDEQVAIFRPYHSDQVFAISNIDPFFESSVLSRGLIAEHQGELWVASPLKKQRFRLSDG   85 (113)
T ss_dssp             CCEEEEETTTSCTTEEEEEEETTEEEEEEECSSSSCCEEEESSCSSSCCSCSTTSEEEEETTEEEEEETTTTEEEETTTT
T ss_pred             hheEEeeHHHCCCCCeEEEEECCEEEEEEEECCCCEEEEEeCcCCCCCCcccCCeEEeccCCCcEEECCCCCCEEeCCCc
Confidence            4999999999999999999999999999998899 69999999999999 79999875   23 8999999999997 99


Q ss_pred             CccccCCccccccccccCCeeeecCeEEEcCC
Q 013818          191 KCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPG  222 (436)
Q Consensus       191 ~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~  222 (436)
                      +|+.+|+     .+|++|||++.+|+|||+++
T Consensus        86 ~~~~~P~-----~~l~~~~v~v~~g~V~v~~~  112 (113)
T 2jo6_A           86 LCMEDEQ-----FSVKHYEARVKDGVVQLRGG  112 (113)
T ss_dssp             EETTTTT-----TCCCEEEEEEETTEEEEECC
T ss_pred             cCCCCCc-----ccccEEeEEEECCEEEEEcC
Confidence            9999997     47999999999999999874

>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=99.93  E-value=6.6e-26  Score=196.72  Aligned_cols=104  Identities=17%  Similarity=0.167  Sum_probs=94.7

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCC-cEEEEecCCCCCCC-CCCCCccc---C-CeEeCcCCCceeec-CC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDG-IPGCVQNTCAHRAC-PLHLGSVN---E-GRIQCPYHGWEYST-DG  190 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG-~~~a~~n~CpHrg~-~L~~g~~~---~-~~l~CpyHgw~f~~-~G  190 (436)
                      .|+.||.++||++|+++.+++.|++++|+|+.+| +++|++|+|||+|+ +|+.|.+.   + ..|+||||||+||. ||
T Consensus         3 ~w~~v~~~~el~~g~~~~~~~~g~~i~v~r~~~g~~v~A~~n~CpH~g~~~L~~G~~~~~~g~~~i~CP~Hg~~Fdl~tG   82 (130)
T 2jza_A            3 QWTTVCKLDDILPGTGVCALVEQQQIAVFRPRNDEQVYAISNIDPFAQASVLSRGIVAEHQDDLWVASPLKKQHFRLYDG   82 (130)
T ss_dssp             SEEEEEETTTSCTTBCCEEEETTEEEEEEBCSSSSCCEEEBCCCTTTSSGGGTSSEEEESSSSEEEECSSSCCEEETTTC
T ss_pred             ceEEEEEHHHCCCCCeEEEEECCcEEEEEEECCCCEEEEEeCcCCCCCCCcCCCccCcccCCCeEEECCCCCCEEeCCCc
Confidence            5999999999999999999999999999998788 99999999999999 59999864   2 38999999999997 99


Q ss_pred             CccccCCccccccccccCCeeeecCeEEEcCCCCCC
Q 013818          191 KCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       191 ~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      +|+.+|+     .+|++|||++++|+|||+++++++
T Consensus        83 ~~~~~P~-----~~L~~~~v~v~~g~V~V~~~~~~~  113 (130)
T 2jza_A           83 FCLEDGA-----YSVAAYDTQVTNGNVQISIADSDV  113 (130)
T ss_dssp             CBSSCCS-----SCCBCCCEEESSSEEEEECCCCCC
T ss_pred             CCCCCCc-----CcceEEEEEEECCEEEEEeCCCCC
Confidence            9999997     479999999999999999976543

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

Probab=99.92  E-value=5.6e-26  Score=203.45  Aligned_cols=111  Identities=23%  Similarity=0.372  Sum_probs=95.7

Q ss_pred             ccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccC----CeEeCcCCCceeec-C
Q 013818          115 LKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE----GRIQCPYHGWEYST-D  189 (436)
Q Consensus       115 ~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~----~~l~CpyHgw~f~~-~  189 (436)
                      ..+.|++||.++||++|+++.+++.|++|+|+| .+|+++|+.|+|||||++|+.|.+.+    +.|+||||||+||. |
T Consensus        13 ~~~~W~~v~~~~el~~g~~~~~~~~g~~i~v~r-~~G~v~A~~n~CpH~g~~L~~G~~~~~~g~~~i~CP~Hgw~Fdl~t   91 (157)
T 3d89_A           13 KKYTSVCVGREEDIRKSERMTAVVHDREVVIFY-HKGEYHAMDIRCYHSGGPLHLGEIEDFNGQSCIVCPWHKYKITLAT   91 (157)
T ss_dssp             -CCSCEEEEEHHHHHHHSEEEEEETTEEEEEEE-ETTEEEEEESBCTTTCCBGGGSEEEEETTEEEEECTTTCCEEETTT
T ss_pred             CCCceEEEEEHHHCCCCCeEEEEECCEEEEEEE-ECCEEEEEeCCCCCCCCCCcCCEecCcCCCCEEECCCCCCEEecCC
Confidence            457899999999998899999999999999999 69999999999999999999998753    68999999999997 9


Q ss_pred             CCccc--c-CCccc-------cccccccCCeeeecCeEEEcCCCCCC
Q 013818          190 GKCEK--M-PSTQL-------RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       190 G~~~~--~-P~~~~-------~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |+|+.  + |....       ...+|++|||++++|+|||+++++++
T Consensus        92 G~~~~~~i~P~~~~~~~~~~~~~~~L~~~~v~v~~G~V~V~~~~~~~  138 (157)
T 3d89_A           92 GEGLYQSINPKDPSAKPKWCSKGVKQRIHTVKVDNGNIYVTLSKEPF  138 (157)
T ss_dssp             CEEEEEECCCC-----CEEEEEEECSCEEEEEEETTEEEEECCCCSS
T ss_pred             cCEEEeccCCCccccccccccccCcceEEEEEEECCEEEEEeCCCCc
Confidence            99986  3 64211       13679999999999999999987543

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

Probab=99.92  E-value=1.5e-25  Score=191.47  Aligned_cols=101  Identities=19%  Similarity=0.213  Sum_probs=88.4

Q ss_pred             CceEEeeeCCCCCCCCeEEEEEc-CeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccC-----CeEeCcCCCceee-cC
Q 013818          117 NFWFPVAFSTDLKDDTMVPFDCF-EEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE-----GRIQCPYHGWEYS-TD  189 (436)
Q Consensus       117 ~~W~~v~~~~~l~~g~~~~~~~~-g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~-----~~l~CpyHgw~f~-~~  189 (436)
                      +.|++||.++||++|..+.+.+. |++|+|||..||+++|++|+|||+|++|+.|.+.+     ..|+||||||+|| .|
T Consensus         8 ~~W~~Vc~~~dL~~g~~~~~~~~~G~~v~l~r~~dG~v~A~~n~CpH~ga~L~~~~~~~~~~~~~~i~CP~Hg~~Fdl~t   87 (119)
T 4aiv_A            8 QVWTTACAYDHLIPGRGVGVLLDDGSQVALFRLDDGSVHAVGNVDPFSGAAVMSRGIVGDRGGRAMVQSPILKQAFALDD   87 (119)
T ss_dssp             EEEEEEEEGGGSCTTCCEEEECTTSCEEEEEECTTSCEEEEESBCTTTCCBCGGGSEEEEETTEEEEECTTTCCEEETTT
T ss_pred             cceeEeeEHHHcCCCCceEEEEcCCcEEEEEEcCCCeEEEEECCCCCCCCccccCceeccccCCCEEECCCCCCEEeCCC
Confidence            46999999999999988888885 79999999999999999999999999998765432     3699999999999 59


Q ss_pred             CCccccCCccccccccccCCee-eecCeEEEcCC
Q 013818          190 GKCEKMPSTQLRNVKIKSLPCF-EQEGMIWIWPG  222 (436)
Q Consensus       190 G~~~~~P~~~~~~~~l~~~pv~-e~~G~I~v~~~  222 (436)
                      |+|+..|..     ++++|||+ |.+|.|||...
T Consensus        88 G~~~~~p~~-----~l~~ypv~ve~dG~V~V~~~  116 (119)
T 4aiv_A           88 GSCLDDPRV-----SVPVYPARVTPEGRIQVARV  116 (119)
T ss_dssp             CBBSSCTTC-----BCCEECEEECTTSEEEEEEE
T ss_pred             CcCcCCCCC-----ccceEEEEEEeCCEEEEecC
Confidence            999999864     69999997 56899999763

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

Probab=99.89  E-value=9e-24  Score=191.72  Aligned_cols=144  Identities=13%  Similarity=0.119  Sum_probs=87.9

Q ss_pred             hHHHHHHhhhhhhhcccCCCCCCcc-CCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCCCCCe
Q 013818           55 KLAYMEALVNDRLLQDRHTSGTDQT-CASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLKDDTM  133 (436)
Q Consensus        55 ~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~~g~~  133 (436)
                      +-..|.++.||.||+++.++.++.+ ++-+....      +.+..     ..   ....+   -.+..||.++||++|++
T Consensus         3 ~~~~~~~~~rr~fl~~~~~a~~~~~~~~~~~~~~------~~~~~-----~~---~~~~~---~p~~~v~~~~dL~~g~~   65 (175)
T 4aay_B            3 RCQNMVDIGRRQFLRGGALAAAGATAAVFGVGAP------QARAA-----TA---AAGVE---YPANRLANISELTLNEP   65 (175)
T ss_dssp             -------------------------------------------------------CCSCC---CCCEEEEEGGGCBBTBC
T ss_pred             cchhhccccHHHHhhhhHHhhhheeEeccccccc------ccccc-----cc---CcccC---CCcceEEEHHHCCCCCE
Confidence            4467889999999997766555322 11111100      00000     00   01111   12458999999999999


Q ss_pred             EEEEEcC--eeEEEEEc---------CCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec--CCCccccCCccc
Q 013818          134 VPFDCFE--EPWVIFRG---------KDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST--DGKCEKMPSTQL  200 (436)
Q Consensus       134 ~~~~~~g--~~vvv~R~---------~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~--~G~~~~~P~~~~  200 (436)
                      +.+++.|  .+++|+|.         .+|+++|++|+|||+|++|++| .+++.|+||||||+||.  +|+|+.+|+.  
T Consensus        66 ~~v~~~~~~~pv~v~R~g~~~~~~r~~~G~v~A~~n~CpH~G~~L~~g-~~~~~i~CP~Hg~~Fd~~~tG~~~~gPa~--  142 (175)
T 4aay_B           66 LDVAYPDEDAAGVLLKLGTRVEGGVGPDGDIVGFSTICPHKGFPLSYS-ADNKTFNCPGHFSVFDPEKGGQQVWGQAT--  142 (175)
T ss_dssp             EEEESSSTTSEEEEEECSSCCTTCBTTTTCEEEEECBCTTTCCBCEEE-TTTTEEECTTTCCEEEGGGTTEEEECSCS--
T ss_pred             EEEEECCCCCEEEEEEcccccccccCCCCEEEEEeCCCCCCCCCCccC-CCCCEEEcCCCCCEECCCCCceEecCCCC--
Confidence            9999874  58999997         5999999999999999999998 57789999999999996  5999999984  


Q ss_pred             cccccccCCeee-ecCeEEEc
Q 013818          201 RNVKIKSLPCFE-QEGMIWIW  220 (436)
Q Consensus       201 ~~~~l~~~pv~e-~~G~I~v~  220 (436)
                        ..|+.||+++ .+|.||+-
T Consensus       143 --~~L~~y~v~vd~dG~V~av  161 (175)
T 4aay_B          143 --QNLPQYVLRVADNGDIFAE  161 (175)
T ss_dssp             --SCCCBEEEEECTTSEEEEE
T ss_pred             --CCcCEEEEEEEcCCEEEEE
Confidence              4799999998 68999963

>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=99.87  E-value=3.7e-22  Score=172.80  Aligned_cols=97  Identities=16%  Similarity=0.284  Sum_probs=88.9

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcC--------------------------CCcEEEEecCCCCCCCCCCCCc
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGK--------------------------DGIPGCVQNTCAHRACPLHLGS  171 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~--------------------------dG~~~a~~n~CpHrg~~L~~g~  171 (436)
                      .|+.+ ..++|++|+.+.+.+.|++++|+|..                          +|+++|++|+|||+|++|+.|.
T Consensus         5 ~~~~v-~~s~l~~G~~~~v~~~g~pv~v~r~~~~~~~~~~~~~~~~l~dp~~~~~r~~~g~~~a~~~~C~H~g~~l~~g~   83 (129)
T 1rie_A            5 SKIEI-KLSDIPEGKNMAFKWRGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIANA   83 (129)
T ss_dssp             SSEEE-EGGGSCTTCEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSSCCCGGGTCSSTTEEEEECCCTTTSCCCEETC
T ss_pred             CceEe-eHHHCCCCCEEEEEECCeEEEEEECCHHHHhhhhccccceecCcccccccccCCeEEEEECccCCCCeeccccc
Confidence            46666 88999999999999999999999963                          8999999999999999999998


