Citrus Sinensis ID: 012112

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-
Protein Sequence
MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNASTKITPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVIDS
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccccccEEEEcccccccccHHHHHHHHHHHHHHcccccccEEEEccccccccHHHHHHHHHccccEEcHHHHccccHHHHHccccccHHHHHHHHHHHHHcccccccHHHHcccccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccHHHccccccccccccccccccccccEEEEcccccccccccEEEccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHcccHHHHHHHHHHHHHHcccEEEEcccHHHHHHHHHHHHHHHHHHccccccEEEEEcccccEEHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHccccccccccccccccccccHcccHHHHHHHHHHcccccccEEEEEccccccEcccccccEEEEcccccccccccccHHHHHHHHHHHHHHHHHHccccccEEEEEEcccccccccHHHHHHHHHHHHHHcccccccEEEEEEccccccHHHHHHHHHccccEEEEEEEcccHHHHHHHcccccHHHHHHHHHHHHHcccccEEEEHHHccccccHHHHHHHHHHHHHcccccEEEEEEEEccccHHHHHccccccccccHHHHHHHHHHHHHHHHHcccEEEEEEcccccccccccccEEEccccEEEEccccccccccEEEEcccccHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHccccHHHHHHHHcccHHHHHHHHHHHHHHcccEEEEccccEEcccHHHHHHHHHcccEEEcccEEEEcccccEEEHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mlkstftpifstsplkprtpkLLRSYLIssstseatqpvrqnastkitpqlsptsayihlpfcrkrchycdfpivalgssptqtndddprvSNYIQLLCREIiatkpghktsppletvffgggtpslvpprfVSSILDTLTdkfglsldaeismemdpgtfdARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVenwsldlisslphqtpqmWEESLRrtvgaqpkhvsVYDLQveqgtkfgilytpgefplptetqsanFYRMASSMlssagyrhyeissygedgyeckhnltywknkpfygfglgsasylgglrfsrprrMKEFVDYVQNLEAGLvdcwgnnhidaKDLAMDVLMLSFRTARgvdlksfgetfgcSLVHTLCKAYkpyiesghvICLDEWRRAMNIEEFNSLLLDETkignrlayfrlsdpegfllSNELISHAFGVIDS
Flexible Loop (DISEMBL)
mlkstftpifstsplkprtpkLLRSYLISsstseatqpvrqnastkitpqlsptSAYIHLPFCRKRCHYCDFPIVALgssptqtndddpRVSNYIQLLCREIIAtkpghktsppLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELishafgvids
Low Complexity Region (SEG)
MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNASTKITPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVIDS
Disordered region (IsUnstruct)
******************************************************SAYIHLPFCRKRCHYCDFPIVALG************VSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISM*****TFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVI**
Disordered Region (DISOPRED)
*****FT**********************************************TSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVIDS
Disordered Region (DISEMBL)
MLKSTFTPIFSTSPLKPRTPKLLRSYLISS******************PQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVIDS
Disordered Region (DISPRO)
******TPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNASTKITPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVIDS
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNASTKITPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVIDS
Positional Conservation
no confident homologs detected

---

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	471	2.2.26 [Sep-21-2011]
P73245	412	Oxygen-independent coprop	N/A	no	0.849	0.970	0.394	7e-83
P54304	379	Oxygen-independent coprop	yes	no	0.728	0.905	0.360	7e-57
P52062	378	Oxygen-independent coprop	N/A	no	0.552	0.687	0.367	1e-45
P43899	383	Oxygen-independent coprop	yes	no	0.694	0.853	0.303	1e-44
Q8K928	376	Oxygen-independent coprop	yes	no	0.677	0.848	0.291	3e-37
P71756	375	Probable oxygen-independe	yes	no	0.698	0.877	0.309	6e-37
A4IGH2	444	Radical S-adenosyl methio	yes	no	0.711	0.754	0.265	8e-37
P57615	376	Oxygen-independent coprop	yes	no	0.683	0.856	0.296	2e-36
Q5SUV1	442	Radical S-adenosyl methio	yes	no	0.573	0.610	0.297	3e-36
A5D7B1	442	Radical S-adenosyl methio	yes	no	0.619	0.660	0.283	2e-35

>sp|P73245|Y1917_SYNY3 Oxygen-independent coproporphyrinogen-III oxidase-like protein sll1917 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=sll1917 PE=3 SV=1

 Score =  308 bits (788), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 167/423 (39%), Positives = 236/423 (55%), Gaps = 23/423 (5%)

Query: 51  LSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHK 110
           L PT+AYIH+PFCR+RC YCDFPI   G    Q+   D  V  Y++ +CREI   +    
Sbjct: 7   LMPTAAYIHIPFCRQRCFYCDFPIAVTG---FQSLTLDGWVGEYVEAVCREIAGQQ---H 60

Query: 111 TSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELM 170
              PL+TVFFGGGTPSL+P   +  IL  +    G++ DAEIS+E+DPGTFD  +++   
Sbjct: 61  QGQPLQTVFFGGGTPSLLPITGLEKILLAVDQYLGIAPDAEISIEIDPGTFDQVQLQGYK 120

Query: 171 DLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQ 230
           +LG+NR SLGVQAFQD LL  CGR H  +++ +A+  +    +ENWSLDLI+ LP QT  
Sbjct: 121 NLGINRFSLGVQAFQDNLLALCGRHHRRRDIDQALTAIAKENIENWSLDLITGLPEQTAA 180

Query: 231 MWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS 290
            W  SL   + A PKH+S YDL +E  T F      G+  +P   +SA+FYR    +L+ 
Sbjct: 181 DWHSSLTLALAAGPKHISCYDLVLEPQTVFDKWEQRGKLAVPPPERSADFYRHGQEVLTQ 240

Query: 291 AGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQ 350
           AG+ HYEIS+YG  G++C+HN  YW+N P+YG G+G+ SY+ G RF RPR    +  +++
Sbjct: 241 AGFHHYEISNYGRPGHQCRHNQIYWRNLPYYGLGMGATSYIDGKRFGRPRTRNGYYQWLE 300

Query: 351 NLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGV---DLKSFGETFGCSLVHTLCKAYK 407
           +         G      ++L ++ LML  R   GV    L S  +T    ++ TL     
Sbjct: 301 SWLNQGCPIPGERVSPLENL-LESLMLGLRLTAGVTWAQLPSVNQTEKAKILATLTS--- 356

Query: 408 PYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFG 467
                       + R      E N +L         +  F  +DPEG L SN+++S  F 
Sbjct: 357 ----------FGDRRWLEFYGEDNQMLAPNQTTTETVQRFCFTDPEGILYSNQILSALFA 406

Query: 468 VID 470
            ++
Sbjct: 407 ALE 409

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)
EC: 1EC: .EC: 3EC: .EC: 9EC: 9EC: .EC: -

>sp|P54304|HEMN_BACSU Oxygen-independent coproporphyrinogen-III oxidase 1 OS=Bacillus subtilis (strain 168) GN=hemN PE=2 SV=3

 Score =  221 bits (564), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 131/363 (36%), Positives = 188/363 (51%), Gaps = 20/363 (5%)

Query: 55  SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIAT--KPGHKTS 112
           SAYIH+PFC   CHYCDF    + S P         V  Y+  L +E+I T  K G    
Sbjct: 3   SAYIHIPFCEHICHYCDFNKYFIQSQP---------VDEYLNALEQEMINTIAKTG---Q 50

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLD-AEISMEMDPGTFDARKMEELMD 171
           P L+T+F GGGTP+ +    +  ++D +      S D +E ++E +P    A K++ L +
Sbjct: 51  PDLKTIFIGGGTPTSLSEEQLKKLMDMINRVLKPSSDLSEFAVEANPDDLSAEKLKILKE 110

Query: 172 LGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQM 231
            GVNR+S GVQ F+D+LL+  GR H  K+V+ + E  +  G EN SLDL+  LP QT + 
Sbjct: 111 AGVNRLSFGVQTFEDDLLEKIGRVHKQKDVFTSFERAREIGFENISLDLMFGLPGQTLKH 170

Query: 232 WEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA 291
            E S+   +    +H SVY L VE  T F  L   G   LP + Q A  Y +  S + + 
Sbjct: 171 LEHSINTALSLDAEHYSVYSLIVEPKTVFYNLMQKGRLHLPPQEQEAEMYEIVMSKMEAH 230

Query: 292 GYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQN 351
           G   YEIS++ + G E KHNLTYW N+ ++GFG G+  Y+GG R      +K ++D +  
Sbjct: 231 GIHQYEISNFAKAGMESKHNLTYWSNEQYFGFGAGAHGYIGGTRTVNVGPVKHYIDLIA- 289

Query: 352 LEAGLVDCWGNNH-IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYI 410
            E G    + + H +  ++   + + L  R   GV  K F E +G SL        K   
Sbjct: 290 -EKGF--PYRDTHEVTTEEQIEEEMFLGLRKTAGVSKKRFAEKYGRSLDGLFPSVLKDLA 346

Query: 411 ESG 413
           E G
Sbjct: 347 EKG 349

Anaerobic transformation of coproporphyrinogen-III into protoporphyrinogen-IX.

Bacillus subtilis (strain 168) (taxid: 224308)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: 2

EC: 2

>sp|P52062|YGGW_ECOLI Oxygen-independent coproporphyrinogen-III oxidase-like protein YggW OS=Escherichia coli (strain K12) GN=yggW PE=3 SV=1

 Score =  184 bits (468), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 104/283 (36%), Positives = 162/283 (57%), Gaps = 23/283 (8%)

Query: 50  QLSPTSAYIHLPFCRKRCHYCDFPIVAL-GSSPTQTNDDDPRVSNYIQLLCREI---IAT 105
           +L P S YIH+P+C ++C YCDF   AL G  P   +DD      Y+Q L  ++   +A 
Sbjct: 3   KLPPLSLYIHIPWCVQKCPYCDFNSHALKGEVP---HDD------YVQHLLNDLDNDVAY 53

Query: 106 KPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARK 165
             G +    ++T+F GGGTPSL+    + ++LD +  +  L+ DAEI+ME +PGT +A +
Sbjct: 54  AQGRE----VKTIFIGGGTPSLLSGPAMQTLLDGVRARLPLAADAEITMEANPGTVEADR 109

Query: 166 MEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLP 225
             +    GVNR+S+GVQ+F +E LK  GR HG +E   A ++    G+ +++LDL+  LP
Sbjct: 110 FVDYQRAGVNRISIGVQSFSEEKLKRLGRIHGPQEAKRAAKLASGLGLRSFNLDLMHGLP 169

Query: 226 HQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFP-LPTETQSANFYRMA 284
            Q+ +     LR+ +   P H+S Y L +E  T FG        P LP +    + +   
Sbjct: 170 DQSLEEALGDLRQAIELNPPHLSWYQLTIEPNTLFG-----SRPPVLPDDDALWDIFEQG 224

Query: 285 SSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGS 327
             +L++AGY+ YE S+Y + GY+C+HNL YW+   + G G G+
Sbjct: 225 HQLLTAAGYQQYETSAYAKPGYQCQHNLNYWRFGDYIGIGCGA 267

Escherichia coli (strain K12) (taxid: 83333)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|P43899|Y463_HAEIN Oxygen-independent coproporphyrinogen-III oxidase-like protein HI_0463 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=HI_0463 PE=3 SV=1

 Score =  181 bits (459), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 109/359 (30%), Positives = 186/359 (51%), Gaps = 32/359 (8%)

Query: 49  PQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPG 108
           P+L P S YIH+P+C ++C YCDF      +S  Q +D   +  +YI  L +++ A    
Sbjct: 2   PKLPPLSLYIHIPWCVQKCPYCDF------NSHAQKSDIPEQ--DYIYHLLQDLQADLQR 53

Query: 109 HKTS---PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARK 165
            K S     L ++F GGGTPSL     ++ +L  +  +     + EI++E +PGT +A +
Sbjct: 54  FKDSIQQRKLHSIFIGGGTPSLFSAESIAYLLKEIKKQIDFEDNIEITLEANPGTVEAER 113

Query: 166 MEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLP 225
            +  +  G+ R+S+G+Q+F D+ L+  GR H   E   A+ + K+ G+++++LDL+  LP
Sbjct: 114 FKGYVSAGIMRISMGIQSFNDDKLQRLGRIHNAAEAKSAVNLAKVSGLKSFNLDLMHGLP 173

Query: 226 HQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMAS 285
           +QT +   + LR+ +   P H+S Y L +E  T F   Y P +  LP +    + +    
Sbjct: 174 NQTLEEALDDLRQAIELSPPHISWYQLTIEPNTMFA--YRPPK--LPDDDALWDIFEQGH 229

Query: 286 SMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYL----GGL-RFSRPR 340
            +L+ AGY+ YE S+Y + G++CKHNL YW+   +   G G+   L    G + RFS+ +
Sbjct: 230 QLLTMAGYQQYETSAYAKAGFQCKHNLNYWRFGDYLAIGCGAHGKLTFPTGEITRFSKTK 289

Query: 341 RMKEFV--DYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCS 397
             K ++  +Y+          +   ++   D   +  M  FR    V  + F +  G S
Sbjct: 290 HPKGYLRGEYL----------YEEKNVPKIDRPFEFFMNRFRLLEAVPKQEFEDYTGLS 338

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|Q8K928|Y532_BUCAP Oxygen-independent coproporphyrinogen-III oxidase-like protein BUsg_532 OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=BUsg_532 PE=3 SV=1

 Score =  156 bits (395), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 102/350 (29%), Positives = 167/350 (47%), Gaps = 31/350 (8%)

Query: 50  QLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGH 109
           +L P S YIH+P+C K+C YCDF         +  N        YI  L +++       
Sbjct: 3   KLPPISLYIHIPWCIKKCGYCDFY--------SYVNKSFIPEKEYIDHLLKDLEKDLSLI 54

Query: 110 KTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEEL 169
           K    + ++F GGGTPSL+    +  ++  +  +  +S  AEI++E +P T + ++    
Sbjct: 55  KERE-INSIFIGGGTPSLLKSSSIKKMMREIKKRINISNTAEITIEANPTTLEYKRFFNY 113

Query: 170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTP 229
              G+NR S+GVQ F  +LLK   R +  +E   A+E +K    +N++LD++  LP+Q+ 
Sbjct: 114 KKSGINRFSIGVQTFNSDLLKKIERTYNKREAILAVEEIKKIN-KNFNLDIMYGLPNQSL 172

Query: 230 QMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS 289
           +     L+  V   P H+S Y L +E  T F +     +  LP E             L 
Sbjct: 173 KDVLLDLQYAVKYNPTHISWYQLTLEPNTPFYV----KKLNLPNENNIFKMLVEGEKFLK 228

Query: 290 SAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGL---GSASYLGG--LRFSRPRRMKE 344
            +GY+ YEISSY +  YEC+HNL YW    + G G    G  + + G  +R  + + + +
Sbjct: 229 QSGYKKYEISSYAKLNYECQHNLNYWNFGDYIGIGCSAHGKITQINGDIIRTIKNKNIND 288

Query: 345 FVD--YVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGE 392
           F++  Y+++           N +  KD   +  M  FR  + V  + F E
Sbjct: 289 FMNGKYLKH----------KNFVLKKDKPFEYFMNIFRLYKPVLKRQFEE 328

Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) (taxid: 198804)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|P71756|HEMN_MYCTU Probable oxygen-independent coproporphyrinogen-III oxidase OS=Mycobacterium tuberculosis GN=hemN PE=3 SV=1

 Score =  155 bits (392), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 105/339 (30%), Positives = 156/339 (46%), Gaps = 10/339 (2%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
           P   Y+H+PFC  RC YCDF       +P Q     P           E+ A K     +
Sbjct: 5   PFGVYLHVPFCLTRCGYCDFNTY----TPAQLGGVSPDRWLLALRAELELAAAK---LDA 57

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
           P + TV+ GGGTPSL+    ++++LD + D F L+ DAE+S E +P +        +   
Sbjct: 58  PTVHTVYVGGGTPSLLGGERLATLLDMVRDHFVLAPDAEVSTEANPESTWPEFFATIRAA 117

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           G  RVSLG+Q+    +L +  R H       A       G  + +LDLI   P ++    
Sbjct: 118 GYTRVSLGMQSVAPRVLATLDRVHSPGRAAAAATEAIAEGFTHVNLDLIYGTPGESDDDL 177

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
             S+   V A   HVS Y L VE GT        GE   P +   A+ Y +  + LS+AG
Sbjct: 178 VRSVDAAVQAGVDHVSAYALVVEHGTALARRVRRGELAAPDDDVLAHRYELVDARLSAAG 237

Query: 293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNL 352
           +  YE+S++   G EC+HNL YW    ++G G G+  Y+G    +R   +K    Y + L
Sbjct: 238 FAWYEVSNWCRPGGECRHNLGYWDGGQWWGAGPGAHGYIG---VTRWWNVKHPNTYAEIL 294

Query: 353 EAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFG 391
               +   G   + A  L  + ++L  R  +G+ L   G
Sbjct: 295 AGATLPVAGFEQLGADALHTEDVLLKVRLRQGLPLARLG 333

Anaerobic transformation of coproporphyrinogen-III into protoporphyrinogen-IX.

Mycobacterium tuberculosis (taxid: 1773)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: 2

EC: 2

>sp|A4IGH2|RSAD1_DANRE Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Danio rerio GN=rsad1 PE=2 SV=1

 Score =  155 bits (391), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 94/354 (26%), Positives = 179/354 (50%), Gaps = 19/354 (5%)

Query: 39  VRQNASTKITPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLL 98
           +R  AS KI       S Y+H P+C KRC YC+F      +     +++   ++  +Q  
Sbjct: 29  LRSIASDKIPSHAVEASLYVHWPYCLKRCSYCNF------NKYISRSENHDTMTECLQKE 82

Query: 99  CREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDP 158
              ++      + +    +VFFGGGTPSL  P  ++++L+T+T    LS  AE+++E++P
Sbjct: 83  TETLLKLSQVSRIT----SVFFGGGTPSLAQPSTIAAVLETVTKNSNLSDLAEVTLEVNP 138

Query: 159 GTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAI-EIVKLCGVENWS 217
                 ++++    GVNR S+GVQ+   + L+  GR H ++   + + E  KLC     S
Sbjct: 139 TPAGKARLKDFTLAGVNRFSIGVQSLNADHLRILGRDHSVQHALQTVSEARKLCP-GRVS 197

Query: 218 LDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQS 277
           +D++ +LP Q+   W++ L   +     H+S+Y L +E+GT+       G+  +P +  +
Sbjct: 198 VDIMFALPGQSVSCWQKQLEELLYVCDDHISLYQLTLERGTQLFKQVESGKLSVPGDEVT 257

Query: 278 ANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYL-----G 332
           A  Y+ A  +L  +G+  YE+S++  +    +HN+ YW+   + G G G+         G
Sbjct: 258 AIMYKTACRVLEESGFHQYEVSNFARNNAVSEHNMGYWRGHQYIGVGPGAHGRFVPHGDG 317

Query: 333 GL-RFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGV 385
           G+ R +R + ++  V +++ +++          +    L  +VL++  R   G+
Sbjct: 318 GVQREARTQTLEPDV-WIKEVQSRGRGTRRRITLHHLQLLEEVLVMGLRMNEGI 370

May be involved in porphyrin cofactor biosynthesis.

Danio rerio (taxid: 7955)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|P57615|Y550_BUCAI Oxygen-independent coproporphyrinogen-III oxidase-like protein BU550 OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=BU550 PE=3 SV=1

 Score =  153 bits (387), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 103/347 (29%), Positives = 165/347 (47%), Gaps = 25/347 (7%)

Query: 51  LSPTSAYIHLPFCRKRCHYCDF-PIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGH 109
           L P S YIH+P+C K+C YCDF   V+    P          + YI+ L R+        
Sbjct: 4   LPPISLYIHIPWCLKKCGYCDFYSYVSKEIIPE---------NKYIEHLLRDF-ERDLSL 53

Query: 110 KTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEEL 169
             +  + T+F GGGTPSL+    + ++L+ +  +  +S + EIS+E +P T + +   + 
Sbjct: 54  INNRNINTIFIGGGTPSLLKNTSIKNLLNGIKKRKIISKNIEISIEANPKTLEYQNFIQY 113

Query: 170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEA-IEIVKLCGVENWSLDLISSLPHQT 228
            + G+NR SLG+Q F  ++LK   R +  K+   A IE  K+   +N +LDL+  LP Q+
Sbjct: 114 KNSGINRFSLGIQTFNSKMLKKIERTYNSKDAMNAIIESKKIS--DNINLDLMYGLPGQS 171

Query: 229 PQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML 288
            +     L+  +   P H+S Y L +E  T    ++   +   P +    N       +L
Sbjct: 172 LEEALSDLQIAIQCNPSHISWYQLTIEPNT----VFYAKKIQTPHQDVVFNMLIEGDKLL 227

Query: 289 SSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDY 348
             AGY+ YEISSY +  Y+C+HNL YW    + G G GS   +        R +K     
Sbjct: 228 KKAGYKKYEISSYSKFNYQCQHNLNYWNFGDYIGIGCGSHGKITQKNGEIIRTIKN---- 283

Query: 349 VQNLEAGLVDCWGNN--HIDAKDLAMDVLMLSFRTARGVDLKSFGET 393
            +N+   L   + N+   +  +D   +  M  FR  + +  K F E 
Sbjct: 284 -KNINDFLSGKYINSVYQVSKRDKIFEYFMNVFRLYKPIFKKHFREN 329

Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (taxid: 107806)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|Q5SUV1|RSAD1_MOUSE Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Mus musculus GN=Rsad1 PE=2 SV=1

 Score =  153 bits (386), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 84/282 (29%), Positives = 144/282 (51%), Gaps = 12/282 (4%)

Query: 48  TPQLSPTSA--YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIAT 105
           +P+ + T A  Y+H P+C KRC YC+F      +       ++  V N +    R ++  
Sbjct: 32  SPESASTRAALYVHWPYCEKRCSYCNF------NKYIPRGVEEGTVRNCLVTEARTLLRL 85

Query: 106 KPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARK 165
               +    +E+VFFGGGTPSL  P  V+++L+ +  +  L  D+E+++E +P +    +
Sbjct: 86  SGVQR----VESVFFGGGTPSLASPHTVAAVLEAVAQEVYLPADSEVTLEANPTSAPGPR 141

Query: 166 MEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLP 225
           +      GVNR+S+G+Q+  D  L+  GR H   +    +   +L      S+DL+  LP
Sbjct: 142 LAAFGAAGVNRLSIGLQSLDDAELQLLGRTHSASDALRTLAEARLLFPGRVSVDLMLGLP 201

Query: 226 HQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMAS 285
            Q  + W + L++ +     H+S+Y L +E+GT        G  P P    +A  Y+   
Sbjct: 202 AQKVEPWLQQLQKLLYHCDDHLSLYQLTLERGTSLFAQVQQGTLPAPDPDLAAEMYQEGR 261

Query: 286 SMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGS 327
           ++L  AG+R YE+S++  +G    HN TYW+   + G G G+
Sbjct: 262 TVLRDAGFRQYEVSNFARNGALSTHNWTYWQCGQYLGIGPGA 303

May be involved in porphyrin cofactor biosynthesis.

Mus musculus (taxid: 10090)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|A5D7B1|RSAD1_BOVIN Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Bos taurus GN=RSAD1 PE=2 SV=1

 Score =  150 bits (380), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 87/307 (28%), Positives = 147/307 (47%), Gaps = 15/307 (4%)

Query: 24  RSYLISSSTSEATQPVRQNASTKI-TPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPT 82
           R ++ ++  ++  +P       +   P     + Y+H P+C KRC YC+F          
Sbjct: 9   RGWVKAAKMAQRRRPADDTGGPQSPAPGSQRAALYVHWPYCEKRCSYCNF---------- 58

Query: 83  QTNDDDPRVSNYIQLLCREIIATKPGHKTSP--PLETVFFGGGTPSLVPPRFVSSILDTL 140
             N   PR  +   L    +I  +   + S    +E+VFFGGGTPSL  P  V+++L+ +
Sbjct: 59  --NKYIPRGVDEAALRRCLVIEAQTLLRLSGVRRVESVFFGGGTPSLASPHTVAAVLEAV 116

Query: 141 TDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKE 200
                L  D+E+++E +P +    ++      GVNR+S+G+Q+  D  L+  GR H  ++
Sbjct: 117 AQAAHLPADSEVTLEANPTSASGSRLAAFGAAGVNRLSIGLQSLDDTELQLLGRTHSARD 176

Query: 201 VYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKF 260
             + +   +       S+DL+  LP Q    W   L+  +     HVS+Y L +E+GT  
Sbjct: 177 ALQTLAEAQRLFPGRVSVDLMLGLPAQQVGPWLRQLQGLLRCCDDHVSLYQLSLERGTTL 236

Query: 261 GILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPF 320
                 G  P P    +A  Y+   ++L  AG+R YE+S++  +G    HN TYW+   +
Sbjct: 237 FTQVQQGALPAPDPELAAEMYQEGRAVLREAGFRQYEVSNFARNGALSTHNWTYWQCGQY 296

Query: 321 YGFGLGS 327
            G G G+
Sbjct: 297 LGVGPGA 303

May be involved in porphyrin cofactor biosynthesis.

Bos taurus (taxid: 9913)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	471
255540379	478	coproporphyrinigen III oxidase, putative	0.987	0.972	0.714	0.0
224119576	439	predicted protein [Populus trichocarpa]	0.883	0.947	0.772	0.0
225457431	473	PREDICTED: oxygen-independent coproporph	0.989	0.985	0.698	0.0
449440590	478	PREDICTED: oxygen-independent coproporph	0.989	0.974	0.688	0.0
356507333	486	PREDICTED: oxygen-independent coproporph	0.995	0.965	0.684	0.0
297797323	484	hypothetical protein ARALYDRAFT_496512 [	0.995	0.969	0.639	0.0
15242697	484	oxygen-independent coproporphyrinogen II	0.995	0.969	0.641	0.0
297733622	453	unnamed protein product [Vitis vinifera]	0.946	0.984	0.679	0.0
356518910	486	PREDICTED: LOW QUALITY PROTEIN: oxygen-i	0.993	0.962	0.659	1e-175
414864451	493	TPA: oxygen-independent coproporphyrinog	0.870	0.831	0.634	1e-157

>gi|255540379|ref|XP_002511254.1| coproporphyrinigen III oxidase, putative [Ricinus communis] gi|223550369|gb|EEF51856.1| coproporphyrinigen III oxidase, putative [Ricinus communis]

 Score =  694 bits (1792), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 343/480 (71%), Positives = 397/480 (82%), Gaps = 15/480 (3%)

Query: 1   MLKSTFTPIFSTSPLKPRTP--KLLRSYLISSSTSEATQPVRQNASTKITPQLSP----- 53
           MLKSTFTPIFST P K  T   K      I+++ +++ QPV QNAS    P  +P     
Sbjct: 1   MLKSTFTPIFSTFPTKSFTTLQKFPPFPTITNTFTQSPQPVHQNASL-TAPTTNPFHQHD 59

Query: 54  ---TSAYIHLPFCRKRCHYCDFPIVALGSS-PTQTNDDDPRVSNYIQLLCREIIATKPGH 109
              TSAYIHLPFCRKRCHYCDFPIVALGSS PT+T   DPR+SNY +LL +EI++TKP  
Sbjct: 60  HPPTSAYIHLPFCRKRCHYCDFPIVALGSSNPTET---DPRISNYAELLQQEILSTKPNS 116

Query: 110 KTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEEL 169
            +  PL+TVFFGGGTPSLV PR VSSILDTL  KFGL  +AEISMEMDPGTFD +KMEEL
Sbjct: 117 DSYSPLQTVFFGGGTPSLVSPRIVSSILDTLKLKFGLCKNAEISMEMDPGTFDDKKMEEL 176

Query: 170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTP 229
           M LGVNR+SLGVQAFQDELLK+CGRAHG++EVY+AIEI++ CG+ NWSLDLISSLPHQTP
Sbjct: 177 MGLGVNRISLGVQAFQDELLKACGRAHGIEEVYQAIEIIRSCGIGNWSLDLISSLPHQTP 236

Query: 230 QMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS 289
           QMWE+SL  TV AQPKHVSVYDLQVEQ TKFGILYTPGEFPLP+E QSA++YRMAS MLS
Sbjct: 237 QMWEQSLSLTVQAQPKHVSVYDLQVEQETKFGILYTPGEFPLPSEIQSADYYRMASRMLS 296

Query: 290 SAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYV 349
            AGY HYEISSY +DG+ECKHN  YWKNKPFYGFGLGSASY+ G+RFSRPR+M+E+++YV
Sbjct: 297 DAGYSHYEISSYCKDGFECKHNFIYWKNKPFYGFGLGSASYVNGVRFSRPRKMREYMNYV 356

Query: 350 QNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPY 409
           QNLE G VDC GN + DAKDLA+DV+MLSFRTARG+DL+SF + FG SLV++LCK YKPY
Sbjct: 357 QNLENGTVDCSGNGNRDAKDLALDVVMLSFRTARGLDLRSFADAFGSSLVYSLCKVYKPY 416

Query: 410 IESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVI 469
           IES H++ LD+ RRAM  +EFN+L   E +IG+RLAY RLSDP+GFLLSNELIS AFGVI
Sbjct: 417 IESRHMVGLDKERRAMTADEFNTLFTCEDEIGSRLAYIRLSDPDGFLLSNELISLAFGVI 476

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119576|ref|XP_002318108.1| predicted protein [Populus trichocarpa] gi|222858781|gb|EEE96328.1| predicted protein [Populus trichocarpa]

 Score =  676 bits (1744), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/418 (77%), Positives = 363/418 (86%), Gaps = 2/418 (0%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
           PTSAYIHLPFCRKRCHYCDFPIVALGS  T   D+DPR+SNYI+LL REI++T+    T 
Sbjct: 23  PTSAYIHLPFCRKRCHYCDFPIVALGS--TNPTDNDPRISNYIELLQREIVSTRSDFDTI 80

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
           PPLETVFFGGGTPSLV PR V SILDTL  KFG+   AEISMEMDPGTFD RK+++LM +
Sbjct: 81  PPLETVFFGGGTPSLVSPRMVLSILDTLRVKFGVCEGAEISMEMDPGTFDGRKVKDLMGM 140

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           GVNRVSLGVQAFQ+ELLKSCGRAHG+KEVYEAIEI+  CGVENWS+DLISSLP QTPQMW
Sbjct: 141 GVNRVSLGVQAFQEELLKSCGRAHGVKEVYEAIEILGSCGVENWSVDLISSLPLQTPQMW 200

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
           EESLR T+ A+PKHVSVYDLQVEQGTKFG LYTPGEFPLP ETQSA FYRMAS ML+  G
Sbjct: 201 EESLRLTIEARPKHVSVYDLQVEQGTKFGALYTPGEFPLPCETQSAEFYRMASRMLADVG 260

