Citrus Sinensis ID: 041524

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520----
Protein Sequence
TSLDPRCARRLTTRQLKRSFSLNLSRNFSHSSLDLPDGPGLHHFIAQSSLTASQPLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF
Secondary Structure (PSIPRED)
ccccHHHHHHHHccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccEEEEEccccccHHHHHHHHHHHHHccccccccccccccEEEEEcccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccEEEEEcHHHHHHHHHHHHHcccccEEEcccccccHHHHHHHHHccccEEEEEcccccccccccccccccccccEEEEEccccccccccEEccccccccccccHHHHHHHHHHHHHccccEEEEccccccccccccccccccccccccccccccccHHHcccccccHHHHHHHHHcccccccEEccccccccccHHHHHHHHcccccccccccccccccHHHHHHHcccccHHHHHHHHHHHHHHccccEEEcccEEccccccHHHHHHHHHHHHHcccccEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEccccccccccEEEEcccccEEEc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHccccccccccccHHHHcccccHHccccccccHcccccccHHcccccccccccccccccccccccccEEEEEEcccccccccHHHHHHHHHHcccccccccHHHccEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccEEEEcccHHHHHHHHHHHccccEEEEEcccHHHHHHHHHHHHHcccccEEEEEcccHHHHcccccccccccccEEEEEEEcccccEEEEEEEccccccccccHHHHHHHHHHHHHccccEEEEccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccEEEEcccccccccHHHHHHHHHccccHHHcccccccccHHHHHHHHccccHHHHHHHHHHHHHHccccEEEccEEEccccccHHHHHHHHHHHHHcccccEEEEEEccccccccHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcccccccccEEEccccccEEEEc
Coil and Loop (DISEMBL)
tsldprcarrltTRQLKRSFslnlsrnfshssldlpdgpglhhfiaqssltasqpladlapasevssatgsevhsqgriyqetygcqmnvNDMEIVLSIMKNagysevinvpenaeviFINTCAIRDYAEHKVWQRLNYFWFLKREWkknvatgrsqskhppkiVVLGCMAERLKdkildadkmvdvvcgpdayrdlprlleevdygQKGINTLLSLEetyadispvrisknSVTAFVSVMRGcnnmcsfcivpftrgrersrpvESIVKEVDELWKEGVKEVTLLGqnvnsyndtsgmekevepganwrlsegfnsMCKVKKMGLRFADLLDRLSlefpemrfrytsphpkdfpdELLYIMrdrpnvckyihlpaqtgnSAVLERMRRGYTREAYLDLVQKIRQIipdvglssdficgfcgeteeEHADTLTLMKAVGYDMAYMFAYSMRERTHAhrnyvddvpeEVKQRRLTELIEAFRestgqcydsqvGTVQLVLVegpnkkapdtelvgksdrghrvaf
Flexible Loop (DISEMBL)
tsldprcarrlttrqlkrsfslnlsrnfshSSLDLPDGPGLHHFIAQSSLTASQPLADLAPASEVSsatgsevhsqGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNvatgrsqskhppkivVLGCMAERLKDkildadkmvDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETyadispvrisKNSVTAFVSVMRGCNNMCSFCIVPftrgrersrpveSIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMrfrytsphpkdfpDELLYIMRDRPNVCKYihlpaqtgnsavLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHrnyvddvpeevKQRRLTELIEAFrestgqcydsQVGTVQLVLvegpnkkapdtelvgksdrghrvaf
Low Complexity Region (SEG)
TSLDPRCARRLTTRQLKRSFSLNLSRNFSHSSLDLPDGPGLHHFIAQSSLTASQPLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF
Disordered region (IsUnstruct)
*****************************************************************************RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVAT********PKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSY*************ANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLV************************
Disordered Region (DISOPRED)
****P*************************************************************************IYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKK*VA***SQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF
Disordered Region (DISEMBL)
TSLDPRCARRLTTRQLKRSFSLNLSRNFSHSSLDLPDGPGLHHFIAQSSLTASQPLADL****************QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKN*********HPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAP****************
Disordered Region (DISPRO)
**LDPRCARRLT*************************************************************HSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGM*************E*FNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
TSLDPRCARRLTTRQLKRSFSLNLSRNFSHSSLDLPDGPGLHHFIAQSSLTASQPLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF
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	524	2.2.26 [Sep-21-2011]
Q8H0V1	640	CDK5RAP1-like protein OS=	yes	no	0.982	0.804	0.754	0.0
Q2R1U4	600	CDK5RAP1-like protein OS=	yes	no	0.896	0.783	0.817	0.0
Q9JLH6	586	CDK5 regulatory subunit-a	yes	no	0.902	0.807	0.537	1e-146
Q8BTW8	588	CDK5 regulatory subunit-a	yes	no	0.902	0.804	0.533	1e-145
Q96SZ6	601	CDK5 regulatory subunit-a	yes	no	0.904	0.788	0.518	1e-143
Q9VGZ1	583	CDK5RAP1-like protein OS=	yes	no	0.902	0.811	0.519	1e-142
Q54KV4	607	CDK5RAP1-like protein OS=	yes	no	0.818	0.706	0.487	1e-130
Q09316	547	CDK5RAP1-like protein OS=	yes	no	0.896	0.859	0.474	1e-126
Q2RZF8	503	(Dimethylallyl)adenosine	yes	no	0.784	0.817	0.508	1e-125
Q11U26	481	(Dimethylallyl)adenosine	yes	no	0.786	0.856	0.503	1e-121

>sp|Q8H0V1|CK5P1_ARATH CDK5RAP1-like protein OS=Arabidopsis thaliana GN=At4g36390 PE=2 SV=1

 Score =  844 bits (2181), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 400/530 (75%), Positives = 457/530 (86%), Gaps = 15/530 (2%)

Query: 3   LDPRC---ARRLTTRQL--KRSFSLNLSRNFSHSSLDLP---DGPGLHHFIAQSSLTASQ 54
           L PRC     RLT + +  K+ FSLNLSR+FS S +      DGP LH F++ +   AS 
Sbjct: 51  LLPRCRSSTHRLTQKPINRKKGFSLNLSRSFSISQIASSGKFDGPSLHQFVSNAQAHASL 110

Query: 55  PLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPEN 114
                 P +E  S   S++ S+GRIY ETYGCQMN+NDMEIVL+IMKN+GY EV+  PE+
Sbjct: 111 T----TPETESESTLDSDIASKGRIYHETYGCQMNINDMEIVLAIMKNSGYKEVVTDPES 166

Query: 115 AEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERL 174
           AEVIF+NTCAIR+ AE +VWQRLNYFWFLKREWK N ATGR++S  PPK+VVLGCMAERL
Sbjct: 167 AEVIFVNTCAIRENAEQRVWQRLNYFWFLKREWKVNAATGRAKSLKPPKVVVLGCMAERL 226

Query: 175 KDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSV 234
           KDKILD+DKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRIS+NS+
Sbjct: 227 KDKILDSDKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISENSI 286

Query: 235 TAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYN 294
           TAFVSVMRGCNNMC+FCIVPFTRGRERSRPVESI++EV ELW+ GVKEVTLLGQNVNSYN
Sbjct: 287 TAFVSVMRGCNNMCAFCIVPFTRGRERSRPVESIIREVGELWESGVKEVTLLGQNVNSYN 346

Query: 295 DTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDF 354
           D S    + E GANW  SEGF+S CKVK MGLRFADLLDRLS+EFPEMRFR+TSPHPKD+
Sbjct: 347 DDSA---DRESGANWEYSEGFSSRCKVKNMGLRFADLLDRLSVEFPEMRFRFTSPHPKDY 403

Query: 355 PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSS 414
           PDELLY+MRDR N+C  IHLPAQ+GNS +LE+MRRGYTREAYLDLV+KIR IIPDV ++S
Sbjct: 404 PDELLYLMRDRHNICNLIHLPAQSGNSRILEQMRRGYTREAYLDLVKKIRSIIPDVAITS 463

Query: 415 DFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLT 474
           DFI GFCGETEEEH +TL+L++AVGYDMAYMFAYSMRE+THAHRNY DDVPEEVKQRRLT
Sbjct: 464 DFITGFCGETEEEHQETLSLVRAVGYDMAYMFAYSMREKTHAHRNYTDDVPEEVKQRRLT 523

Query: 475 ELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           ELI+AFRE+TG CYDSQVG+ QLVLVEGPNK+AP+TEL+GK+D+GHRV+F
Sbjct: 524 ELIDAFRETTGPCYDSQVGSTQLVLVEGPNKRAPETELIGKTDKGHRVSF 573

Potential regulator of CDK5 activity.
Arabidopsis thaliana (taxid: 3702)

>sp|Q2R1U4|CK5P1_ORYSJ CDK5RAP1-like protein OS=Oryza sativa subsp. japonica GN=Os11g0592800 PE=2 SV=1

 Score =  826 bits (2133), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 390/477 (81%), Positives = 432/477 (90%), Gaps = 7/477 (1%)

Query: 53  SQPLADLAPASEVSSA-----TGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSE 107
           S+PLA  A A+ VS A     +G    S+GRIY ETYGCQMNVNDMEIVLSIMKN GY E
Sbjct: 65  SRPLAASA-ATAVSEAQTDLESGPVTASKGRIYHETYGCQMNVNDMEIVLSIMKNEGYDE 123

Query: 108 VINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVL 167
           ++  PE+AE+IFINTCAIRD AE KVWQRLNYFWFLKR+WK NVA GRS+S  PPKI VL
Sbjct: 124 IVPDPESAEIIFINTCAIRDNAEQKVWQRLNYFWFLKRQWKANVAAGRSRSLRPPKIAVL 183

Query: 168 GCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPV 227
           GCMAERLK+KILD+DKMVDVVCGPDAYRDLPRLL+EVDYGQKGINTLLSLEETYADI+PV
Sbjct: 184 GCMAERLKEKILDSDKMVDVVCGPDAYRDLPRLLQEVDYGQKGINTLLSLEETYADITPV 243

Query: 228 RISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLG 287
           RIS NSVTAFVS+MRGCNNMCSFCIVPFTRGRERSRPV SIV+EV ELWK GVKEV LLG
Sbjct: 244 RISDNSVTAFVSIMRGCNNMCSFCIVPFTRGRERSRPVSSIVREVGELWKAGVKEVMLLG 303

Query: 288 QNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYT 347
           QNVNSYNDTS +E E+EPG NW LSEGF+SMCKVK MGLRFADLLD+LSLE+PEMRFR+T
Sbjct: 304 QNVNSYNDTSEVE-ELEPGKNWELSEGFSSMCKVKNMGLRFADLLDQLSLEYPEMRFRFT 362

Query: 348 SPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQII 407
           SPHPKD+PDELLY+MRDR NVCK IH+PAQ+G+SAVLERMRRGYTREAYL+LVQKIR II
Sbjct: 363 SPHPKDYPDELLYLMRDRHNVCKLIHMPAQSGSSAVLERMRRGYTREAYLELVQKIRSII 422

Query: 408 PDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEE 467
           PDVGLSSDFI GFCGETEEEHA+TLTL++AVGYDMAYMFAYSMRE+THAHRNYVDDVP++
Sbjct: 423 PDVGLSSDFISGFCGETEEEHAETLTLVRAVGYDMAYMFAYSMREKTHAHRNYVDDVPDD 482

Query: 468 VKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           VKQRRL ELI  FRE+T + YDSQVGTVQLVLVEGPNK+AP+TE++GK+DRGHRV+F
Sbjct: 483 VKQRRLAELISTFRETTAKIYDSQVGTVQLVLVEGPNKRAPETEMIGKTDRGHRVSF 539

Potential regulator of CDK5 activity.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9JLH6|CK5P1_RAT CDK5 regulatory subunit-associated protein 1 OS=Rattus norvegicus GN=Cdk5rap1 PE=1 SV=1

 Score =  518 bits (1335), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 266/495 (53%), Positives = 350/495 (70%), Gaps = 22/495 (4%)

Query: 35  LPDGPGLHHFIAQSSLTASQP----LADLAPASEVSSATGSEVHS-QGRIYQETYGCQMN 89
           L  GP   HF+  +S+   +P    + D  P       +G E+   Q ++Y ETYGCQMN
Sbjct: 55  LATGPTFQHFLRSASVPQEKPSSPEVEDPPPY-----LSGDELLGRQRKVYLETYGCQMN 109

Query: 90  VNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKK 149
           VND EI  SI++ +GY    N+ E A+VI + TC+IR+ AE  +W RL+    LK +   
Sbjct: 110 VNDTEIAWSILQKSGYLRTSNLQE-ADVILLVTCSIREKAEQTIWNRLHQLKVLKAK--- 165

Query: 150 NVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQK 209
                R +S+ P +I +LGCMAERLK +IL+ +KMVD++ GPDAYRDLPRLL  V+ GQ+
Sbjct: 166 -----RPRSRVPLRIGILGCMAERLKGEILNREKMVDLLAGPDAYRDLPRLLAVVESGQQ 220

Query: 210 GINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIV 269
             N LLSL+ETYADI PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRPV SI+
Sbjct: 221 AANVLLSLDETYADIMPVQTSPSATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPVASIL 280

Query: 270 KEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFA 329
            EV +L ++G+KEVTLLGQNVNS+ D S ++      AN  LS GF +  K K+ GLRF+
Sbjct: 281 DEVRKLSEQGLKEVTLLGQNVNSFRDNSEVQFSSTGSAN--LSRGFTTNYKPKQGGLRFS 338

Query: 330 DLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR 389
            LLD++S   PEMR R+TSPHPKDFPDE+L ++R+R N+CK IHLPAQ+G+S VLE MRR
Sbjct: 339 HLLDQVSRIDPEMRIRFTSPHPKDFPDEVLQLIRERHNICKQIHLPAQSGSSRVLEAMRR 398

Query: 390 GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYS 449
           GY+REAY+ LV  IR+ IP VGLSSDFI GFCGETE++H  T++L++ V Y+  ++FAYS
Sbjct: 399 GYSREAYVALVHHIREAIPGVGLSSDFITGFCGETEDDHLQTVSLLREVQYNTGFLFAYS 458

Query: 450 MRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPD 509
           MR++T A+    DDVPEEVK RRL ELI  FRE   +   + VG  QLVLVEG +K++  
Sbjct: 459 MRQKTRAYHRLKDDVPEEVKLRRLEELITVFREEASKVNATSVGCTQLVLVEGFSKRS-T 517

Query: 510 TELVGKSDRGHRVAF 524
           T+L G++D   +V F
Sbjct: 518 TDLCGRNDANLKVIF 532

Probable regulator of CDK5 activity. May inhibit CDK5 function via its interaction with CDK5R1.

Rattus norvegicus (taxid: 10116)

>sp|Q8BTW8|CK5P1_MOUSE CDK5 regulatory subunit-associated protein 1 OS=Mus musculus GN=Cdk5rap1 PE=2 SV=2

 Score =  516 bits (1329), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 264/495 (53%), Positives = 349/495 (70%), Gaps = 22/495 (4%)

Query: 35  LPDGPGLHHFIAQSSLTASQP----LADLAPASEVSSATGSEVHS-QGRIYQETYGCQMN 89
           L  GP   HF+  +S+   +P    + D  P       +G E+   Q ++Y ETYGCQMN
Sbjct: 57  LATGPTFQHFLRSASVPQEKPSSPEVEDPPPY-----LSGDELLGRQRKVYLETYGCQMN 111

Query: 90  VNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKK 149
           VND EI  SI++ +GY    N+ E A+VI + TC+IR+ AE  +W RL+    LK     
Sbjct: 112 VNDTEIAWSILQKSGYLRTSNLQE-ADVILLVTCSIREKAEQTIWNRLHQLKVLK----- 165

Query: 150 NVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQK 209
              T R +S+ P +I +LGCMAERLK +IL+ +KMVD++ GPDAYRDLPRLL  V+ GQ+
Sbjct: 166 ---TKRPRSRVPLRIGILGCMAERLKGEILNREKMVDLLAGPDAYRDLPRLLAVVESGQQ 222

Query: 210 GINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIV 269
             N LLSL+ETYADI PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRPV SI+
Sbjct: 223 AANVLLSLDETYADIMPVQTSPSATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPVASIL 282

Query: 270 KEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFA 329
            EV +L ++G+KEVTLLGQNVNS+ D S ++      AN  LS GF +  K K+ GLRF+
Sbjct: 283 DEVRKLSEQGLKEVTLLGQNVNSFRDNSEVQFNNAGSAN--LSRGFTTNYKPKQGGLRFS 340

Query: 330 DLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR 389
            LLD++S   PEMR R+TSPHPKDFPDE+L ++R+R N+CK IHLPAQ+G+S VL+ MRR
Sbjct: 341 HLLDQVSRIDPEMRIRFTSPHPKDFPDEVLQLIRERHNICKQIHLPAQSGSSRVLDAMRR 400

Query: 390 GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYS 449
           GY+REAY+ LV  +R+ IP V LSSDFI GFCGETE++H  T++L++ V Y+  ++FAYS
Sbjct: 401 GYSREAYVALVHHVRETIPGVSLSSDFITGFCGETEDDHRQTVSLLREVQYNTGFLFAYS 460

Query: 450 MRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPD 509
           MR++T A+    DDVPEEVK RRL ELI  FRE   +   + VG  QLVLVEG +K++  
Sbjct: 461 MRQKTRAYHRLKDDVPEEVKLRRLEELITVFREEASKANKTSVGCSQLVLVEGFSKRS-T 519

Query: 510 TELVGKSDRGHRVAF 524
           T+L G++D   +V F
Sbjct: 520 TDLCGRNDANLKVIF 534

Probable regulator of CDK5 activity. May inhibit CDK5 function via its interaction with CDK5R1.

Mus musculus (taxid: 10090)

>sp|Q96SZ6|CK5P1_HUMAN CDK5 regulatory subunit-associated protein 1 OS=Homo sapiens GN=CDK5RAP1 PE=1 SV=2

 Score =  509 bits (1310), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 263/507 (51%), Positives = 345/507 (68%), Gaps = 33/507 (6%)

Query: 35  LPDGPGLHHFIAQSSLTA---SQPLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVN 91
           L  GP   HF+  +S      S  + D  P   +    G     Q ++Y ETYGCQMNVN
Sbjct: 59  LAAGPTFQHFLKSASAPQEKLSSEVEDPPPYLMMDELLGR----QRKVYLETYGCQMNVN 114

Query: 92  DMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNV 151
           D EI  SI++ +GY    N+ E A+VI + TC+IR+ AE  +W RL+    LK       
Sbjct: 115 DTEIAWSILQKSGYLRTSNLQE-ADVILLVTCSIREKAEQTIWNRLHQLKALK------- 166

Query: 152 ATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGI 211
            T R +S+ P +I +LGCMAERLK++IL+ +KMVD++ GPDAYRDLPRLL   + GQ+  
Sbjct: 167 -TRRPRSRVPLRIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAA 225

Query: 212 NTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKE 271
           N LLSL+ETYAD+ PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRP+ SI++E
Sbjct: 226 NVLLSLDETYADVMPVQTSASATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPIASILEE 285

Query: 272 VDELWKE--------------GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNS 317
           V +L ++              G+KEVTLLGQNVNS+ D S  E +        LS GF +
Sbjct: 286 VKKLSEQVFLPPRPPKVLGLQGLKEVTLLGQNVNSFRDNS--EVQFNSAVPTNLSRGFTT 343

Query: 318 MCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQ 377
             K K+ GLRFA LLD++S   PEMR R+TSPHPKDFPDE+L ++ +R N+CK IHLPAQ
Sbjct: 344 NYKTKQGGLRFAHLLDQVSRVDPEMRIRFTSPHPKDFPDEVLQLIHERDNICKQIHLPAQ 403

Query: 378 TGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKA 437
           +G+S VLE MRRGY+REAY++LV  IR+ IP V LSSDFI GFCGETEE+H  T++L++ 
Sbjct: 404 SGSSRVLEAMRRGYSREAYVELVHHIRESIPGVSLSSDFIAGFCGETEEDHVQTVSLLRE 463

Query: 438 VGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQL 497
           V Y+M ++FAYSMR++T A+    DDVPEEVK RRL ELI  FRE   +   + VG  QL
Sbjct: 464 VQYNMGFLFAYSMRQKTRAYHRLKDDVPEEVKLRRLEELITIFREEATKANQTSVGCTQL 523

Query: 498 VLVEGPNKKAPDTELVGKSDRGHRVAF 524
           VLVEG +K++  T+L G++D   +V F
Sbjct: 524 VLVEGLSKRSA-TDLCGRNDGNLKVIF 549

Specifically inhibits CDK5 activation by CDK5R1.

Homo sapiens (taxid: 9606)

>sp|Q9VGZ1|CK5P1_DROME CDK5RAP1-like protein OS=Drosophila melanogaster GN=CG6345 PE=2 SV=1

 Score =  506 bits (1303), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 253/487 (51%), Positives = 334/487 (68%), Gaps = 14/487 (2%)

Query: 38  GPGLHHFIAQSSLTASQPLADLAPASEVSSATGSEVHSQGR-IYQETYGCQMNVNDMEIV 96
           GPG   F A    +  +   +    + V      + +  GR ++ E YGCQMN ND E+V
Sbjct: 52  GPGFQDFFAVKPASRLKTDEEEHVDTSVPYLNSIDFNGNGRKVHFEVYGCQMNTNDTEVV 111

Query: 97  LSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS 156
            SI+K  GY      PE A+VI + TCA+RD AE ++  RL +   +K +        RS
Sbjct: 112 FSILKENGYLRC-QEPEEADVIMLVTCAVRDGAEQRIRNRLKHLRAMKNK--------RS 162

Query: 157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLE-EVDYGQKGINTLL 215
             +HP ++ +LGCMAERLK+K+L+ ++ VDV+ GPD+Y+DLPRLL     YG   IN LL
Sbjct: 163 TRRHPLQLTLLGCMAERLKEKLLEQEQCVDVIAGPDSYKDLPRLLAISRHYGNSAINVLL 222

Query: 216 SLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDEL 275
           SL+ETYAD+ PVR++  S TAFVS+MRGC+NMC++CIVPFTRGRERSRP+ SIV EV  L
Sbjct: 223 SLDETYADVMPVRLNSESPTAFVSIMRGCDNMCTYCIVPFTRGRERSRPLASIVAEVKAL 282

Query: 276 WKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRL 335
            ++GVKEVTLLGQNVNSY D +  E++    A      GF+++ K K  G  FA LL  +
Sbjct: 283 AEQGVKEVTLLGQNVNSYRDRTAQEEQDSLKATP--VPGFSTVYKPKTGGTPFAALLRSV 340

Query: 336 SLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREA 395
           +   P+MR R+TSPHPKDF DE+L ++RD PNVCK +HLPAQ+GN+ VLERMRRGY+REA
Sbjct: 341 AQAVPDMRIRFTSPHPKDFSDEVLEVIRDHPNVCKQLHLPAQSGNTQVLERMRRGYSREA 400

Query: 396 YLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTH 455
           YL+LVQ IRQ +P+VGLSSDFICGFCGETEEE  DT++L++ V Y++AY+FAYSMRE+T 
Sbjct: 401 YLELVQHIRQFLPNVGLSSDFICGFCGETEEEFQDTVSLIQQVQYNVAYLFAYSMREKTT 460

Query: 456 AHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGK 515
           AHR Y DDVP  VK  RL  +++ FRE   Q +    G  QL+L+EG +K++ D    G+
Sbjct: 461 AHRRYKDDVPINVKNERLQRMVQVFREGATQLHRKMEGQEQLILIEGKSKRS-DAHWFGR 519

Query: 516 SDRGHRV 522
           +D   +V
Sbjct: 520 NDANIKV 526

Potential regulator of CDK5 activity.

Drosophila melanogaster (taxid: 7227)

>sp|Q54KV4|CK5P1_DICDI CDK5RAP1-like protein OS=Dictyostelium discoideum GN=cdk5rap1 PE=3 SV=1

 Score =  464 bits (1195), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 225/462 (48%), Positives = 330/462 (71%), Gaps = 33/462 (7%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           +++ ETYGCQMNV+D E++ SIMK++GY+ + N    A+++F+NTC+IR+ AE K+W RL
Sbjct: 108 KVWIETYGCQMNVSDEEVICSIMKSSGYT-ISNDFNTADIVFLNTCSIRENAEAKIWLRL 166

Query: 138 NYFWFLKR-EWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRD 196
                ++R + + N+  G           VLGCMAERLK+K+L++D  VD+V GPDAYR 
Sbjct: 167 TELRAIRRKQGRPNLIVG-----------VLGCMAERLKEKLLESDMKVDIVVGPDAYRS 215

Query: 197 LPRLLEEVDYG--QKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVP 254
           LP LL  ++ G  Q  IN +LS +ETYADI PVR S N V+A+VS+MRGCNNMCS+CIVP
Sbjct: 216 LPSLLATLEDGEQQTAINVILSADETYADIKPVRKSDNQVSAYVSIMRGCNNMCSYCIVP 275

Query: 255 FTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYN--------------DTSGME 300
           FTRGRERSRP++SI++EV +L  +G KE+TLLGQNVNS+N              DT   +
Sbjct: 276 FTRGRERSRPIDSILREVKDLSDQGFKEITLLGQNVNSFNYYEESNNNNNENFIDTQKNK 335

Query: 301 KEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLY 360
            E+E   + +  EGF ++ K  K G+ F  L++ +S   PE+R R+TSPHPKDFPD+LL 
Sbjct: 336 LELE---SLKPREGFKTIYKSPKKGITFTKLMELVSKVDPEIRIRFTSPHPKDFPDDLLE 392

Query: 361 IMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGF 420
           +++++PN+CK +H+PAQ+G+S VLE MRRGYTRE+Y++L+  I++++P   +SSDFI GF
Sbjct: 393 LIKNQPNICKQLHIPAQSGSSKVLESMRRGYTRESYIELIDTIKRVLPGCAISSDFISGF 452

Query: 421 CGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAF 480
           CGE++++H +T++LM+ VGY+ A+MF YS+RE+THAHR   DDVP  +K  RLT++++ F
Sbjct: 453 CGESDQDHNETISLMEYVGYENAFMFMYSLREKTHAHRQLKDDVPTTLKNSRLTQVVDTF 512

Query: 481 RESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRV 522
            +   +    ++G   LVLV+G +K++ + + VG++D   +V
Sbjct: 513 YKRLKEKNQLEIGNHHLVLVDGFSKRS-EKDFVGRTDTNKKV 553

Probable regulator of CDK5 activity.

Dictyostelium discoideum (taxid: 44689)

>sp|Q09316|CK5P1_CAEEL CDK5RAP1-like protein OS=Caenorhabditis elegans GN=F25B5.5 PE=3 SV=1

 Score =  452 bits (1163), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 234/493 (47%), Positives = 319/493 (64%), Gaps = 23/493 (4%)

Query: 37  DGPGLHHFIAQSSLTASQPLADLAPASEVSSA--TGSEVHSQGR-IYQETYGCQMNVNDM 93
           DG  L  FI +S  T  Q    + P+ E +       ++   GR +   TYGCQMNV+DM
Sbjct: 38  DGLQLSDFIKES--TKKQRQKAIIPSIEDTKEYLNPEDLQGNGRTVCYVTYGCQMNVSDM 95

Query: 94  EIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVAT 153
           EIV SIM   G+ E  +  ENA+++ + TC+IRD AE KVW +L                
Sbjct: 96  EIVRSIMTKYGFVES-DKKENADIVLLMTCSIRDGAEKKVWNQLKLI------------- 141

Query: 154 GRSQSKHPPKIV-VLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGIN 212
            RS S +  +IV VLGCMAER++  +L+   +V++V GPD+YRDLPRL+     G  GIN
Sbjct: 142 -RSNSVNKGQIVGVLGCMAERVRHDLLEKRNLVNIVAGPDSYRDLPRLVAVAAGGSNGIN 200

Query: 213 TLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEV 272
             LSL+ETYAD+ P+R+   S TAF+S+MRGC+NMC++C+VPFTRGRERSRP+ESIV+EV
Sbjct: 201 VQLSLDETYADVQPIRVDSASKTAFISIMRGCDNMCTYCVVPFTRGRERSRPIESIVEEV 260

Query: 273 DELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWR-LSEGFNSMCKVKKMGLRFADL 331
             L  +G K+VTLLGQNVNSY D + M+  + P  +      GF ++ K K  GL F  L
Sbjct: 261 QRLRDQGYKQVTLLGQNVNSYRDMTSMDFSMAPSTSQEDRVPGFKTVYKPKSGGLTFTTL 320

Query: 332 LDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY 391
           L++++   P++RFR+TSPHPKDFP +L+ ++  RPN+CK +HLPAQ+G+   LERM RGY
Sbjct: 321 LEKVADAAPDIRFRFTSPHPKDFPMQLIELIASRPNLCKQLHLPAQSGDDETLERMERGY 380

Query: 392 TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR 451
           TR+ YL LV  IR ++P V L+SDFI GFCGETE+ H +TL+L++AV Y   ++F YSMR
Sbjct: 381 TRDLYLRLVDDIRHVLPSVSLTSDFIAGFCGETEQAHQNTLSLIRAVRYSFCFVFPYSMR 440

Query: 452 ERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTE 511
            +T AH    DDVPE+VK RR  +L   FRE   +   + +G+ Q VL+EG +K+     
Sbjct: 441 GKTRAHHRLTDDVPEDVKARRHLDLTTVFREEALKLNQALIGSEQTVLLEGKSKRDASFS 500

Query: 512 LVGKSDRGHRVAF 524
             G+ D G +  F
Sbjct: 501 H-GRIDGGVKAVF 512

Potential regulator of CDK5 activity.

Caenorhabditis elegans (taxid: 6239)

>sp|Q2RZF8|MIAB_SALRD (Dimethylallyl)adenosine tRNA methylthiotransferase MiaB OS=Salinibacter ruber (strain DSM 13855 / M31) GN=miaB PE=3 SV=2

 Score =  448 bits (1152), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 228/448 (50%), Positives = 295/448 (65%), Gaps = 37/448 (8%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           ++Y ETYGCQMNVND  IV S+++ +GY  +      A+V+ +NTCAIR+ AE K+  RL
Sbjct: 43  QVYIETYGCQMNVNDSGIVASVLEESGYG-LTRDQAAADVVLLNTCAIRENAERKIRARL 101

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDL 197
           +     K +    +  G           VLGCMAERL++K+L+ + +VDVV GPDAYRDL
Sbjct: 102 SMLRSEKEKRDGELMLG-----------VLGCMAERLREKLLEQEDLVDVVVGPDAYRDL 150

Query: 198 PRLLEEVD-YGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFT 256
           P+LL E D  GQ  +N  LS +ETY DI PVR   N V+A+VS+MRGC+NMC+FC+VPFT
Sbjct: 151 PQLLYEADATGQAAVNVELSKQETYEDIQPVRYDSNGVSAYVSIMRGCDNMCTFCVVPFT 210

Query: 257 RGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN 316
           RGRE SRPV +I+ EV  L +EG KEVTLLGQNVNSY+ T                    
Sbjct: 211 RGREESRPVTTILSEVARLAEEGYKEVTLLGQNVNSYHYTDA------------------ 252

Query: 317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPA 376
                    + FA+L+DR+S   PEMR RY++ HPKD  D+LL + RDRPNVC YIHLP 
Sbjct: 253 -----DGTSVSFAELVDRVSRVSPEMRVRYSTSHPKDCTDDLLKVHRDRPNVCNYIHLPV 307

Query: 377 QTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMK 436
           Q GN+ VL+RMRR YTRE YL L ++ +++ P V LS+D I GFCGETE +H DTL+LM+
Sbjct: 308 QHGNTEVLDRMRRTYTREEYLALTERAKELCPGVSLSTDLIAGFCGETEAQHEDTLSLME 367

Query: 437 AVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQ 496
            V YD AYMF YS R +T+A R Y DDVPE+ KQRRL E+IE   +   +  +++VG V 
Sbjct: 368 EVRYDHAYMFKYSERPQTYAARKYEDDVPEDTKQRRLEEIIELQNQHAKESNEAEVGRVH 427

Query: 497 LVLVEGPNKKAPDTELVGKSDRGHRVAF 524
            VLVEGP+KK+ D +  G++D    V F
Sbjct: 428 TVLVEGPSKKS-DAQFFGRTDTNKGVVF 454

Catalyzes the methylthiolation of N6-(dimethylallyl)adenosine (i(6)A), leading to the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine.

Salinibacter ruber (strain DSM 13855 / M31) (taxid: 309807)

EC: 2

EC: .

EC: -

EC: .

EC: -

EC: .

EC: -

>sp|Q11U26|MIAB_CYTH3 (Dimethylallyl)adenosine tRNA methylthiotransferase MiaB OS=Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) GN=miaB PE=3 SV=1

 Score =  436 bits (1120), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 227/451 (50%), Positives = 302/451 (66%), Gaps = 39/451 (8%)

Query: 76  QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQ 135
           Q ++Y E+YGCQMN +D EIV+SI+   G+ +  + P NA+VI +NTC+IRD AE KV  
Sbjct: 37  QRKLYIESYGCQMNFSDSEIVMSILTEEGF-DTTSTPNNADVILLNTCSIRDNAEQKVRH 95

Query: 136 RLNYFWFLKREWKKNVATGRSQSKHPPKIV-VLGCMAERLKDKILDADKMVDVVCGPDAY 194
           RL +F  LKR               P  IV VLGCMAERLK ++L+ +K+VD+V GPDAY
Sbjct: 96  RLVHFKGLKR-------------NKPSMIVGVLGCMAERLKAQLLEEEKIVDMVVGPDAY 142

Query: 195 RDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVP 254
           RDLP L+ EVD G K +N  LS EETYADI+P+R+S + V+AFVS+MRGC+NMCSFC+VP
Sbjct: 143 RDLPNLINEVDSGHKAVNVFLSREETYADINPLRLSGDGVSAFVSIMRGCDNMCSFCVVP 202

Query: 255 FTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEG 314
           +TRGRERSR   SI+ EV EL   G KEVTLLGQNV+SY       K    G + R++  
Sbjct: 203 YTRGRERSRDAHSILNEVRELVANGYKEVTLLGQNVDSY-------KWSAEGTDERVN-- 253

Query: 315 FNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHL 374
                        FA LL+R++L  P++R R+++ HPKD  DE+LY M+   N+C  IHL
Sbjct: 254 -------------FAQLLERVALVDPDLRVRFSTSHPKDITDEVLYTMKKYDNICNSIHL 300

Query: 375 PAQTGNSAVLERMRRGYTREAYLDLVQKIRQII-PDVGLSSDFICGFCGETEEEHADTLT 433
           PAQ+GN+ +LE M R YTRE Y++ + KIRQI+  D G+SSD I GFC ETEEEH DTL+
Sbjct: 301 PAQSGNTRILELMNRTYTREWYMERITKIRQILGDDCGISSDTIAGFCSETEEEHQDTLS 360

Query: 434 LMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVG 493
           LM+   +D  Y F YS R  T A +   DDVPE+VKQRRL+E+I   R+ + +   +Q+G
Sbjct: 361 LMEFARFDFGYQFVYSERPGTPAAKKLADDVPEDVKQRRLSEIITVQRQLSLEHNQAQIG 420

Query: 494 TVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           T+Q +L+EG +KK+ + +L G++ R     F
Sbjct: 421 TIQKILIEGVSKKS-EHDLKGRNSRNMMAIF 450

Catalyzes the methylthiolation of N6-(dimethylallyl)adenosine (i(6)A), leading to the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine.

Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) (taxid: 269798)

EC: 2

EC: .

EC: -

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	524
225431257	626	PREDICTED: CDK5RAP1-like protein-like [V	0.973	0.814	0.799	0.0
224094881	623	predicted protein [Populus trichocarpa]	0.980	0.825	0.803	0.0
356540793	611	PREDICTED: CDK5RAP1-like protein-like [G	0.942	0.808	0.808	0.0
356495378	611	PREDICTED: CDK5RAP1-like protein-like [G	0.904	0.775	0.831	0.0
83281193	623	similar to CDK5 regulatory subunit-assoc	0.954	0.802	0.796	0.0
147794658	590	hypothetical protein VITISV_007911 [Viti	0.877	0.779	0.860	0.0
255560986	535	radical sam protein, putative [Ricinus c	0.891	0.872	0.840	0.0
30690642	640	Methylthiotransferase [Arabidopsis thali	0.982	0.804	0.754	0.0
297798268	636	radical SAM domain-containing protein [A	0.986	0.812	0.755	0.0
449444679	635	PREDICTED: CDK5RAP1-like protein-like [C	0.944	0.779	0.779	0.0

>gi|225431257|ref|XP_002274814.1| PREDICTED: CDK5RAP1-like protein-like [Vitis vinifera]

 Score =  882 bits (2280), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 419/524 (79%), Positives = 460/524 (87%), Gaps = 14/524 (2%)

Query: 6   RCARRLTTRQLKRSFSLNLSRNFSHSSLDLP-----DGPGLHHFIAQSSLTASQPLADLA 60
           RC  R T    +  FSL  SR FS S   LP     + P LH FIAQ+++  S+   D  
Sbjct: 44  RCNLR-TPPPFRPGFSLTFSRKFSQSHSHLPLSNKSEVPSLHSFIAQAAVATSEVQPD-- 100

Query: 61  PASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFI 120
                   + SE+  +GRIY ETYGCQMN+NDMEIVLSIMK AGY+EV+ VPE+AEVIFI
Sbjct: 101 ------PVSASEILPRGRIYHETYGCQMNINDMEIVLSIMKKAGYNEVVEVPESAEVIFI 154

Query: 121 NTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILD 180
           NTCAIRD AE KVWQRLNYFWFLKR WK NV+ GR+ S HPPK+VVLGCMAERLKDKILD
Sbjct: 155 NTCAIRDNAEQKVWQRLNYFWFLKRHWKSNVSIGRADSLHPPKVVVLGCMAERLKDKILD 214

Query: 181 ADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSV 240
           ADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVS+
Sbjct: 215 ADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSI 274

Query: 241 MRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGME 300
           MRGCNNMCSFCIVPFTRGRERSRPVESIV+EV ELWKEGVKEV LLGQNVNSYND SG +
Sbjct: 275 MRGCNNMCSFCIVPFTRGRERSRPVESIVREVAELWKEGVKEVMLLGQNVNSYNDASGFD 334

Query: 301 KEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLY 360
           KEVEPGANW+LSEGF+S CKVKKMGLRF+DLLDRLS EFPEMRFRYTSPHPKDFPDELLY
Sbjct: 335 KEVEPGANWKLSEGFSSKCKVKKMGLRFSDLLDRLSTEFPEMRFRYTSPHPKDFPDELLY 394

Query: 361 IMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGF 420
           +MRDR NVCK IHLPAQTG+S VLERMRRGYTREAYLDLVQKIR+I+PDVG++SDFICGF
Sbjct: 395 LMRDRYNVCKSIHLPAQTGSSTVLERMRRGYTREAYLDLVQKIRRIVPDVGITSDFICGF 454

Query: 421 CGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAF 480
           CGETEEE+ADT++L+KAVGYDMAYMFAYSMRE+THAHRNYVDDVP+ +KQRRL E+IE F
Sbjct: 455 CGETEEEYADTISLVKAVGYDMAYMFAYSMREKTHAHRNYVDDVPDNIKQRRLAEMIEVF 514

Query: 481 RESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           RESTGQCYDSQ+GTVQLVLVEGPNK+APDTEL+GK+DRGHRV+F
Sbjct: 515 RESTGQCYDSQIGTVQLVLVEGPNKRAPDTELIGKTDRGHRVSF 558

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224094881|ref|XP_002310277.1| predicted protein [Populus trichocarpa] gi|222853180|gb|EEE90727.1| predicted protein [Populus trichocarpa]

 Score =  879 bits (2270), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 426/530 (80%), Positives = 467/530 (88%), Gaps = 16/530 (3%)

Query: 7   CARRLTTRQLK-RSFSLNLSRNFSHSSLDL-PDGPGLHHFIAQSSLTA----------SQ 54
           C R      LK R+ SL LSRNFS S L     GPGLHHF+AQ++ +A          +Q
Sbjct: 36  CYRHFNKGPLKKRNCSLTLSRNFSQSHLSKNTQGPGLHHFVAQAASSASAPVSASASQTQ 95

Query: 55  PLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPEN 114
           P     PA EV      E+  +GRIY ETYGCQMNVNDMEIVLSIMKNAGYSE+++VPE+
Sbjct: 96  P--QFVPAIEVPPDI--EILPRGRIYHETYGCQMNVNDMEIVLSIMKNAGYSEIVDVPES 151

Query: 115 AEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERL 174
           AE+IFINTCAIRD AE KVWQRLNYFWFLKR WK NVA GRSQS HPPK+VVLGCMAERL
Sbjct: 152 AEIIFINTCAIRDNAEQKVWQRLNYFWFLKRHWKSNVAIGRSQSHHPPKVVVLGCMAERL 211

Query: 175 KDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSV 234
           KDKILDADKMVDVVCGPDAYRDLPRLLEEV+YGQKGINTLLSLEETYADISPVRISKNS+
Sbjct: 212 KDKILDADKMVDVVCGPDAYRDLPRLLEEVEYGQKGINTLLSLEETYADISPVRISKNSI 271

Query: 235 TAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYN 294
            AFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEV ELWKEGVKEVTLLGQNVNSYN
Sbjct: 272 NAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVAELWKEGVKEVTLLGQNVNSYN 331

Query: 295 DTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDF 354
           D S +EKEVEPG NW+ S+GF+S CKVK++GLRF+DLLDRLS EFPEMRFRYTSPHPKDF
Sbjct: 332 DASEIEKEVEPGTNWKYSDGFSSTCKVKRVGLRFSDLLDRLSTEFPEMRFRYTSPHPKDF 391

Query: 355 PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSS 414
           PD+LLY+MR+R N+CK IHLPAQTG+S VLERMRRGYTREAYLDLVQKIR+IIPDVG++S
Sbjct: 392 PDDLLYVMRNRHNICKSIHLPAQTGSSTVLERMRRGYTREAYLDLVQKIRRIIPDVGITS 451

Query: 415 DFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLT 474
           DFICGFCGETEEEH DTL+L+KAVGYDMAYMFAYSMRE+THAHRNYVDDVP+EVK+RRL 
Sbjct: 452 DFICGFCGETEEEHQDTLSLVKAVGYDMAYMFAYSMREKTHAHRNYVDDVPDEVKKRRLA 511

Query: 475 ELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           ELIEAFRESTGQC+DSQ+G+VQLVLVEGPNK+APDTEL+GKSDRGHRV F
Sbjct: 512 ELIEAFRESTGQCFDSQIGSVQLVLVEGPNKRAPDTELIGKSDRGHRVLF 561

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356540793|ref|XP_003538869.1| PREDICTED: CDK5RAP1-like protein-like [Glycine max]

 Score =  867 bits (2240), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 415/513 (80%), Positives = 453/513 (88%), Gaps = 19/513 (3%)

Query: 16  LKRSFSLNL---SRNFSHSSLDLPDGPGLH-HFIAQSSLTASQPLADLAPASEVSSATGS 71
           L RS  LNL   SR FS S+        LH HFI Q++LTAS+      P +EV      
Sbjct: 53  LPRSRPLNLIIASRTFSPSN-------TLHLHFIPQATLTASEAQPRFVPDTEVPPT--- 102

Query: 72  EVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEH 131
                GRIY ETYGCQMNVNDMEIVLSIMKNAGY E+++VPE+AE+IFINTCAIRD AE 
Sbjct: 103 -----GRIYHETYGCQMNVNDMEIVLSIMKNAGYGEIVSVPESAEIIFINTCAIRDNAEQ 157

Query: 132 KVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGP 191
           KVWQRLNYFWFLKR WK NVATGRSQS HPPK+VVLGCMAERLK+KILD+DKMVDVVCGP
Sbjct: 158 KVWQRLNYFWFLKRHWKNNVATGRSQSLHPPKVVVLGCMAERLKEKILDSDKMVDVVCGP 217

Query: 192 DAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFC 251
           DAYRDLPRLLEEVDYGQKGINTLLSLEETYADI+PVRISKNSVTAFVSVMRGCNNMCSFC
Sbjct: 218 DAYRDLPRLLEEVDYGQKGINTLLSLEETYADINPVRISKNSVTAFVSVMRGCNNMCSFC 277

Query: 252 IVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL 311
           IVPFTRGRERSRPVESIV+EV ELWKEGVKEVTLLGQNVNSYND S +E++VE G+NW+L
Sbjct: 278 IVPFTRGRERSRPVESIVREVAELWKEGVKEVTLLGQNVNSYNDASEIERKVESGSNWKL 337

Query: 312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKY 371
           SEGF+SM KVK MGLRF+DLLDRLS EFPEMRFR+TSPHPKDFPDELLY+MR+R N+CK 
Sbjct: 338 SEGFSSMAKVKNMGLRFSDLLDRLSSEFPEMRFRFTSPHPKDFPDELLYLMRERHNICKL 397

Query: 372 IHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADT 431
           IHLPAQTG+S VLERMRRGYTREAYLDLVQKIR IIPDV LSSDFICGFCGETEEEH++T
Sbjct: 398 IHLPAQTGSSPVLERMRRGYTREAYLDLVQKIRSIIPDVALSSDFICGFCGETEEEHSET 457

Query: 432 LTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQ 491
           LTL+KAVGYDMA+MFAYSMRE+THAHRNYVDDVPEE+KQRRL ELIE FR STGQC+DSQ
Sbjct: 458 LTLVKAVGYDMAFMFAYSMREKTHAHRNYVDDVPEEIKQRRLAELIETFRGSTGQCFDSQ 517

Query: 492 VGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           +GT QLVLVEGPNK+APDTEL+GKSD+GHRV F
Sbjct: 518 IGTTQLVLVEGPNKRAPDTELMGKSDKGHRVLF 550

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356495378|ref|XP_003516555.1| PREDICTED: CDK5RAP1-like protein-like [Glycine max]

 Score =  863 bits (2229), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 401/482 (83%), Positives = 440/482 (91%), Gaps = 8/482 (1%)

Query: 43  HFIAQSSLTASQPLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKN 102
           HFI Q++LTAS+    L P +EV           GRIY ETYGCQMNVNDMEIVLSIMKN
Sbjct: 77  HFIPQATLTASEAQPRLVPDTEVPPT--------GRIYHETYGCQMNVNDMEIVLSIMKN 128

Query: 103 AGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPP 162
           AGY E+++VPE+AE+IFINTCAIRD AE KVWQRLNYFWFLKR WK NVATGRSQS  PP
Sbjct: 129 AGYGEIVSVPESAEIIFINTCAIRDNAEQKVWQRLNYFWFLKRHWKSNVATGRSQSMRPP 188

Query: 163 KIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYA 222
           K+VVLGCMAERLK+KILD+DKMVDVVCGPDAYRDLPRLLEEVDYGQ+GINTLLSLEETYA
Sbjct: 189 KVVVLGCMAERLKEKILDSDKMVDVVCGPDAYRDLPRLLEEVDYGQRGINTLLSLEETYA 248

Query: 223 DISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKE 282
           DI+PVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIV+EV ELWKEGVKE
Sbjct: 249 DINPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVREVAELWKEGVKE 308

Query: 283 VTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEM 342
           V LLGQNVNSYND SG+E+EVE G+NW+LSEGF+SM KVK MGLRF+DLLDRLS EFPEM
Sbjct: 309 VMLLGQNVNSYNDASGIEREVESGSNWKLSEGFSSMAKVKNMGLRFSDLLDRLSSEFPEM 368

Query: 343 RFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQK 402
           RFR+TSPHPKDFPD+LLY+MR+R N+CK IHLPAQTG+S VLERMRRGYTREAYLDLVQK
Sbjct: 369 RFRFTSPHPKDFPDDLLYLMRERHNICKLIHLPAQTGSSTVLERMRRGYTREAYLDLVQK 428

Query: 403 IRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVD 462
           IR IIPDV LSSDFICGFCGETEEEH++TLTL+KAVGYDMA++FAYSMRE+THAHRNYVD
Sbjct: 429 IRSIIPDVALSSDFICGFCGETEEEHSETLTLIKAVGYDMAFLFAYSMREKTHAHRNYVD 488

Query: 463 DVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRV 522
           DVPEE+KQRRL ELIE FRESTGQC+DSQ+GT QLVLVEGPNK+APDTEL+GKSD+GHRV
Sbjct: 489 DVPEEIKQRRLAELIETFRESTGQCFDSQIGTTQLVLVEGPNKRAPDTELMGKSDKGHRV 548

Query: 523 AF 524
            F
Sbjct: 549 LF 550

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|83281193|dbj|BAD15110.2| similar to CDK5 regulatory subunit-associated protein [Nicotiana tabacum]

 Score =  856 bits (2212), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 407/511 (79%), Positives = 454/511 (88%), Gaps = 11/511 (2%)

Query: 19  SFSLNLSRNFS--HSSLDLPDG---PGLHHFIAQSSLTASQPLADLAPASEVSSATGSEV 73
           +FS+ +SRNFS  HS   L      P L  FI +++ T S   +D+    +  S   S+V
Sbjct: 56  TFSIKISRNFSQCHSRTSLTSKNQIPTLRDFIPKATQTVSS--SDV----QQESVMISDV 109

Query: 74  HSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKV 133
             +GRIY ETYGCQMNVNDMEIVLSIMKNAGY+E + VPENAE+IFINTCAIRD AE KV
Sbjct: 110 MPRGRIYHETYGCQMNVNDMEIVLSIMKNAGYTESVEVPENAEIIFINTCAIRDNAELKV 169

Query: 134 WQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDA 193
           WQRLNYFWFLKR+WK NVA+GRSQS HPPK+ VLGCMAERLKDKILD+DKMVDVVCGPDA
Sbjct: 170 WQRLNYFWFLKRQWKSNVASGRSQSAHPPKVSVLGCMAERLKDKILDSDKMVDVVCGPDA 229

Query: 194 YRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIV 253
           YRDLPRLLEEVDYGQKGINTLLSLEETYADI+PVRISKNS++AFVSVMRGCNNMCSFCIV
Sbjct: 230 YRDLPRLLEEVDYGQKGINTLLSLEETYADINPVRISKNSISAFVSVMRGCNNMCSFCIV 289

Query: 254 PFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE 313
           PFTRGRERSRPVESIVKEV ELWKEGVKEVTLLGQNVNSYNDTSG+E   EP  +W LS+
Sbjct: 290 PFTRGRERSRPVESIVKEVAELWKEGVKEVTLLGQNVNSYNDTSGVENPAEPAVSWELSD 349

Query: 314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIH 373
           GF+SMCKVK +GLRFADLLDRL+ EFPEMRFRYTSPHPKDFPD+LLY+MRDR N+CK IH
Sbjct: 350 GFSSMCKVKHVGLRFADLLDRLATEFPEMRFRYTSPHPKDFPDDLLYVMRDRYNICKSIH 409

Query: 374 LPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLT 433
           LPAQ+G+SAVLERMRRGYTREAYLDLV+KIR IIPD+G+SSDFICGFCGETEE+H DTL+
Sbjct: 410 LPAQSGSSAVLERMRRGYTREAYLDLVKKIRDIIPDMGISSDFICGFCGETEEDHEDTLS 469

Query: 434 LMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVG 493
           L+KAV YDMAYMFAYSMRE+THAHR YVDDVP++VKQRRLTELIEAFR STGQ YDS++G
Sbjct: 470 LVKAVCYDMAYMFAYSMREKTHAHRKYVDDVPDDVKQRRLTELIEAFRGSTGQNYDSKIG 529

Query: 494 TVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           T+QLVLVEGPNK+APDTEL+GKSDRGHRV+F
Sbjct: 530 TLQLVLVEGPNKRAPDTELIGKSDRGHRVSF 560

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147794658|emb|CAN73510.1| hypothetical protein VITISV_007911 [Vitis vinifera]

 Score =  856 bits (2211), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 396/460 (86%), Positives = 433/460 (94%)

Query: 65  VSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCA 124
           ++  + SE+  +GRIY ETYGCQMN+NDMEIVLSIMK AGY+EV+ VPE+AEVIFINTCA
Sbjct: 63  LNPVSASEILPRGRIYHETYGCQMNINDMEIVLSIMKKAGYNEVVEVPESAEVIFINTCA 122

Query: 125 IRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKM 184
           IRD AE KVWQRLNYFWFLKR WK NV+ GR+ S HPPK+VVLGCMAERLKDKILDADKM
Sbjct: 123 IRDNAEQKVWQRLNYFWFLKRHWKSNVSIGRADSLHPPKVVVLGCMAERLKDKILDADKM 182

Query: 185 VDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGC 244
           VDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVS+MRGC
Sbjct: 183 VDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSIMRGC 242

Query: 245 NNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVE 304
           NNMCSFCIVPFTRGRERSRPVESIV+EV ELWKEGVKEV LLGQNVNSYND SG +KEVE
Sbjct: 243 NNMCSFCIVPFTRGRERSRPVESIVREVAELWKEGVKEVMLLGQNVNSYNDASGFDKEVE 302

Query: 305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRD 364
           PGANW+LSEGF+S CKVKKMGLRF+DLLDRLS EFPEMRFRYTSPHPKDFPDELLY+MRD
Sbjct: 303 PGANWKLSEGFSSKCKVKKMGLRFSDLLDRLSTEFPEMRFRYTSPHPKDFPDELLYLMRD 362

Query: 365 RPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGET 424
           R NVCK IHLPAQTG+S VLERMRRGYTREAYLDLVQKIR+I+PDVG++SDFICGFCGET
Sbjct: 363 RYNVCKSIHLPAQTGSSTVLERMRRGYTREAYLDLVQKIRRIVPDVGITSDFICGFCGET 422

Query: 425 EEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFREST 484
           EEE+ADT++L+KAVGYDMAYMFAYSMRE+THAHRNYVDDVP+ +KQRRL E+IE FREST
Sbjct: 423 EEEYADTISLVKAVGYDMAYMFAYSMREKTHAHRNYVDDVPDNIKQRRLAEMIEVFREST 482

Query: 485 GQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           GQCYDSQ+GTVQLVLVEGPNK+APDTEL+GK+DRGHRV+F
Sbjct: 483 GQCYDSQIGTVQLVLVEGPNKRAPDTELIGKTDRGHRVSF 522

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560986|ref|XP_002521505.1| radical sam protein, putative [Ricinus communis] gi|223539183|gb|EEF40776.1| radical sam protein, putative [Ricinus communis]

 Score =  846 bits (2186), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 394/469 (84%), Positives = 434/469 (92%), Gaps = 2/469 (0%)

Query: 56  LADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENA 115
           L+  A A EV   T  E+  +GRIY ETYGCQMN+NDMEIVLSIMK+AGY EV++VPE+A
Sbjct: 7   LSRTAQALEVPLDT--EIPVRGRIYHETYGCQMNINDMEIVLSIMKDAGYREVVDVPESA 64

Query: 116 EVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLK 175
           E+IFINTCAIRD AE KVWQRLNYFWFLKR WK NV  GRSQS  PPK+VVLGCMAERLK
Sbjct: 65  EIIFINTCAIRDNAEQKVWQRLNYFWFLKRHWKSNVTIGRSQSLSPPKVVVLGCMAERLK 124

Query: 176 DKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVT 235
           DKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADI PVRISKNS+T
Sbjct: 125 DKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADICPVRISKNSIT 184

Query: 236 AFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYND 295
           AFVSVMRGCNNMCSFCIVPFTRGRERSRPV+SIVKEV ELWKEGVKEVTLLGQNVNSYND
Sbjct: 185 AFVSVMRGCNNMCSFCIVPFTRGRERSRPVDSIVKEVAELWKEGVKEVTLLGQNVNSYND 244

Query: 296 TSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFP 355
            SG+E EVEPG+NW+LSEGF+SMCKVKKMGLRF+DLLDRLS EFPEMRFRYTSPHPKDFP
Sbjct: 245 ASGVENEVEPGSNWKLSEGFSSMCKVKKMGLRFSDLLDRLSTEFPEMRFRYTSPHPKDFP 304

Query: 356 DELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSD 415
           D+LLY+MRD+ N+CK IHLPAQ+G+S VLERMRRGYTREAYLDLVQKIR+I+PDVG++SD
Sbjct: 305 DDLLYVMRDKYNICKSIHLPAQSGSSTVLERMRRGYTREAYLDLVQKIRRIMPDVGITSD 364

Query: 416 FICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTE 475
           FICGFCGETEE+H  TL+L++ VGYDMAYMFAYSMRE+THAHRNY DDVP+ VKQRRLTE
Sbjct: 365 FICGFCGETEEDHESTLSLVRTVGYDMAYMFAYSMREKTHAHRNYNDDVPDNVKQRRLTE 424

Query: 476 LIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           LIEAFR STGQCYDSQ+G++QLVLVEGPNK+APDTEL+GK+DRGHRV+F
Sbjct: 425 LIEAFRGSTGQCYDSQIGSIQLVLVEGPNKRAPDTELIGKTDRGHRVSF 473

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30690642|ref|NP_195357.2| Methylthiotransferase [Arabidopsis thaliana] gi|32129440|sp|Q8H0V1.1|CK5P1_ARATH RecName: Full=CDK5RAP1-like protein gi|25083016|gb|AAN72033.1| putative protein [Arabidopsis thaliana] gi|30725464|gb|AAP37754.1| At4g36390 [Arabidopsis thaliana] gi|332661250|gb|AEE86650.1| Methylthiotransferase [Arabidopsis thaliana]

 Score =  844 bits (2181), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 400/530 (75%), Positives = 457/530 (86%), Gaps = 15/530 (2%)

Query: 3   LDPRC---ARRLTTRQL--KRSFSLNLSRNFSHSSLDLP---DGPGLHHFIAQSSLTASQ 54
           L PRC     RLT + +  K+ FSLNLSR+FS S +      DGP LH F++ +   AS 
Sbjct: 51  LLPRCRSSTHRLTQKPINRKKGFSLNLSRSFSISQIASSGKFDGPSLHQFVSNAQAHASL 110

Query: 55  PLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPEN 114
                 P +E  S   S++ S+GRIY ETYGCQMN+NDMEIVL+IMKN+GY EV+  PE+
Sbjct: 111 T----TPETESESTLDSDIASKGRIYHETYGCQMNINDMEIVLAIMKNSGYKEVVTDPES 166

Query: 115 AEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERL 174
           AEVIF+NTCAIR+ AE +VWQRLNYFWFLKREWK N ATGR++S  PPK+VVLGCMAERL
Sbjct: 167 AEVIFVNTCAIRENAEQRVWQRLNYFWFLKREWKVNAATGRAKSLKPPKVVVLGCMAERL 226

Query: 175 KDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSV 234
           KDKILD+DKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRIS+NS+
Sbjct: 227 KDKILDSDKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISENSI 286

Query: 235 TAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYN 294
           TAFVSVMRGCNNMC+FCIVPFTRGRERSRPVESI++EV ELW+ GVKEVTLLGQNVNSYN
Sbjct: 287 TAFVSVMRGCNNMCAFCIVPFTRGRERSRPVESIIREVGELWESGVKEVTLLGQNVNSYN 346

Query: 295 DTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDF 354
           D S    + E GANW  SEGF+S CKVK MGLRFADLLDRLS+EFPEMRFR+TSPHPKD+
Sbjct: 347 DDSA---DRESGANWEYSEGFSSRCKVKNMGLRFADLLDRLSVEFPEMRFRFTSPHPKDY 403

Query: 355 PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSS 414
           PDELLY+MRDR N+C  IHLPAQ+GNS +LE+MRRGYTREAYLDLV+KIR IIPDV ++S
Sbjct: 404 PDELLYLMRDRHNICNLIHLPAQSGNSRILEQMRRGYTREAYLDLVKKIRSIIPDVAITS 463

Query: 415 DFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLT 474
           DFI GFCGETEEEH +TL+L++AVGYDMAYMFAYSMRE+THAHRNY DDVPEEVKQRRLT
Sbjct: 464 DFITGFCGETEEEHQETLSLVRAVGYDMAYMFAYSMREKTHAHRNYTDDVPEEVKQRRLT 523

Query: 475 ELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           ELI+AFRE+TG CYDSQVG+ QLVLVEGPNK+AP+TEL+GK+D+GHRV+F
Sbjct: 524 ELIDAFRETTGPCYDSQVGSTQLVLVEGPNKRAPETELIGKTDKGHRVSF 573

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297798268|ref|XP_002867018.1| radical SAM domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297312854|gb|EFH43277.1| radical SAM domain-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  843 bits (2179), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 401/531 (75%), Positives = 457/531 (86%), Gaps = 14/531 (2%)

Query: 1   TSLDPRC--ARRLTTRQLKR--SFSLNLSRNFSHSSLDLP---DGPGLHHFIAQSSLTAS 53
           ++L PRC     LT + + R   F+LNLSR+FS S +      DGP LH F++ +   AS
Sbjct: 47  SALLPRCRSTHLLTQKPINRKNGFALNLSRSFSVSQIAGSGKFDGPSLHQFVSNAQAHAS 106

Query: 54  QPLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPE 113
                  P +E  S   S+V S+GRIY ETYGCQMN+NDMEIVLSIMKN+GY EV+  PE
Sbjct: 107 LT----TPETESESTLDSDVASKGRIYHETYGCQMNINDMEIVLSIMKNSGYKEVVTDPE 162

Query: 114 NAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAER 173
           +AEVIFINTCAIRD AE +VWQRLNYFWFLKREWK NVA GR+QS  PPK+VVLGCMAER
Sbjct: 163 SAEVIFINTCAIRDNAEQRVWQRLNYFWFLKREWKVNVAKGRAQSLKPPKVVVLGCMAER 222

Query: 174 LKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNS 233
           LKDKILD+DKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRIS+NS
Sbjct: 223 LKDKILDSDKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISENS 282

Query: 234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSY 293
           +TAFVSVMRGCNNMC+FCIVPFTRGRERSRPVESI++EV ELW+ GVKEVTLLGQNVNSY
Sbjct: 283 ITAFVSVMRGCNNMCAFCIVPFTRGRERSRPVESIIREVGELWESGVKEVTLLGQNVNSY 342

Query: 294 NDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKD 353
           ND S    + E GANW  SEGF+S CKVK MGLRFADLLDRLS++FPEMRFR+TSPHPKD
Sbjct: 343 NDDSS---DPESGANWEYSEGFSSRCKVKNMGLRFADLLDRLSVQFPEMRFRFTSPHPKD 399

Query: 354 FPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLS 413
           +PDELLY+MRDR N+C  IHLPAQ+GNS +LE+MRRGYTREAYLDLV+KIR IIPDV ++
Sbjct: 400 YPDELLYLMRDRHNICNLIHLPAQSGNSRILEQMRRGYTREAYLDLVKKIRSIIPDVAIT 459

Query: 414 SDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRL 473
           SDFI GFCGETEEEH +TL+L++AVGYDMAYMFAYSMRE+THAHR Y DDVPEEVKQRRL
Sbjct: 460 SDFITGFCGETEEEHQETLSLVRAVGYDMAYMFAYSMREKTHAHRKYTDDVPEEVKQRRL 519

Query: 474 TELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           TELIEAFRE+TG CY+SQVG++QLVLVEGPNK+AP+TEL+GK+D+GHRV+F
Sbjct: 520 TELIEAFRETTGPCYNSQVGSIQLVLVEGPNKRAPETELIGKTDKGHRVSF 570

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444679|ref|XP_004140101.1| PREDICTED: CDK5RAP1-like protein-like [Cucumis sativus]

 Score =  836 bits (2160), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 400/513 (77%), Positives = 447/513 (87%), Gaps = 18/513 (3%)

Query: 24  LSRNFSHSSLDLPDGPGLHHFIAQSSLTAS-QPLADLAPA--SEVSSATG---------S 71
           LS +FS S+     G     FIA ++ + S Q   +L P+  SE S   G         S
Sbjct: 68  LSGSFSRSTRRFRGG-----FIAAATASGSVQRSEELRPSISSEQSWVLGQNGTESLPAS 122

Query: 72  EVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEH 131
           +V   GR+Y ETYGCQMN+NDME+VLSIMK AGYSE ++ PE AE+IFINTCAIRD AE 
Sbjct: 123 DVPLSGRVYHETYGCQMNINDMEVVLSIMKKAGYSETVDTPETAEIIFINTCAIRDNAEQ 182

Query: 132 KVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGP 191
           KVWQRLNYFWFLKR WK NVATGRSQS+HPPK+VVLGCMAERLKDKILD+DKMVDVVCGP
Sbjct: 183 KVWQRLNYFWFLKRNWKSNVATGRSQSRHPPKVVVLGCMAERLKDKILDSDKMVDVVCGP 242

Query: 192 DAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFC 251
           DAYRDLPRLL+EVDYGQKGINTLLSLEETYADISPVRI+KNSVTAFVSVMRGCNNMCSFC
Sbjct: 243 DAYRDLPRLLDEVDYGQKGINTLLSLEETYADISPVRIAKNSVTAFVSVMRGCNNMCSFC 302

Query: 252 IVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL 311
           IVPFTRGRERSRPVESIV EV EL++EGVKEVTLLGQNVNSYNDT+    ++EPG NW+L
Sbjct: 303 IVPFTRGRERSRPVESIVCEVRELYREGVKEVTLLGQNVNSYNDTTE-NADIEPGTNWKL 361

Query: 312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKY 371
           S+GF+++ KVKKMGLRF+DLLDRLS EFPEMRFRYTSPHPKDFPDE LY+MRDR N+CK 
Sbjct: 362 SDGFSTIAKVKKMGLRFSDLLDRLSTEFPEMRFRYTSPHPKDFPDEFLYLMRDRHNICKS 421

Query: 372 IHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADT 431
           IHLPAQ+GNS VLERMRRGYTREAYLDLV KIR IIPDVG++SDFICGFCGETEEEHADT
Sbjct: 422 IHLPAQSGNSIVLERMRRGYTREAYLDLVHKIRSIIPDVGITSDFICGFCGETEEEHADT 481

Query: 432 LTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQ 491
           L+L+  VGYDMAYMFAYSMRE+THAHRNYVDD+PEEVKQRRLTELIEAFR STG+CYDSQ
Sbjct: 482 LSLINEVGYDMAYMFAYSMREKTHAHRNYVDDIPEEVKQRRLTELIEAFRNSTGRCYDSQ 541

Query: 492 VGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
           +G+VQLVLVEGPNK+AP+TE++GKSDR HRV+F
Sbjct: 542 IGSVQLVLVEGPNKRAPETEMIGKSDRSHRVSF 574

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	524
TAIR|locus:2115410	640	AT4G36390 [Arabidopsis thalian	0.986	0.807	0.751	4.4e-219
UNIPROTKB|F1S500	589	CDK5RAP1 "Uncharacterized prot	0.904	0.804	0.538	1.4e-133
UNIPROTKB|E2QYD7	583	CDK5RAP1 "Uncharacterized prot	0.904	0.813	0.535	3.8e-133
UNIPROTKB|Q08DN3	589	CDK5RAP1 "CDK5 regulatory subu	0.904	0.804	0.530	1e-132
RGD|708387	586	Cdk5rap1 "CDK5 regulatory subu	0.910	0.813	0.537	7.1e-132
UNIPROTKB|F1NZV3	522	CDK5RAP1 "Uncharacterized prot	0.860	0.863	0.556	9.1e-132
MGI|MGI:1914221	588	Cdk5rap1 "CDK5 regulatory subu	0.910	0.811	0.533	5e-131
ZFIN|ZDB-GENE-070424-90	577	zgc:162738 "zgc:162738" [Danio	0.908	0.824	0.521	3.5e-130
FB|FBgn0037816	583	CG6345 [Drosophila melanogaste	0.902	0.811	0.519	8.4e-129
UNIPROTKB|Q96SZ6	601	CDK5RAP1 "CDK5 regulatory subu	0.904	0.788	0.518	2.2e-128

TAIR|locus:2115410 AT4G36390 [Arabidopsis thaliana (taxid:3702)]

 Score = 2116 (749.9 bits), Expect = 4.4e-219, P = 4.4e-219
 Identities = 400/532 (75%), Positives = 459/532 (86%)

Query:     1 TSLDPRC---ARRLTTRQL--KRSFSLNLSRNFSHSSLDLP---DGPGLHHFIAQSSLTA 52
             ++L PRC     RLT + +  K+ FSLNLSR+FS S +      DGP LH F++ +   A
Sbjct:    49 SALLPRCRSSTHRLTQKPINRKKGFSLNLSRSFSISQIASSGKFDGPSLHQFVSNAQAHA 108

Query:    53 SQPLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVP 112
             S       P +E  S   S++ S+GRIY ETYGCQMN+NDMEIVL+IMKN+GY EV+  P
Sbjct:   109 SLT----TPETESESTLDSDIASKGRIYHETYGCQMNINDMEIVLAIMKNSGYKEVVTDP 164

Query:   113 ENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAE 172
             E+AEVIF+NTCAIR+ AE +VWQRLNYFWFLKREWK N ATGR++S  PPK+VVLGCMAE
Sbjct:   165 ESAEVIFVNTCAIRENAEQRVWQRLNYFWFLKREWKVNAATGRAKSLKPPKVVVLGCMAE 224

Query:   173 RLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKN 232
             RLKDKILD+DKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRIS+N
Sbjct:   225 RLKDKILDSDKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISEN 284

Query:   233 SVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNS 292
             S+TAFVSVMRGCNNMC+FCIVPFTRGRERSRPVESI++EV ELW+ GVKEVTLLGQNVNS
Sbjct:   285 SITAFVSVMRGCNNMCAFCIVPFTRGRERSRPVESIIREVGELWESGVKEVTLLGQNVNS 344

Query:   293 YNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPK 352
             YND S    + E GANW  SEGF+S CKVK MGLRFADLLDRLS+EFPEMRFR+TSPHPK
Sbjct:   345 YNDDSA---DRESGANWEYSEGFSSRCKVKNMGLRFADLLDRLSVEFPEMRFRFTSPHPK 401

Query:   353 DFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGL 412
             D+PDELLY+MRDR N+C  IHLPAQ+GNS +LE+MRRGYTREAYLDLV+KIR IIPDV +
Sbjct:   402 DYPDELLYLMRDRHNICNLIHLPAQSGNSRILEQMRRGYTREAYLDLVKKIRSIIPDVAI 461

Query:   413 SSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRR 472
             +SDFI GFCGETEEEH +TL+L++AVGYDMAYMFAYSMRE+THAHRNY DDVPEEVKQRR
Sbjct:   462 TSDFITGFCGETEEEHQETLSLVRAVGYDMAYMFAYSMREKTHAHRNYTDDVPEEVKQRR 521

Query:   473 LTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
             LTELI+AFRE+TG CYDSQVG+ QLVLVEGPNK+AP+TEL+GK+D+GHRV+F
Sbjct:   522 LTELIDAFRETTGPCYDSQVGSTQLVLVEGPNKRAPETELIGKTDKGHRVSF 573

GO:0003824 "catalytic activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

GO:0009451 "RNA modification" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016740 "transferase activity" evidence=IEA

GO:0043412 "macromolecule modification" evidence=IEA

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

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

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

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

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

GO:0010155 "regulation of proton transport" evidence=RCA

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

GO:0046777 "protein autophosphorylation" evidence=RCA

UNIPROTKB|F1S500 CDK5RAP1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 1309 (465.8 bits), Expect = 1.4e-133, P = 1.4e-133
 Identities = 266/494 (53%), Positives = 350/494 (70%)

Query:    35 LPDGPGLHHFIAQSSLTASQP----LADLAPASEVSSATGSEVHSQGRIYQETYGCQMNV 90
             L  GP   HF+  +S+   +P    + D  P   V    G     Q ++Y ETYGCQMNV
Sbjct:    60 LASGPTFQHFLRSASVPQEKPPSPDVEDPPPYLTVDELLGK----QRKVYLETYGCQMNV 115

Query:    91 NDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKN 150
             ND EI  SI++  GY    N+ E A+VI + TC+IR+ AE  +W RL+    LK +    
Sbjct:   116 NDTEIAWSILQKNGYLRTSNLQE-ADVILLVTCSIREKAEQTIWNRLHQLKALKSK---- 170

Query:   151 VATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKG 210
                 R +S+ P +I +LGCMAERLK++IL+ +KMVD++ GPDAYRDLPRLL   + GQ+ 
Sbjct:   171 ----RLRSQVPLRIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQA 226

Query:   211 INTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVK 270
              N LLSL+ETYAD+ PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRPV SI++
Sbjct:   227 ANVLLSLDETYADVLPVQTSPSATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPVASILE 286

Query:   271 EVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFAD 330
             EV +L ++G+KEVTLLGQNVNS+ DTS  E +     +  LS GF+S  K K+ GLRFA 
Sbjct:   287 EVRKLSEQGLKEVTLLGQNVNSFRDTS--EVQFNNAVSTNLSRGFSSNYKTKQGGLRFAH 344

Query:   331 LLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG 390
             LLD++S   PEMR R+TSPHPKDFPDE+L ++ DR N+CK IHLPAQ+G+S VLE MRRG
Sbjct:   345 LLDQVSQIDPEMRIRFTSPHPKDFPDEVLQLIHDRDNICKQIHLPAQSGSSRVLEAMRRG 404

Query:   391 YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM 450
             Y+REAY++LV  IR+ IP V LSSDFI GFCGETEE+H  T++L++ V Y+M ++FAYSM
Sbjct:   405 YSREAYVELVHHIRESIPGVSLSSDFIAGFCGETEEDHLQTVSLLQEVQYNMGFLFAYSM 464

Query:   451 RERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDT 510
             R++T A+    DD+PEEVK RRL ELI  FRE   +   + VG +QLVLVEG +K++  T
Sbjct:   465 RQKTRAYHRLKDDIPEEVKLRRLEELITVFREEATKANKTFVGCIQLVLVEGFSKRS-ST 523

Query:   511 ELVGKSDRGHRVAF 524
             +L G++D   +V F
Sbjct:   524 DLCGRNDGNLKVIF 537

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|E2QYD7 CDK5RAP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 1305 (464.4 bits), Expect = 3.8e-133, P = 3.8e-133
 Identities = 263/491 (53%), Positives = 348/491 (70%)

Query:    35 LPDGPGLHHFIAQSSLTASQP-LADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDM 93
             L  GP   HF+  +S    +P + D  P   V    G     Q ++Y ETYGCQMNVND 
Sbjct:    57 LATGPTFQHFLRSASAPQEKPDMEDPPPYVTVEELLGR----QRKVYLETYGCQMNVNDT 112

Query:    94 EIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVAT 153
             EI  S+++ +GY    N+ E A+VI + TC+IR+ AE  +W RL     LK        T
Sbjct:   113 EIAWSVLQKSGYLRTRNLQE-ADVILLVTCSIREKAEQTIWNRLQQLKALK--------T 163

Query:   154 GRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINT 213
              R +S+ P +I +LGCMAERLK++IL+ +KMVD++ GPDAYRDLPRLL   + GQ+  N 
Sbjct:   164 KRLRSRVPLRIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAANV 223

Query:   214 LLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVD 273
             LLSL+ETYAD+ PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRPV SI++EV 
Sbjct:   224 LLSLDETYADVMPVQTSPSATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPVASILEEVR 283

Query:   274 ELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLD 333
             +L ++G+KEVTLLGQNVNS+ D+S  E +     +  LS GF++  K KK GLRF  LLD
Sbjct:   284 KLSEQGLKEVTLLGQNVNSFQDSS--EVQFNNAVSTNLSRGFSTNYKPKKGGLRFTYLLD 341

Query:   334 RLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR 393
             ++S   PEMR R+TSPHPKDFPDE+L ++ +R N+CK IHLPAQ+G+S VLE MRRGY+R
Sbjct:   342 QVSRVDPEMRIRFTSPHPKDFPDEVLQLIHERDNICKQIHLPAQSGSSRVLEAMRRGYSR 401

Query:   394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRER 453
             EAY++L+  IR+ IP V LSSDFI GFCGETEE+H  T++L++ V Y+M ++FAYSMR++
Sbjct:   402 EAYVELIHHIRESIPGVSLSSDFIAGFCGETEEDHLQTVSLLREVQYNMGFLFAYSMRQK 461

Query:   454 THAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELV 513
             T A+    DDVPEEVK RRL ELI  FRE   +   + VG+ QLVLVEG +K++  T+L 
Sbjct:   462 TRAYHRLKDDVPEEVKLRRLEELITVFREEATKANMASVGSTQLVLVEGHSKRSA-TDLC 520

Query:   514 GKSDRGHRVAF 524
             G++D   +V F
Sbjct:   521 GRNDGNLKVIF 531

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q08DN3 CDK5RAP1 "CDK5 regulatory subunit associated protein 1" [Bos taurus (taxid:9913)]

 Score = 1301 (463.0 bits), Expect = 1.0e-132, P = 1.0e-132
 Identities = 262/494 (53%), Positives = 350/494 (70%)

Query:    35 LPDGPGLHHFIAQSSLTASQP----LADLAPASEVSSATGSEVHSQGRIYQETYGCQMNV 90
             L  GP    F+  +S+   QP    + D  P   V    G     Q R+Y ETYGCQMNV
Sbjct:    60 LATGPTFQDFLRSASVPPEQPSSSEVEDPPPYLTVDELLGR----QRRVYLETYGCQMNV 115

Query:    91 NDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKN 150
             ND EI  SI++ +GY    N+ E A+VI + TC+IR+ AE  +W RL+          K+
Sbjct:   116 NDTEIAWSILQKSGYLRTSNLQE-ADVILLVTCSIREKAEQTIWNRLHQL--------KS 166

Query:   151 VATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKG 210
             + + R +S+ P +I +LGCMAERLK++IL+ +KMVD++ GPDAYRDLP+LL   + GQ+ 
Sbjct:   167 LKSKRLRSRVPLRIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPQLLAVAESGQQA 226

Query:   211 INTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVK 270
              N LLSL+ETYAD+ PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRPV SI++
Sbjct:   227 ANVLLSLDETYADVMPVQTSPSATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPVASILE 286

Query:   271 EVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFAD 330
             EV +L ++G+KEVTLLGQNVNS+ D S  E +     +  LS GF++  K K+ GLRFA 
Sbjct:   287 EVRKLSEQGLKEVTLLGQNVNSFRDNS--EVQFNNAVSTNLSRGFSTNYKAKQGGLRFAH 344

Query:   331 LLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG 390
             LLD++S   PEMR R+TSPHPKDFPDE+L ++R+R N+CK IHLPAQ+G+S VLE MRRG
Sbjct:   345 LLDQVSRIDPEMRIRFTSPHPKDFPDEVLQLIRERDNICKQIHLPAQSGSSRVLEAMRRG 404

Query:   391 YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM 450
             Y+REAY++L+  IR+ IP V LSSDFI GFCGETEE+H  T++L++ V Y++ ++FAYSM
Sbjct:   405 YSREAYVELIHHIRESIPGVSLSSDFIAGFCGETEEDHLQTVSLLREVQYNIGFLFAYSM 464

Query:   451 RERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDT 510
             R++T A+    DD+PEEVK RRL ELI  FRE   +   S VG  QLVLVEGP+K++   
Sbjct:   465 RQKTRAYHRLKDDIPEEVKLRRLEELITVFREEATKANKSFVGCTQLVLVEGPSKRSA-A 523

Query:   511 ELVGKSDRGHRVAF 524
             +L G++D   +V F
Sbjct:   524 DLCGRNDGNLKVIF 537

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

RGD|708387 Cdk5rap1 "CDK5 regulatory subunit associated protein 1" [Rattus norvegicus (taxid:10116)]

 Score = 1293 (460.2 bits), Expect = 7.1e-132, P = 7.1e-132
 Identities = 264/491 (53%), Positives = 348/491 (70%)

Query:    35 LPDGPGLHHFIAQSSLTASQPLADLAPASEVSSATGSEVHS-QGRIYQETYGCQMNVNDM 93
             L  GP   HF+  +S+   +P +           +G E+   Q ++Y ETYGCQMNVND 
Sbjct:    55 LATGPTFQHFLRSASVPQEKPSSPEVE-DPPPYLSGDELLGRQRKVYLETYGCQMNVNDT 113

Query:    94 EIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVAT 153
             EI  SI++ +GY    N+ E A+VI + TC+IR+ AE  +W RL+    LK +       
Sbjct:   114 EIAWSILQKSGYLRTSNLQE-ADVILLVTCSIREKAEQTIWNRLHQLKVLKAK------- 165

Query:   154 GRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINT 213
              R +S+ P +I +LGCMAERLK +IL+ +KMVD++ GPDAYRDLPRLL  V+ GQ+  N 
Sbjct:   166 -RPRSRVPLRIGILGCMAERLKGEILNREKMVDLLAGPDAYRDLPRLLAVVESGQQAANV 224

Query:   214 LLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVD 273
             LLSL+ETYADI PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRPV SI+ EV 
Sbjct:   225 LLSLDETYADIMPVQTSPSATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPVASILDEVR 284

Query:   274 ELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLD 333
             +L ++G+KEVTLLGQNVNS+ D S ++      AN  LS GF +  K K+ GLRF+ LLD
Sbjct:   285 KLSEQGLKEVTLLGQNVNSFRDNSEVQFSSTGSAN--LSRGFTTNYKPKQGGLRFSHLLD 342

Query:   334 RLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR 393
             ++S   PEMR R+TSPHPKDFPDE+L ++R+R N+CK IHLPAQ+G+S VLE MRRGY+R
Sbjct:   343 QVSRIDPEMRIRFTSPHPKDFPDEVLQLIRERHNICKQIHLPAQSGSSRVLEAMRRGYSR 402

Query:   394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRER 453
             EAY+ LV  IR+ IP VGLSSDFI GFCGETE++H  T++L++ V Y+  ++FAYSMR++
Sbjct:   403 EAYVALVHHIREAIPGVGLSSDFITGFCGETEDDHLQTVSLLREVQYNTGFLFAYSMRQK 462

Query:   454 THAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELV 513
             T A+    DDVPEEVK RRL ELI  FRE   +   + VG  QLVLVEG +K++  T+L 
Sbjct:   463 TRAYHRLKDDVPEEVKLRRLEELITVFREEASKVNATSVGCTQLVLVEGFSKRST-TDLC 521

Query:   514 GKSDRGHRVAF 524
             G++D   +V F
Sbjct:   522 GRNDANLKVIF 532

GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IDA

GO:0005575 "cellular_component" evidence=ND

GO:0005737 "cytoplasm" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

GO:0007420 "brain development" evidence=TAS

GO:0008283 "cell proliferation" evidence=NAS

GO:0016740 "transferase activity" evidence=IEA

GO:0019887 "protein kinase regulator activity" evidence=TAS

GO:0032403 "protein complex binding" evidence=IDA

GO:0045664 "regulation of neuron differentiation" evidence=TAS

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=ISO;ISS

GO:0045859 "regulation of protein kinase activity" evidence=TAS

GO:0046872 "metal ion binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

UNIPROTKB|F1NZV3 CDK5RAP1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 1292 (459.9 bits), Expect = 9.1e-132, P = 9.1e-132
 Identities = 258/464 (55%), Positives = 334/464 (71%)

Query:    61 PASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFI 120
             PA E     GS     G++Y ETYGCQMNVND EI  +I++ +GY+      E A+VI +
Sbjct:    20 PAGEPEPEPGS-TSGLGKVYLETYGCQMNVNDTEIAWAILQKSGYTRTKEADE-ADVILL 77

Query:   121 NTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILD 180
              TC++RD AE  +W RL +   LK          R Q+  P +I +LGCMAERLK++IL 
Sbjct:    78 VTCSVRDKAEQTIWNRLQHLKALKAR--------RHQACLPLRIGILGCMAERLKEEILH 129

Query:   181 ADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSV 240
              +K+VD+V GPDAYRDLPRLL   + GQ+  N LLSL+ETYADI PV+ S    TAFVS+
Sbjct:   130 REKLVDIVAGPDAYRDLPRLLAMAESGQQAANVLLSLDETYADILPVQTSAGGKTAFVSI 189

Query:   241 MRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGME 300
             MRGC+NMCS+CIVPFTRGRERSRP+ SI++EV  L  +GVKEVTLLGQNVNS+ D S  E
Sbjct:   190 MRGCDNMCSYCIVPFTRGRERSRPIASILQEVKMLSDQGVKEVTLLGQNVNSFRDMS--E 247

Query:   301 KEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLY 360
              + +  A   LS GF+++ K K  GLRFA LLD++S   PEMR R+TSPHPKDFPDE+L 
Sbjct:   248 VQFQSAAAPVLSRGFSTVYKTKPGGLRFAHLLDQVSRIDPEMRIRFTSPHPKDFPDEVLQ 307

Query:   361 IMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGF 420
             ++++R N+CK +HLPAQ+G++ VLE MRRGYTREAYL+LVQ +R  IP V LSSDFI GF
Sbjct:   308 LIQERHNICKQLHLPAQSGSTRVLEAMRRGYTREAYLELVQHVRNTIPGVSLSSDFIAGF 367

Query:   421 CGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAF 480
             CGETEE+H  T++L++ V Y++ ++FAYSMR++T A+    DDVP +VKQRRL ELI  F
Sbjct:   368 CGETEEDHQQTVSLLREVRYNIGFLFAYSMRQKTRAYHRLQDDVPADVKQRRLEELITVF 427

Query:   481 RESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
             RE   +  ++ VG  QLVLVEGP+K++  +EL G++D   +V F
Sbjct:   428 REEAARANEAMVGQSQLVLVEGPSKRSA-SELCGRNDGNIKVIF 470

GO:0005737 "cytoplasm" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IEA

MGI|MGI:1914221 Cdk5rap1 "CDK5 regulatory subunit associated protein 1" [Mus musculus (taxid:10090)]

 Score = 1285 (457.4 bits), Expect = 5.0e-131, P = 5.0e-131
 Identities = 262/491 (53%), Positives = 347/491 (70%)

Query:    35 LPDGPGLHHFIAQSSLTASQPLADLAPASEVSSATGSEVHS-QGRIYQETYGCQMNVNDM 93
             L  GP   HF+  +S+   +P +           +G E+   Q ++Y ETYGCQMNVND 
Sbjct:    57 LATGPTFQHFLRSASVPQEKPSSPEVE-DPPPYLSGDELLGRQRKVYLETYGCQMNVNDT 115

Query:    94 EIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVAT 153
             EI  SI++ +GY    N+ E A+VI + TC+IR+ AE  +W RL+    LK        T
Sbjct:   116 EIAWSILQKSGYLRTSNLQE-ADVILLVTCSIREKAEQTIWNRLHQLKVLK--------T 166

Query:   154 GRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINT 213
              R +S+ P +I +LGCMAERLK +IL+ +KMVD++ GPDAYRDLPRLL  V+ GQ+  N 
Sbjct:   167 KRPRSRVPLRIGILGCMAERLKGEILNREKMVDLLAGPDAYRDLPRLLAVVESGQQAANV 226

Query:   214 LLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVD 273
             LLSL+ETYADI PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRPV SI+ EV 
Sbjct:   227 LLSLDETYADIMPVQTSPSATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPVASILDEVR 286

Query:   274 ELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLD 333
             +L ++G+KEVTLLGQNVNS+ D S ++      AN  LS GF +  K K+ GLRF+ LLD
Sbjct:   287 KLSEQGLKEVTLLGQNVNSFRDNSEVQFNNAGSAN--LSRGFTTNYKPKQGGLRFSHLLD 344

Query:   334 RLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR 393
             ++S   PEMR R+TSPHPKDFPDE+L ++R+R N+CK IHLPAQ+G+S VL+ MRRGY+R
Sbjct:   345 QVSRIDPEMRIRFTSPHPKDFPDEVLQLIRERHNICKQIHLPAQSGSSRVLDAMRRGYSR 404

Query:   394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRER 453
             EAY+ LV  +R+ IP V LSSDFI GFCGETE++H  T++L++ V Y+  ++FAYSMR++
Sbjct:   405 EAYVALVHHVRETIPGVSLSSDFITGFCGETEDDHRQTVSLLREVQYNTGFLFAYSMRQK 464

Query:   454 THAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELV 513
             T A+    DDVPEEVK RRL ELI  FRE   +   + VG  QLVLVEG +K++  T+L 
Sbjct:   465 TRAYHRLKDDVPEEVKLRRLEELITVFREEASKANKTSVGCSQLVLVEGFSKRST-TDLC 523

Query:   514 GKSDRGHRVAF 524
             G++D   +V F
Sbjct:   524 GRNDANLKVIF 534

GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=ISO

GO:0003824 "catalytic activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005737 "cytoplasm" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

GO:0009451 "RNA modification" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0032403 "protein complex binding" evidence=ISO

GO:0043412 "macromolecule modification" evidence=IEA

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

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

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

ZFIN|ZDB-GENE-070424-90 zgc:162738 "zgc:162738" [Danio rerio (taxid:7955)]

 Score = 1277 (454.6 bits), Expect = 3.5e-130, P = 3.5e-130
 Identities = 260/499 (52%), Positives = 343/499 (68%)

Query:    38 GPGLHHFIA-QSSLTASQPLADLAPASEVSSATGSEVHSQG-----------RIYQETYG 85
             G GL   +  +S LT      D   +S+ S   GSE + +            ++Y ETYG
Sbjct:    39 GTGLSRIMQLKSKLTNGPSFQDFIMSSDKSDFDGSEEYEEHYIPKYMSDHSRKVYFETYG 98

Query:    86 CQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKR 145
             CQMN ND EI  SI++ AGYS  + + + A+V+ + TC+IR+ AE  +W RL +    K+
Sbjct:    99 CQMNTNDTEIAWSILQKAGYSRTLEL-QKADVVLLVTCSIREKAEQTIWNRLKHLTASKK 157

Query:   146 EWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVD 205
               +K+        K    I VLGCMAERLK ++LD +K+VDV+ GPDAYRDLPRLL    
Sbjct:   158 RIQKH--------KRSLTIGVLGCMAERLKSELLDQEKLVDVLAGPDAYRDLPRLLSLAH 209

Query:   206 YGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPV 265
              GQ+  N LLSLEETYAD+ PV  +    +AFVS+MRGC+NMCS+CIVPFTRGRERSRP+
Sbjct:   210 GGQRASNVLLSLEETYADVIPVHQTLEGHSAFVSIMRGCDNMCSYCIVPFTRGRERSRPM 269

Query:   266 ESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMG 325
              SIV+EV  L  +GVKE+TLLGQNVNSY D S ++       N +LS GF S+ + K+ G
Sbjct:   270 SSIVEEVRMLSDQGVKEITLLGQNVNSYRDLSKLQFSCSE-RNTQLSRGFQSVYRTKQGG 328

Query:   326 LRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLE 385
             LRFADLLDR+SL  P MR R+TSPHPKDFPDE+L ++++R N+CK++HLPAQ+G+S +L 
Sbjct:   329 LRFADLLDRVSLINPNMRIRFTSPHPKDFPDEVLQLIQERSNICKHLHLPAQSGSSRILH 388

Query:   386 RMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYM 445
              MRRGYTREAYL+LV+ IR+IIP V LSSDFI GFC ETEE+H  T++L+K VGY++ + 
Sbjct:   389 AMRRGYTREAYLELVENIRKIIPGVSLSSDFIAGFCSETEEDHQQTISLLKEVGYNIGFF 448

Query:   446 FAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNK 505
             F YSMR++THA+    D+VP  VK+RRL ELI  FRE   +   + +G  QLVLVEG +K
Sbjct:   449 FTYSMRKKTHAYHRLEDNVPAPVKKRRLEELISVFREKATKVNMTLIGNTQLVLVEGKSK 508

Query:   506 KAPDTELVGKSDRGHRVAF 524
             ++ + EL G++D   +V F
Sbjct:   509 RSSE-ELCGRNDGNVKVIF 526

GO:0043412 "macromolecule modification" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0009451 "RNA modification" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

FB|FBgn0037816 CG6345 [Drosophila melanogaster (taxid:7227)]

 Score = 1264 (450.0 bits), Expect = 8.4e-129, P = 8.4e-129
 Identities = 253/487 (51%), Positives = 334/487 (68%)

Query:    38 GPGLHHFIAQSSLTASQPLADLAPASEVSSATGSEVHSQGR-IYQETYGCQMNVNDMEIV 96
             GPG   F A    +  +   +    + V      + +  GR ++ E YGCQMN ND E+V
Sbjct:    52 GPGFQDFFAVKPASRLKTDEEEHVDTSVPYLNSIDFNGNGRKVHFEVYGCQMNTNDTEVV 111

Query:    97 LSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS 156
              SI+K  GY      PE A+VI + TCA+RD AE ++  RL +   +K +        RS
Sbjct:   112 FSILKENGYLRC-QEPEEADVIMLVTCAVRDGAEQRIRNRLKHLRAMKNK--------RS 162

Query:   157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLE-EVDYGQKGINTLL 215
               +HP ++ +LGCMAERLK+K+L+ ++ VDV+ GPD+Y+DLPRLL     YG   IN LL
Sbjct:   163 TRRHPLQLTLLGCMAERLKEKLLEQEQCVDVIAGPDSYKDLPRLLAISRHYGNSAINVLL 222

Query:   216 SLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDEL 275
             SL+ETYAD+ PVR++  S TAFVS+MRGC+NMC++CIVPFTRGRERSRP+ SIV EV  L
Sbjct:   223 SLDETYADVMPVRLNSESPTAFVSIMRGCDNMCTYCIVPFTRGRERSRPLASIVAEVKAL 282

Query:   276 WKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRL 335
              ++GVKEVTLLGQNVNSY D +  E++    A      GF+++ K K  G  FA LL  +
Sbjct:   283 AEQGVKEVTLLGQNVNSYRDRTAQEEQDSLKAT--PVPGFSTVYKPKTGGTPFAALLRSV 340

Query:   336 SLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREA 395
             +   P+MR R+TSPHPKDF DE+L ++RD PNVCK +HLPAQ+GN+ VLERMRRGY+REA
Sbjct:   341 AQAVPDMRIRFTSPHPKDFSDEVLEVIRDHPNVCKQLHLPAQSGNTQVLERMRRGYSREA 400

Query:   396 YLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTH 455
             YL+LVQ IRQ +P+VGLSSDFICGFCGETEEE  DT++L++ V Y++AY+FAYSMRE+T 
Sbjct:   401 YLELVQHIRQFLPNVGLSSDFICGFCGETEEEFQDTVSLIQQVQYNVAYLFAYSMREKTT 460

Query:   456 AHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGK 515
             AHR Y DDVP  VK  RL  +++ FRE   Q +    G  QL+L+EG +K++ D    G+
Sbjct:   461 AHRRYKDDVPINVKNERLQRMVQVFREGATQLHRKMEGQEQLILIEGKSKRS-DAHWFGR 519

Query:   516 SDRGHRV 522
             +D   +V
Sbjct:   520 NDANIKV 526

GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=ISS

GO:0016740 "transferase activity" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0009451 "RNA modification" evidence=IEA

UNIPROTKB|Q96SZ6 CDK5RAP1 "CDK5 regulatory subunit-associated protein 1" [Homo sapiens (taxid:9606)]

 Score = 1260 (448.6 bits), Expect = 2.2e-128, P = 2.2e-128
 Identities = 263/507 (51%), Positives = 345/507 (68%)

Query:    35 LPDGPGLHHFIAQSSLTA---SQPLADLAPASEVSSATGSEVHSQGRIYQETYGCQMNVN 91
             L  GP   HF+  +S      S  + D  P   +    G     Q ++Y ETYGCQMNVN
Sbjct:    59 LAAGPTFQHFLKSASAPQEKLSSEVEDPPPYLMMDELLGR----QRKVYLETYGCQMNVN 114

Query:    92 DMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNV 151
             D EI  SI++ +GY    N+ E A+VI + TC+IR+ AE  +W RL+    LK       
Sbjct:   115 DTEIAWSILQKSGYLRTSNLQE-ADVILLVTCSIREKAEQTIWNRLHQLKALK------- 166

Query:   152 ATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGI 211
              T R +S+ P +I +LGCMAERLK++IL+ +KMVD++ GPDAYRDLPRLL   + GQ+  
Sbjct:   167 -TRRPRSRVPLRIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAA 225

Query:   212 NTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKE 271
             N LLSL+ETYAD+ PV+ S ++ +AFVS+MRGC+NMCS+CIVPFTRGRERSRP+ SI++E
Sbjct:   226 NVLLSLDETYADVMPVQTSASATSAFVSIMRGCDNMCSYCIVPFTRGRERSRPIASILEE 285

Query:   272 VDELWKE--------------GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNS 317
             V +L ++              G+KEVTLLGQNVNS+ D S  E +        LS GF +
Sbjct:   286 VKKLSEQVFLPPRPPKVLGLQGLKEVTLLGQNVNSFRDNS--EVQFNSAVPTNLSRGFTT 343

Query:   318 MCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQ 377
               K K+ GLRFA LLD++S   PEMR R+TSPHPKDFPDE+L ++ +R N+CK IHLPAQ
Sbjct:   344 NYKTKQGGLRFAHLLDQVSRVDPEMRIRFTSPHPKDFPDEVLQLIHERDNICKQIHLPAQ 403

Query:   378 TGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKA 437
             +G+S VLE MRRGY+REAY++LV  IR+ IP V LSSDFI GFCGETEE+H  T++L++ 
Sbjct:   404 SGSSRVLEAMRRGYSREAYVELVHHIRESIPGVSLSSDFIAGFCGETEEDHVQTVSLLRE 463

Query:   438 VGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQL 497
             V Y+M ++FAYSMR++T A+    DDVPEEVK RRL ELI  FRE   +   + VG  QL
Sbjct:   464 VQYNMGFLFAYSMRQKTRAYHRLKDDVPEEVKLRRLEELITIFREEATKANQTSVGCTQL 523

Query:   498 VLVEGPNKKAPDTELVGKSDRGHRVAF 524
             VLVEG +K++  T+L G++D   +V F
Sbjct:   524 VLVEGLSKRSA-TDLCGRNDGNLKVIF 549

GO:0005737 "cytoplasm" evidence=IEA

GO:0006400 "tRNA modification" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0007420 "brain development" evidence=NAS

GO:0045664 "regulation of neuron differentiation" evidence=NAS

GO:0045736 "negative regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=IDA

GO:0019901 "protein kinase binding" evidence=NAS

GO:0005575 "cellular_component" evidence=ND

---

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)
B3ES11	MIAB_AMOA5	2, ., -, ., -, ., -	0.5044	0.7977	0.8600	yes	no
Q2RZF8	MIAB_SALRD	2, ., -, ., -, ., -	0.5089	0.7843	0.8170	yes	no
Q8A2W0	MIAB_BACTN	2, ., -, ., -, ., -	0.4578	0.8053	0.9274	yes	no
A5FIU2	MIAB_FLAJ1	2, ., -, ., -, ., -	0.4419	0.8053	0.8773	yes	no
A0M7D3	MIAB_GRAFK	2, ., -, ., -, ., -	0.4486	0.8053	0.8773	yes	no
Q8BTW8	CK5P1_MOUSE	No assigned EC number	0.5333	0.9026	0.8044	yes	no
Q96SZ6	CK5P1_HUMAN	No assigned EC number	0.5187	0.9045	0.7886	yes	no
Q9VGZ1	CK5P1_DROME	No assigned EC number	0.5195	0.9026	0.8113	yes	no
Q5LJ70	MIAB_BACFN	2, ., -, ., -, ., -	0.4535	0.8053	0.9234	yes	no
Q09316	CK5P1_CAEEL	No assigned EC number	0.4746	0.8969	0.8592	yes	no
Q2R1U4	CK5P1_ORYSJ	No assigned EC number	0.8176	0.8969	0.7833	yes	no
Q9JLH6	CK5P1_RAT	No assigned EC number	0.5373	0.9026	0.8071	yes	no
Q8H0V1	CK5P1_ARATH	No assigned EC number	0.7547	0.9828	0.8046	yes	no
Q11U26	MIAB_CYTH3	2, ., -, ., -, ., -	0.5033	0.7862	0.8565	yes	no
A6KZJ2	MIAB_BACV8	2, ., -, ., -, ., -	0.4600	0.8053	0.9254	yes	no
Q650P7	MIAB_BACFR	2, ., -, ., -, ., -	0.4535	0.8053	0.9234	yes	no
A6H119	MIAB_FLAPJ	2, ., -, ., -, ., -	0.4419	0.8053	0.8773	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

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	gw1.VII.3756.1	hypothetical protein (508 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_Genewise1_v1.C_LG_VII0255	cysteine desulfurase/transaminase (EC-2.8.1.7) (452 aa)	•			•			•		0.847
	gw1.I.1555.1	hypothetical protein (409 aa)	•			•			•		0.778
	eugene3.00020856	hypothetical protein (483 aa)							•		0.765
	fgenesh4_pg.C_scaffold_18203000001	Predicted protein (261 aa)	•						•		0.730
	gw1.X.4400.1	hypothetical protein (451 aa)				•			•		0.699
	gw1.14504.3.1	Predicted protein (288 aa)							•		0.698
	grail3.0032015901	tRNA isopentenyltransferase (EC-2.5.1.27) (390 aa)	•			•			•		0.685
	eugene3.114390001	Predicted protein (351 aa)	•						•		0.673
	gw1.V.3607.1	phosphoserine transaminase (EC-2.6.1.52) (378 aa)	•						•		0.636
	eugene3.55420001	annotation not avaliable (132 aa)	•						•		0.622

---

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	524
PRK14329	467	PRK14329, PRK14329, (dimethylallyl)adenosine tRNA	0.0
PRK14340	445	PRK14340, PRK14340, (dimethylallyl)adenosine tRNA	1e-145
COG0621	437	COG0621, MiaB, 2-methylthioadenine synthetase [Tra	1e-138
TIGR00089	429	TIGR00089, TIGR00089, radical SAM methylthiotransf	1e-136
PRK14332	449	PRK14332, PRK14332, (dimethylallyl)adenosine tRNA	1e-135
PRK14325	444	PRK14325, PRK14325, (dimethylallyl)adenosine tRNA	1e-132
PRK14328	439	PRK14328, PRK14328, (dimethylallyl)adenosine tRNA	1e-125
TIGR01574	438	TIGR01574, miaB-methiolase, tRNA-N(6)-(isopentenyl	1e-120
PRK14335	455	PRK14335, PRK14335, (dimethylallyl)adenosine tRNA	1e-111
PRK14327	509	PRK14327, PRK14327, (dimethylallyl)adenosine tRNA	1e-107
PRK14337	446	PRK14337, PRK14337, (dimethylallyl)adenosine tRNA	1e-100
PRK14330	434	PRK14330, PRK14330, (dimethylallyl)adenosine tRNA	2e-98
PRK14331	437	PRK14331, PRK14331, (dimethylallyl)adenosine tRNA	6e-98
PRK14334	440	PRK14334, PRK14334, (dimethylallyl)adenosine tRNA	6e-92
PRK14333	448	PRK14333, PRK14333, (dimethylallyl)adenosine tRNA	9e-91
PRK14326	502	PRK14326, PRK14326, (dimethylallyl)adenosine tRNA	6e-88
PRK14336	418	PRK14336, PRK14336, (dimethylallyl)adenosine tRNA	1e-84
PRK14338	459	PRK14338, PRK14338, (dimethylallyl)adenosine tRNA	1e-83
PRK14339	420	PRK14339, PRK14339, (dimethylallyl)adenosine tRNA	2e-83
TIGR01579	414	TIGR01579, MiaB-like-C, MiaB-like tRNA modifying e	1e-67
TIGR01125	430	TIGR01125, TIGR01125, ribosomal protein S12 methyl	1e-65
TIGR01578	420	TIGR01578, MiaB-like-B, MiaB-like tRNA modifying e	7e-62
smart00729	216	smart00729, Elp3, Elongator protein 3, MiaB family	3e-46
PRK14862	440	PRK14862, rimO, ribosomal protein S12 methylthiotr	1e-36
pfam00919	98	pfam00919, UPF0004, Uncharacterized protein family	1e-33
pfam04055	165	pfam04055, Radical_SAM, Radical SAM superfamily	5e-21
TIGR04014	434	TIGR04014, B12_SAM_MJ_0865, B12-binding domain/rad	1e-19
COG1032	490	COG1032, COG1032, Fe-S oxidoreductase [Energy prod	1e-19
TIGR04013	382	TIGR04013, B12_SAM_MJ_1487, B12-binding domain/rad	5e-18
cd01335	204	cd01335, Radical_SAM, Radical SAM superfamily	3e-08
COG1031	560	COG1031, COG1031, Uncharacterized Fe-S oxidoreduct	4e-05
TIGR03904	559	TIGR03904, SAM_YgiQ, uncharacterized radical SAM p	1e-04
TIGR04295	422	TIGR04295, B12_rSAM_oligo, B12-binding domain/radi	0.003
PRK12928	290	PRK12928, PRK12928, lipoyl synthase; Provisional	0.003

>gnl|CDD|237676 PRK14329, PRK14329, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  577 bits (1488), Expect = 0.0
 Identities = 223/448 (49%), Positives = 297/448 (66%), Gaps = 36/448 (8%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           +++ E+YGCQMN  D EIV SI++ AGY       E A+++ +NTC+IRD AE KV +RL
Sbjct: 25  KLFIESYGCQMNFADSEIVASILQMAGY-NTTENLEEADLVLVNTCSIRDNAEQKVRKRL 83

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIV-VLGCMAERLKDKILDADKMVDVVCGPDAYRD 196
             F  LK+             K+P  IV VLGCMAERLKDK+L+ +K+VD+V GPDAY D
Sbjct: 84  EKFNALKK-------------KNPKLIVGVLGCMAERLKDKLLEEEKIVDLVVGPDAYLD 130

Query: 197 LPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFT 256
           LP L+ EV+ G+K IN +LS EETYADISPVR+  N V+AFVS+MRGC+NMC+FC+VPFT
Sbjct: 131 LPNLIAEVEEGRKAINVILSKEETYADISPVRLGGNGVSAFVSIMRGCDNMCTFCVVPFT 190

Query: 257 RGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN 316
           RGRERSR  ESI+ EV +L+ +G KEVTLLGQNV+SY    G  K               
Sbjct: 191 RGRERSRDPESILNEVRDLFAKGYKEVTLLGQNVDSYLWYGGGLK--------------- 235

Query: 317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPA 376
                K   + FA LL+ ++   P+MR R+++ HPKD  D++L +M    N+CK+IHLP 
Sbjct: 236 -----KDEAVNFAQLLEMVAEAVPDMRIRFSTSHPKDMTDDVLEVMAKYDNICKHIHLPV 290

Query: 377 QTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMK 436
           Q+G+  +L+ M R YTRE YLD +  IR+IIPD G+S+D I GF  ETEE+H DTL+LM+
Sbjct: 291 QSGSDRILKLMNRKYTREWYLDRIDAIRRIIPDCGISTDMIAGFPTETEEDHQDTLSLME 350

Query: 437 AVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQ 496
            VGYD A+MF YS R  T+A R   DDVPEEVK+RRL E+I   +E + +     +G   
Sbjct: 351 EVGYDFAFMFKYSERPGTYAARKLEDDVPEEVKKRRLNEIIALQQELSLERNQRDIGKTF 410

Query: 497 LVLVEGPNKKAPDTELVGKSDRGHRVAF 524
            VL+EG +K++   +L G++ +   V F
Sbjct: 411 EVLIEGVSKRS-REQLFGRNSQNKVVVF 437

Length = 467

>gnl|CDD|237679 PRK14340, PRK14340, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  423 bits (1089), Expect = e-145
 Identities = 186/447 (41%), Positives = 269/447 (60%), Gaps = 42/447 (9%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           + Y  T+GCQMN  D EI+ +++++ GY    +  E+A+++ +NTCA+R+ A  ++    
Sbjct: 8   KFYIHTFGCQMNQADSEIITALLQDEGYVPAAS-EEDADIVLLNTCAVRENAVERI---G 63

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDL 197
           +Y   LK         G  + +    + VLGC+ +  ++++     ++D + GPD YR L
Sbjct: 64  HYLQHLK---------GAKRRRKGLLVGVLGCVPQYEREEMFSMFPVIDFLAGPDTYRVL 114

Query: 198 PRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTR 257
           P L+ +   G +      +  ETYA I PVR    S++AFV VMRGCNNMC+FC+VPFTR
Sbjct: 115 PGLIADAREGARPAALDFNQSETYAGIEPVR--SGSISAFVPVMRGCNNMCAFCVVPFTR 172

Query: 258 GRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNS 317
           GRERS P  S++ EV  L + G +E+TLLGQNVNSY+D        E GA+         
Sbjct: 173 GRERSHPFASVLDEVRALAEAGYREITLLGQNVNSYSDP-------EAGAD--------- 216

Query: 318 MCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQ 377
                     FA LLD +S   PEMR R+T+ HPKD  + L+  +  RPN+C +IHLP Q
Sbjct: 217 ----------FAGLLDAVSRAAPEMRIRFTTSHPKDISESLVRTIAARPNICNHIHLPVQ 266

Query: 378 TGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKA 437
           +G+S +L RM RG+T E YL+ +  IR  IP V LS+D I GFCGETEE+H  TL+LM+ 
Sbjct: 267 SGSSRMLRRMNRGHTIEEYLEKIALIRSAIPGVTLSTDLIAGFCGETEEDHRATLSLMEE 326

Query: 438 VGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQL 497
           V +D A+MF YS+R  T A R   DDVPEEVK+RRL E+I+     + + +   VG+V  
Sbjct: 327 VRFDSAFMFYYSVRPGTLAARTLPDDVPEEVKKRRLQEIIDLQNGISAELFQRAVGSVVE 386

Query: 498 VLVEGPNKKAPDTELVGKSDRGHRVAF 524
           VL E  ++++ + +L+G++D    V F
Sbjct: 387 VLAESESRRSSE-QLMGRTDGNRVVVF 412

Length = 445

>gnl|CDD|223694 COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]

 Score =  405 bits (1042), Expect = e-138
 Identities = 172/449 (38%), Positives = 248/449 (55%), Gaps = 47/449 (10%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           ++Y ET GCQMN+ D E +  +++ AGY E++  PE A+V+ INTCA+R+ AE KV   +
Sbjct: 4   KVYIETLGCQMNLYDSERMAGLLEAAGYEELVEDPEEADVVIINTCAVREKAEQKVRSAI 63

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDL 197
                   E KK         K   KI+V GC+A+  +++IL+    VD+V GP     L
Sbjct: 64  -------GELKKL--------KPDAKIIVTGCLAQA-EEEILERAPEVDIVLGPQNKERL 107

Query: 198 PRLLEEVDYGQKGINTLLSLEET--YADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPF 255
           P  +E+   G+K    +LS  E   +  + P R     V AFV +  GCN  C+FCI+P+
Sbjct: 108 PEAIEKALRGKKEFVVVLSFPEEEKFDKLPPRREGG--VRAFVKIQEGCNKFCTFCIIPY 165

Query: 256 TRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF 315
            RG+ERSRP E I+KEV  L  +GVKE+ L GQ+VN+Y    G +     G         
Sbjct: 166 ARGKERSRPPEDILKEVKRLVAQGVKEIVLTGQDVNAY----GKDL---GGGKP------ 212

Query: 316 NSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLP 375
                        ADLL  LS      R R+ S HP +F D+L+  + + P VC ++HLP
Sbjct: 213 -----------NLADLLRELSKIPGIERIRFGSSHPLEFTDDLIEAIAETPKVCPHLHLP 261

Query: 376 AQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLM 435
            Q+G+  +L+RM+RGYT E YL++++K+R   PD+ +S+D I GF GETEE+  +TL L+
Sbjct: 262 VQSGSDRILKRMKRGYTVEEYLEIIEKLRAARPDIAISTDIIVGFPGETEEDFEETLDLV 321

Query: 436 KAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTV 495
           + V +D  ++F YS R  T A     D VPEEVK+ RL  L E  ++ + +     VG  
Sbjct: 322 EEVRFDRLHVFKYSPRPGTPAAL-MPDQVPEEVKKERLRRLQELQQQISAEFNQKLVGKT 380

Query: 496 QLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
             VLVE    K    EL+G+++    V F
Sbjct: 381 LEVLVEEGGSK--KGELIGRTENYRPVVF 407

Length = 437

>gnl|CDD|232820 TIGR00089, TIGR00089, radical SAM methylthiotransferase, MiaB/RimO family

 Score =  400 bits (1030), Expect = e-136
 Identities = 179/448 (39%), Positives = 245/448 (54%), Gaps = 47/448 (10%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           ++Y ETYGCQMN  D EI+  ++K AGY EV + PE A+VI INTCA+R+ AE KV  RL
Sbjct: 1   KVYIETYGCQMNEADSEIMAGLLKEAGY-EVTDDPEEADVIIINTCAVREKAEQKVRSRL 59

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDL 197
                   E  K         K   KIVV GC+A+R  +++L     VD+V GP     +
Sbjct: 60  -------GELAK-------LKKKNAKIVVAGCLAQREGEELLKRIPEVDIVLGPQNKERI 105

Query: 198 PRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTR 257
           P  +E  +  ++ +  +    + Y ++ P   S     AF+ +  GC+  C++CIVP+ R
Sbjct: 106 PEAIESAEQEKQVVFNISK--DVYEEL-PRPRSFGKTRAFLKIQEGCDKFCTYCIVPYAR 162

Query: 258 GRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYN-DTSGMEKEVEPGANWRLSEGFN 316
           GRERSRP E I++EV EL  +GVKE+ LLGQNV +Y  D  G                  
Sbjct: 163 GRERSRPPEDILEEVKELVSKGVKEIVLLGQNVGAYGKDLKGETN--------------- 207

Query: 317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPA 376
                       ADLL  LS      R R+ S HP D  D+L+ ++ + P VCK++HLP 
Sbjct: 208 -----------LADLLRELSKIDGIERIRFGSSHPDDVTDDLIELIAENPKVCKHLHLPV 256

Query: 377 QTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMK 436
           Q+G+  +L+RM R YTRE YLD+V+KIR  IPD  +++D I GF GETEE+  +TL L++
Sbjct: 257 QSGSDRILKRMNRKYTREEYLDIVEKIRAKIPDAAITTDIIVGFPGETEEDFEETLDLVE 316

Query: 437 AVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQ 496
            V +D  + F YS R  T A     D VPEEVK+ RL  LI   +E + +     VG   
Sbjct: 317 EVKFDKLHSFIYSPRPGTPAAD-MKDQVPEEVKKERLERLIALQKEISLEKNKKYVGKTL 375

Query: 497 LVLVEGPNKKAPDTELVGKSDRGHRVAF 524
            VLVEG   K    EL G+++    V F
Sbjct: 376 EVLVEGEEGKKEG-ELTGRTENYKPVVF 402

This subfamily contains the tRNA-i(6)A37 modification enzyme, MiaB (TIGR01574). The phylogenetic tree indicates 4 distinct clades, one of which corresponds to MiaB. The other three clades are modelled by hypothetical equivalogs (TIGR01125, TIGR01579 and TIGR01578). Together, the four models hit every sequence hit by the subfamily model without any overlap between them. This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related. Length = 429

>gnl|CDD|172808 PRK14332, PRK14332, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  397 bits (1022), Expect = e-135
 Identities = 201/451 (44%), Positives = 282/451 (62%), Gaps = 49/451 (10%)

Query: 77  GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQR 136
           G++Y ETYGCQMN  D  IV S+M++A YS   N PEN+++IF+NTCAIR+ A  K++ R
Sbjct: 11  GKVYIETYGCQMNEYDSGIVSSLMRDAEYSTS-NDPENSDIIFLNTCAIRENAHAKIYNR 69

Query: 137 LNYFWFLKREWKKNVATGRSQSKHPPKIV--VLGCMAERLKDKILDADKMVDVVCGPDAY 194
           L    +LK   K+N           P +V  VLGCMA+ L D +   +  +D+V GPD Y
Sbjct: 70  LQSLGYLK---KRN-----------PNLVIGVLGCMAQNLGDDLFHQELPLDLVVGPDNY 115

Query: 195 RDLPRLLEEVDYGQKGIN-TLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIV 253
           R LP L++ +  G+K I+ T LS  ETY +I P  +  N + AFV++MRGCNN C+FC+V
Sbjct: 116 RSLPELIQRIRNGEKSISLTRLSKIETYDEIEPRVV--NGIQAFVTIMRGCNNFCTFCVV 173

Query: 254 PFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE 313
           P+TRGRERSR  +SIV+E+ +L ++G+++VTLLGQNVNSY                    
Sbjct: 174 PYTRGRERSRDPKSIVREIQDLQEKGIRQVTLLGQNVNSY-------------------- 213

Query: 314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIH 373
                   K+    FA L+  L  E    R R+TSPHPKDFPD LL +M   P  C  IH
Sbjct: 214 --------KEQSTDFAGLIQMLLDETTIERIRFTSPHPKDFPDHLLSLMAKNPRFCPNIH 265

Query: 374 LPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLT 433
           LP Q GN+ VLE M+R Y++E +LD+V++IR I+PDVG+++D I GF  ETEEE  DTL 
Sbjct: 266 LPLQAGNTRVLEEMKRSYSKEEFLDVVKEIRNIVPDVGITTDIIVGFPNETEEEFEDTLA 325

Query: 434 LMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVG 493
           +++ V +DMA+MF YS RE T A R   D+VPEEVK  RLT+L++     + +   +++G
Sbjct: 326 VVREVQFDMAFMFKYSEREGTMAKRKLPDNVPEEVKSARLTKLVDLQTSISHEQNRARIG 385

Query: 494 TVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
            V  +L+E  ++K+ + +L G++  G    F
Sbjct: 386 RVYSILIENTSRKS-EKQLCGRTPCGRMTVF 415

Length = 449

>gnl|CDD|237673 PRK14325, PRK14325, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  392 bits (1009), Expect = e-132
 Identities = 167/460 (36%), Positives = 248/460 (53%), Gaps = 66/460 (14%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           ++Y +TYGCQMN  D   +  ++   GY    + PE A++I +NTC+IR+ A+ KV+  L
Sbjct: 5   KLYIKTYGCQMNEYDSSKMADLLGAEGYELT-DDPEEADLILLNTCSIREKAQEKVFSEL 63

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDL 197
             +    R+ K+              I V GC+A++  ++IL     VD+V GP     L
Sbjct: 64  GRW----RKLKEK--------NPDLIIGVGGCVAQQEGEEILKRAPYVDIVFGPQTLHRL 111

Query: 198 PRLLEEVDYGQKGINTLLSLEETYADISPVRISK---------NSVTAFVSVMRGCNNMC 248
           P ++     G K +           DIS   I K            +AFVS+M GC+  C
Sbjct: 112 PEMIARARRGGKPV----------VDISFPEIEKFDHLPEPRAEGPSAFVSIMEGCDKYC 161

Query: 249 SFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGAN 308
           +FC+VP+TRG E SRPV+ ++ EV +L ++GV+E+TLLGQNVN+Y    G   E   G  
Sbjct: 162 TFCVVPYTRGEEVSRPVDDVLAEVAQLAEQGVREITLLGQNVNAYR---G---EGPDGEI 215

Query: 309 WRLSEGFNSMCKVKKMGLRFADLLDRLS----LEFPEMRFRYTSPHPKDFPDELLYIMRD 364
                              FA+LL  ++    +E    R RYT+ HP+DF D+L+    D
Sbjct: 216 A-----------------DFAELLRLVAAIDGIE----RIRYTTSHPRDFTDDLIEAYAD 254

Query: 365 RPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGET 424
            P +  ++HLP Q+G+  +L+ M RG+T   Y  +++K+R   PD+ +SSDFI GF GET
Sbjct: 255 LPKLVPFLHLPVQSGSDRILKAMNRGHTALEYKSIIRKLRAARPDIAISSDFIVGFPGET 314

Query: 425 EEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFREST 484
           +E+   T+ L++ VG+D ++ F YS R  T A  +  DDVPEEVK+ RL  L     +  
Sbjct: 315 DEDFEATMKLIEDVGFDQSFSFIYSPRPGTPA-ADLPDDVPEEVKKERLQRLQALINQQQ 373

Query: 485 GQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
                S VGTVQ VLVEGP++K    +L+G+++    V F
Sbjct: 374 MAFSRSMVGTVQRVLVEGPSRKDG--QLIGRTENNRVVNF 411

Length = 444

>gnl|CDD|237675 PRK14328, PRK14328, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  373 bits (959), Expect = e-125
 Identities = 177/451 (39%), Positives = 247/451 (54%), Gaps = 55/451 (12%)

Query: 82  ETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFW 141
           ETYGCQMN  D E +  ++K+ GY    N  E A++I  NTC +R+ AE+KV+  L    
Sbjct: 7   ETYGCQMNEEDSEKLAGMLKSMGYERTENR-EEADIIIFNTCCVRENAENKVFGNLGE-- 63

Query: 142 FLKREWKKNVATGRSQSKHPPK--IVVLGCMAER--LKDKILDADKMVDVVCGPDAYRDL 197
            LK+  +KN           P   I V GCM ++  + +KI      VD++ G       
Sbjct: 64  -LKKLKEKN-----------PNLIIGVCGCMMQQKGMAEKIKKKFPFVDIIFGTHNIHKF 111

Query: 198 PRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTR 257
           P  L  V    K +  +   E+   +  P+   K+ V AFV++M GCNN C++CIVP+ R
Sbjct: 112 PEYLNRVKEEGKSVIEIWEKEDGIVEGLPID-RKSKVKAFVTIMYGCNNFCTYCIVPYVR 170

Query: 258 GRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNS 317
           GRERSR  E I+ E+ EL  EG KEVTLLGQNVNSY       K++E   +         
Sbjct: 171 GRERSRKPEDIIAEIKELVSEGYKEVTLLGQNVNSYG------KDLEEKID--------- 215

Query: 318 MCKVKKMGLRFADLLDRLS----LEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIH 373
                     FADLL R++    LE    R R+ + HPKD  D+L+  + D   VC++IH
Sbjct: 216 ----------FADLLRRVNEIDGLE----RIRFMTSHPKDLSDDLIEAIADCDKVCEHIH 261

Query: 374 LPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLT 433
           LP Q+G++ +L++M R YTRE YL+LV+KI+  IPDV +++D I GF GETEE+  +TL 
Sbjct: 262 LPVQSGSNRILKKMNRHYTREYYLELVEKIKSNIPDVAITTDIIVGFPGETEEDFEETLD 321

Query: 434 LMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVG 493
           L+K V YD A+ F YS R+ T A     D VPE+VK  R   L+E   + + +      G
Sbjct: 322 LVKEVRYDSAFTFIYSKRKGTPAA-KMEDQVPEDVKHERFNRLVELQNKISLEKNKEYEG 380

Query: 494 TVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
            +  VLVEGP+K     +L G++     V F
Sbjct: 381 KIVEVLVEGPSKNDE-NKLTGRTRTNKLVNF 410

Length = 439

>gnl|CDD|233476 TIGR01574, miaB-methiolase, tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB

 Score =  359 bits (924), Expect = e-120
 Identities = 173/449 (38%), Positives = 253/449 (56%), Gaps = 41/449 (9%)

Query: 78  RIYQETYGCQMNVNDMEIVLSI-MKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQR 136
           +++ +TYGCQMNV D E + ++     GY  +    + A+V+ INTC++R+ AEHKV+  
Sbjct: 1   KLFIQTYGCQMNVRDSEHMAALLTAKEGY-ALTEDAKEADVLLINTCSVREKAEHKVFGE 59

Query: 137 LNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRD 196
           L  F  LK   KKN             I V GCMA  L ++I      VD V G      
Sbjct: 60  LGGFKKLK---KKNPDL---------IIGVCGCMASHLGNEIFQRAPYVDFVFGTRNIHR 107

Query: 197 LPRLLEEVDYGQKGINTLLSLEET-YADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPF 255
           LP+ ++     QK +   +  +E+  A       ++    +F+++M GCN  C++CIVP+
Sbjct: 108 LPQAIKTP-LTQKFMVVDIDSDESEVAGYFADFRNEGIYKSFINIMIGCNKFCTYCIVPY 166

Query: 256 TRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF 315
           TRG E SRP + I++EV +L ++GV+E+TLLGQNVN+Y            G ++   EG 
Sbjct: 167 TRGDEISRPFDDILQEVQKLAEKGVREITLLGQNVNAYR-----------GKDF---EG- 211

Query: 316 NSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLP 375
                 K M   F+DLL  LS      R R+TS HP DF D+L+ +  + P +CK +HLP
Sbjct: 212 ------KTMD--FSDLLRELSTIDGIERIRFTSSHPLDFDDDLIEVFANNPKLCKSMHLP 263

Query: 376 AQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLM 435
            Q+G+S +L+ M+RGYTRE YL+LV+K+R   P+V +S+D I GF GETEE+  +TL L+
Sbjct: 264 VQSGSSEILKLMKRGYTREWYLNLVRKLRAACPNVSISTDIIVGFPGETEEDFEETLDLL 323

Query: 436 KAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTV 495
           + V +D A+ F YS R  T A  +  D +PEE+K+RRL  L     E   +    Q G  
Sbjct: 324 REVEFDSAFSFIYSPRPGTPAA-DMPDQIPEEIKKRRLQRLQARHNEILDKKMRKQEGKT 382