Q ss_pred             ccCCeEeCcCCCceeecCCCccccCCccccccccccCCeee-ecCeEEE
Q 013818          172 VNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFE-QEGMIWI  219 (436)
Q Consensus       172 ~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e-~~G~I~v  219 (436)
                      ++++.|.||||||+||.+|+|+.+|+.    ..|+.||+++ .+|.|||
T Consensus        84 ~~~~~i~CP~Hg~~fd~~G~~~~~P~~----~~l~~~~v~v~~~~~v~v  128 (129)
T 1rie_A           84 GDFGGYYCPCHGSHYDASGRIRKGPAP----LNLEVPSYEFTSDDMVIV  128 (129)
T ss_dssp             TTTEEEEETTTTEEEETTCCEEESSCC----SCCCCCCEEESSSSEEEE
T ss_pred             CCCCEEEcCCCCCEEcCCCCEeeCCCC----CCCCceeEEEEeCCEEEE
Confidence            888899999999999999999999984    4799999998 8999987

>1rfs_A Rieske protein; iron-sulfur protein, electron transport; 1.83A {Spinacia oleracea} SCOP: b.33.1.1 PDB: 1q90_C*

Probab=99.85  E-value=5.3e-22  Score=173.92  Aligned_cols=101  Identities=17%  Similarity=0.274  Sum_probs=88.4

Q ss_pred             CceEEeee-CCCCCCCCeEEEE-EcCeeEEEEEcCCCcE--EEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCc
Q 013818          117 NFWFPVAF-STDLKDDTMVPFD-CFEEPWVIFRGKDGIP--GCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKC  192 (436)
Q Consensus       117 ~~W~~v~~-~~~l~~g~~~~~~-~~g~~vvv~R~~dG~~--~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~  192 (436)
                      ..|+.++. .+||++|..+.+. +.|.+++++|+.+|++  +|++|+|||+|++|++|. .++.|+||||||+||.||+|
T Consensus        20 g~~i~v~~~~~dlp~g~~~~~~~~~g~~~ilv~~~~G~i~~~A~~n~CpH~g~~L~~g~-~~~~i~CP~Hg~~Fd~tG~~   98 (139)
T 1rfs_A           20 GNDVIAAEWLKTHAPGDRTLTQGLKGDPTYLVVESDKTLATFGINAVCTHLGCVVPFNA-AENKFICPCHGSQYNNQGRV   98 (139)
T ss_dssp             SCBCBHHHHHHHSCTTCEEEEECGGGCEEEEEBCTTSSBCSEEEECBCTTTCCBCCEET-TTTEEECTTTCCEEETTCCE
T ss_pred             CCEEEeehhHhhCCCCccEEEEecCCCeEEEEEeCCCcEEEEEEeCcCCCCCCCCccCC-CCCEEEcCCCCCEECCCCCC
Confidence            45778877 8999987766655 5788888888899999  999999999999999887 46899999999999999999


Q ss_pred             cccCCccccccccccCCeeeecCeEEEcCC
Q 013818          193 EKMPSTQLRNVKIKSLPCFEQEGMIWIWPG  222 (436)
Q Consensus       193 ~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~  222 (436)
                      +.+|+.    ..|+.|||++.+|.|||.+.
T Consensus        99 ~~~P~~----~~L~~~~v~v~~g~V~V~~~  124 (139)
T 1rfs_A           99 VRGPAP----LSLALAHCDVDDGKVVFVPW  124 (139)
T ss_dssp             EESSCC----SCCCEEEEEEETTEEEEEEC
T ss_pred             ccCCCC----CCCCEEEEEEECCEEEEEeC
Confidence            999974    47999999999999999863

>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=99.85  E-value=2e-21  Score=169.00  Aligned_cols=97  Identities=18%  Similarity=0.217  Sum_probs=87.6

Q ss_pred             eEEeeeCCCCCCCCeEEEEEc--CeeEEEEEcC---------CCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceee
Q 013818          119 WFPVAFSTDLKDDTMVPFDCF--EEPWVIFRGK---------DGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYS  187 (436)
Q Consensus       119 W~~v~~~~~l~~g~~~~~~~~--g~~vvv~R~~---------dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~  187 (436)
                      |+.+|.++||++|+++.+.+.  |.+++|+|..         +|+++|++|+|||+|++|+++ .+++.|+||||||+||
T Consensus         8 ~~~v~~~~dl~~g~~~~~~~~~~g~~v~v~r~~~~~~~~~~~~g~~~A~~n~CpH~g~~L~~~-~~~~~i~CP~Hg~~Fd   86 (133)
T 1g8k_B            8 ATAVSVAKNLAANEPVSFTYPDTSSPCVAVKLGAPVPGGVGPDDDIVAYSVLCTHMGCPTSYD-SSSKTFSCPCHFTEFD   86 (133)
T ss_dssp             CEEEEEGGGCCBTCCEEEECSSTTSEEEEEECSSCCTTCBTTTTCEEEEECBCTTTCCBCEEE-TTTTEEECTTTCCEEE
T ss_pred             ceeEEEHHHCCCCCeEEEEecCCCceEEEEEccccccccccCCCEEEEEeCcCCCCCCCCCcc-cCCCEEECCCCCCEEC
Confidence            889999999999999999985  8999999975         999999999999999999984 4668999999999999


Q ss_pred             c--CCCccccCCccccccccccCCeeee--cCeEEEc
Q 013818          188 T--DGKCEKMPSTQLRNVKIKSLPCFEQ--EGMIWIW  220 (436)
Q Consensus       188 ~--~G~~~~~P~~~~~~~~l~~~pv~e~--~G~I~v~  220 (436)
                      .  +|+|+.+|+.    ..|+.|++++.  +|.|||.
T Consensus        87 ~~~~G~~~~gP~~----~~L~~~~v~v~~~g~~V~v~  119 (133)
T 1g8k_B           87 AEKAGQMICGEAT----ADLPRVLLRYDAASDALTAV  119 (133)
T ss_dssp             GGGTTEEEESSCS----SCCCEEEEEEETTTTEEEEE
T ss_pred             CCCCCCEEcCCCC----CCCCEEEEEEECCCCEEEEE
Confidence            7  8999999974    37999999988  6789984

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

Probab=99.70  E-value=1.5e-21  Score=169.25  Aligned_cols=97  Identities=16%  Similarity=0.303  Sum_probs=82.0

Q ss_pred             eeCCCCCCCCeEEEE-EcCeeEEEEEcCCCc--EEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCCcc
Q 013818          123 AFSTDLKDDTMVPFD-CFEEPWVIFRGKDGI--PGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQ  199 (436)
Q Consensus       123 ~~~~~l~~g~~~~~~-~~g~~vvv~R~~dG~--~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~  199 (436)
                      ...+++++|+...+. +.|.+.+++|..+|+  ++|++|+|||+|++|+.|. .++.|+||||||+||.+|+|+.+|+. 
T Consensus        21 ~~~~~l~~g~~~~v~~l~g~~~vlv~~~~G~~~v~A~~n~CpH~g~~L~~g~-~~~~i~CP~Hg~~Fd~tG~~~~~P~~-   98 (133)
T 3azc_A           21 EYLAKHLPGDRSLAQGIKGDPTYVIVTEDHQIANYGLNAVCTHLGCVVPWNV-SENKFICPCHGSQYDSTGKVVRGPAP-   98 (133)
Confidence            456778888776666 345566666667999  9999999999999999987 56899999999999999999999974 


Q ss_pred             ccccccccCCeee-ecCeEEEcCCCC
Q 013818          200 LRNVKIKSLPCFE-QEGMIWIWPGDE  224 (436)
Q Consensus       200 ~~~~~l~~~pv~e-~~G~I~v~~~~~  224 (436)
                         .+|++|||++ .+|.|||.++.+
T Consensus        99 ---~~L~~ypv~v~~~g~V~V~~~~e  121 (133)
T 3azc_A           99 ---LSLALVKATVTEDDKLVFTPWTE  121 (133)
Confidence               3799999999 999999987643

>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=99.79  E-value=2.8e-19  Score=163.74  Aligned_cols=98  Identities=17%  Similarity=0.160  Sum_probs=85.5

Q ss_pred             CceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcC--------------------------CCcEEEEecCCCCCCCCCCCC
Q 013818          117 NFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGK--------------------------DGIPGCVQNTCAHRACPLHLG  170 (436)
Q Consensus       117 ~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~--------------------------dG~~~a~~n~CpHrg~~L~~g  170 (436)
                      ..|+.| .+++|++|+.+++.+.|++++|+|..                          +|+++|+.|+|||+||.+..+
T Consensus        61 ~~~v~V-~~s~l~~G~~~~v~~~g~pv~v~r~~~~~i~~~~~~~~~~l~dp~~~~~r~~~g~~~a~~~iCtHlGc~p~~~  139 (185)
T 3cx5_E           61 MAKVEV-NLAAIPLGKNVVVKWQGKPVFIRHRTPHEIQEANSVDMSALKDPQTDADRVKDPQWLIMLGICTHLGCVPIGE  139 (185)
T ss_dssp             CCCEEE-EGGGCCTTCEEEEEETTEEEEEEECCHHHHHHHHCSCGGGCSSCCCSTTTCSSTTEEEEECCCTTTSCCCEEE
T ss_pred             cCcEEE-EHHHCCCCCeEEEEECCeEEEEEECCHHHhhhhhhcchhhhcCcccccccccCCeEEEEecccCCCCceeccC
Confidence            469999 69999999999999999999999974                          699999999999999965443


Q ss_pred             cccCCeEeCcCCCceeecCCCccccCCccccccccccCCeeeecCeEEE
Q 013818          171 SVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWI  219 (436)
Q Consensus       171 ~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e~~G~I~v  219 (436)
                      .++.+.|.||||||+||.+|+|+.+|+.    ..|..+|+...+|.|||
T Consensus       140 ~~~~~~~~CPcHGs~FD~~G~v~~gPa~----~~L~v~p~~v~~~~I~v  184 (185)
T 3cx5_E          140 AGDFGGWFCPCHGSHYDISGRIRKGPAP----LNLEIPAYEFDGDKVIV  184 (185)
T ss_dssp             ETTTTEEEETTTTEEECTTCCEEESSCC----SCCCCCCEEEETTEEEE
T ss_pred             CCCCCEEEcCCCCCEECCCCCEecCCCC----CCcceEEEEEECCEEEE
Confidence            3456899999999999999999999974    46888888888999987

>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=99.78  E-value=5.7e-19  Score=154.77  Aligned_cols=93  Identities=19%  Similarity=0.233  Sum_probs=83.8

Q ss_pred             eeCCCCCCCCeEEEEEcCeeEEEEEcC----------------------------------------CCcEEEEecCCCC
Q 013818          123 AFSTDLKDDTMVPFDCFEEPWVIFRGK----------------------------------------DGIPGCVQNTCAH  162 (436)
Q Consensus       123 ~~~~~l~~g~~~~~~~~g~~vvv~R~~----------------------------------------dG~~~a~~n~CpH  162 (436)
                      ..+++|++|+.+++...|+||+|.|..                                        +|+++|+.|+|||
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            467899999999999999999998841                                        7999999999999


Q ss_pred             CCCCCCC-CcccCCeEeCcCCCceeecCCCccccCCccccccccccCCeee-ecCeEEE
Q 013818          163 RACPLHL-GSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFE-QEGMIWI  219 (436)
Q Consensus       163 rg~~L~~-g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e-~~G~I~v  219 (436)
                      +||+|++ +.++++.|.||||||+||.+|+|+.+|+.    ..|..||++. .+|.|+|
T Consensus        86 ~G~~l~~~~~~~~~~~~CP~Hgs~Fd~~G~~~~gPa~----~~L~~~pv~v~~d~~i~v  140 (141)
T 2nwf_A           86 LGCVPIGGVSGDFGGWFCPCHGSHWDSAGRIRKGPAP----ENLPIPLAKFIDETTIQL  140 (141)
T ss_dssp             TCCCCEEEEETTTTEEEETTTTEEECTTSCEEESSCC----SCCCBCSEEESSSSEEEE
T ss_pred             CCeEccccCccCCCEEEcCCCCCEECCCCCCccCCCC----CCCCceeEEEEECCEEEE
Confidence            9999998 77667899999999999999999999984    4799999998 7899987

>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=99.78  E-value=7.2e-19  Score=161.39  Aligned_cols=96  Identities=21%  Similarity=0.231  Sum_probs=84.3

Q ss_pred             eEEeeeCCCCCCCCeEEEEEcCeeEEEEEc----------------------------------------CCCcEEEEec
Q 013818          119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRG----------------------------------------KDGIPGCVQN  158 (436)
Q Consensus       119 W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~----------------------------------------~dG~~~a~~n  158 (436)
                      |+.+ ..++|++|+.+.+.+.|++|+|+|.                                        .+|+++|+.|
T Consensus        49 ~v~v-~ls~l~~G~~~~v~~~g~pv~i~rrt~~~i~~~~~~~~~~l~dp~~~~~~~p~~~~~~~~~r~~~~~g~~~a~~~  127 (187)
T 2qjy_C           49 SIFV-DVSSVEPGVQLTVKFLGKPIFIRRRTEADIELGRSVQLGQLVDTNARNANIDAGAEATDQNRTLDEAGEWLVMWG  127 (187)
T ss_dssp             CEEE-ECTTCCTTEEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSCCBCCBTTSCTTCBCCGGGGSSSTTCCEEEEEC
T ss_pred             cEEE-EHHHCCCCCeEEEEECCEEEEEEECCHHHhhhhhccchhhccCcccccccccccccccccccccCCCCeEEEEeC
Confidence            5555 8899999999999999999999992                                        2899999999