Query: 293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNL 352
           YRHYEISSY EDGYECKHN TYWKNKPFYGFGLGSASYL GLRFSRPR+MKE++ YV+NL
Sbjct: 261 YRHYEISSYCEDGYECKHNYTYWKNKPFYGFGLGSASYLNGLRFSRPRKMKEYMGYVENL 320

Query: 353 EAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIES 412
           E G+V+  GNN +DAKDLA+D++MLS RTARG+DL+SF E FG SLVH+LCK Y+PYIES
Sbjct: 321 ENGVVNYCGNNLVDAKDLAVDIVMLSLRTARGLDLRSFAEAFGGSLVHSLCKVYQPYIES 380

Query: 413 GHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVID 470
           GHV+CLDE RRAM ++EFN+L L+E +I   L+Y RLSDP+GFLLSNELIS AF VID
Sbjct: 381 GHVVCLDEERRAMTVDEFNTLFLNEDEIAKGLSYIRLSDPDGFLLSNELISLAFRVID 438

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225457431|ref|XP_002262672.1| PREDICTED: oxygen-independent coproporphyrinogen-III oxidase-like protein sll1917 [Vitis vinifera]

 Score =  676 bits (1743), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 331/474 (69%), Positives = 388/474 (81%), Gaps = 8/474 (1%)

Query: 1   MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNAS---TKITP--QLSPTS 55
           MLKSTFTPI S    KP T K   S + + + S++   VR+N S   +  TP   L P S
Sbjct: 1   MLKSTFTPILSIITPKPTTSK--PSKIFTKAFSQSPPTVRKNDSHNPSTTTPPHNLPPVS 58

Query: 56  AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPL 115
           AYIHLPFCRKRCHYCDFPIVALGSS T   +DDPR+ NY QL+CREI ATKP    +PPL
Sbjct: 59  AYIHLPFCRKRCHYCDFPIVALGSSFTPPPEDDPRILNYTQLICREIEATKPECYPTPPL 118

Query: 116 ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN 175
           ETVFFGGGTPSLVPPR VS I++ L  KFGL LDAE+SMEMDPGTFDA K++ LM+LGVN
Sbjct: 119 ETVFFGGGTPSLVPPRLVSDIVEALRLKFGLCLDAEMSMEMDPGTFDAEKLKGLMELGVN 178

Query: 176 RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEES 235
           RVSLGVQAFQ+E+L+ CGRAHG+KE+YEAIE VK CGVENWS+DLISSLPHQTP+MWEES
Sbjct: 179 RVSLGVQAFQEEMLRGCGRAHGVKEIYEAIETVKSCGVENWSVDLISSLPHQTPEMWEES 238

Query: 236 LRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH 295
           L+  + AQP HVSVYDLQVEQGTKFGILYTPGEFPLP+E QSA+FYRMAS+ LS+AGY H
Sbjct: 239 LQLVIEAQPTHVSVYDLQVEQGTKFGILYTPGEFPLPSEIQSADFYRMASTTLSNAGYNH 298

Query: 296 YEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAG 355
           YEISSY + G+ECKHNLTYW+NKPFYGFGLGSASY+GG+RFSRPR+MKE++ YVQ+LE  
Sbjct: 299 YEISSYCKGGFECKHNLTYWENKPFYGFGLGSASYVGGVRFSRPRKMKEYMGYVQSLETE 358

Query: 356 LVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHV 415
           +V C GN+ +DAKD+AMDV+MLS RTARG+DLKSF  +FG S V +LC AY+PY++SGHV
Sbjct: 359 VVGCGGNS-VDAKDVAMDVVMLSLRTARGLDLKSFRNSFGSSFVASLCMAYRPYVKSGHV 417

Query: 416 ICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVI 469
           +CLDE RR +  +EF+SLL  +  I  RLA+ RLSDP+GFLLSNELIS AF  I
Sbjct: 418 VCLDEQRRPVTSDEFSSLLSKDDGIEERLAFVRLSDPDGFLLSNELISLAFQAI 471

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440590|ref|XP_004138067.1| PREDICTED: oxygen-independent coproporphyrinogen-III oxidase-like protein sll1917-like [Cucumis sativus] gi|449501380|ref|XP_004161351.1| PREDICTED: oxygen-independent coproporphyrinogen-III oxidase-like protein sll1917-like [Cucumis sativus]

 Score =  659 bits (1699), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/469 (68%), Positives = 376/469 (80%), Gaps = 3/469 (0%)

Query: 3   KSTFTPIFST-SPLKPRTPKLLRSYLISSSTSEATQPVRQNASTKITPQLSP-TSAYIHL 60
           KST  PIF T S  KP  P++     + +  +  T  VR+NASTK      P  SAYIHL
Sbjct: 9   KSTLLPIFFTLSSRKPNLPEVASLCTMPNFCAHITPAVRENASTKTPTTTIPPASAYIHL 68

Query: 61  PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFF 120
           PFCRKRCHYCDFPIVALGSS +QT DDDPR+ +Y++LLCREI ATK   +T+ PLETVFF
Sbjct: 69  PFCRKRCHYCDFPIVALGSSSSQT-DDDPRIQHYVELLCREINATKSEFQTNQPLETVFF 127

Query: 121 GGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLG 180
           GGGTPSLVPPR VS ILD L  KFGL+ DAEIS+EMDPGTFDA+KME LM L VNRVSLG
Sbjct: 128 GGGTPSLVPPRLVSVILDVLRTKFGLAKDAEISIEMDPGTFDAKKMEGLMKLDVNRVSLG 187

Query: 181 VQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTV 240
           VQAFQ+ELLK+CGRAHG+ EVYEAIEI+K CG +NWS+DLISSLPHQT  MWEESLR T+
Sbjct: 188 VQAFQEELLKACGRAHGVDEVYEAIEIIKFCGPKNWSMDLISSLPHQTASMWEESLRLTI 247

Query: 241 GAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISS 300
            AQP HVSVYDLQVE+ TKFGILY PGEFPLP++T SA FYRMAS  L+  GY HYEISS
Sbjct: 248 EAQPTHVSVYDLQVEEDTKFGILYKPGEFPLPSDTDSAGFYRMASRALAEGGYSHYEISS 307

Query: 301 YGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCW 360
           Y +  +ECKHN TYWKN PFYGFGLG+ASYLGGLRFSRPR++KE+ +YVQNLE GLVDC 
Sbjct: 308 YCKSSFECKHNSTYWKNNPFYGFGLGAASYLGGLRFSRPRKLKEYTNYVQNLEKGLVDCR 367

Query: 361 GNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDE 420
           GNN +D KD+AMDV+MLS RT+ G+DL+SFG+ +   LVH LC+AY+PYI+SGHV+CLDE
Sbjct: 368 GNNDVDVKDMAMDVVMLSLRTSSGLDLQSFGKVYDGRLVHELCRAYEPYIKSGHVVCLDE 427

Query: 421 WRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVI 469
            RRA+ ++E + LLL +     RL + RLSDP+GFLLSNELIS AF VI
Sbjct: 428 QRRALTVDECDGLLLRKEDNFTRLRHIRLSDPDGFLLSNELISLAFRVI 476

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507333|ref|XP_003522422.1| PREDICTED: oxygen-independent coproporphyrinogen-III oxidase-like protein sll1917-like [Glycine max]

 Score =  647 bits (1669), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/475 (68%), Positives = 380/475 (80%), Gaps = 6/475 (1%)

Query: 1   MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNASTKITPQLSPTSAYIHL 60
           MLKSTFTPIF     KP+ PKL    + ++  + +T  VR NA    T    P+SAYIHL
Sbjct: 1   MLKSTFTPIFWVLTPKPKPPKLPPQAITNTFFTSSTTHVRHNAPLNPTTPPPPSSAYIHL 60

Query: 61  PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGH----KTSPPLE 116
           PFCRKRCHYCDFPIVALGS+ TQTNDD PRVSNYI  LCREI AT         T  PL+
Sbjct: 61  PFCRKRCHYCDFPIVALGSASTQTNDD-PRVSNYIHWLCREISATNVDQPADASTITPLK 119

Query: 117 TVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNR 176
           TV+FGGGTPSLVPPR V+S+LDTL  KFGL  DAEISMEMDPGTFDA KM E++ LGVNR
Sbjct: 120 TVYFGGGTPSLVPPRMVASVLDTLRLKFGLREDAEISMEMDPGTFDAEKMREMVVLGVNR 179

Query: 177 VSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESL 236
           VSLGVQAFQ+ELL++CGRAHGLKEV+EAI++VKLCGVENWS+DLISSLPHQT +MWEESL
Sbjct: 180 VSLGVQAFQEELLRACGRAHGLKEVHEAIDVVKLCGVENWSIDLISSLPHQTSEMWEESL 239

Query: 237 RRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHY 296
           R  + +QP HVSVYDLQ+EQGTKFG LY+PGEFP+P+ETQSA FY+MAS MLS A Y HY
Sbjct: 240 RLAIESQPTHVSVYDLQIEQGTKFGRLYSPGEFPMPSETQSAEFYKMASRMLSDANYNHY 299

Query: 297 EISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGL 356
           EISSY + GYECKHN  YWKNKPFYGFGLGS S++GGLRFSRPR++ +++++VQNLE GL
Sbjct: 300 EISSYCKSGYECKHNFIYWKNKPFYGFGLGSTSFVGGLRFSRPRKVNDYINFVQNLENGL 359

Query: 357 VDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVI 416
           V+     HI  KD  MDV+MLS RTA+G+DLKSF E+FG S+V +L +AYKPY+ESG V+
Sbjct: 360 VNSSVKGHISGKDTIMDVVMLSLRTAQGIDLKSFQESFGSSVVLSLLEAYKPYVESGLVV 419

Query: 417 CLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVIDS 471
           CLDE RR + I++ NS  L +T    R+AY RLSDPEGFLLSNELI+ AFGVIDS
Sbjct: 420 CLDEHRRTIRIDDLNS-SLSKTNAEGRVAYIRLSDPEGFLLSNELIALAFGVIDS 473

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297797323|ref|XP_002866546.1| hypothetical protein ARALYDRAFT_496512 [Arabidopsis lyrata subsp. lyrata] gi|297312381|gb|EFH42805.1| hypothetical protein ARALYDRAFT_496512 [Arabidopsis lyrata subsp. lyrata]

 Score =  646 bits (1667), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 308/482 (63%), Positives = 378/482 (78%), Gaps = 13/482 (2%)

Query: 1   MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNASTKITP--QLSPTSAYI 58
           MLK+T +PIFS+   KP+T +L+                R+NAST +T   Q  PTSAY+
Sbjct: 1   MLKTTISPIFSSFTCKPKTSRLIFQAFSKVVLQNTPPSARRNASTNLTTLHQGPPTSAYV 60

Query: 59  HLPFCRKRCHYCDFPIVALGSSPT----------QTNDDDPRVSNYIQLLCREIIATKPG 108
           HLPFCRKRCHYCDFPI+ALG+S +          +  +DDPR++NY+ LL REI AT+  
Sbjct: 61  HLPFCRKRCHYCDFPILALGTSSSSLTSPSNVYEEGKEDDPRITNYVNLLVREIQATRTD 120

Query: 109 HKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEE 168
           + T+P LETVFFGGGTPSLVPP+ VS IL+TL+  FGLS DAEISMEMDPGTFD +K++E
Sbjct: 121 YDTNPNLETVFFGGGTPSLVPPKLVSLILETLSLNFGLSPDAEISMEMDPGTFDGQKLKE 180

Query: 169 LMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQT 228
           LM LGVNRVSLGVQAFQDELLK+CGRAHG+ +VYEAIE VK CGVENWS+DLISSLPHQT
Sbjct: 181 LMKLGVNRVSLGVQAFQDELLKACGRAHGVSQVYEAIEFVKECGVENWSMDLISSLPHQT 240

Query: 229 PQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML 288
            +MWEESLR  + +QP HVSVYDLQVEQGTKFG LYTPG+ PLP+ETQSA FY+ ASSML
Sbjct: 241 LEMWEESLRLAIESQPNHVSVYDLQVEQGTKFGNLYTPGQSPLPSETQSAEFYKTASSML 300

Query: 289 SSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDY 348
             AGY HYE+SSY +DG++CKHNL YWKNKPFY FGLGSASY+GGLRFSRPRR+KE+ +Y
Sbjct: 301 RGAGYEHYEVSSYSKDGFKCKHNLKYWKNKPFYAFGLGSASYVGGLRFSRPRRLKEYTNY 360

Query: 349 VQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKP 408
           V +LE G  +  GN  +D KD+A D+LMLSFRT++G++LK FGE FG  +V ++CK Y+P
Sbjct: 361 VADLENGAANWCGNGDVDLKDVATDILMLSFRTSKGLELKEFGEAFGSEVVKSICKVYEP 420

Query: 409 YIESGHVICLDEWRRAMNIEEFNSLLL-DETKIGNRLAYFRLSDPEGFLLSNELISHAFG 467
           Y+ESGH++CLD+ R  +  +EF +L+  DE +I + + Y RL DP+GFLLSNELIS AFG
Sbjct: 421 YVESGHIVCLDDMRSEVMSDEFQTLVANDEVEIEDHVRYLRLKDPDGFLLSNELISLAFG 480

Query: 468 VI 469
           V+
Sbjct: 481 VV 482

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15242697|ref|NP_201134.1| oxygen-independent coproporphyrinogen III oxidase [Arabidopsis thaliana] gi|10177310|dbj|BAB10571.1| oxygen-independent coproporphyrinogen-like protein [Arabidopsis thaliana] gi|115311487|gb|ABI93924.1| At5g63290 [Arabidopsis thaliana] gi|332010345|gb|AED97728.1| oxygen-independent coproporphyrinogen III oxidase [Arabidopsis thaliana]

 Score =  644 bits (1662), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 309/482 (64%), Positives = 377/482 (78%), Gaps = 13/482 (2%)

Query: 1   MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQP-VRQNASTKITP--QLSPTSAY 57
           MLK+T +PIFS+   KP+    L     S    + T P  R+NAST +T   +  PTSAY
Sbjct: 1   MLKTTISPIFSSFTGKPKCSSKLFFRAFSKVVLQDTPPSARRNASTNLTTLHKGPPTSAY 60

Query: 58  IHLPFCRKRCHYCDFPIVALGSSPT---------QTNDDDPRVSNYIQLLCREIIATKPG 108
           +HLPFCRKRCHYCDFPI+ALG S +         +  +DDPR++NY+ LL REI AT+  
Sbjct: 61  VHLPFCRKRCHYCDFPILALGMSSSSARPSNVYEEGKEDDPRITNYVNLLVREIKATRTD 120

Query: 109 HKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEE 168
             T+P LETVFFGGGTPSLVPP+ VS IL+TL+  FGLS DAEISMEMDPGTFD +K+++
Sbjct: 121 FDTNPNLETVFFGGGTPSLVPPKLVSLILETLSLNFGLSPDAEISMEMDPGTFDGQKLKD 180

Query: 169 LMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQT 228
           LM LGVNRVSLGVQAFQDELLK+CGRAHG+ +VYEAIE VK CGVENWS+DLISSLPHQT
Sbjct: 181 LMKLGVNRVSLGVQAFQDELLKACGRAHGVSQVYEAIEFVKECGVENWSMDLISSLPHQT 240

Query: 229 PQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML 288
            +MWEESLR  + +QP HVSVYDLQVEQGTKFG LYTPG+ PLP+ETQSA FY+ ASSML
Sbjct: 241 LEMWEESLRLAIESQPNHVSVYDLQVEQGTKFGNLYTPGQSPLPSETQSAEFYKTASSML 300

Query: 289 SSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDY 348
             AGY HYE+SSY  DG++CKHNL YWKNKPFY FGLGSASY+GGLRFSRPRR+KE+ +Y
Sbjct: 301 RGAGYEHYEVSSYSRDGFKCKHNLIYWKNKPFYAFGLGSASYVGGLRFSRPRRLKEYTNY 360

Query: 349 VQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKP 408
           V +LE G  +  GN  +D KD+A D+LMLSFRT++G++LK FGE FG  +V ++CK Y+P
Sbjct: 361 VADLENGAANWCGNGDVDLKDVATDILMLSFRTSKGLELKEFGEAFGSEVVKSICKVYEP 420

Query: 409 YIESGHVICLDEWRRAMNIEEFNSLLL-DETKIGNRLAYFRLSDPEGFLLSNELISHAFG 467
           Y+ESGH++CLD+ R  + I+EF +L+  DE KI + + Y RL DP+GFLLSNELIS +FG
Sbjct: 421 YVESGHIVCLDDMRSEVMIDEFKTLVANDEVKIEDHVRYLRLKDPDGFLLSNELISLSFG 480

Query: 468 VI 469
           V+
Sbjct: 481 VV 482

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297733622|emb|CBI14869.3| unnamed protein product [Vitis vinifera]

 Score =  641 bits (1654), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 322/474 (67%), Positives = 375/474 (79%), Gaps = 28/474 (5%)

Query: 1   MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNAS---TKITP--QLSPTS 55
           MLKSTFTPI S    KP T K   S + + + S++   VR+N S   +  TP   L P S
Sbjct: 1   MLKSTFTPILSIITPKPTTSK--PSKIFTKAFSQSPPTVRKNDSHNPSTTTPPHNLPPVS 58

Query: 56  AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPL 115
           AYIHLPFCRKRCHYCDFPIVALGSS T   +DDPR+ NY QL+CREI ATKP    +PPL
Sbjct: 59  AYIHLPFCRKRCHYCDFPIVALGSSFTPPPEDDPRILNYTQLICREIEATKPECYPTPPL 118

Query: 116 ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN 175
           ETVFFGGGTPSLVPPR VS I++ L  KFGL LDAE+SMEMDPGTFDA K++ LM+LGVN
Sbjct: 119 ETVFFGGGTPSLVPPRLVSDIVEALRLKFGLCLDAEMSMEMDPGTFDAEKLKGLMELGVN 178

Query: 176 RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEES 235
           RVSLGVQAFQ+E+L+ CGRAHG+KE+YEAIE VK CGVENWS+DLISSLPHQTP+MWEES
Sbjct: 179 RVSLGVQAFQEEMLRGCGRAHGVKEIYEAIETVKSCGVENWSVDLISSLPHQTPEMWEES 238

Query: 236 LRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH 295
           L+  + AQP HVSVYDLQVEQGTKFGILYTPGEFPLP+E QSA+FYRMAS+ LS+AGY H
Sbjct: 239 LQLVIEAQPTHVSVYDLQVEQGTKFGILYTPGEFPLPSEIQSADFYRMASTTLSNAGYNH 298

Query: 296 YEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAG 355
           YEISSY + G+ECKHNLTYW+NKPFYGFGLGSASY+GG+RFSRPR+MKE++ YVQ+LE  
Sbjct: 299 YEISSYCKGGFECKHNLTYWENKPFYGFGLGSASYVGGVRFSRPRKMKEYMGYVQSLETE 358

Query: 356 LVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHV 415
           +V C GN+ +DAKD+AMDV+MLS RTARG+DLKSF  +FG S V +LC AY+PY++SGHV
Sbjct: 359 VVGCGGNS-VDAKDVAMDVVMLSLRTARGLDLKSFRNSFGSSFVASLCMAYRPYVKSGHV 417

Query: 416 ICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVI 469
           +          IEE             RLA+ RLSDP+GFLLSNELIS AF  I
Sbjct: 418 V-------YDGIEE-------------RLAFVRLSDPDGFLLSNELISLAFQAI 451

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356518910|ref|XP_003528119.1| PREDICTED: LOW QUALITY PROTEIN: oxygen-independent coproporphyrinogen-III oxidase-like protein sll1917-like [Glycine max]

 Score =  622 bits (1605), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 314/476 (65%), Positives = 369/476 (77%), Gaps = 8/476 (1%)

Query: 1   MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQPVRQNASTK-ITPQLSPTSAYIH 59
           MLKSTFTPIF     KP+ PKL    + ++  + +   VR NA    ITP  + +SAYIH
Sbjct: 1   MLKSTFTPIFWVLTPKPKPPKLPSHAITNTFFTSSMPHVRHNAPVNPITPPPA-SSAYIH 59

Query: 60  LPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGH----KTSPPL 115
           LPFCRKRCHYCDFPIVALGS+     DDDPRVSNYI  LCREI AT         T  PL
Sbjct: 60  LPFCRKRCHYCDFPIVALGSTSALI-DDDPRVSNYIHWLCREINATNVDQPDDANTITPL 118

Query: 116 ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN 175
           +TV+FGGGTPSLVPPR VSS+LDTL  KFGL  D EISMEMDPGTFDA KM  ++ LGVN
Sbjct: 119 QTVYFGGGTPSLVPPRMVSSVLDTLRTKFGLREDVEISMEMDPGTFDAEKMRGMVVLGVN 178

Query: 176 RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEES 235
           RVSLGV AF++ELL++CGRAHGLKEV+EAI++VKLC VENWS+DLI+SLPHQT  MWEES
Sbjct: 179 RVSLGVXAFREELLRACGRAHGLKEVHEAIDVVKLCEVENWSIDLIASLPHQTSDMWEES 238

Query: 236 LRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH 295
           LR  + AQP HVSVYDLQ+EQGTKFG LY+ GEFP+P+ETQSA FY+MAS MLS A Y H
Sbjct: 239 LRLAIEAQPTHVSVYDLQIEQGTKFGRLYSLGEFPMPSETQSAEFYKMASRMLSDANYNH 298

Query: 296 YEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAG 355
           YEISSY + GYECKHN  YWKNKPFYGFGL SAS++GGLRFSRPR++ +++++VQNLE G
Sbjct: 299 YEISSYCKSGYECKHNFIYWKNKPFYGFGLCSASFVGGLRFSRPRKVNDYINFVQNLENG 358

Query: 356 LVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHV 415
            V+     HI  KD  MDV+MLS RTA+G+DL S  E+FG S+V +L +AYK Y ESGHV
Sbjct: 359 FVNSSVEGHIHGKDTVMDVVMLSLRTAQGIDLMSLQESFGSSIVLSLLEAYKTYFESGHV 418

Query: 416 ICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVIDS 471
           +CLDE+RR + I++ NS  L+ T    R+AY RLSDPEGFLLSNELI+ AFGVIDS
Sbjct: 419 VCLDEYRRTVRIDDLNS-FLNNTNAEGRVAYIRLSDPEGFLLSNELIAIAFGVIDS 473

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414864451|tpg|DAA43008.1| TPA: oxygen-independent coproporphyrinogen III oxidase-like protein sll1917 [Zea mays]

 Score =  562 bits (1449), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 266/419 (63%), Positives = 336/419 (80%), Gaps = 9/419 (2%)

Query: 57  YIHLPFCRKRCHYCDFPIVALGSSPTQTNDD---DPRVSNYIQLLCREIIATKPGHKTSP 113
           Y+HLPFCRKRCHYCDFPI+ALGSS   +  +   DPR+ +Y+ LL RE+ AT+P      
Sbjct: 76  YVHLPFCRKRCHYCDFPIIALGSSSAPSRGEAAEDPRIVDYVNLLLREVSATRPVSDDGV 135

Query: 114 PLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLG 173
           PLETVFFGGGTPSLVPPR V+++LD L  +FGLS   E+S+EMDPGTFDA +++EL+ +G
Sbjct: 136 PLETVFFGGGTPSLVPPRLVATVLDALRARFGLSARPEVSIEMDPGTFDAARLKELVGVG 195

Query: 174 VNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLC-GVENWSLDLISSLPHQTPQMW 232
           VNRVSLGVQAFQ++LL++CGRAHG+KEV+EA+ IV  C G++NWS+DLISSLP+QT +MW
Sbjct: 196 VNRVSLGVQAFQEDLLRACGRAHGVKEVHEAVAIVTACEGLQNWSMDLISSLPNQTEEMW 255

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
           EESLR TV A+P HVSVYDLQ+EQGTKFG +YTPG FPLP++T+SANFYR+AS  LS AG
Sbjct: 256 EESLRCTVDARPTHVSVYDLQIEQGTKFGQMYTPGVFPLPSDTESANFYRIASKRLSEAG 315

Query: 293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNL 352
           Y HYEISSY + GYECKHNLTYW+N+PFY FGLGSASY+ G+R+SRPRR KE+ ++VQ L
Sbjct: 316 YNHYEISSYCKPGYECKHNLTYWQNRPFYAFGLGSASYINGVRYSRPRRTKEYAEWVQKL 375

Query: 353 EAGLVDCWGN--NHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYI 410
           E G    W +     D KD+A+DV+MLS RTA G+DL+SF ++FG SL  +LC  +KP++
Sbjct: 376 EDG---TWRHESRSSDLKDMALDVVMLSLRTAWGLDLQSFSKSFGKSLALSLCNTFKPFV 432

Query: 411 ESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVI 469
           ESGHVI +D  R+A+   +F   L +E   G+R+A+ RLSDP+GFLLSNELIS AFG+I
Sbjct: 433 ESGHVIAMDMDRQALPHTDFELDLQNEDGFGSRIAFIRLSDPDGFLLSNELISLAFGII 491

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	471
TAIR|locus:2161897	484	AT5G63290 [Arabidopsis thalian	0.995	0.969	0.645	1.4e-167
TIGR_CMR|GSU_0030	385	GSU_0030 "oxygen-independent c	0.709	0.867	0.352	1.9e-53
TIGR_CMR|BA_4542	378	BA_4542 "oxygen-independent co	0.779	0.970	0.322	1.1e-48
TIGR_CMR|CHY_0411	376	CHY_0411 "putative oxygen-inde	0.734	0.920	0.318	2.9e-48
TIGR_CMR|DET_0858	378	DET_0858 "oxygen-independent c	0.709	0.883	0.336	1.2e-47
UNIPROTKB|P52062	378	yggW "predicted oxidoreductase	0.766	0.955	0.324	1e-45
TIGR_CMR|SPO_0006	385	SPO_0006 "oxygen-independent c	0.681	0.833	0.329	1.5e-44
UNIPROTKB|Q9KUR0	391	VC_0455 "Oxygen-independent co	0.702	0.846	0.319	1.7e-43
TIGR_CMR|VC_0455	391	VC_0455 "oxygen-independent co	0.702	0.846	0.319	1.7e-43
TIGR_CMR|CBU_0597	375	CBU_0597 "oxygen-independent c	0.696	0.874	0.308	3.3e-40

TAIR|locus:2161897 AT5G63290 [Arabidopsis thaliana (taxid:3702)]

 Score = 1630 (578.8 bits), Expect = 1.4e-167, P = 1.4e-167
 Identities = 311/482 (64%), Positives = 378/482 (78%)

Query:     1 MLKSTFTPIFSTSPLKPRTPKLLRSYLISSSTSEATQP-VRQNASTKITP--QLSPTSAY 57
             MLK+T +PIFS+   KP+    L     S    + T P  R+NAST +T   +  PTSAY
Sbjct:     1 MLKTTISPIFSSFTGKPKCSSKLFFRAFSKVVLQDTPPSARRNASTNLTTLHKGPPTSAY 60

Query:    58 IHLPFCRKRCHYCDFPIVALG---SSPTQTN------DDDPRVSNYIQLLCREIIATKPG 108
             +HLPFCRKRCHYCDFPI+ALG   SS   +N      +DDPR++NY+ LL REI AT+  
Sbjct:    61 VHLPFCRKRCHYCDFPILALGMSSSSARPSNVYEEGKEDDPRITNYVNLLVREIKATRTD 120

Query:   109 HKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEE 168
               T+P LETVFFGGGTPSLVPP+ VS IL+TL+  FGLS DAEISMEMDPGTFD +K+++
Sbjct:   121 FDTNPNLETVFFGGGTPSLVPPKLVSLILETLSLNFGLSPDAEISMEMDPGTFDGQKLKD 180

Query:   169 LMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQT 228
             LM LGVNRVSLGVQAFQDELLK+CGRAHG+ +VYEAIE VK CGVENWS+DLISSLPHQT
Sbjct:   181 LMKLGVNRVSLGVQAFQDELLKACGRAHGVSQVYEAIEFVKECGVENWSMDLISSLPHQT 240

Query:   229 PQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML 288
              +MWEESLR  + +QP HVSVYDLQVEQGTKFG LYTPG+ PLP+ETQSA FY+ ASSML
Sbjct:   241 LEMWEESLRLAIESQPNHVSVYDLQVEQGTKFGNLYTPGQSPLPSETQSAEFYKTASSML 300

Query:   289 SSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDY 348
               AGY HYE+SSY  DG++CKHNL YWKNKPFY FGLGSASY+GGLRFSRPRR+KE+ +Y
Sbjct:   301 RGAGYEHYEVSSYSRDGFKCKHNLIYWKNKPFYAFGLGSASYVGGLRFSRPRRLKEYTNY 360

Query:   349 VQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKP 408
             V +LE G  +  GN  +D KD+A D+LMLSFRT++G++LK FGE FG  +V ++CK Y+P
Sbjct:   361 VADLENGAANWCGNGDVDLKDVATDILMLSFRTSKGLELKEFGEAFGSEVVKSICKVYEP 420

Query:   409 YIESGHVICLDEWRRAMNIEEFNSLLL-DETKIGNRLAYFRLSDPEGFLLSNELISHAFG 467
             Y+ESGH++CLD+ R  + I+EF +L+  DE KI + + Y RL DP+GFLLSNELIS +FG
Sbjct:   421 YVESGHIVCLDDMRSEVMIDEFKTLVANDEVKIEDHVRYLRLKDPDGFLLSNELISLSFG 480

Query:   468 VI 469
             V+
Sbjct:   481 VV 482

GO:0003824 "catalytic activity" evidence=IEA

GO:0004109 "coproporphyrinogen oxidase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016491 "oxidoreductase activity" evidence=ISS

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

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

TIGR_CMR|GSU_0030 GSU_0030 "oxygen-independent coproporphyrinogen III oxidase, putative" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 122/346 (35%), Positives = 172/346 (49%)

Query:    53 PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
             P   Y+H+PFC K+C YC F  V+   +P   +D       Y  L+ RE+          
Sbjct:     4 PLHLYVHIPFCLKKCRYCSF--VSRSDAPLAIDD-------YASLVAREMEMRVAAANPL 54

Query:   113 P--PLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELM 170
             P  P  T++ GGGTPSL+ P  +  I+D     +GL   AEI++E +PGT   +++ +  
Sbjct:    55 PLSPATTLYLGGGTPSLLSPAALERIIDAAARSYGLGPGAEITLEANPGTVTFQRLADFR 114

Query:   171 DLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQ 230
               GVNR+SLGVQ+F D +L   GR H  ++  EA+   +  G +N  +DLI SLP QTP 
Sbjct:   115 SAGVNRLSLGVQSFDDGMLVLLGRLHTARQAREAVAATRRAGFDNIGIDLIHSLPGQTPD 174

Query:   231 MWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS 290
              W E L   V   P HVS Y L VE+GT F  +   GE  LP E QSA  +   + +L S
Sbjct:   175 QWREQLACAVALNPDHVSAYGLTVEEGTPFAAMEERGELVLPDEEQSALMFEATTDVLVS 234