Query: 496 QLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
             VLVEG ++  P+ EL G+++    V F
Sbjct: 383 FKVLVEGLSRNNPE-ELAGRTENNFLVNF 410

This model represents homologs of the MiaB enzyme responsible for the modification of the isopentenylated adenine-37 base of most bacterial and eukaryotic tRNAs that read codons beginning with uracil (all except tRNA(I,V) Ser). Adenine-37 is next to the anticodon on the 3' side in these tRNA's, and lack of modification at this site leads to an increased spontaneous mutation frequency. Isopentenylated A-37 is modified by methylthiolation at position 2, either by MiaB alone or in concert with a separate methylase yet to be discovered (MiaC?). MiaB contains a 4Fe-4S cluster which is labile under oxidizing conditions. Additionally, the sequence is homologous (via PSI-BLAST searches) to the biotin synthetase, BioB, which utilizes both an iron-sulfur cluster and S-adenosym methionine (SAM) to generate a radical which is responsible for initiating the insertion of sulfur into the substrate. It is reasonable to surmise that the methyl group of SAM becomes the methyl group of the product, but this has not been shown, and the possibility of a separate methylase exists. This equivalog is a member of a subfamily (TIGR00089) which contains several other hypothetical equivalogs which are all probably enzymes with similar function acting on different substrates. These enzymes contain a TRAM domain (pfam01938) which is believed to be responsible for binding to tRNAs. Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme [Protein synthesis, tRNA and rRNA base modification]. Length = 438

>gnl|CDD|237678 PRK14335, PRK14335, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  337 bits (866), Expect = e-111
 Identities = 163/463 (35%), Positives = 244/463 (52%), Gaps = 57/463 (12%)

Query: 77  GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQR 136
              + ETYGCQMNV +   +  ++   G+++ ++  E  +V+ INTC++R  AE +V+ R
Sbjct: 1   MTYFFETYGCQMNVAESASMEQLLLARGWTKAVD-AETCDVLIINTCSVRITAETRVFGR 59

Query: 137 LNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRD 196
           L  F  LK+             K    I+++GCMAERL D+I      +D V G  A+  
Sbjct: 60  LGLFSSLKK-------------KRAFFIILMGCMAERLHDEIQKEFPRIDYVVGTFAHAR 106

Query: 197 LPRLLEEVDYGQKGINTLLSLEETYADIS----------PVRISKNSVTAFVSVMRGCNN 246
           L  + +E++   K        E                 P   S+ S  +F+ +M GCNN
Sbjct: 107 LESIFQEIE--AKLKQDDYRFEFISERYREHPVSGYRFFPSSYSEGSFQSFIPIMNGCNN 164

Query: 247 MCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPG 306
            CS+CIVP+ RGRE SR +++I++E+D L ++GV+E+TLLGQNVNSY             
Sbjct: 165 FCSYCIVPYVRGREISRDLDAILQEIDVLSEKGVREITLLGQNVNSYR------------ 212

Query: 307 ANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMR-----FRYTSPHPKDFPDELLYI 361
              R  EG           + F  LL  +     E+       R+ S HPKD  D+L+  
Sbjct: 213 --GRDREGNI---------VTFPQLLRHIVRR-AEVTDQIRWIRFMSSHPKDLSDDLIAT 260

Query: 362 MRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFC 421
           +     +C+ +HLP Q G++ VL+RM R YTRE YL LV K++  IP+V LS+D + GF 
Sbjct: 261 IAQESRLCRLVHLPVQHGSNGVLKRMNRSYTREHYLSLVGKLKASIPNVALSTDILIGFP 320

Query: 422 GETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFR 481
           GETEE+   TL LM+ V +D A+M+ Y+ RE T A+ ++ D +P+EVK  RL  +I    
Sbjct: 321 GETEEDFEQTLDLMREVEFDSAFMYHYNPREGTPAY-DFPDRIPDEVKIARLQRVIALQM 379

Query: 482 ESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
             T +   ++VG    VLVE  ++  P+ EL G ++ G     
Sbjct: 380 SITLKKMKARVGKTLPVLVESRSRNNPE-ELFGHTELGEMTVL 421

Length = 455

>gnl|CDD|184624 PRK14327, PRK14327, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  330 bits (847), Expect = e-107
 Identities = 172/454 (37%), Positives = 261/454 (57%), Gaps = 48/454 (10%)

Query: 76  QGR-IYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVW 134
            GR  Y  TYGCQMN +D E++  I +  GY E  +  E+A+VI +NTCAIR+ AE+KV+
Sbjct: 65  NGRKFYIRTYGCQMNEHDTEVMAGIFEALGY-EPTDDTEDADVILLNTCAIRENAENKVF 123

Query: 135 QRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMA--ERLKDKILDADKMVDVVCGPD 192
             + +   LKRE   ++  G           V GCM+  E + +KIL   + VD++ G  
Sbjct: 124 GEIGHLKHLKRE-NPDLLIG-----------VCGCMSQEESVVNKILKKYQHVDMIFGTH 171

Query: 193 AYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCI 252
               LP +L+E  + ++ +  + S E    +  P ++ + ++ A+V++M GC+  C++CI
Sbjct: 172 NIHRLPEILKEAYFSKEMVVEVWSKEGDVIENLP-KVREGNIKAWVNIMYGCDKFCTYCI 230

Query: 253 VPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSY-NDTSGMEKEVEPGANWRL 311
           VP+TRG+ERSR  E I++EV  L ++G KE+TLLGQNVN+Y  D   +E           
Sbjct: 231 VPYTRGKERSRRPEDIIQEVRHLARQGYKEITLLGQNVNAYGKDFEDIE----------- 279

Query: 312 SEGFNSMCKVKKMGLRFADLLDRLS-LEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCK 370
                             DL+D +  ++ P  R R+T+ HP+DF D L+ ++    N+ +
Sbjct: 280 --------------YGLGDLMDEIRKIDIP--RVRFTTSHPRDFDDHLIEVLAKGGNLVE 323

Query: 371 YIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHAD 430
           +IHLP Q+G++ VL+ M R YTRE+YL+LV+KI++ IP+V L++D I GF  ET+E+  +
Sbjct: 324 HIHLPVQSGSTEVLKIMARKYTRESYLELVRKIKEAIPNVALTTDIIVGFPNETDEQFEE 383

Query: 431 TLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDS 490
           TL+L + VG+D AY F YS RE T A +   D+VP EVK+ RL  L     E + +    
Sbjct: 384 TLSLYREVGFDHAYTFIYSPREGTPAAK-MKDNVPMEVKKERLQRLNALVNEYSAKKMKR 442

Query: 491 QVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
             G    VLVEG +KK P+  L G + +   V F
Sbjct: 443 YEGQTVEVLVEGESKKNPEV-LAGYTRKNKLVNF 475

Length = 509

>gnl|CDD|172813 PRK14337, PRK14337, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  309 bits (793), Expect = e-100
 Identities = 156/437 (35%), Positives = 224/437 (51%), Gaps = 62/437 (14%)

Query: 82  ETYGCQMNVNDMEIVLSIMKNAGYSEVINVPE-NAEVIFINTCAIRDYAEHKVWQRLNYF 140
            T+GCQMNVND + +   +   G++E    PE  A V  +NTC++RD  E KV+  L   
Sbjct: 9   ITFGCQMNVNDSDWLARALVARGFTEA---PEEEARVFIVNTCSVRDKPEQKVYSLLGR- 64

Query: 141 WFLKREWKKNVATGRSQSKHPPK--IVVLGCMAERLKDKILDADKMVDVVCGPD----AY 194
             ++   KKN           P   + V GC+A+++          V +V G D    A 
Sbjct: 65  --IRHATKKN-----------PDVFVAVGGCVAQQIGSGFFSRFPQVRLVFGTDGIAMAP 111

Query: 195 RDLPRLLEEVDYGQKGINTLLSLEETYADISPVR-----ISKNSVTAFVSVMRGCNNMCS 249
           + L RL EE       ++ LL   E Y    P R           +AFV++M+GC+N C+
Sbjct: 112 QALERLAEE---PDLRLS-LLDFSEHY----PEREALWGNGTVPASAFVNIMQGCDNFCA 163

Query: 250 FCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW 309
           +CIVP+TRGR++SR   +++ E   L   G +E+TLLGQNVNSY    G +K  +     
Sbjct: 164 YCIVPYTRGRQKSRSSAAVLDECRALVDRGAREITLLGQNVNSY----GQDKHGD----- 214

Query: 310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVC 369
                          G  FA LL +++      R R+T+PHPKD   E++    + PN+C
Sbjct: 215 ---------------GTSFAQLLHKVAALPGLERLRFTTPHPKDIAPEVIEAFGELPNLC 259

Query: 370 KYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHA 429
             +HLP Q+G+  +L+ M R Y    YLD+V  +R   PD+ L++D I GF GETEE+  
Sbjct: 260 PRLHLPLQSGSDRILKAMGRKYDMARYLDIVTDLRAARPDIALTTDLIVGFPGETEEDFE 319

Query: 430 DTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYD 489
            TL  M+ VG+  ++ F YS R  T A       VPEEVK  RL  L E   E T +   
Sbjct: 320 QTLEAMRTVGFASSFSFCYSDRPGTRAEM-LPGKVPEEVKSARLARLQELQNELTERWLQ 378

Query: 490 SQVGTVQLVLVEGPNKK 506
           ++VG    VL+EGP++K
Sbjct: 379 ARVGRKTTVLLEGPSRK 395

Length = 446

>gnl|CDD|184627 PRK14330, PRK14330, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  304 bits (780), Expect = 2e-98
 Identities = 155/448 (34%), Positives = 246/448 (54%), Gaps = 48/448 (10%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           + Y +T+GCQMN ND E +  ++K  G+ E  + PE A+V+ INTCA+R  +E K +  L
Sbjct: 2   KFYIKTFGCQMNENDSETMAGLLKKEGF-EPASNPEEADVVIINTCAVRRKSEEKAYSEL 60

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDL 197
                LKR+                 I V GC+AE+ ++K+L   +  D V G  A   +
Sbjct: 61  GQLLKLKRKKNL-------------IIGVAGCVAEKEREKLLK--RGADFVIGTRAVPKV 105

Query: 198 PRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTR 257
              ++    G+K       L+E   ++  +R SK+   A+V+++ GCN  C++CIVP+TR
Sbjct: 106 TEAVKRALNGEKVALFEDKLDEITYELPRIRSSKHH--AWVTIIYGCNRFCTYCIVPYTR 163

Query: 258 GRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNS 317
           GRE+SRP+E I++EV++L K+G +EVT LGQNV++Y       K+++ G++         
Sbjct: 164 GREKSRPMEDILEEVEKLAKQGYREVTFLGQNVDAYG------KDLKDGSS--------- 208

Query: 318 MCKVKKMGLRFADLLDRLSLEFPEM-RFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPA 376
                      A LL   + +   + R  + + +P DF DEL+ ++ + P V K IHLP 
Sbjct: 209 ----------LAKLL-EEASKIEGIERIWFLTSYPTDFSDELIEVIANSPKVAKSIHLPV 257

Query: 377 QTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMK 436
           Q+G++ +L+ M R YTRE YL+L++KIR  +PD  +SSD I GF  ETEE+  +T+ L++
Sbjct: 258 QSGSNRILKLMNRRYTREEYLELIEKIRSKVPDASISSDIIVGFPTETEEDFMETVDLVE 317

Query: 437 AVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQ 496
              ++   +  YS RE T A + Y DDVP E K RR+  L+   +    +  +  +G   
Sbjct: 318 KAQFERLNLAIYSPREGTVAWKYYKDDVPYEEKVRRMQYLLNLQKRINRKLNERYLGKTV 377

Query: 497 LVLVEGPNKKAPDTELVGKSDRGHRVAF 524
            ++VE    KA +    G+  R   +AF
Sbjct: 378 EIIVEA---KAKNGLFYGRDIRNKIIAF 402

Length = 434

>gnl|CDD|184628 PRK14331, PRK14331, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  302 bits (776), Expect = 6e-98
 Identities = 155/442 (35%), Positives = 238/442 (53%), Gaps = 52/442 (11%)

Query: 80  YQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNY 139
           Y +T+GCQMN ND E +  I++  GY    +  E A++I +NTC IR+  + KV   L  
Sbjct: 4   YIKTFGCQMNFNDSEKIKGILQTLGYEPADD-WEEADLILVNTCTIREKPDQKVLSHLG- 61

Query: 140 FWFLKREWKKNVATGRSQSKHPPKIV--VLGCMAERLKDKILDADKMVDVVCGPDAYRDL 197
                 E+KK         +  P  +  V GC+A+R   +I+     +D+V G      L
Sbjct: 62  ------EYKK-------IKEKNPNALIGVCGCLAQRAGYEIVQKAPFIDIVFGTFNIHHL 108

Query: 198 PRLLEEVDYGQKGINTLLSLE--ETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPF 255
           P LLE+   G K I  L  ++  E   D  P  +  N   A+V+VMRGC+  C++C+VP 
Sbjct: 109 PELLEQAKAGNKAIEILEEIDEDENKLDEYPT-VRDNKYCAYVTVMRGCDKKCTYCVVPK 167

Query: 256 TRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF 315
           TRG+ERSR + SI+ EV  L  +GVKE+ L+GQNV +Y    G                 
Sbjct: 168 TRGKERSRRLGSILDEVQWLVDDGVKEIHLIGQNVTAYGKDIG----------------- 210

Query: 316 NSMCKVKKMGLRFADLLDRLSLEFPEM-RFRYTSPHPKDFPDELLYIMRDRPNVCKYIHL 374
                     + F++LL  ++ E   + R R+T+ HP+D  ++++  M D P VC+++HL
Sbjct: 211 ---------DVPFSELLYAVA-EIDGVERIRFTTGHPRDLDEDIIKAMADIPQVCEHLHL 260

Query: 375 PAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTL 434
           P Q G+  +L+ M RGYT+E YL+ ++ +++ IPD+  S+D I GF  ETEE+  +TL +
Sbjct: 261 PFQAGSDRILKLMDRGYTKEEYLEKIELLKEYIPDITFSTDIIVGFPTETEEDFEETLDV 320

Query: 435 MKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGT 494
           +K V ++  + F YS R  T A        P+EVK +R+  L+E  +E T +   S  GT
Sbjct: 321 LKKVEFEQVFSFKYSPRPGTPAA-YMEGQEPDEVKTKRMNRLLELQKEITFKKALSYEGT 379

Query: 495 VQLVLVEGPNKKAPDTELVGKS 516
           VQ VLVE   +     +L+G++
Sbjct: 380 VQEVLVEEEKE---GNKLIGRT 398

Length = 437

>gnl|CDD|184630 PRK14334, PRK14334, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  287 bits (736), Expect = 6e-92
 Identities = 163/442 (36%), Positives = 236/442 (53%), Gaps = 53/442 (11%)

Query: 83  TYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWF 142
           TYGCQMN  D  +V S + + G +E+++  + A+ + +NTCA+R     KV   L     
Sbjct: 7   TYGCQMNEYDTHLVESELVSLG-AEIVDSVDEADFVLVNTCAVRGKPVEKVRSLLGEL-- 63

Query: 143 LKREWKKNVATGRSQSKHPPKIV-VLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLL 201
                       R +    P +V ++GC+A+  + + +     VDV+ GP A  D+ + L
Sbjct: 64  ------------RKEKAQRPLVVGMMGCLAQLEEGQQMARKFGVDVLLGPGALTDIGKAL 111

Query: 202 EEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRER 261
           E      +    L   +E +  I P    +  ++A +++MRGCN+ C++CIVP TRG E 
Sbjct: 112 E----ANERFWGLQFKDELHDHIPPP--PQGKLSAHLTIMRGCNHHCTYCIVPTTRGPEV 165

Query: 262 SRPVESIVKEVDELWKEGVKEVTLLGQNVNSY-NDTSGMEKEVEPGANWRLSEGFNSMCK 320
           SR  + I++E++ L   GV+EVTLLGQNVNSY  D  G                      
Sbjct: 166 SRHPDLILRELELLKAAGVQEVTLLGQNVNSYGVDQPGFPS------------------- 206

Query: 321 VKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGN 380
                  FA+LL RL       R ++T+ HP +F D+++  M + P VC+YIHLP Q+G+
Sbjct: 207 -------FAELL-RLVGASGIPRVKFTTSHPMNFTDDVIAAMAETPAVCEYIHLPVQSGS 258

Query: 381 SAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGY 440
             VL RM R Y RE YL+ + +IR+ +PDV LS+D I GF GETEE+  +TL+L   VGY
Sbjct: 259 DRVLRRMAREYRREKYLERIAEIREALPDVVLSTDIIVGFPGETEEDFQETLSLYDEVGY 318

Query: 441 DMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLV 500
           D AYMF YS R  T +++++  D+P EVK  RL  LIE  +E + +     VG  Q VLV
Sbjct: 319 DSAYMFIYSPRPGTPSYKHF-QDLPREVKTERLQRLIEKQKEWSYRRNARWVGRTQEVLV 377

Query: 501 EGPNKKAPDTELVGKSDRGHRV 522
            G  K      L G +   H V
Sbjct: 378 RGDAKD--AGFLEGHTRGNHPV 397

Length = 440

>gnl|CDD|237677 PRK14333, PRK14333, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  284 bits (729), Expect = 9e-91
 Identities = 159/462 (34%), Positives = 246/462 (53%), Gaps = 59/462 (12%)

Query: 74  HSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKV 133
            S+   +  T+GCQMN  D E +  I+++ GY    +    A+++  NTC IRD AE KV
Sbjct: 4   SSRRSYWITTFGCQMNKADSERMAGILEDMGYQWAED-ELQADLVLYNTCTIRDNAEQKV 62

Query: 134 WQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDA 193
           +       +L R+ K      R        +VV GC+A++  + +L     +D+V GP  
Sbjct: 63  YS------YLGRQAK------RKHKNPDLTLVVAGCVAQQEGESLLRRVPELDLVMGPQH 110

Query: 194 YRDLPRLLEEVDYGQKGINTLLSLEETY--ADIS-PVRISKNSVTAFVSVMRGCNNMCSF 250
              L  LLE+VD G + + T    EE +   DI+ P R S  S+TA+V+V+ GCN  C++
Sbjct: 111 ANRLEDLLEQVDAGNQVVAT----EEIHILEDITKPRRDS--SITAWVNVIYGCNERCTY 164

Query: 251 CIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYN-DTSGMEKEVEPGANW 309
           C+VP  RG+E+SR  E+I  E++EL  +G KE+TLLGQN+++Y  D  G   E       
Sbjct: 165 CVVPSVRGKEQSRTPEAIRAEIEELAAQGYKEITLLGQNIDAYGRDLPGTTPE------- 217

Query: 310 RLSEGFNSMCKVKKMGLR---FADLL----DRLSLEFPEMRFRYTSPHPKDFPDELLYIM 362
                          G       DLL    D   +E    R R+ + HP+ F + L+   
Sbjct: 218 ---------------GRHQHTLTDLLYYIHDVEGIE----RIRFATSHPRYFTERLIKAC 258

Query: 363 RDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCG 422
            + P VC++ H+P Q+G++ +L+ M RGYT E Y  ++ KIR+ +PD  +S+D I GF G
Sbjct: 259 AELPKVCEHFHIPFQSGDNEILKAMARGYTHEKYRRIIDKIREYMPDASISADAIVGFPG 318

Query: 423 ETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRE 482
           ETE +  +TL L++ +G+D     AYS R  T A   + + + EEVK  RL  L     +
Sbjct: 319 ETEAQFENTLKLVEEIGFDQLNTAAYSPRPGTPA-ALWDNQLSEEVKSDRLQRLNHLVEQ 377

Query: 483 STGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF 524
              +     +G ++ VLVEG N K P ++++G++ R +R+ F
Sbjct: 378 KAAERSQRYLGRIEEVLVEGINPKDP-SQVMGRT-RTNRLTF 417

Length = 448

>gnl|CDD|237674 PRK14326, PRK14326, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  279 bits (715), Expect = 6e-88
 Identities = 159/468 (33%), Positives = 240/468 (51%), Gaps = 55/468 (11%)

Query: 66  SSATGSEVHSQGRIYQ-ETYGCQMNVNDMEIVLSIMKNAGYSEVINVP----ENAEVIFI 120
             A         R YQ  TYGCQMNV+D E +  +++ AGY     V     ++A+V+  
Sbjct: 2   EGAAPPAAARGARTYQVRTYGCQMNVHDSERLAGLLEAAGY-----VRAAEGQDADVVVF 56

Query: 121 NTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPP-KIVVLGCMAERLKDKIL 179
           NTCA+R+ A+++++  L +   +KR              +P  +I V GC+A++ +D IL
Sbjct: 57  NTCAVRENADNRLYGNLGHLAPVKR-------------ANPGMQIAVGGCLAQKDRDTIL 103

Query: 180 DADKMVDVVCGPDAYRDLPRLLEEVDYGQKG-INTLLSLEETYADISPVRISKNSVTAFV 238
                VDVV G      LP LLE   + ++  +    SLE+  + +   R S  +  A+V
Sbjct: 104 KRAPWVDVVFGTHNIGSLPTLLERARHNKEAQVEIAESLEQFPSTLPARRESAYA--AWV 161

Query: 239 SVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSG 298
           S+  GCNN C+FCIVP  RG+E+ R    I+ EV  L  EGV EVTLLGQNVN+Y     
Sbjct: 162 SISVGCNNTCTFCIVPSLRGKEKDRRPGDILAEVQALVDEGVLEVTLLGQNVNAY----- 216

Query: 299 MEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDEL 358
                  G ++     F+ +       LR    +D L       R R+TSPHP +F D++
Sbjct: 217 -------GVSFGDRGAFSKL-------LRACGEIDGLE------RVRFTSPHPAEFTDDV 256

Query: 359 LYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFIC 418
           +  M + PNVC  +H+P Q+G+  VL  MRR Y  E +L +++K+R  +PD  +++D I 
Sbjct: 257 IEAMAETPNVCPQLHMPLQSGSDRVLRAMRRSYRSERFLGILEKVRAAMPDAAITTDIIV 316

Query: 419 GFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIE 478
           GF GETEE+   TL +++   +  A+ F YS R  T A       +P+ V Q R   L+ 
Sbjct: 317 GFPGETEEDFQATLDVVREARFSSAFTFQYSKRPGTPA-AEMEGQLPKAVVQERYERLVA 375

Query: 479 AFRESTGQCYDSQVG-TVQLVLVEGPNKKAPDT-ELVGKSDRGHRVAF 524
                + +     VG TV+L++  G  +K   T  + G++  G  V F
Sbjct: 376 LQERISLEENRKLVGRTVELLVATGEGRKDAATHRMSGRARDGRLVHF 423

Length = 502

>gnl|CDD|184632 PRK14336, PRK14336, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  267 bits (685), Expect = 1e-84
 Identities = 146/427 (34%), Positives = 218/427 (51%), Gaps = 62/427 (14%)

Query: 80  YQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNY 139
           Y  T GCQMN  + E +  + +  GYS   +  E+AE++ +N+C +R++AE+KV  RL+ 
Sbjct: 5   YLWTIGCQMNQAESERLGRLFELWGYSLA-DKAEDAELVLVNSCVVREHAENKVINRLHL 63

Query: 140 FWFLKREWKKNVATGRSQSKHPP-KIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLP 198
              LK             +K+P  KI + GC+  +    I      VD + GP +  D  
Sbjct: 64  LRKLK-------------NKNPKLKIALTGCLVGQDISLIRKKFPFVDYIFGPGSMPDW- 109

Query: 199 RLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRG 258
                              E     I P+   K  V+A V++M+GC+N C++C+VP+ RG
Sbjct: 110 ------------------REIPEGFILPL---KPPVSANVTIMQGCDNFCTYCVVPYRRG 148

Query: 259 RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSM 318
           RE+SR +  I  EV EL + G +EV LLGQNV+SY    G +   +P             
Sbjct: 149 REKSRSIAEIGCEVAELVRRGSREVVLLGQNVDSY----GHDLPEKPC------------ 192

Query: 319 CKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQT 378
                     ADLL  L      +R R+ + HPKD   +L+  M   P VC+ + LP Q 
Sbjct: 193 ---------LADLLSALHDIPGLLRIRFLTSHPKDISQKLIDAMAHLPKVCRSLSLPVQA 243

Query: 379 GNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV 438
           G+  +L  MRRGYT + Y +LV++++  +PD+ L +D I GF  ETEE+   +  LM  +
Sbjct: 244 GDDTILAAMRRGYTNQQYRELVERLKTAMPDISLQTDLIVGFPSETEEQFNQSYKLMADI 303

Query: 439 GYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLV 498
           GYD  ++ AYS R +T A R+  DDVP   K+RRL  + +  +E+ G+   + + T   V
Sbjct: 304 GYDAIHVAAYSPRPQTVAARDMADDVPVIEKKRRLKLIEDLQKETVGKANAALMDTFAEV 363

Query: 499 LVEGPNK 505
           LVEG  K
Sbjct: 364 LVEGLQK 370

Length = 418

>gnl|CDD|184633 PRK14338, PRK14338, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  266 bits (681), Expect = 1e-83
 Identities = 152/456 (33%), Positives = 222/456 (48%), Gaps = 66/456 (14%)

Query: 58  DLAPASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEV 117
             APA +  +          R Y  T GCQMNV+D E + + ++  GYS     PE+A+ 
Sbjct: 7   HQAPAPDRDATPRER-----RYYVWTVGCQMNVSDSERLEAALQGVGYSPA-ERPEDADF 60

Query: 118 IFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHP-PKIVVLGCMAERLKD 176
           I +N+C++R  AE ++  +L     LKR+              P  +IV+ GCM     +
Sbjct: 61  IVLNSCSVRASAEERILGKLGELQRLKRQ-------------RPDTRIVLWGCMVGP-NN 106

Query: 177 KILDADK--MVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSV 234
           + + A++  MVD    P A  ++  L           N +  L+E    ++    S   V
Sbjct: 107 QSIFAERLPMVDHFVSPSAVDEVVALAP---------NPIYQLDEPALPVA--DWSHPPV 155

Query: 235 TAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSY- 293
           T  V ++ GCN  CS+C++P  RGRERSRP+  IV+EV  +   G KE+TLLGQ V+SY 
Sbjct: 156 TVHVPIIYGCNMSCSYCVIPLRRGRERSRPLAEIVEEVRRIAARGAKEITLLGQIVDSYG 215

Query: 294 NDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEM-RFRYTSPHPK 352
           +D  G                              ADLL+ +  E P + R R+ + HP 
Sbjct: 216 HDLPGRPD--------------------------LADLLEAVH-EIPGLERLRFLTSHPA 248

Query: 353 DFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGL 412
              D L++ +   P  C +I+LP Q G+  VL+RMRRGYT   Y +L+ +IR+ IPDV L
Sbjct: 249 WMTDRLIHAVARLPKCCPHINLPVQAGDDEVLKRMRRGYTVARYRELIARIREAIPDVSL 308

Query: 413 SSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDD---VPEEVK 469
           ++D I G  GETEE+   T  L++ + +D  ++ AYS R  T A     D    VP E K
Sbjct: 309 TTDIIVGHPGETEEQFQRTYDLLEEIRFDKVHIAAYSPRPGTLAAEMEDDPALAVPPEEK 368

Query: 470 QRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNK 505
           QRR   L +   +   +     +G    VLVEG  K
Sbjct: 369 QRRRRALEQLQEQIATERNARFLGQTVEVLVEGEAK 404

Length = 459

>gnl|CDD|184634 PRK14339, PRK14339, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

 Score =  264 bits (677), Expect = 2e-83
 Identities = 141/438 (32%), Positives = 228/438 (52%), Gaps = 58/438 (13%)

Query: 88  MNVNDME-IVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKRE 146
           MNV D E ++  + +   Y ++    + A++I INTC++R+   HK++  +  F     +
Sbjct: 1   MNVRDSEHMIAELSQKEDY-KLTQDIKEADLILINTCSVREKPVHKLFSEIGQF----NK 55

Query: 147 WKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDY 206
            KK  A          KI V GC A  L ++I+     VD V G    R++ ++ + +  
Sbjct: 56  IKKEGA----------KIGVCGCTASHLGEEIIKRAPYVDFVLGA---RNVSKISQVIHT 102

Query: 207 GQKGINTLLSLEE-TYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPV 265
             K +   +  +E TYA        K+   + V++  GC+  C++CIVP TRG+E S P+
Sbjct: 103 -PKAVEVDIDYDESTYAFADF---RKSPYKSLVNISIGCDKKCTYCIVPHTRGKEISIPM 158

Query: 266 ESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMG 325
           + I+KE ++    G KE+ LLGQNVN+Y            G   R S       + +K+ 
Sbjct: 159 DLILKEAEKAVNNGAKEIFLLGQNVNNY------------GK--RFSS------EHEKVD 198

Query: 326 LRFADLLDRLS----LEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNS 381
             F+DLLD+LS    LE    R R+TSPHP    D+ L      P +CK IH+P Q+G+S
Sbjct: 199 --FSDLLDKLSEIEGLE----RIRFTSPHPLHMDDKFLEEFAKNPKICKSIHMPLQSGSS 252

Query: 382 AVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYD 441
            +L+ M+RGYT+E +L+  +K+R ++P+V +S+D I GF GE++++  DT+ +++ V ++
Sbjct: 253 EILKAMKRGYTKEWFLNRAEKLRALVPEVSISTDIIVGFPGESDKDFEDTMDVLEKVRFE 312

Query: 442 MAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVE 501
             + F YS R  T A   + + V EEV   RL  L    +E   +    +VG   +VL E
Sbjct: 313 QIFSFKYSPRPLTEA-AAWKNQVDEEVASERLERLQNRHKEILDEIAKKEVGKTHVVLFE 371

Query: 502 GPNKKAPDTELVGKSDRG 519
                  +  + G+SD  
Sbjct: 372 ELR---ANGGVAGRSDNN 386

Length = 420

>gnl|CDD|233480 TIGR01579, MiaB-like-C, MiaB-like tRNA modifying enzyme

 Score =  223 bits (569), Expect = 1e-67
 Identities = 136/445 (30%), Positives = 209/445 (46%), Gaps = 50/445 (11%)

Query: 82  ETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFW 141
           ET GC++N  + E + + +   GY EV+   + A+V  INTC +   A+ K  + +    
Sbjct: 2   ETLGCRVNQYESESLKNQLIQKGY-EVVPDEDKADVYIINTCTVTAKADSKARRAIRR-- 58

Query: 142 FLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLL 201
             +R+                KI+V GC A+    ++ D    VD+V G      + +LL
Sbjct: 59  -ARRQNPT------------AKIIVTGCYAQSNPKELADLKD-VDLVLGNKEKDKINKLL 104

Query: 202 EE--VDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGR 259
                    +  N   S E+   +   V    ++  AF+ V  GCN  CS+CI+PF RGR
Sbjct: 105 SLGLKTSFYRVKNKNFSREKGVPEYEEVAFEGHT-RAFIKVQDGCNFFCSYCIIPFARGR 163

Query: 260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMC 319
            RS P+E+I+K+V  L  +G KE+ L G N+ SY                          
Sbjct: 164 SRSVPMEAILKQVKILVAKGYKEIVLTGVNLGSY-------------------------G 198

Query: 320 KVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTG 379
              K G   A LL+++       R R +S  P+D  +ELL  +     +C ++HL  Q+G
Sbjct: 199 DDLKNGTSLAKLLEQILQIPGIKRIRLSSIDPEDIDEELLEAIASEKRLCPHLHLSLQSG 258

Query: 380 NSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG 439
           +  VL+RMRR YTR+ +L LV K+R + PD    +D I GF GE+EE+  +TL ++K + 
Sbjct: 259 SDRVLKRMRRKYTRDDFLKLVNKLRSVRPDYAFGTDIIVGFPGESEEDFQETLRMVKEIE 318

Query: 440 YDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVL 499
           +   ++F YS R  T A     D VPE +K+ R+  L E   ++  +     +G    VL
Sbjct: 319 FSHLHIFPYSARPGTPAST-MKDKVPETIKKERVKRLKELAEKNYQEFLKKNIGKELEVL 377

Query: 500 VEGPNKKAPDTELVGKSDRGHRVAF 524
           VE    K     L G S+   +V  
Sbjct: 378 VE----KEKAGVLTGYSEYYLKVKV 398

This clade of sequences is closely related to MiaB, a modifier of isopentenylated adenosine-37 of certain eukaryotic and bacterial tRNAs (see TIGR01574). Sequence alignments suggest that this equivalog performs the same chemical transformation as MiaB, perhaps on a different (or differently modified) tRNA base substrate. This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium [Protein synthesis, tRNA and rRNA base modification]. Length = 414

>gnl|CDD|233279 TIGR01125, TIGR01125, ribosomal protein S12 methylthiotransferase RimO

 Score =  218 bits (558), Expect = 1e-65
 Identities = 121/433 (27%), Positives = 200/433 (46%), Gaps = 51/433 (11%)

Query: 85  GCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLK 144
           GC  N+ D E++L I++ AGY EV    E+A+ + +NTC   + A              +
Sbjct: 8   GCPKNLVDSEVMLGILREAGY-EVTPNYEDADYVIVNTCGFIEDA--------------R 52

Query: 145 REWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEV 204
           +E    +       K   K++V GC+ +R K+++ +    V  + G     ++   +E  
Sbjct: 53  QESIDTIGELADAGK---KVIVTGCLVQRYKEELKEEIPEVHAITGSGDVENILNAIESR 109

Query: 205 DYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRP 264
           + G K       +E       P  +      A++ V  GCN  C+FCI+P  RG+ RSRP
Sbjct: 110 EPGDKIPFKSE-IEMGEV---PRILLTPRHYAYLKVAEGCNRRCAFCIIPSIRGKLRSRP 165

Query: 265 VESIVKEVDELWKEGVKEVTLLGQNVNSYN-DTSGMEKEVEPGANWRLSEGFNSMCKVKK 323
           +E I+KE + L  +GVKE+ L+ Q+  +Y  D     K                      
Sbjct: 166 IEEILKEAERLVDQGVKEIILIAQDTTAYGKDLYRESK---------------------- 203

Query: 324 MGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAV 383
                 DLL+ L         R    +P +  D+++ +M + P V  Y+ +P Q  +  +
Sbjct: 204 ----LVDLLEELGKVGGIYWIRMHYLYPDELTDDVIDLMAEGPKVLPYLDIPLQHASDRI 259

Query: 384 LERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMA 443
           L+ MRR  + E  LD ++++R+  PD  L + FI GF GETEE+  + L  ++   +D  
Sbjct: 260 LKLMRRPGSGEQQLDFIERLREKCPDAVLRTTFIVGFPGETEEDFQELLDFVEEGQFDRL 319

Query: 444 YMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGP 503
             F YS  E T A     D VPEEVK+ RL  L++  +  + +     VG    VL++G 
Sbjct: 320 GAFTYSPEEGTDAF-ALPDQVPEEVKEERLERLMQLQQRISAKKNQEFVGKKIEVLIDGY 378

Query: 504 NKKAPDTELVGKS 516
             +  +  L+G++
Sbjct: 379 EPET-NLLLIGRT 390

Members of this protein are the methylthiotransferase RimO, which modifies a conserved Asp residue in ribosomal protein S12. This clade of radical SAM family proteins is closely related to the tRNA modification bifunctional enzyme MiaB (see TIGR01574), and it catalyzes the same two types of reactions: a radical-mechanism sulfur insertion, and a methylation of the inserted sulfur. This clade spans alpha and gamma proteobacteria, cyano bacteria, Deinococcus, Porphyromonas, Aquifex, Helicobacter, Campylobacter, Thermotoga, Chlamydia, Streptococcus coelicolor and Clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 430

>gnl|CDD|233479 TIGR01578, MiaB-like-B, MiaB-like tRNA modifying enzyme, archaeal-type

 Score =  208 bits (531), Expect = 7e-62
 Identities = 118/429 (27%), Positives = 201/429 (46%), Gaps = 63/429 (14%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           ++Y ETYGC +N  D EI+ + +   G+ E++N  E A++  +NTC +++  E  +  R+
Sbjct: 1   KVYVETYGCTLNNGDSEIMKNSLAAYGH-ELVNNAEEADLAILNTCTVKNKTEDTMLYRI 59

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDL 197
                L R  K               +VV GCM +  K+ + D   +  V       + +
Sbjct: 60  ES---LMRNGKH--------------VVVAGCMPQAQKESVYDNGSVASV----LGVQAI 98

Query: 198 PRLLEEVD--YGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPF 255
            RL+E V+    +K      +     +   P    KN +   + + +GC   CS+CI   
Sbjct: 99  DRLVEVVEETLKKKVHGRREAGT-PLSLPKPR---KNPLIEIIPINQGCLGNCSYCITKH 154

Query: 256 TRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF 315
            RG+  S P E IV++  +L  EG KE+ +  Q+  +Y    G +               
Sbjct: 155 ARGKLASYPPEKIVEKARQLVAEGCKEIWITSQDTGAY----GRD--------------- 195

Query: 316 NSMCKVKKMGLRFADLLDRLSLEFP-EMRFRYTSPHPKD---FPDELLYIMRDRPNVCKY 371
                   +G R  +LL RL  E P E R R    +PK+     DEL  + +    V K+
Sbjct: 196 --------IGSRLPELL-RLITEIPGEFRLRVGMMNPKNVLEILDELANVYQH-EKVYKF 245

Query: 372 IHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADT 431
           +HLP Q+G+ +VL+ M+R YT   + D+V K R+  PD+ LS+D I GF  ET+++  +T
Sbjct: 246 LHLPVQSGSDSVLKEMKREYTVSDFEDIVDKFRERFPDLTLSTDIIVGFPTETDDDFEET 305

Query: 432 LTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQ 491
           + L++    +   +  +S R  T A +  +  +P  + ++R   L + + +   +  D+ 
Sbjct: 306 MELLRKYRPEKINITKFSPRPGTPAAK--MKRIPTNIVKKRSKRLTKLYEQVLLEMRDNL 363

Query: 492 VGTVQLVLV 500
           +GT   VLV
Sbjct: 364 IGTRVHVLV 372

This clade of sequences is closely related to MiaB, a modifier of isopentenylated adenosine-37 of certain eukaryotic and bacterial tRNAs (see TIGR01574). Sequence alignments suggest that this equivalog performs the same chemical transformation as MiaB, perhaps on a different (or differently modified) tRNA base substrate. This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by This model as well as ones falling within the scope of the MiaB equivalog model [Protein synthesis, tRNA and rRNA base modification]. Length = 420

>gnl|CDD|214792 smart00729, Elp3, Elongator protein 3, MiaB family, Radical SAM

 Score =  160 bits (407), Expect = 3e-46
 Identities = 64/241 (26%), Positives = 108/241 (44%), Gaps = 30/241 (12%)

Query: 234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSY 293
             A   + RGC   C+FC  P  RG+ RSR +E++V+E++ L ++G KE  L+G      
Sbjct: 1   PLALYIITRGCPRRCTFCSFPSLRGKLRSRYLEALVREIELLAEKGEKEG-LVGTVFIGG 59

Query: 294 NDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE--MRFRYTSPHP 351
                               G  ++   ++      +LL+ +                 P
Sbjct: 60  --------------------GTPTLLSPEQ----LEELLEAIREILGLAKDVEITIETRP 95

Query: 352 KDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVG 411
               +ELL  +++       + L  Q+G+  VL+ + RG+T E  L+ V+ +R+  P + 
Sbjct: 96  DTLTEELLEALKEAG--VNRVSLGVQSGDDEVLKAINRGHTVEDVLEAVELLREAGP-IK 152

Query: 412 LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQR 471
           +S+D I G  GETEE+  +TL L+K +G D   +F  S R  T   + Y    P   ++R
Sbjct: 153 VSTDLIVGLPGETEEDFEETLKLLKELGPDRVSIFPLSPRPGTPLAKMYKRLKPPTKEER 212

Query: 472 R 472
            
Sbjct: 213 A 213

This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases. Length = 216

>gnl|CDD|237838 PRK14862, rimO, ribosomal protein S12 methylthiotransferase; Provisional

 Score =  140 bits (356), Expect = 1e-36
 Identities = 125/432 (28%), Positives = 208/432 (48%), Gaps = 65/432 (15%)

Query: 85  GCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLK 144
           GC   + D E +L+ ++  GY E+    + A+++ +NTC   D A   V + L       
Sbjct: 16  GCPKALVDSERILTQLRAEGY-EISPSYDGADLVIVNTCGFIDSA---VQESLE------ 65

Query: 145 REWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEV 204
                  A G + +++  K++V GC+  + +D+I +    V  V GP AY  +   +E V
Sbjct: 66  -------AIGEALAENG-KVIVTGCLGAK-EDQIREVHPKVLAVTGPHAYEQV---MEAV 113

Query: 205 -DYGQKGINTLLSLEETYADISPVRISKNSVT----AFVSVMRGCNNMCSFCIVPFTRGR 259
            ++  K  +  + L      + P  +    +T    A++ +  GCN+ C+FCI+P  RG 
Sbjct: 114 HEHVPKPHDPFVDL------VPPQGVK---LTPRHYAYLKISEGCNHRCTFCIIPSMRGD 164

Query: 260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMC 319
             SRP+  +++E + L K GVKE+ ++ Q      DTS        G + +   GF +  
Sbjct: 165 LVSRPIGDVLREAERLVKAGVKELLVISQ------DTSAY------GVDVKYRTGFWNGR 212

Query: 320 KVKKMGLRFADLLDRLSLEFPEM----RFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLP 375
            VK    R  DL + L     E+    R  Y  P+P    DE++ +M +   +  Y+ +P
Sbjct: 213 PVKT---RMTDLCEALG----ELGAWVRLHYVYPYP--HVDEVIPLMAEG-KILPYLDIP 262

Query: 376 AQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLM 435
            Q  +  VL+RM+R  + E  L+ ++K R+I PD+ + S FI GF GETEE+    L  +
Sbjct: 263 FQHASPRVLKRMKRPASVEKTLERIKKWREICPDLTIRSTFIVGFPGETEEDFQMLLDFL 322

Query: 436 KAVGYDMAYMFAYSMRERTHAHRNYVDD-VPEEVKQRRLTELIEAFRESTGQCYDSQVGT 494
           K    D    F YS  E   A  N + D VPEEVK+ R    +E  ++ +      +VG 
Sbjct: 323 KEAQLDRVGCFKYSPVE--GATANDLPDQVPEEVKEERWARFMEVQQQISAARLQRKVGR 380

Query: 495 VQLVLVEGPNKK 506
              VL++  +++
Sbjct: 381 TLQVLIDEVDEE 392

Length = 440

>gnl|CDD|216191 pfam00919, UPF0004, Uncharacterized protein family UPF0004

 Score =  122 bits (309), Expect = 1e-33
 Identities = 46/113 (40%), Positives = 64/113 (56%), Gaps = 15/113 (13%)

Query: 78  RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRL 137
           ++Y ET GCQMN  D EI+  ++K AGY E+++ PE A+VI +NTCA+R+ AE K  Q +
Sbjct: 1   KVYIETLGCQMNQADSEIMAGLLKKAGY-ELVDDPEEADVIVVNTCAVREKAEQKSRQTI 59

Query: 138 NYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCG 190
                LK                  KIVV GCMA+R  +++L     VD+V G
Sbjct: 60  RRLKRLKNPDA--------------KIVVTGCMAQRYPEELLKEIPEVDLVLG 98

This family is the N terminal half of the Prosite family. The C-terminal half has been shown to be related to MiaB proteins. This domain is a nearly always found in conjunction with pfam04055 and pfam01938 although its function is uncertain. Length = 98

>gnl|CDD|217866 pfam04055, Radical_SAM, Radical SAM superfamily

 Score = 89.5 bits (222), Expect = 5e-21
 Identities = 53/201 (26%), Positives = 86/201 (42%), Gaps = 39/201 (19%)

Query: 238 VSVMRGCNNMCSFCIVPFT--RGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYND 295
           + V RGCN  C++C  P    RG+ R    E I++E  EL + GV+ V L G        
Sbjct: 1   IIVTRGCNLRCTYCAFPSIRARGKGRELSPEEILEEAKELARLGVEVVILTG-------- 52

Query: 296 TSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFP 355
                   EP     L E    + K++               E   +R    +       
Sbjct: 53  -------GEPLLLPDLVELLERLLKLR---------------EGEGIRITLETNGT-LLD 89

Query: 356 DELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQI-IPDVGLSS 414
           +ELL  +++       + +  Q+G+  VL+ + RG+T E  L+ ++ +R+  IP V    
Sbjct: 90  EELLEELKEAGLD--RVSISLQSGDDEVLKIINRGHTFEEVLEALELLREAGIPVV---V 144

Query: 415 DFICGFCGETEEEHADTLTLM 435
           D I G  GE +E+  +TL L+
Sbjct: 145 DNIVGLPGENDEDLEETLELL 165

Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerisation, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Length = 165

>gnl|CDD|234441 TIGR04014, B12_SAM_MJ_0865, B12-binding domain/radical SAM domain protein, MJ_0865 family

 Score = 91.3 bits (227), Expect = 1e-19
 Identities = 59/220 (26%), Positives = 102/220 (46%), Gaps = 32/220 (14%)

Query: 226 PVRISKNSV---TAFVSVMRGCNNMCSFCIVPFTRGRE-RSRPVESIVKEVDELWKEGVK 281
           P  I +  +     ++   RGC   C+FC VP   GR  RSRP+E IV+EV EL + G +
Sbjct: 148 PDDIGRQDIRGANVYIETHRGCPGNCTFCQVPRFFGRRIRSRPLEDIVEEVRELKRGGAR 207

Query: 282 EVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE 341
              + G   + Y    G+++           E F  + +      R +++L R ++  P+
Sbjct: 208 RFAISGGTGSLYGSKKGIDE-----------EAFIELLE------RLSEVLGRKNVSVPD 250

Query: 342 MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQ 401
           +R            DE+L  +R+      ++    ++G+  +L  MR+G T +   + V+
Sbjct: 251 IRVDLVD-------DEILEAIREYTI--GWVFFGIESGSDRMLRLMRKGITVDDVCEAVE 301

Query: 402 KIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYD 441
             R+    V  S  FI G+ GETE+++  T  LM+ +  D
Sbjct: 302 LAREYGVKVAGS--FIVGYPGETEDDYEATKDLMEELMLD 339

Members of this family have both a B12 binding homology domain (pfam02310) and a radical SAM domain (pfam04055), and occur only once per genome. This protein occurs so far only in methanogenic archaea. Some species with members of this family have a related protein with similar domain architecture (see TIGR04013) [Unknown function, Enzymes of unknown specificity]. Length = 434

>gnl|CDD|223963 COG1032, COG1032, Fe-S oxidoreductase [Energy production and conversion]

 Score = 91.5 bits (227), Expect = 1e-19
 Identities = 64/333 (19%), Positives = 125/333 (37%), Gaps = 35/333 (10%)

Query: 159 KHPPKIVVLGCMAERLKDKILDADKMVDVVCGPD--AYRDLPRLLEEVDYGQKGINTLLS 216
             P  I+V+G   E    ++L+A +  +        A      ++ + D     I     
Sbjct: 122 FGPADIIVIG-EGEETLPELLEALEEGEDDPRVPGLALPSFEEIVYDQDLDDVPIPAYDL 180

Query: 217 LEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELW 276
           +++   D  P   +  +    V   RGC   C FC +     + R R  E +V+E+ EL 
Sbjct: 181 VDDHKRDDLPPYGAGENRAFSVETSRGCPRGCRFCSIT-KHFKYRRRRPERVVEEIKELI 239

Query: 277 KEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLS 336
           +EG K V     ++  Y                       ++   K+  L   +L++R  
Sbjct: 240 EEGGKRVVFFVDDIFLYGS--------------------PALNDEKRFELLSLELIERGL 279

Query: 337 LEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY 396
            +   +     S       DE L  +       + +++  ++G+  +L+++ +G T E  
Sbjct: 280 RKGCRVHISAPSLRADTVTDEELLKLLREAG-LRRVYIGIESGSEELLKKINKGITTEEV 338

Query: 397 LDLVQKI---RQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV---GYDMAYMFAYSM 450
           L+   KI     +   +     FI G  GETEE+  +T+ L K +   G  +    +  +
Sbjct: 339 LEEAVKIAKEHGLRVKL----YFIVGLPGETEEDVKETIELAKFIKKLGPKLYVSPSPFV 394

Query: 451 RERTHAHRNYVDDVPEEVKQRRLTELIEAFRES 483
                  +       E +K+R   +L++ +R  
Sbjct: 395 PLPGTPLQEMPKLENELLKRRFEGDLLQPWRPL 427

Length = 490

>gnl|CDD|234440 TIGR04013, B12_SAM_MJ_1487, B12-binding domain/radical SAM domain protein, MJ_1487 family

 Score = 85.4 bits (212), Expect = 5e-18
 Identities = 64/252 (25%), Positives = 99/252 (39%), Gaps = 75/252 (29%)

Query: 224 ISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRE-RSRPVESIVKEVDELWKEGVKE 282
             P+ I+           RGC   C++C  P   GR  R R +ESIV+    +   G ++
Sbjct: 151 FGPIEIT-----------RGCPFGCAYCQTPRIFGRRMRHRSIESIVRYAKRMVDRGRRD 199

Query: 283 VTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEM 342
           +  +  N  +Y    G+   +E               KV++       LL  L  +    
Sbjct: 200 IRFITPNAFAYGSKDGITPNLE---------------KVEE-------LLRSLK-KIGGG 236

Query: 343 RFRYTSPHPKDFPDELLYIMRDRPN---------VCKY-----IHLPAQTGNSAVLERMR 388
           R  + +     FP E+      RP          + KY     +H+ AQ+G+  VL+ +R
Sbjct: 237 RIFFGT-----FPSEV------RPEFVTEEALELIKKYCDNRRLHIGAQSGSDRVLKAIR 285

Query: 389 RGYTREAYLDLVQKIRQ--IIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMF 446
           RG+T E     V+   +    P V    DFI G  GETEE+   TL L++ +        
Sbjct: 286 RGHTVEDVERAVELALEHGFTPVV----DFIFGLPGETEEDQEATLELIRKL-------- 333

Query: 447 AYSMRERTHAHR 458
              M  + HAH 
Sbjct: 334 -VKMGAKVHAHY 344

Members of this family have both a B12 binding homology domain (pfam02310) and a radical SAM domain (pfam04055), and occur only once per genome. Some species with members of this family have a related protein with similar domain architecture. This protein is occurs largely in archaeal methanogens but also in a few bacteria, including Thermotoga maritima and Myxococcus xanthus [Unknown function, Enzymes of unknown specificity]. Length = 382

>gnl|CDD|100105 cd01335, Radical_SAM, Radical SAM superfamily

 Score = 53.5 bits (128), Expect = 3e-08
 Identities = 51/231 (22%), Positives = 87/231 (37%), Gaps = 41/231 (17%)

Query: 242 RGCNNMCSFCIVPFTRGRERSRP--VESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGM 299
           RGCN  C FC  P ++GR    P  +E I+  V E  + GV+ V L G            
Sbjct: 5   RGCNLNCGFCSNPASKGRGPESPPEIEEILDIVLEAKERGVEVVILTGG----------- 53

Query: 300 EKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELL 359
               EP                       A+LL RL  E P       +       + L 
Sbjct: 54  ----EPLLYP-----------------ELAELLRRLKKELPGFEISIETNGTLLTEELLK 92

Query: 360 YIMRDRPNVCKYIHLPAQTGNSAVLERMR-RGYTREAYLDLVQKIRQIIPDVGLSSDFIC 418
            + ++       + L   +G+  V +++R  G + +  L+ ++++R+    +GLS+  + 
Sbjct: 93  EL-KELGLDGVGVSL--DSGDEEVADKIRGSGESFKERLEALKELREA--GLGLSTTLLV 147

Query: 419 GFCGETEEEHADTLTLM-KAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEV 468
           G   E EE+  + L L+ +    D   +F     E T           E++
Sbjct: 148 GLGDEDEEDDLEELELLAEFRSPDRVSLFRLLPEEGTPLELAAPVVPAEKL 198

Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme of the biosynthesis of molybdopterin. Length = 204

>gnl|CDD|223962 COG1031, COG1031, Uncharacterized Fe-S oxidoreductase [Energy production and conversion]

 Score = 45.8 bits (109), Expect = 4e-05
 Identities = 20/44 (45%), Positives = 26/44 (59%), Gaps = 5/44 (11%)

Query: 242 RGC----NNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVK 281
           RGC    +  CSFC  P  RGR   RP E +V+EV  L++ GV+
Sbjct: 191 RGCPRRVSGGCSFCTEPV-RGRPEFRPPEDVVEEVKALYRAGVR 233

Length = 560

>gnl|CDD|234390 TIGR03904, SAM_YgiQ, uncharacterized radical SAM protein YgiQ

 Score = 44.4 bits (106), Expect = 1e-04
 Identities = 20/46 (43%), Positives = 27/46 (58%), Gaps = 5/46 (10%)

Query: 231 KNSVTAFVSVMRGCNNMCSFCIVPFTRGRE-RSRPVESIVKEVDEL 275
           K S+T+     RGC   CSFC + F +GR  +SR  ESI++E   L
Sbjct: 295 KFSITS----HRGCFGGCSFCAITFHQGRIIQSRSEESILREAKRL 336

Members of this family are fairly widespread uncharacterized radical SAM family proteins, many of which are designated YgiQ [Unknown function, Enzymes of unknown specificity]. Length = 559

>gnl|CDD|213908 TIGR04295, B12_rSAM_oligo, B12-binding domain/radical SAM domain protein, rhizo-twelve system

 Score = 39.8 bits (93), Expect = 0.003
 Identities = 19/48 (39%), Positives = 28/48 (58%)

Query: 236 AFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEV 283
           A V   RGC   C+FC     R + R RP+ +I++E+D L  +GV+ V
Sbjct: 201 AEVETSRGCPYHCTFCAKDNFRNKYRKRPLATILEEIDALIAQGVRYV 248

A variety of bacteria, including multiple species of Bradyrhizobium, Mesorhizobium, and Methylobacterium, have a typically twelve-gene cassette (hence the designation rhizo-twelve) for the biosynthesis of some unknown oligosaccaride. This family is a B12-binding domain/radical SAM domain protein found in roughly have of these cassettes, but nowhere else. Length = 422

>gnl|CDD|237261 PRK12928, PRK12928, lipoyl synthase; Provisional

 Score = 39.1 bits (92), Expect = 0.003
 Identities = 21/57 (36%), Positives = 34/57 (59%), Gaps = 1/57 (1%)

Query: 386 RMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDM 442
            +RRG   +  LDL+ + +++ PD+   S  + G  GETE+E  +TL  ++AVG D 
Sbjct: 180 AVRRGADYQRSLDLLARAKELAPDIPTKSGLMLGL-GETEDEVIETLRDLRAVGCDR 235

Length = 290

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	524
KOG2492	552	consensus CDK5 activator-binding protein [Signal t	100.0
COG0621	437	MiaB 2-methylthioadenine synthetase [Translation,	100.0
PRK14332	449	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14329	467	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14340	445	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14327	509	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14335	455	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14337	446	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14326	502	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14331	437	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14333	448	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14325	444	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14330	434	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14328	439	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14336	418	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
TIGR01574	438	miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-3	100.0
TIGR01579	414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	100.0
TIGR00089	429	RNA modification enzyme, MiaB family. This subfami	100.0
TIGR01125	430	MiaB-like tRNA modifying enzyme YliG, TIGR01125. T	100.0
PRK14338	459	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14334	440	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14339	420	(dimethylallyl)adenosine tRNA methylthiotransferas	100.0
PRK14862	440	rimO ribosomal protein S12 methylthiotransferase;	100.0
TIGR01578	420	MiaB-like-B MiaB-like tRNA modifying enzyme, archa	100.0
KOG4355	547	consensus Predicted Fe-S oxidoreductase [General f	100.0
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	100.0
TIGR03471	472	HpnJ hopanoid biosynthesis associated radical SAM	100.0
PRK00955	620	hypothetical protein; Provisional	100.0
PRK01254	707	hypothetical protein; Provisional	100.0
PRK05481	289	lipoyl synthase; Provisional	100.0
COG1032	490	Fe-S oxidoreductase [Energy production and convers	99.98
PRK07094	323	biotin synthase; Provisional	99.95
PRK05904	353	coproporphyrinogen III oxidase; Provisional	99.95
PRK05628	375	coproporphyrinogen III oxidase; Validated	99.94
PRK08599	377	coproporphyrinogen III oxidase; Provisional	99.94
TIGR00510	302	lipA lipoate synthase. The family shows strong seq	99.94
PRK07379	400	coproporphyrinogen III oxidase; Provisional	99.94
PF00919	98	UPF0004: Uncharacterized protein family UPF0004; I	99.94
PRK12928	290	lipoyl synthase; Provisional	99.94
PRK08207	488	coproporphyrinogen III oxidase; Provisional	99.93
PRK09058	449	coproporphyrinogen III oxidase; Provisional	99.93
PRK05799	374	coproporphyrinogen III oxidase; Provisional	99.93
PRK08446	350	coproporphyrinogen III oxidase; Provisional	99.93
PRK09057	380	coproporphyrinogen III oxidase; Provisional	99.92
TIGR00539	360	hemN_rel putative oxygen-independent coproporphyri	99.92
TIGR01210	313	conserved hypothetical protein TIGR01210. This fam	99.92
TIGR01212	302	radical SAM protein, TIGR01212 family. This unchar	99.92
PRK08898	394	coproporphyrinogen III oxidase; Provisional	99.92
PRK06582	390	coproporphyrinogen III oxidase; Provisional	99.91
PRK06294	370	coproporphyrinogen III oxidase; Provisional	99.91
PRK08208	430	coproporphyrinogen III oxidase; Validated	99.91
PRK05660	378	HemN family oxidoreductase; Provisional	99.91
PRK06256	336	biotin synthase; Validated	99.9
TIGR00433	296	bioB biotin synthetase. Catalyzes the last step of	99.9
PRK08629	433	coproporphyrinogen III oxidase; Provisional	99.89
PRK13347	453	coproporphyrinogen III oxidase; Provisional	99.89
COG1031	560	Uncharacterized Fe-S oxidoreductase [Energy produc	99.89
smart00729	216	Elp3 Elongator protein 3, MiaB family, Radical SAM	99.89
TIGR00538	455	hemN oxygen-independent coproporphyrinogen III oxi	99.89
PLN02428	349	lipoic acid synthase	99.88
PRK09249	453	coproporphyrinogen III oxidase; Provisional	99.87
COG0635	416	HemN Coproporphyrinogen III oxidase and related Fe	99.87
TIGR00423	309	radical SAM domain protein, CofH subfamily. This p	99.85
TIGR01211	522	ELP3 histone acetyltransferase, ELP3 family. The S	99.85
TIGR03551	343	F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.85
PRK06245	336	cofG FO synthase subunit 1; Reviewed	99.85
TIGR03550	322	F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.83
cd01335	204	Radical_SAM Radical SAM superfamily. Enzymes of th	99.82
PRK08508	279	biotin synthase; Provisional	99.81
TIGR03700	351	mena_SCO4494 putative menaquinone biosynthesis pro	99.8
PF04055	166	Radical_SAM: Radical SAM superfamily; InterPro: IP	99.8
COG1242	312	Predicted Fe-S oxidoreductase [General function pr	99.79
PRK08445	348	hypothetical protein; Provisional	99.78
TIGR03699	340	mena_SCO4550 menaquinone biosynthesis protein, SCO	99.78
PRK06267	350	hypothetical protein; Provisional	99.78
PLN02389	379	biotin synthase	99.77
COG1243	515	ELP3 Histone acetyltransferase [Transcription / Ch	99.73
PRK09240	371	thiH thiamine biosynthesis protein ThiH; Reviewed	99.7
PRK15108	345	biotin synthase; Provisional	99.69
TIGR02351	366	thiH thiazole biosynthesis protein ThiH. Members t	99.64
PRK07360	371	FO synthase subunit 2; Reviewed	99.63
COG0502	335	BioB Biotin synthase and related enzymes [Coenzyme	99.61
PRK05926	370	hypothetical protein; Provisional	99.6
PRK00164	331	moaA molybdenum cofactor biosynthesis protein A; R	99.58
PRK08444	353	hypothetical protein; Provisional	99.57
PTZ00413	398	lipoate synthase; Provisional	99.56
PRK13361	329	molybdenum cofactor biosynthesis protein A; Provis	99.55
PRK09613	469	thiH thiamine biosynthesis protein ThiH; Reviewed	99.54
PRK05927	350	hypothetical protein; Provisional	99.53
TIGR03822	321	AblA_like_2 lysine-2,3-aminomutase-related protein	99.52
TIGR02666	334	moaA molybdenum cofactor biosynthesis protein A, b	99.5
PRK09234	843	fbiC FO synthase; Reviewed	99.5
TIGR02668	302	moaA_archaeal probable molybdenum cofactor biosynt	99.49
PLN02951	373	Molybderin biosynthesis protein CNX2	99.42
COG0320	306	LipA Lipoate synthase [Coenzyme metabolism]	99.39
TIGR02493	235	PFLA pyruvate formate-lyase 1-activating enzyme. A	99.35
PRK05301	378	pyrroloquinoline quinone biosynthesis protein PqqE	99.31
PRK14455	356	ribosomal RNA large subunit methyltransferase N; P	99.3
PRK14463	349	ribosomal RNA large subunit methyltransferase N; P	99.29
PRK09234	843	fbiC FO synthase; Reviewed	99.29
TIGR02109	358	PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E.	99.29
TIGR00238	331	KamA family protein. Note that the E. coli homolog	99.29
PRK14456	368	ribosomal RNA large subunit methyltransferase N; P	99.23
TIGR02495	191	NrdG2 anaerobic ribonucleoside-triphosphate reduct	99.22
COG1060	370	ThiH Thiamine biosynthesis enzyme ThiH and related	99.15
PRK14460	354	ribosomal RNA large subunit methyltransferase N; P	99.15
PRK11145	246	pflA pyruvate formate lyase-activating enzyme 1; P	99.15
TIGR01290	442	nifB nitrogenase cofactor biosynthesis protein Nif	99.14
COG2896	322	MoaA Molybdenum cofactor biosynthesis enzyme [Coen	99.11
cd02068	127	radical_SAM_B12_BD B12 binding domain_like associa	99.11
PRK14466	345	ribosomal RNA large subunit methyltransferase N; P	99.11
PRK14457	345	ribosomal RNA large subunit methyltransferase N; P	99.09
TIGR00048	355	radical SAM enzyme, Cfr family. A Staphylococcus s	99.07
PF02310	121	B12-binding: B12 binding domain; InterPro: IPR0061	99.07
PRK14470	336	ribosomal RNA large subunit methyltransferase N; P	99.07
PRK14459	373	ribosomal RNA large subunit methyltransferase N; P	99.06
PRK14468	343	ribosomal RNA large subunit methyltransferase N; P	99.05
COG1856	275	Uncharacterized homolog of biotin synthetase [Func	99.02
PRK14469	343	ribosomal RNA large subunit methyltransferase N; P	99.02
COG2100	414	Predicted Fe-S oxidoreductase [General function pr	98.98
TIGR03821	321	AblA_like_1 lysine-2,3-aminomutase-related protein	98.97
PRK14462	356	ribosomal RNA large subunit methyltransferase N; P	98.96
PRK14467	348	ribosomal RNA large subunit methyltransferase N; P	98.96
TIGR03820	417	lys_2_3_AblA lysine-2,3-aminomutase. This model de	98.96
COG1244	358	Predicted Fe-S oxidoreductase [General function pr	98.96
TIGR03470	318	HpnH hopanoid biosynthesis associated radical SAM	98.95
PRK14453	347	chloramphenicol/florfenicol resistance protein; Pr	98.94
PRK11194	372	ribosomal RNA large subunit methyltransferase N; P	98.94
PRK14464	344	ribosomal RNA large subunit methyltransferase N; P	98.93
PRK14461	371	ribosomal RNA large subunit methyltransferase N; P	98.92
PRK14465	342	ribosomal RNA large subunit methyltransferase N; P	98.9
PRK14454	342	ribosomal RNA large subunit methyltransferase N; P	98.85
PRK13762	322	tRNA-modifying enzyme; Provisional	98.84
COG2516	339	Biotin synthase-related enzyme [General function p	98.81
KOG2672	360	consensus Lipoate synthase [Coenzyme transport and	98.79
COG0731	296	Fe-S oxidoreductases [Energy production and conver	98.72
KOG2900	380	consensus Biotin synthase [Coenzyme transport and	98.7
COG0535	347	Predicted Fe-S oxidoreductases [General function p	98.61
COG0820	349	Predicted Fe-S-cluster redox enzyme [General funct	98.55
TIGR03278	404	methan_mark_10 putative methanogenesis marker prot	98.47
cd02065	125	B12-binding_like B12 binding domain (B12-BD). Most	98.44
PRK13745	412	anaerobic sulfatase-maturase; Provisional	98.42
COG4277	404	Predicted DNA-binding protein with the Helix-hairp	98.37
PRK13758	370	anaerobic sulfatase-maturase; Provisional	98.3
COG1509	369	KamA Lysine 2,3-aminomutase [Amino acid transport	98.28
COG1533	297	SplB DNA repair photolyase [DNA replication, recom	98.21
TIGR02494	295	PFLE_PFLC glycyl-radical enzyme activating protein	98.17
COG0641	378	AslB Arylsulfatase regulator (Fe-S oxidoreductase)	98.16
KOG2535	554	consensus RNA polymerase II elongator complex, sub	98.14
COG1180	260	PflA Pyruvate-formate lyase-activating enzyme [Pos	98.04
TIGR03365	238	Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosyn	98.04
COG1625	414	Fe-S oxidoreductase, related to NifB/MoaA family [	97.89
COG1313	335	PflX Uncharacterized Fe-S protein PflX, homolog of	97.76
TIGR03279	433	cyano_FeS_chp putative FeS-containing Cyanobacteri	97.75
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	97.09
COG2108	353	Uncharacterized conserved protein related to pyruv	97.09
PRK10076	213	pyruvate formate lyase II activase; Provisional	96.88
TIGR02826	147	RNR_activ_nrdG3 anaerobic ribonucleoside-triphosph	96.85
PF13394	119	Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B	96.82
COG5014	228	Predicted Fe-S oxidoreductase [General function pr	96.82
cd03174	265	DRE_TIM_metallolyase DRE-TIM metallolyase superfam	96.75
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	96.67
PF13353	139	Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A	96.41
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	96.3
COG0602	212	NrdG Organic radical activating enzymes [Posttrans	95.88
PRK02261	137	methylaspartate mutase subunit S; Provisional	95.74
TIGR01501	134	MthylAspMutase methylaspartate mutase, S subunit.	95.51
cd02070	201	corrinoid_protein_B12-BD B12 binding domain of cor	95.02
TIGR02491	154	NrdG anaerobic ribonucleoside-triphosphate reducta	95.02
KOG2876	323	consensus Molybdenum cofactor biosynthesis pathway	94.98
PF01938	61	TRAM: TRAM domain; InterPro: IPR002792 The TRAM (a	94.92
cd07948	262	DRE_TIM_HCS Saccharomyces cerevisiae homocitrate s	94.72
PRK11121	154	nrdG anaerobic ribonucleotide reductase-activating	94.4
PLN02746	347	hydroxymethylglutaryl-CoA lyase	94.0
COG2185	143	Sbm Methylmalonyl-CoA mutase, C-terminal domain/su	93.56
PRK05692	287	hydroxymethylglutaryl-CoA lyase; Provisional	93.35
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	93.3
cd07941	273	DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3	92.99
cd07938	274	DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase,	92.78
cd07944	266	DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-	92.59
PF08497	302	Radical_SAM_N: Radical SAM N-terminal; InterPro: I	92.44
cd07939	259	DRE_TIM_NifV Streptomyces rubellomurinus FrbC and	92.15
PRK11858	378	aksA trans-homoaconitate synthase; Reviewed	91.32
PRK09426	714	methylmalonyl-CoA mutase; Reviewed	91.24
cd07937	275	DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcar	91.14
PRK08091	228	ribulose-phosphate 3-epimerase; Validated	90.72
PRK08195	337	4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic ac	90.62
TIGR03217	333	4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase.	90.3
TIGR02090	363	LEU1_arch isopropylmalate/citramalate/homocitrate	90.3
TIGR02660	365	nifV_homocitr homocitrate synthase NifV. This fami	89.53
PF00682	237	HMGL-like: HMGL-like of this family is not conserv	88.84
cd07945	280	DRE_TIM_CMS Leptospira interrogans citramalate syn	88.73
cd07940	268	DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-	88.48
cd07943	263	DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-te	87.81
cd00452	190	KDPG_aldolase KDPG and KHG aldolase. This family b	87.38
TIGR02370	197	pyl_corrinoid methyltransferase cognate corrinoid	87.13
PF04016	147	DUF364: Domain of unknown function (DUF364); Inter	84.83
cd02069	213	methionine_synthase_B12_BD B12 binding domain of m	83.26
PRK12344	524	putative alpha-isopropylmalate/homocitrate synthas	83.13
PRK00915	513	2-isopropylmalate synthase; Validated	82.7
PRK07535	261	methyltetrahydrofolate:corrinoid/iron-sulfur prote	82.65
PRK09389	488	(R)-citramalate synthase; Provisional	81.64
PF01261	213	AP_endonuc_2: Xylose isomerase-like TIM barrel; In	81.24

>KOG2492 consensus CDK5 activator-binding protein [Signal transduction mechanisms]

Probab=100.00  E-value=4.3e-106  Score=799.63  Aligned_cols=471  Identities=58%  Similarity=0.955  Sum_probs=441.4

Q ss_pred             CCCChhhhhhccccccCCCccCCCCCccCCCCCCc--ccCCCcc-EEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCC
Q 041524           37 DGPGLHHFIAQSSLTASQPLADLAPASEVSSATGS--EVHSQGR-IYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPE  113 (524)
Q Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~  113 (524)
                      ++-..|||++.++.++.+    ..+.+++++||+.  ++.+++| ||++|||||||++|+|++|++|++.||-+ +++++
T Consensus        34 ~rl~~~~fl~~~~~~~~k----l~~~v~~~~~yL~~~dl~g~gRkv~~etYGCQMNvnD~Eiv~sIl~~~Gy~~-~~~~e  108 (552)
T KOG2492|consen   34 SRLQAQDFLKSASAPQEK----LSSEVEDPPPYLNSDDLLGNGRKVYLETYGCQMNVNDTEIVWSILKKSGYLR-SDKPE  108 (552)
T ss_pred             HHHHhhhhhhccccchhh----ccccccCCccccCHHHhccCCcEEEEEEeeeeeccchHHHHHHHHHhcCccc-cCCcc
Confidence            455569999988876543    3468888899974  4778877 99999999999999999999999999987 78999


Q ss_pred             CCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCC
Q 041524          114 NAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDA  193 (524)
Q Consensus       114 ~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~geg  193 (524)
                      +||||+++||+++++||+++|++|+.++++|.        .|..+ .+.+|+|.||||+++++++|++...||+|+|+++
T Consensus       109 ~Advill~TCsiRe~AEq~iwnrL~~~ra~k~--------~~~~~-rpl~v~vLGCMAERlk~~iL~~~kmVdivaGPDa  179 (552)
T KOG2492|consen  109 EADVILLVTCSIREGAEQRIWNRLKLLRALKV--------NRPTS-RPLRVGVLGCMAERLKEKILEREKMVDIVAGPDA  179 (552)
T ss_pred             cCcEEEEEEeeccccHHHHHHHHHHHHHHhhc--------cCccC-CCceEEeehhhHHHHHHHHhhhhhceeeeeCchh
Confidence            99999999999999999999999998866663        22233 3789999999999999999999999999999999


Q ss_pred             cccHHHHHHHHhcCCCccccccccccccccCCCccccCCCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHH
Q 041524          194 YRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVD  273 (524)
Q Consensus       194 e~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~  273 (524)
                      |++||+||+..+.|+..+|++++++++|+|+.|+++.....+|||+|||||+|+|+||++|+++|+.|+||+++|++|++
T Consensus       180 YrDLPrll~~~~~g~~~in~~Lsldetyadv~pvr~~~~s~tAFvSiMRGCdNMCtyCiVpftrGreRsrpi~siv~ev~  259 (552)
T KOG2492|consen  180 YRDLPRLLAVARGGQNGINVLLSLDETYADVQPVRVSSSSTTAFVSIMRGCDNMCTYCIVPFTRGRERSRPIESIVEEVK  259 (552)
T ss_pred             hhhhHHHHHHHhccCCceeEEEeccchhcccceeeccCccchhHHHHHhccccccceEEEeccCCcccCCchHHHHHHHH
Confidence            99999999999999999999999999999999999989999999999999999999999999999999999999999999


Q ss_pred             HHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCC
Q 041524          274 ELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKD  353 (524)
Q Consensus       274 ~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~  353 (524)
                      .|.++|+|+++|+|||+|+|++.+..++.....  ...++||+++||+|.++.+|+.||+.++...|+|+|||+++||++
T Consensus       260 ~L~~qG~KeVTLLGQNVNSyrD~s~~~~~~a~~--~~~~~GFst~yK~K~gGl~Fa~LLd~vs~~~PemR~RFTSPHPKD  337 (552)
T KOG2492|consen  260 RLAEQGVKEVTLLGQNVNSYRDNSAVQFSSAVP--TNLSPGFSTVYKPKQGGLRFAHLLDQVSRADPEMRIRFTSPHPKD  337 (552)
T ss_pred             HHhhcCceeeeeecccccccccchhhhhccCCc--cccCCCceeeecccCCCccHHHHHHHHhhhCcceEEEecCCCCCC
Confidence            999999999999999999999987776644432  256799999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHH
Q 041524          354 FPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLT  433 (524)
Q Consensus       354 ~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~  433 (524)
                      +++|+|++|++.++.|+++|+|+||||.++|+.|+|||++++|.++++.++..+||+.+++|||.||||||++|+++|+.
T Consensus       338 fpdevl~li~~rdnickqihlPAqSgds~vLE~mrRgysreayl~lv~~Irs~iPgVglssdfitgfCgeTeedhq~t~s  417 (552)
T KOG2492|consen  338 FPDEVLELIRDRDNICKQIHLPAQSGDSRVLEIMRRGYSREAYLELVAHIRSMIPGVGLSSDFITGFCGETEEDHQYTVS  417 (552)
T ss_pred             ChHHHHHHHHhCcchhheeeccccCCchHHHHHHHccCChHhhhhHHHHHHhhCCCCcceeeeEecccCCChHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEE
Q 041524          434 LMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELV  513 (524)
Q Consensus       434 ~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~  513 (524)
                      +++++++|.+++|+|+++.||.+|+++.|++|+++|.+|+.+|..+|++.+...++..+|.+|.||+|+++|++. ..++
T Consensus       418 LlrqVgYdv~~lFaysmR~kT~ay~r~~ddvpeeVKnrrl~~Li~~Fre~A~~~~d~lvgc~Qlvlveg~sKrs~-t~~~  496 (552)
T KOG2492|consen  418 LLRQVGYDVVFLFAYSMREKTRAYHRLKDDVPEEVKNRRLFELITFFREEAIKFNDGLVGCTQLVLVEGKSKRSA-TDLC  496 (552)
T ss_pred             HHHHhccCeeeeEEeeecccchhhhhhcccccHHHHHHHHHHHHHHHHHHHHHHhccCccccceeeeechhhhhH-HHHh
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999984 4899


Q ss_pred             EeCCCCcEEEC
Q 041524          514 GKSDRGHRVAF  524 (524)
Q Consensus       514 Gr~~~~~~v~~  524 (524)
                      ||+|+|++|+|
T Consensus       497 gr~d~~~kv~f  507 (552)
T KOG2492|consen  497 GRNDGNLKVIF  507 (552)
T ss_pred             cccCCCeEEEe
Confidence            99999999997

>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.3e-87  Score=700.22  Aligned_cols=403  Identities=42%  Similarity=0.730  Sum_probs=363.0

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccc
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGR  155 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~  155 (524)
                      ++||||+|||||||++|||+|++.|.+.||+..++++++||||+||||+|+++|+++++++|+++.              
T Consensus         2 ~~kv~i~T~GC~~N~~DSe~m~~~L~~~G~~~~~~~~~eADvviiNTC~V~~~a~~k~~~~i~~~~--------------   67 (437)
T COG0621           2 MKKVYIETLGCQMNLYDSERMAGLLEAAGYEELVEDPEEADVVIINTCAVREKAEQKVRSAIGELK--------------   67 (437)
T ss_pred             CceEEEEecCCCccHHHHHHHHHHHHHcCCccccCCcccCCEEEEecCeeeehHHHHHHHHHHHHH--------------
Confidence            467999999999999999999999999999433888999999999999999999999999999881              


Q ss_pred             cccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCcccccccc--ccccccCCCccccCCC
Q 041524          156 SQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSL--EETYADISPVRISKNS  233 (524)
Q Consensus       156 ~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~--~~~~~~l~p~r~~~~~  233 (524)
                       +.+|+.+|+|+||+|+.. ++++++.|.||+|+|++....++++++....++.......+.  ...+..++|.  ....
T Consensus        68 -~~~p~~~iiVtGC~aq~~-~~i~~~~p~vd~v~G~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~  143 (437)
T COG0621          68 -KLKPDAKIIVTGCLAQAE-EEILERAPEVDIVLGPQNKERLPEAIEKALRGKKEFVVVLSFPEEEKFDKLPPR--REGG  143 (437)
T ss_pred             -HhCCCCEEEEeCCccccC-HHHHhhCCCceEEECCccHHHHHHHHHHHhhcccccccccccccccccccCCCC--cCCC
Confidence             123899999999999998 888888999999999999999999999886654433222222  1223444444  4678


Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      .+|||+|+.||++.||||++|++||+.||||+++|++|++.|+++|++||+|+|||+++|            |.++  .+
T Consensus       144 ~~A~v~I~eGCn~~CtfCiiP~~RG~~rSr~~e~Il~ev~~Lv~~G~kEI~L~gqdv~aY------------G~D~--~~  209 (437)
T COG0621         144 VRAFVKIQEGCNKFCTFCIIPYARGKERSRPPEDILKEVKRLVAQGVKEIVLTGQDVNAY------------GKDL--GG  209 (437)
T ss_pred             eEEEEEhhcCcCCCCCeeeeeccCCCccCCCHHHHHHHHHHHHHCCCeEEEEEEEehhhc------------cccC--CC
Confidence            899999999999999999999999999999999999999999999999999999999999            4432  00


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR  393 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~  393 (524)
                      |          ...|.+||+.+.++.+..|+|++++||..+++++++++++.|+.|+++|||+||||+++|++|+|+||.
T Consensus       210 ~----------~~~l~~Ll~~l~~I~G~~riR~~~~~P~~~~d~lI~~~~~~~kv~~~lHlPvQsGsd~ILk~M~R~yt~  279 (437)
T COG0621         210 G----------KPNLADLLRELSKIPGIERIRFGSSHPLEFTDDLIEAIAETPKVCPHLHLPVQSGSDRILKRMKRGYTV  279 (437)
T ss_pred             C----------ccCHHHHHHHHhcCCCceEEEEecCCchhcCHHHHHHHhcCCcccccccCccccCCHHHHHHhCCCcCH
Confidence            0          246999999999988889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHH
Q 041524          394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRL  473 (524)
Q Consensus       394 e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl  473 (524)
                      +++++.++.+|+.+|++.+++|||+||||||+|||++|++|+++++++.+++|+|||+||||++ .|.++||+++|++|+
T Consensus       280 e~~~~~i~k~R~~~Pd~~i~tDiIVGFPgETeedFe~tl~lv~e~~fd~~~~F~YSpRpGTpAa-~~~~qvp~~vkkeR~  358 (437)
T COG0621         280 EEYLEIIEKLRAARPDIAISTDIIVGFPGETEEDFEETLDLVEEVRFDRLHVFKYSPRPGTPAA-LMPDQVPEEVKKERL  358 (437)
T ss_pred             HHHHHHHHHHHHhCCCceEeccEEEECCCCCHHHHHHHHHHHHHhCCCEEeeeecCCCCCCccc-cCCCCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999 588999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcccCCEEEEEEec-cCCCCCCCeEEEeCCCCcEEEC
Q 041524          474 TELIEAFRESTGQCYDSQVGTVQLVLVEG-PNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       474 ~~l~~~~~~~~~~~~~~~vG~~~~vLve~-~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      ++|.++..++..+++++++|+++.||||+ .++.   +.+.||+++|.+|+|
T Consensus       359 ~~L~~l~~~~~~~~~~~~vG~~~~VLVe~~~~~~---~~~~Grt~~~~~v~~  407 (437)
T COG0621         359 RRLQELQQQISAEFNQKLVGKTLEVLVEEGGSKK---GELIGRTENYRPVVF  407 (437)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCEEEEEEEeccCcC---CceEEEcCCCCEEEe
Confidence            99999999999999999999999999995 4432   268999999999986

>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=3.2e-81  Score=667.50  Aligned_cols=406  Identities=48%  Similarity=0.845  Sum_probs=358.8

Q ss_pred             CCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccc
Q 041524           75 SQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATG  154 (524)
Q Consensus        75 ~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~  154 (524)
                      +.+++||+|||||||++|+|.|.+.|.+.||+. ++++++||+|+||||+|++.|+++++++++.++.+|+         
T Consensus         9 ~~~~~~i~t~GC~~N~~dse~~~~~l~~~G~~~-~~~~~~ADvviiNTC~v~~~a~~~~~~~i~~~~~~k~---------   78 (449)
T PRK14332          9 KLGKVYIETYGCQMNEYDSGIVSSLMRDAEYST-SNDPENSDIIFLNTCAIRENAHAKIYNRLQSLGYLKK---------   78 (449)
T ss_pred             CCCEEEEEecCCCCCHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEEccCeechHHHHHHHHHHHHHHHHH---------
Confidence            456799999999999999999999999999987 7888999999999999999999999999988755543         


Q ss_pred             ccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccc-cccccccccCCCccccCCC
Q 041524          155 RSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTL-LSLEETYADISPVRISKNS  233 (524)
Q Consensus       155 ~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~-~~~~~~~~~l~p~r~~~~~  233 (524)
                         .+|+.+|+||||||+.++++++.+.+.||+|++++++..+++|++.+..|....... ......+.+++|..  ...
T Consensus        79 ---~~p~~~ivv~GC~a~~~~e~l~~~~~~vD~vvg~~~~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~  153 (449)
T PRK14332         79 ---RNPNLVIGVLGCMAQNLGDDLFHQELPLDLVVGPDNYRSLPELIQRIRNGEKSISLTRLSKIETYDEIEPRV--VNG  153 (449)
T ss_pred             ---hCCCCEEEEECcccccchHHHhhccCCceEEECCCCHHHHHHHHHHHhcCCceeeecccccccccccccccc--cCC
Confidence               358889999999999999999755556999999999999999999887654321110 01112233344321  234


Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      ..+||++|||||++|+||++|..+|++|+||+++|++|++.+.++|+++|+|+|+|++.|            |.+     
T Consensus       154 ~~a~l~isrGC~~~CsFC~ip~~rG~~rsr~~e~Iv~Ei~~l~~~G~kei~l~~~~~~~y------------~~~-----  216 (449)
T PRK14332        154 IQAFVTIMRGCNNFCTFCVVPYTRGRERSRDPKSIVREIQDLQEKGIRQVTLLGQNVNSY------------KEQ-----  216 (449)
T ss_pred             ceEEEEecCCcCCCCCCCCcccccCCcccCCHHHHHHHHHHHHHCCCeEEEEecccCCcc------------cCC-----
Confidence            679999999999999999999999999999999999999999999999999999999999            321     


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR  393 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~  393 (524)
                                 ...|.+|++++.+..+..|++|.+++|.+++++++++|++++++|+++|+|+||||+++|++|+|+++.
T Consensus       217 -----------~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~~~~ell~~m~~~~~~~~~l~lgvQSgsd~vLk~m~R~~t~  285 (449)
T PRK14332        217 -----------STDFAGLIQMLLDETTIERIRFTSPHPKDFPDHLLSLMAKNPRFCPNIHLPLQAGNTRVLEEMKRSYSK  285 (449)
T ss_pred             -----------cccHHHHHHHHhcCCCcceEEEECCCcccCCHHHHHHHHhCCCccceEEECCCcCCHHHHHhhCCCCCH
Confidence                       135899999887766667999999999999999999999986669999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHH
Q 041524          394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRL  473 (524)
Q Consensus       394 e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl  473 (524)
                      +++.++++.+++++|++.+.+|||+||||||++||++|++|+++++++.+++|.|||+|||++++.|.+++|++++++|+
T Consensus       286 ~~~~~~i~~lr~~~p~i~i~td~IvGfPgET~edf~~tl~~v~~l~~~~~~~f~ys~~~GT~a~~~~~~~v~~~~~~~R~  365 (449)
T PRK14332        286 EEFLDVVKEIRNIVPDVGITTDIIVGFPNETEEEFEDTLAVVREVQFDMAFMFKYSEREGTMAKRKLPDNVPEEVKSARL  365 (449)
T ss_pred             HHHHHHHHHHHHhCCCCEEEEEEEeeCCCCCHHHHHHHHHHHHhCCCCEEEEEEecCCCCChhHHhCcCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999995588999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          474 TELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       474 ~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      ++|.+++++++.++++.++|+++.||||+.++++++ .++||+++|.+|+|
T Consensus       366 ~~l~~~~~~~~~~~~~~~vG~~~~vlve~~~~~~~~-~~~gr~~~~~~v~~  415 (449)
T PRK14332        366 TKLVDLQTSISHEQNRARIGRVYSILIENTSRKSEK-QLCGRTPCGRMTVF  415 (449)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCEEEEEEEeccCCCCC-eEEEECCCCeEEEE
Confidence            999999999999999999999999999987765433 78999999999875

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=1.4e-80  Score=666.60  Aligned_cols=417  Identities=52%  Similarity=0.870  Sum_probs=362.7

Q ss_pred             CCCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccc
Q 041524           74 HSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVAT  153 (524)
Q Consensus        74 ~~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~  153 (524)
                      ++.+++||+||||+||++|||.|++.|.+.||+. ++++++||+|+||||+|++.|++++.+.|..++.+|         
T Consensus        21 ~~~~~~~i~t~GC~~N~~dse~~~~~l~~~G~~~-~~~~~~ADiviiNTC~v~~~a~~k~~~~i~~~~~~k---------   90 (467)
T PRK14329         21 KNTKKLFIESYGCQMNFADSEIVASILQMAGYNT-TENLEEADLVLVNTCSIRDNAEQKVRKRLEKFNALK---------   90 (467)
T ss_pred             CCCCEEEEEecCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEeCcceechHHHHHHHHHHHHHHHH---------
Confidence            4456799999999999999999999999999997 788899999999999999999999999997764444         


Q ss_pred             cccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccCCC
Q 041524          154 GRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNS  233 (524)
Q Consensus       154 ~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~  233 (524)
                         +.+|+++||||||||+..++++++..+.||+|++|+++.+++++++.+..|....+........+.++.|.+.....
T Consensus        91 ---~~~p~~~ivvgGc~a~~~~~~~l~~~~~vD~vv~~e~~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (467)
T PRK14329         91 ---KKNPKLIVGVLGCMAERLKDKLLEEEKIVDLVVGPDAYLDLPNLIAEVEEGRKAINVILSKEETYADISPVRLGGNG  167 (467)
T ss_pred             ---hhCCCcEEEEECChhcCcHHHHHhcCCCceEEECCCCHHHHHHHHHHHhcCCcceeccccccccccccccccccCCC
Confidence               23588999999999999999999877779999999999999999998876643222211111123333333333445


Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      .+++|++|||||++|+||++|..+|++|+||+++|++||+.+.+.|+++|+|+|+|++.|            |.+.   +
T Consensus       168 ~~a~i~isrGCp~~CsFC~ip~~~G~~rsrs~e~Vv~Ei~~l~~~g~~eI~l~~~~~~~y------------~~d~---~  232 (467)
T PRK14329        168 VSAFVSIMRGCDNMCTFCVVPFTRGRERSRDPESILNEVRDLFAKGYKEVTLLGQNVDSY------------LWYG---G  232 (467)
T ss_pred             cEEEEEeccCcccCCCCCccccccCCcccCCHHHHHHHHHHHHHCCCeEEEEEeeccccc------------cccc---C
Confidence            789999999999999999999999999999999999999999999999999999999988            2210   0


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR  393 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~  393 (524)
                      +..     ......+.+||+.+.+..+..+++|.+.+|..++++++++|+++++||+++|||+||+|+++|+.|+|+++.
T Consensus       233 ~~~-----~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~l~~ell~~m~~~~~g~~~i~iglQSgsd~vLk~m~R~~t~  307 (467)
T PRK14329        233 GLK-----KDEAVNFAQLLEMVAEAVPDMRIRFSTSHPKDMTDDVLEVMAKYDNICKHIHLPVQSGSDRILKLMNRKYTR  307 (467)
T ss_pred             Ccc-----ccccccHHHHHHHHHhcCCCcEEEEecCCcccCCHHHHHHHHhCCCCCCeEEeCCCcCCHHHHHhcCCCCCH
Confidence            000     001246899999998766667999999999999999999999987899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHH
Q 041524          394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRL  473 (524)
Q Consensus       394 e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl  473 (524)
                      +++.++++.+++..|++.+++|||+||||||+||+++|++|+.+++++.+++|.|+|+|||++++.|++++|.+++++|+
T Consensus       308 ~~~~~~i~~ir~~~~~~~i~~d~IvGfPgET~edf~~tl~~i~~l~~~~~~v~~~sp~pGT~~~~~~~~~v~~~~~~~R~  387 (467)
T PRK14329        308 EWYLDRIDAIRRIIPDCGISTDMIAGFPTETEEDHQDTLSLMEEVGYDFAFMFKYSERPGTYAARKLEDDVPEEVKKRRL  387 (467)
T ss_pred             HHHHHHHHHHHHhCCCCEEEEeEEEeCCCCCHHHHHHHHHHHHhhCCCeEeeeEecCCCCChhhhhCCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999997788999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          474 TELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       474 ~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      ++|.++..++..+++++++|+++.||||+.++.+++ .+.||+++|.+|+|
T Consensus       388 ~~l~~~~~~~~~~~~~~~~G~~~~vlve~~~~~~~~-~~~g~t~~~~~v~~  437 (467)
T PRK14329        388 NEIIALQQELSLERNQRDIGKTFEVLIEGVSKRSRE-QLFGRNSQNKVVVF  437 (467)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCEEEEEEEecccCCCC-eEEEECCCCeEEEE
Confidence            999999999999999999999999999986543323 68899999999875

>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=3.6e-80  Score=659.22  Aligned_cols=406  Identities=45%  Similarity=0.790  Sum_probs=357.6

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccc
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS  156 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~  156 (524)
                      +++||+||||+||++|||.|.+.|.+.||+. ++++++||||+||||+|++.|+.++.+.|+.++.+|            
T Consensus         7 ~~~~i~tlGC~~N~~dse~~~~~l~~~G~~~-~~~~~~ADviiiNTC~v~~~A~~k~~~~i~~~~~~k------------   73 (445)
T PRK14340          7 RKFYIHTFGCQMNQADSEIITALLQDEGYVP-AASEEDADIVLLNTCAVRENAVERIGHYLQHLKGAK------------   73 (445)
T ss_pred             cEEEEEecCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEEeeeeeccHHHHHHHHHHHHHHHh------------
Confidence            4699999999999999999999999999997 888899999999999999999999999998774444            


Q ss_pred             ccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccCCCeEE
Q 041524          157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTA  236 (524)
Q Consensus       157 ~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~a  236 (524)
                      +.+|+.+|+|+||+|+..++++++..|+||+|++++.+..+++++.....+.............+..+++.+  .....+
T Consensus        74 ~~~~~~~ivv~GC~a~~~~~e~~~~~p~vd~v~g~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~a  151 (445)
T PRK14340         74 RRRKGLLVGVLGCVPQYEREEMFSMFPVIDFLAGPDTYRVLPGLIADAREGARPAALDFNQSETYAGIEPVR--SGSISA  151 (445)
T ss_pred             hcCCCCEEEEeCcccccchHHHHhhCCCCcEEECCCCHHHHHHHHHHHhcCCcceecccccccccccccccc--CCCcEE
Confidence            235888999999999999999998889999999999999999999876544321100000111222233222  244679


Q ss_pred             EEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      ||++|||||++|+||++|..+|++|+||+++|++|++.+.++|+++|+|+|+|+++|++            +.       
T Consensus       152 ~l~isrGC~~~CsFC~ip~~rG~~rsr~~e~Vv~Ei~~l~~~G~~ei~l~~~~~~~y~d------------~~-------  212 (445)
T PRK14340        152 FVPVMRGCNNMCAFCVVPFTRGRERSHPFASVLDEVRALAEAGYREITLLGQNVNSYSD------------PE-------  212 (445)
T ss_pred             EEEeccCCCCCCCCCCcccccCCCcCCCHHHHHHHHHHHHHCCCeEEEEeecccchhhc------------cC-------
Confidence            99999999999999999999999999999999999999999999999999999999932            11       


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~  396 (524)
                             ....+.+||+++.+..+..+++|.+.+|..++++++++|+++++||+++|+|+||+|+++|+.|+|+++.+++
T Consensus       213 -------~~~~l~~Ll~~l~~~~~~~rir~~~~~p~~l~~ell~~~~~~~~g~~~l~iglQSgsd~vLk~m~R~~t~~~~  285 (445)
T PRK14340        213 -------AGADFAGLLDAVSRAAPEMRIRFTTSHPKDISESLVRTIAARPNICNHIHLPVQSGSSRMLRRMNRGHTIEEY  285 (445)
T ss_pred             -------CCchHHHHHHHHhhcCCCcEEEEccCChhhcCHHHHHHHHhCCCCCCeEEECCCcCCHHHHHhcCCCCCHHHH
Confidence                   1235889999998766677999999999999999999999988899999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHH
Q 041524          397 LDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTEL  476 (524)
Q Consensus       397 ~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l  476 (524)
                      .++++.+++.+||+.+.+|||+||||||+++|++|++|+++++++.+++|.|+|+|||++++.+.+++|.+++++|+++|
T Consensus       286 ~~~v~~lr~~~pgi~i~td~IvGfPgET~edf~~tl~~~~~~~~~~~~~f~~sp~pGT~~~~~~~~~v~~~~~~~R~~~l  365 (445)
T PRK14340        286 LEKIALIRSAIPGVTLSTDLIAGFCGETEEDHRATLSLMEEVRFDSAFMFYYSVRPGTLAARTLPDDVPEEVKKRRLQEI  365 (445)
T ss_pred             HHHHHHHHHhCCCCEEeccEEEECCCCCHHHHHHHHHHHHhcCCCEEeeEEecCCCCChhhhhCCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999996688999999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          477 IEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       477 ~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      .++.+++..++++.++|+++.||||+.+++.++ .++||+++|.+|+|
T Consensus       366 ~~l~~~~~~~~~~~~vG~~~~vlve~~~~~~~~-~~~grt~~~~~v~~  412 (445)
T PRK14340        366 IDLQNGISAELFQRAVGSVVEVLAESESRRSSE-QLMGRTDGNRVVVF  412 (445)
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEEecccCCCC-eEEEECCCCeEEEE
Confidence            999999999999999999999999976554323 68899999999875

>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=2.2e-79  Score=658.16  Aligned_cols=408  Identities=40%  Similarity=0.710  Sum_probs=357.4

Q ss_pred             CCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccc
Q 041524           75 SQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATG  154 (524)
Q Consensus        75 ~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~  154 (524)
                      .++++||+|||||||++|||.|+++|.+.||+. ++++++||+|+||||+|+++|+++++..|.+++.+|+         
T Consensus        65 ~~~~~~i~T~GC~~N~~Dse~~~~~L~~~Gy~~-~~~~~~ADviiiNTC~V~~~Ae~k~~~~i~~l~~~k~---------  134 (509)
T PRK14327         65 NGRKFYIRTYGCQMNEHDTEVMAGIFEALGYEP-TDDTEDADVILLNTCAIRENAENKVFGEIGHLKHLKR---------  134 (509)
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHCcCEE-CCCcCCCCEEEEECCCCccHHHHHHHHHHHHHHHHHh---------
Confidence            345699999999999999999999999999987 7888999999999999999999999999988755543         


Q ss_pred             ccccCCCCEEEEEcccccccH--HHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCcccccccc-ccccccCCCccccC
Q 041524          155 RSQSKHPPKIVVLGCMAERLK--DKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSL-EETYADISPVRISK  231 (524)
Q Consensus       155 ~~~~~p~~~IvvgG~~at~~~--e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~-~~~~~~l~p~r~~~  231 (524)
                         .+|+.+|+|.||||+..+  +++++.+|+||+|+++.....+++++.....+........+. ...+.+++..+  .
T Consensus       135 ---~~p~~~i~v~GCmaq~~~~~~~~~~~~p~vd~v~g~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~p~~~--~  209 (509)
T PRK14327        135 ---ENPDLLIGVCGCMSQEESVVNKILKKYQHVDMIFGTHNIHRLPEILKEAYFSKEMVVEVWSKEGDVIENLPKVR--E  209 (509)
T ss_pred             ---hCCCCEEEEEcchhcCcCchHHHHhcCCCCCEEECCCCHHHHHHHHHHHhcCCCceeecccccccccccccccc--C
Confidence               358899999999999998  888888999999999999999999998754333211111111 11122233222  3


Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ....+||.++||||+.|+||++|+++|++|++++++|++||+.+.+.|+++|+|+|+|+++|            |.++. 
T Consensus       210 ~~~~a~v~I~~GC~~~CsFC~vp~~rG~~Rsr~~e~Ii~Ei~~l~~~G~keI~L~g~n~~~y------------g~d~~-  276 (509)
T PRK14327        210 GNIKAWVNIMYGCDKFCTYCIVPYTRGKERSRRPEDIIQEVRHLARQGYKEITLLGQNVNAY------------GKDFE-  276 (509)
T ss_pred             CCeEEEEEecCCCCCCCcCCcccccCCCCeeCCHHHHHHHHHHHHHCCCcEEEEEeeccccC------------ccccc-
Confidence            56789999999999999999999999999999999999999999999999999999999999            43210 


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                                 .....|.+||+.+.+. +..|++|++.+|.+++++++++|++++..|+++|||+||||+++|+.|+|++
T Consensus       277 -----------~~~~~l~~Ll~~I~~~-~i~~ir~~s~~P~~i~deli~~m~~~g~~~~~l~lgvQSgsd~vLk~M~R~~  344 (509)
T PRK14327        277 -----------DIEYGLGDLMDEIRKI-DIPRVRFTTSHPRDFDDHLIEVLAKGGNLVEHIHLPVQSGSTEVLKIMARKY  344 (509)
T ss_pred             -----------ccchHHHHHHHHHHhC-CCceEEEeecCcccCCHHHHHHHHhcCCccceEEeccCCCCHHHHHhcCCCC
Confidence                       0013588999999876 4568999999999999999999999844488999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHH
Q 041524          392 TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQR  471 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~  471 (524)
                      +.+++.++++.+++++|++.+++|||+||||||+|||++|++|+++++++.+++|.|+|+|||+++. +.++||.+++++
T Consensus       345 t~e~~~~~v~~lr~~~p~i~i~tdiIvGfPgET~edf~~Tl~~v~~l~~d~~~~f~ysprpGT~a~~-~~~~vp~~vk~~  423 (509)
T PRK14327        345 TRESYLELVRKIKEAIPNVALTTDIIVGFPNETDEQFEETLSLYREVGFDHAYTFIYSPREGTPAAK-MKDNVPMEVKKE  423 (509)
T ss_pred             CHHHHHHHHHHHHHhCCCcEEeeeEEEeCCCCCHHHHHHHHHHHHHcCCCeEEEeeeeCCCCCchHh-CcCCCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999995 889999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          472 RLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       472 Rl~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      |+++|.++.++++.+.++.++|+++.||||+.+++++. .+.||+++|.+|+|
T Consensus       424 R~~~l~~l~~~~~~~~~~~~~G~~~~VLve~~~~~~~~-~~~Grt~~~~~V~~  475 (509)
T PRK14327        424 RLQRLNALVNEYSAKKMKRYEGQTVEVLVEGESKKNPE-VLAGYTRKNKLVNF  475 (509)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCEEEEEEEecccCCCc-eEEEECCCCcEEEE
Confidence            99999999999999999999999999999998765443 78899999999986

>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=1.4e-78  Score=649.67  Aligned_cols=409  Identities=39%  Similarity=0.666  Sum_probs=351.4

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccc
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS  156 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~  156 (524)
                      +++||+||||+||++|||.|++.|.+.||+. ++++++||||+||||+|++.|++++++++..++.+|            
T Consensus         1 ~~~~i~t~GC~~N~~dse~~~~~l~~~G~~~-~~~~~~ADv~iiNTC~v~~~A~~k~~~~~~~~~~~k------------   67 (455)
T PRK14335          1 MTYFFETYGCQMNVAESASMEQLLLARGWTK-AVDAETCDVLIINTCSVRITAETRVFGRLGLFSSLK------------   67 (455)
T ss_pred             CEEEEEEcCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEeccceechHHHHHHHHHHHHHHhh------------
Confidence            3799999999999999999999999999997 888899999999999999999999999988774433            


Q ss_pred             ccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCcccccccc-ccccccCC-------Ccc
Q 041524          157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSL-EETYADIS-------PVR  228 (524)
Q Consensus       157 ~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~-~~~~~~l~-------p~r  228 (524)
                       +.|+.+||||||||+..++++++..|+||+|++++.+..++++++....+....+..... ...+.+++       |..
T Consensus        68 -~~~~~~ivv~GC~a~~~~~e~~~~~p~vd~v~g~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~  146 (455)
T PRK14335         68 -KKRAFFIILMGCMAERLHDEIQKEFPRIDYVVGTFAHARLESIFQEIEAKLKQDDYRFEFISERYREHPVSGYRFFPSS  146 (455)
T ss_pred             -hCCCcEEEEecccccchHHHHHhhCCCCcEEECCCCHHHHHHHHHHHHhhcccccceecccccccccccccccccCccc
Confidence             247889999999999999999988899999999999999999988754321110000010 01111111       111


Q ss_pred             ccCCCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          229 ISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       229 ~~~~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      +......+||+++||||++|+||++|..+|+.|+||+++|++|++.+.+.|+++|+|+|+|+++|+..           +
T Consensus       147 ~~~~~~~~~i~I~rGC~~~CsfC~~p~~rG~~rsr~~e~Vv~Ei~~l~~~G~~ei~l~g~~~~~y~~~-----------~  215 (455)
T PRK14335        147 YSEGSFQSFIPIMNGCNNFCSYCIVPYVRGREISRDLDAILQEIDVLSEKGVREITLLGQNVNSYRGR-----------D  215 (455)
T ss_pred             ccCCCceEEEEhhcCCCCCCCCCCcccCCCCCccCCHHHHHHHHHHHHHCCCeEEEEEeecccccccc-----------c
Confidence            11235679999999999999999999999999999999999999999999999999999999999311           1


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHh----hCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHH
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSL----EFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVL  384 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~----~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL  384 (524)
                      .            ......+.+||+++.+    ..+..|+++.+.+|..++++++++|+++++||+++|+|+||||+++|
T Consensus       216 ~------------~~~~~~~~~Ll~~l~~~~~~~~~i~~ir~~s~~p~~i~~ell~~m~~~~~gc~~l~iglQSgsd~vL  283 (455)
T PRK14335        216 R------------EGNIVTFPQLLRHIVRRAEVTDQIRWIRFMSSHPKDLSDDLIATIAQESRLCRLVHLPVQHGSNGVL  283 (455)
T ss_pred             c------------cCCccCHHHHHHHHHHhhcccCCceEEEEeecCcccCCHHHHHHHHhCCCCCCeEEEccCcCCHHHH
Confidence            0            0001358889888852    23456899999999999999999999977799999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCC
Q 041524          385 ERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDV  464 (524)
Q Consensus       385 ~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v  464 (524)
                      +.|+|+++.+++.++++.+++.+||+.+.+|||+||||||+++|++|++|+++++++.+++|.|+|+|||++|. +.++|
T Consensus       284 k~m~R~~t~e~~~~~v~~ir~~~pgi~i~~d~IvGfPgET~edf~~Tl~~i~~l~~~~~~~~~~sp~pGT~~~~-~~~~v  362 (455)
T PRK14335        284 KRMNRSYTREHYLSLVGKLKASIPNVALSTDILIGFPGETEEDFEQTLDLMREVEFDSAFMYHYNPREGTPAYD-FPDRI  362 (455)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHhCCCCEEEEEEEEeCCCCCHHHHHHHHHHHHhcCCCeEEEEEecCCCCCchhh-CCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999996 88999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          465 PEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       465 ~~~~k~~Rl~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      |.+++++|+++|.++.+++..+++++++|+++.||||+.++++++ .++||+++|.+|+|
T Consensus       363 ~~~~k~~R~~~l~~~~~~~~~~~~~~~~G~~~~vlve~~~~~~~~-~~~g~t~~~~~v~~  421 (455)
T PRK14335        363 PDEVKIARLQRVIALQMSITLKKMKARVGKTLPVLVESRSRNNPE-ELFGHTELGEMTVL  421 (455)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHhCCCEEEEEEeccccCCCC-eeEEECCCCeEEEE
Confidence            999999999999999999999999999999999999986554333 78999999999975

>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=4.5e-78  Score=644.58  Aligned_cols=410  Identities=36%  Similarity=0.617  Sum_probs=353.5

Q ss_pred             CCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccc
Q 041524           75 SQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATG  154 (524)
Q Consensus        75 ~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~  154 (524)
                      +.+|+||+||||+||++|+|.|.+.|.+.||+. ++. ++||+|+||||+|+..|++++++.|++++.+|+         
T Consensus         2 ~~~~~~i~tlGC~~N~~dse~~~~~l~~~G~~~-~~~-~~ADiiiiNTC~v~~~A~~~~~~~i~~~~~~k~---------   70 (446)
T PRK14337          2 HDRTFHIITFGCQMNVNDSDWLARALVARGFTE-APE-EEARVFIVNTCSVRDKPEQKVYSLLGRIRHATK---------   70 (446)
T ss_pred             CCcEEEEEeeCCCCcHHHHHHHHHHHHHCCCEE-CCc-CCCCEEEEeccCeecHHHHHHHHHHHHHHHHHH---------
Confidence            346799999999999999999999999999987 564 789999999999999999999999998855543         


Q ss_pred             ccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCC-ccccCCC
Q 041524          155 RSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISP-VRISKNS  233 (524)
Q Consensus       155 ~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p-~r~~~~~  233 (524)
                         .+|+.+||||||+|+.+++++++..|+||+|++++++..++++++.+..+........+....+.+..+ .......
T Consensus        71 ---~~p~~~ivv~GC~a~~~~~~~~~~~p~vd~vv~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (446)
T PRK14337         71 ---KNPDVFVAVGGCVAQQIGSGFFSRFPQVRLVFGTDGIAMAPQALERLAEEPDLRLSLLDFSEHYPEREALWGNGTVP  147 (446)
T ss_pred             ---hCCCCEEEEECCccccccHHHHhhCCCCcEEECCCCHHHHHHHHHHHhcCCCceecccccccccccccccccccCCC
Confidence               358899999999999999999988999999999999999999998875433211011111111111110 0112345


Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      ..+||+++||||++|+||++|..+|++|++|+++|++|++.+.+.|+++|+|+|+|++.|            |.+.    
T Consensus       148 ~~a~v~i~rGC~~~CsFC~ip~~rG~~rsr~~e~Iv~Ei~~l~~~G~~eI~l~~~~~~~y------------g~d~----  211 (446)
T PRK14337        148 ASAFVNIMQGCDNFCAYCIVPYTRGRQKSRSSAAVLDECRALVDRGAREITLLGQNVNSY------------GQDK----  211 (446)
T ss_pred             cEEEEEeccCCCCCCcCCCcccCCCCCeeCCHHHHHHHHHHHHHCCCeEEEEEecCcccc------------ccCC----
Confidence            689999999999999999999999999999999999999999999999999999999998            3221    


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR  393 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~  393 (524)
                              ...+..+.+|++++.+..+..+++|.+.+|..++++++++|++.++||.++++|+||+|+++|+.|+|+++.
T Consensus       212 --------~~~~~~l~~Ll~~l~~~~g~~~ir~~~~~p~~i~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~t~  283 (446)
T PRK14337        212 --------HGDGTSFAQLLHKVAALPGLERLRFTTPHPKDIAPEVIEAFGELPNLCPRLHLPLQSGSDRILKAMGRKYDM  283 (446)
T ss_pred             --------CCCCccHHHHHHHHHhcCCCcEEEEccCCcccCCHHHHHHHHhCCcccCeEEECCCCCCHHHHHhCCCCCCH
Confidence                    001246889999998765666899999999999999999999976789999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHH
Q 041524          394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRL  473 (524)
Q Consensus       394 e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl  473 (524)
                      +++.++++.+++.+|++.+.+|||+||||||++|+++|++|+.+++++.+++|.|||+|||+++. |.++||.+++++|+
T Consensus       284 e~~~~~v~~lr~~~~~i~i~~d~IvG~PgET~ed~~~tl~~l~~~~~~~~~~f~ysp~pgT~a~~-~~~~v~~~vk~~R~  362 (446)
T PRK14337        284 ARYLDIVTDLRAARPDIALTTDLIVGFPGETEEDFEQTLEAMRTVGFASSFSFCYSDRPGTRAEM-LPGKVPEEVKSARL  362 (446)
T ss_pred             HHHHHHHHHHHHhCCCCeEEEeEEEECCCCCHHHHHHHHHHHHhcCCCeeEEEecCCCCCCcccc-CCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999996 88999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCC--CCeEEEeCCCCcEEE
Q 041524          474 TELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAP--DTELVGKSDRGHRVA  523 (524)
Q Consensus       474 ~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~--~~~~~Gr~~~~~~v~  523 (524)
                      ++|.++++++..+++++++|+++.||||+.++..+  .+.+.||+++|.+|+
T Consensus       363 ~~l~~~~~~~~~~~~~~~vG~~~~vlve~~~~~~~~~~~~~~g~~~~~~~v~  414 (446)
T PRK14337        363 ARLQELQNELTERWLQARVGRKTTVLLEGPSRKPGEGGDSWQGRDPGGRVVN  414 (446)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCEEEEEEEeccccCCCCCceEEEECCCCeEEE
Confidence            99999999999999999999999999997543211  125789999999863

>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=8.3e-78  Score=648.90  Aligned_cols=410  Identities=36%  Similarity=0.615  Sum_probs=356.4

Q ss_pred             CCCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccc
Q 041524           74 HSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVAT  153 (524)
Q Consensus        74 ~~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~  153 (524)
                      ++.++++|+||||+||++|||.|++.|.+.||+. ++++++||||+||||+|++.|+++++..++.++.+|+        
T Consensus        11 ~~~~~~~i~T~GC~~N~~dse~~~~~L~~~G~~~-~~~~e~ADvvviNTCtv~~~A~~k~~~~i~~~~~~k~--------   81 (502)
T PRK14326         11 RGARTYQVRTYGCQMNVHDSERLAGLLEAAGYVR-AAEGQDADVVVFNTCAVRENADNRLYGNLGHLAPVKR--------   81 (502)
T ss_pred             CCCCEEEEEecCCCCcHHHHHHHHHHHHHCCCEE-CCCcCCCCEEEEECCCeeehHHHHHHHHHHHHHHHHH--------
Confidence            4446799999999999999999999999999997 7888999999999999999999999988888855553        


Q ss_pred             cccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCc-cccccccccccccCCCccccCC
Q 041524          154 GRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKG-INTLLSLEETYADISPVRISKN  232 (524)
Q Consensus       154 ~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~-~~~~~~~~~~~~~l~p~r~~~~  232 (524)
                          .+|+.+||||||||+.+++++++..|+||+|++++++..|++++..+..|... ......+ ..+....|.+. ..
T Consensus        82 ----~~p~~~VvvgGc~a~~~~ee~~~~~p~VD~Vvg~~~~~~i~~ll~~~~~~~~~~~~~~~~~-~~~p~~~p~~~-~~  155 (502)
T PRK14326         82 ----ANPGMQIAVGGCLAQKDRDTILKRAPWVDVVFGTHNIGSLPTLLERARHNKEAQVEIAESL-EQFPSTLPARR-ES  155 (502)
T ss_pred             ----hCCCCEEEEECcccccCHHHHHhhCCCCeEEECCCCHHHHHHHHHHHhhCCCccccccccc-ccccccccccc-CC
Confidence                35889999999999999999998789999999999999999999988655432 1111111 11222223221 23


Q ss_pred             CeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      .+.+||+||||||++|+||++|..+|++|+||+++|++||+.+.++|+++|+|+|+|++.|            |.++   
T Consensus       156 ~~~a~v~isrGCp~~CsFC~ip~~rG~~rsr~~e~Vv~Ei~~l~~~g~~ei~l~d~n~~~y------------G~d~---  220 (502)
T PRK14326        156 AYAAWVSISVGCNNTCTFCIVPSLRGKEKDRRPGDILAEVQALVDEGVLEVTLLGQNVNAY------------GVSF---  220 (502)
T ss_pred             CceEEEEEccCCCCCCccCceeccCCCcccCCHHHHHHHHHHHHHCCCceEEEEeeccccc------------ccCC---
Confidence            4578999999999999999999999999999999999999999999999999999999999            4331   


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCC
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYT  392 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t  392 (524)
                                .....|.+|++.+..+.+..|++|++++|..+++++|++|++++++|.++++|+||+|+++|+.|+|+++
T Consensus       221 ----------~~~~~l~~Ll~~l~~i~~l~~ir~~~~~p~~~~~ell~~m~~~g~~~~~l~lglQSgsd~iLk~m~R~~t  290 (502)
T PRK14326        221 ----------GDRGAFSKLLRACGEIDGLERVRFTSPHPAEFTDDVIEAMAETPNVCPQLHMPLQSGSDRVLRAMRRSYR  290 (502)
T ss_pred             ----------CCHHHHHHHHHHHHhcCCccEEEEeccChhhCCHHHHHHHHhcCCcCCcEEeccCCCCHHHHHhcCCCCC
Confidence                      0123688899988776555689999999999999999999999666999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHH
Q 041524          393 REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRR  472 (524)
Q Consensus       393 ~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~R  472 (524)
                      .+++.++++.+++.+|++.+.+|||+||||||++||++|++|+.+++++.+++|.|+|+|||+++. +.+++|.+++++|
T Consensus       291 ~~~~~~~v~~lr~~~~~i~i~~~~IvGfPgET~edf~~Tl~~i~~~~~~~~~~f~~sp~pGT~~~~-~~~~v~~~v~~~R  369 (502)
T PRK14326        291 SERFLGILEKVRAAMPDAAITTDIIVGFPGETEEDFQATLDVVREARFSSAFTFQYSKRPGTPAAE-MEGQLPKAVVQER  369 (502)
T ss_pred             HHHHHHHHHHHHHhCCCCeEEEEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeecCCCCChHHh-CcCCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999995 7889999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcccCCEEEEEEec-cCCCCC-CCeEEEeCCCCcEEEC
Q 041524          473 LTELIEAFRESTGQCYDSQVGTVQLVLVEG-PNKKAP-DTELVGKSDRGHRVAF  524 (524)
Q Consensus       473 l~~l~~~~~~~~~~~~~~~vG~~~~vLve~-~~~~~~-~~~~~Gr~~~~~~v~~  524 (524)
                      +++|.++..++..+.++.++|+++.||||. .++... ...+.||+++|.+|+|
T Consensus       370 ~~~l~~~~~~~~~~~~~~~vg~~~~vLve~~~~~~~~~~~~~~g~~~~~~~V~~  423 (502)
T PRK14326        370 YERLVALQERISLEENRKLVGRTVELLVATGEGRKDAATHRMSGRARDGRLVHF  423 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCEEEEEEEecccccCCcCceeEEECCCCCEEEE
Confidence            999999999999999999999999999994 322110 1268899999999875

>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=5e-78  Score=643.41  Aligned_cols=403  Identities=38%  Similarity=0.650  Sum_probs=355.2

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccc
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS  156 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~  156 (524)
                      +++||+||||+||++|||.|++.|.+.||+. ++++++||+|+||||+|++.|++++++.|.+++.+|+           
T Consensus         1 ~~~~i~t~GC~~N~~ds~~~~~~l~~~G~~~-~~~~~~aDviiiNTC~v~~~a~~k~~~~i~~~~~~k~-----------   68 (437)
T PRK14331          1 MKYYIKTFGCQMNFNDSEKIKGILQTLGYEP-ADDWEEADLILVNTCTIREKPDQKVLSHLGEYKKIKE-----------   68 (437)
T ss_pred             CEEEEEecCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEeCcceecHHHHHHHHHHHHHHHHHH-----------
Confidence            3799999999999999999999999999987 7888999999999999999999999999977755543           


Q ss_pred             ccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCcccccccc---ccccccCCCccccCCC
Q 041524          157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSL---EETYADISPVRISKNS  233 (524)
Q Consensus       157 ~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~---~~~~~~l~p~r~~~~~  233 (524)
                       .+|+.+|+||||||+..|+++++..|.||+|++++++..++++++.+..|......+.+.   ...++.++..+  ...
T Consensus        69 -~~p~~~ivv~Gc~a~~~~e~~~~~~p~vD~vv~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~ld~~p~~~--~~~  145 (437)
T PRK14331         69 -KNPNALIGVCGCLAQRAGYEIVQKAPFIDIVFGTFNIHHLPELLEQAKAGNKAIEILEEIDEDENKLDEYPTVR--DNK  145 (437)
T ss_pred             -hCCCCEEEEEcchhcCChHHHHhcCCCCcEEECCCCHHHHHHHHHHHhcCCCceeeeccccccccccccccccc--CCC
Confidence             358899999999999999999888899999999999999999999876553322211111   11112222111  335


Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      ..+||+++||||++|+||++|..+|++|+||+++|++|++.+.+.|+++|+|+|+|++.|            |.++    
T Consensus       146 ~~a~v~i~rGC~~~CsFC~~p~~~g~~rsr~~e~V~~Ei~~l~~~g~~eI~l~d~~~~~y------------~~~~----  209 (437)
T PRK14331        146 YCAYVTVMRGCDKKCTYCVVPKTRGKERSRRLGSILDEVQWLVDDGVKEIHLIGQNVTAY------------GKDI----  209 (437)
T ss_pred             cEEEEEeccCcCCCCccCCcccCCCCcccCCHHHHHHHHHHHHHCCCeEEEEeeeccccc------------cCCC----
Confidence            689999999999999999999999999999999999999999999999999999999998            3321    


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR  393 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~  393 (524)
                                ....+.+|++++.+..+..+++|++.+|..++++++++|+++++||+++|+|+||||+++|+.|+|+++.
T Consensus       210 ----------~~~~~~~Ll~~l~~~~g~~~i~~~~~~p~~l~~ell~~~~~~~~~~~~l~igiqSgsd~vLk~m~R~~t~  279 (437)
T PRK14331        210 ----------GDVPFSELLYAVAEIDGVERIRFTTGHPRDLDEDIIKAMADIPQVCEHLHLPFQAGSDRILKLMDRGYTK  279 (437)
T ss_pred             ----------CCCCHHHHHHHHhcCCCccEEEEeccCcccCCHHHHHHHHcCCccCCceecccccCChHHHHHcCCCCCH
Confidence                      0135889999988876556899998999999999999999987789999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHH
Q 041524          394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRL  473 (524)
Q Consensus       394 e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl  473 (524)
                      +++.++++.+++++||+.+.+|||+||||||+||+++|++|+.+++++.+++|.|+|+|||+++. +.+++|.+++.+|+
T Consensus       280 ~~~~~~v~~lr~~~~gi~i~~d~IvG~PgET~ed~~~tl~~l~~l~~~~i~~f~~sp~pGT~~~~-~~~~~~~~~~~~r~  358 (437)
T PRK14331        280 EEYLEKIELLKEYIPDITFSTDIIVGFPTETEEDFEETLDVLKKVEFEQVFSFKYSPRPGTPAAY-MEGQEPDEVKTKRM  358 (437)
T ss_pred             HHHHHHHHHHHHhCCCCEEecCEEEECCCCCHHHHHHHHHHHHhcCcceeeeeEecCCCCcchhh-CCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999996 77899999999999


Q ss_pred             HHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          474 TELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       474 ~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      ++|.++.+++..+++++++|+++.||||+.++.   +.++||+++|.+|+|
T Consensus       359 ~~l~~~~~~~~~~~~~~~~g~~~~vlve~~~~~---~~~~g~t~~~~~v~~  406 (437)
T PRK14331        359 NRLLELQKEITFKKALSYEGTVQEVLVEEEKEG---NKLIGRTRTNKWVSI  406 (437)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCEEEEEEEEecCC---CcEEEECCCCCEEEE
Confidence            999999999999999999999999999975321   378899999999975

>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=1.1e-77  Score=642.29  Aligned_cols=412  Identities=35%  Similarity=0.596  Sum_probs=358.2

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccc
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS  156 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~  156 (524)
                      +++||+||||+||++|||.|.+.|.+.||+. ++++++||+|+||||+|++.|+++++++|+++..+|            
T Consensus         7 ~~~~i~t~GC~~N~~ds~~~~~~l~~~G~~~-~~~~~~ADiiiiNTC~v~~~a~~~~~~~i~~~~~~k------------   73 (448)
T PRK14333          7 RSYWITTFGCQMNKADSERMAGILEDMGYQW-AEDELQADLVLYNTCTIRDNAEQKVYSYLGRQAKRK------------   73 (448)
T ss_pred             cEEEEEEcCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEEeeeeeehHHHHHHHHHHHHHHHH------------
Confidence            4799999999999999999999999999997 888899999999999999999999999998873332            


Q ss_pred             ccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccCCCeEE
Q 041524          157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTA  236 (524)
Q Consensus       157 ~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~a  236 (524)
                      +.+|+.+|+||||||+..|+++++..|.||+|++++++..|+++++.+..|......  +....+.+++.++. .....+
T Consensus        74 ~~~p~~~vvv~Gc~a~~~~~~~~~~~p~vD~v~g~~~~~~~~~ll~~~~~~~~~~~~--~~~~~~~~l~~~~~-~~~~~a  150 (448)
T PRK14333         74 HKNPDLTLVVAGCVAQQEGESLLRRVPELDLVMGPQHANRLEDLLEQVDAGNQVVAT--EEIHILEDITKPRR-DSSITA  150 (448)
T ss_pred             hcCCCCEEEEECccCccCHHHHHhcCCCCCEEECCCCHHHHHHHHHHHhcCCceeec--cccccccccccccc-CCCeeE
Confidence            345899999999999999999998789999999999999999999987655421110  11112233332221 233579


Q ss_pred             EEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      ||.++||||++|+||++|..+|+.|++|+++|++||+.+.+.|+++|+|+|+|++.|            |.++  . |..
T Consensus       151 ~i~i~~GC~~~CsFC~ip~~rG~~rsr~~e~V~~Ei~~l~~~g~kei~l~~~~~~~y------------g~d~--~-~~~  215 (448)
T PRK14333        151 WVNVIYGCNERCTYCVVPSVRGKEQSRTPEAIRAEIEELAAQGYKEITLLGQNIDAY------------GRDL--P-GTT  215 (448)
T ss_pred             EEEhhcCCCCCCCCCceecccCCCcccCHHHHHHHHHHHHHCCCcEEEEEecccchh------------cCCC--C-Ccc
Confidence            999999999999999999999999999999999999999999999999999999998            3221  0 110


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~  396 (524)
                      .   .+.....|.+||+.+.+..+..++++.+.||..++++++++|+++++||.++|||+||+|+++|+.|+|+++.+++
T Consensus       216 p---~~~~~~~l~~Ll~~i~~~~~~~rir~~~~~p~~~~~eli~~~~~~~~~~~~l~igiQSgsd~vLk~m~R~~t~e~~  292 (448)
T PRK14333        216 P---EGRHQHTLTDLLYYIHDVEGIERIRFATSHPRYFTERLIKACAELPKVCEHFHIPFQSGDNEILKAMARGYTHEKY  292 (448)
T ss_pred             c---cccccccHHHHHHHHHhcCCCeEEEECCCChhhhhHHHHHHHhcCCcccccccCCCccCCHHHHHhcCCCCCHHHH
Confidence            0   0011236999999998876667899988999999999999999987799999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHH
Q 041524          397 LDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTEL  476 (524)
Q Consensus       397 ~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l  476 (524)
                      .++++.+++++|++.+.+|||+||||||+|+|++|++|+++++++.+++|.|+|+|||+++. +.+++|.+++++|+++|
T Consensus       293 ~~~i~~lr~~~p~i~i~~d~IvGfPgET~edf~~tl~~l~~~~~~~~~~~~~sp~pGT~~~~-~~~~v~~~~~~~R~~~l  371 (448)
T PRK14333        293 RRIIDKIREYMPDASISADAIVGFPGETEAQFENTLKLVEEIGFDQLNTAAYSPRPGTPAAL-WDNQLSEEVKSDRLQRL  371 (448)
T ss_pred             HHHHHHHHHhCCCcEEEeeEEEECCCCCHHHHHHHHHHHHHcCCCEEeeeeeecCCCCchhh-CCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999996 78899999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          477 IEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       477 ~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      .++++++..+++++++|+++.||||+.++.+++ .+.||+++|.+|+|
T Consensus       372 ~~~~~~~~~~~~~~~~G~~~~vlve~~~~~~~~-~~~g~t~~~~~v~~  418 (448)
T PRK14333        372 NHLVEQKAAERSQRYLGRIEEVLVEGINPKDPS-QVMGRTRTNRLTFF  418 (448)
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEEecccCCCc-eEEEECCCCcEEEE
Confidence            999999999999999999999999976543333 78899999999975

