Citrus Sinensis ID: 046005

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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-------17
Protein Sequence
DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKSSR
Secondary Structure (PSIPRED)
cHHHHHHcccccEEEEEEEEcccccccHHHHHHHHHHccccEEEcccEEEccccccccccccccccHHHHHHHHHHHHHHcccccEEEEcccccEEEEEEEcccccccccEEEEEcHHHHHHHHHcccccccccccccccccccccccccccccccccEEEcccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHccccEEEEEEEEccccHHHHHHHHHHHHHccccEEEEEEEEEEcccccccccHHccccHHHHHHHHHHHHHHcccccEEEEccccccEEEEEEccEEEEcccEEEEEcHHHHHHHHHccccccHHHHHccccccEEEccccccccccccEEEEcccccccc
Coil and Loop (DISEMBL)
DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFsignpdfveikgvtycgssatskltmenvpwhaDVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHdlvasgrpfsskdymaasphwavygaeeggfdpdqsryrkerhhkssr
Flexible Loop (DISEMBL)
dslkalrdkqqrtvyrltlvkgwnteDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEeggfdpdqsryrkerhhkssr
Low Complexity Region (SEG)
DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKSSR
Disordered region (IsUnstruct)
************TVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGA**********************
Disordered Region (DISOPRED)
DSLKA*RDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQ*************
Disordered Region (DISEMBL)
DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQ*************
Disordered Region (DISPRO)
*SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKER******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKSSR
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	169	2.2.26 [Sep-21-2011]
Q8RXN5	647	tRNA wybutosine-synthesiz	yes	no	0.976	0.255	0.818	2e-81
Q8H8N3	653	tRNA wybutosine-synthesiz	yes	no	0.994	0.257	0.767	4e-78
Q9NV66	732	tRNA wybutosine-synthesiz	yes	no	0.976	0.225	0.537	3e-51
Q08C92	730	tRNA wybutosine-synthesiz	yes	no	0.970	0.224	0.540	6e-51
Q8BJM7	721	tRNA wybutosine-synthesiz	yes	no	0.970	0.227	0.546	7e-51
Q5REF9	732	tRNA wybutosine-synthesiz	yes	no	0.976	0.225	0.531	1e-50
Q2KHP8	735	tRNA wybutosine-synthesiz	N/A	no	0.970	0.223	0.529	2e-49
Q6NUM6	668	tRNA wybutosine-synthesiz	no	no	0.976	0.247	0.520	5e-49
O59761	688	tRNA wybutosine-synthesiz	yes	no	0.970	0.238	0.454	1e-38
Q08960	810	tRNA wybutosine-synthesiz	yes	no	0.946	0.197	0.447	2e-34

>sp|Q8RXN5|TYW1_ARATH tRNA wybutosine-synthesizing protein 1 homolog OS=Arabidopsis thaliana GN=TYW1 PE=2 SV=1

 Score =  300 bits (769), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 135/165 (81%), Positives = 152/165 (92%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKAL++KQQRTVYRLTLVKGWNTE+++AY  LFSIG PDF+EIKGVTYCGSSATSKLT
Sbjct: 474 DSLKALQEKQQRTVYRLTLVKGWNTEELDAYFNLFSIGKPDFIEIKGVTYCGSSATSKLT 533

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWH DVKAFSEAL+L+S GEYEVACEH HSCCVLL +TE+FKV+G+WFTWIDYEKF
Sbjct: 534 MENVPWHTDVKAFSEALSLKSNGEYEVACEHAHSCCVLLGRTEKFKVDGKWFTWIDYEKF 593

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHH 165
           HDLVASG PF+S DYMA +P WAVYGA+EGGFDP Q RY+KER+H
Sbjct: 594 HDLVASGEPFTSTDYMAQTPSWAVYGAQEGGFDPGQLRYKKERNH 638

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8H8N3|TYW1_ORYSJ tRNA wybutosine-synthesizing protein 1 homolog OS=Oryza sativa subsp. japonica GN=TYW1 PE=2 SV=1

 Score =  289 bits (740), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 129/168 (76%), Positives = 150/168 (89%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLK+L DK QRTVYRLTLVKGWN E+I+ Y+KL S+G PDF+EIKGVTYCGSSATSKLT
Sbjct: 482 DSLKSLHDKDQRTVYRLTLVKGWNAEEIDGYAKLLSLGQPDFIEIKGVTYCGSSATSKLT 541

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWH+DVK FSEALAL+S G YEVACEH HSCCVLLAK ++FK+NG+W TWIDY++F
Sbjct: 542 MENVPWHSDVKDFSEALALKSGGVYEVACEHAHSCCVLLAKVDKFKINGKWHTWIDYDRF 601

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKSS 168
           H+LV SG+PF S+DYMA +P WAVYGAEEGGFDPDQSRY+KER H ++
Sbjct: 602 HELVTSGKPFRSQDYMALTPSWAVYGAEEGGFDPDQSRYKKERRHGAA 649

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9NV66|TYW1_HUMAN tRNA wybutosine-synthesizing protein 1 homolog OS=Homo sapiens GN=TYW1 PE=2 SV=2

 Score =  200 bits (509), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 93/173 (53%), Positives = 127/173 (73%), Gaps = 8/173 (4%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKAL  KQQRTVYRLTLVK WN ++++AY++L S+GNPDF+E+KGVTYCG S+ S LT
Sbjct: 558 DSLKALAVKQQRTVYRLTLVKAWNVDELQAYAQLVSLGNPDFIEVKGVTYCGESSASSLT 617

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           M +VPWH +V  F   L +    EYE+ACEH HS C+L+A   +FK+ G+W+TWIDY +F
Sbjct: 618 MAHVPWHEEVVQFVHEL-VDLIPEYEIACEHEHSNCLLIAH-RKFKIGGEWWTWIDYNRF 675

Query: 121 HDLV------ASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKS 167
            +L+         + FS+KDYMA +PHWA++GA E GFDP  +R++++   K+
Sbjct: 676 QELIQEYEDSGGSKTFSAKDYMARTPHWALFGASERGFDPKDTRHQRKNKSKA 728

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA.

Homo sapiens (taxid: 9606)

>sp|Q08C92|TYW1_DANRE tRNA wybutosine-synthesizing protein 1 homolog OS=Danio rerio GN=tyw1 PE=2 SV=1

 Score =  199 bits (507), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 93/172 (54%), Positives = 126/172 (73%), Gaps = 8/172 (4%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSL+AL +KQQRTVYRLTLVK WN ++++AY+ L ++G PDF+E+KGVTYCG S+ S LT
Sbjct: 556 DSLRALGEKQQRTVYRLTLVKAWNVDELKAYADLIALGQPDFIEVKGVTYCGESSASSLT 615

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           M NVPWH +V  F + LA     +YE+ACEH HS C+LLA   +FKV+G+W+TWIDYE+F
Sbjct: 616 MANVPWHEEVIYFVQQLA-NLLPDYEIACEHEHSNCLLLA-NHKFKVDGEWWTWIDYERF 673

Query: 121 HDLV------ASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
            +L+         + FS+ DYMA +P WAV+GA E GFDP  +R++++   K
Sbjct: 674 QELIQQYEESGGTKNFSAMDYMAKTPSWAVFGAGERGFDPTDTRFQRKNKTK 725

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA.

Danio rerio (taxid: 7955)

>sp|Q8BJM7|TYW1_MOUSE tRNA wybutosine-synthesizing protein 1 homolog OS=Mus musculus GN=Tyw1 PE=1 SV=1

 Score =  199 bits (506), Expect = 7e-51,   Method: Compositional matrix adjust.
 Identities = 94/172 (54%), Positives = 126/172 (73%), Gaps = 8/172 (4%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKAL  KQQRTVYRLTLVK WN ++++AY++L S+GNPDF+E+KGVTYCG SA S LT
Sbjct: 547 DSLKALSAKQQRTVYRLTLVKCWNVDELQAYAELVSLGNPDFIEVKGVTYCGESAASSLT 606

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           M NVPWH +V  F   L +    +YEVACEH HS C+L+   ++FK++G+W+TWI+Y +F
Sbjct: 607 MANVPWHEEVVRFVREL-VDLLPDYEVACEHEHSNCLLIGH-KKFKIDGEWWTWINYSRF 664

Query: 121 HDLV------ASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
            +LV         + FSS+DYMA +P WA++GA E GFDP  +RY+++   K
Sbjct: 665 QELVLQYEESGGSKTFSSRDYMARTPQWALFGARERGFDPKDTRYQRKNKTK 716

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA.

Mus musculus (taxid: 10090)

>sp|Q5REF9|TYW1_PONAB tRNA wybutosine-synthesizing protein 1 homolog OS=Pongo abelii GN=TYW1 PE=2 SV=1

 Score =  198 bits (504), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 92/173 (53%), Positives = 129/173 (74%), Gaps = 8/173 (4%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKAL  KQQRTVYRLTLVK WN ++++AY++L S+GNPDF+E+KGVTYCG S+ S LT
Sbjct: 558 DSLKALAVKQQRTVYRLTLVKAWNVDELQAYAQLVSLGNPDFIEVKGVTYCGESSASSLT 617

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           M +VPWH +V  F   L +    +YE+ACEH HS C+L+A  ++FK+ G+W+TWIDY +F
Sbjct: 618 MAHVPWHEEVVQFVCEL-VDLIPDYEIACEHEHSNCLLIAH-KKFKIGGEWWTWIDYNRF 675

Query: 121 HDLV------ASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKS 167
            +L+      +  + FS+KDYMA +PHWA++GA E GFDP  +R++++   K+
Sbjct: 676 QELIQEYEDSSGSKTFSAKDYMARTPHWALFGANERGFDPKDTRHQRKNKSKA 728

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA.

Pongo abelii (taxid: 9601)

>sp|Q2KHP8|TYW1_XENLA tRNA wybutosine-synthesizing protein 1 homolog OS=Xenopus laevis GN=tyw1 PE=2 SV=1

 Score =  194 bits (493), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 91/172 (52%), Positives = 126/172 (73%), Gaps = 8/172 (4%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKAL +KQQRTVYRLTLVK WN ++++AY+ L ++G PDF+E+KGVTYCG S+ S LT
Sbjct: 561 DSLKALAEKQQRTVYRLTLVKAWNVDELKAYADLVALGLPDFIEVKGVTYCGESSASNLT 620

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           M NVPWH +V  F E L +    +YEVACEH HS C+L+A  ++FK+NG+W TWIDYE+F
Sbjct: 621 MANVPWHEEVIRFVEEL-VDLLPDYEVACEHEHSNCMLIAH-KKFKINGEWCTWIDYERF 678

Query: 121 HDLVAS------GRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
            +L+ +       R F++ DY+A +P WA++G+ E GFDP   R++++   K
Sbjct: 679 QELIQAFGESKGSRTFTALDYVAKTPEWALFGSRERGFDPLDKRFQRKNKTK 730

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA.

Xenopus laevis (taxid: 8355)

>sp|Q6NUM6|TYW1B_HUMAN tRNA wybutosine-synthesizing protein 1 homolog B OS=Homo sapiens GN=TYW1B PE=2 SV=2

 Score =  193 bits (490), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 90/173 (52%), Positives = 124/173 (71%), Gaps = 8/173 (4%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKAL  KQQRTVYRL LVK WN ++++AY++L S+GNPDF+E+KGVTYC  S+ S LT
Sbjct: 494 DSLKALAVKQQRTVYRLMLVKAWNVDELQAYAQLVSLGNPDFIEVKGVTYCRESSASSLT 553

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           M +VPWH +V  F   L +    EYE+ACEH HS C+L+A   +FK+ G+W+TWIDY +F
Sbjct: 554 MAHVPWHEEVVQFVREL-VDLIPEYEIACEHEHSNCLLIAH-RKFKIGGEWWTWIDYNRF 611

Query: 121 HDLV------ASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKS 167
            +L+         + FS+KDYMA +PHWA++GA E  FDP  +R++++   K+
Sbjct: 612 QELIQEYEDSGGSKTFSAKDYMARTPHWALFGANERSFDPKDTRHQRKNKSKA 664

Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA.