Query:   291 AGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFS-RPRRMKEFVDYV 349
             AG+ HYEI+++       +HN  YW  + + GFG G+ S+L    F  R +   +   Y 
Sbjct:   235 AGFEHYEIANFARPHRRSRHNQVYWLRRNYLGFGAGAHSFLRAPAFGVRWKNTDDLELYR 294

Query:   350 QNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFG 395
               L A  +       +   D   +   L  R   GV  + F   FG
Sbjct:   295 DTLAAAELPGEERTVLSRADAMAEFFFLGLRLLDGVREEDFVREFG 340

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|BA_4542 BA_4542 "oxygen-independent coproporphyrinogen III oxidase" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 508 (183.9 bits), Expect = 1.1e-48, P = 1.1e-48
 Identities = 126/391 (32%), Positives = 194/391 (49%)

Query:    55 SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPP 114
             +AYIH+PFC+  CHYCDF  V +   P         V  Y++ L +EII T         
Sbjct:     3 AAYIHIPFCQHICHYCDFNKVFIERQP---------VDQYLEYLEKEIINTVQ-KVPFDS 52

Query:   115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFG-LSLDAEISMEMDPGTFDARKMEELMDLG 173
             ++T+F GGGTP+ +       +LD +  +    + + E++ E +PG     K+  L++ G
Sbjct:    53 MKTIFVGGGTPTALNMEQTKKLLDIINRRLRPFAPNCELTFEANPGDLPKEKLNVLLEGG 112

Query:   174 VNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWE 233
             VNR+S GVQ F+DELL+  GR H  ++ + AI   +  G +N ++D+I +LP QT +  +
Sbjct:   113 VNRISFGVQTFRDELLEKIGRKHTREDAFVAIREAQEVGFKNINVDIIYALPGQTIEDVK 172

Query:   234 ESL--RRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA 291
             E+L    T+G Q  H S Y L VE  T F  L   G+  LP E   A  Y M    +   
Sbjct:   173 ETLDIAFTLGVQ--HFSAYSLIVEPKTVFYNLMNKGKLRLPGEDHEAKMYEMVMDEMERH 230

Query:   292 GYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQN 351
             GY  YEIS++ +   E +HNLTYW N+ +YGFG G+ SY+ G R      +K++ + +  
Sbjct:   231 GYTQYEISNFSKGDNESRHNLTYWNNEEYYGFGAGAHSYVNGERIQNVGPLKQYFNKIDE 290

Query:   352 LEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIE 411
                  +D    + +  K+   + L L  R  +GV   +F   F   +     K  +   E
Sbjct:   291 TGFPYLDV---HVVTEKEKMEEELFLGLRKTKGVSKMAFRNKFNVEMNQVFAKQLQNNQE 347

Query:   412 SGHV------ICLDEWRRAMNIEEFNSLLLD 436
              G +      + L    + +  E F S L+D
Sbjct:   348 QGLLEESDGYVRLTRKGKLLGNEVFQSFLID 378

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|CHY_0411 CHY_0411 "putative oxygen-independent coproporphyrinogen III oxidase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 504 (182.5 bits), Expect = 2.9e-48, P = 2.9e-48
 Identities = 116/364 (31%), Positives = 194/364 (53%)

Query:    57 YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLE 116
             Y+H+PFC K+CHYC F      S P    +    V +Y+ L+ +E+   K       PL+
Sbjct:    11 YLHMPFCLKKCHYCAFT-----SFPAPAGEG---VFSYLSLIKKELEWRKD---FLAPLK 59

Query:   117 TVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNR 176
             T++ GGGTP+ +    +  + + ++      L  E ++E +PGT +  K+  L DLGVNR
Sbjct:    60 TIYVGGGTPTSLSLNALEKLGEIISPYISDKL-LEFTVEANPGTLNREKIRLLKDLGVNR 118

Query:   177 VSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESL 236
             VSLG Q+F DE+L   GRAH   +  EA  +++  G+ N +LDLI   P +  + +  ++
Sbjct:   119 VSLGAQSFNDEILLKMGRAHTAAQTLEAYNLLREEGINNLNLDLIIGYP-EGRESFINTV 177

Query:   237 RRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHY 296
             +  +  +P+H+S+YDL+VE+ T+       GE  LP E +   ++  A ++L   GY  Y
Sbjct:   178 KTAISLKPEHISLYDLKVEENTRLYEEVAKGEIILPEEDEVVLYWEEAINLLEENGYERY 237

Query:   297 EISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGL 356
             EI+++  +    +HNLTYW+NKP+ G GL + S +G  RF  P  M E   Y + L  G 
Sbjct:   238 EIANFARNQQYSRHNLTYWENKPYLGIGLAAHSKVGLYRFWNPNTMLE---YREMLLTG- 293

Query:   357 VDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVI 416
                +G   +  ++ A + ++L  R   G++L+ F + +    +       + +IE G + 
Sbjct:   294 -KNYGEEKLTLEEDAKEEIILRLRLKTGLNLQEFQKKYRRDFMAEFGDKIQKFIELGLLF 352

Query:   417 CLDE 420
               D+
Sbjct:   353 LEDD 356

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|DET_0858 DET_0858 "oxygen-independent coproporphyrinogen III oxidase, putative" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 498 (180.4 bits), Expect = 1.2e-47, P = 1.2e-47
 Identities = 120/357 (33%), Positives = 189/357 (52%)

Query:    57 YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLE 116
             Y+H PFC ++C YC F      S P +  D  P   +Y++ L +EI +   G        
Sbjct:     9 YLHFPFCLQKCGYCSFV-----SYPARL-DCLP---DYVKCLRKEIKSRASGLY----FH 55

Query:   117 TVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNR 176
             +++FGGGTPSL+ P  V+ IL  +     L  DAEI+ E +PGT     + E+  LG+NR
Sbjct:    56 SLYFGGGTPSLLSPSQVADILAGIRTAAHLLPDAEITFEANPGTLALPYLPEIKSLGINR 115

Query:   177 VSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESL 236
             +SLG+Q+F    L   GR H   +  +A +  +  G  N SLDLI  LP  +   ++++L
Sbjct:   116 LSLGIQSFSGAELTMLGRLHNAAKARQAYKQARAAGFNNISLDLIYGLPDSSVSSFKKNL 175

Query:   237 RRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFP-LPTETQSANFYRMASSMLSSAGYRH 295
                +   P+H+S+Y L +E+ T        G  P +  ET +A+ Y+ A  +L+ AGYRH
Sbjct:   176 AEALALAPEHISLYGLTLEEDTPMYRQVQEGLLPEINAET-AADQYQAAEDILAKAGYRH 234

Query:   296 YEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAG 355
             YEIS++ + GYE +HNLTYW+N+P+ G G    S+L   R +    + E+++  QN    
Sbjct:   235 YEISNWAKPGYESRHNLTYWQNRPYLGLGAAGHSFLENWRLANTSSLDEYLNRWQN---D 291

Query:   356 LVDCWGNN-HIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIE 411
             L      N ++D ++   + ++L  R  +G+  +     FG    H + K Y P I+
Sbjct:   292 LPPTPSENIYLDLENQLAETIILGLRLDKGITAEDIENRFG---QHVMDK-YFPVIQ 344

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

UNIPROTKB|P52062 yggW "predicted oxidoreductase" [Escherichia coli K-12 (taxid:83333)]

 Score = 480 (174.0 bits), Expect = 1.0e-45, P = 1.0e-45
 Identities = 128/394 (32%), Positives = 202/394 (51%)

Query:    50 QLSPTSAYIHLPFCRKRCHYCDFPIVAL-GSSPTQTNDDDPRVSNYIQLLCREIIATKPG 108
             +L P S YIH+P+C ++C YCDF   AL G  P   +DD      Y+Q L  ++      
Sbjct:     3 KLPPLSLYIHIPWCVQKCPYCDFNSHALKGEVP---HDD------YVQHLLNDL-DNDVA 52

Query:   109 HKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEE 168
             +     ++T+F GGGTPSL+    + ++LD +  +  L+ DAEI+ME +PGT +A +  +
Sbjct:    53 YAQGREVKTIFIGGGTPSLLSGPAMQTLLDGVRARLPLAADAEITMEANPGTVEADRFVD 112

Query:   169 LMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQT 228
                 GVNR+S+GVQ+F +E LK  GR HG +E   A ++    G+ +++LDL+  LP Q+
Sbjct:   113 YQRAGVNRISIGVQSFSEEKLKRLGRIHGPQEAKRAAKLASGLGLRSFNLDLMHGLPDQS 172

Query:   229 PQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML 288
              +     LR+ +   P H+S Y L +E  T FG    P    LP +    + +     +L
Sbjct:   173 LEEALGDLRQAIELNPPHLSWYQLTIEPNTLFGSR-PP---VLPDDDALWDIFEQGHQLL 228

Query:   289 SSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGS---ASYLGG--LRFSRPRRMK 343
             ++AGY+ YE S+Y + GY+C+HNL YW+   + G G G+    ++  G  LR ++ R  +
Sbjct:   229 TAAGYQQYETSAYAKPGYQCQHNLNYWRFGDYIGIGCGAHGKVTFPDGRILRTTKTRHPR 288

Query:   344 EFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFG-CSLVHTL 402
              F+   + LE+          ++A D   +  M  FR         F    G C  V  +
Sbjct:   289 GFMQG-RYLES-------QRDVEATDKPFEFFMNRFRLLEAAPRVEFIAYTGLCEDV--I 338

Query:   403 CKAYKPYIESGHVI-CLDEWRRAMNIEEF-NSLL 434
                    I  G++  C D W+   + + F NSLL
Sbjct:   339 RPQLDEAIAQGYLTECADYWQITEHGKLFLNSLL 372

GO:0005737 "cytoplasm" evidence=IEA

GO:0004109 "coproporphyrinogen oxidase activity" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

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

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

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=IEA

TIGR_CMR|SPO_0006 SPO_0006 "oxygen-independent coproporphyrinogen III oxidase, putative" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 469 (170.2 bits), Expect = 1.5e-44, P = 1.5e-44
 Identities = 111/337 (32%), Positives = 171/337 (50%)

Query:    57 YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLE 116
             Y+H PFC+ +C YCDF      S   +  D    V  Y+  L R   A  PG      L 
Sbjct:    13 YVHWPFCQAKCPYCDF-----NSHVAREIDQKAWVRAYVSELER-CAAELPGRV----LN 62

Query:   117 TVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNR 176
             T+FFGGGTPSL+ P  V+++++T+   +  S D EI++E +PG+ +A +     D GVNR
Sbjct:    63 TIFFGGGTPSLMMPETVAAVIETVRRLWPTSNDMEITLEANPGSVEAGRFAAYRDGGVNR 122

Query:   177 VSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESL 236
             +S+GVQA  D  L   GR H + E   A +I + C  E  S DLI +   QTP+ W   L
Sbjct:   123 ISMGVQALNDRDLHRLGRIHSVAEARAAFDIARRC-FERVSFDLIYARQDQTPEAWRAEL 181

Query:   237 RRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFP-LPTETQSANFYRMASSMLSSAGYRH 295
                +     H+S+Y L +E GT FG  Y  G+   LP +  +A+ Y +   + ++ G   
Sbjct:   182 NEALAMAVDHLSLYQLTIEDGTAFGDRYARGKLRGLPADDDAADMYLITQEVCATHGLPA 241

Query:   296 YEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYL--GGLRFSRPRRMKEFVDYVQNLE 353
             YE+S++   G E +HNL YW+   + G G G+   +   G RF+    +     ++  + 
Sbjct:   242 YEVSNHARPGSESRHNLIYWRYGDYVGIGPGAHGRITVDGQRFATESPLNPGA-WLGAVA 300

Query:   354 AGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSF 390
              G  +      +  +D A + LM+  R A G+D+  +
Sbjct:   301 KGSGEL-SRVALSLQDQADEYLMMGLRIAEGLDIHRY 336

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

UNIPROTKB|Q9KUR0 VC_0455 "Oxygen-independent coproporphyrinogen III oxidase, putative" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 459 (166.6 bits), Expect = 1.7e-43, P = 1.7e-43
 Identities = 112/351 (31%), Positives = 176/351 (50%)

Query:    55 SAYIHLPFCRKRCHYCDFPIVAL-GSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSP 113
             S YIH+P+C ++C YCDF   A  G  P Q   D       +Q L R+I   +   K  P
Sbjct:     8 SLYIHIPWCVQKCPYCDFNSHAQKGEIPEQEYLDA-----LLQDLDRDI--ERYQLKGDP 60

Query:   114 PL-ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
              L  ++F GGGTPSL+    ++ +L  + ++     + EI+ME +PGT +A++       
Sbjct:    61 RLLHSIFIGGGTPSLISAEGIARLLQGVAERIAFKPEIEITMEANPGTIEAQRFAGYRTA 120

Query:   173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
             GV R+S+GVQ+F+ E L   GR HG +E   A ++    G+ +++LDL+  LP QTP+  
Sbjct:   121 GVTRISIGVQSFEPEKLARLGRIHGQQEAVRAAQLAHQIGLNSFNLDLMHGLPDQTPEQA 180

Query:   233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
                L + +   P H+S Y L +E  T F   Y+     LP E    + + +    LS AG
Sbjct:   181 LADLDQAIALNPPHLSWYQLTIEPNTLF---YSKPP-KLPDEDALWDIFELGHQKLSDAG 236

Query:   293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGS---ASYLGG--LRFSRPRRMKEFVD 347
             Y  YEIS Y + GY+C+HNL YW+   + G G G+    S+  G  +R ++ +  + ++ 
Sbjct:   237 YVQYEISGYSKPGYQCQHNLNYWRFGDYLGIGCGAHGKLSFADGRIVRTTKTKHPRGYLA 296

Query:   348 YVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSL 398
              + NL    +D      +  +D   +  M  FR         F  T G ++
Sbjct:   297 ALNNLAKAYLD--SEQLVADQDKPFEFFMNRFRLIEPCPKADFTATTGLTI 345

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|VC_0455 VC_0455 "oxygen-independent coproporphyrinogen III oxidase, putative" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 459 (166.6 bits), Expect = 1.7e-43, P = 1.7e-43
 Identities = 112/351 (31%), Positives = 176/351 (50%)

Query:    55 SAYIHLPFCRKRCHYCDFPIVAL-GSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSP 113
             S YIH+P+C ++C YCDF   A  G  P Q   D       +Q L R+I   +   K  P
Sbjct:     8 SLYIHIPWCVQKCPYCDFNSHAQKGEIPEQEYLDA-----LLQDLDRDI--ERYQLKGDP 60

Query:   114 PL-ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
              L  ++F GGGTPSL+    ++ +L  + ++     + EI+ME +PGT +A++       
Sbjct:    61 RLLHSIFIGGGTPSLISAEGIARLLQGVAERIAFKPEIEITMEANPGTIEAQRFAGYRTA 120

Query:   173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
             GV R+S+GVQ+F+ E L   GR HG +E   A ++    G+ +++LDL+  LP QTP+  
Sbjct:   121 GVTRISIGVQSFEPEKLARLGRIHGQQEAVRAAQLAHQIGLNSFNLDLMHGLPDQTPEQA 180

Query:   233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
                L + +   P H+S Y L +E  T F   Y+     LP E    + + +    LS AG
Sbjct:   181 LADLDQAIALNPPHLSWYQLTIEPNTLF---YSKPP-KLPDEDALWDIFELGHQKLSDAG 236

Query:   293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGS---ASYLGG--LRFSRPRRMKEFVD 347
             Y  YEIS Y + GY+C+HNL YW+   + G G G+    S+  G  +R ++ +  + ++ 
Sbjct:   237 YVQYEISGYSKPGYQCQHNLNYWRFGDYLGIGCGAHGKLSFADGRIVRTTKTKHPRGYLA 296

Query:   348 YVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSL 398
              + NL    +D      +  +D   +  M  FR         F  T G ++
Sbjct:   297 ALNNLAKAYLD--SEQLVADQDKPFEFFMNRFRLIEPCPKADFTATTGLTI 345

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|CBU_0597 CBU_0597 "oxygen-independent coproporphyrinogen III oxidase, putative" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 428 (155.7 bits), Expect = 3.3e-40, P = 3.3e-40
 Identities = 107/347 (30%), Positives = 173/347 (49%)

Query:    53 PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
             P S YIH+P+C ++C YCDF   AL       + D P  + YI  L  E+   +      
Sbjct:     5 PLSFYIHMPWCIRKCPYCDFNSHAL-------HQDLPEEA-YINALINEL-RQQIALIEK 55

Query:   113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
              P+ T+F GGGTPSL        + + +  +  L  + EI++E +PG+ +  K     ++
Sbjct:    56 RPIHTIFIGGGTPSLFSQTAYQKLFEEIKKQCLLKKEVEITLEANPGSVEQTKFRGYREI 115

Query:   173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
             G+NR+S+GVQ+FQ++ LK  GR H  +E  +AI I K  G EN ++DL+  LP Q     
Sbjct:   116 GINRLSIGVQSFQNDKLKVLGRIHSAEEAKQAINIAKQAGFENINVDLMFGLPDQKVNEA 175

Query:   233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
              + L+  +  +P H+S Y L +E  T F   + P    LPT+            +L   G
Sbjct:   176 LDDLQTALDLEPTHLSWYQLTLEPNTFF-YKHPPA---LPTDDYIWEIQSKGRKLLRRDG 231

Query:   293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLG--GLRFSRPRRMKEFVDYVQ 350
             + HYE+S+Y      C+HN+ YW+   + G G G+ S L   G + +R   +K    Y+ 
Sbjct:   232 FAHYEVSAYSRSNRFCQHNINYWEFGDYLGLGAGAHSKLTIQG-KITRYWNIKNPRFYM- 289

Query:   351 NLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCS 397
             + +   ++  G   +   +L ++ +M + R  + + L  F E  G S
Sbjct:   290 DAQKPFIE--GRQTLAPNELPLEFMMNALRLQKPIPLTLFTERTGLS 334

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

Prediction Level	EC number	Confidence of Prediction
3rd Layer	1.3.99	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	gw1.XII.1260.1	hypothetical protein (421 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.182.88.1	uroporphyrinogen decarboxylase (EC-4.1.1.37) (357 aa)	•					•	•		0.974
	estExt_fgenesh4_pg.C_LG_XIX0326	SubName- Full=Putative uncharacterized protein; (403 aa)	•					•	•		0.968
	fgenesh4_pg.C_LG_XIV000523	protoporphyrinogen oxidase (EC-1.3.3.4) (544 aa)						•	•		0.936
	fgenesh4_pg.C_LG_II001916	protoporphyrinogen oxidase (EC-1.3.3.4) (543 aa)						•	•		0.935
	fgenesh4_pm.C_LG_I000925	protoporphyrinogen oxidase (EC-1.3.3.4) (482 aa)						•	•		0.922
	fgenesh4_pg.C_LG_XI000217	coproporphyrinogen oxidase (EC-1.3.3.3) (300 aa)						•	•		0.920
	estExt_fgenesh4_pg.C_LG_I2552	hypothetical protein (640 aa)	•						•		0.788
	eugene3.00150799	glutamate-1-semialdehyde 2,1-aminomutase (EC-5.4.3.8) (479 aa)							•		0.759
	gw1.XVII.983.1	hypothetical protein (611 aa)	•						•		0.744
	gw1.VI.1271.1	ferrochelatase (EC-4.99.1.1); Catalyzes the ferrous insertion into protoporphyrin IX (By simila [...] (381 aa)	•						•		0.733

---

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	471
PRK07379	400	PRK07379, PRK07379, coproporphyrinogen III oxidase	1e-175
COG0635	416	COG0635, HemN, Coproporphyrinogen III oxidase and	1e-114
PRK08599	377	PRK08599, PRK08599, coproporphyrinogen III oxidase	3e-91
PRK05799	374	PRK05799, PRK05799, coproporphyrinogen III oxidase	5e-88
TIGR00539	360	TIGR00539, hemN_rel, putative oxygen-independent c	6e-83
PRK09057	380	PRK09057, PRK09057, coproporphyrinogen III oxidase	3e-73
PRK05628	375	PRK05628, PRK05628, coproporphyrinogen III oxidase	4e-67
PRK08446	350	PRK08446, PRK08446, coproporphyrinogen III oxidase	1e-64
PRK06294	370	PRK06294, PRK06294, coproporphyrinogen III oxidase	1e-64
PRK05660	378	PRK05660, PRK05660, HemN family oxidoreductase; Pr	4e-62
PRK08898	394	PRK08898, PRK08898, coproporphyrinogen III oxidase	1e-60
PRK06582	390	PRK06582, PRK06582, coproporphyrinogen III oxidase	6e-59
smart00729	216	smart00729, Elp3, Elongator protein 3, MiaB family	7e-50
PRK13347	453	PRK13347, PRK13347, coproporphyrinogen III oxidase	2e-48
PRK08208	430	PRK08208, PRK08208, coproporphyrinogen III oxidase	5e-42
PRK09249	453	PRK09249, PRK09249, coproporphyrinogen III oxidase	3e-41
TIGR04107	420	TIGR04107, rSAM_HutW, putative heme utilization ra	4e-40
TIGR00538	455	TIGR00538, hemN, oxygen-independent coproporphyrin	6e-38
PRK09058	449	PRK09058, PRK09058, coproporphyrinogen III oxidase	6e-36
PRK05904	353	PRK05904, PRK05904, coproporphyrinogen III oxidase	7e-33
TIGR03994	401	TIGR03994, rSAM_HemZ, coproporphyrinogen dehydroge	2e-31
PRK08207	488	PRK08207, PRK08207, coproporphyrinogen III oxidase	3e-22
pfam04055	165	pfam04055, Radical_SAM, Radical SAM superfamily	3e-21
PRK08629	433	PRK08629, PRK08629, coproporphyrinogen III oxidase	1e-16
COG1243	515	COG1243, ELP3, Histone acetyltransferase [Transcri	7e-14
TIGR01211	522	TIGR01211, ELP3, histone acetyltransferase, ELP3 f	2e-09
COG1032	490	COG1032, COG1032, Fe-S oxidoreductase [Energy prod	7e-05
cd01335	204	cd01335, Radical_SAM, Radical SAM superfamily	8e-05
COG1242	312	COG1242, COG1242, Predicted Fe-S oxidoreductase [G	8e-04
TIGR01212	302	TIGR01212, TIGR01212, radical SAM protein, TIGR012	0.001
TIGR04013	382	TIGR04013, B12_SAM_MJ_1487, B12-binding domain/rad	0.001
TIGR04317	349	TIGR04317, W_rSAM_matur, tungsten cofactor oxidore	0.003

>gnl|CDD|236007 PRK07379, PRK07379, coproporphyrinogen III oxidase; Provisional

 Score =  497 bits (1281), Expect = e-175
 Identities = 189/416 (45%), Positives = 261/416 (62%), Gaps = 34/416 (8%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
           PTSAYIH+PFCR+RC YCDFPI  +G            +  Y+++LC+EI  T    +  
Sbjct: 10  PTSAYIHIPFCRRRCFYCDFPISVVGDR--TRGGTSGLIEEYVEVLCQEIAITPSFGQ-- 65

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
            PL+TVFFGGGTPSL+    +  IL TL  +FG++ DAEIS+E+DPGTFD  +++    L
Sbjct: 66  -PLQTVFFGGGTPSLLSVEQLERILTTLDQRFGIAPDAEISLEIDPGTFDLEQLQGYRSL 124

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           GVNRVSLGVQAFQDELL  CGR+H +K+++ A++++   G+EN+SLDLIS LPHQT + W
Sbjct: 125 GVNRVSLGVQAFQDELLALCGRSHRVKDIFAAVDLIHQAGIENFSLDLISGLPHQTLEDW 184

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
           + SL   +   P H+S YDL +E GT FG  Y PG+ PLP++  +A  YR+A  +L+ AG
Sbjct: 185 QASLEAAIALNPTHLSCYDLVLEPGTAFGKQYQPGKAPLPSDETTAAMYRLAQEILTQAG 244

Query: 293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNL 352
           Y HYEIS+Y + GY+C+HN  YW+N+P+YGFG+G+ASY+ G RF+RPR  KE+  +V+ L
Sbjct: 245 YEHYEISNYAKPGYQCRHNRVYWENRPYYGFGMGAASYVNGQRFTRPRTRKEYYQWVEAL 304

Query: 353 EA--GLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYI 410
            A  GL+D         +D  ++ LML  R A GV L +  E FG  +V  + +  +PY 
Sbjct: 305 IANGGLIDG---EPSSPEDELLETLMLGLRLAEGVSLSALTERFGKEIVEQILQCLQPYF 361

Query: 411 ESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISHAF 466
           + G V    + R                         RL+DPEGFL SN +++  F
Sbjct: 362 QQGWVELEGDRR------------------------LRLTDPEGFLFSNTVLASLF 393

Length = 400

>gnl|CDD|223708 COG0635, HemN, Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]

 Score =  342 bits (880), Expect = e-114
 Identities = 137/386 (35%), Positives = 201/386 (52%), Gaps = 14/386 (3%)

Query: 30  SSTSEATQP-VRQNASTKITPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDD 88
           +S   A +      A   +T    P S YIH+PFC  +C YCDF           T    
Sbjct: 10  TSYPTALEFSEAFLAEAYMTALPKPLSLYIHIPFCVSKCPYCDFNSH-------VTKRGQ 62

Query: 89  PRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKF-GLS 147
           P V  Y+  L  EI            ++T++FGGGTPSL+ P  +  +L  L + F  L 
Sbjct: 63  P-VDEYLDALLEEIELVAALLGGQREVKTIYFGGGTPSLLSPEQLERLLKALRELFNDLD 121

Query: 148 LDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEI 207
            DAEI++E +PGT +A K + L + GVNR+SLGVQ+F DE+LK+ GR H  +E  EA+E+
Sbjct: 122 PDAEITIEANPGTVEAEKFKALKEAGVNRISLGVQSFNDEVLKALGRIHDEEEAKEAVEL 181

Query: 208 VKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPG 267
            +  G  + ++DLI  LP QT +  +E L + +   P H+S+Y L +E GTKF      G
Sbjct: 182 ARKAGFTSINIDLIYGLPGQTLESLKEDLEQALELGPDHLSLYSLAIEPGTKFAQRKIKG 241

Query: 268 EFPLPTETQSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGS 327
           +  LP E + A+ Y +   +L  AGYR YEIS++ + G EC+HNL YW+ K + G G G+
Sbjct: 242 KA-LPDEDEKADMYELVEELLEKAGYRQYEISNFAKPGGECRHNLQYWETKDYLGIGAGA 300

Query: 328 ASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDL 387
              +GG R+   + +K    Y++ ++ G +       +   DL  + L+L  R   GVDL
Sbjct: 301 HGRIGGTRYQNKKNLK---TYLEAVDEGGLPLVEGEELTPDDLIREALILGLRLNFGVDL 357

Query: 388 KSFGETFGCSLVHTLCKAYKPYIESG 413
               E FG      + +     I  G
Sbjct: 358 AELEERFGIFKFAEILELLAELIADG 383

Length = 416

>gnl|CDD|236309 PRK08599, PRK08599, coproporphyrinogen III oxidase; Provisional

 Score =  281 bits (722), Expect = 3e-91
 Identities = 125/351 (35%), Positives = 179/351 (50%), Gaps = 24/351 (6%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
           PTSAYIH+PFC   C+YCDF  V + + P         V  Y+  L +E+       +  
Sbjct: 1   PTSAYIHIPFCEHICYYCDFNKVFIKNQP---------VDEYLDALIKEMNTYA--IRPF 49

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
             L+T++ GGGTP+ +    +  +L  +     LS   E + E +PG     K++ L D 
Sbjct: 50  DKLKTIYIGGGTPTALSAEQLERLLTAIHRNLPLSGLEEFTFEANPGDLTKEKLQVLKDS 109

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           GVNR+SLGVQ F DELLK  GR H  ++VYEAI   K  G +N S+DLI +LP QT + +
Sbjct: 110 GVNRISLGVQTFNDELLKKIGRTHNEEDVYEAIANAKKAGFDNISIDLIYALPGQTIEDF 169

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
           +ESL + +     H S Y L +E  T F  L   G+  LP E   A  Y      + + G
Sbjct: 170 KESLAKALALDIPHYSAYSLILEPKTVFYNLMRKGKLRLPGEDLEAEMYEYLMDEMEAHG 229

Query: 293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNL 352
           +  YEIS++ + G+E +HNLTYW N+ +YGFG G++ Y+ G+R+     +K    Y++ +
Sbjct: 230 FHQYEISNFAKPGFESRHNLTYWNNEEYYGFGAGASGYVNGVRYQNIGPIKH---YLKAI 286

Query: 353 EAGLVDCWGNNHIDAKDLAMDVLM-----LSFRTARGVDLKSFGETFGCSL 398
                   G   ++   L     M     L  R   GV    F E FG S 
Sbjct: 287 NEE-----GLPRLEEHVLTKKEQMEEEMFLGLRKKSGVSKARFEEKFGQSF 332

Length = 377

>gnl|CDD|180263 PRK05799, PRK05799, coproporphyrinogen III oxidase; Provisional

 Score =  273 bits (700), Expect = 5e-88
 Identities = 118/365 (32%), Positives = 195/365 (53%), Gaps = 19/365 (5%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
             S YIH+PFC+++C YCDFP  +          +D  +  YI+ L +EI  +    K  
Sbjct: 3   EISLYIHIPFCKQKCLYCDFPSYS--------GKEDLMME-YIKALSKEIRNSTKNKKIK 53

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
               ++F GGGTP+ +    +  + +T+  K     D E ++E +PGTF   K++ L  +
Sbjct: 54  ----SIFIGGGTPTYLSLEALEILKETI-KKLNKKEDLEFTVEGNPGTFTEEKLKILKSM 108

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           GVNR+S+G+QA+Q+ LLK  GR H  +E  E  ++ +  G  N ++DL+  LP+QT + W
Sbjct: 109 GVNRLSIGLQAWQNSLLKYLGRIHTFEEFLENYKLARKLGFNNINVDLMFGLPNQTLEDW 168

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
           +E+L + V   P+H+S Y L +E+GT F  LY  G+  LP E +    Y      L   G
Sbjct: 169 KETLEKVVELNPEHISCYSLIIEEGTPFYNLYENGKLKLPDEEEEREMYHYTIEFLKEKG 228

Query: 293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNL 352
           Y  YEIS++ + G EC+HNL YW  + + G G G+ SY+ G R+     +++++  + N 
Sbjct: 229 YHQYEISNFAKPGKECRHNLVYWDLEEYIGCGAGAHSYVNGKRYENISNIEKYIKEI-NE 287

Query: 353 EAGLVDCWGNNHIDAKDLAMDVLM-LSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIE 411
               V+     H ++    M+  M +  R  +G+ ++ F + FG ++     +    YI+
Sbjct: 288 NNSAVE---EIHKNSIKDNMEEFMFMGLRKIKGICIEDFKKRFGKNIYEVYGEVINKYIK 344

Query: 412 SGHVI 416
            G +I
Sbjct: 345 LGLLI 349

Length = 374

>gnl|CDD|129630 TIGR00539, hemN_rel, putative oxygen-independent coproporphyrinogen III oxidase