>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=2.7e-77  Score=639.49  Aligned_cols=407  Identities=39%  Similarity=0.684  Sum_probs=356.4

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccc
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS  156 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~  156 (524)
                      +|++|+||||+||++|||.|.+.|.+.||+. ++++++||+|+||||+|+..|+.++++.|++++.+|+           
T Consensus         4 ~~~~i~t~GC~~N~~ds~~~~~~l~~~g~~~-~~~~~~aDvviinTC~v~~~a~~~~~~~i~~~~~~k~-----------   71 (444)
T PRK14325          4 KKLYIKTYGCQMNEYDSSKMADLLGAEGYEL-TDDPEEADLILLNTCSIREKAQEKVFSELGRWRKLKE-----------   71 (444)
T ss_pred             cEEEEEEcCCCCcHHHHHHHHHHHHHCcCEE-CCCcCCCCEEEEEcceeeehHHHHHHHHHHHHHHHHH-----------
Confidence            4699999999999999999999999999997 7888999999999999999999999999988755553           


Q ss_pred             ccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHh-cCCCccccccccccccccCCCccccCCCeE
Q 041524          157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVD-YGQKGINTLLSLEETYADISPVRISKNSVT  235 (524)
Q Consensus       157 ~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~-~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~  235 (524)
                       .+|+.+||+|||||+..|+++++..|.||+|++++++..|++|++.+. .|.............+..+++++  .....
T Consensus        72 -~~p~~~vvvgGc~as~~~ee~~~~~~~vD~vv~~e~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~d~~p~~~--~~~~~  148 (444)
T PRK14325         72 -KNPDLIIGVGGCVAQQEGEEILKRAPYVDIVFGPQTLHRLPEMIARARRGGKPVVDISFPEIEKFDHLPEPR--AEGPS  148 (444)
T ss_pred             -hCCCCEEEEECchhccCHHHHHhhCCCCcEEECCCCHHHHHHHHHHHHhcCCceeeeccccccccccccccc--CCCce
Confidence             358899999999999999999987899999999999999999999874 44322211111112233343332  14567


Q ss_pred             EEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF  315 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~  315 (524)
                      +|++++||||++|+||++|..+|+.|+||+++|++|++.+.++|+++|+|+|+|++.|+.           .++      
T Consensus       149 ~~i~isrGCp~~CsFC~~p~~~G~~~sr~~e~Iv~Ei~~l~~~g~~ei~l~d~~~~~y~~-----------~~~------  211 (444)
T PRK14325        149 AFVSIMEGCDKYCTFCVVPYTRGEEVSRPVDDVLAEVAQLAEQGVREITLLGQNVNAYRG-----------EGP------  211 (444)
T ss_pred             EEEEhhhCCCCCCCccccCcccCCcccCCHHHHHHHHHHHHHCCCcEEEEEeeccccccC-----------CCC------
Confidence            999999999999999999999999999999999999999999999999999999999831           100      


Q ss_pred             ccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHH
Q 041524          316 NSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREA  395 (524)
Q Consensus       316 ~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~  395 (524)
                            ..+...+.+|++++.+..+..+++|.+.+|..++++++++|+++++||.++++|+||+|+++|+.|+|+++.++
T Consensus       212 ------~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~~~~ell~~l~~~~~~~~~l~igiqSgs~~vLk~m~R~~~~~~  285 (444)
T PRK14325        212 ------DGEIADFAELLRLVAAIDGIERIRYTTSHPRDFTDDLIEAYADLPKLVPFLHLPVQSGSDRILKAMNRGHTALE  285 (444)
T ss_pred             ------CCCcchHHHHHHHHHhcCCccEEEEccCCcccCCHHHHHHHHcCCcccCceeccCCcCCHHHHHhCCCCCCHHH
Confidence                  00124689999998876555689998889999999999999998678999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHH
Q 041524          396 YLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTE  475 (524)
Q Consensus       396 ~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~  475 (524)
                      +.++++.++++.||+.+.+|||+||||||++++++|++|+.+++++.+++|.|+|+|||+++. +++++|.+++++|+++
T Consensus       286 ~~~~i~~lr~~~~gi~v~~~~IvG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~-~~~~v~~~~~~~r~~~  364 (444)
T PRK14325        286 YKSIIRKLRAARPDIAISSDFIVGFPGETDEDFEATMKLIEDVGFDQSFSFIYSPRPGTPAAD-LPDDVPEEVKKERLQR  364 (444)
T ss_pred             HHHHHHHHHHHCCCCEEEeeEEEECCCCCHHHHHHHHHHHHhcCCCeeeeeeccCCCCCchhh-CCCCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999996 7889999999999999


Q ss_pred             HHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          476 LIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       476 l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      |.++++++..++++.++|+++.||||+.++.+  +.++||+++|.+|+|
T Consensus       365 l~~~~~~~~~~~~~~~~g~~~~vlve~~~~~~--~~~~g~t~~~~~v~~  411 (444)
T PRK14325        365 LQALINQQQMAFSRSMVGTVQRVLVEGPSRKD--GQLIGRTENNRVVNF  411 (444)
T ss_pred             HHHHHHHHHHHHHHHhcCCEEEEEEEEeecCC--CeEEEECCCCcEEEE
Confidence            99999999999999999999999999765322  368899999999875

>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=1.7e-76  Score=631.29  Aligned_cols=402  Identities=38%  Similarity=0.625  Sum_probs=350.6

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccc
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS  156 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~  156 (524)
                      ++++|+||||+||++|||.|.+.|.+.||+. ++++++||+|+||||+|+..|++++++.++++..+++           
T Consensus         1 ~~~~i~t~GC~~N~~ds~~~~~~l~~~g~~~-~~~~~~aDlvvinTC~v~~~a~~~~~~~i~~~~~~~r-----------   68 (434)
T PRK14330          1 MKFYIKTFGCQMNENDSETMAGLLKKEGFEP-ASNPEEADVVIINTCAVRRKSEEKAYSELGQLLKLKR-----------   68 (434)
T ss_pred             CeEEEEEcCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEEccceeehHHHHHHHHHHHHHHhcc-----------
Confidence            3699999999999999999999999999997 7888899999999999999999999999998744332           


Q ss_pred             ccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccCCCeEE
Q 041524          157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTA  236 (524)
Q Consensus       157 ~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~a  236 (524)
                        .++.+||||||||+..|+++++.  .+|+|++++++..|+++++.+..|..... ............|.. .....++
T Consensus        69 --~~~~~vvv~Gc~a~~~~ee~~~~--~~d~vvg~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~  142 (434)
T PRK14330         69 --KKNLIIGVAGCVAEKEREKLLKR--GADFVIGTRAVPKVTEAVKRALNGEKVAL-FEDKLDEITYELPRI-RSSKHHA  142 (434)
T ss_pred             --cCCCEEEEECccccCchhhHHhc--CCcEEEcCCCHHHHHHHHHHHhcCCceEe-ecccccccccccccc-cCCCcEE
Confidence              25789999999999999999874  79999999999999999998876643211 000000001111211 1235689


Q ss_pred             EEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      ||+++||||++|+||++|+.+|++|+||+++|++||+.+.+.|+++|+|+|+|++.|            |.++.      
T Consensus       143 ~v~i~rGC~~~CsFC~ip~~~G~~rsr~~e~Iv~Ei~~l~~~g~kei~l~~~n~~~y------------g~~~~------  204 (434)
T PRK14330        143 WVTIIYGCNRFCTYCIVPYTRGREKSRPMEDILEEVEKLAKQGYREVTFLGQNVDAY------------GKDLK------  204 (434)
T ss_pred             EEEcccCCCCCCCCCceECcCCCCccCCHHHHHHHHHHHHHCCCcEEEEEEeccccc------------ccCCC------
Confidence            999999999999999999999999999999999999999999999999999999998            43210      


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~  396 (524)
                             ....+.+||+.+....+..++++.+.+|..++++++++|++++.+|+++|||+||+|+++|+.|+|+++.+++
T Consensus       205 -------~~~~l~~Ll~~~~~~~~~~~~~~~~~~p~~~~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~~~~~~  277 (434)
T PRK14330        205 -------DGSSLAKLLEEASKIEGIERIWFLTSYPTDFSDELIEVIANSPKVAKSIHLPVQSGSNRILKLMNRRYTREEY  277 (434)
T ss_pred             -------CCccHHHHHHHHHhcCCceEEEEecCChhhcCHHHHHHHhcCCcccCceecCcCCCCHHHHHhcCCCCCHHHH
Confidence                   1235888998887766666777888899999999999999985569999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHH
Q 041524          397 LDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTEL  476 (524)
Q Consensus       397 ~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l  476 (524)
                      .++++.+++.+|++.+.+|||+||||||+++|++|++|+.+++++++++|.|+|+|||+++.++++++|.+++++|+++|
T Consensus       278 ~~~i~~lr~~~~~i~i~~d~IvGfPgET~edf~~tl~fi~~~~~~~~~~~~~sp~pGT~~~~~~~~~v~~~~~~~r~~~l  357 (434)
T PRK14330        278 LELIEKIRSKVPDASISSDIIVGFPTETEEDFMETVDLVEKAQFERLNLAIYSPREGTVAWKYYKDDVPYEEKVRRMQYL  357 (434)
T ss_pred             HHHHHHHHHhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeeeccCCCCChhhhhCccCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998788999999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          477 IEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       477 ~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      .++.+++..++++.++|+++.||||+.++.   +.+.||+++|.+|+|
T Consensus       358 ~~~~~~~~~~~~~~~~G~~~~vlve~~~~~---~~~~g~t~~~~~v~~  402 (434)
T PRK14330        358 LNLQKRINRKLNERYLGKTVEIIVEAKAKN---GLFYGRDIRNKIIAF  402 (434)
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEEEccCC---CeEEEECCCCEEEEE
Confidence            999999999999999999999999976432   378899999999975

>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=1e-75  Score=625.89  Aligned_cols=407  Identities=42%  Similarity=0.695  Sum_probs=353.9

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccc
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGR  155 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~  155 (524)
                      +++++|+||||+||++|||.|++.|.+.||+. ++++++||+|+||||+|++.|+++++++|+.++.+|+          
T Consensus         1 ~~~~~~~t~GC~~N~~ds~~~~~~l~~~G~~~-~~~~~~ADv~iiNTC~v~~~a~~k~~~~i~~~~~~~~----------   69 (439)
T PRK14328          1 NKKYFIETYGCQMNEEDSEKLAGMLKSMGYER-TENREEADIIIFNTCCVRENAENKVFGNLGELKKLKE----------   69 (439)
T ss_pred             CcEEEEEEeCCCCCHHHHHHHHHHHHHCcCEE-CCCcCcCCEEEEecccEechHHHHHHHHHHHHHHHHh----------
Confidence            35699999999999999999999999999997 8888999999999999999999999988888755542          


Q ss_pred             cccCCCCEEEEEcccccc--cHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccc-cccccccCCCccccCC
Q 041524          156 SQSKHPPKIVVLGCMAER--LKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLS-LEETYADISPVRISKN  232 (524)
Q Consensus       156 ~~~~p~~~IvvgG~~at~--~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~-~~~~~~~l~p~r~~~~  232 (524)
                        .+|+.+|||+||||+.  .+++++++.|.||+|++++++..+++++..+..+......... ....+.+++..+  ..
T Consensus        70 --~~~~~~vvv~GC~a~~~~~~~~~~~~~~~vd~v~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~  145 (439)
T PRK14328         70 --KNPNLIIGVCGCMMQQKGMAEKIKKKFPFVDIIFGTHNIHKFPEYLNRVKEEGKSVIEIWEKEDGIVEGLPIDR--KS  145 (439)
T ss_pred             --hCCCCEEEEECchhcccccHHHHHhhCCCceEEECCCCHHHHHHHHHHHhcCCCceeeeccccccccccccccc--CC
Confidence              3578899999999999  7799987789999999999999999999887543221111111 011112222222  24


Q ss_pred             CeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      ...+||+++||||++|+||++|..+|++|++|+++|++|++.+.+.|+++|+|+|+|++.|            |.++.  
T Consensus       146 ~~~~~i~i~rGC~~~CsfC~~p~~~g~~Rsr~~e~Iv~Ei~~l~~~G~~ei~l~~~~~~~y------------g~d~~--  211 (439)
T PRK14328        146 KVKAFVTIMYGCNNFCTYCIVPYVRGRERSRKPEDIIAEIKELVSEGYKEVTLLGQNVNSY------------GKDLE--  211 (439)
T ss_pred             CcEEEEEHHhCcCCCCCCCCcccccCCcccCCHHHHHHHHHHHHHCCCcEEEEeccccCcC------------CcCCC--
Confidence            5679999999999999999999999999999999999999999999999999999999998            43220  


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCC
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYT  392 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t  392 (524)
                                 ....+.+|++.+.+..+..++++.+.+|..++++++++|+++++||.++++|+||+|+++|+.|+|+++
T Consensus       212 -----------~~~~l~~Ll~~l~~~~~~~~ir~~~~~P~~i~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~~  280 (439)
T PRK14328        212 -----------EKIDFADLLRRVNEIDGLERIRFMTSHPKDLSDDLIEAIADCDKVCEHIHLPVQSGSNRILKKMNRHYT  280 (439)
T ss_pred             -----------CCcCHHHHHHHHHhcCCCcEEEEecCChhhcCHHHHHHHHhCCCcCceeeeCCCcCCHHHHHhCCCCCC
Confidence                       123588999988876556689998899999999999999998667999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHH
Q 041524          393 REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRR  472 (524)
Q Consensus       393 ~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~R  472 (524)
                      .+++.++++.+++.+|++.+.+|||+||||||++|+++|++++.+++++.+++|.|+|+|||+++. +.+++|.+++.+|
T Consensus       281 ~~~~~~~i~~lr~~~~~i~i~~d~IvG~PgET~ed~~~tl~~i~~l~~~~~~~~~~sp~pGT~~~~-~~~~v~~~~~~~r  359 (439)
T PRK14328        281 REYYLELVEKIKSNIPDVAITTDIIVGFPGETEEDFEETLDLVKEVRYDSAFTFIYSKRKGTPAAK-MEDQVPEDVKHER  359 (439)
T ss_pred             HHHHHHHHHHHHHhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCcccceEecCCCCChhhh-CCCCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999996 7889999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          473 LTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       473 l~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      .+.|.++++++..++++.++|+++.||||+.++..+ +.+.||+++|.+|++
T Consensus       360 ~~~l~~~~~~~~~~~~~~~~g~~~~vl~e~~~~~~~-~~~~g~~~~~~~v~~  410 (439)
T PRK14328        360 FNRLVELQNKISLEKNKEYEGKIVEVLVEGPSKNDE-NKLTGRTRTNKLVNF  410 (439)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCEEEEEEEecccCCC-ceEEEECCCCeEEEE
Confidence            999999999999999999999999999997644322 268899999999864

>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=1.8e-75  Score=619.39  Aligned_cols=384  Identities=38%  Similarity=0.633  Sum_probs=343.3

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccc
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS  156 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~  156 (524)
                      +++||+||||+||++|+|.|.+.|.+.||+. ++++++||+|+||||+|++.|+.+++++++.++.+++           
T Consensus         2 ~~~~i~t~GC~~N~~dse~~~~~l~~~G~~~-~~~~~~AD~viiNTC~v~~~a~~~~~~~i~~~~~~~~-----------   69 (418)
T PRK14336          2 PGYYLWTIGCQMNQAESERLGRLFELWGYSL-ADKAEDAELVLVNSCVVREHAENKVINRLHLLRKLKN-----------   69 (418)
T ss_pred             CeEEEEecCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEecccEecHHHHHHHHHHHHHHHHHh-----------
Confidence            3699999999999999999999999999997 7888999999999999999999999998888754442           


Q ss_pred             ccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccCCCeEE
Q 041524          157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTA  236 (524)
Q Consensus       157 ~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~a  236 (524)
                       .+|+.+|||+||+|+..++++.+..|.||+|++++.   ++++++.+..       .         ..|.   .....+
T Consensus        70 -~~~~~~ivv~GC~~~~~~~~l~~~~p~vd~v~g~~~---~~~~~~~~~~-------~---------~~~~---~~~~~a  126 (418)
T PRK14336         70 -KNPKLKIALTGCLVGQDISLIRKKFPFVDYIFGPGS---MPDWREIPEG-------F---------ILPL---KPPVSA  126 (418)
T ss_pred             -hCCCCEEEEECChhcCCHHHHHhhCCCCcEEECCCC---HHHHHHHHhh-------h---------ccCC---CCCeEE
Confidence             357889999999999999999888899999997754   5666554421       0         0111   134679


Q ss_pred             EEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      ||+++||||++|+||++|..+|++|+||+++|++|++.+.+.|+++|+|+|+|++.|            |.++.      
T Consensus       127 ~i~i~rGC~~~CsFC~ip~~rG~~rsrs~e~Iv~Ei~~l~~~G~~ei~l~~~~~~~y------------g~d~~------  188 (418)
T PRK14336        127 NVTIMQGCDNFCTYCVVPYRRGREKSRSIAEIGCEVAELVRRGSREVVLLGQNVDSY------------GHDLP------  188 (418)
T ss_pred             EEEeccCCCCCCccCCccccCCCCccCCHHHHHHHHHHHHHCCCeEEEEEecCcccc------------ccCCC------
Confidence            999999999999999999999999999999999999999999999999999999998            43310      


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~  396 (524)
                             ....+.+||+++.+..+..++|+.+.+|..++++++++|++.++||+++|+|+||+|+++|+.|+|+++.+++
T Consensus       189 -------~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~i~~ell~~l~~~~~~~~~l~lglQSgsd~vLk~M~R~~~~~~~  261 (418)
T PRK14336        189 -------EKPCLADLLSALHDIPGLLRIRFLTSHPKDISQKLIDAMAHLPKVCRSLSLPVQAGDDTILAAMRRGYTNQQY  261 (418)
T ss_pred             -------CcccHHHHHHHHHhcCCccEEEEeccChhhcCHHHHHHHHhcCccCCceecCCCcCCHHHHHHhCCCCCHHHH
Confidence                   1235899999998765566999998999999999999999987789999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHH
Q 041524          397 LDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTEL  476 (524)
Q Consensus       397 ~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l  476 (524)
                      .++++.+++.+||+.+.+|||+||||||++++++|++|+.+++++.+++|.|+|+|||+++++|+++||.+++++|+++|
T Consensus       262 ~~~i~~lr~~~pgi~i~~d~IvGfPGET~edf~~tl~fi~~~~~~~~~v~~ysp~pGT~a~~~~~~~v~~~~k~~R~~~l  341 (418)
T PRK14336        262 RELVERLKTAMPDISLQTDLIVGFPSETEEQFNQSYKLMADIGYDAIHVAAYSPRPQTVAARDMADDVPVIEKKRRLKLI  341 (418)
T ss_pred             HHHHHHHHhhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEeeecCCCCCChhHhhCccCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999997788999999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          477 IEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       477 ~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      .++.+++..++++.++|++..||||+.++    +.+.||+++|.+|+|
T Consensus       342 ~~~~~~~~~~~~~~~~G~~~~vlve~~~~----~~~~g~~~~~~~v~~  385 (418)
T PRK14336        342 EDLQKETVGKANAALMDTFAEVLVEGLQK----NKWQGRTLGGKLVFL  385 (418)
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEEEcCC----CeEEEECCCCeEEEE
Confidence            99999999999999999999999997432    267899999999875

>TIGR01574 miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB

Probab=100.00  E-value=5.8e-75  Score=619.96  Aligned_cols=409  Identities=40%  Similarity=0.685  Sum_probs=350.7

Q ss_pred             cEEEEecCCCCCHHHHHHHHHHHHHC-CCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccc
Q 041524           78 RIYQETYGCQMNVNDMEIVLSIMKNA-GYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRS  156 (524)
Q Consensus        78 ~~~~~t~GC~~N~~d~e~i~~~L~~~-Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~  156 (524)
                      +++|+||||+||++|||.|++.|.+. ||+. ++++++||+|+||||+|+..|++++++.|..++.+|+           
T Consensus         1 ~~~i~t~GC~~N~~dse~~~~~l~~~~G~~~-~~~~~~aDv~iiNTC~v~~~a~~k~~~~i~~~~~~k~-----------   68 (438)
T TIGR01574         1 KLFIQTYGCQMNVRDSEHMAALLTAKEGYAL-TEDAKEADVLLINTCSVREKAEHKVFGELGGFKKLKK-----------   68 (438)
T ss_pred             CeEEEeCCCCCcHHHHHHHHHHHHhcCCcEE-CCCcccCCEEEEeccCeechHHHHHHHHHHHHHHHHh-----------
Confidence            48999999999999999999999999 9987 7888999999999999999999999999977644442           


Q ss_pred             ccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccCCCeEE
Q 041524          157 QSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTA  236 (524)
Q Consensus       157 ~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~a  236 (524)
                       .+|+.+|||+||||+..++++++..|+||+|++++.+..+++++.....+......+......+.+..|........++
T Consensus        69 -~~~~~~ivv~GC~a~~~~~~~~~~~~~vd~v~g~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (438)
T TIGR01574        69 -KNPDLIIGVCGCMASHLGNEIFQRAPYVDFVFGTRNIHRLPQAIKTPLTQKFMVVDIDSDESEVAGYFADFRNEGIYKS  147 (438)
T ss_pred             -hCCCcEEEEeCccccccHHHHHhcCCCCcEEECCCCHHHHHHHHHHHhcCCCceeeeccccccccccccccccCCceeE
Confidence             3578899999999999999998777999999999999999988877644332111111110111111121112245689


Q ss_pred             EEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      ||+++||||++|+||++|..+|++|++|+++|++|++.+.+.|+++|+|+|+|++.|+           |.++       
T Consensus       148 ~v~i~rGC~~~CsfC~~~~~~G~~rsr~~e~I~~Ei~~l~~~g~~ei~l~~~~~~~y~-----------g~d~-------  209 (438)
T TIGR01574       148 FINIMIGCNKFCTYCIVPYTRGDEISRPFDDILQEVQKLAEKGVREITLLGQNVNAYR-----------GKDF-------  209 (438)
T ss_pred             EeehhcCCCCCCCCCCeeeecCCCcccCHHHHHHHHHHHHHcCCeEEEEEecccCCcc-----------CCCC-------
Confidence            9999999999999999999999999999999999999999999999999999999982           1111       


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~  396 (524)
                           ......|.+|++.+.+..+..|+++++.+|..++++++++|++++++|+++++|+||+|+++|+.|+|+++.+++
T Consensus       210 -----~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~l~~ell~~l~~~g~~~~~l~iglQSgsd~vLk~m~R~~t~~~~  284 (438)
T TIGR01574       210 -----EGKTMDFSDLLRELSTIDGIERIRFTSSHPLDFDDDLIEVFANNPKLCKSMHLPVQSGSSEILKLMKRGYTREWY  284 (438)
T ss_pred             -----CCCcccHHHHHHHHHhcCCceEEEEecCCcccCCHHHHHHHHhCCCccCceeeCCCcCCHHHHHhcCCCCCHHHH
Confidence                 001235889999998765667999999999999999999999984449999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHH
Q 041524          397 LDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTEL  476 (524)
Q Consensus       397 ~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l  476 (524)
                      .++++.+++++|++.+.+|||+||||||++++++|++|+.+++++.+++|.|+|+|||+++. +.+++|.+++++|+.+|
T Consensus       285 ~~~v~~ir~~~~~i~i~~d~IvG~PgEt~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~-~~~~v~~~~~~~r~~~l  363 (438)
T TIGR01574       285 LNLVRKLRAACPNVSISTDIIVGFPGETEEDFEETLDLLREVEFDSAFSFIYSPRPGTPAAD-MPDQIPEEIKKRRLQRL  363 (438)
T ss_pred             HHHHHHHHHhCCCCeEeeCEEEeCCCCCHHHHHHHHHHHHhcCCCeeeeEEecCCCCCchhh-CCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999996 78899999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          477 IEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       477 ~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      .++.+++..+++++++|+++.||||+.++..+. .+.||+++|.+|+|
T Consensus       364 ~~~~~~~~~~~~~~~~G~~~~vlve~~~~~~~~-~~~g~t~~~~~v~~  410 (438)
T TIGR01574       364 QARHNEILDKKMRKQEGKTFKVLVEGLSRNNPE-ELAGRTENNFLVNF  410 (438)
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEEeccCCCCc-eEEEECCCCCEEEE
Confidence            999999999999999999999999976433211 67899999999975

Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme.

>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme

Probab=100.00  E-value=9.5e-75  Score=615.11  Aligned_cols=396  Identities=33%  Similarity=0.520  Sum_probs=343.7

Q ss_pred             EEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccCC
Q 041524           81 QETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKH  160 (524)
Q Consensus        81 ~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~p  160 (524)
                      |+||||+||++|||.|++.|.+.||+. ++++++||+|+||||+++..|+.++++.++++   |            +..|
T Consensus         1 ~~t~GC~~N~~ds~~~~~~l~~~g~~~-~~~~~~aD~v~intctv~~~a~~~~~~~i~~~---k------------~~~p   64 (414)
T TIGR01579         1 IETLGCRVNQYESESLKNQLIQKGYEV-VPDEDKADVYIINTCTVTAKADSKARRAIRRA---R------------RQNP   64 (414)
T ss_pred             CEeeCCCCCHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEeccccchHHHHHHHHHHHHH---H------------hhCC
Confidence            589999999999999999999999997 78888999999999999999999999999877   1            2357


Q ss_pred             CCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccc--cCCCeEEEE
Q 041524          161 PPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRI--SKNSVTAFV  238 (524)
Q Consensus       161 ~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~--~~~~~~a~v  238 (524)
                      +.+||||||||+..|+++++ .|.||+|++|+++..|++|++....+.... ...........+++...  ......++|
T Consensus        65 ~~~vvvgGc~a~~~~ee~~~-~~~vD~vv~~e~~~~~~~ll~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~~~~~~~~i  142 (414)
T TIGR01579        65 TAKIIVTGCYAQSNPKELAD-LKDVDLVLGNKEKDKINKLLSLGLKTSFYR-VKNKNFSREKGVPEYEEVAFEGHTRAFI  142 (414)
T ss_pred             CcEEEEECCccccCHHHHhc-CCCCcEEECCCCHHHHHHHHHHHhcccCcc-ccccccccccccccccccccCCCeEEEE
Confidence            88999999999999999975 799999999999999999998764432110 01000000011111111  123567899


Q ss_pred             EEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccc
Q 041524          239 SVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSM  318 (524)
Q Consensus       239 ~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~  318 (524)
                      ++|||||++|+||++|..+|++|+||+++|++|++.+.++|+++|+|+|+|++.|            |.++.        
T Consensus       143 ~isrGCp~~CsfC~~~~~~g~~r~r~~e~I~~Ei~~l~~~g~~ei~l~~~~~~~y------------~~d~~--------  202 (414)
T TIGR01579       143 KVQDGCNFFCSYCIIPFARGRSRSVPMEAILKQVKILVAKGYKEIVLTGVNLGSY------------GDDLK--------  202 (414)
T ss_pred             EeccCcCCCCCCCceeeecCCCccCCHHHHHHHHHHHHHCCCceEEEeeEccchh------------ccCCC--------
Confidence            9999999999999999999999999999999999999999999999999999998            32210        


Q ss_pred             hhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHH
Q 041524          319 CKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLD  398 (524)
Q Consensus       319 ~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~  398 (524)
                           ...++.+|++++.+..+..++++.+.+|..++++++++|++++++|.++++|+||+|+++|+.|+|+++.+++.+
T Consensus       203 -----~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~~~~ell~~m~~~~~~~~~l~lglESgs~~vLk~m~R~~~~~~~~~  277 (414)
T TIGR01579       203 -----NGTSLAKLLEQILQIPGIKRIRLSSIDPEDIDEELLEAIASEKRLCPHLHLSLQSGSDRVLKRMRRKYTRDDFLK  277 (414)
T ss_pred             -----CCCcHHHHHHHHhcCCCCcEEEEeCCChhhCCHHHHHHHHhcCccCCCeEECCCcCChHHHHhcCCCCCHHHHHH
Confidence                 124588999999876556689999999999999999999987445999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHHHH
Q 041524          399 LVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIE  478 (524)
Q Consensus       399 ~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l~~  478 (524)
                      +++.+++..||+.+.++||+||||||+|++++|++|+.+++++.+++|+|+|+|||+++. +.+++|..++++|+++|.+
T Consensus       278 ~v~~l~~~~~gi~i~~~~IvG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~-~~~~v~~~~~~~r~~~l~~  356 (414)
T TIGR01579       278 LVNKLRSVRPDYAFGTDIIVGFPGESEEDFQETLRMVKEIEFSHLHIFPYSARPGTPAST-MKDKVPETIKKERVKRLKE  356 (414)
T ss_pred             HHHHHHHhCCCCeeeeeEEEECCCCCHHHHHHHHHHHHhCCCCEEEeeecCCCCCCchhh-CCCCCCHHHHHHHHHHHHH
Confidence            999999977799999999999999999999999999999999999999999999999996 7789999999999999999


Q ss_pred             HHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          479 AFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       479 ~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      +.+++..++++.++|+++.||||+.+   ++ .+.||+++|.+|+|
T Consensus       357 ~~~~~~~~~~~~~~g~~~~vlve~~~---~~-~~~g~~~~~~~v~~  398 (414)
T TIGR01579       357 LAEKNYQEFLKKNIGKELEVLVEKEK---AG-VLTGYSEYYLKVKV  398 (414)
T ss_pred             HHHHHHHHHHHHhcCCEEEEEEEeCC---CC-eeEEECCCCcEEEe
Confidence            99999999999999999999999743   22 68899999999975

This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.

>TIGR00089 RNA modification enzyme, MiaB family

Probab=100.00  E-value=2.6e-74  Score=614.47  Aligned_cols=400  Identities=44%  Similarity=0.733  Sum_probs=349.9

Q ss_pred             cEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccc
Q 041524           78 RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQ  157 (524)
Q Consensus        78 ~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~  157 (524)
                      +|+|+||||++|++|+|.|.+.|.+.||+. ++++++||+|+||||+|+..|++++++.+++++.               
T Consensus         1 ~~~~~t~GC~~N~~ds~~~~~~l~~~g~~~-~~~~~~aD~v~intC~v~~~a~~~~~~~i~~~~~---------------   64 (429)
T TIGR00089         1 KVYIETYGCQMNEADSEIMAGLLKEAGYEV-TDDPEEADVIIINTCAVREKAEQKVRSRLGELAK---------------   64 (429)
T ss_pred             CEEEEEcCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEecceeechHHHHHHHHHHHHHH---------------
Confidence            589999999999999999999999999987 7888999999999999999999999999988721               


Q ss_pred             cCCCC-EEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCcccccccc-ccccccCCCccccCCCeE
Q 041524          158 SKHPP-KIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSL-EETYADISPVRISKNSVT  235 (524)
Q Consensus       158 ~~p~~-~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~-~~~~~~l~p~r~~~~~~~  235 (524)
                      ..++. +||||||||+..|+++++..|++|+|++++.+..|+++++.+. ++...  +... ...+..++.++. .....
T Consensus        65 ~~~~~~~vvvgGc~a~~~~ee~~~~~~~vd~vvg~~~~~~~~~~l~~~~-~~~~~--~~~~~~~~~~~~p~~~~-~~~~~  140 (429)
T TIGR00089        65 LKKKNAKIVVAGCLAQREGEELLKRIPEVDIVLGPQNKERIPEAIESAE-QEKQV--VFNISKDVYEELPRPRS-FGKTR  140 (429)
T ss_pred             hCcCCCEEEEECcccccCHHHHHhhCCCCCEEECCCCHHHHHHHHHHHh-cCCce--eccccccchhccccccc-CCCeE
Confidence            12333 8999999999999998877899999999888899999998876 32211  1111 112233333332 24568


Q ss_pred             EEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF  315 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~  315 (524)
                      ++|+++||||++|+||++|..+|++|+||+++|++|++.+.+.|+++|+|+|+|++.|            |.++.     
T Consensus       141 ~~i~~srGC~~~CsfC~~~~~~g~~r~r~~e~Vv~Ei~~l~~~g~~ei~l~~~~~~~y------------g~d~~-----  203 (429)
T TIGR00089       141 AFLKIQEGCDKFCTYCIVPYARGRERSRPPEDILEEVKELVSKGVKEIVLLGQNVGAY------------GKDLK-----  203 (429)
T ss_pred             EEEEHHhCcCCCCCcCceecccCCCCCCCHHHHHHHHHHHHHCCCceEEEEeeccccc------------cCCCC-----
Confidence            9999999999999999999999999999999999999999999999999999999988            43321     


Q ss_pred             ccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHH
Q 041524          316 NSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREA  395 (524)
Q Consensus       316 ~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~  395 (524)
                              +...+.+||+++.+..+..|+++.+.+|..++++++++|+++++||.++++|+||+|+++|+.|+|+++.++
T Consensus       204 --------~~~~l~~Ll~~l~~~~g~~~i~~~~~~p~~i~~ell~~m~~~~~~~~~l~igiES~s~~vLk~m~R~~~~~~  275 (429)
T TIGR00089       204 --------GETNLADLLRELSKIDGIERIRFGSSHPDDVTDDLIELIAENPKVCKHLHLPVQSGSDRILKRMNRKYTREE  275 (429)
T ss_pred             --------CCcCHHHHHHHHhcCCCCCEEEECCCChhhcCHHHHHHHHhCCCccCceeeccccCChHHHHhCCCCCCHHH
Confidence                    113589999999876556789999899999999999999998667999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHH
Q 041524          396 YLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTE  475 (524)
Q Consensus       396 ~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~  475 (524)
                      +.++++.++++.|++.+.++||+||||||+|++++|++|+.+++++.+++|+|+|+|||++++ +.+++|.+++++|+++
T Consensus       276 ~~~~i~~lr~~~~~i~i~~~~IvG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pgT~~~~-~~~~v~~~~~~~r~~~  354 (429)
T TIGR00089       276 YLDIVEKIRAKIPDAAITTDIIVGFPGETEEDFEETLDLVEEVKFDKLHSFIYSPRPGTPAAD-MKDQVPEEVKKERLER  354 (429)
T ss_pred             HHHHHHHHHHHCCCCEEEeeEEEECCCCCHHHHHHHHHHHHhcCCCEeeccccCCCCCCchhh-CCCCCCHHHHHHHHHH
Confidence            999999999998889999999999999999999999999999999999999999999999996 7889999999999999


Q ss_pred             HHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          476 LIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       476 l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      |.++.+++..++++.++|++..||||+.+..++ +.++||+++|.+|+|
T Consensus       355 l~~~~~~~~~~~~~~~~G~~~~vlve~~~~~~~-~~~~g~~~~~~~v~~  402 (429)
T TIGR00089       355 LIALQKEISLEKNKKYVGKTLEVLVEGEEGKKE-GELTGRTENYKPVVF  402 (429)
T ss_pred             HHHHHHHHHHHHHHHhCCCEEEEEEEecccCCC-CeEEEECCCCeEEEE
Confidence            999999999999999999999999997543333 378899999999875

This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related.

>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125

Probab=100.00  E-value=5.3e-73  Score=604.10  Aligned_cols=394  Identities=29%  Similarity=0.511  Sum_probs=340.4

Q ss_pred             cEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccc
Q 041524           78 RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQ  157 (524)
Q Consensus        78 ~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~  157 (524)
                      ++||+||||+||++|||.|.+.|.+.||+. ++++++||||+||||+|+..|+.++++.++++   +             
T Consensus         1 ~~~i~t~GC~~N~~ds~~~~~~l~~~g~~~-~~~~~~aD~viinTC~v~~~a~~~~~~~i~~~---~-------------   63 (430)
T TIGR01125         1 KIGFISLGCPKNLVDSEVMLGILREAGYEV-TPNYEDADYVIVNTCGFIEDARQESIDTIGEL---A-------------   63 (430)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEeCCCccchHHHHHHHHHHHH---H-------------
Confidence            489999999999999999999999999997 78888999999999999999999999999887   1             


Q ss_pred             cCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccc-cCCCccccCCCeEE
Q 041524          158 SKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYA-DISPVRISKNSVTA  236 (524)
Q Consensus       158 ~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~-~l~p~r~~~~~~~a  236 (524)
                       ..+.+||||||||+..|+++++..++||+|++   +..+++|++.+..+..... .... ..+. ..+|........++
T Consensus        64 -~~~~~vvvgGc~a~~~pee~~~~~~~vd~v~g---~~~~~~l~~~~~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~  137 (430)
T TIGR01125        64 -DAGKKVIVTGCLVQRYKEELKEEIPEVHAITG---SGDVENILNAIESREPGDK-IPFK-SEIEMGEVPRILLTPRHYA  137 (430)
T ss_pred             -hcCCCEEEECCccccchHHHHhhCCCCcEEEC---CCCHHHHHHHHHHHhccCC-cccc-cccccccccccccCCCeEE
Confidence             12567999999999999999887899999883   4678999988766543211 0000 0000 01121112345779


Q ss_pred             EEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      +|+++||||++|+||++|..+|++|+||+++|++||+.+.+.|+++|+|+|+|++.|            |.++.      
T Consensus       138 ~i~~srGC~~~CsfC~~~~~~G~~r~r~~e~Vv~Ei~~l~~~g~k~i~~~~~d~~~~------------g~d~~------  199 (430)
T TIGR01125       138 YLKVAEGCNRRCAFCIIPSIRGKLRSRPIEEILKEAERLVDQGVKEIILIAQDTTAY------------GKDLY------  199 (430)
T ss_pred             EEEEccCCCCCCCcCCeecccCCceecCHHHHHHHHHHHHHCCCcEEEEEeECCCcc------------ccCCC------
Confidence            999999999999999999999999999999999999999999999999999999888            33210      


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~  396 (524)
                             +..++.+|++.+.+..+..|+++.+.+|..++++++++|++++.+|.++++|+||+|+++|+.|+|+++.+++
T Consensus       200 -------~~~~l~~Ll~~i~~~~~i~~~r~~~~~p~~~~~ell~~~~~~~~~~~~l~iglES~s~~vLk~m~k~~~~~~~  272 (430)
T TIGR01125       200 -------RESKLVDLLEELGKVGGIYWIRMHYLYPDELTDDVIDLMAEGPKVLPYLDIPLQHASDRILKLMRRPGSGEQQ  272 (430)
T ss_pred             -------CcccHHHHHHHHHhcCCccEEEEccCCcccCCHHHHHHHhhCCcccCceEeCCCCCCHHHHhhCCCCCCHHHH
Confidence                   1246899999998765455888888999999999999999986679999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHH
Q 041524          397 LDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTEL  476 (524)
Q Consensus       397 ~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l  476 (524)
                      .++++.++++.|++.+.++||+||||||+|++++|++|+.+++++.+++|.|+|+|||+++. +.++++.+++++|+++|
T Consensus       273 ~~~i~~l~~~~~~i~i~~~~I~G~PgET~e~~~~t~~fl~~~~~~~~~~~~~sp~pGT~~~~-~~~~i~~~~~~~r~~~l  351 (430)
T TIGR01125       273 LDFIERLREKCPDAVLRTTFIVGFPGETEEDFQELLDFVEEGQFDRLGAFTYSPEEGTDAFA-LPDQVPEEVKEERLERL  351 (430)
T ss_pred             HHHHHHHHHhCCCCeEeEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeeeccCCCCCcccc-CCCCCCHHHHHHHHHHH
Confidence            99999999998899999999999999999999999999999999999999999999999996 77899999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcE
Q 041524          477 IEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHR  521 (524)
Q Consensus       477 ~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~  521 (524)
                      .++.+++..+++++++|+++.||||+.++..+ +.+.||+++|.+
T Consensus       352 ~~~~~~~~~~~~~~~~g~~~~vl~e~~~~~~~-~~~~g~~~~~~~  395 (430)
T TIGR01125       352 MQLQQRISAKKNQEFVGKKIEVLIDGYEPETN-LLLIGRTYGQAP  395 (430)
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEEeccCCCC-CcEEEECccCCc
Confidence            99999999999999999999999998654322 267899999998

This clade spans alpha and gamma proteobacteria, cyano bacteria, deinococcus, porphyromonas, aquifex, helicobacter, campylobacter, thermotoga, chlamydia, streptococcus coelicolor and clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes.

>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=6.9e-73  Score=606.30  Aligned_cols=398  Identities=37%  Similarity=0.593  Sum_probs=349.3

Q ss_pred             cCCCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccc
Q 041524           73 VHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVA  152 (524)
Q Consensus        73 ~~~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~  152 (524)
                      .+..+++||+||||+||++|+|.|.+.|.+.||+. ++++++||+|+||||+|++.|+++++++|.+++.+|+       
T Consensus        17 ~~~~~~~~i~t~GC~~N~~dse~~~~~l~~~G~~~-~~~~~~AD~~iiNTC~v~~~a~~~~~~~i~~~~~~k~-------   88 (459)
T PRK14338         17 TPRERRYYVWTVGCQMNVSDSERLEAALQGVGYSP-AERPEDADFIVLNSCSVRASAEERILGKLGELQRLKR-------   88 (459)
T ss_pred             CCCCCEEEEEecCCCCCHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEeccceeeHHHHHHHHHHHHHHHHHh-------
Confidence            34456799999999999999999999999999997 7888999999999999999999999999888755543       


Q ss_pred             ccccccCCCCEEEEEcccccccHHHH-HhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccC
Q 041524          153 TGRSQSKHPPKIVVLGCMAERLKDKI-LDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISK  231 (524)
Q Consensus       153 ~~~~~~~p~~~IvvgG~~at~~~e~~-l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~  231 (524)
                           .+|+.+|||+||+|+..++++ .+..|.+|+|++++.+..+++++...      .   ...+.  ..++......
T Consensus        89 -----~~p~~~ivv~GC~a~~~~~~~~~~~~p~vd~v~g~~~~~~i~~~~~~~------~---~~~~~--~~~~~~~~~~  152 (459)
T PRK14338         89 -----QRPDTRIVLWGCMVGPNNQSIFAERLPMVDHFVSPSAVDEVVALAPNP------I---YQLDE--PALPVADWSH  152 (459)
T ss_pred             -----hCCCCEEEEeCCccccChhHhhHhcCCCCcEEECCccHHHHHHHHHhh------c---ccccc--ccccccccCC
Confidence                 358889999999999999998 56789999999999999998887531      0   01110  1111111112


Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ....+|++++||||++|+||++|..+|+.|++|+++|++|++.+.+.|+++|+|+|++++.|            |.++  
T Consensus       153 ~~~~~~i~I~rGC~~~CsfC~~p~~~G~~rsr~~e~Il~ei~~l~~~G~keI~l~g~~~~~y------------G~d~--  218 (459)
T PRK14338        153 PPVTVHVPIIYGCNMSCSYCVIPLRRGRERSRPLAEIVEEVRRIAARGAKEITLLGQIVDSY------------GHDL--  218 (459)
T ss_pred             CceEEEEEcccCCCCCCCcCCeeccCCCCccCCHHHHHHHHHHHHHCCCeEEEEeeecCCCc------------cccc--
Confidence            45689999999999999999999999999999999999999999999999999999999999            4332  


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                                 .....+.+|++.+.+..+..++++.+.+|..++++++++|++.++||.++++|+||+|+++|+.|+|++
T Consensus       219 -----------~~~~~l~~Ll~~l~~~~gi~~ir~~~~~p~~i~~ell~~l~~~~~~~~~v~lglQSgsd~vLk~m~R~~  287 (459)
T PRK14338        219 -----------PGRPDLADLLEAVHEIPGLERLRFLTSHPAWMTDRLIHAVARLPKCCPHINLPVQAGDDEVLKRMRRGY  287 (459)
T ss_pred             -----------CChHHHHHHHHHHHhcCCcceEEEEecChhhcCHHHHHHHhcccccccceecCcccCCHHHHHhccCCC
Confidence                       012458999999988655558888888999999999999999877899999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCC----CCHH
Q 041524          392 TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDD----VPEE  467 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~----v~~~  467 (524)
                      +.+++.++++.+++.+||+.+.+|||+||||||++|+++|++++.+++++.+++|.|+|+|||+++. |.++    +|.+
T Consensus       288 t~e~~~~~i~~lr~~~pgi~i~~d~IvG~PgET~ed~~~ti~~l~~l~~~~v~i~~ysp~pGT~~~~-~~~~~~~~v~~~  366 (459)
T PRK14338        288 TVARYRELIARIREAIPDVSLTTDIIVGHPGETEEQFQRTYDLLEEIRFDKVHIAAYSPRPGTLAAE-MEDDPALAVPPE  366 (459)
T ss_pred             CHHHHHHHHHHHHHhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHHcCCCEeEEEecCCCCCChhhh-CcCCccCCCCHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999996 7788    9999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          468 VKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       468 ~k~~Rl~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      ++++|.++|..+.+++..++++.++|++..||||+.++    +.+.||+++|.+|+|
T Consensus       367 ~~~~R~~~l~~~~~~~~~~~~~~~~G~~~~vlve~~~~----~~~~g~~~~~~~v~~  419 (459)
T PRK14338        367 EKQRRRRALEQLQEQIATERNARFLGQTVEVLVEGEAK----GKWRGRTRGNKLVFF  419 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCEEEEEEEEcCC----CeEEEECCCCeEEEE
Confidence            99999999999999999999999999999999997432    268899999999875

>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=7.9e-72  Score=595.88  Aligned_cols=397  Identities=40%  Similarity=0.633  Sum_probs=335.1

Q ss_pred             cEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccc
Q 041524           78 RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQ  157 (524)
Q Consensus        78 ~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~  157 (524)
                      ++||+||||+||++|||.|.+.|.+.||+. ++++++||+|+||||+|++.|++++++.|++++.++             
T Consensus         2 ~~~i~t~GC~~N~~ds~~~~~~l~~~G~~~-~~~~~~ADi~iiNTC~v~~~a~~~~~~~i~~~~~~~-------------   67 (440)
T PRK14334          2 KAHIITYGCQMNEYDTHLVESELVSLGAEI-VDSVDEADFVLVNTCAVRGKPVEKVRSLLGELRKEK-------------   67 (440)
T ss_pred             eEEEEecCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEeccceeehHHHHHHHHHHHHHhhC-------------
Confidence            699999999999999999999999999997 888899999999999999999999999998873222             


Q ss_pred             cCCCCEEEEEcccccccH-HHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccCCCeEE
Q 041524          158 SKHPPKIVVLGCMAERLK-DKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTA  236 (524)
Q Consensus       158 ~~p~~~IvvgG~~at~~~-e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~a  236 (524)
                      ..++.+|+|+||+|+..+ +.+.+ .+.+|+|++......+++++..   +..... ....+.....+++.  .....++
T Consensus        68 ~~~~~~v~v~GC~a~~~~~~~l~~-~~~vd~v~g~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~--~~~~~~~  140 (440)
T PRK14334         68 AQRPLVVGMMGCLAQLEEGQQMAR-KFGVDVLLGPGALTDIGKALEA---NERFWG-LQFKDELHDHIPPP--PQGKLSA  140 (440)
T ss_pred             cCCCcEEEEEcchhccCChhHHhc-CCCCCEEECCCCHHHHHHHHHh---hccccc-cccccccccccccc--cCCCeEE
Confidence            123567999999999986 45544 5789999866555555554432   221111 10001111112221  1346789


Q ss_pred             EEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      ||+++||||++|+||.+|..+|+.+++++++|++||+.+.+.|+++|+|+|+|++.|            |.+.       
T Consensus       141 ~l~isrGC~~~CsfC~~p~~~g~~~sr~~e~Iv~Ei~~l~~~G~keI~l~g~~~~~y------------G~d~-------  201 (440)
T PRK14334        141 HLTIMRGCNHHCTYCIVPTTRGPEVSRHPDLILRELELLKAAGVQEVTLLGQNVNSY------------GVDQ-------  201 (440)
T ss_pred             EEEeccCCCCCCcCCCcchhcCCCccCCHHHHHHHHHHHHHCCCeEEEEEecccccc------------ccCC-------
Confidence            999999999999999999999999999999999999999999999999999999998            3221       


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~  396 (524)
                            +....+.+|++.+.+. +..+++|.+.+|..++++++++|++.++||+++++|+||+|+++|+.|+|+++.+++
T Consensus       202 ------~~~~~~~~Ll~~l~~~-~i~~ir~~~~~p~~i~~ell~~l~~~~~g~~~l~igvQSgs~~vLk~m~R~~~~~~~  274 (440)
T PRK14334        202 ------PGFPSFAELLRLVGAS-GIPRVKFTTSHPMNFTDDVIAAMAETPAVCEYIHLPVQSGSDRVLRRMAREYRREKY  274 (440)
T ss_pred             ------CCcCCHHHHHHHHHhc-CCcEEEEccCCcccCCHHHHHHHHhcCcCCCeEEeccccCCHHHHHHhCCCCCHHHH
Confidence                  0113578888888664 445789988899999999999999976689999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHH
Q 041524          397 LDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTEL  476 (524)
Q Consensus       397 ~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l  476 (524)
                      .++++.++++.|++.+++|||+||||||++++++|++|+.+++++.+++|.|+|+|||+++. +.+++|.+++++|+++|
T Consensus       275 ~~~v~~lr~~~~~i~i~~d~IvG~PgEt~ed~~~tl~~i~~l~~~~i~~f~ysp~pGT~~~~-~~~~v~~~~~~~r~~~l  353 (440)
T PRK14334        275 LERIAEIREALPDVVLSTDIIVGFPGETEEDFQETLSLYDEVGYDSAYMFIYSPRPGTPSYK-HFQDLPREVKTERLQRL  353 (440)
T ss_pred             HHHHHHHHHhCCCcEEEEeEEEECCCCCHHHHHHHHHHHHhcCCCEeeeeEeeCCCCChhHh-ccCCCCHHHHHHHHHHH
Confidence            99999999998888999999999999999999999999999999999999999999999997 56799999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          477 IEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       477 ~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      .++.+++..+++++++|+++.||||+.+++.  +.+.||+++|.+|+|
T Consensus       354 ~~~~~~~~~~~~~~~~G~~~~vlve~~~~~~--~~~~g~t~~~~~v~~  399 (440)
T PRK14334        354 IEKQKEWSYRRNARWVGRTQEVLVRGDAKDA--GFLEGHTRGNHPVLV  399 (440)
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEEeccCCC--CeEEEECCCCcEEEE
Confidence            9999999999999999999999999865432  378899999999975

>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=100.00  E-value=7.3e-72  Score=592.12  Aligned_cols=390  Identities=34%  Similarity=0.607  Sum_probs=337.5

Q ss_pred             CCHHHHHHHHHHHH-HCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccCCCCEEEE
Q 041524           88 MNVNDMEIVLSIMK-NAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVV  166 (524)
Q Consensus        88 ~N~~d~e~i~~~L~-~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~Ivv  166 (524)
                      ||++|||.|.+.|. +.||+. ++++++||||+||||+|++.|+++++++|+++..+              .+|+.+|+|
T Consensus         1 ~N~~dse~~~~~l~~~~G~~~-~~~~~~ADv~iiNTC~v~~~a~~k~~~~i~~~~~~--------------~~~~~~ivv   65 (420)
T PRK14339          1 MNVRDSEHMIAELSQKEDYKL-TQDIKEADLILINTCSVREKPVHKLFSEIGQFNKI--------------KKEGAKIGV   65 (420)
T ss_pred             CCHHHHHHHHHHHhhcCCcEE-CCCcccCCEEEEeccCccchHHHHHHHHHHHHHHh--------------hCCCCeEEE
Confidence            89999999999999 589997 88889999999999999999999999999987221              236678999


Q ss_pred             EcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCccccCCCeEEEEEEcccCCc
Q 041524          167 LGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVRISKNSVTAFVSVMRGCNN  246 (524)
Q Consensus       167 gG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r~~~~~~~a~v~isRGC~~  246 (524)
                      .||+|+..++++++..|.||+|++......+++++....  .... ........+ ....  ...+...+||++|||||+
T Consensus        66 ~GC~a~~~~~~~~~~~~~vd~v~g~~~~~~i~~~~~~~~--~~~~-~~~~~~~~~-~~~~--~~~~~~~a~i~isrGC~~  139 (420)
T PRK14339         66 CGCTASHLGEEIIKRAPYVDFVLGARNVSKISQVIHTPK--AVEV-DIDYDESTY-AFAD--FRKSPYKSLVNISIGCDK  139 (420)
T ss_pred             ECCccccCCHHHHhhCCCCcEEECCCCHHHHHHHHHhhc--ccce-ecccccccc-cccc--ccCCCeEEEEEecCCCCC
Confidence            999999999999988999999999988888888886531  0000 000000000 0111  113456899999999999


Q ss_pred             cCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchh
Q 041524          247 MCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGL  326 (524)
Q Consensus       247 ~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~  326 (524)
                      +|+||++|..+|+.|++|+++|++|++.+.+.|+++|+|+|+|++.|            |.++..          .....
T Consensus       140 ~CsFC~ip~~rG~~~sr~~e~I~~Ei~~l~~~G~keI~l~~~~~~~y------------g~d~~~----------~~~~~  197 (420)
T PRK14339        140 KCTYCIVPHTRGKEISIPMDLILKEAEKAVNNGAKEIFLLGQNVNNY------------GKRFSS----------EHEKV  197 (420)
T ss_pred             CCCcCCcccccCCCCCCCHHHHHHHHHHHHHCCCcEEEEeeeccccc------------cCCCcC----------Ccccc
Confidence            99999999999999999999999999999999999999999999999            432100          00123


Q ss_pred             hHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHh
Q 041524          327 RFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQI  406 (524)
Q Consensus       327 ~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~  406 (524)
                      .+.+||+.+.+..+..|++|++++|..+++++|++|+++++||.++|||+||||+++|+.|+|+++.+++.++++.+++.
T Consensus       198 ~l~~Ll~~l~~~~g~~~ir~~s~~p~~~~~ell~~~~~~~~~~~~l~iglQSgsd~vLk~M~R~~t~~~~~~~v~~lr~~  277 (420)
T PRK14339        198 DFSDLLDKLSEIEGLERIRFTSPHPLHMDDKFLEEFAKNPKICKSIHMPLQSGSSEILKAMKRGYTKEWFLNRAEKLRAL  277 (420)
T ss_pred             cHHHHHHHHhcCCCccEEEECCCChhhcCHHHHHHHHcCCCccCceEeCCccCCHHHHHhccCCCCHHHHHHHHHHHHHH
Confidence            58999999887655668999999999999999999999888999999999999999999999999999999999999999


Q ss_pred             CCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 041524          407 IPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQ  486 (524)
Q Consensus       407 ~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l~~~~~~~~~~  486 (524)
                      .|++.+.+|||+||||||++||++|++|+.+++++.+++|.|+|+||||++. |.++||.+++++|+++|.++++++..+
T Consensus       278 ~p~i~i~~d~IvGfPgETeedf~~Tl~fl~~l~~~~~~~f~~sp~pGT~a~~-~~~~v~~~~k~~R~~~l~~~~~~~~~~  356 (420)
T PRK14339        278 VPEVSISTDIIVGFPGESDKDFEDTMDVLEKVRFEQIFSFKYSPRPLTEAAA-WKNQVDEEVASERLERLQNRHKEILDE  356 (420)
T ss_pred             CCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeEecCCCCCCchhh-CCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999996 889999999999999999999999999


Q ss_pred             HHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          487 CYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       487 ~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      ++++++|+++.||||+.++.   +.+.||+++|.+|+|
T Consensus       357 ~~~~~vG~~~~vlve~~~~~---~~~~g~t~~~~~v~~  391 (420)
T PRK14339        357 IAKKEVGKTHVVLFEELRAN---GGVAGRSDNNKLVQV  391 (420)
T ss_pred             HHHHhCCCEEEEEEEEecCC---CeEEEECCCCeEEEE
Confidence            99999999999999976432   378899999999975

>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional

Probab=100.00  E-value=1e-70  Score=586.64  Aligned_cols=395  Identities=28%  Similarity=0.488  Sum_probs=333.4

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccc
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGR  155 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~  155 (524)
                      .++|||+||||+||++|||.|++.|.+.||+. ++++++||+|+||||+|++.|+++++++|+++   ++          
T Consensus         7 ~~~~~i~t~GC~~N~~dse~~~~~l~~~G~~~-~~~~~~aD~ivinTC~v~~~a~~k~~~~i~~~---~~----------   72 (440)
T PRK14862          7 APKIGFVSLGCPKALVDSERILTQLRAEGYEI-SPSYDGADLVIVNTCGFIDSAVQESLEAIGEA---LA----------   72 (440)
T ss_pred             CCEEEEEEcCCCCcHHHHHHHHHHHHHCcCEE-CCCcccCCEEEEecccccchHHHHHHHHHHHH---Hh----------
Confidence            34799999999999999999999999999997 88889999999999999999999999999886   11          


Q ss_pred             cccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCccccccccccccccCCCcc-c-cCCC
Q 041524          156 SQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKGINTLLSLEETYADISPVR-I-SKNS  233 (524)
Q Consensus       156 ~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~~~~~~~~~~~~~~l~p~r-~-~~~~  233 (524)
                        ..+  +|||.||+|+ .++++++.+|.+|+|++......+++++........         ..+.+++|.+ . ....
T Consensus        73 --~~~--~ivv~GC~a~-~~~~~~~~~~~v~~v~g~~~~~~i~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~  138 (440)
T PRK14862         73 --ENG--KVIVTGCLGA-KEDQIREVHPKVLAVTGPHAYEQVMEAVHEHVPKPH---------DPFVDLVPPQGVKLTPR  138 (440)
T ss_pred             --cCC--CEEEECCccc-CHHHHHhhCCCceEEECCCCHHHHHHHHHHhhcccc---------ccccccCcchhcccCCC
Confidence              112  3999999999 578888777999999998877777777765421110         0111222211 1 1345


Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      .++||++|||||++|+||++|..+|++|+||+++|++|++.+.+.|+++|+|+++|++.|+            .++....
T Consensus       139 ~~a~v~isrGCp~~CsFC~ip~~~G~~rsr~~e~Vv~Ei~~l~~~g~kei~l~~~d~~~yg------------~d~~~~~  206 (440)
T PRK14862        139 HYAYLKISEGCNHRCTFCIIPSMRGDLVSRPIGDVLREAERLVKAGVKELLVISQDTSAYG------------VDVKYRT  206 (440)
T ss_pred             cEEEEEeccCCCCCCccCCcccccCCccccCHHHHHHHHHHHHHCCCceEEEEecChhhhc------------ccccccc
Confidence            7899999999999999999999999999999999999999999999999999999999983            2211000


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR  393 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~  393 (524)
                      .|-   ...+...++.+|++++.+. + .|+|+.+.+|..++++++++|++ +..|.++|||+||+|+++|+.|+|+++.
T Consensus       207 ~~~---~~~~~~~~~~~Ll~~l~~~-~-~~~r~~~~~p~~~~dell~~m~~-g~~~~~l~IglESgs~~vLk~m~r~~~~  280 (440)
T PRK14862        207 GFW---NGRPVKTRMTDLCEALGEL-G-AWVRLHYVYPYPHVDEVIPLMAE-GKILPYLDIPFQHASPRVLKRMKRPASV  280 (440)
T ss_pred             ccc---cccchhhHHHHHHHHHHhc-C-CEEEEecCCCCcCCHHHHHHHhc-CCCccccccccccCCHHHHHhcCCCCCH
Confidence            000   0000024689999999887 3 38898888888889999999998 3334599999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHH
Q 041524          394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRL  473 (524)
Q Consensus       394 e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl  473 (524)
                      +++.++++.+++..|++.+.++||+||||||+++|++|++|+++++++.+++|.|+|+|||+++. +.+++|.+++++|+
T Consensus       281 ~~~~~~i~~lr~~~~~i~i~t~~IvGfPgET~edf~~tl~fi~e~~~d~~~~f~ysP~pGT~a~~-~~~~v~~~~~~~r~  359 (440)
T PRK14862        281 EKTLERIKKWREICPDLTIRSTFIVGFPGETEEDFQMLLDFLKEAQLDRVGCFKYSPVEGATAND-LPDQVPEEVKEERW  359 (440)
T ss_pred             HHHHHHHHHHHHHCCCceecccEEEECCCCCHHHHHHHHHHHHHcCCCeeeeEeecCCCCCchhh-CCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999975 78899999999999


Q ss_pred             HHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcE
Q 041524          474 TELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHR  521 (524)
Q Consensus       474 ~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~  521 (524)
                      ++|.++.++++.+++++++|+++.||||+.+++    .+.||+++|.+
T Consensus       360 ~~l~~~~~~~~~~~~~~~~G~~~~vlie~~~~~----~~~Gr~~~~~~  403 (440)
T PRK14862        360 ARFMEVQQQISAARLQRKVGRTLQVLIDEVDEE----GAIGRSKADAP  403 (440)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCEEEEEEEEcCCC----CeEEECcccCc
Confidence            999999999999999999999999999976542    36899999997

>TIGR01578 MiaB-like-B MiaB-like tRNA modifying enzyme, archaeal-type

Probab=100.00  E-value=1.5e-69  Score=575.11  Aligned_cols=388  Identities=30%  Similarity=0.512  Sum_probs=323.5

Q ss_pred             cEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccc
Q 041524           78 RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQ  157 (524)
Q Consensus        78 ~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~  157 (524)
                      +++|+||||+||++|||.|++.|.+.||++ ++++++||+|+||||+|+..|+.++++.|+++   +            +
T Consensus         1 ~~~~~t~GC~~N~~ds~~~~~~l~~~G~~~-~~~~~~ADviiinTC~v~~~a~~~~~~~i~~~---~------------~   64 (420)
T TIGR01578         1 KVYVETYGCTLNNGDSEIMKNSLAAYGHEL-VNNAEEADLAILNTCTVKNKTEDTMLYRIESL---M------------R   64 (420)
T ss_pred             CEEEEecCCCCcHHHHHHHHHHHHHCCCEE-CCCcccCCEEEEEeeeeeehHHHHHHHHHHHH---H------------h
Confidence            589999999999999999999999999986 78889999999999999999999999999876   1            1


Q ss_pred             cCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCC-ccccccccccccccCCCccccCCCeEE
Q 041524          158 SKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQK-GINTLLSLEETYADISPVRISKNSVTA  236 (524)
Q Consensus       158 ~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~-~~~~~~~~~~~~~~l~p~r~~~~~~~a  236 (524)
                        .+.+|+||||||+..|++++...+ ++.+++   +..+.+|++.+..... ..... .......+.+..  ......+
T Consensus        65 --~~~~vvv~GC~a~~~~e~~~~~~~-~~~~~g---~~~~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~~  135 (420)
T TIGR01578        65 --NGKHVVVAGCMPQAQKESVYDNGS-VASVLG---VQAIDRLVEVVEETLKKKVHGR-REAGTPLSLPKP--RKNPLIE  135 (420)
T ss_pred             --cCCCEEEECCcCccChHHHHhhCC-ccEEEc---CCCHHHHHHHHHHHhcCCcccc-cccccccccccc--cCCCcEE
Confidence              244599999999999999875433 444554   4555555544432211 11000 000001111111  1245679


Q ss_pred             EEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      +|+++||||++|+||++|..+|++|+||+++|++|++.+.+.|+++|+|+|+|++.|            |.++       
T Consensus       136 ~i~isrGC~~~CsfC~ip~~~G~~rsr~~e~Vl~Ei~~l~~~G~~ei~l~g~d~~~y------------g~d~-------  196 (420)
T TIGR01578       136 IIPINQGCLGNCSYCITKHARGKLASYPPEKIVEKARQLVAEGCKEIWITSQDTGAY------------GRDI-------  196 (420)
T ss_pred             EEEEccCCCCCCCCCccccCCCCcccCCHHHHHHHHHHHHHCCCeEEEEEeeccccc------------cCCC-------
Confidence            999999999999999999999999999999999999999999999999999999888            4321       


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCC---CCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPK---DFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR  393 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~---~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~  393 (524)
                              +.++.+|++.+.++....++|+.+++|.   .++++++++|+. +++|+++|+|+||+|+++|+.|+|+++.
T Consensus       197 --------~~~l~~Ll~~l~~i~~~~~ir~~~~~p~~~~~~~~~l~~~~~~-~~~~~~l~iglQSgsd~iL~~m~R~~~~  267 (420)
T TIGR01578       197 --------GSRLPELLRLITEIPGEFRLRVGMMNPKNVLEILDELANVYQH-EKVYKFLHLPVQSGSDSVLKEMKREYTV  267 (420)
T ss_pred             --------CcCHHHHHHHHHhCCCCcEEEEcCCCCCcccccCHHHHHHHhc-ccccCceEeCCccCCHHHHHhcCCCCCH
Confidence                    1358888888877666678999988886   467999999984 5679999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHH
Q 041524          394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRL  473 (524)
Q Consensus       394 e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl  473 (524)
                      +++.++++.+++.+||+.+.+|||+||||||++++++|++|+.+++++.+++|+|+|+|||+++. +. ++|.+++++|+
T Consensus       268 ~~~~~~i~~i~~~~~~i~i~~~~IvG~PgET~ed~~~t~~~~~~~~~~~i~~~~~~p~pGT~~~~-~~-~v~~~~~~~R~  345 (420)
T TIGR01578       268 SDFEDIVDKFRERFPDLTLSTDIIVGFPTETDDDFEETMELLRKYRPEKINITKFSPRPGTPAAK-MK-RIPTNIVKKRS  345 (420)
T ss_pred             HHHHHHHHHHHHhCCCCEEEeeEEEeCCCCCHHHHHHHHHHHHHhCCCEEEEEEeeCCCCCcccC-CC-CCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999997 54 69999999999


Q ss_pred             HHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          474 TELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       474 ~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      ++|.++.+++..+++++++|+++.||||+.++.   ..+.|++ +|.+|++
T Consensus       346 ~~l~~~~~~~~~~~~~~~~G~~~~vlve~~~~~---~~~~~~~-~~~~v~~  392 (420)
T TIGR01578       346 KRLTKLYEQVLLEMRDNLIGTRVHVLVTKEGKG---DSLDDED-AYRQVVI  392 (420)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCEEEEEEEecCCC---CeeeeCC-CCcEEEE
Confidence            999999999999999999999999999975432   2456775 8888764

This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by this model as well as ones falling within the scope of the MiaB equivalog model.

>KOG4355 consensus Predicted Fe-S oxidoreductase [General function prediction only]

Probab=100.00  E-value=2.4e-51  Score=405.94  Aligned_cols=426  Identities=24%  Similarity=0.434  Sum_probs=331.8

Q ss_pred             CCChhhhhhccccccCCCccCCC--CCccCCCCCCcccCCCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCC
Q 041524           38 GPGLHHFIAQSSLTASQPLADLA--PASEVSSATGSEVHSQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENA  115 (524)
Q Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~a  115 (524)
                      -|++.+|+++.-.+...+.+...  ..++...|..+.+++.+++|+.||||.+|.+|+|+|++.|.+.||.. ++ +++|
T Consensus        14 kp~~r~~~~k~v~pk~~kr~~~k~~q~ee~~~ps~s~ipgtqki~iktwgcshnnsdseymagqlaaygy~l-te-~eea   91 (547)
T KOG4355|consen   14 KPGFRLPLNKVVNPKTNKRISSKPDQIEESNRPSSSKIPGTQKIYIKTWGCSHNNSDSEYMAGQLAAYGYAL-TE-PEEA   91 (547)
T ss_pred             CCccccccccccccccccccccCchhhhhcCCCccccCCCccEEEEEeecccCCCchhHHHhhhHHhhhhcc-CC-cccc
Confidence            47778887654432222221111  23344456678899999999999999999999999999999999985 45 8999


Q ss_pred             cEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccCCCCEEEEEcccccccHHH-HHhhCCcceEEECCCCc
Q 041524          116 EVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDK-ILDADKMVDVVCGPDAY  194 (524)
Q Consensus       116 Dvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~-~l~~~~~vD~Vv~gege  194 (524)
                      |+++||||+|.++++..+.+.|.+-                + ..+.++|+.||.++..|+. .|   .++. |+|-...
T Consensus        92 dlwllnsctvknpsed~frn~i~~g----------------~-~~~k~~viagcvpqg~p~~dyl---~gls-vigvqqi  150 (547)
T KOG4355|consen   92 DLWLLNSCTVKNPSEDAFRNLITRG----------------R-SGKKPLVIAGCVPQGSPDLDYL---EGLS-VIGVQQI  150 (547)
T ss_pred             cEEEecccccCCchHHHHHHHHHhh----------------h-cCCCceEEEecCCCCCcchhhh---cCce-Eeehhhh
Confidence            9999999999999999888877642                1 2355799999999987753 33   3444 4554444


Q ss_pred             ccHHHHHHHHhcCCCcccccccc-ccccccCCCccccCCCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHH
Q 041524          195 RDLPRLLEEVDYGQKGINTLLSL-EETYADISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVD  273 (524)
Q Consensus       195 ~~l~~Ll~~~~~g~~~~~~~~~~-~~~~~~l~p~r~~~~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~  273 (524)
                      ....++++....|....  ++.. ...-.|+|-+  ..+...-.|.++-||-+.|+||-..+++|..-+.+++++++.++
T Consensus       151 drvvevveetlkghsvr--ll~rr~~galdlpkv--rknplieIi~intgclgaCtyckTkharg~l~sy~~dslvervr  226 (547)
T KOG4355|consen  151 DRVVEVVEETLKGHSVR--LLTRRTLGALDLPKV--RKNPLIEIISINTGCLGACTYCKTKHARGLLASYPKDSLVERVR  226 (547)
T ss_pred             hHHHHHHHHHhccceEe--eeecccccccCchhh--ccCCceEEEEeccccccccccccccccccccccCCHHHHHHHHH
Confidence            44555555544554221  1110 0011244433  35667778899999999999999999999999999999999999


Q ss_pred             HHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCce-EEEEecCCCC
Q 041524          274 ELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEM-RFRYTSPHPK  352 (524)
Q Consensus       274 ~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~-~ir~~s~~p~  352 (524)
                      ...+.|+.+||+...+.+.|            |++.               +..+..|+.++.+..|+- -+|....+|.
T Consensus       227 t~f~egv~eIwltsedTgay------------grdi---------------g~slp~ll~klv~~iPe~cmlr~gmTnpP  279 (547)
T KOG4355|consen  227 TSFEEGVCEIWLTSEDTGAY------------GRDI---------------GKSLPKLLWKLVEVIPESCMLRAGMTNPP  279 (547)
T ss_pred             HHHhcCcEEEEecccccchh------------hhhh---------------hhhhHHHHHHHHHhcchhhhhhhcCCCCc
Confidence            99999999999999999999            5543               456888888888877632 2333333443


Q ss_pred             CCCH--HHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHH
Q 041524          353 DFPD--ELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHAD  430 (524)
Q Consensus       353 ~~~~--elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~  430 (524)
                      .+-+  +.+...-++|+....+|+++||||+.+|..|+|.|...++...++.+++..|||.|.+|+|+||||||+|||++
T Consensus       280 ~ilehl~e~a~vlrhp~vYsflhvpvqsgsdsvl~emkreyc~~dfk~Vvd~LterVPgi~IATDiIcgFPtETdeDFee  359 (547)
T KOG4355|consen  280 YILEHLEEAAFVLRHPRVYSFLHVPVQSGSDSVLTEMKREYCNFDFKIVVDFLTERVPGITIATDIICGFPTETDEDFEE  359 (547)
T ss_pred             hHHHHHHHHHHHhcCCeEEEEEecccccCchhHHHHHHHHHhhhhHHHHHHHHHhhCCCcEEeeeeeecCCCCchHHHHH
Confidence            3221  12222234667778899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCC
Q 041524          431 TLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDT  510 (524)
Q Consensus       431 tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~  510 (524)
                      |++++++.++..+++..|.|+||||+++ | +++|..++++|.++|.++|+..  .-|...+|..+.|||...+-+  +-
T Consensus       360 TmeLv~kYKFPslfInQfyPRpGTPAAk-m-kki~a~~vkkRTk~ls~lF~sy--~pYtd~ige~~rVlVTEva~D--kl  433 (547)
T KOG4355|consen  360 TMELVRKYKFPSLFINQFYPRPGTPAAK-M-KKIPAVEVKKRTKALSELFRSY--TPYTDEIGELHRVLVTEVAAD--KL  433 (547)
T ss_pred             HHHHHHHccCchhhhhhcCCCCCChHHh-h-hcccHHHHHHHHHHHHHHHHhc--CCcccccccEEEEEEEEeecc--ce
Confidence            9999999999999999999999999997 4 6999999999999999999874  577888999999999887532  23


Q ss_pred             eEEEeCCCCcEEE
Q 041524          511 ELVGKSDRGHRVA  523 (524)
Q Consensus       511 ~~~Gr~~~~~~v~  523 (524)
                      .++|.|..|.-|.
T Consensus       434 h~VgHnksYeQVL  446 (547)
T KOG4355|consen  434 HYVGHNKSYEQVL  446 (547)
T ss_pred             eeeccccceeEEE
Confidence            7899999998764

>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase

Probab=100.00  E-value=5e-47  Score=410.82  Aligned_cols=320  Identities=17%  Similarity=0.222  Sum_probs=256.6

Q ss_pred             EEEecCCCCCHHHHHHHHHHHHHCC-CeeccCCC----------------CCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           80 YQETYGCQMNVNDMEIVLSIMKNAG-YSEVINVP----------------ENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        80 ~~~t~GC~~N~~d~e~i~~~L~~~G-y~~~~~~~----------------~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      .+.|+|       ..++++.|++.| +++.+-|.                ..+|+|++++++.......++.+.+|+   
T Consensus        19 ~~pPlg-------l~~lAa~L~~~G~~~V~iiD~~~~~~~~~~~~~~l~~~~pdvVgis~~t~~~~~a~~~~~~~k~---   88 (497)
T TIGR02026        19 QWPPLW-------VAYIGGALLDAGYHDVTFLDAMTGPLTDEKLVERLRAHCPDLVLITAITPAIYIACETLKFARE---   88 (497)
T ss_pred             CcCCHH-------HHHHHHHHHhcCCcceEEecccccCCCHHHHHHHHHhcCcCEEEEecCcccHHHHHHHHHHHHH---
Confidence            368999       999999999999 56432221                268999997766544444444444432   


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCc-----ccccc--
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKG-----INTLL--  215 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~-----~~~~~--  215 (524)
                                     ..|+++||+||+||+..|+++++..|.+|+||.||||.++++|+++++.|...     +.++.  
T Consensus        89 ---------------~~P~~~iV~GG~h~t~~~~~~l~~~p~vD~Vv~GEGE~~~~~Ll~~l~~g~~~~~~~~I~Gi~y~  153 (497)
T TIGR02026        89 ---------------RLPNAIIVLGGIHPTFMFHQVLTEAPWIDFIVRGEGEETVVKLIAALENHNFAEDRNKVDGIAFL  153 (497)
T ss_pred             ---------------HCCCCEEEEcCCCcCcCHHHHHhcCCCccEEEeCCcHHHHHHHHHHHHcCCCCCchhhCCceEEE
Confidence                           36999999999999999999998889999999999999999999999877511     11110  


Q ss_pred             -----------ccccccccCCCcc-c------c--C-CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHH
Q 041524          216 -----------SLEETYADISPVR-I------S--K-NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDE  274 (524)
Q Consensus       216 -----------~~~~~~~~l~p~r-~------~--~-~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~  274 (524)
                                 +....++.++|.. +      .  . ....+.+++|||||++|+||..+...+++|.|+++.|++||+.
T Consensus       154 ~~g~i~~~~~~~~i~dLd~~~P~~~l~~~~~y~~~~~~~~~~~i~tSRGCp~~C~FC~~~~~~~~~R~rs~e~Vv~Ei~~  233 (497)
T TIGR02026       154 RDQEIVETLAAPMIQDLDVYRPDWELVDWKKYIYYPLGVRVAVPNFARGCPFTCNFCSQWKFWRRYRHRDPKKFVDEIEW  233 (497)
T ss_pred             eCCEEEeCCCCCCccccccCCCCcccCchhhcccccCCCceeeeeccCCCCCCCCCCCCCCCCceeecCCHHHHHHHHHH
Confidence                       0001122233321 0      0  1 2234568999999999999999887788999999999999999


Q ss_pred             HHH-CCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEe-cCCCC
Q 041524          275 LWK-EGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYT-SPHPK  352 (524)
Q Consensus       275 l~~-~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~-s~~p~  352 (524)
                      +.+ .|++.|.|.|++|+..                               ..++.++++++.+..+ ..++|. +.+++
T Consensus       234 l~~~~gv~~~~~~Dd~f~~~-------------------------------~~~~~~l~~~l~~~~~-l~i~w~~~~r~~  281 (497)
T TIGR02026       234 LVRTHGVGFFILADEEPTIN-------------------------------RKKFQEFCEEIIARNP-ISVTWGINTRVT  281 (497)
T ss_pred             HHHHcCCCEEEEEecccccC-------------------------------HHHHHHHHHHHHhcCC-CCeEEEEecccc
Confidence            976 5999999999998754                               2358889999877542 233332 24555


Q ss_pred             CC--CHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHH
Q 041524          353 DF--PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHAD  430 (524)
Q Consensus       353 ~~--~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~  430 (524)
                      .+  +++++++|+++  ||.++++|+||+|+++|+.|+|+++.+++.++++.++++  |+.+.++||+|+||||.|++++
T Consensus       282 ~i~~d~ell~~l~~a--G~~~v~iGiES~~~~~L~~~~K~~t~~~~~~ai~~l~~~--Gi~~~~~~I~G~P~et~e~~~~  357 (497)
T TIGR02026       282 DIVRDADILHLYRRA--GLVHISLGTEAAAQATLDHFRKGTTTSTNKEAIRLLRQH--NILSEAQFITGFENETDETFEE  357 (497)
T ss_pred             cccCCHHHHHHHHHh--CCcEEEEccccCCHHHHHHhcCCCCHHHHHHHHHHHHHC--CCcEEEEEEEECCCCCHHHHHH
Confidence            55  89999999999  999999999999999999999999999999999999999  9999999999999999999999


Q ss_pred             HHHHHHHcCCCeEEEEeeecCCCChhcccC
Q 041524          431 TLTLMKAVGYDMAYMFAYSMRERTHAHRNY  460 (524)
Q Consensus       431 tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~  460 (524)
                      |++++.++++++++++.++|+|||++|+.+
T Consensus       358 t~~~~~~l~~~~~~~~~~tP~PGT~l~~~~  387 (497)
T TIGR02026       358 TYRQLLDWDPDQANWLMYTPWPFTSLFGEL  387 (497)
T ss_pred             HHHHHHHcCCCceEEEEecCCCCcHHHHHH
Confidence            999999999999999999999999999754

This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.

>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ

Probab=100.00  E-value=8.7e-45  Score=391.84  Aligned_cols=318  Identities=18%  Similarity=0.256  Sum_probs=245.2

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHCCC----------eeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhh
Q 041524           79 IYQETYGCQMNVNDMEIVLSIMKNAGY----------SEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWK  148 (524)
Q Consensus        79 ~~~~t~GC~~N~~d~e~i~~~L~~~Gy----------~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~  148 (524)
                      -+..|+|       .+++++.|.+.-+          +.......++|+|+|++++.......++.+.+|+         
T Consensus        30 ~~~~Pl~-------L~ylAa~l~~~~iiD~~~~~~~~~~~~~~~~~~Dlv~is~~t~~~~~~~~ia~~iK~---------   93 (472)
T TIGR03471        30 SFWYPTW-------LAQPAAMIPGSRLVDAPPHGVTIDDTLAIAKDYDLVVLHTSTPSFPSDVKTAEALKE---------   93 (472)
T ss_pred             cccCChH-------HHHHHHhccCceEEeCCcccCCHHHHHHHhcCCCEEEEECCCcchHHHHHHHHHHHH---------
Confidence            3567888       9999998863110          0001112479999999998887776666666554         


Q ss_pred             hcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhc------------CCCccccccc
Q 041524          149 KNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDY------------GQKGINTLLS  216 (524)
Q Consensus       149 ~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~------------g~~~~~~~~~  216 (524)
                               ..|+++||+||+|+|..|+++++..+.+|+||.||||.++++|++....            |....+....
T Consensus        94 ---------~~p~~~vv~GG~h~t~~pe~~l~~~~~vD~Vv~GEgE~~l~~l~~g~~~~~i~Gi~~r~~~g~~~~~~~~~  164 (472)
T TIGR03471        94 ---------QNPATKIGFVGAHVAVLPEKTLKQGPAIDFVCRREFDYTIKEVAEGKPLAEIDGLSYRGKDGKIVHNPDRP  164 (472)
T ss_pred             ---------hCCCCEEEEECCCcccCHHHHHhcCCCeeEEEeCchHHHHHHHHcCCChhcCCceEEEcCCCeEEeCCCCC
Confidence                     2599999999999999999999877899999999999999998753110            0000000000


Q ss_pred             cccccccCCCc-----c-c-----c---CCCeEEEEEEcccCCccCcccccCCCC-C-ccccCChHHHHHHHHHHHHC--
Q 041524          217 LEETYADISPV-----R-I-----S---KNSVTAFVSVMRGCNNMCSFCIVPFTR-G-RERSRPVESIVKEVDELWKE--  278 (524)
Q Consensus       217 ~~~~~~~l~p~-----r-~-----~---~~~~~a~v~isRGC~~~CsFC~vp~~~-G-~~Rsr~~e~Iv~Ei~~l~~~--  278 (524)
                      ....++.+|.+     + +     .   ...+.+.|++|||||++|+||.++... | ++|.++++.|++||+.+.+.  
T Consensus       165 ~~~dLd~lP~p~p~~~~~l~~~~y~~~~~~~~~~~i~tsRGCp~~C~FC~~~~~~~g~~~r~rs~e~V~~Ei~~~~~~~~  244 (472)
T TIGR03471       165 MIEDMDALPFVAPVYKRDLDIERYFIGYLKHPYISLYTGRGCPSKCTFCLWPQTVGGHRYRTRSAESVIEEVKYALENFP  244 (472)
T ss_pred             CccchhhCCCCchhhhccCCHHHcccccccCceEEEEecCCCCCCCCCCCCCccCCCCceEeCCHHHHHHHHHHHHHhcC
Confidence            01122222211     0 0     0   113456789999999999999987543 4 58999999999999999886  


Q ss_pred             CCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHH
Q 041524          279 GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDEL  358 (524)
Q Consensus       279 G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~el  358 (524)
                      |++.|+|.|++|+..                               ..++.+|++.+.+..  ..+... .+ ..+++++
T Consensus       245 ~~~~i~f~Dd~f~~~-------------------------------~~~~~~l~~~l~~~~--i~~~~~-~~-~~~~~e~  289 (472)
T TIGR03471       245 EVREFFFDDDTFTDD-------------------------------KPRAEEIARKLGPLG--VTWSCN-AR-ANVDYET  289 (472)
T ss_pred             CCcEEEEeCCCCCCC-------------------------------HHHHHHHHHHHhhcC--ceEEEE-ec-CCCCHHH
Confidence            899999999988744                               235778888886642  222222 22 3579999


Q ss_pred             HHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHc
Q 041524          359 LYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV  438 (524)
Q Consensus       359 L~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l  438 (524)
                      +++|+++  ||.++++|+||+|+++|+.|+|+++.+++.++++.++++  |+.+.++||+|+||||.|++++|++++.++
T Consensus       290 l~~l~~a--G~~~v~iGiES~s~~~L~~~~K~~~~~~~~~~i~~~~~~--Gi~v~~~~IiGlPget~e~~~~ti~~~~~l  365 (472)
T TIGR03471       290 LKVMKEN--GLRLLLVGYESGDQQILKNIKKGLTVEIARRFTRDCHKL--GIKVHGTFILGLPGETRETIRKTIDFAKEL  365 (472)
T ss_pred             HHHHHHc--CCCEEEEcCCCCCHHHHHHhcCCCCHHHHHHHHHHHHHC--CCeEEEEEEEeCCCCCHHHHHHHHHHHHhc
Confidence            9999999  999999999999999999999999999999999999999  999999999999999999999999999999


Q ss_pred             CCCeEEEEeeecCCCChhcccC
Q 041524          439 GYDMAYMFAYSMRERTHAHRNY  460 (524)
Q Consensus       439 ~~d~~~i~~~sp~pGT~~~~~~  460 (524)
                      +++.+.++.++|+|||++|+.+
T Consensus       366 ~~~~~~~~~l~P~PGT~l~~~~  387 (472)
T TIGR03471       366 NPHTIQVSLAAPYPGTELYDQA  387 (472)
T ss_pred             CCCceeeeecccCCCcHHHHHH
Confidence            9999999999999999998643

One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.

>PRK00955 hypothetical protein; Provisional

Probab=100.00  E-value=1.9e-39  Score=350.59  Aligned_cols=398  Identities=19%  Similarity=0.239  Sum_probs=263.9

Q ss_pred             EEecCCCCCHHHHHHHHHHHHHCCCeec-cCCC-----------CCCcEEEEeecc-----Cc-chHHHHH---------
Q 041524           81 QETYGCQMNVNDMEIVLSIMKNAGYSEV-INVP-----------ENAEVIFINTCA-----IR-DYAEHKV---------  133 (524)
Q Consensus        81 ~~t~GC~~N~~d~e~i~~~L~~~Gy~~~-~~~~-----------~~aDvv~intc~-----v~-~~a~~~~---------  133 (524)
                      ..++|       +.+|...|++.||.+- +..|           ..++++++.|++     +. ..+..+.         
T Consensus        27 hp~fg-------~a~i~r~L~~~G~~v~ii~qp~~~~~~~~~~~g~P~l~~~vs~g~~dsmv~~yt~~~~~r~~d~ytpg   99 (620)
T PRK00955         27 HPSFG-------TAIIGRVLEAEGFRVGIIAQPNWRDLEDFKKLGKPRLFFLVSAGNMDSMVNHYTASKKLRSKDAYSPG   99 (620)
T ss_pred             CCccH-------HHHHHHHHHHCCCEEEEecCCCcCChHHHHhhCCCcEEEEeccccHHHHHhhcchhhhcccccccCCC
Confidence            46789       9999999999999862 2222           367898887766     22 1222211         


Q ss_pred             --------HHHHHHHHHhhhhhhhcccccccccCCCCEEEEEccccccc----H--------HHHHhhCCcceEEECCCC
Q 041524          134 --------WQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERL----K--------DKILDADKMVDVVCGPDA  193 (524)
Q Consensus       134 --------~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~----~--------e~~l~~~~~vD~Vv~geg  193 (524)
                              ...+...+.+|            +..|+++||+||++||..    +        ..+|. ...+|+||.|||
T Consensus       100 g~~~~rpdra~i~y~~~ik------------~~~p~~~IvlGG~eaS~rr~~hyd~w~~~~~~siL~-d~~aD~vv~GeG  166 (620)
T PRK00955        100 GKMGLRPDRATIVYCNKIK------------EAYPDVPIIIGGIEASLRRFAHYDYWSDKVRRSILI-DSGADLLVYGMG  166 (620)
T ss_pred             CccCCCcchHHHHHHHHHH------------HHCCCCcEEeCChhhhccccccchhhhhhhhHHHhh-ccCCCEEEECCc
Confidence                    11111111111            226899999999999984    1        23444 357999999999


Q ss_pred             cccHHHHHHHHhcCCCc-----cccc-----------------ccccc--------------------------------
Q 041524          194 YRDLPRLLEEVDYGQKG-----INTL-----------------LSLEE--------------------------------  219 (524)
Q Consensus       194 e~~l~~Ll~~~~~g~~~-----~~~~-----------------~~~~~--------------------------------  219 (524)
                      |.++.+|++++..|...     +.++                 .+.++                                
T Consensus       167 E~t~~eL~~~L~~g~~~~~i~~I~G~~~~~~~~~~~~~~~~~lps~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~q~~~  246 (620)
T PRK00955        167 EKPIVEIARRLKAGEDIKDIKDIRGTVYLTKDLDWIEKDYIELPSYEEVSEDKKKYAEAFKIQYEEQDPIRGKRIVQPHG  246 (620)
T ss_pred             HHHHHHHHHHHHcCCCccccccCCceEEecCCCCcCcCceeecCCHHHHhhCHHHHHHHHHHHHHhcCccccceeeEeeC
Confidence            99999999999877421     1110                 00000                                


Q ss_pred             -ccc-cCCCc-----------------c-----ccCC-------CeEEEEEEcccCCccCcccccCCCCCc-cccCChHH
Q 041524          220 -TYA-DISPV-----------------R-----ISKN-------SVTAFVSVMRGCNNMCSFCIVPFTRGR-ERSRPVES  267 (524)
Q Consensus       220 -~~~-~l~p~-----------------r-----~~~~-------~~~a~v~isRGC~~~CsFC~vp~~~G~-~Rsr~~e~  267 (524)
                       .|. --||.                 |     +...       ...++|.++|||++.|+||+++..+|+ ++|||+++
T Consensus       247 ~~~~v~npp~~~l~~~e~d~~y~lpy~r~~hp~y~~~g~ipa~~~i~~sI~i~RGC~g~CSFCaIp~~rGr~~rSRs~es  326 (620)
T PRK00955        247 DRYVVQNPPAPPLTQEELDEVYDLPYTRTYHPSYEEKGGIPAIEEVKFSITSHRGCFGGCSFCAITFHQGRFIQSRSQES  326 (620)
T ss_pred             CEEEEECCCCCCCChhhhhhccCCCcccCcchhhccCCCCCceeeEEEEEEeeCCCCCCCCCCCeecccCCcceecCHHH
Confidence             000 00110                 1     0111       345789999999999999999999998 49999999


Q ss_pred             HHHHHHHHHHC-CCcEEE--EEeccCCCCCCccCCccccCC-CCccccccCcccchhcccchhhHHHHHHHHHhhCCceE
Q 041524          268 IVKEVDELWKE-GVKEVT--LLGQNVNSYNDTSGMEKEVEP-GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMR  343 (524)
Q Consensus       268 Iv~Ei~~l~~~-G~kei~--l~d~n~~~y~~~~~~~~~~~~-g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~  343 (524)
                      |++|++.+.+. |++++.  +.|++.+.|+..-........ +..+.+.+..|....  .....+.+||++|.++.+..|
T Consensus       327 Iv~Evk~L~~~~gfkg~I~DlgGptan~Yg~~c~~~~~~~~c~~~~clfp~~c~nl~--~d~~~l~~LLr~l~~l~gvkr  404 (620)
T PRK00955        327 ILREAKELTEMPDFKGYIHDVGGPTANFRKMACKKQLKCGACKNKQCLFPKPCKNLD--VDHKEYLELLRKVRKLPGVKK  404 (620)
T ss_pred             HHHHHHHHHhccCCeEEEEeCCCCCccccccccccccccccccccccccCccccccC--cChHHHHHHHHHHhccCCceE
Confidence            99999999987 898875  567888988421100000000 000111111122111  123579999999998766667


Q ss_pred             EEEec-CCCCC----CCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCC----cEEEE
Q 041524          344 FRYTS-PHPKD----FPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPD----VGLSS  414 (524)
Q Consensus       344 ir~~s-~~p~~----~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pg----i~i~~  414 (524)
                      ++++| ++.+.    .++++++.|.+. ..+.+++||+||+|+++|+.|+|+ +.+.+.+.++.+++..+.    ..+.+
T Consensus       405 v~isSGIR~D~l~~~~~~~~l~eL~~~-~vsg~L~IapESgSd~VLk~M~K~-~~~~~~~f~~~~~~i~~~~G~~~~I~~  482 (620)
T PRK00955        405 VFIRSGIRYDYLLHDKNDEFFEELCEH-HVSGQLKVAPEHISDRVLKLMGKP-SREVYDKFVKKFDRINKKLGKKQYLVP  482 (620)
T ss_pred             EEeecceeccccccCCcHHHHHHHHHH-hcCCCceeCcCCCChHHHHHhCCC-CHHHHHHHHHHHHHhhhhcCCCccEEE
Confidence            77776 44433    345577777654 266789999999999999999998 667777766555555433    34899


Q ss_pred             eEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCC----------CCCCHHHHHHHHHHHHH------
Q 041524          415 DFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYV----------DDVPEEVKQRRLTELIE------  478 (524)
Q Consensus       415 ~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~----------~~v~~~~k~~Rl~~l~~------  478 (524)
                      +||+||||||++|+++|++|+++++++.++++.|+|+|||+++.+|-          ..|+....++++++..-      
T Consensus       483 yfIvGfPGETeEDf~et~eflkel~~~~~qV~~fTP~PGT~At~Myytg~dp~~~~~v~v~k~~~ek~~qra~l~~~~~~  562 (620)
T PRK00955        483 YLMSSHPGSTLEDAIELAEYTKDLGYQPEQVQDFYPTPGTLSTTMYYTGLDPLTMEPVYVPKTPKEKAMQRALLQYRKPE  562 (620)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHcCCCcceeeeeecCCCcchhhccccCCCccccCcCCCCCCHHHHHHHHHhhcccCcc
Confidence            99999999999999999999999999999999999999999987542          23455555555555332      


Q ss_pred             ----HHHHHHHHHHhcccCCEEEEEEec
Q 041524          479 ----AFRESTGQCYDSQVGTVQLVLVEG  502 (524)
Q Consensus       479 ----~~~~~~~~~~~~~vG~~~~vLve~  502 (524)
                          +.+.+........||.....|+-.
T Consensus       563 ~~~~~~~~l~~~~r~~l~~~~~~~~~~~  590 (620)
T PRK00955        563 NYDLVYEALKKAGREDLIGNGPKCLIPP  590 (620)
T ss_pred             chhHHHHHHHhCCcccccccCcccCCCC
Confidence                222333334455678777777754

>PRK01254 hypothetical protein; Provisional

Probab=100.00  E-value=4.9e-37  Score=329.03  Aligned_cols=266  Identities=19%  Similarity=0.218  Sum_probs=206.5

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc-cccCChHHHHHHHHHHHHC--CCcEEE--EEeccCCCCCCccCCccccCC-CC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR-ERSRPVESIVKEVDELWKE--GVKEVT--LLGQNVNSYNDTSGMEKEVEP-GA  307 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~-~Rsr~~e~Iv~Ei~~l~~~--G~kei~--l~d~n~~~y~~~~~~~~~~~~-g~  307 (524)
                      ..++|.++|||++.|+||+++..+|+ ++|||+++|++|++.+.++  |+++++  +.|++.|.|+..-........ ..
T Consensus       372 i~~sV~i~RGC~g~CSFCaI~~hqGr~irSRS~esIL~Ea~~L~~~~pGfKgii~DLgGptaN~YG~~c~d~~~~~~C~~  451 (707)
T PRK01254        372 IRFSVNIMRGCFGGCSFCSITEHEGRIIQSRSEESIINEIEAIRDKVPGFTGVISDLGGPTANMYRLRCKSPRAEQTCRR  451 (707)
T ss_pred             eEEEEEEccCCCCCCCccccccccCCeeeeCCHHHHHHHHHHHHHhCCCcEEEEeccCCCcccccccccccccccccccc
Confidence            35789999999999999999999999 7999999999999999974  999999  999999999531100000000 00


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCC---HHHHHHHHcCCCCcceeecCcCCcCHHHH
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFP---DELLYIMRDRPNVCKYIHLPAQTGNSAVL  384 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~---~elL~~l~~~~~G~~~i~igiESgs~~vL  384 (524)
                      ...+.+..|.++..  ....+.+||+++.++.+..++++.+.++.++.   +++++.|++. ..+.+++|++||+|+++|
T Consensus       452 ~~Cl~P~~C~nL~~--dh~~l~eLLrkLr~IpGVKkVrI~SgiR~Dl~l~d~elIeel~~~-hV~g~LkVppEH~Sd~VL  528 (707)
T PRK01254        452 LSCVYPDICPHLDT--DHEPTINLYRRARDLKGIKKILIASGVRYDLAVEDPRYVKELVTH-HVGGYLKIAPEHTEEGPL  528 (707)
T ss_pred             ccccCcccccccCC--CHHHHHHHHHHHHhCCCceEEEEEcCCCccccccCHHHHHHHHHh-CCccccccccccCCHHHH
Confidence            11233444544432  23579999999998877778999998887774   8999999884 577899999999999999


Q ss_pred             hhhCCC--CCHHHHHHHHHHHHHhCC-CcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCC---CChhcc
Q 041524          385 ERMRRG--YTREAYLDLVQKIRQIIP-DVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRE---RTHAHR  458 (524)
Q Consensus       385 ~~m~R~--~t~e~~~~~v~~ir~~~p-gi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~p---GT~~~~  458 (524)
                      +.|+|+  ++.+++.+.++.+++..| ++.+.++||+||||||++||+++++|+++++++..++..|+|.|   ||.+|.
T Consensus       529 k~M~Kp~~~~~e~F~e~f~rirk~~gk~q~LipyfIvGhPGeTeeDf~eLaefLkel~f~~eQVQ~FTPtP~t~~T~MYy  608 (707)
T PRK01254        529 SKMMKPGMGSYDRFKELFDKYSKEAGKEQYLIPYFISAHPGTTDEDMVNLALWLKKNRFRLDQVQNFYPSPMANATTMYY  608 (707)
T ss_pred             HHhCCCCcccHHHHHHHHHHHHHHCCCCeEEEEeEEEECCCCCHHHHHHHHHHHHHhCCCcceeeeeecCCCcCchHHHh
Confidence            999998  789999999999999987 68899999999999999999999999999999999999999999   888886


Q ss_pred             cCCCC------------CCHHHHHHHHHHHHH----------HHHHHHHHHHhcccCCEEEEEEec
Q 041524          459 NYVDD------------VPEEVKQRRLTELIE----------AFRESTGQCYDSQVGTVQLVLVEG  502 (524)
Q Consensus       459 ~~~~~------------v~~~~k~~Rl~~l~~----------~~~~~~~~~~~~~vG~~~~vLve~  502 (524)
                      ...+.            |+...+++++++..-          +.+.+.......+||.....||-.
T Consensus       609 tg~dP~~~~~~~~~~v~v~k~~~ek~~qka~l~~~~p~n~~~~~~al~~~gr~dlig~~~~~l~~~  674 (707)
T PRK01254        609 TGKNPLKKVKYKSEDVVVPKGDRQRRLHKALLRYHDPANWPLIREALEAMGKKHLIGNRRDCLVPA  674 (707)
T ss_pred             ccCCcccccccCCCeeeccCCHHHHHHHHHHhccCCccchHHHHHHHHhCCccccccCCcccCCCC
Confidence            54433            333445555544332          223333344455677666667653

>PRK05481 lipoyl synthase; Provisional

Probab=100.00  E-value=1.5e-31  Score=270.19  Aligned_cols=216  Identities=19%  Similarity=0.275  Sum_probs=189.1

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ....+||.+|+||+++|+||++|..+|  +++++++|+++++.+.+.|+++|.|++++.+.+.+                
T Consensus        51 ~~~~~fi~is~GC~~~C~FC~i~~~r~--~s~~~eeI~~ea~~l~~~G~kEI~L~gg~~~d~~~----------------  112 (289)
T PRK05481         51 RGTATFMILGDICTRRCPFCDVATGRP--LPLDPDEPERVAEAVARMGLKYVVITSVDRDDLPD----------------  112 (289)
T ss_pred             CCeEEEEEecccccCCCCCceeCCCCC--CCCCHHHHHHHHHHHHHCCCCEEEEEEeeCCCccc----------------
Confidence            567899999999999999999998765  78999999999999999999999999988643210                


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                                 .+...+.+|++.|.+..+..++++.++++....++++++++ +  |+..+..+.|+ ++++|+.|+|++
T Consensus       113 -----------~~~~~l~~Ll~~I~~~~p~irI~~l~~~~~~~~e~L~~l~~-a--g~~i~~~~~et-s~~vlk~m~r~~  177 (289)
T PRK05481        113 -----------GGAQHFAETIRAIRELNPGTTIEVLIPDFRGRMDALLTVLD-A--RPDVFNHNLET-VPRLYKRVRPGA  177 (289)
T ss_pred             -----------ccHHHHHHHHHHHHhhCCCcEEEEEccCCCCCHHHHHHHHh-c--CcceeeccccC-hHHHHHHhCCCC
Confidence                       01236899999998877777888888887766777777665 5  88888888888 589999999999


Q ss_pred             CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHH
Q 041524          392 TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQR  471 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~  471 (524)
                      +.++++++++.+++.+||+.+.++||+|| |||+||+.+|++++++++++.+++|+|+|    |+++.+  +||+.++.+
T Consensus       178 t~e~~le~i~~ar~~~pgi~~~t~~IvGf-GET~ed~~~tl~~lrel~~d~v~if~Ys~----pa~k~~--~v~~~~k~~  250 (289)
T PRK05481        178 DYERSLELLKRAKELHPGIPTKSGLMVGL-GETDEEVLEVMDDLRAAGVDILTIGQYLQ----PSRKHL--PVERYVTPE  250 (289)
T ss_pred             CHHHHHHHHHHHHHhCCCCeEeeeeEEEC-CCCHHHHHHHHHHHHhcCCCEEEEEccCC----CccccC--CCCCcCCHH
Confidence            99999999999999999999999999999 99999999999999999999999999999    777445  899999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q 041524          472 RLTELIEAFRESTGQC  487 (524)
Q Consensus       472 Rl~~l~~~~~~~~~~~  487 (524)
                      |+++|.+++.++.+..
T Consensus       251 r~~~l~~~~~~i~~~~  266 (289)
T PRK05481        251 EFDEYKEIALELGFLH  266 (289)
T ss_pred             HHHHHHHHHHHcCchh
Confidence            9999999998876654

>COG1032 Fe-S oxidoreductase [Energy production and conversion]

Probab=99.98  E-value=8.5e-31  Score=283.05  Aligned_cols=270  Identities=25%  Similarity=0.346  Sum_probs=204.1

Q ss_pred             CCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCCc--ccccc--cccc-----cccc-------
Q 041524          160 HPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQKG--INTLL--SLEE-----TYAD-------  223 (524)
Q Consensus       160 p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~~--~~~~~--~~~~-----~~~~-------  223 (524)
                      +...|++||++++..++++++..+ +|+|+.||||.+++++++++..+...  +.++.  ...+     ....       
T Consensus       101 ~~~~v~~GG~~~t~~~~~~~~~~~-~D~iv~GeGE~~~~~~~~~~~~~~~~~~i~G~~~~~~~~~~~~~~~~~~~~~~~~  179 (490)
T COG1032         101 DKPLVVVGGPEATENPEPLLDFGP-ADIIVIGEGEETLPELLEALEEGEDDPRVPGLALPSFEEIVYDQDLDDVPIPAYD  179 (490)
T ss_pred             CCCeEEecCCCcCCCcHHHHhhcC-CCEEEEcCchHHHHHHHHHHhccccccccCccccCChhhcccccccccCCcccee
Confidence            445899999999999999998655 89999999999999999998776431  11100  0000     0000       


Q ss_pred             --------CCCccccCCCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCC
Q 041524          224 --------ISPVRISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYND  295 (524)
Q Consensus       224 --------l~p~r~~~~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~  295 (524)
                              ..|..........+|+++||||++|+||.++... ++|.++++++++|++.+++.|.+.+.+..++...|+.
T Consensus       180 ~~~~~~~~~~p~~~~~~~~~~~ve~~RGCp~~C~FC~~~~~~-~~r~~~~~~v~~ei~~~~~~~~~~~~~~~~~~f~~~~  258 (490)
T COG1032         180 LVDDHKRDDLPPYGAGENRAFSVETSRGCPRGCRFCSITKHF-KYRRRRPERVVEEIKELIEEGGKRVVFFVDDIFLYGS  258 (490)
T ss_pred             ecccccccccCCcccccceEEEEEeccCCCCCCCCCCCcccc-cccCCCHHHHHHHHHHHHHHhhhcCcccccceeecCC
Confidence                    1111111133468899999999999999998766 7899999999999999999998887765555555621


Q ss_pred             ccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCC-HHHHHHHHcCCCCcc
Q 041524          296 TSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFP-DELLYIMRDRPNVCK  370 (524)
Q Consensus       296 ~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~-~elL~~l~~~~~G~~  370 (524)
                      ..           ..             ....+..+...+.+...    ...+.+.+.+++.++ ++++.+++.+  |+.
T Consensus       259 ~~-----------~~-------------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~r~d~~~~~~~~~~~~~~--g~~  312 (490)
T COG1032         259 PA-----------LN-------------DEKRFELLSLELIERGLRKGCRVHISAPSLRADTVTDEELLKLLREA--GLR  312 (490)
T ss_pred             cc-----------cc-------------chhhcccchHHHHHHhcccCceeeeeccccCchhcCHHHHHHHHhhC--CCc
Confidence            10           00             01123333323333211    123333346888888 8899999998  999


Q ss_pred             eeecCcCCcCHHHHhhhCCCCCHHHHHH-HHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHH---HHHHHHcCCC-eEEE
Q 041524          371 YIHLPAQTGNSAVLERMRRGYTREAYLD-LVQKIRQIIPDVGLSSDFICGFCGETEEEHADT---LTLMKAVGYD-MAYM  445 (524)
Q Consensus       371 ~i~igiESgs~~vL~~m~R~~t~e~~~~-~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~t---l~~l~~l~~d-~~~i  445 (524)
                      .+.+|+||||+++|+.|+|+++.++..+ +++.+.+.  ++.+..+||+|+||||++|+++|   ++++.+++.. .+.+
T Consensus       313 ~~~iG~Esgs~~~l~~~~k~~~~~~~~~~a~~~~~~~--~~~~~~~~i~G~pget~ed~~~t~~~~~~~~~~~~~~~~~~  390 (490)
T COG1032         313 RVYIGIESGSEELLKKINKGITTEEVLEEAVKIAKEH--GLRVKLYFIVGLPGETEEDVKETIELAKFIKKLGPKLYVSP  390 (490)
T ss_pred             ceEEeccCCCHHHHHHHhCCCChHHHHHHHHHHHHhC--CceeeEEEEEcCCCCCHHHHHHHHHHHHHHHHhCccceEEE
Confidence            9999999999999999999999999995 99999999  99999999999999999999999   6788888885 8899


Q ss_pred             EeeecCCCChhccc
Q 041524          446 FAYSMRERTHAHRN  459 (524)
Q Consensus       446 ~~~sp~pGT~~~~~  459 (524)
                      +.|+|.|||+++..
T Consensus       391 ~~~~p~p~t~~~~~  404 (490)
T COG1032         391 SPFVPLPGTPLQEM  404 (490)
T ss_pred             eeeeCCCCCchhhc
Confidence            99999999999963

>PRK07094 biotin synthase; Provisional

Probab=99.95  E-value=2.4e-26  Score=236.79  Aligned_cols=186  Identities=17%  Similarity=0.291  Sum_probs=161.8

Q ss_pred             EEEEEEcccCCccCcccccCCCCCc-ccc-CChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGR-ERS-RPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~-~Rs-r~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      .+.|++|+||+++|+||.++...+. .|. .++++|+++++.+.+.|+++|.|.+.+-..+            .      
T Consensus        40 ~~~i~~s~gC~~~C~fC~~~~~~~~~~r~~ls~eei~~~~~~~~~~g~~~i~l~gG~~~~~------------~------  101 (323)
T PRK07094         40 RGLIEFSNYCRNNCLYCGLRRDNKNIERYRLSPEEILECAKKAYELGYRTIVLQSGEDPYY------------T------  101 (323)
T ss_pred             EEEEEECCCCCCCCEeCCcccCCCCCcCcCCCHHHHHHHHHHHHHCCCCEEEEecCCCCCC------------C------
Confidence            5689999999999999999876554 343 4999999999999999999999986542222            0      


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCC
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYT  392 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t  392 (524)
                                  ...+.++++.+.+. +.+.+.++   +...+++.++.|+++  |+.++.+|+||+|+++++.|+|+++
T Consensus       102 ------------~~~l~~l~~~i~~~-~~l~i~~~---~g~~~~e~l~~Lk~a--G~~~v~~glEs~~~~~~~~i~~~~s  163 (323)
T PRK07094        102 ------------DEKIADIIKEIKKE-LDVAITLS---LGERSYEEYKAWKEA--GADRYLLRHETADKELYAKLHPGMS  163 (323)
T ss_pred             ------------HHHHHHHHHHHHcc-CCceEEEe---cCCCCHHHHHHHHHc--CCCEEEeccccCCHHHHHHhCCCCC
Confidence                        24688888888775 34455443   345789999999999  9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          393 REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       393 ~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                      .++++++++.++++  |+.+.+++|+|+||||.+++.++++++++++++.+.+++|.|.||||++.
T Consensus       164 ~~~~~~~i~~l~~~--Gi~v~~~~iiGlpget~ed~~~~l~~l~~l~~~~v~~~~~~P~pgTpl~~  227 (323)
T PRK07094        164 FENRIACLKDLKEL--GYEVGSGFMVGLPGQTLEDLADDILFLKELDLDMIGIGPFIPHPDTPLKD  227 (323)
T ss_pred             HHHHHHHHHHHHHc--CCeecceEEEECCCCCHHHHHHHHHHHHhCCCCeeeeeccccCCCCCccc
Confidence            99999999999999  99999999999999999999999999999999999999999999999986

>PRK05904 coproporphyrinogen III oxidase; Provisional

Probab=99.95  E-value=1.7e-26  Score=239.77  Aligned_cols=219  Identities=13%  Similarity=0.209  Sum_probs=175.1

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCC-----ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCC
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRG-----RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGA  307 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G-----~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~  307 (524)
                      ....||.+ --|+.+|.||.++...+     .++.+..++|..|++.+....++.|+|.|.+.+..              
T Consensus         6 ~~~lYiHi-PFC~~kC~yC~f~~~~~~~~~~~~~~~~~~~l~~ei~~~~~~~~~tiy~GGGTPs~L--------------   70 (353)
T PRK05904          6 TKHLYIHI-PFCQYICTFCDFKRILKTPQTKKIFKDFLKNIKMHIKNFKIKQFKTIYLGGGTPNCL--------------   70 (353)
T ss_pred             eeEEEEEe-CCccCcCCCCCCeeccCCcccHHHHHHHHHHHHHHHHHhcCCCeEEEEECCCccccC--------------
Confidence            45577776 45999999999875422     13334455666666544323467777777554433              


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCC-ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP-EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~-~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                          +            ...+.+|++.+.+..+ ...+.+. .+|..+++|.+++|+++  ||++|++|+||+++++|+.
T Consensus        71 ----~------------~~~l~~ll~~i~~~~~~~~eitiE-~nP~~lt~e~l~~lk~~--G~nrisiGvQS~~d~vL~~  131 (353)
T PRK05904         71 ----N------------DQLLDILLSTIKPYVDNNCEFTIE-CNPELITQSQINLLKKN--KVNRISLGVQSMNNNILKQ  131 (353)
T ss_pred             ----C------------HHHHHHHHHHHHHhcCCCCeEEEE-eccCcCCHHHHHHHHHc--CCCEEEEecccCCHHHHHH
Confidence                1            2457778888776532 3355554 78999999999999999  9999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCC
Q 041524          387 MRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVP  465 (524)
Q Consensus       387 m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~  465 (524)
                      |+|+++.+++.++++.++++  |+. ++.|||+|+||||.+++++|++++.++++++++++.|+++|||++++. ...++
T Consensus       132 l~R~~~~~~~~~ai~~lr~~--G~~~v~~dlI~GlPgqt~e~~~~tl~~~~~l~p~~is~y~L~~~~gT~l~~~-~~~~~  208 (353)
T PRK05904        132 LNRTHTIQDSKEAINLLHKN--GIYNISCDFLYCLPILKLKDLDEVFNFILKHKINHISFYSLEIKEGSILKKY-HYTID  208 (353)
T ss_pred             cCCCCCHHHHHHHHHHHHHc--CCCcEEEEEeecCCCCCHHHHHHHHHHHHhcCCCEEEEEeeEecCCChHhhc-CCCCC
Confidence            99999999999999999999  875 999999999999999999999999999999999999999999999974 34578


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 041524          466 EEVKQRRLTELIEAFRESTGQCY  488 (524)
Q Consensus       466 ~~~k~~Rl~~l~~~~~~~~~~~~  488 (524)
                      ++.+.+++..+.+.+.+..+..|
T Consensus       209 ~~~~~~~~~~~~~~L~~~Gy~~y  231 (353)
T PRK05904        209 EDKEAEQLNYIKAKFNKLNYKRY  231 (353)
T ss_pred             hHHHHHHHHHHHHHHHHcCCcEE
Confidence            88888999888888877655554

>PRK05628 coproporphyrinogen III oxidase; Validated

Probab=99.94  E-value=1.3e-25  Score=235.85  Aligned_cols=218  Identities=17%  Similarity=0.207  Sum_probs=174.5

Q ss_pred             EEEEEEcccCCccCcccccCCCCC-ccc-c----CChHHHHHHHHHHHHC------CCcEEEEEeccCCCCCCccCCccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRG-RER-S----RPVESIVKEVDELWKE------GVKEVTLLGQNVNSYNDTSGMEKE  302 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G-~~R-s----r~~e~Iv~Ei~~l~~~------G~kei~l~d~n~~~y~~~~~~~~~  302 (524)
                      ..||.+ --|+++|+||.++...+ +.+ +    +.++.|.+||+...+.      .++.|+|.|.+++...        
T Consensus         4 ~lYiHi-PFC~~~C~yC~f~~~~~~~~~~~~~~~~Y~~~l~~Ei~~~~~~~~~~~~~i~~i~~GGGTPs~l~--------   74 (375)
T PRK05628          4 GVYVHV-PFCATRCGYCDFNTYTAAELGGGASPDGYLDALRAELELAAAVLGDPAPPVSTVFVGGGTPSLLG--------   74 (375)
T ss_pred             EEEEEe-CCcCCcCCCCCCCcccccccccccCHHHHHHHHHHHHHHHHHhhccCCCceeEEEeCCCccccCC--------
Confidence            567776 46999999999865433 222 2    3488999999987653      2667888777765441        


Q ss_pred             cCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC---ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCc
Q 041524          303 VEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP---EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTG  379 (524)
Q Consensus       303 ~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~---~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESg  379 (524)
                                            ...+.+|++.+.+..+   ...+.+. .+|..++++.++.|+++  ||++|++|+||+
T Consensus        75 ----------------------~~~l~~ll~~i~~~~~~~~~~e~t~e-~~p~~i~~e~l~~l~~~--G~~rvslGvQS~  129 (375)
T PRK05628         75 ----------------------AEGLARVLDAVRDTFGLAPGAEVTTE-ANPESTSPEFFAALRAA--GFTRVSLGMQSA  129 (375)
T ss_pred             ----------------------HHHHHHHHHHHHHhCCCCCCCEEEEE-eCCCCCCHHHHHHHHHc--CCCEEEEecccC
Confidence                                  2467888888876532   2344333 68999999999999999  999999999999


Q ss_pred             CHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          380 NSAVLERMRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       380 s~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                      ++++|+.|+|+++.+++.++++.+++.  |+. ++.|||+|+||||.+++++|++++.+++++++.+|+++++|||++++
T Consensus       130 ~~~~L~~l~R~~s~~~~~~a~~~l~~~--g~~~v~~dli~GlPgqt~~~~~~tl~~~~~l~~~~i~~y~l~~~~gT~l~~  207 (375)
T PRK05628        130 APHVLAVLDRTHTPGRAVAAAREARAA--GFEHVNLDLIYGTPGESDDDWRASLDAALEAGVDHVSAYALIVEDGTALAR  207 (375)
T ss_pred             CHHHHHHcCCCCCHHHHHHHHHHHHHc--CCCcEEEEEeccCCCCCHHHHHHHHHHHHhcCCCEEEeeeeecCCCChHHH
Confidence            999999999999999999999999999  887 99999999999999999999999999999999999999999999997


Q ss_pred             cCCC----CCCHHHHHHHHHHHHHHHHHHHHHHH
Q 041524          459 NYVD----DVPEEVKQRRLTELIEAFRESTGQCY  488 (524)
Q Consensus       459 ~~~~----~v~~~~k~~Rl~~l~~~~~~~~~~~~  488 (524)
                      .+..    .+++++..+++..+.+.+.+..+.++
T Consensus       208 ~~~~g~~~~~~~~~~~~~~~~~~~~l~~~G~~~y  241 (375)
T PRK05628        208 RVRRGELPAPDDDVLADRYELADARLSAAGFDWY  241 (375)
T ss_pred             HhhcCCCCCCChHHHHHHHHHHHHHHHHcCCCee
Confidence            5432    34566777777777776665544433

>PRK08599 coproporphyrinogen III oxidase; Provisional

Probab=99.94  E-value=8.1e-26  Score=237.60  Aligned_cols=213  Identities=17%  Similarity=0.313  Sum_probs=170.0

Q ss_pred             eEEEEEEcccCCccCcccccCCC--CCccccCChHHHHHHHHHHHHC---CCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFT--RGRERSRPVESIVKEVDELWKE---GVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~--~G~~Rsr~~e~Iv~Ei~~l~~~---G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ...||.|-- |+++|+||.++..  .++.+.+.++.|++||+.+...   +++.|+|.|.+++..               
T Consensus         2 ~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~i~~i~~gGGtpt~l---------------   65 (377)
T PRK08599          2 TSAYIHIPF-CEHICYYCDFNKVFIKNQPVDEYLDALIKEMNTYAIRPFDKLKTIYIGGGTPTAL---------------   65 (377)
T ss_pred             ceEEEEeCC-cCCCCCCCCCeeeccCccCHHHHHHHHHHHHHHhhhcCCCceeEEEeCCCCcccC---------------
Confidence            357888875 9999999998753  4455678899999999876554   466676666554432               


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhCCc---eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHh
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE---MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLE  385 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~---~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~  385 (524)
                                     ....+.++++.+.+..+.   ..+.+. .+|..++++.++.|+++  ||+++++|+||+++++|+
T Consensus        66 ---------------~~~~l~~ll~~i~~~~~~~~~~eit~e-~~p~~l~~e~l~~l~~~--G~~rvsiGvqS~~~~~l~  127 (377)
T PRK08599         66 ---------------SAEQLERLLTAIHRNLPLSGLEEFTFE-ANPGDLTKEKLQVLKDS--GVNRISLGVQTFNDELLK  127 (377)
T ss_pred             ---------------CHHHHHHHHHHHHHhCCCCCCCEEEEE-eCCCCCCHHHHHHHHHc--CCCEEEEecccCCHHHHH
Confidence                           124688888888776432   245444 79999999999999999  999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCC-C
Q 041524          386 RMRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVD-D  463 (524)
Q Consensus       386 ~m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~-~  463 (524)
                      .|+|+++.+++.++++.++++  |+. ++.|||+|+||||.++++++++++.+++++++.+|+++|+|||+++..+.. .
T Consensus       128 ~l~r~~~~~~~~~~i~~l~~~--g~~~v~~dli~GlPgqt~~~~~~~l~~~~~l~~~~i~~y~l~~~pgT~~~~~~~~g~  205 (377)
T PRK08599        128 KIGRTHNEEDVYEAIANAKKA--GFDNISIDLIYALPGQTIEDFKESLAKALALDIPHYSAYSLILEPKTVFYNLMRKGK  205 (377)
T ss_pred             HcCCCCCHHHHHHHHHHHHHc--CCCcEEEeeecCCCCCCHHHHHHHHHHHHccCCCEEeeeceeecCCChhHHHHhcCC
Confidence            999999999999999999999  875 889999999999999999999999999999999999999999999875432 1


Q ss_pred             ---CCHHHHHHHHHHHHHHHHH
Q 041524          464 ---VPEEVKQRRLTELIEAFRE  482 (524)
Q Consensus       464 ---v~~~~k~~Rl~~l~~~~~~  482 (524)
                         .+++...+..+.+.+.+.+
T Consensus       206 ~~~~~~~~~~~~~~~~~~~l~~  227 (377)
T PRK08599        206 LRLPGEDLEAEMYEYLMDEMEA  227 (377)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHH
Confidence               2344444444444444443

>TIGR00510 lipA lipoate synthase

Probab=99.94  E-value=3.2e-25  Score=224.11  Aligned_cols=195  Identities=21%  Similarity=0.313  Sum_probs=168.9

Q ss_pred             CCCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          231 KNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       231 ~~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      ..+..+||.+++||+++|+||+++..+|+.++ ++++++++++.+.+.|+++|.|++.+...+.+          +    
T Consensus        60 ~~~tatfm~i~~gC~~~C~FC~v~~~rg~~~~-~~eei~~~a~~~~~~GlkevvLTsv~~ddl~d----------~----  124 (302)
T TIGR00510        60 NHGTATFMILGDICTRRCPFCDVAHGRNPLPP-DPEEPAKLAETIKDMGLKYVVITSVDRDDLED----------G----  124 (302)
T ss_pred             CCCEEEEEecCcCcCCCCCcCCccCCCCCCCC-CHHHHHHHHHHHHHCCCCEEEEEeecCCCccc----------c----
Confidence            45678999999999999999999988887665 57999999999999999999999877543311          0    


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG  390 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~  390 (524)
                                   +...+.+++++|.+..+...+++.++++.. +.+.++.|+++  |+..+..++|+. +++++.|+|+
T Consensus       125 -------------g~~~l~~li~~I~~~~p~i~Ievl~~d~~g-~~e~l~~l~~a--G~dv~~hnlEt~-~~l~~~vrr~  187 (302)
T TIGR00510       125 -------------GASHLAECIEAIREKLPNIKIETLVPDFRG-NIAALDILLDA--PPDVYNHNLETV-ERLTPFVRPG  187 (302)
T ss_pred             -------------cHHHHHHHHHHHHhcCCCCEEEEeCCcccC-CHHHHHHHHHc--Cchhhcccccch-HHHHHHhCCC
Confidence                         124699999999987777778776655443 78899999999  999999999987 8999999999


Q ss_pred             CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeee-c-CCCChhcc
Q 041524          391 YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYS-M-RERTHAHR  458 (524)
Q Consensus       391 ~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~s-p-~pGT~~~~  458 (524)
                      ++.++++++++.+++..||+.+.++||+|| |||+||+.+|++++++++++.+.+++|. | .+++|..+
T Consensus       188 ~t~e~~Le~l~~ak~~~pgi~~~TgiIVGl-GETeee~~etl~~Lrelg~d~v~igqYl~p~~~~~~v~~  256 (302)
T TIGR00510       188 ATYRWSLKLLERAKEYLPNLPTKSGIMVGL-GETNEEIKQTLKDLRDHGVTMVTLGQYLRPSRRHLPVKR  256 (302)
T ss_pred             CCHHHHHHHHHHHHHhCCCCeecceEEEEC-CCCHHHHHHHHHHHHhcCCCEEEeecccCCCCCCCcccc
Confidence            999999999999999999999999999999 9999999999999999999999999984 5 46666654

The family shows strong sequence conservation.