Homo sapiens (taxid: 9606)

>sp|O59761|TYW1_SCHPO tRNA wybutosine-synthesizing protein 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=tyw1 PE=3 SV=1

 Score =  158 bits (400), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 79/174 (45%), Positives = 120/174 (68%), Gaps = 10/174 (5%)

Query: 3   LKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTME 62
           L+ LR+K+QRTVYR+TLVKG+N E I+ Y++L  +G P F+E+KGVTY G+S  S LTM+
Sbjct: 501 LEILREKRQRTVYRMTLVKGFNMEQIKEYTELIRLGVPCFIEVKGVTYSGNSDQSPLTMK 560

Query: 63  NVPWHADVKAFSEALA------LRSEG-EYEVACEHVHSCCVLLAKTERFKVNGQWFTWI 115
           NVP++ +V  F + L       L+  G  YE+A EH HSC +L+A+T  FK +G W T I
Sbjct: 561 NVPYYEEVIDFVKKLIEYIDIHLQDLGVRYEIAAEHAHSCSILVAQTA-FKKDGHWHTHI 619

Query: 116 DYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKSSR 169
           DY KF +L+ + + F   DYMA++P +A++G   GGF P+ +R+ +++  ++S+
Sbjct: 620 DYPKFFELIRTKKDFGPFDYMASTPDFAMFG--NGGFSPEDTRFHRKKKTQTSK 671

Component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Probably catalyzes tricyclic formation of wybutosine from tRNA(Phe) methylated on guanosine-37.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q08960|TYW1_YEAST tRNA wybutosine-synthesizing protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TYW1 PE=1 SV=1

 Score =  144 bits (364), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 77/172 (44%), Positives = 115/172 (66%), Gaps = 12/172 (6%)

Query: 3   LKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSS--ATSKLT 60
           LK +++  QRTV+RLTLVKG+N  D+ AY+ L   G P F+E+KG T+ GSS    + LT
Sbjct: 626 LKTVQN-HQRTVFRLTLVKGFNMGDVSAYADLVQRGLPGFIEVKGATFSGSSDGNGNPLT 684

Query: 61  MENVPWHAD----VKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWID 116
           M+N+P++ +    VKAF+  L  R    Y++A EH HS C+L+A T +FK+NG+W T ID
Sbjct: 685 MQNIPFYEECVKFVKAFTTELQRRGL-HYDLAAEHAHSNCLLIADT-KFKINGEWHTHID 742

Query: 117 YEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSR-YRKERHHKS 167
           ++KF  L+ SG+ F+  DY+  +P WA++G   GGF P  +R YRK++  ++
Sbjct: 743 FDKFFVLLNSGKDFTYMDYLEKTPEWALFG--NGGFAPGNTRVYRKDKKKQN 792

Component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Probably catalyzes tricyclic formation of wybutosine from tRNA(Phe) methylated on guanosine-37.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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	169
255538634	630	cytochrome P450, putative [Ricinus commu	0.994	0.266	0.892	1e-87
147771522	1762	hypothetical protein VITISV_038533 [Viti	0.982	0.094	0.903	2e-87
225458291	654	PREDICTED: tRNA wybutosine-synthesizing	0.982	0.253	0.903	7e-87
302142489	499	unnamed protein product [Vitis vinifera]	0.982	0.332	0.903	8e-87
352091100	640	flavodoxin family protein [Dimocarpus lo	0.988	0.260	0.886	3e-86
224065581	592	predicted protein [Populus trichocarpa]	0.982	0.280	0.867	1e-85
449469983	640	PREDICTED: tRNA wybutosine-synthesizing	0.982	0.259	0.861	2e-84
449532757	326	PREDICTED: tRNA wybutosine-synthesizing	0.982	0.509	0.861	5e-84
356564272	646	PREDICTED: tRNA wybutosine-synthesizing	1.0	0.261	0.828	6e-83
356552107	630	PREDICTED: tRNA wybutosine-synthesizing	1.0	0.268	0.834	6e-83

>gi|255538634|ref|XP_002510382.1| cytochrome P450, putative [Ricinus communis] gi|223551083|gb|EEF52569.1| cytochrome P450, putative [Ricinus communis]

 Score =  327 bits (838), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 150/168 (89%), Positives = 162/168 (96%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKALR+KQQRTVYRLTLVKGWNTED++AY  LFSIG PDF+EIKGVTYCGSSATSKLT
Sbjct: 462 DSLKALREKQQRTVYRLTLVKGWNTEDVDAYFNLFSIGQPDFIEIKGVTYCGSSATSKLT 521

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWH+DVKAFSEALAL+S+GEYEVACEHVHSCCVLLAKTE+FKVNGQWFTWIDYEKF
Sbjct: 522 MENVPWHSDVKAFSEALALKSKGEYEVACEHVHSCCVLLAKTEKFKVNGQWFTWIDYEKF 581

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKSS 168
           H+LVASG+PF+SKDYMA +P WAVYGA EGGFDPDQSRYRKERHHKSS
Sbjct: 582 HNLVASGKPFNSKDYMAPTPSWAVYGATEGGFDPDQSRYRKERHHKSS 629

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147771522|emb|CAN75692.1| hypothetical protein VITISV_038533 [Vitis vinifera]

 Score =  326 bits (835), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 150/166 (90%), Positives = 160/166 (96%)

Query: 1    DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
            DSLKALR+KQQRTVYRLTLVKGWNTE+I+AY  LFSIG PDFVEIKGVTYCGSSATSKLT
Sbjct: 1592 DSLKALREKQQRTVYRLTLVKGWNTEEIDAYFNLFSIGKPDFVEIKGVTYCGSSATSKLT 1651

Query: 61   MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
            MENVPWHADVKAFSEALAL+S+GEYEVACEHVHSCCVLLAKT++FKVN QWFTWIDYEKF
Sbjct: 1652 MENVPWHADVKAFSEALALKSKGEYEVACEHVHSCCVLLAKTDKFKVNNQWFTWIDYEKF 1711

Query: 121  HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
            HDLVASGRPF+SKDYMAA+P WAVYGAEEGGFDP QSRYRKERHH+
Sbjct: 1712 HDLVASGRPFNSKDYMAATPSWAVYGAEEGGFDPGQSRYRKERHHR 1757

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225458291|ref|XP_002281468.1| PREDICTED: tRNA wybutosine-synthesizing protein 1 homolog [Vitis vinifera]

 Score =  324 bits (831), Expect = 7e-87,   Method: Compositional matrix adjust.
 Identities = 150/166 (90%), Positives = 160/166 (96%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKALR+KQQRTVYRLTLVKGWNTE+I+AY  LFSIG PDFVEIKGVTYCGSSATSKLT
Sbjct: 484 DSLKALREKQQRTVYRLTLVKGWNTEEIDAYFNLFSIGKPDFVEIKGVTYCGSSATSKLT 543

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWHADVKAFSEALAL+S+GEYEVACEHVHSCCVLLAKT++FKVN QWFTWIDYEKF
Sbjct: 544 MENVPWHADVKAFSEALALKSKGEYEVACEHVHSCCVLLAKTDKFKVNNQWFTWIDYEKF 603

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
           HDLVASGRPF+SKDYMAA+P WAVYGAEEGGFDP QSRYRKERHH+
Sbjct: 604 HDLVASGRPFNSKDYMAATPSWAVYGAEEGGFDPGQSRYRKERHHR 649

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302142489|emb|CBI19692.3| unnamed protein product [Vitis vinifera]

 Score =  324 bits (831), Expect = 8e-87,   Method: Compositional matrix adjust.
 Identities = 150/166 (90%), Positives = 160/166 (96%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKALR+KQQRTVYRLTLVKGWNTE+I+AY  LFSIG PDFVEIKGVTYCGSSATSKLT
Sbjct: 329 DSLKALREKQQRTVYRLTLVKGWNTEEIDAYFNLFSIGKPDFVEIKGVTYCGSSATSKLT 388

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWHADVKAFSEALAL+S+GEYEVACEHVHSCCVLLAKT++FKVN QWFTWIDYEKF
Sbjct: 389 MENVPWHADVKAFSEALALKSKGEYEVACEHVHSCCVLLAKTDKFKVNNQWFTWIDYEKF 448

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
           HDLVASGRPF+SKDYMAA+P WAVYGAEEGGFDP QSRYRKERHH+
Sbjct: 449 HDLVASGRPFNSKDYMAATPSWAVYGAEEGGFDPGQSRYRKERHHR 494

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|352091100|gb|AEQ61825.1| flavodoxin family protein [Dimocarpus longan]

 Score =  322 bits (826), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 148/167 (88%), Positives = 161/167 (96%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSL AL++KQQRTVYRLTLVKGWNTEDI+AY KLFSIG+PDFVEIKGVTYCGSSATSKLT
Sbjct: 472 DSLTALQEKQQRTVYRLTLVKGWNTEDIDAYFKLFSIGSPDFVEIKGVTYCGSSATSKLT 531

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWH+DV+AFSEALAL+S+GEYEVACEH HSCCVLLAKT++FKV+GQWFTWIDY KF
Sbjct: 532 MENVPWHSDVRAFSEALALKSKGEYEVACEHAHSCCVLLAKTDKFKVDGQWFTWIDYNKF 591

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKS 167
           HDLVASG+PFSS DYMAA+P WAVYGAEEGGFDPDQSRYRKERHHKS
Sbjct: 592 HDLVASGKPFSSNDYMAATPSWAVYGAEEGGFDPDQSRYRKERHHKS 638

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065581|ref|XP_002301868.1| predicted protein [Populus trichocarpa] gi|222843594|gb|EEE81141.1| predicted protein [Populus trichocarpa]

 Score =  320 bits (820), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 144/166 (86%), Positives = 161/166 (96%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLK+L++KQQRTVYRLTLVKGWNTED++AY  LFS+G PDF+EIKGVTYCGSSATSKLT
Sbjct: 427 DSLKSLKEKQQRTVYRLTLVKGWNTEDLDAYFNLFSVGQPDFIEIKGVTYCGSSATSKLT 486

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWH+DVKAFSEA+AL+S+GEYEVACEHVHSCCVLLAKTE+FKV+GQWFTWIDY+KF
Sbjct: 487 MENVPWHSDVKAFSEAMALKSKGEYEVACEHVHSCCVLLAKTEKFKVDGQWFTWIDYDKF 546

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
           HDLVASG+PF SKDYMAA+P WAVYGA+EGGFDPDQSRYRKERHHK
Sbjct: 547 HDLVASGKPFDSKDYMAATPSWAVYGADEGGFDPDQSRYRKERHHK 592

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449469983|ref|XP_004152698.1| PREDICTED: tRNA wybutosine-synthesizing protein 1 homolog [Cucumis sativus]

 Score =  317 bits (811), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 143/166 (86%), Positives = 158/166 (95%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKAL +KQQRTVYRLTLVKGWNTEDI+AYS LFSIG PDFVEIKGVTYCGSS TSKLT
Sbjct: 470 DSLKALNEKQQRTVYRLTLVKGWNTEDIDAYSNLFSIGRPDFVEIKGVTYCGSSTTSKLT 529

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWH+DVK+FSEALA +S+GEYEVACEHVHSCCVLLAKT++F+V+GQWFTWIDY+KF
Sbjct: 530 MENVPWHSDVKSFSEALAAKSQGEYEVACEHVHSCCVLLAKTDKFRVDGQWFTWIDYDKF 589

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
           HDLVASG+PF SKDYMA +P WAVYG++EGGFDPDQSRYRKERHHK
Sbjct: 590 HDLVASGKPFDSKDYMAPTPSWAVYGSDEGGFDPDQSRYRKERHHK 635

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449532757|ref|XP_004173347.1| PREDICTED: tRNA wybutosine-synthesizing protein 1 homolog, partial [Cucumis sativus]

 Score =  315 bits (806), Expect = 5e-84,   Method: Compositional matrix adjust.
 Identities = 143/166 (86%), Positives = 158/166 (95%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSLKAL +KQQRTVYRLTLVKGWNTEDI+AYS LFSIG PDFVEIKGVTYCGSS TSKLT
Sbjct: 156 DSLKALNEKQQRTVYRLTLVKGWNTEDIDAYSNLFSIGRPDFVEIKGVTYCGSSTTSKLT 215

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           MENVPWH+DVK+FSEALA +S+GEYEVACEHVHSCCVLLAKT++F+V+GQWFTWIDY+KF
Sbjct: 216 MENVPWHSDVKSFSEALAAKSQGEYEVACEHVHSCCVLLAKTDKFRVDGQWFTWIDYDKF 275