 Score =  259 bits (664), Expect = 6e-83
 Identities = 119/367 (32%), Positives = 179/367 (48%), Gaps = 17/367 (4%)

Query: 55  SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPP 114
           S YIH+PFC  +C YCDF      S P +          Y Q LC+++           P
Sbjct: 2   SLYIHIPFCENKCGYCDFNSYENKSGPKE---------EYTQALCQDLKHALSQTD-QEP 51

Query: 115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGV 174
           LE++F GGGTP+ +       + +++     LS D EI+ E +P    A   + L   G+
Sbjct: 52  LESIFIGGGTPNTLSVEAFERLFESIYQHASLSDDCEITTEANPELITAEWCKGLKGAGI 111

Query: 175 NRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEE 234
           NR+SLGVQ+F+D+ L   GR H  K +  AIE     G+EN SLDL+  LP QT    +E
Sbjct: 112 NRLSLGVQSFRDDKLLFLGRQHSAKNIAPAIETALKSGIENISLDLMYGLPLQTLNSLKE 171

Query: 235 SLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR 294
            L+        H+S Y L VE  T F       +  LP +   A+F  +   +L   G++
Sbjct: 172 ELKLAKELPINHLSAYALSVEPNTNFE--KNAKK--LPDDDSCAHFDEVVREILEGFGFK 227

Query: 295 HYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEA 354
            YE+S+Y + GY+ KHNL YW  K + G G G+   +   RF   + +K ++     L+ 
Sbjct: 228 QYEVSNYAKAGYQVKHNLAYWGAKDYLGCGAGAHGCVANERFFAKKLIKNYIKDP--LQR 285

Query: 355 GLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGH 414
           G V+     ++  +D  ++ L L  R   GV+   F E  G S V  L +  K +I++  
Sbjct: 286 G-VETLNEKNVPKQDKRLEKLFLGLRCVLGVEKSFFDENKGLSQVKFLIEENKAFIKNNR 344

Query: 415 VICLDEW 421
           +I  D +
Sbjct: 345 LINSDSF 351

Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 360

>gnl|CDD|181629 PRK09057, PRK09057, coproporphyrinogen III oxidase; Provisional

 Score =  235 bits (602), Expect = 3e-73
 Identities = 112/347 (32%), Positives = 179/347 (51%), Gaps = 20/347 (5%)

Query: 57  YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSP-PL 115
           Y+H PFC  +C YCDF      +S  +   D  R   +     RE+       +T P  L
Sbjct: 8   YVHWPFCLAKCPYCDF------NSHVRHAIDQAR---FAAAFLRELATE--AARTGPRTL 56

Query: 116 ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN 175
            ++FFGGGTPSL+ P  V+++LD +   + ++ D EI++E +P + +A +       GVN
Sbjct: 57  TSIFFGGGTPSLMQPETVAALLDAIARLWPVADDIEITLEANPTSVEAGRFRGYRAAGVN 116

Query: 176 RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEES 235
           RVSLGVQA  D  L+  GR H + E   AI++ +       S DLI + P QT   W   
Sbjct: 117 RVSLGVQALNDADLRFLGRLHSVAEALAAIDLAREI-FPRVSFDLIYARPGQTLAAWRAE 175

Query: 236 LRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH 295
           L+  +     H+S+Y L +E+GT F  L+  G+  LP E  +A+ Y +   + ++AG   
Sbjct: 176 LKEALSLAADHLSLYQLTIEEGTAFYGLHAAGKLILPDEDLAADLYELTQEITAAAGLPA 235

Query: 296 YEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYL--GGLRF--SRPRRMKEFVDYVQN 351
           YEIS++   G E +HNLTYW+   + G G G+   L  GG R   +  +  + +++ V+ 
Sbjct: 236 YEISNHARPGAESRHNLTYWRYGDYAGIGPGAHGRLTLGGERHATATEKAPEAWLERVER 295

Query: 352 LEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSL 398
              G+++      +D ++ A + L++  R   G+DL  +    G  L
Sbjct: 296 NGHGIIE---EERLDPEERADEFLLMGLRLREGIDLARYAALSGRPL 339

Length = 380

>gnl|CDD|180172 PRK05628, PRK05628, coproporphyrinogen III oxidase; Validated

 Score =  219 bits (560), Expect = 4e-67
 Identities = 115/349 (32%), Positives = 167/349 (47%), Gaps = 23/349 (6%)

Query: 53  PTSAYIHLPFCRKRCHYCDF----PIVALGSSPTQTNDDDPRVSNYIQLLCREI-IATKP 107
           P   Y+H+PFC  RC YCDF        LG   +           Y+  L  E+ +A   
Sbjct: 2   PFGVYVHVPFCATRCGYCDFNTYTAA-ELGGGASPDG--------YLDALRAELELAAAV 52

Query: 108 GHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKME 167
               +PP+ TVF GGGTPSL+    ++ +LD + D FGL+  AE++ E +P +       
Sbjct: 53  LGDPAPPVSTVFVGGGTPSLLGAEGLARVLDAVRDTFGLAPGAEVTTEANPESTSPEFFA 112

Query: 168 ELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQ 227
            L   G  RVSLG+Q+    +L    R H       A    +  G E+ +LDLI   P +
Sbjct: 113 ALRAAGFTRVSLGMQSAAPHVLAVLDRTHTPGRAVAAAREARAAGFEHVNLDLIYGTPGE 172

Query: 228 TPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSM 287
           +   W  SL   + A   HVS Y L VE GT        GE P P +   A+ Y +A + 
Sbjct: 173 SDDDWRASLDAALEAGVDHVSAYALIVEDGTALARRVRRGELPAPDDDVLADRYELADAR 232

Query: 288 LSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRF---SRPRRMKE 344
           LS+AG+  YE+S++   G EC+HNL YW+   ++G G G+ S++GG+R+     P     
Sbjct: 233 LSAAGFDWYEVSNWARPGGECRHNLGYWRGGDWWGAGPGAHSHVGGVRWWNVKHPAA--- 289

Query: 345 FVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGET 393
              Y   L AG +   G   +DA+D  ++ +ML  R   G+ L      
Sbjct: 290 ---YAARLAAGALPVAGREVLDAEDRHVERVMLGLRLREGLPLALLDAA 335

Length = 375

>gnl|CDD|181428 PRK08446, PRK08446, coproporphyrinogen III oxidase; Provisional

 Score =  212 bits (541), Expect = 1e-64
 Identities = 108/335 (32%), Positives = 167/335 (49%), Gaps = 28/335 (8%)

Query: 56  AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPL 115
            YIH+PFC  +C YC F      +S    +D       Y+Q LC ++        T   +
Sbjct: 3   LYIHIPFCESKCGYCAF------NSYENKHD---LKKEYMQALCLDLKFELE-QFTDEKI 52

Query: 116 ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN 175
           E+VF GGGTPS V  +F   I + ++    LS D EI+ E +P +     ++ + +LGVN
Sbjct: 53  ESVFIGGGTPSTVSAKFYEPIFEIISPY--LSKDCEITTEANPNSATKAWLKGMKNLGVN 110

Query: 176 RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEES 235
           R+S GVQ+F ++ LK  GR H  K++ +AIE  K  G EN S+DLI   P    ++ +E 
Sbjct: 111 RISFGVQSFNEDKLKFLGRIHSQKQIIKAIENAKKAGFENISIDLIYDTPLDNKKLLKEE 170

Query: 236 LRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH 295
           L+        H+S Y L +E+ T F   +         +   A F+      L   G++ 
Sbjct: 171 LKLAKELPINHLSAYSLTIEENTPF---FEKNHKK-KDDENLAKFFIEQ---LEELGFKQ 223

Query: 296 YEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAG 355
           YEIS++G+  Y+CKHNL YW+ K + G G G+  ++   RF      K   +Y++N    
Sbjct: 224 YEISNFGK-NYQCKHNLGYWQGKDYLGCGAGAVGFVANKRF---YPKKNLENYIKNPLKR 279

Query: 356 LVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSF 390
            ++      +  +DL ++ L L  R+  GVDL   
Sbjct: 280 EIE-----TLSEEDLRLEKLFLGLRSIVGVDLSIL 309

Length = 350

>gnl|CDD|180518 PRK06294, PRK06294, coproporphyrinogen III oxidase; Provisional

 Score =  212 bits (542), Expect = 1e-64
 Identities = 110/342 (32%), Positives = 166/342 (48%), Gaps = 22/342 (6%)

Query: 52  SPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKT 111
           SP + YIH+PFC K+CHYC F  +            +  VS Y   + +E +      + 
Sbjct: 5   SPLALYIHIPFCTKKCHYCSFYTIP---------YKEESVSLYCNAVLKEGLKKLAPLRC 55

Query: 112 SPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMD 171
           S  ++TVFFGGGTPSLVPP  +  IL TL          EI++E +P       +  L  
Sbjct: 56  SHFIDTVFFGGGTPSLVPPALIQDILKTLEAPHA----TEITLEANPENLSESYIRALAL 111

Query: 172 LGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQM 231
            G+NR+S+GVQ F D LLK  GR H   +  +A++     G  N S+DLI  LP Q+   
Sbjct: 112 TGINRISIGVQTFDDPLLKLLGRTHSSSKAIDAVQECSEHGFSNLSIDLIYGLPTQSLSD 171

Query: 232 WEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPT---ETQSANFYRMASSML 288
           +   L + +     H+S+Y+L ++  T F   Y   +  LP+   E   A     A  +L
Sbjct: 172 FIVDLHQAITLPITHISLYNLTIDPHTSF---YKHRKRLLPSIADEEILAEMSLAAEELL 228

Query: 289 SSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDY 348
           +S G+  YE++SY +   + KHN  YW ++PF G G+ ++ YL G+R     R+     Y
Sbjct: 229 TSQGFTRYELASYAKPQAQSKHNTYYWTDRPFLGLGVSASQYLHGIRSKNLSRISH---Y 285

Query: 349 VQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSF 390
           ++ L   L     +  +   +   + L L  R   G+ L  F
Sbjct: 286 LRALRKNLPTQESSEELPPNERIKEALALRLRLCEGIPLADF 327

Length = 370

>gnl|CDD|235550 PRK05660, PRK05660, HemN family oxidoreductase; Provisional

 Score =  206 bits (526), Expect = 4e-62
 Identities = 111/356 (31%), Positives = 176/356 (49%), Gaps = 28/356 (7%)

Query: 49  PQLSPTSAYIHLPFCRKRCHYCDFPIVAL-GSSPTQTNDDDPRVSNYIQLLCREIIATKP 107
            +L P S YIH+P+C ++C YCDF   AL G  P            Y+  L  ++ A  P
Sbjct: 2   LKLPPLSLYIHIPWCVQKCPYCDFNSHALKGEVPED---------EYVDHLLADLDADLP 52

Query: 108 GHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKME 167
                  + ++F GGGTPSL     +  +LD +  +   + DAEI+ME +PGT +A +  
Sbjct: 53  -LVQGREVHSIFIGGGTPSLFSAEAIQRLLDGVRARLPFAPDAEITMEANPGTVEADRFV 111

Query: 168 ELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQ 227
                GVNR+S+GVQ+F +E LK  GR HG  E   A ++ +  G+ +++LDL+  LP Q
Sbjct: 112 GYQRAGVNRISIGVQSFSEEKLKRLGRIHGPDEAKRAAKLAQGLGLRSFNLDLMHGLPDQ 171

Query: 228 TPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSM 287
           + +   + LR+ +   P H+S Y L +E  T FG    P    LP +    + +     +
Sbjct: 172 SLEEALDDLRQAIALNPPHLSWYQLTIEPNTLFG--SRPPV--LPDDDALWDIFEQGHQL 227

Query: 288 LSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGS---ASYLGG--LRFSRPRRM 342
           L++AGY+ YE S+Y + GY+C+HNL YW+   + G G G+    ++  G  LR  + +  
Sbjct: 228 LTAAGYQQYETSAYAKPGYQCQHNLNYWRFGDYLGIGCGAHGKLTFPDGRILRTWKTKHP 287

Query: 343 KEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSL 398
           + +      ++   +D  G   ++A D   +  M  FR         F    G   
Sbjct: 288 RGY------MQGRYLD--GQRDVEAADRPFEFFMNRFRLLEAAPRADFEAYTGLPE 335

Length = 378

>gnl|CDD|236346 PRK08898, PRK08898, coproporphyrinogen III oxidase; Provisional

 Score =  203 bits (518), Expect = 1e-60
 Identities = 118/356 (33%), Positives = 177/356 (49%), Gaps = 24/356 (6%)

Query: 49  PQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKP- 107
             L P S Y+H P+C ++C YCDF      S   +     P  + Y+  L  ++    P 
Sbjct: 15  TSLPPLSLYVHFPWCVRKCPYCDF-----NSHEWKDGGAIPE-AAYLDALRADLEQALPL 68

Query: 108 --GHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARK 165
             G      + TVF GGGTPSL+    +  +L  +     L  DAEI++E +PGTF+A K
Sbjct: 69  VWGR----QVHTVFIGGGTPSLLSAAGLDRLLSDVRALLPLDPDAEITLEANPGTFEAEK 124

Query: 166 MEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLP 225
             +    GVNR+S+G+Q+F D  LK+ GR H   E   AIEI      +N++LDL+ +LP
Sbjct: 125 FAQFRASGVNRLSIGIQSFNDAHLKALGRIHDGAEARAAIEIA-AKHFDNFNLDLMYALP 183

Query: 226 HQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMAS 285
            QT       +   +   P H+S+Y L +E  T F   + P    LP +  SA+      
Sbjct: 184 GQTLDEALADVETALAFGPPHLSLYHLTLEPNTLFA-KFPP---ALPDDDASADMQDWIE 239

Query: 286 SMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGL-RFSRPRRMKE 344
           + L++AGY HYE+S+Y + G +C+HNL YW+   + G G G+   L    R  R  R K 
Sbjct: 240 ARLAAAGYAHYEVSAYAKPGRQCRHNLNYWQFGDYLGIGAGAHGKLSFPDRILRQMRYKH 299

Query: 345 FVDYVQNLEAG--LVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSL 398
              Y++  +AG  + +      + A+DL  + ++ + R   GV    F E  G  L
Sbjct: 300 PATYLEQAKAGTAVQE---EREVGARDLPFEFMLNALRLTDGVPAHLFQERTGLPL 352

Length = 394

>gnl|CDD|180630 PRK06582, PRK06582, coproporphyrinogen III oxidase; Provisional

 Score =  198 bits (505), Expect = 6e-59
 Identities = 111/374 (29%), Positives = 187/374 (50%), Gaps = 25/374 (6%)

Query: 55  SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPP 114
           S YIH PFC  +C YCDF      S    T D +     +++   +EI   K     +  
Sbjct: 13  SIYIHWPFCLSKCPYCDF-----NSHVASTIDHN----QWLKSYEKEIEYFKD-IIQNKY 62

Query: 115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGV 174
           ++++FFGGGTPSL+ P  V  I++ +++   +    EI++E +P +F+  K +     G+
Sbjct: 63  IKSIFFGGGTPSLMNPVIVEGIINKISNLAIIDNQTEITLETNPTSFETEKFKAFKLAGI 122

Query: 175 NRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEE 234
           NRVS+GVQ+ +++ LK  GR H   +  + IE          S DLI +   QT + W+E
Sbjct: 123 NRVSIGVQSLKEDDLKKLGRTHDCMQAIKTIEAANTI-FPRVSFDLIYARSGQTLKDWQE 181

Query: 235 SLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR 294
            L++ +     H+S+Y L +E+GT F  L+  G   LP    +A  Y   +  L S  Y 
Sbjct: 182 ELKQAMQLATSHISLYQLTIEKGTPFYKLFKEGNLILPHSDAAAEMYEWTNHYLESKKYF 241

Query: 295 HYEISSYGEDGYECKHNLTYWKNKPFYGFGLG--------SASYLGGLRFSRPRRMKEFV 346
            YEIS+Y + G EC HNLTYW    + G G G        S+S    + + +P +   ++
Sbjct: 242 RYEISNYAKIGQECLHNLTYWNYNSYLGIGPGAHSRIIESSSSVSAIMMWHKPEK---WL 298

Query: 347 DYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAY 406
           D V+    G+     N  +  +++  ++LM+  R ++G+++ +  +     L + L    
Sbjct: 299 DAVKTKNVGIQT---NTKLTHQEIIEEILMMGLRLSKGINISTLEQKLNTKLENILDMNN 355

Query: 407 KPYIESGHVICLDE 420
             + ++  +I LDE
Sbjct: 356 LKHYQALDLIRLDE 369

Length = 390

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

 Score =  169 bits (429), Expect = 7e-50
 Identities = 73/208 (35%), Positives = 110/208 (52%), Gaps = 11/208 (5%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
           P + YI    C +RC +C FP +                S Y++ L REI       +  
Sbjct: 1   PLALYIITRGCPRRCTFCSFPSLR-----------GKLRSRYLEALVREIELLAEKGEKE 49

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
             + TVF GGGTP+L+ P  +  +L+ + +  GL+ D EI++E  P T     +E L + 
Sbjct: 50  GLVGTVFIGGGTPTLLSPEQLEELLEAIREILGLAKDVEITIETRPDTLTEELLEALKEA 109

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           GVNRVSLGVQ+  DE+LK+  R H +++V EA+E+++  G    S DLI  LP +T + +
Sbjct: 110 GVNRVSLGVQSGDDEVLKAINRGHTVEDVLEAVELLREAGPIKVSTDLIVGLPGETEEDF 169

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKF 260
           EE+L+      P  VS++ L    GT  
Sbjct: 170 EETLKLLKELGPDRVSIFPLSPRPGTPL 197

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

>gnl|CDD|237356 PRK13347, PRK13347, coproporphyrinogen III oxidase; Provisional

 Score =  172 bits (437), Expect = 2e-48
 Identities = 94/357 (26%), Positives = 147/357 (41%), Gaps = 64/357 (17%)

Query: 52  SPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKT 111
            P S Y+H+PFCR  C +C           T     D  V  Y+  L REI         
Sbjct: 49  EPVSLYLHVPFCRSLCWFCGCN--------TIITQRDAPVEAYVAALIREIRLVAASLPQ 100

Query: 112 SPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMD 171
              +  + +GGGTP+++ P     ++  L D F  + +AEI++E+DP T  A  ++ L  
Sbjct: 101 RRRVSQLHWGGGTPTILNPDQFERLMAALRDAFDFAPEAEIAVEIDPRTVTAEMLQALAA 160

Query: 172 LGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQM 231
           LG NR S GVQ F  ++ K+  R    + V  A+E+++  G E+ + DLI  LPHQT + 
Sbjct: 161 LGFNRASFGVQDFDPQVQKAINRIQPEEMVARAVELLRAAGFESINFDLIYGLPHQTVES 220

Query: 232 WEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFP---------LPTETQSANFYR 282
           + E+L + +   P  ++V          FG  + P             LP   +     R
Sbjct: 221 FRETLDKVIALSPDRIAV----------FGYAHVPSRRKNQRLIDEAALPDAEERLRQAR 270

Query: 283 MASSMLSSAGYR-----HY-----EISSYGEDGYECKHNLTYWKN--KPFYGFGLGSASY 330
             +  L +AGY      H+     E++    +G   ++   Y  +  +   GFG  + S 
Sbjct: 271 AVADRLLAAGYVPIGLDHFALPDDELAIAQREGRLHRNFQGYTTDRCETLIGFGASAISR 330

Query: 331 LGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDL 387
             G              YVQN+ +  +  +    IDA  L            RG  L
Sbjct: 331 FPG-------------GYVQNISS--LKAY-YRAIDAGRLP---------IERGYAL 362

Length = 453

>gnl|CDD|181292 PRK08208, PRK08208, coproporphyrinogen III oxidase; Validated

 Score =  154 bits (390), Expect = 5e-42
 Identities = 87/298 (29%), Positives = 134/298 (44%), Gaps = 37/298 (12%)

Query: 54  TSAYIHLPFCRKRCHYCD-FPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
            S YIH+PFC  RC +C+ F         T+T  D   + +Y+  L R+        +  
Sbjct: 40  LSLYIHIPFCEMRCGFCNLF---------TRTGADAEFIDSYLDALIRQAEQV---AEAL 87

Query: 113 PPLE--TVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDA-EISMEMDPGTFDARKMEEL 169
            P    +   GGGTP+L+    +  + D++    G+ L     S+E  P T  A K+  L
Sbjct: 88  APARFASFAVGGGTPTLLNAAELEKLFDSVERVLGVDLGNIPKSVETSPATTTAEKLALL 147

Query: 170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTP 229
              GVNR+S+GVQ+F D  L +  R     +V++A+E ++  G    ++DLI  +P QT 
Sbjct: 148 AARGVNRLSIGVQSFHDSELHALHRPQKRADVHQALEWIRAAGFPILNIDLIYGIPGQTH 207

Query: 230 QMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS 289
             W ESL + +  +P+ + +Y L V   T  G            + Q  + YR+A  +L 
Sbjct: 208 ASWMESLDQALVYRPEELFLYPLYVRPLTGLGRRAR------AWDDQRLSLYRLARDLLL 261

Query: 290 SAGY--------RHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRP 339
            AGY        R  +    G   Y C+ +          G G G+ SY G L +S P
Sbjct: 262 EAGYTQTSMRMFRRNDAPDKGAPAYSCQTD-------GMLGLGCGARSYTGNLHYSSP 312

Length = 430

>gnl|CDD|236430 PRK09249, PRK09249, coproporphyrinogen III oxidase; Provisional

 Score =  152 bits (387), Expect = 3e-41
 Identities = 72/252 (28%), Positives = 119/252 (47%), Gaps = 27/252 (10%)

Query: 52  SPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKT 111
            P S Y+H+PFCR  C+YC       G +   T D + +   Y+  L +EI         
Sbjct: 48  RPLSLYVHIPFCRSLCYYC-------GCNKIITRDHE-KADPYLDALEKEIALVAALLGP 99

Query: 112 SPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMD 171
             P+  + +GGGTP+ + P  +  ++  L + F  + DAEIS+E+DP   D   ++ L +
Sbjct: 100 GRPVSQLHWGGGTPTFLSPEQLRRLMALLREHFNFAPDAEISIEIDPRELDLEMLDALRE 159

Query: 172 LGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQM 231
           LG NR+SLGVQ F  E+ K+  R    +  +  +E  +  G  + ++DLI  LP QTP+ 
Sbjct: 160 LGFNRLSLGVQDFDPEVQKAVNRIQPFEFTFALVEAARELGFTSINIDLIYGLPKQTPES 219

Query: 232 WEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFP---------LPTETQSANFYR 282
           +  +L + +  +P  ++V          F   + P  F          LP+  +     +
Sbjct: 220 FARTLEKVLELRPDRLAV----------FNYAHVPWLFKAQRKIDEADLPSPEEKLAILQ 269

Query: 283 MASSMLSSAGYR 294
                L+ AGY+
Sbjct: 270 QTIETLTEAGYQ 281

Length = 453

>gnl|CDD|234473 TIGR04107, rSAM_HutW, putative heme utilization radical SAM enzyme HutW

 Score =  148 bits (377), Expect = 4e-40
 Identities = 75/254 (29%), Positives = 119/254 (46%), Gaps = 19/254 (7%)

Query: 48  TPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREI--IAT 105
           TP+ +    YIH+PFCR RC +C F   A        + +    + Y   L  E+   A 
Sbjct: 34  TPRSARKLLYIHIPFCRTRCTFCGFFQNA-------WSPE--LGAAYTDALIAELAAEAA 84

Query: 106 KPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARK 165
            P    S P+  V+ GGGTP+ +    ++ ++  +     L+ D EI++E     FD  K
Sbjct: 85  LPLT-QSGPIHAVYIGGGTPTALSADDLARLIRAIRRYLPLAPDCEITLEGRINGFDDEK 143

Query: 166 MEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWS--LDLISS 223
            +  ++ GVNR S+GVQ+F  E+ +  GR    +EV   +E  +L  ++  +  +DLI  
Sbjct: 144 ADAALEAGVNRFSIGVQSFDTEVRRRLGRKDDREEVLARLE--ELSALDRAAVVIDLIYG 201

Query: 224 LPHQTPQMWEESLRRTVGAQPKH-VSVYDLQVEQGTKFGILYTPGEFPLPTETQS-ANFY 281
           LP QT ++W++ L R         V +Y L +  GT        G+ P P  T   A  Y
Sbjct: 202 LPGQTDEIWQQDL-RIAADLGLDGVDLYALNLFPGTPLAKAVEKGKLPPPATTPEQARMY 260

Query: 282 RMASSMLSSAGYRH 295
                 L++ G+R 
Sbjct: 261 AYGVEFLAAHGWRQ 274

HutW is a radical SAM enzyme closely related to HemN, the heme biosynthetic oxygen-independent coproporphyrinogen oxidase. It belongs to operons associated with heme uptake and utilization in Vibrio cholerae and related species, but neither it not HutX has been shown to be needed, as is HutZ, for heme utilization. HutW failed to complement a Salmonella enterica hemN mutant (PMID:15205415), suggesting a related but distinct activity. Some members of this family are fused to hutX. Length = 420

>gnl|CDD|129629 TIGR00538, hemN, oxygen-independent coproporphyrinogen III oxidase

 Score =  143 bits (362), Expect = 6e-38
 Identities = 80/330 (24%), Positives = 143/330 (43%), Gaps = 44/330 (13%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
           P S Y+H+PFC K C++C       G +   T     +   Y+  L +EI    P    +
Sbjct: 49  PLSLYVHIPFCHKACYFC-------GCNVIITRQK-HKADPYLDALEKEIALVAPLFDGN 100

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
             +  + +GGGTP+ + P  +S ++  + + F  + DAEIS+E+DP       ++ L D 
Sbjct: 101 RHVSQLHWGGGTPTYLSPEQISRLMKLIRENFPFNADAEISIEIDPRYITKDVIDALRDE 160

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           G NR+S GVQ F  E+ ++  R    + ++E +   +  G  + ++DLI  LP QT + +
Sbjct: 161 GFNRLSFGVQDFNKEVQQAVNRIQPEEMIFELMNHAREAGFTSINIDLIYGLPKQTKESF 220

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFP---------LPTETQSANFYRM 283
            ++L +     P  ++V++            + P   P         LP+  +  +  + 
Sbjct: 221 AKTLEKVAELNPDRLAVFNYA----------HVPWVKPAQRKIPEAALPSAEEKLDILQE 270

Query: 284 ASSMLSSAGYR-----HY-----EISSYGEDGYECKHNLTYWKNKPF---YGFGLGSASY 330
             + L+ AGY+     H+     E++     G E   N   +  +      GFG+ S S 
Sbjct: 271 TIAFLTEAGYQFIGMDHFAKPDDELAVAQRKG-ELHRNFQGYTTQKDTDLLGFGVTSISM 329

Query: 331 LGGLRFSRPRRMKEFVDYVQNLEAGLVDCW 360
           LG       +  K    Y + ++ G     
Sbjct: 330 LGDCYA---QNQKTLKQYYKAVDEGGNPVE 356

This model represents HemN, the oxygen-independent coproporphyrinogen III oxidase that replaces HemF function under anaerobic conditions. Several species, including E. coli, Helicobacter pylori, and Aquifex aeolicus, have both a member of this family and a member of another, closely related family for which there is no evidence of coproporphyrinogen III oxidase activity. Members of this family have a perfectly conserved motif PYRT[SC]YP in a region N-terminal to the region of homology with the related uncharacterized protein [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 455

>gnl|CDD|236368 PRK09058, PRK09058, coproporphyrinogen III oxidase; Provisional

 Score =  137 bits (348), Expect = 6e-36
 Identities = 77/253 (30%), Positives = 118/253 (46%), Gaps = 19/253 (7%)

Query: 48  TPQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREII--AT 105
           T +      YIH+PFCR  C +C F       +P         V+ Y   L RE+   A 
Sbjct: 56  TLRARKRLLYIHIPFCRTHCTFCGF--FQNAWNP-------EAVARYTDALIRELAMEAD 106

Query: 106 KPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARK 165
            P  + S P+  V+FGGGTP+ +    ++ ++  L +   L+ D EI++E     FD  K
Sbjct: 107 SPLTQ-SAPIHAVYFGGGTPTALSAEDLARLITALREYLPLAPDCEITLEGRINGFDDEK 165

Query: 166 MEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWS--LDLISS 223
            +  +D G NR S+GVQ+F  ++ +  GR    +EV   +E  +L   +  +   DLI  
Sbjct: 166 ADAALDAGANRFSIGVQSFNTQVRRRAGRKDDREEVLARLE--ELVARDRAAVVCDLIFG 223

Query: 224 LPHQTPQMWEESLRRTVGAQPKH-VSVYDLQVEQGTKFGILYTPGEFPLPTETQS-ANFY 281
           LP QTP++W++ L   V       V +Y L +  GT        G+ P P      A+ Y
Sbjct: 224 LPGQTPEIWQQDL-AIVRDLGLDGVDLYALNLLPGTPLAKAVEKGKLPPPATPAERADMY 282

Query: 282 RMASSMLSSAGYR 294
                 L+ AG+R
Sbjct: 283 AYGVEFLAKAGWR 295

Length = 449

>gnl|CDD|235641 PRK05904, PRK05904, coproporphyrinogen III oxidase; Provisional

 Score =  127 bits (321), Expect = 7e-33
 Identities = 78/339 (23%), Positives = 145/339 (42%), Gaps = 46/339 (13%)

Query: 57  YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLE 116
           YIH+PFC+  C +CDF          +     P+     +   + I       K     +
Sbjct: 10  YIHIPFCQYICTFCDF----------KRILKTPQTKKIFKDFLKNIKMHIKNFKIKQ-FK 58

Query: 117 TVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNR 176
           T++ GGGTP+ +  + +  +L T+     +  + E ++E +P      ++  L    VNR
Sbjct: 59  TIYLGGGTPNCLNDQLLDILLSTIKPY--VDNNCEFTIECNPELITQSQINLLKKNKVNR 116

Query: 177 VSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESL 236
           +SLGVQ+  + +LK   R H +++  EAI ++   G+ N S D +  LP    +  +E  
Sbjct: 117 ISLGVQSMNNNILKQLNRTHTIQDSKEAINLLHKNGIYNISCDFLYCLPILKLKDLDEVF 176

Query: 237 RRTVGAQPKHVSVYDLQVEQG-----TKFGILYTPGEFPLPTETQSANFYRMASSMLSSA 291
              +  +  H+S Y L++++G       + I           E + A       +  +  
Sbjct: 177 NFILKHKINHISFYSLEIKEGSILKKYHYTI----------DEDKEAEQLNYIKAKFNKL 226

Query: 292 GYRHYEISSYGED-GYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQ 350
            Y+ YE+S++  +  Y  KHNL YW+ K +   G G+  +            +  ++Y  
Sbjct: 227 NYKRYEVSNWTNNFKYISKHNLAYWRTKDWAAIGWGAHGF------------ENNIEYFF 274

Query: 351 NLEAGLVDCWG--NNHIDAKDLAMDVLMLSFRTARGVDL 387
           +   G +  W      +   +L   +L++  R   G+DL
Sbjct: 275 D---GSIQNWILIKKVLTDHELYQQILIMGLRLKDGLDL 310