>PRK07379 coproporphyrinogen III oxidase; Provisional

Probab=99.94  E-value=3.5e-25  Score=234.06  Aligned_cols=222  Identities=18%  Similarity=0.214  Sum_probs=172.4

Q ss_pred             CCccccCCCeEEEEEEcccCCccCcccccCCC-CCc-cc-------cCChHHHHHHHHHHHHC--CCcEEEEEeccCCCC
Q 041524          225 SPVRISKNSVTAFVSVMRGCNNMCSFCIVPFT-RGR-ER-------SRPVESIVKEVDELWKE--GVKEVTLLGQNVNSY  293 (524)
Q Consensus       225 ~p~r~~~~~~~a~v~isRGC~~~CsFC~vp~~-~G~-~R-------sr~~e~Iv~Ei~~l~~~--G~kei~l~d~n~~~y  293 (524)
                      ||+.+.......||.+ --|+.+|.||.++.. .|+ .+       .+.++.+++||+.....  +++.|+|.|.+.+..
T Consensus         2 ~~~~~~~~~~~lYiHi-PFC~~~C~YC~f~~~~~~~~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~i~~iy~GGGTps~l   80 (400)
T PRK07379          2 PPVGFILLPTSAYIHI-PFCRRRCFYCDFPISVVGDRTRGGTSGLIEEYVEVLCQEIAITPSFGQPLQTVFFGGGTPSLL   80 (400)
T ss_pred             CCCCCCCCccEEEEEe-ccccCcCCCCCCccccccccccccccchHHHHHHHHHHHHHHhhccCCceeEEEECCCccccC
Confidence            3444444455788887 669999999998753 221 11       22467888998875433  577888877665543


Q ss_pred             CCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCc---eEEEEecCCCCCCCHHHHHHHHcCCCCcc
Q 041524          294 NDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE---MRFRYTSPHPKDFPDELLYIMRDRPNVCK  370 (524)
Q Consensus       294 ~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~---~~ir~~s~~p~~~~~elL~~l~~~~~G~~  370 (524)
                                                    ....+.++++.+.+..+.   ..+++. .+|..++++.++.|+++  |++
T Consensus        81 ------------------------------~~~~l~~ll~~i~~~~~~~~~~eit~E-~~P~~lt~e~l~~l~~~--Gvn  127 (400)
T PRK07379         81 ------------------------------SVEQLERILTTLDQRFGIAPDAEISLE-IDPGTFDLEQLQGYRSL--GVN  127 (400)
T ss_pred             ------------------------------CHHHHHHHHHHHHHhCCCCCCCEEEEE-eCCCcCCHHHHHHHHHC--CCC
Confidence                                          124688888888775433   356555 78999999999999999  999


Q ss_pred             eeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeee
Q 041524          371 YIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYS  449 (524)
Q Consensus       371 ~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~s  449 (524)
                      +|++|+||+++++|+.|+|+++.+++.++++.++++  |+. ++.|||+|+||||.+++++|++++.++++++++++.++
T Consensus       128 rislGvQS~~d~~L~~l~R~~~~~~~~~ai~~l~~~--G~~~v~~dlI~GlPgqt~e~~~~tl~~~~~l~p~~is~y~L~  205 (400)
T PRK07379        128 RVSLGVQAFQDELLALCGRSHRVKDIFAAVDLIHQA--GIENFSLDLISGLPHQTLEDWQASLEAAIALNPTHLSCYDLV  205 (400)
T ss_pred             EEEEEcccCCHHHHHHhCCCCCHHHHHHHHHHHHHc--CCCeEEEEeecCCCCCCHHHHHHHHHHHHcCCCCEEEEecce
Confidence            999999999999999999999999999999999999  886 99999999999999999999999999999999999999


Q ss_pred             cCCCChhcccCCC---CC-CHHHHHHHHHHHHHHHHH
Q 041524          450 MRERTHAHRNYVD---DV-PEEVKQRRLTELIEAFRE  482 (524)
Q Consensus       450 p~pGT~~~~~~~~---~v-~~~~k~~Rl~~l~~~~~~  482 (524)
                      +.|||++++.+..   .. +++...+......+.+.+
T Consensus       206 ~~pgT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~  242 (400)
T PRK07379        206 LEPGTAFGKQYQPGKAPLPSDETTAAMYRLAQEILTQ  242 (400)
T ss_pred             ecCCchhHHHhhcCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            9999999975431   12 334444444444444443

>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA

Probab=99.94  E-value=3.2e-26  Score=193.84  Aligned_cols=98  Identities=46%  Similarity=0.721  Sum_probs=90.9

Q ss_pred             cEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCCCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccc
Q 041524           78 RIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVPENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQ  157 (524)
Q Consensus        78 ~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~  157 (524)
                      |+|++||||+||++|+|.|.+.|.+.||+. ++++++||+|+||||+|+++|+++++++|+++..++             
T Consensus         1 Kv~i~T~GC~~N~~Dse~i~~~l~~~G~~~-~~~~e~AD~iiiNTC~V~~~Ae~k~~~~i~~l~~~~-------------   66 (98)
T PF00919_consen    1 KVYIETLGCQMNQYDSERIASILQAAGYEI-VDDPEEADVIIINTCTVRESAEQKSRNRIRKLKKLK-------------   66 (98)
T ss_pred             CEEEEECCCcccHHHHHHHHHHHHhcCCee-ecccccCCEEEEEcCCCCcHHHHHHHHHHHHHHHhc-------------
Confidence            689999999999999999999999999997 899999999999999999999999999999883221             


Q ss_pred             cCCCCEEEEEcccccccHHHHHhhCCcceEEEC
Q 041524          158 SKHPPKIVVLGCMAERLKDKILDADKMVDVVCG  190 (524)
Q Consensus       158 ~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~  190 (524)
                       +|+.+|+|+||+|+..++++.+..|.||+|+|
T Consensus        67 -~~~~~ivv~GC~aq~~~~~l~~~~p~vd~v~G   98 (98)
T PF00919_consen   67 -KPGAKIVVTGCMAQRYGEELKKEFPEVDLVVG   98 (98)
T ss_pred             -CCCCEEEEEeCccccChHHHHhhCCCeEEEeC
Confidence             38899999999999999999999999999986

A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification

>PRK12928 lipoyl synthase; Provisional

Probab=99.94  E-value=5.5e-25  Score=221.96  Aligned_cols=211  Identities=21%  Similarity=0.280  Sum_probs=170.9

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ....+||.+++||+++|+||+++.  |+.+++++++++++++.+.+.|+++|.+++.+...+.+          +     
T Consensus        58 ~~~~tfv~is~gC~~~C~FCa~~~--g~~~~~~~eei~~~a~~~~~~G~keivitg~~~dDl~d----------~-----  120 (290)
T PRK12928         58 QGTATFLIMGSICTRRCAFCQVDK--GRPMPLDPDEPERVAEAVAALGLRYVVLTSVARDDLPD----------G-----  120 (290)
T ss_pred             CCEEEEEEecccccCcCCCCCccC--CCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEeCCcccc----------c-----
Confidence            567899999999999999999986  66678999999999999999999999999866422200          0     


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                                  +...+.++++.|.+..+..+++..++++.....+.|..|+++  |+..+..++|| ++++++.|+|++
T Consensus       121 ------------g~~~~~ell~~Ik~~~p~~~I~~ltp~~~~~~~e~L~~l~~A--g~~i~~hnlEt-~~~vl~~m~r~~  185 (290)
T PRK12928        121 ------------GAAHFVATIAAIRARNPGTGIEVLTPDFWGGQRERLATVLAA--KPDVFNHNLET-VPRLQKAVRRGA  185 (290)
T ss_pred             ------------CHHHHHHHHHHHHhcCCCCEEEEeccccccCCHHHHHHHHHc--CchhhcccCcC-cHHHHHHhCCCC
Confidence                        124689999999998887787765554332257788888888  88888888986 699999999999


Q ss_pred             CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec--CCCChhcccCCCCCCHHHH
Q 041524          392 TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM--RERTHAHRNYVDDVPEEVK  469 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp--~pGT~~~~~~~~~v~~~~k  469 (524)
                      +.+++++.++.+++..|++.+.++||+|| |||+||+.++++++++++++.+++|+|.+  ....|..+        -+.
T Consensus       186 t~e~~le~l~~ak~~gp~i~~~s~iIvG~-GET~ed~~etl~~Lrel~~d~v~i~~Yl~p~~~~~~v~~--------~~~  256 (290)
T PRK12928        186 DYQRSLDLLARAKELAPDIPTKSGLMLGL-GETEDEVIETLRDLRAVGCDRLTIGQYLRPSLAHLPVQR--------YWT  256 (290)
T ss_pred             CHHHHHHHHHHHHHhCCCceecccEEEeC-CCCHHHHHHHHHHHHhcCCCEEEEEcCCCCCccCCceee--------ccC
Confidence            99999999999999978899999999999 99999999999999999999999999976  33344432        234


Q ss_pred             HHHHHHHHHHHHHH
Q 041524          470 QRRLTELIEAFRES  483 (524)
Q Consensus       470 ~~Rl~~l~~~~~~~  483 (524)
                      .+.++++.+...++
T Consensus       257 ~~~f~~~~~~~~~~  270 (290)
T PRK12928        257 PEEFEALGQIAREL  270 (290)
T ss_pred             HHHHHHHHHHHHHc
Confidence            44555555544443

>PRK08207 coproporphyrinogen III oxidase; Provisional

Probab=99.93  E-value=8.6e-25  Score=235.16  Aligned_cols=222  Identities=21%  Similarity=0.313  Sum_probs=175.6

Q ss_pred             CCeEEEEEEcccCCccCcccccCCC--CC-c-cccCChHHHHHHHHHHHHC------CCcEEEEEeccCCCCCCccCCcc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFT--RG-R-ERSRPVESIVKEVDELWKE------GVKEVTLLGQNVNSYNDTSGMEK  301 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~--~G-~-~Rsr~~e~Iv~Ei~~l~~~------G~kei~l~d~n~~~y~~~~~~~~  301 (524)
                      ...+.||.+ -.||.+|.||.++..  .+ + .....++.+++||+.+.+.      ++..|+|.|.+.+..        
T Consensus       162 ~~~sLYihI-PFC~~~C~YCsf~s~~~~~~~~~~~~Y~~aL~~EI~~~~~~~~~~~~~v~tIyfGGGTPt~L--------  232 (488)
T PRK08207        162 NEVSIYIGI-PFCPTRCLYCSFPSYPIKGYKGLVEPYLEALHYEIEEIGKYLKEKGLKITTIYFGGGTPTSL--------  232 (488)
T ss_pred             CceEEEEec-CCCCCcCCCCCCccccCCCCcchHHHHHHHHHHHHHHHHhhhcccCCceeEEEEeCCCccCC--------
Confidence            456788886 679999999998764  12 1 1224589999999987532      456777777655433        


Q ss_pred             ccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcC
Q 041524          302 EVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQ  377 (524)
Q Consensus       302 ~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiE  377 (524)
                                            ....+.+|++.+.+..+    ...+.++..+|+.++++.++.|+++  |+++|+||+|
T Consensus       233 ----------------------~~~~L~~Ll~~i~~~f~~~~~~~EiTvE~grPd~it~e~L~~Lk~~--Gv~RISIGvQ  288 (488)
T PRK08207        233 ----------------------TAEELERLLEEIYENFPDVKNVKEFTVEAGRPDTITEEKLEVLKKY--GVDRISINPQ  288 (488)
T ss_pred             ----------------------CHHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCHHHHHHHHhc--CCCeEEEcCC
Confidence                                  12468888888876542    2245566569999999999999999  9999999999


Q ss_pred             CcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChh
Q 041524          378 TGNSAVLERMRRGYTREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHA  456 (524)
Q Consensus       378 Sgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~  456 (524)
                      |+++++|+.|+|+++.+++.++++.++++  |+ .++.|||+|+||||.+++.+|++++.++++++++++.+++.|||++
T Consensus       289 S~~d~vLk~igR~ht~e~v~~ai~~ar~~--Gf~~In~DLI~GLPgEt~ed~~~tl~~l~~L~pd~isv~~L~i~~gT~l  366 (488)
T PRK08207        289 TMNDETLKAIGRHHTVEDIIEKFHLAREM--GFDNINMDLIIGLPGEGLEEVKHTLEEIEKLNPESLTVHTLAIKRASRL  366 (488)
T ss_pred             cCCHHHHHHhCCCCCHHHHHHHHHHHHhC--CCCeEEEEEEeCCCCCCHHHHHHHHHHHHhcCcCEEEEEeceEcCCChH
Confidence            99999999999999999999999999999  88 8999999999999999999999999999999999999999999999


Q ss_pred             cccCCC-CC-CHHHHHHHHHHHHHHHHHHHHHHH
Q 041524          457 HRNYVD-DV-PEEVKQRRLTELIEAFRESTGQCY  488 (524)
Q Consensus       457 ~~~~~~-~v-~~~~k~~Rl~~l~~~~~~~~~~~~  488 (524)
                      ++.+.. .+ +.+...+.+....+.+++.....|
T Consensus       367 ~~~~~~~~~~~~~~~~~m~~~a~~~l~~~Gy~~Y  400 (488)
T PRK08207        367 TENKEKYKVADREEIEKMMEEAEEWAKELGYVPY  400 (488)
T ss_pred             HHhcCcCCCcCHHHHHHHHHHHHHHHHHcCCHhh
Confidence            975421 22 344444555556666655555554

>PRK09058 coproporphyrinogen III oxidase; Provisional

Probab=99.93  E-value=6e-25  Score=235.46  Aligned_cols=193  Identities=19%  Similarity=0.266  Sum_probs=162.1

Q ss_pred             CeEEEEEEcccCCccCcccccCCC--CCccccCChHHHHHHHHHHHHC------CCcEEEEEeccCCCCCCccCCccccC
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFT--RGRERSRPVESIVKEVDELWKE------GVKEVTLLGQNVNSYNDTSGMEKEVE  304 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~--~G~~Rsr~~e~Iv~Ei~~l~~~------G~kei~l~d~n~~~y~~~~~~~~~~~  304 (524)
                      ....||.|=- |+++|+||.+...  .+..+.+.++.+++||+...+.      .++.|+|.|.+.+..           
T Consensus        61 ~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~~~~~i~~iy~GGGTPs~L-----------  128 (449)
T PRK09058         61 KRLLYIHIPF-CRTHCTFCGFFQNAWNPEAVARYTDALIRELAMEADSPLTQSAPIHAVYFGGGTPTAL-----------  128 (449)
T ss_pred             ceEEEEEeCC-cCCcCCCCCCcCcCCchhhHHHHHHHHHHHHHHHhhccccCCCeeeEEEECCCccccC-----------
Confidence            4578898844 9999999997543  2234567899999999987652      356677777655443           


Q ss_pred             CCCccccccCcccchhcccchhhHHHHHHHHHhhCC---ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCH
Q 041524          305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP---EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNS  381 (524)
Q Consensus       305 ~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~---~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~  381 (524)
                                         ....+.+|++.+.+..+   ...+.+. .+|..++++.++.|+++  ||++|+||+||+++
T Consensus       129 -------------------~~~~l~~ll~~i~~~~~l~~~~eitiE-~~p~~~t~e~l~~l~~a--GvnRiSiGVQSf~d  186 (449)
T PRK09058        129 -------------------SAEDLARLITALREYLPLAPDCEITLE-GRINGFDDEKADAALDA--GANRFSIGVQSFNT  186 (449)
T ss_pred             -------------------CHHHHHHHHHHHHHhCCCCCCCEEEEE-eCcCcCCHHHHHHHHHc--CCCEEEecCCcCCH
Confidence                               12467888888877544   2345554 78999999999999999  99999999999999


Q ss_pred             HHHhhhCCCCCHHHHHHHHHHHHHhCCC-cEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccC
Q 041524          382 AVLERMRRGYTREAYLDLVQKIRQIIPD-VGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNY  460 (524)
Q Consensus       382 ~vL~~m~R~~t~e~~~~~v~~ir~~~pg-i~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~  460 (524)
                      ++|+.|+|+++.+++.++++.+++.  | ..++.|||+|+||||.++++++++++.+++++++.+|.|+++|||++++.+
T Consensus       187 ~vLk~lgR~~~~~~~~~~i~~l~~~--g~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~~~~is~y~L~~~pgT~l~~~~  264 (449)
T PRK09058        187 QVRRRAGRKDDREEVLARLEELVAR--DRAAVVCDLIFGLPGQTPEIWQQDLAIVRDLGLDGVDLYALNLLPGTPLAKAV  264 (449)
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHhC--CCCcEEEEEEeeCCCCCHHHHHHHHHHHHhcCCCEEEEeccccCCCCHHHHHH
Confidence            9999999999999999999999999  7 689999999999999999999999999999999999999999999999754


Q ss_pred             C
Q 041524          461 V  461 (524)
Q Consensus       461 ~  461 (524)
                      .
T Consensus       265 ~  265 (449)
T PRK09058        265 E  265 (449)
T ss_pred             H
Confidence            3

>PRK05799 coproporphyrinogen III oxidase; Provisional

Probab=99.93  E-value=4.4e-25  Score=231.85  Aligned_cols=191  Identities=17%  Similarity=0.277  Sum_probs=157.5

Q ss_pred             EEEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHH-CCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWK-EGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~-~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ..||.+=. |+++|+||.++...++  .+.+.++.|++|++.+.. .+++.|+|.|.+.+...                 
T Consensus         5 ~lYiHiPf-C~~~C~yC~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~i~~gGGtps~l~-----------------   66 (374)
T PRK05799          5 SLYIHIPF-CKQKCLYCDFPSYSGKEDLMMEYIKALSKEIRNSTKNKKIKSIFIGGGTPTYLS-----------------   66 (374)
T ss_pred             EEEEEeCC-ccCCCCCCCCCcccCCcchHHHHHHHHHHHHHhhcCCCceeEEEECCCcccCCC-----------------
Confidence            57777744 9999999999876554  334569999999987643 25778888776655331                 


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhC--CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEF--PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR  389 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~--~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R  389 (524)
                                   ...+..|++.+....  +...+.+. .+|..++++.++.|+++  ||++|+||+||+++++|+.|+|
T Consensus        67 -------------~~~l~~L~~~i~~~~~~~~~eitie-~~p~~~t~e~l~~l~~~--G~~rvsiGvqS~~d~~L~~l~R  130 (374)
T PRK05799         67 -------------LEALEILKETIKKLNKKEDLEFTVE-GNPGTFTEEKLKILKSM--GVNRLSIGLQAWQNSLLKYLGR  130 (374)
T ss_pred             -------------HHHHHHHHHHHHhCCCCCCCEEEEE-eCCCcCCHHHHHHHHHc--CCCEEEEECccCCHHHHHHcCC
Confidence                         124556666665421  22344444 68999999999999999  9999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCC
Q 041524          390 GYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYV  461 (524)
Q Consensus       390 ~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~  461 (524)
                      +++.+++.++++.++++  |+. ++.|+|+|+||||.++++++++++.+++++++++|.++++|||++++.+.
T Consensus       131 ~~~~~~~~~ai~~l~~~--g~~~v~~dli~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~  201 (374)
T PRK05799        131 IHTFEEFLENYKLARKL--GFNNINVDLMFGLPNQTLEDWKETLEKVVELNPEHISCYSLIIEEGTPFYNLYE  201 (374)
T ss_pred             CCCHHHHHHHHHHHHHc--CCCcEEEEeecCCCCCCHHHHHHHHHHHHhcCCCEEEEeccEecCCCHHHHHHh
Confidence            99999999999999999  875 89999999999999999999999999999999999999999999997554

>PRK08446 coproporphyrinogen III oxidase; Provisional

Probab=99.93  E-value=2.1e-24  Score=224.40  Aligned_cols=191  Identities=12%  Similarity=0.187  Sum_probs=159.2

Q ss_pred             EEEEEcccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHC----CCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKE----GVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~----G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      .||.+ --|+.+|.||.++...+  ..+.+.++.+++||+...+.    +++.|+|.|.+++..                
T Consensus         3 lYiHi-PFC~~~C~yC~f~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~v~~iyfGGGTPs~l----------------   65 (350)
T PRK08446          3 LYIHI-PFCESKCGYCAFNSYENKHDLKKEYMQALCLDLKFELEQFTDEKIESVFIGGGTPSTV----------------   65 (350)
T ss_pred             EEEEe-CCccCcCCCCCCcCcCCCcccHHHHHHHHHHHHHHHHhhccCCceeEEEECCCccccC----------------
Confidence            46665 55999999999865522  24556899999999976532    677888877665543                


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhh-CCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLE-FPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR  388 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~-~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~  388 (524)
                                    ....+.+|++.+... .....+.+. .+|..++++.++.|+++  |+++|+||+||+++++|+.|+
T Consensus        66 --------------~~~~l~~ll~~i~~~~~~~~eitiE-~nP~~~~~e~l~~l~~~--GvnRiSiGvQS~~~~~L~~lg  128 (350)
T PRK08446         66 --------------SAKFYEPIFEIISPYLSKDCEITTE-ANPNSATKAWLKGMKNL--GVNRISFGVQSFNEDKLKFLG  128 (350)
T ss_pred             --------------CHHHHHHHHHHHHHhcCCCceEEEE-eCCCCCCHHHHHHHHHc--CCCEEEEecccCCHHHHHHcC
Confidence                          024577777777664 223455554 68999999999999999  999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCC
Q 041524          389 RGYTREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVD  462 (524)
Q Consensus       389 R~~t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~  462 (524)
                      |+++.+++.++++.++++  |+ .++.|+|+|+||||.++++++++++.++++++++++.|++.|||++++....
T Consensus       129 R~~~~~~~~~ai~~lr~~--g~~~v~iDli~GlPgqt~~~~~~~l~~~~~l~~~~is~y~L~~~~gT~l~~~~~~  201 (350)
T PRK08446        129 RIHSQKQIIKAIENAKKA--GFENISIDLIYDTPLDNKKLLKEELKLAKELPINHLSAYSLTIEENTPFFEKNHK  201 (350)
T ss_pred             CCCCHHHHHHHHHHHHHc--CCCEEEEEeecCCCCCCHHHHHHHHHHHHhcCCCEEEeccceecCCChhHHhhhc
Confidence            999999999999999999  88 5899999999999999999999999999999999999999999999975543

>PRK09057 coproporphyrinogen III oxidase; Provisional

Probab=99.92  E-value=8.9e-24  Score=222.12  Aligned_cols=214  Identities=16%  Similarity=0.121  Sum_probs=171.1

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc-c-ccCChHHHHHHHHHHHHC----CCcEEEEEeccCCCCCCccCCccccCCCC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR-E-RSRPVESIVKEVDELWKE----GVKEVTLLGQNVNSYNDTSGMEKEVEPGA  307 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~-~-Rsr~~e~Iv~Ei~~l~~~----G~kei~l~d~n~~~y~~~~~~~~~~~~g~  307 (524)
                      ...||.+ --|.++|+||.+...... . ..+.++.+++||+...+.    .++.|+|.|.+.+..              
T Consensus         5 ~~lYiHI-PFC~~kC~yC~f~~~~~~~~~~~~Y~~aL~~Ei~~~~~~~~~~~i~tiy~GGGTPs~l--------------   69 (380)
T PRK09057          5 FGLYVHW-PFCLAKCPYCDFNSHVRHAIDQARFAAAFLRELATEAARTGPRTLTSIFFGGGTPSLM--------------   69 (380)
T ss_pred             eEEEEEe-CCcCCcCCCCCCcccCcCcCCHHHHHHHHHHHHHHHHHHcCCCCcCeEEeCCCccccC--------------
Confidence            3577776 669999999998654321 1 234788999999976543    466777776554433              


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCCc---eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHH
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE---MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVL  384 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~---~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL  384 (524)
                                      ....+.+|++.+.+..+.   ..+.+. .+|..++.+.|+.|+++  |+++|++|+||+++++|
T Consensus        70 ----------------~~~~L~~ll~~i~~~f~~~~~~eit~E-~~P~~i~~e~L~~l~~~--GvnrislGvQS~~d~vL  130 (380)
T PRK09057         70 ----------------QPETVAALLDAIARLWPVADDIEITLE-ANPTSVEAGRFRGYRAA--GVNRVSLGVQALNDADL  130 (380)
T ss_pred             ----------------CHHHHHHHHHHHHHhCCCCCCccEEEE-ECcCcCCHHHHHHHHHc--CCCEEEEecccCCHHHH
Confidence                            124688888888776443   245554 68999999999999999  99999999999999999


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCC--
Q 041524          385 ERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVD--  462 (524)
Q Consensus       385 ~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~--  462 (524)
                      +.|+|+++.+++.++++.++++  +..++.|+|+|+||||.++++++++.+.+++++++.++++++.|||++++.+..  
T Consensus       131 ~~l~R~~~~~~~~~ai~~~~~~--~~~v~~dli~GlPgqt~~~~~~~l~~~~~l~p~~is~y~L~~~~gT~l~~~~~~g~  208 (380)
T PRK09057        131 RFLGRLHSVAEALAAIDLAREI--FPRVSFDLIYARPGQTLAAWRAELKEALSLAADHLSLYQLTIEEGTAFYGLHAAGK  208 (380)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHh--CccEEEEeecCCCCCCHHHHHHHHHHHHhcCCCeEEeecceecCCChHHHHHhcCC
Confidence            9999999999999999999999  888999999999999999999999999999999999999999999999975432  


Q ss_pred             --CCCHHHHHHHHHHHHHHHHHH
Q 041524          463 --DVPEEVKQRRLTELIEAFRES  483 (524)
Q Consensus       463 --~v~~~~k~~Rl~~l~~~~~~~  483 (524)
                        ..+++...+.+..+.+.+.+.
T Consensus       209 ~~~~~~~~~~~~~~~~~~~L~~~  231 (380)
T PRK09057        209 LILPDEDLAADLYELTQEITAAA  231 (380)
T ss_pred             CCCCChHHHHHHHHHHHHHHHHc
Confidence              123455556666666666544

>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase

Probab=99.92  E-value=1e-23  Score=220.36  Aligned_cols=210  Identities=12%  Similarity=0.174  Sum_probs=162.5

Q ss_pred             EEEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHH-CC---CcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWK-EG---VKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~-~G---~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ..||.+ --|+.+|.||.+......  ......+.+++||+...+ .|   ++.|+|.|.+.+..               
T Consensus         2 ~lYiHi-PFC~~~C~yC~f~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~v~~i~~GGGtPs~l---------------   65 (360)
T TIGR00539         2 SLYIHI-PFCENKCGYCDFNSYENKSGPKEEYTQALCQDLKHALSQTDQEPLESIFIGGGTPNTL---------------   65 (360)
T ss_pred             EEEEEe-CCCcCcCCCCCCcccCcCccCHHHHHHHHHHHHHHHHHhcCCCcccEEEeCCCchhcC---------------
Confidence            356666 449999999998654222  122357788888876543 24   67788777655433               


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhC---CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHh
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEF---PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLE  385 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~---~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~  385 (524)
                                     ....+.++++.+.+..   ....+.+. .+|..++++.++.|+++  ||++|++|+||+++++|+
T Consensus        66 ---------------~~~~l~~ll~~i~~~~~~~~~~eitie-~np~~lt~e~l~~l~~~--Gv~risiGvqS~~~~~l~  127 (360)
T TIGR00539        66 ---------------SVEAFERLFESIYQHASLSDDCEITTE-ANPELITAEWCKGLKGA--GINRLSLGVQSFRDDKLL  127 (360)
T ss_pred             ---------------CHHHHHHHHHHHHHhCCCCCCCEEEEE-eCCCCCCHHHHHHHHHc--CCCEEEEecccCChHHHH
Confidence                           0245777887776543   23455555 69999999999999999  999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCC
Q 041524          386 RMRRGYTREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDV  464 (524)
Q Consensus       386 ~m~R~~t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v  464 (524)
                      .|+|+++.+++.++++.++++  |+ .++.|||+|+||||.+++.++++++.++++++++++.|+|.|||++++......
T Consensus       128 ~lgR~~~~~~~~~ai~~l~~~--G~~~v~~dli~GlPgqt~~~~~~~l~~~~~l~~~~is~y~l~~~~gT~~~~~~~~~~  205 (360)
T TIGR00539       128 FLGRQHSAKNIAPAIETALKS--GIENISLDLMYGLPLQTLNSLKEELKLAKELPINHLSAYALSVEPNTNFEKNAKKLP  205 (360)
T ss_pred             HhCCCCCHHHHHHHHHHHHHc--CCCeEEEeccCCCCCCCHHHHHHHHHHHHccCCCEEEeecceEcCCChhhhhhhcCc
Confidence            999999999999999999999  88 589999999999999999999999999999999999999999999997544322


Q ss_pred             CHHHHHHHHHHHHHHH
Q 041524          465 PEEVKQRRLTELIEAF  480 (524)
Q Consensus       465 ~~~~k~~Rl~~l~~~~  480 (524)
                      .++...+......+.+
T Consensus       206 ~~~~~~~~~~~~~~~L  221 (360)
T TIGR00539       206 DDDSCAHFDEVVREIL  221 (360)
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            3333333334444433

Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo.

>TIGR01210 conserved hypothetical protein TIGR01210

Probab=99.92  E-value=6.6e-24  Score=217.04  Aligned_cols=193  Identities=13%  Similarity=0.134  Sum_probs=153.3

Q ss_pred             eEEEEEEcccCCc----cCcccccCCCCCccccCChHHHHHHHHHHHHC-CCcE----E-EEEeccCCCCCCccCCcccc
Q 041524          234 VTAFVSVMRGCNN----MCSFCIVPFTRGRERSRPVESIVKEVDELWKE-GVKE----V-TLLGQNVNSYNDTSGMEKEV  303 (524)
Q Consensus       234 ~~a~v~isRGC~~----~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G~ke----i-~l~d~n~~~y~~~~~~~~~~  303 (524)
                      ....|.++||||+    +|+||....  +.+|.++++.|+++|+.+.+. +.+.    + .|+++.|....         
T Consensus        15 ~~~~i~~srGC~~~~~g~C~FC~~~~--~~~r~~s~e~i~~~i~~~~~~~~~~~~~~~ikif~sgsf~D~~---------   83 (313)
T TIGR01210        15 SLTIILRTRGCYWAREGGCYMCGYLA--DSSPEVTEENLINQFDEAIEKYKEKIKDFVIKIFTSGSFLDDR---------   83 (313)
T ss_pred             eEEEEEeCCCCCCCCCCcCccCCCCC--CCCCCCChhHHHHHHHHHHHHhhcccccEEEEEecCCCcCCcC---------
Confidence            4456788999999    599997643  335678999999999998865 4331    1 24444443220         


Q ss_pred             CCCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcc-eeecCcCCcCHH
Q 041524          304 EPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCK-YIHLPAQTGNSA  382 (524)
Q Consensus       304 ~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~-~i~igiESgs~~  382 (524)
                            .+            ....+.++++.+.+.....++.+. .+|+.++++.|+.|+++  ||+ .|.+|+||+|++
T Consensus        84 ------~~------------~~~~~~~i~~~l~~~~~~~~i~~e-srpd~i~~e~L~~l~~a--G~~~~v~iG~ES~~d~  142 (313)
T TIGR01210        84 ------EV------------PKETRNYIFEKIAQRDNLKEVVVE-SRPEFIDEEKLEELRKI--GVNVEVAVGLETANDR  142 (313)
T ss_pred             ------cC------------CHHHHHHHHHHHHhcCCcceEEEE-eCCCcCCHHHHHHHHHc--CCCEEEEEecCcCCHH
Confidence                  00            023467788888764323455554 69999999999999999  998 899999999999


Q ss_pred             HHh-hhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCC----CCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          383 VLE-RMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCG----ETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       383 vL~-~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~Pg----ET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                      +|+ .|+|+++.+++.++++.++++  |+.+.++||+|+|+    |+.+++.++++++..++ +++.++++++.|||+++
T Consensus       143 ~L~~~inKg~t~~~~~~ai~~~~~~--Gi~v~~~~i~G~P~~se~ea~ed~~~ti~~~~~l~-~~vs~~~l~v~~gT~l~  219 (313)
T TIGR01210       143 IREKSINKGSTFEDFIRAAELARKY--GAGVKAYLLFKPPFLSEKEAIADMISSIRKCIPVT-DTVSINPTNVQKGTLVE  219 (313)
T ss_pred             HHHHhhCCCCCHHHHHHHHHHHHHc--CCcEEEEEEecCCCCChhhhHHHHHHHHHHHHhcC-CcEEEECCEEeCCCHHH
Confidence            995 899999999999999999999  99999999999996    56678888999999998 99999999999999987


Q ss_pred             ccCC
Q 041524          458 RNYV  461 (524)
Q Consensus       458 ~~~~  461 (524)
                      +.+.
T Consensus       220 ~~~~  223 (313)
T TIGR01210       220 FLWN  223 (313)
T ss_pred             HHHH
Confidence            6553

This family of exclusively archaeal proteins has no characterized close homologs. Several rounds of PSI-BLAST with a stringent cutoff of 1e-8 shows apparent similarity of the central region of this family to the central regions of the oxygen-independent coproporphyrinogen III dehydrogenase HemN and to other enzymes.

>TIGR01212 radical SAM protein, TIGR01212 family

Probab=99.92  E-value=1.6e-23  Score=213.42  Aligned_cols=193  Identities=18%  Similarity=0.239  Sum_probs=153.4

Q ss_pred             EEEEEEcccCCc--------cCcccccCCCCCccc---cCChHHHHHHHHHHHHC--CCcE--EEEEeccCCCCCCccCC
Q 041524          235 TAFVSVMRGCNN--------MCSFCIVPFTRGRER---SRPVESIVKEVDELWKE--GVKE--VTLLGQNVNSYNDTSGM  299 (524)
Q Consensus       235 ~a~v~isRGC~~--------~CsFC~vp~~~G~~R---sr~~e~Iv~Ei~~l~~~--G~ke--i~l~d~n~~~y~~~~~~  299 (524)
                      ...|..+-+|||        .|+||.... .++++   .++.++|.++|+...+.  ..+.  ++|.|.+.+..      
T Consensus        19 k~~~~~g~~cpnrdg~~~~~gC~FC~~~~-~~~~~~~~~~~~~~i~~qi~~~~~~~~~~~~~~iyf~ggt~t~l------   91 (302)
T TIGR01212        19 KITLHGGFSCPNRDGTKGRGGCTFCNDAS-RPIFADEYTQARIPIKEQIKKQMKKYKKDKKFIAYFQAYTNTYA------   91 (302)
T ss_pred             EeecCCCCCCCCCCCCCCCCCcccCCCCC-CccccccccccCCCHHHHHHHHHHHhhccCEEEEEEECCCcCCC------
Confidence            455677899998        699998733 34555   46777777777766543  1222  55554332221      


Q ss_pred             ccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcC-CCCc-ceeecCcC
Q 041524          300 EKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDR-PNVC-KYIHLPAQ  377 (524)
Q Consensus       300 ~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~-~~G~-~~i~igiE  377 (524)
                                              ....+.++++.+.+......+.+. .+|+.++++.+++|++. ..|| .++++|+|
T Consensus        92 ------------------------~~~~L~~l~~~i~~~~~~~~isi~-trpd~l~~e~l~~L~~l~~~G~~~~i~lGlQ  146 (302)
T TIGR01212        92 ------------------------PVEVLKEMYEQALSYDDVVGLSVG-TRPDCVPDEVLDLLAEYVERGYEVWVELGLQ  146 (302)
T ss_pred             ------------------------CHHHHHHHHHHHhCCCCEEEEEEE-ecCCcCCHHHHHHHHHhhhCCceEEEEEccC
Confidence                                    124688888888774333455554 68999999988888754 2389 68999999


Q ss_pred             CcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          378 TGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       378 Sgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                      |+++++|+.|+|+++.+++.++++.++++  |+.+.++||+|+||||.+++.+|++++.+++++.+.++++.|.|||+++
T Consensus       147 S~~d~~L~~i~Rg~t~~~~~~ai~~l~~~--gi~v~~~lI~GlPget~e~~~~t~~~l~~l~~d~i~i~~l~~~pgT~L~  224 (302)
T TIGR01212       147 TAHDKTLKKINRGHDFACYVDAVKRARKR--GIKVCSHVILGLPGEDREEMMETAKIVSLLDVDGIKIHPLHVVKGTKMA  224 (302)
T ss_pred             cCCHHHHHHHcCcChHHHHHHHHHHHHHc--CCEEEEeEEECCCCCCHHHHHHHHHHHHhcCCCEEEEEEEEecCCCHHH
Confidence            99999999999999999999999999999  9999999999999999999999999999999999999999999999999


Q ss_pred             ccCC
Q 041524          458 RNYV  461 (524)
Q Consensus       458 ~~~~  461 (524)
                      +.+.
T Consensus       225 ~~~~  228 (302)
T TIGR01212       225 KMYE  228 (302)
T ss_pred             HHHH
Confidence            8653

This uncharacterized protein family shows significant similarity to TIGR01211, a longer protein that is a histone acetyltransferase at its C-terminus and is a subunit of RNA polymerase II (in yeast). This family lacks the GNAT acetyltransferase domain.

>PRK08898 coproporphyrinogen III oxidase; Provisional

Probab=99.92  E-value=1.6e-23  Score=221.12  Aligned_cols=217  Identities=12%  Similarity=0.151  Sum_probs=169.3

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc-----cccCChHHHHHHHHHHHHC----CCcEEEEEeccCCCCCCccCCccccC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR-----ERSRPVESIVKEVDELWKE----GVKEVTLLGQNVNSYNDTSGMEKEVE  304 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~-----~Rsr~~e~Iv~Ei~~l~~~----G~kei~l~d~n~~~y~~~~~~~~~~~  304 (524)
                      ...||.+ --|+.+|.||.++.....     ...+..+.+.+||+.....    .++.|+|.|.+.+..           
T Consensus        20 ~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~Y~~~l~~ei~~~~~~~~~~~i~siy~GGGTPs~L-----------   87 (394)
T PRK08898         20 LSLYVHF-PWCVRKCPYCDFNSHEWKDGGAIPEAAYLDALRADLEQALPLVWGRQVHTVFIGGGTPSLL-----------   87 (394)
T ss_pred             eEEEEEe-CCccCcCCCCCCcccccCCCCccCHHHHHHHHHHHHHHHHHhccCCceeEEEECCCCcCCC-----------
Confidence            4677776 559999999998754221     1245788999999866432    366777776555443           


Q ss_pred             CCCccccccCcccchhcccchhhHHHHHHHHHhhCCc---eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCH
Q 041524          305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE---MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNS  381 (524)
Q Consensus       305 ~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~---~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~  381 (524)
                                         ....+.+|++.+.+..+.   ..+.+. .+|..++++.|+.|+++  |+++|+||+||+++
T Consensus        88 -------------------~~~~L~~ll~~i~~~~~~~~~~eit~E-~~p~~~~~e~L~~l~~~--GvnrisiGvQS~~~  145 (394)
T PRK08898         88 -------------------SAAGLDRLLSDVRALLPLDPDAEITLE-ANPGTFEAEKFAQFRAS--GVNRLSIGIQSFND  145 (394)
T ss_pred             -------------------CHHHHHHHHHHHHHhCCCCCCCeEEEE-ECCCCCCHHHHHHHHHc--CCCeEEEecccCCH
Confidence                               124688888888876543   356555 68999999999999999  99999999999999


Q ss_pred             HHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCC
Q 041524          382 AVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYV  461 (524)
Q Consensus       382 ~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~  461 (524)
                      ++|+.|+|+++.+++.++++.+++.  +..++.|+|+|+||||.+++.++++++.++++++++++.|++.|||++++.. 
T Consensus       146 ~~L~~l~R~~~~~~~~~~i~~~~~~--~~~v~~dlI~GlPgqt~~~~~~~l~~~~~l~p~~is~y~l~~~~gT~l~~~~-  222 (394)
T PRK08898        146 AHLKALGRIHDGAEARAAIEIAAKH--FDNFNLDLMYALPGQTLDEALADVETALAFGPPHLSLYHLTLEPNTLFAKFP-  222 (394)
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHh--CCceEEEEEcCCCCCCHHHHHHHHHHHHhcCCCEEEEeeeEECCCChhhhcc-
Confidence            9999999999999999999999998  6679999999999999999999999999999999999999999999999743 


Q ss_pred             CCCCHH-HHHHHHHHHHHHHHHHHHHH
Q 041524          462 DDVPEE-VKQRRLTELIEAFRESTGQC  487 (524)
Q Consensus       462 ~~v~~~-~k~~Rl~~l~~~~~~~~~~~  487 (524)
                      ..+|.. ...+....+.+.+.+..+..
T Consensus       223 ~~~~~~~~~~~~~~~~~~~L~~~Gy~~  249 (394)
T PRK08898        223 PALPDDDASADMQDWIEARLAAAGYAH  249 (394)
T ss_pred             CCCCChHHHHHHHHHHHHHHHHcCCch
Confidence            344443 33334444444444433333

>PRK06582 coproporphyrinogen III oxidase; Provisional

Probab=99.91  E-value=2.6e-23  Score=218.80  Aligned_cols=218  Identities=11%  Similarity=0.148  Sum_probs=171.0

Q ss_pred             CCCeEEEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHC----CCcEEEEEeccCCCCCCccCCccccC
Q 041524          231 KNSVTAFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKE----GVKEVTLLGQNVNSYNDTSGMEKEVE  304 (524)
Q Consensus       231 ~~~~~a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~----G~kei~l~d~n~~~y~~~~~~~~~~~  304 (524)
                      ......||.+ --|..+|.||.+......  ......+.+.+||+...+.    .++.|+|.|.+.+..           
T Consensus         9 ~~~~~lYiHi-PFC~~~C~yC~f~~~~~~~~~~~~Y~~aL~~Ei~~~~~~~~~~~i~tiy~GGGTPs~l-----------   76 (390)
T PRK06582          9 ANDLSIYIHW-PFCLSKCPYCDFNSHVASTIDHNQWLKSYEKEIEYFKDIIQNKYIKSIFFGGGTPSLM-----------   76 (390)
T ss_pred             CCCeEEEEEe-CCCcCcCCCCCCeeccCCCCCHHHHHHHHHHHHHHHHHHccCCceeEEEECCCccccC-----------
Confidence            3455788886 889999999998654332  1234578888899876542    366777766554332           


Q ss_pred             CCCccccccCcccchhcccchhhHHHHHHHHHhhC---CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCH
Q 041524          305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF---PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNS  381 (524)
Q Consensus       305 ~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~---~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~  381 (524)
                                         ....+.++++.+.+..   +...+.+. .+|..++++.++.|+++  |+++|++|+||+++
T Consensus        77 -------------------~~~~l~~ll~~i~~~~~~~~~~eitiE-~nP~~~~~e~l~~l~~~--GvnRiSiGvQS~~d  134 (390)
T PRK06582         77 -------------------NPVIVEGIINKISNLAIIDNQTEITLE-TNPTSFETEKFKAFKLA--GINRVSIGVQSLKE  134 (390)
T ss_pred             -------------------CHHHHHHHHHHHHHhCCCCCCCEEEEE-eCCCcCCHHHHHHHHHC--CCCEEEEECCcCCH
Confidence                               0245777787777643   23456665 69999999999999999  99999999999999


Q ss_pred             HHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCC
Q 041524          382 AVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYV  461 (524)
Q Consensus       382 ~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~  461 (524)
                      ++|+.|+|+++.+++.++++.+++.  +..++.|+|+|+||||.++++++++.+.+++++++.++.+++.|||++++.+.
T Consensus       135 ~~L~~lgR~h~~~~~~~ai~~~~~~--~~~v~~DlI~GlPgqt~e~~~~~l~~~~~l~p~his~y~L~i~~gT~l~~~~~  212 (390)
T PRK06582        135 DDLKKLGRTHDCMQAIKTIEAANTI--FPRVSFDLIYARSGQTLKDWQEELKQAMQLATSHISLYQLTIEKGTPFYKLFK  212 (390)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHh--CCcEEEEeecCCCCCCHHHHHHHHHHHHhcCCCEEEEecCEEccCChHHHHHh
Confidence            9999999999999999999999998  77899999999999999999999999999999999999999999999997553


Q ss_pred             CC----CCHHHHHHHHHHHHHHHHHHH
Q 041524          462 DD----VPEEVKQRRLTELIEAFREST  484 (524)
Q Consensus       462 ~~----v~~~~k~~Rl~~l~~~~~~~~  484 (524)
                      ..    .+++...+.+....+.+.+..
T Consensus       213 ~g~~~~p~~~~~~~~~~~~~~~L~~~G  239 (390)
T PRK06582        213 EGNLILPHSDAAAEMYEWTNHYLESKK  239 (390)
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHHHcC
Confidence            21    234455555555555555433

>PRK06294 coproporphyrinogen III oxidase; Provisional

Probab=99.91  E-value=2.3e-23  Score=218.09  Aligned_cols=190  Identities=15%  Similarity=0.208  Sum_probs=152.0

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc-c-ccCChHHHHHH-HHHHHHC----CCcEEEEEeccCCCCCCccCCccccCCC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR-E-RSRPVESIVKE-VDELWKE----GVKEVTLLGQNVNSYNDTSGMEKEVEPG  306 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~-~-Rsr~~e~Iv~E-i~~l~~~----G~kei~l~d~n~~~y~~~~~~~~~~~~g  306 (524)
                      ...||.+ --|+++|.||.+...... . ....++.+++| ++...+.    .++.|+|.|.+.+..             
T Consensus         7 ~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~y~~~l~~E~~~~~~~~~~~~~i~~iy~GGGTPs~l-------------   72 (370)
T PRK06294          7 LALYIHI-PFCTKKCHYCSFYTIPYKEESVSLYCNAVLKEGLKKLAPLRCSHFIDTVFFGGGTPSLV-------------   72 (370)
T ss_pred             eEEEEEe-CCccCcCCCCcCcccCCCccCHHHHHHHHHHHHHHHhhhhccCCceeEEEECCCccccC-------------
Confidence            4678876 669999999987554211 1 11235667777 5544321    345566655443322             


Q ss_pred             CccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          307 ANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       307 ~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                       ....+.+|++.+... +...+.+. .+|..++++.++.|+++  |+++++||+||+++++|+.
T Consensus        73 -----------------~~~~l~~ll~~i~~~-~~~eit~E-~~P~~~~~~~l~~l~~~--G~nrislGvQS~~~~~L~~  131 (370)
T PRK06294         73 -----------------PPALIQDILKTLEAP-HATEITLE-ANPENLSESYIRALALT--GINRISIGVQTFDDPLLKL  131 (370)
T ss_pred             -----------------CHHHHHHHHHHHHhC-CCCeEEEE-eCCCCCCHHHHHHHHHC--CCCEEEEccccCCHHHHHH
Confidence                             124578888887653 34566665 79999999999999999  9999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccC
Q 041524          387 MRRGYTREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNY  460 (524)
Q Consensus       387 m~R~~t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~  460 (524)
                      |+|+++.+++.++++.+++.  |+ .++.|+|+|+||||.++++++++++.+++++++++|.+++.|||+++++.
T Consensus       132 l~R~~~~~~~~~ai~~~~~~--g~~~v~~Dli~GlPgqt~~~~~~~l~~~~~l~~~~is~y~l~~~~gT~l~~~~  204 (370)
T PRK06294        132 LGRTHSSSKAIDAVQECSEH--GFSNLSIDLIYGLPTQSLSDFIVDLHQAITLPITHISLYNLTIDPHTSFYKHR  204 (370)
T ss_pred             cCCCCCHHHHHHHHHHHHHc--CCCeEEEEeecCCCCCCHHHHHHHHHHHHccCCCeEEEeeeEecCCChHHHHH
Confidence            99999999999999999999  88 49999999999999999999999999999999999999999999998743

>PRK08208 coproporphyrinogen III oxidase; Validated

Probab=99.91  E-value=2.3e-23  Score=222.32  Aligned_cols=213  Identities=14%  Similarity=0.207  Sum_probs=166.1

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCc---cccCChHHHHHHHHHHHHC----CCcEEEEEeccCCCCCCccCCccccC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGR---ERSRPVESIVKEVDELWKE----GVKEVTLLGQNVNSYNDTSGMEKEVE  304 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~---~Rsr~~e~Iv~Ei~~l~~~----G~kei~l~d~n~~~y~~~~~~~~~~~  304 (524)
                      .....||.| --|+++|+||.++...+.   ...+.++.|++||+.+.++    .+..|.|.|.+.+..           
T Consensus        38 ~~~~lYvHI-PFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~i~~i~~GGGTPs~l-----------  105 (430)
T PRK08208         38 DALSLYIHI-PFCEMRCGFCNLFTRTGADAEFIDSYLDALIRQAEQVAEALAPARFASFAVGGGTPTLL-----------  105 (430)
T ss_pred             CceEEEEEe-CCccCcCCCCCCccccCCccchHHHHHHHHHHHHHHHHHHcCCCceeEEEEcCCccccC-----------
Confidence            345789998 559999999998765442   2345789999999987654    244566655433322           


Q ss_pred             CCCccccccCcccchhcccchhhHHHHHHHHHhhCCc----eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcC
Q 041524          305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE----MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGN  380 (524)
Q Consensus       305 ~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~----~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs  380 (524)
                                         ....+.+|++.+.+..+.    ..+.+. .+|..++++.++.|+++  ||++|+||+||++
T Consensus       106 -------------------~~~~l~~Ll~~i~~~~~~~~~~~eitiE-~~P~~lt~e~l~~l~~~--G~~rvslGvQS~~  163 (430)
T PRK08208        106 -------------------NAAELEKLFDSVERVLGVDLGNIPKSVE-TSPATTTAEKLALLAAR--GVNRLSIGVQSFH  163 (430)
T ss_pred             -------------------CHHHHHHHHHHHHHhCCCCCCCceEEEE-eCcCcCCHHHHHHHHHc--CCCEEEEecccCC
Confidence                               124577888888765432    234444 67999999999999999  9999999999999


Q ss_pred             HHHHhhhCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhccc
Q 041524          381 SAVLERMRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRN  459 (524)
Q Consensus       381 ~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~  459 (524)
                      +++|+.|+|+++.+++.++++.++++  |+. ++.|||+|+||||.++++++++++.+++++++.++++++.|||++++.
T Consensus       164 ~~~L~~l~R~~~~~~~~~ai~~l~~~--g~~~i~~dlI~GlP~qt~e~~~~~l~~~~~l~~~~is~y~L~~~~~T~l~~~  241 (430)
T PRK08208        164 DSELHALHRPQKRADVHQALEWIRAA--GFPILNIDLIYGIPGQTHASWMESLDQALVYRPEELFLYPLYVRPLTGLGRR  241 (430)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHc--CCCeEEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEEccccccCCCccchh
Confidence            99999999999999999999999999  885 689999999999999999999999999999999999999999999874


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHH
Q 041524          460 YVDDVPEEVKQRRLTELIEAFRE  482 (524)
Q Consensus       460 ~~~~v~~~~k~~Rl~~l~~~~~~  482 (524)
                      ..  -..+.+.+......+.+.+
T Consensus       242 ~~--~~~~~~~~m~~~~~~~L~~  262 (430)
T PRK08208        242 AR--AWDDQRLSLYRLARDLLLE  262 (430)
T ss_pred             cC--CCHHHHHHHHHHHHHHHHH
Confidence            32  1233334444444444433

>PRK05660 HemN family oxidoreductase; Provisional

Probab=99.91  E-value=8.5e-23  Score=214.49  Aligned_cols=212  Identities=12%  Similarity=0.186  Sum_probs=166.3

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc--c-ccCChHHHHHHHHHHHH----CCCcEEEEEeccCCCCCCccCCccccCCC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR--E-RSRPVESIVKEVDELWK----EGVKEVTLLGQNVNSYNDTSGMEKEVEPG  306 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~--~-Rsr~~e~Iv~Ei~~l~~----~G~kei~l~d~n~~~y~~~~~~~~~~~~g  306 (524)
                      ...||.+= -|+.+|.||.+.....+  . .....+.+++||+....    .+++.|+|.|.+.+...            
T Consensus         7 ~~lYiHiP-FC~~~C~yC~f~~~~~~~~~~~~~Y~~~l~~Ei~~~~~~~~~~~v~ti~~GGGtPs~l~------------   73 (378)
T PRK05660          7 LSLYIHIP-WCVQKCPYCDFNSHALKGEVPEDEYVDHLLADLDADLPLVQGREVHSIFIGGGTPSLFS------------   73 (378)
T ss_pred             eEEEEEeC-CccCcCCCCCCeecCCCCcCCHHHHHHHHHHHHHHHhHhccCCceeEEEeCCCccccCC------------
Confidence            36788774 49999999998643221  1 12247778888875322    36778888876655431            


Q ss_pred             CccccccCcccchhcccchhhHHHHHHHHHhhCC---ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHH
Q 041524          307 ANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP---EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAV  383 (524)
Q Consensus       307 ~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~---~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~v  383 (524)
                                        ...+.++++.+.+..+   ...+.+. .+|..++++.++.|+++  |+++|+||+||+++++
T Consensus        74 ------------------~~~l~~ll~~l~~~~~~~~~~eit~e-~np~~l~~e~l~~Lk~~--Gv~risiGvqS~~~~~  132 (378)
T PRK05660         74 ------------------AEAIQRLLDGVRARLPFAPDAEITME-ANPGTVEADRFVGYQRA--GVNRISIGVQSFSEEK  132 (378)
T ss_pred             ------------------HHHHHHHHHHHHHhCCCCCCcEEEEE-eCcCcCCHHHHHHHHHc--CCCEEEeccCcCCHHH
Confidence                              2468888888877543   2356555 68999999999999999  9999999999999999


Q ss_pred             HhhhCCCCCHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCC
Q 041524          384 LERMRRGYTREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVD  462 (524)
Q Consensus       384 L~~m~R~~t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~  462 (524)
                      |+.|+|+++.+++.++++.++++  |+ .++.|+|+|+||||.++++++++++.+++++++.+++++++|||+++++. .
T Consensus       133 L~~l~r~~~~~~~~~ai~~~~~~--G~~~v~~dli~Glpgqt~~~~~~~l~~~~~l~p~~is~y~l~~~~gT~l~~~~-~  209 (378)
T PRK05660        133 LKRLGRIHGPDEAKRAAKLAQGL--GLRSFNLDLMHGLPDQSLEEALDDLRQAIALNPPHLSWYQLTIEPNTLFGSRP-P  209 (378)
T ss_pred             HHHhCCCCCHHHHHHHHHHHHHc--CCCeEEEEeecCCCCCCHHHHHHHHHHHHhcCCCeEEeeccEeccCCcccccC-C
Confidence            99999999999999999999999  88 47999999999999999999999999999999999999999999999743 3


Q ss_pred             CCC-HHHHHHHHHHHHHHHHH
Q 041524          463 DVP-EEVKQRRLTELIEAFRE  482 (524)
Q Consensus       463 ~v~-~~~k~~Rl~~l~~~~~~  482 (524)
                      .+| ++...+......+.+.+
T Consensus       210 ~~~~~~~~~~~~~~~~~~L~~  230 (378)
T PRK05660        210 VLPDDDALWDIFEQGHQLLTA  230 (378)
T ss_pred             CCcCHHHHHHHHHHHHHHHHH
Confidence            344 33444444444444444

>PRK06256 biotin synthase; Validated

Probab=99.90  E-value=2.3e-22  Score=208.33  Aligned_cols=194  Identities=12%  Similarity=0.159  Sum_probs=158.5

Q ss_pred             cccCCccCcccccCCCCC----ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          241 MRGCNNMCSFCIVPFTRG----RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       241 sRGC~~~CsFC~vp~~~G----~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      ++||+++|.||..+...+    +++.+++++|+++++.+.+.|++++.|++......            ..         
T Consensus        65 s~~C~~~C~fC~~~~~~~~~~~~~~~~s~eeI~~~~~~~~~~g~~~~~l~~~g~~p~------------~~---------  123 (336)
T PRK06256         65 SGLCPEDCGYCSQSAGSSAPVYRYAWLDIEELIEAAKEAIEEGAGTFCIVASGRGPS------------GK---------  123 (336)
T ss_pred             CCCCCCCCccCCCcCCCCCCCceecCCCHHHHHHHHHHHHHCCCCEEEEEecCCCCC------------ch---------
Confidence            899999999999876543    36778999999999999999999988876432211            00         


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHH
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~  396 (524)
                             ....+.++++.+.+. ..+.+  . .+...++++.++.|+++  |+..+++++|| ++++++.|+++++.+++
T Consensus       124 -------~~~~~~e~i~~i~~~-~~i~~--~-~~~g~l~~e~l~~Lkea--G~~~v~~~lEt-s~~~~~~i~~~~t~~~~  189 (336)
T PRK06256        124 -------EVDQVVEAVKAIKEE-TDLEI--C-ACLGLLTEEQAERLKEA--GVDRYNHNLET-SRSYFPNVVTTHTYEDR  189 (336)
T ss_pred             -------HHHHHHHHHHHHHhc-CCCcE--E-ecCCcCCHHHHHHHHHh--CCCEEecCCcc-CHHHHhhcCCCCCHHHH
Confidence                   013577777777664 33333  2 23445899999999999  99999999999 99999999999999999


Q ss_pred             HHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHH
Q 041524          397 LDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLT  474 (524)
Q Consensus       397 ~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~  474 (524)
                      +++++.++++  |+.+.+++|+|+ |||.+|+.+++.++++++++.+.++.|.|.||||++..  +.++.....+.+.
T Consensus       190 i~~i~~a~~~--Gi~v~~~~I~Gl-gEt~ed~~~~~~~l~~l~~~~v~i~~l~P~pGT~l~~~--~~~~~~e~l~~ia  262 (336)
T PRK06256        190 IDTCEMVKAA--GIEPCSGGIIGM-GESLEDRVEHAFFLKELDADSIPINFLNPIPGTPLENH--PELTPLECLKTIA  262 (336)
T ss_pred             HHHHHHHHHc--CCeeccCeEEeC-CCCHHHHHHHHHHHHhCCCCEEeecccccCCCCCCCCC--CCCCHHHHHHHHH
Confidence            9999999999  999999999998 99999999999999999999999999999999999752  3455554444443

>TIGR00433 bioB biotin synthetase

Probab=99.90  E-value=5.9e-22  Score=201.58  Aligned_cols=202  Identities=13%  Similarity=0.183  Sum_probs=156.3

Q ss_pred             EEEEEE-cccCCccCcccccCCCC---C-ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          235 TAFVSV-MRGCNNMCSFCIVPFTR---G-RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       235 ~a~v~i-sRGC~~~CsFC~vp~~~---G-~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      .+.+.+ |+||+++|.||..+...   + .++.+++++|++|++.+.+.|++.+.+++......                
T Consensus        29 ~~~~~i~s~~C~~~C~fC~~~~~~~~~~~~~~~~~~eei~~~~~~~~~~g~~~~~l~~~g~~~~----------------   92 (296)
T TIGR00433        29 CTIMNIKSGGCPEDCKYCSQSSRSKTGLPIERLKKVDEVLEEARKAKAAGATRFCLVASGRGPK----------------   92 (296)
T ss_pred             EEEEecccCCCCCCCcCCCCcccCCCCCccccCCCHHHHHHHHHHHHHCCCCEEEEEEecCCCC----------------
Confidence            345565 99999999999986643   2 36789999999999999989999988765433211                


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR  389 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R  389 (524)
                                     ...+.++++.+.+......+.+. .+...+++|.++.|+++  |+..+.+|+| +++++++.+++
T Consensus        93 ---------------~~~~~~~~~~i~~~~~~~~i~~~-~~~g~~~~e~l~~Lk~a--G~~~v~i~~E-~~~~~~~~i~~  153 (296)
T TIGR00433        93 ---------------DREFMEYVEAMVQIVEEMGLKTC-ATLGLLDPEQAKRLKDA--GLDYYNHNLD-TSQEFYSNIIS  153 (296)
T ss_pred             ---------------hHHHHHHHHHHHHHHHhCCCeEE-ecCCCCCHHHHHHHHHc--CCCEEEEccc-CCHHHHhhccC
Confidence                           11223344443332111122222 34457899999999999  9999999999 89999999999


Q ss_pred             CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHH
Q 041524          390 GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVK  469 (524)
Q Consensus       390 ~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k  469 (524)
                      +++.++++++++.++++  |+.+.+.+|+|+ |||.+++.++++++.+++++.+.++.+.|.|||+++. + ..++.+..
T Consensus       154 ~~s~~~~~~ai~~l~~~--Gi~v~~~~i~Gl-~et~~d~~~~~~~l~~l~~~~i~l~~l~p~~gT~l~~-~-~~~s~~~~  228 (296)
T TIGR00433       154 THTYDDRVDTLENAKKA--GLKVCSGGIFGL-GETVEDRIGLALALANLPPESVPINFLVKIKGTPLAD-N-KELSADDA  228 (296)
T ss_pred             CCCHHHHHHHHHHHHHc--CCEEEEeEEEeC-CCCHHHHHHHHHHHHhCCCCEEEeeeeEEcCCCccCC-C-CCCCHHHH
Confidence            99999999999999999  999999999998 9999999999999999999999999999999999985 3 23443333


Q ss_pred             HHHHHHH
Q 041524          470 QRRLTEL  476 (524)
Q Consensus       470 ~~Rl~~l  476 (524)
                      .+.+..+
T Consensus       229 ~~~ia~~  235 (296)
T TIGR00433       229 LKTIALA  235 (296)
T ss_pred             HHHHHHH
Confidence            3344333

Catalyzes the last step of the biotin biosynthesis pathway.

>PRK08629 coproporphyrinogen III oxidase; Provisional

Probab=99.89  E-value=6.7e-22  Score=210.54  Aligned_cols=190  Identities=15%  Similarity=0.176  Sum_probs=146.7

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCC-Cccc-cCChHHHHHHHHHHHHCC--CcEEEEEeccCCCCCCccCCccccCCCC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTR-GRER-SRPVESIVKEVDELWKEG--VKEVTLLGQNVNSYNDTSGMEKEVEPGA  307 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~-G~~R-sr~~e~Iv~Ei~~l~~~G--~kei~l~d~n~~~y~~~~~~~~~~~~g~  307 (524)
                      .....||.+- -|+++|+||.++... +..+ ...++.+++||+.+.+.|  +..|+|.|.+.+..              
T Consensus        51 ~~~~LYvHIP-FC~~~C~yC~f~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~~~siy~GGGTPs~l--------------  115 (433)
T PRK08629         51 KKYMLYAHVP-FCHTLCPYCSFHRFYFKEDKARAYFISLRKEMEMVKELGYDFESMYVGGGTTTIL--------------  115 (433)
T ss_pred             CcEEEEEEeC-CccCcCCCCCCcCcCCCcchHHHHHHHHHHHHHHHHhcCCceEEEEECCCccccC--------------
Confidence            4557788874 499999999987542 2222 235899999999887654  34455554332211              


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM  387 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m  387 (524)
                                       ...+.++++.+.+..+...+.+. .+|+.++++.++.|+++   |+++++|+||+++++|+.|
T Consensus       116 -----------------~~~L~~ll~~i~~~f~i~eis~E-~~P~~lt~e~L~~l~~~---vnrlsiGVQS~~d~vLk~~  174 (433)
T PRK08629        116 -----------------EDELAKTLELAKKLFSIKEVSCE-SDPNHLDPPKLKQLKGL---IDRLSIGVQSFNDDILKMV  174 (433)
T ss_pred             -----------------HHHHHHHHHHHHHhCCCceEEEE-eCcccCCHHHHHHHHHh---CCeEEEecCcCCHHHHHHc
Confidence                             23577888888776654456554 79999999999999873   9999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhCC-CcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          388 RRGYTREAYLDLVQKIRQIIP-DVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       388 ~R~~t~e~~~~~v~~ir~~~p-gi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                      +|.++.+...++++.++++.. ...++.|+|+||||||+++++++++++.+++++++++|++++.|||...
T Consensus       175 gR~h~~~~~~~~~~~l~~~~~~~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~~is~y~L~~~~~t~~~  245 (433)
T PRK08629        175 DRYEKFGSGQETFEKIMKAKGLFPIINVDLIFNFPGQTDEVLQHDLDIAKRLDPRQITTYPLMKSHQTRKS  245 (433)
T ss_pred             CCCCChhHHHHHHHHHHHHhccCCeEEEEEEccCCCCCHHHHHHHHHHHHhCCCCEEEEccceeccCchhh
Confidence            999977555555555544311 3468899999999999999999999999999999999999999999854

>PRK13347 coproporphyrinogen III oxidase; Provisional

Probab=99.89  E-value=8e-22  Score=211.82  Aligned_cols=189  Identities=20%  Similarity=0.254  Sum_probs=155.6

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCC-c--cccCChHHHHHHHHHHHHC-----CCcEEEEEeccCCCCCCccCCccccC
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRG-R--ERSRPVESIVKEVDELWKE-----GVKEVTLLGQNVNSYNDTSGMEKEVE  304 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G-~--~Rsr~~e~Iv~Ei~~l~~~-----G~kei~l~d~n~~~y~~~~~~~~~~~  304 (524)
                      ....||.+-. |+++|.||....... +  .....++.|++||+.+.+.     ++..|+|.|.+++...          
T Consensus        50 ~~~LYvHIPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~i~fgGGTPs~l~----------  118 (453)
T PRK13347         50 PVSLYLHVPF-CRSLCWFCGCNTIITQRDAPVEAYVAALIREIRLVAASLPQRRRVSQLHWGGGTPTILN----------  118 (453)
T ss_pred             ceEEEEEeCC-ccccCCCCCCcCcCccccchHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCcccccCC----------
Confidence            3478999866 999999998754322 1  1123479999999977643     4677888887666441          


Q ss_pred             CCCccccccCcccchhcccchhhHHHHHHHHHhhCC---ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCH
Q 041524          305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP---EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNS  381 (524)
Q Consensus       305 ~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~---~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~  381 (524)
                                          ...+.+|++.+.+..+   ...+.+. .+|..++++.++.|+++  ||++++||+||+++
T Consensus       119 --------------------~~~l~~ll~~i~~~~~~~~~~e~tie-~~p~~lt~e~l~~L~~~--G~~rvsiGvQS~~~  175 (453)
T PRK13347        119 --------------------PDQFERLMAALRDAFDFAPEAEIAVE-IDPRTVTAEMLQALAAL--GFNRASFGVQDFDP  175 (453)
T ss_pred             --------------------HHHHHHHHHHHHHhCCCCCCceEEEE-eccccCCHHHHHHHHHc--CCCEEEECCCCCCH
Confidence                                2468888888877543   2355554 68999999999999999  99999999999999


Q ss_pred             HHHhhhCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          382 AVLERMRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       382 ~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                      ++|+.|+|+++.+++.++++.+++.  |+. ++.|||+|+||||.+++.+|++++.+++++++.+|.|+..|++...
T Consensus       176 ~vl~~l~R~~~~~~~~~ai~~lr~~--G~~~v~~dli~GlPgqt~e~~~~tl~~~~~l~p~~i~~y~l~~~p~~~~~  250 (453)
T PRK13347        176 QVQKAINRIQPEEMVARAVELLRAA--GFESINFDLIYGLPHQTVESFRETLDKVIALSPDRIAVFGYAHVPSRRKN  250 (453)
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHhc--CCCcEEEeEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEeccccccchhhH
Confidence            9999999999999999999999999  885 8999999999999999999999999999999999999876665443

>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]

Probab=99.89  E-value=1.5e-20  Score=191.77  Aligned_cols=308  Identities=20%  Similarity=0.268  Sum_probs=205.6

Q ss_pred             cceEEECCCCcccHHHHHHHHhcCCCc-cccccccccccccCC---C-----cc-cc--CCCeEEEEEEcccCCcc----
Q 041524          184 MVDVVCGPDAYRDLPRLLEEVDYGQKG-INTLLSLEETYADIS---P-----VR-IS--KNSVTAFVSVMRGCNNM----  247 (524)
Q Consensus       184 ~vD~Vv~gege~~l~~Ll~~~~~g~~~-~~~~~~~~~~~~~l~---p-----~r-~~--~~~~~a~v~isRGC~~~----  247 (524)
                      .+|+|+.|+-|.-+-+++..   |-.. ++.  ..-.+|..+.   |     ++ +.  +....+-|+|+||||..    
T Consensus       126 ~fD~va~gD~Ea~~~dl~~e---G~~~~~~~--~r~rd~~el~~~A~~GA~vv~qHP~yp~~vi~EiETyRGC~r~~~gg  200 (560)
T COG1031         126 GFDVVASGDVEAFVYDLFSE---GVERAIDP--DRFRDYEELDAYAPLGAEVVKQHPNYPEYVICEIETYRGCPRRVSGG  200 (560)
T ss_pred             ceeEEEeccHHHHHHHHHhc---CCcccCCh--hhhccHHHHHhhhhccchHHHhCCCCcceEEEEEeeccCCcccccCC
Confidence            68999999888877777752   3111 100  0001111111   1     01 11  12345678999999976    


Q ss_pred             CcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEec-cCCCCCCccCCccccCCCCccccccCcccchhcccchh
Q 041524          248 CSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQ-NVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGL  326 (524)
Q Consensus       248 CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~-n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~  326 (524)
                      ||||.-|.. |...+||+|.|++||+.|.+.|+++|.|--| ++.+|.....       |.+|           +++++.
T Consensus       201 CSFCtEp~~-g~~~~R~~e~Vv~EVkaLY~~GvrhFRlGRQ~difsy~~~~~-------g~e~-----------P~PnPe  261 (560)
T COG1031         201 CSFCTEPVR-GRPEFRPPEDVVEEVKALYRAGVRHFRLGRQADIFSYGADDN-------GGEV-----------PRPNPE  261 (560)
T ss_pred             CccccCcCc-CCcccCCHHHHHHHHHHHHHhccceeeeccccceeeeccccc-------CCCC-----------CCCCHH
Confidence            999999876 9999999999999999999999999998644 5677743211       1111           144567


Q ss_pred             hHHHHHHHHHhhCCce-EEEEecCCCCCC------CHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHH
Q 041524          327 RFADLLDRLSLEFPEM-RFRYTSPHPKDF------PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDL  399 (524)
Q Consensus       327 ~~~~Ll~~l~~~~~~~-~ir~~s~~p~~~------~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~  399 (524)
                      .+.+|...+....|.. -+.+...+|..+      +.++++.+.+..---+...+|+||++++|.+.-|=..|.|+.+++
T Consensus       262 alekL~~Gir~~AP~l~tLHiDNaNP~tIa~yp~eSr~i~K~ivky~TpGnVaAfGlEsaDp~V~r~NnL~~spEEvl~A  341 (560)
T COG1031         262 ALEKLFRGIRNVAPNLKTLHIDNANPATIARYPEESREIAKVIVKYGTPGNVAAFGLESADPRVARKNNLNASPEEVLEA  341 (560)
T ss_pred             HHHHHHHHHHhhCCCCeeeeecCCCchhhhcChHHHHHHHHHHHhhCCCCceeeeeccccCHHHHhhccccCCHHHHHHH
Confidence            8889999998887765 466666777554      466777777762223568999999999999999989999999999


Q ss_pred             HHHHHHhCC--------CcEEEEeEEEcCCCCCHHHHHHHHHHHHHc-----CCCeEEEEeeecCCCChhcccCCCCCCH
Q 041524          400 VQKIRQIIP--------DVGLSSDFICGFCGETEEEHADTLTLMKAV-----GYDMAYMFAYSMRERTHAHRNYVDDVPE  466 (524)
Q Consensus       400 v~~ir~~~p--------gi~i~~~fI~G~PgET~ed~~~tl~~l~~l-----~~d~~~i~~~sp~pGT~~~~~~~~~v~~  466 (524)
                      |+.+.+...        -+--..+||+|+||||.|.++.+.+|++++     -+-++++-...++|||+++.+  +..-.
T Consensus       342 V~ivn~vG~~rg~nGlP~lLPGINfv~GL~GEtkeT~~ln~efL~~ild~gllvRRINIRqV~~fpgT~~~~~--~~~~~  419 (560)
T COG1031         342 VEIVNEVGGGRGYNGLPYLLPGINFVFGLPGETKETYELNYEFLKEILDEGLLVRRINIRQVVVFPGTPMWER--GKKKA  419 (560)
T ss_pred             HHHHHHhcCccCcCCCccccccceeEecCCCccHHHHHhhHHHHHHHHhcCceEEEeeeeeEeecCCCchhhh--hhHHH
Confidence            999998632        122346899999999999999999999987     245688888999999999952  22111


Q ss_pred             HHHHHHHHHHHHHHHH-HHHHHHhc--ccCCEE-EEEEeccCCCCCCCeEEEeCCCCcE
Q 041524          467 EVKQRRLTELIEAFRE-STGQCYDS--QVGTVQ-LVLVEGPNKKAPDTELVGKSDRGHR  521 (524)
Q Consensus       467 ~~k~~Rl~~l~~~~~~-~~~~~~~~--~vG~~~-~vLve~~~~~~~~~~~~Gr~~~~~~  521 (524)
                      +..++++.......++ +-....++  -.|+.. .|.+|-...    +...||--+..+
T Consensus       420 ~khk~~~~~fk~~VRe~iD~~MLkrVvP~GTvLrdv~vE~~~~----~~tfgRQ~GSYP  474 (560)
T COG1031         420 EKHKKLFAAFKRKVREEIDLPMLKRVVPKGTVLRDVRVEVYEG----GLTFGRQLGSYP  474 (560)
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHhcCCCCceeeeEEEEEecC----CceeecccCCcc
Confidence            1112233333222222 11122222  247664 677775542    134566555544

>smart00729 Elp3 Elongator protein 3, MiaB family, Radical SAM

Probab=99.89  E-value=8.6e-22  Score=188.04  Aligned_cols=191  Identities=31%  Similarity=0.526  Sum_probs=161.1

Q ss_pred             EEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCC-----cEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGV-----KEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~-----kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      .+++.+++||+++|.||..+...|+.+..+++++.++++.+.+.|.     +.+.|.|......            .   
T Consensus         2 ~~~i~~t~~C~~~C~yC~~~~~~~~~~~~~~e~i~~~~~~~~~~~~~~~~~~~i~~~gg~~~~~------------~---   66 (216)
T smart00729        2 LALYIITRGCPRRCTFCSFPSARGKLRSRYLEALVREIELLAEKGEKEILVGTVFIGGGTPTLL------------S---   66 (216)
T ss_pred             ccEEEecCchhccCCcCCcCccccchhHHHHHHHHHHHHHHHhcccCCcceeEEEECCCCCCCC------------C---
Confidence            4688999999999999998776555677889999999999977653     5566666544332            0   


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCC---ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFP---EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~---~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                     ...+.++++.+.+..+   ...+.+. .++..++++.++.|+++  |+..+.++++|+++++.+.
T Consensus        67 ---------------~~~~~~~~~~~~~~~~~~~~~~~~~~-tn~~~~~~~~~~~l~~~--~~~~i~isl~~~~~~~~~~  128 (216)
T smart00729       67 ---------------PEQLEELLEAIREILGLADDVEITIE-TRPGTLTEELLEALKEA--GVNRVSLGVQSGSDEVLKA  128 (216)
T ss_pred             ---------------HHHHHHHHHHHHHhCCCCCCeEEEEE-eCcccCCHHHHHHHHHc--CCCeEEEecccCCHHHHHH
Confidence                           1247778887777654   2344444 45677899999999999  9999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHhCCC-cEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccC
Q 041524          387 MRRGYTREAYLDLVQKIRQIIPD-VGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNY  460 (524)
Q Consensus       387 m~R~~t~e~~~~~v~~ir~~~pg-i~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~  460 (524)
                      ++++.+.+++.++++.++++  | +.+...+|+|+|+++.+++.++++++.+++++.+.+++|.|.|||++++..
T Consensus       129 ~~~~~~~~~~~~~i~~~~~~--g~~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~p~~~t~~~~~~  201 (216)
T smart00729      129 INRGHTVEDVLEAVEKLREA--GPIKVSTDLIVGLPGETEEDFEETLKLLKELGPDRVSIFPLSPRPGTPLAKLY  201 (216)
T ss_pred             hcCCCCHHHHHHHHHHHHHh--CCcceEEeEEecCCCCCHHHHHHHHHHHHHcCCCeEEeeeeeeCCCChHHHhc
Confidence            99999999999999999999  7 899999999999999999999999999999999999999999999999754

This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases.

>TIGR00538 hemN oxygen-independent coproporphyrinogen III oxidase

Probab=99.89  E-value=1.3e-21  Score=210.55  Aligned_cols=186  Identities=18%  Similarity=0.296  Sum_probs=156.3

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc---cccCChHHHHHHHHHHHH-----CCCcEEEEEeccCCCCCCccCCccccCC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR---ERSRPVESIVKEVDELWK-----EGVKEVTLLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~---~Rsr~~e~Iv~Ei~~l~~-----~G~kei~l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      ...||.+ .-|+++|.||..+...+.   .+...++.|++||+.+.+     .+++.|+|.|.+++..            
T Consensus        50 ~~lYiHi-PFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~I~fgGGtP~~l------------  116 (455)
T TIGR00538        50 LSLYVHI-PFCHKACYFCGCNVIITRQKHKADPYLDALEKEIALVAPLFDGNRHVSQLHWGGGTPTYL------------  116 (455)
T ss_pred             eEEEEEe-CCccCcCCCCCCCccCCCCcchHHHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCcCCC------------
Confidence            4678887 569999999998765432   233479999999998754     3678888888766543            


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCC---ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP---EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA  382 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~---~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~  382 (524)
                                        ....+.+|++.+.+..+   ...+.+. .+|..++++.++.|+++  ||++|+||+||++++
T Consensus       117 ------------------~~~~l~~ll~~i~~~~~~~~~~eitie-~np~~l~~e~l~~lk~~--G~~risiGvqS~~~~  175 (455)
T TIGR00538       117 ------------------SPEQISRLMKLIRENFPFNADAEISIE-IDPRYITKDVIDALRDE--GFNRLSFGVQDFNKE  175 (455)
T ss_pred             ------------------CHHHHHHHHHHHHHhCCCCCCCeEEEE-eccCcCCHHHHHHHHHc--CCCEEEEcCCCCCHH
Confidence                              02468888888877533   2345554 68999999999999999  999999999999999


Q ss_pred             HHhhhCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCCh
Q 041524          383 VLERMRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTH  455 (524)
Q Consensus       383 vL~~m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~  455 (524)
                      +|+.|+|+++.+++.++++.++++  |+. ++.|||+|+||||.+++.+|++++.+++++++.++.|++.|++.
T Consensus       176 ~l~~l~r~~~~~~~~~ai~~l~~~--G~~~v~~dli~GlPgqt~e~~~~tl~~~~~l~~~~is~y~L~~~p~~~  247 (455)
T TIGR00538       176 VQQAVNRIQPEEMIFELMNHAREA--GFTSINIDLIYGLPKQTKESFAKTLEKVAELNPDRLAVFNYAHVPWVK  247 (455)
T ss_pred             HHHHhCCCCCHHHHHHHHHHHHhc--CCCcEEEeEEeeCCCCCHHHHHHHHHHHHhcCCCEEEEecCccccchh
Confidence            999999999999999999999999  884 89999999999999999999999999999999999999888753

This model represents HemN, the oxygen-independent coproporphyrinogen III oxidase that replaces HemF function under anaerobic conditions. Several species, including E. coli, Helicobacter pylori, and Aquifex aeolicus, have both a member of this family and a member of another, closely related family for which there is no evidence of coproporphyrinogen III oxidase activity. Members of this family have a perfectly conserved motif PYRT[SC]YP in a region N-terminal to the region of homology with the related uncharacterized protein.

>PLN02428 lipoic acid synthase

Probab=99.88  E-value=1.8e-21  Score=199.09  Aligned_cols=210  Identities=20%  Similarity=0.213  Sum_probs=167.5

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      ...|+.+++||+++|.||+++..+++.+.+ ++++.+.++.+.+.|++++.|++.+...+.+                  
T Consensus       102 taT~milg~gCtr~CrFCav~~~~~p~~~d-~~Ep~~vA~~v~~~Glk~vvltSg~rddl~D------------------  162 (349)
T PLN02428        102 TATIMILGDTCTRGCRFCAVKTSRTPPPPD-PDEPENVAEAIASWGVDYVVLTSVDRDDLPD------------------  162 (349)
T ss_pred             eEEEEEecCCCCCCCCCCcCCCCCCCCCCC-hhhHHHHHHHHHHcCCCEEEEEEcCCCCCCc------------------
Confidence            567889999999999999998777666655 6777777777888899999999876443311                  


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCC-CHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC-CCC
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDF-PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR-RGY  391 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~-~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~-R~~  391 (524)
                               .+...+.++++.|.+..|..++..  ..|+.. ++++|+.|+++  |+..++.++|+ ++++++.|+ ++.
T Consensus       163 ---------~ga~~~~elir~Ir~~~P~i~Ie~--L~pdf~~d~elL~~L~eA--G~d~i~hnlET-v~rL~~~Ir~~~~  228 (349)
T PLN02428        163 ---------GGSGHFAETVRRLKQLKPEILVEA--LVPDFRGDLGAVETVATS--GLDVFAHNIET-VERLQRIVRDPRA  228 (349)
T ss_pred             ---------ccHHHHHHHHHHHHHhCCCcEEEE--eCccccCCHHHHHHHHHc--CCCEEccCccC-cHHHHHHhcCCCC
Confidence                     113579999999998877666555  444443 79999999999  99999999997 899999999 689


Q ss_pred             CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHH
Q 041524          392 TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQR  471 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~  471 (524)
                      +.++++++++.+++..||+.+.++||+|| |||+||+.++++++++++++.+.+..|. .| |..+-    .|..-+..+
T Consensus       229 sye~~Le~L~~ak~~~pGi~tkSg~MvGL-GET~Edv~e~l~~Lrelgvd~vtigqyL-~P-s~~h~----~v~~~v~p~  301 (349)
T PLN02428        229 GYKQSLDVLKHAKESKPGLLTKTSIMLGL-GETDEEVVQTMEDLRAAGVDVVTFGQYL-RP-TKRHL----PVKEYVTPE  301 (349)
T ss_pred             CHHHHHHHHHHHHHhCCCCeEEEeEEEec-CCCHHHHHHHHHHHHHcCCCEEeecccc-CC-Cccee----eeecccCHH
Confidence            99999999999999999999999999999 9999999999999999999999888874 34 33432    233334455


Q ss_pred             HHHHHHHHHHHH
Q 041524          472 RLTELIEAFRES  483 (524)
Q Consensus       472 Rl~~l~~~~~~~  483 (524)
                      .++++.+...++
T Consensus       302 ~f~~~~~~~~~~  313 (349)
T PLN02428        302 KFEFWREYGEEM  313 (349)
T ss_pred             HHHHHHHHHHHc
Confidence            555555554443

>PRK09249 coproporphyrinogen III oxidase; Provisional

Probab=99.87  E-value=4.9e-21  Score=205.84  Aligned_cols=187  Identities=19%  Similarity=0.248  Sum_probs=154.3

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc---cccCChHHHHHHHHHHHHC-----CCcEEEEEeccCCCCCCccCCccccCC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR---ERSRPVESIVKEVDELWKE-----GVKEVTLLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~---~Rsr~~e~Iv~Ei~~l~~~-----G~kei~l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      ...||.| --|+++|+||..+...+.   ...+.++.|++||+.+.+.     ++..|.|.|.+.+..            
T Consensus        50 ~~LYvHI-PFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~i~~gGGtPs~l------------  116 (453)
T PRK09249         50 LSLYVHI-PFCRSLCYYCGCNKIITRDHEKADPYLDALEKEIALVAALLGPGRPVSQLHWGGGTPTFL------------  116 (453)
T ss_pred             eEEEEEe-CCccccCCCCCCcccCCCCcchHHHHHHHHHHHHHHHHHHhCCCCceEEEEECCcccccC------------
Confidence            3567776 559999999998755332   2335789999999987653     466777776554432            


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCC---ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP---EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA  382 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~---~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~  382 (524)
                                        ....+.+|++.+.+..+   ...+.+. .+|..++++.+++|+++  ||++|+||+||++++
T Consensus       117 ------------------~~~~l~~ll~~l~~~~~~~~~~e~tie-~np~~lt~e~l~~l~~a--G~~risiGvqS~~~~  175 (453)
T PRK09249        117 ------------------SPEQLRRLMALLREHFNFAPDAEISIE-IDPRELDLEMLDALREL--GFNRLSLGVQDFDPE  175 (453)
T ss_pred             ------------------CHHHHHHHHHHHHHhCCCCCCCEEEEE-ecCCcCCHHHHHHHHHc--CCCEEEECCCCCCHH
Confidence                              12468888888877543   2355554 68999999999999999  999999999999999


Q ss_pred             HHhhhCCCCCHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChh
Q 041524          383 VLERMRRGYTREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHA  456 (524)
Q Consensus       383 vL~~m~R~~t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~  456 (524)
                      +|+.|+|+++.+++.++++.++++  |+ .++.|+|+|+||||.++++++++++.+++++++.++.|++.|++..
T Consensus       176 ~L~~l~r~~~~~~~~~ai~~l~~~--G~~~v~~dli~GlPgqt~e~~~~~l~~~~~l~~~~i~~y~l~~~p~~~~  248 (453)
T PRK09249        176 VQKAVNRIQPFEFTFALVEAAREL--GFTSINIDLIYGLPKQTPESFARTLEKVLELRPDRLAVFNYAHVPWLFK  248 (453)
T ss_pred             HHHHhCCCCCHHHHHHHHHHHHHc--CCCcEEEEEEccCCCCCHHHHHHHHHHHHhcCCCEEEEccCccchhhhh
Confidence            999999999999999999999999  88 7999999999999999999999999999999999999997777643

>COG0635 HemN Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]

Probab=99.87  E-value=8.9e-21  Score=200.52  Aligned_cols=227  Identities=18%  Similarity=0.265  Sum_probs=175.4

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCCc---cccCChHHHHHHHHHHHHC-C----CcEEEEEeccCCCCCCccCCccccC
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRGR---ERSRPVESIVKEVDELWKE-G----VKEVTLLGQNVNSYNDTSGMEKEVE  304 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G~---~Rsr~~e~Iv~Ei~~l~~~-G----~kei~l~d~n~~~y~~~~~~~~~~~  304 (524)
                      ..+.||.+ --|...|.||.+.....+   ....-.+.+.+||+..... |    ++.|+|.|.+.+..           
T Consensus        34 ~~slYiHi-PFC~~~C~YC~fn~~~~~~~~~~~~Y~~aL~~Ei~~~~~~~~~~~~v~ti~~GGGTPslL-----------  101 (416)
T COG0635          34 PLSLYIHI-PFCVSKCPYCDFNSHVTKRGQPVDEYLDALLEEIELVAALLGGQREVKTIYFGGGTPSLL-----------  101 (416)
T ss_pred             ceEEEEEc-ccccccCCCCCCeeeccCCCChHHHHHHHHHHHHHHHHhhcCCCCeEEEEEECCCccccC-----------
Confidence            56788885 899999999998754322   2234578889999988765 2    55677766544332           


Q ss_pred             CCCccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcC
Q 041524          305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGN  380 (524)
Q Consensus       305 ~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs  380 (524)
                                         ....+..|++.+.+..+    ...|.+. .+|..++.+.++.++++  |+++|++|+||++
T Consensus       102 -------------------~~~~l~~ll~~l~~~~~~~~~~~EitiE-~nP~~~~~e~~~~l~~~--GvNRiSlGVQsf~  159 (416)
T COG0635         102 -------------------SPEQLERLLKALRELFNDLDPDAEITIE-ANPGTVEAEKFKALKEA--GVNRISLGVQSFN  159 (416)
T ss_pred             -------------------CHHHHHHHHHHHHHhcccCCCCceEEEE-eCCCCCCHHHHHHHHHc--CCCEEEeccccCC
Confidence                               13567788888876652    2456665 69999999999999999  9999999999999


Q ss_pred             HHHHhhhCCCCCHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhccc
Q 041524          381 SAVLERMRRGYTREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRN  459 (524)
Q Consensus       381 ~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~  459 (524)
                      +++|+.++|-++.++..++++.+++.  |+ .++.|+|+|+|++|.+++.++++.+.+++++++.+|.|+..|+|+.+++
T Consensus       160 ~~~lk~lgR~h~~~~~~~a~~~~~~~--g~~~in~DLIyglP~QT~~~~~~~l~~a~~l~pdhis~y~L~~~p~t~~~~~  237 (416)
T COG0635         160 DEVLKALGRIHDEEEAKEAVELARKA--GFTSINIDLIYGLPGQTLESLKEDLEQALELGPDHLSLYSLAIEPGTKFAQR  237 (416)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHc--CCCcEEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEEeeeecCCCchhhhh
Confidence            99999999999999999999999998  66 5999999999999999999999999999999999999999999999987


Q ss_pred             CCCC--CCHH-HHHHHHHHHHHHHHHHHHHHHhcccCCEEEEE
Q 041524          460 YVDD--VPEE-VKQRRLTELIEAFRESTGQCYDSQVGTVQLVL  499 (524)
Q Consensus       460 ~~~~--v~~~-~k~~Rl~~l~~~~~~~~~~~~~~~vG~~~~vL  499 (524)
                      +.+.  +|+. .+.++.+...+.+   ....| .++|-....+
T Consensus       238 ~~~~~~lP~~d~~~~~~~~~~e~L---~~~Gy-~~yeisnfa~  276 (416)
T COG0635         238 KIKGKALPDEDEKADMYELVEELL---EKAGY-RQYEISNFAK  276 (416)
T ss_pred             cccCCCCcChHHHHHHHHHHHHHH---HHCCC-cEEeechhcC
Confidence            6542  4433 3333444444433   33344 3444444444

>TIGR00423 radical SAM domain protein, CofH subfamily

Probab=99.85  E-value=4.5e-20  Score=188.95  Aligned_cols=188  Identities=15%  Similarity=0.256  Sum_probs=151.5

Q ss_pred             EEEEEEcccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      ..+|.+++||+++|.||......+  +.+.+++|+|+++++...+.|+++|.|+|......                   
T Consensus         6 n~~i~~T~~C~~~C~FC~~~~~~~~~~~~~ls~eeI~~~~~~~~~~G~~~i~l~gg~~~~~-------------------   66 (309)
T TIGR00423         6 NRNINFTNICVGKCKFCAFRAREKDKDAYVLSLEEILEKVKEAVAKGATEVCIQGGLNPQL-------------------   66 (309)
T ss_pred             eeeecCccccccCCccCCCccCCCCCCcccCCHHHHHHHHHHHHHCCCCEEEEecCCCCCC-------------------
Confidence            456889999999999999875443  34578999999999999999999999997543212                   


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecC--------CCCCCCHHHHHHHHcCCCCcceee-cCcCCcCHHH
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP--------HPKDFPDELLYIMRDRPNVCKYIH-LPAQTGNSAV  383 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~--------~p~~~~~elL~~l~~~~~G~~~i~-igiESgs~~v  383 (524)
                                 ....+.++++.|.+..+.+.+...+.        .....++|.++.|+++  |+..++ .|+|++++++
T Consensus        67 -----------~~~~~~~i~~~Ik~~~~~i~~~~~s~~e~~~~~~~~g~~~~e~l~~LkeA--Gl~~i~~~g~E~l~~~~  133 (309)
T TIGR00423        67 -----------DIEYYEELFRAIKQEFPDVHIHAFSPMEVYFLAKNEGLSIEEVLKRLKKA--GLDSMPGTGAEILDDSV  133 (309)
T ss_pred             -----------CHHHHHHHHHHHHHHCCCceEEecCHHHHHHHHHHcCCCHHHHHHHHHHc--CCCcCCCCcchhcCHHH
Confidence                       02357889999988766544332111        1122358999999999  999995 7999999999


Q ss_pred             Hhhh-CCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC----CCCh-hc
Q 041524          384 LERM-RRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR----ERTH-AH  457 (524)
Q Consensus       384 L~~m-~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~----pGT~-~~  457 (524)
                      ++.+ .++.+.++++++++.+++.  |+.+.+.+|+|+| ||.||..+++.++++++.+...+..|.|.    +||| +.
T Consensus       134 ~~~i~~~~~t~~~~l~~i~~a~~~--Gi~~~s~~iiG~~-Et~ed~~~~l~~lr~l~~~~~~f~~fiP~~f~~~~t~~l~  210 (309)
T TIGR00423       134 RRKICPNKLSSDEWLEVIKTAHRL--GIPTTATMMFGHV-ENPEHRVEHLLRIRKIQEKTGGFTEFIPLPFQPENNPYLE  210 (309)
T ss_pred             HHhhCCCCCCHHHHHHHHHHHHHc--CCCceeeEEecCC-CCHHHHHHHHHHHHhhchhhCCeeeEEeeeecCCCChhhc
Confidence            9988 6678999999999999999  9999999999986 89999999999999999887777666663    5888 54

This protein family includes the CofH protein of coenzyme F(420) biosynthesis from Methanocaldococcus jannaschii, but appears to hit genomes more broadly than just the subset that make coenzyme F(420), so that narrower group is being built as a separate family.

>TIGR01211 ELP3 histone acetyltransferase, ELP3 family

Probab=99.85  E-value=3.8e-20  Score=199.57  Aligned_cols=187  Identities=17%  Similarity=0.264  Sum_probs=148.4

Q ss_pred             ccCC-ccCccccc-------CC-CCC---------ccccCChHHHHHHHHHHHHCC--Cc--EEEEEeccCCCCCCccCC
Q 041524          242 RGCN-NMCSFCIV-------PF-TRG---------RERSRPVESIVKEVDELWKEG--VK--EVTLLGQNVNSYNDTSGM  299 (524)
Q Consensus       242 RGC~-~~CsFC~v-------p~-~~G---------~~Rsr~~e~Iv~Ei~~l~~~G--~k--ei~l~d~n~~~y~~~~~~  299 (524)
                      --|| +.|.||--       |. +.|         +.+..|..++.++++.+...|  ++  |+.|.|.+|+++..    
T Consensus        76 ~~cph~~c~~cp~~~~~~~~~~sy~~~ep~~~ra~~~~~dpy~q~~~rl~~l~~~g~~~~kvE~i~~GGTft~l~~----  151 (522)
T TIGR01211        76 HRCPHGKCLYCPGGPDSENSPQSYTGYEPAAMRGRQNDYDPYEQVTARLEQLEQIGHPVDKVELIIMGGTFPARDL----  151 (522)
T ss_pred             ccCCCCceEeCCCCCCcCCCCcccCCCCcHhHHHHHcCCCcHHHHHHHHHHHHHhCCCCceEEEEEECCCcccCCH----
Confidence            4599 57999973       21 112         245679999999999998865  32  56899999988721    


Q ss_pred             ccccCCCCccccccCcccchhcccchhhHHHHH-HHH-------------------HhhC--CceEEEEecCCCCCCCHH
Q 041524          300 EKEVEPGANWRLSEGFNSMCKVKKMGLRFADLL-DRL-------------------SLEF--PEMRFRYTSPHPKDFPDE  357 (524)
Q Consensus       300 ~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll-~~l-------------------~~~~--~~~~ir~~s~~p~~~~~e  357 (524)
                              ++               ...|...+ +.+                   .+..  ....+++. .+|+.++++
T Consensus       152 --------~y---------------~~~fl~~~~~a~~~~~~~~~~~~~~~~~~~~ne~a~~~~vgitiE-tRPD~i~~e  207 (522)
T TIGR01211       152 --------DY---------------QEWFIKRCLNAMNGFDQELKGNSTLEEAIRINETSKHRCVGLTIE-TRPDYCREE  207 (522)
T ss_pred             --------HH---------------HHHHHHHHHHHhccccccccccchHHHHHHhhhcccCCeEEEEEE-EcCCcCCHH
Confidence                    10               11222211 111                   1110  11345554 599999999


Q ss_pred             HHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHH
Q 041524          358 LLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKA  437 (524)
Q Consensus       358 lL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~  437 (524)
                      .|+.|+++  ||++|++|+||+++++|+.|+|+++.+++.++++.++++  |+.+..+||+|+||||.+++.+|++.+.+
T Consensus       208 ~L~~L~~~--G~~rVslGVQS~~d~VL~~inRght~~~v~~Ai~~lr~~--G~~v~~~LM~GLPgqt~e~~~~t~~~l~~  283 (522)
T TIGR01211       208 HIDRMLKL--GATRVELGVQTIYNDILERTKRGHTVRDVVEATRLLRDA--GLKVVYHIMPGLPGSSFERDLEMFREIFE  283 (522)
T ss_pred             HHHHHHHc--CCCEEEEECccCCHHHHHHhCCCCCHHHHHHHHHHHHHc--CCeEEEEeecCCCCCCHHHHHHHHHHHHh
Confidence            99999999  999999999999999999999999999999999999999  99999999999999999999999999985


Q ss_pred             ---cCCCeEEEEeeecCCCChhcccC
Q 041524          438 ---VGYDMAYMFAYSMRERTHAHRNY  460 (524)
Q Consensus       438 ---l~~d~~~i~~~sp~pGT~~~~~~  460 (524)
                         +++|.+.++++.+.|||++++.+
T Consensus       284 ~~~l~pD~Ikiypl~V~~gT~L~~~~  309 (522)
T TIGR01211       284 DPRFKPDMLKIYPTLVTRGTELYELW  309 (522)
T ss_pred             ccCCCcCEEEEecceeeCCCHHHHHH
Confidence               89999999999999999998754

The Saccharomyces cerevisiae member YPL086C has been characterized in vitro as an N-terminal acetyltransferase for all four core histones. It is a component of the RNA polymerase II holoenzyme, designated Elp3p for Elongator Protein 3. Members of this family are found in eukaryotes and archaea. These proteins are part of the larger set of GNAT acetyltransferases.

>TIGR03551 F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit

Probab=99.85  E-value=4.6e-20  Score=191.54  Aligned_cols=188  Identities=16%  Similarity=0.276  Sum_probs=156.5

Q ss_pred             EEEEEcccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      ..|.+|+||+++|.||......+  +...+++|+|+++++.+.+.|+++|.|+|.+...+            .       
T Consensus        41 ~~i~~T~~C~~~C~FC~~~~~~~~~~~y~ls~eeI~e~~~~~~~~G~~~i~l~gG~~p~~------------~-------  101 (343)
T TIGR03551        41 RNINFTNVCYGGCGFCAFRKRKGDADAYLLSLEEIAERAAEAWKAGATEVCIQGGIHPDL------------D-------  101 (343)
T ss_pred             eccccccccccCCccCCCccCCCCCCcccCCHHHHHHHHHHHHHCCCCEEEEEeCCCCCC------------C-------
Confidence            45778999999999999865443  22348999999999999999999999997644322            0       


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEec--------CCCCCCCHHHHHHHHcCCCCcceee-cCcCCcCHHHH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTS--------PHPKDFPDELLYIMRDRPNVCKYIH-LPAQTGNSAVL  384 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s--------~~p~~~~~elL~~l~~~~~G~~~i~-igiESgs~~vL  384 (524)
                                 ...+.++++.+.+..+.+.+...+        ......++|.++.|+++  |+..++ .|.|+++++++
T Consensus       102 -----------~~~~~~i~~~Ik~~~~~i~~~~~t~~ei~~~~~~~g~~~~e~l~~LkeA--Gl~~i~~~~~E~~~~~v~  168 (343)
T TIGR03551       102 -----------GDFYLDILRAVKEEVPGMHIHAFSPMEVYYGARNSGLSVEEALKRLKEA--GLDSMPGTAAEILDDEVR  168 (343)
T ss_pred             -----------HHHHHHHHHHHHHHCCCceEEecCHHHHHHHHHHcCCCHHHHHHHHHHh--CcccccCcchhhcCHHHH
Confidence                       235788899998876655543321        13455689999999999  999998 57899999999


Q ss_pred             hhhCCC-CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCC----CChhcc
Q 041524          385 ERMRRG-YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRE----RTHAHR  458 (524)
Q Consensus       385 ~~m~R~-~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~p----GT~~~~  458 (524)
                      +.+.++ .+.+++++.++.++++  |+.+.+.+|+|+| ||.||+.+++.++++++.++.++..|.|.|    |||++.
T Consensus       169 ~~i~~~~~~~~~~~~~i~~a~~~--Gi~v~s~~i~G~~-Et~ed~~~~l~~lr~l~~~~~~~~~~iP~~f~~~gT~l~~  244 (343)
T TIGR03551       169 KVICPDKLSTAEWIEIIKTAHKL--GIPTTATIMYGHV-ETPEHWVDHLLILREIQEETGGFTEFVPLPFVHYNAPLYL  244 (343)
T ss_pred             HhcCCCCCCHHHHHHHHHHHHHc--CCcccceEEEecC-CCHHHHHHHHHHHHHhhHHhCCeeEEEeccccCCCCcccc
Confidence            999986 4999999999999999  9999999999986 999999999999999999998899999876    999985

This enzyme, together with CofG, complete the biosynthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, the chromophore of coenzyme F420. The chromophore is also used in cyanobacteria DNA photolyases.

>PRK06245 cofG FO synthase subunit 1; Reviewed

Probab=99.85  E-value=5.5e-20  Score=190.54  Aligned_cols=197  Identities=16%  Similarity=0.244  Sum_probs=152.4

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcc---
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW---  309 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~---  309 (524)
                      ....+|.+++||+++|+||.++...|..+.+++|+|+++++.+.+.|+++|.|++.....+.            .++   
T Consensus        11 ~~~~~i~~Tn~C~~~C~fC~~~~~~~~~~~ls~eei~~~~~~~~~~G~~ei~l~gG~~p~~~------------~~~~~~   78 (336)
T PRK06245         11 SRNVFIPLTYECRNRCGYCTFRRDPGQPSLLSPEEVKEILRRGADAGCTEALFTFGEVPDES------------YERIKE   78 (336)
T ss_pred             ecceeeeccccccCCCccCCCcCCCCccCcCCHHHHHHHHHHHHHCCCCEEEEecCCCCccc------------hhhhhh
Confidence            34578899999999999999988888888999999999999999999999999975543331            000   


Q ss_pred             ccc-cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC
Q 041524          310 RLS-EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR  388 (524)
Q Consensus       310 ~~~-~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~  388 (524)
                      .+. .|+          ..+.++++++.+......+ +.+.++..++++.++.|+++  |. .+++.+||+++.+++.|+
T Consensus        79 ~~~~~g~----------~~~~~~i~~i~~~~~~~g~-~~~~~~~~lt~e~i~~Lk~a--g~-~l~~~~et~~e~l~~~v~  144 (336)
T PRK06245         79 QLAEMGY----------SSILEYLYDLCELALEEGL-LPHTNAGILTREEMEKLKEV--NA-SMGLMLEQTSPRLLNTVH  144 (336)
T ss_pred             hhhhhhH----------HHHHHHHHHHHHHHhhcCC-CccccCCCCCHHHHHHHHHh--CC-CCCCCccccchhhHHhhc
Confidence            000 000          1234444444332111111 22467888999999999997  64 478889999999998885


Q ss_pred             C---CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC-----CCeEEEEeeecCCCChhcc
Q 041524          389 R---GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG-----YDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       389 R---~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~-----~d~~~i~~~sp~pGT~~~~  458 (524)
                      +   +.+.++.++.++.+++.  |+.+.+++|+|+ |||.+++.+++.++++++     ++.+.+++|+|.|||++..
T Consensus       145 ~~~~~~~~~~~l~~i~~a~~~--Gi~~~~~~i~G~-gEt~ed~~~~l~~l~~l~~~~gg~~~~~~~~f~P~~~T~~~~  219 (336)
T PRK06245        145 RGSPGKDPELRLETIENAGKL--KIPFTTGILIGI-GETWEDRAESLEAIAELHERYGHIQEVIIQNFSPKPGIPMEN  219 (336)
T ss_pred             cCCCCCCHHHHHHHHHHHHHc--CCceeeeeeeEC-CCCHHHHHHHHHHHHHHHHhhCCCcEEecCCCcCCCCCCccc
Confidence            5   45678889999999998  999999999999 999999999999999885     5778899999999999864

>TIGR03550 F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit

Probab=99.83  E-value=2.1e-19  Score=184.96  Aligned_cols=201  Identities=14%  Similarity=0.222  Sum_probs=152.1

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ...+|.+++||+++|+||+++...|.  .+.+++|+|+++++.+.+.|++++.+++..-....    ..+    -.++--
T Consensus         4 ~n~~i~~tn~C~~~C~fCaf~~~~g~~~~~~l~~eeI~~~a~~~~~~G~~ei~l~~G~~p~~~----~~~----~~~~l~   75 (322)
T TIGR03550         4 RNVFIPLTRLCRNRCGYCTFRRPPGELEAALLSPEEVLEILRKGAAAGCTEALFTFGEKPEER----YPE----AREWLA   75 (322)
T ss_pred             ceEEeccccCcCCCCccCCccccCCCcccccCCHHHHHHHHHHHHHCCCCEEEEecCCCcccc----HHH----HHHHHH
Confidence            45789999999999999999887775  45899999999999999999999988742211000    000    000000


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                      +.+|..      ....+.++++.+.+..+.    +.+.++..++++.++.|+++  |.. +++.+||+++.+++.+++.+
T Consensus        76 ~~~~~~------~~~~~~~~~~~i~~e~~~----~~~~~~g~lt~e~l~~Lk~a--G~~-~~~~~Et~~~~l~~~~~~~~  142 (322)
T TIGR03550        76 EMGYDS------TLEYLRELCELALEETGL----LPHTNPGVMSRDELARLKPV--NAS-MGLMLETTSERLCKGEAHYG  142 (322)
T ss_pred             hcCCcc------HHHHHHHHHHHHHHhcCC----ccccCCCCCCHHHHHHHHhh--CCC-CCcchhhhccccccccccCC
Confidence            001110      113466777777654221    23467788999999999998  864 68999999999888777655


Q ss_pred             ----CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC-----CCeEEEEeeecCCCChhcc
Q 041524          392 ----TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG-----YDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       392 ----t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~-----~d~~~i~~~sp~pGT~~~~  458 (524)
                          +.++.++.++.+++.  |+.+.+++|+|+ |||++|+.+++.++++++     ++.+.+++|.|.||||+..
T Consensus       143 ~p~k~~~~~l~~i~~a~~~--Gi~~~s~~i~G~-gEt~ed~~~~l~~lr~Lq~~~~g~~~~i~~~f~P~~gTpl~~  215 (322)
T TIGR03550       143 SPGKDPAVRLETIEDAGRL--KIPFTTGILIGI-GETREERAESLLAIRELHERYGHIQEVIVQNFRAKPGTPMEN  215 (322)
T ss_pred             CCCCCHHHHHHHHHHHHHc--CCCccceeeEeC-CCCHHHHHHHHHHHHHHHHHcCCCeEEecCccccCCCCCccC
Confidence                467899999999999  999999999997 999999999999999987     6667778999999999974

This model represents either a subunit or a domain, depending on whether or not the genes are fused, of a bifunctional protein that completes the synthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin, or FO. FO is the chromophore of coenzyme F(420), involved in methanogenesis in methanogenic archaea but found in certain other lineages as well. The chromophore also occurs as a cofactor in DNA photolyases in Cyanobacteria.

>cd01335 Radical_SAM Radical SAM superfamily

Probab=99.82  E-value=7.7e-19  Score=165.41  Aligned_cols=183  Identities=27%  Similarity=0.463  Sum_probs=153.0

Q ss_pred             EEEcccCCccCcccccCCCCCccccCCh--HHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCc
Q 041524          238 VSVMRGCNNMCSFCIVPFTRGRERSRPV--ESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF  315 (524)
Q Consensus       238 v~isRGC~~~CsFC~vp~~~G~~Rsr~~--e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~  315 (524)
                      +.+++||+++|+||..+...+.....+.  +.+.+.+......+.+.+.+.+.+....                      
T Consensus         1 i~~~~~C~~~C~fC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ggep~~~----------------------   58 (204)
T cd01335           1 LELTRGCNLNCGFCSNPASKGRGPESPPEIEEILDIVLEAKERGVEVVILTGGEPLLY----------------------   58 (204)
T ss_pred             CccCCccCCcCCCCCCCCCCCCCccccccHHHHHHHHHHHHhcCceEEEEeCCcCCcc----------------------
Confidence            3578999999999999877655433333  3566666666667888888877655433                      


Q ss_pred             ccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC-CCCCHH
Q 041524          316 NSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR-RGYTRE  394 (524)
Q Consensus       316 ~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~-R~~t~e  394 (524)
                                ..+.++++.+.+..+...+++.+ +...++++.++.|+++  |+..+.+++||+++.+++.++ ++.+.+
T Consensus        59 ----------~~~~~~i~~~~~~~~~~~~~i~T-~~~~~~~~~~~~l~~~--g~~~i~i~le~~~~~~~~~~~~~~~~~~  125 (204)
T cd01335          59 ----------PELAELLRRLKKELPGFEISIET-NGTLLTEELLKELKEL--GLDGVGVSLDSGDEEVADKIRGSGESFK  125 (204)
T ss_pred             ----------HhHHHHHHHHHhhCCCceEEEEc-CcccCCHHHHHHHHhC--CCceEEEEcccCCHHHHHHHhcCCcCHH
Confidence                      15788888888765556666653 4445589999999998  999999999999999999998 788999


Q ss_pred             HHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC-CCeEEEEeeecCCCChhc
Q 041524          395 AYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG-YDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       395 ~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~-~d~~~i~~~sp~pGT~~~  457 (524)
                      ++++.++.+++.  ++.+...+|+|.|+++.+++.++++++.+.. ++.+.+++|.|.|||+++
T Consensus       126 ~~~~~i~~~~~~--~~~~~~~~i~g~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~~~t~~~  187 (204)
T cd01335         126 ERLEALKELREA--GLGLSTTLLVGLGDEDEEDDLEELELLAEFRSPDRVSLFRLLPEEGTPLE  187 (204)
T ss_pred             HHHHHHHHHHHc--CCCceEEEEEecCCChhHHHHHHHHHHHhhcCcchhhhhhhcccCCCeee
Confidence            999999999999  9999999999999999999999999999988 899999999999999998

Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme o

>PRK08508 biotin synthase; Provisional

Probab=99.81  E-value=2.4e-18  Score=173.59  Aligned_cols=181  Identities=15%  Similarity=0.164  Sum_probs=150.9

Q ss_pred             EcccCCccCcccccCCCCC----ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCc
Q 041524          240 VMRGCNNMCSFCIVPFTRG----RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF  315 (524)
Q Consensus       240 isRGC~~~CsFC~vp~~~G----~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~  315 (524)
                      .++||+++|.||+.+...+    +++.+++|+|+++++...+.|+++|.+++......            .         
T Consensus        13 ~s~gC~~~C~FCa~~~~~~~~~~~y~~~s~eeI~~~a~~a~~~g~~~~~lv~sg~~~~------------~---------   71 (279)
T PRK08508         13 SSGNCKEDCKYCTQSAHYKADIKRYKRKDIEQIVQEAKMAKANGALGFCLVTSGRGLD------------D---------   71 (279)
T ss_pred             ccCCCCCCCcCCCCcccCCCCCccccCCCHHHHHHHHHHHHHCCCCEEEEEeccCCCC------------c---------
Confidence            3899999999999876432    35668999999999999999999999875443211            0         


Q ss_pred             ccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHH
Q 041524          316 NSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREA  395 (524)
Q Consensus       316 ~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~  395 (524)
                             ..-..+.++++.+.+..+.+.+..+   ....++|.++.|+++  |+..+++++|| +++.+..+.++++.++
T Consensus        72 -------~~~e~~~ei~~~ik~~~p~l~i~~s---~G~~~~e~l~~Lk~a--Gld~~~~~lEt-~~~~~~~i~~~~~~~~  138 (279)
T PRK08508         72 -------KKLEYVAEAAKAVKKEVPGLHLIAC---NGTASVEQLKELKKA--GIFSYNHNLET-SKEFFPKICTTHTWEE  138 (279)
T ss_pred             -------ccHHHHHHHHHHHHhhCCCcEEEec---CCCCCHHHHHHHHHc--CCCEEcccccc-hHHHhcCCCCCCCHHH
Confidence                   0124577888888776554443222   245689999999999  99999999999 5788999988999999


Q ss_pred             HHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          396 YLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       396 ~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                      .++.++.++++  |+.+.+.+|+|+ |||.||..+++.++++++++.+-+..|.|.||||+.
T Consensus       139 ~l~~i~~a~~~--Gi~v~sg~I~Gl-GEt~ed~~~~l~~lr~L~~~svpl~~~~p~~~t~~~  197 (279)
T PRK08508        139 RFQTCENAKEA--GLGLCSGGIFGL-GESWEDRISFLKSLASLSPHSTPINFFIPNPALPLK  197 (279)
T ss_pred             HHHHHHHHHHc--CCeecceeEEec-CCCHHHHHHHHHHHHcCCCCEEeeCCcCCCCCCCCC
Confidence            99999999999  999999999997 999999999999999999999999999999999985

>TIGR03700 mena_SCO4494 putative menaquinone biosynthesis protein, SCO4494 family

Probab=99.80  E-value=1.5e-18  Score=180.65  Aligned_cols=187  Identities=17%  Similarity=0.261  Sum_probs=154.3

Q ss_pred             EEEEEcccCCccCcccccCCCCC---ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG---RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G---~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      .+|..+.||+++|+||++....+   +++ .++|+|+++++...+.|+++|.+++.+-..+                   
T Consensus        50 ~~in~Tn~C~~~C~FCa~~~~~~~~~~y~-l~~eeI~~~a~~~~~~G~~~v~l~~G~~p~~-------------------  109 (351)
T TIGR03700        50 RHLNYTNICVNGCAFCAFQRERGEPGAYA-MSLEEIVARVKEAYAPGATEVHIVGGLHPNL-------------------  109 (351)
T ss_pred             CCcccccccccCCccCceeCCCCCcccCC-CCHHHHHHHHHHHHHCCCcEEEEecCCCCCC-------------------
Confidence            45778999999999999875444   233 7999999999999999999999986332111                   


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecC--------CCCCCCHHHHHHHHcCCCCcceee-cCcCCcCHHH
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP--------HPKDFPDELLYIMRDRPNVCKYIH-LPAQTGNSAV  383 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~--------~p~~~~~elL~~l~~~~~G~~~i~-igiESgs~~v  383 (524)
                                 ....+.++++.+.+..|.+.+...++        .....+++.++.|+++  |+..++ .|+||+++++
T Consensus       110 -----------~~~~~~e~i~~Ik~~~p~i~i~~~~~~ei~~~~~~~g~~~~e~l~~LkeA--Gld~~~~~g~E~~~~~v  176 (351)
T TIGR03700       110 -----------PFEWYLDMIRTLKEAYPDLHVKAFTAVEIHHFSKISGLPTEEVLDELKEA--GLDSMPGGGAEIFAEEV  176 (351)
T ss_pred             -----------CHHHHHHHHHHHHHHCCCceEEeCCHHHHHHHHHHcCCCHHHHHHHHHHc--CCCcCCCCcccccCHHH
Confidence                       01468889999988777666544221        1234578899999999  999987 7999999999


Q ss_pred             HhhhCCC-CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC----CCChhcc
Q 041524          384 LERMRRG-YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR----ERTHAHR  458 (524)
Q Consensus       384 L~~m~R~-~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~----pGT~~~~  458 (524)
                      ++.+.++ .+.+++++.++.++++  |+.+.+.+|+|+ |||.++..+.+..+++++.+...+..|.|.    +|||+..
T Consensus       177 ~~~i~~~~~~~~~~l~~i~~a~~~--Gi~~~sg~i~Gl-gEt~edrv~~l~~Lr~l~~~~~~f~~fiP~~f~~~~tpl~~  253 (351)
T TIGR03700       177 RQQICPEKISAERWLEIHRTAHEL--GLKTNATMLYGH-IETPAHRVDHMLRLRELQDETGGFQAFIPLAFQPDNNRLNR  253 (351)
T ss_pred             HhhcCCCCCCHHHHHHHHHHHHHc--CCCcceEEEeeC-CCCHHHHHHHHHHHHHhhHhhCCceEEEeecccCCCCcccC
Confidence            9999986 5788999999999999  999999999997 999999999999999999988888888888    5999864

Members of this protein family appear to be involved in menaquinone biosynthesis by an alternate pathway via futalosine, based on close phylogenetic correlation with known markers of the futalosine pathway, gene clustering in many organisms, and paralogy with the SCO4550 protein.

>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation

Probab=99.80  E-value=1e-18  Score=160.03  Aligned_cols=161  Identities=27%  Similarity=0.442  Sum_probs=131.5

Q ss_pred             EEEcccCCccCcccccCC--CCCccccCChHHHHHHHHHH-HHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccC
Q 041524          238 VSVMRGCNNMCSFCIVPF--TRGRERSRPVESIVKEVDEL-WKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEG  314 (524)
Q Consensus       238 v~isRGC~~~CsFC~vp~--~~G~~Rsr~~e~Iv~Ei~~l-~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g  314 (524)
                      |++++||+++|.||..+.  ..+..+.+++++++++++.+ .+.|++.+.+.+.++..+                     
T Consensus         1 i~~~~~C~~~C~fC~~~~~~~~~~~~~~~~e~i~~~~~~~~~~~~~~~i~~~~gep~~~---------------------   59 (166)
T PF04055_consen    1 IETTRGCNLNCSFCYYPRSRRKNKPREMSPEEILEEIKELKQDKGVKEIFFGGGEPTLH---------------------   59 (166)
T ss_dssp             EEEESEESS--TTTSTTTTCCTCGCEECHHHHHHHHHHHHHHHTTHEEEEEESSTGGGS---------------------
T ss_pred             CEECcCcCccCCCCCCCccCCCcccccCCHHHHHHHHHHHhHhcCCcEEEEeecCCCcc---------------------
Confidence            578999999999999987  44567889999999999999 587888888887666544                     


Q ss_pred             cccchhcccchhhHHHHHHHHHhhC-CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH-HHhhhCCCCC
Q 041524          315 FNSMCKVKKMGLRFADLLDRLSLEF-PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA-VLERMRRGYT  392 (524)
Q Consensus       315 ~~~~~~~~~~~~~~~~Ll~~l~~~~-~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~-vL~~m~R~~t  392 (524)
                                 ..+.+++..+.+.. ...++.+.+ ++...+++.++.|+++  |+..+.+|+||.+++ +++.++++.+
T Consensus        60 -----------~~~~~~~~~~~~~~~~~~~i~~~t-~~~~~~~~~l~~l~~~--~~~~i~~~l~s~~~~~~~~~~~~~~~  125 (166)
T PF04055_consen   60 -----------PDFIELLELLRKIKKRGIRISINT-NGTLLDEELLDELKKL--GVDRIRISLESLDEESVLRIINRGKS  125 (166)
T ss_dssp             -----------CHHHHHHHHHHHCTCTTEEEEEEE-ESTTHCHHHHHHHHHT--TCSEEEEEEBSSSHHHHHHHHSSTSH
T ss_pred             -----------hhHHHHHHHHHHhhccccceeeec-cccchhHHHHHHHHhc--CccEEecccccCCHHHhhhhhcCCCC
Confidence                       23556655555542 345665553 2333459999999999  899999999999999 9999999999


Q ss_pred             HHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHH
Q 041524          393 REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLM  435 (524)
Q Consensus       393 ~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l  435 (524)
                      .++++++++.++++  |+.....+|+|+||||+++++++++|+
T Consensus       126 ~~~~~~~l~~l~~~--g~~~~~~~i~~~~~~~~~e~~~~~~~i  166 (166)
T PF04055_consen  126 FERVLEALERLKEA--GIPRVIIFIVGLPGENDEEIEETIRFI  166 (166)
T ss_dssp             HHHHHHHHHHHHHT--TSETEEEEEEEBTTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CCCcEEEEEEEeCCCCHHHHHHHhCcC
Confidence            99999999999999  876688999999999999999999986

Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].; GO: 0003824 catalytic activity, 0051536 iron-sulfur cluster binding; PDB: 2A5H_D 3T7V_A 3C8F_A 3CB8_A 2FB2_A 2FB3_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A ....

>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.79  E-value=1.4e-17  Score=161.10  Aligned_cols=177  Identities=18%  Similarity=0.284  Sum_probs=134.7

Q ss_pred             hHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCC-CCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHH
Q 041524          327 RFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRP-NVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQ  405 (524)
Q Consensus       327 ~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~-~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~  405 (524)
                      -+.+..+......+..-+.+. .+|+.+++++|++|++.. +---++.+|+||.++++|+++||+|+...|.++++.+|+
T Consensus       101 vLre~ye~aL~~~~VVGLsIg-TRPDClpd~VldlL~e~~~r~~vWvELGLQT~h~~Tlk~iNRgHd~~~y~dav~r~rk  179 (312)
T COG1242         101 VLREMYEQALSEAGVVGLSIG-TRPDCLPDDVLDLLAEYNKRYEVWVELGLQTAHDKTLKRINRGHDFACYVDAVKRLRK  179 (312)
T ss_pred             HHHHHHHHHhCcCCeeEEeec-CCCCCCcHHHHHHHHHHhhheEEEEEeccchhhHHHHHHHhcccchHHHHHHHHHHHH
Confidence            455666655555555666665 799999999999998863 234468999999999999999999999999999999999


Q ss_pred             hCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCC-CCCHHHHHHHHHHHHHHHHHHH
Q 041524          406 IIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVD-DVPEEVKQRRLTELIEAFREST  484 (524)
Q Consensus       406 ~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~-~v~~~~k~~Rl~~l~~~~~~~~  484 (524)
                      .  ||.+.+.+|+|+||||.+++.+|++.+..++++.+.++++....||++.++|.+ .+.--..++-...+.+.++-+ 
T Consensus       180 r--gIkvc~HiI~GLPgE~~~~mleTak~v~~~~v~GIKlH~LhvvkgT~m~k~Y~~G~l~~ls~eeYv~~~~d~le~l-  256 (312)
T COG1242         180 R--GIKVCTHLINGLPGETRDEMLETAKIVAELGVDGIKLHPLHVVKGTPMEKMYEKGRLKFLSLEEYVELVCDQLEHL-  256 (312)
T ss_pred             c--CCeEEEEEeeCCCCCCHHHHHHHHHHHHhcCCceEEEEEEEEecCChHHHHHHcCCceeccHHHHHHHHHHHHHhC-
Confidence            9  999999999999999999999999999999999999999999999999887643 222222222223333332221 


Q ss_pred             HHHHhcccCCEEEEEEeccCCCCCCCeEEEeCC
Q 041524          485 GQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSD  517 (524)
Q Consensus       485 ~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~  517 (524)
                                .-.|+|-+.+.+.|...++|-.+
T Consensus       257 ----------pp~vviHRitgd~pr~~li~P~W  279 (312)
T COG1242         257 ----------PPEVVIHRITGDAPRDTLIAPLW  279 (312)
T ss_pred             ----------CcceEEEEecCCCCccceecchh
Confidence                      23667776655545445555433

>PRK08445 hypothetical protein; Provisional

Probab=99.78  E-value=3.9e-18  Score=176.87  Aligned_cols=188  Identities=14%  Similarity=0.211  Sum_probs=150.0

Q ss_pred             EEEEEcccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      ..|.+|.||+++|.||++....+  .....++++|++.++...+.|.++|++.|.+-..+            .       
T Consensus        44 ~~in~Tn~C~~~C~FCa~~~~~~~~~~y~l~~eeI~~~~~~a~~~g~~~i~~~gg~~~~~------------~-------  104 (348)
T PRK08445         44 RNINYTNICWVDCKFCAFYRHLKEDDAYILSFEEIDKKIEELLAIGGTQILFQGGVHPKL------------K-------  104 (348)
T ss_pred             cccccccccccCCccCCCccCCCCCCCeeCCHHHHHHHHHHHHHcCCCEEEEecCCCCCC------------C-------
Confidence            34678999999999999875422  22255999999999999999999999987443322            1       


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEE-EecC------CCCCCC-HHHHHHHHcCCCCcceee-cCcCCcCHHHH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFR-YTSP------HPKDFP-DELLYIMRDRPNVCKYIH-LPAQTGNSAVL  384 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir-~~s~------~p~~~~-~elL~~l~~~~~G~~~i~-igiESgs~~vL  384 (524)
                                 ...+.++++.|.+..|.+.+. ++..      +...++ +|.++.|+++  |+.+++ +|+||++++++
T Consensus       105 -----------~e~~~~l~~~Ik~~~p~i~~~a~s~~ei~~~a~~~~~~~~e~L~~LkeA--Gl~~~~g~glE~~~d~v~  171 (348)
T PRK08445        105 -----------IEWYENLVSHIAQKYPTITIHGFSAVEIDYIAKISKISIKEVLERLQAK--GLSSIPGAGAEILSDRVR  171 (348)
T ss_pred             -----------HHHHHHHHHHHHHHCCCcEEEEccHHHHHHHHHHhCCCHHHHHHHHHHc--CCCCCCCCceeeCCHHHH
Confidence                       246889999999988766543 2211      112233 8999999999  999985 99999999999


Q ss_pred             hhh-CCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEee----ecCCCChhcc
Q 041524          385 ERM-RRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAY----SMRERTHAHR  458 (524)
Q Consensus       385 ~~m-~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~----sp~pGT~~~~  458 (524)
                      +.+ .++.+.+++++.++.++++  |+.+.+.+|+|+ |||.++..+.+.++++++.+...+..|    .+.||||++.
T Consensus       172 ~~~~pk~~t~~~~i~~i~~a~~~--Gi~~~sg~i~G~-~Et~edr~~~l~~lreLq~~~~g~~~fi~~~~~p~~tpl~~  247 (348)
T PRK08445        172 DIIAPKKLDSDRWLEVHRQAHLI--GMKSTATMMFGT-VENDEEIIEHWERIRDLQDETGGFRAFILWSFQPDNTPLKE  247 (348)
T ss_pred             HhhCCCCCCHHHHHHHHHHHHHc--CCeeeeEEEecC-CCCHHHHHHHHHHHHHHHHHhCCeeEEeccccCCCCCcccc
Confidence            999 7789999999999999999  999999999997 699999999999999998766333332    2449999975

>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family

Probab=99.78  E-value=4.3e-18  Score=176.65  Aligned_cols=188  Identities=16%  Similarity=0.231  Sum_probs=147.8

Q ss_pred             EEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      ..+.++.||+++|+||.+....+.  .+.+++++|+++++.+.+.|+++|.|+|......                    
T Consensus        43 ~~i~~s~~C~~~C~fC~~~~~~~~~~~~~ls~eei~~~~~~~~~~G~~~i~l~gG~~p~~--------------------  102 (340)
T TIGR03699        43 RNINYTNICVVGCKFCAFYRAPGHPEGYVLSVEEILQKIEELVAYGGTQILLQGGVNPDL--------------------  102 (340)
T ss_pred             cccccchhhccCCccCCcccCCCCccccCCCHHHHHHHHHHHHHcCCcEEEEecCCCCCC--------------------
Confidence            345679999999999997654443  3468999999999999989999999986532211                    


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEE-EecC------CC-CCCCHHHHHHHHcCCCCcceee-cCcCCcCHHHH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFR-YTSP------HP-KDFPDELLYIMRDRPNVCKYIH-LPAQTGNSAVL  384 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir-~~s~------~p-~~~~~elL~~l~~~~~G~~~i~-igiESgs~~vL  384 (524)
                                ....+.++++.+.+..+.+.+. ++..      .. ...+++.++.|+++  |+.+++ .|+|+++++++
T Consensus       103 ----------~~~~~~~li~~Ik~~~~~i~~~~~s~~ei~~~~~~~g~~~~e~l~~Lk~a--G~~~~~~~g~E~~~~~~~  170 (340)
T TIGR03699       103 ----------GLDYYEDLFRAIKARFPHIHIHSFSPVEIVYIAKKEGLSLREVLERLKEA--GLDSIPGGGAEILSDRVR  170 (340)
T ss_pred             ----------CHHHHHHHHHHHHHHCCCcCCCCCCHHHHHHHhccCCCCHHHHHHHHHHc--CCCcCCCCcccccCHHHH
Confidence                      0134678888888765443321 1100      01 12248999999999  999998 58999999999


Q ss_pred             hhhC-CCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC----CCChhcc
Q 041524          385 ERMR-RGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR----ERTHAHR  458 (524)
Q Consensus       385 ~~m~-R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~----pGT~~~~  458 (524)
                      +.+. ++.+.++++++++.++++  |+.+.+++|+|+ |||.++..+++.++++++.+...+..|.|.    +|||++.
T Consensus       171 ~~~~~~~~s~~~~l~~i~~a~~~--Gi~v~~~~iiGl-gEt~ed~~~~l~~l~~l~~~~~~~~~fIP~~f~p~~tpl~~  246 (340)
T TIGR03699       171 KIISPKKISSEEWLEVMETAHKL--GLPTTATMMFGH-VETLEDRIEHLERIRELQDKTGGFTAFIPWTFQPGNTELGK  246 (340)
T ss_pred             HhhCCCCCCHHHHHHHHHHHHHc--CCCccceeEeeC-CCCHHHHHHHHHHHHHhchhhCCeeEEEeecccCCCCcccC
Confidence            9985 467999999999999999  999999999996 999999999999999999887777666663    7999875

members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.