Q ss_pred             CCCCCCCCCCC-CcccCCeEeCcCCCceeecCCCccccCCccccccccccCCeeee-cCeEEE
Q 013818          159 TCAHRACPLHL-GSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQ-EGMIWI  219 (436)
Q Consensus       159 ~CpHrg~~L~~-g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e~-~G~I~v  219 (436)
                      +|||+||+|++ +.++.+.|.||||||+||.+|+|+.+|+.    ..|+.||++.. +|.|+|
T Consensus       128 ~C~H~G~~l~~~~~g~~~~~~CP~Hg~~Fd~~G~~~~gPa~----~~L~~~~~~v~~d~~i~i  186 (187)
T 2qjy_C          128 VCTHLGCSPIGGVSGDFGGWFCPCHGSHYDSAGRIRKGPAP----ENLPIPLAKFIDETTIQL  186 (187)
T ss_dssp             CCTTTSCCCEEEEETTTTEEEETTTTEEECTTSCEEESSCC----SCCCBCSEEEEETTEEEE
T ss_pred             ccCCCCeECccCcCCCcCEEEeCCCCCEECCCCeEeCCCCC----CCCceEEEEEEeCCEEEE
Confidence            99999999998 34445899999999999999999999984    47999999875 689987

>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=99.78  E-value=5.2e-19  Score=163.21  Aligned_cols=94  Identities=17%  Similarity=0.293  Sum_probs=86.2

Q ss_pred             eeeCCCCCCCCeEEEEEcCeeEEEEEcC--------------------------CCcEEEEecCCCCCCCCCCCCcccCC
Q 013818          122 VAFSTDLKDDTMVPFDCFEEPWVIFRGK--------------------------DGIPGCVQNTCAHRACPLHLGSVNEG  175 (436)
Q Consensus       122 v~~~~~l~~g~~~~~~~~g~~vvv~R~~--------------------------dG~~~a~~n~CpHrg~~L~~g~~~~~  175 (436)
                      .+..++|++|+.+.+.+.|++++|+|..                          +|+++|+.|+|||+||+|+.|.++.+
T Consensus        75 ~v~ls~l~~G~~~~v~~~G~pV~V~r~t~~~i~~~~~~~~~~l~dp~~~~~r~~~ge~~a~~~~CtH~G~~l~~~~~~~~  154 (196)
T 1pp9_E           75 EIKLSDIPEGKNMAFKWRGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIANAGDFG  154 (196)
T ss_dssp             EEEGGGSCTTCEEEEEETTEEEEEEECCHHHHHHHHHSCTTTCSSCCCGGGTCSSTTEEEEECCCTTTSCCCEETCSTTS
T ss_pred             EEEHHHCCCCCeEEEEECCEEEEEEECCHHHHhhhhccccccccCcccccccccCCeEEEEECccCCCCeeccccCCCCC
Confidence            4788999999999999999999999862                          89999999999999999999987778


Q ss_pred             eEeCcCCCceeecCCCccccCCccccccccccCCeee-ecCeEEE
Q 013818          176 RIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFE-QEGMIWI  219 (436)
Q Consensus       176 ~l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e-~~G~I~v  219 (436)
                      .|.||||||+||.+|+++.+|+.    ..|..||++. .+|.|+|
T Consensus       155 ~~~CP~HGs~FD~~G~v~~gPa~----~~L~~~p~~v~~d~~I~v  195 (196)
T 1pp9_E          155 GYYCPCHGSHYDASGRIRKGPAP----LNLEVPSYEFTSDDMVIV  195 (196)
T ss_dssp             SEEETTTTEEECTTCCEEESSCC----SCCCCCCEEEETTTEEEE
T ss_pred             EEEeCCCCCEECCCCCCccCCCC----CCCcceeEEEEECCEEEE
Confidence            99999999999999999999984    4799999998 7899987

>1nyk_A Rieske iron-sulfur protein; beta barrel, iron sulfur cluster, electron transport; 1.31A {Thermus thermophilus} SCOP: b.33.1.1 PDB: 3fou_A

Probab=99.76  E-value=1e-18  Score=157.14  Aligned_cols=99  Identities=20%  Similarity=0.282  Sum_probs=82.0

Q ss_pred             eeCCCCCCCCeEEEEEcCee-------------EEEEEc-------------CCCcEEEEecCCCCCCCCCCCCcccCCe
Q 013818          123 AFSTDLKDDTMVPFDCFEEP-------------WVIFRG-------------KDGIPGCVQNTCAHRACPLHLGSVNEGR  176 (436)
Q Consensus       123 ~~~~~l~~g~~~~~~~~g~~-------------vvv~R~-------------~dG~~~a~~n~CpHrg~~L~~g~~~~~~  176 (436)
                      ...++|++|+.+.+..-|.+             +++.|-             .+| ++||+|+|||+||+|+.|.++++.
T Consensus        25 v~~sdl~~G~~~~~~~~g~p~~~~~r~~~~~~~~~~~~~~p~~~~~~~~~~~~~g-v~A~~~~CpH~G~~L~~g~~~~~~  103 (165)
T 1nyk_A           25 IRLEELKPGDPFVLAYPMDPKTKVVKSGEAKNTLLVARFDPEELAPEVAQHAAEG-VVAYSAVCTHLGCIVSQWVADEEA  103 (165)
T ss_dssp             CBGGGCCTTSCCEEEEEECTTTCCBCTTSGGGCEEEEECCGGGSCHHHHTTCBTT-EEEEECBCTTTCCBCCEEEGGGTE
T ss_pred             ecHHHCCCCCEEEEEeCCCcchhhccCcchhcchheeccChhhcCccccccccCC-EEEEEeecCCCCeEcccccCCCCE
Confidence            36788888888788765544             455564             355 999999999999999988888889


Q ss_pred             EeCcCCCceeec-CCC-ccccCCccccccccccCCeeeecCeEEEcCCCCCC
Q 013818          177 IQCPYHGWEYST-DGK-CEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       177 l~CpyHgw~f~~-~G~-~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |.||||||+||. +|. |+.+|+.    ..|..||+++.+|.|||+++...+
T Consensus       104 i~CP~Hgs~Fd~~tG~~~~~gPa~----~~L~~~~v~v~~g~V~v~~~~~~~  151 (165)
T 1nyk_A          104 ALCPCHGGVYDLRHGAQVIAGPPP----RPVPQLPVRVEDGVLVAAGEFLGP  151 (165)
T ss_dssp             EECTTTCCEEEGGGTTEEEESSCS----SCCCEECEEEETTEEEECSSCSSC
T ss_pred             EECCCCCCEEcCCCCCeeecCCCC----CCCcEEEEEEECCEEEEEecCccc
Confidence            999999999997 486 9999974    479999999999999999876544

>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=99.74  E-value=2.7e-19  Score=163.29  Aligned_cols=92  Identities=18%  Similarity=0.325  Sum_probs=82.1

Q ss_pred             CCCCCCCCeEEEE-EcCeeEEEEEcCCCcE--EEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCCcccc
Q 013818          125 STDLKDDTMVPFD-CFEEPWVIFRGKDGIP--GCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLR  201 (436)
Q Consensus       125 ~~~l~~g~~~~~~-~~g~~vvv~R~~dG~~--~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~  201 (436)
                      .+++++|+...+. +.|++++++|+.+|++  +|++|+|||+||+|+++. .++.|.||||||+||.+|+|+.+|+.   
T Consensus        70 ~~~l~~g~~~~~~~~~g~~~~lv~~~~g~~~~~a~~~~CtH~G~~l~~~~-~~~~~~CP~Hgs~Fd~~G~~~~gPa~---  145 (179)
T 1vf5_D           70 LESHNAGDRVLVQGLKGDPTYIVVESKEAIRDYGINAVCTHLGCVVPWNA-AENKFKCPCHGSQYDETGRVIRGPAP---  145 (179)
T ss_dssp             HHCCCTTCCCEESCSSSSCEECCBCTTCCBCSCCCBCBCTTTSCBCCBCS-SSSSEECTTTCCEECSSSCCCSSSCC---
T ss_pred             ccccCCCceEEEeccCCCeEEEEEECCCcEEEEEEeCccCCCCCCCcccC-CCCEEECCCCCCEECCCCcEecCCCC---
Confidence            4678888877776 6789999999999998  999999999999999987 45899999999999999999999974   


Q ss_pred             ccccccCCeeeecCeEEEcC
Q 013818          202 NVKIKSLPCFEQEGMIWIWP  221 (436)
Q Consensus       202 ~~~l~~~pv~e~~G~I~v~~  221 (436)
                       ..|+.||+++.+|.|||.+
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             4799999999999999965

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

Probab=99.64  E-value=1.4e-17  Score=154.63  Aligned_cols=85  Identities=18%  Similarity=0.284  Sum_probs=71.9

Q ss_pred             EEEEEcCeeEEEEEcC------------CCcEEEEecCCCCCCCCCCCCcc-----------cCCeEeCcCCCceeecC-
Q 013818          134 VPFDCFEEPWVIFRGK------------DGIPGCVQNTCAHRACPLHLGSV-----------NEGRIQCPYHGWEYSTD-  189 (436)
Q Consensus       134 ~~~~~~g~~vvv~R~~------------dG~~~a~~n~CpHrg~~L~~g~~-----------~~~~l~CpyHgw~f~~~-  189 (436)
                      +.+++.+..++++|+.            +|+++|+.|+|||+||+|+.|.+           .++.|.||||||+||.+ 
T Consensus        56 ~~v~v~~~~i~v~r~~~~~~r~~ggvg~~g~i~A~~n~CpH~G~~L~~g~~~p~~~~~~~~~~~~~i~CP~Hgs~FDl~t  135 (204)
T 1jm1_A           56 QITEIPNPYYGKYAGPLGQIQTIKGVGPNGTIFAFSDVCVHLGCQLPAQVIVSSESDPGLYAKGADLHCPCHGSIYALKD  135 (204)
T ss_dssp             CCCEEECTTTTSSCTTGGGCCEEECBTTTTCEEEEESBCTTTCCBCCTTEEESSTTSSEEETTTTEEECTTTCCEEEGGG
T ss_pred             ceEeeCCceEEEEecCccccccccccccCCEEEEEeCcCCCCCcCccccccccccccccccCCCCEEECCCCCCEEeCCC
Confidence            4567788888888876            89999999999999999998843           56899999999999986 


Q ss_pred             -CCccccCCccccccccccCCeeee--cCeEEEcCC
Q 013818          190 -GKCEKMPSTQLRNVKIKSLPCFEQ--EGMIWIWPG  222 (436)
Q Consensus       190 -G~~~~~P~~~~~~~~l~~~pv~e~--~G~I~v~~~  222 (436)
                       |+|+.+|+.    ..|+.|++...  +|.|||...
T Consensus       136 GG~v~~gPa~----~~L~~~~v~v~~~~g~v~v~g~  167 (204)
T 1jm1_A          136 GGVVVSGPAP----RPLPIVILDYDSSTGDIYAVGT  167 (204)
T ss_dssp             TSEEEESSCC----SCCCBEEEEECTTTCEEEEEEE
T ss_pred             CCeEecCCCC----CCCCeEeeEEEecCCEEEEEeC
Confidence             699999974    36888888866  899999753

---

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	436
d1z01a1	148	b.33.1.2 (A:16-163) 2-oxo-1,2-dihydroquinoline 8-m	2e-25
d2de6a1	142	b.33.1.2 (A:1-142) Terminal oxygenase component of	9e-25
d1vm9a_	109	b.33.1.1 (A:) Toluene-4-monooxygenase system prote	2e-18
d1fqta_	109	b.33.1.1 (A:) Rieske-type ferredoxin associated wi	6e-18
d1rfsa_	127	b.33.1.1 (A:) ISP subunit from chloroplast cytochr	1e-16
d2jzaa1	122	b.33.1.3 (A:1-122) NADH-nitrite reductase small su	8e-14
d2e74d1	134	b.33.1.1 (D:46-179) ISP subunit from the cytochrom	7e-13
d2jo6a1	108	b.33.1.3 (A:1-108) NADH-nitrite reductase small su	8e-13
d3c0da1	108	b.33.1.3 (A:4-111) NADH-nitrite reductase small su	7e-12
d1ulia1	154	b.33.1.2 (A:17-170) Biphenyl dioxygenase large sub	7e-11
d1g8kb_	133	b.33.1.1 (B:) Arsenite oxidase Rieske subunit {Alc	2e-09
d2bmoa1	150	b.33.1.2 (A:3-152) Nitrobenzene dioxygenase alpha	7e-09
d1nyka_	156	b.33.1.1 (A:) Soluble Rieske protein {Thermus ther	1e-08
d2b1xa1	162	b.33.1.2 (A:1-162) Naphthalene 1,2-dioxygenase alp	2e-07
d1jm1a_	202	b.33.1.1 (A:) Rieske protein II (SoxF) {Archaeon S	0.002
d1riea_	127	b.33.1.1 (A:) ISP subunit of the mitochondrial cyt	0.003