Length = 353

>gnl|CDD|234435 TIGR03994, rSAM_HemZ, coproporphyrinogen dehydrogenase HemZ

 Score =  124 bits (313), Expect = 2e-31
 Identities = 74/270 (27%), Positives = 126/270 (46%), Gaps = 23/270 (8%)

Query: 55  SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPP 114
           S Y+ +PFC  RC YC F      S P        RV  Y+  LC+E+ A     K    
Sbjct: 86  SLYVGIPFCPTRCLYCSFT-----SYPIGKWKK--RVDEYLDALCKELEAVAKILK-GLK 137

Query: 115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMD-PGTFDARKMEELMDLG 173
           L+TV+ GGGTP+ +    +  +L  + + F LS   E ++E   P +  A K+E L   G
Sbjct: 138 LDTVYIGGGTPTTLSAEQLERLLGKIEENFDLSHLREFTVEAGRPDSITAEKLEVLKRHG 197

Query: 174 VNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWE 233
           V R+S+  Q   D+ L   GR H ++++ EA  + +  G +N ++DLI+ LP +T +   
Sbjct: 198 VTRISINPQTMNDKTLDLIGRRHTVEDIKEAFALAREAGFDNINMDLIAGLPGETLEDVR 257

Query: 234 ESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGY 293
           ++L +     P+ ++V+ L +++ ++        ++ LP+   +A    +A+      G 
Sbjct: 258 DTLEQVKKLAPESITVHTLAIKRASRLNQEK--DKYQLPSFEDTAEMIDLAAEYARDMGM 315

Query: 294 RHY------------EISSYGEDGYECKHN 311
             Y            E   Y + G E  +N
Sbjct: 316 EPYYLYRQKNMAGNLENVGYAKPGKEGLYN 345

Members of this radical SAM protein family are HemZ, a protein involved in coproporphyrinogen III decarboxylation. Alternative names for this enzyme (EC 1.3.99.22) include coproporphyrinogen dehydrogenase and oxygen-independent coproporphyrinogen III oxidase. The family is related to, but distinct from HemN, and in Bacillus subtilis was shown to be connected to peroxide stress and catalase formation [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 401

>gnl|CDD|236187 PRK08207, PRK08207, coproporphyrinogen III oxidase; Provisional

 Score = 99.2 bits (248), Expect = 3e-22
 Identities = 64/246 (26%), Positives = 111/246 (45%), Gaps = 14/246 (5%)

Query: 55  SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSP- 113
           S YI +PFC  RC YC FP   +             V  Y++ L  EI       K    
Sbjct: 165 SIYIGIPFCPTRCLYCSFPSYPIK----GYKG---LVEPYLEALHYEIEEIGKYLKEKGL 217

Query: 114 PLETVFFGGGTPSLVPPRFVSSILDTLTDKF-GLSLDAEISMEMD-PGTFDARKMEELMD 171
            + T++FGGGTP+ +    +  +L+ + + F  +    E ++E   P T    K+E L  
Sbjct: 218 KITTIYFGGGTPTSLTAEELERLLEEIYENFPDVKNVKEFTVEAGRPDTITEEKLEVLKK 277

Query: 172 LGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQM 231
            GV+R+S+  Q   DE LK+ GR H ++++ E   + +  G +N ++DLI  LP +  + 
Sbjct: 278 YGVDRISINPQTMNDETLKAIGRHHTVEDIIEKFHLAREMGFDNINMDLIIGLPGEGLEE 337

Query: 232 WEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGE-FPLPTETQSANFYRMASSMLSS 290
            + +L       P+ ++V+ L +++ ++   L    E + +    +       A      
Sbjct: 338 VKHTLEEIEKLNPESLTVHTLAIKRASR---LTENKEKYKVADREEIEKMMEEAEEWAKE 394

Query: 291 AGYRHY 296
            GY  Y
Sbjct: 395 LGYVPY 400

Length = 488

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

 Score = 89.9 bits (223), Expect = 3e-21
 Identities = 50/182 (27%), Positives = 79/182 (43%), Gaps = 18/182 (9%)

Query: 57  YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLE 116
            I    C  RC YC FP        +       R  +  ++L  E             +E
Sbjct: 1   IIVTRGCNLRCTYCAFP--------SIRARGKGRELSPEEIL-EEAKELA-----RLGVE 46

Query: 117 TVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNR 176
            V   GG P L+P      +L+ L           I++E +    D   +EEL + G++R
Sbjct: 47  VVILTGGEPLLLPDLVE--LLERLLKL-REGEGIRITLETNGTLLDEELLEELKEAGLDR 103

Query: 177 VSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESL 236
           VS+ +Q+  DE+LK   R H  +EV EA+E+++  G+    +D I  LP +  +  EE+L
Sbjct: 104 VSISLQSGDDEVLKIINRGHTFEEVLEALELLREAGIPV-VVDNIVGLPGENDEDLEETL 162

Query: 237 RR 238
             
Sbjct: 163 EL 164

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

>gnl|CDD|181509 PRK08629, PRK08629, coproporphyrinogen III oxidase; Provisional

 Score = 81.3 bits (201), Expect = 1e-16
 Identities = 81/347 (23%), Positives = 150/347 (43%), Gaps = 35/347 (10%)

Query: 57  YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREI-IATKPGHKTSPPL 115
           Y H+PFC   C YC F          +    + +   Y   L +E+ +  + G+      
Sbjct: 56  YAHVPFCHTLCPYCSF---------HRFYFKEDKARAYFISLRKEMEMVKELGYD----F 102

Query: 116 ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN 175
           E+++ GGGT +++      ++ +     F +    E+S E DP   D  K+++L  L ++
Sbjct: 103 ESMYVGGGTTTILEDELAKTL-ELAKKLFSIK---EVSCESDPNHLDPPKLKQLKGL-ID 157

Query: 176 RVSLGVQAFQDELLKSCGRAH---GLKEVYEAIEIVKLCGV-ENWSLDLISSLPHQTPQM 231
           R+S+GVQ+F D++LK   R       +E +E I   K  G+    ++DLI + P QT ++
Sbjct: 158 RLSIGVQSFNDDILKMVDRYEKFGSGQETFEKIM--KAKGLFPIINVDLIFNFPGQTDEV 215

Query: 232 WEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA 291
            +  L       P+ ++ Y L     T+  +  + G      E Q   +Y++ + +    
Sbjct: 216 LQHDLDIAKRLDPRQITTYPLMKSHQTRKSVKGSLGASQKDNERQ---YYQIINELFG-- 270

Query: 292 GYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQN 351
            Y      ++ +   E            + G G GS S+L G  +     ++   DY + 
Sbjct: 271 QYNQLSAWAFSKKNDEGFDEYVI-DYDEYLGVGSGSFSFLDGTLYVNTFSLR---DYQER 326

Query: 352 LEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSL 398
           + AG +      +   K++     +L   + R + +K F ETFG +L
Sbjct: 327 IAAGQMGVIAQKNFSKKEVMQYRFLLGMFSGR-LSIKYFRETFGVNL 372

Length = 433

>gnl|CDD|224164 COG1243, ELP3, Histone acetyltransferase [Transcription / Chromatin structure and dynamics]

 Score = 73.2 bits (180), Expect = 7e-14
 Identities = 58/236 (24%), Positives = 95/236 (40%), Gaps = 29/236 (12%)

Query: 66  RCHYC------DFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVF 119
           RC +C      D P    G  P        R   Y Q+  R       GH +   +E + 
Sbjct: 81  RCVFCPGGPDKDSPQSYTGEEPAALRAIKNRYDPYEQVRARLKQLETIGHTSDK-VELII 139

Query: 120 FGGGTPSLVP---PRFVSSILDTLTDKFGLSLDAE-------------ISMEMDPGTFDA 163
            GG   +L       F+   L  + D FG  L+               I++E  P   D 
Sbjct: 140 MGGTFTALSLEYQEWFLKVALKAMND-FGYDLEEAQRKNETAELRCVGITIETRPDYIDE 198

Query: 164 RKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISS 223
             +++++  GV RV LGVQ+  D++L+   R H +++V EA  ++K  G +     ++  
Sbjct: 199 EHLDQMLKYGVTRVELGVQSIYDDVLERTKRGHTVEDVVEATRLLKDAGFK-VGYHIMPG 257

Query: 224 LPHQTPQMWEESLRRTV---GAQPKHVSVYDLQVEQGTKFGILYTPGEF-PLPTET 275
           LP    +   ES R        +P  + +Y   V +GT+   ++  G + P  TE 
Sbjct: 258 LPGSDFERDLESFREIFEDPRFRPDMLKIYPTLVIEGTELYEMWKRGLYKPYTTEE 313

Length = 515

>gnl|CDD|233314 TIGR01211, ELP3, histone acetyltransferase, ELP3 family

 Score = 59.4 bits (144), Expect = 2e-09
 Identities = 54/246 (21%), Positives = 95/246 (38%), Gaps = 44/246 (17%)

Query: 66  RCHYCDFPIVALGSSPTQT-----------NDDDPRVSNYIQLLCREIIATKPGHKTSPP 114
           +C YC     +  S  + T           ND DP    Y Q+  R     + GH     
Sbjct: 82  KCLYCPGGPDSENSPQSYTGYEPAAMRGRQNDYDP----YEQVTARLEQLEQIGHPVDK- 136

Query: 115 LETVFFGGGTPSLVP---PRFVSSILDTLTDKFGLSLDAE-------------------I 152
           +E +  GG  P+        F+   L+ +   F   L                      +
Sbjct: 137 VELIIMGGTFPARDLDYQEWFIKRCLNAMNG-FDQELKGNSTLEEAIRINETSKHRCVGL 195

Query: 153 SMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG 212
           ++E  P       ++ ++ LG  RV LGVQ   +++L+   R H +++V EA  +++  G
Sbjct: 196 TIETRPDYCREEHIDRMLKLGATRVELGVQTIYNDILERTKRGHTVRDVVEATRLLRDAG 255

Query: 213 VENWSLDLISSLPHQTPQMWEESLRRTVGA---QPKHVSVYDLQVEQGTKFGILYTPGEF 269
           ++     ++  LP  + +   E  R        +P  + +Y   V +GT+   L+  GE+
Sbjct: 256 LK-VVYHIMPGLPGSSFERDLEMFREIFEDPRFKPDMLKIYPTLVTRGTELYELWKRGEY 314

Query: 270 -PLPTE 274
            P  TE
Sbjct: 315 KPYTTE 320

The Saccharomyces cerevisiae member YPL086C has been characterized in vitro as an N-terminal acetyltransferase for all four core histones. It is a component of the RNA polymerase II holoenzyme, designated Elp3p for Elongator Protein 3. Members of this family are found in eukaryotes and archaea. These proteins are part of the larger set of GNAT acetyltransferases [Transcription, DNA-dependent RNA polymerase]. Length = 522

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

 Score = 44.9 bits (106), Expect = 7e-05
 Identities = 38/205 (18%), Positives = 65/205 (31%), Gaps = 24/205 (11%)

Query: 66  RCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTP 125
            C +C            +    + RV   I+ L  E              + +F  G   
Sbjct: 211 GCRFCSITKH----FKYRRRRPE-RVVEEIKELIEEGGKRVVFFV-----DDIFLYGSPA 260

Query: 126 SLVPPRFVSSILDTLTDKFGLSLDAEISM-EMDPGTFDARKMEELMD-LGVNRVSLGVQA 183
                RF    L+ +           IS   +   T    ++ +L+   G+ RV +G+++
Sbjct: 261 LNDEKRFELLSLELIERGLRKGCRVHISAPSLRADTVTDEELLKLLREAGLRRVYIGIES 320

Query: 184 FQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQ 243
             +ELLK   +    +EV E    +         L  I  LP +T     E ++ T+   
Sbjct: 321 GSEELLKKINKGITTEEVLEEAVKIAKEHGLRVKLYFIVGLPGETE----EDVKETIELA 376

Query: 244 --------PKHVSVYDLQVEQGTKF 260
                     +VS        GT  
Sbjct: 377 KFIKKLGPKLYVSPSPFVPLPGTPL 401

Length = 490

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

 Score = 43.5 bits (102), Expect = 8e-05
 Identities = 30/148 (20%), Positives = 54/148 (36%), Gaps = 20/148 (13%)

Query: 63  CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG 122
           C   C +C  P          +    P     I+ +   ++  K         E V   G
Sbjct: 7   CNLNCGFCSNP---------ASKGRGPESPPEIEEILDIVLEAKERGV-----EVVILTG 52

Query: 123 GTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQ 182
           G P L P      + + L          EIS+E +        ++EL +LG++ V + + 
Sbjct: 53  GEPLLYPE-----LAELLRRLKKELPGFEISIETNGTLLTEELLKELKELGLDGVGVSLD 107

Query: 183 AF-QDELLKSCGRAHGLKEVYEAIEIVK 209
           +  ++   K  G     KE  EA++ ++
Sbjct: 108 SGDEEVADKIRGSGESFKERLEALKELR 135

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

>gnl|CDD|224163 COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]

 Score = 41.2 bits (97), Expect = 8e-04
 Identities = 23/100 (23%), Positives = 44/100 (44%), Gaps = 1/100 (1%)

Query: 177 VSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESL 236
           V LG+Q   D+ LK   R H      +A++ ++  G++  +  LI+ LP +T     E+ 
Sbjct: 146 VELGLQTAHDKTLKRINRGHDFACYVDAVKRLRKRGIKVCT-HLINGLPGETRDEMLETA 204

Query: 237 RRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQ 276
           +         + ++ L V +GT    +Y  G     +  +
Sbjct: 205 KIVAELGVDGIKLHPLHVVKGTPMEKMYEKGRLKFLSLEE 244

Length = 312

>gnl|CDD|130279 TIGR01212, TIGR01212, radical SAM protein, TIGR01212 family

 Score = 40.5 bits (95), Expect = 0.001
 Identities = 26/105 (24%), Positives = 47/105 (44%), Gaps = 2/105 (1%)

Query: 166 MEELMDLGVN-RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSL 224
           + E ++ G    V LG+Q   D+ LK   R H      +A++  +  G++  S  +I  L
Sbjct: 129 LAEYVERGYEVWVELGLQTAHDKTLKKINRGHDFACYVDAVKRARKRGIKVCS-HVILGL 187

Query: 225 PHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEF 269
           P +  +   E+ +         + ++ L V +GTK   +Y  GE 
Sbjct: 188 PGEDREEMMETAKIVSLLDVDGIKIHPLHVVKGTKMAKMYEKGEL 232

This family has a cluster of conserved Cys residues suggestive of Fe-S cluster binding. Members belong to the radical-SAM family of putative This uncharacterized protein family shows significant similarity to TIGR01211, a longer protein that is a histone acetyltransferase at its C-terminus and is a subunit of RNA polymerase II (in yeast). This family lacks the GNAT acetyltransferase domain [Unknown function, Enzymes of unknown specificity]. Length = 302

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

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 176 RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEES 235
           R+ +G Q+  D +LK+  R H +++V  A+E+    G     +D I  LP +T +  E +
Sbjct: 268 RLHIGAQSGSDRVLKAIRRGHTVEDVERAVELALEHGFTP-VVDFIFGLPGETEEDQEAT 326

Query: 236 LR 237
           L 
Sbjct: 327 LE 328

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

>gnl|CDD|234539 TIGR04317, W_rSAM_matur, tungsten cofactor oxidoreducase radical SAM maturase

 Score = 39.3 bits (92), Expect = 0.003
 Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 12/99 (12%)

Query: 113 PPLETVFFGG-GTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMD 171
           P L+ +  GG G P  V P F+  + +     F + L          G       EEL+ 
Sbjct: 49  PELKEIVLGGIGEP-TVHPDFIDMLTEAKERGFAVGLSTN-------GYLLEEMAEELVG 100

Query: 172 LGVNRVSLGVQAFQDELLKSCGRAHG-LKEVYEAIEIVK 209
           LGV+++ + + A  D+  +     HG L +V E ++ + 
Sbjct: 101 LGVDKIYVSIDALPDKPYRI--IGHGDLAKVLENLKKLY 137

Members of this family are radical SAM enzymes involved in the maturation of tungsten (W)-containing cofactors in the enzymes aldehyde ferredoxin oxidoreductase, formaldehyde ferredoxin oxidoreductase, and others, and tend to be encoded by an adjacent gene. Length = 349

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	471
PRK07379	400	coproporphyrinogen III oxidase; Provisional	100.0
PRK06582	390	coproporphyrinogen III oxidase; Provisional	100.0
COG0635	416	HemN Coproporphyrinogen III oxidase and related Fe	100.0
PRK06294	370	coproporphyrinogen III oxidase; Provisional	100.0
PRK09057	380	coproporphyrinogen III oxidase; Provisional	100.0
PRK09058	449	coproporphyrinogen III oxidase; Provisional	100.0
PRK05799	374	coproporphyrinogen III oxidase; Provisional	100.0
PRK05628	375	coproporphyrinogen III oxidase; Validated	100.0
PRK05660	378	HemN family oxidoreductase; Provisional	100.0
PRK08599	377	coproporphyrinogen III oxidase; Provisional	100.0
PRK08898	394	coproporphyrinogen III oxidase; Provisional	100.0
PRK08446	350	coproporphyrinogen III oxidase; Provisional	100.0
TIGR00539	360	hemN_rel putative oxygen-independent coproporphyri	100.0
PRK05904	353	coproporphyrinogen III oxidase; Provisional	100.0
PRK08208	430	coproporphyrinogen III oxidase; Validated	100.0
PRK13347	453	coproporphyrinogen III oxidase; Provisional	100.0
PRK09249	453	coproporphyrinogen III oxidase; Provisional	100.0
TIGR00538	455	hemN oxygen-independent coproporphyrinogen III oxi	100.0
PRK08629	433	coproporphyrinogen III oxidase; Provisional	100.0
PRK08207	488	coproporphyrinogen III oxidase; Provisional	100.0
TIGR01211	522	ELP3 histone acetyltransferase, ELP3 family. The S	100.0
TIGR01212	302	radical SAM protein, TIGR01212 family. This unchar	100.0
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	99.97
PRK14334	440	(dimethylallyl)adenosine tRNA methylthiotransferas	99.96
TIGR01210	313	conserved hypothetical protein TIGR01210. This fam	99.95
TIGR03471	472	HpnJ hopanoid biosynthesis associated radical SAM	99.95
PRK14333	448	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14327	509	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
COG1243	515	ELP3 Histone acetyltransferase [Transcription / Ch	99.94
PRK14329	467	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14331	437	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14330	434	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14332	449	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
TIGR01579	414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	99.94
PRK14335	455	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14338	459	(dimethylallyl)adenosine tRNA methylthiotransferas	99.93
PRK07094	323	biotin synthase; Provisional	99.93
PRK14340	445	(dimethylallyl)adenosine tRNA methylthiotransferas	99.93
TIGR01574	438	miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-3	99.93
PRK14325	444	(dimethylallyl)adenosine tRNA methylthiotransferas	99.93
PRK14337	446	(dimethylallyl)adenosine tRNA methylthiotransferas	99.93
PRK14328	439	(dimethylallyl)adenosine tRNA methylthiotransferas	99.93
PRK14336	418	(dimethylallyl)adenosine tRNA methylthiotransferas	99.93
TIGR00089	429	RNA modification enzyme, MiaB family. This subfami	99.93
PRK14326	502	(dimethylallyl)adenosine tRNA methylthiotransferas	99.92
PRK14339	420	(dimethylallyl)adenosine tRNA methylthiotransferas	99.92
smart00729	216	Elp3 Elongator protein 3, MiaB family, Radical SAM	99.92
TIGR01125	430	MiaB-like tRNA modifying enzyme YliG, TIGR01125. T	99.91
COG0621	437	MiaB 2-methylthioadenine synthetase [Translation,	99.9
COG1242	312	Predicted Fe-S oxidoreductase [General function pr	99.9
TIGR01578	420	MiaB-like-B MiaB-like tRNA modifying enzyme, archa	99.89
PRK14862	440	rimO ribosomal protein S12 methylthiotransferase;	99.88
PRK06256	336	biotin synthase; Validated	99.86
TIGR00433	296	bioB biotin synthetase. Catalyzes the last step of	99.84
PRK09240	371	thiH thiamine biosynthesis protein ThiH; Reviewed	99.84
TIGR02351	366	thiH thiazole biosynthesis protein ThiH. Members t	99.82
TIGR03551	343	F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.81
cd01335	204	Radical_SAM Radical SAM superfamily. Enzymes of th	99.8
TIGR00423	309	radical SAM domain protein, CofH subfamily. This p	99.78
TIGR03699	340	mena_SCO4550 menaquinone biosynthesis protein, SCO	99.78
PRK06245	336	cofG FO synthase subunit 1; Reviewed	99.76
PRK08445	348	hypothetical protein; Provisional	99.76
PRK06267	350	hypothetical protein; Provisional	99.76
TIGR03700	351	mena_SCO4494 putative menaquinone biosynthesis pro	99.75
COG1032	490	Fe-S oxidoreductase [Energy production and convers	99.75
PRK05481	289	lipoyl synthase; Provisional	99.74
PRK12928	290	lipoyl synthase; Provisional	99.74
PRK08508	279	biotin synthase; Provisional	99.74
PRK09613	469	thiH thiamine biosynthesis protein ThiH; Reviewed	99.73
PRK00955	620	hypothetical protein; Provisional	99.73
PLN02389	379	biotin synthase	99.72
TIGR03550	322	F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.72
PRK15108	345	biotin synthase; Provisional	99.71
PF04055	166	Radical_SAM: Radical SAM superfamily; InterPro: IP	99.7
TIGR00510	302	lipA lipoate synthase. The family shows strong seq	99.7
PRK01254	707	hypothetical protein; Provisional	99.66
PRK08444	353	hypothetical protein; Provisional	99.65
PLN02428	349	lipoic acid synthase	99.64
COG0502	335	BioB Biotin synthase and related enzymes [Coenzyme	99.63
PRK07360	371	FO synthase subunit 2; Reviewed	99.63
PRK05926	370	hypothetical protein; Provisional	99.63
COG1244	358	Predicted Fe-S oxidoreductase [General function pr	99.58
PRK05927	350	hypothetical protein; Provisional	99.56
KOG2535	554	consensus RNA polymerase II elongator complex, sub	99.54
TIGR03822	321	AblA_like_2 lysine-2,3-aminomutase-related protein	99.53
PRK05301	378	pyrroloquinoline quinone biosynthesis protein PqqE	99.53
PRK13361	329	molybdenum cofactor biosynthesis protein A; Provis	99.52
PRK00164	331	moaA molybdenum cofactor biosynthesis protein A; R	99.46
PRK09234	843	fbiC FO synthase; Reviewed	99.45
TIGR02109	358	PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E.	99.45
TIGR02668	302	moaA_archaeal probable molybdenum cofactor biosynt	99.43
COG1031	560	Uncharacterized Fe-S oxidoreductase [Energy produc	99.41
PRK09234	843	fbiC FO synthase; Reviewed	99.4
TIGR02666	334	moaA molybdenum cofactor biosynthesis protein A, b	99.38
TIGR02493	235	PFLA pyruvate formate-lyase 1-activating enzyme. A	99.36
PLN02951	373	Molybderin biosynthesis protein CNX2	99.36
PTZ00413	398	lipoate synthase; Provisional	99.33
KOG2492	552	consensus CDK5 activator-binding protein [Signal t	99.32
KOG4355	547	consensus Predicted Fe-S oxidoreductase [General f	99.3
COG1060	370	ThiH Thiamine biosynthesis enzyme ThiH and related	99.28
PF06969	66	HemN_C: HemN C-terminal domain; InterPro: IPR01072	99.23
PRK11145	246	pflA pyruvate formate lyase-activating enzyme 1; P	99.23
COG2896	322	MoaA Molybdenum cofactor biosynthesis enzyme [Coen	99.21
TIGR01290	442	nifB nitrogenase cofactor biosynthesis protein Nif	99.17
TIGR03470	318	HpnH hopanoid biosynthesis associated radical SAM	99.16
COG2100	414	Predicted Fe-S oxidoreductase [General function pr	99.16
COG1856	275	Uncharacterized homolog of biotin synthetase [Func	99.15
TIGR02495	191	NrdG2 anaerobic ribonucleoside-triphosphate reduct	99.09
PRK14456	368	ribosomal RNA large subunit methyltransferase N; P	99.07
PRK14460	354	ribosomal RNA large subunit methyltransferase N; P	99.06
PRK13745	412	anaerobic sulfatase-maturase; Provisional	99.04
TIGR03820	417	lys_2_3_AblA lysine-2,3-aminomutase. This model de	99.02
TIGR00238	331	KamA family protein. Note that the E. coli homolog	99.0
PRK13758	370	anaerobic sulfatase-maturase; Provisional	98.98
PRK14455	356	ribosomal RNA large subunit methyltransferase N; P	98.95
COG2516	339	Biotin synthase-related enzyme [General function p	98.93
PRK13762	322	tRNA-modifying enzyme; Provisional	98.91
COG0535	347	Predicted Fe-S oxidoreductases [General function p	98.91
PRK14463	349	ribosomal RNA large subunit methyltransferase N; P	98.88
TIGR03278	404	methan_mark_10 putative methanogenesis marker prot	98.84
PRK14468	343	ribosomal RNA large subunit methyltransferase N; P	98.82
PRK14469	343	ribosomal RNA large subunit methyltransferase N; P	98.8
PRK14470	336	ribosomal RNA large subunit methyltransferase N; P	98.79
TIGR03821	321	AblA_like_1 lysine-2,3-aminomutase-related protein	98.74
PRK14466	345	ribosomal RNA large subunit methyltransferase N; P	98.72
TIGR00048	355	radical SAM enzyme, Cfr family. A Staphylococcus s	98.72
COG0641	378	AslB Arylsulfatase regulator (Fe-S oxidoreductase)	98.68
PRK14459	373	ribosomal RNA large subunit methyltransferase N; P	98.67
PRK14457	345	ribosomal RNA large subunit methyltransferase N; P	98.66
COG0320	306	LipA Lipoate synthase [Coenzyme metabolism]	98.6
COG1533	297	SplB DNA repair photolyase [DNA replication, recom	98.59
PRK14462	356	ribosomal RNA large subunit methyltransferase N; P	98.59
COG0731	296	Fe-S oxidoreductases [Energy production and conver	98.52
PRK14467	348	ribosomal RNA large subunit methyltransferase N; P	98.44
PRK11194	372	ribosomal RNA large subunit methyltransferase N; P	98.43
PRK14454	342	ribosomal RNA large subunit methyltransferase N; P	98.42
KOG2900	380	consensus Biotin synthase [Coenzyme transport and	98.41
COG1180	260	PflA Pyruvate-formate lyase-activating enzyme [Pos	98.39
TIGR02494	295	PFLE_PFLC glycyl-radical enzyme activating protein	98.34
PRK14453	347	chloramphenicol/florfenicol resistance protein; Pr	98.24
COG2108	353	Uncharacterized conserved protein related to pyruv	98.22
PRK14465	342	ribosomal RNA large subunit methyltransferase N; P	98.19
COG1625	414	Fe-S oxidoreductase, related to NifB/MoaA family [	98.19
TIGR03365	238	Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosyn	98.18
PF13394	119	Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B	98.03
PRK14464	344	ribosomal RNA large subunit methyltransferase N; P	97.97
COG4277	404	Predicted DNA-binding protein with the Helix-hairp	97.97
COG1509	369	KamA Lysine 2,3-aminomutase [Amino acid transport	97.87
PRK14461	371	ribosomal RNA large subunit methyltransferase N; P	97.85
PRK10076	213	pyruvate formate lyase II activase; Provisional	97.79
TIGR03279	433	cyano_FeS_chp putative FeS-containing Cyanobacteri	97.74
COG0820	349	Predicted Fe-S-cluster redox enzyme [General funct	97.68
KOG2672	360	consensus Lipoate synthase [Coenzyme transport and	97.55
PF13353	139	Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A	97.34
cd03174	265	DRE_TIM_metallolyase DRE-TIM metallolyase superfam	97.02
TIGR02491	154	NrdG anaerobic ribonucleoside-triphosphate reducta	96.99
TIGR02826	147	RNR_activ_nrdG3 anaerobic ribonucleoside-triphosph	96.86
COG0602	212	NrdG Organic radical activating enzymes [Posttrans	96.71
PRK11121	154	nrdG anaerobic ribonucleotide reductase-activating	96.67
COG5014	228	Predicted Fe-S oxidoreductase [General function pr	96.51
KOG2876	323	consensus Molybdenum cofactor biosynthesis pathway	96.18
TIGR03849	237	arch_ComA phosphosulfolactate synthase. This model	95.93
COG1313	335	PflX Uncharacterized Fe-S protein PflX, homolog of	95.77
cd07944	266	DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-	95.76
COG1964	475	Predicted Fe-S oxidoreductases [General function p	95.31
COG1809	258	(2R)-phospho-3-sulfolactate synthase (PSL synthase	94.85
PRK08195	337	4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic ac	94.64
TIGR03217	333	4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase.	94.58
PLN02746	347	hydroxymethylglutaryl-CoA lyase	93.8
PF00682	237	HMGL-like: HMGL-like of this family is not conserv	93.3
cd07939	259	DRE_TIM_NifV Streptomyces rubellomurinus FrbC and	93.2
TIGR02090	363	LEU1_arch isopropylmalate/citramalate/homocitrate	93.09
cd07945	280	DRE_TIM_CMS Leptospira interrogans citramalate syn	92.95
cd07948	262	DRE_TIM_HCS Saccharomyces cerevisiae homocitrate s	92.91
cd07940	268	DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-	92.74
cd07938	274	DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase,	92.7
cd07937	275	DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcar	92.25
TIGR02337	118	HpaR homoprotocatechuate degradation operon regula	92.07
PF13463	68	HTH_27: Winged helix DNA-binding domain; PDB: 3GFL	92.06
TIGR02660	365	nifV_homocitr homocitrate synthase NifV. This fami	91.67
PRK11512	144	DNA-binding transcriptional repressor MarR; Provis	91.61
PRK11858	378	aksA trans-homoaconitate synthase; Reviewed	91.48
PRK05692	287	hydroxymethylglutaryl-CoA lyase; Provisional	91.39
smart00347	101	HTH_MARR helix_turn_helix multiple antibiotic resi	90.66
PRK07535	261	methyltetrahydrofolate:corrinoid/iron-sulfur prote	90.64
TIGR01889	109	Staph_reg_Sar staphylococcal accessory regulator f	90.58
cd07941	273	DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3	90.44
PF02679	244	ComA: (2R)-phospho-3-sulfolactate synthase (ComA);	90.3
PRK15452	443	putative protease; Provisional	89.21
TIGR00695	394	uxuA mannonate dehydratase. This Fe2+-requiring en	89.14
PRK09389	488	(R)-citramalate synthase; Provisional	89.08
PRK09282	592	pyruvate carboxylase subunit B; Validated	88.97
cd07943	263	DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-te	88.72
PRK03573	144	transcriptional regulator SlyA; Provisional	88.38
cd07937	275	DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcar	88.29
PRK14041	467	oxaloacetate decarboxylase; Provisional	88.14
PRK13777	185	transcriptional regulator Hpr; Provisional	87.92
PRK00915	513	2-isopropylmalate synthase; Validated	87.83
TIGR00977	526	LeuA_rel 2-isopropylmalate synthase/homocitrate sy	87.11
PRK03902	142	manganese transport transcriptional regulator; Pro	87.07
COG2238	147	RPS19A Ribosomal protein S19E (S16A) [Translation,	86.79
PRK11613	282	folP dihydropteroate synthase; Provisional	86.73
PRK10870	176	transcriptional repressor MprA; Provisional	86.5
PRK14165	217	winged helix-turn-helix domain-containing protein/	86.32
PRK09333	150	30S ribosomal protein S19e; Provisional	86.13
PRK12344	524	putative alpha-isopropylmalate/homocitrate synthas	86.11
COG0826	347	Collagenase and related proteases [Posttranslation	86.1
PRK14040	593	oxaloacetate decarboxylase; Provisional	85.93
PRK12331	448	oxaloacetate decarboxylase; Provisional	85.45
PRK03906	385	mannonate dehydratase; Provisional	85.26
PF01261	213	AP_endonuc_2: Xylose isomerase-like TIM barrel; In	85.01
PRK12330	499	oxaloacetate decarboxylase; Provisional	84.71
cd07943	263	DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-te	84.68
PRK14041	467	oxaloacetate decarboxylase; Provisional	84.52
TIGR00542	279	hxl6Piso_put hexulose-6-phosphate isomerase, putat	84.3
cd07939	259	DRE_TIM_NifV Streptomyces rubellomurinus FrbC and	84.26
TIGR00284	499	dihydropteroate synthase-related protein. This pro	83.58
PRK12581	468	oxaloacetate decarboxylase; Provisional	83.48
PRK12331	448	oxaloacetate decarboxylase; Provisional	81.91
COG0159	265	TrpA Tryptophan synthase alpha chain [Amino acid t	81.77
TIGR01108	582	oadA oxaloacetate decarboxylase alpha subunit. Thi	81.74
PRK08091	228	ribulose-phosphate 3-epimerase; Validated	81.58
PRK13210	284	putative L-xylulose 5-phosphate 3-epimerase; Revie	80.41
PRK14042	596	pyruvate carboxylase subunit B; Provisional	80.19
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	80.09