>PRK06267 hypothetical protein; Provisional

Probab=99.78  E-value=2.9e-17  Score=170.74  Aligned_cols=179  Identities=17%  Similarity=0.191  Sum_probs=143.2

Q ss_pred             EEEEEEcccCC--ccCcccccCCCCC-----ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCC
Q 041524          235 TAFVSVMRGCN--NMCSFCIVPFTRG-----RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGA  307 (524)
Q Consensus       235 ~a~v~isRGC~--~~CsFC~vp~~~G-----~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~  307 (524)
                      ...|..|++|+  ++|+||..+...+     .++.+++|+|++|++.+.+.|++.+.+.|...  +              
T Consensus        28 ~~~l~~S~~C~l~~~C~FC~~s~~~~~i~~~~~~~~s~eeI~eea~~~~~~Gv~~~~lsgG~~--~--------------   91 (350)
T PRK06267         28 ERALFLGWYCNLKGPCKFCYMSTQKDKIKDPLKARRRVESILAEAILMKRIGWKLEFISGGYG--Y--------------   91 (350)
T ss_pred             EEeeeecCCCcCCCCCcCCCCcccCCccCccccccCCHHHHHHHHHHHHHcCCCEEEEecCCC--C--------------
Confidence            45667899999  9999999876432     24678999999999999999998776654321  1              


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCCc-eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE-MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~-~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                      ....+.++++.+...... .++.     ....+.+.+..+..+  |   +..++||++++++..
T Consensus        92 ----------------~~~el~~i~e~I~~~~~~~~~~s-----~G~~d~~~~~~~~l~--G---v~g~~ET~~~~~~~~  145 (350)
T PRK06267         92 ----------------TTEEINDIAEMIAYIQGCKQYLN-----VGIIDFLNINLNEIE--G---VVGAVETVNPKLHRE  145 (350)
T ss_pred             ----------------CHHHHHHHHHHHHHhhCCceEee-----cccCCHHHHhhcccc--C---ceeeeecCCHHHHHh
Confidence                            023577777777665332 2332     223455555555444  5   456999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          387 MRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       387 m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                      ++++++.+++.+.++.++++  |+.+.+.+|+|+ |||.+|+.++++++.+++++.+.+++|.|.||||+..
T Consensus       146 i~~~~s~ed~~~~l~~ak~a--Gi~v~~g~IiGl-gEt~ed~~~~l~~l~~l~~d~v~~~~L~P~pGTp~~~  214 (350)
T PRK06267        146 ICPGKPLDKIKEMLLKAKDL--GLKTGITIILGL-GETEDDIEKLLNLIEELDLDRITFYSLNPQKGTIFEN  214 (350)
T ss_pred             hCCCCCHHHHHHHHHHHHHc--CCeeeeeEEEeC-CCCHHHHHHHHHHHHHcCCCEEEEEeeeECCCCcCCC
Confidence            99999999999999999999  999999999996 9999999999999999999999999999999999875

>PLN02389 biotin synthase

Probab=99.77  E-value=4.8e-17  Score=169.97  Aligned_cols=201  Identities=13%  Similarity=0.147  Sum_probs=155.5

Q ss_pred             EEEEEE-cccCCccCcccccCCCC--C--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          235 TAFVSV-MRGCNNMCSFCIVPFTR--G--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       235 ~a~v~i-sRGC~~~CsFC~vp~~~--G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      ...+++ +.||+++|.||......  +  +++..++|+|+++++.+.+.|+++|.++..--...            +.++
T Consensus        83 ~~i~n~~T~~C~~~C~fCaqs~~~~~~~~~~~~Ls~EeIl~~a~~~~~~G~~~~~ivts~rg~~------------~e~~  150 (379)
T PLN02389         83 CTLLSIKTGGCSEDCSYCPQSSRYDTGVKAQKLMSKDDVLEAAKRAKEAGSTRFCMGAAWRDTV------------GRKT  150 (379)
T ss_pred             EEEEEeccCCcCcCCCCCCCcccCCCCCcccccCCHHHHHHHHHHHHHcCCCEEEEEecccCCC------------CChh
Confidence            344556 89999999999986432  2  25568999999999999999999988763110111            1110


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR  389 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R  389 (524)
                                    .-..+.++++.+.+..  +.+.   .....+++|.++.|+++  |+.++++.+|| +++..+.+..
T Consensus       151 --------------~~e~i~eiir~ik~~~--l~i~---~s~G~l~~E~l~~LkeA--Gld~~~~~LeT-s~~~y~~i~~  208 (379)
T PLN02389        151 --------------NFNQILEYVKEIRGMG--MEVC---CTLGMLEKEQAAQLKEA--GLTAYNHNLDT-SREYYPNVIT  208 (379)
T ss_pred             --------------HHHHHHHHHHHHhcCC--cEEE---ECCCCCCHHHHHHHHHc--CCCEEEeeecC-ChHHhCCcCC
Confidence                          0134666777765432  2332   33456899999999999  99999999999 7889999988


Q ss_pred             CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHc--CCCeEEEEeeecCCCChhcccCCCCCCHH
Q 041524          390 GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV--GYDMAYMFAYSMRERTHAHRNYVDDVPEE  467 (524)
Q Consensus       390 ~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l--~~d~~~i~~~sp~pGT~~~~~~~~~v~~~  467 (524)
                      +++.+++++.++.+++.  |+.+.+.+|+|+ |||.+|..+++.+++++  .++.+.++.|.|.||||++..  +.++..
T Consensus       209 ~~s~e~rl~ti~~a~~~--Gi~v~sg~IiGl-gEt~edrv~~l~~Lr~L~~~~~~v~l~~l~P~~GTpL~~~--~~~s~~  283 (379)
T PLN02389        209 TRSYDDRLETLEAVREA--GISVCSGGIIGL-GEAEEDRVGLLHTLATLPEHPESVPINALVAVKGTPLEDQ--KPVEIW  283 (379)
T ss_pred             CCCHHHHHHHHHHHHHc--CCeEeEEEEECC-CCCHHHHHHHHHHHHhcccCCcEEecccceecCCCcCCCC--CCCCHH
Confidence            89999999999999999  999999999999 99999999999999999  578999999999999999852  344444


Q ss_pred             HHHHHHH
Q 041524          468 VKQRRLT  474 (524)
Q Consensus       468 ~k~~Rl~  474 (524)
                      ...+.++
T Consensus       284 e~lr~iA  290 (379)
T PLN02389        284 EMVRMIA  290 (379)
T ss_pred             HHHHHHH
Confidence            4444333

>COG1243 ELP3 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]

Probab=99.73  E-value=1.7e-16  Score=162.99  Aligned_cols=190  Identities=19%  Similarity=0.273  Sum_probs=146.6

Q ss_pred             cccCCc-cCcccccC------CC-CC---------ccccCChHHHHHHHHHHHHCCCc----EEEEEeccCCCCCCccCC
Q 041524          241 MRGCNN-MCSFCIVP------FT-RG---------RERSRPVESIVKEVDELWKEGVK----EVTLLGQNVNSYNDTSGM  299 (524)
Q Consensus       241 sRGC~~-~CsFC~vp------~~-~G---------~~Rsr~~e~Iv~Ei~~l~~~G~k----ei~l~d~n~~~y~~~~~~  299 (524)
                      -.|||| +|.||.-.      .. .|         +.+.-|-.++...++.|...|..    ++.|.|.+|++...    
T Consensus        74 p~~CPHg~CvfCpgg~~~~spQSytg~ep~~~R~~~~~ydpY~q~~~Rl~qL~~igh~~~KvEliimGGTFta~~~----  149 (515)
T COG1243          74 PHGCPHGRCVFCPGGPDKDSPQSYTGEEPAALRAIKNRYDPYEQVRARLKQLETIGHTSDKVELIIMGGTFTALSL----  149 (515)
T ss_pred             CCCCCCCeEEeCCCCCCCCCCcccCCCCchhhhHhhccCCcHHHHHHHHHHHHHcCCCcceEEEEEecccccCCCH----
Confidence            489997 99999754      11 12         12445778888888989887643    68889999986511    


Q ss_pred             ccccCCCCccccccCcccchhcccchhhHHH-HHHHHH----------hhC--Cc---eEEEEecCCCCCCCHHHHHHHH
Q 041524          300 EKEVEPGANWRLSEGFNSMCKVKKMGLRFAD-LLDRLS----------LEF--PE---MRFRYTSPHPKDFPDELLYIMR  363 (524)
Q Consensus       300 ~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~-Ll~~l~----------~~~--~~---~~ir~~s~~p~~~~~elL~~l~  363 (524)
                              +  .             ..+|.. +++++.          ...  ..   .-++++ .+|+.++++.++.|.
T Consensus       150 --------~--y-------------qe~Fi~~~~~amn~f~~~le~a~~~ne~~~~r~vgitiE-TRPD~~~ee~ld~ml  205 (515)
T COG1243         150 --------E--Y-------------QEWFLKVALKAMNDFGYDLEEAQRKNETAELRCVGITIE-TRPDYIDEEHLDQML  205 (515)
T ss_pred             --------H--H-------------HHHHHHHHHHhhhccchhHHHHHHhhcccccceeEEEEe-cCccccCHHHHHHHH
Confidence                    0  0             111221 222222          111  11   235665 799999999999999


Q ss_pred             cCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC---C
Q 041524          364 DRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG---Y  440 (524)
Q Consensus       364 ~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~---~  440 (524)
                      +.  |++.|.+|+||..++||++++||||.+++.++.+.++++  |+.+...+|.|+||.+.|--.+++..+.+.+   +
T Consensus       206 ky--G~TrVELGVQSiyd~Vl~~~~RGHtvedv~~a~rLlKd~--GfKv~~HiMpGLPgs~~erDl~~f~~~f~~p~f~P  281 (515)
T COG1243         206 KY--GVTRVELGVQSIYDDVLERTKRGHTVEDVVEATRLLKDA--GFKVGYHIMPGLPGSDFERDLESFREIFEDPRFRP  281 (515)
T ss_pred             hc--CCcEEEEeeeeHHHHHHHHhcCCccHHHHHHHHHHHHhc--CcEEEEEecCCCCCCChHHHHHHHHHHHhCCCCCC
Confidence            99  999999999999999999999999999999999999999  9999999999999998876656666665554   9


Q ss_pred             CeEEEEeeecCCCChhcccCCC
Q 041524          441 DMAYMFAYSMRERTHAHRNYVD  462 (524)
Q Consensus       441 d~~~i~~~sp~pGT~~~~~~~~  462 (524)
                      |.+.+||-...+||++|.+|+.
T Consensus       282 DmlKIYPtLVi~gT~Ly~mwk~  303 (515)
T COG1243         282 DMLKIYPTLVIEGTELYEMWKR  303 (515)
T ss_pred             CeEEEeeeEEECCchHHHHHHc
Confidence            9999999999999999987753

>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.70  E-value=1.2e-15  Score=159.83  Aligned_cols=200  Identities=11%  Similarity=0.089  Sum_probs=154.1

Q ss_pred             EEEEEcccCCccCcccccCCCCC-ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccC
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG-RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEG  314 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G-~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g  314 (524)
                      +.+.+|.+|+++|.||......+ ..+..++++|+++++.+.+.|+++|.|++..-...             .       
T Consensus        76 ~~in~Tn~C~~~C~YC~f~~~~~~~~~~ls~eEI~~~a~~~~~~Gv~~i~lvgGe~p~~-------------~-------  135 (371)
T PRK09240         76 TPLYLSNYCANDCTYCGFSMSNKIKRKTLDEEEIEREMAAIKKLGFEHILLLTGEHEAK-------------V-------  135 (371)
T ss_pred             eceEEcccccCcCCcCCCCCCCCCccccCCHHHHHHHHHHHHhCCCCEEEEeeCCCCCC-------------C-------
Confidence            44667999999999999865433 23668999999999999999999999986332111             0       


Q ss_pred             cccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC---CCC
Q 041524          315 FNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR---RGY  391 (524)
Q Consensus       315 ~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~---R~~  391 (524)
                               ....+.++++.+.+..+...+     ++..++.+.++.|+++  |+.++++++||.+++.++.+.   +.+
T Consensus       136 ---------~~e~l~~~i~~Ik~~~p~i~i-----~~g~lt~e~l~~Lk~a--Gv~r~~i~lET~~~~~~~~i~~~g~~h  199 (371)
T PRK09240        136 ---------GVDYIRRALPIAREYFSSVSI-----EVQPLSEEEYAELVEL--GLDGVTVYQETYNPATYAKHHLRGPKR  199 (371)
T ss_pred             ---------CHHHHHHHHHHHHHhCCCcee-----ccCCCCHHHHHHHHHc--CCCEEEEEEecCCHHHHHHhCcCCCCC
Confidence                     124577777777765554332     3345789999999999  999999999999999999995   578


Q ss_pred             CHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCC------eEEEEeeecCCCChhcccCCCCC
Q 041524          392 TREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYD------MAYMFAYSMRERTHAHRNYVDDV  464 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d------~~~i~~~sp~pGT~~~~~~~~~v  464 (524)
                      +.++.++.++.++++  |+. +.+++|+|+ ||+.+|..+++..++.++..      .+.+..|.|.+| ++..  ...+
T Consensus       200 ~~~~rl~~i~~a~~a--G~~~v~~g~i~Gl-ge~~~d~~~~a~~l~~L~~~~~~~~~sv~~~~l~P~~g-~~~~--~~~~  273 (371)
T PRK09240        200 DFEYRLETPERAGRA--GIRKIGLGALLGL-SDWRTDALMTALHLRYLQRKYWQAEYSISFPRLRPCTG-GIEP--ASIV  273 (371)
T ss_pred             CHHHHHHHHHHHHHc--CCCeeceEEEecC-CccHHHHHHHHHHHHHHHHhCCCCceeeecCccccCCC-CCCC--CCCC
Confidence            999999999999999  995 999999999 57999998888888887653      466777899999 7753  3346


Q ss_pred             CHHHHHHHHHHHH
Q 041524          465 PEEVKQRRLTELI  477 (524)
Q Consensus       465 ~~~~k~~Rl~~l~  477 (524)
                      +.....+.+..+.
T Consensus       274 ~~~e~l~~ia~~R  286 (371)
T PRK09240        274 SDKQLVQLICAFR  286 (371)
T ss_pred             CHHHHHHHHHHHH
Confidence            6555544444433

>PRK15108 biotin synthase; Provisional

Probab=99.69  E-value=2.6e-15  Score=155.70  Aligned_cols=201  Identities=16%  Similarity=0.167  Sum_probs=154.8

Q ss_pred             EEEEEE-cccCCccCcccccCCCC--C--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          235 TAFVSV-MRGCNNMCSFCIVPFTR--G--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       235 ~a~v~i-sRGC~~~CsFC~vp~~~--G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      ...+.+ |.+|+.+|.||......  +  +++..++|+|++.++...+.|+++|.+.....+..            ..  
T Consensus        43 ~~i~~~~Tn~C~~~C~yC~~~~~~~~~~~~~~~ls~eEI~~~a~~~~~~G~~~i~i~~~g~~p~------------~~--  108 (345)
T PRK15108         43 STLLSIKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLESARKAKAAGSTRFCMGAAWKNPH------------ER--  108 (345)
T ss_pred             EEeEEEECCCcCCCCcCCCCcccCCCCCCcccCCCHHHHHHHHHHHHHcCCCEEEEEecCCCCC------------cc--
Confidence            344555 99999999999886421  2  23457999999999999999999997653211100            00  


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR  389 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R  389 (524)
                                    .-..+.++++.+.+..  ..+..   ....++.+.++.|+++  |+.++++.+|| +++....+..
T Consensus       109 --------------~~e~i~~~i~~ik~~~--i~v~~---s~G~ls~e~l~~LkeA--Gld~~n~~leT-~p~~f~~I~~  166 (345)
T PRK15108        109 --------------DMPYLEQMVQGVKAMG--LETCM---TLGTLSESQAQRLANA--GLDYYNHNLDT-SPEFYGNIIT  166 (345)
T ss_pred             --------------hHHHHHHHHHHHHhCC--CEEEE---eCCcCCHHHHHHHHHc--CCCEEeecccc-ChHhcCCCCC
Confidence                          0134667777776532  23322   2346789999999999  99999999999 8999999988


Q ss_pred             CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHc--CCCeEEEEeeecCCCChhcccCCCCCCHH
Q 041524          390 GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV--GYDMAYMFAYSMRERTHAHRNYVDDVPEE  467 (524)
Q Consensus       390 ~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l--~~d~~~i~~~sp~pGT~~~~~~~~~v~~~  467 (524)
                      +++.++.++.++.+++.  |+.+.+.+|+|+ |||.+|..+.+..++++  ..+.+.++.|.|.||||+...  ..++..
T Consensus       167 ~~~~~~rl~~i~~a~~~--G~~v~sg~i~Gl-gEt~ed~v~~~~~l~~l~~~~~~ip~~~~~P~~gTpl~~~--~~~~~~  241 (345)
T PRK15108        167 TRTYQERLDTLEKVRDA--GIKVCSGGIVGL-GETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADN--DDVDAF  241 (345)
T ss_pred             CCCHHHHHHHHHHHHHc--CCceeeEEEEeC-CCCHHHHHHHHHHHHhccCCCCEEEeCCccCCCCCCCCCC--CCCCHH
Confidence            88999999999999999  999999999998 99999999999999999  677888899999999998752  345555


Q ss_pred             HHHHHHHHH
Q 041524          468 VKQRRLTEL  476 (524)
Q Consensus       468 ~k~~Rl~~l  476 (524)
                      ..-+.++.+
T Consensus       242 e~lr~iAi~  250 (345)
T PRK15108        242 DFIRTIAVA  250 (345)
T ss_pred             HHHHHHHHH
Confidence            444444433

>TIGR02351 thiH thiazole biosynthesis protein ThiH

Probab=99.64  E-value=1.1e-14  Score=152.41  Aligned_cols=202  Identities=10%  Similarity=0.069  Sum_probs=152.6

Q ss_pred             EEEEEcccCCccCcccccCCCCC-ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccC
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG-RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEG  314 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G-~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g  314 (524)
                      +.+..+.+|+++|.||......+ .....++++|+++++.+.+.|+++|.+++..-...                     
T Consensus        75 ~~i~~Tn~C~~~C~yC~~s~~~~~~~~~Ls~eEI~~~a~~~~~~Gv~~i~lvgGe~p~~---------------------  133 (366)
T TIGR02351        75 TPLYLSNYCSNKCVYCGFSMSNKIKRKKLNEEEIEREIEAIKKSGFKEILLVTGESEKA---------------------  133 (366)
T ss_pred             eeeeECccccCCCCcCCCCCCCCCccCcCCHHHHHHHHHHHHhCCCCEEEEeeCCCCCC---------------------
Confidence            34567999999999999864322 12446899999999999999999999986321111                     


Q ss_pred             cccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC---CCC
Q 041524          315 FNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR---RGY  391 (524)
Q Consensus       315 ~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~---R~~  391 (524)
                              .....+.++++.+.+..+...+.     ...++.+-++.|+++  |+.++++++||.+++.++.|.   +.+
T Consensus       134 --------~~~e~l~eii~~Ik~~~p~i~Ie-----i~~lt~e~~~~Lk~a--Gv~r~~i~lET~~~~~y~~i~~~g~~h  198 (366)
T TIGR02351       134 --------AGVEYIAEAIKLAREYFSSLAIE-----VQPLNEEEYKKLVEA--GLDGVTVYQETYNEKKYKKHHLAGKKK  198 (366)
T ss_pred             --------CCHHHHHHHHHHHHHhCCccccc-----cccCCHHHHHHHHHc--CCCEEEEEeecCCHHHHHhcCcCCCCC
Confidence                    01235778888887665543332     224799999999999  999999999999999999987   678


Q ss_pred             CHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCC------CeEEEEeeecCCCChhcccCCCCC
Q 041524          392 TREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGY------DMAYMFAYSMRERTHAHRNYVDDV  464 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~------d~~~i~~~sp~pGT~~~~~~~~~v  464 (524)
                      +.++.++.++.++++  |+. +.+++|+|++ |+.++..+++..++.++.      ..+.+..+.|.+| ++..  ...+
T Consensus       199 ~~~~rl~~i~~a~~a--G~~~v~~g~i~Gl~-e~~~d~~~~a~~l~~L~~~~~~~~~sv~~~~l~P~~g-~~~~--~~~l  272 (366)
T TIGR02351       199 DFRYRLNTPERAAKA--GMRKIGIGALLGLD-DWRTDAFFTAYHLRYLQKKYWKTEISISVPRLRPCTN-GLKP--KVIV  272 (366)
T ss_pred             CHHHHHHHHHHHHHc--CCCeeceeEEEeCc-hhHHHHHHHHHHHHHHHHHcCCCCccccccccccCCC-CCCC--CCcC
Confidence            999999999999999  997 8999999996 577777777777666644      4566777889999 7643  3456


Q ss_pred             CHHHHHHHHHHHHHH
Q 041524          465 PEEVKQRRLTELIEA  479 (524)
Q Consensus       465 ~~~~k~~Rl~~l~~~  479 (524)
                      +.....+.+..+.-+
T Consensus       273 ~~~~~~~~i~~~R~~  287 (366)
T TIGR02351       273 TDRELVQIICAYRLF  287 (366)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            666666666555533

Members this protein family are the ThiH protein of thiamine biosynthesis, a homolog of the BioB protein of biotin biosynthesis. Genes for the this protein generally are found in operons with other thiamin biosynthesis genes.

>PRK07360 FO synthase subunit 2; Reviewed

Probab=99.63  E-value=5.2e-15  Score=155.13  Aligned_cols=189  Identities=16%  Similarity=0.250  Sum_probs=150.2

Q ss_pred             EEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      +.|+++.+|+.+|.||.+....+.  ....++|+|++.++.+.+.|+++|.|++..-...             .      
T Consensus        62 ~~i~~Tn~C~~~C~fC~~~~~~~~~~~y~ls~eeI~~~a~~a~~~G~~~i~l~~G~~p~~-------------~------  122 (371)
T PRK07360         62 RNINFTNICEGHCGFCAFRRDEGDHGAFWLTIAEILEKAAEAVKRGATEVCIQGGLHPAA-------------D------  122 (371)
T ss_pred             cCcccchhhhcCCccCCcccCCCCCCCeeCCHHHHHHHHHHHHhCCCCEEEEccCCCCCC-------------C------
Confidence            346779999999999998654321  1237999999999999999999999996421111             0      


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecC--------CCCCCCHHHHHHHHcCCCCcceee-cCcCCcCHHHH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP--------HPKDFPDELLYIMRDRPNVCKYIH-LPAQTGNSAVL  384 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~--------~p~~~~~elL~~l~~~~~G~~~i~-igiESgs~~vL  384 (524)
                                ....+.++++.+.+..+...+...++        .....+++.++.|+++  |+.+++ -+.|..++++.
T Consensus       123 ----------~~e~~~~~i~~ik~~~~~i~i~a~s~~ei~~~~~~~G~~~~e~l~~LkeA--Gld~~~~t~~e~l~~~vr  190 (371)
T PRK07360        123 ----------SLEFYLEILEAIKEEFPDIHLHAFSPMEVYFAAREDGLSYEEVLKALKDA--GLDSMPGTAAEILVDEVR  190 (371)
T ss_pred             ----------cHHHHHHHHHHHHHhCCCcceeeCCHHHHHHHHhhcCCCHHHHHHHHHHc--CCCcCCCcchhhccHHHH
Confidence                      02357788888887655554432111        2345678899999999  999987 46788889999


Q ss_pred             hhhCCC-CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCC----CChhcc
Q 041524          385 ERMRRG-YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRE----RTHAHR  458 (524)
Q Consensus       385 ~~m~R~-~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~p----GT~~~~  458 (524)
                      +.+..+ .+.+++++.++.++++  |+.+.+.+|+|+ |||.+|..+.+.++++++.+...+.+|.|.|    |||+..
T Consensus       191 ~~i~p~~~s~~~~l~~i~~a~~~--Gl~~~sg~i~G~-gEt~edrv~~l~~lr~l~~~~~g~~~fIp~~f~~~~Tpl~~  266 (371)
T PRK07360        191 RIICPEKIKTAEWIEIVKTAHKL--GLPTTSTMMYGH-VETPEHRIDHLLILREIQQETGGITEFVPLPFVHENAPLYE  266 (371)
T ss_pred             HhhCCCCCCHHHHHHHHHHHHHc--CCCceeeEEeeC-CCCHHHHHHHHHHHHHhchhhCCeeEEEeccccCCCCcccc
Confidence            888775 5999999999999999  999999999998 9999999999999999999998888888854    999975

>COG0502 BioB Biotin synthase and related enzymes [Coenzyme metabolism]

Probab=99.61  E-value=3.3e-14  Score=144.01  Aligned_cols=186  Identities=17%  Similarity=0.218  Sum_probs=150.8

Q ss_pred             eEEEEEEcccC-CccCcccccCCCC--C--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          234 VTAFVSVMRGC-NNMCSFCIVPFTR--G--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       234 ~~a~v~isRGC-~~~CsFC~vp~~~--G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ....|+++-|| |..|.||......  |  ++..+++++|+++.+...+.|...+.++..--+ +            |+ 
T Consensus        50 l~~ii~iktg~c~edC~yC~qS~~~~~~~~~~~l~~~eeIle~Ak~ak~~Ga~r~c~~aagr~-~------------~~-  115 (335)
T COG0502          50 LSTLISIKTGCCPEDCAYCSQSARYKTGVKARKLMEVEEILEAAKKAKAAGATRFCMGAAGRG-P------------GR-  115 (335)
T ss_pred             EEEEEEeecCCCCCCCCCccccccCcCCCchhhcCCHHHHHHHHHHHHHcCCceEEEEEeccC-C------------Cc-
Confidence            34566776555 9999999976522  2  356789999999999999999777666542111 1            11 


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR  388 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~  388 (524)
                                     ...++.+.++.+.+.-+ +.+  . .....+++|.++.++++  |..++.-.+|| |++..+.+.
T Consensus       116 ---------------~~~~i~~~v~~Vk~~~~-le~--c-~slG~l~~eq~~~L~~a--Gvd~ynhNLeT-s~~~y~~I~  173 (335)
T COG0502         116 ---------------DMEEVVEAIKAVKEELG-LEV--C-ASLGMLTEEQAEKLADA--GVDRYNHNLET-SPEFYENII  173 (335)
T ss_pred             ---------------cHHHHHHHHHHHHHhcC-cHH--h-hccCCCCHHHHHHHHHc--Chhheeccccc-CHHHHcccC
Confidence                           12456666666664332 222  2 44568899999999999  99999999999 999999999


Q ss_pred             CCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC-CCeEEEEeeecCCCChhcc
Q 041524          389 RGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG-YDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       389 R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~-~d~~~i~~~sp~pGT~~~~  458 (524)
                      -++|.|+-++.++.++++  |+.+.+..|+|+ |||.+|-.+.+..+.++. ++.+-+..|.|.||||+..
T Consensus       174 tt~t~edR~~tl~~vk~~--Gi~vcsGgI~Gl-GEs~eDri~~l~~L~~l~~pdsVPIn~l~P~~GTPle~  241 (335)
T COG0502         174 TTRTYEDRLNTLENVREA--GIEVCSGGIVGL-GETVEDRAELLLELANLPTPDSVPINFLNPIPGTPLEN  241 (335)
T ss_pred             CCCCHHHHHHHHHHHHHc--CCccccceEecC-CCCHHHHHHHHHHHHhCCCCCeeeeeeecCCCCCcccc
Confidence            999999999999999999  999999999999 899999999999999998 9999999999999999985

>PRK05926 hypothetical protein; Provisional

Probab=99.60  E-value=2.7e-14  Score=149.02  Aligned_cols=185  Identities=13%  Similarity=0.219  Sum_probs=149.7

Q ss_pred             EEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCc
Q 041524          238 VSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF  315 (524)
Q Consensus       238 v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~  315 (524)
                      +..+..|+..|.||++....+.  ....++|+|+++++.. +.|+++|.+++..-...                      
T Consensus        72 in~Tn~C~~dC~FCaf~~~~~~~~~~~ls~eeI~~~a~~a-~~G~~ei~iv~G~~p~~----------------------  128 (370)
T PRK05926         72 LYPTNFCQFNCTFCSFYAKPGDPKGWFYTPDQLVQSIKEN-PSPITETHIVAGCFPSC----------------------  128 (370)
T ss_pred             eecCCCCCCCCCccccccCCCCcccccCCHHHHHHHHHHH-hcCCCEEEEEeCcCCCC----------------------
Confidence            3459999999999997554432  3457899999999998 68999999996321111                      


Q ss_pred             ccchhcccchhhHHHHHHHHHhhCCceEEEEecC--------CCCCCCHHHHHHHHcCCCCcceeec-CcCCcCHHHHhh
Q 041524          316 NSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP--------HPKDFPDELLYIMRDRPNVCKYIHL-PAQTGNSAVLER  386 (524)
Q Consensus       316 ~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~--------~p~~~~~elL~~l~~~~~G~~~i~i-giESgs~~vL~~  386 (524)
                              ....+.++++.+.+..|.+.+...+.        -....++|.++.|+++  |+.+++. |+|+.++++.+.
T Consensus       129 --------~~e~~~e~i~~Ik~~~p~i~i~a~s~~Ei~~~~~~~~~~~~e~l~~LkeA--Gl~~~~g~GaEi~~e~~r~~  198 (370)
T PRK05926        129 --------NLAYYEELFSKIKQNFPDLHIKALTAIEYAYLSKLDNLPVKEVLQTLKIA--GLDSIPGGGAEILVDEIRET  198 (370)
T ss_pred             --------CHHHHHHHHHHHHHhCCCeeEEECCHHHHHHHHhhcCCCHHHHHHHHHHc--CcCccCCCCchhcCHHHHHh
Confidence                    12457888999988877766654321        1122468899999999  9999886 699999999998


Q ss_pred             hCC-CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec----CCCChhcc
Q 041524          387 MRR-GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM----RERTHAHR  458 (524)
Q Consensus       387 m~R-~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp----~pGT~~~~  458 (524)
                      +.. +.+.+++++.++.++++  |+.+.+.+|+|. |||.||..+.+..+++++.+.+.+..|.|    .++|+++.
T Consensus       199 ~~p~~~t~~e~l~~i~~a~~~--Gi~~~sgmi~G~-gEt~edrv~~l~~Lr~Lq~~t~gf~~fIp~~f~~~~t~l~~  272 (370)
T PRK05926        199 LAPGRLSSQGFLEIHKTAHSL--GIPSNATMLCYH-RETPEDIVTHMSKLRALQDKTSGFKNFILLKFASENNALGK  272 (370)
T ss_pred             hCCCCCCHHHHHHHHHHHHHc--CCcccCceEEeC-CCCHHHHHHHHHHHHhcCCccCCeeeeEecccCCCCCcccc
Confidence            864 66889999999999999  999999988885 99999999999999999999999999988    67888864

>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed

Probab=99.58  E-value=2.4e-13  Score=140.70  Aligned_cols=199  Identities=14%  Similarity=0.132  Sum_probs=150.9

Q ss_pred             eEEEEEEcccCCccCcccccCCC---CCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFT---RGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~---~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      .+..|+++.+|+.+|.||..+..   .++.+..+++++.+.++.+.+.|++.|.|+|.....+                 
T Consensus        17 ~~l~i~vT~~Cnl~C~yC~~~~~~~~~~~~~~ls~eei~~~i~~~~~~gi~~I~~tGGEPll~-----------------   79 (331)
T PRK00164         17 TYLRISVTDRCNFRCTYCMPEGYLPFLPKEELLSLEEIERLVRAFVALGVRKVRLTGGEPLLR-----------------   79 (331)
T ss_pred             CeEEEEEcCCcCcCCCCCCCccCCCCCCccccCCHHHHHHHHHHHHHCCCCEEEEECCCCcCc-----------------
Confidence            45678999999999999987542   2345678999999999999888999999998554332                 


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG  390 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~  390 (524)
                                     .++.++++.+.+..+...+.+++ +...+ ++.++.++++  |+..|.++++|.+++..+.++++
T Consensus        80 ---------------~~l~~li~~i~~~~~~~~i~itT-NG~ll-~~~~~~L~~a--gl~~i~ISlds~~~e~~~~i~~~  140 (331)
T PRK00164         80 ---------------KDLEDIIAALAALPGIRDLALTT-NGYLL-ARRAAALKDA--GLDRVNVSLDSLDPERFKAITGR  140 (331)
T ss_pred             ---------------cCHHHHHHHHHhcCCCceEEEEc-CchhH-HHHHHHHHHc--CCCEEEEEeccCCHHHhccCCCC
Confidence                           24788888887654445666654 32223 4678888888  99999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHH
Q 041524          391 YTREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVK  469 (524)
Q Consensus       391 ~t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k  469 (524)
                      .+.+++++.++.+++.  |+ .+...++ .+||.+.+++.+.++++.+++++ +.+..|.|..+...+. ....++....
T Consensus       141 ~~~~~vl~~i~~~~~~--g~~~v~i~~v-v~~g~n~~ei~~l~~~~~~~gv~-v~~ie~~p~~~~~~~~-~~~~~~~~~~  215 (331)
T PRK00164        141 DRLDQVLAGIDAALAA--GLTPVKVNAV-LMKGVNDDEIPDLLEWAKDRGIQ-LRFIELMPTGEGNEWF-RKHHLSGAEI  215 (331)
T ss_pred             CCHHHHHHHHHHHHHC--CCCcEEEEEE-EECCCCHHHHHHHHHHHHhCCCe-EEEEEeeECCCCcchh-hhcCCCHHHH
Confidence            9999999999999998  76 5665554 36889999999999999999875 6777888876654332 1223444444


Q ss_pred             HHHH
Q 041524          470 QRRL  473 (524)
Q Consensus       470 ~~Rl  473 (524)
                      .+++
T Consensus       216 ~~~l  219 (331)
T PRK00164        216 RARL  219 (331)
T ss_pred             HHHH
Confidence            4433

>PRK08444 hypothetical protein; Provisional

Probab=99.57  E-value=4.1e-14  Score=146.76  Aligned_cols=187  Identities=16%  Similarity=0.245  Sum_probs=153.5

Q ss_pred             EEEEEcccCCccCcccccCCCCC---ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG---RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G---~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      .+|..+.-|.++|.||++....+   .| ..++|+|++.++...+.|+++|.+++..-..+              +    
T Consensus        51 ~~In~TN~C~~~C~FCaf~~~~~~~~~y-~ls~eeI~~~a~~a~~~G~~ei~iv~G~~p~~--------------~----  111 (353)
T PRK08444         51 RHINPTNICADVCKFCAFSAHRKNPNPY-TMSHEEILEIVKNSVKRGIKEVHIVSAHNPNY--------------G----  111 (353)
T ss_pred             CCcccccccccCCccCCCccCCCCCccc-cCCHHHHHHHHHHHHHCCCCEEEEeccCCCCC--------------C----
Confidence            34677999999999999865333   24 47999999999999999999999997421111              0    


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEec-C-------CCCCCCHHHHHHHHcCCCCcceeec-CcCCcCHHH
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTS-P-------HPKDFPDELLYIMRDRPNVCKYIHL-PAQTGNSAV  383 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s-~-------~p~~~~~elL~~l~~~~~G~~~i~i-giESgs~~v  383 (524)
                                  -..+.++++.+.+..|.+.+..-| .       ......+|.++.|+++  |...++- |.|..++++
T Consensus       112 ------------~e~y~e~ir~Ik~~~p~i~i~a~s~~Ei~~~a~~~g~~~~e~l~~LkeA--Gl~~~~g~~aEi~~~~v  177 (353)
T PRK08444        112 ------------YEWYLEIFKKIKEAYPNLHVKAMTAAEVDFLSRKFGKSYEEVLEDMLEY--GVDSMPGGGAEIFDEEV  177 (353)
T ss_pred             ------------HHHHHHHHHHHHHHCCCceEeeCCHHHHHHHHHHcCCCHHHHHHHHHHh--CcccCCCCCchhcCHHH
Confidence                        135788999998877777766322 1       1223457999999999  9999887 699999999


Q ss_pred             HhhhCCCC-CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC----CCChhcc
Q 041524          384 LERMRRGY-TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR----ERTHAHR  458 (524)
Q Consensus       384 L~~m~R~~-t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~----pGT~~~~  458 (524)
                      .+.+..++ +.+++++.++.++++  |+...+.+|+|++ ||.+|..+.+..+++++.+...+..|.|.    +|||+..
T Consensus       178 r~~I~p~k~~~~~~~~i~~~a~~~--Gi~~~sg~l~G~g-Et~edrv~hl~~Lr~Lq~~t~gf~~fIp~~f~~~~t~l~~  254 (353)
T PRK08444        178 RKKICKGKVSSERWLEIHKYWHKK--GKMSNATMLFGHI-ENREHRIDHMLRLRDLQDKTGGFNAFIPLVYQRENNYLKV  254 (353)
T ss_pred             HhhhCCCCCCHHHHHHHHHHHHHc--CCCccceeEEecC-CCHHHHHHHHHHHHHhccccCCceEEEecccCCCCCcCCC
Confidence            99998755 668999999999999  9999999999995 99999999999999999999999999999    8999874

>PTZ00413 lipoate synthase; Provisional

Probab=99.56  E-value=4.6e-13  Score=136.93  Aligned_cols=209  Identities=16%  Similarity=0.188  Sum_probs=158.0

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      ...|+-.+..|+.+|.||++.... ..-..+++++++-.+...+.|++.+.++..+    +++              +.+
T Consensus       149 tATfmilG~~CTr~C~FCaqstg~-~p~~lD~eEp~~vA~av~~~Gl~~~VVTSv~----RDD--------------L~D  209 (398)
T PTZ00413        149 TATIMVMGDHCTRGCRFCSVKTSR-KPPPLDPNEPEKVAKAVAEMGVDYIVMTMVD----RDD--------------LPD  209 (398)
T ss_pred             eeEeeecCCCCCCCCCCCCCCCCC-CCCCCCHHHHHHHHHHHHHcCCCEEEEEEEc----CCC--------------CCh
Confidence            456777789999999999996432 2355689999999998888899987766532    111              111


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCC--CHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC-C
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDF--PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR-G  390 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~--~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R-~  390 (524)
                               .+...|++.+++|.+..+...+...  -| ++  +.+.++.|+++  |...++-.+|| +++....++. +
T Consensus       210 ---------~ga~~~a~~I~~Ir~~~p~~~Ievl--ig-Df~g~~e~l~~L~eA--G~dvynHNLET-v~rLyp~VRt~~  274 (398)
T PTZ00413        210 ---------GGASHVARCVELIKESNPELLLEAL--VG-DFHGDLKSVEKLANS--PLSVYAHNIEC-VERITPYVRDRR  274 (398)
T ss_pred             ---------hhHHHHHHHHHHHHccCCCCeEEEc--CC-ccccCHHHHHHHHhc--CCCEEeccccc-CHhHHHHHccCc
Confidence                     1235788899999886666665543  23 34  78999999999  99999999999 9999999996 6


Q ss_pred             CCHHHHHHHHHHHHHh-CCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHH
Q 041524          391 YTREAYLDLVQKIRQI-IPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVK  469 (524)
Q Consensus       391 ~t~e~~~~~v~~ir~~-~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k  469 (524)
                      ++.++.+++++.+++. .+|+.+.+.+|+| +|||++|+.+++..+.+++++.+.+..|-.--..++      .|..-+.
T Consensus       275 atYe~sLe~Lr~AKe~f~~gi~tcSGiIVG-LGET~eEvie~m~dLrelGVDivtIGQYL~Ps~~h~------~V~~yv~  347 (398)
T PTZ00413        275 ASYRQSLKVLEHVKEFTNGAMLTKSSIMLG-LGETEEEVRQTLRDLRTAGVSAVTLGQYLQPTKTRL------KVSRYAH  347 (398)
T ss_pred             CCHHHHHHHHHHHHHHhcCCceEeeeeEec-CCCCHHHHHHHHHHHHHcCCcEEeeccccCCCcccC------CceeccC
Confidence            8999999999999998 5899999999999 599999999999999999999999877743222222      2333344


Q ss_pred             HHHHHHHHHHHHHH
Q 041524          470 QRRLTELIEAFRES  483 (524)
Q Consensus       470 ~~Rl~~l~~~~~~~  483 (524)
                      .+.++.+.+...+.
T Consensus       348 P~~F~~~~~~a~~~  361 (398)
T PTZ00413        348 PKEFEMWEEEAMKM  361 (398)
T ss_pred             HHHHHHHHHHHHHc
Confidence            55555555544443

>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional

Probab=99.55  E-value=6.4e-13  Score=137.39  Aligned_cols=199  Identities=13%  Similarity=0.174  Sum_probs=147.3

Q ss_pred             eEEEEEEcccCCccCcccccCCC--CCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFT--RGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~--~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      .+..++++.+|+.+|.||.....  ..+....+.+++.+-++.+.+.|++.|.|+|.....+                  
T Consensus        14 ~~l~i~iT~~CNl~C~yC~~~~~~~~~~~~~ls~eei~~li~~~~~~Gv~~I~~tGGEPllr------------------   75 (329)
T PRK13361         14 TYLRLSVTDRCDFRCVYCMSEDPCFLPRDQVLSLEELAWLAQAFTELGVRKIRLTGGEPLVR------------------   75 (329)
T ss_pred             CeEEEEecCCccccCCCCCCCCCCcCCccCCCCHHHHHHHHHHHHHCCCCEEEEECcCCCcc------------------
Confidence            35667889999999999985422  1234467889999888888888999999998443322                  


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                                    ..+.++++.+.+......+.+++ +...+ .+.++.|+++  |+.++.++++|.+++..+.++++.
T Consensus        76 --------------~dl~~li~~i~~~~~l~~i~itT-NG~ll-~~~~~~L~~a--Gl~~v~ISlDs~~~e~~~~i~~~g  137 (329)
T PRK13361         76 --------------RGCDQLVARLGKLPGLEELSLTT-NGSRL-ARFAAELADA--GLKRLNISLDTLRPELFAALTRNG  137 (329)
T ss_pred             --------------ccHHHHHHHHHhCCCCceEEEEe-ChhHH-HHHHHHHHHc--CCCeEEEEeccCCHHHhhhhcCCC
Confidence                          24788888887653322555553 33334 4688999998  999999999999999999999988


Q ss_pred             CHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHH
Q 041524          392 TREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQ  470 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~  470 (524)
                      +.+++++.++.++++  |+ .+..++++ ++|++.+++.+.++++.+++++. .+..|.|..+..-+. ....++.+...
T Consensus       138 ~~~~vl~~i~~~~~~--Gi~~v~in~v~-~~g~N~~ei~~~~~~~~~~gi~~-~~ie~mP~g~~~~~~-~~~~~~~~e~~  212 (329)
T PRK13361        138 RLERVIAGIDAAKAA--GFERIKLNAVI-LRGQNDDEVLDLVEFCRERGLDI-AFIEEMPLGEIDERR-RARHCSSDEVR  212 (329)
T ss_pred             CHHHHHHHHHHHHHc--CCCceEEEEEE-ECCCCHHHHHHHHHHHHhcCCeE-EEEecccCCCccchh-hccCcCHHHHH
Confidence            999999999999998  77 56655543 58999999999999999999974 566777875433221 12345554444


Q ss_pred             HHH
Q 041524          471 RRL  473 (524)
Q Consensus       471 ~Rl  473 (524)
                      +.+
T Consensus       213 ~~l  215 (329)
T PRK13361        213 AII  215 (329)
T ss_pred             HHH
Confidence            444

>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.54  E-value=6.7e-13  Score=141.90  Aligned_cols=197  Identities=14%  Similarity=0.093  Sum_probs=147.7

Q ss_pred             EEEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEeccC-CCCCCccCCccccCCCCcccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQNV-NSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~-~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      .+.|.+|..|+++|.||.+....+.  ....++|+|++|++.+.+.|++++.+++..- ..+                  
T Consensus        85 fapLyiSN~C~n~C~YCgfs~~n~~i~r~~Ls~EEI~~ea~~~~~~G~~~i~LvsGe~p~~~------------------  146 (469)
T PRK09613         85 FAPLYISNYCVNNCVYCGFRRSNKEIKRKKLTQEEIREEVKALEDMGHKRLALVAGEDPPNC------------------  146 (469)
T ss_pred             EEeccccCCCCCCCccCCCccCCCCCCceECCHHHHHHHHHHHHHCCCCEEEEEeCCCCCCC------------------
Confidence            3556689999999999998754332  2356999999999999999999999875321 111                  


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhC---Cc-eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEF---PE-MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM  387 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~---~~-~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m  387 (524)
                                  ....+.++++.+.+..   +. .++.+   +...++.+-++.|+++  |+.++++-.||.++++.+.+
T Consensus       147 ------------~~eyi~e~i~~I~~~~~~~g~i~~v~i---nig~lt~eey~~Lkea--Gv~~~~l~qETY~~ety~~~  209 (469)
T PRK09613        147 ------------DIEYILESIKTIYSTKHGNGEIRRVNV---NIAPTTVENYKKLKEA--GIGTYQLFQETYHKPTYEKM  209 (469)
T ss_pred             ------------CHHHHHHHHHHHHHhccccCcceeeEE---EeecCCHHHHHHHHHc--CCCEEEeccccCCHHHHHhc
Confidence                        1245777777777642   11 13333   3445899999999999  99999999999999999998


Q ss_pred             CC---CCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHc------CCCeEEEEeeecCCCChhc
Q 041524          388 RR---GYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAV------GYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       388 ~R---~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l------~~d~~~i~~~sp~pGT~~~  457 (524)
                      ..   .++.+.-+++++.++++  |+. +.+.+|+|+++ +.+|...++..++.+      +++.+++-.+.|.+|||+.
T Consensus       210 hp~g~k~~y~~Rl~t~~rA~~a--Gi~~Vg~G~L~GLge-~~~E~~~l~~hl~~L~~~~gvgp~tIsvprl~P~~Gtpl~  286 (469)
T PRK09613        210 HPSGPKSDYDWRLTAMDRAMEA--GIDDVGIGVLFGLYD-YKFEVLGLLMHAEHLEERFGVGPHTISVPRLRPADGSDLE  286 (469)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHc--CCCeeCeEEEEcCCC-CHHHHHHHHHHHHHHHHhhCCCCccccccceecCCCCCcc
Confidence            54   57899999999999999  997 99999999965 555555555555555      5777888889999999985


Q ss_pred             ccCCCCCCHHHHH
Q 041524          458 RNYVDDVPEEVKQ  470 (524)
Q Consensus       458 ~~~~~~v~~~~k~  470 (524)
                      . .+..+++....
T Consensus       287 ~-~~~~vsd~e~l  298 (469)
T PRK09613        287 N-FPYLVSDEDFK  298 (469)
T ss_pred             c-CCCCCCHHHHH
Confidence            3 33335554443

>PRK05927 hypothetical protein; Provisional

Probab=99.53  E-value=2e-13  Score=141.60  Aligned_cols=187  Identities=13%  Similarity=0.125  Sum_probs=147.8

Q ss_pred             EEEEcccCCccCcccccCCCCCc-c-ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccC
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGR-E-RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEG  314 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~-~-Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g  314 (524)
                      .+.++.-|+.+|.||++....+. . ...++++|++.++...+.|+++|.|++..-..+                     
T Consensus        48 ~i~~Tn~C~~~C~fCaf~~~~~~~~~y~ls~eei~~~a~~~~~~G~~~i~i~gG~~p~~---------------------  106 (350)
T PRK05927         48 NPNYTNICKIDCTFCAFYRKPHSSDAYLLSFDEFRSLMQRYVSAGVKTVLLQGGVHPQL---------------------  106 (350)
T ss_pred             CCccchhhhcCCccCCccCCCCCccccccCHHHHHHHHHHHHHCCCCEEEEeCCCCCCC---------------------
Confidence            35679999999999998654332 1 257899999999999999999999875321111                     


Q ss_pred             cccchhcccchhhHHHHHHHHHhhCCceEEEEe--------cCCCCCCCHHHHHHHHcCCCCcceeec-CcCCcCHHHHh
Q 041524          315 FNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYT--------SPHPKDFPDELLYIMRDRPNVCKYIHL-PAQTGNSAVLE  385 (524)
Q Consensus       315 ~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~--------s~~p~~~~~elL~~l~~~~~G~~~i~i-giESgs~~vL~  385 (524)
                               ....+.++++.+.+..|.+.+..-        .......++|.++.|+++  |..+++= ++|+.++.+.+
T Consensus       107 ---------~~e~~~~~i~~ik~~~p~l~~~~~s~~ei~~~~~~~G~~~~e~l~~Lk~a--Gl~~l~g~~~Et~~~~~~~  175 (350)
T PRK05927        107 ---------GIDYLEELVRITVKEFPSLHPHFFSAVEIAHAAQVSGISTEQALERLWDA--GQRTIPGGGAEILSERVRK  175 (350)
T ss_pred             ---------CHHHHHHHHHHHHHHCCCCcccCCCHHHHHHHHHhcCCCHHHHHHHHHHc--CcccCCCCCchhCCHHHhh
Confidence                     123577888888876554432111        122466789999999999  9977665 89999999999


Q ss_pred             hhCCC-CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC----CCChhcc
Q 041524          386 RMRRG-YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR----ERTHAHR  458 (524)
Q Consensus       386 ~m~R~-~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~----pGT~~~~  458 (524)
                      .+..+ .+.+++++.++.+++.  |+.+.+.+|+|+ |||.+|..+.+..+++++-+..++..|.|.    +|||+..
T Consensus       176 ~~~p~k~~~~~rl~~i~~A~~l--Gi~~~sg~l~G~-gEt~e~ri~~l~~Lr~lqd~~~gf~~fIp~~~~~~~tpl~~  250 (350)
T PRK05927        176 IISPKKMGPDGWIQFHKLAHRL--GFRSTATMMFGH-VESPEDILLHLQTLRDAQDENPGFYSFIPWSYKPGNTALGR  250 (350)
T ss_pred             ccCCCCCCHHHHHHHHHHHHHc--CCCcCceeEEee-CCCHHHHHHHHHHHHHhhHhhCCeeeeeecCcCCCCCcccc
Confidence            99874 4789999999999999  999999999999 999999999999999998666667667665    6899864

>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein

Probab=99.52  E-value=1.6e-12  Score=133.82  Aligned_cols=184  Identities=12%  Similarity=0.142  Sum_probs=144.1

Q ss_pred             CCCeEEEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCC
Q 041524          231 KNSVTAFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGA  307 (524)
Q Consensus       231 ~~~~~a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~  307 (524)
                      ....++.+.+++||+.+|.||..+...|.  ....+.+++.+-++++.+. |+++|.|.|.+....              
T Consensus        85 kyp~rvll~vT~~C~~~Cr~C~r~~~~~~~~~~~l~~~e~~~~i~~i~~~~~I~~VilSGGDPl~~--------------  150 (321)
T TIGR03822        85 RYPDRVLLKPVHVCPVYCRFCFRREMVGPEGLGVLSPAELDAAFAYIADHPEIWEVILTGGDPLVL--------------  150 (321)
T ss_pred             CCCCEEEEEecCCCCCcCcCCCchhhcCCcccCcCCHHHHHHHHHHHHhCCCccEEEEeCCCcccC--------------
Confidence            34457788899999999999987654443  2334667777777777755 899999998665433              


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEec----CCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHH
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTS----PHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAV  383 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s----~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~v  383 (524)
                                      ...++.++++.+.+......+++.+    ..|..+++++++.|+++  |+ .+.+++++..++-
T Consensus       151 ----------------~~~~L~~ll~~l~~i~~v~~iri~Tr~~v~~p~rit~ell~~L~~~--g~-~v~i~l~~~h~~e  211 (321)
T TIGR03822       151 ----------------SPRRLGDIMARLAAIDHVKIVRFHTRVPVADPARVTPALIAALKTS--GK-TVYVALHANHARE  211 (321)
T ss_pred             ----------------CHHHHHHHHHHHHhCCCccEEEEeCCCcccChhhcCHHHHHHHHHc--CC-cEEEEecCCChhh
Confidence                            0246889999988754334677765    36778999999999998  85 4889999987654


Q ss_pred             HhhhCCCCCHHHHHHHHHHHHHhCCCcEEEE-eEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          384 LERMRRGYTREAYLDLVQKIRQIIPDVGLSS-DFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       384 L~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~-~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                      +        .++..++++.++++  |+.+.. .+++.-.+++.+++.++++++.++++...+++.+.|.+||..+
T Consensus       212 l--------~~~~~~ai~~L~~~--Gi~v~~q~vLl~gvNd~~~~l~~l~~~l~~~gv~pyyl~~~~p~~g~~~f  276 (321)
T TIGR03822       212 L--------TAEARAACARLIDA--GIPMVSQSVLLRGVNDDPETLAALMRAFVECRIKPYYLHHLDLAPGTAHF  276 (321)
T ss_pred             c--------CHHHHHHHHHHHHc--CCEEEEEeeEeCCCCCCHHHHHHHHHHHHhcCCeeEEEEecCCCCCcccc
Confidence            3        38899999999999  998765 4455446999999999999999999999999999999998655

Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.

>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial

Probab=99.50  E-value=2.9e-12  Score=132.81  Aligned_cols=184  Identities=16%  Similarity=0.157  Sum_probs=143.9

Q ss_pred             eEEEEEEcccCCccCcccccCCC----CCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFT----RGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~----~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      .+..|+++.+|+.+|.||.....    ..+....+.+++.+.++.+.+.|++.|.|+|......                
T Consensus        10 ~~l~i~vT~~CNl~C~yC~~~~~~~~~~~~~~~ls~eei~~~i~~~~~~gv~~V~ltGGEPll~----------------   73 (334)
T TIGR02666        10 DYLRISVTDRCNLRCVYCMPEGGGLDFLPKEELLTFEEIERLVRAFVGLGVRKVRLTGGEPLLR----------------   73 (334)
T ss_pred             CeEEEEecCccCcCCCCCCCCcCCCCcCCccCCCCHHHHHHHHHHHHHCCCCEEEEECcccccc----------------
Confidence            35667889999999999987541    1134567899999999999889999999988544322                


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR  389 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R  389 (524)
                                      .++.++++.+.+..+...+.+++ +.. +.++.++.|+++  |+.++.|+++|.+++..+.+.+
T Consensus        74 ----------------~~l~~li~~i~~~~gi~~v~itT-NG~-ll~~~~~~L~~~--gl~~v~ISld~~~~~~~~~i~~  133 (334)
T TIGR02666        74 ----------------KDLVELVARLAALPGIEDIALTT-NGL-LLARHAKDLKEA--GLKRVNVSLDSLDPERFAKITR  133 (334)
T ss_pred             ----------------CCHHHHHHHHHhcCCCCeEEEEe-Cch-hHHHHHHHHHHc--CCCeEEEecccCCHHHhheeCC
Confidence                            24788888877643322666654 333 335688999998  9999999999999999999985


Q ss_pred             -CCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          390 -GYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       390 -~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                       +.+.+++++.++.+++.  |+. +...+++ ++|.+.+++.+.++++.+++++ +.+..|.|..++..+
T Consensus       134 ~~~~~~~vl~~i~~l~~~--G~~~v~in~vv-~~g~n~~ei~~l~~~~~~~gv~-~~~ie~mp~~~~~~~  199 (334)
T TIGR02666       134 RGGRLEQVLAGIDAALAA--GLEPVKLNTVV-MRGVNDDEIVDLAEFAKERGVT-LRFIELMPLGEGNGW  199 (334)
T ss_pred             CCCCHHHHHHHHHHHHHc--CCCcEEEEEEE-eCCCCHHHHHHHHHHHHhcCCe-EEEEeccCCCCCccc
Confidence             67999999999999999  775 6666543 4789999999999999999986 677788888777544

The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.50  E-value=1.1e-12  Score=148.97  Aligned_cols=186  Identities=16%  Similarity=0.244  Sum_probs=149.2

Q ss_pred             EEEEcccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccC
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEG  314 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g  314 (524)
                      .|..|.+|+.+|.||++....+  .....++|+|+++++...+.|+++|.+++..-..+                     
T Consensus       529 ~In~TN~C~~~C~FCafs~~~~~~~~y~Ls~eeI~~~a~ea~~~G~tev~i~gG~~p~~---------------------  587 (843)
T PRK09234        529 NINFTNICYTGCRFCAFAQRKTDADAYTLSLDEVADRAWEAWVAGATEVCMQGGIHPEL---------------------  587 (843)
T ss_pred             ceecCCCCCCCCcccccccCCCCCCcccCCHHHHHHHHHHHHHCCCCEEEEecCCCCCc---------------------
Confidence            3556999999999999875422  23447999999999999999999999986321101                     


Q ss_pred             cccchhcccchhhHHHHHHHHHhhCCceEEEEecC--------CCCCCCHHHHHHHHcCCCCcceeec-CcCCcCHHHHh
Q 041524          315 FNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP--------HPKDFPDELLYIMRDRPNVCKYIHL-PAQTGNSAVLE  385 (524)
Q Consensus       315 ~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~--------~p~~~~~elL~~l~~~~~G~~~i~i-giESgs~~vL~  385 (524)
                               ....+.++++.+++..|.+.+...++        ......+|.++.|+++  |+..++- +.|-.++++.+
T Consensus       588 ---------~~~~y~~lir~IK~~~p~i~i~afsp~Ei~~~a~~~Gl~~~e~l~~LkeA--GLds~pgt~aeil~d~vr~  656 (843)
T PRK09234        588 ---------PGTGYADLVRAVKARVPSMHVHAFSPMEIVNGAARLGLSIREWLTALREA--GLDTIPGTAAEILDDEVRW  656 (843)
T ss_pred             ---------CHHHHHHHHHHHHHhCCCeeEEecChHHHHHHHHHcCCCHHHHHHHHHHh--CcCccCCCchhhCCHHHHh
Confidence                     12467889999988877766643321        1123568999999999  9999876 66778888877


Q ss_pred             hhCC-CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec----CCCChhc
Q 041524          386 RMRR-GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM----RERTHAH  457 (524)
Q Consensus       386 ~m~R-~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp----~pGT~~~  457 (524)
                      .+.+ ..+.+++++.++.+++.  |+.+.+.+|+|+ +||.+++.+.+.++++++.+...+..|.|    .|+||++
T Consensus       657 ~i~p~k~~~~~wle~i~~Ah~l--Gi~~~stmm~G~-~Et~edrv~hl~~LreLq~~tgGf~~fIPl~F~~~~tpl~  730 (843)
T PRK09234        657 VLTKGKLPTAEWIEVVTTAHEV--GLRSSSTMMYGH-VDTPRHWVAHLRVLRDIQDRTGGFTEFVPLPFVHQNAPLY  730 (843)
T ss_pred             hcCCCCCCHHHHHHHHHHHHHc--CCCcccceEEcC-CCCHHHHHHHHHHHHhcCcccCCeeeeeeccccCCCCCcc
Confidence            7775 45889999999999999  999999999997 79999999999999999999888888888    6788886

>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal

Probab=99.49  E-value=3.8e-12  Score=130.01  Aligned_cols=178  Identities=12%  Similarity=0.143  Sum_probs=139.8

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc-cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR-ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~-~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      .+..|+++.+|+.+|.||..+..... .+..+.+++.+.++.+.+.|++.|.|+|......                   
T Consensus        10 ~~l~i~vT~~CNl~C~yC~~~~~~~~~~~~ls~eei~~~i~~~~~~gi~~I~~tGGEPll~-------------------   70 (302)
T TIGR02668        10 TSLRISVTDRCNLSCFYCHMEGEDRSGGNELSPEEIERIVRVASEFGVRKVKITGGEPLLR-------------------   70 (302)
T ss_pred             CeEEEEEcccccCCCCCCCccccCCCccCcCCHHHHHHHHHHHHHcCCCEEEEECcccccc-------------------
Confidence            45788999999999999987543222 3568899998888888888999999988554332                   


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCC
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYT  392 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t  392 (524)
                                   ..+.++++.+.+. +...+.+++ +.. +.++.++.++++  |+.+|.++++|.+++..+.++++.+
T Consensus        71 -------------~~l~~iv~~l~~~-g~~~v~i~T-NG~-ll~~~~~~l~~~--g~~~v~iSld~~~~~~~~~i~~~~~  132 (302)
T TIGR02668        71 -------------KDLIEIIRRIKDY-GIKDVSMTT-NGI-LLEKLAKKLKEA--GLDRVNVSLDTLDPEKYKKITGRGA  132 (302)
T ss_pred             -------------cCHHHHHHHHHhC-CCceEEEEc-Cch-HHHHHHHHHHHC--CCCEEEEEecCCCHHHhhhccCCCc
Confidence                         2477788877664 322566654 332 336788888888  9999999999999999999998889


Q ss_pred             HHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCC
Q 041524          393 REAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRE  452 (524)
Q Consensus       393 ~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~p  452 (524)
                      .+++++.++.+++.  |+. +...+++ +||++.+++.+.++++.+++++ +.+..|.|..
T Consensus       133 ~~~vl~~i~~~~~~--G~~~v~i~~v~-~~g~n~~ei~~~~~~~~~~g~~-~~~ie~~p~~  189 (302)
T TIGR02668       133 LDRVIEGIESAVDA--GLTPVKLNMVV-LKGINDNEIPDMVEFAAEGGAI-LQLIELMPPG  189 (302)
T ss_pred             HHHHHHHHHHHHHc--CCCcEEEEEEE-eCCCCHHHHHHHHHHHHhcCCE-EEEEEEeECC
Confidence            99999999999999  765 6555443 6899999999999999999886 6777777754

This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).

>PLN02951 Molybderin biosynthesis protein CNX2

Probab=99.42  E-value=3.1e-11  Score=126.67  Aligned_cols=197  Identities=14%  Similarity=0.149  Sum_probs=144.2

Q ss_pred             EEEEEEcccCCccCcccccCCCC---CccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTR---GRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~---G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      +..|+++.+|+.+|.||..+...   .+....+.+++.+.++.+.+.|++.|.|+|.....+                  
T Consensus        59 ~lrisvT~~CNlrC~yC~~~~~~~~~~~~~~ls~eei~~~i~~~~~~Gv~~I~~tGGEPllr------------------  120 (373)
T PLN02951         59 YLRISLTERCNLRCQYCMPEEGVELTPKSHLLSQDEIVRLAGLFVAAGVDKIRLTGGEPTLR------------------  120 (373)
T ss_pred             EEEEEEcCCcCcCCCCCCCCcCCCCCCccccCCHHHHHHHHHHHHHCCCCEEEEECCCCcch------------------
Confidence            45678899999999999764211   112457889999998888888999999988443222                  


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                                    ..+.++++.+.+..+...+.+++ +...+ ++.++.|+++  |...|.+.++|.+++..+.+.++.
T Consensus       121 --------------~dl~eli~~l~~~~gi~~i~itT-NG~lL-~~~~~~L~~a--Gld~VnISLDsl~~e~~~~itr~~  182 (373)
T PLN02951        121 --------------KDIEDICLQLSSLKGLKTLAMTT-NGITL-SRKLPRLKEA--GLTSLNISLDTLVPAKFEFLTRRK  182 (373)
T ss_pred             --------------hhHHHHHHHHHhcCCCceEEEee-CcchH-HHHHHHHHhC--CCCeEEEeeccCCHHHHHHHhcCC
Confidence                          24788888887653333455553 33333 3557888888  999999999999999999998877


Q ss_pred             CHHHHHHHHHHHHHhCCCc-EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHH
Q 041524          392 TREAYLDLVQKIRQIIPDV-GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQ  470 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi-~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~  470 (524)
                      ..+.+++.++.+++.  |+ .+...+ +-++|++.+++.+.++++++.+++ +.+..|.|..|++...  ...++.....
T Consensus       183 ~~~~vl~~I~~a~~~--G~~~vkin~-vv~~g~N~~Ei~~li~~a~~~gi~-vr~ie~mP~~~~~~~~--~~~~~~~ei~  256 (373)
T PLN02951        183 GHDRVLESIDTAIEL--GYNPVKVNC-VVMRGFNDDEICDFVELTRDKPIN-VRFIEFMPFDGNVWNV--KKLVPYAEMM  256 (373)
T ss_pred             CHHHHHHHHHHHHHc--CCCcEEEEE-EecCCCCHHHHHHHHHHHHhCCCe-EEEEEcccCCCCcccc--ccCCCHHHHH
Confidence            889999999999998  65 344433 344788999999999999998865 7788899999885432  2234444443


Q ss_pred             HHH
Q 041524          471 RRL  473 (524)
Q Consensus       471 ~Rl  473 (524)
                      +++
T Consensus       257 ~~l  259 (373)
T PLN02951        257 DRI  259 (373)
T ss_pred             HHH
Confidence            333

>COG0320 LipA Lipoate synthase [Coenzyme metabolism]

Probab=99.39  E-value=3.7e-11  Score=116.69  Aligned_cols=214  Identities=23%  Similarity=0.361  Sum_probs=160.8

Q ss_pred             CCCeEEEEEEcccCCccCcccccCCCCCccccCC---hHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCC
Q 041524          231 KNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRP---VESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGA  307 (524)
Q Consensus       231 ~~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~---~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~  307 (524)
                      ..+...|+-.+.-|..+|.||.+.+  |+.-..+   |+.|.+-|+.+   |.+++++++-+    ||+.          
T Consensus        67 ~~~tATFmImG~~CTR~C~FC~V~~--g~P~~lD~~EP~rvAeaV~~m---gLkyVViTsVd----RDDL----------  127 (306)
T COG0320          67 SRGTATFMILGDICTRRCRFCDVKT--GRPNPLDPDEPERVAEAVKDM---GLKYVVITSVD----RDDL----------  127 (306)
T ss_pred             cCCceEEeeccchhccCCCccccCC--CCCCCCCCchHHHHHHHHHHh---CCCeEEEEeec----cccc----------
Confidence            3556678878999999999999954  4433333   55555555544   99999988633    3322          


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM  387 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m  387 (524)
                          .+|         +...|++.+++|.+..|...+.+-.++-.. .++.|+.+.++  +-.-+.=.+|+. ++....+
T Consensus       128 ----~DG---------GA~hfa~~i~~Ire~~P~t~iEvL~PDF~G-~~~al~~v~~~--~pdV~nHNvETV-prL~~~V  190 (306)
T COG0320         128 ----PDG---------GAQHFAECIRAIRELNPQTTIEVLTPDFRG-NDDALEIVADA--GPDVFNHNVETV-PRLYPRV  190 (306)
T ss_pred             ----ccc---------chHHHHHHHHHHHhhCCCceEEEeCccccC-CHHHHHHHHhc--Ccchhhcccccc-hhccccc
Confidence                111         246799999999999988777665443322 57788888888  777777788874 5677788


Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHH
Q 041524          388 RRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEE  467 (524)
Q Consensus       388 ~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~  467 (524)
                      +++.+.+.-+++++.+++..|.+...+.+|+|+ |||.+++.++++-+++.++|.+.+-.|.- | |.-|.    .|..-
T Consensus       191 Rp~A~Y~~SL~~L~~~k~~~P~i~TKSgiMlGL-GEt~~Ev~e~m~DLr~~gvdilTiGQYlq-P-S~~Hl----pV~ry  263 (306)
T COG0320         191 RPGATYERSLSLLERAKELGPDIPTKSGLMVGL-GETDEEVIEVMDDLRSAGVDILTIGQYLQ-P-SRKHL----PVQRY  263 (306)
T ss_pred             CCCCcHHHHHHHHHHHHHhCCCcccccceeeec-CCcHHHHHHHHHHHHHcCCCEEEeccccC-C-ccccC----Cceec
Confidence            899999999999999999999999999999999 99999999999999999999999988842 2 33332    34555


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 041524          468 VKQRRLTELIEAFRESTGQC  487 (524)
Q Consensus       468 ~k~~Rl~~l~~~~~~~~~~~  487 (524)
                      +..+.+.++.+...+..+.+
T Consensus       264 v~PeeF~~~~~~a~~~GF~~  283 (306)
T COG0320         264 VTPEEFDELEEVAEEMGFLH  283 (306)
T ss_pred             cCHHHHHHHHHHHHHccchh
Confidence            66677777777777665543

>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme

Probab=99.35  E-value=7.5e-11  Score=116.01  Aligned_cols=180  Identities=14%  Similarity=0.155  Sum_probs=124.2

Q ss_pred             EEEEEcccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHCC---CcEEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKEG---VKEVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~G---~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      .++-++.|||++|.||..+..+.  ..+..+++++++++..+.+.+   .+.|.|.|.....+                 
T Consensus        17 ~~~v~~~gCnl~C~~C~~~~~~~~~~~~~~s~e~i~~~i~~~~~~~~~~~~~I~~~GGEPll~-----------------   79 (235)
T TIGR02493        17 RFVVFMQGCPLRCQYCHNPDTWDLKGGTEVTPEELIKEVGSYKDFFKASGGGVTFSGGEPLLQ-----------------   79 (235)
T ss_pred             eEEEEECCCCCcCCCCCChhhccCCCCEECCHHHHHHHHHHhHHHHhcCCCeEEEeCcccccC-----------------
Confidence            44456789999999998764432  235689999999999876542   25688887554433                 


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCC-CCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPH-PKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR  389 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~-p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R  389 (524)
                                    ...+.++++.+.+..  ..+.+.+.- ...+++.+.+++.    .+..+.+++++.+++..+.+++
T Consensus        80 --------------~~~~~~li~~~~~~g--~~~~i~TNG~~~~~~~~~~~ll~----~~d~v~isl~~~~~~~~~~~~g  139 (235)
T TIGR02493        80 --------------PEFLSELFKACKELG--IHTCLDTSGFLGGCTEAADELLE----YTDLVLLDIKHFNPEKYKKLTG  139 (235)
T ss_pred             --------------HHHHHHHHHHHHHCC--CCEEEEcCCCCCccHHHHHHHHH----hCCEEEEeCCCCCHHHHHHHHC
Confidence                          122457777776642  344454321 1123444444443    3457999999999999988765


Q ss_pred             CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCC--CCHHHHHHHHHHHHHcC-CCeEEEEeeecCCCChhc
Q 041524          390 GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCG--ETEEEHADTLTLMKAVG-YDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       390 ~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~Pg--ET~ed~~~tl~~l~~l~-~d~~~i~~~sp~pGT~~~  457 (524)
                      . +.+.+.+.++.+++.  |+.+...+++ +||  ++.+++.+.++++.+++ ...+.+.+|.|. |++.|
T Consensus       140 ~-~~~~v~~~i~~l~~~--g~~~~v~~vv-~~~~~~n~~ei~~l~~~~~~l~~~~~~~~~p~~~~-g~~~~  205 (235)
T TIGR02493       140 V-SLQPTLDFAKYLAKR--NKPIWIRYVL-VPGYTDSEEDIEALAEFVKTLPNVERVEVLPYHQL-GVYKW  205 (235)
T ss_pred             C-CcHHHHHHHHHHHhC--CCcEEEEEee-eCCcCCCHHHHHHHHHHHHhCCCCceEEecCCCcc-cHHHH
Confidence            5 889999999999998  7776666555 375  57899999999999998 466767666653 55544

An iron-sulfur protein with a radical-SAM domain (pfam04055). A single glycine residue in EC 2.3.1.54, formate C-acetyltransferase (formate-pyruvate lyase), is oxidized to the corresponding radical by transfer of H from its CH2 to AdoMet with concomitant cleavage of the latter. The reaction requires Fe2+. The first stage is reduction of the AdoMet to give methionine and the 5'-deoxyadenosin-5-yl radical, which then abstracts a hydrogen radical from the glycine residue.

>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional

Probab=99.31  E-value=5.6e-10  Score=117.67  Aligned_cols=177  Identities=11%  Similarity=0.135  Sum_probs=139.5

Q ss_pred             CeEEEEEEcccCCccCcccccCCCC-CccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTR-GRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~-G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      .....++++..|+.+|.||...... ...+..+.+++.+-|+.+.+.|+..|.|.|.....+                  
T Consensus        15 P~~l~i~iT~~CNl~C~~C~~~~~~~~~~~~~~~e~~~~ii~~~~~~g~~~v~~~GGEPll~------------------   76 (378)
T PRK05301         15 PLWLLAELTYRCPLQCPYCSNPLDLARHGAELSTEEWIRVLREARALGALQLHFSGGEPLLR------------------   76 (378)
T ss_pred             CeEEEEEecCccCcCCCCCCCccccccccCCCCHHHHHHHHHHHHHcCCcEEEEECCccCCc------------------
Confidence            4567899999999999999865332 224567888888888888788999999987554433                  


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC-
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG-  390 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~-  390 (524)
                                    ..+.++++.+.+..  +.+.+. .+...++++.++.|+++  |+..|.|++++.++++.+.++++ 
T Consensus        77 --------------~~~~~il~~~~~~g--~~~~i~-TNG~ll~~~~~~~L~~~--g~~~v~iSldg~~~e~~d~irg~~  137 (378)
T PRK05301         77 --------------KDLEELVAHARELG--LYTNLI-TSGVGLTEARLAALKDA--GLDHIQLSFQDSDPELNDRLAGTK  137 (378)
T ss_pred             --------------hhHHHHHHHHHHcC--CcEEEE-CCCccCCHHHHHHHHHc--CCCEEEEEecCCCHHHHHHHcCCC
Confidence                          24778888876542  344444 45667899999999998  99999999999999999988765 


Q ss_pred             CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec
Q 041524          391 YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM  450 (524)
Q Consensus       391 ~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp  450 (524)
                      .+.+.+++.++.+++.  |+.+...++  ++.++.+++.+.++++.+++++.+.+..+.+
T Consensus       138 g~f~~~~~~i~~l~~~--g~~v~i~~v--v~~~N~~~i~~~~~~~~~lgv~~i~~~~~~~  193 (378)
T PRK05301        138 GAFAKKLAVARLVKAH--GYPLTLNAV--IHRHNIDQIPRIIELAVELGADRLELANTQY  193 (378)
T ss_pred             chHHHHHHHHHHHHHC--CCceEEEEE--eecCCHHHHHHHHHHHHHcCCCEEEEecccc
Confidence            4899999999999998  777665544  4678999999999999999999887765443

>PRK14455 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.30  E-value=2.5e-10  Score=118.81  Aligned_cols=187  Identities=14%  Similarity=0.217  Sum_probs=131.7

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHH------CCCcEEEEEeccCCCCCCccCCccccCC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWK------EGVKEVTLLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~------~G~kei~l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      .+.+..|++++||+.+|.||..+.. |..|..++++|+++|.....      .|+..|+|.|.                 
T Consensus       107 ~~~t~ciSsqvGC~~~C~FC~t~~~-~~~r~lt~~EIv~qv~~~~~~~~~~g~~v~~Vv~~Gm-----------------  168 (356)
T PRK14455        107 YGNSVCVTTQVGCRIGCTFCASTLG-GLKRDLEAGEIVAQVMLVQKYLDETEERVSHIVVMGI-----------------  168 (356)
T ss_pred             CCceEEEECCCCCCCCCCcCCCCCC-CCCccCCHHHHHHHHHHHHHHHhhcCCCcceEEEecc-----------------
Confidence            4677899999999999999998754 45788999999999986432      25778888761                 


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCH
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNS  381 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~  381 (524)
                      |.++.             +...+.++++.+.+..+    ...+.+++.   .+.+.+.++....  +-..+.+.+.+.++
T Consensus       169 GEPLl-------------n~~~v~~~l~~l~~~~g~~~s~r~itvsT~---G~~~~i~~l~d~~--l~~~LaiSL~a~~~  230 (356)
T PRK14455        169 GEPFD-------------NYDNVMDFLRIINDDKGLAIGARHITVSTS---GIAPKIYDFADEG--LQINLAISLHAPNN  230 (356)
T ss_pred             ccccC-------------CHHHHHHHHHHHhcccCcccCCCceEEEec---CchHhHHHHHhcc--cCeeEEeccCCCCH
Confidence            32220             01346677777665321    114444432   2334555555432  22347799999999


Q ss_pred             HHHhh---hCCCCCHHHHHHHHHHHHHhCCCcEEEE-eEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChh
Q 041524          382 AVLER---MRRGYTREAYLDLVQKIRQIIPDVGLSS-DFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHA  456 (524)
Q Consensus       382 ~vL~~---m~R~~t~e~~~~~v~~ir~~~pgi~i~~-~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~  456 (524)
                      +..+.   ++|+++.+++++.++.+.+.. +..+.. +++++-..++++++++..+|+..++ ..+.+-+|.|.++.+.
T Consensus       231 e~r~~l~pi~~~~~l~~Il~~l~~~~~~~-~~~v~iey~lI~gvNDs~ed~~~La~ll~~l~-~~VnLIPynp~~~~ky  307 (356)
T PRK14455        231 ELRSSLMPINRAYPLEKLMEAIEYYIEKT-NRRVTFEYILLGGVNDQVEHAEELADLLKGIK-CHVNLIPVNPVPERDY  307 (356)
T ss_pred             HHHHHhcCcccCCCHHHHHHHHHHHHHhc-CCeEEEEEEEeCCCCCCHHHHHHHHHHHhcCC-CcEEEEecCcCCCCCC
Confidence            99985   678899999999999886641 344443 5555556899999999999999987 5688899999887643

>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.29  E-value=1.7e-10  Score=119.65  Aligned_cols=184  Identities=15%  Similarity=0.194  Sum_probs=128.9

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      .+.+..|++++||+.+|.||.... .|..|..++++|++++..+.+. ++++|.|+|.                 |.|+.
T Consensus       101 ~~~t~cvSsq~GC~~~C~FC~tg~-~~~~r~lt~~EI~~qv~~~~~~~~i~~IvfmG~-----------------GEPl~  162 (349)
T PRK14463        101 DRNTLCISSQVGCAMGCAFCLTGT-FRLTRNLTTAEIVNQVCAVKRDVPVRNIVFMGM-----------------GEPLA  162 (349)
T ss_pred             CCcEEEEEecCCcCCCCccCCCCC-CCCCCCCCHHHHHHHHHHHHhcCCccEEEEecC-----------------Ccchh
Confidence            467899999999999999998653 4557889999999999887653 7899998872                 33320


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhC----CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEF----PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~----~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                   +...+.+.++.+.+..    +..++.+++.   .+.+++.++...   +-..+.+.+.|.+++..+.
T Consensus       163 -------------n~~~vi~~l~~l~~~~gl~~s~r~itVsTn---Gl~~~i~~l~~~---~~~~LaiSL~a~~~e~r~~  223 (349)
T PRK14463        163 -------------NLDNVIPALQILTDPDGLQFSTRKVTVSTS---GLVPEMEELGRE---VTVNLAVSLNATTDEVRDR  223 (349)
T ss_pred             -------------cHHHHHHHHHHhhcccccCcCCceEEEECC---CchHHHHHHhhc---cCeEEEEeCCCCCHHHHHH
Confidence                         0122444444443211    1124555432   234555544432   3345778999999999999


Q ss_pred             h---CCCCCHHHHHHHHHHHHHhCCCcEEEE-eEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCC
Q 041524          387 M---RRGYTREAYLDLVQKIRQIIPDVGLSS-DFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERT  454 (524)
Q Consensus       387 m---~R~~t~e~~~~~v~~ir~~~pgi~i~~-~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT  454 (524)
                      +   +|+++.+++.+++....... +-.+.. +++++-..++++++.+..+++..++. .+.+-+|.|.+|.
T Consensus       224 I~pink~~~l~~l~~a~~~~~~~~-~~~v~ieyvLI~GvNDs~e~~~~L~~ll~~l~~-~vnlIPyn~~~~~  293 (349)
T PRK14463        224 IMPVNRRYPLAELLAACKAFPLPG-RRKITIEYVMIRGLNDSLEDAKRLVRLLSDIPS-KVNLIPFNEHEGC  293 (349)
T ss_pred             hcCcccCCCHHHHHHHHHHHHHhc-CCeEEEEEEEeCCCCCCHHHHHHHHHHHhccCc-eEEEEecCCCCCC
Confidence            7   78899999999888776642 234443 45555569999999999999999875 6889999888774

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.29  E-value=9e-11  Score=133.67  Aligned_cols=199  Identities=14%  Similarity=0.188  Sum_probs=144.0

Q ss_pred             EEEEEcccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      .+|..+..|.++|.||.+....+  .....++|+|++.++...+.|++++.|++..-...+-.        .-.+|--..
T Consensus        73 ~~In~Tn~C~~~C~YCaF~~~~~~~~~~~ls~eEIl~~a~~~~~~G~~e~l~t~G~~P~~~~~--------~~~~~l~~~  144 (843)
T PRK09234         73 VFIPLTRLCRDRCHYCTFATVPGKLEAAYLSPDEVLDIARAGAAAGCKEALFTLGDRPEDRWP--------EAREWLDER  144 (843)
T ss_pred             EEecCCCCCCCCCCcCCCccCCCCCccccCCHHHHHHHHHHHHHCCCCEEEEecCCCCccccc--------ccccccccc
Confidence            56778999999999999865444  24567999999999999999999988875332111000        001111111


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh------h
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER------M  387 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~------m  387 (524)
                      |+.+      .-..+.++++.+.+..+.. .   .+++..++.+-++.|+++  |.. +.+.+|+.+++..+.      .
T Consensus       145 gy~~------~~ey~~~~~~~ik~~~gl~-p---~i~~G~ls~~E~~~Lk~~--g~s-~gl~lEt~~~~l~~~~g~~h~~  211 (843)
T PRK09234        145 GYDS------TLDYVRAMAIRVLEETGLL-P---HLNPGVMSWSELARLKPV--APS-MGMMLETTSRRLFEEKGGPHYG  211 (843)
T ss_pred             cccc------HHHHHHHHHHHHHHhcCCC-c---eeeeCCCCHHHHHHHHHh--cCc-CCCCHHHHHHHHHHhhcccccC
Confidence            2211      1134666777776542221 1   234567899999999998  775 678899888877543      2


Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHc-----CCCeEEEEeeecCCCChhcc
Q 041524          388 RRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV-----GYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       388 ~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l-----~~d~~~i~~~sp~pGT~~~~  458 (524)
                      ..+...++.++.++.+++.  |+.+.+.+|+|+ |||.+|..+.+..++++     ++..+-+..|.|.||||+..
T Consensus       212 ~P~K~~~~RL~ti~~A~~l--Gi~~tsG~L~Gi-GEt~edRve~L~~LR~Lq~~~g~~~evi~~~F~p~~gT~l~~  284 (843)
T PRK09234        212 SPDKDPAVRLRVLEDAGRL--SVPFTTGILIGI-GETLAERAESLFAIRKLHREYGHIQEVIVQNFRAKPDTAMAG  284 (843)
T ss_pred             CCCCCHHHHHHHHHHHHHc--CCCccceEEEEC-CCCHHHHHHHHHHHHHhhHhhCCCcEEeecccccCCCCCCCC
Confidence            2344677889999999999  999999999999 99999999999999998     46667788899999999964

>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E

Probab=99.29  E-value=7.8e-10  Score=115.73  Aligned_cols=174  Identities=13%  Similarity=0.190  Sum_probs=135.3

Q ss_pred             eEEEEEEcccCCccCcccccCCCCC-ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRG-RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G-~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      ....++++..|+.+|.||..+.... +....+.+++.+-++.+.+.|+..|.|.|.....+                   
T Consensus         7 ~~l~ieiT~~CNl~C~~C~~~~~~~~~~~~l~~e~~~~ii~~~~~~g~~~v~~~GGEPll~-------------------   67 (358)
T TIGR02109         7 LWLLAELTHRCPLQCPYCSNPLELARRKAELTTEEWTDVLTQAAELGVLQLHFSGGEPLAR-------------------   67 (358)
T ss_pred             cEEEEeeccccCcCCCCCCCChhcccccCCCCHHHHHHHHHHHHhcCCcEEEEeCcccccc-------------------
Confidence            5678999999999999998753222 23456788877777777777999999987544332                   


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC-C
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG-Y  391 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~-~  391 (524)
                                   ..+.++++.+.+..  +.+.+. .+...++++.++.|+++  |+..|.|++++.++++.+++++. .
T Consensus        68 -------------~~~~~ii~~~~~~g--~~~~l~-TNG~ll~~e~~~~L~~~--g~~~v~iSldg~~~e~~d~~rg~~g  129 (358)
T TIGR02109        68 -------------PDLVELVAHARRLG--LYTNLI-TSGVGLTEARLDALADA--GLDHVQLSFQGVDEALADRIAGYKN  129 (358)
T ss_pred             -------------ccHHHHHHHHHHcC--CeEEEE-eCCccCCHHHHHHHHhC--CCCEEEEeCcCCCHHHHHHhcCCcc
Confidence                         24778888876642  344444 35566899999999998  99999999999999999988653 4


Q ss_pred             CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEee
Q 041524          392 TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAY  448 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~  448 (524)
                      +.+.+.+.++.+++.  |+.+...++  +..++.+++.+.++++.+++++.+.+...
T Consensus       130 ~f~~v~~~i~~l~~~--g~~v~v~~v--v~~~N~~~l~~~~~~~~~lg~~~i~~~~~  182 (358)
T TIGR02109       130 AFEQKLAMARAVKAA--GLPLTLNFV--IHRHNIDQIPEIIELAIELGADRVELATT  182 (358)
T ss_pred             HHHHHHHHHHHHHhC--CCceEEEEE--eccCCHHHHHHHHHHHHHcCCCEEEEEee
Confidence            789999999999998  877655444  46789999999999999999998877543

This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.

>TIGR00238 KamA family protein

Probab=99.29  E-value=2.8e-10  Score=117.57  Aligned_cols=182  Identities=18%  Similarity=0.226  Sum_probs=136.0

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      ...++++.++.||+.+|+||......+.....+.+++.+.++.+.+. |+++|.|.|.+.....                
T Consensus       111 y~~rvll~~T~gCn~~C~yC~~~~~~~~~~~~~~~~~~~~i~~i~~~~~i~eV~lsGGDPLl~~----------------  174 (331)
T TIGR00238       111 YVNRALFLVKGGCAVNCRYCFRRHFPYKENPGNKKKWQKALDYIAEHPEIIEILISGGDPLMAK----------------  174 (331)
T ss_pred             cCCcEEEEeCCCCCCCCcCCCCCCcCCCCCCccHHHHHHHHHHHHhCCCcCEEEEECCccccCC----------------
Confidence            34567899999999999999875443332233367777777777654 8999999986654330                


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecC----CCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP----HPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~----~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                    ...+.++++.+.++....++|+.+.    .|..+++++++.|+++  |+..+.++.....+++   
T Consensus       175 --------------d~~L~~ll~~L~~i~~~~~IRi~tr~~~~~P~rit~el~~~L~~~--~~~~~~vsh~nh~~Ei---  235 (331)
T TIGR00238       175 --------------DHELEWLLKRLEEIPHLVRLRIGTRLPVVIPQRITDELCELLASF--ELQLMLVTHINHCNEI---  235 (331)
T ss_pred             --------------HHHHHHHHHHHHhcCCccEEEeecCCCccCchhcCHHHHHHHHhc--CCcEEEEccCCChHhC---
Confidence                          1247888888887654557888763    3556899999999998  8888877766555442   


Q ss_pred             hCCCCCHHHHHHHHHHHHHhCCCcEE--EEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          387 MRRGYTREAYLDLVQKIRQIIPDVGL--SSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       387 m~R~~t~e~~~~~v~~ir~~~pgi~i--~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                            .++..++++.++++  |+.+  .+-++-|. .++.+++.+..+.+.++++...+++.+.|..|+..+
T Consensus       236 ------~~~~~~ai~~L~~a--Gi~v~~qtvLl~gv-nD~~~~l~~L~~~l~~~gV~pyyl~~~~~~~g~~~f  299 (331)
T TIGR00238       236 ------TEEFAEAMKKLRTV--NVTLLNQSVLLRGV-NDRAQILAKLSIALFKVGIIPYYLHYLDKVQGAKHF  299 (331)
T ss_pred             ------CHHHHHHHHHHHHc--CCEEEeecceECCc-CCCHHHHHHHHHHHhhcCeecCeecCcCCCCCcccc
Confidence                  27788999999999  7764  45666665 688899999999999999888888999999998433

Note that the E. coli homolog was expressed in E. coli and purified and found not to display display lysine 2,3-aminomutase activity. Active site residues are found in 100 residue extension in B. subtilis. Name changed to KamA family protein.

>PRK14456 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.23  E-value=1.6e-09  Score=113.11  Aligned_cols=186  Identities=16%  Similarity=0.211  Sum_probs=133.6

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHH--------HCCCcEEEEEeccCCCCCCccCCcccc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELW--------KEGVKEVTLLGQNVNSYNDTSGMEKEV  303 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~--------~~G~kei~l~d~n~~~y~~~~~~~~~~  303 (524)
                      ...+..|+++-||+.+|+||..... |..|..+.++|++++..+.        ..+++.|.|.|.               
T Consensus       119 ~~~t~ciSsq~GCnl~C~FC~tg~~-g~~rnLt~~EI~~qv~~~~~~~~~~~~~~~v~nIvfmGm---------------  182 (368)
T PRK14456        119 ERMTACISSQAGCALRCSFCATGQM-GFRRNLTAGEITGQVFALSDMLAERNRERGITNIVFMGM---------------  182 (368)
T ss_pred             CceEEEEEecCCCCCCCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHhhhccCCccEEEEeCc---------------
Confidence            4567899999999999999987643 5567788999999985432        246888998872               


Q ss_pred             CCCCccccccCcccchhcccchhhHHHHHHHHHhhC-----CceEEEEecCCCCCCCHHHHHHHHcCCCCcc-eeecCcC
Q 041524          304 EPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF-----PEMRFRYTSPHPKDFPDELLYIMRDRPNVCK-YIHLPAQ  377 (524)
Q Consensus       304 ~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~-----~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~-~i~igiE  377 (524)
                        |.|+.             +...+.++++.+.+..     +..++.+++.-   +.++ ++.|.++  |.. .+.+.+.
T Consensus       183 --GEPLl-------------n~d~v~~~i~~l~~~~~~~~is~r~ItisT~G---l~~~-i~~L~~~--gl~~~LaiSL~  241 (368)
T PRK14456        183 --GEPLL-------------NTDNVFEAVLTLSTRKYRFSISQRKITISTVG---ITPE-IDRLATS--GLKTKLAVSLH  241 (368)
T ss_pred             --Ccccc-------------CHHHHHHHHHHHhccccccCcCcCeeEEECCC---ChHH-HHHHHHc--CCCceEEEEec
Confidence              33220             0123666776665531     12255555432   4554 5777777  885 8999999


Q ss_pred             CcCHHHHhhhC----CCCCHHHHHHHHHH-HHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCC
Q 041524          378 TGNSAVLERMR----RGYTREAYLDLVQK-IRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRE  452 (524)
Q Consensus       378 Sgs~~vL~~m~----R~~t~e~~~~~v~~-ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~p  452 (524)
                      |.+++..+.+.    ++++.+++.++++. +.+....+.+..-+|-|+ .++++++.+.++|++.+. -.+.+-+|.|.+
T Consensus       242 a~~~e~r~~i~P~~~~~~~l~~l~~~i~~~~~~~g~~V~ieyvLI~Gv-NDs~eda~~L~~~l~~~~-~~VnlIpyn~~~  319 (368)
T PRK14456        242 SADQEKRERLMPQAARDYPLDELREALIGYASKTGEPVTLVYMLLEGI-NDSPEDARKLIRFASRFF-CKINLIDYNSIV  319 (368)
T ss_pred             CCCHHHHHHhccccCCCCCHHHHHHHHHHHHHhcCCeEEEEEEEEcCC-CCCHHHHHHHHHHHhcCC-CeeEEeeeccCC
Confidence            99999999773    58899999999985 455422344556666666 699999999999999875 358888999988


Q ss_pred             CChh
Q 041524          453 RTHA  456 (524)
Q Consensus       453 GT~~  456 (524)
                      +.+.
T Consensus       320 ~~~~  323 (368)
T PRK14456        320 NIKF  323 (368)
T ss_pred             CCCC
Confidence            8764

>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=99.22  E-value=1.6e-09  Score=103.15  Aligned_cols=165  Identities=16%  Similarity=0.197  Sum_probs=117.7

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      +..+++.+++|||.+|.||..+...+  .....++++++++++... ..++.|.|.|.....+                 
T Consensus        15 g~~~~~~~t~~Cnl~C~~C~~~~~~~~~~~~~~~~~~i~~~i~~~~-~~~~~i~~sGGEPll~-----------------   76 (191)
T TIGR02495        15 GKLAFTIFFQGCNLKCPYCHNPELIDREGSGEIEVEFLLEFLRSRQ-GLIDGVVITGGEPTLQ-----------------   76 (191)
T ss_pred             CCeEEEEEcCCCCCCCCCCCCccccCCCCCCcCCHHHHHHHHHHhc-CCCCeEEEECCcccCc-----------------
Confidence            44577778999999999999874322  235689999999998752 2467888887554433                 


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCC-cceeecCcCCcCHHHHhhhCC
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNV-CKYIHLPAQTGNSAVLERMRR  389 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G-~~~i~igiESgs~~vL~~m~R  389 (524)
                                     .++.++++.+.+.  ..++.+.+ +.  ..++.++.|.++  | ..++.+++++.++...+.+++
T Consensus        77 ---------------~~l~~li~~~~~~--g~~v~i~T-Ng--~~~~~l~~l~~~--g~~~~v~isl~~~~~~~~~~~g~  134 (191)
T TIGR02495        77 ---------------AGLPDFLRKVREL--GFEVKLDT-NG--SNPRVLEELLEE--GLVDYVAMDVKAPPEKYPELYGL  134 (191)
T ss_pred             ---------------HhHHHHHHHHHHC--CCeEEEEe-CC--CCHHHHHHHHhc--CCCcEEEEeccCChHHHHHHHCC
Confidence                           2377888887764  24555543 22  357888888887  7 488999999866656666676


Q ss_pred             CCCHH-HHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC
Q 041524          390 GYTRE-AYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG  439 (524)
Q Consensus       390 ~~t~e-~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~  439 (524)
                      +.+.+ ++.+.++.+++....+.+.+-++-|..+  ++++.+.++++.+.+
T Consensus       135 ~~~~~~~~~~~i~~l~~~gi~~~i~~~v~~~~~~--~~ei~~~~~~l~~~~  183 (191)
T TIGR02495       135 EKNGSNNILKSLEILLRSGIPFELRTTVHRGFLD--EEDLAEIATRIKENG  183 (191)
T ss_pred             CCchHHHHHHHHHHHHHcCCCEEEEEEEeCCCCC--HHHHHHHHHHhccCC
Confidence            65554 9999999999983333455556656643  679999999998876

This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD.

>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]

Probab=99.15  E-value=1.2e-09  Score=113.72  Aligned_cols=185  Identities=18%  Similarity=0.284  Sum_probs=135.7

Q ss_pred             EEEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      ..+|..+.=|.++|+||.+....+.  -...++|+|.++++.+.+.|+++|.|++..-...            +      
T Consensus        60 n~~in~TN~C~~~C~fCaF~~~~~~~~~y~Ls~eeI~~~~~~~~~~G~~Evli~gG~~p~~------------~------  121 (370)
T COG1060          60 NRNINYTNICVNDCTFCAFYRKPGDPKAYTLSPEEILEEVREAVKRGITEVLIVGGEHPEL------------S------  121 (370)
T ss_pred             eecCCcchhhcCCCCccccccCCCCccccccCHHHHHHHHHHHHHcCCeEEEEecCcCCCc------------c------
Confidence            3456679999999999998765432  2457999999999999999999999987443222            1      


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecC-------CCCC-CCHHHHHHHHcCCCCcceeec-CcCCcCHHH
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP-------HPKD-FPDELLYIMRDRPNVCKYIHL-PAQTGNSAV  383 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~-------~p~~-~~~elL~~l~~~~~G~~~i~i-giESgs~~v  383 (524)
                                  ...+.++++.+.+..|.+.+..-++       .... ..+|.++.|+++  |+..+-. |.|=.++++
T Consensus       122 ------------~~y~~~~~~~ik~~~p~~~i~a~s~~ei~~~~~~~~~s~~E~l~~Lk~a--Gldsmpg~~aeil~e~v  187 (370)
T COG1060         122 ------------LEYYEELFRTIKEEFPDLHIHALSAGEILFLAREGGLSYEEVLKRLKEA--GLDSMPGGGAEILSEEV  187 (370)
T ss_pred             ------------hHHHHHHHHHHHHhCcchhhcccCHHHhHHHHhccCCCHHHHHHHHHHc--CCCcCcCcceeechHHH
Confidence                        1247788888887666554332221       1222 347789999998  9988654 445566777


Q ss_pred             HhhhC-CCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC-----CCeEEEEeeecCCCC
Q 041524          384 LERMR-RGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG-----YDMAYMFAYSMRERT  454 (524)
Q Consensus       384 L~~m~-R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~-----~d~~~i~~~sp~pGT  454 (524)
                      .+.+. .+.+.+.+++.++.+++.  ||..++.+++|. +||.+|..+++.-+++++     +..+.+-.|.|.+++
T Consensus       188 r~~~~p~K~~~~~wle~~~~Ah~l--GI~~tatml~Gh-~E~~ed~~~hl~~ir~lQ~~~gg~~~fI~~~f~p~~~~  261 (370)
T COG1060         188 RKIHCPPKKSPEEWLEIHERAHRL--GIPTTATMLLGH-VETREDRIDHLEHIRDLQDETGGFQEFIPLRFRPENGP  261 (370)
T ss_pred             HHhhCCCCCCHHHHHHHHHHHHHc--CCCccceeEEEe-cCCHHHHHHHHHHHHHHHHHhCCcEEEEcccccCCCCC
Confidence            66654 457999999999999999  999999999998 899999999999998874     222333344555665

>PRK14460 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.15  E-value=6.4e-09  Score=108.23  Aligned_cols=185  Identities=15%  Similarity=0.201  Sum_probs=130.0

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHH---HH-C--C---CcEEEEEeccCCCCCCccCCcccc
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDEL---WK-E--G---VKEVTLLGQNVNSYNDTSGMEKEV  303 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l---~~-~--G---~kei~l~d~n~~~y~~~~~~~~~~  303 (524)
                      ..+..|+++-|||.+|.||..+. .|..|..++++|++++...   .+ .  |   ++.|+|.|.               
T Consensus       101 r~t~CvSsq~GC~~~C~FC~tg~-~g~~rnlt~~EI~~qv~~~~~~~~~~g~g~~~i~nIvfmGm---------------  164 (354)
T PRK14460        101 RYTQCLSCQVGCAMGCTFCSTGT-MGFERNMTMGEILGQVLVAREHLGDNGPDHPILRNLVFMGM---------------  164 (354)
T ss_pred             ceeEEeeCCCCcCCCCccCCCCC-CCCCcCCCHHHHHHHHHHHHHHHhhccCCCcceeEEEEecC---------------
Confidence            56678999999999999998653 3456788999999999533   32 2  2   567777761               


Q ss_pred             CCCCccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCc
Q 041524          304 EPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTG  379 (524)
Q Consensus       304 ~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESg  379 (524)
                        |.++.             +...+.+.++.+.+..+    ..++.+++.-   + .+.++.|++.  |...+.+.+.|.
T Consensus       165 --GEPLl-------------n~~~v~~~l~~l~~~~Gl~~~~r~itvsT~G---~-~~~i~~L~~~--~l~~L~iSLha~  223 (354)
T PRK14460        165 --GEPLL-------------NLDEVMRSLRTLNNEKGLNFSPRRITVSTCG---I-EKGLRELGES--GLAFLAVSLHAP  223 (354)
T ss_pred             --CcccC-------------CHHHHHHHHHHHhhhhccCCCCCeEEEECCC---C-hHHHHHHHhC--CCcEEEEeCCCC
Confidence              33320             11235555555544222    1356665432   2 4578888887  888999999999


Q ss_pred             CHHHHhhhCC---CCCHHHHHHHHHHHH-HhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCCh
Q 041524          380 NSAVLERMRR---GYTREAYLDLVQKIR-QIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTH  455 (524)
Q Consensus       380 s~~vL~~m~R---~~t~e~~~~~v~~ir-~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~  455 (524)
                      +++..+.+.+   .++.++++++++... +....+.+..-+|-| ..++++++++..+++..++. .+.+-+|.|.+|.+
T Consensus       224 ~~e~r~~i~p~~~~~~l~~ll~al~~~~~~~~~~v~iey~LI~G-vNDs~ed~~~l~~~l~~~~~-~VnLIpyn~~~g~~  301 (354)
T PRK14460        224 NQELRERIMPKAARWPLDDLIAALKSYPLKTRERVTFEYLLLGG-VNDSLEHARELVRLLSRTKC-KLNLIVYNPAEGLP  301 (354)
T ss_pred             CHHHHHHhcCccccCCHHHHHHHHHHHHHhcCCeEEEEEEEECC-CCCCHHHHHHHHHHHhcCCC-cEEEEcCCCCCCCC
Confidence            9999988754   478899988777543 331234455555555 58999999999999999875 58999999998876


Q ss_pred             h
Q 041524          456 A  456 (524)
Q Consensus       456 ~  456 (524)
                      .
T Consensus       302 y  302 (354)
T PRK14460        302 Y  302 (354)
T ss_pred             C
Confidence            4

>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional

Probab=99.15  E-value=3.3e-09  Score=105.17  Aligned_cols=181  Identities=14%  Similarity=0.169  Sum_probs=121.7

Q ss_pred             EEEEEEcccCCccCcccccCCCC--CccccCChHHHHHHHHHHHH---CCCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTR--GRERSRPVESIVKEVDELWK---EGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~--G~~Rsr~~e~Iv~Ei~~l~~---~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      ..++....||+.+|.||..+..+  ...+..++++|+++++....   .....|+|.|.....+                
T Consensus        21 ~~~~~f~~gCnl~C~~C~~~~~~~~~~~~~lt~eei~~~i~~~~~~~~~~~~~V~~sGGEPll~----------------   84 (246)
T PRK11145         21 IRFITFFQGCLMRCLYCHNRDTWDTHGGKEVTVEELMKEVVTYRHFMNASGGGVTASGGEAILQ----------------   84 (246)
T ss_pred             eEEEEEECCCCCcCCCCCCHHHCCCCCCeEcCHHHHHHHHHHhHHHHhcCCCeEEEeCccHhcC----------------
Confidence            45566789999999999976532  22356799999999987643   2234677776443322                


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR  389 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R  389 (524)
                                     ...+.++++.+.+..  ..+.+.+.--....++.++.+..   .+..+.+++.+.+++..+.+++
T Consensus        85 ---------------~~~~~~l~~~~k~~g--~~i~l~TNG~~~~~~~~~~~ll~---~~d~v~islk~~~~e~~~~~~g  144 (246)
T PRK11145         85 ---------------AEFVRDWFRACKKEG--IHTCLDTNGFVRRYDPVIDELLD---VTDLVMLDLKQMNDEIHQNLVG  144 (246)
T ss_pred             ---------------HHHHHHHHHHHHHcC--CCEEEECCCCCCcchHHHHHHHH---hCCEEEECCCcCChhhcccccC
Confidence                           112457777776642  34444432111113466676655   4678999999999998888754


Q ss_pred             CCCHHHHHHHHHHHHHhCCCcEE--EEeEEEcCCCCCHHHHHHHHHHHHHcC-CCeEEEEeeecCCCCh
Q 041524          390 GYTREAYLDLVQKIRQIIPDVGL--SSDFICGFCGETEEEHADTLTLMKAVG-YDMAYMFAYSMRERTH  455 (524)
Q Consensus       390 ~~t~e~~~~~v~~ir~~~pgi~i--~~~fI~G~PgET~ed~~~tl~~l~~l~-~d~~~i~~~sp~pGT~  455 (524)
                       .+.+..++.++.+++.  |+.+  ..-+|-|+ .++++++++.++|+..++ +..+.+.+|.+.++.+
T Consensus       145 -~~~~~~l~~i~~l~~~--g~~v~i~~~li~g~-nd~~~ei~~l~~~l~~l~~~~~~~l~~~~~~~~~~  209 (246)
T PRK11145        145 -VSNHRTLEFARYLAKR--NQKTWIRYVVVPGW-TDDDDSAHRLGEFIKDMGNIEKIELLPYHELGKHK  209 (246)
T ss_pred             -CChHHHHHHHHHHHhC--CCcEEEEEEEECCC-CCCHHHHHHHHHHHHhcCCcceEEEecCCccchhH
Confidence             3557888888889888  5554  44445444 456779999999999885 5677788888877654

>TIGR01290 nifB nitrogenase cofactor biosynthesis protein NifB

Probab=99.14  E-value=1.3e-08  Score=108.92  Aligned_cols=187  Identities=15%  Similarity=0.197  Sum_probs=133.9

Q ss_pred             eEEEEEEcccCCccCcccccCCC------CC-ccccCChHHHHHHHHHHHHC--CCcEEEEEeccCCCCCCccCCccccC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFT------RG-RERSRPVESIVKEVDELWKE--GVKEVTLLGQNVNSYNDTSGMEKEVE  304 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~------~G-~~Rsr~~e~Iv~Ei~~l~~~--G~kei~l~d~n~~~y~~~~~~~~~~~  304 (524)
                      -+..+.++.||+.+|.||...+.      .| ..+..+++++++.++.+.+.  +++.|.|.|     +           
T Consensus        24 ~r~~~~vt~~CNl~C~yC~~~~~~~~esrpg~~~~~Ltpee~~~~i~~v~~~~~~~~~V~iaG-----~-----------   87 (442)
T TIGR01290        24 ARMHLAVAPACNIQCNYCNRKYDCANESRPGVVSELLTPEQALRKARQVAAEIPQLSVVGIAG-----P-----------   87 (442)
T ss_pred             CEEEEecCCCCCCcCcCCCCCCCCCcCCCCccccccCCHHHHHHHHHHHHHhcCCCCEEEEec-----C-----------
Confidence            45678999999999999986432      12 13557899999999988764  567777776     1           


Q ss_pred             CCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHH
Q 041524          305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVL  384 (524)
Q Consensus       305 ~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL  384 (524)
                       |.++.             +.....+++..+.+..+.+.+.+++ +. .+.++.++.|.+.  |+..+.+.+.+.++++-
T Consensus        88 -GEPLl-------------~~e~~~~~l~~~~~~~~~i~i~lsT-NG-~~l~e~i~~L~~~--gvd~V~islka~d~e~~  149 (442)
T TIGR01290        88 -GDPLA-------------NIGKTFQTLELVARQLPDVKLCLST-NG-LMLPEHVDRLVDL--GVGHVTITINAIDPAVG  149 (442)
T ss_pred             -CCccc-------------CccccHHHHHHHHHhcCCCeEEEEC-CC-CCCHHHHHHHHHC--CCCeEEEeccCCCHHHH
Confidence             22210             0122456666666655556666654 32 3347888999888  99999999999999999


Q ss_pred             hhh-------CCCCC--------HHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeee
Q 041524          385 ERM-------RRGYT--------REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYS  449 (524)
Q Consensus       385 ~~m-------~R~~t--------~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~s  449 (524)
                      +.+       +|.++        .+..++.++.+.+.  |+.+...+++ +||.+.+++.+..+++.+++...+.+.+|.
T Consensus       150 ~~Iy~~v~~~g~~~tG~~~~~il~e~~l~~l~~l~~~--G~~v~v~~vl-IpGiND~~i~~l~~~~~~lg~~~~nl~p~~  226 (442)
T TIGR01290       150 EKIYPWVWYEGERYTGREAADLLIERQLEGLEKLTER--GILVKVNSVL-IPGINDEHLVEVSKQVKELGAFLHNVMPLI  226 (442)
T ss_pred             hhcchhhccccccccCcchHHHHHHHHHHHHHHHHhC--CCeEEEEEEe-eCCcCHHHHHHHHHHHHhCCCcEEEeecCC
Confidence            875       23332        34556888888888  7664443222 267788999999999999998888999999


Q ss_pred             cCC--CChhc
Q 041524          450 MRE--RTHAH  457 (524)
Q Consensus       450 p~p--GT~~~  457 (524)
                      |.|  |++..
T Consensus       227 ~~p~~G~~~~  236 (442)
T TIGR01290       227 SAPEHGTVYG  236 (442)
T ss_pred             CccccCCccC
Confidence            888  88753

This model describes NifB, a protein required for the biosynthesis of the iron-molybdenum (or iron-vanadium) cofactor used by the nitrogen-fixing enzyme nitrogenase. Archaeal homologs lack the most C-terminal region and score between the trusted and noise cutoffs of this model.

>COG2896 MoaA Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]

Probab=99.11  E-value=1.1e-08  Score=103.83  Aligned_cols=197  Identities=15%  Similarity=0.171  Sum_probs=149.1

Q ss_pred             EEEEEEcccCCccCcccccCC--CCCc-cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPF--TRGR-ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~--~~G~-~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ..-++++.-|+++|.||....  .... .-..++|+|..=++...+.|++.|.|+|.....                   
T Consensus        12 ~LRiSvTdrCNfrC~YCm~eg~~~~~~~~~~Ls~eei~~~~~~~~~~Gv~kvRlTGGEPll-------------------   72 (322)
T COG2896          12 YLRISVTDRCNFRCTYCMPEGPLAFLPKEELLSLEEIRRLVRAFAELGVEKVRLTGGEPLL-------------------   72 (322)
T ss_pred             eEEEEEecCcCCcccccCCCCCcccCcccccCCHHHHHHHHHHHHHcCcceEEEeCCCchh-------------------
Confidence            345788999999999997643  1111 124578999888888888899999999844321                   


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                                   ...+.+++..++.. ....+..++ + ..+-+...+.|+++  |.++|.+.+.|.+++..+.+.+..
T Consensus        73 -------------R~dl~eIi~~l~~~-~~~~islTT-N-G~~L~~~a~~Lk~A--Gl~rVNVSLDsld~e~f~~IT~~~  134 (322)
T COG2896          73 -------------RKDLDEIIARLARL-GIRDLSLTT-N-GVLLARRAADLKEA--GLDRVNVSLDSLDPEKFRKITGRD  134 (322)
T ss_pred             -------------hcCHHHHHHHHhhc-ccceEEEec-c-hhhHHHHHHHHHHc--CCcEEEeecccCCHHHHHHHhCCC
Confidence                         24588898888876 555676663 2 23456788999999  999999999999999999998777


Q ss_pred             CHHHHHHHHHHHHHhCCCc---EEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHH
Q 041524          392 TREAYLDLVQKIRQIIPDV---GLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEV  468 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi---~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~  468 (524)
                      ..+++++-++.+.++  |+   .+++.+|   +|-+.+++.+.++|+...++. +.+--|.|.-....+. +...++...
T Consensus       135 ~~~~Vl~GI~~A~~~--Gl~pVKlN~Vv~---kgvNd~ei~~l~e~~~~~~~~-lrfIE~m~~g~~~~~~-~~~~~~~~~  207 (322)
T COG2896         135 RLDRVLEGIDAAVEA--GLTPVKLNTVLM---KGVNDDEIEDLLEFAKERGAQ-LRFIELMPLGEGNSWR-LDKYLSLDE  207 (322)
T ss_pred             cHHHHHHHHHHHHHc--CCCceEEEEEEe---cCCCHHHHHHHHHHHhhcCCc-eEEEEEeecCcccchh-hhccccHHH
Confidence            799999999999999  65   4566666   556999999999999999885 6676777765433332 334677777


Q ss_pred             HHHHHHH
Q 041524          469 KQRRLTE  475 (524)
Q Consensus       469 k~~Rl~~  475 (524)
                      ..+++.+
T Consensus       208 i~~~l~~  214 (322)
T COG2896         208 ILRKLEE  214 (322)
T ss_pred             HHHHHHh
Confidence            7666665

>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain

Probab=99.11  E-value=4.2e-10  Score=100.13  Aligned_cols=97  Identities=20%  Similarity=0.228  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHCCCeeccCC------------C-CCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccC
Q 041524           93 MEIVLSIMKNAGYSEVINV------------P-ENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSK  159 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~~------------~-~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  159 (524)
                      ..++++.|+++|+++...+            . .++|+|++++++.......++.+.+|+                  ..
T Consensus         5 l~~~aa~l~~~g~~v~~~~~~~~~~~~~~~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~------------------~~   66 (127)
T cd02068           5 LAYLAAVLEDAGFIVAEHDVLSADDIVEDIKELLKPDVVGISLMTSAIYEALELAKIAKE------------------VL   66 (127)
T ss_pred             HHHHHHHHHHCCCeeeecCCCCHHHHHHHHHHhcCCCEEEEeeccccHHHHHHHHHHHHH------------------HC
Confidence            7889999999997632111            1 489999997665544433334443332                  35


Q ss_pred             CCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCC
Q 041524          160 HPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQ  208 (524)
Q Consensus       160 p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~  208 (524)
                      |+.+|++||+|++..|+.++. .+.+|+|+.||||.++++|++.+..|+
T Consensus        67 p~~~iv~GG~~~t~~p~~~~~-~~~~D~vv~GEgE~~~~~l~~~l~~g~  114 (127)
T cd02068          67 PNVIVVVGGPHATFFPEEILE-EPGVDFVVIGEGEETFLKLLEELEEGE  114 (127)
T ss_pred             CCCEEEECCcchhhCHHHHhc-CCCCCEEEECCcHHHHHHHHHHHHcCC
Confidence            889999999999999999644 578999999999999999999987764

This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.

>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.11  E-value=1.2e-08  Score=105.17  Aligned_cols=185  Identities=12%  Similarity=0.214  Sum_probs=131.3

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      .+.+.+|+++-||+.+|.||..... |-.|..++++|++++..+.+. ++..|+|.|-                 |.|+.
T Consensus       101 ~r~t~cvSsQvGC~~~C~FC~Tg~~-g~~rnLt~~EIl~Qv~~~~~~~~i~nIvfmGm-----------------GEPL~  162 (345)
T PRK14466        101 DRATLCVSSQVGCKMNCLFCMTGKQ-GFTGNLTAAQILNQIYSLPERDKLTNLVFMGM-----------------GEPLD  162 (345)
T ss_pred             CceEEEEEcCCCCCCCCCCCCCCCC-CCCCCCCHHHHHHHHHhhhhcCCCCeEEEeee-----------------CcCcc
Confidence            4678899999999999999997653 556788999999999988543 6889999872                 33220


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                   +-..+.+.++.+....+    ..++.+++.   .+.+.+-+++.+.  . ..+.+.+-|.+++..+.
T Consensus       163 -------------N~d~vi~al~~l~~~~g~~~s~r~ItVsT~---G~~~~i~~l~~~~--~-~~LavSLha~~~e~R~~  223 (345)
T PRK14466        163 -------------NLDEVLKALEILTAPYGYGWSPKRITVSTV---GLKKGLKRFLEES--E-CHLAISLHSPFPEQRRE  223 (345)
T ss_pred             -------------cHHHHHHHHHHHhhccccCcCCceEEEEcC---CCchHHHHHhhcc--C-cEEEEEcCCCCHHHHHH
Confidence                         01234444444433222    235666543   2344444444443  2 46789999999999998


Q ss_pred             hC---CCCCHHHHHHHHHHHHHhCC-CcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCCh
Q 041524          387 MR---RGYTREAYLDLVQKIRQIIP-DVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTH  455 (524)
Q Consensus       387 m~---R~~t~e~~~~~v~~ir~~~p-gi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~  455 (524)
                      +.   |.++.++++++++...+... .+.+..-+|=|+ .+++|+..+..++++.++ .++++-+|.|.||.+
T Consensus       224 i~P~~~~~~l~~l~~al~~y~~~~~rri~~Ey~Li~gv-ND~~e~a~~L~~ll~~~~-~~VNLIp~Np~~~~~  294 (345)
T PRK14466        224 LMPAEKAFSIKEIIDLLKNYDFSKQRRVSFEYIVFKGL-NDSLKHAKELVKLLRGID-CRVNLIRFHAIPGVD  294 (345)
T ss_pred             hcCCccCCCHHHHHHHHHHHHHhhCCEEEEEEEEeCCC-CCCHHHHHHHHHHHcCCC-ceEEEEecCCCCCCC
Confidence            75   45889999999988665432 345556666676 899999999999999887 679999999999963

>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.09  E-value=1.4e-08  Score=105.16  Aligned_cols=186  Identities=17%  Similarity=0.247  Sum_probs=129.7

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC---CCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE---GVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~---G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      .+.+.+|+++-||+.+|.||..+. .|..|..++++|++++....+.   ++..|+|.|.                 |.+
T Consensus        99 ~r~t~cvSsqvGC~~~C~FC~tg~-~g~~rnlt~~EIv~qv~~~~~~~~~~~~~IvfmGm-----------------GEP  160 (345)
T PRK14457         99 KRLTVCVSSQVGCPMACDFCATGK-GGLKRSLKAHEIVDQVLTVQEDMQRRVSHVVFMGM-----------------GEP  160 (345)
T ss_pred             CCCEEEEeCCCCCCCcCCcCCCCC-CCCccccCHHHHHHHHHHHHHHhcCCCCEEEEEec-----------------Ccc
Confidence            467899999999999999998754 3556778999999999887542   5778888872                 333


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhC--CceEEEEecCCCCCCCHHHHHHHHcCCCC------c-ceeecCcCCc
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEF--PEMRFRYTSPHPKDFPDELLYIMRDRPNV------C-KYIHLPAQTG  379 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~--~~~~ir~~s~~p~~~~~elL~~l~~~~~G------~-~~i~igiESg  379 (524)
                      +.             +...+.+.++.+....  +..++.+++.-   +. +.++.+.+.  +      . ..+.+.+-+.
T Consensus       161 ll-------------n~~~v~~~i~~l~~~~~i~~r~itvST~G---~~-~~i~~L~~~--~~~~~~~~~~~laiSLha~  221 (345)
T PRK14457        161 LL-------------NIDEVLAAIRCLNQDLGIGQRRITVSTVG---VP-KTIPQLAEL--AFQRLGRLQFTLAVSLHAP  221 (345)
T ss_pred             cc-------------CHHHHHHHHHHHhcccCCccCceEEECCC---ch-hhHHHHHhh--hhhhcccCceEEEEEeCCC
Confidence            20             0123445555554321  12256665432   22 235555554  3      2 2488999999


Q ss_pred             CHHHHhhh---CCCCCHHHHHHHHHH-HHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCCh
Q 041524          380 NSAVLERM---RRGYTREAYLDLVQK-IRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTH  455 (524)
Q Consensus       380 s~~vL~~m---~R~~t~e~~~~~v~~-ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~  455 (524)
                      +++..+.+   +++++.+++++++.. +.+....+.+..=+|-|+ .+++|++++..+|+..++. ++.+-+|.|.++..
T Consensus       222 ~~e~r~~i~p~~~~~~l~~l~~~~~~y~~~~gr~I~iey~LIpGv-NDs~e~a~~La~~l~~l~~-~VnLIPynp~~~~~  299 (345)
T PRK14457        222 NQKLRETLIPSAKNYPIENLLEDCRHYVAITGRRVSFEYILLGGV-NDLPEHAEELANLLRGFQS-HVNLIPYNPIDEVE  299 (345)
T ss_pred             CHHHHHHhcCCccCCCHHHHHHHHHHHHHHhCCEEEEEEEEECCc-CCCHHHHHHHHHHHhcCCC-eEEEecCCCCCCCC
Confidence            99999987   456888888877755 455523466777788787 7999999999999999865 68999999987754


Q ss_pred             h
Q 041524          456 A  456 (524)
Q Consensus       456 ~  456 (524)
                      .
T Consensus       300 ~  300 (345)
T PRK14457        300 F  300 (345)
T ss_pred             C
Confidence            3

>TIGR00048 radical SAM enzyme, Cfr family

Probab=99.07  E-value=1.9e-08  Score=104.87  Aligned_cols=186  Identities=17%  Similarity=0.269  Sum_probs=128.4

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHH------CCCcEEEEEeccCCCCCCccCCccccCC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWK------EGVKEVTLLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~------~G~kei~l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      .+.+..|+++-||+.+|+||..+. .|..|..++++|++++..+..      .+++.|+|.|.                 
T Consensus       103 ~~~t~cVSsQ~GC~l~C~fC~t~~-~g~~r~lt~~Eiv~qv~~~~~~~~~~~~~v~nVvfmGm-----------------  164 (355)
T TIGR00048       103 DRATVCVSSQVGCALGCTFCATAK-GGFNRNLEASEIIGQVLRVQKINNETGERVSNVVFMGM-----------------  164 (355)
T ss_pred             CCcEEEEecCCCCCCcCCCCCCCC-CCCCCCCCHHHHHHHHHHHHHHhhhcCCCeeEEEEecC-----------------
Confidence            467789999999999999998754 255688999999999876532      24677888762                 


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcc-eeecCcCCcC
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCK-YIHLPAQTGN  380 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~-~i~igiESgs  380 (524)
                      |.++.             +...+.++++.+.+..+    ..++.+++.-   +.+ .++.+.+.  +.. .+.+.+-+.+
T Consensus       165 GEPLl-------------n~d~v~~~l~~l~~~~g~~i~~~~itisT~G---~~~-~i~~l~~~--~l~~~LaiSL~a~~  225 (355)
T TIGR00048       165 GEPLL-------------NLNEVVKAMEIMNDDFGLGISKRRITISTSG---VVP-KIDILADK--MLQVALAISLHAPN  225 (355)
T ss_pred             Cchhh-------------CHHHHHHHHHHhhcccccCcCCCeEEEECCC---chH-HHHHHHHh--CCCcEEEEEeCCCC
Confidence            33320             01235555655543222    1256665432   223 45555554  444 5789999999


Q ss_pred             HHHHhhh---CCCCCHHHHHHHHHHH-HHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChh
Q 041524          381 SAVLERM---RRGYTREAYLDLVQKI-RQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHA  456 (524)
Q Consensus       381 ~~vL~~m---~R~~t~e~~~~~v~~i-r~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~  456 (524)
                      ++..+.+   +|.++.+++++.++.. ++....+.+..-+|-|+ .++++++++..++++.++. ++.+-+|.|.++...
T Consensus       226 ~e~r~~l~p~~~~~~l~~ll~~l~~~~~~~g~~VtieyvLI~Gv-NDs~e~a~~La~llk~l~~-~VnLIPynp~~~~~~  303 (355)
T TIGR00048       226 DELRSSLMPINKKYNIETLLAAVRRYLNKTGRRVTFEYVLLDGV-NDQVEHAEELAELLKGTKC-KVNLIPWNPFPEADY  303 (355)
T ss_pred             HHHHHHhcCcccCCCHHHHHHHHHHHHHHhCCEEEEEEEEECCC-CCCHHHHHHHHHHHhcCCC-ceEEEecccCCCCCC
Confidence            9999876   5778899999888754 44522345556666676 7889999999999999874 588889998887644

A Staphylococcus sciuri plasmid-borne member of this family, Cfr, has been identified as essential to transferrable resistance to chloramphenicol and florfenicol by an unknown mechanism. A 14-15 residue cluster with four perfectly conserved Cys residues suggests this protein may be an enzyme with an iron-sulfur cluster. The Cys cluster is part of the radical SAM domain, suggested to provide a general mechanism by which the Fe-S center cleaves S-adenosylmethionine to initiate radical-based catalysis. Members of this family lack apparent transmembrane domains.