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
           HDLVASG+PF SKDYMA +P WAVYG++EGGFDPDQSRYRKERHHK
Sbjct: 276 HDLVASGKPFDSKDYMAPTPSWAVYGSDEGGFDPDQSRYRKERHHK 321

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356564272|ref|XP_003550379.1| PREDICTED: tRNA wybutosine-synthesizing protein 1 homolog [Glycine max]

 Score =  311 bits (797), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 140/169 (82%), Positives = 158/169 (93%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSL AL++K QRTVYRLTLVKGWNTE+++AYSKLFS+G PDFVEIKGVTYCGSS TSKLT
Sbjct: 474 DSLTALKEKHQRTVYRLTLVKGWNTEEVDAYSKLFSLGEPDFVEIKGVTYCGSSTTSKLT 533

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           M+NVPWHADVKAFSEALAL+S+GEYEVACEH HSCCVLLAKT +FK++GQW+TWIDYEKF
Sbjct: 534 MDNVPWHADVKAFSEALALKSQGEYEVACEHAHSCCVLLAKTNKFKIDGQWYTWIDYEKF 593

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKSSR 169
           HDLVASGR F S+DYMAA+P W+VYG+EEGGFDP Q RYRKERHHKS+R
Sbjct: 594 HDLVASGRTFDSRDYMAATPSWSVYGSEEGGFDPGQLRYRKERHHKSTR 642

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552107|ref|XP_003544412.1| PREDICTED: tRNA wybutosine-synthesizing protein 1 homolog isoform 1 [Glycine max]

 Score =  311 bits (797), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 141/169 (83%), Positives = 157/169 (92%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           DSL AL++K QRTVYRLTLVKGWNT DI+AYSKLFS+G PDFVEIKGVTYCGSS TSKLT
Sbjct: 458 DSLTALKEKHQRTVYRLTLVKGWNTADIDAYSKLFSLGEPDFVEIKGVTYCGSSTTSKLT 517

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
           M+NVPWHADVKAFSEALAL+S+GEYEVACEH HSCCVLLAKT +FK++GQW+TWIDYEKF
Sbjct: 518 MDNVPWHADVKAFSEALALKSQGEYEVACEHAHSCCVLLAKTNKFKIDGQWYTWIDYEKF 577

Query: 121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKSSR 169
           HDLVASGR F S+DYMAA+P W+VYG+EEGGFDP Q RYRKERHHKS+R
Sbjct: 578 HDLVASGRSFDSRDYMAATPSWSVYGSEEGGFDPGQLRYRKERHHKSTR 626

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	169
TAIR|locus:2025152	647	AT1G75200 [Arabidopsis thalian	0.976	0.255	0.818	6.3e-76
UNIPROTKB|Q9NV66	732	TYW1 "tRNA wybutosine-synthesi	0.976	0.225	0.549	5.8e-50
UNIPROTKB|F1RJJ2	732	TYW1 "Uncharacterized protein"	0.964	0.222	0.549	2e-49
MGI|MGI:2141161	721	Tyw1 "tRNA-yW synthesizing pro	0.970	0.227	0.558	3.2e-49
UNIPROTKB|F1Q0A0	714	TYW1 "Uncharacterized protein"	0.970	0.229	0.552	6.7e-49
ZFIN|ZDB-GENE-060929-688	754	tyw1 "tRNA-yW synthesizing pro	0.970	0.217	0.552	9.6e-49
UNIPROTKB|Q6NUM6	668	TYW1B "tRNA wybutosine-synthes	0.976	0.247	0.531	7.7e-48
UNIPROTKB|F1NVK4	715	LOC100858466 "Uncharacterized	0.940	0.222	0.550	2.6e-47
UNIPROTKB|E1BL71	729	TYW1 "Uncharacterized protein"	0.946	0.219	0.465	4e-39
CGD|CAL0005055	793	orf19.3470 [Candida albicans (	0.940	0.200	0.467	1.1e-36

TAIR|locus:2025152 AT1G75200 [Arabidopsis thaliana (taxid:3702)]

 Score = 765 (274.4 bits), Expect = 6.3e-76, P = 6.3e-76
 Identities = 135/165 (81%), Positives = 152/165 (92%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             DSLKAL++KQQRTVYRLTLVKGWNTE+++AY  LFSIG PDF+EIKGVTYCGSSATSKLT
Sbjct:   474 DSLKALQEKQQRTVYRLTLVKGWNTEELDAYFNLFSIGKPDFIEIKGVTYCGSSATSKLT 533

Query:    61 MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
             MENVPWH DVKAFSEAL+L+S GEYEVACEH HSCCVLL +TE+FKV+G+WFTWIDYEKF
Sbjct:   534 MENVPWHTDVKAFSEALSLKSNGEYEVACEHAHSCCVLLGRTEKFKVDGKWFTWIDYEKF 593

Query:   121 HDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHH 165
             HDLVASG PF+S DYMA +P WAVYGA+EGGFDP Q RY+KER+H
Sbjct:   594 HDLVASGEPFTSTDYMAQTPSWAVYGAQEGGFDPGQLRYKKERNH 638

GO:0003824 "catalytic activity" evidence=IEA

GO:0005506 "iron ion binding" evidence=IEA

GO:0010181 "FMN binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA;ISS

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

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

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|Q9NV66 TYW1 "tRNA wybutosine-synthesizing protein 1 homolog" [Homo sapiens (taxid:9606)]

 Score = 520 (188.1 bits), Expect = 5.8e-50, P = 5.8e-50
 Identities = 95/173 (54%), Positives = 129/173 (74%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             DSLKAL  KQQRTVYRLTLVK WN ++++AY++L S+GNPDF+E+KGVTYCG S+ S LT
Sbjct:   558 DSLKALAVKQQRTVYRLTLVKAWNVDELQAYAQLVSLGNPDFIEVKGVTYCGESSASSLT 617

Query:    61 MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
             M +VPWH +V  F   L +    EYE+ACEH HS C+L+A   +FK+ G+W+TWIDY +F
Sbjct:   618 MAHVPWHEEVVQFVHEL-VDLIPEYEIACEHEHSNCLLIAH-RKFKIGGEWWTWIDYNRF 675

Query:   121 HDLVA----SG--RPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKS 167
              +L+     SG  + FS+KDYMA +PHWA++GA E GFDP  +R++++   K+
Sbjct:   676 QELIQEYEDSGGSKTFSAKDYMARTPHWALFGASERGFDPKDTRHQRKNKSKA 728

GO:0005506 "iron ion binding" evidence=IEA

GO:0010181 "FMN binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

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

UNIPROTKB|F1RJJ2 TYW1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 515 (186.3 bits), Expect = 2.0e-49, P = 2.0e-49
 Identities = 95/173 (54%), Positives = 130/173 (75%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             DSLKAL +KQQRTVYRLTLVK WN ++++AY++L S+G+PDF+E+KGVTYCG S+ S LT
Sbjct:   558 DSLKALAEKQQRTVYRLTLVKAWNVDELQAYAQLVSLGSPDFIEVKGVTYCGESSASSLT 617

Query:    61 MENVPWHADVKAF-SEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEK 119
             M NVPWH +V  F SE + L  +  YE+ACEH HS C+L+A  ++FK+  +W+TWIDY +
Sbjct:   618 MANVPWHEEVVRFVSELVGLIPD--YEIACEHEHSNCLLIAH-KKFKIGREWWTWIDYNR 674

Query:   120 FHDLVA----SG--RPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
             F +L+     SG  + FS+KDYMA +P WA++GA E GFDP  +RY+++   K
Sbjct:   675 FQELIQEYEDSGGSKTFSAKDYMARTPQWALFGASERGFDPKDTRYQRKNKAK 727

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

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0010181 "FMN binding" evidence=IEA

GO:0005506 "iron ion binding" evidence=IEA

MGI|MGI:2141161 Tyw1 "tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 513 (185.6 bits), Expect = 3.2e-49, P = 3.2e-49
 Identities = 96/172 (55%), Positives = 128/172 (74%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             DSLKAL  KQQRTVYRLTLVK WN ++++AY++L S+GNPDF+E+KGVTYCG SA S LT
Sbjct:   547 DSLKALSAKQQRTVYRLTLVKCWNVDELQAYAELVSLGNPDFIEVKGVTYCGESAASSLT 606

Query:    61 MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
             M NVPWH +V  F   L +    +YEVACEH HS C+L+   ++FK++G+W+TWI+Y +F
Sbjct:   607 MANVPWHEEVVRFVREL-VDLLPDYEVACEHEHSNCLLIGH-KKFKIDGEWWTWINYSRF 664

Query:   121 HDLVA----SG--RPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
              +LV     SG  + FSS+DYMA +P WA++GA E GFDP  +RY+++   K
Sbjct:   665 QELVLQYEESGGSKTFSSRDYMARTPQWALFGARERGFDPKDTRYQRKNKTK 716

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0005506 "iron ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0008033 "tRNA processing" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0010181 "FMN binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA

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

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

UNIPROTKB|F1Q0A0 TYW1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 95/172 (55%), Positives = 127/172 (73%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             +SLKAL  KQQRTVYRLTLVK WN ++++AY++L S+GNPDF+E+KGVTYCG S+ S LT
Sbjct:   540 NSLKALAAKQQRTVYRLTLVKAWNVDELQAYAELVSLGNPDFIEVKGVTYCGESSASSLT 599

Query:    61 MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
             M NVPWH +V  F   L +    +YE+ACEH HS C+L+A  +RFK+  +W+TWIDY +F
Sbjct:   600 MANVPWHEEVIHFVREL-VDLIPDYEIACEHEHSNCLLIAH-KRFKIGREWWTWIDYNRF 657

Query:   121 HDLVA----SG--RPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
              +LV     SG    FS++DYMA +PHWA++GA E GFDP  +RY+++   K
Sbjct:   658 QELVQGYEDSGGSATFSAEDYMAKTPHWALFGASERGFDPKDTRYQRKNKSK 709

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

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0010181 "FMN binding" evidence=IEA

GO:0005506 "iron ion binding" evidence=IEA

ZFIN|ZDB-GENE-060929-688 tyw1 "tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 511 (184.9 bits), Expect = 9.6e-49, P = 9.6e-49
 Identities = 95/172 (55%), Positives = 128/172 (74%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             DSL+AL +KQQRTVYRLTLVK WN ++++AY+ L ++G PDF+E+KGVTYCG S+ S LT
Sbjct:   580 DSLRALGEKQQRTVYRLTLVKAWNVDELKAYADLIALGQPDFIEVKGVTYCGESSASSLT 639

Query:    61 MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
             M NVPWH +V  F + LA     +YE+ACEH HS C+LLA   +FKV+G+W+TWIDYE+F
Sbjct:   640 MANVPWHEEVIYFVQQLA-NLLPDYEIACEHEHSNCLLLAN-HKFKVDGEWWTWIDYERF 697

Query:   121 HDLVA----SG--RPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
              +L+     SG  + FS+ DYMA +P WAV+GA E GFDP  +R++++   K
Sbjct:   698 QELIQQYEESGGTKNFSAMDYMAKTPSWAVFGAGERGFDPTDTRFQRKNKTK 749

GO:0016491 "oxidoreductase activity" evidence=IEA

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

GO:0010181 "FMN binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

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

GO:0005506 "iron ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

UNIPROTKB|Q6NUM6 TYW1B "tRNA wybutosine-synthesizing protein 1 homolog B" [Homo sapiens (taxid:9606)]

 Score = 500 (181.1 bits), Expect = 7.7e-48, P = 7.7e-48
 Identities = 92/173 (53%), Positives = 126/173 (72%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             DSLKAL  KQQRTVYRL LVK WN ++++AY++L S+GNPDF+E+KGVTYC  S+ S LT
Sbjct:   494 DSLKALAVKQQRTVYRLMLVKAWNVDELQAYAQLVSLGNPDFIEVKGVTYCRESSASSLT 553

Query:    61 MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
             M +VPWH +V  F   L +    EYE+ACEH HS C+L+A   +FK+ G+W+TWIDY +F
Sbjct:   554 MAHVPWHEEVVQFVREL-VDLIPEYEIACEHEHSNCLLIAH-RKFKIGGEWWTWIDYNRF 611

Query:   121 HDLVA----SG--RPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHKS 167
              +L+     SG  + FS+KDYMA +PHWA++GA E  FDP  +R++++   K+
Sbjct:   612 QELIQEYEDSGGSKTFSAKDYMARTPHWALFGANERSFDPKDTRHQRKNKSKA 664

