Citrus Sinensis ID: 026839

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230--
Protein Sequence
MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEEPAAG
Secondary Structure (PSIPRED)
ccEEEEEccEEEEccccccccccHHHHHHHHHHHHccccEEEccccccccccccccHHHHHHHHHHccccccccEEEEEccHHHHccccccccHHHHHHHcccccccEEEEEcccccccccccccccccEEEEccccHHHHHHHHHccccccccccccccccccccHHHHccccccccEEEEcccccccccccEEEEcccccccEEEccccccHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccEEEEEEEEEEEccccHHHHHHHHHHHHcccEEEccccEEEccccccccHHHHHHHHHHccccccccEEEEEccHHHHHHHHcccHHHHHHHHHcccccEEEEEEccccccccccEcccccEEEEEccccHHHHHHHHHccccEEccccccccccccccHHHHHHHcccEEEEEcccccccEEEEEEEEEcccccccEEEccccccHHHHHHHHcccEccHcccc
Coil and Loop (DISEMBL)
mafslengqvsvenkaglvrpatEAHAEEAIQALKTgkviavptdtlygfacdacssEAVNRIYEIkgrkhtsplaicvgdvsdinrfavtdhlphglldsllpgpvtvvlsrgessnlekslnpglesigvrvpdsnFVRVIARGLESALALTsanltgqpssvsvkDFENLWERCACvydggvlpsgragstvvdltrlgkfkilrpgsakeETIAILEKhslveepaag
Flexible Loop (DISEMBL)
mafslengqvsvenkaglvrPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEikgrkhtsplAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRgessnlekslnpglesigvrvpDSNFVRVIARGLESALALtsanltgqpssvSVKDFENLWERCACVYDggvlpsgragstvvdltrlgkfkilrpgsakeeTIAIlekhslveepaag
Low Complexity Region (SEG)
MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEEPAAG
Disordered region (IsUnstruct)
*****************************AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLS****************SIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPG*****TIAI*************
Disordered Region (DISOPRED)
*********VS*ENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVE*****
Disordered Region (DISEMBL)
********QVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEEPAAG
Disordered Region (DISPRO)
*****ENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEE****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEEPAAG
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	232	2.2.26 [Sep-21-2011]
Q499R4	280	YrdC domain-containing pr	yes	no	0.836	0.692	0.472	1e-43
Q86U90	279	YrdC domain-containing pr	yes	no	0.823	0.684	0.487	3e-43
Q0VC80	276	YrdC domain-containing pr	yes	no	0.836	0.702	0.485	1e-42
Q3U5F4	280	YrdC domain-containing pr	yes	no	0.823	0.682	0.477	8e-41
Q60369	207	Uncharacterized protein M	yes	no	0.689	0.772	0.298	3e-19
P39153	346	Probable tRNA threonylcar	yes	no	0.793	0.531	0.310	7e-16
Q10618	217	Uncharacterized protein R	yes	no	0.780	0.834	0.319	2e-14
A7N129	185	tRNA threonylcarbamoylade	yes	no	0.685	0.859	0.305	1e-13
P32579	426	tRNA threonylcarbamoylade	yes	no	0.866	0.471	0.295	4e-13
P45831	220	Uncharacterized protein M	yes	no	0.775	0.818	0.323	9e-13

>sp|Q499R4|YRDC_RAT YrdC domain-containing protein, mitochondrial OS=Rattus norvegicus GN=Yrdc PE=2 SV=1

 Score =  176 bits (447), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 96/203 (47%), Positives = 131/203 (64%), Gaps = 9/203 (4%)

Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
           A+  L+ G V+AVPTDTLYG AC A  S A++ +Y +KGR    PLA+C+G V+D+ R+ 
Sbjct: 74  AVAELRAGAVVAVPTDTLYGLACSASCSAALSCVYRLKGRSEAKPLAVCLGRVADVYRYC 133

Query: 90  VTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLES 149
               +P  LL+ L PGPVT+V+ R E   L K LNP    +G+R+PD  F+  +A+    
Sbjct: 134 QV-RVPRELLEDLFPGPVTLVMERSE--ELNKDLNPFTPLVGIRIPDHAFMLDLAQMFGG 190

Query: 150 ALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVL-----PSGRAGSTVVDLTRLGKF 204
            LALTSANL+ Q SS+SV++F++LW   + V DGG +     P  R GSTVVDL+  GKF
Sbjct: 191 PLALTSANLSSQASSLSVEEFQDLWPHLSLVIDGGPIGDSESPECRLGSTVVDLSVPGKF 250

Query: 205 KILRPGSAKEETIAILE-KHSLV 226
            I+R G A E T AIL+ K+ L+
Sbjct: 251 GIIRSGCALENTTAILQGKYGLL 273

May regulate the activity of some transporters.
Rattus norvegicus (taxid: 10116)

>sp|Q86U90|YRDC_HUMAN YrdC domain-containing protein, mitochondrial OS=Homo sapiens GN=YRDC PE=1 SV=1

 Score =  175 bits (443), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 97/199 (48%), Positives = 132/199 (66%), Gaps = 8/199 (4%)

Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
           A+  L+ G V+AVPTDTLYG AC A  S A+  +Y +KGR    PLA+C+G V+D+ R+ 
Sbjct: 73  AVAELRAGAVVAVPTDTLYGLACAASCSAALRAVYRLKGRSEAKPLAVCLGRVADVYRYC 132

Query: 90  VTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLES 149
               +P GLL  LLPGPVT+V+ R E   L K LNP    +G+R+PD  F++ +A+  E 
Sbjct: 133 RV-RVPEGLLKDLLPGPVTLVMERSE--ELNKDLNPFTPLVGIRIPDHAFMQDLAQMFEG 189

Query: 150 ALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVL-----PSGRAGSTVVDLTRLGKF 204
            LALTSANL+ Q SS++V++F++LW + + V DGG +     P  R GSTVVDL+  GKF
Sbjct: 190 PLALTSANLSSQASSLNVEEFQDLWPQLSLVIDGGQIGDGQSPECRLGSTVVDLSVPGKF 249

Query: 205 KILRPGSAKEETIAILEKH 223
            I+RPG A E T AIL++ 
Sbjct: 250 GIIRPGCALESTTAILQQK 268

May regulate the activity of some transporters.

Homo sapiens (taxid: 9606)

>sp|Q0VC80|YRDC_BOVIN YrdC domain-containing protein, mitochondrial OS=Bos taurus GN=YRDC PE=2 SV=1

 Score =  172 bits (437), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 98/202 (48%), Positives = 135/202 (66%), Gaps = 8/202 (3%)

Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
           A+  L+ G V+AVPTDTLYG AC A  SEA+  +Y +KGR  T PLA+C+G V+D+ R+ 
Sbjct: 71  AVAELRAGAVVAVPTDTLYGLACSASCSEALGAVYRVKGRSETKPLAVCLGRVADVYRYC 130

Query: 90  VTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLES 149
               +P GLL  LLPGPVT+V+ R E   L K LNP    +G+R+PD  F++ +A+    
Sbjct: 131 HV-RVPEGLLKDLLPGPVTLVMERSE--ELNKDLNPFTPLVGIRIPDHAFMQDLAQMFGG 187

Query: 150 ALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVL-----PSGRAGSTVVDLTRLGKF 204
            LALTSANL+ Q SS++V++F++LW   + + DGG +     P  R GSTVVDL+  GKF
Sbjct: 188 PLALTSANLSSQSSSLNVEEFQDLWPHLSLIIDGGPIGDGQSPECRLGSTVVDLSVPGKF 247

Query: 205 KILRPGSAKEETIAILEKHSLV 226
            I+RPG A E T AIL+++ L+
Sbjct: 248 GIIRPGCALESTSAILQEYGLL 269

May regulate the activity of some transporters.

Bos taurus (taxid: 9913)

>sp|Q3U5F4|YRDC_MOUSE YrdC domain-containing protein, mitochondrial OS=Mus musculus GN=Yrdc PE=1 SV=1

 Score =  167 bits (422), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 95/199 (47%), Positives = 130/199 (65%), Gaps = 8/199 (4%)

Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
           A+  L+ G V+AVPTDTLYG AC A SS A++ +Y +KGR    PLA+C+G V+D+ R+ 
Sbjct: 74  AVAELRAGAVVAVPTDTLYGLACSASSSAALSCVYRLKGRSEAKPLAVCLGRVADVYRYC 133

Query: 90  VTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLES 149
               +P  LL+ L PGPVT+V+ R E   L K LNP    +G+R+PD  F+  +A+    
Sbjct: 134 QV-RVPRELLEDLFPGPVTLVMERSE--ELNKDLNPFTRLVGIRIPDHAFMLDLAQMFGG 190

Query: 150 ALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVL-----PSGRAGSTVVDLTRLGKF 204
            LALTSANL+ Q SS+SV++F++LW   + V DGG +     P  R GSTVVDL+  GKF
Sbjct: 191 PLALTSANLSSQASSLSVEEFQDLWPHLSLVIDGGPIGDSQSPECRLGSTVVDLSVPGKF 250

Query: 205 KILRPGSAKEETIAILEKH 223
            I+RPG A E T +IL++ 
Sbjct: 251 GIIRPGCALENTTSILQQK 269

May regulate the activity of some transporters.

Mus musculus (taxid: 10090)

>sp|Q60369|Y062_METJA Uncharacterized protein MJ0062 OS=Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) GN=MJ0062 PE=3 SV=1

 Score = 95.1 bits (235), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 55/184 (29%), Positives = 99/184 (53%), Gaps = 24/184 (13%)

Query: 12  VENKAGLVRPATEAHAEEAIQALK----TGKVIAVPTDTLYGFACDACSSEAVNRIYEIK 67
           ++NK   +    E   ++ ++ LK     GK++   TDTLYG + +A + +AV ++Y IK
Sbjct: 3   LKNKIIKIYELNEEERKKVLEFLKKEILNGKIVICGTDTLYGISANALNEKAVRKVYNIK 62

Query: 68  GRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGL 127
            R+   PL+ICV D ++I ++A  + L   ++D  LPGP+T++L +           PG+
Sbjct: 63  RREFNKPLSICVRDKNEIEKYAYVNDLAKKIIDKFLPGPLTIILKK----------KPGI 112

Query: 128 ------ESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFEN-LWERCACV 180
                 + IG+R+PD   +R ++      L  TSAN++G+ S  +V + +  + ++   V
Sbjct: 113 PDIVAKDYIGIRIPDEPIIRELSI---VPLTTTSANISGKESPTTVDEIDKEVLKKVDYV 169

Query: 181 YDGG 184
            D G
Sbjct: 170 IDIG 173

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (taxid: 243232)

>sp|P39153|YWLC_BACSU Probable tRNA threonylcarbamoyladenosine biosynthesis protein YwlC OS=Bacillus subtilis (strain 168) GN=ywlC PE=3 SV=1

 Score = 84.3 bits (207), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 60/193 (31%), Positives = 97/193 (50%), Gaps = 9/193 (4%)

Query: 29  EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF 88
           +A   L+  +V+A PT+T+YG   +A +++AV +IYE KGR   +PL + + D+S +   
Sbjct: 23  QAAALLRENEVVAFPTETVYGLGANAKNTDAVKKIYEAKGRPSDNPLIVHIADISQLEDL 82

Query: 89  AVTDHLPHG---LLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIAR 145
             T   P     L+    PG +T++L   +   L   +  GLE++ +R+PD      + R
Sbjct: 83  --TGPAPEKAKTLMKRFWPGALTLILP-CKPDALSPRVTAGLETVAIRMPDHPLALALIR 139

Query: 146 GLESALALTSANLTGQPSSVSVKDF-ENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKF 204
                +A  SANL+G+PS    +    +L  R A + DGG  P+G    + V        
Sbjct: 140 ESGLPIAAPSANLSGKPSPTKAEHVAHDLDGRIAGIVDGG--PTGIGVESTVLSCADDIP 197

Query: 205 KILRPGSAKEETI 217
            +LRPG   +E I
Sbjct: 198 VLLRPGGITKEQI 210

Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine.

Bacillus subtilis (strain 168) (taxid: 224308)

>sp|Q10618|Y1301_MYCTU Uncharacterized protein Rv1301/MT1340 OS=Mycobacterium tuberculosis GN=Rv1301 PE=3 SV=1

 Score = 79.7 bits (195), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 62/194 (31%), Positives = 100/194 (51%), Gaps = 13/194 (6%)

Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
           A+ A+K G+++ +PTDT+YG   DA  S AV  +   KGR    P+ + VG    I    
Sbjct: 20  AVGAIKAGQLVVMPTDTVYGIGADAFDSSAVAALLSAKGRGRDMPVGVLVGSWHTIEGLV 79

Query: 90  VTDHLPHG---LLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARG 146
            +  +P G   L+ +  PG +++V+ +  S  L+  L     ++ +R+P       + R 
Sbjct: 80  YS--MPDGARELIRAFWPGALSLVVVQAPS--LQWDLGDAHGTVMLRMPLHPVAIELLRE 135

Query: 147 LESALALTSANLTGQPSSVSVKDFEN-LWERCACVYDGGVLPS-GRAGSTVVDLTRLGKF 204
           +   +A++SAN++G P  V  +   + L +  A   D G  PS  +AGST+VDLT     
Sbjct: 136 V-GPMAVSSANISGHPPPVDAEQARSQLGDHVAVYLDAG--PSEQQAGSTIVDLTG-ATP 191

Query: 205 KILRPGSAKEETIA 218
           ++LRPG    E IA
Sbjct: 192 RVLRPGPVSTERIA 205

Mycobacterium tuberculosis (taxid: 1773)

>sp|A7N129|RIMN_VIBHB tRNA threonylcarbamoyladenosine biosynthesis protein RimN OS=Vibrio harveyi (strain ATCC BAA-1116 / BB120) GN=rimN PE=3 SV=1

 Score = 77.0 bits (188), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 82/167 (49%), Gaps = 8/167 (4%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
           E+ ++AL+TG+VIA PT+ ++G  CD  + EA+ ++ E+K R     L +       +  
Sbjct: 5   EQVLKALQTGEVIAYPTEGVFGVGCDPDNPEAIQKLLELKQRPVEKGLILIAASYEQLLP 64

Query: 88  FAVTDHLPHGLLDSL---LPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIA 144
           +     L    LD +    PGP T ++    S  +   ++   +SI VRV D   V+ + 
Sbjct: 65  YIDESQLTQEQLDQVHATWPGPYTWIMP--ASDKVSHWVSGQFDSIAVRVTDHPLVQKMC 122

Query: 145 RGLESALALTSANLTGQPSSVSVKDF-ENLWERCACVYDGGVLPSGR 190
                 L  TSANLTGQP  ++ ++  E L +R   +  G    SGR
Sbjct: 123 NAFGKPLTSTSANLTGQPPCMTTEEVEEQLGDRLVAILRGET--SGR 167

Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine.

Vibrio harveyi (strain ATCC BAA-1116 / BB120) (taxid: 338187)

>sp|P32579|SUA5_YEAST tRNA threonylcarbamoyladenosine biosynthesis protein SUA5 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SUA5 PE=1 SV=1

 Score = 75.1 bits (183), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 65/220 (29%), Positives = 104/220 (47%), Gaps = 19/220 (8%)

Query: 18  LVRPATEAHAEEAIQALK-TGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLA 76
           +  P TEA   EA + ++ T + +A PT+T+YG    A +  +V  IY  K R   +PL 
Sbjct: 43  ITDPETEAALVEAARIIRDTDETVAFPTETVYGLGGSALNDNSVLSIYRAKNRPSDNPLI 102

Query: 77  ICVGDVSDINR----------FAVTDHLP---HGLLDSLLPGPVTVVL--SRGESSNLEK 121
             V  +  +NR           ++ D++P     L+ SL PGP+T++L     E S L K
Sbjct: 103 THVSSIDQLNRKVFNQPHLSGTSLFDNIPSIYRPLISSLWPGPLTILLPVPSSEHSALSK 162

Query: 122 SLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPS-SVSVKDFENLWERCACV 180
                  +  VR+P +   R +    ++ +A  SAN + +PS +++   + +L ++   +
Sbjct: 163 LTTADQPTFAVRIPANPVARALIALSDTPIAAPSANASTRPSPTLASHVYHDLKDKIPII 222

Query: 181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAIL 220
            DGG    G   STVVD        +LRPG    E I  L
Sbjct: 223 LDGGACKVG-VESTVVD-GLCNPPTLLRPGGFTYEEIVKL 260

Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Required for normal translation, by ensuring translation fidelity at the level of codon recognition, appropriate translation initiation selection and maintenance of reading frame. Also involved in telomere replication. Binds to single-stranded telomeric (ssTG) DNA and positively regulates telomere length.

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

>sp|P45831|Y1136_MYCLE Uncharacterized protein ML1136 OS=Mycobacterium leprae (strain TN) GN=ML1136 PE=3 SV=1

 Score = 73.9 bits (180), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 63/195 (32%), Positives = 97/195 (49%), Gaps = 15/195 (7%)

Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
           A+ ALK G+++ +PTDT+YG   DA    AV  +   KGR    P+ + VG    I    
Sbjct: 23  AVAALKGGRLVVMPTDTVYGIGADAFDRAAVAALLSAKGRGRDMPVGVLVGSWHTIEGLV 82

Query: 90  VTDHLPHG---LLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVP-DSNFVRVIAR 145
            T  +P G   L+ +  PG +++V+    S N +  L     ++ +R+P  S  + ++  
Sbjct: 83  YT--MPDGARELIRAFWPGALSLVVVHAPSLNWD--LGDAHGTVMLRMPLHSVAIELLCE 138

Query: 146 GLESALALTSANLTGQPSSVSVKDFE-NLWERCACVYDGGVLPSG-RAGSTVVDLTRLGK 203
                +A++SAN++GQP++V V      L E      D G  PS  +A ST+VDLT    
Sbjct: 139 --VGPMAVSSANVSGQPAAVDVDGARGQLGELVGVYLDAG--PSAQQAASTIVDLTE-AT 193

Query: 204 FKILRPGSAKEETIA 218
            +ILR G      IA
Sbjct: 194 PRILRAGPVSVARIA 208

Mycobacterium leprae (taxid: 1769)

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	232
224104509	232	predicted protein [Populus trichocarpa]	0.995	0.995	0.800	1e-104
255578866	233	Protein SUA5, putative [Ricinus communis	0.982	0.978	0.803	1e-101
225435305	272	PREDICTED: yrdC domain-containing protei	0.926	0.790	0.846	1e-101
356539446	290	PREDICTED: yrdC domain-containing protei	0.935	0.748	0.798	8e-97
449462123	281	PREDICTED: yrdC domain-containing protei	0.982	0.811	0.75	3e-94
357472217	462	YrdC domain-containing protein [Medicago	0.905	0.454	0.790	6e-93
356544602	227	PREDICTED: LOW QUALITY PROTEIN: yrdC dom	0.939	0.960	0.773	8e-92
297793617	284	hypothetical protein ARALYDRAFT_358267 [	0.969	0.792	0.733	7e-91
9759323	239	unnamed protein product [Arabidopsis tha	0.943	0.916	0.739	2e-89
42573748	288	DHBP synthase RibB-like alpha/beta domai	0.943	0.760	0.739	4e-89

>gi|224104509|ref|XP_002313460.1| predicted protein [Populus trichocarpa] gi|222849868|gb|EEE87415.1| predicted protein [Populus trichocarpa]

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 185/231 (80%), Positives = 207/231 (89%)

Query: 1   MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAV 60
           M+ S+EN  V V+NK  +VRPATE +A+EAI+ALK GKVIAVPTDTLYGFACDACS EAV
Sbjct: 1   MSSSMENCHVDVQNKLEVVRPATEVYAQEAIEALKAGKVIAVPTDTLYGFACDACSLEAV 60

Query: 61  NRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLE 120
           NRIYE+KGRKHTSPLAICVGDVS I  FAVT++LPHGLLDSLLPGPVTV+L RGESS LE
Sbjct: 61  NRIYEMKGRKHTSPLAICVGDVSQIQHFAVTEYLPHGLLDSLLPGPVTVILRRGESSALE 120

Query: 121 KSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACV 180
           KSLNPGL+S+GVRVPD NF+RV+ARGL  A+ALTSANL+GQPSS+ +KDFENLW RCA V
Sbjct: 121 KSLNPGLDSVGVRVPDCNFIRVVARGLGKAVALTSANLSGQPSSLCIKDFENLWNRCAYV 180