>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin)

Probab=99.07  E-value=1.8e-10  Score=101.28  Aligned_cols=91  Identities=20%  Similarity=0.142  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHCCCeeccCC-------------CCCCcEEEEee-ccCcchHHHHHHHHHHHHHHhhhhhhhccccccccc
Q 041524           93 MEIVLSIMKNAGYSEVINV-------------PENAEVIFINT-CAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQS  158 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~~-------------~~~aDvv~int-c~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  158 (524)
                      ..++++.|++.||++..-+             ..++|+|++++ ++.....   +.+.++.+               ++.
T Consensus        17 l~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~---~~~l~~~~---------------k~~   78 (121)
T PF02310_consen   17 LLYLAAYLRKAGHEVDILDANVPPEELVEALRAERPDVVGISVSMTPNLPE---AKRLARAI---------------KER   78 (121)
T ss_dssp             HHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHTTCSEEEEEESSSTHHHH---HHHHHHHH---------------HTT
T ss_pred             HHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcCCCcEEEEEccCcCcHHH---HHHHHHHH---------------Hhc
Confidence            8999999999999863221             14899999976 3333322   33333322               134


Q ss_pred             CCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHH
Q 041524          159 KHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLL  201 (524)
Q Consensus       159 ~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll  201 (524)
                      .|+.+|++||.+++..|+++++..+++|+|+.||||.++++|+
T Consensus        79 ~p~~~iv~GG~~~t~~~~~~l~~~~~~D~vv~GegE~~~~~l~  121 (121)
T PF02310_consen   79 NPNIPIVVGGPHATADPEEILREYPGIDYVVRGEGEEAFPELL  121 (121)
T ss_dssp             CTTSEEEEEESSSGHHHHHHHHHHHTSEEEEEETTSSHHHH--
T ss_pred             CCCCEEEEECCchhcChHHHhccCcCcceecCCChHHhhcccC
Confidence            6899999999999999999987557899999999999999985

Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....

>PRK14470 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.07  E-value=2.7e-08  Score=102.69  Aligned_cols=184  Identities=15%  Similarity=0.141  Sum_probs=131.5

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC---CCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE---GVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~---G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      .+.+..|+++.||+.+|.||..... |-.|..++++|++++....+.   .++.|+|.|.                 |.|
T Consensus        95 ~~~t~cvSsq~GC~l~C~fC~tg~~-g~~r~l~~~EI~~qi~~~~~~~~~~i~nIvfmGm-----------------GEP  156 (336)
T PRK14470         95 THHVVCLSSQAGCALGCAFCATGKL-GLDRSLRSWEIVAQLLAVRADSERPITGVVFMGQ-----------------GEP  156 (336)
T ss_pred             CCCEEEEeCCCCcCCCCccccCCCC-CCCCCCCHHHHHHHHHHHHHhcCCCCCEEEEEec-----------------Ccc
Confidence            3568999999999999999998643 445777999999999876543   5788988872                 333


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhh----CCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHH
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLE----FPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVL  384 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~----~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL  384 (524)
                      +.             +...+.++++.+...    .+..++.+++.-.   .+.+.+++.+.  .-..|.+.+.+.+++..
T Consensus       157 ll-------------N~d~v~~~i~~l~~~~~~~~~~~~ItVsTnG~---~p~i~~l~~~~--~~~~LaiSLhA~~~e~r  218 (336)
T PRK14470        157 FL-------------NYDEVLRAAYALCDPAGARIDGRRISISTAGV---VPMIRRYTAEG--HKFRLCISLNAAIPWKR  218 (336)
T ss_pred             cc-------------CHHHHHHHHHHHhCccccccCCCceEEEecCC---hHHHHHHHhcC--CCceEEEecCCCCHHHH
Confidence            20             012355556655532    1234666665322   34555555442  22569999999999999


Q ss_pred             hhh---CCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCC
Q 041524          385 ERM---RRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRER  453 (524)
Q Consensus       385 ~~m---~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pG  453 (524)
                      +.+   +|+++.++++++++...+....+.+..-+|-|+ .+++|++++..+++..+.. ++++-+|.|.++
T Consensus       219 ~~I~p~~~~~~le~il~ai~~~~~~~rri~ieyvLI~Gv-NDseeda~~La~llk~l~~-~vnlI~~N~~~~  288 (336)
T PRK14470        219 RALMPIEQGFPLDELVEAIREHAALRGRVTLEYVMISGV-NVGEEDAAALGRLLAGIPV-RLNPIAVNDATG  288 (336)
T ss_pred             HHhcCccccCCHHHHHHHHHHHHHhCCCeEEEEEEEecc-cCCHHHHHHHHHHHhcCCC-eEEEeccCCCCC
Confidence            987   456899999999999988743455666777787 5889999999999998754 577778888655

>PRK14459 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.06  E-value=2.6e-08  Score=103.68  Aligned_cols=188  Identities=12%  Similarity=0.169  Sum_probs=130.9

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHH---C------C--CcEEEEEeccCCCCCCccCCc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWK---E------G--VKEVTLLGQNVNSYNDTSGME  300 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~---~------G--~kei~l~d~n~~~y~~~~~~~  300 (524)
                      .+.+..|+++-||+.+|.||..+. .|-.|..++++|+++|....+   .      |  +++|+|.|-            
T Consensus       119 ~~~tlCvSsQvGC~m~C~FCatg~-~g~~RnLt~~EIv~Qv~~~~~~~~~~~~~~~~~~i~nVvfmGm------------  185 (373)
T PRK14459        119 DRATLCISSQAGCGMACPFCATGQ-GGLTRNLSTAEIVEQVRAAARALRDGEVPGGPGRLSNVVFMGM------------  185 (373)
T ss_pred             CCceEEEEecCCCCCcCCCCCCCC-CCCCCccCHHHHHHHHHHHHHHhhhcccccCCCceeEEEEecC------------
Confidence            457799999999999999999754 455788999999999987653   1      1  667888761            


Q ss_pred             cccCCCCccccccCcccchhcccchhhHHHHHHHHHhh--C--C--ceEEEEecCCCCCCCHHHHHHHHcCCCCcc-eee
Q 041524          301 KEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLE--F--P--EMRFRYTSPHPKDFPDELLYIMRDRPNVCK-YIH  373 (524)
Q Consensus       301 ~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~--~--~--~~~ir~~s~~p~~~~~elL~~l~~~~~G~~-~i~  373 (524)
                           |.++.             +...+.++++.+.+.  .  +  ..++.+++.   .+.+ .++.+++.  +.. .+.
T Consensus       186 -----GEPLl-------------N~d~V~~~i~~l~~~~~~g~gis~r~ITvST~---Gl~~-~i~~la~~--~l~~~La  241 (373)
T PRK14459        186 -----GEPLA-------------NYKRVVAAVRRITAPAPEGLGISARNVTVSTV---GLVP-AIRKLADE--GLPVTLA  241 (373)
T ss_pred             -----Ccchh-------------hHHHHHHHHHHHhCcccccCCccCCEEEEECc---Cchh-HHHHHHHh--cCCeEEE
Confidence                 33220             112355666666541  1  1  125555443   1233 45555555  554 699


Q ss_pred             cCcCCcCHHHHhhhC---CCCCHHHHHHHHHHHH-HhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC--CCeEEEEe
Q 041524          374 LPAQTGNSAVLERMR---RGYTREAYLDLVQKIR-QIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG--YDMAYMFA  447 (524)
Q Consensus       374 igiESgs~~vL~~m~---R~~t~e~~~~~v~~ir-~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~--~d~~~i~~  447 (524)
                      +.+-|.+++..+.+-   |.++.++++++++... +..-.+.+..-+|-|+ .+++|+.++..++++.++  .-++++-+
T Consensus       242 vSLha~d~e~R~~l~p~n~~~~l~~ll~a~~~~~~~~grrv~ieyvLi~Gv-NDs~e~a~~L~~llk~~~~~~~~VNLIp  320 (373)
T PRK14459        242 VSLHAPDDELRDELVPVNTRWKVDEVLDAARYYADATGRRVSIEYALIRDI-NDQPWRADLLGKKLHGRGGGWVHVNLIP  320 (373)
T ss_pred             EEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHHhCCEEEEEEEEeCCC-CCCHHHHHHHHHHHhhccCCCeEEEEEc
Confidence            999999999988753   5699999999977665 4422234455566676 799999999999999884  45789999


Q ss_pred             eecCCCChhc
Q 041524          448 YSMRERTHAH  457 (524)
Q Consensus       448 ~sp~pGT~~~  457 (524)
                      |.|.+|.+..
T Consensus       321 yNp~~~~~y~  330 (373)
T PRK14459        321 LNPTPGSKWT  330 (373)
T ss_pred             cCCCCCCCCc
Confidence            9999887543

>PRK14468 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.05  E-value=3.7e-08  Score=102.16  Aligned_cols=184  Identities=16%  Similarity=0.225  Sum_probs=125.3

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC-C-----CcEEEEEeccCCCCCCccCCccccCC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-G-----VKEVTLLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G-----~kei~l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      ...+..|+++-||+.+|.||..+. .|..|..++++|++++...... |     +++|+|.|     .            
T Consensus        91 ~~~t~cvSsq~GC~l~C~fC~tg~-~g~~r~Lt~~EI~~qv~~~~~~~g~~~~~i~~Vvf~G-----m------------  152 (343)
T PRK14468         91 DRKTICVSTMVGCPAGCAFCATGA-MGFGRNLTAAEILDQVLAVAGHEGISPREIRNVVLMG-----M------------  152 (343)
T ss_pred             CCCEEEEEecCCCCCcCCCCCCCC-CCCCCCCCHHHHHHHHHHHHhhcCcCcCCccEEEEec-----c------------
Confidence            456789999999999999998754 3556889999999999876543 2     45777776     1            


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcc-eeecCcCCcC
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCK-YIHLPAQTGN  380 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~-~i~igiESgs  380 (524)
                      |.++.             +...+.+.++.+....+    ..++.+++.-   +. ..++.+.+.  +.. .+.+.+-+.+
T Consensus       153 GEPll-------------n~~~v~~~i~~l~~~~g~~l~~r~itvST~G---~~-~~i~~L~~~--~l~~~LaiSL~a~d  213 (343)
T PRK14468        153 GEPLL-------------NYENVLKAARIMLHPQALAMSPRRVTLSTVG---IP-KGIRRLAEE--DLGVRLALSLHAPD  213 (343)
T ss_pred             Ccccc-------------CHHHHHHHHHHhcccccccccCceEEEECCC---Ch-HHHHHHHHh--CcCcEEEEEcCCCC
Confidence            33320             01223344443322111    1245555432   22 455566665  554 5999999999


Q ss_pred             HHHHhhhC---CCCCHHHHHHHHHHHHHhC-CCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCC
Q 041524          381 SAVLERMR---RGYTREAYLDLVQKIRQII-PDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERT  454 (524)
Q Consensus       381 ~~vL~~m~---R~~t~e~~~~~v~~ir~~~-pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT  454 (524)
                      ++..+++.   ++++.+++++.++...+.. ..+.+..-+|-|+ .+++|++.+..+++..+. ..+.+-+|.|.++.
T Consensus       214 ~e~r~~i~p~~~~~~l~~ll~~l~~~~~~~~~~V~ieyvLI~Gv-NDs~e~~~~L~~ll~~~~-~~VnLIPynp~~~~  289 (343)
T PRK14468        214 EETRQRIIPTAHRYSIAEIMAAVRHYQAVTGRRVTLEYTMLKGV-NDHLWQAELLADLLRGLV-SHVNLIPFNPWEGS  289 (343)
T ss_pred             HHHHHHhccccccCCHHHHHHHHHHHHHhcCCeEEEEEEEeCCC-cCCHHHHHHHHHHHhcCC-cEEEEEcCCCCCCC
Confidence            99999874   6789999999997555542 2345556666666 799999999999999985 46888888887653

>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]

Probab=99.02  E-value=1.1e-08  Score=96.72  Aligned_cols=181  Identities=15%  Similarity=0.151  Sum_probs=141.4

Q ss_pred             EcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccch
Q 041524          240 VMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMC  319 (524)
Q Consensus       240 isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~  319 (524)
                      |++-|..+|..|.-...++- ..-+-++++.+...+.+.|+..+.+.|....                     +|+-+  
T Consensus        17 TG~yC~lnC~HCg~~~L~~M-i~vt~~~l~k~~~el~kkGy~g~llSGGm~s---------------------rg~VP--   72 (275)
T COG1856          17 TGAYCSLNCPHCGRHYLEHM-IKVTTKSLLKRCMELEKKGYEGCLLSGGMDS---------------------RGKVP--   72 (275)
T ss_pred             eccceEecChHHHHHHHHHh-cccchHHHHHHHHHHHhcCceeEEEeCCcCC---------------------CCCcc--
Confidence            47999999999987655543 2334488999999999999999888763321                     12111  


Q ss_pred             hcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh-CCCCCHHHHHH
Q 041524          320 KVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM-RRGYTREAYLD  398 (524)
Q Consensus       320 ~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m-~R~~t~e~~~~  398 (524)
                           -.+|.+.|+++++..+   +.+. .|....+++.++.++++  +..-+++-+=+ ++++++++ +-..++++|.+
T Consensus        73 -----l~kf~d~lK~lke~~~---l~in-aHvGfvdE~~~eklk~~--~vdvvsLDfvg-Dn~vIk~vy~l~ksv~dyl~  140 (275)
T COG1856          73 -----LWKFKDELKALKERTG---LLIN-AHVGFVDESDLEKLKEE--LVDVVSLDFVG-DNDVIKRVYKLPKSVEDYLR  140 (275)
T ss_pred             -----HHHHHHHHHHHHHhhC---eEEE-EEeeeccHHHHHHHHHh--cCcEEEEeecC-ChHHHHHHHcCCccHHHHHH
Confidence                 1357778888877533   2222 56677889999999998  88888887764 66666665 44679999999


Q ss_pred             HHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          399 LVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       399 ~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                      .++.+++.  |+.+.-++++|+-+-..+--.+.++.+.+..+|.+-+..+.|.|||.+..
T Consensus       141 ~l~~L~e~--~irvvpHitiGL~~gki~~e~kaIdiL~~~~~DalVl~vliPtpGtkm~~  198 (275)
T COG1856         141 SLLLLKEN--GIRVVPHITIGLDFGKIHGEFKAIDILVNYEPDALVLVVLIPTPGTKMGN  198 (275)
T ss_pred             HHHHHHHc--CceeceeEEEEeccCcccchHHHHHHHhcCCCCeEEEEEEecCCchhccC
Confidence            99999999  99999999999988777666788999999999999999999999999875

>PRK14469 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.02  E-value=7.1e-08  Score=100.35  Aligned_cols=183  Identities=17%  Similarity=0.219  Sum_probs=127.2

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHH---CCCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWK---EGVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~---~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ...+..|+++-||+.+|.||..+. .|-.|..++++|++++..+..   .++..|+|.|.                 |.|
T Consensus        99 ~~~t~cissq~GC~l~C~fC~tg~-~g~~r~lt~~EI~~qv~~~~~~~~~~v~~Vvf~Gm-----------------GEP  160 (343)
T PRK14469         99 DRITACISTQVGCPVKCIFCATGQ-SGFVRNLTTGEIVSQILAMEKEEKKKVGNVVYMGM-----------------GEP  160 (343)
T ss_pred             CCeEEEEEecCCCCCcCcCCCCCC-CCccccCCHHHHHHHHHHHHHhccCCcCeEEEEcc-----------------Chh
Confidence            456788999999999999998654 344577889999999976532   36788888872                 333


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhC----CceEEEEecCCCCCCCHHHHHHHHcCCCCcc-eeecCcCCcCHHH
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEF----PEMRFRYTSPHPKDFPDELLYIMRDRPNVCK-YIHLPAQTGNSAV  383 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~----~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~-~i~igiESgs~~v  383 (524)
                      +.             +...+.++++.+....    +...+.+++.-   + .+.++.|.+.  |.. .+.+.+.+.+++.
T Consensus       161 Ll-------------n~d~v~~~i~~l~~~~~~~~g~~~itisTnG---~-~~~i~~L~~~--~l~~~LaiSL~a~~~e~  221 (343)
T PRK14469        161 LL-------------NYENVIKSIKILNHKKMKNIGIRRITISTVG---I-PEKIIQLAEE--GLDVKLALSLHAPTNFK  221 (343)
T ss_pred             hh-------------hHHHHHHHHHHHhchhcccCCCCeEEEECCC---C-hHHHHHHHhh--CCCcEEEEEeCCCCHHH
Confidence            20             0123555566554321    22256565432   2 4566667676  777 6999999999999


Q ss_pred             Hhhh---CCCCCHHHHHHHHHHHHHh-CCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCC
Q 041524          384 LERM---RRGYTREAYLDLVQKIRQI-IPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRER  453 (524)
Q Consensus       384 L~~m---~R~~t~e~~~~~v~~ir~~-~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pG  453 (524)
                      .+.+   +|+++.+++++.++...+. ...+.+..-+|-|+ .++++++++..+++..++. .+.+-+|.|.++
T Consensus       222 r~~i~p~~~~~~l~~Il~~l~~~~~~~~~~v~i~yvlI~g~-NDs~ed~~~La~llk~~~~-~VnLIpynp~~~  293 (343)
T PRK14469        222 RDQIVPLNKKYSIEEIINAVKIYQKKTGNRVTIEYILIKGF-NDEIEDAKKLAELLKGLKV-FVNLIPVNPTVP  293 (343)
T ss_pred             HHhhcCcCCCCCHHHHHHHHHHHHHHhCCeEEEEEEEECCC-CCCHHHHHHHHHHHhccCc-EEEEEecCCCCc
Confidence            7764   6788999999998866554 22344544456564 6889999999999998864 578888888765

>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=98.98  E-value=8.9e-08  Score=95.21  Aligned_cols=179  Identities=17%  Similarity=0.208  Sum_probs=130.2

Q ss_pred             EEEEEcccCCccCcccccCC---CCCc--cccCChHHHHHHHHHHHHC-C-CcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          236 AFVSVMRGCNNMCSFCIVPF---TRGR--ERSRPVESIVKEVDELWKE-G-VKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~---~~G~--~Rsr~~e~Iv~Ei~~l~~~-G-~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      .-|.-+-||+.+|-||++..   .+-|  ....++|.+++.++..++. | --|..+-||                 |.+
T Consensus       109 iqVRp~tgCnlnCIfCSVdeGp~SrtR~~dy~Vd~eyLl~w~~kVa~~KgkglEaHlDGq-----------------GEP  171 (414)
T COG2100         109 IQVRPSTGCNLNCIFCSVDEGPYSRTRKLDYVVDPEYLLEWFEKVARFKGKGLEAHLDGQ-----------------GEP  171 (414)
T ss_pred             EEecCCccccceeEEEeccCCcccceeccceEecHHHHHHHHHHHHhhhCCCeEEEecCC-----------------CCC
Confidence            34555899999999999832   1111  2335789999999988764 2 224444333                 222


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh-
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM-  387 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m-  387 (524)
                      +-              -..+.+|+++++++.+...+... .+...+++++++.|.++  |..++.+++.|.+++.-+.| 
T Consensus       172 ~l--------------YP~l~~lVqalk~~~~v~vVSmQ-Tng~~L~~~lv~eLeeA--GLdRiNlSv~aLDpk~Ak~L~  234 (414)
T COG2100         172 LL--------------YPHLVDLVQALKEHKGVEVVSMQ-TNGVLLSKKLVDELEEA--GLDRINLSVDALDPKLAKMLA  234 (414)
T ss_pred             cc--------------chhHHHHHHHHhcCCCceEEEEe-eCceeccHHHHHHHHHh--CCceEEeecccCCHHHHHHhc
Confidence            10              13588999999988655555555 46667899999999999  99999999999999999876 


Q ss_pred             C-CCCCHHHHHHHHHHHHHhCCCcEEE-EeEEEcCCCCCHHHHHHHHHHHHHcCCC----eEEEEeeecCC
Q 041524          388 R-RGYTREAYLDLVQKIRQIIPDVGLS-SDFICGFCGETEEEHADTLTLMKAVGYD----MAYMFAYSMRE  452 (524)
Q Consensus       388 ~-R~~t~e~~~~~v~~ir~~~pgi~i~-~~fI~G~PgET~ed~~~tl~~l~~l~~d----~~~i~~~sp~p  452 (524)
                      + |-|+.+.+++.++.+.+.  +|.+- +=++  +||=+++++...++|+.+++.-    .+.+..|.|+.
T Consensus       235 G~~dYdv~kvle~aE~i~~a--~idvlIaPv~--lPG~ND~E~~~iIe~A~~iGaGkk~p~lgiQkyipyk  301 (414)
T COG2100         235 GRKDYDVKKVLEVAEYIANA--GIDVLIAPVW--LPGVNDDEMPKIIEWAREIGAGKKWPPLGIQKYIPYK  301 (414)
T ss_pred             CccccCHHHHHHHHHHHHhC--CCCEEEeeee--cCCcChHHHHHHHHHHHHhCCCCCCCCcceEEeeeec
Confidence            3 479999999999999998  76532 2222  4788999999999999998532    24555666653

>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein

Probab=98.97  E-value=4.7e-08  Score=100.66  Aligned_cols=176  Identities=15%  Similarity=0.197  Sum_probs=120.8

Q ss_pred             EEEEEEcccCCccCcccccCCCCCcccc-CChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGRERS-RPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~~Rs-r~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      ++.+.++.||+..|.||...... ..+. .+.+++.+-+..+.+. |+++|.|+|.+.....                  
T Consensus        97 r~l~~~t~~Cn~~Cr~C~~~~~~-~~~~~~~~~~~~~~i~~i~~~~~i~~VvltGGEPL~~~------------------  157 (321)
T TIGR03821        97 RVLLIVTGGCAINCRYCFRRHFP-YQENQPNKAQWKEALEYIAQHPEINEVILSGGDPLMAK------------------  157 (321)
T ss_pred             EEEEEeCCCcCCcCcCCCCCCcC-CCCCCCCHHHHHHHHHHHHhcCCCCEEEEeCcccccCC------------------
Confidence            35667999999999999864321 1121 2233333334445444 8999999985543320                  


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEec----CCCCCCCHHHHHHHHcCCCCccee-ecCcCCcCHHHHhhh
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTS----PHPKDFPDELLYIMRDRPNVCKYI-HLPAQTGNSAVLERM  387 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s----~~p~~~~~elL~~l~~~~~G~~~i-~igiESgs~~vL~~m  387 (524)
                                  ...+.++++.+..+.....+++.+    ..|..+++++++.++++  |...+ .+.+++.. ++-   
T Consensus       158 ------------d~~L~~ll~~l~~i~~~~~iri~tr~~~~~p~rit~el~~~L~~~--~~~~~~~~h~dh~~-Ei~---  219 (321)
T TIGR03821       158 ------------DHRLDWLLNLLEQIPHLKRLRIHTRLPVVIPDRITSGLCDLLANS--RLQTVLVVHINHAN-EID---  219 (321)
T ss_pred             ------------chHHHHHHHHHHhCCCCcEEEEecCcceeeHHHhhHHHHHHHHhc--CCcEEEEeeCCChH-hCc---
Confidence                        134788888877754434566654    34567899999999998  76665 34666542 331   


Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCcEEEEe--EEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChh
Q 041524          388 RRGYTREAYLDLVQKIRQIIPDVGLSSD--FICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHA  456 (524)
Q Consensus       388 ~R~~t~e~~~~~v~~ir~~~pgi~i~~~--fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~  456 (524)
                            ++..++++.++++  |+.+...  ++-|. .++.+++.+..+++.++++...++|.+.|..|+..
T Consensus       220 ------d~~~~ai~~L~~~--Gi~v~~qtvllkgi-NDn~~~l~~L~~~l~~~gv~pyyl~~~~p~gg~~~  281 (321)
T TIGR03821       220 ------AEVADALAKLRNA--GITLLNQSVLLRGV-NDNADTLAALSERLFDAGVLPYYLHLLDKVQGAAH  281 (321)
T ss_pred             ------HHHHHHHHHHHHc--CCEEEecceeeCCC-CCCHHHHHHHHHHHHHcCCeeCcccccCCCCCccc
Confidence                  5588899999999  8876543  33344 58899999999999999998888888888888653

Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in E. coli, Buchnera, Yersinia, etc.

>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.96  E-value=8.5e-08  Score=99.53  Aligned_cols=186  Identities=14%  Similarity=0.182  Sum_probs=130.4

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC-C-----CcEEEEEeccCCCCCCccCCccccCC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-G-----VKEVTLLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G-----~kei~l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      .+.+..|+++.|||.+|.||..+. .|..|...+++|+++|..+... .     ...|+|.|     .            
T Consensus       108 ~r~t~CvSsQvGC~~~C~FCatg~-~g~~RnLt~~EIv~QV~~~~~~~~~~~~~~~~vVfmG-----m------------  169 (356)
T PRK14462        108 AKYTVCVSSQVGCKVGCAFCLTAK-GGFVRNLSAGEIVGQILWIKKDNNIPYEKRVNIVYMG-----M------------  169 (356)
T ss_pred             CCceEeeeccccCCCCCccCCCCC-CCCcccCCHHHHHHHHHHHHHhhhccccccCCeEEeC-----C------------
Confidence            356789999999999999998763 4567899999999999866542 1     33555553     1            


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCCc----eEEEEecCCCCCCCHHHHHHHHcCCCCc-ceeecCcCCcC
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE----MRFRYTSPHPKDFPDELLYIMRDRPNVC-KYIHLPAQTGN  380 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~----~~ir~~s~~p~~~~~elL~~l~~~~~G~-~~i~igiESgs  380 (524)
                      |.++             -+...+.++++.+.+..+.    .++.+++.-   +.+ .++.+.+.  .. ..+.+.+-+.+
T Consensus       170 GEPL-------------~N~d~v~~~l~~l~~~~Gl~~~~r~itVsTsG---~~~-~i~~L~~~--dl~v~LaiSLha~d  230 (356)
T PRK14462        170 GEPL-------------DNLDNVSKAIKIFSENDGLAISPRRQTISTSG---LAS-KIKKLGEM--NLGVQLAISLHAVD  230 (356)
T ss_pred             cccc-------------cCHHHHHHHHHHhcCccCCCcCCCceEEECCC---ChH-HHHHHHhc--CCCeEEEEECCCCC
Confidence            3332             0123455666666653221    245555432   233 44556654  44 55778899999


Q ss_pred             HHHHhhh---CCCCCHHHHHHHHHHH-HHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChh
Q 041524          381 SAVLERM---RRGYTREAYLDLVQKI-RQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHA  456 (524)
Q Consensus       381 ~~vL~~m---~R~~t~e~~~~~v~~i-r~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~  456 (524)
                      ++..+.+   ++.+..++++++++.. .+....+.+..-+|-|+ .+++|++++..++++.++ ..+++-+|.|.++.+.
T Consensus       231 ~e~r~~l~pv~~~~~l~~ll~~l~~y~~~~~~~i~ieyvLI~Gv-NDs~e~a~~La~llk~l~-~~VnLIPyn~~~~~~~  308 (356)
T PRK14462        231 DELRSELMPINKAYNIESIIDAVRKFPIDQRKRVMFEYLVIKDV-NDDLKSAKKLVKLLNGIK-AKVNLILFNPHEGSKF  308 (356)
T ss_pred             HHHHHHhCCCCccCCHHHHHHHHHHHHHHhCCeEEEEEEEECCC-CCCHHHHHHHHHHHhhcC-cEEEEEeCCCCCCCCC
Confidence            9998875   5678889999988744 45533456667778787 899999999999999986 4799999999988754

>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.96  E-value=5.7e-08  Score=100.72  Aligned_cols=189  Identities=14%  Similarity=0.193  Sum_probs=126.4

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHH----CCCcEEEEEeccCCCCCCccCCccccCCCC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWK----EGVKEVTLLGQNVNSYNDTSGMEKEVEPGA  307 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~----~G~kei~l~d~n~~~y~~~~~~~~~~~~g~  307 (524)
                      .+.+.+|+++-|||.+|.||..+. .|..|..++++|++++.....    .++..|+|.|     .            |.
T Consensus        97 ~~~t~cvSsq~GC~l~C~FC~t~~-~G~~rnlt~~EIv~Qv~~~~~~~~~~~v~~VvfmG-----m------------GE  158 (348)
T PRK14467         97 DHLTLCVSSQVGCAVGCKFCATAK-DGLIRNLRTAEIIDQYIQVQKFLGENRIRNVVFMG-----M------------GE  158 (348)
T ss_pred             CCcEEEEEcCCCCCCcCcCCCCCC-CCCcCCCCHHHHHHHHHHHHHHhccCCCCeEEEEc-----c------------Ch
Confidence            467899999999999999998863 465689999999999987654    2567888877     1            33


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCC-CCcceeecCcCCcCHH
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRP-NVCKYIHLPAQTGNSA  382 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~-~G~~~i~igiESgs~~  382 (524)
                      ++.             +...+.++++.+.+..+    ..++.+++.-   +.+.+-++..+.- ..+ .+.+.+-+.+++
T Consensus       159 PL~-------------N~d~v~~~l~~l~~~~gl~~~~r~itvsT~G---~~~~i~~l~~~~~l~~v-~LalSLha~~~e  221 (348)
T PRK14467        159 PLA-------------NYENVRKAVQIMTSPWGLDLSKRRITISTSG---IIHQIKRMAEDPVMPEV-NLAVSLNASSQK  221 (348)
T ss_pred             hhc-------------CHHHHHHHHHHHcChhccCcCCCcEEEECCC---ChhHHHHHHhhccccCe-eEEEECCCCCHH
Confidence            220             11235556666644222    1256665431   2222222222210 123 466999999999


Q ss_pred             HHhhhCC---CCCHHHHHHHHHHHH-HhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC-CCeEEEEeeecCCCChh
Q 041524          383 VLERMRR---GYTREAYLDLVQKIR-QIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG-YDMAYMFAYSMRERTHA  456 (524)
Q Consensus       383 vL~~m~R---~~t~e~~~~~v~~ir-~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~-~d~~~i~~~sp~pGT~~  456 (524)
                      ..+.+..   .++.+++.++++... +....+.+..=+|-|+ .+++|++++..+++..++ ..++.+-+|.|+|+...
T Consensus       222 ~r~~i~p~~~~~~l~~l~~~~~~~~~~~g~~V~ieyvLIpGv-NDs~e~a~~La~~l~~l~~~~~VnLIPynp~~~~~~  299 (348)
T PRK14467        222 LRERIMPISKTNTLEELMEVLKQYPLPPGRRIMLEYVLIKGV-NDSPEDALRLAQLIGKNKKKFKVNLIPFNPDPELPY  299 (348)
T ss_pred             HHHHhcCCccccCHHHHHHHHHHHHHhcCCeEEEEEEEECCc-cCCHHHHHHHHHHHhcCCCceEEEEecCCCCCCCCC
Confidence            9988644   567888888876554 3423445555666565 688999999999999874 56788999999888754

>TIGR03820 lys_2_3_AblA lysine-2,3-aminomutase

Probab=98.96  E-value=8.7e-08  Score=100.95  Aligned_cols=182  Identities=14%  Similarity=0.193  Sum_probs=135.3

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCc-cccCChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGR-ERSRPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~-~Rsr~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      ...++.+.++.+|+..|.||......|. ....+.+++.+-++++.+. ++++|.|.|.+.....               
T Consensus       106 Yp~rvLl~vT~~C~~~CryC~R~~~~g~~~~~ls~eei~~~i~yI~~~p~I~~VlLSGGDPLll~---------------  170 (417)
T TIGR03820       106 YPDRVLFLVSNTCAMYCRHCTRKRKVGDRDSIPSKEQILEGIEYIRNTPQIRDVLLSGGDPLLLS---------------  170 (417)
T ss_pred             cCCEEEEEEcCCcCCCCcCCCCcccCCcccccCCHHHHHHHHHHHHhcCCCCEEEEeCCccccCC---------------
Confidence            4456788899999999999987543332 4556788888888888875 9999999986654331               


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecC----CCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHh
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP----HPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLE  385 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~----~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~  385 (524)
                                     ...+..+++.+.++.....+|+.+-    -|..+++++++.|+++  +..++.+-+.+  ++-  
T Consensus       171 ---------------d~~L~~iL~~L~~IphV~~IRI~TR~pvv~P~RIT~ell~~Lk~~--~~~~v~~h~nh--p~E--  229 (417)
T TIGR03820       171 ---------------DDYLDWILTELRAIPHVEVIRIGTRVPVVLPQRITDELVAILKKH--HPVWLNTHFNH--PRE--  229 (417)
T ss_pred             ---------------hHHHHHHHHHHhhcCCCceEEEeeccccccccccCHHHHHHHHhc--CCeEEEEeCCC--hHh--
Confidence                           1246667788877543335777652    3667899999999998  65555554444  332  


Q ss_pred             hhCCCCCHHHHHHHHHHHHHhCCCcEEE--EeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          386 RMRRGYTREAYLDLVQKIRQIIPDVGLS--SDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       386 ~m~R~~t~e~~~~~v~~ir~~~pgi~i~--~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                            ..++..++++.++++  ||.+.  +-++-| =.++.+.+.+...-+.++++.--++|..-+.+|+.-++
T Consensus       230 ------it~~a~~Al~~L~~a--GI~l~nQsVLLkG-VND~~~~l~~L~~~L~~~gV~PYYl~~~d~v~G~~hFr  295 (417)
T TIGR03820       230 ------ITASSKKALAKLADA--GIPLGNQSVLLAG-VNDCPRIMKKLVHKLVANRVRPYYLYQCDLSEGLSHFR  295 (417)
T ss_pred             ------ChHHHHHHHHHHHHc--CCEEEeeceEECC-cCCCHHHHHHHHHHHHHCCCeeceeeeccCCCCccccc
Confidence                  258999999999999  88754  566667 48899999999999999887767788888889987764

This model describes lysine-2,3-aminomutase as found along with beta-lysine acetyltransferase in a two-enzyme pathway for making the compatible solute N-epsilon-acetyl-beta-lysine. This compatible solute, or osmolyte, is known to protect a number of methanogenic archaea against salt stress. The trusted cutoff distinguishes a tight clade with essentially full-length homology from additional homologs that are shorter or highly diverged in the C-terminal region. All members of this family have the radical SAM motif CXXXCXXC, while some but not all have a second copy of the motif in the C-terminal region.

>COG1244 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=98.96  E-value=4.9e-08  Score=97.28  Aligned_cols=192  Identities=16%  Similarity=0.211  Sum_probs=138.5

Q ss_pred             EEEEEcccCCc----cCcccccCCCCCccccCChHHHHHHHHHHHHC-C--CcE--EE-EEeccCCCCCCccCCccccCC
Q 041524          236 AFVSVMRGCNN----MCSFCIVPFTRGRERSRPVESIVKEVDELWKE-G--VKE--VT-LLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       236 a~v~isRGC~~----~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G--~ke--i~-l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      ..|--++||-+    .|..|..+... .....+.++++..+...... .  ..+  |. |+...|....           
T Consensus        49 ~vILrT~GC~w~~~~gC~MCgY~~d~-~~~~vs~E~l~~qfd~~~~k~~~~~~~~~vkIFTSGSFLD~~-----------  116 (358)
T COG1244          49 TVILRTRGCRWYREGGCYMCGYPADS-AGEPVSEENLINQFDEAYSKYEGKFDEFVVKIFTSGSFLDPE-----------  116 (358)
T ss_pred             EEEEecCCcceeccCCcceecccccc-CCCCCCHHHHHHHHHHHHHHhcccCCCceEEEEcccccCChh-----------
Confidence            33444899983    39999987642 25678899999999887653 1  222  22 3343332210           


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCC-cceeecCcCCcCHHHH
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNV-CKYIHLPAQTGNSAVL  384 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G-~~~i~igiESgs~~vL  384 (524)
                        .  .            .......+++.+++.+...++-+. .+|..+++|.|+.+.+.-.| -..|.||+||.++++.
T Consensus       117 --E--V------------P~e~R~~Il~~is~~~~v~~vvvE-SRpE~I~eE~l~e~~~il~gk~~EvaIGLETanD~ir  179 (358)
T COG1244         117 --E--V------------PREARRYILERISENDNVKEVVVE-SRPEFIREERLEEITEILEGKIVEVAIGLETANDKIR  179 (358)
T ss_pred             --h--C------------CHHHHHHHHHHHhhccceeEEEee-cCchhcCHHHHHHHHHhhCCceEEEEEecccCcHHHH
Confidence              0  0            013355678888887655677666 68999999999999976223 3459999999999998


Q ss_pred             -hhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHH-HHHHHHHHHH--cCCCeEEEEeeecCCCChhcc
Q 041524          385 -ERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEE-HADTLTLMKA--VGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       385 -~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed-~~~tl~~l~~--l~~d~~~i~~~sp~pGT~~~~  458 (524)
                       ..||||.|.+++.++++.+|++  |+.+.+++++-.|-=|+.+ +++.++-+..  -..+.+++.+-+...||-...
T Consensus       180 e~sINKGftF~df~~A~~~ir~~--g~~vktYlllKP~FlSE~eAI~D~i~Si~~~~~~~d~iSinptnVqKgTlvE~  255 (358)
T COG1244         180 EDSINKGFTFEDFVRAAEIIRNY--GAKVKTYLLLKPPFLSEKEAIEDVISSIVAAKPGTDTISINPTNVQKGTLVEK  255 (358)
T ss_pred             HHhhhcCCcHHHHHHHHHHHHHc--CCceeEEEEecccccChHHHHHHHHHHHHHhccCCCeEEecccccchhhHHHH
Confidence             5799999999999999999999  9999999999988766533 3334444443  357889999999999997654

>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH

Probab=98.95  E-value=1.1e-07  Score=97.85  Aligned_cols=176  Identities=13%  Similarity=0.100  Sum_probs=124.4

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ....++++.+|+.+|.||........  .+..+++++++.++.   .|+..|.|.|.....+                  
T Consensus        28 l~l~le~T~~CNL~C~~C~~~~~~~~~~~~~ls~ee~~~~i~e---~g~~~V~i~GGEPLL~------------------   86 (318)
T TIGR03470        28 LVLMLEPLFRCNLACAGCGKIQYPAEILKQRLSVEECLRAVDE---CGAPVVSIPGGEPLLH------------------   86 (318)
T ss_pred             CEEEEecccccCcCCcCCCCCcCCCcccccCCCHHHHHHHHHH---cCCCEEEEeCcccccc------------------
Confidence            46778999999999999986432211  234678888766553   4888888887444332                  


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh-CCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM-RRG  390 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m-~R~  390 (524)
                                    ..+.++++.+.+..  ..+.+. .+...++ +.+..++.+  +...+.+.+.+.. +.-+.+ ++.
T Consensus        87 --------------pdl~eiv~~~~~~g--~~v~l~-TNG~ll~-~~~~~l~~~--~~~~i~VSLDG~~-e~hd~~~~~~  145 (318)
T TIGR03470        87 --------------PEIDEIVRGLVARK--KFVYLC-TNALLLE-KKLDKFEPS--PYLTFSVHLDGLR-EHHDASVCRE  145 (318)
T ss_pred             --------------ccHHHHHHHHHHcC--CeEEEe-cCceehH-HHHHHHHhC--CCcEEEEEEecCc-hhhchhhcCC
Confidence                          24778888776543  344444 3444454 446667776  7778899988754 555554 455


Q ss_pred             CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCC
Q 041524          391 YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERT  454 (524)
Q Consensus       391 ~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT  454 (524)
                      .+.+.+++.++.+++.  |+.+...+.+ +++++.+++.+.++++.+++++.+.+.+..++..+
T Consensus       146 g~f~~~l~~I~~l~~~--G~~v~v~~tv-~~~~n~~ei~~~~~~~~~lGv~~i~i~p~~~~~~a  206 (318)
T TIGR03470       146 GVFDRAVEAIREAKAR--GFRVTTNTTL-FNDTDPEEVAEFFDYLTDLGVDGMTISPGYAYEKA  206 (318)
T ss_pred             CcHHHHHHHHHHHHHC--CCcEEEEEEE-eCCCCHHHHHHHHHHHHHcCCCEEEEecCcccccc
Confidence            6899999999999998  7766655433 36789999999999999999998888766655433

The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH

>PRK14453 chloramphenicol/florfenicol resistance protein; Provisional

Probab=98.94  E-value=1.7e-07  Score=97.17  Aligned_cols=183  Identities=13%  Similarity=0.217  Sum_probs=126.3

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCC--CcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEG--VKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G--~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      .++.|+++-||+.+|.||..+. .|..|..++++|++++..+...|  ++.|+|.|.                 |.++. 
T Consensus       100 ~t~CvssqvGC~~~C~FC~tg~-~g~~rnLt~~EIv~qv~~~~~~~~~i~~IvfmGm-----------------GEPLl-  160 (347)
T PRK14453        100 ESFCISSQCGCGFGCRFCATGS-IGLKRNLTADEITDQLLYFYLNGHRLDSISFMGM-----------------GEALA-  160 (347)
T ss_pred             eeEEEecCCCcCCCCCCCCCCC-CCCcccCCHHHHHHHHHHHHhcCCCcceEEEeec-----------------CCccC-
Confidence            6789999999999999999875 36678899999999999876554  788998872                 33220 


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhC----CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEF----PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM  387 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~----~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m  387 (524)
                                  + ..+.+.++.+.+..    +..++.+++.-   +.+. ++.+.+.- .-..+.+.+-+.+++..+.+
T Consensus       161 ------------n-~~v~~~i~~l~~~~~~~~~~r~itVsT~G---~~~~-i~~l~~~~-~~v~LalSLha~dd~~r~~l  222 (347)
T PRK14453        161 ------------N-PELFDALKILTDPNLFGLSQRRITISTIG---IIPG-IQRLTQEF-PQVNLTFSLHSPFESQRSEL  222 (347)
T ss_pred             ------------C-HHHHHHHHHHhcccccCCCCCcEEEECCC---Cchh-HHHHHhhc-cCcCEEEEecCCCHHHHHHh
Confidence                        0 23555555555421    22346665432   1221 23333320 12346668899998887764


Q ss_pred             ---CCCCCHHHHHHHHHHHHH-hCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC----CCeEEEEeeecCCCC
Q 041524          388 ---RRGYTREAYLDLVQKIRQ-IIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG----YDMAYMFAYSMRERT  454 (524)
Q Consensus       388 ---~R~~t~e~~~~~v~~ir~-~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~----~d~~~i~~~sp~pGT  454 (524)
                         ++.+..++++++++.... ....+.+..=+|-|+ .+++|++++.++|++.++    ...+.+-+|.|.++.
T Consensus       223 ~pi~~~~~L~~ll~~~~~~l~~~~~~V~iry~LI~Gv-NDs~e~a~~L~~~lk~l~~~~~~~~VnLIPyn~~~~~  296 (347)
T PRK14453        223 MPINKRFPLNEVMKTLDEHIRHTGRKVYIAYIMLEGV-NDSKEHAEAVVGLLRNRGSWEHLYHVNLIPYNSTDKT  296 (347)
T ss_pred             cCccccccHHHHHHHHHHHHHhcCCcEEEEEEeECCC-CCCHHHHHHHHHHHhhccccCCcceEEEecCCCCCCC
Confidence               456778888777665544 323466778888887 799999999999999874    567899999998774

>PRK11194 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.94  E-value=1.4e-07  Score=98.58  Aligned_cols=186  Identities=16%  Similarity=0.205  Sum_probs=128.2

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC----------CCcEEEEEeccCCCCCCccCCcc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE----------GVKEVTLLGQNVNSYNDTSGMEK  301 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~----------G~kei~l~d~n~~~y~~~~~~~~  301 (524)
                      .+.+..|+++-||+.+|.||..+. .|-.|..++++|+++|......          ++++|+|+|-             
T Consensus       101 ~~~t~CvSsQvGC~~~C~FC~t~~-~g~~rnLt~~EIv~Qv~~~~~~~~~~~~~gg~~~~nvV~mGm-------------  166 (372)
T PRK11194        101 DRATLCVSSQVGCALECKFCSTAQ-QGFNRNLRVSEIIGQVWRAAKIIGAAKVTGQRPITNVVMMGM-------------  166 (372)
T ss_pred             CCeeEEEecCCCCCCcCCCCCCCC-CCCCCcCCHHHHHHHHHHHHHHhhhccccCCcccceEEEecC-------------
Confidence            467789999999999999999874 3556889999999998765431          2677777761             


Q ss_pred             ccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcC
Q 041524          302 EVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQ  377 (524)
Q Consensus       302 ~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiE  377 (524)
                          |.++.             +...+.+.++.+.+..+    ..++.+++.-   +.+.+.++ .+.  .--.+.+.+-
T Consensus       167 ----GEPL~-------------N~d~v~~al~~l~~~~g~~i~~r~itVsTsG---~~~~i~~l-~~~--~d~~LaiSLh  223 (372)
T PRK11194        167 ----GEPLL-------------NLNNVVPAMEIMLDDFGFGLSKRRVTLSTSG---VVPALDKL-GDM--IDVALAISLH  223 (372)
T ss_pred             ----Ccccc-------------CHHHHHHHHHHHhhhhccCcCCCeEEEECCC---CchHHHHH-Hhc--cCeEEEeecc
Confidence                33320             11224455555553322    1256665432   33444444 443  3345777889


Q ss_pred             CcCHHHHhhhC---CCCCHHHHHHHHHHHHHhC----CCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec
Q 041524          378 TGNSAVLERMR---RGYTREAYLDLVQKIRQII----PDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM  450 (524)
Q Consensus       378 Sgs~~vL~~m~---R~~t~e~~~~~v~~ir~~~----pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp  450 (524)
                      +.+++..+.+-   +.+..+++++++.......    ..+.+..=+|-|+ .+++|++++..+|+..++. .+.+-+|.|
T Consensus       224 a~d~e~R~~lmPin~~~~l~~ll~a~~~y~~~~~~~~rrI~irypLIpGv-NDs~e~a~~La~ll~~l~~-~VnLIPYN~  301 (372)
T PRK11194        224 APNDELRDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTVEYVMLDHV-NDGTEHAHQLAELLKDTPC-KINLIPWNP  301 (372)
T ss_pred             CCCHHHHHHhcCCcccccHHHHHHHHHHHHHhcccCCCeEEEEEEeECCC-CCCHHHHHHHHHHHhcCCc-eEEEecCCC
Confidence            99999988753   4678888887766555432    2477888888887 7999999999999999864 799999999


Q ss_pred             CCCChh
Q 041524          451 RERTHA  456 (524)
Q Consensus       451 ~pGT~~  456 (524)
                      ++|.+.
T Consensus       302 ~~~~~~  307 (372)
T PRK11194        302 FPGAPY  307 (372)
T ss_pred             CCCCCC
Confidence            987543

>PRK14464 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.93  E-value=3.8e-08  Score=101.43  Aligned_cols=182  Identities=18%  Similarity=0.265  Sum_probs=125.5

Q ss_pred             eEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      .+.+|+++-||+..|.||.... .|-.|..++++|++++..+.+. .+++|+|.|.                 |.|+   
T Consensus        96 ~t~CvSsQvGC~~~C~FC~tg~-~g~~RnLs~~EI~~Qv~~~~~~~~i~nIVfmGm-----------------GEPl---  154 (344)
T PRK14464         96 DGLCVSTQVGCAVGCVFCMTGR-SGLLRQLGSAEIVAQVVLARRRRAVKKVVFMGM-----------------GEPA---  154 (344)
T ss_pred             CcEEEEccCCcCCCCCcCcCCC-CCCCCCCCHHHHHHHHHHHHhcCCCCEEEEecc-----------------Cccc---
Confidence            4789999999999999998743 3556888999999999988764 6899999872                 3332   


Q ss_pred             cCcccchhcccchhhHHHHHHH---HHhh--CCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh
Q 041524          313 EGFNSMCKVKKMGLRFADLLDR---LSLE--FPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM  387 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~---l~~~--~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m  387 (524)
                                   ..+.++++.   +.+.  .+...+.+++..   +. ..++.+.+. ..-..+.+.+.+.+++..+.+
T Consensus       155 -------------~N~d~vl~ai~~l~~~~~i~~r~itiST~G---~~-~~i~rL~~~-~v~~~LaiSLhA~~~e~R~~i  216 (344)
T PRK14464        155 -------------HNLDNVLEAIDLLGTEGGIGHKNLVFSTVG---DP-RVFERLPQQ-RVKPALALSLHTTRAELRARL  216 (344)
T ss_pred             -------------CCHHHHHHHHHHhhchhcCCCceEEEeccc---Cc-hHHHHHHHh-cCChHHHHHhcCCChhHhhee
Confidence                         123333333   3221  133345554332   22 234444442 123457789999999998875


Q ss_pred             C---CCCCHHHHHHHHHHHHHhCCCcEE--EEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          388 R---RGYTREAYLDLVQKIRQIIPDVGL--SSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       388 ~---R~~t~e~~~~~v~~ir~~~pgi~i--~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                      .   |.++.+++.++++...+.. |..+  ..-+|-|. .+++|+.++..+++..+.. ++++-+|.|.+|+...
T Consensus       217 mP~~~~~~l~el~~a~~~~~~~~-grri~~EyvLl~GV-NDs~e~a~~L~~~l~~~~~-~vNLIPyN~v~g~~~~  288 (344)
T PRK14464        217 LPRAPRIAPEELVELGEAYARAT-GYPIQYQWTLLEGV-NDSDEEMDGIVRLLKGKYA-VMNLIPYNSVDGDAYR  288 (344)
T ss_pred             CCccCCCCHHHHHHHHHHHHHHH-CCEEEEEEEEeCCC-CCCHHHHHHHHHHHhcccc-ccceecCCccCCCCcc
Confidence            4   5789999999888876653 5444  34444465 8999999999999987754 4888999999998654

>PRK14461 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.92  E-value=1.4e-07  Score=97.62  Aligned_cols=185  Identities=15%  Similarity=0.206  Sum_probs=129.5

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC-----------------CCcEEEEEeccCCCCC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-----------------GVKEVTLLGQNVNSYN  294 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-----------------G~kei~l~d~n~~~y~  294 (524)
                      .+.++.|+++-||+..|.||+... .|-.|..++.+|++++..+.+.                 .++.|+|.|-      
T Consensus       105 ~r~TlCvSSQvGC~mgC~FCaTG~-~G~~RNLt~~EIv~Qv~~~~~~l~~~~~~~~~~~~~~~~~i~NIVfMGM------  177 (371)
T PRK14461        105 DRATVCVSTQAGCGMGCVFCATGT-LGLLRNLSSGEIVAQVIWASRELRAMGAAISKRHAGPVGRVTNLVFMGM------  177 (371)
T ss_pred             CCceEEEEccCCccCCCCcccCCC-CCcccCCCHHHHHHHHHHHHHHhhhcccccccccccccCceeeEEEEcc------
Confidence            457799999999999999998743 4567999999999999876431                 1567777762      


Q ss_pred             CccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhh---CC----ceEEEEecCCCCCCCHHHHHHHHcCCC
Q 041524          295 DTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLE---FP----EMRFRYTSPHPKDFPDELLYIMRDRPN  367 (524)
Q Consensus       295 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~---~~----~~~ir~~s~~p~~~~~elL~~l~~~~~  367 (524)
                                 |.++                ..+..+++.+...   .+    .-+|.+++.   .+.+.+.++..+.  
T Consensus       178 -----------GEPL----------------~NydnV~~ai~il~d~~g~~is~R~ITVST~---Givp~I~~la~~~--  225 (371)
T PRK14461        178 -----------GEPF----------------ANYDRWWQAVERLHDPQGFNLGARSMTVSTV---GLVKGIRRLANER--  225 (371)
T ss_pred             -----------CCch----------------hhHHHHHHHHHHhcCccccCcCCCceEEEee---cchhHHHHHHhcc--
Confidence                       4442                2344444444332   11    124555543   2445444444432  


Q ss_pred             CcceeecCcCCcCHHHHhhh---CCCCCHHHHHHHHHHHHHhCCC--cEEEEeEEEcCCCCCHHHHHHHHHHHHHcC---
Q 041524          368 VCKYIHLPAQTGNSAVLERM---RRGYTREAYLDLVQKIRQIIPD--VGLSSDFICGFCGETEEEHADTLTLMKAVG---  439 (524)
Q Consensus       368 G~~~i~igiESgs~~vL~~m---~R~~t~e~~~~~v~~ir~~~pg--i~i~~~fI~G~PgET~ed~~~tl~~l~~l~---  439 (524)
                      .-..+.+++-+.+++..+.+   +|.|..++++++++...+. .+  |.+..-+|-|. .+++|+.++..++++.++   
T Consensus       226 ~~v~LAiSLHA~~~e~R~~lmPin~~ypl~eLl~a~~~y~~~-t~rrit~EYvLi~gv-NDs~e~A~~L~~llk~~~~~~  303 (371)
T PRK14461        226 LPINLAISLHAPDDALRSELMPVNRRYPIADLMAATRDYIAK-TRRRVSFEYVLLQGK-NDHPEQAAALARLLRGEAPPG  303 (371)
T ss_pred             cCceEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHh-hCCEEEEEEEEECCC-CCCHHHHHHHHHHHcCCcccc
Confidence            23468899999999998874   6899999999999877654 23  44445555565 899999999999999873   


Q ss_pred             --CCeEEEEeeecCCCChhc
Q 041524          440 --YDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       440 --~d~~~i~~~sp~pGT~~~  457 (524)
                        .-++++-+|.|.||++..
T Consensus       304 ~l~~~VNLIp~Np~~~~~~~  323 (371)
T PRK14461        304 PLLVHVNLIPWNPVPGTPLG  323 (371)
T ss_pred             CCceEEEEecCCCCCCCCCC
Confidence              347899999999999754

>PRK14465 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.90  E-value=2.4e-07  Score=95.68  Aligned_cols=181  Identities=12%  Similarity=0.155  Sum_probs=125.0

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHH---CCCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWK---EGVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~---~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ...+..|+++-||+.+|+||.... .|-.|.....+|++++-.+.+   ..+.+|+|.|     +            |.|
T Consensus       103 ~~~t~CvSsQvGC~m~C~FC~tg~-~g~~rnlta~EI~~qv~~~~~~~~~~~~niVFmG-----m------------GEP  164 (342)
T PRK14465        103 GRKTICISSQIGCTLNCKFCATAK-LEFQGNLKAHEIVDQVLQVEKIVGDRATNVVFMG-----M------------GEP  164 (342)
T ss_pred             CceEEEEEecCCCCCCCCCCcCCC-CCccCCCCHHHHHHHHHHHHHhcCCCceEEEEEc-----C------------Ccc
Confidence            346789999999999999998854 455688899999999987654   3577888887     3            443


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhC----CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHH
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEF----PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVL  384 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~----~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL  384 (524)
                      +.             +-..+.+.++.+....    +..++++++.-   +.+.+.++..+.  .-..+.|.+.+.+++..
T Consensus       165 L~-------------N~d~V~~~~~~l~~~~~~~~~~r~itvST~G---~~~~i~~l~~~~--~~~~LaiSLhA~~~e~R  226 (342)
T PRK14465        165 MH-------------NYFNVIRAASILHDPDAFNLGAKRITISTSG---VVNGIRRFIENK--EPYNFAISLNHPDPNGR  226 (342)
T ss_pred             hh-------------hHHHHHHHHHHHhChhhhcCCCCeEEEeCCC---chHHHHHHHhhc--cCceEEEEecCCChhhc
Confidence            20             0112333334333321    22366666432   235555555443  22478999999999999


Q ss_pred             hhh---CCCCCHHHHHHHHHHHHHhC-CCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec
Q 041524          385 ERM---RRGYTREAYLDLVQKIRQII-PDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM  450 (524)
Q Consensus       385 ~~m---~R~~t~e~~~~~v~~ir~~~-pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp  450 (524)
                      ..+   ++.++.+++.+++....+.. ..+.+..-+|-|+ .+++|++++..+++..++ -.+.+-+|.|
T Consensus       227 ~~l~Pi~~~~~le~ll~al~~~~~~~~r~v~ieyvLI~Gv-NDs~eda~~L~~ll~~l~-~kVnLIPyN~  294 (342)
T PRK14465        227 LQIMDIEEKFPLEELLQAAKDFTRELKRRITFEYVMIPGV-NMGRENANKLVKIARSLD-CKINVIPLNT  294 (342)
T ss_pred             ceEeeccccCCHHHHHHHHHHHHHHcCCEEEEEEEEECCc-cCCHHHHHHHHHHHhhCC-CcEEEEccCC
Confidence            886   68899999999999665432 2233445555565 589999999999999986 4588888888

>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.85  E-value=3.2e-07  Score=95.11  Aligned_cols=186  Identities=12%  Similarity=0.225  Sum_probs=124.2

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC---CCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE---GVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~---G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      .+.+++|+++-|||.+|.||..+. .|..|..++++|+++|......   .+..+++.|     .            |.+
T Consensus        99 ~~~t~cvSsqvGC~~~C~FC~tg~-~G~~rnlt~~EI~~qv~~~~~~~~~~~~gvV~mg-----g------------GEP  160 (342)
T PRK14454         99 HGNSICVSTQVGCRMGCKFCASTI-GGMVRNLTAGEMLDQILAAQNDIGERISNIVLMG-----S------------GEP  160 (342)
T ss_pred             CCCEEEEEcCCCCCCcCCcCCCCC-CCCcccCCHHHHHHHHHHHHHHhcCCCCCEEEEC-----C------------chh
Confidence            456899999999999999998753 4557889999999999877542   233444432     1            433


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhCC----ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHH
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP----EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVL  384 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~----~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL  384 (524)
                      +.             +...+.++++.+.+..+    ..++.+++.   .+.+.+.++.... ..+ .+.+.+-+.+++..
T Consensus       161 Ll-------------n~d~v~~~l~~l~~~~gi~~~~r~itvsTs---G~~p~i~~l~~~~-~~~-~laisLka~d~e~r  222 (342)
T PRK14454        161 LD-------------NYENVMKFLKIVNSPYGLNIGQRHITLSTC---GIVPKIYELADEN-LQI-TLAISLHAPNDELR  222 (342)
T ss_pred             hc-------------CHHHHHHHHHHHhcccccCcCCCceEEECc---CChhHHHHHHhhc-ccc-eEEEecCCCCHHHH
Confidence            20             12335666666664211    114555542   2334444444332 123 37899999999998


Q ss_pred             hhhC---CCCCHHHHHHHHHH-HHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCCh
Q 041524          385 ERMR---RGYTREAYLDLVQK-IRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTH  455 (524)
Q Consensus       385 ~~m~---R~~t~e~~~~~v~~-ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~  455 (524)
                      +.+-   +.+..+++.++++. +.+....+.+..=+|-|+ .+++|++++..++++.+. -.+++-+|.|.++..
T Consensus       223 ~~l~pv~~~~~L~~l~~~~~~~~~~~~~rv~iey~LI~gv-NDs~eda~~La~llk~l~-~~VnLiPyn~~~~~~  295 (342)
T PRK14454        223 KKMMPIANKYSIEELIEACKYYINKTNRRITFEYALVKGV-NDSKEDAKELGKLLKGML-CHVNLIPVNEVKENG  295 (342)
T ss_pred             HHhcCCcccCCHHHHHHHHHHHHHHhCCEEEEEEEeECCC-CCCHHHHHHHHHHHhcCC-ceEEEEecCCCCCCC
Confidence            8754   46778888777755 445423455667777777 799999999999999874 578889999887763

>PRK13762 tRNA-modifying enzyme; Provisional

Probab=98.84  E-value=3e-07  Score=94.71  Aligned_cols=172  Identities=14%  Similarity=0.175  Sum_probs=119.4

Q ss_pred             cccCCccCcccccCCCCC------ccccCChHHHHHHHHHHHHC---CC-----------------cEEEEEeccCCCCC
Q 041524          241 MRGCNNMCSFCIVPFTRG------RERSRPVESIVKEVDELWKE---GV-----------------KEVTLLGQNVNSYN  294 (524)
Q Consensus       241 sRGC~~~CsFC~vp~~~G------~~Rsr~~e~Iv~Ei~~l~~~---G~-----------------kei~l~d~n~~~y~  294 (524)
                      ..||+++|.||..+....      ..+..++++|++++......   |+                 +.+.|.+     . 
T Consensus        65 ~~~C~~rC~fC~r~~~~~~~~~~~~~~~~~peeiv~~~~~~~~~~i~g~~g~~~v~~~~~~ea~~~~~v~iSl-----~-  138 (322)
T PRK13762         65 VAWCNQRCLFCWRPLEEDVGLELKEPEWDDPEEIVEESIKEQRKLLSGYKGNPKVDREKFEEAMEPKHVAISL-----S-  138 (322)
T ss_pred             hHHHhccCceeeccCCCCcccccCCCCCCCHHHHHHHHHHHHHHHhhccCCCCCCCHHHhhhccCCCEEEEeC-----C-
Confidence            578999999999876543      14567899999999776321   21                 1233221     1 


Q ss_pred             CccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeec
Q 041524          295 DTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHL  374 (524)
Q Consensus       295 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~i  374 (524)
                                 |.++        +      ...+.++++.+.+..  +.+.+.+ +. .+ ++.++.| ..  +...+.+
T Consensus       139 -----------GEPl--------L------~p~l~eli~~~k~~G--i~~~L~T-NG-~~-~e~l~~L-~~--~~d~i~V  185 (322)
T PRK13762        139 -----------GEPT--------L------YPYLPELIEEFHKRG--FTTFLVT-NG-TR-PDVLEKL-EE--EPTQLYV  185 (322)
T ss_pred             -----------cccc--------c------hhhHHHHHHHHHHcC--CCEEEEC-CC-CC-HHHHHHH-Hh--cCCEEEE
Confidence                       3332        0      125888888887652  3444443 22 22 5788888 44  7899999


Q ss_pred             CcCCcCHHHHhhhCCC---CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC
Q 041524          375 PAQTGNSAVLERMRRG---YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR  451 (524)
Q Consensus       375 giESgs~~vL~~m~R~---~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~  451 (524)
                      .+.+.+++..+.++++   .+.+.+++.++.+++..-.+.+...++   ||.+..+..+.++++.+++++.+.+.+|.+.
T Consensus       186 SLda~~~e~~~~i~~~~~~~~~~~vl~~L~~l~~~~~~~~ir~tlv---~g~Nd~e~~~~a~l~~~~~~~~Iel~~y~~~  262 (322)
T PRK13762        186 SLDAPDEETYKKINRPVIPDAWERILETLELLPSKKTRTVIRITLV---KGYNMHDPEGFAKLIERANPDFVEVKAYMHV  262 (322)
T ss_pred             EccCCCHHHHHHHhCCCCCCcHHHHHHHHHHHHhCCCCEEEEEEEE---CCcCccHHHHHHHHHHHcCCCEEEEECCeEC
Confidence            9999999999999874   589999999999999822234555555   4555555568889999999999999888876


Q ss_pred             CCC
Q 041524          452 ERT  454 (524)
Q Consensus       452 pGT  454 (524)
                      ...
T Consensus       263 G~~  265 (322)
T PRK13762        263 GYS  265 (322)
T ss_pred             CCc
Confidence            543

>COG2516 Biotin synthase-related enzyme [General function prediction only]

Probab=98.81  E-value=9.5e-08  Score=95.22  Aligned_cols=139  Identities=17%  Similarity=0.247  Sum_probs=106.9

Q ss_pred             HHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC----CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHH
Q 041524          356 DELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR----GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADT  431 (524)
Q Consensus       356 ~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R----~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~t  431 (524)
                      .+-+..+++.  |...+.++.+..+.++++.++|    .++.|.+.+.++++..+++.-.+...+|+|+ |||++++-++
T Consensus       131 ~~~l~e~~kl--g~d~l~V~~daa~~~~~e~v~~~s~s~~S~e~~~~~l~~~~~~~~k~rv~ihliVgl-GesD~~~ve~  207 (339)
T COG2516         131 KEELEEYRKL--GADYLGVAEDAANEELFEKVRKTSGSPHSWERYWEFLEKVAEAFGKGRVGIHLIVGL-GESDKDIVET  207 (339)
T ss_pred             hHHHHHHHhc--chhhhhHHHHhcCHHHHHHHHhccCCCCcHHHHHHHHHHHHHHhccCCcceeEEecc-CCchHHHHHH
Confidence            6778888888  9999999999999999999865    3789999999999999988668999999995 9999999999


Q ss_pred             HHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhcccCCEEEEEEec
Q 041524          432 LTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVLVEG  502 (524)
Q Consensus       432 l~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l~~~~~~~~~~~~~~~vG~~~~vLve~  502 (524)
                      +..+...+.. +++|+|.|..||.+..+.  .+|-+ ..++.+... .+-+..+..+..+.|-...-||++
T Consensus       208 ~~~v~~~g~~-v~Lfaf~P~~gt~me~r~--~~pve-~Yrk~q~a~-yli~~G~v~~~~~~fde~g~lI~~  273 (339)
T COG2516         208 IKRVRKRGGI-VSLFAFTPLKGTQMENRK--PPPVE-RYRKIQVAR-YLIGNGEVDLEDFEFDEFGNLIDS  273 (339)
T ss_pred             HHHHHhcCce-EEEEEecccccccccCCC--CCcHH-HHHHHHHHH-HHHhcCccchhhcccccccceecc
Confidence            9999988754 899999999999887532  22222 223444444 333333444555666666666663

>KOG2672 consensus Lipoate synthase [Coenzyme transport and metabolism]

Probab=98.79  E-value=1.5e-07  Score=91.66  Aligned_cols=181  Identities=17%  Similarity=0.217  Sum_probs=130.7

Q ss_pred             EEEEE-EcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          235 TAFVS-VMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       235 ~a~v~-isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      .|.|. .+.-|...|.||++...|.+  .-...|++..+-|...   |+..|+|+.-+    |++.              
T Consensus       111 TATIMlmGDTCTRGCRFCsVKTsR~PpPlDp~EPeNTAeAIasW---gl~YiVlTSVD----RDDl--------------  169 (360)
T KOG2672|consen  111 TATIMLMGDTCTRGCRFCSVKTSRNPPPLDPNEPENTAEAIASW---GLDYIVLTSVD----RDDL--------------  169 (360)
T ss_pred             eEEEEeecCccccCcceeeeecCCCCcCCCCCCcccHHHHHHHc---CCCeEEEEecc----cccC--------------
Confidence            34443 47899999999999876653  4445567776655544   99999988643    2221              


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCC-CCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKD-FPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG  390 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~-~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~  390 (524)
                      .+|         +..++++-++.|.+..|.+-+  ..+.|+. =+-+.++.++.+  |...+.=.+|+.-.-.---=.|.
T Consensus       170 pDg---------Ga~HiAkTVq~iK~k~p~ilv--E~L~pDF~Gd~~~Ve~va~S--GLDV~AHNvETVe~Ltp~VRD~R  236 (360)
T KOG2672|consen  170 PDG---------GANHIAKTVQKIKEKAPEILV--ECLTPDFRGDLKAVEKVAKS--GLDVYAHNVETVEELTPFVRDPR  236 (360)
T ss_pred             cCc---------chHHHHHHHHHHHhhCcccch--hhcCccccCchHHHHHHHhc--CccceecchhhHHhcchhhcCcc
Confidence            111         235799999999888776544  3344432 145688999998  99888778876432211112346


Q ss_pred             CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec
Q 041524          391 YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM  450 (524)
Q Consensus       391 ~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp  450 (524)
                      .+..+-+..++.+++..|++...+.+|.|+ |||+|++.+|++.++..+.|.+.+-.|.+
T Consensus       237 A~yrQSL~VLk~aK~~~P~litktsiMlgl-getdeei~~tl~dLr~~~vdv~t~gqym~  295 (360)
T KOG2672|consen  237 ANYRQSLSVLKHAKEVKPGLITKTSIMLGL-GETDEEIKQTLKDLRAADVDVVTFGQYMQ  295 (360)
T ss_pred             cchHHhHHHHHHHHhhCCCceehhhhhhcc-CCCHHHHHHHHHHHHHcCCcEEecccccC
Confidence            788999999999999999987788999997 99999999999999999999877666643

>COG0731 Fe-S oxidoreductases [Energy production and conversion]

Probab=98.72  E-value=1.5e-06  Score=87.36  Aligned_cols=175  Identities=18%  Similarity=0.234  Sum_probs=127.9

Q ss_pred             cCCccCcccccCCCC----CccccCChHHHHHHHHHHHHC------CCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          243 GCNNMCSFCIVPFTR----GRERSRPVESIVKEVDELWKE------GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       243 GC~~~CsFC~vp~~~----G~~Rsr~~e~Iv~Ei~~l~~~------G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      -|.++|.||....+.    ++....+.++|.++++.+...      .++.++|.+.                 |.++   
T Consensus        33 ~Cs~~CvyC~~G~~~~~~~~~~efi~~~~I~~~~~~~~~~~g~ea~~pd~vtis~~-----------------GEPT---   92 (296)
T COG0731          33 WCSYNCVYCWRGRTKKGTPERPEFIVEESILEELKLLLGYKGDEATEPDHVTISLS-----------------GEPT---   92 (296)
T ss_pred             hhcCCCeEEecccCCCCCCCCCceecHHHHHHHHHHHhcccccccCCCCEEEEeCC-----------------CCcc---
Confidence            699999999874321    234557889999999998765      3556666542                 3332   


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC-
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY-  391 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~-  391 (524)
                           .      -.++.+|++.+.+.....-+=++  +.. + +++++.|..    ..++.+.+.+.+.+.+++++|++ 
T Consensus        93 -----L------y~~L~elI~~~k~~g~~~tflvT--Ngs-l-pdv~~~L~~----~dql~~sLdA~~~~~~~~InRP~~  153 (296)
T COG0731          93 -----L------YPNLGELIEEIKKRGKKTTFLVT--NGS-L-PDVLEELKL----PDQLYVSLDAPDEKTFRRINRPHK  153 (296)
T ss_pred             -----c------ccCHHHHHHHHHhcCCceEEEEe--CCC-h-HHHHHHhcc----CCEEEEEeccCCHHHHHHhcCCCC
Confidence                 1      13588899888886532122222  221 2 788888874    47899999999999999999985 


Q ss_pred             --CHHHHHHHHHHHHHh-CCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          392 --TREAYLDLVQKIRQI-IPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       392 --t~e~~~~~v~~ir~~-~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                        +.|.+.+.++.+++. .....+.+.++=|+ ..+.|++++..++++.+.++.+.+..|+ +||...+.
T Consensus       154 ~~~~e~ile~L~~~~~~~~~~~vir~tlvkg~-N~~~e~~~~~a~ll~~~~Pd~velk~~~-rpgas~~~  221 (296)
T COG0731         154 KDSWEKILEGLEIFRSEYKGRTVIRTTLVKGI-NDDEEELEEYAELLERINPDFVELKTYM-RPGASRYR  221 (296)
T ss_pred             cchHHHHHHHHHHhhhcCCCcEEEEEEEeccc-cCChHHHHHHHHHHHhcCCCeEEEecCc-cCChHhhc
Confidence              689999999999986 33456778888888 5677889999999999999999998764 55655443

>KOG2900 consensus Biotin synthase [Coenzyme transport and metabolism]

Probab=98.70  E-value=8.5e-08  Score=92.05  Aligned_cols=197  Identities=15%  Similarity=0.229  Sum_probs=137.4

Q ss_pred             EEEEEE-cccCCccCcccccCCC--CC--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          235 TAFVSV-MRGCNNMCSFCIVPFT--RG--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       235 ~a~v~i-sRGC~~~CsFC~vp~~--~G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      ...++| +-||.-.|.||....-  .|  ..+...+++|+++.+...+.|-..|.+-.    .+++..        |   
T Consensus        84 CTLlsIKtGGCsEDCkYCaQSSRy~TGvKA~klmk~DeVi~~Ak~AK~~GSTRFCmGa----AWRD~~--------G---  148 (380)
T KOG2900|consen   84 CTLLSIKTGGCSEDCKYCAQSSRYDTGVKAEKLMKVDEVIKEAKEAKRNGSTRFCMGA----AWRDMK--------G---  148 (380)
T ss_pred             eEEEEeecCCcccccchhhhhcccccchhHHHHhhHHHHHHHHHHHHhcCCceeecch----hhhhhc--------c---
Confidence            344554 7899999999986542  23  25778999999999999999988776532    233211        2   


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCC-ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFP-EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR  388 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~-~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~  388 (524)
                                    +...|..+++.+.++.. .+.+.++   ...++.+....|+++  |.....-.+.+. -+....+-
T Consensus       149 --------------Rk~~fk~IlE~ikevr~MgmEvCvT---LGMv~~qQAkeLKdA--GLTAYNHNlDTS-REyYskvI  208 (380)
T KOG2900|consen  149 --------------RKSAFKRILEMIKEVRDMGMEVCVT---LGMVDQQQAKELKDA--GLTAYNHNLDTS-REYYSKVI  208 (380)
T ss_pred             --------------chhHHHHHHHHHHHHHcCCceeeee---eccccHHHHHHHHhc--cceecccCccch-hhhhcccc
Confidence                          23456667766666532 2343332   345788899999999  988777666653 22222222


Q ss_pred             CCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC--CCeEEEEeeecCCCChhcccCCCCCCH
Q 041524          389 RGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG--YDMAYMFAYSMRERTHAHRNYVDDVPE  466 (524)
Q Consensus       389 R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~--~d~~~i~~~sp~pGT~~~~~~~~~v~~  466 (524)
                      -.-+.++-++.++.+|++  ||.+.+.=|+|+ ||.++|..-.+--+..+.  +..+-+..+.+.+|||+...-...++-
T Consensus       209 tTRtYDdRL~Ti~nvr~a--GikvCsGGIlGL-GE~e~DriGlihtLatmp~HPESvPiN~LvaikGTP~~d~~~k~l~i  285 (380)
T KOG2900|consen  209 TTRTYDDRLQTIKNVREA--GIKVCSGGILGL-GESEDDRIGLIHTLATMPPHPESVPINRLVAIKGTPMADEKSKKLQI  285 (380)
T ss_pred             eecchHHHHHHHHHHHHh--cceecccccccc-cccccceeeeeeeeccCCCCCcccccceEEecCCcccchhhcccccH
Confidence            234678999999999999  999999999999 999999766555555543  566778889999999998755455554


Q ss_pred             HHH
Q 041524          467 EVK  469 (524)
Q Consensus       467 ~~k  469 (524)
                      +..
T Consensus       286 ~e~  288 (380)
T KOG2900|consen  286 DEI  288 (380)
T ss_pred             HHH
Confidence            433

>COG0535 Predicted Fe-S oxidoreductases [General function prediction only]

Probab=98.61  E-value=1.3e-05  Score=82.90  Aligned_cols=179  Identities=11%  Similarity=0.151  Sum_probs=130.1

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCC-CcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEG-VKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G-~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      .....++++.-|+.+|.||..........-.+.+...+-+..+.+.| +..+.+.|......                  
T Consensus        18 p~~~~~~~t~~Cnl~C~~C~~~~~~~~~~el~~~~~~~~~~~~~~~g~~~~v~~~gGEPll~------------------   79 (347)
T COG0535          18 PLVVGIELTNRCNLACKHCYAEAGKKLPGELSTEEDLRVIDELAELGEIPVVIFTGGEPLLR------------------   79 (347)
T ss_pred             CcEEEEeeccccCCcCcccccccCCCCccccCHHHHHHHHHHHHHcCCeeEEEEeCCCcccc------------------
Confidence            45567789999999999998755433123455666666666777778 66666665332211                  


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHH-HhhhCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAV-LERMRRG  390 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~v-L~~m~R~  390 (524)
                                    .++.++++.+.+. +.+.+... .+...++++.++.++++  |+.++.+.+++..++. ....++.
T Consensus        80 --------------~d~~ei~~~~~~~-~~~~~~~~-TnG~~~~~~~~~~l~~~--g~~~v~iSid~~~~e~hd~~rg~~  141 (347)
T COG0535          80 --------------PDLLEIVEYARKK-GGIRVSLS-TNGTLLTEEVLEKLKEA--GLDYVSISLDGLDPETHDPIRGVK  141 (347)
T ss_pred             --------------ccHHHHHHHHhhc-CCeEEEEe-CCCccCCHHHHHHHHhc--CCcEEEEEecCCChhhhhhhcCCC
Confidence                          3577777777654 34454444 23334789999999999  9999999999999999 4444556


Q ss_pred             CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC
Q 041524          391 YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR  451 (524)
Q Consensus       391 ~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~  451 (524)
                      ...+...+.++.+++.  |+.+.  +.+..++.+.+++.+.++++.+++++...++.+.+.
T Consensus       142 g~~~~~~~~i~~~~~~--g~~~~--~~~~v~~~n~~~l~~~~~~~~~~g~~~~~~~~~~~~  198 (347)
T COG0535         142 GVFKRAVEAIKNLKEA--GILVV--INTTVTKINYDELPEIADLAAELGVDELNVFPLIPV  198 (347)
T ss_pred             cHHHHHHHHHHHHHHc--CCeee--EEEEEecCcHHHHHHHHHHHHHcCCCEEEEEEEeec
Confidence            7899999999999988  76533  333345779999999999999999987888777664

>COG0820 Predicted Fe-S-cluster redox enzyme [General function prediction only]

Probab=98.55  E-value=9e-06  Score=83.22  Aligned_cols=192  Identities=16%  Similarity=0.225  Sum_probs=130.0

Q ss_pred             CCCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHC-C------CcEEEEEeccCCCCCCccCCcccc
Q 041524          231 KNSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-G------VKEVTLLGQNVNSYNDTSGMEKEV  303 (524)
Q Consensus       231 ~~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G------~kei~l~d~n~~~y~~~~~~~~~~  303 (524)
                      ..+.+..|+++-||+-.|+||.... .|-.|..+..+|++.+....+. |      +..|+|.|-               
T Consensus        98 ~~r~tlCVSsQvGC~~~C~FCaTg~-~G~~RNLs~~EIv~Qv~~~~~~~~~~~~~~i~NVV~MGM---------------  161 (349)
T COG0820          98 KDRNTLCVSSQVGCPVGCTFCATGQ-GGLNRNLSAGEIVEQVLLAAKALGEDFGRRISNVVFMGM---------------  161 (349)
T ss_pred             cCCceEEEecCCCcCCCCCeecccc-ccceeccCHHHHHHHHHHHHHhcCccccceeeeEEEecC---------------
Confidence            3567789999999999999999853 4668999999999999987643 2      456777652               


Q ss_pred             CCCCccccccCcccchhcccchhhHHHHHHHHHhhCCc-eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH
Q 041524          304 EPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE-MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA  382 (524)
Q Consensus       304 ~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~-~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~  382 (524)
                        |.++.             +-......++.+....+. ..-|..+..+..+.+.+.++..+.  +-..+.+.+.+.+++
T Consensus       162 --GEPl~-------------N~dnV~~a~~i~~~~~G~~ls~R~iTvSTsGi~~~I~~l~~~~--~~v~LAiSLHa~nd~  224 (349)
T COG0820         162 --GEPLL-------------NLDNVVKALEIINDDEGLGLSKRRITVSTSGIVPRIRKLADEQ--LGVALAISLHAPNDE  224 (349)
T ss_pred             --Cchhh-------------hHHHHHHHHHhhcCcccccccceEEEEecCCCchhHHHHHhhc--CCeEEEEecCCCCHH
Confidence              33320             012233344444322211 111222233344666666666444  566799999999999


Q ss_pred             HHhhh---CCCCCHHHHHHHHHHHHHhCCC-cEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          383 VLERM---RRGYTREAYLDLVQKIRQIIPD-VGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       383 vL~~m---~R~~t~e~~~~~v~~ir~~~pg-i~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                      ..+.+   +|.++.++..++++.-...-.. |.+..-++-|. .+..|+.++.++++..+.. ++.+-+|-|.||+. |.
T Consensus       225 lR~~L~Pink~~~~e~l~~a~r~Y~~~t~~rVt~EY~Ll~~V-ND~~e~A~~L~~ll~~~~~-~VNLIP~Np~~~~~-y~  301 (349)
T COG0820         225 LRDQLMPINKKYPIEELLEAIRYYPEKSGRRVTFEYVLLDGV-NDSLEHAKELAKLLKGIPC-KVNLIPYNPVPGSD-YE  301 (349)
T ss_pred             HHhhhhccccCCCHHHHHHHHHhhhhccCceEEEEeeecccc-cCCHHHHHHHHHHhcCCCc-eEEEeecCCCCCCC-cc
Confidence            98764   7788999998888877654222 33444555555 6678999999999988765 79999999999998 54

>TIGR03278 methan_mark_10 putative methanogenesis marker protein 10

Probab=98.47  E-value=1.5e-05  Score=84.44  Aligned_cols=165  Identities=15%  Similarity=0.129  Sum_probs=115.9

Q ss_pred             cCcccccCCCCCccccCChHHHHHHHHHHHHC---CCcEEEEEec-cCCCCCCccCCccccCCCCccccccCcccchhcc
Q 041524          247 MCSFCIVPFTRGRERSRPVESIVKEVDELWKE---GVKEVTLLGQ-NVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVK  322 (524)
Q Consensus       247 ~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~---G~kei~l~d~-n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~  322 (524)
                      .|.||......-.-+..++++|++|++.....   ....|+|.|. ....+                             
T Consensus        38 ~C~yC~~~~~e~~g~~~t~~evl~ev~~d~~~~~~~~ggVtisGGGepl~~-----------------------------   88 (404)
T TIGR03278        38 GCDYCTRSVWEINGDFIPPQVVLGEVQTSLGFRTGRDTKVTISGGGDVSCY-----------------------------   88 (404)
T ss_pred             CCCCCCchhhhhcCCcCCHHHHHHHHHHHHHHhcCCCCEEEEECCcccccC-----------------------------
Confidence            67777443221123667999999999986542   3456777663 22211                             


Q ss_pred             cchhhHHHHHHHHHhhCCceEEEEecCCC-CCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHH
Q 041524          323 KMGLRFADLLDRLSLEFPEMRFRYTSPHP-KDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQ  401 (524)
Q Consensus       323 ~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p-~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~  401 (524)
                         ..+.+|++.+.+..-  .+.+...+. ...+++.++.++++  |+..+.+.+.|.+++..++|.+.-..+.+++.++
T Consensus        89 ---~~l~eLl~~lk~~gi--~taI~~TnG~~l~~~e~~~~L~~~--gld~v~iSvka~dpe~h~kl~G~~~a~~ILe~L~  161 (404)
T TIGR03278        89 ---PELEELTKGLSDLGL--PIHLGYTSGKGFDDPEIAEFLIDN--GVREVSFTVFATDPELRREWMKDPTPEASLQCLR  161 (404)
T ss_pred             ---HHHHHHHHHHHhCCC--CEEEeCCCCcccCCHHHHHHHHHc--CCCEEEEecccCCHHHHHHHhCCCCHHHHHHHHH
Confidence               358889998887532  233321222 24588999999998  9999999999999999999765545589999999


Q ss_pred             HHHHhCCCcEEEEeEEEcCCCCCH-HHHHHHHHHHHHcCCCeEEEEeeecC
Q 041524          402 KIRQIIPDVGLSSDFICGFCGETE-EEHADTLTLMKAVGYDMAYMFAYSMR  451 (524)
Q Consensus       402 ~ir~~~pgi~i~~~fI~G~PgET~-ed~~~tl~~l~~l~~d~~~i~~~sp~  451 (524)
                      .+.+. ..+.+..-+|   ||-+. +++.+|++++.++++..+.+.+|...
T Consensus       162 ~L~e~-~~v~~~ivlI---PGiND~eel~~ti~~L~~lg~~~V~L~~y~~~  208 (404)
T TIGR03278       162 RFCES-CEVHAASVII---PGVNDGDVLWKTCADLESWGAKALILMRFANT  208 (404)
T ss_pred             HHHhc-CCEEEEEEEe---CCccCcHHHHHHHHHHHHCCCCEEEEEecccc
Confidence            99885 3444555556   44454 45579999999999998999888654

Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The presence of motifs with seven invariant Cys residues in the N-terminal 50 residues, including three instances of CXXC, would be consistent with function as an oxidoreductase with FeS clusters. The exact function is unknown, but likely is linked to methanogenesis. In most genomes, the member of this family is encoded by a gene next to, and divergently transcribed from, the methyl coenzyme M reductase operon.

>cd02065 B12-binding_like B12 binding domain (B12-BD)

Probab=98.44  E-value=3.9e-07  Score=80.26  Aligned_cols=87  Identities=18%  Similarity=0.153  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHCCCeeccCC-------------CCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccC
Q 041524           93 MEIVLSIMKNAGYSEVINV-------------PENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSK  159 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~~-------------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  159 (524)
                      .-.++..|++.||+.....             ..++|+|++++++......   ...+..+   +            ++.
T Consensus        16 ~~~~~~~l~~~G~~v~~l~~~~~~~~~~~~i~~~~pdiV~iS~~~~~~~~~---~~~~~~~---~------------~~~   77 (125)
T cd02065          16 KNIVAIALRDNGFEVIDLGVDVPPEEIVEAAKEEDADVVGLSALSTTHMEA---MKLVIEA---L------------KEL   77 (125)
T ss_pred             HHHHHHHHHHCCCEEEEcCCCCCHHHHHHHHHHcCCCEEEEecchHhHHHH---HHHHHHH---H------------Hhc
Confidence            5778888999999863221             1489999996554333222   2222222   1            223


Q ss_pred             C-CCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHH
Q 041524          160 H-PPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLE  202 (524)
Q Consensus       160 p-~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~  202 (524)
                      | +++|++||++++..|+.     +.+|+++.||+|.+++++++
T Consensus        78 p~~~~ivvGG~~~t~~~~~-----~~~d~~~~Ge~e~~~~~l~~  116 (125)
T cd02065          78 GIDIPVVVGGAHPTADPEE-----PKVDAVVIGEGEYAGPALLE  116 (125)
T ss_pred             CCCCeEEEeCCcCCccccc-----cccceeeeCCeEEEccccch
Confidence            6 89999999999999987     57999999999999999986

Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.

>PRK13745 anaerobic sulfatase-maturase; Provisional

Probab=98.42  E-value=1.7e-05  Score=84.79  Aligned_cols=179  Identities=11%  Similarity=0.080  Sum_probs=118.3

Q ss_pred             eEEEEE-EcccCCccCcccccCCCCC-----ccccCChHHHHHHHHHHHHC-CCcE--EEEEeccCCCCCCccCCccccC
Q 041524          234 VTAFVS-VMRGCNNMCSFCIVPFTRG-----RERSRPVESIVKEVDELWKE-GVKE--VTLLGQNVNSYNDTSGMEKEVE  304 (524)
Q Consensus       234 ~~a~v~-isRGC~~~CsFC~vp~~~G-----~~Rsr~~e~Iv~Ei~~l~~~-G~ke--i~l~d~n~~~y~~~~~~~~~~~  304 (524)
                      ....++ ++..|+.+|+||......+     .....+.+.+.+-|+.+.+. +.+.  |.|.|......           
T Consensus        13 ~~~~~kp~~~~CNl~C~yC~~~~~~~~~~~~~~~~ms~e~~~~~i~~~~~~~~~~~v~i~f~GGEPlL~-----------   81 (412)
T PRK13745         13 LYIMLKPVGAVCNLACDYCYYLEKSKLYQENPKHVMSDELLEKFIKEYINSQTMPQVLFTWHGGETLMR-----------   81 (412)
T ss_pred             eEEEEeecCCCcCCCCcccCCcCCCcccccCccCCCCHHHHHHHHHHHHHcCCCCeEEEEEEccccCCC-----------
Confidence            455566 4579999999999743211     11236777777767776654 5555  44455333222           


Q ss_pred             CCCccccccCcccchhcccchhhHHHHHHHHHhhCCc--eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH
Q 041524          305 PGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE--MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA  382 (524)
Q Consensus       305 ~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~--~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~  382 (524)
                       +.                  ..+.++++.+.+....  +.+.+. .+...++++.++.+++.  +. .|.|++... ++
T Consensus        82 -~~------------------~~~~~~~~~~~~~~~~~~i~~~i~-TNG~ll~~e~~~~l~~~--~~-~v~ISlDG~-~~  137 (412)
T PRK13745         82 -PL------------------SFYKKALELQKKYARGRQIDNCIQ-TNGTLLTDEWCEFFREN--NF-LVGVSIDGP-QE  137 (412)
T ss_pred             -cH------------------HHHHHHHHHHHHHcCCCceEEEEe-ecCEeCCHHHHHHHHHc--Ce-EEEEEecCC-HH
Confidence             10                  1133333322222222  333333 46667899999999998  76 899999964 66


Q ss_pred             HHhhhCC----CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC
Q 041524          383 VLERMRR----GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR  451 (524)
Q Consensus       383 vL~~m~R----~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~  451 (524)
                      +-+..++    ..+.+.+.+.++.+++.  |+.+.....+.  .++.+++.+.++++.+++++.+++.++.+.
T Consensus       138 ~hD~~R~~~~g~gsf~~v~~~i~~l~~~--gi~~~i~~vv~--~~n~~~~~e~~~~~~~lg~~~~~~~p~~~~  206 (412)
T PRK13745        138 FHDEYRKNKMGKPSFVKVMKGINLLKKH--GVEWNAMAVVN--DFNADYPLDFYHFFKELDCHYIQFAPIVER  206 (412)
T ss_pred             HhhhhcCCCCCCccHHHHHHHHHHHHHc--CCCEEEEEEEc--CCccccHHHHHHHHHHcCCCeEEEEeccCc
Confidence            6666653    24899999999999998  87766554443  567788899999999999999998887763

>COG4277 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]

Probab=98.37  E-value=3.5e-06  Score=83.10  Aligned_cols=209  Identities=19%  Similarity=0.216  Sum_probs=132.3

Q ss_pred             EcccCCccCcccccCCCCCccc-cCChHHHHHHHHHHHHCCC-cEEEEEeccCCCCCCccCCccccCCCCccccccCccc
Q 041524          240 VMRGCNNMCSFCIVPFTRGRER-SRPVESIVKEVDELWKEGV-KEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNS  317 (524)
Q Consensus       240 isRGC~~~CsFC~vp~~~G~~R-sr~~e~Iv~Ei~~l~~~G~-kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~  317 (524)
                      .+.-|-+.|.||+........| ...+++|++---.+.+..+ ..+++.. .+.-.            + |.        
T Consensus        60 lTN~CiyDC~YCINr~s~~~pra~ftp~Eiv~ltlnfYrRnYIeGLFLSS-Gvi~~------------~-Dy--------  117 (404)
T COG4277          60 LTNFCIYDCAYCINRSSNDTPRARFTPEEIVDLTLNFYRRNYIEGLFLSS-GVIKN------------P-DY--------  117 (404)
T ss_pred             HhhhHHHhhHHHhccccCCCcccccCHHHHHHHHHHHHHHhhhhhheecc-ccccC------------c-ch--------
Confidence            3677999999999755444443 4678888876555555433 3333332 22111            1 00        


Q ss_pred             chhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHH
Q 041524          318 MCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYL  397 (524)
Q Consensus       318 ~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~  397 (524)
                            ....+.+.++.+.-. ..++   .++|.+.++..--++++++.--|.++++.+|...++.|+.+--..+.-++.
T Consensus       118 ------TmE~mi~var~LRle-~~f~---GYIHlK~IPgas~~li~eaglyadRvSiNIElp~~~~lk~lap~K~p~dI~  187 (404)
T COG4277         118 ------TMEEMIEVARILRLE-HKFR---GYIHLKIIPGASPDLIKEAGLYADRVSINIELPTDDGLKLLAPEKDPTDIL  187 (404)
T ss_pred             ------HHHHHHHHHHHHhhc-cccC---cEEEEEecCCCCHHHHHHHhhhhheeEEeEecCCcchhhhhCCCCChHHHH
Confidence                  012233333333211 1111   124444444333334444412478999999999999999998777778888


Q ss_pred             HHHHHHHHhC-------------CCc---EEEEeEEEcCCCCCHHHHHHHHHHHH-HcCCCeEEEEeeecCCCChhcccC
Q 041524          398 DLVQKIRQII-------------PDV---GLSSDFICGFCGETEEEHADTLTLMK-AVGYDMAYMFAYSMRERTHAHRNY  460 (524)
Q Consensus       398 ~~v~~ir~~~-------------pgi---~i~~~fI~G~PgET~ed~~~tl~~l~-~l~~d~~~i~~~sp~pGT~~~~~~  460 (524)
                      +.+.++|..+             |.+   .-++.+|+|-.|||++++....+.+- ..++.+++++.|+|.|+||+--  
T Consensus       188 r~Mg~ir~~i~e~~e~~~r~r~tp~fapaGQSTQmivGA~~~tD~~Ilsrs~~ly~~y~lkRVyySaf~Pv~~s~~lp--  265 (404)
T COG4277         188 RSMGWIRLKILENAEDKRRKRHTPEFAPAGQSTQMIVGADGETDEDILSRSENLYGRYSLKRVYYSAFSPVPSSPLLP--  265 (404)
T ss_pred             HHHHHHHHHHhhcccchhhhccCccccCCCCceEEEEecCCCchHHHHHHHHHHhhccceeEEEeecccccCCCCCCc--
Confidence            8888887621             222   24689999999999999988776664 5688899999999999999853  


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHH
Q 041524          461 VDDVPEEVKQRRLTELIEAFRES  483 (524)
Q Consensus       461 ~~~v~~~~k~~Rl~~l~~~~~~~  483 (524)
                       ++-|..+.+-|+-+...+.+-.
T Consensus       266 -~~~pplmRehRLYQADwLlrfY  287 (404)
T COG4277         266 -DDKPPLMREHRLYQADWLLRFY  287 (404)
T ss_pred             -ccCCchhHHHHHHHHHHHHHHh
Confidence             5556667777776666555433

>PRK13758 anaerobic sulfatase-maturase; Provisional

Probab=98.30  E-value=0.00013  Score=76.79  Aligned_cols=171  Identities=12%  Similarity=0.145  Sum_probs=111.9

Q ss_pred             EEEcccCCccCcccccCCCCC-c----cccCChHHHHHHHHHHHHC--CCcEEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          238 VSVMRGCNNMCSFCIVPFTRG-R----ERSRPVESIVKEVDELWKE--GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       238 v~isRGC~~~CsFC~vp~~~G-~----~Rsr~~e~Iv~Ei~~l~~~--G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      +.++.+|+.+|.||..+.... +    ....+.+.+..-++.+.+.  +...|.|.|......            +    
T Consensus         9 ~~~t~~CNl~C~yC~~~~~~~~~~~~~~~~m~~~~~~~~i~~~~~~~~~~~~i~~~GGEPll~------------~----   72 (370)
T PRK13758          9 KPASSGCNLKCTYCFYHSLSDNRNVKSYGIMRDEVLESMVKRVLNEAEGHCSFAFQGGEPTLA------------G----   72 (370)
T ss_pred             ecCCCCcCCCCcccCCcCccccccccccCCCCHHHHHHHHHHHHhccCCceEEEEECCccccC------------C----
Confidence            344589999999998764211 1    1124555555555555443  344567776332221            0    


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhC-CceEE--EEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEF-PEMRF--RYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM  387 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~-~~~~i--r~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m  387 (524)
                                    ...+.++++.+.+.. ..+.+  .++ .+...++++.++.+++.  +. .+.|.+... +++-+.+
T Consensus        73 --------------~~~~~~~~~~~~~~~~~~~~~~~~i~-TNG~ll~~~~~~~l~~~--~~-~v~iSlDg~-~~~hd~~  133 (370)
T PRK13758         73 --------------LEFFEELMELQRKHNYKNLKIYNSLQ-TNGTLIDESWAKFLSEN--KF-LVGLSMDGP-KEIHNLN  133 (370)
T ss_pred             --------------hHHHHHHHHHHHHhccCCCeEEEEEE-ecCEecCHHHHHHHHHc--Cc-eEEEeecCC-HHHhccc
Confidence                          012446666555432 12233  333 45566889999999987  66 899999986 5676777


Q ss_pred             CC----CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEe
Q 041524          388 RR----GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFA  447 (524)
Q Consensus       388 ~R----~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~  447 (524)
                      ++    ..+.+.+.+.++.+++.  ++.+..-+++.  ..+.+++.+.++++.+++++.+.+..
T Consensus       134 R~~~~g~~~f~~v~~~i~~l~~~--~~~~~i~~~v~--~~n~~~l~~i~~~~~~~g~~~~~~~~  193 (370)
T PRK13758        134 RKDCCGLDTFSKVERAAELFKKY--KVEFNILCVVT--SNTARHVNKIYKYFKEKDFKFLQFIN  193 (370)
T ss_pred             cCCCCCCccHHHHHHHHHHHHHh--CCCceEEEEec--cccccCHHHHHHHHHHcCCCeEeeee
Confidence            63    45889999999999998  77666666665  35778899999999999998776543

>COG1509 KamA Lysine 2,3-aminomutase [Amino acid transport and metabolism]

Probab=98.28  E-value=8.9e-05  Score=75.69  Aligned_cols=182  Identities=20%  Similarity=0.221  Sum_probs=135.5

Q ss_pred             CCCeEEEEEEcccCCccCcccccCCCCCc-cccCChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          231 KNSVTAFVSVMRGCNNMCSFCIVPFTRGR-ERSRPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       231 ~~~~~a~v~isRGC~~~CsFC~vp~~~G~-~Rsr~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ....++.+.++-+|+-.|.||.-...-|. -...+.+++-.-+.++.+. -+.+|.|.|.+-.+.               
T Consensus       108 rY~drvLll~t~~C~vyCRyCfRr~~~~~~~~~~~~~~~~~al~YIa~hPeI~eVllSGGDPL~l---------------  172 (369)
T COG1509         108 RYPDRVLLLVTGVCAVYCRYCFRRRFVGQDNQGFNKEEWDKALDYIAAHPEIREVLLSGGDPLSL---------------  172 (369)
T ss_pred             ecCCeEEEEecCcccceeeecccccccccccccCCHHHHHHHHHHHHcCchhheEEecCCCcccc---------------
Confidence            34557888899999999999976554443 2335888888888888776 789999998654432               


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEec----CCCCCCCHHHHHHHHcCCCCcceeecC--cCCcCHH
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTS----PHPKDFPDELLYIMRDRPNVCKYIHLP--AQTGNSA  382 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s----~~p~~~~~elL~~l~~~~~G~~~i~ig--iESgs~~  382 (524)
                         +            ...+..|++++.++.....+|+.+    ..|..+++++.+.+.+.   -..+.+-  +.+..  
T Consensus       173 ---s------------~~~L~~ll~~L~~IpHv~iiRi~TR~pvv~P~RIt~~L~~~l~~~---~~~v~~~tH~NHp~--  232 (369)
T COG1509         173 ---S------------DKKLEWLLKRLRAIPHVKIIRIGTRLPVVLPQRITDELCEILGKS---RKPVWLVTHFNHPN--  232 (369)
T ss_pred             ---C------------HHHHHHHHHHHhcCCceeEEEeecccceechhhccHHHHHHHhcc---CceEEEEcccCChh--
Confidence               1            257999999999987777899987    46788899999999884   2333332  22211  


Q ss_pred             HHhhhCCCCCHHHHHHHHHHHHHhCCCcEEE--EeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          383 VLERMRRGYTREAYLDLVQKIRQIIPDVGLS--SDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       383 vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~--~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                             -. .++..++++.++++  |+.+.  +=++-|. .++.+-+.+..+-+..+++---++|..-+.+|+.-+.
T Consensus       233 -------Ei-t~e~~~A~~~L~~a--Gv~l~NQsVLLrGV-ND~~evl~~L~~~L~~~gV~PYYl~~~D~~~G~~hfr  299 (369)
T COG1509         233 -------EI-TPEAREACAKLRDA--GVPLLNQSVLLRGV-NDDPEVLKELSRALFDAGVKPYYLHQLDLVQGAAHFR  299 (369)
T ss_pred             -------hc-CHHHHHHHHHHHHc--Cceeecchheeccc-CCCHHHHHHHHHHHHHcCCcceEEeccCccCCcccee
Confidence                   11 25778999999999  98764  4556676 8999999999999988887766777888889988774

>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]

Probab=98.21  E-value=8.6e-05  Score=75.53  Aligned_cols=186  Identities=15%  Similarity=0.183  Sum_probs=121.7

Q ss_pred             EEEEEcccCCccCcccccCCCCCcc-cc----CChHHHHHHHHHHHH-CCCcE-EEEEeccCCCCCCccCCccccCCCCc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRGRE-RS----RPVESIVKEVDELWK-EGVKE-VTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G~~-Rs----r~~e~Iv~Ei~~l~~-~G~ke-i~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ..+..-+||.+.|.||....+.+.. .+    ...+.+++.++.-.. .+.+. ...++-+.-.|.             +
T Consensus        31 y~inpy~GC~h~C~YCYa~~~~~~~~~~~~~v~vk~n~~e~l~~el~~~~~k~~~i~is~~TDpyq-------------p   97 (297)
T COG1533          31 YTLNPYRGCSHGCIYCYARPMHGYLPKSPTKVNVKENLLELLERELRKPGPKRTVIAISSVTDPYQ-------------P   97 (297)
T ss_pred             eecCCcCCCCCCCceeecccccccccCCCceeeechhHHHHHHHHHhhccCCceEEEEecCCCCCC-------------c
Confidence            4567789999999999987665543 22    233447777765543 34443 334444433341             0


Q ss_pred             cccccCcccchhcccchhhHH-HHHHHHHhhCCceEEEEecCCC-CCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          309 WRLSEGFNSMCKVKKMGLRFA-DLLDRLSLEFPEMRFRYTSPHP-KDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~-~Ll~~l~~~~~~~~ir~~s~~p-~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                   .+....+. .+++.+.+.  ..++.+.+=.+ ..-|-++|..|+..  +...+.+.+-+.+.++.+.
T Consensus        98 -------------~E~~~~ltR~ilei~~~~--~~~v~I~TKS~lv~RDld~l~~~~~~--~~v~V~~Sitt~d~~l~k~  160 (297)
T COG1533          98 -------------IEKEYRLTRKILEILLKY--GFPVSIVTKSALVLRDLDLLLELAER--GKVRVAVSITTLDEELAKI  160 (297)
T ss_pred             -------------chHHHHHHHHHHHHHHHc--CCcEEEEECCcchhhhHHHHHhhhhc--cceEEEEEeecCcHHHHHh
Confidence                         00111222 233333332  23444443211 11244567766665  6778999999998889999


Q ss_pred             hCCCC-CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCC
Q 041524          387 MRRGY-TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRER  453 (524)
Q Consensus       387 m~R~~-t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pG  453 (524)
                      +--+. +.++-+++++.+.++  |+.+...+--=+|+.+.+++++.++.+.+.+...+....+....+
T Consensus       161 ~EP~apsp~~Ri~al~~l~ea--Gi~~~v~v~PIiP~~~d~e~e~~l~~~~~ag~~~v~~~~l~~~~~  226 (297)
T COG1533         161 LEPRAPSPEERLEALKELSEA--GIPVGLFVAPIIPGLNDEELERILEAAAEAGARVVVYGTLRLRLD  226 (297)
T ss_pred             cCCCCcCHHHHHHHHHHHHHC--CCeEEEEEecccCCCChHHHHHHHHHHHHcCCCeeEeeeeeccHH
Confidence            87654 789999999999999  988887776667999999999999999999998877666554444

>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family

Probab=98.17  E-value=0.0001  Score=75.15  Aligned_cols=153  Identities=14%  Similarity=0.071  Sum_probs=102.3

Q ss_pred             CChHHHHHHHHHHHH---CCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhh-HHHHHHHHHhh
Q 041524          263 RPVESIVKEVDELWK---EGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLR-FADLLDRLSLE  338 (524)
Q Consensus       263 r~~e~Iv~Ei~~l~~---~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~-~~~Ll~~l~~~  338 (524)
                      .+.+++++++.....   .+...|.|.|.....+                                .. +.++++.+.+.
T Consensus       106 ~t~eel~~~i~~~~~~~~~~~~~V~~sGGEPll~--------------------------------~~~l~~l~~~~k~~  153 (295)
T TIGR02494       106 MTVEEVMRVVLRDSIFYRNSGGGVTLSGGEPLLQ--------------------------------PEFALALLQACHER  153 (295)
T ss_pred             CcHHHHHHHHHHHHHhcccCCCcEEeeCcchhch--------------------------------HHHHHHHHHHHHHc
Confidence            467888888776432   2345677776333221                                23 35778777664


Q ss_pred             CCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEE
Q 041524          339 FPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFIC  418 (524)
Q Consensus       339 ~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~  418 (524)
                      .  +.+.+.+ +. .+.++.++.+..   .+..+.+.+.+.+++..+.+.. .+.+.+++.++.+.+....+.+..-+|.
T Consensus       154 g--~~~~i~T-nG-~~~~~~~~~ll~---~~d~~~isl~~~~~~~~~~~~g-~~~~~vl~~i~~l~~~~~~~~i~~~~v~  225 (295)
T TIGR02494       154 G--IHTAVET-SG-FTPWETIEKVLP---YVDLFLFDIKHLDDERHKEVTG-VDNEPILENLEALAAAGKNVVIRIPVIP  225 (295)
T ss_pred             C--CcEeeeC-CC-CCCHHHHHHHHh---hCCEEEEeeccCChHHHHHHhC-CChHHHHHHHHHHHhCCCcEEEEeceeC
Confidence            2  3444443 22 234455555554   3567788999999998887754 4778899999999998222344555565


Q ss_pred             cCCCCCHHHHHHHHHHHHHcC--CCeEEEEeeecCCCChh
Q 041524          419 GFCGETEEEHADTLTLMKAVG--YDMAYMFAYSMRERTHA  456 (524)
Q Consensus       419 G~PgET~ed~~~tl~~l~~l~--~d~~~i~~~sp~pGT~~  456 (524)
                      |+ .++.+++.+.++++.+++  +..+.+.+|.|....+.
T Consensus       226 ~~-n~~~~ei~~l~~~~~~~~~~v~~v~l~~~~~~g~~~~  264 (295)
T TIGR02494       226 GF-NDSEENIEAIAAFLRKLEPGVDEIDLLPYHRLGENKY  264 (295)
T ss_pred             Cc-CCCHHHHHHHHHHHHHhccCCceEEecCCCchhHHHH
Confidence            65 478899999999999998  67888888888776654

This subset of the radical-SAM family (pfam04055) includes a number of probable activating proteins acting on different enzymes all requiring an amino-acid-centered radical. The closest relatives to this family are the pyruvate-formate lyase activating enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic ribonucleotide reductase activating enzyme (TIGR02491). Included within this subfamily are activators of hydroxyphenyl acetate decarboxylase (HdpA, ), benzylsuccinate synthase (BssD, ), gycerol dehydratase (DhaB2, ) as well as enzymes annotated in E. coli as activators of different isozymes of pyruvate-formate lyase (PFLC and PFLE) however, these appear to lack characterization and may activate enzymes with distinctive functions. Most of the sequence-level variability between these forms is concentrated within an N-terminal domain which follows a conserved group of three cysteines and contains a variable pattern of 0

>COG0641 AslB Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]

Probab=98.16  E-value=0.00019  Score=75.51  Aligned_cols=197  Identities=13%  Similarity=0.152  Sum_probs=127.2

Q ss_pred             CCccCcccccCCCCCccccCChHHHHHHHHHHHHC-CCcE--EEEEeccCCCCCCccCCccccCCCCccccccCcccchh
Q 041524          244 CNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKE-GVKE--VTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCK  320 (524)
Q Consensus       244 C~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~-G~ke--i~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~  320 (524)
                      |+.+|.||..+......+..+.+.+.+-|+.+.+. +...  |.+.|                  |.|+-.         
T Consensus        18 CNL~C~YC~~~~~~~~~~~Ms~etle~~i~~~~~~~~~~~v~~~w~G------------------GEPlL~---------   70 (378)
T COG0641          18 CNLDCKYCFYLEKESLQRIMSDETLEEYVRQYIAASNGDKVTFTWQG------------------GEPLLA---------   70 (378)
T ss_pred             cCCCCCeeCcccCCCCCCCCCHHHHHHHHHHHHhhCCCCeeEEEEEC------------------Cccccc---------
Confidence            99999999886543333356777776677777654 4455  44444                  333211         


Q ss_pred             cccchhhHHHHHHHHHhh-CCceEEEEec-CCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCC----CCCHH
Q 041524          321 VKKMGLRFADLLDRLSLE-FPEMRFRYTS-PHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR----GYTRE  394 (524)
Q Consensus       321 ~~~~~~~~~~Ll~~l~~~-~~~~~ir~~s-~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R----~~t~e  394 (524)
                          +..|.+.+..+.+. ....++..+- .+...++++..+.+++.  +. .|-|.+. |..++-+..|+    ..|.+
T Consensus        71 ----~~~f~~~~~~l~~k~~~~~~i~~siqTNg~LL~~e~~e~l~~~--~~-~IgISiD-Gp~eihD~~R~~~~GkgTfd  142 (378)
T COG0641          71 ----GLDFYRKAVALQQKYANGKTISNALQTNGTLLNDEWAEFLAEH--DF-LIGISID-GPEEIHDKYRVTKSGKGTFD  142 (378)
T ss_pred             ----hHHHHHHHHHHHHHHhcCCeeEEEEEEcccccCHHHHHHHHhc--Cc-eEEEecc-CchHhccccccCCCCCccHH
Confidence                12333333333222 1234554332 56778999999999998  77 7777776 44666665553    34899


Q ss_pred             HHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHH
Q 041524          395 AYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLT  474 (524)
Q Consensus       395 ~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~  474 (524)
                      .+.+.++.+++.  ++.+..-..  ...++.+...+.++++.+.+...+.+.+.....++.. ......++...-.+.+.
T Consensus       143 ~i~~~i~~L~~~--~v~~~~~~v--v~~~n~~~~~ei~~~l~~~g~~~i~fip~~~~~~~~~-~~~~~~~~~~~~~~fl~  217 (378)
T COG0641         143 RVMKGLELLQAH--GVDFNTLTV--VNRQNVLHPEEIYHFLKSEGSKFIQFIPLVESDNRGD-SLLEFSVTAEEYGQFLI  217 (378)
T ss_pred             HHHHHHHHHHHc--CCcEEEEEE--EchhHhhCHHHHHHHHHHcccceEEEEecccCCCCCc-cccccccCHHHHHHHHH
Confidence            999999999998  877666555  5678999999999999999988788766655554432 11223566555555555


Q ss_pred             HHHHHH
Q 041524          475 ELIEAF  480 (524)
Q Consensus       475 ~l~~~~  480 (524)
                      .+.+..
T Consensus       218 ~~~~~~  223 (378)
T COG0641         218 AIFDEW  223 (378)
T ss_pred             HHHHHH
Confidence            544433

>KOG2535 consensus RNA polymerase II elongator complex, subunit ELP3/histone acetyltransferase [Chromatin structure and dynamics; Transcription]

Probab=98.14  E-value=5.6e-05  Score=75.96  Aligned_cols=109  Identities=11%  Similarity=0.051  Sum_probs=94.2

Q ss_pred             CCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCH-HH
Q 041524          349 PHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETE-EE  427 (524)
Q Consensus       349 ~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~-ed  427 (524)
                      .+|+.--...|..|-..  ||.++.||+||.-+++-+.-|||+|+..+-+.+..++++  |..+.+.+|-.+|.-.. .|
T Consensus       229 TRPDyC~~~Hl~~ML~Y--GCTRlEiGVQS~YEDVARDTNRGHTV~aVce~F~laKDa--G~KvV~HMMPdLPNVg~eRD  304 (554)
T KOG2535|consen  229 TRPDYCLKRHLSDMLTY--GCTRLEIGVQSVYEDVARDTNRGHTVKAVCESFHLAKDA--GFKVVAHMMPDLPNVGMERD  304 (554)
T ss_pred             cCcccchhhhHHHHHhc--CCceEEeccchhHHHhhhcccCCccHHHHHHHhhhhhcc--CceeehhhCCCCCCCchhhh
Confidence            57877777788888888  999999999999999999999999999999999999999  99999999999998654 46


Q ss_pred             HHHHHHHHHH--cCCCeEEEEeeecCCCChhcccCC
Q 041524          428 HADTLTLMKA--VGYDMAYMFAYSMRERTHAHRNYV  461 (524)
Q Consensus       428 ~~~tl~~l~~--l~~d~~~i~~~sp~pGT~~~~~~~  461 (524)
                      +++-.++.+.  .+.|.+.+++-....||-+|+.|+
T Consensus       305 ieqF~E~FenP~FR~DGLKiYPTLVIrGTGLyELWK  340 (554)
T KOG2535|consen  305 IEQFKEYFENPAFRPDGLKIYPTLVIRGTGLYELWK  340 (554)
T ss_pred             HHHHHHHhcCcCcCCCcceecceEEEecccHHHHHh
Confidence            6666666664  467888999988999999987543

>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]

Probab=98.04  E-value=0.00042  Score=69.37  Aligned_cols=175  Identities=18%  Similarity=0.233  Sum_probs=109.6

Q ss_pred             EEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHH-HHH--HCCCcEEEEEeccCCCCCCccCCccccCCCCcccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVD-ELW--KEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRL  311 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~-~l~--~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~  311 (524)
                      ..++-..-||+++|.||.-|.++..-+..+.+.+..|+- ...  ..+..-|++.|......                  
T Consensus        36 ~~~~vf~~GCnlrC~~C~N~~~~~~~~~~~~~~~~~e~l~~~~~~~~~~~gvt~SGGEP~~q------------------   97 (260)
T COG1180          36 IRLSVFLQGCNLRCPYCQNPEISQRGREVSGEEVSPEVLVDKAFYSESGGGVTFSGGEPTLQ------------------   97 (260)
T ss_pred             EEEEEEeCCCCCCCCCCCChhHhcccccCchhhcCHHHHHHHhhhcCCCCEEEEECCcchhh------------------
Confidence            555666899999999999887654212333333332222 221  12567788776433221                  


Q ss_pred             ccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC
Q 041524          312 SEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY  391 (524)
Q Consensus       312 ~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~  391 (524)
                                   ..-+.++++...+.  .....+.+  -..++++.++.+.+.   +..+.+-+=..+++..+.+- +.
T Consensus        98 -------------~e~~~~~~~~ake~--Gl~~~l~T--nG~~~~~~~~~l~~~---~D~v~~DlK~~~~~~y~~~t-g~  156 (260)
T COG1180          98 -------------AEFALDLLRAAKER--GLHVALDT--NGFLPPEALEELLPL---LDAVLLDLKAFDDELYRKLT-GA  156 (260)
T ss_pred             -------------HHHHHHHHHHHHHC--CCcEEEEc--CCCCCHHHHHHHHhh---cCeEEEeeccCChHHHHHHh-CC
Confidence                         12355666666554  23444432  234567777777664   67788888888988655554 44


Q ss_pred             CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCC-CeEEEEeee
Q 041524          392 TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGY-DMAYMFAYS  449 (524)
Q Consensus       392 t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~-d~~~i~~~s  449 (524)
                      +.+.+++.++.+.+...-+.++.-+|-|+ .+.++++++..+|+.++.. .-+++.+|.
T Consensus       157 ~~~~vl~~~~~l~~~g~~ve~r~lviPg~-~d~~e~i~~i~~~i~~~~~~~p~~~l~fh  214 (260)
T COG1180         157 DNEPVLENLELLADLGVHVEIRTLVIPGY-NDDEEEIRELAEFIADLGPEIPIHLLRFH  214 (260)
T ss_pred             CcHHHHHHHHHHHcCCCeEEEEEEEECCC-CCCHHHHHHHHHHHHhcCCcccEEEeccc
Confidence            44999999999999722334566777666 6799999999999998533 234444443

>TIGR03365 Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE

Probab=98.04  E-value=0.00025  Score=70.07  Aligned_cols=150  Identities=20%  Similarity=0.227  Sum_probs=92.5

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCC-----ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRG-----RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPG  306 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G-----~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g  306 (524)
                      ..+..||.+ .||+.+|.||..+....     .++..+.++++++++.+...|++.|.|+|.....+             
T Consensus        21 G~~~~FvR~-~gCNlrC~~Cdt~~~~~~~~~~~~~~~s~~ei~~~i~~~~~~~~~~V~lTGGEPll~-------------   86 (238)
T TIGR03365        21 GQKTMFVRT-GGCDYRCSWCDSLFTWDGSAKDTWRPMTAEEVWQELKALGGGTPLHVSLSGGNPALQ-------------   86 (238)
T ss_pred             CCeEEEEEe-CCcCCcCcCCCCccccCcccCCccccCCHHHHHHHHHHHhCCCCCeEEEeCCchhhh-------------
Confidence            456778885 69999999999765321     23357899999999988666788999998443322             


Q ss_pred             CccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          307 ANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       307 ~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                         ..+.+|++.+.+..  ..+.+.+ +.. +..+   .++.    +.++.+.+-..++     
T Consensus        87 -------------------~~l~~li~~l~~~g--~~v~leT-NGt-l~~~---~l~~----~d~v~vs~K~~~s-----  131 (238)
T TIGR03365        87 -------------------KPLGELIDLGKAKG--YRFALET-QGS-VWQD---WFRD----LDDLTLSPKPPSS-----  131 (238)
T ss_pred             -------------------HhHHHHHHHHHHCC--CCEEEEC-CCC-CcHH---HHhh----CCEEEEeCCCCCC-----
Confidence                               24788888887652  3455543 222 2233   2333    3366666664443     


Q ss_pred             hCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHc
Q 041524          387 MRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV  438 (524)
Q Consensus       387 m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l  438 (524)
                       +.....+...+.++.+++   +.....-|+++    ++.|++...++....
T Consensus       132 -g~~~~~~~~~~~ik~l~~---~~~~~vK~Vv~----~~~d~~~a~~~~~~~  175 (238)
T TIGR03365       132 -GMETDWQALDDCIERLDD---GPQTSLKVVVF----DDADYAYAKEVHARY  175 (238)
T ss_pred             -CCCCcHHHHHHHHHHhhh---cCceEEEEEEC----CcccHHHHHHHHHhc
Confidence             112246666777777765   35667777777    233344444444443

This uncharacterized enzyme, designated QueE, participates in the biosynthesis, from GTP, of 7-cyano-7-deazaguanosine, also called preQ0 because in many species it is a precursor of queuosine. In most Archaea, it is instead the precursor of a different tRNA modified base, archaeosine.

>COG1625 Fe-S oxidoreductase, related to NifB/MoaA family [Energy production and conversion]

Probab=97.89  E-value=0.00022  Score=74.17  Aligned_cols=152  Identities=16%  Similarity=0.145  Sum_probs=111.6

Q ss_pred             hHHHHHHHHHhhCCc--eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHH
Q 041524          327 RFADLLDRLSLEFPE--MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIR  404 (524)
Q Consensus       327 ~~~~Ll~~l~~~~~~--~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir  404 (524)
                      ++.++....+...+.  .++.+++-.-...+ +..+.+-++  |...+.+.+.|.++++.++|-|....++.++.++++.
T Consensus        95 ~le~~~~r~~~~~~d~~~rL~~tsG~~~~lt-~~~~~i~~~--gvdev~~SVhtT~p~lR~klm~n~~A~~~le~L~~f~  171 (414)
T COG1625          95 DLEPRGRRARLYYKDDDIRLSFTSGSGFTLT-NRAERIIDA--GVDEVYFSVHTTNPELRAKLMKNPNAEQLLELLRRFA  171 (414)
T ss_pred             chhhhhhHHHhhcCCccceeeeeeccceecc-chHHHHHHc--CCCeeEEEEeeCCHHHHHHHhcCCcHHHHHHHHHHHH
Confidence            466666666665534  44555544433333 344446667  9999999999999999999999999999999999999


Q ss_pred             HhCCCcEEEEeEEEcCCCCC-HHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHHHHHHHHHHHHH
Q 041524          405 QIIPDVGLSSDFICGFCGET-EEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAFRES  483 (524)
Q Consensus       405 ~~~pgi~i~~~fI~G~PgET-~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~Rl~~l~~~~~~~  483 (524)
                      +.  ++.+.+++++= ||=+ -+++.+|++-+.+.+.+.+.++.+.|.=-|....    .+-...+..-+.++..+.++.
T Consensus       172 ~~--~~~v~a~iVl~-PGvNdge~L~kT~~dL~~~g~~~~~~~~~~pvGlt~~n~----~~i~~~t~~~l~~~k~i~re~  244 (414)
T COG1625         172 ER--CIEVHAQIVLC-PGVNDGEELEKTLEDLEEWGAHEVILMRVVPVGLTRYNR----PGIRPPTPHELEEFKEIVREF  244 (414)
T ss_pred             Hh--hhheeeEEEEc-CCcCcHHHHHHHHHHHHHhCcCceeEEEeecceeeecCC----CCCCCCCHHHHHHHHHHHHHH
Confidence            99  88999987764 8887 8999999999999999988887755654443332    234444555666666666666


Q ss_pred             HHHHH
Q 041524          484 TGQCY  488 (524)
Q Consensus       484 ~~~~~  488 (524)
                      ..+..
T Consensus       245 ~~E~~  249 (414)
T COG1625         245 DRELG  249 (414)
T ss_pred             HHhcC
Confidence            55555

>COG1313 PflX Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]

Probab=97.76  E-value=0.00095  Score=66.21  Aligned_cols=162  Identities=19%  Similarity=0.175  Sum_probs=106.4

Q ss_pred             ccCCccCcccccCCC--CCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccch
Q 041524          242 RGCNNMCSFCIVPFT--RGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMC  319 (524)
Q Consensus       242 RGC~~~CsFC~vp~~--~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~  319 (524)
                      -||+++|-||.-.-.  .|.-+...++++.+=+..+.+.|.+.|.|++.+.+.+                          
T Consensus       126 sgCnfrCVfCQNwdISq~~~g~~v~~e~La~i~~~~~~~GakNvN~Vgg~Ptp~--------------------------  179 (335)
T COG1313         126 SGCNFRCVFCQNWDISQFGIGKEVTPEDLAEIILELRRHGAKNVNFVGGDPTPH--------------------------  179 (335)
T ss_pred             cCcceEEEEecCccccccCCCeEecHHHHHHHHHHHHHhcCcceeecCCCCCCc--------------------------
Confidence            599999999986532  2334567788888888888888999999998554322                          


Q ss_pred             hcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecC-cCCcCHHHHhhhCCCCC-HHHHH
Q 041524          320 KVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLP-AQTGNSAVLERMRRGYT-REAYL  397 (524)
Q Consensus       320 ~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~ig-iESgs~~vL~~m~R~~t-~e~~~  397 (524)
                           ...+.+.|+.+....|..|   .|  -...+.|.+++|.    |..-|.+| +-=|+++--.+..|--+ .+-+.
T Consensus       180 -----lp~Ile~l~~~~~~iPvvw---NS--nmY~s~E~l~lL~----gvVDiyL~DfKYgNdeca~kySkvp~Y~eVv~  245 (335)
T COG1313         180 -----LPFILEALRYASENIPVVW---NS--NMYMSEETLKLLD----GVVDIYLPDFKYGNDECAEKYSKVPNYWEVVT  245 (335)
T ss_pred             -----hHHHHHHHHHHhcCCCEEE---ec--CCccCHHHHHHhh----ccceeeecccccCCHHHHHHhhcCCchHHHHH
Confidence                 1235555555554444444   22  2356899999995    55556555 45678888777777433 56666


Q ss_pred             HHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEE
Q 041524          398 DLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMF  446 (524)
Q Consensus       398 ~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~  446 (524)
                      +.+..+.+...|+-|.--++   ||--+.--..-++|+.+.-.+.+.+.
T Consensus       246 rn~~~~~~~~g~~iiRHLVl---PghlecCTkpI~~wiae~~g~~~~vN  291 (335)
T COG1313         246 RNILEAKEQVGGLIIRHLVL---PGHLECCTKPILRWIAENLGNDVRVN  291 (335)
T ss_pred             HHHHHHHHhcCceEEEEEec---CCchhhccHHHHHHHHHhCCCCeeEE
Confidence            77777777655565555554   65444435667899988766555543

>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase

Probab=97.75  E-value=0.0017  Score=68.82  Aligned_cols=81  Identities=9%  Similarity=0.123  Sum_probs=70.6

Q ss_pred             CCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCH-HHHHHH
Q 041524          353 DFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETE-EEHADT  431 (524)
Q Consensus       353 ~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~-ed~~~t  431 (524)
                      .++++-++.+.+.  ...-+.+.+.|.+++..++|-+.-..+++++.++++.++  ||.+++.+++ .||=+. +++++|
T Consensus       125 Nl~~~d~~RI~~~--~lspl~iSVhat~p~lR~~ll~n~~a~~il~~l~~l~~~--~I~~h~qiVl-cPGiNDg~~L~~T  199 (433)
T TIGR03279       125 NLPPAEWQRIEQL--RLSPLYVSVHATEPSLRARLLKNPRAGLILEQLKWFQER--RLQLHAQVVV-CPGINDGKHLERT  199 (433)
T ss_pred             CCCHHHHHHHHHc--CCCCEEEEEecCCHHHHHHHhCCCCHHHHHHHHHHHHHc--CCeEEEEEEE-cCCcCCHHHHHHH
Confidence            4567777777777  789999999999999999998777899999999999999  9999988665 488766 799999


Q ss_pred             HHHHHHc
Q 041524          432 LTLMKAV  438 (524)
Q Consensus       432 l~~l~~l  438 (524)
                      +..+.++
T Consensus       200 i~dL~~~  206 (433)
T TIGR03279       200 LRDLAQF  206 (433)
T ss_pred             HHHHHhh
Confidence            9999998

Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.