>PRK07379 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=6.7e-88  Score=697.32  Aligned_cols=388  Identities=47%  Similarity=0.901  Sum_probs=352.7

Q ss_pred             CCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           50 QLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        50 ~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      +..+++||||||||+++|.||+|++...+.....  ......++|+++|++||+.....   ...+++|||||||||+++
T Consensus         7 ~~~~~~lYiHiPFC~~~C~YC~f~~~~~~~~~~~--~~~~~~~~Y~~~L~~Ei~~~~~~---~~~i~~iy~GGGTps~l~   81 (400)
T PRK07379          7 ILLPTSAYIHIPFCRRRCFYCDFPISVVGDRTRG--GTSGLIEEYVEVLCQEIAITPSF---GQPLQTVFFGGGTPSLLS   81 (400)
T ss_pred             CCCccEEEEEeccccCcCCCCCCccccccccccc--cccchHHHHHHHHHHHHHHhhcc---CCceeEEEECCCccccCC
Confidence            3456899999999999999999987543321100  11235688999999999975321   356999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      ++++.+|++.|++.+++..++|+|+|+||++++.++++.|+++||||||||||||||++|+.|||.|+.+++.++++.++
T Consensus        82 ~~~l~~ll~~i~~~~~~~~~~eit~E~~P~~lt~e~l~~l~~~GvnrislGvQS~~d~~L~~l~R~~~~~~~~~ai~~l~  161 (400)
T PRK07379         82 VEQLERILTTLDQRFGIAPDAEISLEIDPGTFDLEQLQGYRSLGVNRVSLGVQAFQDELLALCGRSHRVKDIFAAVDLIH  161 (400)
T ss_pred             HHHHHHHHHHHHHhCCCCCCCEEEEEeCCCcCCHHHHHHHHHCCCCEEEEEcccCCHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            99999999999999999888999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          210 LCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       210 ~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      ++||.+|++|||+|+||||.++|+++++.+.+++|+||++|+|+++|||++++++..|+..+|++++.++||..+.+.|.
T Consensus       162 ~~G~~~v~~dlI~GlPgqt~e~~~~tl~~~~~l~p~~is~y~L~~~pgT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~  241 (400)
T PRK07379        162 QAGIENFSLDLISGLPHQTLEDWQASLEAAIALNPTHLSCYDLVLEPGTAFGKQYQPGKAPLPSDETTAAMYRLAQEILT  241 (400)
T ss_pred             HcCCCeEEEEeecCCCCCCHHHHHHHHHHHHcCCCCEEEEecceecCCchhHHHhhcCCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HCCCceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhh
Q 012112          290 SAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKD  369 (471)
Q Consensus       290 ~~Gy~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~  369 (471)
                      ++||.|||+|||||||++|+||..||++.+|+|||+||+|++++.||+|++++.+|.+++++.+.+..+. ..+.++.++
T Consensus       242 ~~Gy~~yeisnfa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~~~~~~-~~~~l~~~~  320 (400)
T PRK07379        242 QAGYEHYEISNYAKPGYQCRHNRVYWENRPYYGFGMGAASYVNGQRFTRPRTRKEYYQWVEALIANGGLI-DGEPSSPED  320 (400)
T ss_pred             HcCCceeeeeheECCChHHHHHHHHhcCCcEEEEcCCcceecCCEEEEcCCCHHHHHHHHHhhhccCCCc-ceeeCCHHH
Confidence            9999999999999999999999999999999999999999999999999999999998887654333332 456799999


Q ss_pred             HHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccce-ee
Q 012112          370 LAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAY-FR  448 (471)
Q Consensus       370 ~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~  448 (471)
                      ++.|.+|++||+.+|||++.|+++||.++.+.+.+.++.++++||+..++ +                        + ++
T Consensus       321 ~~~e~l~~~Lr~~~Gl~~~~~~~~~g~~~~~~~~~~l~~l~~~gll~~~~-~------------------------~~~~  375 (400)
T PRK07379        321 ELLETLMLGLRLAEGVSLSALTERFGKEIVEQILQCLQPYFQQGWVELEG-D------------------------RRLR  375 (400)
T ss_pred             HHHHHHHhCCcccCCcCHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEEeC-C------------------------eEEE
Confidence            99999999999999999999999999999888999999999999998644 2                        4 78


Q ss_pred             ecCc-hhhchHHHHHHHHHhcc
Q 012112          449 LSDP-EGFLLSNELISHAFGVI  469 (471)
Q Consensus       449 lt~~-~G~~~~n~i~~~~~~~~  469 (471)
                      || + +|++++|.|+++|+.+.
T Consensus       376 lT-~~~G~~~~~~i~~~~~~~~  396 (400)
T PRK07379        376 LT-DPEGFLFSNTVLASLFEAL  396 (400)
T ss_pred             EC-chHHhHHHHHHHHHHHHHh
Confidence            96 6 99999999999998654

>PRK06582 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=1.8e-87  Score=690.58  Aligned_cols=375  Identities=28%  Similarity=0.529  Sum_probs=345.5

Q ss_pred             CCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCH
Q 012112           51 LSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPP  130 (471)
Q Consensus        51 ~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~  130 (471)
                      ..+++||||||||.++|.||+|++....         .....+|+++|.+||+....... +..+++|||||||||+|++
T Consensus         9 ~~~~~lYiHiPFC~~~C~yC~f~~~~~~---------~~~~~~Y~~aL~~Ei~~~~~~~~-~~~i~tiy~GGGTPs~l~~   78 (390)
T PRK06582          9 ANDLSIYIHWPFCLSKCPYCDFNSHVAS---------TIDHNQWLKSYEKEIEYFKDIIQ-NKYIKSIFFGGGTPSLMNP   78 (390)
T ss_pred             CCCeEEEEEeCCCcCcCCCCCCeeccCC---------CCCHHHHHHHHHHHHHHHHHHcc-CCceeEEEECCCccccCCH
Confidence            3468999999999999999999876421         12367899999999997654432 4579999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHH
Q 012112          131 RFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKL  210 (471)
Q Consensus       131 ~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~  210 (471)
                      +++++|++.+++.+.+++.+|||+|+||++++.++++.|+++||||||||||||||++|+.+||.|+.+++.++++.+++
T Consensus        79 ~~l~~ll~~i~~~~~~~~~~eitiE~nP~~~~~e~l~~l~~~GvnRiSiGvQS~~d~~L~~lgR~h~~~~~~~ai~~~~~  158 (390)
T PRK06582         79 VIVEGIINKISNLAIIDNQTEITLETNPTSFETEKFKAFKLAGINRVSIGVQSLKEDDLKKLGRTHDCMQAIKTIEAANT  158 (390)
T ss_pred             HHHHHHHHHHHHhCCCCCCCEEEEEeCCCcCCHHHHHHHHHCCCCEEEEECCcCCHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            99999999999999988889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          211 CGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       211 ~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      + +.+||+|||+|+||||.++|+++++.+.+++|+|||+|+|+++|||++++++++|++.+|++++.++||..+.+.|.+
T Consensus       159 ~-~~~v~~DlI~GlPgqt~e~~~~~l~~~~~l~p~his~y~L~i~~gT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  237 (390)
T PRK06582        159 I-FPRVSFDLIYARSGQTLKDWQEELKQAMQLATSHISLYQLTIEKGTPFYKLFKEGNLILPHSDAAAEMYEWTNHYLES  237 (390)
T ss_pred             h-CCcEEEEeecCCCCCCHHHHHHHHHHHHhcCCCEEEEecCEEccCChHHHHHhcCCCCCCChHHHHHHHHHHHHHHHH
Confidence            8 667999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCC-----eEEEcCCChHHHHHHHHHHhcCCCcccccccC
Q 012112          291 AGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGG-----LRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHI  365 (471)
Q Consensus       291 ~Gy~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~-----~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l  365 (471)
                      +||.|||+|||||||++|+||..||++.||+|||+||+|++++     .|+.|..++.+|.   +.++.|..|+...+.+
T Consensus       238 ~Gy~~yeis~fa~~g~~~~hn~~yw~~~~~lg~G~gA~s~~~~~~~~~~r~~~~~~~~~Y~---~~~~~~~~p~~~~~~l  314 (390)
T PRK06582        238 KKYFRYEISNYAKIGQECLHNLTYWNYNSYLGIGPGAHSRIIESSSSVSAIMMWHKPEKWL---DAVKTKNVGIQTNTKL  314 (390)
T ss_pred             cCCceeeceeeeCCChhhhhHHHHhcCCcEEEECCCeeecccCCCCCceeEEecCCHHHHH---HHHHcCCCCcceeeeC
Confidence            9999999999999999999999999999999999999999863     4688888888775   4566788887677889


Q ss_pred             CHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHH-HHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          366 DAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTL-CKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       366 ~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~-~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++++++.|.+|++||+.+|||++.|+++||.++.+.+ .+.++.+++.||+.. + +                       
T Consensus       315 ~~~e~~~e~i~l~LR~~~Gl~~~~~~~~~g~~~~~~~~~~~l~~l~~~gll~~-~-~-----------------------  369 (390)
T PRK06582        315 THQEIIEEILMMGLRLSKGINISTLEQKLNTKLENILDMNNLKHYQALDLIRL-D-E-----------------------  369 (390)
T ss_pred             CHHHHHHHHHHHHHHhhCCCCHHHHHHHHCcCHHHhhhHHHHHHHHHCCCEEE-C-C-----------------------
Confidence            9999999999999999999999999999999998877 489999999999986 3 2                       


Q ss_pred             ceeeecCchhhchHHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHAF  466 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~~  466 (471)
                       +++|| ++|++++|+|+++|+
T Consensus       370 -~l~lT-~~G~~~~d~i~~~~~  389 (390)
T PRK06582        370 -NIYLT-DKGLMLHSYIVPRLI  389 (390)
T ss_pred             -EEEEC-cchhHHHHHHHHHHh
Confidence             47996 999999999999986

>COG0635 HemN Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]

Probab=100.00  E-value=2.9e-85  Score=676.60  Aligned_cols=380  Identities=36%  Similarity=0.647  Sum_probs=352.9

Q ss_pred             CCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHH
Q 012112           52 SPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPR  131 (471)
Q Consensus        52 ~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~  131 (471)
                      .+++||||||||.++|.||+|++....        .....+.|+++|++||+......+....+++|||||||||+|+++
T Consensus        33 ~~~slYiHiPFC~~~C~YC~fn~~~~~--------~~~~~~~Y~~aL~~Ei~~~~~~~~~~~~v~ti~~GGGTPslL~~~  104 (416)
T COG0635          33 KPLSLYIHIPFCVSKCPYCDFNSHVTK--------RGQPVDEYLDALLEEIELVAALLGGQREVKTIYFGGGTPSLLSPE  104 (416)
T ss_pred             CceEEEEEcccccccCCCCCCeeeccC--------CCChHHHHHHHHHHHHHHHHhhcCCCCeEEEEEECCCccccCCHH
Confidence            489999999999999999999987642        224688999999999998876654335799999999999999999


Q ss_pred             HHHHHHHHHHHHc-CCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHH
Q 012112          132 FVSSILDTLTDKF-GLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKL  210 (471)
Q Consensus       132 ~l~~ll~~l~~~~-~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~  210 (471)
                      ++++|++.|++.| .+++++|||+|+||++++.++++.|+++||||||+||||||+++||.+||.|+.+++.++++.+++
T Consensus       105 ~l~~ll~~l~~~~~~~~~~~EitiE~nP~~~~~e~~~~l~~~GvNRiSlGVQsf~~~~lk~lgR~h~~~~~~~a~~~~~~  184 (416)
T COG0635         105 QLERLLKALRELFNDLDPDAEITIEANPGTVEAEKFKALKEAGVNRISLGVQSFNDEVLKALGRIHDEEEAKEAVELARK  184 (416)
T ss_pred             HHHHHHHHHHHhcccCCCCceEEEEeCCCCCCHHHHHHHHHcCCCEEEeccccCCHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence            9999999999999 588889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          211 CGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       211 ~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      .||.+||+|||||+|+||.++|.++++.+++++|+|||+|.|+++|+|++++...+|+ .+|+.+..++||..+.+.|++
T Consensus       185 ~g~~~in~DLIyglP~QT~~~~~~~l~~a~~l~pdhis~y~L~~~p~t~~~~~~~~~~-~lP~~d~~~~~~~~~~e~L~~  263 (416)
T COG0635         185 AGFTSINIDLIYGLPGQTLESLKEDLEQALELGPDHLSLYSLAIEPGTKFAQRKIKGK-ALPDEDEKADMYELVEELLEK  263 (416)
T ss_pred             cCCCcEEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEEeeeecCCCchhhhhcccCC-CCcChHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999 899999999999999999999


Q ss_pred             CCCceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhhH
Q 012112          291 AGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDL  370 (471)
Q Consensus       291 ~Gy~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~~  370 (471)
                      +||.+||+||||++|++|+||+.||+..||+|+|+||+|++++.+++|..+++.|.+.+   +.|..|+...+.++++|.
T Consensus       264 ~Gy~~yeisnfa~~~~e~~hNl~yw~~~~~lGiG~gA~g~~~~~~~~n~~~~~~y~~~~---~~~~~~~~~~~~l~~~d~  340 (416)
T COG0635         264 AGYRQYEISNFAKPGGECRHNLQYWETKDYLGIGAGAHGRIGGTRYQNKKNLKTYLEAV---DEGGLPLVEGEELTPDDL  340 (416)
T ss_pred             CCCcEEeechhcCcchHHHhhhccccCCCeEEECCCceeeeccEEEEccCCHHHHHHHH---hcCCCceeeeeeCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999988655   478888878888999999


Q ss_pred             HHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeec
Q 012112          371 AMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLS  450 (471)
Q Consensus       371 ~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt  450 (471)
                      ..+.+|++||+..||++++|+++||..-.....+.++.++++|++...+ +                        ++++|
T Consensus       341 ~~e~~i~gLr~~~gv~~~~~~~~~~~~~~~~~~~~l~~~~~~Gll~~~~-~------------------------~~~lt  395 (416)
T COG0635         341 IREALILGLRLNFGVDLAELEERFGIFKFAEILELLAELIADGLLELDG-D------------------------RLRLT  395 (416)
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHhCcchhhhHHHHHHHHHhCCCEEecC-C------------------------EEEEC
Confidence            9999999999999999999999999732445678899999999998643 2                        47996


Q ss_pred             CchhhchHHHHHHHHHhcc
Q 012112          451 DPEGFLLSNELISHAFGVI  469 (471)
Q Consensus       451 ~~~G~~~~n~i~~~~~~~~  469 (471)
                       +.|+++.|.|++.|...+
T Consensus       396 -~~g~~~~~~i~~~f~~~~  413 (416)
T COG0635         396 -EKGRLLLRSIAEAFDAYL  413 (416)
T ss_pred             -CcchhHHHHHHHHHHHHh
Confidence             999999999999998754

>PRK06294 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=3.1e-84  Score=663.93  Aligned_cols=366  Identities=31%  Similarity=0.531  Sum_probs=333.3

Q ss_pred             CCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHH-HHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           51 LSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCRE-IIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        51 ~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~E-i~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      ..+++||||||||+++|.||+|++...         ......+|++++++| ++....... ...+++|||||||||+++
T Consensus         4 ~~~~~lYiHIPFC~~~C~yC~f~~~~~---------~~~~~~~y~~~l~~E~~~~~~~~~~-~~~i~~iy~GGGTPs~l~   73 (370)
T PRK06294          4 KSPLALYIHIPFCTKKCHYCSFYTIPY---------KEESVSLYCNAVLKEGLKKLAPLRC-SHFIDTVFFGGGTPSLVP   73 (370)
T ss_pred             CCceEEEEEeCCccCcCCCCcCcccCC---------CccCHHHHHHHHHHHHHHHhhhhcc-CCceeEEEECCCccccCC
Confidence            356899999999999999999987531         123467899999999 665433221 356999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      ++++.+|++.|++.    +++|||+|+||+++++++++.|+++||||||||||||++++|+.+||.|+.+++.++++.++
T Consensus        74 ~~~l~~ll~~i~~~----~~~eit~E~~P~~~~~~~l~~l~~~G~nrislGvQS~~~~~L~~l~R~~~~~~~~~ai~~~~  149 (370)
T PRK06294         74 PALIQDILKTLEAP----HATEITLEANPENLSESYIRALALTGINRISIGVQTFDDPLLKLLGRTHSSSKAIDAVQECS  149 (370)
T ss_pred             HHHHHHHHHHHHhC----CCCeEEEEeCCCCCCHHHHHHHHHCCCCEEEEccccCCHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            99999999999764    56799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          210 LCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       210 ~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      ++||.+|++|||+|+||||.++|.++++.+.+++|+||++|+|+++|||++++...++...+|+++..++||..+.+.|.
T Consensus       150 ~~g~~~v~~Dli~GlPgqt~~~~~~~l~~~~~l~~~~is~y~l~~~~gT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~  229 (370)
T PRK06294        150 EHGFSNLSIDLIYGLPTQSLSDFIVDLHQAITLPITHISLYNLTIDPHTSFYKHRKRLLPSIADEEILAEMSLAAEELLT  229 (370)
T ss_pred             HcCCCeEEEEeecCCCCCCHHHHHHHHHHHHccCCCeEEEeeeEecCCChHHHHHhcCCCCCcCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999888888888999999999999999999


Q ss_pred             HCCCceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhh
Q 012112          290 SAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKD  369 (471)
Q Consensus       290 ~~Gy~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~  369 (471)
                      ++||.|||+|||||||++|+||..||++.||+|||+||+|++++.||+|++++.+|++   .+++|..|+...+.+++++
T Consensus       230 ~~Gy~~yeis~fa~~~~~~~hN~~yw~~~~~lg~G~gA~s~~~~~r~~n~~~l~~Y~~---~~~~~~~p~~~~~~l~~~~  306 (370)
T PRK06294        230 SQGFTRYELASYAKPQAQSKHNTYYWTDRPFLGLGVSASQYLHGIRSKNLSRISHYLR---ALRKNLPTQESSEELPPNE  306 (370)
T ss_pred             HcCCCeeeeeeeeCCCchhhhhhhhccCCCEEEEcCCcceecCCEEEEcCCCHHHHHH---HHHcCCCCcccceeCCHHH
Confidence            9999999999999999999999999999999999999999999999999999998875   4567888877778899999


Q ss_pred             HHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeee
Q 012112          370 LAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRL  449 (471)
Q Consensus       370 ~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l  449 (471)
                      ++.|.+|++||+.+||++++|.++       .+.+.++.++++||+..++ +                        +|+|
T Consensus       307 ~~~e~~~~~Lr~~~Gi~~~~~~~~-------~~~~~l~~~~~~gll~~~~-~------------------------~i~l  354 (370)
T PRK06294        307 RIKEALALRLRLCEGIPLADFPSE-------LTSELIMHPIIQELFTKND-Q------------------------ALSL  354 (370)
T ss_pred             HHHHHHHHhhhccCCCCHHHHHHH-------HHHHHHHHHHHCCCEEEEC-C------------------------EEEE
Confidence            999999999999999999999775       2567899999999998644 2                        4899


Q ss_pred             cCchhhchHHHHHHHHH
Q 012112          450 SDPEGFLLSNELISHAF  466 (471)
Q Consensus       450 t~~~G~~~~n~i~~~~~  466 (471)
                      | ++|++++|+|+.+|+
T Consensus       355 T-~~G~~~~~~i~~~~~  370 (370)
T PRK06294        355 N-KKGRLFHDTIAEEIM  370 (370)
T ss_pred             C-cchhhHHHHHHHHhC
Confidence            7 999999999999885

>PRK09057 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=2.3e-84  Score=667.50  Aligned_cols=374  Identities=30%  Similarity=0.522  Sum_probs=341.3

Q ss_pred             CCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCH
Q 012112           51 LSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPP  130 (471)
Q Consensus        51 ~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~  130 (471)
                      +.+++||||||||+++|.||+|++....         .....+|+++|++||+....... ...+++|||||||||+|++
T Consensus         2 ~~~~~lYiHIPFC~~kC~yC~f~~~~~~---------~~~~~~Y~~aL~~Ei~~~~~~~~-~~~i~tiy~GGGTPs~l~~   71 (380)
T PRK09057          2 DGGFGLYVHWPFCLAKCPYCDFNSHVRH---------AIDQARFAAAFLRELATEAARTG-PRTLTSIFFGGGTPSLMQP   71 (380)
T ss_pred             CCceEEEEEeCCcCCcCCCCCCcccCcC---------cCCHHHHHHHHHHHHHHHHHHcC-CCCcCeEEeCCCccccCCH
Confidence            3468999999999999999999876421         13457899999999997654432 4679999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHH
Q 012112          131 RFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKL  210 (471)
Q Consensus       131 ~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~  210 (471)
                      +++++|++.|++.|++.+++|+|+|+||++++.+.++.|+++||||||||||||||++|+.|||.|+.+++.++++.+++
T Consensus        72 ~~L~~ll~~i~~~f~~~~~~eit~E~~P~~i~~e~L~~l~~~GvnrislGvQS~~d~vL~~l~R~~~~~~~~~ai~~~~~  151 (380)
T PRK09057         72 ETVAALLDAIARLWPVADDIEITLEANPTSVEAGRFRGYRAAGVNRVSLGVQALNDADLRFLGRLHSVAEALAAIDLARE  151 (380)
T ss_pred             HHHHHHHHHHHHhCCCCCCccEEEEECcCcCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            99999999999999998889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          211 CGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       211 ~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      + +.+||+|||+|+||||.++|.++++.+++++|+||++|+|+++|||++++.++.|++.+|++++..+||..+.+.|++
T Consensus       152 ~-~~~v~~dli~GlPgqt~~~~~~~l~~~~~l~p~~is~y~L~~~~gT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~  230 (380)
T PRK09057        152 I-FPRVSFDLIYARPGQTLAAWRAELKEALSLAADHLSLYQLTIEEGTAFYGLHAAGKLILPDEDLAADLYELTQEITAA  230 (380)
T ss_pred             h-CccEEEEeecCCCCCCHHHHHHHHHHHHhcCCCeEEeecceecCCChHHHHHhcCCCCCCChHHHHHHHHHHHHHHHH
Confidence            9 456999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccC--Ce--EEEcCCChHHHHHHHHHHhcCCCcccccccCC
Q 012112          291 AGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLG--GL--RFSRPRRMKEFVDYVQNLEAGLVDCWGNNHID  366 (471)
Q Consensus       291 ~Gy~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~--~~--r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~  366 (471)
                      +||.+||+|||+|+|++|+||..||++.+|+|||+||+|+++  +.  ++.|++++.+|+   ++++++..|+...+.++
T Consensus       231 ~G~~~ye~s~~a~~g~~~~hn~~yw~~~~~lG~G~gA~s~~~~~~~~~~~~n~~~~~~Y~---~~i~~~~~p~~~~~~l~  307 (380)
T PRK09057        231 AGLPAYEISNHARPGAESRHNLTYWRYGDYAGIGPGAHGRLTLGGERHATATEKAPEAWL---ERVERNGHGIIEEERLD  307 (380)
T ss_pred             cCCchhhhHHHcCCCchhhhHHHHhCCCCEEEEcCCccccccCCCceEEEecCCCHHHHH---HHHHcCCCCcceeeeCC
Confidence            999999999999999999999999999999999999999984  54  457788888776   45667888887778899


Q ss_pred             HhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccce
Q 012112          367 AKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAY  446 (471)
Q Consensus       367 ~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  446 (471)
                      .++++.|.+|++||+.+|||++.|+++||.++.   .+.++.|++.|++..++++                        +
T Consensus       308 ~~e~~~e~~~~~Lr~~~gid~~~~~~~~g~~~~---~~~l~~l~~~gl~~~~~~~------------------------~  360 (380)
T PRK09057        308 PEERADEFLLMGLRLREGIDLARYAALSGRPLD---PERLADLIEEGLIERDGGS------------------------R  360 (380)
T ss_pred             HHHHHHHHHHHHHHHhCCCCHHHHHHHHCCCch---HHHHHHHHHCCCEEEcCCC------------------------E
Confidence            999999999999999999999999999999875   3689999999999864432                        4


Q ss_pred             eeecCchhhchHHHHHHHHH
Q 012112          447 FRLSDPEGFLLSNELISHAF  466 (471)
Q Consensus       447 ~~lt~~~G~~~~n~i~~~~~  466 (471)
                      ++|| ++|++++|.|+.+|+
T Consensus       361 ~~lT-~~G~~~~d~i~~~~~  379 (380)
T PRK09057        361 LRAT-PAGRLVLDAVVADLA  379 (380)
T ss_pred             EEEC-cchhHHHHHHHHHHh
Confidence            7896 999999999999987

>PRK09058 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=1.4e-83  Score=673.91  Aligned_cols=380  Identities=25%  Similarity=0.428  Sum_probs=349.9

Q ss_pred             CCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCC-CCCCCCeeEEEEcCCCCCCC
Q 012112           50 QLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPG-HKTSPPLETVFFGGGTPSLV  128 (471)
Q Consensus        50 ~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~-~~~~~~v~~i~fGGGTps~l  128 (471)
                      +..+.+||||||||+++|.||+|++..         .....+.+|+++|++||+..... ......+++|||||||||+|
T Consensus        58 ~~~~~~lYiHIPFC~~~C~yC~f~~~~---------~~~~~~~~Y~~~L~~Ei~~~~~~~~~~~~~i~~iy~GGGTPs~L  128 (449)
T PRK09058         58 RARKRLLYIHIPFCRTHCTFCGFFQNA---------WNPEAVARYTDALIRELAMEADSPLTQSAPIHAVYFGGGTPTAL  128 (449)
T ss_pred             CCCceEEEEEeCCcCCcCCCCCCcCcC---------CchhhHHHHHHHHHHHHHHHhhccccCCCeeeEEEECCCccccC
Confidence            345799999999999999999998653         12345788999999999976542 21235799999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHH
Q 012112          129 PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIV  208 (471)
Q Consensus       129 ~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~  208 (471)
                      +++++.+|++.|++.|++..++|||+|+||+++|+++++.|+++|||||||||||||+++|+.+||.|+.+++.++++.+
T Consensus       129 ~~~~l~~ll~~i~~~~~l~~~~eitiE~~p~~~t~e~l~~l~~aGvnRiSiGVQSf~d~vLk~lgR~~~~~~~~~~i~~l  208 (449)
T PRK09058        129 SAEDLARLITALREYLPLAPDCEITLEGRINGFDDEKADAALDAGANRFSIGVQSFNTQVRRRAGRKDDREEVLARLEEL  208 (449)
T ss_pred             CHHHHHHHHHHHHHhCCCCCCCEEEEEeCcCcCCHHHHHHHHHcCCCEEEecCCcCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCC-CHHHHHHHHHHHHHH
Q 012112          209 KLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLP-TETQSANFYRMASSM  287 (471)
Q Consensus       209 ~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p-~~~~~~~~~~~~~~~  287 (471)
                      +++|+.+|++|||||+||||.++|+++++.+.+++|+||++|.|+++|||++++.+++|++++| ++++.++||..+.+.
T Consensus       209 ~~~g~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~~~~is~y~L~~~pgT~l~~~~~~g~l~~~~~~~~~~~my~~~~~~  288 (449)
T PRK09058        209 VARDRAAVVCDLIFGLPGQTPEIWQQDLAIVRDLGLDGVDLYALNLLPGTPLAKAVEKGKLPPPATPAERADMYAYGVEF  288 (449)
T ss_pred             HhCCCCcEEEEEEeeCCCCCHHHHHHHHHHHHhcCCCEEEEeccccCCCCHHHHHHHcCCCCCCCCHHHHHHHHHHHHHH
Confidence            9999888999999999999999999999999999999999999999999999999999999888 999999999999999


Q ss_pred             HHHCCCceeccccccCCCc-chhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCC
Q 012112          288 LSSAGYRHYEISSYGEDGY-ECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHID  366 (471)
Q Consensus       288 L~~~Gy~~yeis~fa~~g~-~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~  366 (471)
                      |.++||.|||+|||||+|. +|+||..||++.+|+|||+||+|++++.+|+|++++++|.+   .+++|..|+...+.++
T Consensus       289 L~~~Gy~~yeis~far~~~~~~~~n~~~~~~~~~lg~G~gA~s~~~~~~~~n~~~l~~Y~~---~i~~~~~p~~~~~~~~  365 (449)
T PRK09058        289 LAKAGWRQLSNSHWARTTRERNLYNLLIKQGAECLPFGAGAGGSIGGYSYMNHRDLDTYHE---AIAAGQKPLMMMMRAS  365 (449)
T ss_pred             HHHCCCeEEeeeeeecCCccccHHHHHHcCCCCEEEEccCcccccCCEEEECCCCHHHHHH---HHHcCCCchhhcccCC
Confidence            9999999999999999996 59999999999999999999999999999999999998874   5667888887777899