Query: 181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEEPAA 231
           YDGGVLPS RAGST+VDLTR GK+KILRPGSAKEET+AILEKHSLVEE  A
Sbjct: 181 YDGGVLPSNRAGSTIVDLTRPGKYKILRPGSAKEETLAILEKHSLVEEAPA 231

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255578866|ref|XP_002530287.1| Protein SUA5, putative [Ricinus communis] gi|223530185|gb|EEF32094.1| Protein SUA5, putative [Ricinus communis]

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 184/229 (80%), Positives = 205/229 (89%), Gaps = 1/229 (0%)

Query: 1   MAFSLE-NGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEA 59
           MA+SL+ +  V   +K G+VRPATE +AEEA++ALK GKVIAVPTDTLYGFACDACS EA
Sbjct: 1   MAWSLQRSNNVDTADKLGVVRPATELYAEEAVEALKAGKVIAVPTDTLYGFACDACSLEA 60

Query: 60  VNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNL 119
           VNRIYEIKGRKHTSPLAIC+GDVSDI  FAVTDHLP+GLLDSLLPG VTVVL+RGESS L
Sbjct: 61  VNRIYEIKGRKHTSPLAICIGDVSDIKHFAVTDHLPNGLLDSLLPGAVTVVLNRGESSAL 120

Query: 120 EKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCAC 179
           EKSLNPGL++IGVRVPD NF+R IA GL  A+ALTSANL+G+PSSV +KDFENLWE CA 
Sbjct: 121 EKSLNPGLDTIGVRVPDCNFIREIAHGLGRAVALTSANLSGKPSSVCIKDFENLWEHCAY 180

Query: 180 VYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEE 228
           VYDGGVLPSGR GSTVVDL+RLGK+KILRPGSAKEET+ ILEKHSLVEE
Sbjct: 181 VYDGGVLPSGREGSTVVDLSRLGKYKILRPGSAKEETVEILEKHSLVEE 229

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225435305|ref|XP_002285123.1| PREDICTED: yrdC domain-containing protein, mitochondrial [Vitis vinifera] gi|297746251|emb|CBI16307.3| unnamed protein product [Vitis vinifera]

 Score =  373 bits (958), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 182/215 (84%), Positives = 198/215 (92%)

Query: 17  GLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLA 76
           G+VRPAT+AHAEEAI+A+K GKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLA
Sbjct: 57  GVVRPATDAHAEEAIEAIKAGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLA 116

Query: 77  ICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPD 136
           ICVGDV DI RFAVTDHLP GLL SLLPGPVTVVL RGE S +EKSLNPGL+SIGVRVPD
Sbjct: 117 ICVGDVLDIQRFAVTDHLPDGLLGSLLPGPVTVVLRRGELSIIEKSLNPGLDSIGVRVPD 176

Query: 137 SNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVV 196
            +F+RVIA G E+ALALTSANL+GQPSSV +KDFENLWE CA VYDGGVLPSGRAGSTVV
Sbjct: 177 CDFIRVIAHGSETALALTSANLSGQPSSVCIKDFENLWEHCAYVYDGGVLPSGRAGSTVV 236

Query: 197 DLTRLGKFKILRPGSAKEETIAILEKHSLVEEPAA 231
           DL+RLGK+KILRPGSA EET+AILE+HSL+ E AA
Sbjct: 237 DLSRLGKYKILRPGSAMEETVAILERHSLMPEAAA 271

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356539446|ref|XP_003538209.1| PREDICTED: yrdC domain-containing protein, mitochondrial-like [Glycine max]

 Score =  358 bits (920), Expect = 8e-97,   Method: Compositional matrix adjust.
 Identities = 174/218 (79%), Positives = 196/218 (89%), Gaps = 1/218 (0%)

Query: 10  VSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGR 69
           VSV+N    V PAT+A+A EA++ALK GKVIAVPTDTLYGFACDACS EAVNRIYEIKGR
Sbjct: 70  VSVDN-CDTVHPATDAYAGEAVEALKAGKVIAVPTDTLYGFACDACSMEAVNRIYEIKGR 128

Query: 70  KHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLES 129
           +HTSP+AICVGDVSDI RFAVTDHLPHGLLDSLLPGPVTVVL RG+SS LE+SLNPG +S
Sbjct: 129 RHTSPVAICVGDVSDIARFAVTDHLPHGLLDSLLPGPVTVVLKRGDSSILERSLNPGFDS 188

Query: 130 IGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSG 189
           IGVRVPD NF+R+IARG  +ALALTSANL+GQPSS+S+KDFENLWE CA VYDGG++PS 
Sbjct: 189 IGVRVPDCNFIRIIARGSGTALALTSANLSGQPSSLSIKDFENLWEHCAFVYDGGLIPSS 248

Query: 190 RAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVE 227
           RAGST+VDLT   K++ILRPGSAKEET+AILEKHS VE
Sbjct: 249 RAGSTIVDLTTPHKYRILRPGSAKEETVAILEKHSFVE 286

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462123|ref|XP_004148791.1| PREDICTED: yrdC domain-containing protein, mitochondrial-like [Cucumis sativus]

 Score =  350 bits (897), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 171/228 (75%), Positives = 197/228 (86%)

Query: 3   FSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNR 62
           +SLE   + VEN    +RPA+EA A+EA  ALK GKVIAVPTDTLYG ACDACS+EAV+R
Sbjct: 52  WSLEKCCMRVENCLQALRPASEAFAQEATDALKAGKVIAVPTDTLYGLACDACSAEAVHR 111

Query: 63  IYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKS 122
           IYEIKGRK TSPLAICVGDVSDI RFAVTDHLP GLLDSLLPGPVTVVL RGESS L+KS
Sbjct: 112 IYEIKGRKLTSPLAICVGDVSDITRFAVTDHLPSGLLDSLLPGPVTVVLKRGESSVLDKS 171

Query: 123 LNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYD 182
           LNPGL+SIGVRVPD++F+R+I+R  E+ALALTSANL+GQPSSV V DFENLW+ CA VYD
Sbjct: 172 LNPGLDSIGVRVPDADFIRLISRRSETALALTSANLSGQPSSVCVNDFENLWQHCAYVYD 231

Query: 183 GGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEEPA 230
           GGVLP+GRAGST++DLT  G FKI+R GSA+E+TIA LE++SL+E  A
Sbjct: 232 GGVLPAGRAGSTIIDLTEQGTFKIIRAGSAEEQTIATLERYSLLEAAA 279

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357472217|ref|XP_003606393.1| YrdC domain-containing protein [Medicago truncatula] gi|355507448|gb|AES88590.1| YrdC domain-containing protein [Medicago truncatula]

 Score =  345 bits (886), Expect = 6e-93,   Method: Compositional matrix adjust.
 Identities = 166/210 (79%), Positives = 187/210 (89%)

Query: 1   MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAV 60
           MA+S+E   + ++ K G+V PAT+A+A EA++ LK GKVIAVPTDTLYGFACDACS EAV
Sbjct: 1   MAWSMERCDLGLDVKTGVVHPATDAYAAEAVETLKAGKVIAVPTDTLYGFACDACSLEAV 60

Query: 61  NRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLE 120
           NRIYEIKGRKHTSPLAICVGDVSDINRFA+TDHLPHGLLDSLLPGPVTVVLSRGESS LE
Sbjct: 61  NRIYEIKGRKHTSPLAICVGDVSDINRFALTDHLPHGLLDSLLPGPVTVVLSRGESSALE 120

Query: 121 KSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACV 180
           +SLNPG +SIGVRVPD NF+R+IARG  +ALALTSANL+GQPSSV +KDFE LWE CA V
Sbjct: 121 RSLNPGFDSIGVRVPDCNFIRLIARGSGTALALTSANLSGQPSSVCIKDFEKLWEHCASV 180

Query: 181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPG 210
           YDGG+LPSGRAGSTVVDL+   K+KILRPG
Sbjct: 181 YDGGLLPSGRAGSTVVDLSTPYKYKILRPG 210

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356544602|ref|XP_003540738.1| PREDICTED: LOW QUALITY PROTEIN: yrdC domain-containing protein, mitochondrial-like [Glycine max]

 Score =  342 bits (877), Expect = 8e-92,   Method: Compositional matrix adjust.
 Identities = 171/221 (77%), Positives = 192/221 (86%), Gaps = 3/221 (1%)

Query: 9   QVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKG 68
            VSV+N + +V PAT+A+A EA++ALK G VIAVPTDTLYGFACDACS EAVNRIYEIKG
Sbjct: 4   SVSVDN-SDMVHPATDAYAGEAVEALKAGXVIAVPTDTLYGFACDACSLEAVNRIYEIKG 62

Query: 69  RKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRG--ESSNLEKSLNPG 126
           R+HTSPLAICVGDVSDI RFAVTDHLPHGLLD LLPGPV VVL RG  ESS LE+SLNPG
Sbjct: 63  RRHTSPLAICVGDVSDIARFAVTDHLPHGLLDCLLPGPVIVVLKRGXXESSILERSLNPG 122

Query: 127 LESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVL 186
            +SIGVRVPD NF+R+IA G  +ALALTSANL+GQ S++S+KDFENLWE C  VYDGG++
Sbjct: 123 FDSIGVRVPDCNFIRIIACGSGTALALTSANLSGQSSTLSIKDFENLWEHCXFVYDGGLI 182

Query: 187 PSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVE 227
           PS  AGSTVVDLT   K+KILRPGSAKEET+AILEKHSLVE
Sbjct: 183 PSSLAGSTVVDLTTPHKYKILRPGSAKEETVAILEKHSLVE 223

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297793617|ref|XP_002864693.1| hypothetical protein ARALYDRAFT_358267 [Arabidopsis lyrata subsp. lyrata] gi|297310528|gb|EFH40952.1| hypothetical protein ARALYDRAFT_358267 [Arabidopsis lyrata subsp. lyrata]

 Score =  338 bits (868), Expect = 7e-91,   Method: Compositional matrix adjust.
 Identities = 165/225 (73%), Positives = 191/225 (84%)

Query: 1   MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAV 60
           M +SLE  +  V + + LV PATEA+A+EAI+A+K+ KVIAVPTDTLYGFACDACS EAV
Sbjct: 50  MVWSLERAETCVVSNSCLVHPATEAYAQEAIEAIKSEKVIAVPTDTLYGFACDACSLEAV 109

Query: 61  NRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLE 120
           NRIYEIKGRK TSPLAICVGDV DI R A T+HLPHGLLDSLLPGPVT+VL RGESS LE
Sbjct: 110 NRIYEIKGRKLTSPLAICVGDVLDIKRVATTNHLPHGLLDSLLPGPVTIVLQRGESSILE 169

Query: 121 KSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACV 180
           KSLNPG+ +IGVRVPD  F+R ++RG  S LALTSANL+G  SSV VKDFENLW+ CA V
Sbjct: 170 KSLNPGIGTIGVRVPDCEFIREVSRGSGSVLALTSANLSGDRSSVCVKDFENLWQHCAYV 229

Query: 181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSL 225
           YDGG+LPSGRAGST+VDLT+ GK+KI+RPGSAK+ T+ ILEK+ L
Sbjct: 230 YDGGLLPSGRAGSTIVDLTKAGKYKIIRPGSAKQATVVILEKYLL 274

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9759323|dbj|BAB09832.1| unnamed protein product [Arabidopsis thaliana]

 Score =  334 bits (856), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 162/219 (73%), Positives = 188/219 (85%)

Query: 1   MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAV 60
           M +SLE  +  V +K+ LV PATEA+A+EAI+A+K+ KVIAVPTDTLYGFACDACS EAV
Sbjct: 1   MVWSLERAETCVVSKSCLVHPATEAYAQEAIEAIKSEKVIAVPTDTLYGFACDACSLEAV 60

Query: 61  NRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLE 120
           +RIYEIKGRK TSPLAICVGDV DI R A T HLPHGLLDSLLPGPVT+VL RGESS LE
Sbjct: 61  SRIYEIKGRKLTSPLAICVGDVLDIKRVATTSHLPHGLLDSLLPGPVTLVLQRGESSILE 120

Query: 121 KSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACV 180
           KSLNPG+ +IGVRVPD  F+R ++RG  S LALTSANL+G  SSV VKDFENLW+ CA V
Sbjct: 121 KSLNPGIGTIGVRVPDCEFIREVSRGSGSVLALTSANLSGDRSSVCVKDFENLWQHCAYV 180

Query: 181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAI 219
           YDGG+LPSGRAGST+VDLT++GK+KI+RPGSAK+ T+AI
Sbjct: 181 YDGGLLPSGRAGSTIVDLTKVGKYKIIRPGSAKQATVAI 219

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42573748|ref|NP_974970.1| DHBP synthase RibB-like alpha/beta domain-containing protein [Arabidopsis thaliana] gi|332009969|gb|AED97352.1| DHBP synthase RibB-like alpha/beta domain-containing protein [Arabidopsis thaliana]

 Score =  333 bits (854), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 162/219 (73%), Positives = 188/219 (85%)

Query: 1   MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAV 60
           M +SLE  +  V +K+ LV PATEA+A+EAI+A+K+ KVIAVPTDTLYGFACDACS EAV
Sbjct: 50  MVWSLERAETCVVSKSCLVHPATEAYAQEAIEAIKSEKVIAVPTDTLYGFACDACSLEAV 109

Query: 61  NRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLE 120
           +RIYEIKGRK TSPLAICVGDV DI R A T HLPHGLLDSLLPGPVT+VL RGESS LE
Sbjct: 110 SRIYEIKGRKLTSPLAICVGDVLDIKRVATTSHLPHGLLDSLLPGPVTLVLQRGESSILE 169

Query: 121 KSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACV 180
           KSLNPG+ +IGVRVPD  F+R ++RG  S LALTSANL+G  SSV VKDFENLW+ CA V
Sbjct: 170 KSLNPGIGTIGVRVPDCEFIREVSRGSGSVLALTSANLSGDRSSVCVKDFENLWQHCAYV 229

Query: 181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAI 219
           YDGG+LPSGRAGST+VDLT++GK+KI+RPGSAK+ T+AI
Sbjct: 230 YDGGLLPSGRAGSTIVDLTKVGKYKIIRPGSAKQATVAI 268

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	232
TAIR|locus:2175173	288	AT5G60590 "AT5G60590" [Arabido	0.982	0.791	0.736	5.4e-86
UNIPROTKB|Q0VC80	276	YRDC "YrdC domain-containing p	0.879	0.739	0.479	3.8e-46
ZFIN|ZDB-GENE-070410-65	263	zgc:162301 "zgc:162301" [Danio	0.844	0.745	0.497	6.2e-46
UNIPROTKB|Q86U90	279	YRDC "YrdC domain-containing p	0.883	0.734	0.479	2.7e-45
UNIPROTKB|E2R8D0	274	YRDC "Uncharacterized protein"	0.887	0.751	0.476	3.4e-45
UNIPROTKB|F1NJF5	259	YRDC "Uncharacterized protein"	0.844	0.756	0.497	3.1e-44
MGI|MGI:2387201	280	Yrdc "yrdC domain containing (	0.879	0.728	0.472	5e-44
RGD|708492	280	Yrdc "yrdC domain containing (	0.879	0.728	0.467	7.3e-43
FB|FBgn0061361	248	CG33786 [Drosophila melanogast	0.870	0.814	0.435	2.3e-39
UNIPROTKB|Q2GG33	194	ECH_0802 "Sua5/YciO/YrdC/YwlC	0.784	0.938	0.356	6.8e-24

TAIR|locus:2175173 AT5G60590 "AT5G60590" [Arabidopsis thaliana (taxid:3702)]

 Score = 860 (307.8 bits), Expect = 5.4e-86, P = 5.4e-86
 Identities = 168/228 (73%), Positives = 195/228 (85%)

Query:     1 MAFSLENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAV 60
             M +SLE  +  V +K+ LV PATEA+A+EAI+A+K+ KVIAVPTDTLYGFACDACS EAV
Sbjct:    50 MVWSLERAETCVVSKSCLVHPATEAYAQEAIEAIKSEKVIAVPTDTLYGFACDACSLEAV 109

Query:    61 NRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLE 120
             +RIYEIKGRK TSPLAICVGDV DI R A T HLPHGLLDSLLPGPVT+VL RGESS LE
Sbjct:   110 SRIYEIKGRKLTSPLAICVGDVLDIKRVATTSHLPHGLLDSLLPGPVTLVLQRGESSILE 169

Query:   121 KSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACV 180
             KSLNPG+ +IGVRVPD  F+R ++RG  S LALTSANL+G  SSV VKDFENLW+ CA V
Sbjct:   170 KSLNPGIGTIGVRVPDCEFIREVSRGSGSVLALTSANLSGDRSSVCVKDFENLWQHCAYV 229

Query:   181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAILEKHSLVEE 228
             YDGG+LPSGRAGST+VDLT++GK+KI+RPGSAK+ T+AILEK+ L EE
Sbjct:   230 YDGGLLPSGRAGSTIVDLTKVGKYKIIRPGSAKQATVAILEKYLLEEE 277

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q0VC80 YRDC "YrdC domain-containing protein, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 484 (175.4 bits), Expect = 3.8e-46, P = 3.8e-46
 Identities = 103/215 (47%), Positives = 141/215 (65%)

Query:    23 TEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDV 82
             TEA    A+  L+ G V+AVPTDTLYG AC A  SEA+  +Y +KGR  T PLA+C+G V
Sbjct:    65 TEA-LRAAVAELRAGAVVAVPTDTLYGLACSASCSEALGAVYRVKGRSETKPLAVCLGRV 123

Query:    83 SDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRV 142
             +D+ R+     +P GLL  LLPGPVT+V+ R E  N  K LNP    +G+R+PD  F++ 
Sbjct:   124 ADVYRYCHV-RVPEGLLKDLLPGPVTLVMERSEELN--KDLNPFTPLVGIRIPDHAFMQD 180

Query:   143 IARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSG-----RAGSTVVD 197
             +A+     LALTSANL+ Q SS++V++F++LW   + + DGG +  G     R GSTVVD
Sbjct:   181 LAQMFGGPLALTSANLSSQSSSLNVEEFQDLWPHLSLIIDGGPIGDGQSPECRLGSTVVD 240

Query:   198 LTRLGKFKILRPGSAKEETIAILEKHSLVEEPAAG 232
             L+  GKF I+RPG A E T AIL+++ L+  P+ G
Sbjct:   241 LSVPGKFGIIRPGCALESTSAILQEYGLL--PSHG 273

GO:0016020 "membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0051051 "negative regulation of transport" evidence=IEA

GO:0003725 "double-stranded RNA binding" evidence=IEA

ZFIN|ZDB-GENE-070410-65 zgc:162301 "zgc:162301" [Danio rerio (taxid:7955)]

 Score = 482 (174.7 bits), Expect = 6.2e-46, P = 6.2e-46
 Identities = 100/201 (49%), Positives = 139/201 (69%)

Query:    31 IQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAV 90
             + ALK G+V+AVPTDT+YG AC A +SEA+ R+Y+IKGR    PLAICVG++ DI ++  
Sbjct:    63 VNALKAGQVVAVPTDTIYGLACVAQNSEAIRRVYDIKGRNGDKPLAICVGEIHDIYKYCK 122

Query:    91 TDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESA 150
                +   LL  LLPGPVT+VL R  S+ L   LNP  + IGVR+PD  F+R + +  ++ 
Sbjct:   123 VS-VKDRLLRDLLPGPVTLVLER--SATLNGDLNPFTKLIGVRIPDHPFMRRLCQMCDTP 179

Query:   151 LALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPS-GRAGSTVVDLTRLGKFKILRP 209
             LALTSAN++ Q S+V+  +FE+LW R A V DGG +    R GSTVVDL+  G+++I+RP
Sbjct:   180 LALTSANVSTQSSTVAANEFEDLWPRLAVVVDGGPIEDKSRLGSTVVDLSVCGRYRIIRP 239

Query:   210 GSAKEETIAILE-KHSLVEEP 229
             G A   T+ ILE ++ L+E+P
Sbjct:   240 GCALSATVQILEGRYGLLEDP 260

GO:0003725 "double-stranded RNA binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|Q86U90 YRDC "YrdC domain-containing protein, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 476 (172.6 bits), Expect = 2.7e-45, P = 2.7e-45
 Identities = 103/215 (47%), Positives = 140/215 (65%)