>cd02067 B12-binding B12 binding domain (B12-BD)

Probab=97.09  E-value=0.0032  Score=55.04  Aligned_cols=81  Identities=19%  Similarity=0.214  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHCCCeeccCC-------------CCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccC
Q 041524           93 MEIVLSIMKNAGYSEVINV-------------PENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSK  159 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~~-------------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  159 (524)
                      .-.++..|+..||+++...             ..++|+|+|++. .+... ..+.+.++.+   +            +..
T Consensus        16 ~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~~~~~pdvV~iS~~-~~~~~-~~~~~~i~~l---~------------~~~   78 (119)
T cd02067          16 KNIVARALRDAGFEVIDLGVDVPPEEIVEAAKEEDADAIGLSGL-LTTHM-TLMKEVIEEL---K------------EAG   78 (119)
T ss_pred             HHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEecc-ccccH-HHHHHHHHHH---H------------HcC
Confidence            7789999999999863211             148999999443 23322 2333444333   1            123


Q ss_pred             C-CCEEEEEcccccccHHHHHhhCCcceEEECCC
Q 041524          160 H-PPKIVVLGCMAERLKDKILDADKMVDVVCGPD  192 (524)
Q Consensus       160 p-~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~ge  192 (524)
                      + +++|++||.+++..++.+.+  -.+|.++...
T Consensus        79 ~~~~~i~vGG~~~~~~~~~~~~--~G~D~~~~~~  110 (119)
T cd02067          79 LDDIPVLVGGAIVTRDFKFLKE--IGVDAYFGPA  110 (119)
T ss_pred             CCCCeEEEECCCCChhHHHHHH--cCCeEEECCH
Confidence            5 78999999999987765543  4689988753

This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.

>COG2108 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]

Probab=97.09  E-value=0.014  Score=59.08  Aligned_cols=165  Identities=20%  Similarity=0.284  Sum_probs=106.0

Q ss_pred             EEEEEcccCCccCcccccCCC-CCc------cc-cCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCC
Q 041524          236 AFVSVMRGCNNMCSFCIVPFT-RGR------ER-SRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGA  307 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~-~G~------~R-sr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~  307 (524)
                      ..|-++-=||..|-||.+... .|+      .| -.+.++|+.|+......|   +-++|                  |.
T Consensus        30 lVlFvTG~C~~~CfYCPvs~~r~gkdviyaNErpV~~~eDii~ea~~~~a~G---asiTG------------------Gd   88 (353)
T COG2108          30 LVLFVTGLCNRSCFYCPVSDERKGKDVIYANERPVKSVEDIIEEAKLMDALG---ASITG------------------GD   88 (353)
T ss_pred             eEEEEecccCCCcccCcCCHHhcCCcceeecccccCcHHHHHHHHHHhcccc---ccccC------------------CC
Confidence            456677889999999988643 232      11 245677777777664444   34444                  22


Q ss_pred             ccccccCcccchhcccchhhHHHHHHHHHhhCCc-eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          308 NWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE-MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       308 ~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~-~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                      ++             -.-.+..+.++.+++.++. +.+.+ +.++...+++.|+.|.++  |..-|-+-.-.-+      
T Consensus        89 Pl-------------~~ieR~~~~ir~LK~efG~~fHiHL-YT~g~~~~~e~l~~L~eA--GLDEIRfHp~~~~------  146 (353)
T COG2108          89 PL-------------LEIERTVEYIRLLKDEFGEDFHIHL-YTTGILATEEALKALAEA--GLDEIRFHPPRPG------  146 (353)
T ss_pred             hH-------------HHHHHHHHHHHHHHHhhccceeEEE-eeccccCCHHHHHHHHhC--CCCeEEecCCCcc------
Confidence            21             0124566777777776642 34443 345667899999999999  9875443321111      


Q ss_pred             hCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec
Q 041524          387 MRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM  450 (524)
Q Consensus       387 m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp  450 (524)
                         ....+.+++.+..+++.  |+.+... |-..||+ ++.+.+.++++.+.+.+.+++.-+-.
T Consensus       147 ---~~~~e~~i~~l~~A~~~--g~dvG~E-iPaipg~-e~~i~e~~~~~~~~~~~FlNiNELE~  203 (353)
T COG2108         147 ---SKSSEKYIENLKIAKKY--GMDVGVE-IPAIPGE-EEAILEFAKALDENGLDFLNINELEF  203 (353)
T ss_pred             ---ccccHHHHHHHHHHHHh--Cccceee-cCCCcch-HHHHHHHHHHHHhcccceeeeeeeee
Confidence               02357899999999998  6554433 4556765 45566788999999988888876643

>PRK10076 pyruvate formate lyase II activase; Provisional

Probab=96.88  E-value=0.12  Score=50.30  Aligned_cols=151  Identities=16%  Similarity=0.140  Sum_probs=107.2

Q ss_pred             ccCChHHHHHHHHHHHH---CCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHh
Q 041524          261 RSRPVESIVKEVDELWK---EGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSL  337 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~---~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~  337 (524)
                      +..++++|++++..-..   .+-.-|+|.|.....+                               ..-+.++++++.+
T Consensus        17 ~~~t~eel~~~~~~~~~f~~~sggGVt~SGGEPllq-------------------------------~~fl~~l~~~~k~   65 (213)
T PRK10076         17 RDITLDALEREVMKDDIFFRTSGGGVTLSGGEVLMQ-------------------------------AEFATRFLQRLRL   65 (213)
T ss_pred             cccCHHHHHHHHHhhhHhhcCCCCEEEEeCchHHcC-------------------------------HHHHHHHHHHHHH
Confidence            44789999999887532   2334577776443322                               1124577777766


Q ss_pred             hCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          338 EFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       338 ~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      ..  +...+.+.  ...+.+.++.+..   .+..+.+-+=+.+++..+.+- |.+.+.+++.++.+.+....+.+.+-+|
T Consensus        66 ~g--i~~~leTn--G~~~~~~~~~l~~---~~D~~l~DiK~~d~~~~~~~t-G~~~~~il~nl~~l~~~g~~v~iR~~vI  137 (213)
T PRK10076         66 WG--VSCAIETA--GDAPASKLLPLAK---LCDEVLFDLKIMDATQARDVV-KMNLPRVLENLRLLVSEGVNVIPRLPLI  137 (213)
T ss_pred             cC--CCEEEECC--CCCCHHHHHHHHH---hcCEEEEeeccCCHHHHHHHH-CCCHHHHHHHHHHHHhCCCcEEEEEEEE
Confidence            42  33334322  2356677777765   477888888899998877774 4678999999999999844456788888


Q ss_pred             EcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC
Q 041524          418 CGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMR  451 (524)
Q Consensus       418 ~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~  451 (524)
                      -|+ .+++|++++..+|+..++++.+++.+|.+.
T Consensus       138 Pg~-nd~~e~i~~ia~~l~~l~~~~~~llpyh~~  170 (213)
T PRK10076        138 PGF-TLSRENMQQALDVLIPLGIKQIHLLPFHQY  170 (213)
T ss_pred             CCC-CCCHHHHHHHHHHHHHcCCceEEEecCCcc
Confidence            776 578999999999999998888888888875

>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=96.85  E-value=0.0039  Score=56.99  Aligned_cols=53  Identities=21%  Similarity=0.293  Sum_probs=39.0

Q ss_pred             EEEEEcccCCccCcccccCCCCCc--cccCChHHHHHHHHHHHHCCCcEEEEEecc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRGR--ERSRPVESIVKEVDELWKEGVKEVTLLGQN  289 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G~--~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n  289 (524)
                      .++-.-.|||.+|.||..+..+..  ....+.++++++|+.+.. .+..|+|+|..
T Consensus        17 ~~~vfl~GCnlrC~~C~n~~~~~~~~g~~lt~eel~~~I~~~~~-~~~gVt~SGGE   71 (147)
T TIGR02826        17 SLAFYITGCPLGCKGCHSPESWHLSEGTKLTPEYLTKTLDKYRS-LISCVLFLGGE   71 (147)
T ss_pred             EEEEEeCCCCCCCCCCCChHHcCCCCCcCCCHHHHHHHHHHhCC-CCCEEEEechh
Confidence            334445799999999998866432  346789999999888653 35678888865

Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.

>PF13394 Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B 1TV7_A 2FB2_A 2FB3_A

Probab=96.82  E-value=0.0025  Score=55.49  Aligned_cols=79  Identities=24%  Similarity=0.430  Sum_probs=43.0

Q ss_pred             cccCCccCcccccCCCCC--ccccCChHHHHHHHHHHHHCCC--cEEEEEeccCCCCCCccCCccccCCCCccccccCcc
Q 041524          241 MRGCNNMCSFCIVPFTRG--RERSRPVESIVKEVDELWKEGV--KEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFN  316 (524)
Q Consensus       241 sRGC~~~CsFC~vp~~~G--~~Rsr~~e~Iv~Ei~~l~~~G~--kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~  316 (524)
                      ..+|+.+|.||.......  .....+.+.+.+.++.+.+.+.  ..|.|.|.....+.                      
T Consensus         5 t~~Cnl~C~~C~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~~~GGEPll~~----------------------   62 (119)
T PF13394_consen    5 TSGCNLRCSYCYNKSSWSPKKGEEMSIEELEEIIDELKEKGFRPSTVVFTGGEPLLYL----------------------   62 (119)
T ss_dssp             -S--S---TTTS-TTTSST-GGGS--HHHHHHHHHHHHHTT----EEEEESSSGGGST----------------------
T ss_pred             cCCcCCCCccCCcCccCCCccCCcccHhHHHHHHHHHHhcCCceEEEEEECCCCcccc----------------------
Confidence            689999999999755332  3566788899999988877766  56888885443220                      


Q ss_pred             cchhcccchhhHHHHHHHHHhhCCceEEEEec
Q 041524          317 SMCKVKKMGLRFADLLDRLSLEFPEMRFRYTS  348 (524)
Q Consensus       317 ~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s  348 (524)
                             ....+.++++.+.+..+...+.+.+
T Consensus        63 -------~~~~l~~~i~~~~~~~~~~~i~i~T   87 (119)
T PF13394_consen   63 -------NPEDLIELIEYLKERGPEIKIRIET   87 (119)
T ss_dssp             -------THHHHHHHHCTSTT-----EEEEEE
T ss_pred             -------CHHHHHHHHHHHHhhCCCceEEEEe
Confidence                   1235778888877776556666664

>COG5014 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=96.82  E-value=0.045  Score=50.55  Aligned_cols=156  Identities=15%  Similarity=0.199  Sum_probs=98.1

Q ss_pred             cccCCccCcccccCCCCC----ccccCChHHHHHHHHHHHHC-CCcEEEEEeccCCCCCCccCCccccCCCCccccccCc
Q 041524          241 MRGCNNMCSFCIVPFTRG----RERSRPVESIVKEVDELWKE-GVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGF  315 (524)
Q Consensus       241 sRGC~~~CsFC~vp~~~G----~~Rsr~~e~Iv~Ei~~l~~~-G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~  315 (524)
                      .-||+..|.||...+.+-    .+...+|++|++.+..+.+. |...+.+.|.....-                      
T Consensus        48 ~VGCnl~CayCw~y~r~~~~~rag~f~~P~eVaeRL~ei~K~~g~d~vRiSG~EP~l~----------------------  105 (228)
T COG5014          48 TVGCNLLCAYCWNYFRNLRPKRAGDFLSPEEVAERLLEISKKRGCDLVRISGAEPILG----------------------  105 (228)
T ss_pred             ccccceeeHHhhhhhhcCCccccccccCHHHHHHHHHHHHHhcCCcEEEeeCCCcccc----------------------
Confidence            589999999998743322    23457899999998888664 888888876432211                      


Q ss_pred             ccchhcccchhhHHHHHHHHHhhCCceEEEEecC-CCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCC--
Q 041524          316 NSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP-HPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYT--  392 (524)
Q Consensus       316 ~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~-~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t--  392 (524)
                               ..++.++++.+.+    ..+-+.+. ---.++..+.+.+...++.  .+-+.+--.+++-..++-- .+  
T Consensus       106 ---------~EHvlevIeLl~~----~tFvlETNG~~~g~drslv~el~nr~nv--~vRVsvKG~dpesF~kIT~-asp~  169 (228)
T COG5014         106 ---------REHVLEVIELLVN----NTFVLETNGLMFGFDRSLVDELVNRLNV--LVRVSVKGWDPESFEKITG-ASPE  169 (228)
T ss_pred             ---------HHHHHHHHHhccC----ceEEEEeCCeEEecCHHHHHHHhcCCce--EEEEEecCCCHHHHHHHhc-CChH
Confidence                     2456666665532    22222211 1123589999999987554  4555666778888777642 22  


Q ss_pred             -HHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHc
Q 041524          393 -REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV  438 (524)
Q Consensus       393 -~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l  438 (524)
                       ..--+++++.+.+.  |+.+..-++.+|-  +++..++....+-++
T Consensus       170 ~F~~QL~aLr~L~~~--g~rf~pA~~~~f~--~Ed~~k~Lak~Lgeh  212 (228)
T COG5014         170 YFRYQLKALRHLHGK--GHRFWPAVVYDFF--REDGLKELAKRLGEH  212 (228)
T ss_pred             HHHHHHHHHHHHHhc--Cceeeehhhhccc--hhhhHHHHHHHhccC
Confidence             44556777777777  8888888888883  333333344444444

>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily

Probab=96.75  E-value=0.085  Score=52.48  Aligned_cols=151  Identities=8%  Similarity=0.080  Sum_probs=108.3

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      ....+.++.++-++.|.+.|+..|.+.+......             .+               ......++++.+.+..
T Consensus        13 ~~~~s~e~~~~i~~~L~~~GV~~IEvg~~~~~~~-------------~p---------------~~~~~~~~i~~l~~~~   64 (265)
T cd03174          13 GATFSTEDKLEIAEALDEAGVDSIEVGSGASPKA-------------VP---------------QMEDDWEVLRAIRKLV   64 (265)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCCEEEeccCcCccc-------------cc---------------cCCCHHHHHHHHHhcc
Confidence            3556999999999999999999998875432211             00               1134667778887765


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      +..++.... +.   ..+.++.++++  |...+.+.+-..+.......+|+.  ..+...+.++.+++.  |+.+..+++
T Consensus        65 ~~~~~~~l~-~~---~~~~i~~a~~~--g~~~i~i~~~~s~~~~~~~~~~~~~~~~~~~~~~i~~a~~~--G~~v~~~~~  136 (265)
T cd03174          65 PNVKLQALV-RN---REKGIERALEA--GVDEVRIFDSASETHSRKNLNKSREEDLENAEEAIEAAKEA--GLEVEGSLE  136 (265)
T ss_pred             CCcEEEEEc-cC---chhhHHHHHhC--CcCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEE
Confidence            444442221 11   17788889888  999999998544433344445554  678899999999999  999888886


Q ss_pred             EcC-CCCCHHHHHHHHHHHHHcCCCeEEEE
Q 041524          418 CGF-CGETEEEHADTLTLMKAVGYDMAYMF  446 (524)
Q Consensus       418 ~G~-PgET~ed~~~tl~~l~~l~~d~~~i~  446 (524)
                      .-+ |..+.+.+.+.++.+.+++++.+.+.
T Consensus       137 ~~~~~~~~~~~l~~~~~~~~~~g~~~i~l~  166 (265)
T cd03174         137 DAFGCKTDPEYVLEVAKALEEAGADEISLK  166 (265)
T ss_pred             eecCCCCCHHHHHHHHHHHHHcCCCEEEec
Confidence            555 35899999999999999999987753

The DRE-TIM metallolyase superfamily includes 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=96.67  E-value=0.043  Score=49.19  Aligned_cols=108  Identities=14%  Similarity=0.113  Sum_probs=66.9

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCC--------------CCCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINV--------------PENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~--------------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      .|+.+.+.|.-.--.=...+...|+..||+++ +.              .++||+|+|++..  ......+-..++.+  
T Consensus         3 ~~v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi-~lg~~~s~e~~v~aa~e~~adii~iSsl~--~~~~~~~~~~~~~L--   77 (132)
T TIGR00640         3 PRILVAKMGQDGHDRGAKVIATAYADLGFDVD-VGPLFQTPEEIARQAVEADVHVVGVSSLA--GGHLTLVPALRKEL--   77 (132)
T ss_pred             CEEEEEeeCCCccHHHHHHHHHHHHhCCcEEE-ECCCCCCHHHHHHHHHHcCCCEEEEcCch--hhhHHHHHHHHHHH--
Confidence            45777777763333346789999999999863 22              1589999995543  22222233333333  


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHh
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVD  205 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~  205 (524)
                       +.           +..+..+|++||-.+....+++.+  -++|-++....  ++.+.+..+.
T Consensus        78 -~~-----------~g~~~i~vivGG~~~~~~~~~l~~--~Gvd~~~~~gt--~~~~i~~~l~  124 (132)
T TIGR00640        78 -DK-----------LGRPDILVVVGGVIPPQDFDELKE--MGVAEIFGPGT--PIPESAIFLL  124 (132)
T ss_pred             -Hh-----------cCCCCCEEEEeCCCChHhHHHHHH--CCCCEEECCCC--CHHHHHHHHH
Confidence             11           122467899999777655555543  57888888754  6666666553

Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.

>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A

Probab=96.41  E-value=0.006  Score=54.48  Aligned_cols=71  Identities=24%  Similarity=0.377  Sum_probs=38.7

Q ss_pred             cccCCccCcccccCCCCCcc-ccCChHHHHHHHHH-HHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccc
Q 041524          241 MRGCNNMCSFCIVPFTRGRE-RSRPVESIVKEVDE-LWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSM  318 (524)
Q Consensus       241 sRGC~~~CsFC~vp~~~G~~-Rsr~~e~Iv~Ei~~-l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~  318 (524)
                      +.||+.+|.||..+..+... -..-..++++++-. +.+.++..|.|.|.....+                         
T Consensus        12 t~~Cnl~C~yC~~~~~~~~~~~~~~~~~~~~~ii~~~~~~~~~~i~l~GGEPll~-------------------------   66 (139)
T PF13353_consen   12 TNGCNLRCKYCFNSEIWKFKRGKELSEEIIEEIIEELKNYGIKGIVLTGGEPLLH-------------------------   66 (139)
T ss_dssp             EC--SB--TT-TTCCCS-TT-SEEC-HHHHHHHCHHHCCCCCCEEEEECSTGGGH-------------------------
T ss_pred             cCcccccCcCcCCcccCcccccccccchhhhhhhhHHhcCCceEEEEcCCCeeee-------------------------
Confidence            77899999999876554321 11122455555443 4356899999998443331                         


Q ss_pred             hhcccchhhHHHHHHHHHhhCC
Q 041524          319 CKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       319 ~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                          .....+.++++.+.+..+
T Consensus        67 ----~~~~~l~~i~~~~k~~~~   84 (139)
T PF13353_consen   67 ----ENYDELLEILKYIKEKFP   84 (139)
T ss_dssp             ----HSHHHHHHHHHHHHHTT-
T ss_pred             ----ccHhHHHHHHHHHHHhCC
Confidence                012458888888888766

>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm)

Probab=96.30  E-value=0.039  Score=49.07  Aligned_cols=91  Identities=13%  Similarity=0.204  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHCCCeeccCC--------------CCCCcEEEEeeccCcch-HHHHHHHHHHHHHHhhhhhhhcccccccc
Q 041524           93 MEIVLSIMKNAGYSEVINV--------------PENAEVIFINTCAIRDY-AEHKVWQRLNYFWFLKREWKKNVATGRSQ  157 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~~--------------~~~aDvv~intc~v~~~-a~~~~~~~l~~~~~~~~~~~~~~~~~~~~  157 (524)
                      -.++...|+.+||++ ++-              .++||+|++++..-+.. .-.++.+.+++                 +
T Consensus        16 kniv~~~L~~~GfeV-idLG~~v~~e~~v~aa~~~~adiVglS~L~t~~~~~~~~~~~~l~~-----------------~   77 (128)
T cd02072          16 NKILDHAFTEAGFNV-VNLGVLSPQEEFIDAAIETDADAILVSSLYGHGEIDCKGLREKCDE-----------------A   77 (128)
T ss_pred             HHHHHHHHHHCCCEE-EECCCCCCHHHHHHHHHHcCCCEEEEeccccCCHHHHHHHHHHHHH-----------------C
Confidence            678889999999986 322              15899999987654432 22233333322                 2


Q ss_pred             cCCCCEEEEEcccc--c-ccH--HHHHhhCCcceEEECCCCcccHHHHHHHH
Q 041524          158 SKHPPKIVVLGCMA--E-RLK--DKILDADKMVDVVCGPDAYRDLPRLLEEV  204 (524)
Q Consensus       158 ~~p~~~IvvgG~~a--t-~~~--e~~l~~~~~vD~Vv~gege~~l~~Ll~~~  204 (524)
                      ...+.+|++||..+  . ...  ++.+.+ -++|.|+++..  ++.+++..+
T Consensus        78 gl~~v~vivGG~~~i~~~d~~~~~~~L~~-~Gv~~vf~pgt--~~~~i~~~l  126 (128)
T cd02072          78 GLKDILLYVGGNLVVGKQDFEDVEKRFKE-MGFDRVFAPGT--PPEEAIADL  126 (128)
T ss_pred             CCCCCeEEEECCCCCChhhhHHHHHHHHH-cCCCEEECcCC--CHHHHHHHH
Confidence            22368999999743  2 221  133443 57999999765  677777665

Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.

>COG0602 NrdG Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]

Probab=95.88  E-value=0.021  Score=55.47  Aligned_cols=57  Identities=23%  Similarity=0.411  Sum_probs=42.4

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCC-----ccccCChHHHHHHHHHHHHCCCcEEEEEeccC
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRG-----RERSRPVESIVKEVDELWKEGVKEVTLLGQNV  290 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G-----~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~  290 (524)
                      ..+..||.+ -|||.+|.+|..+.++.     .+...+.++|+++++.+.. +.+.|.|+|.+.
T Consensus        21 Gr~~vFVR~-~GC~l~C~~Cdt~~t~~~~~~~~~~~~~~~~I~~~i~~~~~-~~~~V~lTGGEP   82 (212)
T COG0602          21 GRPSVFVRF-AGCNLRCPGCDTKYTWDFNYGKPGTPMSADEILADIKSLGY-KARGVSLTGGEP   82 (212)
T ss_pred             cceeEEEEc-CCCCCCCCCCCChhhhcccccCCCCccCHHHHHHHHHhcCC-CcceEEEeCCcC
Confidence            345677753 59999999999886653     4677899999999998632 344788988554

>PRK02261 methylaspartate mutase subunit S; Provisional

Probab=95.74  E-value=0.31  Score=43.93  Aligned_cols=109  Identities=13%  Similarity=0.105  Sum_probs=61.5

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccC---C----------CCCCcEEEEeeccCcchHHHHHHHHHHHHHHh
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVIN---V----------PENAEVIFINTCAIRDYAEHKVWQRLNYFWFL  143 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~---~----------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~  143 (524)
                      +++-+-+.|.-....=.-.+.-.|+..||+++.-   .          ..+||+|++++..-.  ....+.+.+.++   
T Consensus         4 ~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~--~~~~~~~~~~~L---   78 (137)
T PRK02261          4 KTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMTSQEEFIDAAIETDADAILVSSLYGH--GEIDCRGLREKC---   78 (137)
T ss_pred             CEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcCcccc--CHHHHHHHHHHH---
Confidence            3444444433333333678888999999986311   1          158999999655432  233344444433   


Q ss_pred             hhhhhhcccccccccCCCCEEEEEccccc--ccHH---HHHhhCCcceEEECCCCcccHHHHHHHH
Q 041524          144 KREWKKNVATGRSQSKHPPKIVVLGCMAE--RLKD---KILDADKMVDVVCGPDAYRDLPRLLEEV  204 (524)
Q Consensus       144 ~~~~~~~~~~~~~~~~p~~~IvvgG~~at--~~~e---~~l~~~~~vD~Vv~gege~~l~~Ll~~~  204 (524)
                      +           ++..++.+|++||..++  ..++   +.+++. ++|.|+.+..  ++.+.+..+
T Consensus        79 ~-----------~~~~~~~~i~vGG~~~~~~~~~~~~~~~l~~~-G~~~vf~~~~--~~~~i~~~l  130 (137)
T PRK02261         79 I-----------EAGLGDILLYVGGNLVVGKHDFEEVEKKFKEM-GFDRVFPPGT--DPEEAIDDL  130 (137)
T ss_pred             H-----------hcCCCCCeEEEECCCCCCccChHHHHHHHHHc-CCCEEECcCC--CHHHHHHHH
Confidence            1           12235789999997633  2333   233443 5899998544  455555444

>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit

Probab=95.51  E-value=0.16  Score=45.60  Aligned_cols=93  Identities=14%  Similarity=0.123  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHCCCeeccCC--------------CCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccccc
Q 041524           93 MEIVLSIMKNAGYSEVINV--------------PENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQS  158 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~~--------------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  158 (524)
                      -.++...|+++||++ ++-              .++||+|++++..-+..  ..+.+.++.+   +           ++.
T Consensus        18 k~iv~~~l~~~GfeV-i~LG~~v~~e~~v~aa~~~~adiVglS~l~~~~~--~~~~~~~~~l---~-----------~~g   80 (134)
T TIGR01501        18 NKILDHAFTNAGFNV-VNLGVLSPQEEFIKAAIETKADAILVSSLYGHGE--IDCKGLRQKC---D-----------EAG   80 (134)
T ss_pred             HHHHHHHHHHCCCEE-EECCCCCCHHHHHHHHHHcCCCEEEEecccccCH--HHHHHHHHHH---H-----------HCC
Confidence            578899999999986 322              15899999988663332  1222222222   1           122


Q ss_pred             CCCCEEEEEcccc--cccHH---HHHhhCCcceEEECCCCcccHHHHHHHHh
Q 041524          159 KHPPKIVVLGCMA--ERLKD---KILDADKMVDVVCGPDAYRDLPRLLEEVD  205 (524)
Q Consensus       159 ~p~~~IvvgG~~a--t~~~e---~~l~~~~~vD~Vv~gege~~l~~Ll~~~~  205 (524)
                      ..+.+|++||..+  ....+   +.+++ -++|.|+++..  .+.++++.+.
T Consensus        81 l~~~~vivGG~~vi~~~d~~~~~~~l~~-~Gv~~vF~pgt--~~~~iv~~l~  129 (134)
T TIGR01501        81 LEGILLYVGGNLVVGKQDFPDVEKRFKE-MGFDRVFAPGT--PPEVVIADLK  129 (134)
T ss_pred             CCCCEEEecCCcCcChhhhHHHHHHHHH-cCCCEEECcCC--CHHHHHHHHH
Confidence            2356788999533  22211   22444 35999998765  5666666553

This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.

>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins

Probab=95.02  E-value=0.085  Score=50.68  Aligned_cols=79  Identities=13%  Similarity=0.244  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHCCCeecc---CCC----------CCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccC
Q 041524           93 MEIVLSIMKNAGYSEVI---NVP----------ENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSK  159 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~---~~~----------~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  159 (524)
                      ...+...|+..||+++.   +.+          .+||+|++++ +.+... ..+.+.++.+   ++          +..+
T Consensus        99 ~~~v~~~l~~~G~~vi~lG~~~p~~~l~~~~~~~~~d~v~lS~-~~~~~~-~~~~~~i~~l---r~----------~~~~  163 (201)
T cd02070          99 KNLVATMLEANGFEVIDLGRDVPPEEFVEAVKEHKPDILGLSA-LMTTTM-GGMKEVIEAL---KE----------AGLR  163 (201)
T ss_pred             HHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEec-cccccH-HHHHHHHHHH---HH----------CCCC
Confidence            67888999999998631   111          5899999965 223221 2233333333   11          1112


Q ss_pred             CCCEEEEEcccccccHHHHHhhCCcceEEEC
Q 041524          160 HPPKIVVLGCMAERLKDKILDADKMVDVVCG  190 (524)
Q Consensus       160 p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~  190 (524)
                      ++++|++||...+.   ++.+. -++|+.+.
T Consensus       164 ~~~~i~vGG~~~~~---~~~~~-~GaD~~~~  190 (201)
T cd02070         164 DKVKVMVGGAPVNQ---EFADE-IGADGYAE  190 (201)
T ss_pred             cCCeEEEECCcCCH---HHHHH-cCCcEEEC
Confidence            37899999988774   23333 36887654

A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.

>TIGR02491 NrdG anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=95.02  E-value=0.18  Score=46.30  Aligned_cols=48  Identities=19%  Similarity=0.352  Sum_probs=30.9

Q ss_pred             cccCCccCcccccCCCCCc--cccCC---hHHHHHHHHHHHHCCCcEEEEEeccC
Q 041524          241 MRGCNNMCSFCIVPFTRGR--ERSRP---VESIVKEVDELWKEGVKEVTLLGQNV  290 (524)
Q Consensus       241 sRGC~~~CsFC~vp~~~G~--~Rsr~---~e~Iv~Ei~~l~~~G~kei~l~d~n~  290 (524)
                      .-|||.+|.||..|..+..  -...+   +++|++++....  .+..|+|.|...
T Consensus        22 ~~gCnl~C~~C~n~~~~~~~~g~~~~~~~~~~i~~~l~~~~--~~~gVt~sGGEP   74 (154)
T TIGR02491        22 VAGCKHHCEGCFNKETWNFNGGKEFTEALEKEIIRDLNDNP--LIDGLTLSGGDP   74 (154)
T ss_pred             ECCCCCCCcCCCcccccCCCCCCcCCHHHHHHHHHHHHhcC--CcCeEEEeChhh
Confidence            3799999999998876431  24566   555555554331  256788887443

This enzyme is a member of the radical-SAM family (pfam04055) and utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin ) to produce a glycine-centered radical in the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487). The two components form an alpha-2/beta-2 heterodimer.

>KOG2876 consensus Molybdenum cofactor biosynthesis pathway protein [Coenzyme transport and metabolism]

Probab=94.98  E-value=0.025  Score=55.63  Aligned_cols=186  Identities=13%  Similarity=0.108  Sum_probs=120.0

Q ss_pred             EEEEEcccCCccCcccccCCCCC---ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          236 AFVSVMRGCNNMCSFCIVPFTRG---RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       236 a~v~isRGC~~~CsFC~vp~~~G---~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      .-++...-|+.+|.||.....+.   +-+....++++.-...+..+|+..+.|.+..-....                  
T Consensus        13 Lrislte~cnlrc~ycMpsegv~l~pk~~~lav~eilrl~~~F~~qgv~knrLtggeptIr~------------------   74 (323)
T KOG2876|consen   13 LRISLTEKCNLRCQYCMPSEGVPLKPKRKLLAVSEILRLAGLFAPQGVDKNRLTGGEPLIRQ------------------   74 (323)
T ss_pred             hhhhhhhccccccceechhcCCcCccchhhcchhhhHHhhhhhhHhhhhhhhhcCCCCcccc------------------
Confidence            33566789999999998743321   235567788888777777789988888875544331                  


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCC
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYT  392 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t  392 (524)
                                    ...++...+....+...+.+++..  .+...++-.+.++  |...+.+.+++....-...+-|..+
T Consensus        75 --------------di~~i~~g~~~l~gLks~~ITtng--~vl~R~lp~lhka--glssiNiSldtl~~aKfa~~~rr~g  136 (323)
T KOG2876|consen   75 --------------DIVPIVAGLSSLPGLKSIGITTNG--LVLARLLPQLHKA--GLSSINISLDTLVRAKFAKLTRRKG  136 (323)
T ss_pred             --------------cccchhhhhhcccchhhhceeccc--hhhhhhhhHHHhh--cccchhhhhhhhhHHHHHHHhhhcc
Confidence                          122222223222222233344322  1455677778888  9999999999999999998888888


Q ss_pred             HHHHHHHHHHHHHh--CCCcEEEEeEEEcCCCCCHHHHHHHHHHHHH--cCCCeEEEEeeecCCCChhcccCCCCCCH
Q 041524          393 REAYLDLVQKIRQI--IPDVGLSSDFICGFCGETEEEHADTLTLMKA--VGYDMAYMFAYSMRERTHAHRNYVDDVPE  466 (524)
Q Consensus       393 ~e~~~~~v~~ir~~--~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~--l~~d~~~i~~~sp~pGT~~~~~~~~~v~~  466 (524)
                      ...+...++.+.+.  .| +.+..-++=|+-|..      ..+|+..  .++-.+.+-.|.|.-|-....  +.-+|.
T Consensus       137 ~v~V~~~iq~a~~lgy~p-vkvn~v~~k~~n~~e------v~Dfv~~tr~~p~DVrfIe~mpf~gn~~~t--~~lIpy  205 (323)
T KOG2876|consen  137 FVKVWASIQLAIELGYNP-VKVNCVVMKGLNEDE------VFDFVLLTRMRPLDVRFIEFMPFDGNKWNT--KSLIPY  205 (323)
T ss_pred             HHHHHHHHhHHhhhCCCC-cceeeEEEeccCCCc------ccceeeecCCCCcceEEEEecccCCCcccc--cccccH
Confidence            89999999888865  24 677777887875432      2334332  233336667888888876542  334443

>PF01938 TRAM: TRAM domain; InterPro: IPR002792 The TRAM (after TRM2 and miaB) domain is a 60-70-residue-long module that is found in: Two distinct classes of tRNA-modifying enzymes, namely uridine methylases of the TRM2 family and enzymes of the miaB family that are involved in 2- methylthioadenine formation In several other proteins associated with the translation machinery In a family of small uncharacterised archaeal proteins that are predicted to have a role in the regulation of tRNA modification and/or translation The TRAM domain can be found alone or in association with other domains, such as the catalytic biotin/lipoate synthetase-like domain, the RNA methylase domain, the ribosomal S2 domain and the eIF2-beta domain

Probab=94.92  E-value=0.027  Score=43.15  Aligned_cols=32  Identities=34%  Similarity=0.412  Sum_probs=24.4

Q ss_pred             cccCCEEEEEEeccCCCCCCCeEEEeCCCCcEEEC
Q 041524          490 SQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRVAF  524 (524)
Q Consensus       490 ~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v~~  524 (524)
                      .++|+++.||||+.+.  + +.++||+++|..|+|
T Consensus         2 ~~~G~~~~VlVe~~~~--~-g~~~gr~~~~~~V~v   33 (61)
T PF01938_consen    2 SYVGKTLEVLVEELGD--E-GQGIGRTDNGKVVFV   33 (61)
T ss_dssp             --TTEEEEEEEEEE-T--T-SEEEEEET-TEEEEE
T ss_pred             ccCCcEEEEEEEEecC--C-CEEEEEeCCCeEEEE
Confidence            5799999999999883  2 489999999998875

The TRAM domain is predicted to bind tRNA and deliver the RNA-modifying enzymatic domain to their targets []. Secondary structure prediction indicates that the TRAM domain adopts a simple beta-barrel fold. The conservation pattern of the TRAM domain consists primarily of small and hydrophobic residues that correspond to five beta-strands in the predicted secondary structure [].; PDB: 1YEZ_A 2BH2_A 1UWV_A 1YVC_A.

>cd07948 DRE_TIM_HCS Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain

Probab=94.72  E-value=1.6  Score=43.87  Aligned_cols=142  Identities=8%  Similarity=-0.010  Sum_probs=92.5

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      -...+.++.++-++.|.+.|++.|.+...   ..                               .....+.++.+....
T Consensus        16 ~~~~s~~~k~~i~~~L~~~Gv~~IEvG~P---~~-------------------------------~~~~~~~~~~l~~~~   61 (262)
T cd07948          16 NAFFDTEDKIEIAKALDAFGVDYIELTSP---AA-------------------------------SPQSRADCEAIAKLG   61 (262)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCCEEEEECC---CC-------------------------------CHHHHHHHHHHHhCC
Confidence            36789999999999999999999987631   11                               012333334443322


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHh-hhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeE
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLE-RMRRG--YTREAYLDLVQKIRQIIPDVGLSSDF  416 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~-~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~f  416 (524)
                      ....+ ....+   .+.+-++...++  |+..|++-+ +.|+..++ .+++.  ...+.+.+.++.+++.  |+.+..++
T Consensus        62 ~~~~v-~~~~r---~~~~di~~a~~~--g~~~i~i~~-~~S~~~~~~~~~~~~~e~~~~~~~~i~~a~~~--G~~v~~~~  132 (262)
T cd07948          62 LKAKI-LTHIR---CHMDDARIAVET--GVDGVDLVF-GTSPFLREASHGKSITEIIESAVEVIEFVKSK--GIEVRFSS  132 (262)
T ss_pred             CCCcE-EEEec---CCHHHHHHHHHc--CcCEEEEEE-ecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEE
Confidence            22222 11122   245567777787  999988877 45555444 34443  2355677777899998  88888888


Q ss_pred             EEcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          417 ICGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       417 I~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      .-.| +-+.+.+.+.++.+.+.+++.+.+
T Consensus       133 eda~-r~~~~~l~~~~~~~~~~g~~~i~l  160 (262)
T cd07948         133 EDSF-RSDLVDLLRVYRAVDKLGVNRVGI  160 (262)
T ss_pred             EeeC-CCCHHHHHHHHHHHHHcCCCEEEE
Confidence            7666 335788888888888888886543

Homocitrate synthase (HCS) catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, the first step in the lysine biosynthesis pathway. This family includes the Yarrowia lipolytica LYS1 protein as well as the Saccharomyces cerevisiae LYS20 and LYS21 proteins. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. Th

>PRK11121 nrdG anaerobic ribonucleotide reductase-activating protein; Provisional

Probab=94.40  E-value=0.29  Score=45.02  Aligned_cols=16  Identities=31%  Similarity=0.598  Sum_probs=14.0

Q ss_pred             ccCCccCcccccCCCC
Q 041524          242 RGCNNMCSFCIVPFTR  257 (524)
Q Consensus       242 RGC~~~CsFC~vp~~~  257 (524)
                      -|||.+|.||..+.++
T Consensus        24 ~GCnl~C~~C~n~~~~   39 (154)
T PRK11121         24 SGCVHQCPGCYNKSTW   39 (154)
T ss_pred             CCCCCcCcCCCChhhc
Confidence            8999999999887654

>PLN02746 hydroxymethylglutaryl-CoA lyase

Probab=94.00  E-value=2.7  Score=43.93  Aligned_cols=147  Identities=12%  Similarity=0.064  Sum_probs=94.5

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      -...+.++-++-++.|.+.|++.|....  |.+.            .  |  .          +......++++.+....
T Consensus        62 g~~~s~e~Ki~ia~~L~~~GV~~IEvGs--~vsp------------k--~--v----------Pqmad~~ev~~~i~~~~  113 (347)
T PLN02746         62 KNIVPTSVKVELIQRLVSSGLPVVEATS--FVSP------------K--W--V----------PQLADAKDVMAAVRNLE  113 (347)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCCEEEECC--CcCc------------c--c--c----------cccccHHHHHHHHHhcc
Confidence            4678999999999999999999987652  2111            0  0  0          00123445566665432


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh-hCCC--CCHHHHHHHHHHHHHhCCCcEEEEeE
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER-MRRG--YTREAYLDLVQKIRQIIPDVGLSSDF  416 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~-m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~f  416 (524)
                       ..++..  ..+   +.+-++...++  |+..+++.+ |.|+..+++ +++.  ...+.+.+.++.+++.  |+.+..++
T Consensus       114 -~~~~~~--l~~---n~~die~A~~~--g~~~v~i~~-s~Sd~h~~~n~~~t~~e~l~~~~~~v~~Ak~~--Gl~v~~~i  182 (347)
T PLN02746        114 -GARFPV--LTP---NLKGFEAAIAA--GAKEVAVFA-SASESFSKSNINCSIEESLVRYREVALAAKKH--SIPVRGYV  182 (347)
T ss_pred             -CCceeE--EcC---CHHHHHHHHHc--CcCEEEEEE-ecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCeEEEEE
Confidence             223222  112   56677777788  999999999 777766554 4443  2345566788899998  88887666


Q ss_pred             --EEcCCCCC---HHHHHHHHHHHHHcCCCeEEE
Q 041524          417 --ICGFCGET---EEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       417 --I~G~PgET---~ed~~~tl~~l~~l~~d~~~i  445 (524)
                        .+|.|.++   .+.+.+.++.+.+.+.+.+.+
T Consensus       183 s~~fg~p~~~r~~~~~l~~~~~~~~~~Gad~I~l  216 (347)
T PLN02746        183 SCVVGCPIEGPVPPSKVAYVAKELYDMGCYEISL  216 (347)
T ss_pred             EeeecCCccCCCCHHHHHHHHHHHHHcCCCEEEe
Confidence              57878774   455566666666778887654

>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]

Probab=93.56  E-value=1.1  Score=40.43  Aligned_cols=108  Identities=16%  Similarity=0.236  Sum_probs=65.0

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCC--------------CCCCcEEEEeeccCcchHHHHHHHHHHHHH
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINV--------------PENAEVIFINTCAIRDYAEHKVWQRLNYFW  141 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~--------------~~~aDvv~intc~v~~~a~~~~~~~l~~~~  141 (524)
                      +.||.+.++|=----.=...++..|++.||+++ ..              .+++|+|++++-  .......+-..+..+ 
T Consensus        12 rprvlvak~GlDgHd~gakvia~~l~d~GfeVi-~~g~~~tp~e~v~aA~~~dv~vIgvSsl--~g~h~~l~~~lve~l-   87 (143)
T COG2185          12 RPRVLVAKLGLDGHDRGAKVIARALADAGFEVI-NLGLFQTPEEAVRAAVEEDVDVIGVSSL--DGGHLTLVPGLVEAL-   87 (143)
T ss_pred             CceEEEeccCccccccchHHHHHHHHhCCceEE-ecCCcCCHHHHHHHHHhcCCCEEEEEec--cchHHHHHHHHHHHH-
Confidence            446888888711111225688999999999863 21              168999999443  333333333333322 


Q ss_pred             HhhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHH
Q 041524          142 FLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEV  204 (524)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~  204 (524)
                        +           ++...++.|++||..+.-...++.+  -.+|-|+.+.  ..+.+.++.+
T Consensus        88 --r-----------e~G~~~i~v~~GGvip~~d~~~l~~--~G~~~if~pg--t~~~~~~~~v  133 (143)
T COG2185          88 --R-----------EAGVEDILVVVGGVIPPGDYQELKE--MGVDRIFGPG--TPIEEALSDL  133 (143)
T ss_pred             --H-----------HhCCcceEEeecCccCchhHHHHHH--hCcceeeCCC--CCHHHHHHHH
Confidence              1           1233456678999888876556654  4689999873  4555555443

>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional

Probab=93.35  E-value=4.3  Score=41.25  Aligned_cols=148  Identities=16%  Similarity=0.167  Sum_probs=94.6

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      -...+.++.++-++.|.+.|++.|.+.  .|..-            .  |     ++       ....-.+.+..+.+. 
T Consensus        20 ~~~~s~e~k~~ia~~L~~~Gv~~IEvg--sf~~p------------~--~-----~p-------~~~d~~e~~~~l~~~-   70 (287)
T PRK05692         20 KRFIPTADKIALIDRLSAAGLSYIEVA--SFVSP------------K--W-----VP-------QMADAAEVMAGIQRR-   70 (287)
T ss_pred             CCCcCHHHHHHHHHHHHHcCCCEEEeC--CCcCc------------c--c-----cc-------ccccHHHHHHhhhcc-
Confidence            457889999999999999999998865  22110            0  0     00       001124556666542 


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      +..++...  .+   +.+-++...++  |...+++.+-..+....+.+++..  ..+.+.+.++.+++.  |+.+...+.
T Consensus        71 ~~~~~~~l--~~---~~~~ie~A~~~--g~~~v~i~~~~s~~~~~~n~~~~~~e~l~~~~~~v~~ak~~--g~~v~~~i~  141 (287)
T PRK05692         71 PGVTYAAL--TP---NLKGLEAALAA--GADEVAVFASASEAFSQKNINCSIAESLERFEPVAEAAKQA--GVRVRGYVS  141 (287)
T ss_pred             CCCeEEEE--ec---CHHHHHHHHHc--CCCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCEEEEEEE
Confidence            23343322  22   45556666677  999998886443333444555542  355688899999999  888776666


Q ss_pred             E--cCCCC---CHHHHHHHHHHHHHcCCCeEEE
Q 041524          418 C--GFCGE---TEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       418 ~--G~PgE---T~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      .  |-|.+   +++.+.+.++.+.+.+.+.+.+
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~~~~~G~d~i~l  174 (287)
T PRK05692        142 CVLGCPYEGEVPPEAVADVAERLFALGCYEISL  174 (287)
T ss_pred             EEecCCCCCCCCHHHHHHHHHHHHHcCCcEEEe
Confidence            4  55766   6778888888888889887654

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=93.30  E-value=0.54  Score=41.29  Aligned_cols=82  Identities=12%  Similarity=0.173  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHCCCeeccCC-------------CCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccC
Q 041524           93 MEIVLSIMKNAGYSEVINV-------------PENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSK  159 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~~-------------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  159 (524)
                      .-.+...|+..||+++..-             ..+||+|+|++.  .......+.+.++++   ++           +..
T Consensus        16 ~~~~~~~l~~~G~~vi~lG~~vp~e~~~~~a~~~~~d~V~iS~~--~~~~~~~~~~~~~~L---~~-----------~~~   79 (122)
T cd02071          16 AKVIARALRDAGFEVIYTGLRQTPEEIVEAAIQEDVDVIGLSSL--SGGHMTLFPEVIELL---RE-----------LGA   79 (122)
T ss_pred             HHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEccc--chhhHHHHHHHHHHH---Hh-----------cCC
Confidence            6677888999999863111             148999999433  233333344444443   11           222


Q ss_pred             CCCEEEEEcccccccHHHHHhhCCcceEEECCC
Q 041524          160 HPPKIVVLGCMAERLKDKILDADKMVDVVCGPD  192 (524)
Q Consensus       160 p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~ge  192 (524)
                      +.++|++||-.+....+++.+  -++|.++.+.
T Consensus        80 ~~i~i~~GG~~~~~~~~~~~~--~G~d~~~~~~  110 (122)
T cd02071          80 GDILVVGGGIIPPEDYELLKE--MGVAEIFGPG  110 (122)
T ss_pred             CCCEEEEECCCCHHHHHHHHH--CCCCEEECCC
Confidence            478899999765443344443  4699888764

This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.

>cd07941 DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain

Probab=92.99  E-value=6.3  Score=39.70  Aligned_cols=147  Identities=15%  Similarity=0.029  Sum_probs=89.8

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC-
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF-  339 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~-  339 (524)
                      ...+.++.++-++.|.+.|++.|.+.-..  ..                                ..-.+.++.+.+.. 
T Consensus        15 ~~~s~e~k~~i~~~L~~~Gv~~IE~G~~~--~~--------------------------------~~~~~~~~~~~~~~~   60 (273)
T cd07941          15 ISFSVEDKLRIARKLDELGVDYIEGGWPG--SN--------------------------------PKDTEFFARAKKLKL   60 (273)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEecCCc--CC--------------------------------HHHHHHHHHHHHcCC
Confidence            56789999999999999999999873211  01                                01223334443322 


Q ss_pred             CceEEE-EecCCCCC---CCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEE
Q 041524          340 PEMRFR-YTSPHPKD---FPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLS  413 (524)
Q Consensus       340 ~~~~ir-~~s~~p~~---~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~  413 (524)
                      +...+. +.-.+..+   .++..++.+.+.  |+..+++.+=+.+....+.+++.  ...+.+.+.++.+++.  |..+.
T Consensus        61 ~~~~~~~~~~~~~~~i~~~~~~~~~~a~~~--g~~~i~i~~~~sd~~~~~~~~~~~~~~~~~~~~~i~~ak~~--G~~v~  136 (273)
T cd07941          61 KHAKLAAFGSTRRAGVKAEEDPNLQALLEA--GTPVVTIFGKSWDLHVTEALGTTLEENLAMIRDSVAYLKSH--GREVI  136 (273)
T ss_pred             CCcEEEEEecccccCCCccchHHHHHHHhC--CCCEEEEEEcCCHHHHHHHcCCCHHHHHHHHHHHHHHHHHc--CCeEE
Confidence            122221 11112222   234567888887  99998886654444455566665  4577888899999999  88777


Q ss_pred             EeEEEcCC--CCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          414 SDFICGFC--GETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       414 ~~fI~G~P--gET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      .+.+.-+.  ..+.+.+.+.++.+.+.+.+.+.+
T Consensus       137 ~~~~~~~d~~~~~~~~~~~~~~~~~~~g~~~i~l  170 (273)
T cd07941         137 FDAEHFFDGYKANPEYALATLKAAAEAGADWLVL  170 (273)
T ss_pred             EeEEeccccCCCCHHHHHHHHHHHHhCCCCEEEE
Confidence            65332222  235666677777778888886543

Desulfobacterium autotrophicum LeuA3 is sequence-similar to alpha-isopropylmalate synthase (LeuA) but its exact function is unknown. Members of this family have an N-terminal TIM barrel domain that belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of in

>cd07938 DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain

Probab=92.78  E-value=6  Score=39.92  Aligned_cols=148  Identities=11%  Similarity=0.073  Sum_probs=94.2

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      ..+.+.++-++-++.|.+.|+++|.+..  |.+.            ..       +       +......+++..+....
T Consensus        14 ~~~~s~e~K~~i~~~L~~~Gv~~IEvGs--~~~~------------~~-------~-------p~~~d~~~~~~~l~~~~   65 (274)
T cd07938          14 KTFIPTEDKIELIDALSAAGLRRIEVTS--FVSP------------KW-------V-------PQMADAEEVLAGLPRRP   65 (274)
T ss_pred             CCCcCHHHHHHHHHHHHHcCCCEEEeCC--CCCc------------cc-------c-------cccCCHHHHHhhcccCC
Confidence            4678999999999999999999998752  2211            00       0       00012334555554422


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                       ..++  ....+   +.+-++...+.  |...+++.+-+.+....+.+++.  ...+...+.++.+++.  |..+...+.
T Consensus        66 -~~~~--~~~~~---~~~dv~~A~~~--g~~~i~i~~~~Sd~~~~~~~~~s~~~~~~~~~~~v~~ak~~--G~~v~~~i~  135 (274)
T cd07938          66 -GVRY--SALVP---NLRGAERALAA--GVDEVAVFVSASETFSQKNINCSIAESLERFEPVAELAKAA--GLRVRGYVS  135 (274)
T ss_pred             -CCEE--EEECC---CHHHHHHHHHc--CcCEEEEEEecCHHHHHHHcCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEE
Confidence             2333  22222   34456666677  89999888766555555666765  3467788889999999  887766665


Q ss_pred             --EcCCCC---CHHHHHHHHHHHHHcCCCeEEE
Q 041524          418 --CGFCGE---TEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       418 --~G~PgE---T~ed~~~tl~~l~~l~~d~~~i  445 (524)
                        +|.|.+   +.+.+.+.++.+.+.+.+.+.+
T Consensus       136 ~~f~~~~~~~~~~~~~~~~~~~~~~~Ga~~i~l  168 (274)
T cd07938         136 TAFGCPYEGEVPPERVAEVAERLLDLGCDEISL  168 (274)
T ss_pred             eEecCCCCCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence              555655   5566667777777788886654

3-hydroxy-3-methylglutaryl-CoA lyase (HMGL) catalyzes the cleavage of HMG-CoA to acetyl-CoA and acetoacetate, one of the terminal steps in ketone body generation and leucine degradation, and is a key enzyme in the pathway that supplies metabolic fuel to extrahepatic tissues. Mutations in HMGL cause a human autosomal recessive disorder called primary metabolic aciduria that affects ketogenesis and leucine catabolism and can be fatal due to an inability to tolerate hypoglycemia. HMGL has a TIM barrel domain with a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. The cleavage of HMG-CoA requires the presence of a divalent cation like Mg2+ or Mn2+, and the reaction is thought to involve general acid/base catalysis. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropy

>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain

Probab=92.59  E-value=9.1  Score=38.44  Aligned_cols=141  Identities=16%  Similarity=0.123  Sum_probs=92.1

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCC-CCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVN-SYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~-~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      .+.+.++.++-++.|.+.|+..|.+.-.... .+.          .|. +    .++          . .+.++++....
T Consensus        15 ~~f~~~~~~~ia~~L~~~GVd~IEvG~~~~~~~~~----------~~~-~----~~~----------~-~~~~~~i~~~~   68 (266)
T cd07944          15 WDFGDEFVKAIYRALAAAGIDYVEIGYRSSPEKEF----------KGK-S----AFC----------D-DEFLRRLLGDS   68 (266)
T ss_pred             ccCCHHHHHHHHHHHHHCCCCEEEeecCCCCcccc----------CCC-c----cCC----------C-HHHHHHHHhhh
Confidence            4578899998889998899998876421110 000          010 0    000          0 22333333322


Q ss_pred             -CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEE
Q 041524          340 -PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFIC  418 (524)
Q Consensus       340 -~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~  418 (524)
                       +..++... .++...+.+.++...+.  |...+++.+.            ....+...+.++.+++.  |..+...++.
T Consensus        69 ~~~~~~~~~-~~~~~~~~~~l~~a~~~--gv~~iri~~~------------~~~~~~~~~~i~~ak~~--G~~v~~~~~~  131 (266)
T cd07944          69 KGNTKIAVM-VDYGNDDIDLLEPASGS--VVDMIRVAFH------------KHEFDEALPLIKAIKEK--GYEVFFNLMA  131 (266)
T ss_pred             ccCCEEEEE-ECCCCCCHHHHHHHhcC--CcCEEEEecc------------cccHHHHHHHHHHHHHC--CCeEEEEEEe
Confidence             23344332 34544566777777777  8888888752            23689999999999999  8888888777


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          419 GFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       419 G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      .+ +-+.+.+.+.++.+.+.+++.+.+
T Consensus       132 a~-~~~~~~~~~~~~~~~~~g~~~i~l  157 (266)
T cd07944         132 IS-GYSDEELLELLELVNEIKPDVFYI  157 (266)
T ss_pred             ec-CCCHHHHHHHHHHHHhCCCCEEEE
Confidence            66 468899999999999999887654

This family of bacterial enzymes is sequence-similar to 4-hydroxy-2-oxovalerate aldolase (HOA) but its exact function is unknown. This family includes the Bacteroides vulgatus Bvu_2661 protein and belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues t

>PF08497 Radical_SAM_N: Radical SAM N-terminal; InterPro: IPR013704 This domain tends to occur to the N terminus of PF04055 from PFAM radical SAM domain in hypothetical bacterial proteins

Probab=92.44  E-value=0.57  Score=47.01  Aligned_cols=50  Identities=16%  Similarity=0.142  Sum_probs=40.0

Q ss_pred             CCCCEEEEEccccccc------------HHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCC
Q 041524          159 KHPPKIVVLGCMAERL------------KDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQK  209 (524)
Q Consensus       159 ~p~~~IvvgG~~at~~------------~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~  209 (524)
                      .++++||+||..||+-            ...+|- ...+|+++-|-||.++.++.+.+.+|..
T Consensus       124 f~~vPiiiGGIEASLRR~aHYDyWsdkvRrSIL~-DskADlLvYGMGE~~i~eiA~~L~~G~~  185 (302)
T PF08497_consen  124 FKDVPIIIGGIEASLRRFAHYDYWSDKVRRSILF-DSKADLLVYGMGEKPILEIARRLAAGEP  185 (302)
T ss_pred             CCCCCEEEecccccceehhhhhhhccccccceee-cCCCCEEEecccHHHHHHHHHHHHcCCC
Confidence            5788999999999872            112332 3569999999999999999999998864

Proteins in this entry are radical SAM proteins, they catalyse diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].

>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain

Probab=92.15  E-value=7.9  Score=38.59  Aligned_cols=141  Identities=10%  Similarity=0.018  Sum_probs=90.2

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|++.|.+.   +...            +                   ..-.+.++.+.+..+
T Consensus        15 ~~~~~~~k~~i~~~L~~~Gv~~iE~g---~p~~------------~-------------------~~~~e~~~~l~~~~~   60 (259)
T cd07939          15 VAFSREEKLAIARALDEAGVDEIEVG---IPAM------------G-------------------EEEREAIRAIVALGL   60 (259)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe---cCCC------------C-------------------HHHHHHHHHHHhcCC
Confidence            46789999999999999999998874   1111            1                   112245566655333


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH-HHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA-VLERMRRG--YTREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~-vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      ...+... .+   .+.+-++...+.  |+..+.+.+ |.|+. ..+.+++.  ...+.+.+.++.+++.  |+.+...++
T Consensus        61 ~~~~~~~-~r---~~~~~v~~a~~~--g~~~i~i~~-~~s~~~~~~~~~~~~~~~~~~~~~~i~~a~~~--G~~v~~~~~  131 (259)
T cd07939          61 PARLIVW-CR---AVKEDIEAALRC--GVTAVHISI-PVSDIHLAHKLGKDRAWVLDQLRRLVGRAKDR--GLFVSVGAE  131 (259)
T ss_pred             CCEEEEe-cc---CCHHHHHHHHhC--CcCEEEEEE-ecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEeec
Confidence            3332211 11   245567777777  899999888 44444 44566653  2345667888899998  877665444


Q ss_pred             EcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          418 CGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       418 ~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      .+. .-+.+.+.+.++.+.+.+.+.+.+
T Consensus       132 ~~~-~~~~~~~~~~~~~~~~~G~~~i~l  158 (259)
T cd07939         132 DAS-RADPDFLIEFAEVAQEAGADRLRF  158 (259)
T ss_pred             cCC-CCCHHHHHHHHHHHHHCCCCEEEe
Confidence            332 235778888888888888887544

FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox

>PRK11858 aksA trans-homoaconitate synthase; Reviewed

Probab=91.32  E-value=10  Score=40.20  Aligned_cols=142  Identities=8%  Similarity=-0.038  Sum_probs=91.6

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|++.|.+.   +...            +                   ..-.+.++.+.+...
T Consensus        21 ~~~s~e~k~~ia~~L~~~GV~~IE~G---~p~~------------~-------------------~~~~e~i~~i~~~~~   66 (378)
T PRK11858         21 VVFTNEEKLAIARMLDEIGVDQIEAG---FPAV------------S-------------------EDEKEAIKAIAKLGL   66 (378)
T ss_pred             CCCCHHHHHHHHHHHHHhCCCEEEEe---CCCc------------C-------------------hHHHHHHHHHHhcCC
Confidence            56889999999999999999998864   2111            1                   112344555554332


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeEEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLSSDFIC  418 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~fI~  418 (524)
                      ..++  ....  ....+-++...++  |...+++.+-+.+..+...+++.  ...+.+.+.++.+++.  |..+..++.-
T Consensus        67 ~~~i--~~~~--r~~~~di~~a~~~--g~~~i~i~~~~Sd~h~~~~~~~s~~~~l~~~~~~v~~a~~~--G~~v~~~~ed  138 (378)
T PRK11858         67 NASI--LALN--RAVKSDIDASIDC--GVDAVHIFIATSDIHIKHKLKKTREEVLERMVEAVEYAKDH--GLYVSFSAED  138 (378)
T ss_pred             CeEE--EEEc--ccCHHHHHHHHhC--CcCEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEecc
Confidence            2232  2111  1235567777777  99999998865555555566653  2345666688888888  8777666544


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          419 GFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       419 G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      +. --+.+.+.+.++.+.+.+.+.+.+
T Consensus       139 ~~-r~~~~~l~~~~~~~~~~Ga~~I~l  164 (378)
T PRK11858        139 AS-RTDLDFLIEFAKAAEEAGADRVRF  164 (378)
T ss_pred             CC-CCCHHHHHHHHHHHHhCCCCEEEE
Confidence            43 346777778888888888887654

>PRK09426 methylmalonyl-CoA mutase; Reviewed

Probab=91.24  E-value=2.8  Score=48.07  Aligned_cols=109  Identities=14%  Similarity=0.162  Sum_probs=64.9

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCC-------------CCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVP-------------ENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~-------------~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      ..+|++.++|.-.--.-...+...|+..||++.....             ++||+|+|++.  .......+-..++.+  
T Consensus       582 rpkV~LatlG~d~H~~ra~fv~~~l~~~GfeV~~~~~~~s~e~~v~aa~~~~a~ivvlcs~--d~~~~e~~~~l~~~L--  657 (714)
T PRK09426        582 RPRILVAKMGQDGHDRGAKVIATAFADLGFDVDIGPLFQTPEEAARQAVENDVHVVGVSSL--AAGHKTLVPALIEAL--  657 (714)
T ss_pred             CceEEEEecCCcchhHhHHHHHHHHHhCCeeEecCCCCCCHHHHHHHHHHcCCCEEEEecc--chhhHHHHHHHHHHH--
Confidence            4579999999864444456788899999998632211             58999999443  322222233333333  


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHH
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEV  204 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~  204 (524)
                       |           .+..++++|++||..+.-..+.+ +. -++|.++....  +..+.|..+
T Consensus       658 -k-----------~~G~~~v~vl~GG~~~~~~~~~l-~~-aGvD~~i~~g~--d~~~~L~~l  703 (714)
T PRK09426        658 -K-----------KLGREDIMVVVGGVIPPQDYDFL-YE-AGVAAIFGPGT--VIADAAIDL  703 (714)
T ss_pred             -H-----------hcCCCCcEEEEeCCCChhhHHHH-Hh-CCCCEEECCCC--CHHHHHHHH
Confidence             1           12234678999997544333344 33 47887776543  455555544

>cd07937 DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain

Probab=91.14  E-value=8.6  Score=38.79  Aligned_cols=140  Identities=11%  Similarity=0.083  Sum_probs=91.5

Q ss_pred             cCChHHHHHHHHHHHHCCCcEEEEEecc-CCC-CCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          262 SRPVESIVKEVDELWKEGVKEVTLLGQN-VNS-YNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       262 sr~~e~Iv~Ei~~l~~~G~kei~l~d~n-~~~-y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      ..+.++.++-+..|.+.|+..|.+.... |.+ +            +        +        ....-.+.++.+.+..
T Consensus        17 ~~~~~~~~~ia~~L~~~Gv~~iE~G~~a~~~~~~------------~--------~--------~~~~~~e~i~~~~~~~   68 (275)
T cd07937          17 RMRTEDMLPIAEALDEAGFFSLEVWGGATFDVCM------------R--------F--------LNEDPWERLRELRKAM   68 (275)
T ss_pred             eccHHHHHHHHHHHHHcCCCEEEccCCcchhhhc------------c--------c--------cCCCHHHHHHHHHHhC
Confidence            5677888888899999999988876422 110 0            0        0        0011233444444433


Q ss_pred             CceE----EEE----e-cCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCc
Q 041524          340 PEMR----FRY----T-SPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDV  410 (524)
Q Consensus       340 ~~~~----ir~----~-s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi  410 (524)
                      +...    .|-    . .++|..+.++.++...++  |...+++..-. |+           .+...+.++.+++.  |.
T Consensus        69 ~~~~l~~~~r~~~~~~~~~~p~~~~~~di~~~~~~--g~~~iri~~~~-~~-----------~~~~~~~i~~ak~~--G~  132 (275)
T cd07937          69 PNTPLQMLLRGQNLVGYRHYPDDVVELFVEKAAKN--GIDIFRIFDAL-ND-----------VRNLEVAIKAVKKA--GK  132 (275)
T ss_pred             CCCceehhcccccccCccCCCcHHHHHHHHHHHHc--CCCEEEEeecC-Ch-----------HHHHHHHHHHHHHC--CC
Confidence            3222    221    0 146666778888888887  88888886533 22           67899999999999  87


Q ss_pred             EEEEeEEEcC-CCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          411 GLSSDFICGF-CGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       411 ~i~~~fI~G~-PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      .+...+.+-+ +.-+++.+.+.++.+.+.+.+.+.+
T Consensus       133 ~v~~~i~~~~~~~~~~~~~~~~~~~~~~~Ga~~i~l  168 (275)
T cd07937         133 HVEGAICYTGSPVHTLEYYVKLAKELEDMGADSICI  168 (275)
T ss_pred             eEEEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence            7766554322 5568889999999999999987755

This family includes the carboxyltransferase domains of pyruvate carboxylase (PC) and the transcarboxylase (TC) 5S subunit. Transcarboxylase 5S is a cobalt-dependent metalloenzyme subunit of the biotin-dependent transcarboxylase multienzyme complex. Transcarboxylase 5S transfers carbon dioxide from the 1.3S biotin to pyruvate in the second of two carboxylation reactions catalyzed by TC. The first reaction involves the transfer of carbon dioxide from methylmalonyl-CoA to the 1.3S biotin, and is catalyzed by the 12S subunit. These two steps allow a carboxylate group to be transferred from oxaloacetate to propionyl-CoA to yield pyruvate and methylmalonyl-CoA. The catalytic domain of transcarboxylase 5S has a canonical TIM-barrel fold with a large C-terminal extension that forms a funnel leading to the active site. Transcarboxylase 5S forms a homodimer and there are six dimers per complex

>PRK08091 ribulose-phosphate 3-epimerase; Validated

Probab=90.72  E-value=18  Score=35.55  Aligned_cols=133  Identities=6%  Similarity=-0.001  Sum_probs=84.0

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEE--EEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhh
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVT--LLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLE  338 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~--l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~  338 (524)
                      -+.+.-.+.+|++.+.+.|++.+.  +.|.+|--.               +.+             +.   .+++.+.+ 
T Consensus        20 l~ad~~~l~~el~~l~~~g~d~lHiDVMDG~FVPN---------------itf-------------Gp---~~i~~i~~-   67 (228)
T PRK08091         20 LASNWLKFNETLTTLSENQLRLLHFDIADGQFSPF---------------FTV-------------GA---IAIKQFPT-   67 (228)
T ss_pred             hhcCHHHHHHHHHHHHHCCCCEEEEeccCCCcCCc---------------ccc-------------CH---HHHHHhCC-
Confidence            345677899999999999988765  455554321               000             11   23333322 


Q ss_pred             CCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEE
Q 041524          339 FPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFIC  418 (524)
Q Consensus       339 ~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~  418 (524)
                      .-.+.+.+...+    +++.++.+.++  |+..+.+-+|+.              ....+.++.+|+.  |+.+.+.+.+
T Consensus        68 ~~~~DvHLMv~~----P~~~i~~~~~a--Gad~It~H~Ea~--------------~~~~~~l~~Ik~~--g~~~kaGlal  125 (228)
T PRK08091         68 HCFKDVHLMVRD----QFEVAKACVAA--GADIVTLQVEQT--------------HDLALTIEWLAKQ--KTTVLIGLCL  125 (228)
T ss_pred             CCCEEEEeccCC----HHHHHHHHHHh--CCCEEEEcccCc--------------ccHHHHHHHHHHC--CCCceEEEEE
Confidence            112344443333    57799999999  999999999973              2356788899999  8755666666


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCCh
Q 041524          419 GFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTH  455 (524)
Q Consensus       419 G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~  455 (524)
                      . |+-..++++..++.     +|.+-  .++..||-.
T Consensus       126 n-P~Tp~~~i~~~l~~-----vD~VL--iMtV~PGfg  154 (228)
T PRK08091        126 C-PETPISLLEPYLDQ-----IDLIQ--ILTLDPRTG  154 (228)
T ss_pred             C-CCCCHHHHHHHHhh-----cCEEE--EEEECCCCC
Confidence            6 67666776555443     46544  456677754

>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated

Probab=90.62  E-value=18  Score=37.59  Aligned_cols=143  Identities=12%  Similarity=0.146  Sum_probs=92.6

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEE-eccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLL-GQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~-d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      ...+.+++++-++.|.+.|+..|.+. ++.+...              .  +.-|++.        ..-.+.++.+.+..
T Consensus        20 ~~f~~~~~~~i~~~L~~aGv~~IEvg~~~g~g~~--------------s--~~~g~~~--------~~~~e~i~~~~~~~   75 (337)
T PRK08195         20 HQYTLEQVRAIARALDAAGVPVIEVTHGDGLGGS--------------S--FNYGFGA--------HTDEEYIEAAAEVV   75 (337)
T ss_pred             CccCHHHHHHHHHHHHHcCCCEEEeecCCCCCCc--------------c--ccCCCCC--------CCHHHHHHHHHHhC
Confidence            45788999999999999999988775 2222100              0  0001110        01234555554433


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEc
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICG  419 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G  419 (524)
                      +..++... ..|..-+.+-++...+.  |...+.+..- .+           ..+...+.++.+|+.  |..+...++..
T Consensus        76 ~~~~~~~l-l~pg~~~~~dl~~a~~~--gvd~iri~~~-~~-----------e~~~~~~~i~~ak~~--G~~v~~~l~~a  138 (337)
T PRK08195         76 KQAKIAAL-LLPGIGTVDDLKMAYDA--GVRVVRVATH-CT-----------EADVSEQHIGLAREL--GMDTVGFLMMS  138 (337)
T ss_pred             CCCEEEEE-eccCcccHHHHHHHHHc--CCCEEEEEEe-cc-----------hHHHHHHHHHHHHHC--CCeEEEEEEec
Confidence            43444322 23444455667777777  8998887751 11           235688999999999  88888888776


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          420 FCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       420 ~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                       +.-+++.+.+.++.+.+.+++.+++
T Consensus       139 -~~~~~e~l~~~a~~~~~~Ga~~i~i  163 (337)
T PRK08195        139 -HMAPPEKLAEQAKLMESYGAQCVYV  163 (337)
T ss_pred             -cCCCHHHHHHHHHHHHhCCCCEEEe
Confidence             4568899999999999999987654

>TIGR03217 4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase

Probab=90.30  E-value=20  Score=37.22  Aligned_cols=143  Identities=13%  Similarity=0.168  Sum_probs=91.4

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEE-eccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLL-GQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~-d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      ...+.+++++-++.|.+.|+..|.+. ++.+..              ..  +.-||+.       ...+ +.++++.+..
T Consensus        19 ~~f~~~~~~~ia~~Ld~aGV~~IEvg~g~gl~g--------------~s--~~~G~~~-------~~~~-e~i~~~~~~~   74 (333)
T TIGR03217        19 HQFTIEQVRAIAAALDEAGVDAIEVTHGDGLGG--------------SS--FNYGFSA-------HTDL-EYIEAAADVV   74 (333)
T ss_pred             CcCCHHHHHHHHHHHHHcCCCEEEEecCCCCCC--------------cc--ccCCCCC-------CChH-HHHHHHHHhC
Confidence            45788999999999999999988875 222210              00  0001110       0111 3333443333


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEc
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICG  419 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G  419 (524)
                      +..++... ..|..-+.+-++...++  |...+.+..- .           ...+...+.++.+++.  |..+...++..
T Consensus        75 ~~~~~~~l-l~pg~~~~~dl~~a~~~--gvd~iri~~~-~-----------~e~d~~~~~i~~ak~~--G~~v~~~l~~s  137 (333)
T TIGR03217        75 KRAKVAVL-LLPGIGTVHDLKAAYDA--GARTVRVATH-C-----------TEADVSEQHIGMAREL--GMDTVGFLMMS  137 (333)
T ss_pred             CCCEEEEE-eccCccCHHHHHHHHHC--CCCEEEEEec-c-----------chHHHHHHHHHHHHHc--CCeEEEEEEcc
Confidence            33333321 34444456677888777  8998888762 1           1235678999999999  88888888877


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          420 FCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       420 ~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      + .-+++.+.+.++.+.+.+.+.+++
T Consensus       138 ~-~~~~e~l~~~a~~~~~~Ga~~i~i  162 (333)
T TIGR03217       138 H-MTPPEKLAEQAKLMESYGADCVYI  162 (333)
T ss_pred             c-CCCHHHHHHHHHHHHhcCCCEEEE
Confidence            5 568899999999999999887654

Members of this protein family are 4-hydroxy-2-oxovalerate aldolase, also called 4-hydroxy-2-ketovalerate aldolase and 2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of the pathway for the meta-cleavage of catechol, produces pyruvate and acetaldehyde. Acetaldehyde is then converted by acetaldehyde dehydrogenase (acylating) (DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are tightly associated.

>TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases

Probab=90.30  E-value=15  Score=38.54  Aligned_cols=143  Identities=12%  Similarity=-0.040  Sum_probs=95.0

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|++.|.+.-   ...            +                   ..-.+.++.+.+...
T Consensus        17 ~~~s~~~k~~ia~~L~~~Gv~~IEvG~---p~~------------~-------------------~~~~e~i~~i~~~~~   62 (363)
T TIGR02090        17 VSLTVEQKVEIARKLDELGVDVIEAGF---PIA------------S-------------------EGEFEAIKKISQEGL   62 (363)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEeC---CCC------------C-------------------hHHHHHHHHHHhcCC
Confidence            568899999999999999999988631   111            0                   112344555554433


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeEEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDFIC  418 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~fI~  418 (524)
                      ...+... .+   ...+-++...++  |+..+++-+-+.+......+++..  ..+.+.+.++.+++.  |..+...+.-
T Consensus        63 ~~~v~~~-~r---~~~~di~~a~~~--g~~~i~i~~~~Sd~~~~~~~~~~~~~~~~~~~~~i~~ak~~--G~~v~~~~ed  134 (363)
T TIGR02090        63 NAEICSL-AR---ALKKDIDKAIDC--GVDSIHTFIATSPIHLKYKLKKSRDEVLEKAVEAVEYAKEH--GLIVEFSAED  134 (363)
T ss_pred             CcEEEEE-cc---cCHHHHHHHHHc--CcCEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCEEEEEEee
Confidence            3333211 12   245668888888  998888866444444444566542  467788899999999  8888777765


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCCeEEEE
Q 041524          419 GFCGETEEEHADTLTLMKAVGYDMAYMF  446 (524)
Q Consensus       419 G~PgET~ed~~~tl~~l~~l~~d~~~i~  446 (524)
                      +. .-+.+.+.+.++.+.+.+.+.+.+.
T Consensus       135 a~-r~~~~~l~~~~~~~~~~g~~~i~l~  161 (363)
T TIGR02090       135 AT-RTDIDFLIKVFKRAEEAGADRINIA  161 (363)
T ss_pred             cC-CCCHHHHHHHHHHHHhCCCCEEEEe
Confidence            53 4568888888888888898876653

Methanogens, then should and aparrently do contain all three of these enzymes. Unfortunately, phylogenetic trees do not resolve into three unambiguous clades, making assignment of function to particular genes problematic. Other archaea which lack a threonine dehydratase (mainly Euryarchaeota) should contain both a CimA and a LeuA gene. This is true of, for example, archaeoglobus fulgidis, but not for the Pyrococci which have none in this clade, but one in TIGR00973 and one in TIGRT00977 which may fulfill these roles. Other species which have only one hit to this model and lack threonine dehydratase are very likely LeuA enzymes.

>TIGR02660 nifV_homocitr homocitrate synthase NifV

Probab=89.53  E-value=11  Score=39.77  Aligned_cols=141  Identities=11%  Similarity=-0.002  Sum_probs=89.2

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|++.|.+.   +...            +                   ..-.+.++.+.+..+
T Consensus        18 ~~~s~~~k~~ia~~L~~~Gv~~IEvG---~p~~------------~-------------------~~~~e~i~~i~~~~~   63 (365)
T TIGR02660        18 VAFTAAEKLAIARALDEAGVDELEVG---IPAM------------G-------------------EEERAVIRAIVALGL   63 (365)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe---CCCC------------C-------------------HHHHHHHHHHHHcCC
Confidence            56889999999999999999998874   2111            0                   112344555555433


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHH-HhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAV-LERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~v-L~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      ..++..- .+   ...+-++...++  |...+++.+ +.|+.- ...+++..  ..+.+.++++.+++.  |..+..++.
T Consensus        64 ~~~i~~~-~r---~~~~di~~a~~~--g~~~i~i~~-~~Sd~~~~~~~~~s~~e~l~~~~~~i~~ak~~--g~~v~~~~e  134 (365)
T TIGR02660        64 PARLMAW-CR---ARDADIEAAARC--GVDAVHISI-PVSDLQIEAKLRKDRAWVLERLARLVSFARDR--GLFVSVGGE  134 (365)
T ss_pred             CcEEEEE-cC---CCHHHHHHHHcC--CcCEEEEEE-ccCHHHHHHHhCcCHHHHHHHHHHHHHHHHhC--CCEEEEeec
Confidence            3333111 22   246778888888  898888887 455544 44565532  345566888888888  877665544


Q ss_pred             EcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          418 CGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       418 ~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      -+ +.-+.+.+.+.++.+.+.+.+.+.+
T Consensus       135 d~-~r~~~~~l~~~~~~~~~~Ga~~i~l  161 (365)
T TIGR02660       135 DA-SRADPDFLVELAEVAAEAGADRFRF  161 (365)
T ss_pred             CC-CCCCHHHHHHHHHHHHHcCcCEEEE
Confidence            33 2335677777777777888886543

This family consists of the NifV clade of homocitrate synthases, most of which are found in operons for nitrogen fixation. Members are closely homologous to enzymes that include 2-isopropylmalate synthase, (R)-citramalate synthase, and homocitrate synthases associated with other processes. The homocitrate made by this enzyme becomes a part of the iron-molybdenum cofactor of nitrogenase.

>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members

Probab=88.84  E-value=2.6  Score=41.22  Aligned_cols=145  Identities=10%  Similarity=0.067  Sum_probs=85.1

Q ss_pred             cCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCc
Q 041524          262 SRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE  341 (524)
Q Consensus       262 sr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~  341 (524)
                      ..+.++.++-++.|.+.|+..|.+.   +...            +.               .....+.++.+.+..    
T Consensus        10 ~~~~~~k~~i~~~L~~~Gv~~iEvg---~~~~------------~~---------------~~~~~v~~~~~~~~~----   55 (237)
T PF00682_consen   10 AFSTEEKLEIAKALDEAGVDYIEVG---FPFA------------SE---------------DDFEQVRRLREALPN----   55 (237)
T ss_dssp             T--HHHHHHHHHHHHHHTTSEEEEE---HCTS------------SH---------------HHHHHHHHHHHHHHS----
T ss_pred             CcCHHHHHHHHHHHHHhCCCEEEEc---cccc------------CH---------------HHHHHhhhhhhhhcc----
Confidence            4788888888899989999998876   1111            00               001223334443333    


Q ss_pred             eEE-EEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeEEE
Q 041524          342 MRF-RYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLSSDFIC  418 (524)
Q Consensus       342 ~~i-r~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~fI~  418 (524)
                      ..+ .+...... .-+..++.++..  |...+.+.+-..+......+++.  ...+.+.++++.+++.  |..+...++-
T Consensus        56 ~~~~~~~~~~~~-~i~~~~~~~~~~--g~~~i~i~~~~s~~~~~~~~~~~~~~~~~~~~~~v~~ak~~--g~~v~~~~~~  130 (237)
T PF00682_consen   56 ARLQALCRANEE-DIERAVEAAKEA--GIDIIRIFISVSDLHIRKNLNKSREEALERIEEAVKYAKEL--GYEVAFGCED  130 (237)
T ss_dssp             SEEEEEEESCHH-HHHHHHHHHHHT--TSSEEEEEEETSHHHHHHHTCSHHHHHHHHHHHHHHHHHHT--TSEEEEEETT
T ss_pred             cccceeeeehHH-HHHHHHHhhHhc--cCCEEEecCcccHHHHHHhhcCCHHHHHHHHHHHHHHHHhc--CCceEeCccc
Confidence            222 12212111 112224445566  89998887655444555556553  2367778888999998  8877555443


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCCeEEEE
Q 041524          419 GFCGETEEEHADTLTLMKAVGYDMAYMF  446 (524)
Q Consensus       419 G~PgET~ed~~~tl~~l~~l~~d~~~i~  446 (524)
                      .. .-+++.+.+..+.+.+++++.+.+-
T Consensus       131 ~~-~~~~~~~~~~~~~~~~~g~~~i~l~  157 (237)
T PF00682_consen  131 AS-RTDPEELLELAEALAEAGADIIYLA  157 (237)
T ss_dssp             TG-GSSHHHHHHHHHHHHHHT-SEEEEE
T ss_pred             cc-cccHHHHHHHHHHHHHcCCeEEEee
Confidence            33 3478888899999999999977653

are a sub-families of this Pfam.; InterPro: IPR000891 Pyruvate carboxylase (6.4.1.1 from EC) (PC), a member of the biotin-dependent enzyme family, is involved in the gluconeogenesis by mediating the carboxylation of pyruvate to oxaloacetate. Biotin-dependent carboxylase enzymes perform a two step reaction. Enzyme-bound biotin is first carboxylated by bicarbonate and ATP and the carboxyl group temporarily bound to biotin is subsequently transferred to an acceptor substrate such as pyruvate []. PC has three functional domains: a biotin carboxylase (BC) domain, a carboxyltransferase (CT) domain which perform the second part of the reaction and a biotinyl domain [, ]. The mechanism by which the carboxyl group is transferred from the carboxybiotin to the pyruvate is not well understood. The pyruvate carboxyltransferase domain is also found in other pyruvate binding enzymes and acetyl-CoA dependent enzymes suggesting that this domain can be associated with different enzymatic activities. This domain is found towards the N-terminal region of various aldolase enzymes. This N-terminal TIM barrel domain [] interacts with the C-terminal domain. The C-terminal DmpG_comm domain (IPR012425 from INTERPRO) is thought to promote heterodimerisation with members of IPR003361 from INTERPRO to form a bifunctional aldolase-dehydrogenase []. ; GO: 0003824 catalytic activity; PDB: 3MP5_E 3MP3_E 2CW6_E 3MP4_D 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1YDN_B 3RMJ_A ....

>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain

Probab=88.73  E-value=15  Score=37.30  Aligned_cols=86  Identities=6%  Similarity=0.047  Sum_probs=61.4

Q ss_pred             HHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeEEE-cCC-CCCHHHHHHH
Q 041524          356 DELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLSSDFIC-GFC-GETEEEHADT  431 (524)
Q Consensus       356 ~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~fI~-G~P-gET~ed~~~t  431 (524)
                      ..-++...++  |+..+++.+=+.+....+.+++.  ...+.+.+.++.+++.  |+.+..++.- |-| --+++.+.+.
T Consensus        77 ~~~~~~A~~~--g~~~i~i~~~~S~~h~~~~~~~t~~e~l~~~~~~i~~a~~~--G~~v~~~~~d~~~~~r~~~~~~~~~  152 (280)
T cd07945          77 DKSVDWIKSA--GAKVLNLLTKGSLKHCTEQLRKTPEEHFADIREVIEYAIKN--GIEVNIYLEDWSNGMRDSPDYVFQL  152 (280)
T ss_pred             HHHHHHHHHC--CCCEEEEEEeCCHHHHHHHHCcCHHHHHHHHHHHHHHHHhC--CCEEEEEEEeCCCCCcCCHHHHHHH
Confidence            3457777777  99999999855444555566664  3456778888888888  8887777664 222 3467888888


Q ss_pred             HHHHHHcCCCeEEE
Q 041524          432 LTLMKAVGYDMAYM  445 (524)
Q Consensus       432 l~~l~~l~~d~~~i  445 (524)
                      ++.+.+.+.+.+.+
T Consensus       153 ~~~~~~~G~~~i~l  166 (280)
T cd07945         153 VDFLSDLPIKRIML  166 (280)
T ss_pred             HHHHHHcCCCEEEe
Confidence            88888889887654

Citramalate synthase (CMS) catalyzes the conversion of pyruvate and acetyl-CoA to (R)-citramalate in the first dedicated step of the citramalate pathway. Citramalate is only found in Leptospira interrogans and a few other microorganisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center con

>cd07940 DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain

Probab=88.48  E-value=29  Score=34.74  Aligned_cols=141  Identities=9%  Similarity=0.000  Sum_probs=88.9

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|+..|.+..   ...            +                  +..+ +.++.+.+..+
T Consensus        15 ~~~~~~~k~~i~~~L~~~Gv~~iEvg~---~~~------------~------------------~~~~-~~~~~l~~~~~   60 (268)
T cd07940          15 VSLTPEEKLEIARQLDELGVDVIEAGF---PAA------------S------------------PGDF-EAVKRIAREVL   60 (268)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEeC---CCC------------C------------------HHHH-HHHHHHHHhCC
Confidence            467899999999999999999988742   110            0                  1122 45555655444


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCC----cceeecCcCCcCHHH-HhhhCCCC--CHHHHHHHHHHHHHhCCCcEEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNV----CKYIHLPAQTGNSAV-LERMRRGY--TREAYLDLVQKIRQIIPDVGLS  413 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G----~~~i~igiESgs~~v-L~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~  413 (524)
                      ...+... .++   ..+.++...++  |    ...+.+-+ |.|+.- .+.+++..  ..+.+.+.++.+++.  |+.+.
T Consensus        61 ~~~~~~l-~r~---~~~~v~~a~~~--~~~~~~~~i~i~~-~~s~~~~~~~~~~~~~~~~~~~~~~i~~a~~~--G~~v~  131 (268)
T cd07940          61 NAEICGL-ARA---VKKDIDAAAEA--LKPAKVDRIHTFI-ATSDIHLKYKLKKTREEVLERAVEAVEYAKSH--GLDVE  131 (268)
T ss_pred             CCEEEEE-ccC---CHhhHHHHHHh--CCCCCCCEEEEEe-cCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCeEE
Confidence            4444322 222   24455665555  5    77777766 455554 44556543  357778889999998  87766


Q ss_pred             EeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          414 SDFICGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       414 ~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      ..++.+. .-+++.+.+.++.+.+++++.+.+
T Consensus       132 ~~~~~~~-~~~~~~~~~~~~~~~~~G~~~i~l  162 (268)
T cd07940         132 FSAEDAT-RTDLDFLIEVVEAAIEAGATTINI  162 (268)
T ss_pred             EeeecCC-CCCHHHHHHHHHHHHHcCCCEEEE
Confidence            4444332 246788888888888888887654

2-isopropylmalate synthase (IPMS) catalyzes an aldol-type condensation of acetyl-CoA and 2-oxoisovalerate yielding 2-isopropylmalate and CoA, the first committed step in leucine biosynthesis. This family includes the Arabidopsis thaliana IPMS1 and IPMS2 proteins, the Glycine max GmN56 protein, and the Brassica insularis BatIMS protein. This family also includes a group of archeal IPMS-like proteins represented by the Methanocaldococcus jannaschii AksA protein. AksA catalyzes the condensation of alpha-ketoglutarate and acetyl-CoA to form trans-homoaconitate, one of 13 steps in the conversion of alpha-ketoglutarate and acetylCoA to alpha-ketosuberate, a precursor to coenzyme B and biotin. AksA also catalyzes the condensation of alpha-ketoadipate or alpha-ketopimelate with acetylCoA to form, respectively, the (R)-homocitrate homologs (R)-2-hydroxy-1,2,5-pentanetricarboxylic acid and (R)-2-h

>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain

Probab=87.81  E-value=31  Score=34.37  Aligned_cols=141  Identities=15%  Similarity=0.177  Sum_probs=89.9

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEecc-CC--CCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHh
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQN-VN--SYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSL  337 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n-~~--~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~  337 (524)
                      ...+.++.++-++.|.+.|+..|.+...+ +.  ++              .+    +++        ...-.+.++.+.+
T Consensus        17 ~~~~~~~k~~i~~~L~~~Gv~~iEvg~~~~~~~~~~--------------~~----~~~--------~~~~~e~i~~~~~   70 (263)
T cd07943          17 HQFTLEQVRAIARALDAAGVPLIEVGHGDGLGGSSL--------------NY----GFA--------AHTDEEYLEAAAE   70 (263)
T ss_pred             eecCHHHHHHHHHHHHHcCCCEEEeecCCCCCCccc--------------cc----CCC--------CCChHHHHHHHHH
Confidence            46788999999999999999988775211 00  00              00    000        0112344555544


Q ss_pred             hCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          338 EFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       338 ~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      ..+..++... .++.....+-++...++  |+..+.+.. +.|+           .....+.++.+++.  |..+...++
T Consensus        71 ~~~~~~~~~~-~~~~~~~~~~i~~a~~~--g~~~iri~~-~~s~-----------~~~~~~~i~~ak~~--G~~v~~~~~  133 (263)
T cd07943          71 ALKQAKLGVL-LLPGIGTVDDLKMAADL--GVDVVRVAT-HCTE-----------ADVSEQHIGAARKL--GMDVVGFLM  133 (263)
T ss_pred             hccCCEEEEE-ecCCccCHHHHHHHHHc--CCCEEEEEe-chhh-----------HHHHHHHHHHHHHC--CCeEEEEEE
Confidence            4344444322 12333345667777777  899888755 3332           24678899999999  888888886


Q ss_pred             EcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          418 CGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       418 ~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      -.. .-+++.+.+.++.+.+.+.+.+.+
T Consensus       134 ~~~-~~~~~~~~~~~~~~~~~G~d~i~l  160 (263)
T cd07943         134 MSH-MASPEELAEQAKLMESYGADCVYV  160 (263)
T ss_pred             ecc-CCCHHHHHHHHHHHHHcCCCEEEE
Confidence            665 357888888899999999887653

4-hydroxy 2-ketovalerate aldolase (Also known as 4-hydroxy-2-ketovalerate aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA)) converts 4-hydroxy-2-oxopentanoate to acetaldehyde and pyruvate, the penultimate step in the meta-cleavage pathway for the degradation of phenols, cresols and catechol. This family includes the Escherichia coli MhpE aldolase, the Pseudomonas DmpG aldolase, and the Burkholderia xenovorans BphI pyruvate aldolase. In Pseudomonas, the DmpG aldolase tightly associates with a dehydrogenase (DmpF ) and is inactive without it. HOA has a canonical TIM-barrel fold with a C-terminal extension that forms a funnel leading to the active site. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate

>cd00452 KDPG_aldolase KDPG and KHG aldolase

Probab=87.38  E-value=20  Score=33.82  Aligned_cols=120  Identities=16%  Similarity=0.217  Sum_probs=78.9

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      .|..+++++++-++.+.+.|++-|.+.-.+                                    ....+.++.+.+..
T Consensus        10 ~r~~~~~~~~~~~~~l~~~G~~~vev~~~~------------------------------------~~~~~~i~~l~~~~   53 (190)
T cd00452          10 LRGDDAEDALALAEALIEGGIRAIEITLRT------------------------------------PGALEAIRALRKEF   53 (190)
T ss_pred             EEcCCHHHHHHHHHHHHHCCCCEEEEeCCC------------------------------------hhHHHHHHHHHHHC
Confidence            356679999999999999999988775321                                    01344666666665


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEc
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICG  419 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G  419 (524)
                      +...+...+    .++.+-++...++  |..+++.|-..                  .+.++.+++.  ++    .+|.|
T Consensus        54 ~~~~iGag~----v~~~~~~~~a~~~--Ga~~i~~p~~~------------------~~~~~~~~~~--~~----~~i~g  103 (190)
T cd00452          54 PEALIGAGT----VLTPEQADAAIAA--GAQFIVSPGLD------------------PEVVKAANRA--GI----PLLPG  103 (190)
T ss_pred             CCCEEEEEe----CCCHHHHHHHHHc--CCCEEEcCCCC------------------HHHHHHHHHc--CC----cEECC
Confidence            554444433    2457778888888  99999976321                  2355555555  44    35667


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCCeEEEEeeecC
Q 041524          420 FCGETEEEHADTLTLMKAVGYDMAYMFAYSMR  451 (524)
Q Consensus       420 ~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~  451 (524)
                      .-  |.++..+.    .+.+.|++.+|+.++.
T Consensus       104 v~--t~~e~~~A----~~~Gad~i~~~p~~~~  129 (190)
T cd00452         104 VA--TPTEIMQA----LELGADIVKLFPAEAV  129 (190)
T ss_pred             cC--CHHHHHHH----HHCCCCEEEEcCCccc
Confidence            64  77776554    3578999998765443

This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best known for its role in the Entner-Doudoroff pathway of bacteria, where it catalyzes the reversible cleavage of KDPG to pyruvate and glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate (KHG) aldolase, which has enzymatic specificity toward glyoxylate, forming KHG in the presence of pyruvate, and is capable of regulating glyoxylate levels in the glyoxylate bypass, an alternate pathway when bacteria are grown on acetate carbon sources.

>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family

Probab=87.13  E-value=1.7  Score=41.54  Aligned_cols=78  Identities=15%  Similarity=0.153  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHCCCeecc---CC----------CCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccC
Q 041524           93 MEIVLSIMKNAGYSEVI---NV----------PENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSK  159 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~---~~----------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  159 (524)
                      ...+...|+.+||+++.   +-          ..+||+|+++ ++.+.... .+.+.++.+   ++          +-..
T Consensus       101 ~~~v~~~l~~~G~~vi~LG~~vp~e~~v~~~~~~~pd~v~lS-~~~~~~~~-~~~~~i~~l---~~----------~~~~  165 (197)
T TIGR02370       101 KNIVVTMLRANGFDVIDLGRDVPIDTVVEKVKKEKPLMLTGS-ALMTTTMY-GQKDINDKL---KE----------EGYR  165 (197)
T ss_pred             HHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHHcCCCEEEEc-cccccCHH-HHHHHHHHH---HH----------cCCC
Confidence            67788899999998631   11          1589999995 44444333 244444443   11          1123


Q ss_pred             CCCEEEEEcccccccHHHHHhhCCcceEEE
Q 041524          160 HPPKIVVLGCMAERLKDKILDADKMVDVVC  189 (524)
Q Consensus       160 p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv  189 (524)
                      ++++|++||...+  + ++.+. -++|...
T Consensus       166 ~~v~i~vGG~~~~--~-~~~~~-~gad~~~  191 (197)
T TIGR02370       166 DSVKFMVGGAPVT--Q-DWADK-IGADVYG  191 (197)
T ss_pred             CCCEEEEEChhcC--H-HHHHH-hCCcEEe
Confidence            5689999997654  3 34333 3577654

This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.

>PF04016 DUF364: Domain of unknown function (DUF364); InterPro: IPR007161 This is a entry represents of bacterial and archaeal proteins of unknown function

Probab=84.83  E-value=1.2  Score=40.65  Aligned_cols=72  Identities=17%  Similarity=0.250  Sum_probs=49.9

Q ss_pred             CCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCC
Q 041524          113 ENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPD  192 (524)
Q Consensus       113 ~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~ge  192 (524)
                      .+||+|+++.+|+.++.-..+.+..                     .+...+++-|+-+...|+.+..  -.||+|.+--
T Consensus        61 ~~aD~viiTGsTlvN~Ti~~iL~~~---------------------~~~~~vil~GpS~~~~P~~l~~--~Gv~~v~g~~  117 (147)
T PF04016_consen   61 PWADVVIITGSTLVNGTIDDILELA---------------------RNAREVILYGPSAPLHPEALFD--YGVTYVGGSR  117 (147)
T ss_dssp             GG-SEEEEECHHCCTTTHHHHHHHT---------------------TTSSEEEEESCCGGS-GGGGCC--TT-SEEEEEE
T ss_pred             ccCCEEEEEeeeeecCCHHHHHHhC---------------------ccCCeEEEEecCchhhHHHHHh--CCCCEEEEEE
Confidence            5899999999999997665554432                     1356899999999999988865  4689876643


Q ss_pred             CcccHHHHHHHHhcCC
Q 041524          193 AYRDLPRLLEEVDYGQ  208 (524)
Q Consensus       193 ge~~l~~Ll~~~~~g~  208 (524)
                       -.+...+++.+..|.
T Consensus       118 -v~d~~~~~~~i~~Gg  132 (147)
T PF04016_consen  118 -VVDPEKVLRAISEGG  132 (147)
T ss_dssp             -ES-HHHHHHHHCTTS
T ss_pred             -EeCHHHHHHHHHcCC
Confidence             456677777776654

; PDB: 3L5O_B 3NPG_A.

>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase

Probab=83.26  E-value=3  Score=40.54  Aligned_cols=63  Identities=16%  Similarity=0.196  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHCCCeecc---CCC----------CCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccccC
Q 041524           93 MEIVLSIMKNAGYSEVI---NVP----------ENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQSK  159 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~---~~~----------~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  159 (524)
                      ...+...|+.+||+++.   +.+          .+||+|++++.. +.. ...+.+.++++   +            +..
T Consensus       105 ~~iv~~~l~~~G~~Vi~LG~~vp~e~~v~~~~~~~~~~V~lS~~~-~~~-~~~~~~~i~~L---~------------~~~  167 (213)
T cd02069         105 KNLVGVILSNNGYEVIDLGVMVPIEKILEAAKEHKADIIGLSGLL-VPS-LDEMVEVAEEM---N------------RRG  167 (213)
T ss_pred             HHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEccch-hcc-HHHHHHHHHHH---H------------hcC
Confidence            56788899999998631   111          489999996443 322 22334444443   1            124


Q ss_pred             CCCEEEEEccccc
Q 041524          160 HPPKIVVLGCMAE  172 (524)
Q Consensus       160 p~~~IvvgG~~at  172 (524)
                      ++++|++||.-.+
T Consensus       168 ~~~~i~vGG~~~~  180 (213)
T cd02069         168 IKIPLLIGGAATS  180 (213)
T ss_pred             CCCeEEEEChhcC
Confidence            6889999996544

This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).

>PRK12344 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional

Probab=83.13  E-value=45  Score=36.97  Aligned_cols=146  Identities=16%  Similarity=0.044  Sum_probs=86.5

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC-
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF-  339 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~-  339 (524)
                      .+.+.++.++-++.|.+.|++.|...-   ...            +                   ..-.+.++++.+.. 
T Consensus        22 ~~~s~e~Kl~ia~~L~~~Gvd~IEvG~---p~a------------s-------------------~~d~~~~~~i~~~~l   67 (524)
T PRK12344         22 ISFSVEDKLRIARKLDELGVDYIEGGW---PGS------------N-------------------PKDTEFFKRAKELKL   67 (524)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEcC---CcC------------C-------------------hhHHHHHHHHHHhCC
Confidence            678999999999999999999988631   111            0                   00122344443321 


Q ss_pred             CceEE-EEecCCCCCC---CHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEE
Q 041524          340 PEMRF-RYTSPHPKDF---PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLS  413 (524)
Q Consensus       340 ~~~~i-r~~s~~p~~~---~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~  413 (524)
                      ....+ .+......++   ++..++.+.++  |...+++.+-+.+....+.+++.  ...+.+.+.++.+++.  |..+.
T Consensus        68 ~~~~i~~~~~~~~~~i~~~~d~~~e~~~~~--g~~~i~i~~~~Sd~h~~~~l~~s~~e~l~~~~~~v~~ak~~--G~~v~  143 (524)
T PRK12344         68 KHAKLAAFGSTRRAGVSAEEDPNLQALLDA--GTPVVTIFGKSWDLHVTEALRTTLEENLAMIRDSVAYLKAH--GREVI  143 (524)
T ss_pred             CCcEEEEEeeccccCCCcccHHHHHHHHhC--CCCEEEEEECCCHHHHHHHcCCCHHHHHHHHHHHHHHHHHc--CCeEE
Confidence            11222 2221222223   46678888888  88999988765554445556553  3566777888889988  76655


Q ss_pred             EeEEEcCC--CCCHHHHHHHHHHHHHcCCCeEE
Q 041524          414 SDFICGFC--GETEEEHADTLTLMKAVGYDMAY  444 (524)
Q Consensus       414 ~~fI~G~P--gET~ed~~~tl~~l~~l~~d~~~  444 (524)
                      .+.+.-+.  -.+.+-+.+.++.+.+.+.+.+.
T Consensus       144 ~~~e~~~Da~r~d~~~l~~~~~~~~~~Gad~i~  176 (524)
T PRK12344        144 FDAEHFFDGYKANPEYALATLKAAAEAGADWVV  176 (524)
T ss_pred             EccccccccccCCHHHHHHHHHHHHhCCCCeEE
Confidence            43321111  13455556666777777888765

>PRK00915 2-isopropylmalate synthase; Validated

Probab=82.70  E-value=34  Score=37.78  Aligned_cols=146  Identities=12%  Similarity=0.023  Sum_probs=85.1

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      ..+.+.++-++=++.|.+.|++.|.+.-   ...            +                  ...+ +.++++.+..
T Consensus        20 g~~~s~e~K~~ia~~L~~~Gv~~IE~G~---p~~------------s------------------~~d~-~~v~~i~~~~   65 (513)
T PRK00915         20 GASLTVEEKLQIAKQLERLGVDVIEAGF---PAS------------S------------------PGDF-EAVKRIARTV   65 (513)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCCEEEEcC---CCC------------C------------------hHHH-HHHHHHHhhC
Confidence            3578999999999999999999988631   111            0                  0112 2234443333


Q ss_pred             CceEEE-EecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeE
Q 041524          340 PEMRFR-YTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDF  416 (524)
Q Consensus       340 ~~~~ir-~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~f  416 (524)
                      +...+. |...+..+ -+..++.++++  |...+++-+-+.+-.+...+++..  ..+.+.+.++.+++.  |..+..+.
T Consensus        66 ~~~~i~a~~r~~~~d-id~a~~a~~~~--~~~~v~i~~~~Sd~h~~~~l~~s~~e~l~~~~~~v~~ak~~--g~~v~f~~  140 (513)
T PRK00915         66 KNSTVCGLARAVKKD-IDAAAEALKPA--EAPRIHTFIATSPIHMEYKLKMSREEVLEMAVEAVKYARSY--TDDVEFSA  140 (513)
T ss_pred             CCCEEEEEccCCHHH-HHHHHHHhhcC--CCCEEEEEECCcHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEe
Confidence            333332 22222222 12244444466  888888877555555555666532  345566888889888  77665444


Q ss_pred             EEcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          417 ICGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       417 I~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      .-+.. -+.+.+.+.++.+.+.+.+.+.+
T Consensus       141 ed~~r-~d~~~l~~~~~~~~~~Ga~~i~l  168 (513)
T PRK00915        141 EDATR-TDLDFLCRVVEAAIDAGATTINI  168 (513)
T ss_pred             CCCCC-CCHHHHHHHHHHHHHcCCCEEEE
Confidence            43332 24566677777777778876553

>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated

Probab=82.65  E-value=22  Score=35.67  Aligned_cols=139  Identities=12%  Similarity=0.095  Sum_probs=84.0

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      .+.++.+.+++.++.+.+.|..-|-+-++.   .            +.               ....++..+++.+.+..
T Consensus        19 ~~~~d~~~i~~~A~~~~~~GAdiIDVg~~~---~------------~~---------------eE~~r~~~~v~~l~~~~   68 (261)
T PRK07535         19 IEAKDAAFIQKLALKQAEAGADYLDVNAGT---A------------VE---------------EEPETMEWLVETVQEVV   68 (261)
T ss_pred             HHcCCHHHHHHHHHHHHHCCCCEEEECCCC---C------------ch---------------hHHHHHHHHHHHHHHhC
Confidence            456899999999999999998876654431   1            00               01234555666665432


Q ss_pred             CceEEEEecC---------------------CCCC-CCHHHHHHHHcCCCCcceeecCcC-CcCHHHHhhhCCCCCHHHH
Q 041524          340 PEMRFRYTSP---------------------HPKD-FPDELLYIMRDRPNVCKYIHLPAQ-TGNSAVLERMRRGYTREAY  396 (524)
Q Consensus       340 ~~~~ir~~s~---------------------~p~~-~~~elL~~l~~~~~G~~~i~igiE-Sgs~~vL~~m~R~~t~e~~  396 (524)
                       ...+.+.|.                     .... -.++++++++++  ||..+-+... .|.++..+.     ..+..
T Consensus        69 -~~plsIDT~~~~v~eaaL~~~~G~~iINsIs~~~~~~~~~~~l~~~~--g~~vv~m~~~~~g~P~t~~~-----~~~~l  140 (261)
T PRK07535         69 -DVPLCIDSPNPAAIEAGLKVAKGPPLINSVSAEGEKLEVVLPLVKKY--NAPVVALTMDDTGIPKDAED-----RLAVA  140 (261)
T ss_pred             -CCCEEEeCCCHHHHHHHHHhCCCCCEEEeCCCCCccCHHHHHHHHHh--CCCEEEEecCCCCCCCCHHH-----HHHHH
Confidence             123333332                     1111 145677777777  7777655442 122221111     14666


Q ss_pred             HHHHHHHHHhCCCc---EEEEeEEEcCCCCCHHHHHHHHHHHHHc
Q 041524          397 LDLVQKIRQIIPDV---GLSSDFICGFCGETEEEHADTLTLMKAV  438 (524)
Q Consensus       397 ~~~v~~ir~~~pgi---~i~~~fI~G~PgET~ed~~~tl~~l~~l  438 (524)
                      .+.++.+.++  |+   .+..|=.+|+.|-+.+...++++.++.+
T Consensus       141 ~~~v~~a~~~--GI~~~~IilDPgi~~~~~~~~~~~~~l~~i~~l  183 (261)
T PRK07535        141 KELVEKADEY--GIPPEDIYIDPLVLPLSAAQDAGPEVLETIRRI  183 (261)
T ss_pred             HHHHHHHHHc--CCCHhHEEEeCCCCcccCChHHHHHHHHHHHHH
Confidence            7788888888  88   6899999997787777776666655544

>PRK09389 (R)-citramalate synthase; Provisional

Probab=81.64  E-value=70  Score=35.12  Aligned_cols=143  Identities=9%  Similarity=-0.046  Sum_probs=88.6

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      -.+.+.++.++-++.|.+.|++.|....   ...            +                   ..=.+.++.+.+..
T Consensus        18 g~~~s~e~K~~ia~~L~~~Gv~~IE~G~---p~~------------~-------------------~~d~e~v~~i~~~~   63 (488)
T PRK09389         18 GVSLTPEEKLEIARKLDELGVDVIEAGS---AIT------------S-------------------EGEREAIKAVTDEG   63 (488)
T ss_pred             CCCcCHHHHHHHHHHHHHcCCCEEEEeC---CcC------------C-------------------HHHHHHHHHHHhcC
Confidence            3678999999999999999999988642   111            0                   01123344444332


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      ....+... .+.   ..+.++...++  |...+++.+-+-+-.+...+++.  ...+.+.+.++.+++.  |..+..+..
T Consensus        64 ~~~~i~a~-~r~---~~~di~~a~~~--g~~~v~i~~~~Sd~h~~~~l~~s~~e~l~~~~~~v~~ak~~--g~~v~~~~e  135 (488)
T PRK09389         64 LNAEICSF-ARA---VKVDIDAALEC--DVDSVHLVVPTSDLHIEYKLKKTREEVLETAVEAVEYAKDH--GLIVELSGE  135 (488)
T ss_pred             CCcEEEee-ccc---CHHHHHHHHhC--CcCEEEEEEccCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCEEEEEEe
Confidence            22232211 111   24457777777  89999998844333333445543  2345666777788887  877777766


Q ss_pred             EcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          418 CGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       418 ~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      -+ .--+.+-+.+.++.+.+.+.+.+.+
T Consensus       136 d~-~r~~~~~l~~~~~~~~~~Ga~~i~l  162 (488)
T PRK09389        136 DA-SRADLDFLKELYKAGIEAGADRICF  162 (488)
T ss_pred             eC-CCCCHHHHHHHHHHHHhCCCCEEEE
Confidence            54 3445677778888888888887654

>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3

Probab=81.24  E-value=46  Score=30.88  Aligned_cols=78  Identities=12%  Similarity=0.024  Sum_probs=56.5

Q ss_pred             HHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCC--------C------
Q 041524          359 LYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGE--------T------  424 (524)
Q Consensus       359 L~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgE--------T------  424 (524)
                      ++.++++  |+..|.+......+....       .+...+..+.++++  |+.+.+--.......        .      
T Consensus         1 l~~~~~~--G~~~vE~~~~~~~~~~~~-------~~~~~~~~~~~~~~--gl~i~~~~~~~~~~~~~~~~~~~~~~r~~~   69 (213)
T PF01261_consen    1 LEAAAEA--GFDGVELRFDDGQPWDEK-------DDEAEELRRLLEDY--GLKIASLHPPTNFWSPDEENGSANDEREEA   69 (213)
T ss_dssp             HHHHHHT--THSEEEEEHHHHSHHTHH-------HHHHHHHHHHHHHT--TCEEEEEEEEESSSCTGTTSTTSSSHHHHH
T ss_pred             ChHHHHc--CCCEEEEecCCCcccccc-------hHHHHHHHHHHHHc--CCeEEEEecccccccccccccCcchhhHHH
Confidence            4678888  999999988766655444       56777888888898  998654333332222        2      


Q ss_pred             HHHHHHHHHHHHHcCCCeEEEEe
Q 041524          425 EEEHADTLTLMKAVGYDMAYMFA  447 (524)
Q Consensus       425 ~ed~~~tl~~l~~l~~d~~~i~~  447 (524)
                      .+.+.+.++++..++...+.+..
T Consensus        70 ~~~~~~~i~~a~~lg~~~i~~~~   92 (213)
T PF01261_consen   70 LEYLKKAIDLAKRLGAKYIVVHS   92 (213)
T ss_dssp             HHHHHHHHHHHHHHTBSEEEEEC
T ss_pred             HHHHHHHHHHHHHhCCCceeecC
Confidence            67888999999999999877654

1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	524
2qgq_A	304	Crystal Structure Of Tm_1862 From Thermotoga Mariti		6e-26

>pdb|2QGQ|A Chain A, Crystal Structure Of Tm_1862 From Thermotoga Maritima. Northeast Structural Genomics Consortium Target Vr77 Length = 304

Iteration: 1
 Score =  115 bits (288), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 86/281 (30%), Positives = 126/281 (44%), Gaps = 30/281 (10%)
Query: 236 AFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYND 295
           A+V +  GC+  C+FC +P  +G  RSR +E I +EV++L KEG KE+ L+ Q+  SY  
Sbjct: 6   AYVKISDGCDRGCTFCSIPSFKGSLRSRSIEDITREVEDLLKEGKKEIILVAQDTTSYG- 64
Query: 296 TSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFP 355
                                 +   +K  L   DLL RL+    E   R    HP    
Sbjct: 65  ----------------------IDLYRKQAL--PDLLRRLNSLNGEFWIRVXYLHPDHLT 100
Query: 356 DELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSD 415
           +E++    +   V KY  +P Q G+  +L+   R  + E     +  IR+  PD  L + 
Sbjct: 101 EEIISAXLELDKVVKYFDVPVQHGSDKILKLXGRTKSSEELKKXLSSIRERFPDAVLRTS 160
Query: 416 FICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTE 475
            I GF GETEE+  +    ++ + +D    F YS  E T A  N  + V  E  +RR  E
Sbjct: 161 IIVGFPGETEEDFEELKQFVEEIQFDKLGAFVYSDEEGTVAF-NLKEKVDPEXAKRRQEE 219
Query: 476 LIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKS 516
           L+    E +    D  VG     LVEG   K     LVG++
Sbjct: 220 LLLLQAEISNSRLDRFVGKKLKFLVEGKEGKF----LVGRT 256

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	524
2qgq_A	304	Protein TM_1862; alpha-beta protein, structural ge	2e-73
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-11

>2qgq_A Protein TM_1862; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; HET: CXS; 2.00A {Thermotoga maritima MSB8} Length = 304

 Score =  234 bits (600), Expect = 2e-73
 Identities = 85/278 (30%), Positives = 127/278 (45%), Gaps = 34/278 (12%)

Query: 243 GCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKE 302
           GC+  C+FC +P  +G  RSR +E I +EV++L KEG KE+ L+ Q+  SY    G++  
Sbjct: 13  GCDRGCTFCSIPSFKGSLRSRSIEDITREVEDLLKEGKKEIILVAQDTTSY----GIDLY 68

Query: 303 VEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLS-LEFPE-MRFRYTSPHPKDFPDELLY 360
            +                         DLL RL+ L     +R  Y   HP    +E++ 
Sbjct: 69  RKQ---------------------ALPDLLRRLNSLNGEFWIRVMYL--HPDHLTEEIIS 105

Query: 361 IMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICGF 420
            M +   V KY  +P Q G+  +L+ M R  + E    ++  IR+  PD  L +  I GF
Sbjct: 106 AMLELDKVVKYFDVPVQHGSDKILKLMGRTKSSEELKKMLSSIRERFPDAVLRTSIIVGF 165

Query: 421 CGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTELIEAF 480
            GETEE+  +    ++ + +D    F YS  E T A  N  + V  E+ +RR  EL+   
Sbjct: 166 PGETEEDFEELKQFVEEIQFDKLGAFVYSDEEGTVAF-NLKEKVDPEMAKRRQEELLLLQ 224

Query: 481 RESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDR 518
            E +    D  VG     LVEG         LVG++  
Sbjct: 225 AEISNSRLDRFVGKKLKFLVEGKE----GKFLVGRTWT 258

>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 = 66.0 bits (160), Expect = 2e-11
 Identities = 68/461 (14%), Positives = 130/461 (28%), Gaps = 131/461 (28%)

Query: 69  TGSEVHSQGRI---YQETYGCQMNVNDME-IVLSIMKNAGYSEVINVPENAE---VIFIN 121
           TG   +    I   +++ +    +  D++ +  SI+       +I   +       +F  
Sbjct: 11  TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW- 69

Query: 122 TCAIRDYAEHKVWQ------RLNYFWFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLK 175
              +    E  V +      R+NY + +           +++ + P  +     M    +
Sbjct: 70  --TLLSKQEEMVQKFVEEVLRINYKFLMSP-I-------KTEQRQPSMMTR---MYIEQR 116

Query: 176 DKIL-DADKMVDV-VCGPDAYRDLPRLLEEVD-------YGQKGI-NTLLSLEETYADIS 225
           D++  D        V     Y  L + L E+         G  G   T ++L+       
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD-VCLSYK 175

Query: 226 PVR--------ISKNSVTAFVSVMRGCNNMCSFCIVPFTRGRERS----RPVESIVKEVD 273
                      ++  +  +  +V+     +       +T   + S      + SI  E+ 
Sbjct: 176 VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235

Query: 274 ELWKEGVKEVTLLG-QNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGL---RFA 329
            L K    E  LL   NV                 N +    FN  CK+    L   RF 
Sbjct: 236 RLLKSKPYENCLLVLLNVQ----------------NAKAWNAFNLSCKI----LLTTRFK 275

Query: 330 DLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRR 389
            + D LS                                    H+         L+    
Sbjct: 276 QVTDFLS-------------------------------AATTTHIS--------LDHHSM 296

Query: 390 GYTREAYLDLVQKIRQIIPD-----VGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAY 444
             T +    L+ K     P      V  ++        E+  +   T    K V  D   
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD--- 353

Query: 445 MFAYSMRERTHAHRNYVDDV-PEEVKQRRLTELIEAFREST 484
                  + T    + ++ + P E   R++ + +  F  S 
Sbjct: 354 -------KLTTIIESSLNVLEPAE--YRKMFDRLSVFPPSA 385

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	524
2qgq_A	304	Protein TM_1862; alpha-beta protein, structural ge	100.0
1olt_A	457	Oxygen-independent coproporphyrinogen III oxidase;	99.94
3t7v_A	350	Methylornithine synthase PYLB; TIM-barrel fold, mu	99.9
3iix_A	348	Biotin synthetase, putative; adoMet radical, SAM r	99.89
1r30_A	369	Biotin synthase; SAM radical protein, TIM barrel,	99.87
1tv8_A	340	MOAA, molybdenum cofactor biosynthesis protein A;	99.72
3c8f_A	245	Pyruvate formate-lyase 1-activating enzyme; adoMet	99.59
2yx0_A	342	Radical SAM enzyme; predicted tRNA modification en	99.58
2a5h_A	416	L-lysine 2,3-aminomutase; radical SAM, four-iron-f	99.32
2z2u_A	311	UPF0026 protein MJ0257; metal binding protein; 2.4	99.31
3rfa_A	404	Ribosomal RNA large subunit methyltransferase N; r	99.16
4fhd_A	368	Spore photoproduct lyase; partial TIM-barrel, DNA	97.68
3can_A	182	Pyruvate-formate lyase-activating enzyme; structur	97.13
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	96.7
2cw6_A	298	Hydroxymethylglutaryl-COA lyase, mitochondrial; HM	94.63
1ydn_A	295	Hydroxymethylglutaryl-COA lyase; TIM-barrel protei	94.29
1ccw_A	137	Protein (glutamate mutase); coenzyme B12, radical	93.5
2ftp_A	302	Hydroxymethylglutaryl-COA lyase; structural genomi	93.44
1ydo_A	307	HMG-COA lyase; TIM-barrel protein, structural geno	92.47
2xij_A	762	Methylmalonyl-COA mutase, mitochondrial; isomerase	92.33
1req_A	727	Methylmalonyl-COA mutase; isomerase, intramolecula	92.25
2i2x_B	258	MTAC, methyltransferase 1; TIM barrel and helix bu	90.7
1y80_A	210	Predicted cobalamin binding protein; corrinoid, fa	90.49
3ble_A	337	Citramalate synthase from leptospira interrogans;	85.84
3ewb_X	293	2-isopropylmalate synthase; LEUA, structural genom	85.31
1nvm_A	345	HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered	84.28
3f6c_A	134	Positive transcription regulator EVGA; structural	83.74
4e38_A	232	Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho	83.7
3ezx_A	215	MMCP 1, monomethylamine corrinoid protein 1; N ter	83.39
3ivs_A	423	Homocitrate synthase, mitochondrial; TIM barrel, m	82.7
2qxy_A	142	Response regulator; regulation of transcription, N	82.07
3bul_A	579	Methionine synthase; transferase, reactivation con	81.8
3inp_A	246	D-ribulose-phosphate 3-epimerase; IDP02542, isomer	81.09

>2qgq_A Protein TM_1862; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; HET: CXS; 2.00A {Thermotoga maritima MSB8}

Probab=100.00  E-value=9.6e-47  Score=383.64  Aligned_cols=260  Identities=33%  Similarity=0.506  Sum_probs=215.6

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      ..++||++++||+++|+||.+|..+|++|++++++|++|++.+.+.|+++|.|+|++++.|            |.+.   
T Consensus         3 ~~~~~v~is~GC~~~C~fC~~~~~~g~~r~r~~e~i~~ei~~l~~~G~~ei~l~g~~~~~y------------G~~~---   67 (304)
T 2qgq_A            3 RPYAYVKISDGCDRGCTFCSIPSFKGSLRSRSIEDITREVEDLLKEGKKEIILVAQDTTSY------------GIDL---   67 (304)
T ss_dssp             CSEEEEESBCCC-------------CCCCBCCHHHHHHHHHHHHHTTCCEEEEECTTGGGT------------THHH---
T ss_pred             CEEEEEEECCCCCCcCccCCccccCCCceeeCHHHHHHHHHHHHHCCCcEEEEEeEccccc------------CCCC---
Confidence            4689999999999999999999999999999999999999999999999999999999988            3211   


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCC
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYT  392 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t  392 (524)
                                +....+.+|++.+.+..+..|+++.+.+|..+++++++.|+++++.|.++++|+||+|+++|++|+|+++
T Consensus        68 ----------~~~~~l~~Ll~~l~~~~gi~~ir~~~~~p~~l~~e~l~~l~~~g~~~~~l~i~lqs~s~~vl~~m~r~~t  137 (304)
T 2qgq_A           68 ----------YRKQALPDLLRRLNSLNGEFWIRVMYLHPDHLTEEIISAMLELDKVVKYFDVPVQHGSDKILKLMGRTKS  137 (304)
T ss_dssp             ----------HSSCCHHHHHHHHHTSSSSCEEEECCCCGGGCCHHHHHHHHHCTTBCCEEECCCBCSCHHHHHHTTCCSC
T ss_pred             ----------CcHHHHHHHHHHHHhcCCCcEEEEeeeecccCCHHHHHHHHhCCCCccEEEEecccCCHHHHHHhCCCCC
Confidence                      0124689999999886555588888899999999999999999323999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCCHHHHHHH
Q 041524          393 REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRR  472 (524)
Q Consensus       393 ~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~~~~k~~R  472 (524)
                      .+++.++++.+++.+||+.+.++||+||||||++++++|++++.+++++.+++|+|+|+|||+++. +.+++|++++++|
T Consensus       138 ~e~~~~~i~~l~~~~~gi~i~~~~IvG~PgEt~ed~~~t~~~l~~l~~~~v~~~~~~p~pgT~~~~-~~~~v~~~~~~~r  216 (304)
T 2qgq_A          138 SEELKKMLSSIRERFPDAVLRTSIIVGFPGETEEDFEELKQFVEEIQFDKLGAFVYSDEEGTVAFN-LKEKVDPEMAKRR  216 (304)
T ss_dssp             HHHHHHHHHHHHHHCTTCEEEEEEEECCTTCCHHHHHHHHHHHHHHCCSEEEEEECCC------------CCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCCCCEEEEEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEEEeeCCCCChhHh-CcCCCCHHHHHHH
Confidence            999999999999988899999999999999999999999999999999999999999999999996 7789999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcccCCEEEEEEeccCCCCCCCeEEEeCCCCcEE
Q 041524          473 LTELIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKSDRGHRV  522 (524)
Q Consensus       473 l~~l~~~~~~~~~~~~~~~vG~~~~vLve~~~~~~~~~~~~Gr~~~~~~v  522 (524)
                      ++++.++++++..++++.++|+++.||||+.+   + +.+.||+++|.+|
T Consensus       217 ~~~l~~~~~~~~~~~~~~~~g~~~~vl~e~~~---~-~~~~g~~~~~~~~  262 (304)
T 2qgq_A          217 QEELLLLQAEISNSRLDRFVGKKLKFLVEGKE---G-KFLVGRTWTEAPE  262 (304)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTTCEEEEEEEEEE---T-TEEEEEETTCCTT
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCEEEEEEEecC---C-CEEEEECCCCcEe
Confidence            99999999999999999999999999999862   2 3789999999987

>1olt_A Oxygen-independent coproporphyrinogen III oxidase; heme biosynthesis, decarboxylase, radical SAM enzyme, 4Fe- 4 cluster; HET: SAM; 2.07A {Escherichia coli} SCOP: c.1.28.2

Probab=99.94  E-value=1.2e-26  Score=248.21  Aligned_cols=228  Identities=19%  Similarity=0.250  Sum_probs=179.1

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCC---ccccCChHHHHHHHHHHHHC----CCcEEEEEeccCCCCCCccCCccccCC
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRG---RERSRPVESIVKEVDELWKE----GVKEVTLLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G---~~Rsr~~e~Iv~Ei~~l~~~----G~kei~l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      ....||.+. +|+++|+||.++...+   ..+.++++.|++||+.+.+.    ++..|.|.|.+.+..            
T Consensus        52 ~~~lYihIp-fC~~~C~yC~~~~~~~~~~~~~~~~~~~l~~Ei~~~~~~~~~~~i~~i~fgGGtpt~l------------  118 (457)
T 1olt_A           52 PLSLYVHIP-FCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWGGGTPTYL------------  118 (457)
T ss_dssp             CEEEEEEEC-EESSCCTTCCSSCEECSCTHHHHHHHHHHHHHHHHHGGGGTTCCEEEEEEEESCGGGS------------
T ss_pred             ceEEEEEcC-CCCCCCCCCCCceeccCCcchHHHHHHHHHHHHHHHHHhcCCCceEEEEEeCCCcccC------------
Confidence            467899997 6999999999875432   24567899999999988764    356777777554322            


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCC---ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP---EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA  382 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~---~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~  382 (524)
                                        ....+.+|++.+.+..+   ..++++. .+|+.++++.++.|+++  |+++|++|+||++++
T Consensus       119 ------------------~~~~l~~ll~~i~~~~~~~~~~eitie-~~p~~l~~e~l~~L~~~--G~~rislGvQS~~~~  177 (457)
T 1olt_A          119 ------------------NKAQISRLMKLLRENFQFNADAEISIE-VDPREIELDVLDHLRAE--GFNRLSMGVQDFNKE  177 (457)
T ss_dssp             ------------------CHHHHHHHHHHHHHHSCEEEEEEEEEE-ECSSSCCTHHHHHHHHT--TCCEEEEEEECCCHH
T ss_pred             ------------------CHHHHHHHHHHHHHhCCCCCCcEEEEE-EccCcCCHHHHHHHHHc--CCCEEEEeeccCCHH
Confidence                              02468889999887543   3466664 69999999999999999  999999999999999