>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 = 98.7 bits (245), Expect = 2e-25
 Identities = 30/134 (22%), Positives = 53/134 (39%), Gaps = 12/134 (8%)

Query: 109 QPY---NTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRAC 165
           QPY        N W+P  F+ +L++D +        P V+ R  +G    +++ C HR  
Sbjct: 16  QPYKDAAWGFINHWYPALFTHELEEDQVQGIQICGVPIVLRR-VNGKVFALKDQCLHRGV 74

Query: 166 PLHLG--SVNEGRIQCPYHGWEYSTDGKCEKMPSTQ-----LRNVKIKSLPCFEQEGMIW 218
            L        +  I C YHG+ +  +               +    + + P  E  GMI+
Sbjct: 75  RLSEKPTCFTKSTISCWYHGFTFDLETGKLVTIVANPEDKLIGTTGVTTYPVHEVNGMIF 134

Query: 219 IWPG-DEPPTATIP 231
           ++   D+ P   +P
Sbjct: 135 VFVREDDFPDEDVP 148

>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 = 97.1 bits (241), Expect = 9e-25
 Identities = 37/135 (27%), Positives = 57/135 (42%), Gaps = 11/135 (8%)

Query: 102 LNVSGPVQPY---NTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQN 158
           L       PY       +N W+PV FS ++ +          E  ++ R  DG   C+++
Sbjct: 9   LKRVKGWAPYVDAKLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNR-IDGKLYCLKD 67

Query: 159 TCAHRACPLHLG--SVNEGRIQCPYHGWEYS-TDGKCEKMP----STQLRNVKIKSLPCF 211
            C HR   L +      +  I C YH W Y   DG    +     S Q+   K+K+ P  
Sbjct: 68  RCLHRGVQLSVKVECKTKSTITCWYHAWTYRWEDGVLCDILTNPTSAQIGRQKLKTYPVQ 127

Query: 212 EQEGMIWIWPGDEPP 226
           E +G ++I+ GD  P
Sbjct: 128 EAKGCVFIYLGDGDP 142

>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 = 78.5 bits (193), Expect = 2e-18
 Identities = 19/110 (17%), Positives = 35/110 (31%), Gaps = 7/110 (6%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFE-EPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRI 177
           +  +    D+    M  F+  +    +I   ++      Q  C H+   L  GS   G I
Sbjct: 2   FEKICSLDDIWVGEMETFETSDGTEVLIVNSEEHGVKAYQAMCPHQEILLSEGSYEGGVI 61

Query: 178 QCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP 226
            C  H W ++   G           +  +   P   +   I++      P
Sbjct: 62  TCRAHLWTFNDGTGHGINPD-----DAALAEYPVEVKGDDIYVSTKGILP 106

>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 = 77.0 bits (189), Expect = 6e-18
 Identities = 21/112 (18%), Positives = 37/112 (33%), Gaps = 9/112 (8%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQ 178
           +  V    D+ +   +  +       IF   DG     Q+ C H    L  G   EG + 
Sbjct: 3   FTRVCDRRDVPEGEALKVESGGTSVAIFN-VDGELFATQDRCTHGDWSLSDGGYLEGDVV 61

Query: 179 C-PYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIW--PGDEPP 226
               H  ++    GK +  P  +     +K  P   ++  + +    G   P
Sbjct: 62  ECSLHMGKFCVRTGKVKSPPPCE----ALKIFPIRIEDNDVLVDFEAGYLAP 109

>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 = 73.9 bits (181), Expect = 1e-16
 Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 5/86 (5%)

Query: 144 VIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNV 203
           V+   K      +   C H  C +   +  E +  CP HG +Y+  G+  + P+      
Sbjct: 39  VVESDKTLATFGINAVCTHLGCVVPFNAA-ENKFICPCHGSQYNNQGRVVRGPAPL---- 93

Query: 204 KIKSLPCFEQEGMIWIWPGDEPPTAT 229
            +    C   +G +   P  E    T
Sbjct: 94  SLALAHCDVDDGKVVFVPWTETDFRT 119

>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 = 65.8 bits (159), Expect = 8e-14
 Identities = 13/114 (11%), Positives = 27/114 (23%), Gaps = 10/114 (8%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGK-DGIPGCVQNTCAHRACPLH-----LGSV 172
           W  V    D+   T V     ++   +FR + D     + N        +          
Sbjct: 4   WTTVCKLDDILPGTGVCALVEQQQIAVFRPRNDEQVYAISNIDPFAQASVLSRGIVAEHQ 63

Query: 173 NEGRIQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP 226
           ++  +  P     +                  + +       G + I   D   
Sbjct: 64  DDLWVASPLKKQHFRLYDGFCLED----GAYSVAAYDTQVTNGNVQISIADSDV 113

>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 = 63.2 bits (153), Expect = 7e-13
 Identities = 19/101 (18%), Positives = 36/101 (35%), Gaps = 6/101 (5%)

Query: 130 DDTMVPFDCFEEPWVI-FRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST 188
           D  +V     +  +++    +      +   C H  C +   +  E + +CP HG +Y  
Sbjct: 32  DRVLVQGLKGDPTYIVVESKEAIRDYGINAVCTHLGCVVPWNAA-ENKFKCPCHGSQYDE 90

Query: 189 DGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPPTAT 229
            GK  + P+       +       Q+  I + P  E    T
Sbjct: 91  TGKVIRGPAPL----SLALCHATVQDDNIVLTPWTETDFRT 127

>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 = 62.5 bits (151), Expect = 8e-13
 Identities = 16/108 (14%), Positives = 32/108 (29%), Gaps = 12/108 (11%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFR-GKDGIPGCVQNTCAHRACPL-----HLGSV 172
           W  +    D+  +T V     +E   IFR         + N        +          
Sbjct: 4   WKDICKIDDILPETGVCALLGDEQVAIFRPYHSDQVFAISNIDPFFESSVLSRGLIAEHQ 63

Query: 173 NEGRIQCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWI 219
            E  +  P     +  +DG C +          +K      ++G++ +
Sbjct: 64  GELWVASPLKKQRFRLSDGLCMEDEQ-----FSVKHYEARVKDGVVQL 106

>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 = 59.8 bits (144), Expect = 7e-12
 Identities = 13/111 (11%), Positives = 29/111 (26%), Gaps = 11/111 (9%)

Query: 119 WFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSV-----N 173
              +    DL            E   +F   D     VQ+        +    +      
Sbjct: 3   KVKLCQLDDLMPFIGATVLIEGERVALFYIPDSGVYAVQDWDPIGKAYVMSRGIVGDING 62

Query: 174 EGRIQCPYHGWEYS-TDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGD 223
           E  +  P +   +S   G+C +  +       +K+      +  +     +
Sbjct: 63  EMCVASPLYKQHFSLKSGQCLEDEA-----HCLKTWRVTVDDNQVCYLAKE 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 = 58.3 bits (140), Expect = 7e-11
 Identities = 23/118 (19%), Positives = 38/118 (32%), Gaps = 9/118 (7%)

Query: 116 KNFWFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLH-LGSVN 173
              W  +   T +      +     E+P ++ R K+G      N C HR   +      N
Sbjct: 37  GRSWLLMGHETQIPKAGDFMTNYMGEDPVMVVRQKNGEIRVFLNQCRHRGMRICRADGGN 96

Query: 174 EGRIQCPYHGWEYSTDGKCEKMPSTQ-------LRNVKIKSLPCFEQEGMIWIWPGDE 224
                C YHGW Y T G    +P  +         +           +G+I+     +
Sbjct: 97  AKSFTCSYHGWAYDTGGNLVSVPFEEQAFPGLRKEDWGPLQARVETYKGLIFANWDAD 154

>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 = 53.5 bits (128), Expect = 2e-09
 Identities = 23/123 (18%), Positives = 38/123 (30%), Gaps = 21/123 (17%)

Query: 121 PVAFSTDLKDDTMVPF-------DCF----EEPWVIFRGKDGIPGCVQNTCAHRACPLHL 169
            V+ + +L  +  V F        C       P     G D         C H  CP   
Sbjct: 10  AVSVAKNLAANEPVSFTYPDTSSPCVAVKLGAPVPGGVGPDDDIVAYSVLCTHMGCPTSY 69

Query: 170 GSVNEGRIQCPYHGWEYS--TDGKCEKMPSTQ-LRNVKIK------SLPCFEQEGMIWIW 220
              +     CP H  E+     G+     +T  L  V ++      +L     +G+I+  
Sbjct: 70  D-SSSKTFSCPCHFTEFDAEKAGQMICGEATADLPRVLLRYDAASDALTAVGVDGLIYGR 128

Query: 221 PGD 223
             +
Sbjct: 129 QAN 131

>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 = 52.1 bits (124), Expect = 7e-09
 Identities = 23/116 (19%), Positives = 40/116 (34%), Gaps = 11/116 (9%)

Query: 116 KNFWFPVAFSTDLKD-DTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE 174
              W  +   + +      V      +  ++ R  DG      N C HR   L       
Sbjct: 32  ARNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQNDGSVRAFLNVCRHRGKTLVHAEAGN 91

Query: 175 G-RIQCPYHGWEYSTDGKCEKMPSTQ--------LRNVKIKSLPCFEQ-EGMIWIW 220
                C YHGW Y ++G+ + +P  +         + + +K +P  E   G I+  
Sbjct: 92  AKGFVCGYHGWGYGSNGELQSVPFEKELYGDAIKKKCLGLKEVPRIESFHGFIYGC 147

>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 = 51.6 bits (123), Expect = 1e-08
 Identities = 17/90 (18%), Positives = 28/90 (31%), Gaps = 8/90 (8%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEY--STDGKCEKMPS 197
             P V     +G+       C H  C +     +E    CP HG  Y      +    P 
Sbjct: 68  LAPEVAQHAAEGVV-AYSAVCTHLGCIVSQWVADEEAALCPCHGGVYDLRHGAQVIAGPP 126

Query: 198 TQLRNVKIKSLPCFEQEGMIWIW-PGDEPP 226
            +     +  LP   ++G++        P 
Sbjct: 127 PR----PVPQLPVRVEDGVLVAAGEFLGPV 152

>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 = 47.9 bits (113), Expect = 2e-07
 Identities = 23/116 (19%), Positives = 47/116 (40%), Gaps = 11/116 (9%)

Query: 116 KNFWFPVAFSTDLKDDT-MVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNE 174
            + W  +A  +++ +    V     E+ +++ R + G      N C HR   +    +  
Sbjct: 43  GHAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRGHLNACRHRGMQVCRAEMGN 102

Query: 175 GR-IQCPYHGWEYSTDGKCEKMPSTQ--------LRNVKIKSLPCFEQ-EGMIWIW 220
               +CPYHGW YS  G    +P+ +          +  ++ +P     +G+I+  
Sbjct: 103 TSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGS 158

>d1jm1a_ b.33.1.1 (A:) Rieske protein II (SoxF) {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 202

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]

 Score = 37.4 bits (86), Expect = 0.002
 Identities = 13/73 (17%), Positives = 21/73 (28%), Gaps = 13/73 (17%)

Query: 140 EEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVN-----------EGRIQCPYHGWEY-- 186
           +   +   G +G      + C H  C L    +               + CP HG  Y  
Sbjct: 72  QIQTIKGVGPNGTIFAFSDVCVHLGCQLPAQVIVSSESDPGLYAKGADLHCPCHGSIYAL 131

Query: 187 STDGKCEKMPSTQ 199
              G     P+ +
Sbjct: 132 KDGGVVVSGPAPR 144

>d1riea_ b.33.1.1 (A:) ISP subunit of the mitochondrial cytochrome bc1-complex, water-soluble domain {Cow (Bos taurus) [TaxId: 9913]} Length = 127

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]

 Score = 35.4 bits (81), Expect = 0.003
 Identities = 12/45 (26%), Positives = 17/45 (37%)

Query: 155 CVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQ 199
            +   C H  C     + + G   CP HG  Y   G+  K P+  
Sbjct: 65  ILIGVCTHLGCVPIANAGDFGGYYCPCHGSHYDASGRIRKGPAPL 109