Query:    23 TEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDV 82
             TEA    A+  L+ G V+AVPTDTLYG AC A  S A+  +Y +KGR    PLA+C+G V
Sbjct:    67 TEA-LRAAVAELRAGAVVAVPTDTLYGLACAASCSAALRAVYRLKGRSEAKPLAVCLGRV 125

Query:    83 SDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRV 142
             +D+ R+     +P GLL  LLPGPVT+V+ R E  N  K LNP    +G+R+PD  F++ 
Sbjct:   126 ADVYRYCRV-RVPEGLLKDLLPGPVTLVMERSEELN--KDLNPFTPLVGIRIPDHAFMQD 182

Query:   143 IARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSG-----RAGSTVVD 197
             +A+  E  LALTSANL+ Q SS++V++F++LW + + V DGG +  G     R GSTVVD
Sbjct:   183 LAQMFEGPLALTSANLSSQASSLNVEEFQDLWPQLSLVIDGGQIGDGQSPECRLGSTVVD 242

Query:   198 LTRLGKFKILRPGSAKEETIAILE-KHSLVEEPAA 231
             L+  GKF I+RPG A E T AIL+ K+ L+   A+
Sbjct:   243 LSVPGKFGIIRPGCALESTTAILQQKYGLLPSHAS 277

GO:0003725 "double-stranded RNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0051051 "negative regulation of transport" evidence=IDA

UNIPROTKB|E2R8D0 YRDC "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 103/216 (47%), Positives = 141/216 (65%)

Query:    23 TEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDV 82
             TEA    A+  L++G V+ VPTDTLYG AC A  S A++ +Y +KGR H  PLA+C+G V
Sbjct:    60 TEA-LRAAVSELRSGAVVTVPTDTLYGQACAASCSAALDAVYRLKGRSHAKPLAVCLGRV 118

Query:    83 SDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRV 142
             +D+ R+     +P GLL  LLPGPVT+VL R  S  L + LNP    +GVR+PD  F++ 
Sbjct:   119 ADVYRYCRVS-VPEGLLRDLLPGPVTLVLER--SQELNRDLNPCTPLVGVRIPDHAFIQD 175

Query:   143 IARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSG-----RAGSTVVD 197
             +A+     LALTSANL+ Q SS++V++F++LW + + V DGG +  G     R GSTVVD
Sbjct:   176 LAQVFGEPLALTSANLSSQASSLTVEEFQDLWPQLSLVIDGGPIGDGQSPEYRLGSTVVD 235

Query:   198 LTRLGKFKILRPGSAKEETIAIL-EKHSLVEEPAAG 232
             L+  GKF I+RPG A E T AIL +K+ L+    +G
Sbjct:   236 LSVPGKFGIIRPGCALESTTAILRQKYGLLPSHGSG 271

GO:0003725 "double-stranded RNA binding" evidence=IEA

UNIPROTKB|F1NJF5 YRDC "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 102/205 (49%), Positives = 134/205 (65%)

Query:    30 AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
             A+ AL+ G ++AVPTDT+YG AC A  S AV  IY +KGR  T PLAIC+GDV  I R+ 
Sbjct:    56 AVGALQEGGLVAVPTDTVYGVACLAQDSRAVQSIYSLKGRNGTKPLAICLGDVEHIYRYC 115

Query:    90 VTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLES 149
               + +P  LL  LLPGPVT+VL R E  N  K LNP    +GVR+P+  F+R +AR    
Sbjct:   116 HVN-VPDELLQDLLPGPVTLVLKRSEELN--KDLNPFTSLVGVRIPNHPFIRELARACPG 172

Query:   150 ALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVL-----PSGRAGSTVVDLTRLGKF 204
              LALTSAN++ Q S+++V +F++LW + + V DGG +     P  R GSTVVDL+  GKF
Sbjct:   173 PLALTSANVSSQASTLTVSEFQDLWPQLSLVVDGGPIGDVQSPECRLGSTVVDLSVSGKF 232

Query:   205 KILRPGSAKEETIAIL-EKHSLVEE 228
              I+RPG A   T+ IL +K+ LV E
Sbjct:   233 TIIRPGCALTSTVEILRQKYGLVPE 257

GO:0003725 "double-stranded RNA binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0051051 "negative regulation of transport" evidence=IEA

MGI|MGI:2387201 Yrdc "yrdC domain containing (E.coli)" [Mus musculus (taxid:10090)]

 Score = 464 (168.4 bits), Expect = 5.0e-44, P = 5.0e-44
 Identities = 102/216 (47%), Positives = 139/216 (64%)

Query:    23 TEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDV 82
             TEA    A+  L+ G V+AVPTDTLYG AC A SS A++ +Y +KGR    PLA+C+G V
Sbjct:    68 TEA-LRAAVAELRAGAVVAVPTDTLYGLACSASSSAALSCVYRLKGRSEAKPLAVCLGRV 126

Query:    83 SDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRV 142
             +D+ R+     +P  LL+ L PGPVT+V+ R E  N  K LNP    +G+R+PD  F+  
Sbjct:   127 ADVYRYCQV-RVPRELLEDLFPGPVTLVMERSEELN--KDLNPFTRLVGIRIPDHAFMLD 183

Query:   143 IARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVL-----PSGRAGSTVVD 197
             +A+     LALTSANL+ Q SS+SV++F++LW   + V DGG +     P  R GSTVVD
Sbjct:   184 LAQMFGGPLALTSANLSSQASSLSVEEFQDLWPHLSLVIDGGPIGDSQSPECRLGSTVVD 243

Query:   198 LTRLGKFKILRPGSAKEETIAILE-KHSLVEEPAAG 232
             L+  GKF I+RPG A E T +IL+ K+ L+  P+ G
Sbjct:   244 LSVPGKFGIIRPGCALENTTSILQQKYGLL--PSQG 277

GO:0003725 "double-stranded RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005739 "mitochondrion" evidence=IEA

GO:0016020 "membrane" evidence=IDA

GO:0051051 "negative regulation of transport" evidence=ISA

RGD|708492 Yrdc "yrdC domain containing (E.coli)" [Rattus norvegicus (taxid:10116)]

 Score = 453 (164.5 bits), Expect = 7.3e-43, P = 7.3e-43
 Identities = 101/216 (46%), Positives = 137/216 (63%)

Query:    23 TEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDV 82
             TEA    A+  L+ G V+AVPTDTLYG AC A  S A++ +Y +KGR    PLA+C+G V
Sbjct:    68 TEA-LRAAVAELRAGAVVAVPTDTLYGLACSASCSAALSCVYRLKGRSEAKPLAVCLGRV 126

Query:    83 SDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRV 142
             +D+ R+     +P  LL+ L PGPVT+V+ R E  N  K LNP    +G+R+PD  F+  
Sbjct:   127 ADVYRYCQV-RVPRELLEDLFPGPVTLVMERSEELN--KDLNPFTPLVGIRIPDHAFMLD 183

Query:   143 IARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVL-----PSGRAGSTVVD 197
             +A+     LALTSANL+ Q SS+SV++F++LW   + V DGG +     P  R GSTVVD
Sbjct:   184 LAQMFGGPLALTSANLSSQASSLSVEEFQDLWPHLSLVIDGGPIGDSESPECRLGSTVVD 243

Query:   198 LTRLGKFKILRPGSAKEETIAILE-KHSLVEEPAAG 232
             L+  GKF I+R G A E T AIL+ K+ L+  P+ G
Sbjct:   244 LSVPGKFGIIRSGCALENTTAILQGKYGLL--PSQG 277

GO:0003725 "double-stranded RNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0016020 "membrane" evidence=IEA;ISO

GO:0051051 "negative regulation of transport" evidence=IEA;ISO

FB|FBgn0061361 CG33786 [Drosophila melanogaster (taxid:7227)]

 Score = 420 (152.9 bits), Expect = 2.3e-39, P = 2.3e-39
 Identities = 91/209 (43%), Positives = 130/209 (62%)

Query:    24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVS 83
             EA  + A Q L  G+VIA+PTDT+YG ACDA +  A+ ++YEIKGR    P+AICV ++ 
Sbjct:    38 EAALQLARQCLLGGQVIALPTDTVYGLACDANNETAIQQLYEIKGRDEHKPVAICVHNID 97

Query:    84 DINRFAVTDHLPHGLLDSLLPGPVTVVLSR-GESSNLEKSLNPGLESIGVRVPDSNFVR- 141
              + RF    HL   LL  LLPGP+T+V+ R  + SN  + LNP    IG+R+PD NF+R 
Sbjct:    98 ALRRFGQAAHLSDELLTRLLPGPLTIVIERTSQLSN--RFLNPSTSKIGIRIPDFNFMRD 155

Query:   142 VIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDGG---VLPSGRAGSTVVDL 198
             + A   E  LALTSAN +  PSS+ V +F +LW +   V+D G   +    R  STV+DL
Sbjct:   156 LCAVWQEKPLALTSANRSSAPSSLQVSEFRSLWPQLGAVFDAGRIGLTEERRLASTVIDL 215

Query:   199 TRLGKFKILRPGSAKEETIAILEKHSLVE 227
                G ++I+R G A + T++++E+  + E
Sbjct:   216 ATPGYYEIVRAGVALKPTLSLMEEFGIRE 244

GO:0006412 "translation" evidence=ISS

GO:0045182 "translation regulator activity" evidence=ISS

GO:0003725 "double-stranded RNA binding" evidence=IEA

UNIPROTKB|Q2GG33 ECH_0802 "Sua5/YciO/YrdC/YwlC family protein" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 274 (101.5 bits), Expect = 6.8e-24, P = 6.8e-24
 Identities = 68/191 (35%), Positives = 109/191 (57%)

Query:    29 EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF 88
             EA+QALK   +I  PT+T+Y  A  A S EAV +IY+IKGR +  PL++ + ++  I +F
Sbjct:     4 EAVQALKNKHLILFPTETVYALAGSAYSIEAVQKIYQIKGRSYNKPLSLLLSNIDKIKQF 63

Query:    89 A-VTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
             + +T+H    ++  L PGPVT VL     + L +      ++IG+R+PD      I    
Sbjct:    64 STLTEHT-FKIIQKLSPGPVTFVLPIHNYNKLPRQFFN--DTIGIRIPDHPIALEILSNF 120

Query:   148 ESALALTSANLTGQPS-SVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKI 206
             ++ +  TS N++GQPS + S +  E + +  + + +   L +G   STV+DLT    +KI
Sbjct:   121 DNPVVGTSVNISGQPSVTASHQVQETIKQHISVIIEDDSLVNG-IESTVIDLT---SYKI 176

Query:   207 LRPGSAKEETI 217
             LR G+  E+ I
Sbjct:   177 LRTGAVSEKKI 187

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	232
pfam01300	178	pfam01300, Sua5_yciO_yrdC, Telomere recombination	2e-51
COG0009	211	COG0009, SUA5, Putative translation factor (SUA5)	2e-46
TIGR00057	201	TIGR00057, TIGR00057, tRNA threonylcarbamoyl adeno	2e-42
TIGR00143	711	TIGR00143, hypF, [NiFe] hydrogenase maturation pro	4e-13
PRK10634	190	PRK10634, PRK10634, tRNA(ANN) t(6)A37 threonylcarb	1e-12
COG0068	750	COG0068, HypF, Hydrogenase maturation factor [Post	2e-12
PRK11630	206	PRK11630, PRK11630, hypothetical protein; Provisio	6e-10

>gnl|CDD|216422 pfam01300, Sua5_yciO_yrdC, Telomere recombination

 Score =  164 bits (418), Expect = 2e-51
 Identities = 75/181 (41%), Positives = 107/181 (59%), Gaps = 5/181 (2%)

Query: 32  QALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVT 91
           +AL+ G ++A PTDT+YG  CDA + EAV R+ EIKGR    PLA+ V D+  + ++A  
Sbjct: 1   EALRQGGIVAYPTDTVYGLGCDATNEEAVERLREIKGRPRDKPLAVMVSDLEQLKKYADE 60

Query: 92  -DHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESA 150
            +     L +   PGP+T++L     S+L K + PGL ++GVR+PD    R++   L   
Sbjct: 61  LEEAALKLAERFWPGPITLIL-PASKSSLPKLVTPGLGTVGVRLPDHPLARLLLEALGEP 119

Query: 151 LALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRP 209
           L  TSANL+G+PS+   ++  E L      + DGG +P     STVVDLT  GK +ILR 
Sbjct: 120 LVATSANLSGEPSATDAEEVLEELGGIVDLILDGGRIP-VGVDSTVVDLTD-GKPRILRR 177

Query: 210 G 210
           G
Sbjct: 178 G 178

This domain has been shown to bind preferentially to dsRNA. The domain is found in SUA5 as well as HypF and YrdC. It has also been shown to be required for telomere recombniation in yeast. Length = 178

>gnl|CDD|223088 COG0009, SUA5, Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]

 Score =  152 bits (387), Expect = 2e-46
 Identities = 71/192 (36%), Positives = 102/192 (53%), Gaps = 4/192 (2%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
           E+A++AL+ G V+A PTDT+YG   DA + EAV R+YEIK R    PL + V  +  +  
Sbjct: 17  EKAVEALRKGGVVAYPTDTVYGLGADATNEEAVERLYEIKQRPSDKPLILHVASLEQLKE 76

Query: 88  FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
           +A    +   LL +  PGP+T +L   +       +  GL +I VRVPD      +   L
Sbjct: 77  YADVPDVARKLLKAFWPGPLTFILPATKEVPRRL-VTAGLSTIAVRVPDHPIALALIEAL 135

Query: 148 ESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKI 206
              LA TSANL+GQPS  + ++   +   +   + DGG    G   ST++DLT     +I
Sbjct: 136 GEPLASTSANLSGQPSPTTAEEVRADFGGQVDLIIDGGPCRGGLP-STIIDLTD-DPPRI 193

Query: 207 LRPGSAKEETIA 218
           LRPG+   E I 
Sbjct: 194 LRPGAISLEEIE 205

Length = 211

>gnl|CDD|232802 TIGR00057, TIGR00057, tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family

 Score =  142 bits (359), Expect = 2e-42
 Identities = 65/194 (33%), Positives = 104/194 (53%), Gaps = 5/194 (2%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
           E+A++ L+ G ++  PTDT+YG   DA   +AV R+Y IKGR    PL + V D+S+I +
Sbjct: 12  EQAVKILRKGGIVVYPTDTVYGIGADALDEDAVRRLYRIKGRPSNKPLTVLVSDLSEIEK 71

Query: 88  FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
           +A        L+    PGP+T+VL +       + ++   ++IG+RVPD+     +   L
Sbjct: 72  YAYVPDDAKRLMKKFWPGPLTLVLKKTPEIP--RRVSGKRKTIGIRVPDNPIALELLEEL 129

Query: 148 ESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKI 206
              +  TSANL+G+PS+  V++  + L +    + D G    G   ST++DLT     K+
Sbjct: 130 GKPIVATSANLSGKPSATDVEEAVDELGKLVDLIIDAGPCLGGEP-STIIDLT-DDTPKV 187

Query: 207 LRPGSAKEETIAIL 220
           LR G   E    +L
Sbjct: 188 LREGVGSEPIEKVL 201

Has paralogs, but YrdC called a tRNA modification protein. Ref 2 authors say probably heteromultimeric complex. Paralogs may mean its does the final binding to the tRNA [Protein synthesis, tRNA and rRNA base modification]. Length = 201

>gnl|CDD|232844 TIGR00143, hypF, [NiFe] hydrogenase maturation protein HypF

 Score = 67.5 bits (165), Expect = 4e-13
 Identities = 44/143 (30%), Positives = 68/143 (47%), Gaps = 7/143 (4%)

Query: 24  EAHAEEAIQA----LKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICV 79
            A  ++A+      LK GK+IA+     +  ACDA + E V R+   K R    P A+  
Sbjct: 158 HAEQDDALLEAAKLLKKGKIIAIKGIGGFHLACDARNDEVVERLRLRKNRP-LKPFAVMS 216

Query: 80  GDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNF 139
            D+    + A  ++L   LL S  P    V+L +     L  ++ P L +IGV +P +  
Sbjct: 217 PDLESAEQHAELNNLECELLTS--PAAPIVLLRKKPDIKLAPNIAPNLPTIGVMLPYTPL 274

Query: 140 VRVIARGLESALALTSANLTGQP 162
             ++ + L   L +TSANL G P
Sbjct: 275 HHLLLQLLAFPLVMTSANLPGLP 297

A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression [Protein fate, Protein modification and repair]. Length = 711

>gnl|CDD|182603 PRK10634, PRK10634, tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional

 Score = 63.6 bits (155), Expect = 1e-12
 Identities = 44/141 (31%), Positives = 64/141 (45%), Gaps = 11/141 (7%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSD--- 84
             A+  L   +VIA PT+ ++G  CD  S  AV R+ E+K R     L I +    +   
Sbjct: 11  AAAVDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGL-ILIAANYEQLK 69

Query: 85  --INRFAVTDHLPHGLLDSLLPGPVTVVL-SRGESSNLEKSLNPGLESIGVRVPDSNFVR 141
             I+   +TD     +  S  PGPVT V  +   +    + L    +S+ VRV D   V 
Sbjct: 70  PYIDDSMLTDAQRETIF-SCWPGPVTFVFPAPATTP---RWLTGRFDSLAVRVTDHPLVV 125

Query: 142 VIARGLESALALTSANLTGQP 162
            + +     L  TSANL+G P
Sbjct: 126 ALCQAYGKPLVSTSANLSGLP 146

Length = 190

>gnl|CDD|223146 COG0068, HypF, Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]

 Score = 65.9 bits (161), Expect = 2e-12
 Identities = 48/152 (31%), Positives = 78/152 (51%), Gaps = 5/152 (3%)

Query: 12  VENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKH 71
           V +    +  A EA   +A + LK GK++A+     +  ACDA + EAV ++ + K R  
Sbjct: 186 VNHDGEAIAEANEA-IRKAAKLLKVGKIVAIKGIGGFHLACDARNEEAVAKLRKRKNRPL 244

Query: 72  TSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIG 131
             P A+   D+  I  FA  +     LL S    P+ V+L + +   LE ++ PGL +IG
Sbjct: 245 -KPFAVMAKDLETIEEFAEVNDEEEELLTSPS-RPI-VLLKKKKVFLLESNIAPGLHTIG 301

Query: 132 VRVPDSNFVRVIARG-LESALALTSANLTGQP 162
           V +P +    ++ +  L+    +TSANL G+P
Sbjct: 302 VMLPYTPLHHLLLQESLDIPYVMTSANLPGEP 333

Length = 750

>gnl|CDD|183245 PRK11630, PRK11630, hypothetical protein; Provisional

 Score = 56.8 bits (137), Expect = 6e-10
 Identities = 44/177 (24%), Positives = 80/177 (45%), Gaps = 13/177 (7%)

Query: 29  EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF 88
           +A++ ++ G VI  PTD+ Y   C      A+ RI  I+         +   D+S+++ +
Sbjct: 19  QAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTY 78

Query: 89  AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLE 148
           +  D++   L+ +  PG  T +L +G      + L    ++IG+RVP +     +   L 
Sbjct: 79  SFVDNVAFRLMKNNTPGNYTFIL-KGTKEVPRRLLQEKRKTIGLRVPSNPIALALLEALG 137

Query: 149 SALALTSANLTGQ------PSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLT 199
             +  TS  L G       P  +     + L ++   +  GG L  G+  +TV+DLT
Sbjct: 138 EPMLSTSLMLPGSDFTESDPEEIK----DRLEKQVDLIIHGGYL--GQQPTTVIDLT 188

Length = 206

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	232
COG0009	211	SUA5 Putative translation factor (SUA5) [Translati	100.0
TIGR00057	201	Sua5/YciO/YrdC/YwlC family protein. partial match	100.0
PRK11630	206	hypothetical protein; Provisional	100.0
PRK10634	190	tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modif	100.0
PF01300	179	Sua5_yciO_yrdC: Telomere recombination; InterPro:	100.0
TIGR00143	711	hypF [NiFe] hydrogenase maturation protein HypF. A	100.0
KOG3051	261	consensus RNA binding/translational regulation pro	99.97
COG0068	750	HypF Hydrogenase maturation factor [Posttranslatio	99.96
COG2192	555	Predicted carbamoyl transferase, NodU family [Post	95.55

>COG0009 SUA5 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.4e-57  Score=385.47  Aligned_cols=194  Identities=37%  Similarity=0.607  Sum_probs=176.1