Q ss_pred             HHhhhCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccC-
Q 041524          383 VLERMRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNY-  460 (524)
Q Consensus       383 vL~~m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~-  460 (524)
                      +|+.|+|+++.+++.++++.++++  |+. ++.|+|+|+||||.+++.+|++++.+++++++++|.|++.|||++++++ 
T Consensus       178 ~l~~i~R~~~~~~~~~ai~~~r~~--G~~~v~~dlI~GlPget~e~~~~tl~~~~~l~~~~i~~y~l~~~p~t~~~~~~~  255 (457)
T 1olt_A          178 VQRLVNREQDEEFIFALLNHAREI--GFTSTNIDLIYGLPKQTPESFAFTLKRVAELNPDRLSVFNYAHLPTIFAAQRKI  255 (457)
T ss_dssp             HHHHHTCCCCHHHHHHHHHHHHHT--TCCSCEEEEEESCTTCCHHHHHHHHHHHHHHCCSEEEEEECCCCTTTSGGGGGS
T ss_pred             HHHHhCCCCCHHHHHHHHHHHHHc--CCCcEEEEEEcCCCCCCHHHHHHHHHHHHhcCcCEEEeecCcCCcCchhHhhcc
Confidence            999999999999999999999999  997 9999999999999999999999999999999999999999999988644 


Q ss_pred             -CCCCCHHHHHHHHHHHHHHHHHHHHHHHhcccCCEEEEE
Q 041524          461 -VDDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVL  499 (524)
Q Consensus       461 -~~~v~~~~k~~Rl~~l~~~~~~~~~~~~~~~vG~~~~vL  499 (524)
                       ...+|..  .++++.+..+.+.+....+. .++-...++
T Consensus       256 ~~~~lp~~--~~~~~~~~~~~~~L~~~Gy~-~yeis~fa~  292 (457)
T 1olt_A          256 KDADLPSP--QQKLDILQETIAFLTQSGYQ-FIGMDHFAR  292 (457)
T ss_dssp             CGGGSCCH--HHHHHHHHHHHHHHHHTTCE-EEETTEEEC
T ss_pred             ccCCCcCH--HHHHHHHHHHHHHHHHCCCe-EEEechhcC
Confidence             2234433  34444444444444433332 444444444

>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase, [4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM MD0; 1.50A {Methanosarcina barkeri}

Probab=99.90  E-value=1e-22  Score=210.35  Aligned_cols=187  Identities=19%  Similarity=0.261  Sum_probs=159.6

Q ss_pred             EEEEEEcccCCccCcccccCCCCCcc-ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCcccccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGRE-RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSE  313 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~~-Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~  313 (524)
                      .+.|.+++||+++|.||.++...+.. ...++++|+++++.+.+.|+++|.|++.....+.                   
T Consensus        62 ~~~i~~t~~C~~~C~fC~~~~~~~~~~~~ls~eei~~~~~~~~~~G~~~i~l~gGe~p~~~-------------------  122 (350)
T 3t7v_A           62 NCFIYFSTYCKNQCSFCYYNCRNEINRYRLTMEEIKETCKTLKGAGFHMVDLTMGEDPYYY-------------------  122 (350)
T ss_dssp             EEEEEEECCCCCCCTTCTTCTTSCCCCCBCCHHHHHHHHHHHTTSCCSEEEEEECCCHHHH-------------------
T ss_pred             EEeeecCCCcCCCCCcCCCcCcCCCCceeCCHHHHHHHHHHHHHCCCCEEEEeeCCCCccc-------------------
Confidence            46789999999999999987654322 2379999999999999999999999874422110                   


Q ss_pred             CcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCH
Q 041524          314 GFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTR  393 (524)
Q Consensus       314 g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~  393 (524)
                               .....+.++++.+.+..+ +.+.+   ++..++++.++.|+++  |+.++.+|+||+++++++.|+++++.
T Consensus       123 ---------~~~~~~~~l~~~ik~~~~-i~i~~---s~g~~~~e~l~~L~~a--G~~~i~i~lEt~~~~~~~~i~~~~~~  187 (350)
T 3t7v_A          123 ---------EDPNRFVELVQIVKEELG-LPIMI---SPGLMDNATLLKAREK--GANFLALYQETYDTELYRKLRVGQSF  187 (350)
T ss_dssp             ---------HSTHHHHHHHHHHHHHHC-SCEEE---ECSSCCHHHHHHHHHT--TEEEEECCCBCSCHHHHHHHSTTCCH
T ss_pred             ---------cCHHHHHHHHHHHHhhcC-ceEEE---eCCCCCHHHHHHHHHc--CCCEEEEeeecCCHHHHHHhCCCCCH
Confidence                     012457888888876543 34433   4667899999999999  99999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          394 EAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       394 e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                      ++++++++.+++.  |+.+.+++|+|+ |||.+++.++++++++++++.+.+++|.|.||||++.
T Consensus       188 ~~~l~~i~~a~~~--Gi~v~~~~i~Gl-get~e~~~~~l~~l~~l~~~~v~~~~f~p~~gT~l~~  249 (350)
T 3t7v_A          188 DGRVNARRFAKQQ--GYCVEDGILTGV-GNDIESTILSLRGMSTNDPDMVRVMTFLPQEGTPLEG  249 (350)
T ss_dssp             HHHHHHHHHHHHH--TCEEEEEEEESS-SCCHHHHHHHHHHHHHTCCSEEEEEECCCCTTSTTTT
T ss_pred             HHHHHHHHHHHHc--CCeEccceEeec-CCCHHHHHHHHHHHHhCCCCEEEecceeeCCCCcCcc
Confidence            9999999999999  999999999999 9999999999999999999999999999999999986

>3iix_A Biotin synthetase, putative; adoMet radical, SAM radical, adoMet cleavage, Fe4S4 cluster, HYDE, hydrogenase, maturation, beta barrel; HET: OTY CSO 5AD CPS; 1.25A {Thermotoga maritima} PDB: 3ciw_A* 3iiz_A* 3cix_A*

Probab=99.89  E-value=4.7e-22  Score=204.89  Aligned_cols=185  Identities=16%  Similarity=0.232  Sum_probs=160.4

Q ss_pred             EEEEEEcccCCccCcccccCCCCCcc-c-cCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccc
Q 041524          235 TAFVSVMRGCNNMCSFCIVPFTRGRE-R-SRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLS  312 (524)
Q Consensus       235 ~a~v~isRGC~~~CsFC~vp~~~G~~-R-sr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~  312 (524)
                      .+.|++++||+++|.||..+...+.. + ..++++|+++++.+.+.|+++|.|.|.....+                   
T Consensus        54 ~~~i~~t~~C~~~C~fC~~~~~~~~~~~~~ls~eei~~~i~~~~~~g~~~i~~~gGe~p~~-------------------  114 (348)
T 3iix_A           54 RAIIEFSNVCRKNCLYCGLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSGEDPYX-------------------  114 (348)
T ss_dssp             EEEEEEECCCSCCCTTCTTCTTCCSSCCCBCCHHHHHHHHHHHHHTTCSEEEEEESCCGGG-------------------
T ss_pred             EEEeEecCCcCCcCccCCCCCCCCCcCceeCCHHHHHHHHHHHHHCCCCEEEEEeCCCCCc-------------------
Confidence            46689999999999999987655432 2 36999999999999999999999987552212                   


Q ss_pred             cCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCC
Q 041524          313 EGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYT  392 (524)
Q Consensus       313 ~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t  392 (524)
                                 ....+.++++.+.+.  ...+.+   ++..++++.++.|+++  |+..+.+++||.++++++.++++.+
T Consensus       115 -----------~~~~~~~li~~i~~~--~~~i~~---s~g~l~~e~l~~L~~a--g~~~v~i~let~~~~~~~~i~~~~~  176 (348)
T 3iix_A          115 -----------MPDVISDIVKEIKKM--GVAVTL---SLGEWPREYYEKWKEA--GADRYLLRHETANPVLHRKLRPDTS  176 (348)
T ss_dssp             -----------TTHHHHHHHHHHHTT--SCEEEE---ECCCCCHHHHHHHHHH--TCCEEECCCBCSCHHHHHHHSTTSC
T ss_pred             -----------cHHHHHHHHHHHHhc--CceEEE---ecCCCCHHHHHHHHHh--CCCEEeeeeeeCCHHHHHHhCCCcC
Confidence                       014588888888775  344443   3456899999999999  9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcc
Q 041524          393 REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       393 ~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~  458 (524)
                      .++++++++.+++.  |+.+.+.+|+|+||||.+++.++++++.+++++.+.+++|.|.|||+++.
T Consensus       177 ~~~~~~~i~~~~~~--Gi~v~~~~i~G~p~et~e~~~~~~~~l~~l~~~~i~i~~~~p~~gt~l~~  240 (348)
T 3iix_A          177 FENRLNCLLTLKEL--GYETGAGSMVGLPGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLAN  240 (348)
T ss_dssp             HHHHHHHHHHHHHT--TCEEEECBEESCTTCCHHHHHHHHHHHHHHTCSEECCEECCCCTTSTTTT
T ss_pred             HHHHHHHHHHHHHh--CCeeccceEEeCCCCCHHHHHHHHHHHHhcCCCEEeeeeeecCCCCCccc
Confidence            99999999999999  99999999999999999999999999999999999999999999999986

>1r30_A Biotin synthase; SAM radical protein, TIM barrel, FES cluster, transferase; HET: SAM DTB; 3.40A {Escherichia coli} SCOP: c.1.28.1

Probab=99.87  E-value=9.2e-21  Score=197.23  Aligned_cols=195  Identities=15%  Similarity=0.152  Sum_probs=160.4

Q ss_pred             eEEEEEE-cccCCccCcccccCCCC--C--ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          234 VTAFVSV-MRGCNNMCSFCIVPFTR--G--RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       234 ~~a~v~i-sRGC~~~CsFC~vp~~~--G--~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ....|.+ ++||+++|.||.++...  +  +++.+++++|+++++.+.+.|++.|.|.+...  +            +.+
T Consensus        65 ~~~~i~i~t~~C~~~C~yC~~~~~~~~~~~~~~~~s~eei~~~~~~~~~~g~~~i~~~gg~~--~------------p~~  130 (369)
T 1r30_A           65 VSTLLSIKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLESARKAKAAGSTRFCMGAAWK--N------------PHE  130 (369)
T ss_dssp             EEEEEEEECSCBSSCCSSCSCBTTSCTTCCCCCCCCHHHHHHHHHHHHHTTCSEEEEEECCS--S------------CCT
T ss_pred             EEEEEEEECCCCcccCccCCCCCcCCCCCcccccCCHHHHHHHHHHHHHcCCcEEEEEeCCC--C------------CCc
Confidence            3566776 99999999999987643  2  35668999999999999989999999887421  1            000


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhC
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMR  388 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~  388 (524)
                      .              ....+.++++.+.+..  ..+.   .++..++++.++.|+++  |+.++++++|| ++++++.++
T Consensus       131 ~--------------~~~~l~~ll~~ik~~g--~~i~---~t~G~l~~e~l~~L~~a--Gvd~v~i~les-~~e~~~~i~  188 (369)
T 1r30_A          131 R--------------DMPYLEQMVQGVKAMG--LEAC---MTLGTLSESQAQRLANA--GLDYYNHNLDT-SPEFYGNII  188 (369)
T ss_dssp             T--------------THHHHHHHHHHHHHTT--SEEE---EECSSCCHHHHHHHHHH--CCCEEECCCBS-CHHHHHHHC
T ss_pred             C--------------CHHHHHHHHHHHHHcC--CeEE---EecCCCCHHHHHHHHHC--CCCEEeecCcC-CHHHHHHhC
Confidence            0              1245788888887753  3343   34566899999999999  99999999999 999999999


Q ss_pred             CCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC--CCeEEEEeeecCCCChhcccCCCCCCH
Q 041524          389 RGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG--YDMAYMFAYSMRERTHAHRNYVDDVPE  466 (524)
Q Consensus       389 R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~--~d~~~i~~~sp~pGT~~~~~~~~~v~~  466 (524)
                      |+++.+++++.++.+++.  |+.+.+++|+|+ |||.+++.++++++.+++  ++.+.++.|.|.|||+++. . ..++.
T Consensus       189 ~~~~~~~~l~~i~~a~~~--Gi~v~~~~I~Gl-~et~ed~~~~l~~l~~l~~~~~~i~~~~l~p~~gT~l~~-~-~~~~~  263 (369)
T 1r30_A          189 TTRTYQERLDTLEKVRDA--GIKVCSGGIVGL-GETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLAD-N-DDVDA  263 (369)
T ss_dssp             CSSCHHHHHHHHHHHHHH--HCEEECCEEECS-SCCHHHHHHHHHHHHSSSSCCSEEEEEECCCCTTSTTSS-C-CCCCH
T ss_pred             CCCCHHHHHHHHHHHHHc--CCeeeeeeEeeC-CCCHHHHHHHHHHHHhhcCCCCEEEeeeeeecCCCcCCC-C-CCCCH
Confidence            999999999999999999  999999999999 999999999999999997  8899999999999999985 2 34444


Q ss_pred             HHH
Q 041524          467 EVK  469 (524)
Q Consensus       467 ~~k  469 (524)
                      +..
T Consensus       264 ~~~  266 (369)
T 1r30_A          264 FDF  266 (369)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>1tv8_A MOAA, molybdenum cofactor biosynthesis protein A; TIM barrel, ligand binding protein; HET: SAM; 2.20A {Staphylococcus aureus} SCOP: c.1.28.3 PDB: 1tv7_A* 2fb3_A* 2fb2_A*

Probab=99.72  E-value=4e-16  Score=160.17  Aligned_cols=199  Identities=11%  Similarity=0.130  Sum_probs=158.0

Q ss_pred             eEEEEEEcccCCccCcccccCCC-------CCccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFT-------RGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPG  306 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~-------~G~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g  306 (524)
                      ....|+++++|+.+|.||..+..       .++....+.+++.+.++.+.+.|++.|.|+|......             
T Consensus        14 ~~l~i~~T~~CNl~C~yC~~~~~~~~~~~~~~~~~~ls~e~i~~~i~~~~~~g~~~i~~tGGEPll~-------------   80 (340)
T 1tv8_A           14 RDLRLSVTDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAELGVKKIRITGGEPLMR-------------   80 (340)
T ss_dssp             CEEEEECCSCCSCCCTTTSCTTTSSTTCCCCCGGGSCCHHHHHHHHHHHHHTTCCEEEEESSCGGGS-------------
T ss_pred             CeEEEEeCCCcCCcCCCCCcCcccCCCcccCCccCCCCHHHHHHHHHHHHHCCCCEEEEeCCCccch-------------
Confidence            46778999999999999987652       1234567899999999999988999999987443322             


Q ss_pred             CccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          307 ANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       307 ~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                         ..+.++++.+.+......+.+++ +...+ ++.++.|+++  |+.+|.++++|.++++++.
T Consensus        81 -------------------~~l~~li~~~~~~~~~~~i~i~T-NG~ll-~~~~~~L~~~--g~~~v~iSld~~~~~~~~~  137 (340)
T 1tv8_A           81 -------------------RDLDVLIAKLNQIDGIEDIGLTT-NGLLL-KKHGQKLYDA--GLRRINVSLDAIDDTLFQS  137 (340)
T ss_dssp             -------------------TTHHHHHHHHTTCTTCCEEEEEE-CSTTH-HHHHHHHHHH--TCCEEEEECCCSSHHHHHH
T ss_pred             -------------------hhHHHHHHHHHhCCCCCeEEEEe-Cccch-HHHHHHHHHC--CCCEEEEecCCCCHHHHHH
Confidence                               24788888887764433666653 44444 4588999998  9999999999999999999


Q ss_pred             hCCCC-CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCCCCCC
Q 041524          387 MRRGY-TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVP  465 (524)
Q Consensus       387 m~R~~-t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~~~v~  465 (524)
                      ++++. +.+++++.++.++++  |+.+...+++ +||++.+++.++++++.+++++ +.+..|.|.++|+.+. ....++
T Consensus       138 i~~~~~~~~~v~~~i~~l~~~--g~~v~i~~vv-~~g~n~~ei~~~~~~~~~~g~~-~~~i~~~p~~~~~~~~-~~~~~~  212 (340)
T 1tv8_A          138 INNRNIKATTILEQIDYATSI--GLNVKVNVVI-QKGINDDQIIPMLEYFKDKHIE-IRFIEFMDVGNDNGWD-FSKVVT  212 (340)
T ss_dssp             HHSSCCCHHHHHHHHHHHHHT--TCEEEEEEEE-CTTTTGGGHHHHHHHHHHTTCC-EEEEECCCBCSSSSBC-CSSCCC
T ss_pred             hhCCCCCHHHHHHHHHHHHHC--CCCEEEEEEE-eCCCCHHHHHHHHHHHHhcCCe-EEEEEeeEcCCCccch-hhcCCC
Confidence            98877 999999999999999  8888888777 7999999999999999999997 6777899999988764 234566


Q ss_pred             HHHHHHHH
Q 041524          466 EEVKQRRL  473 (524)
Q Consensus       466 ~~~k~~Rl  473 (524)
                      .+...+++
T Consensus       213 ~~e~~~~l  220 (340)
T 1tv8_A          213 KDEMLTMI  220 (340)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            65444443

>3c8f_A Pyruvate formate-lyase 1-activating enzyme; adoMet radical, SAM radical, activase, glycyl radical, 4Fe- 4S, carbohydrate metabolism, cytoplasm; HET: MT2 PGE; 2.25A {Escherichia coli} PDB: 3cb8_A*

Probab=99.59  E-value=2.3e-14  Score=138.97  Aligned_cols=180  Identities=13%  Similarity=0.155  Sum_probs=134.5

Q ss_pred             eEEEEEEcccCCccCcccccCCCC--CccccCChHHHHHHHHHHHHC---CCcEEEEEeccCCCCCCccCCccccCCCCc
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTR--GRERSRPVESIVKEVDELWKE---GVKEVTLLGQNVNSYNDTSGMEKEVEPGAN  308 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~--G~~Rsr~~e~Iv~Ei~~l~~~---G~kei~l~d~n~~~y~~~~~~~~~~~~g~~  308 (524)
                      ...++ .+.||+.+|.||..+...  +..+.+++++++++++.+.+.   ++..|.|.|.....+               
T Consensus        20 ~~~~i-~t~~Cn~~C~~C~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~i~~~GGEP~l~---------------   83 (245)
T 3c8f_A           20 IRFIT-FFQGCLMRCLYCHNRDTWDTHGGKEVTVEDLMKEVVTYRHFMNASGGGVTASGGEAILQ---------------   83 (245)
T ss_dssp             EEEEE-EESCCSCCCTTCSCGGGCCTTCSEEECHHHHHHHHGGGHHHHTSTTCEEEEEESCGGGG---------------
T ss_pred             cEEEE-EeCCCCCCCCCCCCchhcccccCccCCHHHHHHHHHHhhhhhcCCCCeEEEECCCcCCC---------------
Confidence            33444 567999999999987543  345678999999999987664   468899988544322               


Q ss_pred             cccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCC-CHHHHHHHHcCCCCcceeecCcCCcCHHHHhhh
Q 041524          309 WRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDF-PDELLYIMRDRPNVCKYIHLPAQTGNSAVLERM  387 (524)
Q Consensus       309 ~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~-~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m  387 (524)
                                      ...+.++++.+.+.  ...+.+.+ +...+ +++.++.+.+.   +..+.++++|+++++++.+
T Consensus        84 ----------------~~~l~~l~~~~~~~--~~~i~i~T-ng~~~~~~~~~~~l~~~---~~~v~isld~~~~~~~~~~  141 (245)
T 3c8f_A           84 ----------------AEFVRDWFRACKKE--GIHTCLDT-NGFVRRYDPVIDELLEV---TDLVMLDLKQMNDEIHQNL  141 (245)
T ss_dssp             ----------------HHHHHHHHHHHHTT--TCCEEEEE-CCCCCCCCHHHHHHHHT---CSEEEEECCCSSHHHHHHH
T ss_pred             ----------------HHHHHHHHHHHHHc--CCcEEEEe-CCCcCcCHHHHHHHHHh---CCEEEEeCCCCCHHHhhhc
Confidence                            12257888888765  23555554 23221 56677777764   5789999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCC--CCHHHHHHHHHHHHHcCC-CeEEEEeeecCCCCh
Q 041524          388 RRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCG--ETEEEHADTLTLMKAVGY-DMAYMFAYSMRERTH  455 (524)
Q Consensus       388 ~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~Pg--ET~ed~~~tl~~l~~l~~-d~~~i~~~sp~pGT~  455 (524)
                      ++ .+.+++.+.++.+++.  |+.+...+++ .||  ++.+++.++++++.++++ ..+++.+|.|.+++.
T Consensus       142 ~~-~~~~~~~~~i~~l~~~--g~~v~i~~~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  208 (245)
T 3c8f_A          142 VG-VSNHRTLEFAKYLANK--NVKVWIRYVV-VPGWSDDDDSAHRLGEFTRDMGNVEKIELLPYHELGKHK  208 (245)
T ss_dssp             HS-SCSHHHHHHHHHHHHH--TCCEEEEEEE-CTTTTCCHHHHHHHHHHHHHHCCEEEEEEEECCCCSHHH
T ss_pred             cC-CCHHHHHHHHHHHHhc--CCEEEEEEee-cCCCCCCHHHHHHHHHHHHhcCCCceeEEEeccccChhH
Confidence            65 4569999999999999  7766665554 555  678999999999999985 788899999887754

>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal binding protein, structural genomics, NPPSFA; 2.21A {Pyrococcus horikoshii}

Probab=99.58  E-value=5.8e-14  Score=144.29  Aligned_cols=176  Identities=13%  Similarity=0.120  Sum_probs=131.5

Q ss_pred             EEEc-ccCCccCcccccCCCC-----CccccCChHHHHHHHHHHHHC------C--------------CcEEEEE-eccC
Q 041524          238 VSVM-RGCNNMCSFCIVPFTR-----GRERSRPVESIVKEVDELWKE------G--------------VKEVTLL-GQNV  290 (524)
Q Consensus       238 v~is-RGC~~~CsFC~vp~~~-----G~~Rsr~~e~Iv~Ei~~l~~~------G--------------~kei~l~-d~n~  290 (524)
                      +..+ +||+++|.||..+...     +..+..++++|++++....+.      |              ++.|.|. +...
T Consensus        74 i~~~~~gCnl~C~fC~~~~~~~~~~~~~~~~~~~eei~~~i~~~~~~~~~~~~g~~~v~~~~~~e~~~~~~v~~sggGEP  153 (342)
T 2yx0_A           74 MTPVLAWCTHNCIFCWRPMENFLGTELPQPWDDPAFIVEESIKAQRKLLIGYKGNPKVDKKKFEEAWNPTHAAISLSGEP  153 (342)
T ss_dssp             EESCSSCCSBCCTTCCCSSSSCSCSSCCSSCCCHHHHHHHHHHHHHHHHTTCC--CCSCHHHHHHHTSCCEEEECSSSCG
T ss_pred             EEeChhhhhCcCcccCCCCCCCcccccccCcCCHHHHHHHHHHHHHHHhhccCCCcccchhhhhhccCCCEEEEcCCCcc
Confidence            3334 8999999999987542     145678999999998876431      2              4567775 3222


Q ss_pred             CCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCC--
Q 041524          291 NSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNV--  368 (524)
Q Consensus       291 ~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G--  368 (524)
                      ..+                                ..+.++++.+.+.  ...+.+.+ +.. + ++.++.|+++  |  
T Consensus       154 ll~--------------------------------~~l~~ll~~~~~~--g~~i~l~T-NG~-~-~e~l~~L~~~--g~~  194 (342)
T 2yx0_A          154 MLY--------------------------------PYMGDLVEEFHKR--GFTTFIVT-NGT-I-PERLEEMIKE--DKL  194 (342)
T ss_dssp             GGS--------------------------------TTHHHHHHHHHHT--TCEEEEEE-CSC-C-HHHHHHHHHT--TCC
T ss_pred             cch--------------------------------hhHHHHHHHHHHC--CCcEEEEc-CCC-c-HHHHHHHHhc--CCC
Confidence            211                                1478888888765  24665553 222 2 8889999987  6  


Q ss_pred             cceeecCcCCcCHHHHhhhCC---CCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          369 CKYIHLPAQTGNSAVLERMRR---GYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       369 ~~~i~igiESgs~~vL~~m~R---~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      +..+.+++++.++++++.+++   +.+.+++++.++.+++.  |+.+...+++ +||++.+++.++++++.+++++.+.+
T Consensus       195 ~~~l~isld~~~~e~~~~i~~~~~~~~~~~~~~~i~~l~~~--g~~v~i~~~l-~~g~n~~~~~~l~~~l~~~~~~~i~l  271 (342)
T 2yx0_A          195 PTQLYVSITAPDIETYNSVNIPMIPDGWERILRFLELMRDL--PTRTVVRLTL-VKGENMHSPEKYAKLILKARPMFVEA  271 (342)
T ss_dssp             CSEEEEEECCSSHHHHHHHHCBSSSCHHHHHHHHHHHHTTC--SSEEEEEEEE-CTTTTCCCHHHHHHHHHHHCCSEEEE
T ss_pred             CCEEEEEccCCCHHHHHHHhCCCcccHHHHHHHHHHHHHhC--CCCEEEEEEE-ECCccHHHHHHHHHHHHHcCCCEEEE
Confidence            899999999999999999987   56899999999999998  8888888877 79999888999999999999999999


Q ss_pred             EeeecCCCCh
Q 041524          446 FAYSMRERTH  455 (524)
Q Consensus       446 ~~~sp~pGT~  455 (524)
                      .+|.|.++++
T Consensus       272 ~~~~~~~~~~  281 (342)
T 2yx0_A          272 KAYMFVGYSR  281 (342)
T ss_dssp             EECC------
T ss_pred             EeeeecCCCc
Confidence            9998876654

>2a5h_A L-lysine 2,3-aminomutase; radical SAM, four-iron-four-sulfur cluster, 4Fe4S, FS4, SAM, adenosylmethionine, alpha-beta channel; HET: SAM LYS PLP; 2.10A {Clostridium subterminale}

Probab=99.32  E-value=1e-10  Score=123.33  Aligned_cols=181  Identities=15%  Similarity=0.217  Sum_probs=137.1

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCC-ccccCChHHHHHHHHHHHH-CCCcEEEEEeccCCCCCCccCCccccCCCCcc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRG-RERSRPVESIVKEVDELWK-EGVKEVTLLGQNVNSYNDTSGMEKEVEPGANW  309 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G-~~Rsr~~e~Iv~Ei~~l~~-~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~  309 (524)
                      ...++.+.++.||+.+|.||......+ ..+..+.+++.+.++.+.+ .|+++|.|.|.+...+.               
T Consensus       113 yp~~v~l~vT~~Cnl~C~yC~~~~~~~~~~~~ls~eei~~~i~~i~~~~gi~~V~ltGGEPll~~---------------  177 (416)
T 2a5h_A          113 YPDRVLLLITDMCSMYCRHCTRRRFAGQSDDSMPMERIDKAIDYIRNTPQVRDVLLSGGDALLVS---------------  177 (416)
T ss_dssp             SSSEEEEEEESCCSSCCTTCTTTTTTTSSSSBCCHHHHHHHHHHHHTCTTCCEEEEEESCTTSSC---------------
T ss_pred             CCCEEEEecCCCccccCcCCCCcccCCCccCCCCHHHHHHHHHHHHhcCCCcEEEEECCCCCCCC---------------
Confidence            345678899999999999998765444 3356889999999998887 59999999986544330               


Q ss_pred             ccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecC----CCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHh
Q 041524          310 RLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSP----HPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLE  385 (524)
Q Consensus       310 ~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~----~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~  385 (524)
                                     ...+.++++.+.+......+++.+.    .|..+++++++.|+++    ..+.+++++.+++   
T Consensus       178 ---------------d~~L~~il~~l~~~~~v~~i~i~Tng~~~~p~~it~e~l~~L~~~----~~v~Isl~~~~~~---  235 (416)
T 2a5h_A          178 ---------------DETLEYIIAKLREIPHVEIVRIGSRTPVVLPQRITPELVNMLKKY----HPVWLNTHFNHPN---  235 (416)
T ss_dssp             ---------------HHHHHHHHHHHHTSTTCCEEEEECSHHHHCGGGCCHHHHHHHGGG----CSEEEEECCCSGG---
T ss_pred             ---------------HHHHHHHHHHHHhcCCccEEEEEecccccccccCCHHHHHHHHhc----CcEEEEEecCCHH---
Confidence                           1248888888887544346777652    4566889999999885    5688999988772   


Q ss_pred             hhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEE--EcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhc
Q 041524          386 RMRRGYTREAYLDLVQKIRQIIPDVGLSSDFI--CGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAH  457 (524)
Q Consensus       386 ~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI--~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~  457 (524)
                      .+    + +++.++++.++++  |+.+....+  -|+ +++++++.+.++++.+++++..+++.+.+.+||+.+
T Consensus       236 ei----~-~~v~~ai~~L~~a--Gi~v~i~~vll~Gv-Nd~~e~l~~l~~~l~~lgv~~~~i~~~~~~~g~~~~  301 (416)
T 2a5h_A          236 EI----T-EESTRACQLLADA--GVPLGNQSVLLRGV-NDCVHVMKELVNKLVKIRVRPYYIYQCDLSLGLEHF  301 (416)
T ss_dssp             GC----C-HHHHHHHHHHHHT--TCCEEEEEECCTTT-TCSHHHHHHHHHHHHHTTEEEEEEECCCCBTTCGGG
T ss_pred             HH----h-HHHHHHHHHHHHc--CCEEEEEEEEECCC-CCCHHHHHHHHHHHHHcCCceEEEeecCCCCCcccc
Confidence            22    3 8999999999999  776554443  366 388899999999999999887667666667898865

>2z2u_A UPF0026 protein MJ0257; metal binding protein; 2.40A {Methanocaldococcus jannaschii}

Probab=99.31  E-value=1.1e-11  Score=125.35  Aligned_cols=175  Identities=12%  Similarity=0.135  Sum_probs=109.8

Q ss_pred             eEEEEEEc-ccCCccCcccccCCCC--C-------ccccCChHHHHHHHHHHHHC------C---------------CcE
Q 041524          234 VTAFVSVM-RGCNNMCSFCIVPFTR--G-------RERSRPVESIVKEVDELWKE------G---------------VKE  282 (524)
Q Consensus       234 ~~a~v~is-RGC~~~CsFC~vp~~~--G-------~~Rsr~~e~Iv~Ei~~l~~~------G---------------~ke  282 (524)
                      ....++++ .||+++|.||..+...  |       ..+..++++|++++....+.      |               ++.
T Consensus        51 ~~l~i~~t~~~Cn~~C~fC~~~~~~~~~~~~~~~~~~~~~~~eei~~~~~~~~~~~~~~~~g~~~v~~~~r~~~~~~~~~  130 (311)
T 2z2u_A           51 RCIQCTPSVIWCQQNCIFCWRVLPRDIGIDISQIKEPKWEEPEVVYEKILAMHKRIIMGYAGVLDRVGEKKFKEALEPKH  130 (311)
T ss_dssp             GEEEEESCSSCCSCC----------------CCSCCCCCCCHHHHHHHHHHHHHHHHHGGGGGHHHHCHHHHHHHTSCCE
T ss_pred             CeEEeccChhHHhCcCcccCCCCCCcccccccccCccccCCHHHHHHHHHHHHHHHhhccCCCcCcchhhhhhhccCCCE
Confidence            45667888 6999999999976421  1       24678899999888765321      2               345


Q ss_pred             EEEE-eccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHH
Q 041524          283 VTLL-GQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYI  361 (524)
Q Consensus       283 i~l~-d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~  361 (524)
                      |.|. |                  |.++.              ...+.++++.+.+.  .+.+.+.+ +.. + ++.++.
T Consensus       131 i~~s~g------------------GEPll--------------~~~l~~li~~~~~~--g~~~~l~T-NG~-~-~~~l~~  173 (311)
T 2z2u_A          131 VAISLS------------------GEPTL--------------YPYLDELIKIFHKN--GFTTFVVS-NGI-L-TDVIEK  173 (311)
T ss_dssp             EEECSS------------------SCGGG--------------STTHHHHHHHHHHT--TCEEEEEE-CSC-C-HHHHHH
T ss_pred             EEEeCC------------------cCccc--------------hhhHHHHHHHHHHC--CCcEEEEC-CCC-C-HHHHHh
Confidence            6665 3                  22210              12478888888765  24565553 222 2 555554


Q ss_pred             HHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC
Q 041524          362 MRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG  439 (524)
Q Consensus       362 l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~  439 (524)
                      |     |...+.+++++.++++.+.++++  .+.+.+++.++.+++.  | .+...++ ..||.+. ++.++++++.+++
T Consensus       174 L-----~~~~v~isld~~~~~~~~~i~~~~~~~~~~v~~~i~~l~~~--g-~v~i~~~-~~~g~n~-~~~~~~~~~~~~~  243 (311)
T 2z2u_A          174 I-----EPTQLYISLDAYDLDSYRRICGGKKEYWESILNTLDILKEK--K-RTCIRTT-LIRGYND-DILKFVELYERAD  243 (311)
T ss_dssp             C-----CCSEEEEECCCSSTTTC----CCCHHHHHHHHHHHHHHTTS--S-SEEEEEE-ECTTTTC-CGGGTHHHHHHHT
T ss_pred             C-----CCCEEEEEeecCCHHHHHHHhCCccchHHHHHHHHHHHHhc--C-CEEEEEE-EECCcch-hHHHHHHHHHHcC
Confidence            4     56899999999999999999887  6789999999999988  5 4443332 3477666 8999999999999


Q ss_pred             CCeEEEEeeecCCCCh
Q 041524          440 YDMAYMFAYSMRERTH  455 (524)
Q Consensus       440 ~d~~~i~~~sp~pGT~  455 (524)
                      ++.+.+++|.|.++++
T Consensus       244 ~~~i~l~~~~p~g~~~  259 (311)
T 2z2u_A          244 VHFIELKSYMHVGYSQ  259 (311)
T ss_dssp             CSEEEEEECC------
T ss_pred             CCEEEEEeeEEccccc
Confidence            9999999999998887

>3rfa_A Ribosomal RNA large subunit methyltransferase N; radical SAM, S-adenosylmethionine, iron sulfur cluster, oxidoreductase; HET: SAM; 2.05A {Escherichia coli} PDB: 3rf9_A*

Probab=99.16  E-value=5.2e-10  Score=116.74  Aligned_cols=186  Identities=16%  Similarity=0.211  Sum_probs=130.7

Q ss_pred             CCeEEEEEEcccCCccCcccccCCCCCccccCChHHHHHHHHHHHH----------CCCcEEEEEeccCCCCCCccCCcc
Q 041524          232 NSVTAFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWK----------EGVKEVTLLGQNVNSYNDTSGMEK  301 (524)
Q Consensus       232 ~~~~a~v~isRGC~~~CsFC~vp~~~G~~Rsr~~e~Iv~Ei~~l~~----------~G~kei~l~d~n~~~y~~~~~~~~  301 (524)
                      .+.+..|+++.||+.+|.||..+.. |..|..++++|++++.....          .++..|.|.|.             
T Consensus       113 ~r~tlcVSsq~GCnl~C~fC~tg~~-g~~r~Lt~eEIv~qv~~~~~~~~~~g~~gg~~i~~Ivf~Gg-------------  178 (404)
T 3rfa_A          113 DRATLCVSSQVGCALECKFCSTAQQ-GFNRNLRVSEIIGQVWRAAKIVGAAKVTGQRPITNVVMMGM-------------  178 (404)
T ss_dssp             SCEEEECCCEEECSSCCTTCGGGTT-CEEEECCHHHHHHHHHHHHHHHCCHHHHSSCSCSEEEECSS-------------
T ss_pred             CCceEEEEeCCCCCCcCCCCCCCCC-CCCCcCCHHHHHHHHHHHHHHhhhcccccCCCccEEEEeCC-------------
Confidence            4567888999999999999998643 45678999999999987654          24778888841             


Q ss_pred             ccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCCc----eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcC
Q 041524          302 EVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE----MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQ  377 (524)
Q Consensus       302 ~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~----~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiE  377 (524)
                          |.++.             +...+.++++.+.+..+.    .++.+++.-   +.+. ++.+.+.  +-..+.+.+.
T Consensus       179 ----GEPLl-------------n~d~v~~~i~~lk~~~Gl~~s~r~itlsTnG---~~p~-i~~L~~~--~d~~LaiSLk  235 (404)
T 3rfa_A          179 ----GEPLL-------------NLNNVVPAMEIMLDDFGFGLSKRRVTLSTSG---VVPA-LDKLGDM--IDVALAISLH  235 (404)
T ss_dssp             ----SCGGG-------------CHHHHHHHHHHHHSTTTTCCCGGGEEEEESC---CHHH-HHHHHHH--CCCEEEEECC
T ss_pred             ----CCccc-------------CHHHHHHHHHHHHhhcCcCcCCCceEEECCC---cHHH-HHHHHHh--hcceEEeccc
Confidence                33320             112466777777653221    156665421   1244 4555554  5567889999


Q ss_pred             CcCHHHHhhhC---CCCCHHHHHHHHHHH-HHhCC---CcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec
Q 041524          378 TGNSAVLERMR---RGYTREAYLDLVQKI-RQIIP---DVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM  450 (524)
Q Consensus       378 Sgs~~vL~~m~---R~~t~e~~~~~v~~i-r~~~p---gi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp  450 (524)
                      +.+++..+.+.   ++++.++++++++.. .+...   .+.+..-+|-|+ .++++++.+.++|+..++. .+++.+|.|
T Consensus       236 a~d~e~~~~i~pv~~~~~le~vl~ai~~~~~~~g~~~~~V~ie~vLI~Gv-NDs~e~~~~La~ll~~l~~-~VnLIpynP  313 (404)
T 3rfa_A          236 APNDEIRDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTIEYVMLDHV-NDGTEHAHQLAELLKDTPC-KINLIPWNP  313 (404)
T ss_dssp             CSSHHHHHHHSGGGGTSCHHHHHHHHHHHHHHCTTTTTCEEEEEEEBTTT-TCSHHHHHHHHHHTTTSCE-EEEEEECCC
T ss_pred             CCCHHHHHHhcCCccCCCHHHHHHHHHHHHHHhCCCcccEEEEEEEecCC-CCCHHHHHHHHHHHHcCCC-cEEEEeccC
Confidence            99999988765   688999999999544 44422   345555555565 7899999999999998864 688899999


Q ss_pred             CCCChh
Q 041524          451 RERTHA  456 (524)
Q Consensus       451 ~pGT~~  456 (524)
                      ++++..
T Consensus       314 ~~~~~~  319 (404)
T 3rfa_A          314 FPGAPY  319 (404)
T ss_dssp             CTTCCC
T ss_pred             CCCCCC
Confidence            988654

>4fhd_A Spore photoproduct lyase; partial TIM-barrel, DNA repair, damaged DNA; HET: EEM 0TT; 2.00A {Geobacillus thermodenitrificans} PDB: 4fhc_A* 4fhg_A* 4fhe_A* 4fhf_A*

Probab=97.68  E-value=0.00035  Score=71.67  Aligned_cols=165  Identities=10%  Similarity=0.131  Sum_probs=103.1

Q ss_pred             EEEEcccCCccCcccccCCCCCc--c--ccCChHHHHHHHHHHH-HCCCc-EEEEEeccCCCCCCccCCccccCCCCccc
Q 041524          237 FVSVMRGCNNMCSFCIVPFTRGR--E--RSRPVESIVKEVDELW-KEGVK-EVTLLGQNVNSYNDTSGMEKEVEPGANWR  310 (524)
Q Consensus       237 ~v~isRGC~~~CsFC~vp~~~G~--~--Rsr~~e~Iv~Ei~~l~-~~G~k-ei~l~d~n~~~y~~~~~~~~~~~~g~~~~  310 (524)
                      .+...+||+++|.||......|.  +  .....++++++++... +.+.+ ..+-+|.+...|.                
T Consensus       110 ~ln~y~GC~~~C~YCYl~~~~~~~~~I~v~vN~~eiL~~l~~~l~~~~~~~~~i~~g~~TDpyp----------------  173 (368)
T 4fhd_A          110 AIPLATGCMGHCHYCYLQTTLGSKPYIRVYVNLDDIFAQAQKYINERAPEITRFEAACTSDIVG----------------  173 (368)
T ss_dssp             ECCSEEBCSCCCTTCTHHHHTTTCCSEEEECCHHHHHHHHHHHHHHHTTSCEEEESCSSBCHHH----------------
T ss_pred             eeCCccCCCCCCceEeccccCCCCCeEEEecCHHHHHHHHHHHHhhcCCCceEEEEEcCCCcch----------------
Confidence            46678999999999998755542  1  3567999999987643 33433 3344444433230                


Q ss_pred             cccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC
Q 041524          311 LSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG  390 (524)
Q Consensus       311 ~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~  390 (524)
                                ......-..++|+.+.+. +...+.+.+=.+ .++  .|..|+..  +-..+.+.+-+  +++.+.+-.+
T Consensus       174 ----------~E~~~~ltr~~le~l~~~-~~~~v~i~TKs~-lid--~L~~l~~~--~~v~V~~Sitt--~~l~r~~EP~  235 (368)
T 4fhd_A          174 ----------IDHLTHSLKKAIEFIGAT-DYGRLRFVTKYE-HVD--HLLDARHN--GKTRFRFSINS--RYVINHFEPG  235 (368)
T ss_dssp             ----------HHTTTCHHHHHHHHHHHC-SSEEEEEEESCC-CCG--GGTTCCCT--TCEEEEEEECC--HHHHHHHCTT
T ss_pred             ----------hhHHHhHHHHHHHHHHhC-CCceEEEEeCCc-CHH--HHHhcCcC--CceEEEEEEcC--HHHHHHcCCC
Confidence                      000011234556666553 334555554222 222  23333332  55556666644  7788888765


Q ss_pred             C-CHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCH-HHHHHHHHHHHH
Q 041524          391 Y-TREAYLDLVQKIRQIIPDVGLSSDFICGFCGETE-EEHADTLTLMKA  437 (524)
Q Consensus       391 ~-t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~-ed~~~tl~~l~~  437 (524)
                      . +.++-+++++.++++  |+.+...+.-=+|+++. +++.+.++.+.+
T Consensus       236 aps~~~RL~Ai~~l~~a--Gipv~v~iaPIiP~~~~~e~y~~lle~l~~  282 (368)
T 4fhd_A          236 TSSFDGRLAAARKVAGA--GYKLGFVVAPIYRHEGWERGYFELFQELAR  282 (368)
T ss_dssp             SCCHHHHHHHHHHHHHT--TCEEEEEEEEECCCTTHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHC--CCeEEEEEeCcCCCCCCHHHHHHHHHHHHH
Confidence            4 799999999999999  99888888777888765 688888876655

>3can_A Pyruvate-formate lyase-activating enzyme; structural genomics, pyruvate-formate lyase-activating enzym MCSG, APC20359.1; 1.80A {Bacteroides vulgatus atcc 8482}

Probab=97.13  E-value=0.0094  Score=54.48  Aligned_cols=118  Identities=13%  Similarity=0.196  Sum_probs=85.3

Q ss_pred             hH-HHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHH
Q 041524          327 RF-ADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQ  405 (524)
Q Consensus       327 ~~-~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~  405 (524)
                      .+ .++++.+.+.  .+.+.+.+ +. .++++.++.+.+.   +..+.+.+.+.+++..+.++. .+.+.+.+.++.+++
T Consensus        19 ~~~~~l~~~~~~~--g~~~~l~T-NG-~l~~~~~~~l~~~---~d~v~isld~~~~~~~~~~~g-~~~~~i~~~i~~l~~   90 (182)
T 3can_A           19 EFLIDILKRCGQQ--GIHRAVDT-TL-LARKETVDEVMRN---CELLLIDLKSMDSTVHQTFCD-VPNELILKNIRRVAE   90 (182)
T ss_dssp             HHHHHHHHHHHHT--TCCEEEEC-TT-CCCHHHHHHHHHT---CSEEEEECCCSCHHHHHHHHS-SCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC--CCcEEEEC-CC-CCCHHHHHHHHhh---CCEEEEECCCCCHHHHHHHhC-CCHHHHHHHHHHHHh
Confidence            34 5788877664  24555553 32 2578888888874   678999999999999888753 456999999999999


Q ss_pred             hCCCcEEE--EeEEEcCCCCCHHHHHHHHHHHHHc-CC-CeEEEEeeecCCCCh
Q 041524          406 IIPDVGLS--SDFICGFCGETEEEHADTLTLMKAV-GY-DMAYMFAYSMRERTH  455 (524)
Q Consensus       406 ~~pgi~i~--~~fI~G~PgET~ed~~~tl~~l~~l-~~-d~~~i~~~sp~pGT~  455 (524)
                      .  |+.+.  +-++-|+ .++.+++.+.++++.++ ++ ..+.+.+|.|.....
T Consensus        91 ~--g~~v~i~~~v~~~~-n~n~~~~~~~~~~~~~~~g~~~~~~l~~~~p~g~~~  141 (182)
T 3can_A           91 A--DFPYYIRIPLIEGV-NADEKNIKLSAEFLASLPRHPEIINLLPYHDIGKGK  141 (182)
T ss_dssp             T--TCCEEEEEEECBTT-TCSHHHHHHHHHHHHHSSSCCSEEEEEECCC-----
T ss_pred             C--CCeEEEEEEEECCC-CCCHHHHHHHHHHHHhCcCccceEEEecCcccCHHH
Confidence            8  65544  4444343 37899999999999999 88 889999999876554

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=96.70  E-value=0.018  Score=52.08  Aligned_cols=111  Identities=11%  Similarity=0.155  Sum_probs=64.5

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCC---C----------CCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINV---P----------ENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~---~----------~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      .++|.+.+.|--.--.=..++...|+..||+++...   +          .+||+|++++.. +. ....+.+.++.+  
T Consensus        18 ~~~vlla~~~gd~HdiG~~~va~~l~~~G~eVi~lG~~~p~e~lv~aa~~~~~diV~lS~~~-~~-~~~~~~~~i~~L--   93 (161)
T 2yxb_A           18 RYKVLVAKMGLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAAVQEDVDVIGVSILN-GA-HLHLMKRLMAKL--   93 (161)
T ss_dssp             SCEEEEEEESSSSCCHHHHHHHHHHHHTTCEEECCCSBCCHHHHHHHHHHTTCSEEEEEESS-SC-HHHHHHHHHHHH--
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhcCCCEEEEEeec-hh-hHHHHHHHHHHH--
Confidence            456666665433333336889999999999863211   1          489999995542 32 223344444443  


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCc-ccHHHHHHHH
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAY-RDLPRLLEEV  204 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege-~~l~~Ll~~~  204 (524)
                       ++           +..++++|++||..++...+.+ +. .++|.|+.++.. ....+++..+
T Consensus        94 -~~-----------~g~~~i~v~vGG~~~~~~~~~l-~~-~G~d~v~~~~~~~~~~~~~~~~~  142 (161)
T 2yxb_A           94 -RE-----------LGADDIPVVLGGTIPIPDLEPL-RS-LGIREIFLPGTSLGEIIEKVRKL  142 (161)
T ss_dssp             -HH-----------TTCTTSCEEEEECCCHHHHHHH-HH-TTCCEEECTTCCHHHHHHHHHHH
T ss_pred             -Hh-----------cCCCCCEEEEeCCCchhcHHHH-HH-CCCcEEECCCCCHHHHHHHHHHH
Confidence             11           1124688999998766544433 33 579987865442 2344554443

>2cw6_A Hydroxymethylglutaryl-COA lyase, mitochondrial; HMG-COA lyase, ketogenic enzyme; HET: 3HG; 2.10A {Homo sapiens} PDB: 3mp3_A* 3mp4_A 3mp5_A*

Probab=94.63  E-value=0.52  Score=46.63  Aligned_cols=147  Identities=9%  Similarity=0.077  Sum_probs=99.2

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|++.|.+..  +. .            .+ |     +       +.-....++++.+.+. +
T Consensus        22 ~~~~~e~k~~i~~~L~~~Gv~~IE~g~--~~-~------------~~-~-----~-------p~~~d~~~~~~~~~~~-~   72 (298)
T 2cw6_A           22 NIVSTPVKIKLIDMLSEAGLSVIETTS--FV-S------------PK-W-----V-------PQMGDHTEVLKGIQKF-P   72 (298)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCSEECCEE--CC-C------------TT-T-----C-------GGGTTHHHHHHHSCCC-T
T ss_pred             CCCCHHHHHHHHHHHHHcCcCEEEECC--Cc-C------------cc-c-----c-------cccCCHHHHHHHHhhC-C
Confidence            457899999999999999999987754  11 1            00 0     0       0001344555555442 2


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCH-HHHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNS-AVLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~-~vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      ...+....     .+.+-++...++  |+..+++.. +.|+ ...+.+++..  ..+.+.+.++.+++.  |+.+..+++
T Consensus        73 ~~~~~~l~-----~~~~~i~~a~~a--g~~~v~i~~-~~sd~~~~~~~~~~~~e~l~~~~~~i~~a~~~--G~~v~~~l~  142 (298)
T 2cw6_A           73 GINYPVLT-----PNLKGFEAAVAA--GAKEVVIFG-AASELFTKKNINCSIEESFQRFDAILKAAQSA--NISVRGYVS  142 (298)
T ss_dssp             TCBCCEEC-----CSHHHHHHHHHT--TCSEEEEEE-ESCHHHHHHHHSCCHHHHHHHHHHHHHHHHHT--TCEEEEEEE
T ss_pred             CCEEEEEc-----CCHHhHHHHHHC--CCCEEEEEe-cCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEE
Confidence            22322221     256778888888  999999966 5554 4455677653  567888889999999  999988887


Q ss_pred             E--cCCCC---CHHHHHHHHHHHHHcCCCeEEEE
Q 041524          418 C--GFCGE---TEEEHADTLTLMKAVGYDMAYMF  446 (524)
Q Consensus       418 ~--G~PgE---T~ed~~~tl~~l~~l~~d~~~i~  446 (524)
                      +  |.|.+   +.+.+.+.++.+.+++.+.+.+.
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ga~~i~l~  176 (298)
T 2cw6_A          143 CALGCPYEGKISPAKVAEVTKKFYSMGCYEISLG  176 (298)
T ss_dssp             TTTCBTTTBSCCHHHHHHHHHHHHHTTCSEEEEE
T ss_pred             EEeeCCcCCCCCHHHHHHHHHHHHHcCCCEEEec
Confidence            4  44533   67888888889999999987765

>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative; 2.30A {Brucella melitensis}

Probab=94.29  E-value=0.89  Score=44.80  Aligned_cols=147  Identities=7%  Similarity=0.008  Sum_probs=98.2

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++=++.|.+.|+..|.+......-|                  .          +......++++.+.+. +
T Consensus        21 ~~~~~e~k~~i~~~L~~~Gv~~IE~g~~~~~~~------------------~----------p~~~~~~e~~~~i~~~-~   71 (295)
T 1ydn_A           21 RFVPTADKIALINRLSDCGYARIEATSFVSPKW------------------V----------PQLADSREVMAGIRRA-D   71 (295)
T ss_dssp             SCCCHHHHHHHHHHHTTTTCSEEEEEECSCTTT------------------C----------GGGTTHHHHHHHSCCC-S
T ss_pred             CCcCHHHHHHHHHHHHHcCcCEEEEccCcCccc------------------c----------ccccCHHHHHHHHHhC-C
Confidence            347899999999999889999988764221111                  0          0011355677777554 3


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh-hCCCC--CHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER-MRRGY--TREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~-m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      ..++....  +   +.+.++...++  |+..+++-+ ++|+.-.+. +++..  ..+...+.++.+++.  |+.+.+.+.
T Consensus        72 ~~~v~~l~--~---n~~~i~~a~~~--G~~~V~i~~-~~S~~h~~~~~~~~~~e~~~~~~~~v~~a~~~--G~~V~~~l~  141 (295)
T 1ydn_A           72 GVRYSVLV--P---NMKGYEAAAAA--HADEIAVFI-SASEGFSKANINCTIAESIERLSPVIGAAIND--GLAIRGYVS  141 (295)
T ss_dssp             SSEEEEEC--S---SHHHHHHHHHT--TCSEEEEEE-ESCHHHHHHHTSSCHHHHHHHHHHHHHHHHHT--TCEEEEEEE
T ss_pred             CCEEEEEe--C---CHHHHHHHHHC--CCCEEEEEE-ecCHHHHHHHcCCCHHHHHHHHHHHHHHHHHc--CCeEEEEEE
Confidence            44543322  2   46777878788  999998855 456555443 44432  456667778999999  999887776


Q ss_pred             --EcCCCC---CHHHHHHHHHHHHHcCCCeEEEE
Q 041524          418 --CGFCGE---TEEEHADTLTLMKAVGYDMAYMF  446 (524)
Q Consensus       418 --~G~PgE---T~ed~~~tl~~l~~l~~d~~~i~  446 (524)
                        +|.|.+   +++.+.+.++.+.+.+.+.+.+.
T Consensus       142 ~~~~~e~~~~~~~~~~~~~~~~~~~~G~d~i~l~  175 (295)
T 1ydn_A          142 CVVECPYDGPVTPQAVASVTEQLFSLGCHEVSLG  175 (295)
T ss_dssp             CSSEETTTEECCHHHHHHHHHHHHHHTCSEEEEE
T ss_pred             EEecCCcCCCCCHHHHHHHHHHHHhcCCCEEEec
Confidence              454543   67777778888889999988776

>1ccw_A Protein (glutamate mutase); coenzyme B12, radical reaction, TIM-barrel rossman-fold, isomerase; HET: CNC TAR; 1.60A {Clostridium cochlearium} SCOP: c.23.6.1 PDB: 1cb7_A* 1b1a_A 1i9c_A* 1be1_A 1fmf_A 1id8_A*

Probab=93.50  E-value=0.51  Score=41.06  Aligned_cols=109  Identities=15%  Similarity=0.092  Sum_probs=59.8

Q ss_pred             ccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccC---C----------CCCCcEEEEeeccCcchHHHHHHHHHHHHHHh
Q 041524           77 GRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVIN---V----------PENAEVIFINTCAIRDYAEHKVWQRLNYFWFL  143 (524)
Q Consensus        77 ~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~---~----------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~  143 (524)
                      +++.+.+.|--.-..=...+...|+..||+++-.   .          ..+||+|++++.. +.. ...+.+.++.+   
T Consensus         4 ~~vvla~~~~d~HdiG~~~v~~~l~~~G~~Vi~lG~~~p~e~~v~~a~~~~~d~v~lS~~~-~~~-~~~~~~~i~~l---   78 (137)
T 1ccw_A            4 KTIVLGVIGSDCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIETKADAILVSSLY-GQG-EIDCKGLRQKC---   78 (137)
T ss_dssp             CEEEEEEETTCCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHTCSEEEEEECS-STH-HHHHTTHHHHH---
T ss_pred             CEEEEEeCCCchhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhcCCCEEEEEecC-cCc-HHHHHHHHHHH---
Confidence            3455555432222222678899999999986311   1          1489999995543 332 22344444433   


Q ss_pred             hhhhhhcccccccccCCCCEEEEEccccc--cc-H--HHHHhhCCcceEEECCCCcccHHHHHHHH
Q 041524          144 KREWKKNVATGRSQSKHPPKIVVLGCMAE--RL-K--DKILDADKMVDVVCGPDAYRDLPRLLEEV  204 (524)
Q Consensus       144 ~~~~~~~~~~~~~~~~p~~~IvvgG~~at--~~-~--e~~l~~~~~vD~Vv~gege~~l~~Ll~~~  204 (524)
                      ++           +..++.+|++||....  .. +  ++.+++ -++|.++.+..  +..++++.+
T Consensus        79 ~~-----------~g~~~i~v~vGG~~~~~~~~~~~~~~~~~~-~G~d~~~~~g~--~~~~~~~~l  130 (137)
T 1ccw_A           79 DE-----------AGLEGILLYVGGNIVVGKQHWPDVEKRFKD-MGYDRVYAPGT--PPEVGIADL  130 (137)
T ss_dssp             HH-----------TTCTTCEEEEEESCSSSSCCHHHHHHHHHH-TTCSEECCTTC--CHHHHHHHH
T ss_pred             Hh-----------cCCCCCEEEEECCCcCchHhhhhhHHHHHH-CCCCEEECCCC--CHHHHHHHH
Confidence            11           1223689999997532  11 1  233443 47898886543  455555443

>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein structure initiativ midwest center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=93.44  E-value=2.6  Score=41.67  Aligned_cols=148  Identities=12%  Similarity=0.080  Sum_probs=96.7

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|++.|....  |.+-.           ..+               ......++++.+.+. +
T Consensus        25 ~~~~~e~k~~i~~~L~~~Gv~~IE~g~--~~~~~-----------~~~---------------~~~d~~~~~~~~~~~-~   75 (302)
T 2ftp_A           25 QPIEVADKIRLVDDLSAAGLDYIEVGS--FVSPK-----------WVP---------------QMAGSAEVFAGIRQR-P   75 (302)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCSEEEEEE--CSCTT-----------TCG---------------GGTTHHHHHHHSCCC-T
T ss_pred             CCCCHHHHHHHHHHHHHcCcCEEEECC--CcCcc-----------ccc---------------cccCHHHHHHHhhhc-C
Confidence            457899999999999999999988764  11110           000               001344556666543 3


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeEEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDFIC  418 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~fI~  418 (524)
                      ...+....  +   +.+.++...++  |+..+++-.-+-+-...+.+++..  ..+.+.+.++.+++.  |+.+.+.+..
T Consensus        76 ~~~~~~l~--~---~~~~i~~a~~a--G~~~v~i~~~~s~~~~~~~~~~s~ee~l~~~~~~v~~a~~~--G~~V~~~l~~  146 (302)
T 2ftp_A           76 GVTYAALA--P---NLKGFEAALES--GVKEVAVFAAASEAFSQRNINCSIKDSLERFVPVLEAARQH--QVRVRGYISC  146 (302)
T ss_dssp             TSEEEEEC--C---SHHHHHHHHHT--TCCEEEEEEESCHHHHHHHHSSCHHHHHHHHHHHHHHHHHT--TCEEEEEEEC
T ss_pred             CCEEEEEe--C---CHHHHHHHHhC--CcCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEEE
Confidence            33443321  2   56777777777  999999866443334556676643  466778888899998  9988887765


Q ss_pred             c--CCC---CCHHHHHHHHHHHHHcCCCeEEEE
Q 041524          419 G--FCG---ETEEEHADTLTLMKAVGYDMAYMF  446 (524)
Q Consensus       419 G--~Pg---ET~ed~~~tl~~l~~l~~d~~~i~  446 (524)
                      -  .|.   -+++.+.+.++.+.+.+.+.+.+.
T Consensus       147 ~~~~e~~~~~~~~~~~~~~~~~~~~G~d~i~l~  179 (302)
T 2ftp_A          147 VLGCPYDGDVDPRQVAWVARELQQMGCYEVSLG  179 (302)
T ss_dssp             TTCBTTTBCCCHHHHHHHHHHHHHTTCSEEEEE
T ss_pred             EeeCCcCCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence            3  343   256777777777779999987665

>1ydo_A HMG-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG,; 2.71A {Bacillus subtilis subsp}

Probab=92.47  E-value=2.6  Score=41.80  Aligned_cols=147  Identities=7%  Similarity=-0.031  Sum_probs=96.5

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|++.|.+..  |.+..           ..+               .-....++++.+.+. +
T Consensus        23 ~~~~~e~k~~i~~~L~~~Gv~~IE~g~--~~~~~-----------~~p---------------~~~d~~~~~~~~~~~-~   73 (307)
T 1ydo_A           23 VWIATEDKITWINQLSRTGLSYIEITS--FVHPK-----------WIP---------------ALRDAIDVAKGIDRE-K   73 (307)
T ss_dssp             SCCCHHHHHHHHHHHHTTTCSEEEEEE--CSCTT-----------TCG---------------GGTTHHHHHHHSCCC-T
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEECC--CcCcc-----------ccc---------------ccCCHHHHHHHhhhc-C
Confidence            567899999999999999999988764  11110           000               001234555555443 3


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH-HHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA-VLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDFI  417 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~-vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~fI  417 (524)
                      ...+....  +   +.+-++...++  |...+++.+ |.|+. ..+.+++..  ..+.+.+.++.+++.  |..+..+++
T Consensus        74 ~~~~~~l~--~---~~~~i~~a~~~--g~~~v~i~~-~~sd~~~~~~l~~s~~e~l~~~~~~v~~ak~~--G~~v~~~i~  143 (307)
T 1ydo_A           74 GVTYAALV--P---NQRGLENALEG--GINEACVFM-SASETHNRKNINKSTSESLHILKQVNNDAQKA--NLTTRAYLS  143 (307)
T ss_dssp             TCEEEEEC--C---SHHHHHHHHHH--TCSEEEEEE-ESSHHHHHTTTCSCHHHHHHHHHHHHHHHHHT--TCEEEEEEE
T ss_pred             CCeEEEEe--C---CHHhHHHHHhC--CcCEEEEEe-ecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCEEEEEEE
Confidence            44443322  2   45567777777  999999877 55554 444566532  356678888999999  988888887


Q ss_pred             EcC--CC---CCHHHHHHHHHHHHHcCCCeEEEE
Q 041524          418 CGF--CG---ETEEEHADTLTLMKAVGYDMAYMF  446 (524)
Q Consensus       418 ~G~--Pg---ET~ed~~~tl~~l~~l~~d~~~i~  446 (524)
                      .-|  |.   -+.+.+.+.++.+.+.+.+.+.+-
T Consensus       144 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ga~~i~l~  177 (307)
T 1ydo_A          144 TVFGCPYEKDVPIEQVIRLSEALFEFGISELSLG  177 (307)
T ss_dssp             CTTCBTTTBCCCHHHHHHHHHHHHHHTCSCEEEE
T ss_pred             EEecCCcCCCCCHHHHHHHHHHHHhcCCCEEEEc
Confidence            654  43   257788888888889999977654

>2xij_A Methylmalonyl-COA mutase, mitochondrial; isomerase, organic aciduria, vitamin B12; HET: B12 5AD BTB; 1.95A {Homo sapiens} PDB: 2xiq_A* 3bic_A

Probab=92.33  E-value=1.1  Score=50.01  Aligned_cols=99  Identities=11%  Similarity=0.127  Sum_probs=61.8

Q ss_pred             CCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCC--------------CCCCcEEEEeeccCcchHHHHHHHHHHHH
Q 041524           75 SQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINV--------------PENAEVIFINTCAIRDYAEHKVWQRLNYF  140 (524)
Q Consensus        75 ~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~--------------~~~aDvv~intc~v~~~a~~~~~~~l~~~  140 (524)
                      ..+||.+.|.|--.--.=..++...|+..||++ ++.              ..+||+|+|++..-+.  ...+...++.+
T Consensus       603 ~r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeV-i~lG~~v~~eeiv~aA~e~~adiVglSsl~~~~--~~~~~~vi~~L  679 (762)
T 2xij_A          603 RRPRLLVAKMGQDGHDRGAKVIATGFADLGFDV-DIGPLFQTPREVAQQAVDADVHAVGVSTLAAGH--KTLVPELIKEL  679 (762)
T ss_dssp             SCCEEEEECCSSCCCCHHHHHHHHHHHHTTCEE-EECCTTCCHHHHHHHHHHTTCSEEEEEECSSCH--HHHHHHHHHHH
T ss_pred             CCCEEEEEecCcchhhHHHHHHHHHHHhCCeEE-eeCCCCCCHHHHHHHHHHcCCCEEEEeeecHHH--HHHHHHHHHHH
Confidence            456799999986544444578889999999997 322              1589999996543222  22233344333


Q ss_pred             HHhhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCC
Q 041524          141 WFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPD  192 (524)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~ge  192 (524)
                         +.           +...+++|++||..+....+.+.+  -++|.++.+.
T Consensus       680 ---r~-----------~G~~dv~VivGG~~P~~d~~~l~~--~GaD~~f~pg  715 (762)
T 2xij_A          680 ---NS-----------LGRPDILVMCGGVIPPQDYEFLFE--VGVSNVFGPG  715 (762)
T ss_dssp             ---HH-----------TTCTTSEEEEEESCCGGGHHHHHH--HTCCEEECTT
T ss_pred             ---Hh-----------cCCCCCEEEEeCCCCcccHHHHHh--CCCCEEeCCC
Confidence               11           222368999999555544444433  4799988843

>1req_A Methylmalonyl-COA mutase; isomerase, intramolecular transferase; HET: B12 DCA; 2.00A {Propionibacterium freudenreichii subspshermanii} SCOP: c.1.19.1 c.23.6.1 PDB: 2req_A* 3req_A* 4req_A* 6req_A* 7req_A* 5req_A* 1e1c_A*

Probab=92.25  E-value=0.64  Score=51.49  Aligned_cols=107  Identities=13%  Similarity=0.090  Sum_probs=66.0

Q ss_pred             CCccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCC--------------CCCCcEEEEeeccCcchHHHHHHHHHHHH
Q 041524           75 SQGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINV--------------PENAEVIFINTCAIRDYAEHKVWQRLNYF  140 (524)
Q Consensus        75 ~~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~--------------~~~aDvv~intc~v~~~a~~~~~~~l~~~  140 (524)
                      ..+||.+.|.|--.--.=...+...|+..||++ ++.              ..+||+|+|++..-+.  ...+...++.+
T Consensus       595 ~r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeV-i~lG~~v~~eeiv~aA~e~~adiVglSsl~~~~--~~~~~~vi~~L  671 (727)
T 1req_A          595 RRPRILLAKMGQDGHDRGQKVIATAYADLGFDV-DVGPLFQTPEETARQAVEADVHVVGVSSLAGGH--LTLVPALRKEL  671 (727)
T ss_dssp             SCCEEEEECBTTCCCCHHHHHHHHHHHHHTCEE-EECCTTBCHHHHHHHHHHTTCSEEEEEECSSCH--HHHHHHHHHHH
T ss_pred             CCCEEEEEeCCcchhHHHHHHHHHHHHhCCeEE-EeCCCCCCHHHHHHHHHHcCCCEEEEeeecHhH--HHHHHHHHHHH
Confidence            456799999985544444668889999999997 322              1589999996643222  22233444433


Q ss_pred             HHhhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHH
Q 041524          141 WFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLE  202 (524)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~  202 (524)
                         ++           +...+++|++||..+....+.+ .+ -++|.++....  ...+++.
T Consensus       672 ---~~-----------~G~~~i~VivGG~~p~~d~~~l-~~-~GaD~~f~~gt--~~~e~a~  715 (727)
T 1req_A          672 ---DK-----------LGRPDILITVGGVIPEQDFDEL-RK-DGAVEIYTPGT--VIPESAI  715 (727)
T ss_dssp             ---HH-----------TTCTTSEEEEEESCCGGGHHHH-HH-TTEEEEECTTC--CHHHHHH
T ss_pred             ---Hh-----------cCCCCCEEEEcCCCccccHHHH-Hh-CCCCEEEcCCc--cHHHHHH
Confidence               11           2223689999996666544444 33 57999988533  3444443

>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix B (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}

Probab=90.70  E-value=1.2  Score=43.13  Aligned_cols=107  Identities=13%  Similarity=0.157  Sum_probs=61.2

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeecc---CCC----------CCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVI---NVP----------ENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~---~~~----------~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      .++|-+.+.+=-.--.=..+++..|+.+||+++.   ..+          .++|+|++++.. +.. ...+.+.++.+  
T Consensus       123 ~~~vlla~~~gd~HdiG~~iva~~L~~~G~~Vi~LG~~vp~e~l~~~~~~~~~d~V~lS~l~-~~~-~~~~~~~i~~l--  198 (258)
T 2i2x_B          123 KGTVVCHVAEGDVHDIGKNIVTALLRANGYNVVDLGRDVPAEEVLAAVQKEKPIMLTGTALM-TTT-MYAFKEVNDML--  198 (258)
T ss_dssp             SCEEEEEECTTCCCCHHHHHHHHHHHHTTCEEEEEEEECCSHHHHHHHHHHCCSEEEEECCC-TTT-TTHHHHHHHHH--
T ss_pred             CCeEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEEeec-cCC-HHHHHHHHHHH--
Confidence            4456555543222223378899999999998631   111          489999996532 222 12233444443  


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHh
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVD  205 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~  205 (524)
                       +            +..++++|++||..++   +++.+. -++|+.+. ++ ....+++..+.
T Consensus       199 -~------------~~~~~~~v~vGG~~~~---~~~~~~-igad~~~~-da-~~av~~~~~l~  242 (258)
T 2i2x_B          199 -L------------ENGIKIPFACGGGAVN---QDFVSQ-FALGVYGE-EA-ADAPKIADAII  242 (258)
T ss_dssp             -H------------TTTCCCCEEEESTTCC---HHHHHT-STTEEECS-ST-THHHHHHHHHH
T ss_pred             -H------------hcCCCCcEEEECccCC---HHHHHH-cCCeEEEC-CH-HHHHHHHHHHH
Confidence             1            2246689999998877   233333 35776543 34 44556666554

>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl transferase, structural genomics, PSI, protein structure initiative; HET: B1M; 1.70A {Moorella thermoacetica}

Probab=90.49  E-value=1.2  Score=41.33  Aligned_cols=95  Identities=11%  Similarity=0.112  Sum_probs=54.2

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCC-------------CCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVP-------------ENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~-------------~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      .++|-+.+.+--.--.=..+++..|+.+||+++.-..             .++|+|++++. .+.. ...+.+.++.+  
T Consensus        88 ~~~vll~~~~gd~H~iG~~~va~~l~~~G~~v~~LG~~vp~~~l~~~~~~~~~d~v~lS~~-~~~~-~~~~~~~i~~l--  163 (210)
T 1y80_A           88 VGKIVLGTVKGDLHDIGKNLVAMMLESGGFTVYNLGVDIEPGKFVEAVKKYQPDIVGMSAL-LTTT-MMNMKSTIDAL--  163 (210)
T ss_dssp             CCEEEEEEBTTCCCCHHHHHHHHHHHHTTCEEEECCSSBCHHHHHHHHHHHCCSEEEEECC-SGGG-THHHHHHHHHH--
T ss_pred             CCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEecc-cccc-HHHHHHHHHHH--
Confidence            4466555543223233378999999999998631111             48999999653 3332 22344444443  


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEE
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVC  189 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv  189 (524)
                       ++          +...++++|++||..++  + ++.+. -++|+++
T Consensus       164 -~~----------~~~~~~~~v~vGG~~~~--~-~~~~~-~gad~~~  195 (210)
T 1y80_A          164 -IA----------AGLRDRVKVIVGGAPLS--Q-DFADE-IGADGYA  195 (210)
T ss_dssp             -HH----------TTCGGGCEEEEESTTCC--H-HHHHH-HTCSEEC
T ss_pred             -Hh----------cCCCCCCeEEEECCCCC--H-HHHHH-cCCeEEE
Confidence             11          01125689999999876  2 33333 3577643

>3ble_A Citramalate synthase from leptospira interrogans; TIM barrel, licmsn, substrate specificity, acyltransferase, amino-acid biosynthesis; 2.00A {Leptospira interrogans} PDB: 3blf_A 3bli_A*

Probab=85.84  E-value=7.7  Score=38.87  Aligned_cols=145  Identities=6%  Similarity=0.008  Sum_probs=87.0

Q ss_pred             ccCChHHHHHHHH-HHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHh--
Q 041524          261 RSRPVESIVKEVD-ELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSL--  337 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~-~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~--  337 (524)
                      ...+.++.++-++ .|.+.|++.|.+.....+              ..+|                ..+..+.+....  
T Consensus        36 ~~~~~~~k~~i~~~~L~~~Gv~~IE~g~~~~~--------------~~~~----------------~~v~~~~~~~~~~~   85 (337)
T 3ble_A           36 VSFSTSEKLNIAKFLLQKLNVDRVEIASARVS--------------KGEL----------------ETVQKIMEWAATEQ   85 (337)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCCSEEEEEETTSC--------------TTHH----------------HHHHHHHHHHHHTT
T ss_pred             CCcCHHHHHHHHHHHHHHcCCCEEEEeCCCCC--------------hhHH----------------HHHHHHHhhhhhhc
Confidence            4588999999999 998889999887542111              1111                112222221100  


Q ss_pred             hCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEe
Q 041524          338 EFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSD  415 (524)
Q Consensus       338 ~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~  415 (524)
                      ..+...+......    .. -++...++  |...+++-+-+-+....+.+++..  ..+.+.+.++.+++.  |..+..+
T Consensus        86 ~~~~~~i~~l~~~----~~-~i~~a~~~--g~~~v~i~~~~s~~~~~~~~~~s~~e~l~~~~~~v~~ak~~--G~~v~~~  156 (337)
T 3ble_A           86 LTERIEILGFVDG----NK-TVDWIKDS--GAKVLNLLTKGSLHHLEKQLGKTPKEFFTDVSFVIEYAIKS--GLKINVY  156 (337)
T ss_dssp             CGGGEEEEEESST----TH-HHHHHHHH--TCCEEEEEEECSHHHHHHHTCCCHHHHHHHHHHHHHHHHHT--TCEEEEE
T ss_pred             cCCCCeEEEEccc----hh-hHHHHHHC--CCCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCEEEEE
Confidence            1223333222121    12 56666667  899998866544445556667632  456777888888898  8888777


Q ss_pred             EEEcCCC---CCHHHHHHHHHHHHHcCCCeEEE
Q 041524          416 FICGFCG---ETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       416 fI~G~Pg---ET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      +.. +|.   -+.+.+.+.++.+.+.+.+.+.+
T Consensus       157 ~~~-~~~~~~~~~~~~~~~~~~~~~~Ga~~i~l  188 (337)
T 3ble_A          157 LED-WSNGFRNSPDYVKSLVEHLSKEHIERIFL  188 (337)
T ss_dssp             EET-HHHHHHHCHHHHHHHHHHHHTSCCSEEEE
T ss_pred             EEE-CCCCCcCCHHHHHHHHHHHHHcCCCEEEE
Confidence            664 222   24666677777788888887665

>3ewb_X 2-isopropylmalate synthase; LEUA, structural genomics, unknown function, amino-acid biosynthesis; 2.10A {Listeria monocytogenes str}

Probab=85.31  E-value=8.3  Score=37.83  Aligned_cols=144  Identities=10%  Similarity=-0.025  Sum_probs=84.4

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      ...+.++.++-++.|.+.|++.|....   ...                              ....+ +.++.+.+..+
T Consensus        22 ~~~~~~~K~~i~~~L~~~Gv~~IE~g~---p~~------------------------------~~~d~-e~v~~i~~~~~   67 (293)
T 3ewb_X           22 VNFDVKEKIQIALQLEKLGIDVIEAGF---PIS------------------------------SPGDF-ECVKAIAKAIK   67 (293)
T ss_dssp             -CCCHHHHHHHHHHHHHHTCSEEEEEC---GGG------------------------------CHHHH-HHHHHHHHHCC
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEeC---CCC------------------------------CccHH-HHHHHHHHhcC
Confidence            568899999999999999999988653   111                              01112 22334444334


Q ss_pred             ceEEEEec-CCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH-HHhhhCCCC--CHHHHHHHHHHHHHhCCCcEEEEeE
Q 041524          341 EMRFRYTS-PHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA-VLERMRRGY--TREAYLDLVQKIRQIIPDVGLSSDF  416 (524)
Q Consensus       341 ~~~ir~~s-~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~-vL~~m~R~~--t~e~~~~~v~~ir~~~pgi~i~~~f  416 (524)
                      ..++..-. ....++ +..++.++.+  |...|++-+ |.|+- ..+.+++..  ..+.+.+.++.+++.  |..+..+.
T Consensus        68 ~~~i~~l~~~~~~di-~~a~~~~~~a--g~~~v~i~~-~~Sd~~~~~nl~~s~~e~l~~~~~~v~~a~~~--g~~v~~~~  141 (293)
T 3ewb_X           68 HCSVTGLARCVEGDI-DRAEEALKDA--VSPQIHIFL-ATSDVHMEYKLKMSRAEVLASIKHHISYARQK--FDVVQFSP  141 (293)
T ss_dssp             SSEEEEEEESSHHHH-HHHHHHHTTC--SSEEEEEEE-ECSHHHHHHTTCCCHHHHHHHHHHHHHHHHTT--CSCEEEEE
T ss_pred             CCEEEEEecCCHHHH-HHHHHHHhhc--CCCEEEEEe-cCcHHHHHHHhCCCHHHHHHHHHHHHHHHHhC--CCEEEEEe
Confidence            44432221 111111 2344445556  888888866 44443 444555532  345567777778888  77666544


Q ss_pred             EEcCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          417 ICGFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       417 I~G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      ..+. --+++.+.+.++.+.+.+.+.+.+
T Consensus       142 ~d~~-~~~~~~~~~~~~~~~~~G~~~i~l  169 (293)
T 3ewb_X          142 EDAT-RSDRAFLIEAVQTAIDAGATVINI  169 (293)
T ss_dssp             ETGG-GSCHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ccCC-CCCHHHHHHHHHHHHHcCCCEEEe
Confidence            4321 246677788888888999987654

>1nvm_A HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered tunnel, substrate channeling; HET: NAD; 1.70A {Pseudomonas SP} SCOP: a.5.7.1 c.1.10.5

Probab=84.28  E-value=10  Score=37.95  Aligned_cols=143  Identities=13%  Similarity=0.150  Sum_probs=93.7

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEE-eccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLL-GQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~-d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      ...+.++.++-++.|.+.|++.|.+. ++.+.              +.+...  |+.        ...-.+.++++.+..
T Consensus        25 ~~~~~e~k~~i~~~L~~~Gvd~IEvG~~~g~p--------------~ssp~~--g~~--------~~~~~e~l~~i~~~~   80 (345)
T 1nvm_A           25 HQYTLDDVRAIARALDKAKVDSIEVAHGDGLQ--------------GSSFNY--GFG--------RHTDLEYIEAVAGEI   80 (345)
T ss_dssp             TCCCHHHHHHHHHHHHHHTCSEEECSCTTSTT--------------CCBTTT--BCC--------SSCHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEecCCCCC--------------CCCCcc--cCC--------CCCHHHHHHHHHhhC
Confidence            45788999999999999999999873 11111              000000  110        112445666666654


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEc
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSDFICG  419 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G  419 (524)
                      +...+..-. .|..-.++.++...++  |+..+++.. +.++           .+...+.++.+++.  |+.+...+...
T Consensus        81 ~~~~i~~l~-~p~~~~~~~i~~a~~a--Gvd~v~I~~-~~s~-----------~~~~~~~i~~ak~~--G~~v~~~~~~a  143 (345)
T 1nvm_A           81 SHAQIATLL-LPGIGSVHDLKNAYQA--GARVVRVAT-HCTE-----------ADVSKQHIEYARNL--GMDTVGFLMMS  143 (345)
T ss_dssp             SSSEEEEEE-CBTTBCHHHHHHHHHH--TCCEEEEEE-ETTC-----------GGGGHHHHHHHHHH--TCEEEEEEEST
T ss_pred             CCCEEEEEe-cCCcccHHHHHHHHhC--CcCEEEEEE-eccH-----------HHHHHHHHHHHHHC--CCEEEEEEEeC
Confidence            444443321 3333457788888888  999988864 3332           25678888999999  98887776544


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          420 FCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       420 ~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                       +.-+++.+.+.++.+.+.+.+.+.+
T Consensus       144 -~~~~~e~~~~ia~~~~~~Ga~~i~l  168 (345)
T 1nvm_A          144 -HMIPAEKLAEQGKLMESYGATCIYM  168 (345)
T ss_dssp             -TSSCHHHHHHHHHHHHHHTCSEEEE
T ss_pred             -CCCCHHHHHHHHHHHHHCCCCEEEE
Confidence             5677888999999999998886654

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12}

Probab=83.74  E-value=12  Score=30.52  Aligned_cols=101  Identities=8%  Similarity=0.064  Sum_probs=60.4

Q ss_pred             CHHHHHHHHHHHHHCCCeec--cCCC---------CCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccc
Q 041524           89 NVNDMEIVLSIMKNAGYSEV--INVP---------ENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQ  157 (524)
Q Consensus        89 N~~d~e~i~~~L~~~Gy~~~--~~~~---------~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~  157 (524)
                      |....+.+...|.+.||+++  +.+.         ..+|+|++....... ...++.+.+++                  
T Consensus        10 ~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~~~~dlii~d~~l~~~-~g~~~~~~l~~------------------   70 (134)
T 3f6c_A           10 HPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGV-NGIQVLETLRK------------------   70 (134)
T ss_dssp             CHHHHHHHHHHHHHTTEEEEEEESSSTTHHHHHHHHCCSEEEEETTCSSS-CHHHHHHHHHH------------------
T ss_pred             CHHHHHHHHHHHhhCCcEEEEEcCCHHHHHHHHHhcCCCEEEEecCCCCC-ChHHHHHHHHh------------------
Confidence            45567888899999999763  2222         368999997654332 23334444432                  


Q ss_pred             cCCCCEEEE-EcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCCC
Q 041524          158 SKHPPKIVV-LGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQK  209 (524)
Q Consensus       158 ~~p~~~Ivv-gG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~~  209 (524)
                      ..|+.+|++ .+........+.++ ....|++..+-....+.+.++.+..|..
T Consensus        71 ~~~~~~ii~~s~~~~~~~~~~~~~-~g~~~~l~kp~~~~~l~~~i~~~~~~~~  122 (134)
T 3f6c_A           71 RQYSGIIIIVSAKNDHFYGKHCAD-AGANGFVSKKEGMNNIIAAIEAAKNGYC  122 (134)
T ss_dssp             TTCCSEEEEEECC---CTHHHHHH-TTCSEEEEGGGCTHHHHHHHHHHHTTCC
T ss_pred             cCCCCeEEEEeCCCChHHHHHHHH-hCCCEEEeCCCCHHHHHHHHHHHHCCCE
Confidence            235666655 44433334445544 4567888888777777777777766553

>4e38_A Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho aldolase; lyase; 1.64A {Vibrionales bacterium swat-3}

Probab=83.70  E-value=9.7  Score=36.12  Aligned_cols=83  Identities=13%  Similarity=0.096  Sum_probs=58.6

Q ss_pred             cccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhC
Q 041524          260 ERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEF  339 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~  339 (524)
                      .|..++++.++-++.+.+.|++-|.+.-.+                                    ..-.+.++++.+..
T Consensus        40 ir~~~~~~a~~~a~al~~gGi~~iEvt~~t------------------------------------~~a~e~I~~l~~~~   83 (232)
T 4e38_A           40 IAIDNAEDIIPLGKVLAENGLPAAEITFRS------------------------------------DAAVEAIRLLRQAQ   83 (232)
T ss_dssp             ECCSSGGGHHHHHHHHHHTTCCEEEEETTS------------------------------------TTHHHHHHHHHHHC
T ss_pred             EEcCCHHHHHHHHHHHHHCCCCEEEEeCCC------------------------------------CCHHHHHHHHHHhC
Confidence            366788999999999999999988875211                                    12456667777665


Q ss_pred             CceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          340 PEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       340 ~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                      +..-+...+    .++.+.++...++  |+..++.|-  .++++++.
T Consensus        84 ~~~~iGaGT----Vlt~~~a~~Ai~A--GA~fIvsP~--~~~~vi~~  122 (232)
T 4e38_A           84 PEMLIGAGT----ILNGEQALAAKEA--GATFVVSPG--FNPNTVRA  122 (232)
T ss_dssp             TTCEEEEEC----CCSHHHHHHHHHH--TCSEEECSS--CCHHHHHH
T ss_pred             CCCEEeECC----cCCHHHHHHHHHc--CCCEEEeCC--CCHHHHHH
Confidence            666665553    3578888888888  999999773  45555543

>3ezx_A MMCP 1, monomethylamine corrinoid protein 1; N terminal all helical bundle C terminal rossmann fold, cobalt, metal-binding; HET: HCB; 2.56A {Methanosarcina barkeri}

Probab=83.39  E-value=1.5  Score=41.17  Aligned_cols=64  Identities=11%  Similarity=0.153  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHCCCeeccC---CC----------CCCcEEEE--eeccCcchHHHHHHHHHHHHHHhhhhhhhcccccccc
Q 041524           93 MEIVLSIMKNAGYSEVIN---VP----------ENAEVIFI--NTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQ  157 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~---~~----------~~aDvv~i--ntc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~  157 (524)
                      ..++...|+.+||+++.-   -+          .+||+|++  ++..  ......+.+.++.+   ++           +
T Consensus       109 ~~iv~~~l~~~G~~Vi~LG~~vp~e~iv~~~~~~~~d~v~l~~S~l~--~~~~~~~~~~i~~l---~~-----------~  172 (215)
T 3ezx_A          109 HRLVTTMLGANGFQIVDLGVDVLNENVVEEAAKHKGEKVLLVGSALM--TTSMLGQKDLMDRL---NE-----------E  172 (215)
T ss_dssp             HHHHHHHHHHTSCEEEECCSSCCHHHHHHHHHHTTTSCEEEEEECSS--HHHHTHHHHHHHHH---HH-----------T
T ss_pred             HHHHHHHHHHCCCeEEEcCCCCCHHHHHHHHHHcCCCEEEEEchhcc--cCcHHHHHHHHHHH---HH-----------c
Confidence            678899999999986311   11          48999999  6543  23333344444443   11           1


Q ss_pred             c-CCCCEEEEEccccc
Q 041524          158 S-KHPPKIVVLGCMAE  172 (524)
Q Consensus       158 ~-~p~~~IvvgG~~at  172 (524)
                      . .++++|++||...+
T Consensus       173 ~~~~~v~v~vGG~~~~  188 (215)
T 3ezx_A          173 KLRDSVKCMFGGAPVS  188 (215)
T ss_dssp             TCGGGSEEEEESSSCC
T ss_pred             CCCCCCEEEEECCCCC
Confidence            1 13689999998776

>3ivs_A Homocitrate synthase, mitochondrial; TIM barrel, metalloprotein, transferase, claisen condensatio acid biosynthesis; 2.24A {Schizosaccharomyces pombe} PDB: 3ivt_A* 3ivu_A* 3mi3_A*

Probab=82.70  E-value=21  Score=36.94  Aligned_cols=142  Identities=7%  Similarity=-0.034  Sum_probs=86.8

Q ss_pred             ccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHhhCC
Q 041524          261 RSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFP  340 (524)
Q Consensus       261 Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~  340 (524)
                      .+.+.++-++=++.|.+.|+++|....   ...                               .....+.++.+.+...
T Consensus        56 ~~~s~eeKl~Ia~~L~~~Gv~~IEvG~---P~a-------------------------------sp~d~~~~~~i~~~~~  101 (423)
T 3ivs_A           56 AFFDTEKKIQIAKALDNFGVDYIELTS---PVA-------------------------------SEQSRQDCEAICKLGL  101 (423)
T ss_dssp             CCCCHHHHHHHHHHHHHHTCSEEEECC---TTS-------------------------------CHHHHHHHHHHHTSCC
T ss_pred             CCcCHHHHHHHHHHHHHcCCCEEEEee---ccc-------------------------------CHHHHHHHHHHHhcCC
Confidence            578999999999999999999998642   111                               0112334444544322


Q ss_pred             ceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCC--CCHHHHHHHHHHHHHhCCCcEEEEeEEE
Q 041524          341 EMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRG--YTREAYLDLVQKIRQIIPDVGLSSDFIC  418 (524)
Q Consensus       341 ~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~--~t~e~~~~~v~~ir~~~pgi~i~~~fI~  418 (524)
                      ...+. ...++   +.+-++...++  |+..|++-+=+.+......+++.  ...+.+.+.++.+++.  |+.+..+..-
T Consensus       102 ~~~v~-~~~r~---~~~di~~A~~a--G~~~V~i~~s~Sd~~~~~~l~~s~~e~l~~~~~~v~~ak~~--G~~V~~~~ed  173 (423)
T 3ivs_A          102 KCKIL-THIRC---HMDDARVAVET--GVDGVDVVIGTSQYLRKYSHGKDMTYIIDSATEVINFVKSK--GIEVRFSSED  173 (423)
T ss_dssp             SSEEE-EEEES---CHHHHHHHHHT--TCSEEEEEEEC-------------CHHHHHHHHHHHHHHTT--TCEEEEEEES
T ss_pred             CCEEE-Eeecc---ChhhHHHHHHc--CCCEEEEEeeccHHHHHHHcCCCHHHHHHHHHHHHHHHHHC--CCEEEEEEcc
Confidence            22221 11122   34446666677  99998887644332222233332  2367778889999999  8888887776


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCCeEEE
Q 041524          419 GFCGETEEEHADTLTLMKAVGYDMAYM  445 (524)
Q Consensus       419 G~PgET~ed~~~tl~~l~~l~~d~~~i  445 (524)
                      ++ .-+++.+.+.++.+.+.+.+.+.+
T Consensus       174 a~-r~d~~~~~~v~~~~~~~Ga~~i~l  199 (423)
T 3ivs_A          174 SF-RSDLVDLLSLYKAVDKIGVNRVGI  199 (423)
T ss_dssp             GG-GSCHHHHHHHHHHHHHHCCSEEEE
T ss_pred             Cc-CCCHHHHHHHHHHHHHhCCCcccc
Confidence            66 457788888888888889887654

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima}

Probab=82.07  E-value=8.6  Score=31.89  Aligned_cols=99  Identities=13%  Similarity=0.189  Sum_probs=56.0

Q ss_pred             CHHHHHHHHHHHHHCCCeecc-CC---------CCCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccccc
Q 041524           89 NVNDMEIVLSIMKNAGYSEVI-NV---------PENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQS  158 (524)
Q Consensus        89 N~~d~e~i~~~L~~~Gy~~~~-~~---------~~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  158 (524)
                      |....+.+...|.+.||++.. .+         ...+|+|++.. . -.....++...+++                  .
T Consensus        13 ~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~~dlvi~d~-~-~~~~g~~~~~~l~~------------------~   72 (142)
T 2qxy_A           13 SRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRREKIDLVFVDV-F-EGEESLNLIRRIRE------------------E   72 (142)
T ss_dssp             CHHHHHHHHHHHGGGTCEEEEESSHHHHHHHHTTSCCSEEEEEC-T-TTHHHHHHHHHHHH------------------H
T ss_pred             CHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhccCCCEEEEeC-C-CCCcHHHHHHHHHH------------------H
Confidence            455677888888888997531 11         14689999976 3 22222233333332                  1


Q ss_pred             CCCCEEEEEcccccc-cHHHHHhhCCcceEEECCCCcccHHHHHHHHhcCC
Q 041524          159 KHPPKIVVLGCMAER-LKDKILDADKMVDVVCGPDAYRDLPRLLEEVDYGQ  208 (524)
Q Consensus       159 ~p~~~IvvgG~~at~-~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~  208 (524)
                      .++.+|++....... .....++ ....|++..+-....|.+.+..+..+.
T Consensus        73 ~~~~pii~ls~~~~~~~~~~~~~-~g~~~~l~kP~~~~~l~~~i~~~~~~~  122 (142)
T 2qxy_A           73 FPDTKVAVLSAYVDKDLIINSVK-AGAVDYILKPFRLDYLLERVKKIISST  122 (142)
T ss_dssp             CTTCEEEEEESCCCHHHHHHHHH-HTCSCEEESSCCHHHHHHHHHHHHHC-
T ss_pred             CCCCCEEEEECCCCHHHHHHHHH-CCcceeEeCCCCHHHHHHHHHHHHhhc
Confidence            356666654433332 2233443 345688888877667777776655443

>3bul_A Methionine synthase; transferase, reactivation conformation, cobalamin, intermodular interactions, amino-acid biosynthesis, cobalt; HET: B12; 2.30A {Escherichia coli} SCOP: a.46.1.1 c.23.6.1 d.173.1.1 PDB: 3iv9_A* 3iva_A* 1k7y_A* 1k98_A* 1bmt_A*

Probab=81.80  E-value=6.5  Score=42.46  Aligned_cols=98  Identities=15%  Similarity=0.128  Sum_probs=55.6

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCC---C----------CCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINV---P----------ENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~---~----------~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      .++|.+.|.+=-.--.=..++...|+.+||+++.-.   +          .++|+|++++ +.+. ....+...++++  
T Consensus        98 ~~kVLlatv~GD~HdiG~~iva~~L~~~G~eVi~LG~~vP~e~iv~aa~~~~~diVgLS~-l~t~-~~~~m~~~i~~L--  173 (579)
T 3bul_A           98 NGKMVIATVKGDVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTAKEVNADLIGLSG-LITP-SLDEMVNVAKEM--  173 (579)
T ss_dssp             SCEEEEEEBTTCCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHHHHHTCSEEEEEC-CSTH-HHHHHHHHHHHH--
T ss_pred             CCeEEEEECCCCCchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEEe-cCCC-CHHHHHHHHHHH--
Confidence            345555543222222237889999999999863111   1          4899999955 3333 233344455444  


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEcccccccHH--HHHhhCCcceEEEC
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERLKD--KILDADKMVDVVCG  190 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e--~~l~~~~~vD~Vv~  190 (524)
                       +            +..++++|+|||..++....  ++-..+.++|+.+.
T Consensus       174 -r------------~~g~~i~ViVGGa~~~~~~a~~~i~p~~~GAD~ya~  210 (579)
T 3bul_A          174 -E------------RQGFTIPLLIGGATTSKAHTAVKIEQNYSGPTVYVQ  210 (579)
T ss_dssp             -H------------HTTCCSCEEEESTTCCHHHHHHHTGGGCSSCEEECC
T ss_pred             -H------------HcCCCCeEEEEccccchhhhhhhhhhcccCCeEEEC
Confidence             1            12357899999987665322  22222345775543

>3inp_A D-ribulose-phosphate 3-epimerase; IDP02542, isomerase, struc genomics, center for structural genomics of infectious DISE csgid; 2.05A {Francisella tularensis subsp}

Probab=81.09  E-value=17  Score=34.71  Aligned_cols=134  Identities=11%  Similarity=0.032  Sum_probs=82.0

Q ss_pred             cccCChHHHHHHHHHHHHCCCc--EEEEEeccCCCCCCccCCccccCCCCccccccCcccchhcccchhhHHHHHHHHHh
Q 041524          260 ERSRPVESIVKEVDELWKEGVK--EVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSL  337 (524)
Q Consensus       260 ~Rsr~~e~Iv~Ei~~l~~~G~k--ei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~  337 (524)
                      .-+.+..++.+|++.+.+.|++  ++-+.|..|--.                 ++           .+.   .+++.+.+
T Consensus        34 ilsaD~~~L~~~i~~l~~~G~d~lHvDVmDg~FVpn-----------------it-----------~G~---~~v~~lr~   82 (246)
T 3inp_A           34 ILSADLARLGDDVKAVLAAGADNIHFDVMDNHYVPN-----------------LT-----------FGP---MVLKALRD   82 (246)
T ss_dssp             GGGSCGGGHHHHHHHHHHTTCCCEEEEEEBSSSSSC-----------------BC-----------CCH---HHHHHHHH
T ss_pred             hhcCChhhHHHHHHHHHHcCCCEEEEEecCCCcCcc-----------------hh-----------cCH---HHHHHHHH
Confidence            4567788899999999998887  555677665311                 00           012   34444444


Q ss_pred             hCCc--eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Q 041524          338 EFPE--MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSD  415 (524)
Q Consensus       338 ~~~~--~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e~~~~~v~~ir~~~pgi~i~~~  415 (524)
                      ..+.  +.+.+...+|    +..++.++++  |+..+++..|+..              ...+.++.+|+.  |+.+...
T Consensus        83 ~~p~~~ldvHLmv~~p----~~~i~~~~~a--GAd~itvH~Ea~~--------------~~~~~i~~ir~~--G~k~Gva  140 (246)
T 3inp_A           83 YGITAGMDVHLMVKPV----DALIESFAKA--GATSIVFHPEASE--------------HIDRSLQLIKSF--GIQAGLA  140 (246)
T ss_dssp             HTCCSCEEEEEECSSC----HHHHHHHHHH--TCSEEEECGGGCS--------------CHHHHHHHHHTT--TSEEEEE
T ss_pred             hCCCCeEEEEEeeCCH----HHHHHHHHHc--CCCEEEEccccch--------------hHHHHHHHHHHc--CCeEEEE
Confidence            4322  3444443344    6689999998  9999999999753              256778888888  8876665


Q ss_pred             EEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChh
Q 041524          416 FICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHA  456 (524)
Q Consensus       416 fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~  456 (524)
                      +-.+.|-   +.++..++     .+|.+.  ..+..||..-
T Consensus       141 lnp~Tp~---e~l~~~l~-----~vD~Vl--vMsV~PGfgG  171 (246)
T 3inp_A          141 LNPATGI---DCLKYVES-----NIDRVL--IMSVNPGFGG  171 (246)
T ss_dssp             ECTTCCS---GGGTTTGG-----GCSEEE--EECSCTTC--
T ss_pred             ecCCCCH---HHHHHHHh-----cCCEEE--EeeecCCCCC
Confidence            5433333   33332222     367543  4577888743

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	524
d1olta_	441	Oxygen-independent coproporphyrinogen III oxidase	99.91
d1r30a_	312	Biotin synthase {Escherichia coli [TaxId: 562]}	99.85
d1tv8a_	327	Molybdenum cofactor biosynthesis protein A MoaA {S	98.85
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	96.88
d7reqb2	163	Methylmalonyl-CoA mutase beta subunit, C-terminal	94.62
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	94.0
d3bula2	156	Methionine synthase, C-terminal domain {Escherichi	93.5
d1xrsb1	160	D-lysine 5,6-aminomutase beta subunit KamE, C-term	90.46

>d1olta_ c.1.28.2 (A:) Oxygen-independent coproporphyrinogen III oxidase HemN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Oxygen-independent coproporphyrinogen III oxidase HemN
domain: Oxygen-independent coproporphyrinogen III oxidase HemN
species: Escherichia coli [TaxId: 562]

Probab=99.91  E-value=2.5e-24  Score=226.52  Aligned_cols=230  Identities=19%  Similarity=0.235  Sum_probs=173.6

Q ss_pred             CeEEEEEEcccCCccCcccccCCCCCc---cccCChHHHHHHHHHHHHC----CCcEEEEEeccCCCCCCccCCccccCC
Q 041524          233 SVTAFVSVMRGCNNMCSFCIVPFTRGR---ERSRPVESIVKEVDELWKE----GVKEVTLLGQNVNSYNDTSGMEKEVEP  305 (524)
Q Consensus       233 ~~~a~v~isRGC~~~CsFC~vp~~~G~---~Rsr~~e~Iv~Ei~~l~~~----G~kei~l~d~n~~~y~~~~~~~~~~~~  305 (524)
                      +.+.||.+ --|+++|+||..+...++   ...+.++.+++||+...+.    .+..|.|.|.+.+..            
T Consensus        49 plsLYiHi-PFC~~~C~yC~~~~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~~~v~~i~~GGGTPt~L------------  115 (441)
T d1olta_          49 PLSLYVHI-PFCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWGGGTPTYL------------  115 (441)
T ss_dssp             CEEEEEEE-CEESSCCTTCCSSCEECSCTHHHHHHHHHHHHHHHHHGGGGTTCCEEEEEEEESCGGGS------------
T ss_pred             ceEEEEEe-CCCCCCCCCCcCeeecCCCcchHHHHHHHHHHHHHHhhHhcCCCccceeEecCCCcCCC------------
Confidence            45778886 669999999987543222   2334578999999876653    356677777554433            


Q ss_pred             CCccccccCcccchhcccchhhHHHHHHHHHhhCCc---eEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHH
Q 041524          306 GANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPE---MRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSA  382 (524)
Q Consensus       306 g~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~---~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~  382 (524)
                                        ....+.+|++.+.+..+.   ..+.+. .+|..++++.++.|+++  ||+++++|+||++++
T Consensus       116 ------------------~~~~l~~ll~~l~~~~~~~~~~e~t~E-~~P~~~~~~~l~~l~~~--G~nRiSlGvQs~~~~  174 (441)
T d1olta_         116 ------------------NKAQISRLMKLLRENFQFNADAEISIE-VDPREIELDVLDHLRAE--GFNRLSMGVQDFNKE  174 (441)
T ss_dssp             ------------------CHHHHHHHHHHHHHHSCEEEEEEEEEE-ECSSSCCTHHHHHHHHT--TCCEEEEEEECCCHH
T ss_pred             ------------------CHHHHHHHHHHHhhhccccchhccccc-ccccccchHHHHHHHHh--CCceEEecchhcchh
Confidence                              124578888888776543   234443 79999999999999999  999999999999999


Q ss_pred             HHhhhCCCCCHHHHHHHHHHHHHhCCCcE-EEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeecCCCChhcccCC
Q 041524          383 VLERMRRGYTREAYLDLVQKIRQIIPDVG-LSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYV  461 (524)
Q Consensus       383 vL~~m~R~~t~e~~~~~v~~ir~~~pgi~-i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp~pGT~~~~~~~  461 (524)
                      +|+.|+|.++.+++.++++.+|+.  |+. ++.|+|+|+||||.+++.+|++.+.+++++++++|+|+..|+|..++...
T Consensus       175 vl~~i~R~~~~~~~~~~~~~~r~~--g~~~vn~DLI~GlPgqT~~~~~~tl~~~~~l~pd~is~y~~~~~p~~~~~q~~~  252 (441)
T d1olta_         175 VQRLVNREQDEEFIFALLNHAREI--GFTSTNIDLIYGLPKQTPESFAFTLKRVAELNPDRLSVFNYAHLPTIFAAQRKI  252 (441)
T ss_dssp             HHHHHTCCCCHHHHHHHHHHHHHT--TCCSCEEEEEESCTTCCHHHHHHHHHHHHHHCCSEEEEEECCCCTTTSGGGGGS
T ss_pred             hhhhhhcCCCHHHHHHHHHHHHhc--ccceeecccccccCCcchHHHHHHHHHHHhhCCCccccccceeccchhHhhhhc
Confidence            999999999999999999999999  874 99999999999999999999999999999999999999999998887544


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHhcccCCEEEEE
Q 041524          462 DDVPEEVKQRRLTELIEAFRESTGQCYDSQVGTVQLVL  499 (524)
Q Consensus       462 ~~v~~~~k~~Rl~~l~~~~~~~~~~~~~~~vG~~~~vL  499 (524)
                      ...+.....++++.+....+.+....|. ++|-.+.+.
T Consensus       253 ~~~~lp~~~~~~~~~~~~~~~L~~~GY~-~~~~~~far  289 (441)
T d1olta_         253 KDADLPSPQQKLDILQETIAFLTQSGYQ-FIGMDHFAR  289 (441)
T ss_dssp             CGGGSCCHHHHHHHHHHHHHHHHHTTCE-EEETTEEEC
T ss_pred             cccchhhhHHHHHHHHHHHHHHHHcCch-hhhHHHhhh
Confidence            3322222233344444444444444444 455444443

>d1r30a_ c.1.28.1 (A:) Biotin synthase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Biotin synthase
domain: Biotin synthase
species: Escherichia coli [TaxId: 562]

Probab=99.85  E-value=5.6e-20  Score=184.08  Aligned_cols=181  Identities=14%  Similarity=0.128  Sum_probs=147.9

Q ss_pred             EEcccCCccCcccccCCCCC----ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCCCccccccC
Q 041524          239 SVMRGCNNMCSFCIVPFTRG----RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPGANWRLSEG  314 (524)
Q Consensus       239 ~isRGC~~~CsFC~vp~~~G----~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g~~~~~~~g  314 (524)
                      -.|+||+++|+||.++....    +.+..++++|+++++.+.+.|++++.+.++....+            ..       
T Consensus        45 ~~TngC~~~C~fC~~~~~~~~~~~~~~~~~~e~i~~~~~~~~~~G~~~~~~~~g~~~~~------------~~-------  105 (312)
T d1r30a_          45 IKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLESARKAKAAGSTRFCMGAAWKNPH------------ER-------  105 (312)
T ss_dssp             EECSCBSSCCSSCSCBTTSCTTCCCCCCCCHHHHHHHHHHHHHTTCSEEEEEECCSSCC------------TT-------
T ss_pred             eeCCCCCCcCCcCCCCccCCCCCccccccchHHHHHHHHHHHHcCCEEEEEccCCCCCc------------hh-------
Confidence            34899999999999765332    24567999999999999999999999998765533            10       


Q ss_pred             cccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhhhCCCCCHH
Q 041524          315 FNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTRE  394 (524)
Q Consensus       315 ~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~m~R~~t~e  394 (524)
                               ....+.++++.+....  .++..   ++..++++.++.|+++  ||..+.+|+|| +++.+..+.++.+.+
T Consensus       106 ---------~~~~~~~~i~~~~~~~--~~~~~---~~~~l~~e~l~~lk~a--G~~~i~~~iEs-~~~~~~~~~~~~~~~  168 (312)
T d1r30a_         106 ---------DMPYLEQMVQGVKAMG--LEACM---TLGTLSESQAQRLANA--GLDYYNHNLDT-SPEFYGNIITTRTYQ  168 (312)
T ss_dssp             ---------THHHHHHHHHHHHHTT--SEEEE---ECSSCCHHHHHHHHHH--CCCEEECCCBS-CHHHHHHHCCSSCHH
T ss_pred             ---------hHHHHHHHHHhccccc--ceeee---ccccchHHHHHHhhcc--cceeEecccch-hhhhhccCCCCCCHH
Confidence                     1234566666655433  23332   3456799999999999  99999999999 567889999999999


Q ss_pred             HHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcC--CCeEEEEeeecCCCChhcc
Q 041524          395 AYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVG--YDMAYMFAYSMRERTHAHR  458 (524)
Q Consensus       395 ~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~--~d~~~i~~~sp~pGT~~~~  458 (524)
                      ++.+.++.++++  |+.+.+.+|+|+ |||.+|..+++.++++++  ++.+.++.+.|.|||+++.
T Consensus       169 ~~~~~~~~a~~~--Gi~~~~~~i~G~-~et~~d~~~~l~~l~~l~~~~~~i~~~~~~p~~gT~l~~  231 (312)
T d1r30a_         169 ERLDTLEKVRDA--GIKVCSGGIVGL-GETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLAD  231 (312)
T ss_dssp             HHHHHHHHHHHH--HCEEECCEEECS-SCCHHHHHHHHHHHHSSSSCCSEEEEEECCCCTTSTTSS
T ss_pred             HHHHHHHHHHHh--ccceecceEecC-cCcHHHHHHHHHHHHhcCCCCCeeeeccccCCCCccccc
Confidence            999999999999  999999999999 799999999999999874  5678899999999999986

>d1tv8a_ c.1.28.3 (A:) Molybdenum cofactor biosynthesis protein A MoaA {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: MoCo biosynthesis proteins
domain: Molybdenum cofactor biosynthesis protein A MoaA
species: Staphylococcus aureus [TaxId: 1280]

Probab=98.85  E-value=2e-07  Score=91.40  Aligned_cols=177  Identities=12%  Similarity=0.168  Sum_probs=131.6

Q ss_pred             eEEEEEEcccCCccCcccccCCCCC-------ccccCChHHHHHHHHHHHHCCCcEEEEEeccCCCCCCccCCccccCCC
Q 041524          234 VTAFVSVMRGCNNMCSFCIVPFTRG-------RERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYNDTSGMEKEVEPG  306 (524)
Q Consensus       234 ~~a~v~isRGC~~~CsFC~vp~~~G-------~~Rsr~~e~Iv~Ei~~l~~~G~kei~l~d~n~~~y~~~~~~~~~~~~g  306 (524)
                      ....|+++.-|+.+|+||......+       +....+.|.+.+-++.+.+.|+..+.|.|.....+             
T Consensus        12 ~~l~ieiT~~CNlrC~~C~~~~~~~~~~~~~~~~~~ls~e~~~~li~~~~~~g~~~v~~~GGEp~l~-------------   78 (327)
T d1tv8a_          12 RDLRLSVTDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAELGVKKIRITGGEPLMR-------------   78 (327)
T ss_dssp             CEEEEECCSCCSCCCTTTSCTTTSSTTCCCCCGGGSCCHHHHHHHHHHHHHTTCCEEEEESSCGGGS-------------
T ss_pred             CcEEEEeccccCCcCcCCCCccccCCCCccCCccccCCHHHHHHHHHHHHHcCCeEEEeCCCccccc-------------
Confidence            3567999999999999997543222       12235788888888888888999999987543322             


Q ss_pred             CccccccCcccchhcccchhhHHHHHHHHHhhCCceEEEEecCCCCCCCHHHHHHHHcCCCCcceeecCcCCcCHHHHhh
Q 041524          307 ANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFPDELLYIMRDRPNVCKYIHLPAQTGNSAVLER  386 (524)
Q Consensus       307 ~~~~~~~g~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~ir~~s~~p~~~~~elL~~l~~~~~G~~~i~igiESgs~~vL~~  386 (524)
                                         ..+.+++.+..........-++  +...++++.++.|.++  |...+.+.+++.+++.-+.
T Consensus        79 -------------------~~~~e~i~~~~~~~~~~~~~~T--ng~ll~~~~~~~l~~~--g~~~i~iSldg~~~e~~~~  135 (327)
T d1tv8a_          79 -------------------RDLDVLIAKLNQIDGIEDIGLT--TNGLLLKKHGQKLYDA--GLRRINVSLDAIDDTLFQS  135 (327)
T ss_dssp             -------------------TTHHHHHHHHTTCTTCCEEEEE--ECSTTHHHHHHHHHHH--TCCEEEEECCCSSHHHHHH
T ss_pred             -------------------ccHHHHHHHHhhhccccccccc--cccccchhHHHHHHHc--CCCEEeeecccCCHHHhhh
Confidence                               2466776666554433333333  3345788999999998  9999999999999988887


Q ss_pred             h-CCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEcCCCCCHHHHHHHHHHHHHcCCCeEEEEeeec
Q 041524          387 M-RRGYTREAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSM  450 (524)
Q Consensus       387 m-~R~~t~e~~~~~v~~ir~~~pgi~i~~~fI~G~PgET~ed~~~tl~~l~~l~~d~~~i~~~sp  450 (524)
                      + +++.+.+...+.++.+.++  |+.+...+++ .++.+.+++.+.++++.....+.. ++.+.+
T Consensus       136 ~rg~~g~~~~~~~~~~~~~~~--g~~~~~~~~v-~~~~n~~~~~~~~~~~~~~~~~~~-~~~~~~  196 (327)
T d1tv8a_         136 INNRNIKATTILEQIDYATSI--GLNVKVNVVI-QKGINDDQIIPMLEYFKDKHIEIR-FIEFMD  196 (327)
T ss_dssp             HHSSCCCHHHHHHHHHHHHHT--TCEEEEEEEE-CTTTTGGGHHHHHHHHHHTTCCEE-EEECCC
T ss_pred             heeeccccchhhhHHHHHHHc--CCCcceeEEE-ecCccccccHHHHHHHHhhccccc-eeeeec
Confidence            6 5567899999999999999  8877776655 467888888899999999988743 444433

>d7reqa2 c.23.6.1 (A:561-728) Methylmalonyl-CoA mutase alpha subunit, C-terminal domain {Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methylmalonyl-CoA mutase alpha subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=96.88  E-value=0.0067  Score=53.15  Aligned_cols=100  Identities=13%  Similarity=0.100  Sum_probs=66.1

Q ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHCCCeeccCCC-------------CCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           76 QGRIYQETYGCQMNVNDMEIVLSIMKNAGYSEVINVP-------------ENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        76 ~~~~~~~t~GC~~N~~d~e~i~~~L~~~Gy~~~~~~~-------------~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      +.||.+.+.|.-.-..=...+...|+..||+++....             ++||+|+|++..-..  ...+-+.++.+  
T Consensus        37 ~pkVlla~~g~D~Hd~G~~~va~~l~~~G~eVi~lg~~~~~e~iv~aa~~~~advI~iSs~~~~~--~~~~~~l~~~L--  112 (168)
T d7reqa2          37 RPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEADVHVVGVSSLAGGH--LTLVPALRKEL--  112 (168)
T ss_dssp             CCEEEEECBTTCCCCHHHHHHHHHHHHTTCEEEECCTTBCHHHHHHHHHHHTCSEEEEEECSSCH--HHHHHHHHHHH--
T ss_pred             CCeEEEEeCCccHHHHHHHHHHHHHHhCCcceecCCCcCcHHHHHHHHHccCCCEEEEecCcccc--hHHHHHHHHHH--
Confidence            4579999998766555677889999999998732111             489999997654332  22233333333  


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCC
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDA  193 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~geg  193 (524)
                       +           .+..++++|++||..+....+++.+  .++|.|+++..
T Consensus       113 -~-----------~~g~~~v~VivGG~ip~~d~~~l~~--~Gv~~iF~pgt  149 (168)
T d7reqa2         113 -D-----------KLGRPDILITVGGVIPEQDFDELRK--DGAVEIYTPGT  149 (168)
T ss_dssp             -H-----------HTTCTTSEEEEEESCCGGGHHHHHH--HTEEEEECTTC
T ss_pred             -H-----------hcCCCCeEEEEeCCCCHHHHHHHHh--CCCCEEECcCC
Confidence             1           1223678999999777766666554  47998888653

>d7reqb2 c.23.6.1 (B:476-638) Methylmalonyl-CoA mutase beta subunit, C-terminal domain {Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methylmalonyl-CoA mutase beta subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=94.62  E-value=0.032  Score=48.35  Aligned_cols=108  Identities=11%  Similarity=0.043  Sum_probs=64.0

Q ss_pred             CCccEEEEecCCCC-CHHHHHHHHHHHHHCCCeeccCCC-------------CCCcEEEEeeccCcchHHHHHHHHHHHH
Q 041524           75 SQGRIYQETYGCQM-NVNDMEIVLSIMKNAGYSEVINVP-------------ENAEVIFINTCAIRDYAEHKVWQRLNYF  140 (524)
Q Consensus        75 ~~~~~~~~t~GC~~-N~~d~e~i~~~L~~~Gy~~~~~~~-------------~~aDvv~intc~v~~~a~~~~~~~l~~~  140 (524)
                      ...+|++.++|=.- -..-...+...|...||++ +...             .++|+|+|  |+-...-...+-..++.|
T Consensus        34 ~rP~v~la~lG~~a~h~ara~f~~n~f~~gGfev-~~~~~~~~~e~v~aa~~~~a~vvvi--cssd~~y~~~~~~~~~aL  110 (163)
T d7reqb2          34 ERPKVFLACLGTRRDFGGREGFSSPVWHIAGIDT-PQVEGGTTAEIVEAFKKSGAQVADL--CSSAKVYAQQGLEVAKAL  110 (163)
T ss_dssp             SCCBCEEEECSCHHHHHHHHHHHHHHHHHTTCBC-CEEESCCHHHHHHHHHHHTCSEEEE--ECCHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEcCCChhhhhhHHHHHHHHHHccCeee-ccCCCCCcHHHHHHHHhCCCCEEEE--ecCccchHHHHHHHHHHH
Confidence            34579999999211 1122345788999999986 3321             48999999  543333333333344333


Q ss_pred             HHhhhhhhhcccccccccCCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHHH
Q 041524          141 WFLKREWKKNVATGRSQSKHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEEV  204 (524)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~~  204 (524)
                         |            ...++.+|++||..+....+.+.+  .+||.++...  .+..+.|+.+
T Consensus       111 ---k------------~ag~~~~vlaGg~~~~~d~~~l~~--aGVd~~i~~G--~d~~~~l~~l  155 (163)
T d7reqb2         111 ---K------------AAGAKALYLSGAFKEFGDDAAEAE--KLIDGRLFMG--MDVVDTLSST  155 (163)
T ss_dssp             ---H------------HTTCSEEEEESCGGGGGGGHHHHH--HHCCEEECTT--CCHHHHHHHH
T ss_pred             ---H------------hcccceeEEEecCCCcccHHHHHh--CCCCeEecCC--CcHHHHHHHH
Confidence               1            123566788888877766666654  3688777543  2445555443

>d1ccwa_ c.23.6.1 (A:) Glutamate mutase, small subunit {Clostridium cochlearium [TaxId: 1494]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Glutamate mutase, small subunit
species: Clostridium cochlearium [TaxId: 1494]

Probab=94.00  E-value=0.15  Score=42.58  Aligned_cols=109  Identities=15%  Similarity=0.031  Sum_probs=63.5

Q ss_pred             ccEEEEe-cCCCCCHHHHHHHHHHHHHCCCeecc---CCC----------CCCcEEEEeeccCcchHHHHHHHHHHHHHH
Q 041524           77 GRIYQET-YGCQMNVNDMEIVLSIMKNAGYSEVI---NVP----------ENAEVIFINTCAIRDYAEHKVWQRLNYFWF  142 (524)
Q Consensus        77 ~~~~~~t-~GC~~N~~d~e~i~~~L~~~Gy~~~~---~~~----------~~aDvv~intc~v~~~a~~~~~~~l~~~~~  142 (524)
                      +||-+-+ .|+.+..- ...++..|+..||+++.   +.+          .+||+|++++... .. ...+.+.+..+  
T Consensus         4 ~kVvi~~~~gD~H~lG-~~mva~~l~~~G~~V~~LG~~~p~e~iv~a~~~~~~d~v~lS~~~~-~~-~~~~~~~~~~l--   78 (137)
T d1ccwa_           4 KTIVLGVIGSDCHAVG-NKILDHAFTNAGFNVVNIGVLSPQELFIKAAIETKADAILVSSLYG-QG-EIDCKGLRQKC--   78 (137)
T ss_dssp             CEEEEEEETTCCCCHH-HHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHTCSEEEEEECSS-TH-HHHHTTHHHHH--
T ss_pred             CEEEEEecCCChhHHH-HHHHHHHHHHCCCeEEecccccCHHHHHHHHHhcCCCEEEEeeccc-cc-hHHHHHHHHHH--
Confidence            4544433 36777666 88999999999998631   111          4899999965443 32 22233333332  


Q ss_pred             hhhhhhhcccccccccCCCCEEEEEccccccc--HHH---HHhhCCcceEEECCCCcccHHHHHHHHh
Q 041524          143 LKREWKKNVATGRSQSKHPPKIVVLGCMAERL--KDK---ILDADKMVDVVCGPDAYRDLPRLLEEVD  205 (524)
Q Consensus       143 ~~~~~~~~~~~~~~~~~p~~~IvvgG~~at~~--~e~---~l~~~~~vD~Vv~gege~~l~~Ll~~~~  205 (524)
                       +           .+...+++|++||..++..  +.+   -++. -++|.|+++.  ....++++.+.
T Consensus        79 -~-----------~~~~~~i~iivGG~~~~~~~~~~~~~~~l~~-~Gv~~if~~~--t~~~~~~~~l~  131 (137)
T d1ccwa_          79 -D-----------EAGLEGILLYVGGNIVVGKQHWPDVEKRFKD-MGYDRVYAPG--TPPEVGIADLK  131 (137)
T ss_dssp             -H-----------HTTCTTCEEEEEESCSSSSCCHHHHHHHHHH-TTCSEECCTT--CCHHHHHHHHH
T ss_pred             -H-----------HhccCCCEEEEeCCcCCCccccHHHHHHHHH-cCCCEEECCC--CCHHHHHHHHH
Confidence             1           1223578999999876532  221   1222 3589988663  55666666543

>d3bula2 c.23.6.1 (A:741-896) Methionine synthase, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methionine synthase, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.50  E-value=0.26  Score=41.92  Aligned_cols=96  Identities=14%  Similarity=0.131  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHCCCeeccCC----C----------CCCcEEEEeeccCcchHHHHHHHHHHHHHHhhhhhhhccccccccc
Q 041524           93 MEIVLSIMKNAGYSEVINV----P----------ENAEVIFINTCAIRDYAEHKVWQRLNYFWFLKREWKKNVATGRSQS  158 (524)
Q Consensus        93 ~e~i~~~L~~~Gy~~~~~~----~----------~~aDvv~intc~v~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  158 (524)
                      ..+++..|+..||+++ .-    +          .+||+|++++.. +. ....+.+.++.+   +            +.
T Consensus        23 ~~iv~~~l~~~G~~Vi-~LG~~~p~e~~~~~~~~~~~d~i~lS~l~-~~-~~~~~~~~~~~l---~------------~~   84 (156)
T d3bula2          23 KNIVGVVLQCNNYEIV-DLGVMVPAEKILRTAKEVNADLIGLSGLI-TP-SLDEMVNVAKEM---E------------RQ   84 (156)
T ss_dssp             HHHHHHHHHTTTCEEE-ECCSSBCHHHHHHHHHHHTCSEEEEECCS-TH-HHHHHHHHHHHH---H------------HT
T ss_pred             HHHHHHHHHHCCCEEE-ECCCCCCHHHHHHHHHhhCCCEEEEeccc-cc-chHHHHHHHHHH---H------------hc
Confidence            7889999999999863 21    1          489999996543 33 222233333333   1            12


Q ss_pred             CCCCEEEEEccccccc-HH-HHHhhCCcceEEECCCCcccHHHHHHHHhcCC
Q 041524          159 KHPPKIVVLGCMAERL-KD-KILDADKMVDVVCGPDAYRDLPRLLEEVDYGQ  208 (524)
Q Consensus       159 ~p~~~IvvgG~~at~~-~e-~~l~~~~~vD~Vv~gege~~l~~Ll~~~~~g~  208 (524)
                      .++.+|++||--.+.. .+ .....+...|+ .+.++ ...++++..+.+..
T Consensus        85 g~~~~vivGG~~~~~~~~~~~~~~~y~gad~-ya~DA-~~av~~a~~Ll~~~  134 (156)
T d3bula2          85 GFTIPLLIGGATTSKAHTAVKIEQNYSGPTV-YVQNA-SRTVGVVAALLSDT  134 (156)
T ss_dssp             TCCSCEEEESTTCCHHHHHHHTGGGCSSCEE-ECCSH-HHHHHHHHHHTCTT
T ss_pred             cccceEEEecccccchHHHhhhcccccccee-eccCH-HHHHHHHHHHhCcc
Confidence            3566788888655432 22 22333445664 33333 33566666665443

>d1xrsb1 c.23.6.1 (B:102-261) D-lysine 5,6-aminomutase beta subunit KamE, C-terminal domain {Clostridium sticklandii [TaxId: 1511]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: D-lysine 5,6-aminomutase beta subunit KamE, C-terminal domain
species: Clostridium sticklandii [TaxId: 1511]

Probab=90.46  E-value=0.49  Score=40.35  Aligned_cols=104  Identities=12%  Similarity=0.162  Sum_probs=58.7

Q ss_pred             cEEEEecC-CCCCHHHHHHHHHHHHHCC---------CeeccCC--------------CCCCcEEEEeeccCcchHH-HH
Q 041524           78 RIYQETYG-CQMNVNDMEIVLSIMKNAG---------YSEVINV--------------PENAEVIFINTCAIRDYAE-HK  132 (524)
Q Consensus        78 ~~~~~t~G-C~~N~~d~e~i~~~L~~~G---------y~~~~~~--------------~~~aDvv~intc~v~~~a~-~~  132 (524)
                      +|.+.+.| +-+..- ..+++..|+.+|         |++ ++-              .++||+|++++...+..+. ..
T Consensus        21 ~vv~~~~g~D~HdiG-~~iv~~~l~~~G~~~~~~~~~~eV-i~LG~~vp~e~~v~~a~e~~~d~VglS~l~t~~~~h~~~   98 (160)
T d1xrsb1          21 VVVGASTGTDAHTVG-IDAIMNMKGYAGHYGLERYEMIDA-YNLGSQVANEDFIKKAVELEADVLLVSQTVTQKNVHIQN   98 (160)
T ss_dssp             EEEEEEBTTCCCCHH-HHHHHSTTCBTTBCCGGGCTTEEE-EECCSSBCHHHHHHHHHHTTCSEEEEECCCCTTSHHHHH
T ss_pred             EEEEEEeCCcHHHHH-HHHHHHHHHHcCCcccccccceEE-EeCCCCCCHHHHHHHHHhcCCCEEEEeecccccchhHHH
Confidence            45555555 444443 678888999999         775 321              1599999997654333222 22


Q ss_pred             HHHHHHHHHHhhhhhhhccccccccc-CCCCEEEEEcccccccHHHHHhhCCcceEEECCCCcccHHHHHHH
Q 041524          133 VWQRLNYFWFLKREWKKNVATGRSQS-KHPPKIVVLGCMAERLKDKILDADKMVDVVCGPDAYRDLPRLLEE  203 (524)
Q Consensus       133 ~~~~l~~~~~~~~~~~~~~~~~~~~~-~p~~~IvvgG~~at~~~e~~l~~~~~vD~Vv~gege~~l~~Ll~~  203 (524)
                      +...++.+   ++           +. ...++|++||.-.  . +++.++ -++|.++++..  ...++++.
T Consensus        99 ~~~~i~~l---~~-----------~g~~d~v~vivGG~~~--~-~~~a~~-~GaD~~f~~g~--~a~~~a~~  150 (160)
T d1xrsb1          99 MTHLIELL---EA-----------EGLRDRFVLLCGGPRI--N-NEIAKE-LGYDAGFGPGR--FADDVATF  150 (160)
T ss_dssp             HHHHHHHH---HH-----------TTCGGGSEEEEECTTC--C-HHHHHT-TTCSEEECTTC--CHHHHHHH
T ss_pred             HHHHHHHH---HH-----------cCCCCceEEEEcCCCC--C-HHHHHH-cCCCEEcCCCC--CHHHHHHH
Confidence            33333333   11           11 1347899999543  3 344453 47999887642  33444443