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	436
d1ulia1	154	Biphenyl dioxygenase large subunit BphA1, N-termin	99.97
d2b1xa1	162	Naphthalene 1,2-dioxygenase alpha subunit, N-domai	99.97
d2bmoa1	150	Nitrobenzene dioxygenase alpha subunit, NBDO-alpha	99.97
d2de6a1	142	Terminal oxygenase component of carbazole CarAa {J	99.96
d1z01a1	148	2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygen	99.95
d2jzaa1	122	NADH-nitrite reductase small subunit NirD {Erwinia	99.92
d1vm9a_	109	Toluene-4-monooxygenase system protein C, TmoC {Ps	99.92
d2jo6a1	108	NADH-nitrite reductase small subunit NirD {Escheri	99.91
d1fqta_	109	Rieske-type ferredoxin associated with biphenyl di	99.9
d3c0da1	108	NADH-nitrite reductase small subunit NirD {Vibrio	99.9
d1rfsa_	127	ISP subunit from chloroplast cytochrome bf complex	99.78
d1g8kb_	133	Arsenite oxidase Rieske subunit {Alcaligenes faeca	99.74
d2e74d1	134	ISP subunit from the cytochrome b6f complex, solub	99.72
d1nyka_	156	Soluble Rieske protein {Thermus thermophilus [TaxI	99.62
d3cx5e1	129	ISP subunit of the mitochondrial cytochrome bc1-co	99.51
d1riea_	127	ISP subunit of the mitochondrial cytochrome bc1-co	99.46
d1z01a2	279	2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygen	99.29
d1jm1a_	202	Rieske protein II (SoxF) {Archaeon Sulfolobus acid	99.14
d2b1xa2	279	Naphthalene 1,2-dioxygenase alpha subunit, C-domai	97.88
d2bmoa2	287	Nitrobenzene dioxygenase alpha subunit, NBDO-alpha	97.75
d2de6a2	242	Terminal oxygenase component of carbazole CarAa {J	97.52
d1ulia2	281	Biphenyl dioxygenase large subunit BphA1, C-termin	97.42
d1wqla2	279	Large subunit of cumene dioxygenase cumA1 {Pseudom	97.27

>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=99.97  E-value=5.1e-32  Score=239.61  Aligned_cols=128  Identities=19%  Similarity=0.291  Sum_probs=116.1

Q ss_pred             cCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEEe
Q 013818           79 TCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQ  157 (436)
Q Consensus        79 ~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~~  157 (436)
                      +++..++|+++|+.|+++||+                 +.|++||++++|+ +|++++++++|++++|+|+.+|+++||.
T Consensus        17 l~~~~Y~~~~~~~~E~~~if~-----------------~~W~~v~~~~el~~~g~~~~~~i~~~~ilv~R~~~g~i~af~   79 (154)
T d1ulia1          17 LDPRIYTDEALYEQELERIFG-----------------RSWLLMGHETQIPKAGDFMTNYMGEDPVMVVRQKNGEIRVFL   79 (154)
T ss_dssp             ECGGGGTCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEEEEE
T ss_pred             CCHHHcCCHHHHHHHHHHHhc-----------------cCCEEEEEhhhCCCCcceeeeecCCcceeEEeecccceeeee
Confidence            677789999999999999985                 6699999999997 5999999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCc-ccCCeEeCcCCCceeecCCCccccCCcc-------ccccccccCCeeeecCeEEEcCCC
Q 013818          158 NTCAHRACPLHLGS-VNEGRIQCPYHGWEYSTDGKCEKMPSTQ-------LRNVKIKSLPCFEQEGMIWIWPGD  223 (436)
Q Consensus       158 n~CpHrg~~L~~g~-~~~~~l~CpyHgw~f~~~G~~~~~P~~~-------~~~~~l~~~pv~e~~G~I~v~~~~  223 (436)
                      |+|||||++|+.+. ++++.|+||||||+|+.+|+|+.+|..+       ....+|..++|.+++|+||||+++
T Consensus        80 N~C~HRG~~L~~~~~g~~~~l~CpYHgW~f~~~G~~~~iP~~~~~~~~~~~~~~~L~~~~v~~~~G~Ifv~~d~  153 (154)
T d1ulia1          80 NQCRHRGMRICRADGGNAKSFTCSYHGWAYDTGGNLVSVPFEEQAFPGLRKEDWGPLQARVETYKGLIFANWDA  153 (154)
T ss_dssp             SCCTTTCCCSCCSSEEECSCEECTTTCCEECTTCCEEECTTHHHHCTTCCGGGSSCCEEEEEEETTEEEEECCT
T ss_pred             cccccCCceeeecCCCccceEEeeeceeEEecCCccccCCcccccCCCCChHHCCCeEEeEEEECCEEEEEeCC
Confidence            99999999999854 5778999999999999999999999643       234678999999999999999964

>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=99.97  E-value=1.2e-31  Score=239.09  Aligned_cols=130  Identities=20%  Similarity=0.375  Sum_probs=116.1

Q ss_pred             CccCCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEE
Q 013818           77 DQTCASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGC  155 (436)
Q Consensus        77 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a  155 (436)
                      -..|++.++|+++|+.|++++|+                 +.|++||+++||+ +|++++++++|++++|+|+.||+++|
T Consensus        21 ~~lP~~~Y~d~~~f~~E~~~if~-----------------~~W~~v~~~~el~~~g~~~~~~~~~~~~vv~R~~dG~i~a   83 (162)
T d2b1xa1          21 WTVPAAIINDPEVHDVERERIFG-----------------HAWVFLAHESEIPERGDYVVRYISEDQFIVCRDEGGEIRG   83 (162)
T ss_dssp             CEEEGGGSSCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             ccCCHHHcCCHHHHHHHHHHHHc-----------------CCCEEEEEHHHcCCccceeeEeecCCceEEEecCCcceEE
Confidence            34678889999999999999985                 6699999999997 69999999999999999999999999


Q ss_pred             EecCCCCCCCCCCCCc-ccCCeEeCcCCCceeecCCCccccCCccc--------cccccccCC-eeeecCeEEEcCCC
Q 013818          156 VQNTCAHRACPLHLGS-VNEGRIQCPYHGWEYSTDGKCEKMPSTQL--------RNVKIKSLP-CFEQEGMIWIWPGD  223 (436)
Q Consensus       156 ~~n~CpHrg~~L~~g~-~~~~~l~CpyHgw~f~~~G~~~~~P~~~~--------~~~~l~~~p-v~e~~G~I~v~~~~  223 (436)
                      |.|+|||||++|+.|. +.++.|+||||||+||.+|+|+++|..+.        .+.+|+.++ |++++|+|||++++
T Consensus        84 ~~N~C~HRG~~l~~~~~g~~~~i~CpYHgW~yd~~G~l~~~P~~~~~~~~~~~~~~~~L~~~~~v~~~~GlIfv~ldP  161 (162)
T d2b1xa1          84 HLNACRHRGMQVCRAEMGNTSHFRCPYHGWTYSNTGSLVGVPAGKDAYGNQLKKSDWNLRPMPNLASYKGLIFGSLDP  161 (162)
T ss_dssp             EESSCTTTCCCSCCSSEEECSEEECTTTCCEEETTSCEEECTTTTTTTTTCCCGGGGSCCBCSEEEEETTEEEEESCT
T ss_pred             eecccccCcccccccccCccccccCCCceeEEcCCCCeEECCCcccCCCCCCChhhcCCeeeeeEEEECCEEEEEcCC
Confidence            9999999999999875 57789999999999999999999997542        245778886 78899999999964

>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=99.97  E-value=3.2e-31  Score=233.07  Aligned_cols=127  Identities=19%  Similarity=0.299  Sum_probs=113.5

Q ss_pred             CCCCCCChhhhHhhhcccCcccccccCCCCcccccccCceEEeeeCCCCC-CCCeEEEEEcCeeEEEEEcCCCcEEEEec
Q 013818           80 CASPSTSKQSLDIVKGKLPRKSLNVSGPVQPYNTRLKNFWFPVAFSTDLK-DDTMVPFDCFEEPWVIFRGKDGIPGCVQN  158 (436)
Q Consensus        80 ~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~W~~v~~~~~l~-~g~~~~~~~~g~~vvv~R~~dG~~~a~~n  158 (436)
                      +...++|+++|+.|+++||+                 +.|++||+++||+ +|++++++++|.+++|+|+.||+++||.|
T Consensus        13 ~~~~y~D~~~f~~E~~~if~-----------------~~W~~v~~~~elp~~Gd~~~~~i~~~~~vv~R~~dg~i~af~N   75 (150)
T d2bmoa1          13 KLLIHGDKELFQHELKTIFA-----------------RNWLFLTHDSLIPSPGDYVKAKMGVDEVIVSRQNDGSVRAFLN   75 (150)
T ss_dssp             EGGGGTCHHHHHHHHHHTTT-----------------TSCEEEEEGGGSCSTTEEEEEEETTEEEEEEECTTSCEEEEES
T ss_pred             CccccCCHHHHHHHHHHHHH-----------------cCCeEeehHHHcCCCcceeeeeecCceeEEEecCCCchhhhhh
Confidence            33468999999999999986                 5699999999997 69999999999999999999999999999


Q ss_pred             CCCCCCCCCCCCc-ccCCeEeCcCCCceeecCCCccccCCcc--------ccccccccCC-eeeecCeEEEcCCC
Q 013818          159 TCAHRACPLHLGS-VNEGRIQCPYHGWEYSTDGKCEKMPSTQ--------LRNVKIKSLP-CFEQEGMIWIWPGD  223 (436)
Q Consensus       159 ~CpHrg~~L~~g~-~~~~~l~CpyHgw~f~~~G~~~~~P~~~--------~~~~~l~~~p-v~e~~G~I~v~~~~  223 (436)
                      +|||||++|+.|. +..+.|+||||||+||.+|+|+++|..+        ....+|..+| |++++|+|||+++.
T Consensus        76 ~C~HRG~~L~~~~~g~~~~i~CpYHgW~yd~~G~l~~~P~~~~~~~~~~~~~~~~L~~~~~ve~~~G~Ifv~lda  150 (150)
T d2bmoa1          76 VCRHRGKTLVHAEAGNAKGFVCGYHGWGYGSNGELQSVPFEKELYGDAIKKKCLGLKEVPRIESFHGFIYGCFDA  150 (150)
T ss_dssp             BCTTTCCBCCCSSEEECSEEECTTTCCEEETTSCEEECTTHHHHTGGGCCGGGCCCCBCSEEEEETTEEEEESCT
T ss_pred             hcccccccccccccccccceEecccceeeccccchhcCCCccccCCCCCChhhCCCcccceEEEECCEEEEecCC
Confidence            9999999999987 4678999999999999999999999743        1246789998 77789999999963

>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=99.96  E-value=5.1e-30  Score=223.89  Aligned_cols=114  Identities=28%  Similarity=0.599  Sum_probs=101.1

Q ss_pred             cccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCc--ccCCeEeCcCCCceeec-
Q 013818          112 NTRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGS--VNEGRIQCPYHGWEYST-  188 (436)
Q Consensus       112 ~~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~--~~~~~l~CpyHgw~f~~-  188 (436)
                      ...|++.|++||+++||++|+++.+++.|++|+|+|+ +|+++|+.|+|||||++|+.|.  ..++.|+||||||+||. 
T Consensus        22 ~~~f~~~W~~v~~~~el~~g~~~~~~i~g~~ivv~r~-~g~v~a~~n~CpHrga~L~~g~~~~~~~~i~Cp~Hgw~fdl~  100 (142)
T d2de6a1          22 KLGFRNHWYPVMFSKEINEGEPKTLKLLGENLLVNRI-DGKLYCLKDRCLHRGVQLSVKVECKTKSTITCWYHAWTYRWE  100 (142)
T ss_dssp             TTCBSSEEEEEEEGGGSCBTCCEEEEETTEEEEEEEE-TTEEEEEESSCTTTCCCGGGGCCCCSTTEEECTTTCEEEETT
T ss_pred             hcCCcccCEEEEEHHHCCCCCeEEEEECCEEEEEEEc-CCEEEEEeCccCCCCccCCccccccccCEEeccceeeEEecc
Confidence            4457899999999999999999999999999999996 8999999999999999999875  34578999999999996 


Q ss_pred             CCCccccCCccc----cccccccCCeeeecCeEEEcCCCCCC
Q 013818          189 DGKCEKMPSTQL----RNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       189 ~G~~~~~P~~~~----~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      +|.|+.+|..+.    .+.+|++|||++++|+|||++++.+|
T Consensus       101 ~G~~~~~p~~~~~~~~~~~~l~~y~v~e~~G~I~v~l~d~~P  142 (142)
T d2de6a1         101 DGVLCDILTNPTSAQIGRQKLKTYPVQEAKGCVFIYLGDGDP  142 (142)
T ss_dssp             TCBEEEETTCTTCTTTTSCBCCBCCEEEETTEEEEEESSSSC
T ss_pred             CCceEecCCCcccCCccccCCCEEeEEEECCEEEEEeCCCCC
Confidence            899999987542    24679999999999999999986543

>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=99.95  E-value=8.5e-29  Score=217.56  Aligned_cols=112  Identities=23%  Similarity=0.507  Sum_probs=99.2

Q ss_pred             ccccCceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCc--ccCCeEeCcCCCceeec-C
Q 013818          113 TRLKNFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGS--VNEGRIQCPYHGWEYST-D  189 (436)
Q Consensus       113 ~~~~~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~--~~~~~l~CpyHgw~f~~-~  189 (436)
                      ..+.+.|++||.++||++|+++.++++|++|+|+| .+|+++||.|+|||||++|+.|.  +.++.|+||||||+||. +
T Consensus        23 ~~~~~~W~~v~~~~el~~g~~~~~~i~g~~vvl~~-~~g~i~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~fd~~~  101 (148)
T d1z01a1          23 WGFINHWYPALFTHELEEDQVQGIQICGVPIVLRR-VNGKVFALKDQCLHRGVRLSEKPTCFTKSTISCWYHGFTFDLET  101 (148)
T ss_dssp             TCBCSEEEEEEEGGGSCBTCEEEEEETTEEEEEEE-ETTEEEEEESSCTTTCCCGGGSCCCSSTTEEECTTTCEEEETTT
T ss_pred             cCcccccEEEEEHHHCCCCCeEEEEECCEEEEEEE-ECCEEEEEEeecCccccEeEccccccccCEEEecccCCEEecCc
Confidence            34689999999999999999999999999998876 59999999999999999999885  35679999999999996 6