Q ss_pred             HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhccCCcHHHHHhccC
Q 026839           24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLL  103 (232)
Q Consensus        24 ~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~~~~l~~~~~  103 (232)
                      ++.+++|++.|++|++|+|||||+|||+|++.|++||+|||++|+|+.+|||+++|+|++++..|+.+++..+++++.||
T Consensus        13 ~~~~~~a~~~l~~G~vVa~PTeTVYGLg~~~~~~~Av~~i~~~K~Rp~~kpLil~~~~~~~l~~~~~~~~~~~~l~~~fw   92 (211)
T COG0009          13 PRAIEKAVEALRKGGVVAYPTDTVYGLGADATNEEAVERLYEIKQRPSDKPLILHVASLEQLKEYADVPDVARKLLKAFW   92 (211)
T ss_pred             hHHHHHHHHHHHcCCEEEEEccchheeecCCCCHHHHHHHHHHhCCCCCCCEEEEeCCHHHHHHHhcCCHHHHHHHHHhC
Confidence            46899999999999999999999999999999999999999999999999999999999999999998888999999999


Q ss_pred             CCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHHH-hhhccccEEEc
Q 026839          104 PGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFE-NLWERCACVYD  182 (232)
Q Consensus       104 PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~~-~~~~~vd~ivd  182 (232)
                      |||+|||+++++.... +..+++.+|||||||+||++++||+++|.||++||||+||++++++.+++. ++.+++|+|+|
T Consensus        93 PGPlT~Il~~~~~~~~-~~~~~~~~TiavRvP~hpi~~~Li~~~G~Pl~stSANlsG~ps~tt~~ev~~~~~~~v~~iid  171 (211)
T COG0009          93 PGPLTFILPATKEVPR-RLVTAGLSTIAVRVPDHPIALALIEALGEPLASTSANLSGQPSPTTAEEVRADFGGQVDLIID  171 (211)
T ss_pred             CCCeEEEEeCCCCCCh-hhhcCCCCeEEEECCCCHHHHHHHHHhCCceEEcCcCcCCCCCCCCHHHHHHHhcccCeEEEe
Confidence            9999999998543222 677778889999999999999999999999999999999999999999975 45578999999


Q ss_pred             CcccCCCCCCCeEEEcccCCceEEEecCCChHHHHHHH
Q 026839          183 GGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIAIL  220 (232)
Q Consensus       183 ~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~~~~~~l  220 (232)
                      +|.+..+ .+|||||++. ++++|+|+|+++.+.+..+
T Consensus       172 gg~~~~g-~pSTIiDlt~-~~~~ilR~G~i~~~~i~~~  207 (211)
T COG0009         172 GGPCRGG-LPSTIIDLTD-DPPRILRPGAISLEEIEKL  207 (211)
T ss_pred             CCccCCC-CCceEEECCC-CCcEEEeCCCCCHHHHHHH
Confidence            9988655 7999999995 6889999999997665433

>TIGR00057 Sua5/YciO/YrdC/YwlC family protein

Probab=100.00  E-value=7.7e-56  Score=374.17  Aligned_cols=189  Identities=34%  Similarity=0.585  Sum_probs=173.8

Q ss_pred             HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhccCCcHHHHHhccC
Q 026839           24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLL  103 (232)
Q Consensus        24 ~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~~~~l~~~~~  103 (232)
                      ++.+++++++|++||+|+|||||+|||+|+++|++|++|||++|+|+.+|||++||+|++++.+|+.+++..++++++||
T Consensus         8 ~~~i~~a~~~L~~G~ii~~PTdTvYgL~~~~~~~~av~ri~~iK~R~~~Kpl~~l~~~~~~l~~~~~~~~~~~~l~~~~~   87 (201)
T TIGR00057         8 QRGIEQAVKILRKGGIVVYPTDTVYGIGADALDEDAVRRLYRIKGRPSNKPLTVLVSDLSEIEKYAYVPDDAKRLMKKFW   87 (201)
T ss_pred             HHHHHHHHHHHHCCCEEEEeCCCHHHhhcCCCCHHHHHHHHHHhCCCCCCCeEEEECCHHHHHHHhcCCHHHHHHHHhcC
Confidence            45699999999999999999999999999999999999999999999999999999999999999988777889999999


Q ss_pred             CCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHHHh-hhccccEEEc
Q 026839          104 PGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFEN-LWERCACVYD  182 (232)
Q Consensus       104 PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~~~-~~~~vd~ivd  182 (232)
                      |||+|+|+++++  .+++.+.++.+|||||||+|+++++|++.+|.||++||||+||++++++.+++.+ +.+.+|+|+|
T Consensus        88 Pgp~T~Il~~~~--~~~~~l~~~~~tigiRvP~~~~~~~L~~~~g~PL~~TSAN~sG~~~~~~~~~i~~~~~~~vd~ild  165 (201)
T TIGR00057        88 PGPLTLVLKKTP--EIPRRVSGKRKTIGIRVPDNPIALELLEELGKPIVATSANLSGKPSATDVEEAVDELGKLVDLIID  165 (201)
T ss_pred             CCCeEEEEECCC--CCCHhHcCCCCeEEEECCCCHHHHHHHHHhCCCEEECCCCCCCCCCCCCHHHHHHHhCCCccEEEc
Confidence            999999999865  5788888888999999999999999999999999999999999999999999754 5567999999


Q ss_pred             CcccCCCCCCCeEEEcccCCceEEEecCCChHHHH
Q 026839          183 GGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETI  217 (232)
Q Consensus       183 ~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~~~~  217 (232)
                      +|.+.. +.+|||||+++ ++++|+|+|+++ +.+
T Consensus       166 ~g~~~~-~~~STVid~~~-~~~~ilR~G~~~-~~i  197 (201)
T TIGR00057       166 AGPCLG-GEPSTIIDLTD-DTPKVLREGVGS-EPI  197 (201)
T ss_pred             CCCCCC-CCCCcEEEccC-CceEEEecCCCH-HHH
Confidence            997544 47999999986 689999999999 544

partial match to sua5, which is involved in regulation of translation initiation. 3' end of sua5 has matches to sua5, BS3690, and weakly to AF0781 and BB0734.

>PRK11630 hypothetical protein; Provisional

Probab=100.00  E-value=2e-55  Score=372.89  Aligned_cols=188  Identities=23%  Similarity=0.410  Sum_probs=170.1

Q ss_pred             HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhccCCcHHHHHhccC
Q 026839           24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLL  103 (232)
Q Consensus        24 ~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~~~~l~~~~~  103 (232)
                      .+.+++|+++|++||+|+|||||+|||+||++|++||+|||++|+|+.+|||++||+|++++.+|+.+++..++++++||
T Consensus        14 ~~~i~~a~~~L~~G~vi~~PTdTvYgL~~d~~n~~Av~~l~~lK~R~~~Kpl~ll~~~~~~~~~~~~~~~~~~~l~~~~w   93 (206)
T PRK11630         14 QRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTYSFVDNVAFRLMKNNT   93 (206)
T ss_pred             HHHHHHHHHHHHCCCEEEEeCCChHhhhcCCCCHHHHHHHHHHcCCCCCCCeEEEECCHHHHHHHhcCCHHHHHHHHhcC
Confidence            45689999999999999999999999999999999999999999999999999999999999999988777889999999


Q ss_pred             CCCeEEEEccCCCCcccc-ccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCC-CCChHHHHh-hhccccEE
Q 026839          104 PGPVTVVLSRGESSNLEK-SLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPS-SVSVKDFEN-LWERCACV  180 (232)
Q Consensus       104 PgplT~Il~~~~~~~l~~-~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~-~~~~~~~~~-~~~~vd~i  180 (232)
                      |||+|+|+++++  .+++ +++++.+|||||+|+|+++++|++.+|.||++||||+||+++ .++.+++.+ +.+.+|+|
T Consensus        94 PGplT~Il~a~~--~~p~~~~~~~~~tigiRip~~~~~~~L~~~~g~PL~~TSAN~sG~~~~~~~~~~i~~~~~~~vd~i  171 (206)
T PRK11630         94 PGNYTFILKGTK--EVPRRLLQEKRKTIGLRVPSNPIALALLEALGEPMLSTSLMLPGSDFTESDPEEIKDRLEKQVDLI  171 (206)
T ss_pred             CCCeEEEEECCC--CCCHHHcCCCCCeEEEECCCCHHHHHHHHHhCCcEEECCcCcCCCCCCCCCHHHHHHHhcCCceEE
Confidence            999999999865  4675 677788999999999999999999999999999999999876 477888754 55679999


Q ss_pred             EcCcccCCCCCCCeEEEcccCCceEEEecCCChHHH
Q 026839          181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEET  216 (232)
Q Consensus       181 vd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~~~  216 (232)
                      +|+|.. .+ .+|||||+++ ++++|+|+|+++.+.
T Consensus       172 ldg~~~-~~-~pSTIvd~~~-~~~~ilR~G~~~~~~  204 (206)
T PRK11630        172 IHGGYL-GQ-QPTTVIDLTD-DTPVVVREGVGDVKP  204 (206)
T ss_pred             EeCCCC-CC-CCCEEEEccC-CceEEEecCCCchhh
Confidence            999875 34 7999999986 689999999998543

>PRK10634 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional

Probab=100.00  E-value=4.6e-54  Score=360.38  Aligned_cols=180  Identities=27%  Similarity=0.400  Sum_probs=163.9

Q ss_pred             HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhc---cCCcHHHHHh
Q 026839           24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAV---TDHLPHGLLD  100 (232)
Q Consensus        24 ~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~---~~~~~~~l~~  100 (232)
                      .+.+++|+++|++||||+|||||+|||+|++.|++||+|||++|+|+.+|||++|++|++++.+|+.   +++..+++++
T Consensus         7 ~~~i~~a~~~L~~G~vv~~PTdTvYgL~~~~~n~~Av~ri~~iK~R~~~Kpl~ll~~~~~~l~~~~~~~~~~~~~~~l~~   86 (190)
T PRK10634          7 GDAIAAAVDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANYEQLKPYIDDSMLTDAQRETIF   86 (190)
T ss_pred             HHHHHHHHHHHHCCCEEEEeCCchhhhhcCCCCHHHHHHHHHHhCCCCCCCcEEEECCHHHHHHHHHhcCCCHHHHHHHH
Confidence            5689999999999999999999999999999999999999999999999999999999999999986   4566778999


Q ss_pred             ccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHHHh-hhccccE
Q 026839          101 SLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFEN-LWERCAC  179 (232)
Q Consensus       101 ~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~~~-~~~~vd~  179 (232)
                      +|||||+|+|+++++  .++++++++.++||||||+|+++++|++.+|.||++||||+||++++++.+++.+ +.+++| 
T Consensus        87 ~~wPGPlTlil~~~~--~~p~~l~~~~~tigvRiP~~~~~~~ll~~~g~Pl~~TSAN~sG~~~~~~~~~i~~~~~~~v~-  163 (190)
T PRK10634         87 SCWPGPVTFVFPAPA--TTPRWLTGRFDSLAVRVTDHPLVVALCQAYGKPLVSTSANLSGLPPCRTVEEVRAQFGAAFP-  163 (190)
T ss_pred             HhCCCCEEEEEECCC--CCCHHHcCCCCeEEEECCCCHHHHHHHHHhCCcEEECCcccCCCCCCCCHHHHHHHhCCCcE-
Confidence            999999999999864  5788999999999999999999999999999999999999999999999999765 546788 


Q ss_pred             EEcCcccCCCCCCCeEEEcccCCceEEEecC
Q 026839          180 VYDGGVLPSGRAGSTVVDLTRLGKFKILRPG  210 (232)
Q Consensus       180 ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G  210 (232)
                      ++|+|.... ..||||||+++ +  +|+|+|
T Consensus       164 i~dg~~~~~-~~pSTIvd~~~-~--~ilR~G  190 (190)
T PRK10634        164 VVPGETGGR-LNPSEIRDALT-G--ELFRQG  190 (190)
T ss_pred             EEcCCCCCC-CCCCeEEECCC-C--eEEeCC
Confidence            588886543 37999999985 3  899998

>PF01300 Sua5_yciO_yrdC: Telomere recombination; InterPro: IPR006070 The YrdC family of hypothetical proteins are widely distributed in eukaryotes and prokaryotes and occur as: (i) independent proteins, (ii) with C-terminal extensions, and (iii) as domains in larger proteins, some of which are implicated in regulation []

Probab=100.00  E-value=1.8e-53  Score=353.52  Aligned_cols=176  Identities=40%  Similarity=0.694  Sum_probs=152.7

Q ss_pred             HHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhc--cCCcHHHHHhccCCCCeEE
Q 026839           32 QALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAV--TDHLPHGLLDSLLPGPVTV  109 (232)
Q Consensus        32 ~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~--~~~~~~~l~~~~~PgplT~  109 (232)
                      |+|++||+|++||||+|||+|+++|++|++|||++|+|+.+|||++||+|++|+.+|+.  +++...+++++|||||+|+
T Consensus         1 e~Lk~G~vvi~PTdT~ygl~~~~~n~~av~ri~~iK~R~~~Kpl~ll~~~~~~l~~~~~~~~~~~~~~l~~~~wPgp~t~   80 (179)
T PF01300_consen    1 EILKAGGVVIYPTDTVYGLGCDAFNPEAVERIYKIKQRPKNKPLILLVSSIEQLEEYVDSPVSPKARRLLEKFWPGPLTL   80 (179)
T ss_dssp             -HHHTT-EEEEEESSSEEEEEETTSHHHHHHHHHHHTSSTTS--EEEESSHHHHHHHEETT--HHHHHHHHHCHSSSEEE
T ss_pred             CccccCCEEEEECCCEEEEEEecCCHHHHHHHHHhhcccCCCCEEEEECCHHHHHHHhhccccHHHHHHHHhccccCeeE
Confidence            58999999999999999999999999999999999999999999999999999999997  5666789999999999999


Q ss_pred             EEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHHH-hhhccccEEEcCcccCC
Q 026839          110 VLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFE-NLWERCACVYDGGVLPS  188 (232)
Q Consensus       110 Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~~-~~~~~vd~ivd~g~~~~  188 (232)
                      |+++++ ..++++++++.+|||||+|+|+++++|++.+|.||++||||+||+++..+.+++. ++.+.+|+|+|+|....
T Consensus        81 I~~~~~-~~l~~~~~~~~~ti~vRip~~~~~~~l~~~~g~Pl~~TSAN~sg~~~~~~~~~i~~~~~~~vd~iv~~~~~~~  159 (179)
T PF01300_consen   81 ILPAKK-ENLPKYLTSKRGTIGVRIPDHPILRELLEALGGPLISTSANLSGEPPATDFEEIIERFGDKVDLIVDGGEIPS  159 (179)
T ss_dssp             EEEEGT-TCSHHHHHTTTSEEEEECHCSHHHHHHHHHHTS-EEEEESSSTTSSCTTSHHHHHHHHTTTSSEEEECCHHSS
T ss_pred             eecccc-ccCChhhcCCCCeEEEEecChHHHHHHHHhcCCceEecccccccCCCCCCHHHHHHHhccCceEEEECCCCCC
Confidence            999853 2488899999999999999999999999999999999999999999999999975 56678999999996544


Q ss_pred             CCCCCeEEEcccCCceEEEecC
Q 026839          189 GRAGSTVVDLTRLGKFKILRPG  210 (232)
Q Consensus       189 ~~~~STIvd~~~~~~~~ilR~G  210 (232)
                      + .+|||||+++ ++++|+|+|
T Consensus       160 ~-~~STIvd~~~-~~~~ilR~G  179 (179)
T PF01300_consen  160 G-QPSTIVDLTN-GKPKILREG  179 (179)
T ss_dssp             S-S--EEEETTS-SSSEEEE--
T ss_pred             C-CCCeEEEeeC-CceEEEeeC
Confidence            4 7999999996 789999998

The YrdC protein, which consists solely of this domain, forms an alpha/beta twisted open-sheet structure composed of seven alpha helices and seven beta strands []. YrdC from Escherichia coli preferentially binds to double-stranded RNA and DNA. YrdC is predicted to be an rRNA maturation factor, as deletions in its gene lead to immature ribosomal 30S subunits and, consequently, fewer translating ribosomes []. Therefore, YrdC may function by keeping an rRNA structure needed for proper processing of 16S rRNA, especially at lower temperatures. Sua5 is an example of a multi-domain protein that contains an N-terminal YrdC-like domain and a C-terminal Sua5 domain. Sua5 was identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a translation initiation defect in the cytochrome c gene and is required for normal growth in yeast; however its exact function remains unknown []. HypF is involved in the synthesis of the active site of [NiFe]-hydrogenases [].; PDB: 3L7V_A 1KK9_A 1K7J_A 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A 2EQA_A ....

>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF

Probab=100.00  E-value=7.2e-41  Score=326.55  Aligned_cols=199  Identities=26%  Similarity=0.369  Sum_probs=172.1

Q ss_pred             ceEeeccccccCCCCHHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhh
Q 026839            9 QVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF   88 (232)
Q Consensus         9 ~~~~~~~~~~i~~~~~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~   88 (232)
                      ++|+.+..+++  ...+.+++|+++|++|+||++||||+|||+||++|++||+|||++|+|+ +|||+||++|++++++|
T Consensus       149 ~l~l~~~~g~~--~~~~~i~~aa~~L~~G~IVaipt~ggy~L~cda~n~~AV~rLr~~K~Rp-~KPlavmv~d~~~~~~~  225 (711)
T TIGR00143       149 QLNFVSRGGHA--EQDDALLEAAKLLKKGKIIAIKGIGGFHLACDARNDEVVERLRLRKNRP-LKPFAVMSPDLESAEQH  225 (711)
T ss_pred             EEEEEeCCCCc--cchHHHHHHHHHHhCCCEEEEEcCCcceeecCCCCHHHHHHHHHHhCCC-CCCEEEEECCHHHHHHH
Confidence            46666666552  2457899999999999999999999999999999999999999999998 69999999999999999


Q ss_pred             hccCCcHHHHHhccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChH
Q 026839           89 AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVK  168 (232)
Q Consensus        89 ~~~~~~~~~l~~~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~  168 (232)
                      +.+++...+++.+ ||+|++ ++++++...++..++++.+|||||+|+||+++.|++.+|.||++||||+||+|++++.+
T Consensus       226 ~~~~~~e~~lL~~-~~~Piv-ll~~~~~~~l~~~v~~~~~tiGvrlP~~pl~~~Ll~~~g~PLv~TSAN~SGep~~~~~~  303 (711)
T TIGR00143       226 AELNNLECELLTS-PAAPIV-LLRKKPDIKLAPNIAPNLPTIGVMLPYTPLHHLLLQLLAFPLVMTSANLPGLPMAIDNA  303 (711)
T ss_pred             hcCCHHHHHHHHc-CCCCEE-EEECCCCCCCChhhcCCCCEEEEEcCCCHHHHHHHHHcCCcEEECccCCCCCCCCCCHH
Confidence            9988777788854 789985 57775422367788899999999999999999999999999999999999999999988


Q ss_pred             HH-HhhhccccEEEcCcccCCCCCCCeEEEcccCCceEEEecCCCh
Q 026839          169 DF-ENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAK  213 (232)
Q Consensus       169 ~~-~~~~~~vd~ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~  213 (232)
                      ++ +++.+.+|++++++....++.+||||+++. +++.|+|+|-..
T Consensus       304 e~~~~l~~~~D~~L~~~r~i~~~~dsSVV~~~~-~~~~ilR~~RG~  348 (711)
T TIGR00143       304 EILDKLQGIADGFLVHNRRIVNRVDDSVVQHVA-GEILFLRRSRGF  348 (711)
T ss_pred             HHHHHhcCCccEEEeCCCCcCCCCCCceEEEEC-CeeEEEeccCCC
Confidence            86 567778999887665334568999999986 689999999875

A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.