GO:0005506 "iron ion binding" evidence=IEA

GO:0010181 "FMN binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

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

UNIPROTKB|F1NVK4 LOC100858466 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 496 (179.7 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 92/167 (55%), Positives = 124/167 (74%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             DSLKAL +KQQRTVYRLTLVK WN ++++AY+ L S+G PDF+E+KGVTYCG S+ S LT
Sbjct:   541 DSLKALSEKQQRTVYRLTLVKAWNVDELKAYADLVSLGKPDFIEVKGVTYCGDSSASSLT 600

Query:    61 MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKF 120
             M NVPWH +V  F + LA +   +Y +ACEH HS C+L+A  ++FK+NG W TWIDYE+F
Sbjct:   601 MANVPWHEEVVHFVQELA-QLLPDYGIACEHEHSNCLLIAH-KKFKINGHWCTWIDYERF 658

Query:   121 HDLVA----SG--RPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRK 161
              +LV     SG  + F++ DY A +PHWA++G+ + GFDP   RY++
Sbjct:   659 QELVRAHVDSGGTQTFTATDYTARTPHWALFGSNQLGFDPLDVRYQR 705

GO:0005506 "iron ion binding" evidence=IEA

GO:0010181 "FMN binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA

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

UNIPROTKB|E1BL71 TYW1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 424 (154.3 bits), Expect = 4.0e-39, P = 4.0e-39
 Identities = 81/174 (46%), Positives = 116/174 (66%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             DSLKAL  KQQRTVYRLTLVK WN ++++AY++L S+GNPDF+E+KGVTY   S+ + + 
Sbjct:   557 DSLKALAAKQQRTVYRLTLVKAWNVDELQAYAELVSLGNPDFIEVKGVTYAWDSSGASVN 616

Query:    61 MENVPWHADVKAFSEALALRSEG--EYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYE 118
                +PW  ++        +R+E    YEVA  H  S C   +  ++FK+  +W+TWIDY 
Sbjct:   617 RNQIPWRRELVP-----RVRNENTPSYEVATSHTLSVCCRFS-LKKFKIGREWWTWIDYS 670

Query:   119 KFHDLVA----SG--RPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYRKERHHK 166
             +F +L+     SG  + FS+KDYMA +PHWA++GA E GFDP  +RY+++   K
Sbjct:   671 RFQELIQEYEDSGGSKTFSAKDYMAKTPHWALFGANERGFDPKDTRYQRKNKSK 724

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

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0010181 "FMN binding" evidence=IEA

GO:0005506 "iron ion binding" evidence=IEA

CGD|CAL0005055 orf19.3470 [Candida albicans (taxid:5476)]

 Score = 403 (146.9 bits), Expect = 1.1e-36, P = 1.1e-36
 Identities = 78/167 (46%), Positives = 116/167 (69%)

Query:     1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATS--K 58
             D L+ ++   QRTV+RLTLVKG+N EDIE+Y+ +     P  +EIKG T+CGSS  +   
Sbjct:   593 DILRTIQS-HQRTVFRLTLVKGFNMEDIESYADMVERAKPSQIEIKGATFCGSSNGNGNP 651

Query:    59 LTMENVPWHADVKAFSEAL--ALRSEG-EYEVACEHVHSCCVLLAKTERFKVNGQWFTWI 115
             LTM+N+P++ + K F E L   L+S G +Y++A EH HSCC+L+A  ++F +NG+W T I
Sbjct:   652 LTMQNIPFYEECKNFVENLNKELQSRGLDYDIAAEHAHSCCILVAD-KKFMINGKWHTHI 710

Query:   116 DYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRY-RK 161
             DY KF +L+ SG+ F   DY+  +P WAV+G++  GF+P+ ++Y RK
Sbjct:   711 DYPKFFELLESGKEFVDLDYVKETPEWAVWGSQGAGFNPEDTKYDRK 757

GO:0050142 "nitrogenase (flavodoxin) activity" evidence=ISS

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0031591 "wybutosine biosynthetic process" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8H8N3	TYW1_ORYSJ	No assigned EC number	0.7678	0.9940	0.2572	yes	no
Q8RXN5	TYW1_ARATH	No assigned EC number	0.8181	0.9763	0.2550	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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	169
PRK13762	322	PRK13762, PRK13762, tRNA-modifying enzyme; Provisi	3e-29
TIGR03972	297	TIGR03972, rSAM_TYW1, wyosine biosynthesis protein	2e-25
pfam08608	62	pfam08608, Wyosine_form, Wyosine base formation	4e-25
COG0731	296	COG0731, COG0731, Fe-S oxidoreductases [Energy pro	2e-24

>gnl|CDD|237493 PRK13762, PRK13762, tRNA-modifying enzyme; Provisional

 Score =  108 bits (273), Expect = 3e-29
 Identities = 43/107 (40%), Positives = 66/107 (61%), Gaps = 3/107 (2%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           ++L+ L  K+ RTV R+TLVKG+N  D E ++KL    NPDFVE+K   + G S  ++LT
Sbjct: 212 ETLELLPSKKTRTVIRITLVKGYNMHDPEGFAKLIERANPDFVEVKAYMHVGYS-RNRLT 270

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKV 107
            +N+P H +V+ F++ LA  +   YE+  E   S  VLL++ +R   
Sbjct: 271 RDNMPSHEEVREFAKELAEYT--GYEILDESEPSRVVLLSRDDRPID 315

Length = 322

>gnl|CDD|234423 TIGR03972, rSAM_TYW1, wyosine biosynthesis protein TYW1

 Score = 98.5 bits (246), Expect = 2e-25
 Identities = 43/100 (43%), Positives = 61/100 (61%), Gaps = 3/100 (3%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           +SL+ L  K  RTV R+TLVKG N +D E Y+KL    NPDFVE+K   + G S   +LT
Sbjct: 201 ESLELLPSKSTRTVIRITLVKGLNMDDPEGYAKLIEKANPDFVEVKAYMHVGYS-RYRLT 259

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLA 100
            +N+P H +V+ F++ LA  +   Y++  E   S  VLL+
Sbjct: 260 RDNMPSHEEVREFAKKLAELT--GYKILDESEPSRVVLLS 297

Members of this protein family are the archaeal protein TWY1, a radical SAM protein that catalyzes the second step in creating the wye-bases, wyosine and derivatives such as wybutosine, for tRNA base modification [Protein synthesis, tRNA and rRNA base modification]. Length = 297

>gnl|CDD|203999 pfam08608, Wyosine_form, Wyosine base formation

 Score = 91.1 bits (227), Expect = 4e-25
 Identities = 28/64 (43%), Positives = 36/64 (56%), Gaps = 3/64 (4%)

Query: 38  GNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCV 97
             PDFVE+K   + G S  ++LTM N+P H +V  F +ALA      Y V  E  HS  V
Sbjct: 2   AEPDFVELKAYMHVGYS-RNRLTMGNMPAHEEVLEFCKALA--EHLGYLVTQEREHSRVV 58

Query: 98  LLAK 101
           LLA+
Sbjct: 59  LLAR 62

Some proteins in this family appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs. It has been proposed that they participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW. Length = 62

>gnl|CDD|223803 COG0731, COG0731, Fe-S oxidoreductases [Energy production and conversion]

 Score = 95.8 bits (239), Expect = 2e-24
 Identities = 44/123 (35%), Positives = 62/123 (50%), Gaps = 7/123 (5%)

Query: 1   DSLKALRDK-QQRTVYRLTLVKGWN--TEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATS 57
           + L+  R + + RTV R TLVKG N   E++E Y++L    NPDFVE+K     G+S   
Sbjct: 162 EGLEIFRSEYKGRTVIRTTLVKGINDDEEELEEYAELLERINPDFVELKTYMRPGAS-RY 220

Query: 58  KLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDY 117
           +L   N+P H +V  F++ L    E  YE+  E   S  VLLA  E  K+          
Sbjct: 221 RLPRSNMPLHEEVLEFAKELG--EELGYEILDESEGSRVVLLANDE-EKILSILSVHPMR 277

Query: 118 EKF 120
           E+ 
Sbjct: 278 EEE 280

Length = 296

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	169
KOG1160	601	consensus Fe-S oxidoreductase [Energy production a	100.0
PF08608	62	Wyosine_form: Wyosine base formation; InterPro: IP	99.97
COG0731	296	Fe-S oxidoreductases [Energy production and conver	99.96
PRK13762	322	tRNA-modifying enzyme; Provisional	99.91
TIGR02494	295	PFLE_PFLC glycyl-radical enzyme activating protein	96.77
PRK11145	246	pflA pyruvate formate lyase-activating enzyme 1; P	95.63
PRK14453	347	chloramphenicol/florfenicol resistance protein; Pr	95.38
TIGR01290	442	nifB nitrogenase cofactor biosynthesis protein Nif	95.34
PRK14454	342	ribosomal RNA large subunit methyltransferase N; P	94.85
PRK10076	213	pyruvate formate lyase II activase; Provisional	94.59
TIGR02493	235	PFLA pyruvate formate-lyase 1-activating enzyme. A	93.45
PRK14457	345	ribosomal RNA large subunit methyltransferase N; P	92.96
PRK14455	356	ribosomal RNA large subunit methyltransferase N; P	92.78
PRK14459	373	ribosomal RNA large subunit methyltransferase N; P	91.81
PRK14462	356	ribosomal RNA large subunit methyltransferase N; P	91.42
PRK11194	372	ribosomal RNA large subunit methyltransferase N; P	90.41
PRK14470	336	ribosomal RNA large subunit methyltransferase N; P	89.87
TIGR00048	355	radical SAM enzyme, Cfr family. A Staphylococcus s	89.84
PRK14456	368	ribosomal RNA large subunit methyltransferase N; P	86.75
PRK00164	331	moaA molybdenum cofactor biosynthesis protein A; R	86.24
PRK14460	354	ribosomal RNA large subunit methyltransferase N; P	85.96
PRK14463	349	ribosomal RNA large subunit methyltransferase N; P	84.22
PRK14468	343	ribosomal RNA large subunit methyltransferase N; P	84.2
PRK14467	348	ribosomal RNA large subunit methyltransferase N; P	84.07
PRK13361	329	molybdenum cofactor biosynthesis protein A; Provis	83.45
PRK05301	378	pyrroloquinoline quinone biosynthesis protein PqqE	83.03
PRK14465	342	ribosomal RNA large subunit methyltransferase N; P	80.9

>KOG1160 consensus Fe-S oxidoreductase [Energy production and conversion]

Probab=100.00  E-value=3.5e-63  Score=451.93  Aligned_cols=160  Identities=59%  Similarity=1.103  Sum_probs=154.9

Q ss_pred             ChhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         1 ~sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      +||++|+.|+||||||+||||||||+++.+|++||.+|.|+||||||+||||.|..++|||.|+||||||++|+.+|.+.
T Consensus       435 d~l~~lk~K~qrtvyRlTlVkg~n~dd~~Ayfnlv~rglp~fieVkGvty~ges~~s~lTm~nvp~~Ee~v~Fv~eL~~l  514 (601)
T KOG1160|consen  435 DSLKALKKKQQRTVYRLTLVKGWNSDDLPAYFNLVSRGLPDFIEVKGVTYCGESELSNLTMTNVPWHEEVVEFVFELVDL  514 (601)
T ss_pred             HHHHHHHHhhcceEEEEEEeccccccccHHHHHHHhccCCceEEEeceeEecccccCcccccCccHHHHHHHHHHHHHHh
Confidence            58999999999999999999999999999999999999999999999999999998999999999999999999999664


Q ss_pred             cCCCceEeecCccceEEEeeeccccccCCeeEEeeehhhHHHHHhCCCCCCccccccCCCCccccCCCCCCCCCCCchhh
Q 046005           81 SEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYR  160 (169)
Q Consensus        81 ~~~~Y~i~~Eh~~Sr~vLLa~~~kf~i~g~w~TwIdy~kF~~l~~~~~~f~~~dY~~~TP~WA~~g~~e~GFdP~~~R~~  160 (169)
                       +..|+|+|||+||||+|++. .+||+||+|||||||+||++|++++++|++.|||+.||+||+||+  +||||.|||++
T Consensus       515 -~~~ye~a~ehahs~~~l~a~-~kFK~dg~w~T~iDynkf~el~~~~kdFt~~DYma~TP~wAlfG~--gGF~P~~tR~~  590 (601)
T KOG1160|consen  515 -LQEYEIACEHAHSNCLLIAV-TKFKIDGEWETWIDYNKFEELIKKSKDFTAKDYMARTPHWALFGA--GGFDPGDTRHQ  590 (601)
T ss_pred             -hhhhhhhhcccCcceeeehh-hhcccCCceeeccchHHHHHHHhccCCCChhhhhhcCCceeeecC--CCCCcccchhh
Confidence             56999999999999999999 799999999999999999999999999999999999999999999  99999999999