Q ss_pred             CCccccCCccc----cccccccCCeeeecCeEEEcCCCCC
Q 013818          190 GKCEKMPSTQL----RNVKIKSLPCFEQEGMIWIWPGDEP  225 (436)
Q Consensus       190 G~~~~~P~~~~----~~~~l~~~pv~e~~G~I~v~~~~~~  225 (436)
                      |.|+.+|....    ...+|++|||++++|+||||+++++
T Consensus       102 G~~~~~p~~~~~~~~~~~~l~~y~v~~~~g~I~v~l~~~~  141 (148)
T d1z01a1         102 GKLVTIVANPEDKLIGTTGVTTYPVHEVNGMIFVFVREDD  141 (148)
T ss_dssp             CBEEEETTCTTCTTTTSCBCCEECEEEETTEEEEEECCTT
T ss_pred             ceEecccccccccCCccCCcceEEEEEECCEEEEEeCCCC
Confidence            99999887542    3578999999999999999997644

>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=99.92  E-value=2.5e-25  Score=188.88  Aligned_cols=105  Identities=18%  Similarity=0.180  Sum_probs=93.1

Q ss_pred             CceEEeeeCCCCCCCCeEEEEEcCeeEEEEEc-CCCcEEEEecCCCCCCCC-CCCCcc----cCCeEeCcCCCceeec-C
Q 013818          117 NFWFPVAFSTDLKDDTMVPFDCFEEPWVIFRG-KDGIPGCVQNTCAHRACP-LHLGSV----NEGRIQCPYHGWEYST-D  189 (436)
Q Consensus       117 ~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~-~dG~~~a~~n~CpHrg~~-L~~g~~----~~~~l~CpyHgw~f~~-~  189 (436)
                      ..|+.||.++||++|+.+.+.+.|++++|+|. .+|+++|+.|+|||+|++ |+.|.+    ++..|+||||||+||. |
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            36999999999999999999999999999995 579999999999999999 677765    3357999999999995 8


Q ss_pred             CCccccCCccccccccccCCeeeecCeEEEcCCCCCC
Q 013818          190 GKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       190 G~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |+|+..|+.     .|++|||++++|.|||++.+.+.
T Consensus        82 G~~~~~p~~-----~l~~~~v~v~~g~V~v~~~~~~~  113 (122)
T d2jzaa1          82 GFCLEDGAY-----SVAAYDTQVTNGNVQISIADSDV  113 (122)
T ss_dssp             CCBSSCCSS-----CCBCCCEEESSSEEEEECCCCCC
T ss_pred             ceeeecccc-----CCCccceEEECCEEEEEeCCcCc
Confidence            999999863     69999999999999999976543

>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=2.4e-25  Score=185.33  Aligned_cols=104  Identities=18%  Similarity=0.256  Sum_probs=94.5

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEc-CeeEEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-CCCcccc
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCF-EEPWVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-DGKCEKM  195 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~-g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-~G~~~~~  195 (436)
                      .|..||.++||++|+.+.+.+. |++++|+|..+|+++|+.|+|||+|++|+.|.++++.|+||||||+||. +|.|+..
T Consensus         1 ~w~~vc~~~dl~~g~~~~~~~~~g~~v~v~r~~~g~~~A~~~~CpH~g~~l~~g~~~~~~i~Cp~Hg~~F~l~~G~~~~p   80 (109)
T d1vm9a_           1 SFEKICSLDDIWVGEMETFETSDGTEVLIVNSEEHGVKAYQAMCPHQEILLSEGSYEGGVITCRAHLWTFNDGTGHGINP   80 (109)
T ss_dssp             CCEEEEEGGGSCTTCEEEEECTTCCEEEEEEETTTEEEEEESBCSSSSCBGGGSEEETTEEECTTTCCEEETTTCBBSSS
T ss_pred             CeeEEEEHHHCCCCCeEEEEecCCeEEEEEEeCCCeEEEEEeeCCCCCccceeEeccCCEEEcccCCceEECCCccCCCC
Confidence            4999999999999999999985 7999999999999999999999999999999998899999999999995 8999864


Q ss_pred             CCccccccccccCCeeeecCeEEEcCCCCCC
Q 013818          196 PSTQLRNVKIKSLPCFEQEGMIWIWPGDEPP  226 (436)
Q Consensus       196 P~~~~~~~~l~~~pv~e~~G~I~v~~~~~~~  226 (436)
                      |.     ..|+.|||++++|.|||.+++..|
T Consensus        81 ~~-----~~L~~~~v~v~~g~v~V~~~~~~P  106 (109)
T d1vm9a_          81 DD-----AALAEYPVEVKGDDIYVSTKGILP  106 (109)
T ss_dssp             SS-----CBCCEECEEEETTEEEECCTTCCC
T ss_pred             CC-----CCccEEeEEEECCEEEEEeCCCCC
Confidence            43     479999999999999999866544

>d2jo6a1 b.33.1.3 (A:1-108) NADH-nitrite reductase small subunit NirD {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: NirD-like
domain: NADH-nitrite reductase small subunit NirD
species: Escherichia coli [TaxId: 562]

Probab=99.91  E-value=1e-24  Score=181.17  Aligned_cols=99  Identities=18%  Similarity=0.203  Sum_probs=88.3

Q ss_pred             CceEEeeeCCCCCCCCeEEEEEcCeeEEEEE-cCCCcEEEEecCCCCCCCC-CCCCccc----CCeEeCcCCCceee-cC
Q 013818          117 NFWFPVAFSTDLKDDTMVPFDCFEEPWVIFR-GKDGIPGCVQNTCAHRACP-LHLGSVN----EGRIQCPYHGWEYS-TD  189 (436)
Q Consensus       117 ~~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R-~~dG~~~a~~n~CpHrg~~-L~~g~~~----~~~l~CpyHgw~f~-~~  189 (436)
                      ..|++||.++||++|+++.+.+.|++++||| ..+|+++|+.|+|||+|++ |+.|.+.    +..|+||||||+|| .|
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            3699999999999999999999999999999 4689999999999999998 6667653    23699999999999 58


Q ss_pred             CCccccCCccccccccccCCeeeecCeEEEc
Q 013818          190 GKCEKMPSTQLRNVKIKSLPCFEQEGMIWIW  220 (436)
Q Consensus       190 G~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~  220 (436)
                      |+|+..|..     +|++|||++.+|.|||.
T Consensus        82 G~~~~~p~~-----~l~~y~v~v~~g~V~V~  107 (108)
T d2jo6a1          82 GLCMEDEQF-----SVKHYEARVKDGVVQLR  107 (108)
T ss_dssp             TEETTTTTT-----CCCEEEEEEETTEEEEE
T ss_pred             ccCCCCCCC-----cccEEeEEEECCEEEEe
Confidence            999998863     69999999999999984

>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=99.90  E-value=5.1e-24  Score=177.19  Aligned_cols=102  Identities=18%  Similarity=0.262  Sum_probs=93.7

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCc-ccCCeEeCcCCCceeec-CCCcccc
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGS-VNEGRIQCPYHGWEYST-DGKCEKM  195 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~-~~~~~l~CpyHgw~f~~-~G~~~~~  195 (436)
                      .|+.||.++||++|+.+.+++.|.+++|+|. +|+++|++|+|||+|++|+.|. ++++.|+||+|||+||. ||+|+..
T Consensus         2 ~w~~v~~~~dl~~g~~~~~~~~~~~i~v~r~-~~~~~A~~~~CpH~g~~l~~g~~~~~~~i~Cp~H~~~F~l~tG~~~~~   80 (109)
T d1fqta_           2 KFTRVCDRRDVPEGEALKVESGGTSVAIFNV-DGELFATQDRCTHGDWSLSDGGYLEGDVVECSLHMGKFCVRTGKVKSP   80 (109)
T ss_dssp             CCEEEEEGGGSCTTCEEEEEETTEEEEEEEE-TTEEEEEESBCTTSSCBSSTTCCEETTEEECTTTCCEEETTTCCEEES
T ss_pred             cEEEeeEHHHCCCCCEEEEEECCEEEEEEEE-CCEEEEEEeeccccCcccccceeecCCEEEccccCCEEECCCccCccC
Confidence            5999999999999999999999999999996 7899999999999999999875 56789999999999995 8999999


Q ss_pred             CCccccccccccCCeeeecCeEEEcCCCC
Q 013818          196 PSTQLRNVKIKSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       196 P~~~~~~~~l~~~pv~e~~G~I~v~~~~~  224 (436)
                      |...    .|++||+++.+|.|||+++.+
T Consensus        81 p~~~----~l~~~~v~~~~g~i~v~~~~~  105 (109)
T d1fqta_          81 PPCE----ALKIFPIRIEDNDVLVDFEAG  105 (109)
T ss_dssp             SCCS----CCCBCCEEEETTEEEECTTCC
T ss_pred             CCCC----CCCEEeEEEECCEEEEEeCCC
Confidence            9853    699999999999999998754

>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=3.6e-24  Score=177.84  Aligned_cols=100  Identities=14%  Similarity=0.014  Sum_probs=89.0

Q ss_pred             ceEEeeeCCCCCCCCeEEEEEcCeeEEEEEcCCCcEEEEecCCCCCCCCCCCCc-c----cCCeEeCcCCCceee-cCCC
Q 013818          118 FWFPVAFSTDLKDDTMVPFDCFEEPWVIFRGKDGIPGCVQNTCAHRACPLHLGS-V----NEGRIQCPYHGWEYS-TDGK  191 (436)
Q Consensus       118 ~W~~v~~~~~l~~g~~~~~~~~g~~vvv~R~~dG~~~a~~n~CpHrg~~L~~g~-~----~~~~l~CpyHgw~f~-~~G~  191 (436)
                      .|+.||.++||++|+.+.+.+.|.+++|+|..+|+++|++|+|||+|++|..+. +    .+..|+||||||+|| .+|+
T Consensus         2 ~~v~vc~~~dl~~g~~~~~~~~g~~i~v~r~~~g~~~A~~~~CpH~g~~L~~~g~~~~~~~~~~i~Cp~Hg~~Fdl~tG~   81 (108)
T d3c0da1           2 TKVKLCQLDDLMPFIGATVLIEGERVALFYIPDSGVYAVQDWDPIGKAYVMSRGIVGDINGEMCVASPLYKQHFSLKSGQ   81 (108)
T ss_dssp             CEEEEEEGGGSCBTCCEEEEETTEEEEEEEETTTEEEEEESEETTTTEECGGGSEEEESSSSEEEECTTTCCEEETTTCB
T ss_pred             CcEEEEEHHHCCCCCEEEEEECCEEEEEEEeCCCCEEEEEccCCCCCcccccccEEEecCCceEEeccccccEEeccCCc
Confidence            589999999999999999999999999999989999999999999999987643 2    123699999999999 5999


Q ss_pred             ccccCCccccccccccCCeeeecCeEEEcCC
Q 013818          192 CEKMPSTQLRNVKIKSLPCFEQEGMIWIWPG  222 (436)
Q Consensus       192 ~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~  222 (436)
                      |+..|..     +|++|||++.+|.|||...
T Consensus        82 ~~~~p~~-----~l~~y~v~v~~g~V~V~~~  107 (108)
T d3c0da1          82 CLEDEAH-----CLKTWRVTVDDNQVCYLAK  107 (108)
T ss_dssp             BSSCTTC-----BCCEECEEESSSEEEEECC
T ss_pred             cccCCCC-----cccEEeEEEECCEEEEEec
Confidence            9988763     6999999999999999763

>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=99.78  E-value=3.7e-20  Score=157.34  Aligned_cols=94  Identities=18%  Similarity=0.348  Sum_probs=77.1

Q ss_pred             CCCCCCCeEEEE-EcCeeEEEEEc--CCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCCccccc
Q 013818          126 TDLKDDTMVPFD-CFEEPWVIFRG--KDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRN  202 (436)
Q Consensus       126 ~~l~~g~~~~~~-~~g~~vvv~R~--~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~  202 (436)
                      .+.++|+...+. +.|.++++++.  .+|+++||+|+|||+||+|.+|.. ++.|+||||||+||.+|+|+.+|+.    
T Consensus        18 ~~~~~G~~~l~~~~~g~~~~lvv~~d~~~~v~A~~~~C~H~g~~l~~~~~-~~~~~Cp~Hg~~Fd~~G~~~~~Pa~----   92 (127)
T d1rfsa_          18 KTHAPGDRTLTQGLKGDPTYLVVESDKTLATFGINAVCTHLGCVVPFNAA-ENKFICPCHGSQYNNQGRVVRGPAP----   92 (127)
T ss_dssp             HHSCTTCEEEEECGGGCEEEEEBCTTSSBCSEEEECBCTTTCCBCCEETT-TTEEECTTTCCEEETTCCEEESSCC----
T ss_pred             cccCCCcceeeeeecCCceEEEEEeCCCCEEEEEcCCCCCCCCCccCccc-CCeEEcCCCCeEECCCCCCCcCCCC----
Confidence            455667654444 56777666655  455899999999999999998864 4799999999999999999999985    