>KOG3051 consensus RNA binding/translational regulation protein of the SUA5 family [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=5.7e-32  Score=229.50  Aligned_cols=186  Identities=37%  Similarity=0.573  Sum_probs=162.8

Q ss_pred             HHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhcc--CCcHHHHHhcc
Q 026839           25 AHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVT--DHLPHGLLDSL  102 (232)
Q Consensus        25 ~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~--~~~~~~l~~~~  102 (232)
                      ..+..+.-+-+.++.+++||+|+||+++++.|..++.+||++|+||.++|+++.+.+..+++.....  +.....|++.+
T Consensus        17 ~~~~aa~~~r~~~~~va~pT~t~yg~g~~~~~~~av~~v~~~K~rP~~~pL~~~~~s~~~~~~v~~~~i~~~~~~L~~~l   96 (261)
T KOG3051|consen   17 ALYDAALIVRRTDKRVAFPTETVYGLGASAYNEVAVLRLYKLKNRPADNPLIVHVSSVDQLKRVVAINIPSLYLPLASYL   96 (261)
T ss_pred             hhhhhhhheeccCCceecCchhhhhhhhhhhccccchhhhhhhcCccccchhhccccHHHHHHHHhhcchhhhhHHHhhc
Confidence            3344444556699999999999999999999999999999999999999999999999999886643  34556789999


Q ss_pred             CCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCC-CChHHHHhhhccccEEE
Q 026839          103 LPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSS-VSVKDFENLWERCACVY  181 (232)
Q Consensus       103 ~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~-~~~~~~~~~~~~vd~iv  181 (232)
                      ||||+|++++..+. .+++.++++..++|+|+|+|+++++++..+|.|++.||||.|+.+.. +..+++++++.++++|+
T Consensus        97 ~PGPltlll~~~~~-~l~~~~~~~~~svAvRiP~~~~a~~li~~~~~Pla~tSAN~Ssr~s~tlai~~~~Dl~~~i~lil  175 (261)
T KOG3051|consen   97 WPGPLTLLLERADE-CLSKLTNPGLPSVAVRIPDHPVASALIPKLGVPLALTSANASSRPSPTLAIHVFADLQPKIPLIL  175 (261)
T ss_pred             CCCceEEEeecchh-hccccccCCCcceeEEccCCHHHHHHHHHhCCCccccccccccCCCCcchhhhhhhhccchhhee
Confidence            99999999998652 58899999999999999999999999999999999999999999985 45667788999999999


Q ss_pred             cCcccCCCCCCCeEEEcccCCceEEEecCCCh
Q 026839          182 DGGVLPSGRAGSTVVDLTRLGKFKILRPGSAK  213 (232)
Q Consensus       182 d~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~  213 (232)
                      |+|.|..+ +.||+++... +++.|+|+|.+.
T Consensus       176 DgG~c~~g-~~~~~~~g~~-~p~~i~~pgG~~  205 (261)
T KOG3051|consen  176 DGGACGSG-VESTVVEGST-DPVDILRPGGIT  205 (261)
T ss_pred             cCcccccC-cCceeecccc-CcceeeccCCcc
Confidence            99998766 6899999876 578899988765

>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]

Probab=99.96  E-value=1.2e-27  Score=227.70  Aligned_cols=198  Identities=27%  Similarity=0.421  Sum_probs=161.2

Q ss_pred             ceEeeccccccCCCCHHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhh
Q 026839            9 QVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF   88 (232)
Q Consensus         9 ~~~~~~~~~~i~~~~~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~   88 (232)
                      ++|+.+++++++....+++.++++.|+.|+|++++.-++|+|+||++|.++|++|++.|+|| .|||++|+.|++++++|
T Consensus       182 ~~~l~~~~g~~~~~~~~ai~~a~klL~~G~IvAIKGiGGFhLaCda~~~eaV~~LR~rk~Rp-~KPFAvM~kdl~~i~~~  260 (750)
T COG0068         182 HLFLVNHDGEAIAEANEAIRKAAKLLKVGKIVAIKGIGGFHLACDARNEEAVAKLRKRKNRP-LKPFAVMAKDLETIEEF  260 (750)
T ss_pred             CeEEEcCCCcchhhhhHHHHHHHHHHhhCCEEEEeecCceeeeecCCchHHHHHHHHhcCCC-CCCceeeeccHHHHHHh
Confidence            68999988876665556899999999999999999999999999999999999999999999 59999999999999999


Q ss_pred             hccCCcHHHHHhccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHH-hcCCeEEEeCCCCCCCCCCCCh
Q 026839           89 AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIAR-GLESALALTSANLTGQPSSVSV  167 (232)
Q Consensus        89 ~~~~~~~~~l~~~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~-~~g~PL~~TSAN~sG~~~~~~~  167 (232)
                      +.++...++++.+. -.|+ +++++++...++..+.++.++|||++|.+|+++.|++ ....|+++||||+||+|...+.
T Consensus       261 a~~~~~E~~lL~S~-~rPI-Vll~Kk~~~~~~~~iAP~l~~iGVMLPYtpLhhLLl~~~~~~~~VmTSaNl~g~Pm~~dN  338 (750)
T COG0068         261 AEVNDEEEELLTSP-SRPI-VLLKKKKVFLLESNIAPGLHTIGVMLPYTPLHHLLLQESLDIPYVMTSANLPGEPMAIDN  338 (750)
T ss_pred             hccCHHHHHHhcCc-cCce-EEeccccccccccccCCCCCCcceeecCCchhhhhhhhccCceEEEecCCCCCCCcccCC
Confidence            99998888888763 2455 6778765444566688999999999999999999999 7788999999999999988776


Q ss_pred             HH-HHhhhccccEEEcCcccCCCCCCCeEEEcccCCceEEEecC
Q 026839          168 KD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPG  210 (232)
Q Consensus       168 ~~-~~~~~~~vd~ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G  210 (232)
                      ++ ++.+.+-.|+.+.+.+...++..-+||.+.. +...++|+-
T Consensus       339 ~eal~kL~~IADyfL~HNR~I~~r~DDSVVrvV~-g~~~~iRrS  381 (750)
T COG0068         339 EEALEKLKGIADYFLLHNREIVNRCDDSVVRVVA-GRIAFIRRS  381 (750)
T ss_pred             HHHHHHhhhhhheeeecccccccccCCcceeEeC-Cceeeeehh
Confidence            66 4556555676665543333344556666554 444555543

>COG2192 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]

Probab=95.55  E-value=0.24  Score=47.72  Aligned_cols=145  Identities=20%  Similarity=0.230  Sum_probs=97.7

Q ss_pred             HHHHHHHHHhCCCeEE-EecCceEE--------EeccCCChHHHHHHHHHhC-CCCCCCcEEEECCHhhHhhhhccCCcH
Q 026839           26 HAEEAIQALKTGKVIA-VPTDTLYG--------FACDACSSEAVNRIYEIKG-RKHTSPLAICVGDVSDINRFAVTDHLP   95 (232)
Q Consensus        26 ~i~~a~~~L~~G~vi~-~PTdTvYg--------l~~~~~n~~av~rl~~iK~-R~~~Kpl~llv~s~~~l~~~~~~~~~~   95 (232)
                      ..+.+++.|.+|++|. +..--=||        +.+||.++...+||....+ |..=.||+--+- -+...+|.      
T Consensus       379 l~~~va~~LadgkvVgwfqGRmEfGPRALGnRSILadPr~~~~kd~iN~~vK~Re~FrPFAPsiL-~E~~~~~f------  451 (555)
T COG2192         379 LPDRVAELLADGKVVGWFQGRMEFGPRALGNRSILADPRDPGMKDKINLKVKFREGFRPFAPSIL-EEDVERYF------  451 (555)
T ss_pred             HHHHHHHHHhCCCeEEEEeeccccCccccCCceeecCCCChHHHHHHHHHhcccCccCCcCcchh-hhhhhHHh------
Confidence            5788999999999998 45544444        7789999999999998777 998899876543 23344443      


Q ss_pred             HHHHhccCCCC-eEEEEccCCCCc--cccc--cCCCCCeEEEEcCCcHHHHHHHHhc----CC-eEEEeCCCCCCCCCCC
Q 026839           96 HGLLDSLLPGP-VTVVLSRGESSN--LEKS--LNPGLESIGVRVPDSNFVRVIARGL----ES-ALALTSANLTGQPSSV  165 (232)
Q Consensus        96 ~~l~~~~~Pgp-lT~Il~~~~~~~--l~~~--l~~~~~tigiRiP~~~~~~~Ll~~~----g~-PL~~TSAN~sG~~~~~  165 (232)
                          +.-.|-| .|++++.++...  +|..  +.+....--|+=-.+|....||+++    |. -++-||-|..|||..-
T Consensus       452 ----e~~~~sPyM~~~~~~~~~~r~~lpaV~HvDgTaR~QtV~r~~nP~y~~ll~aF~~~TG~gvllNTSFN~~GEPIVc  527 (555)
T COG2192         452 ----ELPSPSPYMTLVFRVREEFRERLPAVTHVDGTARPQTVRRDANPRYYGLLRAFKERTGVGVLLNTSFNVHGEPIVC  527 (555)
T ss_pred             ----hCCCCCCceeeeehhhHHHHhhCCceEeecCCccceeeccccChhHHHHHHHHHHhcCCcEEEecccccCCCceec
Confidence                2223556 566776654211  3322  2223344566777789999999865    43 4788999999999876


Q ss_pred             ChHHHHhhh--ccccEEE
Q 026839          166 SVKDFENLW--ERCACVY  181 (232)
Q Consensus       166 ~~~~~~~~~--~~vd~iv  181 (232)
                      +.+|.-+.|  ..+|..+
T Consensus       528 sp~DA~~~f~~t~~d~Lv  545 (555)
T COG2192         528 SPADAIRTFLSTGLDALV  545 (555)
T ss_pred             CHHHHHHHHHhCCCcEEE
Confidence            777754333  3566554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	232
1jcu_A	208	Solution Structure Of Mth1692 Protein From Methanob		4e-22
3aje_A	352	Crystal Structure Of S. Tokodaii Sua5 Complexed Wit		2e-14
2eqa_A	352	Crystal Structure Of The Hypothetical Sua5 Protein		4e-14
1hru_A	188	The Structure Of The Yrdc Gene Product From E.Coli		2e-09
1kk9_A	221	Crystal Structure Of E. Coli Ycio Length = 221		4e-09
1k7j_A	206	Structural Genomics, Protein Tf1 Length = 206		5e-09
3vth_A	761	Crystal Structure Of Full-Length Hypf In The Phosph		3e-06
3tsp_A	657	Crystal Structure Of E. Coli Hypf Length = 657		2e-05
3tsq_A	658	Crystal Structure Of E. Coli Hypf With Atp And Carb		2e-05
4g9i_A	772	Crystal Structure Of T.Kodakarensis Hypf Length = 7		3e-05

>pdb|1JCU|A Chain A, Solution Structure Of Mth1692 Protein From Methanobacterium Thermoautotrophicum Length = 208

Iteration: 1
 Score =  101 bits (251), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 65/192 (33%), Positives = 101/192 (52%), Gaps = 6/192 (3%)
Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
           EEAI  ++ G ++  PTDT+YG   +A   +AV R++ +KGR    P++ICV  V +I R
Sbjct: 17  EEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPHKPVSICVSCVDEIPR 76
Query: 88  FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
           F+        L++ +LPGP TVVL R E   +   +  G   +G+RVPD    R IA   
Sbjct: 77  FSRPSGDAMELMERILPGPYTVVLERNEL--IPDVITGGSSRVGIRVPDDEICRRIAARF 134
Query: 148 ESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKIL 207
              +  TSAN++G+P S  +++     +    V D G        STV+DLT +   ++L
Sbjct: 135 --PVTATSANISGKPPSPRLEEIVRDLDAVDLVLDAGDC-LDMEPSTVIDLT-VNPPRVL 190
Query: 208 RPGSAKEETIAI 219
           R G    + + +
Sbjct: 191 RRGKGPLDPVLL 202

>pdb|3AJE|A Chain A, Crystal Structure Of S. Tokodaii Sua5 Complexed With L-Threonine And Amppnp Length = 352

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 60/207 (28%), Positives = 101/207 (48%), Gaps = 10/207 (4%)
Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
           A   ++ G  +A PT+T+YG   +A    A  +I++ K R   +PL + + D + +  F 
Sbjct: 20  AADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIADFNQL--FE 77
Query: 90  VTDHLPHGLLD---SLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARG 146
           V   +P  +L+    + PGP+T VL + E   + K +  GL+++ VR+P       + R 
Sbjct: 78  VAKDIPDKVLEIAQIVWPGPLTFVLKKTE--RVPKEVTAGLDTVAVRMPAHPIALQLIRE 135
Query: 147 LESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFK 205
               +A  SANL  +PS    +D   +L  R   + DGG    G   ST++++T +    
Sbjct: 136 SGVPIAAPSANLATRPSPTKAEDVIVDLNGRVDVIIDGGHTFFG-VESTIINVT-VEPPV 193
Query: 206 ILRPGSAKEETIAILEKHSLVEEPAAG 232
           +LRPG    E +  L    ++ E A G
Sbjct: 194 LLRPGPFTIEELKKLFGEIVIPEFAQG 220

>pdb|2EQA|A Chain A, Crystal Structure Of The Hypothetical Sua5 Protein From Sulfolobus Tokodaii Length = 352

Iteration: 1
 Score = 74.7 bits (182), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 60/207 (28%), Positives = 100/207 (48%), Gaps = 10/207 (4%)
Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
           A   ++ G  +A PT+T+YG   +A    A  +I++ K R   +PL + + D + +  F 
Sbjct: 20  AADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIADFNQL--FE 77
Query: 90  VTDHLPHGLLD---SLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARG 146
           V   +P  +L+    + PGP+T VL + E   + K +  GL+++ VR P       + R 
Sbjct: 78  VAKDIPDKVLEIAQIVWPGPLTFVLKKTE--RVPKEVTAGLDTVAVRXPAHPIALQLIRE 135
Query: 147 LESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFK 205
               +A  SANL  +PS    +D   +L  R   + DGG    G   ST++++T +    
Sbjct: 136 SGVPIAAPSANLATRPSPTKAEDVIVDLNGRVDVIIDGGHTFFG-VESTIINVT-VEPPV 193
Query: 206 ILRPGSAKEETIAILEKHSLVEEPAAG 232
           +LRPG    E +  L    ++ E A G
Sbjct: 194 LLRPGPFTIEELKKLFGEIVIPEFAQG 220

>pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product From E.Coli Length = 188

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/144 (30%), Positives = 67/144 (46%), Gaps = 7/144 (4%)
Query: 30  AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF- 88
           AI  L   +VIA PT+ ++G  CD  S  AV R+ E+K R     L +   +   +  + 
Sbjct: 13  AIDVLNEERVIAYPTEAVFGVGCDPDSETAVXRLLELKQRPVDKGLILIAANYEQLKPYI 72
Query: 89  ---AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIAR 145
               +TD +    + S  PGPVT V     ++   + L    +S+ VRV D   V  + +
Sbjct: 73  DDTXLTD-VQRETIFSRWPGPVTFVFPAPATT--PRWLTGRFDSLAVRVTDHPLVVALCQ 129
Query: 146 GLESALALTSANLTGQPSSVSVKD 169
                L  TSANL+G P   +V +
Sbjct: 130 AYGKPLVSTSANLSGLPPCRTVDE 153

>pdb|1KK9|A Chain A, Crystal Structure Of E. Coli Ycio Length = 221

Iteration: 1
 Score = 58.2 bits (139), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 47/175 (26%), Positives = 78/175 (44%), Gaps = 9/175 (5%)
Query: 29  EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF 88
           +A++ ++ G VI  PTD+ Y   C      A  RI  I+         +   D+S+++ +
Sbjct: 34  QAVEIVRKGGVIVYPTDSGYALGCKIEDKNAXERICRIRQLPDGHNFTLXCRDLSELSTY 93
Query: 89  AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLE 148
           +  D++   L  +  PG  T +L +G      + L    ++IG RVP +   + +   L 
Sbjct: 94  SFVDNVAFRLXKNNTPGNYTFIL-KGTKEVPRRLLQEKRKTIGXRVPSNPIAQALLEALG 152
Query: 149 SALALTSANLTGQPSSVSVKDFENLWERCACVYD----GGVLPSGRAGSTVVDLT 199
                TS  L G  S  +  D E + +R     D    GG L  G+  +TV+DLT
Sbjct: 153 EPXLSTSLXLPG--SEFTESDPEEIKDRLEKQVDLIIHGGYL--GQKPTTVIDLT 203

>pdb|1K7J|A Chain A, Structural Genomics, Protein Tf1 Length = 206

Iteration: 1
 Score = 57.8 bits (138), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 47/175 (26%), Positives = 78/175 (44%), Gaps = 9/175 (5%)
Query: 29  EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF 88
           +A++ ++ G VI  PTD+ Y   C      A  RI  I+         +   D+S+++ +
Sbjct: 19  QAVEIVRKGGVIVYPTDSGYALGCKIEDKNAXERICRIRQLPDGHNFTLXCRDLSELSTY 78
Query: 89  AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLE 148
           +  D++   L  +  PG  T +L +G      + L    ++IG RVP +   + +   L 
Sbjct: 79  SFVDNVAFRLXKNNTPGNYTFIL-KGTKEVPRRLLQEKRKTIGXRVPSNPIAQALLEALG 137
Query: 149 SALALTSANLTGQPSSVSVKDFENLWERCACVYD----GGVLPSGRAGSTVVDLT 199
                TS  L G  S  +  D E + +R     D    GG L  G+  +TV+DLT
Sbjct: 138 EPXLSTSLXLPG--SEFTESDPEEIKDRLEKQVDLIIHGGYL--GQKPTTVIDLT 188

>pdb|3VTH|A Chain A, Crystal Structure Of Full-Length Hypf In The Phosphate- And Nucleotide-Bound Form Length = 761

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 37/151 (24%), Positives = 75/151 (49%), Gaps = 7/151 (4%)
Query: 32  QALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVT 91
           +ALK GK++A+     +  A +A   EAV  +   K +++  P A+ + DV ++ ++ + 
Sbjct: 210 KALKEGKIVAIKGIGGFHLAVNALDDEAVATLRRRK-KRYGKPFAVMMRDVEEVKKYCIV 268
Query: 92  DHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESAL 151
                 LL S    P+ ++  +GE   L K +   L+++GV +P +    ++   ++  +
Sbjct: 269 SPEEERLLLSQRR-PIVLLKKKGE--KLAKGIADDLDTLGVMLPYAPIHYLLMEEIDFPI 325
Query: 152 ALTSANLTGQPSSVSVKDFENLWERCACVYD 182
            +TS N++ +P     KD E   E+   + D
Sbjct: 326 VMTSGNVSEEP---ICKDNEEALEKLKDIAD 353

>pdb|3TSP|A Chain A, Crystal Structure Of E. Coli Hypf Length = 657

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 39/135 (28%), Positives = 63/135 (46%), Gaps = 15/135 (11%)
Query: 35  KTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKH--TSPLAICVGDVSDINRFAVTD 92
           K G ++A+     +  ACDA +S AV     ++ RKH    PLA+            V D
Sbjct: 122 KMGNIVAIKGIGGFHLACDARNSNAVA---TLRARKHRPAKPLAV---------MLPVAD 169
Query: 93  HLPHGLLDSLL-PGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESAL 151
            LP      L  P    V++ +     L   + PGL  +GV +P +    ++ + L+  L
Sbjct: 170 GLPDAARQLLTTPAAPIVLVDKKYVPELCDDIAPGLNEVGVMLPANPLQHLLLQELQCPL 229
Query: 152 ALTSANLTGQPSSVS 166
            +TS NL+G+P ++S
Sbjct: 230 VMTSGNLSGKPPAIS 244

>pdb|3TSQ|A Chain A, Crystal Structure Of E. Coli Hypf With Atp And Carbamoyl Phosphate Length = 658

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 39/135 (28%), Positives = 63/135 (46%), Gaps = 15/135 (11%)
Query: 35  KTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKH--TSPLAICVGDVSDINRFAVTD 92
           K G ++A+     +  ACDA +S AV     ++ RKH    PLA+            V D
Sbjct: 122 KMGNIVAIKGIGGFHLACDARNSNAVA---TLRARKHRPAKPLAV---------MLPVAD 169
Query: 93  HLPHGLLDSLL-PGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESAL 151
            LP      L  P    V++ +     L   + PGL  +GV +P +    ++ + L+  L
Sbjct: 170 GLPDAARQLLTTPAAPIVLVDKKYVPELCDDIAPGLNEVGVMLPANPLQHLLLQELQCPL 229
Query: 152 ALTSANLTGQPSSVS 166
            +TS NL+G+P ++S
Sbjct: 230 VMTSGNLSGKPPAIS 244