Q ss_pred             hhcc
Q 046005          161 KERH  164 (169)
Q Consensus       161 ~~~~  164 (169)
                      |+++
T Consensus       591 rk~K  594 (601)
T KOG1160|consen  591 RKNK  594 (601)
T ss_pred             hccC
Confidence            9874

>PF08608 Wyosine_form: Wyosine base formation; InterPro: IPR013917 The proteins in this entry appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs

Probab=99.97  E-value=2.4e-31  Score=185.56  Aligned_cols=62  Identities=48%  Similarity=0.738  Sum_probs=44.8

Q ss_pred             hcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHhcCCCceEeecCccceEEEeee
Q 046005           37 IGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAK  101 (169)
Q Consensus        37 ~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~~~~~Y~i~~Eh~~Sr~vLLa~  101 (169)
                      +|+|||||||||||||+|+ +||||+|||+|+||++||++|++.+  +|.|++||+||||||||+
T Consensus         1 ra~P~fVEvKa~~~~G~s~-~rLt~~nmp~h~eV~~F~~~l~~~~--~y~i~~e~~~SrvvLla~   62 (62)
T PF08608_consen    1 RAEPDFVEVKAYMHVGYSR-NRLTMGNMPWHEEVLDFAEELAELL--GYEITDEHEHSRVVLLAR   62 (62)
T ss_dssp             HHT-SEEEEEE-------------GGGS--HHHHHHHHHHHHTTS--TEEEEEEECCCTEEEEEE
T ss_pred             CCCCcEEEEecCccccccc-CccccCCCCcHHHHHHHHHHHHhhc--CCEEEeccccccEEEecC
Confidence            5899999999999999999 7999999999999999999999984  699999999999999986

It has been proposed that it participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW []. ; PDB: 2YX0_A 2Z2U_A.

>COG0731 Fe-S oxidoreductases [Energy production and conversion]

Probab=99.96  E-value=5.9e-30  Score=223.10  Aligned_cols=124  Identities=34%  Similarity=0.436  Sum_probs=117.1

Q ss_pred             ChhhhhhcC-CCCeEEEEeeecccCccC--HHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHH
Q 046005            1 DSLKALRDK-QQRTVYRLTLVKGWNTED--IEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEAL   77 (169)
Q Consensus         1 ~sL~iL~~k-~~RTV~RlTLVKg~Nm~~--~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L   77 (169)
                      ++|++|++. ++|||+|+|||||+||++  +++||+|+++++|||||||+||+.|+|+ .+|+++|||.|+|+++|++.|
T Consensus       162 e~L~~~~~~~~~~~vir~tlvkg~N~~~e~~~~~a~ll~~~~Pd~velk~~~rpgas~-~~l~~~~~p~~e~~~~f~~~l  240 (296)
T COG0731         162 EGLEIFRSEYKGRTVIRTTLVKGINDDEEELEEYAELLERINPDFVELKTYMRPGASR-YRLPRSNMPLHEEVLEFAKEL  240 (296)
T ss_pred             HHHHHhhhcCCCcEEEEEEEeccccCChHHHHHHHHHHHhcCCCeEEEecCccCChHh-hccCccccchhHHHHHHHHHh
Confidence            479999999 999999999999999986  9999999999999999999999999998 689999999999999999999


Q ss_pred             HHhcCCCceEeecCccceEEEeeeccccccCCeeEEeeehhhHHHHHhCCC
Q 046005           78 ALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGR  128 (169)
Q Consensus        78 ~~~~~~~Y~i~~Eh~~Sr~vLLa~~~kf~i~g~w~TwIdy~kF~~l~~~~~  128 (169)
                      .+.  .+|++++++++||+||+++ ...++...|+++.+++.+.+++.+..
T Consensus       241 ~~~--~~~~~l~~~~~sr~~ll~~-~~e~~~~~~~~~p~~~~~~~~~~~~~  288 (296)
T COG0731         241 GEE--LGYEILDESEGSRVVLLAN-DEEKILSILSVHPMREEEIELLLNKS  288 (296)
T ss_pred             hcc--cCeeeeeccCCceEEEccc-chhhhhhhhccCCCcHHHHHHHhccc
Confidence            987  4799999999999999999 56789999999999999999988765

>PRK13762 tRNA-modifying enzyme; Provisional

Probab=99.91  E-value=1.5e-24  Score=188.67  Aligned_cols=102  Identities=42%  Similarity=0.633  Sum_probs=96.2

Q ss_pred             ChhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         1 ~sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      ++|+.|++.+.+|++|+|||+|+|++++++||++++..+|+|||||+||++|.|+ .+|++++||+|+|+.+|++.|.+.
T Consensus       212 ~~L~~l~~~~~~~~ir~tlv~g~Nd~e~~~~a~l~~~~~~~~Iel~~y~~~G~~k-~~l~~~~~p~~eev~~~~~~l~~~  290 (322)
T PRK13762        212 ETLELLPSKKTRTVIRITLVKGYNMHDPEGFAKLIERANPDFVEVKAYMHVGYSR-NRLTRDNMPSHEEVREFAKELAEY  290 (322)
T ss_pred             HHHHHHHhCCCCEEEEEEEECCcCccHHHHHHHHHHHcCCCEEEEECCeECCCcc-ccccccCCcCHHHHHHHHHHHHHh
Confidence            3688899989999999999999999999999999999999999999999999998 689999999999999999999998


Q ss_pred             cCCCceEeecCccceEEEeeecccc
Q 046005           81 SEGEYEVACEHVHSCCVLLAKTERF  105 (169)
Q Consensus        81 ~~~~Y~i~~Eh~~Sr~vLLa~~~kf  105 (169)
                        .+|+|++||+|||||||++.+++
T Consensus       291 --~~~~i~~~~~~s~~~ll~~~~~~  313 (322)
T PRK13762        291 --TGYEILDESEPSRVVLLSRDDRP  313 (322)
T ss_pred             --cCCeEEecCCCceEEEEeecCCc
Confidence              38999999999999999997666

>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family

Probab=96.77  E-value=0.0021  Score=54.30  Aligned_cols=78  Identities=19%  Similarity=0.332  Sum_probs=61.3

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCC--CeEEEcceeecccCCC----CCCCCCCC--CChHHHH
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNP--DFVEIKGVTYCGSSAT----SKLTMENV--PWHADVK   71 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~P--dFIEvKgyt~~G~S~~----~rLtm~Nm--P~heEV~   71 (169)
                      .|+.|.+.+.+..+|++||.|+|++  ++++.++++..-.|  +.|++..|...|.+.-    ..-.|.+|  |.-+++.
T Consensus       206 ~i~~l~~~~~~~~i~~~~v~~~n~~~~ei~~l~~~~~~~~~~v~~v~l~~~~~~g~~~~~~~~~~~~~~~~~~p~~~~~~  285 (295)
T TIGR02494       206 NLEALAAAGKNVVIRIPVIPGFNDSEENIEAIAAFLRKLEPGVDEIDLLPYHRLGENKYRQLGREYPDSEIPDPAEEQLL  285 (295)
T ss_pred             HHHHHHhCCCcEEEEeceeCCcCCCHHHHHHHHHHHHHhccCCceEEecCCCchhHHHHHHhCCCCccCCCCCCCHHHHH
Confidence            4666777778999999999999974  79999999987764  7999999999998752    12344555  8889999


Q ss_pred             HHHHHHHH
Q 046005           72 AFSEALAL   79 (169)
Q Consensus        72 ~Fa~~L~~   79 (169)
                      +|.+.+.+
T Consensus       286 ~~~~~~~~  293 (295)
T TIGR02494       286 ELKEIFES  293 (295)
T ss_pred             HHHHHHHh
Confidence            98877643

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

>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional

Probab=95.63  E-value=0.059  Score=44.37  Aligned_cols=78  Identities=19%  Similarity=0.258  Sum_probs=57.4

Q ss_pred             hhhhhcCCCCeEEEEeeecccCcc--CHHHHHHHHhh-cCCCeEEEcceeecccCCC------CCCCCCCCCChHHHHHH
Q 046005            3 LKALRDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSI-GNPDFVEIKGVTYCGSSAT------SKLTMENVPWHADVKAF   73 (169)
Q Consensus         3 L~iL~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~-g~PdFIEvKgyt~~G~S~~------~rLtm~NmP~heEV~~F   73 (169)
                      ++.|.+.+-+..+|+++++|+|++  +++..|+++.. ..+.+||+=.|-..|.+.-      ..+.--.-|..+++.+|
T Consensus       154 i~~l~~~g~~v~i~~~li~g~nd~~~ei~~l~~~l~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~~  233 (246)
T PRK11145        154 ARYLAKRNQKTWIRYVVVPGWTDDDDSAHRLGEFIKDMGNIEKIELLPYHELGKHKWEAMGEEYKLDGVKPPSKETMERV  233 (246)
T ss_pred             HHHHHhCCCcEEEEEEEECCCCCCHHHHHHHHHHHHhcCCcceEEEecCCccchhHHHHcCCcccccCCCCCCHHHHHHH
Confidence            456666677899999999999985  68899998864 3468999988888875421      11221244889999999


Q ss_pred             HHHHHHh
Q 046005           74 SEALALR   80 (169)
Q Consensus        74 a~~L~~~   80 (169)
                      ++.+.+.
T Consensus       234 ~~~~~~~  240 (246)
T PRK11145        234 KGILEQY  240 (246)
T ss_pred             HHHHHHc
Confidence            8777654

>PRK14453 chloramphenicol/florfenicol resistance protein; Provisional

Probab=95.38  E-value=0.084  Score=47.32  Aligned_cols=71  Identities=15%  Similarity=0.160  Sum_probs=56.5

Q ss_pred             hhcCCCCeEEEEeeecccCcc--CHHHHHHHHhhc----CCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHH
Q 046005            6 LRDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIG----NPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALAL   79 (169)
Q Consensus         6 L~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g----~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~   79 (169)
                      +.+.+.|..||..||+|+|++  ++++.++++..-    .+..|++=-|+-.|.+. ..   -..|.-+++.+|.+.|.+
T Consensus       242 l~~~~~~V~iry~LI~GvNDs~e~a~~L~~~lk~l~~~~~~~~VnLIPyn~~~~~~-~~---~~~ps~e~v~~f~~~L~~  317 (347)
T PRK14453        242 IRHTGRKVYIAYIMLEGVNDSKEHAEAVVGLLRNRGSWEHLYHVNLIPYNSTDKTP-FK---FQSSSAGQIKQFCSTLKS  317 (347)
T ss_pred             HHhcCCcEEEEEEeECCCCCCHHHHHHHHHHHhhccccCCcceEEEecCCCCCCCC-cc---CCCCCHHHHHHHHHHHHH
Confidence            444567899999999999997  889999999753    37889999999887642 11   245899999999999877


Q ss_pred             h
Q 046005           80 R   80 (169)
Q Consensus        80 ~   80 (169)
                      .
T Consensus       318 ~  318 (347)
T PRK14453        318 A  318 (347)
T ss_pred             C
Confidence            5

>TIGR01290 nifB nitrogenase cofactor biosynthesis protein NifB

Probab=95.34  E-value=0.058  Score=49.61  Aligned_cols=77  Identities=14%  Similarity=0.142  Sum_probs=56.9

Q ss_pred             hhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCC--CCCChHHHHHHHHHHHHh
Q 046005            3 LKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTME--NVPWHADVKAFSEALALR   80 (169)
Q Consensus         3 L~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~--NmP~heEV~~Fa~~L~~~   80 (169)
                      |+.|.+.+....+|++||.|+|++++++.++++..-.++-+++--|.-.++- +....+.  --|..+++.+|.+.+...
T Consensus       180 l~~l~~~G~~v~v~~vlIpGiND~~i~~l~~~~~~lg~~~~nl~p~~~~p~~-G~~~~~~~~~~ps~e~l~~~~~~~~~~  258 (442)
T TIGR01290       180 LEKLTERGILVKVNSVLIPGINDEHLVEVSKQVKELGAFLHNVMPLISAPEH-GTVYGLNGQREPDPDELAALRDRLEMG  258 (442)
T ss_pred             HHHHHhCCCeEEEEEEeeCCcCHHHHHHHHHHHHhCCCcEEEeecCCCcccc-CCccCcCCCCCcCHHHHHHHHHHHHhh
Confidence            4556666777889999999999999999999998887877888776644321 1122233  448899999988776654

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.