Q ss_pred             HhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccce
Q 012112          367 AKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAY  446 (471)
Q Consensus       367 ~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  446 (471)
                      +++++.+.++++||+ .|||++.|+  ||.++.+.+.+.++.|++.||++.++ +                        +
T Consensus       366 ~~~~~~~~i~~~l~~-~~l~~~~~~--~g~~~~~~~~~~l~~~~~~Gll~~~~-~------------------------~  417 (449)
T PRK09058        366 PNAPLRAALKAGLER-GRLDLSELA--LGTPHADHLAPLLAQWQQAGLVELSS-D------------------------C  417 (449)
T ss_pred             HHHHHHHHHHHHhhc-CCccHHHhh--cCCcHHHHHHHHHHHHHHCCCEEEEC-C------------------------E
Confidence            999999999999998 499999999  99999988999999999999998644 2                        4


Q ss_pred             eeecCchhhchHHHHHHHHHhccc
Q 012112          447 FRLSDPEGFLLSNELISHAFGVID  470 (471)
Q Consensus       447 ~~lt~~~G~~~~n~i~~~~~~~~~  470 (471)
                      ++|| ++|++++|.|+..|+..+.
T Consensus       418 l~lT-~~G~~~~~~i~~~~~~~l~  440 (449)
T PRK09058        418 LRLT-LAGRFWAVNLTQGLIEILQ  440 (449)
T ss_pred             EEEC-CCcccHHHHHHHHHHHHHH
Confidence            8997 9999999999999987653

>PRK05799 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=3.5e-82  Score=651.36  Aligned_cols=372  Identities=32%  Similarity=0.634  Sum_probs=344.4

Q ss_pred             CCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHH
Q 012112           52 SPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPR  131 (471)
Q Consensus        52 ~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~  131 (471)
                      .+++||||||||+++|.||+|++...         ......+|+++|++||+....    ...+++||||||||++++++
T Consensus         2 ~~~~lYiHiPfC~~~C~yC~~~~~~~---------~~~~~~~y~~~l~~Ei~~~~~----~~~~~~i~~gGGtps~l~~~   68 (374)
T PRK05799          2 KEISLYIHIPFCKQKCLYCDFPSYSG---------KEDLMMEYIKALSKEIRNSTK----NKKIKSIFIGGGTPTYLSLE   68 (374)
T ss_pred             CceEEEEEeCCccCCCCCCCCCcccC---------CcchHHHHHHHHHHHHHhhcC----CCceeEEEECCCcccCCCHH
Confidence            35799999999999999999987632         123567899999999975422    34589999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 012112          132 FVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLC  211 (471)
Q Consensus       132 ~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~  211 (471)
                      .++.|++.+++ +.+..+++||+|+||+++|++.++.|+++|+|||||||||++|++|+.+||.|+.+++.++++.++++
T Consensus        69 ~l~~L~~~i~~-~~~~~~~eitie~~p~~~t~e~l~~l~~~G~~rvsiGvqS~~d~~L~~l~R~~~~~~~~~ai~~l~~~  147 (374)
T PRK05799         69 ALEILKETIKK-LNKKEDLEFTVEGNPGTFTEEKLKILKSMGVNRLSIGLQAWQNSLLKYLGRIHTFEEFLENYKLARKL  147 (374)
T ss_pred             HHHHHHHHHHh-CCCCCCCEEEEEeCCCcCCHHHHHHHHHcCCCEEEEECccCCHHHHHHcCCCCCHHHHHHHHHHHHHc
Confidence            99999999975 77777889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHC
Q 012112          212 GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA  291 (471)
Q Consensus       212 G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~  291 (471)
                      ||++|++|+|+|+||||.++|.++++.+.+++|+||++|.|+++|||++++++++|.+.+|+++...+||..+.+.|.++
T Consensus       148 g~~~v~~dli~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~  227 (374)
T PRK05799        148 GFNNINVDLMFGLPNQTLEDWKETLEKVVELNPEHISCYSLIIEEGTPFYNLYENGKLKLPDEEEEREMYHYTIEFLKEK  227 (374)
T ss_pred             CCCcEEEEeecCCCCCCHHHHHHHHHHHHhcCCCEEEEeccEecCCCHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHc
Confidence            99989999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhhHH
Q 012112          292 GYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLA  371 (471)
Q Consensus       292 Gy~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~~~  371 (471)
                      ||.|||+|||||||++|+||..||++.+|+|||+||+|++++.+|+|++++++|.+.   +++|..|+...+.++.++++
T Consensus       228 Gy~~ye~~~fa~~~~~~~hn~~yw~~~~~~g~G~gA~s~~~~~~~~n~~~~~~y~~~---~~~~~~p~~~~~~l~~~~~~  304 (374)
T PRK05799        228 GYHQYEISNFAKPGKECRHNLVYWDLEEYIGCGAGAHSYVNGKRYENISNIEKYIKE---INENNSAVEEIHKNSIKDNM  304 (374)
T ss_pred             CCcEEeeeeeECCCcchhhHHHHhcCCCEEEEcCCccccCCCEEEecCCCHHHHHHH---HhcCCCccceeeeCCHhHHH
Confidence            999999999999999999999999999999999999999999999999999988754   56688887677889999999


Q ss_pred             HHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecC
Q 012112          372 MDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSD  451 (471)
Q Consensus       372 ~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~  451 (471)
                      .+.+|++||+.+|||.++|+++||.++.+.+.+.++.++++||+..++ +                        +++|| 
T Consensus       305 ~~~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-~------------------------~~~lT-  358 (374)
T PRK05799        305 EEFMFMGLRKIKGICIEDFKKRFGKNIYEVYGEVINKYIKLGLLIEKE-G------------------------RIYLS-  358 (374)
T ss_pred             HHHHHHHHHhhCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEEC-C------------------------EEEEC-
Confidence            999999999999999999999999999888999999999999998643 2                        47996 


Q ss_pred             chhhchHHHHHHHHH
Q 012112          452 PEGFLLSNELISHAF  466 (471)
Q Consensus       452 ~~G~~~~n~i~~~~~  466 (471)
                      ++|++++|.|+.+|+
T Consensus       359 ~~G~~~~~~i~~~~~  373 (374)
T PRK05799        359 ERGIEVSNSIMSDFL  373 (374)
T ss_pred             hhHHHHHHHHHHHHh
Confidence            999999999999986

>PRK05628 coproporphyrinogen III oxidase; Validated

Probab=100.00  E-value=3.7e-82  Score=651.01  Aligned_cols=372  Identities=31%  Similarity=0.545  Sum_probs=341.1

Q ss_pred             CeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCC-CCCCeeEEEEcCCCCCCCCHH
Q 012112           53 PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHK-TSPPLETVFFGGGTPSLVPPR  131 (471)
Q Consensus        53 ~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~-~~~~v~~i~fGGGTps~l~~~  131 (471)
                      +++||||||||+++|.||+|++...+..     ......++|+++|.+||+....... ....+++|||||||||+++++
T Consensus         2 ~~~lYiHiPFC~~~C~yC~f~~~~~~~~-----~~~~~~~~Y~~~l~~Ei~~~~~~~~~~~~~i~~i~~GGGTPs~l~~~   76 (375)
T PRK05628          2 PFGVYVHVPFCATRCGYCDFNTYTAAEL-----GGGASPDGYLDALRAELELAAAVLGDPAPPVSTVFVGGGTPSLLGAE   76 (375)
T ss_pred             CeEEEEEeCCcCCcCCCCCCCccccccc-----ccccCHHHHHHHHHHHHHHHHHhhccCCCceeEEEeCCCccccCCHH
Confidence            5799999999999999999987643210     0023468899999999997665432 246799999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 012112          132 FVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLC  211 (471)
Q Consensus       132 ~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~  211 (471)
                      ++.+|++.+++.+++.+++|||+|+||++++++.++.|+++||||||+||||+++++|+.++|.|+.+++.++++.++++
T Consensus        77 ~l~~ll~~i~~~~~~~~~~e~t~e~~p~~i~~e~l~~l~~~G~~rvslGvQS~~~~~L~~l~R~~s~~~~~~a~~~l~~~  156 (375)
T PRK05628         77 GLARVLDAVRDTFGLAPGAEVTTEANPESTSPEFFAALRAAGFTRVSLGMQSAAPHVLAVLDRTHTPGRAVAAAREARAA  156 (375)
T ss_pred             HHHHHHHHHHHhCCCCCCCEEEEEeCCCCCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHc
Confidence            99999999999999988899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHC
Q 012112          212 GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA  291 (471)
Q Consensus       212 G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~  291 (471)
                      ||.+|++|||+|+||||.++|.++++.+.+++|+||++|+|+++|||++++.+.+|+++.|+++...+||..+.+.|.++
T Consensus       157 g~~~v~~dli~GlPgqt~~~~~~tl~~~~~l~~~~i~~y~l~~~~gT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~  236 (375)
T PRK05628        157 GFEHVNLDLIYGTPGESDDDWRASLDAALEAGVDHVSAYALIVEDGTALARRVRRGELPAPDDDVLADRYELADARLSAA  236 (375)
T ss_pred             CCCcEEEEEeccCCCCCHHHHHHHHHHHHhcCCCEEEeeeeecCCCChHHHHhhcCCCCCCChHHHHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhhHH
Q 012112          292 GYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLA  371 (471)
Q Consensus       292 Gy~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~~~  371 (471)
                      ||.+||+|||||||++|+||..||.+.||+|||+||+|++++.+|+|+.++++|++   .+++|..|+...+.+++++++
T Consensus       237 G~~~ye~s~fa~~~~~~~hn~~yw~~~~~lg~G~gA~s~~~~~~~~n~~~l~~Y~~---~v~~~~~p~~~~~~l~~~~~~  313 (375)
T PRK05628        237 GFDWYEVSNWARPGGECRHNLGYWRGGDWWGAGPGAHSHVGGVRWWNVKHPAAYAA---RLAAGALPVAGREVLDAEDRH  313 (375)
T ss_pred             CCCeeeeccccCCCcccccchhhcCCCCEEEEccCcccccCCEEEEcCCCHHHHHH---HHHcCCCCcceeeeCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999998875   456788888777889999999


Q ss_pred             HHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecC
Q 012112          372 MDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSD  451 (471)
Q Consensus       372 ~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~  451 (471)
                      .|.+|++||+..|+|+.+|.+++        .+.++.|+++|++..++ +                        +++|| 
T Consensus       314 ~e~l~~~lr~~~g~~~~~~~~~~--------~~~l~~l~~~gl~~~~~-~------------------------~~~lT-  359 (375)
T PRK05628        314 VERVMLGLRLREGLPLALLDAAE--------RARAARVVADGLLAAEG-G------------------------RLVLT-  359 (375)
T ss_pred             HHHHHhccccccCCCHHHHHHHH--------HHHHHHHHHCCCEEEEC-C------------------------EEEEC-
Confidence            99999999999999999888753        57889999999998643 2                        47997 


Q ss_pred             chhhchHHHHHHHHH
Q 012112          452 PEGFLLSNELISHAF  466 (471)
Q Consensus       452 ~~G~~~~n~i~~~~~  466 (471)
                      ++|++++|.|+++|+
T Consensus       360 ~~G~~~~~~i~~~~~  374 (375)
T PRK05628        360 LRGRLLADAVVRDLL  374 (375)
T ss_pred             hhhhHHHHHHHHHHh
Confidence            999999999999986

>PRK05660 HemN family oxidoreductase; Provisional

Probab=100.00  E-value=1.9e-81  Score=645.07  Aligned_cols=367  Identities=31%  Similarity=0.573  Sum_probs=332.3

Q ss_pred             CeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           53 PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        53 ~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      +++||||||||+++|.||+|++....        ......+|+++|++||+...... .+.++++||||||||++|++++
T Consensus         6 ~~~lYiHiPFC~~~C~yC~f~~~~~~--------~~~~~~~Y~~~l~~Ei~~~~~~~-~~~~v~ti~~GGGtPs~l~~~~   76 (378)
T PRK05660          6 PLSLYIHIPWCVQKCPYCDFNSHALK--------GEVPEDEYVDHLLADLDADLPLV-QGREVHSIFIGGGTPSLFSAEA   76 (378)
T ss_pred             ceEEEEEeCCccCcCCCCCCeecCCC--------CcCCHHHHHHHHHHHHHHHhHhc-cCCceeEEEeCCCccccCCHHH
Confidence            57999999999999999999875321        12345779999999998643322 2467999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG  212 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G  212 (471)
                      +.+|++.+++.|++..++|||+|+||++++.+.++.|+++|+|||||||||+++++|+.++|.|+.+++.++++.++++|
T Consensus        77 l~~ll~~l~~~~~~~~~~eit~e~np~~l~~e~l~~Lk~~Gv~risiGvqS~~~~~L~~l~r~~~~~~~~~ai~~~~~~G  156 (378)
T PRK05660         77 IQRLLDGVRARLPFAPDAEITMEANPGTVEADRFVGYQRAGVNRISIGVQSFSEEKLKRLGRIHGPDEAKRAAKLAQGLG  156 (378)
T ss_pred             HHHHHHHHHHhCCCCCCcEEEEEeCcCcCCHHHHHHHHHcCCCEEEeccCcCCHHHHHHhCCCCCHHHHHHHHHHHHHcC
Confidence            99999999999999888999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCC
Q 012112          213 VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG  292 (471)
Q Consensus       213 ~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~G  292 (471)
                      |.+||+|||+|+||||.++|.++++.+.+++|+||++|+|+++|||+++++    ...+|++++.++||..+.+.|.++|
T Consensus       157 ~~~v~~dli~Glpgqt~~~~~~~l~~~~~l~p~~is~y~l~~~~gT~l~~~----~~~~~~~~~~~~~~~~~~~~L~~~G  232 (378)
T PRK05660        157 LRSFNLDLMHGLPDQSLEEALDDLRQAIALNPPHLSWYQLTIEPNTLFGSR----PPVLPDDDALWDIFEQGHQLLTAAG  232 (378)
T ss_pred             CCeEEEEeecCCCCCCHHHHHHHHHHHHhcCCCeEEeeccEeccCCccccc----CCCCcCHHHHHHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999999999999999874    2236889999999999999999999


Q ss_pred             CceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccC---C--eEEEcCCChHHHHHHHHHHhcCCCcccccccCCH
Q 012112          293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLG---G--LRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDA  367 (471)
Q Consensus       293 y~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~---~--~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~  367 (471)
                      |.|||++||||||++|+||..||++.||+|||+||+|+++   +  .||+|++++.+|.+       + .+....+.++.
T Consensus       233 y~~yei~~fa~~~~~~~hn~~~w~~~~~lg~G~gA~s~~~~~~~~~~r~~n~~~~~~y~~-------~-~~~~~~~~l~~  304 (378)
T PRK05660        233 YQQYETSAYAKPGYQCQHNLNYWRFGDYLGIGCGAHGKLTFPDGRILRTWKTKHPRGYMQ-------G-RYLDGQRDVEA  304 (378)
T ss_pred             CcEeecccccCCChhHHHHHHHhcCCCEEEEcCCccccccCCCCceeeEeecCCHHHHHh-------c-CCCcccccCCh
Confidence            9999999999999999999999999999999999999985   3  59999999998863       2 23345677899


Q ss_pred             hhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccccee
Q 012112          368 KDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYF  447 (471)
Q Consensus       368 ~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  447 (471)
                      ++++.|.+|++||+.+|||+++|+++||.++.+ +.+.++.+++.||+..++ +                        ++
T Consensus       305 ~~~~~e~~~~~Lr~~~G~~~~~~~~~~g~~~~~-~~~~l~~l~~~gl~~~~~-~------------------------~~  358 (378)
T PRK05660        305 ADRPFEFFMNRFRLLEAAPRADFEAYTGLPESV-IRPQLDEALAQGYLTETA-D------------------------HW  358 (378)
T ss_pred             hhHHHHHHHHhchhccCCCHHHHHHHHCCCHHH-HHHHHHHHHHCCCEEEeC-C------------------------EE
Confidence            999999999999999999999999999999866 678999999999998643 2                        47


Q ss_pred             eecCchhhchHHHHHHHHHh
Q 012112          448 RLSDPEGFLLSNELISHAFG  467 (471)
Q Consensus       448 ~lt~~~G~~~~n~i~~~~~~  467 (471)
                      +|| ++|++++|+|++.|+.
T Consensus       359 ~lt-~~G~~~~d~i~~~~~~  377 (378)
T PRK05660        359 QIT-EHGKLFLNDLLELFLA  377 (378)
T ss_pred             EEC-cchhHHHHHHHHHHhc
Confidence            997 9999999999999975

>PRK08599 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=3.5e-80  Score=636.99  Aligned_cols=375  Identities=35%  Similarity=0.610  Sum_probs=348.2

Q ss_pred             CeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           53 PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        53 ~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      |.++|||||||+++|.||+|++...         ......+|+++|++||+..... . ...+++||||||||+++++++
T Consensus         1 ~~~lYihiPfC~~~C~yC~~~~~~~---------~~~~~~~y~~~l~~Ei~~~~~~-~-~~~i~~i~~gGGtpt~l~~~~   69 (377)
T PRK08599          1 PTSAYIHIPFCEHICYYCDFNKVFI---------KNQPVDEYLDALIKEMNTYAIR-P-FDKLKTIYIGGGTPTALSAEQ   69 (377)
T ss_pred             CceEEEEeCCcCCCCCCCCCeeecc---------CccCHHHHHHHHHHHHHHhhhc-C-CCceeEEEeCCCCcccCCHHH
Confidence            5799999999999999999987532         1234688999999999765432 2 357999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG  212 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G  212 (471)
                      +.++++.+++.+++...+|||+|+||++++.+.++.|+++|+|||||||||+++++|+.|+|.|+.+++.++++.++++|
T Consensus        70 l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~G~~rvsiGvqS~~~~~l~~l~r~~~~~~~~~~i~~l~~~g  149 (377)
T PRK08599         70 LERLLTAIHRNLPLSGLEEFTFEANPGDLTKEKLQVLKDSGVNRISLGVQTFNDELLKKIGRTHNEEDVYEAIANAKKAG  149 (377)
T ss_pred             HHHHHHHHHHhCCCCCCCEEEEEeCCCCCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHcC
Confidence            99999999999988777899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCC
Q 012112          213 VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG  292 (471)
Q Consensus       213 ~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~G  292 (471)
                      +.+|++|+|+|+||||.++|.++++.+.+++++||++|+|+++|||++++++.+|+..+|+++...+||..+.+.|.++|
T Consensus       150 ~~~v~~dli~GlPgqt~~~~~~~l~~~~~l~~~~i~~y~l~~~pgT~~~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~G  229 (377)
T PRK08599        150 FDNISIDLIYALPGQTIEDFKESLAKALALDIPHYSAYSLILEPKTVFYNLMRKGKLRLPGEDLEAEMYEYLMDEMEAHG  229 (377)
T ss_pred             CCcEEEeeecCCCCCCHHHHHHHHHHHHccCCCEEeeeceeecCCChhHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHcC
Confidence            99899999999999999999999999999999999999999999999999998999989999999999999999999999


Q ss_pred             CceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhhHHH
Q 012112          293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAM  372 (471)
Q Consensus       293 y~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~~~~  372 (471)
                      |.|||++||+|||++|+||..||++.+|+|||+||+|++++.+|.|+.++.+|++   .+++|..|+...+.++.++++.
T Consensus       230 y~~~~~~~fa~~~~~~~~n~~~~~~~~~lg~G~gA~s~~~~~~~~n~~~~~~Y~~---~~~~~~~p~~~~~~l~~~~~~~  306 (377)
T PRK08599        230 FHQYEISNFAKPGFESRHNLTYWNNEEYYGFGAGASGYVNGVRYQNIGPIKHYLK---AINEEGLPRLEEHVLTKKEQME  306 (377)
T ss_pred             CcEeeeeeeeCCChHHHHHHHHhcCCcEEEEccCcccccCCEEEEcCCCHHHHHH---HHhcCCCccceeeeCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999988775   4567888886778899999999


Q ss_pred             HHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          373 DVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       373 e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      +.+|++||+..|||.+.|+++||.++.+.+.+.++.|++.||+..++ +                        +++|| +
T Consensus       307 ~~~~~~Lr~~~gl~~~~~~~~~~~~~~~~~~~~~~~l~~~gl~~~~~-~------------------------~~~lt-~  360 (377)
T PRK08599        307 EEMFLGLRKKSGVSKARFEEKFGQSFEDVFGETIQELQEQGLLEEDD-D------------------------HVRLT-K  360 (377)
T ss_pred             HHHHHhHHhhCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEEC-C------------------------EEEEC-c
Confidence            99999999999999999999999999999999999999999998643 2                        47997 9


Q ss_pred             hhhchHHHHHHHHHh
Q 012112          453 EGFLLSNELISHAFG  467 (471)
Q Consensus       453 ~G~~~~n~i~~~~~~  467 (471)
                      +|++++|.|+..|+-
T Consensus       361 ~G~~~~~~i~~~~~~  375 (377)
T PRK08599        361 KGKFLGNEVFEAFLL  375 (377)
T ss_pred             cHhHHHHHHHHHHhh
Confidence            999999999999864

>PRK08898 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=2.6e-80  Score=639.98  Aligned_cols=372  Identities=31%  Similarity=0.536  Sum_probs=333.7

Q ss_pred             CCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHH
Q 012112           52 SPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPR  131 (471)
Q Consensus        52 ~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~  131 (471)
                      ++++||||||||+++|.||+|++.....      ......++|+++|.+||+....... +..+++||||||||++|+++
T Consensus        18 ~~~~lYiHIPFC~~~C~yC~f~~~~~~~------~~~~~~~~Y~~~l~~ei~~~~~~~~-~~~i~siy~GGGTPs~L~~~   90 (394)
T PRK08898         18 PPLSLYVHFPWCVRKCPYCDFNSHEWKD------GGAIPEAAYLDALRADLEQALPLVW-GRQVHTVFIGGGTPSLLSAA   90 (394)
T ss_pred             CCeEEEEEeCCccCcCCCCCCcccccCC------CCccCHHHHHHHHHHHHHHHHHhcc-CCceeEEEECCCCcCCCCHH
Confidence            4689999999999999999998764221      1112457899999999996543221 35799999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 012112          132 FVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLC  211 (471)
Q Consensus       132 ~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~  211 (471)
                      +|.+|++.|++.|++..+.|||+|+||++++.+.|+.|+++||||||||||||||++|+.|||.|+.+++.++++.+++.
T Consensus        91 ~L~~ll~~i~~~~~~~~~~eit~E~~p~~~~~e~L~~l~~~GvnrisiGvQS~~~~~L~~l~R~~~~~~~~~~i~~~~~~  170 (394)
T PRK08898         91 GLDRLLSDVRALLPLDPDAEITLEANPGTFEAEKFAQFRASGVNRLSIGIQSFNDAHLKALGRIHDGAEARAAIEIAAKH  170 (394)
T ss_pred             HHHHHHHHHHHhCCCCCCCeEEEEECCCCCCHHHHHHHHHcCCCeEEEecccCCHHHHHHhCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999988899999999999999999999999999999999999999999999999999999999999997


Q ss_pred             CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHC
Q 012112          212 GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA  291 (471)
Q Consensus       212 G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~  291 (471)
                       +.+|++|||+|+||||.++|.++++.+.+++|+||++|+|+++|||++++...    .+|+++..++||..+.+.|.++
T Consensus       171 -~~~v~~dlI~GlPgqt~~~~~~~l~~~~~l~p~~is~y~l~~~~gT~l~~~~~----~~~~~~~~~~~~~~~~~~L~~~  245 (394)
T PRK08898        171 -FDNFNLDLMYALPGQTLDEALADVETALAFGPPHLSLYHLTLEPNTLFAKFPP----ALPDDDASADMQDWIEARLAAA  245 (394)
T ss_pred             -CCceEEEEEcCCCCCCHHHHHHHHHHHHhcCCCEEEEeeeEECCCChhhhccC----CCCChHHHHHHHHHHHHHHHHc
Confidence             55799999999999999999999999999999999999999999999997532    4688999999999999999999


Q ss_pred             CCceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccC----CeEEEcCCChHHHHHHHHHHhcCCCcccccccCCH
Q 012112          292 GYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLG----GLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDA  367 (471)
Q Consensus       292 Gy~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~----~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~  367 (471)
                      ||.|||++||||||++|+||..||+..||+|||+||+|+++    ..||.|++++++|++.+   +.+.+ +...+.++.
T Consensus       246 Gy~~ye~~~fa~~~~~~~hn~~~w~~~~~lg~G~gA~s~l~~~~~~~r~~n~~~l~~Y~~~i---~~~~~-~~~~~~ls~  321 (394)
T PRK08898        246 GYAHYEVSAYAKPGRQCRHNLNYWQFGDYLGIGAGAHGKLSFPDRILRQMRYKHPATYLEQA---KAGTA-VQEEREVGA  321 (394)
T ss_pred             CCchhccccccCCCccchhHHHHhCCCCEEEECCCeeeeecCCCceEEeecCCCHHHHHHHH---HcCCC-ccceeecCH
Confidence            99999999999999999999999999999999999999987    36889999999887654   45654 445567999


Q ss_pred             hhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccccee
Q 012112          368 KDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYF  447 (471)
Q Consensus       368 ~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  447 (471)
                      ++++.+.+|++||+.+|||++.|+++||.++.. +.+.++.|++.||+..++ +                        ++
T Consensus       322 ~~~~~~~~~l~LR~~~Gld~~~f~~~~g~~~~~-~~~~l~~l~~~gll~~~~-~------------------------~~  375 (394)
T PRK08898        322 RDLPFEFMLNALRLTDGVPAHLFQERTGLPLAA-IEPQLAAAEQRGLLERDH-T------------------------RI  375 (394)
T ss_pred             hhHHHHHHHHHHHHhCCcCHHHHHHHHCCCHHH-HHHHHHHHHHCCCEEEEC-C------------------------EE
Confidence            999999999999999999999999999998754 678999999999998643 2                        47


Q ss_pred             eecCchhhchHHHHHHHHH
Q 012112          448 RLSDPEGFLLSNELISHAF  466 (471)
Q Consensus       448 ~lt~~~G~~~~n~i~~~~~  466 (471)
                      +|| ++|++++|+|+.+|+
T Consensus       376 ~LT-~~G~~~~d~i~~~~~  393 (394)
T PRK08898        376 RPT-PLGQRFLNDLQELFL  393 (394)
T ss_pred             EEC-hhHhHHHHHHHHHHh
Confidence            997 999999999999986

>PRK08446 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=4.5e-80  Score=629.07  Aligned_cols=348  Identities=32%  Similarity=0.580  Sum_probs=312.5

Q ss_pred             EEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           55 SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        55 ~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      +||||||||+++|.||+|++...         ......+|+++|++||+...+.. ...++++|||||||||+++++++.
T Consensus         2 ~lYiHiPFC~~~C~yC~f~~~~~---------~~~~~~~y~~~L~~Ei~~~~~~~-~~~~v~~iyfGGGTPs~l~~~~l~   71 (350)
T PRK08446          2 LLYIHIPFCESKCGYCAFNSYEN---------KHDLKKEYMQALCLDLKFELEQF-TDEKIESVFIGGGTPSTVSAKFYE   71 (350)
T ss_pred             eEEEEeCCccCcCCCCCCcCcCC---------CcccHHHHHHHHHHHHHHHHhhc-cCCceeEEEECCCccccCCHHHHH
Confidence            89999999999999999987631         12356889999999999654333 245799999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          135 SILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                      +|++.|++.  +..++|||+|+||+++++++++.|+++||||||||||||++++|+.+||.|+.+++.++++.++++||.
T Consensus        72 ~ll~~i~~~--~~~~~eitiE~nP~~~~~e~l~~l~~~GvnRiSiGvQS~~~~~L~~lgR~~~~~~~~~ai~~lr~~g~~  149 (350)
T PRK08446         72 PIFEIISPY--LSKDCEITTEANPNSATKAWLKGMKNLGVNRISFGVQSFNEDKLKFLGRIHSQKQIIKAIENAKKAGFE  149 (350)
T ss_pred             HHHHHHHHh--cCCCceEEEEeCCCCCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Confidence            999999987  566789999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCc
Q 012112          215 NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR  294 (471)
Q Consensus       215 ~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~  294 (471)
                      +||+|||+|+||||.++|.++++.+.+++|+||++|.|+++|||++++...++    ++++   +||..+.+.|.++||.
T Consensus       150 ~v~iDli~GlPgqt~~~~~~~l~~~~~l~~~~is~y~L~~~~gT~l~~~~~~~----~~~~---~~~~~~~~~l~~~Gy~  222 (350)
T PRK08446        150 NISIDLIYDTPLDNKKLLKEELKLAKELPINHLSAYSLTIEENTPFFEKNHKK----KDDE---NLAKFFIEQLEELGFK  222 (350)
T ss_pred             EEEEEeecCCCCCCHHHHHHHHHHHHhcCCCEEEeccceecCCChhHHhhhcC----CCHH---HHHHHHHHHHHHCCCc
Confidence            99999999999999999999999999999999999999999999999876554    3332   4999999999999999


Q ss_pred             eeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhhHHHHH
Q 012112          295 HYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDV  374 (471)
Q Consensus       295 ~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~~~~e~  374 (471)
                      |||+||||| |++|+||..||++.||+|||+||+|++++.||+|++++++|++.        ++....+.+++++++.|.
T Consensus       223 ~yeis~fa~-~~~~~hn~~yw~~~~~lg~G~gA~s~~~~~~~~n~~~~~~y~~~--------~~~~~~~~l~~~~~~~e~  293 (350)
T PRK08446        223 QYEISNFGK-NYQCKHNLGYWQGKDYLGCGAGAVGFVANKRFYPKKNLENYIKN--------PLKREIETLSEEDLRLEK  293 (350)
T ss_pred             EEEeehhhC-cchhhhHHHHhCCCCEEEEcCCcccccCCeEEEecCCHHHHHhc--------hhhcccccCCHHHHHHHH
Confidence            999999999 99999999999999999999999999999999999999998752        112234569999999999


Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      +|++||+.+|||++.|.++        +.+.++.++++||+..++ +                          +|| ++|
T Consensus       294 ~~~~Lr~~~g~~~~~~~~~--------~~~~l~~l~~~gl~~~~~-~--------------------------~l~-~~g  337 (350)
T PRK08446        294 LFLGLRSIVGVDLSILNQK--------EEKKVKILIEENKLFIKN-N--------------------------RLY-NKD  337 (350)
T ss_pred             HHHHHHhhCCcCHHHHHHH--------HHHHHHHHHHCCCEEeeC-C--------------------------EEc-ccc
Confidence            9999999999999999865        467899999999998643 2                          465 899


Q ss_pred             hchHHHHHHHHH
Q 012112          455 FLLSNELISHAF  466 (471)
Q Consensus       455 ~~~~n~i~~~~~  466 (471)
                      ++++|+|+..|+
T Consensus       338 ~~~~d~i~~~~~  349 (350)
T PRK08446        338 FFLADEIALFLL  349 (350)
T ss_pred             hhhHHHHHHHhh
Confidence            999999999875

>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase

Probab=100.00  E-value=7.9e-80  Score=630.26  Aligned_cols=348  Identities=33%  Similarity=0.570  Sum_probs=322.0

Q ss_pred             eEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           54 TSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        54 ~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      ++||||||||+.+|.||+|++...         ......+|++++++||+....... ...+++|||||||||+++++++
T Consensus         1 l~lYiHiPFC~~~C~yC~f~~~~~---------~~~~~~~y~~~l~~Ei~~~~~~~~-~~~v~~i~~GGGtPs~l~~~~l   70 (360)
T TIGR00539         1 MSLYIHIPFCENKCGYCDFNSYEN---------KSGPKEEYTQALCQDLKHALSQTD-QEPLESIFIGGGTPNTLSVEAF   70 (360)
T ss_pred             CEEEEEeCCCcCcCCCCCCcccCc---------CccCHHHHHHHHHHHHHHHHHhcC-CCcccEEEeCCCchhcCCHHHH
Confidence            489999999999999999987632         123467899999999986543332 3569999999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGV  213 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~  213 (471)
                      .+|++.|++.+++..++|+|+|+||+++|++.++.|+++||||||+||||+++++|+.+||.|+.+++.++++.++++||
T Consensus        71 ~~ll~~i~~~~~~~~~~eitie~np~~lt~e~l~~l~~~Gv~risiGvqS~~~~~l~~lgR~~~~~~~~~ai~~l~~~G~  150 (360)
T TIGR00539        71 ERLFESIYQHASLSDDCEITTEANPELITAEWCKGLKGAGINRLSLGVQSFRDDKLLFLGRQHSAKNIAPAIETALKSGI  150 (360)
T ss_pred             HHHHHHHHHhCCCCCCCEEEEEeCCCCCCHHHHHHHHHcCCCEEEEecccCChHHHHHhCCCCCHHHHHHHHHHHHHcCC
Confidence            99999999999888889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q 012112          214 ENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGY  293 (471)
Q Consensus       214 ~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy  293 (471)
                      .+|++|+|+|+||||.++|.++++.+.+++|+||++|.|+++|||++++...+    .|++++.++||..+.+.|+++||
T Consensus       151 ~~v~~dli~GlPgqt~~~~~~~l~~~~~l~~~~is~y~l~~~~gT~~~~~~~~----~~~~~~~~~~~~~~~~~L~~~Gy  226 (360)
T TIGR00539       151 ENISLDLMYGLPLQTLNSLKEELKLAKELPINHLSAYALSVEPNTNFEKNAKK----LPDDDSCAHFDEVVREILEGFGF  226 (360)
T ss_pred             CeEEEeccCCCCCCCHHHHHHHHHHHHccCCCEEEeecceEcCCChhhhhhhc----CcCHHHHHHHHHHHHHHHHHcCC
Confidence            98999999999999999999999999999999999999999999999986543    58899999999999999999999


Q ss_pred             ceeccccccCCCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhhHHHH
Q 012112          294 RHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMD  373 (471)
Q Consensus       294 ~~yeis~fa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~~~~e  373 (471)
                      .|||+|||||||++|+||..||.+.||+|||+||+|++++.||+|++++++|++.   ++.+..|+...+.++.++++.|
T Consensus       227 ~~yei~~fa~~~~~~~hn~~yw~~~~~lg~G~~A~s~~~~~~~~n~~~~~~Y~~~---~~~~~~~~~~~~~l~~~~~~~e  303 (360)
T TIGR00539       227 KQYEVSNYAKAGYQVKHNLAYWGAKDYLGCGAGAHGCVANERFFAKKLIKNYIKD---PLQRGVETLNEKNVPKQDKRLE  303 (360)
T ss_pred             ceeehhhhcCCCHHHHHHHHhcCCCCEEEEcCCccccCCCeEEEecCCHHHHHHH---HHcCCCCccccccCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999988754   5567777766778999999999


Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEe
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICL  418 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~  418 (471)
                      .+|++||+.+|||++.|+++||.++.+.+...++.++++|++...
T Consensus       304 ~~~~~Lr~~~g~~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~~~~  348 (360)
T TIGR00539       304 KLFLGLRCVLGVEKSFFDENKGLSQVKFLIEENKAFIKNNRLINS  348 (360)
T ss_pred             HHHHHHHhhCCcCHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEEe
Confidence            999999999999999999999999999999999999999999854

Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo.