>pdb|4G9I|A Chain A, Crystal Structure Of T.Kodakarensis Hypf Length = 772

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 51/187 (27%), Positives = 83/187 (44%), Gaps = 16/187 (8%)
Query: 29  EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGR--KHTSPLAICVGDVSDIN 86
           +A + +  G ++A+        ACDA + E V    E++ R  +   P AI   D+  + 
Sbjct: 205 KAAELIDKGYIVAIKGIGGIHLACDAANEEVVA---ELRRRTFRPQKPFAIXAKDIETVK 261
Query: 87  RFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARG 146
            FA         L S     +T  L + E   L ++L PGL +IGV +P +    ++   
Sbjct: 262 SFAYVSPEEEEELTSYRRPIIT--LRKKEPFPLPENLAPGLHTIGVXLPYAGTHYILFHW 319
Query: 147 LESALAL-TSANLTGQPSSVSVKDFENLWERCACVYDGGVLPS----GRAGSTVVDLTRL 201
            ++ + + TSAN  G P    VKD E  +E    V D  +L +     RA  +V+     
Sbjct: 320 SKTPVYVXTSANYPGXP---XVKDNERAFEELKDVADYFLLHNRKILNRADDSVIRFVD- 375
Query: 202 GKFKILR 208
           GK  ++R
Sbjct: 376 GKRAVIR 382

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	232
1k7j_A	206	Protein YCIO, protein TF1; structural genomics, X-	1e-47
1jcu_A	208	Conserved protein MTH1692; mixed alpha-beta struct	7e-47
1hru_A	188	YRDC gene product; protein folding, structural gen	2e-35
2eqa_A	352	Hypothetical protein ST1526; YRDC/RIBB fold, YRDC	3e-35
3vth_A	761	Hydrogenase maturation factor; carbamoyltransfer,	5e-27
3l7v_A	295	Putative uncharacterized protein SMU.1377C; transc	3e-25
3ttc_A	657	HYPF, transcriptional regulatory protein; Zn finge	3e-25
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05

>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY crystallography, putative translation factor, PSI, protein structure initiative; 1.40A {Escherichia coli} SCOP: d.115.1.1 PDB: 1kk9_A Length = 206

 Score =  154 bits (393), Expect = 1e-47
 Identities = 44/185 (23%), Positives = 84/185 (45%), Gaps = 6/185 (3%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
            +A++ ++ G VI  PTD+ Y   C      A+ RI  I+         +   D+S+++ 
Sbjct: 18  NQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELST 77

Query: 88  FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
           ++  D++   L+ +  PG  T +L   +     + L    ++IG+RVP +   + +   L
Sbjct: 78  YSFVDNVAFRLMKNNTPGNYTFILKGTKEV-PRRLLQEKRKTIGMRVPSNPIAQALLEAL 136

Query: 148 ESALALTSANLTGQPSSVSVKD--FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFK 205
              +  TS  L G   + S  +   + L ++   +  GG    G+  +TV+DLT      
Sbjct: 137 GEPMLSTSLMLPGSEFTESDPEEIKDRLEKQVDLIIHGG--YLGQKPTTVIDLTD-DTPV 193

Query: 206 ILRPG 210
           ++R G
Sbjct: 194 VVREG 198

>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural genomics; NMR {Methanothermobacterthermautotrophicus} SCOP: d.115.1.1 Length = 208

 Score =  153 bits (389), Expect = 7e-47
 Identities = 65/195 (33%), Positives = 101/195 (51%), Gaps = 8/195 (4%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
           EEAI  ++ G ++  PTDT+YG   +A   +AV R++ +KGR    P++ICV  V +I R
Sbjct: 17  EEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPHKPVSICVSCVDEIPR 76

Query: 88  FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
           F+        L++ +LPGP TVVL R  +  +   +  G   +G+RVPD    R IA   
Sbjct: 77  FSRPSGDAMELMERILPGPYTVVLER--NELIPDVITGGSSRVGIRVPDDEICRRIAARF 134

Query: 148 ESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKIL 207
              +  TSAN++G+P S  +++     +    V D G        STV+DLT     ++L
Sbjct: 135 --PVTATSANISGKPPSPRLEEIVRDLDAVDLVLDAGDCLDM-EPSTVIDLTV-NPPRVL 190

Query: 208 RPGSAKEETIAILEK 222
           R G    +   +L +
Sbjct: 191 RRGKGPLD--PVLLR 203

>1hru_A YRDC gene product; protein folding, structural genomics, RNA, SUA5, PSI, protein structure initiative, midwest center for structural genomics; 2.00A {Escherichia coli} SCOP: d.115.1.1 Length = 188

 Score =  123 bits (311), Expect = 2e-35
 Identities = 49/185 (26%), Positives = 72/185 (38%), Gaps = 11/185 (5%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
             AI  L   +VIA PT+ ++G  CD  S  AV R+ E+K R     L +   +   +  
Sbjct: 11  AAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANYEQLKP 70

Query: 88  FAVTDHLP---HGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIA 144
           +     L       + S  PGPVT V      +   + L    +S+ VRV D   V  + 
Sbjct: 71  YIDDTMLTDVQRETIFSRWPGPVTFVFPA--PATTPRWLTGRFDSLAVRVTDHPLVVALC 128

Query: 145 RGLESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGK 203
           +     L  TSANL+G P   +V +           V  G         S + D    G 
Sbjct: 129 QAYGKPLVSTSANLSGLPPCRTVDEVRAQFGAAFPVV-PGETGGRLNP-SEIRDALT-G- 184

Query: 204 FKILR 208
            ++ R
Sbjct: 185 -ELFR 188

>2eqa_A Hypothetical protein ST1526; YRDC/RIBB fold, YRDC domain, SUA5 domain, structural genomics, NPPSFA; HET: AMP; 1.80A {Sulfolobus tokodaii} PDB: 3aje_A* 4e1b_A* Length = 352

 Score =  126 bits (320), Expect = 3e-35
 Identities = 52/201 (25%), Positives = 91/201 (45%), Gaps = 10/201 (4%)

Query: 22  ATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGD 81
                 + A   ++ G  +A PT+T+YG   +A    A  +I++ K R   +PL + + D
Sbjct: 12  PEIDKIKIAADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIAD 71

Query: 82  VSDINRFAVT-DHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFV 140
            + +   A         +   + PGP+T VL +  +  + K +  GL+++ VR+P     
Sbjct: 72  FNQLFEVAKDIPDKVLEIAQIVWPGPLTFVLKK--TERVPKEVTAGLDTVAVRMPAHPIA 129

Query: 141 RVIARGLESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAG--STVVD 197
             + R     +A  SANL  +PS    +D   +L  R   + DGG   +   G  ST+++
Sbjct: 130 LQLIRESGVPIAAPSANLATRPSPTKAEDVIVDLNGRVDVIIDGG--HTF-FGVESTIIN 186

Query: 198 LTRLGKFKILRPGSAKEETIA 218
           +T      +LRPG    E + 
Sbjct: 187 VTV-EPPVLLRPGPFTIEELK 206

>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of [NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET: APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB: 3vti_A Length = 761

 Score =  107 bits (269), Expect = 5e-27
 Identities = 39/193 (20%), Positives = 79/193 (40%), Gaps = 5/193 (2%)

Query: 20  RPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICV 79
               +   +   +ALK GK++A+     +  A +A   EAV  +   K R    P A+ +
Sbjct: 198 EGCFDDEIKCVAKALKEGKIVAIKGIGGFHLAVNALDDEAVATLRRRKKRYGK-PFAVMM 256

Query: 80  GDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNF 139
            DV ++ ++ +       LL S    P+ ++  +GE   L K +   L+++GV +P +  
Sbjct: 257 RDVEEVKKYCIVSPEEERLLLS-QRRPIVLLKKKGEK--LAKGIADDLDTLGVMLPYAPI 313

Query: 140 VRVIARGLESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDL 198
             ++   ++  + +TS N++ +P     ++  E L +              R   +V   
Sbjct: 314 HYLLMEEIDFPIVMTSGNVSEEPICKDNEEALEKLKDIADVFLLNNRDIVNRIDDSVTSF 373

Query: 199 TRLGKFKILRPGS 211
               +  I R   
Sbjct: 374 NAGAERIIRRARG 386

>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A {Streptococcus mutans} Length = 295

 Score = 99.7 bits (248), Expect = 3e-25
 Identities = 24/195 (12%), Positives = 48/195 (24%), Gaps = 18/195 (9%)

Query: 19  VRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAIC 78
           +        E        G VI  PT   Y         + + R +E K R    P  + 
Sbjct: 39  IHWDGNLSQEGFEIVKGEGGVIVCPTKVGYI--IMTSDKKGLERKFEAKKRNRNKPGVVL 96

Query: 79  VGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVL---------------SRGESSNLEKSL 123
            G + ++   A                 + +                   G    +    
Sbjct: 97  CGSMEELRALAQLTPEIDAFYQKHWDEDILLGCILPWKAEAYEKLKAYGDGREELMTDIR 156

Query: 124 NPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKD-FENLWERCACVYD 182
                 I   V      + +       +  +SAN +G+ +   V+   E +      V +
Sbjct: 157 GTSCFVIKFGVAGEQIAKEMWEKEGRMVYASSANPSGKGNRGKVEGIGERIESMVDLVIE 216

Query: 183 GGVLPSGRAGSTVVD 197
                +       ++
Sbjct: 217 ADDYVASIQPDKTIE 231

>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide binding, hydrogenase maturation factor transferase; HET: ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A* 3ttf_A* 3ttd_A 3tsq_A Length = 657

 Score =  102 bits (255), Expect = 3e-25
 Identities = 44/175 (25%), Positives = 72/175 (41%), Gaps = 14/175 (8%)

Query: 9   QVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKG 68
            +   +         EA  + AI  LK G ++A+     +  ACDA +S AV  +   K 
Sbjct: 98  YLEWVSHGE--HAEQEAALQAAIAQLKMGNIVAIKGIGGFHLACDARNSNAVATLRARKH 155

Query: 69  RKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLE 128
           R    PLA+ +     +   A        LL +  P    V++ +     L   + PGL 
Sbjct: 156 RPA-KPLAVMLPVADGLPDAA------RQLLTT--PAAPIVLVDKKYVPELCDDIAPGLN 206

Query: 129 SIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWERCACVYDG 183
            +GV +P +    ++ + L+  L +TS NL+G+P        E   E    + DG
Sbjct: 207 EVGVMLPANPLQHLLLQELQCPLVMTSGNLSGKP---PAISNEQALEDLQGIADG 258

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

 Score = 43.3 bits (101), Expect = 4e-05
 Identities = 34/298 (11%), Positives = 84/298 (28%), Gaps = 101/298 (33%)

Query: 5   LENGQVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYG--------FACDACS 56
           L N    V  K  + R        +A+  L+  K +      + G         A D C 
Sbjct: 119 LYND-NQVFAKYNVSRLQPYLKLRQALLELRPAKNV-----LIDGVLGSGKTWVALDVCL 172

Query: 57  SEAV-----NRIYEIK-GRK--------------------------HTSPLAICVGDVSD 84
           S  V      +I+ +                               H+S + + +  +  
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232

Query: 85  -INRFAVTDHLPHGLL-----------DSLLPGPVTVVLSRGES---------------S 117
            + R   +    + LL           ++       ++ +R +                 
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292

Query: 118 NLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSV-----KDFEN 172
           +   +L P  E   +       ++ +    +    L    LT  P  +S+     +D   
Sbjct: 293 HHSMTLTPD-EVKSL------LLKYLDCRPQD---LPREVLTTNPRRLSIIAESIRDGLA 342

Query: 173 LWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKE--ETIAILEKHSLVEE 228
            W+     +      +    +T+++ +      +L P   ++  + +++    + +  
Sbjct: 343 TWDN----WK---HVNCDKLTTIIESS----LNVLEPAEYRKMFDRLSVFPPSAHIPT 389

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	232
1k7j_A	206	Protein YCIO, protein TF1; structural genomics, X-	100.0
2eqa_A	352	Hypothetical protein ST1526; YRDC/RIBB fold, YRDC	100.0
1jcu_A	208	Conserved protein MTH1692; mixed alpha-beta struct	100.0
1hru_A	188	YRDC gene product; protein folding, structural gen	100.0
3vth_A	761	Hydrogenase maturation factor; carbamoyltransfer,	100.0
3l7v_A	295	Putative uncharacterized protein SMU.1377C; transc	100.0
3ttc_A	657	HYPF, transcriptional regulatory protein; Zn finge	100.0
4g9i_A	772	Hydrogenase maturation protein HYPF; zinc finger,	100.0
3ven_A	576	O-carbamoyltransferase TOBZ; antibiotic biosynthes	95.8

>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY crystallography, putative translation factor, PSI, protein structure initiative; 1.40A {Escherichia coli} SCOP: d.115.1.1 PDB: 1kk9_A

Probab=100.00  E-value=9.6e-54  Score=361.44  Aligned_cols=187  Identities=24%  Similarity=0.430  Sum_probs=170.7

Q ss_pred             HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhccCCcHHHHHhccC
Q 026839           24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGLLDSLL  103 (232)
Q Consensus        24 ~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~~~~l~~~~~  103 (232)
                      ++.+++|+++|++||||+|||||+|||+||++|++|++|||++|+|+.+|||++||+|++++.+|+.+++..+++++++|
T Consensus        14 ~~~i~~a~~~L~~G~iva~pTdtvygL~~da~n~~Av~rl~~~K~R~~~kPl~v~~~~~~~~~~~~~~~~~~~~ll~~~~   93 (206)
T 1k7j_A           14 QRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTYSFVDNVAFRLMKNNT   93 (206)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEETTEEEEEEETTCHHHHHHHHHHHTCCTTCCCEEECSSHHHHHHHBCCCHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHCCCEEEEECCCEEEEEEeCCCHHHHHHHHHHcCCCCCCCEEEEECCHHHHHHHhcCCHHHHHHHHcCC
Confidence            57899999999999999999999999999999999999999999999999999999999999999988888889999999


Q ss_pred             CCCeEEEEccCCCCcccc-ccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCC-CCChHHHH-hhhccccEE
Q 026839          104 PGPVTVVLSRGESSNLEK-SLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPS-SVSVKDFE-NLWERCACV  180 (232)
Q Consensus       104 PgplT~Il~~~~~~~l~~-~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~-~~~~~~~~-~~~~~vd~i  180 (232)
                      |||+|+|+++++  .+++ .++++.+|||||+|+||++++|++.+|.||++||||+||++. +++.+++. ++.+.+|+|
T Consensus        94 PGp~T~il~~~~--~~p~~~~~~~~~tvgvR~P~~p~~~~Ll~~~g~Pl~~TSAN~sG~~~p~~~~~~~~~~l~~~vd~i  171 (206)
T 1k7j_A           94 PGNYTFILKGTK--EVPRRLLQEKRKTIGMRVPSNPIAQALLEALGEPMLSTSLMLPGSEFTESDPEEIKDRLEKQVDLI  171 (206)
T ss_dssp             SSSEEEEEEBCT--TSCGGGSCTTTCEEEEECCCSHHHHHHHHHHCSCEEEEECBCTTCSSBCCCHHHHHHHHTTTCSEE
T ss_pred             CCCeEEEEECCC--CCCHHHcCCCCCeEEEEecCCHHHHHHHHHhCCceEECCcccCCCCCCCCCHHHHHHHhCCCCcEE
Confidence            999999999865  4777 567789999999999999999999999999999999999976 68888864 566789999


Q ss_pred             EcCcccCCCCCCCeEEEcccCCceEEEecCCChHH
Q 026839          181 YDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEE  215 (232)
Q Consensus       181 vd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~~  215 (232)
                      +|+|.+  +..+|||||+++ ++++|+|+|.++.+
T Consensus       172 ld~g~~--~~~~STVvd~~~-~~~~ilR~G~g~~~  203 (206)
T 1k7j_A          172 IHGGYL--GQKPTTVIDLTD-DTPVVVREGVGDVK  203 (206)
T ss_dssp             EECCCC--CSCCCEEEECGG-GCCEEEECCSSCSG
T ss_pred             EeCCCC--CCCCCeEEEeeC-CcEEEEEeCCCChH
Confidence            999965  347999999986 67899999998753

>2eqa_A Hypothetical protein ST1526; YRDC/RIBB fold, YRDC domain, SUA5 domain, structural genomics, NPPSFA; HET: AMP; 1.80A {Sulfolobus tokodaii} PDB: 3aje_A* 4e1b_A*

Probab=100.00  E-value=1.8e-53  Score=383.99  Aligned_cols=194  Identities=27%  Similarity=0.457  Sum_probs=177.0

Q ss_pred             HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhh-ccCCcHHHHHhcc
Q 026839           24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA-VTDHLPHGLLDSL  102 (232)
Q Consensus        24 ~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~-~~~~~~~~l~~~~  102 (232)
                      ++.+++|+++|++||+|+|||||+|||+||++|++||+|||++|+||.+|||++||+|++++.+|+ .+++..++++++|
T Consensus        14 ~~~i~~aa~~L~~G~iVa~PTeTvYGLg~da~n~~AV~rI~~~K~Rp~~kPliv~v~d~~~l~~~~~~i~~~~~~Ll~~f   93 (352)
T 2eqa_A           14 IDKIKIAADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIADFNQLFEVAKDIPDKVLEIAQIV   93 (352)
T ss_dssp             HHHHHHHHHHHHTTCCEEECCSSSCEEEEETTCHHHHHHHHHHHTCCTTSCCEEECSSHHHHHHHEESCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCEEEEECCCEeEEEEeCCCHHHHHHHHHHcCCCCCCCEEEEECCHHHHHHHHHhCCHHHHHHHHhC
Confidence            578999999999999999999999999999999999999999999999999999999999999999 7788889999999


Q ss_pred             CCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHH-HhhhccccEEE
Q 026839          103 LPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDF-ENLWERCACVY  181 (232)
Q Consensus       103 ~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~-~~~~~~vd~iv  181 (232)
                      ||||+|+|+++++  .++++++++.+|||||+|+||++++|++.+|.||++||||+||++++++.+++ +++.+.+|+|+
T Consensus        94 wPGPlTlIlp~~~--~lp~~v~~g~~tvgvRvP~~p~~~~Ll~~~g~PL~atSAN~SG~p~~t~~~~v~~~l~~~vd~iL  171 (352)
T 2eqa_A           94 WPGPLTFVLKKTE--RVPKEVTAGLDTVAVRMPAHPIALQLIRESGVPIAAPSANLATRPSPTKAEDVIVDLNGRVDVII  171 (352)
T ss_dssp             CSSSEEEEEEECT--TSCHHHHTTCSEEEEECCCCHHHHHHHHHHTSCEEECBSSCTTSCCCCSHHHHHHHHTTTSSEEE
T ss_pred             CCCCEEEEEECCC--cCCHhHcCCCCeEEEEccCcHHHHHHHHHhCCcEEECccccCCCCCCCCHHHHHHHhcCcCCEEe
Confidence            9999999999865  58899999999999999999999999999999999999999999999999886 45777899999


Q ss_pred             cCcccCCCCCCCeEEEcccCCceEEEecCCChHHHH-HHHh
Q 026839          182 DGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETI-AILE  221 (232)
Q Consensus       182 d~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~~~~-~~l~  221 (232)
                      |+|.+..+ .+|||||+++ ++++|+|+|.++.+.+ +++.
T Consensus       172 dgg~~~~g-~~STVvd~~~-~~~~iLR~G~i~~e~i~~~l~  210 (352)
T 2eqa_A          172 DGGHTFFG-VESTIINVTV-EPPVLLRPGPFTIEELKKLFG  210 (352)
T ss_dssp             ECCCCSSC-SCCEEEECSC-CC-EEEECCSSCHHHHHHHCT
T ss_pred             cCCccCCC-CCCeeEECCC-CceEEEcCCCCCHHHHHHHhC
Confidence            99986444 6999999986 6789999999986554 4443

>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural genomics; NMR {Methanothermobacterthermautotrophicus} SCOP: d.115.1.1

Probab=100.00  E-value=1.8e-53  Score=360.25  Aligned_cols=192  Identities=34%  Similarity=0.568  Sum_probs=173.9

Q ss_pred             ccCCCC--HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhccCCcH
Q 026839           18 LVRPAT--EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLP   95 (232)
Q Consensus        18 ~i~~~~--~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~~   95 (232)
                      ++++.+  .+.+++|+++|++||||+|||||+|||+||++|++|++|||++|+|+.+|||++||+|++++.+|+.+++..
T Consensus         5 ~~~~~~~~~~~i~~a~~~L~~G~vVa~pTdtvygL~~da~n~~Av~rl~~~K~R~~~kPl~v~v~~~~~~~~~~~~~~~~   84 (208)
T 1jcu_A            5 KITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPHKPVSICVSCVDEIPRFSRPSGDA   84 (208)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTCEEECCCSSSCEEEEETTSHHHHHHHHHHCCSCTTSCCEEECSCTTTSTTTEECCHHH
T ss_pred             EecCCCCCHHHHHHHHHHHHCCCEEEEECCCEEEEEEeCCCHHHHHHHHHHhCCCCCCCEEEEeCCHHHHHHHhcCCHHH
Confidence            344433  467999999999999999999999999999999999999999999999999999999999999999888888