>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=94.85  E-value=0.12  Score=46.10  Aligned_cols=67  Identities=22%  Similarity=0.300  Sum_probs=52.4

Q ss_pred             hcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            7 RDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         7 ~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      .+.+.|..||.+||+|+|+.  +++.-|+++. +.+..|++=-|--.|.+. .     .-|.-+++.+|.+.|.+.
T Consensus       246 ~~~~~rv~iey~LI~gvNDs~eda~~La~llk-~l~~~VnLiPyn~~~~~~-~-----~~ps~e~l~~f~~~l~~~  314 (342)
T PRK14454        246 NKTNRRITFEYALVKGVNDSKEDAKELGKLLK-GMLCHVNLIPVNEVKENG-F-----KKSSKEKIKKFKNILKKN  314 (342)
T ss_pred             HHhCCEEEEEEEeECCCCCCHHHHHHHHHHHh-cCCceEEEEecCCCCCCC-C-----CCCCHHHHHHHHHHHHHC
Confidence            34567999999999999974  6888999885 457888887776666553 1     258889999999888764

>PRK10076 pyruvate formate lyase II activase; Provisional

Probab=94.59  E-value=0.17  Score=42.36  Aligned_cols=76  Identities=18%  Similarity=0.262  Sum_probs=54.6

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCC----CCCCCCC--CChHHHHHH
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATS----KLTMENV--PWHADVKAF   73 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~----rLtm~Nm--P~heEV~~F   73 (169)
                      +|+.|.+.+-.-.+|++||.|+|++  ++++-|+++..-+++=||+=.|--.|.+.-.    .-.|.++  |.-+++.++
T Consensus       119 nl~~l~~~g~~v~iR~~vIPg~nd~~e~i~~ia~~l~~l~~~~~~llpyh~~g~~Ky~~lg~~y~~~~~~~~~~~~l~~~  198 (213)
T PRK10076        119 NLRLLVSEGVNVIPRLPLIPGFTLSRENMQQALDVLIPLGIKQIHLLPFHQYGEPKYRLLGKTWSMKEVPAPSSADVATM  198 (213)
T ss_pred             HHHHHHhCCCcEEEEEEEECCCCCCHHHHHHHHHHHHHcCCceEEEecCCccchhHHHHcCCcCccCCCCCcCHHHHHHH
Confidence            5677777777889999999999974  6899999997666777888888887776421    2234443  555666666


Q ss_pred             HHHH
Q 046005           74 SEAL   77 (169)
Q Consensus        74 a~~L   77 (169)
                      .+.+
T Consensus       199 ~~~~  202 (213)
T PRK10076        199 REMA  202 (213)
T ss_pred             HHHH
Confidence            5444

>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme

Probab=93.45  E-value=0.38  Score=39.06  Aligned_cols=77  Identities=22%  Similarity=0.214  Sum_probs=57.4

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhcC-CCeEEEcceeecccC------CCCCCCCCCCCChHHHHH
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGN-PDFVEIKGVTYCGSS------ATSKLTMENVPWHADVKA   72 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~-PdFIEvKgyt~~G~S------~~~rLtm~NmP~heEV~~   72 (169)
                      .++.|++.+.+..+|+++++|+|.  ++++..++++..-. ..+|++-.+.-.|..      ......---.|.-+++.+
T Consensus       148 ~i~~l~~~g~~~~v~~vv~~~~~~n~~ei~~l~~~~~~l~~~~~~~~~p~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (235)
T TIGR02493       148 FAKYLAKRNKPIWIRYVLVPGYTDSEEDIEALAEFVKTLPNVERVEVLPYHQLGVYKWEALGIEYPLEGVKPPNKEQLER  227 (235)
T ss_pred             HHHHHHhCCCcEEEEEeeeCCcCCCHHHHHHHHHHHHhCCCCceEEecCCCcccHHHHHHcCCcCccCCCCCCCHHHHHH
Confidence            466777777788899999999865  58999999998766 589999888877753      112233335689999988


Q ss_pred             HHHHHH
Q 046005           73 FSEALA   78 (169)
Q Consensus        73 Fa~~L~   78 (169)
                      +.+.+.
T Consensus       228 ~~~~~~  233 (235)
T TIGR02493       228 AAEIFK  233 (235)
T ss_pred             HHHHHh
Confidence            876654

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.

>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=92.96  E-value=0.49  Score=42.42  Aligned_cols=68  Identities=19%  Similarity=0.219  Sum_probs=51.8

Q ss_pred             hhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            6 LRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         6 L~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      +.+.+.|-.||..||+|+|+  +++++.|+++.. -|..|++=-|-=.|.+. .     .-|.-+++.+|.+.|.+.
T Consensus       249 ~~~~gr~I~iey~LIpGvNDs~e~a~~La~~l~~-l~~~VnLIPynp~~~~~-~-----~~ps~e~i~~f~~~L~~~  318 (345)
T PRK14457        249 VAITGRRVSFEYILLGGVNDLPEHAEELANLLRG-FQSHVNLIPYNPIDEVE-F-----QRPSPKRIQAFQRVLEQR  318 (345)
T ss_pred             HHHhCCEEEEEEEEECCcCCCHHHHHHHHHHHhc-CCCeEEEecCCCCCCCC-C-----CCCCHHHHHHHHHHHHHC
Confidence            34446789999999999998  478889998864 46688887776555543 1     258899999999888654

>PRK14455 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=92.78  E-value=0.51  Score=42.32  Aligned_cols=65  Identities=22%  Similarity=0.260  Sum_probs=52.1

Q ss_pred             CCCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            9 KQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         9 k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      .+.|..||..||+|+|+  ++++..|+++. +.|..|++=-|+-.|.+.- +     -|.-+++.+|.+.|.+.
T Consensus       259 ~~~~v~iey~lI~gvNDs~ed~~~La~ll~-~l~~~VnLIPynp~~~~ky-~-----~ps~e~l~~f~~~L~~~  325 (356)
T PRK14455        259 TNRRVTFEYILLGGVNDQVEHAEELADLLK-GIKCHVNLIPVNPVPERDY-V-----RTPKEDIFAFEDTLKKN  325 (356)
T ss_pred             cCCeEEEEEEEeCCCCCCHHHHHHHHHHHh-cCCCcEEEEecCcCCCCCC-c-----CCCHHHHHHHHHHHHHC
Confidence            35688999999999998  57899999985 4567888889998887642 1     17889999999888765

>PRK14459 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=91.81  E-value=0.84  Score=41.66  Aligned_cols=67  Identities=12%  Similarity=0.038  Sum_probs=52.9

Q ss_pred             cCCCCeEEEEeeecccCcc--CHHHHHHHHhhcC--CCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            8 DKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGN--PDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         8 ~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~--PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      ..+.|..|+..|++|+|++  ++++-++|+..-.  +..|++=-|.=.|.+.      -.-|.++.+.+|.+.|.+.
T Consensus       277 ~~grrv~ieyvLi~GvNDs~e~a~~L~~llk~~~~~~~~VNLIpyNp~~~~~------y~~~~~~~~~~F~~~L~~~  347 (373)
T PRK14459        277 ATGRRVSIEYALIRDINDQPWRADLLGKKLHGRGGGWVHVNLIPLNPTPGSK------WTASPPEVEREFVRRLRAA  347 (373)
T ss_pred             HhCCEEEEEEEEeCCCCCCHHHHHHHHHHHhhccCCCeEEEEEccCCCCCCC------CcCCCHHHHHHHHHHHHHC
Confidence            3467999999999999986  5778888887543  7788887787766543      1348999999999999875

>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=91.42  E-value=0.87  Score=41.24  Aligned_cols=66  Identities=20%  Similarity=0.266  Sum_probs=50.8

Q ss_pred             cCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            8 DKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         8 ~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      ..+.|..||.+||+|+|+.  +++.-|+++. +.|..|++=-|-=.+.+.      -.-|.-++|.+|.+.|.+.
T Consensus       259 ~~~~~i~ieyvLI~GvNDs~e~a~~La~llk-~l~~~VnLIPyn~~~~~~------~~~ps~e~i~~f~~~l~~~  326 (356)
T PRK14462        259 DQRKRVMFEYLVIKDVNDDLKSAKKLVKLLN-GIKAKVNLILFNPHEGSK------FERPSLEDMIKFQDYLNSK  326 (356)
T ss_pred             HhCCeEEEEEEEECCCCCCHHHHHHHHHHHh-hcCcEEEEEeCCCCCCCC------CCCCCHHHHHHHHHHHHHC
Confidence            4578999999999999984  7888888886 457888887766444332      1448899999999888764

>PRK11194 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=90.41  E-value=1.5  Score=39.93  Aligned_cols=63  Identities=11%  Similarity=0.129  Sum_probs=48.4

Q ss_pred             CCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005           11 QRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus        11 ~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      .|..||.+||+|+|+.  ++++.|+++. +.+..|++=-|--.|.+.   .   .-|.-+++.+|.+.|.+.
T Consensus       261 rrI~irypLIpGvNDs~e~a~~La~ll~-~l~~~VnLIPYN~~~~~~---~---~~ps~e~v~~f~~~L~~~  325 (372)
T PRK11194        261 GRVTVEYVMLDHVNDGTEHAHQLAELLK-DTPCKINLIPWNPFPGAP---Y---GRSSNSRIDRFSKVLMEY  325 (372)
T ss_pred             CeEEEEEEeECCCCCCHHHHHHHHHHHh-cCCceEEEecCCCCCCCC---C---CCCCHHHHHHHHHHHHHC
Confidence            5899999999999985  6788888885 456788887776555332   1   357889999999888664

>PRK14470 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=89.87  E-value=0.7  Score=41.31  Aligned_cols=60  Identities=20%  Similarity=0.267  Sum_probs=42.4

Q ss_pred             CCCCeEEEEeeecccCcc--CHHHHHHHHhhc--CCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHH
Q 046005            9 KQQRTVYRLTLVKGWNTE--DIEAYSKLFSIG--NPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALA   78 (169)
Q Consensus         9 k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g--~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~   78 (169)
                      .+.|..++.+||+|+|+.  +++..|+++..-  .++.|.+--+        .+ . -.-|..++|.+|.+.|.
T Consensus       243 ~~rri~ieyvLI~GvNDseeda~~La~llk~l~~~vnlI~~N~~--------~~-~-~~~p~~~~i~~f~~~l~  306 (336)
T PRK14470        243 LRGRVTLEYVMISGVNVGEEDAAALGRLLAGIPVRLNPIAVNDA--------TG-R-YRPPDEDEWNAFRDALA  306 (336)
T ss_pred             hCCCeEEEEEEEecccCCHHHHHHHHHHHhcCCCeEEEeccCCC--------CC-C-ccCCCHHHHHHHHHHHH
Confidence            356888999999999985  588999999733  3333333221        11 1 24589999999999995

>TIGR00048 radical SAM enzyme, Cfr family

Probab=89.84  E-value=1.5  Score=39.29  Aligned_cols=68  Identities=18%  Similarity=0.238  Sum_probs=47.7

Q ss_pred             hhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            6 LRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         6 L~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      ++..+.|..||.+||+|+|+  ++++.-|+++.. .|..|++=-|.=.+.+.   .   --|..+++.+|++.|.+.
T Consensus       252 ~~~~g~~VtieyvLI~GvNDs~e~a~~La~llk~-l~~~VnLIPynp~~~~~---~---~~ps~e~i~~f~~~L~~~  321 (355)
T TIGR00048       252 LNKTGRRVTFEYVLLDGVNDQVEHAEELAELLKG-TKCKVNLIPWNPFPEAD---Y---ERPSNEQIDRFAKTLMSY  321 (355)
T ss_pred             HHHhCCEEEEEEEEECCCCCCHHHHHHHHHHHhc-CCCceEEEecccCCCCC---C---CCCCHHHHHHHHHHHHHC
Confidence            34456788999999999998  578889999864 45556543333222221   1   238899999999998765

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.