Q ss_pred             cccccCCeeeecCeEEEcCCCC
Q 013818          203 VKIKSLPCFEQEGMIWIWPGDE  224 (436)
Q Consensus       203 ~~l~~~pv~e~~G~I~v~~~~~  224 (436)
                      ..|+.|++++.+|.|||....+
T Consensus        93 ~~L~~~~v~v~~g~i~v~~~~~  114 (127)
T d1rfsa_          93 LSLALAHCDVDDGKVVFVPWTE  114 (127)
T ss_dssp             SCCCEEEEEEETTEEEEEECCS
T ss_pred             CCcceEeEEEECCEEEEEcCCc
Confidence            4899999999999999987543

>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=99.74  E-value=7.6e-19  Score=150.12  Aligned_cols=89  Identities=20%  Similarity=0.293  Sum_probs=76.4

Q ss_pred             EeeeCCCCCCCCeEEEEE--cCeeEEEEEc---------CCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec-
Q 013818          121 PVAFSTDLKDDTMVPFDC--FEEPWVIFRG---------KDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST-  188 (436)
Q Consensus       121 ~v~~~~~l~~g~~~~~~~--~g~~vvv~R~---------~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~-  188 (436)
                      .|+.+++|++|+++.+.+  .+.+.+++|.         .||+++||+|+|||+|++|+++. .++.|.||||||+||. 
T Consensus        10 ~v~~~~~l~~~~p~~f~yp~~~~p~~lVr~g~~v~~~~g~~g~i~A~~~~CpH~g~~l~~~~-~~~~i~Cp~Hg~~Fd~~   88 (133)
T d1g8kb_          10 AVSVAKNLAANEPVSFTYPDTSSPCVAVKLGAPVPGGVGPDDDIVAYSVLCTHMGCPTSYDS-SSKTFSCPCHFTEFDAE   88 (133)
T ss_dssp             EEEEGGGCCBTCCEEEECSSTTSEEEEEECSSCCTTCBTTTTCEEEEECBCTTTCCBCEEET-TTTEEECTTTCCEEEGG
T ss_pred             heEEHHHCCCCCCEEEeccCCCCCEEEEEcCCceeEEECCCCEEEEEehhcCCCCcccccCc-ccCEEECCCCCeEEecC
Confidence            789999999999999886  6788999885         46999999999999999999876 4579999999999995 


Q ss_pred             -CCCccccCCccccccccccCCeeeec
Q 013818          189 -DGKCEKMPSTQLRNVKIKSLPCFEQE  214 (436)
Q Consensus       189 -~G~~~~~P~~~~~~~~l~~~pv~e~~  214 (436)
                       +|+++.+|+.+    .|+.|+++..+
T Consensus        89 ~~G~~~~gPa~~----~L~~~~v~ve~  111 (133)
T d1g8kb_          89 KAGQMICGEATA----DLPRVLLRYDA  111 (133)
T ss_dssp             GTTEEEESSCSS----CCCEEEEEEET
T ss_pred             CCceEeCCCCCC----CCCeEeEEEEC
Confidence             69999999854    67778876543

>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=99.72  E-value=1.6e-18  Score=148.49  Aligned_cols=92  Identities=18%  Similarity=0.304  Sum_probs=71.4

Q ss_pred             CCCCCCe-EEEEEcCee--EEEEEcCCCcEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeecCCCccccCCcccccc
Q 013818          127 DLKDDTM-VPFDCFEEP--WVIFRGKDGIPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYSTDGKCEKMPSTQLRNV  203 (436)
Q Consensus       127 ~l~~g~~-~~~~~~g~~--vvv~R~~dG~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~~G~~~~~P~~~~~~~  203 (436)
                      ..++|+. ....+.|.+  +++.|+.+|+++||+|+|||+||+|++|.. ++.|.||||||+||.+|.|+.+|+.    .
T Consensus        27 ~~~~g~~~l~~~~~g~~~~~~v~~~~~g~~~A~~~~C~H~G~~l~~g~~-~~~~~Cp~Hg~~Fd~~G~~~~gPa~----~  101 (134)
T d2e74d1          27 SHNAGDRVLVQGLKGDPTYIVVESKEAIRDYGINAVCTHLGCVVPWNAA-ENKFKCPCHGSQYDETGKVIRGPAP----L  101 (134)
T ss_dssp             SSCSTTCEEEECGGGCEEEEC-----CCCSEEEECBCTTTCCBCCBCTT-TSCEEETTTTEEECSSSCBCSSSCC----S
T ss_pred             ccCCCceEeeeecCCCceEEEEEeCCCCcEEEEeccccCCEEEcccccc-CCccCCCCCCcEECCCCCEEeCCCC----C
Confidence            3344443 333445556  555577889999999999999999999985 4789999999999999999999984    4


Q ss_pred             ccccCCeeeecCeEEEcCCC
Q 013818          204 KIKSLPCFEQEGMIWIWPGD  223 (436)
Q Consensus       204 ~l~~~pv~e~~G~I~v~~~~  223 (436)
                      .|++|++++.+|.|||.+..
T Consensus       102 ~L~~y~v~v~~~~i~V~p~~  121 (134)
T d2e74d1         102 SLALCHATVQDDNIVLTPWT  121 (134)
T ss_dssp             CCCEEEEECCTTSCEEEECC
T ss_pred             CcceeeEEEECCEEEEeCCc
Confidence            79999999999999997644

>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=99.62  E-value=3.3e-16  Score=137.37  Aligned_cols=67  Identities=19%  Similarity=0.303  Sum_probs=60.2

Q ss_pred             cEEEEecCCCCCCCCCCCCcccCCeEeCcCCCceeec--CCCccccCCccccccccccCCeeeecCeEEEcCC
Q 013818          152 IPGCVQNTCAHRACPLHLGSVNEGRIQCPYHGWEYST--DGKCEKMPSTQLRNVKIKSLPCFEQEGMIWIWPG  222 (436)
Q Consensus       152 ~~~a~~n~CpHrg~~L~~g~~~~~~l~CpyHgw~f~~--~G~~~~~P~~~~~~~~l~~~pv~e~~G~I~v~~~  222 (436)
                      .++||+|+|||+||+|+.+...++.|.||||||+||.  .|.++.+|+.    ..|+.||+++.+|.|||.-+
T Consensus        79 ~i~A~~~~CtH~g~~l~~~~~~~~~~~Cp~Hgs~FD~~~gg~v~~gPa~----~~L~~~~~~~~~g~i~v~~d  147 (156)
T d1nyka_          79 GVVAYSAVCTHLGCIVSQWVADEEAALCPCHGGVYDLRHGAQVIAGPPP----RPVPQLPVRVEDGVLVAAGE  147 (156)
T ss_dssp             TEEEEECBCTTTCCBCCEEEGGGTEEECTTTCCEEEGGGTTEEEESSCS----SCCCEECEEEETTEEEECSS
T ss_pred             cEEEEcccCcccccccccccccCCeeeccccceEEecCCCceEeCCCCC----CCCCEEEEEEECCEEEEeec
Confidence            4899999999999999998888899999999999995  5888998874    47999999999999999643

>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=99.51  E-value=1.7e-14  Score=121.72  Aligned_cols=93  Identities=18%  Similarity=0.198  Sum_probs=81.5

Q ss_pred             eeCCCCCCCCeEEEEEcCeeEEEEEc--------------------------CCCcEEEEecCCCCCCCCCCCCcccCCe
Q 013818          123 AFSTDLKDDTMVPFDCFEEPWVIFRG--------------------------KDGIPGCVQNTCAHRACPLHLGSVNEGR  176 (436)
Q Consensus       123 ~~~~~l~~g~~~~~~~~g~~vvv~R~--------------------------~dG~~~a~~n~CpHrg~~L~~g~~~~~~  176 (436)
                      -.+++|++|+.+++..-|+|++|.|.                          .++++.++..+|+|.||.+.+.....+.
T Consensus        10 VDis~l~pG~~~~V~WrGkPVfI~~Rt~e~i~~~~~~~~~~l~dp~~~~~r~~~~~~~v~~~~CtHlGC~~~~~~~~~~~   89 (129)
T d3cx5e1          10 VNLAAIPLGKNVVVKWQGKPVFIRHRTPHEIQEANSVDMSALKDPQTDADRVKDPQWLIMLGICTHLGCVPIGEAGDFGG   89 (129)
T ss_dssp             EEGGGCCTTCEEEEEETTEEEEEEECCHHHHHHHHCSCGGGCSSCCCSTTTCSSTTEEEEECCCTTTSCCCEEEETTTTE
T ss_pred             EehhhCCCCCeEEEEeCCceEEEEecCHHHhhhccccccccccccccchhccccccEEEEEeeccCcceeeeeccCcCCe
Confidence            36788999999999999999988754                          2478999999999999999887666689


Q ss_pred             EeCcCCCceeecCCCccccCCccccccccccCCeeeecCeEEE
Q 013818          177 IQCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQEGMIWI  219 (436)
Q Consensus       177 l~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e~~G~I~v  219 (436)
                      |.|||||++||.+|+.+.+|+.    ..|..+|+...++.|.|
T Consensus        90 ~~CPCHgs~fd~~G~v~~GPA~----~~L~~~~~~~~~~~i~i  128 (129)
T d3cx5e1          90 WFCPCHGSHYDISGRIRKGPAP----LNLEIPAYEFDGDKVIV  128 (129)
T ss_dssp             EEETTTTEEECTTCCEEESSCC----SCCCCCCEEEETTEEEE
T ss_pred             EEEcCcCCCCCCCCCEEeCCCC----CCCCCCcEEEECCEEEE
Confidence            9999999999999999999984    58999999998887765

>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=99.46  E-value=1.2e-13  Score=116.02  Aligned_cols=91  Identities=19%  Similarity=0.299  Sum_probs=77.8

Q ss_pred             eCCCCCCCCeEEEEEcCeeEEEEEc--------------------------CCCcEEEEecCCCCCCCCCCCCcccCCeE
Q 013818          124 FSTDLKDDTMVPFDCFEEPWVIFRG--------------------------KDGIPGCVQNTCAHRACPLHLGSVNEGRI  177 (436)
Q Consensus       124 ~~~~l~~g~~~~~~~~g~~vvv~R~--------------------------~dG~~~a~~n~CpHrg~~L~~g~~~~~~l  177 (436)
                      .+++|++|+.+++..-|+|+.|.|.                          .++++.++..+|+|.||...+...+.+.|
T Consensus         8 DlS~lepG~~~~V~WrGkPvfV~rRt~e~i~~~~~~~~~~l~dp~~~~~r~~~~~~~~~~~~CtHlGC~~~~~~~~~~~f   87 (127)
T d1riea_           8 KLSDIPEGKNMAFKWRGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIANAGDFGGY   87 (127)
T ss_dssp             EGGGSCTTCEEEEEETTEEEEEEECCHHHHHHHHTCCGGGCSSCCCGGGTCSSTTEEEEECCCTTTSCCCEETCTTTEEE
T ss_pred             ehhhCCCCCEEEEEECCceeEEEecCHHHhhhhhccchhhhcCccccccccccceEEEEEeccCCCCceeecccccCCeE
Confidence            5678899999999999999998864                          26889999999999999988766555789


Q ss_pred             eCcCCCceeecCCCccccCCccccccccccCCeeeec-CeEE
Q 013818          178 QCPYHGWEYSTDGKCEKMPSTQLRNVKIKSLPCFEQE-GMIW  218 (436)
Q Consensus       178 ~CpyHgw~f~~~G~~~~~P~~~~~~~~l~~~pv~e~~-G~I~  218 (436)
                      .|||||++||.+|+.+.+|+    +..|..+|+...+ +.|-
T Consensus        88 ~CPCHgs~fd~~Grv~~GPA----p~~L~~p~~~~~~d~~v~  125 (127)
T d1riea_          88 YCPCHGSHYDASGRIRKGPA----PLNLEVPSYEFTSDDMVI  125 (127)
T ss_dssp             EETTTTEEEETTCCEEESSC----CSCCCCCCEEESSSSEEE
T ss_pred             EecCcCCcCCCCCCEEcCCC----CCCCCCCcEEEeCCCEEE
Confidence            99999999999999999997    4578889988765 4443

>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=99.29  E-value=1.6e-11  Score=117.02  Aligned_cols=199  Identities=14%  Similarity=0.143  Sum_probs=108.4