Q ss_pred             HHHHhccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHHHhhhc
Q 026839           96 HGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWE  175 (232)
Q Consensus        96 ~~l~~~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~~~~~~  175 (232)
                      ++++++|||||+|+|+++++  .++++++++.+|||||+|+||++++|++.+  ||++||||+||++++++.+++.+.++
T Consensus        85 ~~ll~~~wPgp~T~il~~~~--~~p~~v~~~~~tvgvR~P~~p~~~~Ll~~~--Pl~~TSAN~sG~p~~~~~~~~~~~l~  160 (208)
T 1jcu_A           85 MELMERILPGPYTVVLERNE--LIPDVITGGSSRVGIRVPDDEICRRIAARF--PVTATSANISGKPPSPRLEEIVRDLD  160 (208)
T ss_dssp             HHHHHHSCSSSEEEEEEECS--CCCHHHHTTTTEEEEECCSCHHHHHHHHHS--CEEEEECCSSSCCSCSCHHHHHHHSS
T ss_pred             HHHHHhcCCCCeEEEEeCCc--cCCHhhcCCCCeEEEEeCCCHHHHHHHHHh--HHHccCcccCCCCCCCCHHHHHHHhC
Confidence            89999999999999999865  588899999999999999999999999999  99999999999999999999754338


Q ss_pred             cccEEEcCcccCCCCCCCeEEEcccCCceEEEecCCChHH
Q 026839          176 RCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEE  215 (232)
Q Consensus       176 ~vd~ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~~  215 (232)
                      .+|+|+|+|.+.. ..+|||||+++ ++++|+|+|.++.+
T Consensus       161 ~vd~ild~g~~~~-~~~STVvd~~~-~~~~ilR~G~~~~~  198 (208)
T 1jcu_A          161 AVDLVLDAGDCLD-MEPSTVIDLTV-NPPRVLRRGKGPLD  198 (208)
T ss_dssp             SSEECCSSCCCSC-SCCCEEECCCS-SSCCEEECCCSSCC
T ss_pred             cCCEEEeCCCccC-CCCCEEEEeeC-CcEEEEecCCCCHH
Confidence            8999999997543 46999999986 67899999998763

>1hru_A YRDC gene product; protein folding, structural genomics, RNA, SUA5, PSI, protein structure initiative, midwest center for structural genomics; 2.00A {Escherichia coli} SCOP: d.115.1.1

Probab=100.00  E-value=3.1e-51  Score=341.60  Aligned_cols=178  Identities=27%  Similarity=0.391  Sum_probs=161.8

Q ss_pred             HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhc---cCCcHHHHHh
Q 026839           24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAV---TDHLPHGLLD  100 (232)
Q Consensus        24 ~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~---~~~~~~~l~~  100 (232)
                      .+.+++|+++|++||||+|||||+|||+||++|++|++|||++|+|+.+|||++||+|++++.+|+.   +++..+++++
T Consensus         7 ~~~i~~a~~~L~~G~iva~ptdt~ygL~~da~~~~av~rl~~~K~R~~~kPl~v~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (188)
T 1hru_A            7 RDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANYEQLKPYIDDTMLTDVQRETIF   86 (188)
T ss_dssp             HHHHHHHHHHHHTTCCEEEECSSSEEEEECTTCHHHHHHHHHHHTCCGGGCCEEEESSHHHHGGGCCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCEEEEeCCCEeeeEEcCCCHHHHHHHHHHcCCCCCCCEEEEeCCHHHHHHHHhhcCCCHHHHHHHH
Confidence            4678999999999999999999999999999999999999999999999999999999999999997   6767778999


Q ss_pred             ccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHHH-hhhccccE
Q 026839          101 SLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFE-NLWERCAC  179 (232)
Q Consensus       101 ~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~~-~~~~~vd~  179 (232)
                      ++||||+|+|+++++  .++++++++.+|||||+|+||+++.|++.+|.||++||||+||+|++++.+++. ++.+.+ +
T Consensus        87 ~~~pgP~tlil~~~~--~~p~~v~~~~~tvgvR~p~~p~~~~Ll~~~g~Pl~~TSaN~sG~p~~~~~~~~~~~l~~~v-~  163 (188)
T 1hru_A           87 SRWPGPVTFVFPAPA--TTPRWLTGRFDSLAVRVTDHPLVVALCQAYGKPLVSTSANLSGLPPCRTVDEVRAQFGAAF-P  163 (188)
T ss_dssp             TTCSSSEEEEEECCT--TSCHHHHTTSSEEEEEECCCHHHHHHHHHHTSCEEEEESCCTTSCCCCSHHHHHHHHCTTS-C
T ss_pred             hCCCCCEEEEEECCC--CCCHhHcCCCCeEEEEcCCCHHHHHHHHHhCCeEEEccCCCCCCCCCCCHHHHHHHhCCCE-E
Confidence            999999999999864  588899999999999999999999999999999999999999999999999975 455678 8


Q ss_pred             EEcCcccCCCCCCCeEEEcccCCceEEEe
Q 026839          180 VYDGGVLPSGRAGSTVVDLTRLGKFKILR  208 (232)
Q Consensus       180 ivd~g~~~~~~~~STIvd~~~~~~~~ilR  208 (232)
                      |+|+|.+..+ .+|||||+++ +  +|+|
T Consensus       164 ildgg~~~~~-~~STIvd~~~-~--~ilR  188 (188)
T 1hru_A          164 VVPGETGGRL-NPSEIRDALT-G--ELFR  188 (188)
T ss_dssp             BCCCCCCSSC-CCCEEEETTT-S--SBCC
T ss_pred             EEeCCCCCCC-CCCeEEECcC-C--EEEC
Confidence            8999876434 6999999985 3  6666

>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of [NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET: APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB: 3vti_A

Probab=100.00  E-value=4.9e-45  Score=356.76  Aligned_cols=195  Identities=21%  Similarity=0.317  Sum_probs=173.8

Q ss_pred             ceEeeccccccCCCCHHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhh
Q 026839            9 QVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF   88 (232)
Q Consensus         9 ~~~~~~~~~~i~~~~~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~   88 (232)
                      ++|+.+..+     ..+.+++|+++|++||||++||||+|||+||++|++||+|||++|+|+ +|||+||++|++++.+|
T Consensus       192 ~l~l~~~~~-----~~~~i~~aa~~L~~G~IVa~pt~t~YgL~cda~n~~AV~rL~~~K~Rp-~KPl~vmv~dl~~l~~~  265 (761)
T 3vth_A          192 SLSFVGEGC-----FDDEIKCVAKALKEGKIVAIKGIGGFHLAVNALDDEAVATLRRRKKRY-GKPFAVMMRDVEEVKKY  265 (761)
T ss_dssp             CEEEESSCC-----CSCHHHHHHHHHHTTCCEEEECSSSEEEECBTTCHHHHHHHHHHHTCC-SSCCCEECSSHHHHHHH
T ss_pred             eeEEeCCCC-----chHHHHHHHHHHHcCCEEEEECCcEEEEEecCCCHHHHHHHHHHhCCC-CCCeEEEeCCHHHHHHH
Confidence            567766554     345799999999999999999999999999999999999999999999 99999999999999999


Q ss_pred             hccCCcHHHHHhccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChH
Q 026839           89 AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVK  168 (232)
Q Consensus        89 ~~~~~~~~~l~~~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~  168 (232)
                      +.+++..++++++ ||||+| |+++++. .+++.++++.+|||||+|+||+++.|++.+|.||++||||+||+|++++.+
T Consensus       266 ~~v~~~~~~ll~~-~pgPit-lL~~~~~-~lp~~v~~~~~tvGvRlP~~pl~~~Ll~~~g~PLv~TSAN~SG~p~~~~~~  342 (761)
T 3vth_A          266 CIVSPEEERLLLS-QRRPIV-LLKKKGE-KLAKGIADDLDTLGVMLPYAPIHYLLMEEIDFPIVMTSGNVSEEPICKDNE  342 (761)
T ss_dssp             BCCCHHHHHHHHS-TTCCEE-EEEBCSS-CCCTTSSTTCSEEEEECCCSHHHHHHHHHCSSCEECEESSSTTSCCCCSHH
T ss_pred             ccCCHHHHHHHhC-CCCCEE-EEECCCC-CCCHhHcCCCCeEEEEecCCHHHHHHHHHcCCeEEEcCcccCCCCCCCCHH
Confidence            9988888899988 999999 5777542 688899999999999999999999999999999999999999999999998


Q ss_pred             HH-HhhhccccEEEcCcccCCCCCCCeEEEcccCCceEEEecCCCh
Q 026839          169 DF-ENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAK  213 (232)
Q Consensus       169 ~~-~~~~~~vd~ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~  213 (232)
                      ++ +++.+.+|+|+|+|.....+.+|||||+++ ++++|+|+|..+
T Consensus       343 e~~~~l~~~vD~iLd~~r~i~~~~~STVvd~~~-~~~~iLR~grG~  387 (761)
T 3vth_A          343 EALEKLKDIADVFLLNNRDIVNRIDDSVTSFNA-GAERIIRRARGY  387 (761)
T ss_dssp             HHHHHTTTTCSEEEEESSCCSSCCCCCEECEET-TEECCSBCCTTT
T ss_pred             HHHHHccCcCCEEEECCCCccCCCCCeEEEEEC-CcEEEEecCCCC
Confidence            86 457788999999874223457999999986 689999999865

>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A {Streptococcus mutans}

Probab=100.00  E-value=5.2e-46  Score=327.44  Aligned_cols=172  Identities=15%  Similarity=0.180  Sum_probs=145.6

Q ss_pred             CCCCHHHHHHHHHHHh-CCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhccCCcHHHH
Q 026839           20 RPATEAHAEEAIQALK-TGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLPHGL   98 (232)
Q Consensus        20 ~~~~~~~i~~a~~~L~-~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~~~~l   98 (232)
                      +..+.+.+++|+++|+ +||||+|||||+|||+|  +|++||+|||++|+|+.+|||++||+|++++.+|+.+++..+++
T Consensus        39 ~~~~~~~i~~Aa~~L~~~GgIVa~PTdTvYGL~c--~n~~AV~rL~~iK~Rp~~KPl~vmv~dl~~l~~~~~v~~~~~~L  116 (295)
T 3l7v_A           39 IHWDGNLSQEGFEIVKGEGGVIVCPTKVGYIIMT--SDKKGLERKFEAKKRNRNKPGVVLCGSMEELRALAQLTPEIDAF  116 (295)
T ss_dssp             EECCSSCCHHHHHHHHSTTCEEEEEETTEEEEEE--SSHHHHHHHHHHHTCCTTSCCEEECSSHHHHHHHBCCCHHHHHH
T ss_pred             ccCChHHHHHHHHHHHHCCCEEEEECCCEEEEEE--cCHHHHHHHHHHcCCCCCCCEEEEeCCHHHHHHHhcCCHHHHHH
Confidence            3444567899999999 99999999999999999  89999999999999999999999999999999999988888899


Q ss_pred             HhccCCCCeEE--EEccCCC--Cccc-------cccCCCCCe----EEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCC
Q 026839           99 LDSLLPGPVTV--VLSRGES--SNLE-------KSLNPGLES----IGVRVPDSNFVRVIARGLESALALTSANLTGQPS  163 (232)
Q Consensus        99 ~~~~~PgplT~--Il~~~~~--~~l~-------~~l~~~~~t----igiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~  163 (232)
                      +++|||||+|+  |+++++.  ..++       ..++++.+|    ||||+|+||+++.|++.+|.||++||||+||+++
T Consensus       117 l~~~wPGPiTlT~ILp~k~~a~~~lp~~~~~~~~~v~~g~~t~~~~VGVRvP~~pl~~~Ll~~~g~PLvaTSAN~SGep~  196 (295)
T 3l7v_A          117 YQKHWDEDILLGCILPWKAEAYEKLKAYGDGREELMTDIRGTSCFVIKFGVAGEQIAKEMWEKEGRMVYASSANPSGKGN  196 (295)
T ss_dssp             HHHHHHHTCCEEEEEEBCHHHHHHHHHTCSCTHHHHSCTTSEEEEEESSCHHHHHHHHHHHHHHCCCCEEEECC-----C
T ss_pred             HHhcCCCCceeeEEEECCccccccCCcccccchhhccCCCCCcceeeEEEeCCCHHHHHHHHHcCCCeEECCcccCCCCC
Confidence            99999999965  9996431  1244       567888999    9999999999999999999999999999999999


Q ss_pred             CCChHHH-HhhhccccEEEcCcccCCCCCCC
Q 026839          164 SVSVKDF-ENLWERCACVYDGGVLPSGRAGS  193 (232)
Q Consensus       164 ~~~~~~~-~~~~~~vd~ivd~g~~~~~~~~S  193 (232)
                      +++.+++ +++.+.+|+|+|+|.+..+.+||
T Consensus       197 ~~~~ee~~~~L~~~vD~iLd~G~~~~~~~Ps  227 (295)
T 3l7v_A          197 RGKVEGIGERIESMVDLVIEADDYVASIQPD  227 (295)
T ss_dssp             TTCGGGSCHHHHHHSSEEEECHHHHHHTCTT
T ss_pred             CCCHHHHHHHhcCcCcEEEeCCCccCCCCCC
Confidence            9999886 56778899999998643333343

>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide binding, hydrogenase maturation factor transferase; HET: ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A* 3ttf_A* 3ttd_A 3tsq_A

Probab=100.00  E-value=2.1e-42  Score=332.93  Aligned_cols=190  Identities=25%  Similarity=0.331  Sum_probs=164.9

Q ss_pred             ce-EeeccccccCCCCHHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhh
Q 026839            9 QV-SVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR   87 (232)
Q Consensus         9 ~~-~~~~~~~~i~~~~~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~   87 (232)
                      ++ |+.+..+   ....+.+++|+++|++||||++||||+|||+||++|++||+|||++|+|+ +|||+|||+|++    
T Consensus        98 ~l~~l~~~~~---~~~~~~i~~aa~~L~~G~IVa~pt~ggYgL~cda~n~~AV~rL~~~K~Rp-~KPlavm~~dl~----  169 (657)
T 3ttc_A           98 YLEWVSHGEH---AEQEAALQAAIAQLKMGNIVAIKGIGGFHLACDARNSNAVATLRARKHRP-AKPLAVMLPVAD----  169 (657)
T ss_dssp             CEEEEETTEE---EEHHHHHHHHHHHHHTTCCEEEECSSSEEEEEETTCHHHHHHHHHHTTCS-SSCCCEECSCCT----
T ss_pred             cceEeecCCC---CcchHHHHHHHHHHHcCCEEEEECCceeEEEeecCCHHHHHHHHHHhCCC-CCCEEEEECChH----
Confidence            45 6655544   12357899999999999999999999999999999999999999999999 799999999998    


Q ss_pred             hhccCCcHHHHHhccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCCh
Q 026839           88 FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSV  167 (232)
Q Consensus        88 ~~~~~~~~~~l~~~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~  167 (232)
                        .+++..++++++ ||||+|+|+++++ ..+++.++++.+|||||+|+||+++.|++.+|.||++||||+||+|++++.
T Consensus       170 --~v~~~~~~ll~~-~pgPiTli~~~~~-~~lp~~v~~~~~tvGvRlP~~pl~~~Ll~~~g~PLv~TSAN~SG~p~~~~~  245 (657)
T 3ttc_A          170 --GLPDAARQLLTT-PAAPIVLVDKKYV-PELCDDIAPGLNEVGVMLPANPLQHLLLQELQCPLVMTSGNLSGKPPAISN  245 (657)
T ss_dssp             --TSCHHHHHHHTS-TTCCEEEEEGGGC-TTSCTTSSTTCSEEEEECCCSHHHHHHHHHHCSCEEEEECCCTTSCCCCSH
T ss_pred             --HCCHHHHHHHhc-CCCCEEEEEeCCc-CCCCHHHCCCCCceEEEeCCCHHHHHHHHHcCCCeEECCcccCCCCCCCCH
Confidence              245566789988 9999999988753 248889999999999999999999999999999999999999999999999


Q ss_pred             HHH-HhhhccccEEEcCcccCCCCCCCeEEEcccCCceEEEecCCChH
Q 026839          168 KDF-ENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKE  214 (232)
Q Consensus       168 ~~~-~~~~~~vd~ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~  214 (232)
                      +++ +++.+.+|+|+|+|.....+.+||||+   + +++|+|+|.++.
T Consensus       246 ~e~~~~l~~~vD~iLd~gr~i~~~~dsSVV~---~-~~~ilRrgrG~~  289 (657)
T 3ttc_A          246 EQALEDLQGIADGFLIHNRDIVQRMDDSVVR---E-SGEMLRRSRGYV  289 (657)
T ss_dssp             HHHHHHHTTTCSEEEEESSCCCSCCCCCEEE---T-TCCEEECCTTTT
T ss_pred             HHHHHHhcCCCeEEEECCCcccCCCCCcEEE---C-CCeEEEcCCCCC
Confidence            887 456678999999985444568999999   2 579999999763

>4g9i_A Hydrogenase maturation protein HYPF; zinc finger, ATP binding, carbamoyla transferase; 4.50A {Thermococcus kodakarensis}

Probab=100.00  E-value=2.1e-36  Score=296.74  Aligned_cols=198  Identities=22%  Similarity=0.268  Sum_probs=172.0

Q ss_pred             ceEeeccccccCCCCHHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhh
Q 026839            9 QVSVENKAGLVRPATEAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF   88 (232)
Q Consensus         9 ~~~~~~~~~~i~~~~~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~   88 (232)
                      ++|+.+..++...  .+.+++|+++|++|+||++||+|+|||+|||+|++||+|||++|+|| +|||+||++|++++++|
T Consensus       187 ~l~l~~~~~~~~~--~~~i~~a~~~l~~G~iva~kg~ggy~L~cda~n~~aV~~lr~~K~Rp-~kP~avm~~d~~~~~~~  263 (772)
T 4g9i_A          187 SYRLYTSDGQEIY--GDPLRKAAELIDKGYIVAIKGIGGIHLACDAANEEVVAELRRRTFRP-QKPFAIMAKDIETVKSF  263 (772)
T ss_dssp             CEEEESSSCBCCT--THHHHHHHHHHTTSCCEEECCSSSBEEECCTTCHHHHHHHHHHTTCS-SSCCEEECSSHHHHHHH
T ss_pred             eEEEEcCCCCeec--hHHHHHHHHHHHcCCEEEEecCCeeEEEEecCCHHHHHHHHHhhCCC-CCCcEEEeCCHHHHHHH
Confidence            6788888776544  46899999999999999999999999999999999999999999999 69999999999999999


Q ss_pred             hccCCcHHHHHhccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCC-eEEEeCCCCCCCCCCCCh
Q 026839           89 AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLES-ALALTSANLTGQPSSVSV  167 (232)
Q Consensus        89 ~~~~~~~~~l~~~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~-PL~~TSAN~sG~~~~~~~  167 (232)
                      +.+++...+++.+.|+.++++  ++++...+++.+.++.+|||||+|++|+++.|++.+|. ||++||||+||+|.+++.
T Consensus       264 ~~~~~~e~~~L~s~~~Pivll--~~~~~~~l~~~vap~~~~~Gv~lP~~pl~~lL~~~~~~~~lv~tSaN~sg~P~~~~~  341 (772)
T 4g9i_A          264 AYVSPEEEEELTSYRRPIITL--RKKEPFPLPENLAPGLHTIGVMLPYAGTHYILFHWSKTPVYVMTSANYPGMPMVKDN  341 (772)
T ss_dssp             SCCCHHHHHHHSSTTCCEEEE--ECCSSCCSCTTSCSSCSEEEEECCCSTHHHHHHHSSSSCCCCCEESSCTTSCCBCSH
T ss_pred             hccCchhhhhhccCCCCCEEE--ECCCCCCCChhHCCCCCeEEEEecCCHHHHHHHHhcCCCEEEECcCCCCCCCCccCH
Confidence            999888889998877655544  44444568999999999999999999999999999997 579999999999999998