>PRK14456 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=86.75  E-value=3.4  Score=37.46  Aligned_cols=67  Identities=10%  Similarity=-0.000  Sum_probs=47.4

Q ss_pred             hcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            7 RDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         7 ~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      ...+.|..||..||+|+|+.  +++.-++++..- +.-|++=-|+-.|.+.-      .-|.-+++.+|.+.|.+.
T Consensus       273 ~~~g~~V~ieyvLI~GvNDs~eda~~L~~~l~~~-~~~VnlIpyn~~~~~~~------~~ps~e~i~~F~~~L~~~  341 (368)
T PRK14456        273 SKTGEPVTLVYMLLEGINDSPEDARKLIRFASRF-FCKINLIDYNSIVNIKF------EPVCSSTRERFRDRLLDA  341 (368)
T ss_pred             HhcCCeEEEEEEEEcCCCCCHHHHHHHHHHHhcC-CCeeEEeeeccCCCCCC------CCCCHHHHHHHHHHHHHC
Confidence            33456778999999999986  578888888653 33444445665555542      258889999998888765

>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed

Probab=86.24  E-value=2.3  Score=36.56  Aligned_cols=69  Identities=16%  Similarity=0.125  Sum_probs=45.2

Q ss_pred             hhhhhhcCCC-CeEEEEeeecccCccCHHHHHHHHhhcC--CCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHH
Q 046005            2 SLKALRDKQQ-RTVYRLTLVKGWNTEDIEAYSKLFSIGN--PDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSE   75 (169)
Q Consensus         2 sL~iL~~k~~-RTV~RlTLVKg~Nm~~~~~YA~Li~~g~--PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~   75 (169)
                      .|+.+.+.+- +..+.+++++|.|++++...++++..-.  ..|||   +|-.|...  ......+...+|+.+..+
T Consensus       149 ~i~~~~~~g~~~v~i~~vv~~g~n~~ei~~l~~~~~~~gv~v~~ie---~~p~~~~~--~~~~~~~~~~~~~~~~l~  220 (331)
T PRK00164        149 GIDAALAAGLTPVKVNAVLMKGVNDDEIPDLLEWAKDRGIQLRFIE---LMPTGEGN--EWFRKHHLSGAEIRARLA  220 (331)
T ss_pred             HHHHHHHCCCCcEEEEEEEECCCCHHHHHHHHHHHHhCCCeEEEEE---eeECCCCc--chhhhcCCCHHHHHHHHH
Confidence            4555666554 6778899999999999999999886533  34566   56666543  344444555566655443

>PRK14460 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=85.96  E-value=3.8  Score=36.83  Aligned_cols=64  Identities=17%  Similarity=0.191  Sum_probs=48.4

Q ss_pred             CCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceee-cccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            9 KQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTY-CGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         9 k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~-~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      .+.|-.||..||+|+|++  ++++.++++..- +..|++--|.- .|..  .     .-|.-++|.+|.+.|.+.
T Consensus       254 ~~~~v~iey~LI~GvNDs~ed~~~l~~~l~~~-~~~VnLIpyn~~~g~~--y-----~~p~~e~v~~f~~~l~~~  320 (354)
T PRK14460        254 TRERVTFEYLLLGGVNDSLEHARELVRLLSRT-KCKLNLIVYNPAEGLP--Y-----SAPTEERILAFEKYLWSK  320 (354)
T ss_pred             cCCeEEEEEEEECCCCCCHHHHHHHHHHHhcC-CCcEEEEcCCCCCCCC--C-----CCCCHHHHHHHHHHHHHC
Confidence            345788999999999985  788889988654 56788888764 3321  1     258899999999988764

>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=84.22  E-value=5.3  Score=35.85  Aligned_cols=64  Identities=17%  Similarity=0.259  Sum_probs=48.9

Q ss_pred             CCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005           10 QQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus        10 ~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      +.|..||.+||+|+|+  ++++..++++.. .|..|++--|.-.|.+.      ---|.-++|.+|.+.|.+.
T Consensus       248 ~~~v~ieyvLI~GvNDs~e~~~~L~~ll~~-l~~~vnlIPyn~~~~~~------~~~ps~e~i~~f~~~L~~~  313 (349)
T PRK14463        248 RRKITIEYVMIRGLNDSLEDAKRLVRLLSD-IPSKVNLIPFNEHEGCD------FRSPTQEAIDRFHKYLLDK  313 (349)
T ss_pred             CCeEEEEEEEeCCCCCCHHHHHHHHHHHhc-cCceEEEEecCCCCCCC------CCCCCHHHHHHHHHHHHHC
Confidence            4577889999999998  578899999864 46788887775444221      2348899999999998765

>PRK14468 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=84.20  E-value=5.3  Score=35.71  Aligned_cols=67  Identities=21%  Similarity=0.185  Sum_probs=47.1

Q ss_pred             hcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            7 RDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         7 ~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      +..+.|-.|+.+||+|+|++  +++..++++.. .+..|++=-|+-.+.+      .-.-|.-+++.+|.+.|.+.
T Consensus       241 ~~~~~~V~ieyvLI~GvNDs~e~~~~L~~ll~~-~~~~VnLIPynp~~~~------~~~~ps~e~i~~f~~~L~~~  309 (343)
T PRK14468        241 AVTGRRVTLEYTMLKGVNDHLWQAELLADLLRG-LVSHVNLIPFNPWEGS------PFQSSPRAQILAFADVLERR  309 (343)
T ss_pred             HhcCCeEEEEEEEeCCCcCCHHHHHHHHHHHhc-CCcEEEEEcCCCCCCC------CCCCCCHHHHHHHHHHHHHC
Confidence            33456889999999999986  57888888864 3566666444422211      12358889999999888764

>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=84.07  E-value=5.5  Score=35.87  Aligned_cols=67  Identities=18%  Similarity=0.087  Sum_probs=45.5

Q ss_pred             cCCCCeEEEEeeecccCcc--CHHHHHHHHhhc-CCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            8 DKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIG-NPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         8 ~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g-~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      ..+.|..||..||+|+|++  ++++-|+++..- ....|++=-|-=.+.+      ----|.-+++.+|.+.|.+.
T Consensus       248 ~~g~~V~ieyvLIpGvNDs~e~a~~La~~l~~l~~~~~VnLIPynp~~~~------~~~~ps~e~i~~f~~~L~~~  317 (348)
T PRK14467        248 PPGRRIMLEYVLIKGVNDSPEDALRLAQLIGKNKKKFKVNLIPFNPDPEL------PYERPELERVYKFQKILWDN  317 (348)
T ss_pred             hcCCeEEEEEEEECCccCCHHHHHHHHHHHhcCCCceEEEEecCCCCCCC------CCCCCCHHHHHHHHHHHHHC
Confidence            3467899999999999974  678888888643 2355665444322211      12447889999998887654

>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional

Probab=83.45  E-value=3.6  Score=35.86  Aligned_cols=71  Identities=14%  Similarity=0.151  Sum_probs=49.3

Q ss_pred             hhhhhhcCCC-CeEEEEeeecccCccCHHHHHHHHhhcCCCe--EEEcceeecccCCCCCCCCCCCCChHHHHHHHHHH
Q 046005            2 SLKALRDKQQ-RTVYRLTLVKGWNTEDIEAYSKLFSIGNPDF--VEIKGVTYCGSSATSKLTMENVPWHADVKAFSEAL   77 (169)
Q Consensus         2 sL~iL~~k~~-RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdF--IEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L   77 (169)
                      .++.+.+.+- +..+.+++++|.|.+++...++++..-..+.  ||   +|-.|...  ....+.+..-+|+++.-++.
T Consensus       145 ~i~~~~~~Gi~~v~in~v~~~g~N~~ei~~~~~~~~~~gi~~~~ie---~mP~g~~~--~~~~~~~~~~~e~~~~l~~~  218 (329)
T PRK13361        145 GIDAAKAAGFERIKLNAVILRGQNDDEVLDLVEFCRERGLDIAFIE---EMPLGEID--ERRRARHCSSDEVRAIIETR  218 (329)
T ss_pred             HHHHHHHcCCCceEEEEEEECCCCHHHHHHHHHHHHhcCCeEEEEe---cccCCCcc--chhhccCcCHHHHHHHHHHh
Confidence            3555665554 6788999999999999999999998766553  45   67677533  23344566778887765554

>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional

Probab=83.03  E-value=4.2  Score=35.71  Aligned_cols=73  Identities=11%  Similarity=0.129  Sum_probs=53.2

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHH
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEAL   77 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L   77 (169)
                      .++.|++.+.+..+++|+- ..|.++++..++++..-.+++|.+-.+.+.|....++  ..-+|..+++.++.+.+
T Consensus       146 ~i~~l~~~g~~v~i~~vv~-~~N~~~i~~~~~~~~~lgv~~i~~~~~~~~g~~~~~~--~~~~~~~e~~~~~~~~~  218 (378)
T PRK05301        146 VARLVKAHGYPLTLNAVIH-RHNIDQIPRIIELAVELGADRLELANTQYYGWALLNR--AALMPTREQLERAERIV  218 (378)
T ss_pred             HHHHHHHCCCceEEEEEee-cCCHHHHHHHHHHHHHcCCCEEEEecccccChhhhcc--cccCCCHHHHHHHHHHH
Confidence            4667777778889998875 4699999999999999999999988777777543111  12367777776654433

>PRK14465 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=80.90  E-value=5.6  Score=35.88  Aligned_cols=65  Identities=12%  Similarity=0.085  Sum_probs=43.9

Q ss_pred             cCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005            8 DKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus         8 ~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      +.+.|..||..||+|+|+.  ++++-++++..- +.-|++=-|==.| +.      -.=|.-++|.+|.+.|.++
T Consensus       251 ~~~r~v~ieyvLI~GvNDs~eda~~L~~ll~~l-~~kVnLIPyN~~~-~~------~~~ps~e~i~~F~~~L~~~  317 (342)
T PRK14465        251 ELKRRITFEYVMIPGVNMGRENANKLVKIARSL-DCKINVIPLNTEF-FG------WRRPTDDEVAEFIMLLEPA  317 (342)
T ss_pred             HcCCEEEEEEEEECCccCCHHHHHHHHHHHhhC-CCcEEEEccCCCC-CC------CCCCCHHHHHHHHHHHHHC
Confidence            4467889999999999984  788888888752 3444443222111 11      1237889999999988764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	169
2yx0_A	342	Crystal Structure Of P. Horikoshii Tyw1 Length = 34		6e-13

>pdb|2YX0|A Chain A, Crystal Structure Of P. Horikoshii Tyw1 Length = 342

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 56/99 (56%), Gaps = 2/99 (2%)
Query: 3   LKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTME 62
           L+ +RD   RTV RLTLVKG N    E Y+KL     P FVE K   + G S  ++LT+ 
Sbjct: 229 LELMRDLPTRTVVRLTLVKGENMHSPEKYAKLILKARPMFVEAKAYMFVGYSR-NRLTIN 287
Query: 63  NVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAK 101
           N+P H D++ F+EAL     G Y +  E+  S  VL+ +
Sbjct: 288 NMPSHQDIREFAEALVKHLPG-YHIEDEYEPSRVVLIMR 325

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	169
2yx0_A	342	Radical SAM enzyme; predicted tRNA modification en	3e-35
2z2u_A	311	UPF0026 protein MJ0257; metal binding protein; 2.4	3e-27

>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal binding protein, structural genomics, NPPSFA; 2.21A {Pyrococcus horikoshii} Length = 342

 Score =  124 bits (312), Expect = 3e-35
 Identities = 42/112 (37%), Positives = 58/112 (51%), Gaps = 3/112 (2%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
             L+ +RD   RTV RLTLVKG N    E Y+KL     P FVE K   + G S  ++LT
Sbjct: 227 RFLELMRDLPTRTVVRLTLVKGENMHSPEKYAKLILKARPMFVEAKAYMFVGYS-RNRLT 285

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWF 112
           + N+P H D++ F+EAL     G Y +  E+  S  VL+ + +     G   
Sbjct: 286 INNMPSHQDIREFAEALVKHLPG-YHIEDEYEPSRVVLIMR-DDVDPQGTGV 335