Q ss_pred             ecCeEEEcCCCCC--CCCCCCCCCC--CCCcEEeEEEEEEeecCchhhhhccCCCCCCCCCCcccccCC---CCCCc---
Q 013818          213 QEGMIWIWPGDEP--PTATIPCLLP--PSGFEIHAEIVMELPIEHGLLLDNLLDLAHAPFTHTSTFAKG---WSVPS---  282 (436)
Q Consensus       213 ~~G~I~v~~~~~~--~~~~lp~~~~--~~~~~~~~~~~~~~~~nwk~~~EN~~D~~H~~~vH~~t~~~~---~~~p~---  282 (436)
                      ..|++||++++..  |.+.+|+++.  .++..+.. ....++|||-..+||.+|++|+ |+|..+....   ...+.   
T Consensus         3 ~~~~~~~~~~~~~~~~~p~~p~~p~~~~~~~~~~~-~~~~~~~NWlQ~~En~iD~aH~-fLH~~s~~~~~~d~~~~~g~~   80 (279)
T d1z01a2           3 AHDLPFRFPERSEQFPHPLWPSSPSVLDDNAVVHG-MHRTGFGNWRIACENGFDNAHI-LVHKDNTIVHAMDWVLPLGLL   80 (279)
T ss_dssp             GGGSCCCTTTTTTTSCCTTSCCCCCTTSTTEEEEE-EEEEEESCHHHHHTTTTCTTGG-GGGTTCHHHHHTTCCCCSEEE
T ss_pred             ccCCceecCCccccCCCCCCCCCCcccCCCceEEE-EEEEeecchhhhhhcCcChhhe-eeecccccccccccccccccc
Confidence            4688999987643  3333444432  23444333 5668999999999999999998 9998653210   00000   


Q ss_pred             -----eeeeecCCCCCCcccc------------------------CCCccceecCCeeEEEEeeecCCCCcCCCCccccc
Q 013818          283 -----LVKFLTPASGLQGYWD------------------------PYPIDMEFRPPCMVLSTIGISKPGKLEGQNTRQCA  333 (436)
Q Consensus       283 -----~~~~~~~~~~~~~~~~------------------------~~~~~~~f~~P~~~~~~~~~~~~g~~~~~~~~~~~  333 (436)
                           ............+..+                        .+.....+..|+..+...   .|.           
T Consensus        81 ~~~~~~~~~~~~~~~p~g~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~P~~~~v~~---~p~-----------  146 (279)
T d1z01a2          81 PTSDDCIAVVEDDDGPKGMMQWLFTDKWAPVLENQELGLKVEGLKGRHYRTSVVLPGVLMVEN---WPE-----------  146 (279)
T ss_dssp             ECSTTSEEEECCSSSCCEEEECTTSTTEEEECEETTTTEECCCCCCCCCEEEEETTTEEEEET---CSS-----------
T ss_pred             cccccccceeeccCCCcceeeeeccccccceeecccCceecccccccccccceecCceeeccC---CCC-----------
Confidence                 0000000001111000                        001112344555443211   111           


Q ss_pred             ceeEEEEEeecCCCCceeeeeeeeccchhhccCcchHHHH---HHH-HHHHHHhhHHHHHHHHHhhccCCCC-CCCcccc
Q 013818          334 THLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPFMQYL---WRH-FAEQVLNEDLRLVLGQQERMNNGAN-VWNLPVG  408 (436)
Q Consensus       334 ~~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~~~~~---~~~-~~~~v~~ED~~ile~qq~~l~~g~~-~~~l~~~  408 (436)
                      ..+.++...+|+++++|++++.+++.+........+....   +.. -...|..||..++|+|++-...... ..|....
T Consensus       147 ~~~~~~~w~VPIDD~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~qD~~a~es~gpi~~~~~drt~E~L~~  226 (279)
T d1z01a2         147 EHVVQYEWYVPITDDTHEYWEILVRVCPTDEDRKKFQYRYDHMYKPLCLHGFNDSDLYAREAMQNFYYDGTGWDDEQLVA  226 (279)
T ss_dssp             TTCEEEEEEEESSSSEEEEEEEEEEECCSHHHHHHHHHHHHTTHHHHTTTTHHHHHHHHHHHHHHHHHTSHHHHHCCCCG
T ss_pred             CCceEEEEEcccCCCcEEEEEEEeecCCChhhhhHHHHHHHHhhcccccCCCchhhHHHHHccCcccccCCCCccccccc
Confidence            1133455568999999998877666543221111111111   111 1233778999999999997654321 2357789


Q ss_pred             CCHHHHHHHHHHHHHHccC
Q 013818          409 YDKLGVRYRLWRDALEKGA  427 (436)
Q Consensus       409 aD~~~v~~Rrwl~~l~~g~  427 (436)
                      +|+++++|||++.+..++-
T Consensus       227 sD~~Iv~~Rrll~~~~r~i  245 (279)
T d1z01a2         227 TDISPITWRKLASRWNRGI  245 (279)
T ss_dssp             GGHHHHHHHHHHHHHCSCB
T ss_pred             ccHHHHHHHHHHHHHHHhh
Confidence            9999999999988775443

>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=99.14  E-value=2.1e-11  Score=110.12  Aligned_cols=68  Identities=22%  Similarity=0.420  Sum_probs=57.1

Q ss_pred             cCCCcEEEEecCCCCCCCCCCCCc-----------ccCCeEeCcCCCceeec--CCCccccCCccccccccccCCeeee-
Q 013818          148 GKDGIPGCVQNTCAHRACPLHLGS-----------VNEGRIQCPYHGWEYST--DGKCEKMPSTQLRNVKIKSLPCFEQ-  213 (436)
Q Consensus       148 ~~dG~~~a~~n~CpHrg~~L~~g~-----------~~~~~l~CpyHgw~f~~--~G~~~~~P~~~~~~~~l~~~pv~e~-  213 (436)
                      +.+|+|+||+++|||.||++.+..           ..++.|.|||||++||.  +|+++.+|+.+    .|..++++.. 
T Consensus        80 Gp~~~ivA~s~iCtHlGC~~~~~~~~~~~~~~~~~~~~~~i~CpcHgS~FD~~~gG~v~~GPA~~----pLp~v~Le~d~  155 (202)
T d1jm1a_          80 GPNGTIFAFSDVCVHLGCQLPAQVIVSSESDPGLYAKGADLHCPCHGSIYALKDGGVVVSGPAPR----PLPIVILDYDS  155 (202)
T ss_dssp             TTTTCEEEEESBCTTTCCBCCTTEEESSTTSSEEETTTTEEECTTTCCEEEGGGTSEEEESSCCS----CCCBEEEEECT
T ss_pred             CCCCeEEEEeCcCCCCCCcccccccccccccccccCCCCEEEccCcCCEEcCCCCCeEeCCCCCC----CcCccEEEEeC
Confidence            468999999999999999997631           24578999999999995  59999999854    7899998865 


Q ss_pred             -cCeEEE
Q 013818          214 -EGMIWI  219 (436)
Q Consensus       214 -~G~I~v  219 (436)
                       .|.||+
T Consensus       156 ~~g~iyA  162 (202)
T d1jm1a_         156 STGDIYA  162 (202)
T ss_dssp             TTCEEEE
T ss_pred             CCCeEEE
Confidence             599994

>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=97.88  E-value=2.7e-05  Score=72.79  Aligned_cols=37  Identities=24%  Similarity=0.305  Sum_probs=30.6

Q ss_pred             CCcEEeE-EEEEEeecCchhhhhccC-CCCCCCCCCccc
Q 013818          237 SGFEIHA-EIVMELPIEHGLLLDNLL-DLAHAPFTHTST  273 (436)
Q Consensus       237 ~~~~~~~-~~~~~~~~nwk~~~EN~~-D~~H~~~vH~~t  273 (436)
                      .+.++.+ ..++.++||||+.+||++ |.||++++|.+.
T Consensus        24 ~glev~~g~~r~~i~~NWKl~~EN~~~D~YH~~~tH~S~   62 (279)
T d2b1xa2          24 AGLQVVGAPQRWVIDANWKLGADNFVGDAYHTMMTHRSM   62 (279)
T ss_dssp             SCEEECSCCEEEEESSCTHHHHHHHHHCCTTHHHHTHHH
T ss_pred             CceEEecCceEEEEcCCCchhhhcCCCcCCCccccchhH
Confidence            3456554 567899999999999986 999999999854

>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=97.75  E-value=1.2e-05  Score=75.14  Aligned_cols=36  Identities=19%  Similarity=0.297  Sum_probs=29.8

Q ss_pred             CcEEeE-EEEEEeecCchhhhhccC-CCCCCCCCCccc
Q 013818          238 GFEIHA-EIVMELPIEHGLLLDNLL-DLAHAPFTHTST  273 (436)
Q Consensus       238 ~~~~~~-~~~~~~~~nwk~~~EN~~-D~~H~~~vH~~t  273 (436)
                      +.++.+ ..++.++||||+.+||++ |.||++++|...
T Consensus        25 ~lev~~g~~r~~~~~NWKl~~ENf~~D~YH~~~~H~s~   62 (287)
T d2bmoa2          25 GLELVGPPGKVVVKANWKSFAENFVGDGYHVGWTHAAA   62 (287)
T ss_dssp             CEEEEEEEEEEEESSCHHHHHHHHHHBCTTHHHHTHHH
T ss_pred             CeEEEcceEEEEECCCcchHhhcccccccCCCccchhH
Confidence            455544 557889999999999986 999999999854

>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=97.52  E-value=0.00014  Score=64.66  Aligned_cols=94  Identities=13%  Similarity=0.162  Sum_probs=62.9

Q ss_pred             eeEEEEEeecCCCCceeeeeeeeccchhhccCcch---HHHHHH-HHHHHHHhhHHHHHHHHHhhccCCCC-CCCccccC
Q 013818          335 HLHQLHVCLPSSRKKTRLLYRMSLDFASVLKHVPF---MQYLWR-HFAEQVLNEDLRLVLGQQERMNNGAN-VWNLPVGY  409 (436)
Q Consensus       335 ~~~~~~~~~P~s~~~tr~~~~~~~~~~~~~~~~p~---~~~~~~-~~~~~v~~ED~~ile~qq~~l~~g~~-~~~l~~~a  409 (436)
                      ++.++-..+|+++++.+|+..+.+.-........|   ++..|+ .....+.++|+..-|++|.=+..+.. ..+.....
T Consensus       137 ~~~qyEwYVPId~~~h~Y~q~l~k~~~t~ee~~~F~~efe~~wk~~al~gFNddDi~AReamq~FY~dd~GW~~E~L~~p  216 (242)
T d2de6a2         137 DMMQFEWYVPIDENTHYYFQTLGKPCANDEERKKYEQEFESKWKPMALEGFNNDDIWAREAMVDFYADDKGWVNEILFES  216 (242)
T ss_dssp             TCEEEEEEEEEETTEEEEEEEEEEECSSHHHHHHHHHHHHHTHHHHTTTTTTHHHHHHHHHTHHHHHTSTHHHHCCCCGG
T ss_pred             CceEEEEEEEecCCcEEEEEEEEeecCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHhhhhhccCCCCcHhhccCc
Confidence            46677677999999999988776532211111111   122222 22356788999999999886665422 12466789


Q ss_pred             CHHHHHHHHHHHHHHccCC
Q 013818          410 DKLGVRYRLWRDALEKGAK  428 (436)
Q Consensus       410 D~~~v~~Rrwl~~l~~g~~  428 (436)
                      |..++++||...+..+|..
T Consensus       217 D~~Ii~WRklaS~~nRGIq  235 (242)
T d2de6a2         217 DEAIVAWRKLASEHNQGIQ  235 (242)
T ss_dssp             GHHHHHHHHHHHHHCSCBC
T ss_pred             cccHHHHHHHHHHhccccC
Confidence            9999999999999988864

>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=97.42  E-value=2.3e-05  Score=73.09  Aligned_cols=37  Identities=19%  Similarity=0.187  Sum_probs=29.8

Q ss_pred             CCcEEe-EEEEEEeecCchhhhhccC-CCCCCCCCCccc
Q 013818          237 SGFEIH-AEIVMELPIEHGLLLDNLL-DLAHAPFTHTST  273 (436)
Q Consensus       237 ~~~~~~-~~~~~~~~~nwk~~~EN~~-D~~H~~~vH~~t  273 (436)
                      .+.++. +..++.++||||+.+||++ |.||++++|...
T Consensus        24 ~g~ev~~g~~r~~~~~NWKl~~ENf~~D~YH~~~~H~~~   62 (281)
T d1ulia2          24 AGTEAIPGIQKWVIPCNWKFAAEQFCSDMYHAGTTSHLS   62 (281)
T ss_dssp             TCEEECSCCEEEEECSCHHHHHHHHHHBHHHHHTTTTHH
T ss_pred             CceEEecCceEEEecCCCeehhhcCCCCCccchhhhhhH
Confidence            355554 3457889999999999987 999999999754

>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=97.27  E-value=0.00016  Score=67.27  Aligned_cols=36  Identities=11%  Similarity=0.081  Sum_probs=28.5

Q ss_pred             CCcEEe-EEEEEEeecCchhhhhccC-CCCCCCCCCcc
Q 013818          237 SGFEIH-AEIVMELPIEHGLLLDNLL-DLAHAPFTHTS  272 (436)
Q Consensus       237 ~~~~~~-~~~~~~~~~nwk~~~EN~~-D~~H~~~vH~~  272 (436)
                      .++++. +..++.++||||+.+||+. |.||+..+|..
T Consensus        24 ~g~ev~~g~~r~~~~~NWKl~~ENf~~D~YH~~~~hh~   61 (279)
T d1wqla2          24 AVTQVITGMQKTVIPCNWKFAAEQFCSDMYHAGTMAHL   61 (279)
T ss_dssp             TCEEECSCCEEEEESSCHHHHHHHHHHBCHHHHTTTTH
T ss_pred             CceEEeccceEeeecCCceehhhcCCCCCcChhhhhhh
Confidence            345544 3567889999999999975 99999888864