Q ss_pred             HHH-HhhhccccEEEcCcccCCCCCCCeEEEcccCCceEEEecCCC
Q 026839          168 KDF-ENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSA  212 (232)
Q Consensus       168 ~~~-~~~~~~vd~ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~  212 (232)
                      +++ +++.+.+|+++|++.-...+...+||++.. +.+.+||.+-.
T Consensus       342 ~~a~~~L~~~~D~~L~h~R~I~~~~DDSvv~~~~-~~~~~lRr~RG  386 (772)
T 4g9i_A          342 ERAFEELKDVADYFLLHNRKILNRADDSVIRFVD-GKRAVIRRSRG  386 (772)
T ss_dssp             HHHHHHHTTTCSBEEEESSCCCSCCCCCEECCCS-SSCCBSCCCTT
T ss_pred             HHHHHhhcCcccEEEECCCCccCccCCceEEEEC-CeEEEEecCCC
Confidence            885 678888999999886555666778999886 57788888664

>3ven_A O-carbamoyltransferase TOBZ; antibiotic biosynthesis, substrate assisted catalysis, subst channeling, adenylation; HET: TLA; 1.57A {Streptoalloteichus tenebrarius} PDB: 3veo_A 3ves_A* 3vet_A* 3vew_A* 3ver_A* 3vf4_A* 3vf2_A* 3vex_A* 3vez_A*

Probab=95.80  E-value=0.077  Score=50.45  Aligned_cols=147  Identities=18%  Similarity=0.085  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHhCCCeEE-EecCceE--------EEeccCCChHHHHHHH-HHhCCCCCCCcEEEECCHhhHhhhhccCCc
Q 026839           25 AHAEEAIQALKTGKVIA-VPTDTLY--------GFACDACSSEAVNRIY-EIKGRKHTSPLAICVGDVSDINRFAVTDHL   94 (232)
Q Consensus        25 ~~i~~a~~~L~~G~vi~-~PTdTvY--------gl~~~~~n~~av~rl~-~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~   94 (232)
                      +..+++++.|.+|+||. +-.-.=|        .|.+||.+++..+||. ++|+|..=.||+=.|- .|.+.+|...+. 
T Consensus       397 ~~~~~~A~~la~g~vvgw~qGr~EfGPRALG~RSILadP~~~~~~~~lN~~iK~RE~fRPfAP~vl-~e~a~~~f~~~~-  474 (576)
T 3ven_A          397 NLEREVAALIASGKVVGWAQGRGEVGPRALGQRSLLGSAHSPTMRDHINLRVKDREWWRPFAPSML-RSVSDQVLEVDA-  474 (576)
T ss_dssp             THHHHHHHHHHTTCCEEEECSSCBCSSSCCSSEEEEEESSCSSHHHHHHHTTSCCCTTCCCCEEEE-HHHHHHHBSSCS-
T ss_pred             cHHHHHHHHHhCCCEEEEEecCccccccccccceeecCCCChHHHHHHHHHhcCCCccCCcChhhh-HHHHHHHcCCCC-
Confidence            34688999999999997 4444334        4789999999999999 8999999999987664 677788754321 


Q ss_pred             HHHHHhccCCCCeE-EEEccCC--CCccccccCCCCCe---EEEEcCCcHHHHHHHHhc----CCe-EEEeCCCCCCCCC
Q 026839           95 PHGLLDSLLPGPVT-VVLSRGE--SSNLEKSLNPGLES---IGVRVPDSNFVRVIARGL----ESA-LALTSANLTGQPS  163 (232)
Q Consensus        95 ~~~l~~~~~PgplT-~Il~~~~--~~~l~~~l~~~~~t---igiRiP~~~~~~~Ll~~~----g~P-L~~TSAN~sG~~~  163 (232)
                               |.|+- ++++.++  ...+|.... -.+|   --|.=-.+|...+||+++    |.| |+-||-|..|||.
T Consensus       475 ---------~spyMl~~~~v~~~~r~~ipav~H-vDgTaR~QtV~~~~np~~~~ll~~f~~~TG~pvllNTSfN~~GePi  544 (576)
T 3ven_A          475 ---------DFPYMIMTTKVRAAYAERLPSVVH-EDWSTRPQTVTEASNPRYHRMLTELGDLVGDPVCLNTSFNDRGEPI  544 (576)
T ss_dssp             ---------CCCSSCSCEEBCGGGTTTCTTTSC-TTSEECCEEECTTTCHHHHHHHHHHHHHHSSCEEEEEESSCTTSCC
T ss_pred             ---------CCCceeEeeecCHhHHhhCCcEEe-ccCCccceEECCccCHHHHHHHHHHHHHhCCeEEEECCCCCCCCCC
Confidence                     22221 2223221  123443333 1233   233445688888888865    556 6789999999998


Q ss_pred             CCChHHHHhhh--ccccEEEcC
Q 026839          164 SVSVKDFENLW--ERCACVYDG  183 (232)
Q Consensus       164 ~~~~~~~~~~~--~~vd~ivd~  183 (232)
                      ..+.+|.-+.|  ..+|..+-+
T Consensus       545 V~tp~dA~~~f~~~~lD~Lv~~  566 (576)
T 3ven_A          545 VSSPADALLTFSRLPIDALAVG  566 (576)
T ss_dssp             CCSHHHHHHHHHHTTCSEEEET
T ss_pred             CCCHHHHHHHHHhCCCCEEEEC
Confidence            88888865444  356765533

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	232
d1k7ja_	206	d.115.1.1 (A:) Hypothetical protein YciO {Escheric	6e-27
d1jcua_	208	d.115.1.1 (A:) Hypothetical protein MTH1692 {Archa	1e-26
d1hrua_	186	d.115.1.1 (A:) Hypothetical protein YrdC {Escheric	2e-26

>d1k7ja_ d.115.1.1 (A:) Hypothetical protein YciO {Escherichia coli [TaxId: 562]} Length = 206

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YciO
species: Escherichia coli [TaxId: 562]

 Score =  100 bits (250), Expect = 6e-27
 Identities = 41/185 (22%), Positives = 78/185 (42%), Gaps = 6/185 (3%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
            +A++ ++ G VI  PTD+ Y   C      A+ RI  I+         +   D+S+++ 
Sbjct: 18  NQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELST 77

Query: 88  FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
           ++  D+     L           + +G      + L    ++IG+RVP +   + +   L
Sbjct: 78  YSFVDN-VAFRLMKNNTPGNYTFILKGTKEVPRRLLQEKRKTIGMRVPSNPIAQALLEAL 136

Query: 148 ESALALTSANLTGQPSSVSVKD--FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFK 205
              +  TS  L G   + S  +   + L ++   +  GG    G+  +TV+DLT      
Sbjct: 137 GEPMLSTSLMLPGSEFTESDPEEIKDRLEKQVDLIIHGG--YLGQKPTTVIDLTD-DTPV 193

Query: 206 ILRPG 210
           ++R G
Sbjct: 194 VVREG 198

>d1jcua_ d.115.1.1 (A:) Hypothetical protein MTH1692 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 208

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein MTH1692
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score =  100 bits (248), Expect = 1e-26
 Identities = 65/192 (33%), Positives = 100/192 (52%), Gaps = 6/192 (3%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
           EEAI  ++ G ++  PTDT+YG   +A   +AV R++ +KGR    P++ICV  V +I R
Sbjct: 17  EEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPHKPVSICVSCVDEIPR 76

Query: 88  FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
           F+        L++ +LPGP TVVL R E   +   +  G   +G+RVPD    R IA   
Sbjct: 77  FSRPSGDAMELMERILPGPYTVVLERNE--LIPDVITGGSSRVGIRVPDDEICRRIAA-- 132

Query: 148 ESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKIL 207
              +  TSAN++G+P S  +++     +    V D G        STV+DLT     ++L
Sbjct: 133 RFPVTATSANISGKPPSPRLEEIVRDLDAVDLVLDAGDCLDMEP-STVIDLTV-NPPRVL 190

Query: 208 RPGSAKEETIAI 219
           R G    + + +
Sbjct: 191 RRGKGPLDPVLL 202

>d1hrua_ d.115.1.1 (A:) Hypothetical protein YrdC {Escherichia coli [TaxId: 562]} Length = 186

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YrdC
species: Escherichia coli [TaxId: 562]

 Score = 98.9 bits (245), Expect = 2e-26
 Identities = 43/182 (23%), Positives = 69/182 (37%), Gaps = 5/182 (2%)

Query: 28  EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
             AI  L   +VIA PT+ ++G  CD  S  AV R+ E+K R     L +   +   +  
Sbjct: 9   AAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANYEQLKP 68

Query: 88  FAVTDHLPHGLLDSLLPG-PVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARG 146
           +     L     +++    P  V       +   + L    +S+ VRV D   V  + + 
Sbjct: 69  YIDDTMLTDVQRETIFSRWPGPVTFVFPAPATTPRWLTGRFDSLAVRVTDHPLVVALCQA 128

Query: 147 LESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKI 206
               L  TSANL+G P   +V +    +     V  G         S + D       ++
Sbjct: 129 YGKPLVSTSANLSGLPPCRTVDEVRAQFGAAFPVVPGETGGRLNP-SEIRDAL---TGEL 184

Query: 207 LR 208
            R
Sbjct: 185 FR 186

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	232
d1k7ja_	206	Hypothetical protein YciO {Escherichia coli [TaxId	100.0
d1jcua_	208	Hypothetical protein MTH1692 {Archaeon Methanobact	100.0
d1hrua_	186	Hypothetical protein YrdC {Escherichia coli [TaxId	100.0

>d1k7ja_ d.115.1.1 (A:) Hypothetical protein YciO {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YciO
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.1e-54  Score=365.07  Aligned_cols=193  Identities=23%  Similarity=0.424  Sum_probs=173.2

Q ss_pred             ccCCCC--HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhccCCcH
Q 026839           18 LVRPAT--EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLP   95 (232)
Q Consensus        18 ~i~~~~--~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~~   95 (232)
                      +++|++  ++.+++|+++|++||||+|||||+|||+||++|++|++|||++|+|+.+|||+++++|++++.+|+.+++..
T Consensus         6 ~~~~~~p~~~~i~~a~~~L~~G~vv~~PTdTvYgl~~da~~~~av~~i~~iK~R~~~kpl~vlv~~~~~~~~~~~~~~~~   85 (206)
T d1k7ja_           6 YIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTYSFVDNVA   85 (206)
T ss_dssp             ECCSSSCCHHHHHHHHHHHHTTCCEEEEETTEEEEEEETTCHHHHHHHHHHHTCCTTCCCEEECSSHHHHHHHBCCCHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHHcCCEEEEECCceeEEEEeCCChHHHHHHHHhhccccccccccccCCHHHHHHHhhhhhhh
Confidence            577777  578999999999999999999999999999999999999999999999999999999999999999888888


Q ss_pred             HHHHhccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCC-CCChHHHH-hh
Q 026839           96 HGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPS-SVSVKDFE-NL  173 (232)
Q Consensus        96 ~~l~~~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~-~~~~~~~~-~~  173 (232)
                      ++++++|||||+|+|+++++. ....++.++.++||||+|+|+++++|++.+|+||++||||+||++. .+..+++. .+
T Consensus        86 ~~l~~~~wPgplT~i~~~~~~-~~~~~~~~~~~tv~iRip~~~~~~~Ll~~~~~Pl~sTSAN~sG~~~~~~~~~~i~~~~  164 (206)
T d1k7ja_          86 FRLMKNNTPGNYTFILKGTKE-VPRRLLQEKRKTIGMRVPSNPIAQALLEALGEPMLSTSLMLPGSEFTESDPEEIKDRL  164 (206)
T ss_dssp             HHHHHTSCSSSEEEEEEBCTT-SCGGGSCTTTCEEEEECCCSHHHHHHHHHHCSCEEEEECBCTTCSSBCCCHHHHHHHH
T ss_pred             hhhhccccccceeeeecCCcc-ccchhhccccceeeeeecccchhHHHHHhhcCceeeecccccccccccCCHHHHHHHh
Confidence            899999999999999998653 3456777788999999999999999999999999999999999875 45667775 46


Q ss_pred             hccccEEEcCcccCCCCCCCeEEEcccCCceEEEecCCChH
Q 026839          174 WERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKE  214 (232)
Q Consensus       174 ~~~vd~ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~  214 (232)
                      .+.+|+++|+|..  +..+|||||+++ ++++|+|+|+++.
T Consensus       165 ~~~vd~iid~g~~--~~~pSTIid~~~-~~~~ilR~Ga~~~  202 (206)
T d1k7ja_         165 EKQVDLIIHGGYL--GQKPTTVIDLTD-DTPVVVREGVGDV  202 (206)
T ss_dssp             TTTCSEEEECCCC--CSCCCEEEECGG-GCCEEEECCSSCS
T ss_pred             CCCceEEEeCCCc--CCCCCeEEEEEC-CCeEEEecCCCCc
Confidence            6789999999985  347999999986 6899999999863

>d1jcua_ d.115.1.1 (A:) Hypothetical protein MTH1692 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein MTH1692
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=100.00  E-value=2.1e-54  Score=363.81  Aligned_cols=192  Identities=34%  Similarity=0.565  Sum_probs=175.3

Q ss_pred             ccCCCC--HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhccCCcH
Q 026839           18 LVRPAT--EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVTDHLP   95 (232)
Q Consensus        18 ~i~~~~--~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~~~~~   95 (232)
                      +|++.+  ++.+++|+++|++||||+|||||+|||+|+++|++|++|||++|+|+.+|||+++++|++++.+|+.+++..
T Consensus         5 ~i~~~n~~~~~i~~a~~~L~~Ggivi~PTdtvYgl~c~a~~~~av~~i~~lK~R~~~kp~~vl~~~~~~~~~~~~~~~~~   84 (208)
T d1jcua_           5 KITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPHKPVSICVSCVDEIPRFSRPSGDA   84 (208)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTCEEECCCSSSCEEEEETTSHHHHHHHHHHCCSCTTSCCEEECSCTTTSTTTEECCHHH
T ss_pred             EcCCCCcCHHHHHHHHHHHHcCCEEEEEcCceeeeEEeCCCcHHHHHHHHhhccccccchheecchhhhhhhhhhhhHHH
Confidence            344444  578999999999999999999999999999999999999999999999999999999999999999888888


Q ss_pred             HHHHhccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHHHhhhc
Q 026839           96 HGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFENLWE  175 (232)
Q Consensus        96 ~~l~~~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~~~~~~  175 (232)
                      ++++++|||||+|+|+++++  .+++++.++.++||||+|+|++++.|++.+  ||++||||+||++++.+.+++.+.++
T Consensus        85 ~~l~~~~~pgp~Tii~~~~~--~~~~~~~~~~~~vgiRip~~~~~~~L~~~~--Pl~~TSAN~sG~~~~~~~~ei~~~~~  160 (208)
T d1jcua_          85 MELMERILPGPYTVVLERNE--LIPDVITGGSSRVGIRVPDDEICRRIAARF--PVTATSANISGKPPSPRLEEIVRDLD  160 (208)
T ss_dssp             HHHHHHSCSSSEEEEEEECS--CCCHHHHTTTTEEEEECCSCHHHHHHHHHS--CEEEEECCSSSCCSCSCHHHHHHHSS
T ss_pred             HHhhhcccccccceehhhhh--hhhhhhcCCccceeeeccchHHHHHHhcCC--CcccccccccccccchhhHHHHHHhc
Confidence            89999999999999999864  688888888999999999999999999863  99999999999999999999887778


Q ss_pred             cccEEEcCcccCCCCCCCeEEEcccCCceEEEecCCChHH
Q 026839          176 RCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEE  215 (232)
Q Consensus       176 ~vd~ivd~g~~~~~~~~STIvd~~~~~~~~ilR~G~~~~~  215 (232)
                      .+|+|+|+|.+..+ .+|||||+++ ++++|+|+|+++.+
T Consensus       161 ~vd~iid~g~~~~~-~~STIid~~~-~~~~IlR~G~i~~~  198 (208)
T d1jcua_         161 AVDLVLDAGDCLDM-EPSTVIDLTV-NPPRVLRRGKGPLD  198 (208)
T ss_dssp             SSEECCSSCCCSCS-CCCEEECCCS-SSCCEEECCCSSCC
T ss_pred             CccEEEECCcCCCC-CCCEEEEeeC-CceEEEEeCCCCHH
Confidence            99999999987544 6999999996 68999999999743

>d1hrua_ d.115.1.1 (A:) Hypothetical protein YrdC {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YrdC
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=5.5e-50  Score=330.84  Aligned_cols=178  Identities=26%  Similarity=0.381  Sum_probs=157.6

Q ss_pred             HHHHHHHHHHHhCCCeEEEecCceEEEeccCCChHHHHHHHHHhCCCCCCCcEEEECCHhhHhhhhcc---CCcHHHHHh
Q 026839           24 EAHAEEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVT---DHLPHGLLD  100 (232)
Q Consensus        24 ~~~i~~a~~~L~~G~vi~~PTdTvYgl~~~~~n~~av~rl~~iK~R~~~Kpl~llv~s~~~l~~~~~~---~~~~~~l~~  100 (232)
                      .+.+++|+++|++||||+|||||+|||+|+++|++||+|||++|+|+.+|||++|++|++++.+|+..   .....++++
T Consensus         5 ~d~i~~a~~~L~~G~iv~~PTdt~Ygl~~~~~~~~av~~i~~~K~R~~~kp~~vlv~~~~~~~~~~~~~~~~~~~~~~~~   84 (186)
T d1hrua_           5 RDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANYEQLKPYIDDTMLTDVQRETIF   84 (186)
T ss_dssp             HHHHHHHHHHHHTTCCEEEECSSSEEEEECTTCHHHHHHHHHHHTCCGGGCCEEEESSHHHHGGGCCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCEEEEECCceeEEEEeCCChHHHHHHHHhhhhccccccceeeehhhhhhhhcccchhHHHHHHHHH
Confidence            47899999999999999999999999999999999999999999999999999999999999999852   334567899


Q ss_pred             ccCCCCeEEEEccCCCCccccccCCCCCeEEEEcCCcHHHHHHHHhcCCeEEEeCCCCCCCCCCCChHHHHh-hhccccE
Q 026839          101 SLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESALALTSANLTGQPSSVSVKDFEN-LWERCAC  179 (232)
Q Consensus       101 ~~~PgplT~Il~~~~~~~l~~~l~~~~~tigiRiP~~~~~~~Ll~~~g~PL~~TSAN~sG~~~~~~~~~~~~-~~~~vd~  179 (232)
                      ++||||+|+|++.++  .+++++.++.+|||||+|+|+++++|++.+|.||++||||+||++++.+.+++.+ +.+.+|+
T Consensus        85 ~~~Pgplt~i~~~~~--~~~~~~~~~~~tigvRiP~~~~~~~L~~~~g~Pl~~TSAN~sG~~~~~~~~~i~~~~~~~vd~  162 (186)
T d1hrua_          85 SRWPGPVTFVFPAPA--TTPRWLTGRFDSLAVRVTDHPLVVALCQAYGKPLVSTSANLSGLPPCRTVDEVRAQFGAAFPV  162 (186)
T ss_dssp             TTCSSSEEEEEECCT--TSCHHHHTTSSEEEEEECCCHHHHHHHHHHTSCEEEEESCCTTSCCCCSHHHHHHHHCTTSCB
T ss_pred             hcCCCcceecccccc--CCcchhhhccceeeeeechhHHHHHHHHHhCCcEEecccccCCCCCCCcHHHHHHHhCCCcEE
Confidence            999999999999864  5788888899999999999999999999999999999999999999999999865 4456787


Q ss_pred             EEcCcccCCCCCCCeEEEcccCCceEEEe
Q 026839          180 VYDGGVLPSGRAGSTVVDLTRLGKFKILR  208 (232)
Q Consensus       180 ivd~g~~~~~~~~STIvd~~~~~~~~ilR  208 (232)
                      ++|++..  ...||||||+++ +  +|+|
T Consensus       163 i~~~~~~--~~~~STIid~~~-~--~iiR  186 (186)
T d1hrua_         163 VPGETGG--RLNPSEIRDALT-G--ELFR  186 (186)
T ss_dssp             CCCCCCS--SCCCCEEEETTT-S--SBCC
T ss_pred             EECCCCC--CCCCcEEEECcC-C--EEeC
Confidence            7766543  336899999986 3  5666