>2z2u_A UPF0026 protein MJ0257; metal binding protein; 2.40A {Methanocaldococcus jannaschii} Length = 311

 Score =  103 bits (256), Expect = 3e-27
 Identities = 29/110 (26%), Positives = 57/110 (51%), Gaps = 6/110 (5%)

Query: 1   DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT 60
           ++L  L++K+ RT  R TL++G+N +DI  + +L+   +  F+E+K   + G S   +L 
Sbjct: 207 NTLDILKEKK-RTCIRTTLIRGYN-DDILKFVELYERADVHFIELKSYMHVGYS-QKRLK 263

Query: 61  MENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQ 110
            E++  H ++   ++ L       Y++  +   S   LL   E  K+N +
Sbjct: 264 KEDMLQHDEILKLAKMLD--ENSSYKLIDDSEDSRVALLQN-ENRKINPK 310

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	169
2z2u_A	311	UPF0026 protein MJ0257; metal binding protein; 2.4	99.58
2yx0_A	342	Radical SAM enzyme; predicted tRNA modification en	99.53
3can_A	182	Pyruvate-formate lyase-activating enzyme; structur	96.44
3c8f_A	245	Pyruvate formate-lyase 1-activating enzyme; adoMet	95.69
3rfa_A	404	Ribosomal RNA large subunit methyltransferase N; r	92.39
1tv8_A	340	MOAA, molybdenum cofactor biosynthesis protein A;	91.02

>2z2u_A UPF0026 protein MJ0257; metal binding protein; 2.40A {Methanocaldococcus jannaschii}

Probab=99.58  E-value=2.6e-15  Score=123.98  Aligned_cols=101  Identities=30%  Similarity=0.494  Sum_probs=82.1

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHhc
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRS   81 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~~   81 (169)
                      +|+.|++.+ +..+|+|+++|+|+ +++++++++....|++|+++.||.+|.++ .+|.+.++|.++|+.+|++.|.+..
T Consensus       208 ~i~~l~~~g-~v~i~~~~~~g~n~-~~~~~~~~~~~~~~~~i~l~~~~p~g~~~-~~~~~~~~~~~~e~~~~~~~l~~~~  284 (311)
T 2z2u_A          208 TLDILKEKK-RTCIRTTLIRGYND-DILKFVELYERADVHFIELKSYMHVGYSQ-KRLKKEDMLQHDEILKLAKMLDENS  284 (311)
T ss_dssp             HHHHHTTSS-SEEEEEEECTTTTC-CGGGTHHHHHHHTCSEEEEEECC-------------CCCCHHHHHHHHHHHHTSS
T ss_pred             HHHHHHhcC-CEEEEEEEECCcch-hHHHHHHHHHHcCCCEEEEEeeEEccccc-cccccccCCCHHHHHHHHHHHHHhc
Confidence            567777777 89999999999999 99999999999999999999999999987 5688889999999999999999853


Q ss_pred             CCCceEeecCccceEEEeeeccccccC
Q 046005           82 EGEYEVACEHVHSCCVLLAKTERFKVN  108 (169)
Q Consensus        82 ~~~Y~i~~Eh~~Sr~vLLa~~~kf~i~  108 (169)
                        +|.+.++|++|+|+|+++ .+|+|+
T Consensus       285 --g~~~~~~~~~~~~~l~~~-~~~~~~  308 (311)
T 2z2u_A          285 --SYKLIDDSEDSRVALLQN-ENRKIN  308 (311)
T ss_dssp             --SEEEEEEEGGGTEEEEEE-TTSCCC
T ss_pred             --CceEEeccCcceEEEEec-CCccCC
Confidence              799999999999999999 688886

>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal binding protein, structural genomics, NPPSFA; 2.21A {Pyrococcus horikoshii}

Probab=99.53  E-value=2.2e-14  Score=120.60  Aligned_cols=103  Identities=39%  Similarity=0.529  Sum_probs=87.9

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHhc
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRS   81 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~~   81 (169)
                      +|+.|++.+.+..+|+|+++|.|++++++++++++..+|++|+++.|+.+|.+. .+|...++|.++++.+|++.|.+.+
T Consensus       228 ~i~~l~~~g~~v~i~~~l~~g~n~~~~~~l~~~l~~~~~~~i~l~~~~~~~~~~-~~l~~~~~~~~e~~~~~~~~l~~~l  306 (342)
T 2yx0_A          228 FLELMRDLPTRTVVRLTLVKGENMHSPEKYAKLILKARPMFVEAKAYMFVGYSR-NRLTINNMPSHQDIREFAEALVKHL  306 (342)
T ss_dssp             HHHHHTTCSSEEEEEEEECTTTTCCCHHHHHHHHHHHCCSEEEEEECC-------CCCCGGGSCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCCCCEEEEEEEECCccHHHHHHHHHHHHHcCCCEEEEEeeeecCCCc-ccccccCCCCHHHHHHHHHHHHHhc
Confidence            567777777889999999999999999999999999999999999999999987 5888888999999999999999884


Q ss_pred             CCCceEeecCccceEEEeeecccccc
Q 046005           82 EGEYEVACEHVHSCCVLLAKTERFKV  107 (169)
Q Consensus        82 ~~~Y~i~~Eh~~Sr~vLLa~~~kf~i  107 (169)
                       ++|+|++++++|+||||++. +|..
T Consensus       307 -~~~~I~~~~~~~~~vl~~~~-~~~~  330 (342)
T 2yx0_A          307 -PGYHIEDEYEPSRVVLIMRD-DVDP  330 (342)
T ss_dssp             -TTEEEEEEEGGGTEEEEEET-TSEE
T ss_pred             -cCCceeeccccceEEEEecc-cccc
Confidence             68999999999999999994 5654

>3can_A Pyruvate-formate lyase-activating enzyme; structural genomics, pyruvate-formate lyase-activating enzym MCSG, APC20359.1; 1.80A {Bacteroides vulgatus atcc 8482}

Probab=96.44  E-value=0.005  Score=46.54  Aligned_cols=79  Identities=11%  Similarity=0.180  Sum_probs=51.8

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhc-CC-CeEEEcceeecccCCCCCCC----CCCC--CChHH--
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIG-NP-DFVEIKGVTYCGSSATSKLT----MENV--PWHAD--   69 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g-~P-dFIEvKgyt~~G~S~~~rLt----m~Nm--P~heE--   69 (169)
                      .|+.|.+.+.+..+|+|+++|+|.  ++++..++++..- .+ +.|.+-.|+-+|.+....|.    +.++  |..++  
T Consensus        84 ~i~~l~~~g~~v~i~~~v~~~~n~n~~~~~~~~~~~~~~~g~~~~~~l~~~~p~g~~~~~~l~~~y~~~~~~~~~~e~~~  163 (182)
T 3can_A           84 NIRRVAEADFPYYIRIPLIEGVNADEKNIKLSAEFLASLPRHPEIINLLPYHDIGKGKHAKLGSIYNPKGYKMQTPSEEV  163 (182)
T ss_dssp             HHHHHHHTTCCEEEEEEECBTTTCSHHHHHHHHHHHHHSSSCCSEEEEEECCC------------------CCBCCCHHH
T ss_pred             HHHHHHhCCCeEEEEEEEECCCCCCHHHHHHHHHHHHhCcCccceEEEecCcccCHHHHHHhCCcCcccCCCCCCHHHHH
Confidence            456666667789999999999986  5788999988876 67 88999999988876533343    3333  45566  


Q ss_pred             HHHHHHHHHHh
Q 046005           70 VKAFSEALALR   80 (169)
Q Consensus        70 V~~Fa~~L~~~   80 (169)
                      +.+|++.+.+.
T Consensus       164 l~~~~~~~~~~  174 (182)
T 3can_A          164 QQQCIQILTDY  174 (182)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHc
Confidence            88888777654

>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=95.69  E-value=0.021  Score=43.77  Aligned_cols=83  Identities=17%  Similarity=0.175  Sum_probs=59.3

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhcCC-CeEEEcceeecccCC------CCCCCCCCCCChHHHHH
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNP-DFVEIKGVTYCGSSA------TSKLTMENVPWHADVKA   72 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~P-dFIEvKgyt~~G~S~------~~rLtm~NmP~heEV~~   72 (169)
                      .++.|++.+-+..+++++++|+|.  +++++.++++..-.| ++|.+-.+.-.|.+.      ...+.--..|..+++.+
T Consensus       152 ~i~~l~~~g~~v~i~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  231 (245)
T 3c8f_A          152 FAKYLANKNVKVWIRYVVVPGWSDDDDSAHRLGEFTRDMGNVEKIELLPYHELGKHKWVAMGEEYKLDGVKPPKKETMER  231 (245)
T ss_dssp             HHHHHHHHTCCEEEEEEECTTTTCCHHHHHHHHHHHHHHCCEEEEEEEECCCCSHHHHHHTTCCCTTTTCCCCCHHHHHH
T ss_pred             HHHHHHhcCCEEEEEEeecCCCCCCHHHHHHHHHHHHhcCCCceeEEEeccccChhHHHhhCcccccccCCCCCHHHHHH
Confidence            456666666778899999999985  678889998888777 888887777666541      11222234688899988


Q ss_pred             HHHHHHHhcCCCceE
Q 046005           73 FSEALALRSEGEYEV   87 (169)
Q Consensus        73 Fa~~L~~~~~~~Y~i   87 (169)
                      +.+.+.+.   |+.+
T Consensus       232 ~~~~~~~~---G~~v  243 (245)
T 3c8f_A          232 VKGILEQY---GHKV  243 (245)
T ss_dssp             HHHHHHTT---TCCB
T ss_pred             HHHHHHhc---CCee
Confidence            88777654   4554

>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=92.39  E-value=0.28  Score=43.50  Aligned_cols=62  Identities=11%  Similarity=0.107  Sum_probs=47.5

Q ss_pred             CeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005           12 RTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR   80 (169)
Q Consensus        12 RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~   80 (169)
                      |..||.+||+|+|+.  ++++.|+++.. .|..|.+=-|+-.+.+.      -..|..+++.+|++.|.+.
T Consensus       274 ~V~ie~vLI~GvNDs~e~~~~La~ll~~-l~~~VnLIpynP~~~~~------~~~ps~e~i~~f~~iL~~~  337 (404)
T 3rfa_A          274 RVTIEYVMLDHVNDGTEHAHQLAELLKD-TPCKINLIPWNPFPGAP------YGRSSNSRIDRFSKVLMSY  337 (404)
T ss_dssp             CEEEEEEEBTTTTCSHHHHHHHHHHTTT-SCEEEEEEECCCCTTCC------CCBCCHHHHHHHHHHHHHT
T ss_pred             cEEEEEEEecCCCCCHHHHHHHHHHHHc-CCCcEEEEeccCCCCCC------CCCCCHHHHHHHHHHHHHc
Confidence            899999999999985  68899999865 45667766666433221      2468899999999998775

>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=91.02  E-value=0.65  Score=38.27  Aligned_cols=70  Identities=14%  Similarity=0.189  Sum_probs=48.9

Q ss_pred             hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCC--eEEEcceeecccCCCCCCCCCCCCChHHHHHHHHH
Q 046005            2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPD--FVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEA   76 (169)
Q Consensus         2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~Pd--FIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~   76 (169)
                      .++.|.+.+-...+.+++++|.|.+++...++++..-.++  |||   +|-+|...  ....+.+...+|+.++..+
T Consensus       151 ~i~~l~~~g~~v~i~~vv~~g~n~~ei~~~~~~~~~~g~~~~~i~---~~p~~~~~--~~~~~~~~~~~e~~~~l~~  222 (340)
T 1tv8_A          151 QIDYATSIGLNVKVNVVIQKGINDDQIIPMLEYFKDKHIEIRFIE---FMDVGNDN--GWDFSKVVTKDEMLTMIEQ  222 (340)
T ss_dssp             HHHHHHHTTCEEEEEEEECTTTTGGGHHHHHHHHHHTTCCEEEEE---CCCBCSSS--SBCCSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHCCCCEEEEEEEeCCCCHHHHHHHHHHHHhcCCeEEEEE---eeEcCCCc--cchhhcCCCHHHHHHHHHh
Confidence            3556666665677899999999999999999999887766  676   56666543  2233445556777665544

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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

No hit with probability above 80.00