>PRK05904 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=1.9e-79  Score=623.32  Aligned_cols=349  Identities=23%  Similarity=0.415  Sum_probs=312.6

Q ss_pred             CCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCH
Q 012112           51 LSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPP  130 (471)
Q Consensus        51 ~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~  130 (471)
                      ....+||||||||+++|.||+|++.....      .....+.+|++.+.+|++...     ...+++|||||||||+|++
T Consensus         4 ~~~~~lYiHiPFC~~kC~yC~f~~~~~~~------~~~~~~~~~~~~l~~ei~~~~-----~~~~~tiy~GGGTPs~L~~   72 (353)
T PRK05904          4 KKTKHLYIHIPFCQYICTFCDFKRILKTP------QTKKIFKDFLKNIKMHIKNFK-----IKQFKTIYLGGGTPNCLND   72 (353)
T ss_pred             CCeeEEEEEeCCccCcCCCCCCeeccCCc------ccHHHHHHHHHHHHHHHHHhc-----CCCeEEEEECCCccccCCH
Confidence            35689999999999999999998763110      123456777888887776542     3469999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHH
Q 012112          131 RFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKL  210 (471)
Q Consensus       131 ~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~  210 (471)
                      +++++|++.|++.+  .+++|||+|+||++++++.++.|+++|+||||+||||++|++|+.|||.|+.+++.++++.+++
T Consensus        73 ~~l~~ll~~i~~~~--~~~~eitiE~nP~~lt~e~l~~lk~~G~nrisiGvQS~~d~vL~~l~R~~~~~~~~~ai~~lr~  150 (353)
T PRK05904         73 QLLDILLSTIKPYV--DNNCEFTIECNPELITQSQINLLKKNKVNRISLGVQSMNNNILKQLNRTHTIQDSKEAINLLHK  150 (353)
T ss_pred             HHHHHHHHHHHHhc--CCCCeEEEEeccCcCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            99999999999986  4678999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          211 CGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       211 ~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      +||.+|++|+|+|+||||.++|+++++.+.+++|+||++|+|+++|||++++..  .   .++++...+||..+.+.|++
T Consensus       151 ~G~~~v~~dlI~GlPgqt~e~~~~tl~~~~~l~p~~is~y~L~~~~gT~l~~~~--~---~~~~~~~~~~~~~~~~~L~~  225 (353)
T PRK05904        151 NGIYNISCDFLYCLPILKLKDLDEVFNFILKHKINHISFYSLEIKEGSILKKYH--Y---TIDEDKEAEQLNYIKAKFNK  225 (353)
T ss_pred             cCCCcEEEEEeecCCCCCHHHHHHHHHHHHhcCCCEEEEEeeEecCCChHhhcC--C---CCChHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998762  1   36788899999999999999


Q ss_pred             CCCceeccccccC-CCcchhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccCCHhh
Q 012112          291 AGYRHYEISSYGE-DGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHIDAKD  369 (471)
Q Consensus       291 ~Gy~~yeis~fa~-~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l~~~~  369 (471)
                      +||.||||||||+ +|++|+||..||++.||+|||+||+|++++.||.|+.++.+|..             ..+.++.++
T Consensus       226 ~Gy~~yeisnfa~~~~~~~~hn~~yw~~~~ylg~G~gA~s~~~~~r~~n~~~~~~y~~-------------~~~~l~~~e  292 (353)
T PRK05904        226 LNYKRYEVSNWTNNFKYISKHNLAYWRTKDWAAIGWGAHGFENNIEYFFDGSIQNWIL-------------IKKVLTDHE  292 (353)
T ss_pred             cCCcEEechhhcCCCCccccchHhHhCCCCEEEEcCCcCcccCCeEEEeCCCHHHHhh-------------cCcCCCHHH
Confidence            9999999999999 89999999999999999999999999999999999999998862             234589999


Q ss_pred             HHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeee
Q 012112          370 LAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRL  449 (471)
Q Consensus       370 ~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l  449 (471)
                      ++.|.+|++||+.+|||++.|.   |.++...+.+.+++     +++..+                         ++++|
T Consensus       293 ~~~e~~~l~Lr~~~Gi~~~~~~---~~~~~~~~~~~~~~-----~l~~~~-------------------------~~~~~  339 (353)
T PRK05904        293 LYQQILIMGLRLKDGLDLNKEI---NKEAYLYFKNKLKH-----ISINKN-------------------------NHLRA  339 (353)
T ss_pred             HHHHHHHHHHHhhCCccHHHhc---CCCHHHHHHHHHHH-----HHhhcC-------------------------CEEEE
Confidence            9999999999999999999998   99999888888887     444322                         14899


Q ss_pred             cCchhhchHHHHHHHHH
Q 012112          450 SDPEGFLLSNELISHAF  466 (471)
Q Consensus       450 t~~~G~~~~n~i~~~~~  466 (471)
                      |   |++++|.|+++||
T Consensus       340 t---g~~~~~~~~~~~~  353 (353)
T PRK05904        340 D---NIDLLNLSIIDIF  353 (353)
T ss_pred             E---cHhHHHHHHHHhC
Confidence            4   9999999999986

>PRK08208 coproporphyrinogen III oxidase; Validated

Probab=100.00  E-value=4.2e-76  Score=615.03  Aligned_cols=371  Identities=26%  Similarity=0.443  Sum_probs=330.5

Q ss_pred             CCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           50 QLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        50 ~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      ..++++||||||||+++|.||+|+....        .......+|+++|++||+...... ....+.+|||||||||+++
T Consensus        36 ~~~~~~lYvHIPFC~~~C~yC~~~~~~~--------~~~~~~~~y~~~L~~Ei~~~~~~~-~~~~i~~i~~GGGTPs~l~  106 (430)
T PRK08208         36 YEDALSLYIHIPFCEMRCGFCNLFTRTG--------ADAEFIDSYLDALIRQAEQVAEAL-APARFASFAVGGGTPTLLN  106 (430)
T ss_pred             CCCceEEEEEeCCccCcCCCCCCccccC--------CccchHHHHHHHHHHHHHHHHHHc-CCCceeEEEEcCCccccCC
Confidence            3567899999999999999999987532        112356789999999999765433 2456899999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCC-CcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSL-DAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIV  208 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~-~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~  208 (471)
                      ++++.+|++.|++.+++.. ++|+|+|+||++++++.++.|+++||+||||||||+++++|+.++|.|+.+++.++++.+
T Consensus       107 ~~~l~~Ll~~i~~~~~~~~~~~eitiE~~P~~lt~e~l~~l~~~G~~rvslGvQS~~~~~L~~l~R~~~~~~~~~ai~~l  186 (430)
T PRK08208        107 AAELEKLFDSVERVLGVDLGNIPKSVETSPATTTAEKLALLAARGVNRLSIGVQSFHDSELHALHRPQKRADVHQALEWI  186 (430)
T ss_pred             HHHHHHHHHHHHHhCCCCCCCceEEEEeCcCcCCHHHHHHHHHcCCCEEEEecccCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            9999999999999998766 689999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          209 KLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       209 ~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      +++|+.+|++|||+|+||||.++|+++++.+.+++|+||++|+|+++|||++++..      .++++...+||..+.+.|
T Consensus       187 ~~~g~~~i~~dlI~GlP~qt~e~~~~~l~~~~~l~~~~is~y~L~~~~~T~l~~~~------~~~~~~~~~m~~~~~~~L  260 (430)
T PRK08208        187 RAAGFPILNIDLIYGIPGQTHASWMESLDQALVYRPEELFLYPLYVRPLTGLGRRA------RAWDDQRLSLYRLARDLL  260 (430)
T ss_pred             HHcCCCeEEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEEccccccCCCccchhc------CCCHHHHHHHHHHHHHHH
Confidence            99999989999999999999999999999999999999999999999999998753      357789999999999999


Q ss_pred             HHCCCceeccccccCCCcchhhhhhhh-cCCCEEEEccCcccccCCeEEEc--------CCC-hHHHHHHHHHHhcCCCc
Q 012112          289 SSAGYRHYEISSYGEDGYECKHNLTYW-KNKPFYGFGLGSASYLGGLRFSR--------PRR-MKEFVDYVQNLEAGLVD  358 (471)
Q Consensus       289 ~~~Gy~~yeis~fa~~g~~~~hn~~yw-~~~~ylG~G~gA~s~~~~~r~~n--------~~~-~~~y~~~~~~~~~g~~~  358 (471)
                      .++||.|||++||||+|.+|+||..|| ++.||+|||+||+|++++.+|.|        .++ +.+|+   +.  .+..|
T Consensus       261 ~~~Gy~~yei~~far~~~~~~~~~~~~~~~~~~lG~G~gA~s~~~~~~~~~~~~~~~~~~~~~~~~Y~---~~--~~~~~  335 (430)
T PRK08208        261 LEAGYTQTSMRMFRRNDAPDKGAPAYSCQTDGMLGLGCGARSYTGNLHYSSPYAVNQQTIRSIIDDYI---AT--PDFTV  335 (430)
T ss_pred             HHcCCeEEeecceecCCcccCCCCccccCCCCEEEecCCeeecCCCCccccchhcccccccccHHHHH---Hh--cCCCC
Confidence            999999999999999999999999995 88999999999999999876643        332 55555   33  34455


Q ss_pred             ccccccCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhh
Q 012112          359 CWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDET  438 (471)
Q Consensus       359 ~~~~~~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~  438 (471)
                      +...+.++.++.+.+.+|++||+.+|||++.|+++||.++.+ +.+.++.|++.||+..++ +                 
T Consensus       336 ~~~~~~l~~~~~~~~~~~~~Lr~~~gl~~~~~~~~~g~~~~~-~~~~l~~l~~~gll~~~~-~-----------------  396 (430)
T PRK08208        336 AEHGYLLSEDEMKRRFIIKSLLQAQGLDLADYRQRFGSDPLR-DFPELELLIDRGWLEQNG-G-----------------  396 (430)
T ss_pred             ceeeeeCCHHHHHHHHHHHHHHHhCCcCHHHHHHHHCCCHHH-HHHHHHHHHHCCCEEEEC-C-----------------
Confidence            555577999999999999999999999999999999999877 677999999999998754 2                 


Q ss_pred             hcccccceeeecCchhhchHHHHHHHHHh
Q 012112          439 KIGNRLAYFRLSDPEGFLLSNELISHAFG  467 (471)
Q Consensus       439 ~~~~~~~~~~lt~~~G~~~~n~i~~~~~~  467 (471)
                             +++|| ++|++++|.|++.|+.
T Consensus       397 -------~l~lT-~~G~~~~d~i~~~~~~  417 (430)
T PRK08208        397 -------RLRLT-EEGLALSDAIGPVFIS  417 (430)
T ss_pred             -------EEEEC-cchhhHHHHHHHHHcC
Confidence                   47997 9999999999999974

>PRK13347 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=9.1e-76  Score=616.31  Aligned_cols=380  Identities=25%  Similarity=0.394  Sum_probs=338.9

Q ss_pred             CCCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC
Q 012112           49 PQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV  128 (471)
Q Consensus        49 ~~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l  128 (471)
                      ++..+++||||||||+++|.||+|++....        ......+|+++|++||+...........+.+||||||||+++
T Consensus        46 ~~~~~~~LYvHIPfC~~~C~yC~~~~~~~~--------~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~i~fgGGTPs~l  117 (453)
T PRK13347         46 GPEEPVSLYLHVPFCRSLCWFCGCNTIITQ--------RDAPVEAYVAALIREIRLVAASLPQRRRVSQLHWGGGTPTIL  117 (453)
T ss_pred             cCCCceEEEEEeCCccccCCCCCCcCcCcc--------ccchHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCcccccC
Confidence            456789999999999999999999865321        234567899999999997665443345799999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHH
Q 012112          129 PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIV  208 (471)
Q Consensus       129 ~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~  208 (471)
                      +++++.+|++.|++.|++..++||++|+||+++|++.++.|+++||||||||||||++++|+.++|.|+.+++.++++.+
T Consensus       118 ~~~~l~~ll~~i~~~~~~~~~~e~tie~~p~~lt~e~l~~L~~~G~~rvsiGvQS~~~~vl~~l~R~~~~~~~~~ai~~l  197 (453)
T PRK13347        118 NPDQFERLMAALRDAFDFAPEAEIAVEIDPRTVTAEMLQALAALGFNRASFGVQDFDPQVQKAINRIQPEEMVARAVELL  197 (453)
T ss_pred             CHHHHHHHHHHHHHhCCCCCCceEEEEeccccCCHHHHHHHHHcCCCEEEECCCCCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            99999999999999999888899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          209 KLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       209 ~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      +++||.+|++|||+|+||||.++|.++++.+.+++|+||++|.|+..|++...+. ..+...+|++++..+||..+.+.|
T Consensus       198 r~~G~~~v~~dli~GlPgqt~e~~~~tl~~~~~l~p~~i~~y~l~~~p~~~~~~~-~~~~~~lp~~~~~~~~~~~~~~~L  276 (453)
T PRK13347        198 RAAGFESINFDLIYGLPHQTVESFRETLDKVIALSPDRIAVFGYAHVPSRRKNQR-LIDEAALPDAEERLRQARAVADRL  276 (453)
T ss_pred             HhcCCCcEEEeEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEeccccccchhhHHh-cCCccCCcCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999986554332221 125667899999999999999999


Q ss_pred             HHCCCceeccccccCCCcc----------hhhhhhhhc--CCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCC
Q 012112          289 SSAGYRHYEISSYGEDGYE----------CKHNLTYWK--NKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGL  356 (471)
Q Consensus       289 ~~~Gy~~yeis~fa~~g~~----------~~hn~~yw~--~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~  356 (471)
                      .++||.+|+++|||||+++          |+||..||.  +.+|+|||+||+|++++.+++|+.++++|.+   ++++|.
T Consensus       277 ~~~Gy~~~~~~~far~~~~~~~a~~~g~l~r~~~~Y~~~~~~~~lGlG~gA~s~~~~~~~~N~~~l~~Y~~---~i~~g~  353 (453)
T PRK13347        277 LAAGYVPIGLDHFALPDDELAIAQREGRLHRNFQGYTTDRCETLIGFGASAISRFPGGYVQNISSLKAYYR---AIDAGR  353 (453)
T ss_pred             HHCCCEEEeccceeCCCchhhHHHhcCcccccccccCCCCCCcEEEECcCceeCCCCceEECCCCHHHHHH---HHHCCC
Confidence            9999999999999999998          999999994  6899999999999999999999999998865   566799


Q ss_pred             CcccccccCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHH--HHHHHHHHHHCCCEEEecCcccchhhhhhhhhh
Q 012112          357 VDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHT--LCKAYKPYIESGHVICLDEWRRAMNIEEFNSLL  434 (471)
Q Consensus       357 ~~~~~~~~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~--~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~  434 (471)
                      +|+...+.++.++++.+.+|++||+..|||.+.|+++||.++...  ..+.++.|++.||++.++ +             
T Consensus       354 ~p~~~~~~l~~~~~~~~~~~~~L~~~~~ld~~~~~~~~g~~~~~~~~~~~~l~~l~~~gl~~~~~-~-------------  419 (453)
T PRK13347        354 LPIERGYALSDDDRLRRAIIETLMCNFPVDLAAIAARHGFFARYFLDELARLEPLAADGLVTIDG-G-------------  419 (453)
T ss_pred             CCeeeeecCCHHHHHHHHHHHHHHhhCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCEEEEC-C-------------
Confidence            998777889999999999999999999999999999999986432  246899999999998643 2             


Q ss_pred             hhhhhcccccceeeecCchhhchHHHHHHHHH
Q 012112          435 LDETKIGNRLAYFRLSDPEGFLLSNELISHAF  466 (471)
Q Consensus       435 ~~~~~~~~~~~~~~lt~~~G~~~~n~i~~~~~  466 (471)
                                 +++|| ++|++++|.|+..|=
T Consensus       420 -----------~~~lT-~~G~~~~~~i~~~fd  439 (453)
T PRK13347        420 -----------GIRVT-PEGRPLIRAVAAAFD  439 (453)
T ss_pred             -----------EEEEC-cchhHHHHHHHHHHh
Confidence                       47997 999999999998773

>PRK09249 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=1.1e-74  Score=608.30  Aligned_cols=384  Identities=23%  Similarity=0.414  Sum_probs=340.1

Q ss_pred             CCCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC
Q 012112           49 PQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV  128 (471)
Q Consensus        49 ~~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l  128 (471)
                      .+..+++||||||||+++|.||+|++...+        ......+|+++|++||+...+.+.....+.+||||||||+++
T Consensus        45 ~~~~~~~LYvHIPFC~~~C~yC~~~~~~~~--------~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~i~~gGGtPs~l  116 (453)
T PRK09249         45 YPERPLSLYVHIPFCRSLCYYCGCNKIITR--------DHEKADPYLDALEKEIALVAALLGPGRPVSQLHWGGGTPTFL  116 (453)
T ss_pred             CCCCceEEEEEeCCccccCCCCCCcccCCC--------CcchHHHHHHHHHHHHHHHHHHhCCCCceEEEEECCcccccC
Confidence            345678999999999999999999865321        223567899999999997655432245799999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHH
Q 012112          129 PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIV  208 (471)
Q Consensus       129 ~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~  208 (471)
                      +++++.+|++.+++.|++..++|+++|+||+++|++.++.|+++|+|||||||||+++++|+.++|.|+.+++.++++.+
T Consensus       117 ~~~~l~~ll~~l~~~~~~~~~~e~tie~np~~lt~e~l~~l~~aG~~risiGvqS~~~~~L~~l~r~~~~~~~~~ai~~l  196 (453)
T PRK09249        117 SPEQLRRLMALLREHFNFAPDAEISIEIDPRELDLEMLDALRELGFNRLSLGVQDFDPEVQKAVNRIQPFEFTFALVEAA  196 (453)
T ss_pred             CHHHHHHHHHHHHHhCCCCCCCEEEEEecCCcCCHHHHHHHHHcCCCEEEECCCCCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            99999999999999999888899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          209 KLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       209 ~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      +++||.+|++|+|+|+||||.++|.++++.+.+++|+||++|.|++.|++..... ..++..+|++++..+||..+.+.|
T Consensus       197 ~~~G~~~v~~dli~GlPgqt~e~~~~~l~~~~~l~~~~i~~y~l~~~p~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~L  275 (453)
T PRK09249        197 RELGFTSINIDLIYGLPKQTPESFARTLEKVLELRPDRLAVFNYAHVPWLFKAQR-KIDEADLPSPEEKLAILQQTIETL  275 (453)
T ss_pred             HHcCCCcEEEEEEccCCCCCHHHHHHHHHHHHhcCCCEEEEccCccchhhhhHhc-CCCcccCCCHHHHHHHHHHHHHHH
Confidence            9999988999999999999999999999999999999999999996665432211 123456789999999999999999


Q ss_pred             HHCCCceeccccccCCCcc---hhhhhhhhc---------CCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCC
Q 012112          289 SSAGYRHYEISSYGEDGYE---CKHNLTYWK---------NKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGL  356 (471)
Q Consensus       289 ~~~Gy~~yeis~fa~~g~~---~~hn~~yw~---------~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~  356 (471)
                      .++||.|||++||+|+|++   |+||..||+         +.||+|||+||+|++++.+|.|++++.+|++   .+++|.
T Consensus       276 ~~~Gy~~ye~s~far~~~~~~~~~~n~~~~~~~~~y~~~~~~~~iglG~gA~s~~~~~~~~n~~~l~~Y~~---~i~~~~  352 (453)
T PRK09249        276 TEAGYQYIGMDHFALPDDELAIAQREGTLHRNFQGYTTDGDCDLIGLGVSAISRIGDGYAQNEKDLKAYYA---AVDAGR  352 (453)
T ss_pred             HHCCCEEEeccceeCCCchHHHHHHhCccccccceeccCCCCeEEEECcCcccCCCCeeeECCCCHHHHHH---HHHCCC
Confidence            9999999999999999986   999976665         3699999999999999999999999998875   456788


Q ss_pred             CcccccccCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHH---HHHHHHCCCEEEecCcccchhhhhhhhh
Q 012112          357 VDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKA---YKPYIESGHVICLDEWRRAMNIEEFNSL  433 (471)
Q Consensus       357 ~~~~~~~~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~---~~~~~~~gll~~~~~~~~~l~~~~~~~~  433 (471)
                      +|+...+.++.++++.+.+|++||+..|||++.|+++||.++.+.+.+.   ++.|++.||+..++ +            
T Consensus       353 ~p~~~~~~ls~~~~~~~~~~~~Lr~~~gl~~~~~~~~fg~~~~~~~~~~~~~l~~l~~~gll~~~~-~------------  419 (453)
T PRK09249        353 LPTARGHALTADDRLRRDVIEQLMCNFELDFAAIEAAFGIDFAEYFAEELERLAPLEADGLVELDE-N------------  419 (453)
T ss_pred             CCeeecccCCHHHHHHHHHHHHHhhcCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCEEEEC-C------------
Confidence            8887777899999999999999999999999999999999988877644   68999999998654 2            


Q ss_pred             hhhhhhcccccceeeecCchhhchHHHHHHHHHhccc
Q 012112          434 LLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVID  470 (471)
Q Consensus       434 ~~~~~~~~~~~~~~~lt~~~G~~~~n~i~~~~~~~~~  470 (471)
                                  +++|| ++|++++|.|+..|..+++
T Consensus       420 ------------~~~lT-~~G~~~~d~i~~~f~~~~~  443 (453)
T PRK09249        420 ------------GITVT-PKGRLLVRNIAMAFDAYLR  443 (453)
T ss_pred             ------------EEEEC-ccchHHHHHHHHHHHHHhc
Confidence                        47997 9999999999999987665

>TIGR00538 hemN oxygen-independent coproporphyrinogen III oxidase

Probab=100.00  E-value=5.3e-74  Score=603.88  Aligned_cols=380  Identities=23%  Similarity=0.414  Sum_probs=340.1

Q ss_pred             CCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           50 QLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        50 ~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      +..+++||||||||+++|.||+|++...+        ......+|+++|++||+...........+++||||||||++++
T Consensus        46 ~~~~~~lYiHiPFC~~~C~yC~~~~~~~~--------~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~I~fgGGtP~~l~  117 (455)
T TIGR00538        46 PKTPLSLYVHIPFCHKACYFCGCNVIITR--------QKHKADPYLDALEKEIALVAPLFDGNRHVSQLHWGGGTPTYLS  117 (455)
T ss_pred             CCCceEEEEEeCCccCcCCCCCCCccCCC--------CcchHHHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCcCCCC
Confidence            45668999999999999999999876421        1235678999999999976544322357999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      ++++.+|++.+++.+++..++++++|+||++++++.++.|+++|++||||||||+++++|+.++|.|+.+++.++++.++
T Consensus       118 ~~~l~~ll~~i~~~~~~~~~~eitie~np~~l~~e~l~~lk~~G~~risiGvqS~~~~~l~~l~r~~~~~~~~~ai~~l~  197 (455)
T TIGR00538       118 PEQISRLMKLIRENFPFNADAEISIEIDPRYITKDVIDALRDEGFNRLSFGVQDFNKEVQQAVNRIQPEEMIFELMNHAR  197 (455)
T ss_pred             HHHHHHHHHHHHHhCCCCCCCeEEEEeccCcCCHHHHHHHHHcCCCEEEEcCCCCCHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            99999999999999988888999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCC-hhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          210 LCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGT-KFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       210 ~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT-~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      ++|+.+|++|+|+|+||||.++|.++++.+.+++|+||++|.|++.|++ +..+.  .+...+|++++..+||..+.+.|
T Consensus       198 ~~G~~~v~~dli~GlPgqt~e~~~~tl~~~~~l~~~~is~y~L~~~p~~~~~~~~--~~~~~~~~~e~~~~~~~~~~~~L  275 (455)
T TIGR00538       198 EAGFTSINIDLIYGLPKQTKESFAKTLEKVAELNPDRLAVFNYAHVPWVKPAQRK--IPEAALPSAEEKLDILQETIAFL  275 (455)
T ss_pred             hcCCCcEEEeEEeeCCCCCHHHHHHHHHHHHhcCCCEEEEecCccccchhHHHhc--ccccCCCCHHHHHHHHHHHHHHH
Confidence            9999889999999999999999999999999999999999999998875 33322  34556789999999999999999


Q ss_pred             HHCCCceeccccccCCCcch----------hhhhhhhc--CCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCC
Q 012112          289 SSAGYRHYEISSYGEDGYEC----------KHNLTYWK--NKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGL  356 (471)
Q Consensus       289 ~~~Gy~~yeis~fa~~g~~~----------~hn~~yw~--~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~  356 (471)
                      .++||.+||++||||||++|          +||..||.  +.+|+|||+||+|++++.+|+|+.++.+|++   .+++|.
T Consensus       276 ~~~Gy~~~~~~~fa~~~~~~~~~~~~~~l~~~~~~y~~~~~~~~lG~G~gA~s~~~~~~~~n~~~~~~Y~~---~~~~~~  352 (455)
T TIGR00538       276 TEAGYQFIGMDHFAKPDDELAVAQRKGELHRNFQGYTTQKDTDLLGFGVTSISMLGDCYAQNQKTLKQYYK---AVDEGG  352 (455)
T ss_pred             HHCCCEEEeccceeCCChHHHHHHhhCcceeccccccCCCCCcEEEeCcceeeCCCCeeEECCCCHHHHHH---HHHCCC
Confidence            99999999999999999986          67789999  7799999999999999999999999998875   456788


Q ss_pred             CcccccccCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHH---HHHHHHCCCEEEecCcccchhhhhhhhh
Q 012112          357 VDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKA---YKPYIESGHVICLDEWRRAMNIEEFNSL  433 (471)
Q Consensus       357 ~~~~~~~~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~---~~~~~~~gll~~~~~~~~~l~~~~~~~~  433 (471)
                      +|+...+.++.++++.+.+|++||+..|||++.|+++||.++.+.+...   +++|++.||+..++ +            
T Consensus       353 ~pv~~~~~ls~~~~~~~~~~~~l~~~~gl~~~~~~~~~g~~~~~~~~~~~~~l~~l~~~gll~~~~-~------------  419 (455)
T TIGR00538       353 NPVERGIALSQDDCIRREVIKSLMCNFKLDYSKIEEKFDLDFADYFAKELELLKPLEEDGLLDVDE-K------------  419 (455)
T ss_pred             CCeeecccCCHHHHHHHHHHHHHHhcCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCCEEEEC-C------------
Confidence            8887778899999999999999999999999999999999998877754   67889999998644 2            


Q ss_pred             hhhhhhcccccceeeecCchhhchHHHHHHHHHhc
Q 012112          434 LLDETKIGNRLAYFRLSDPEGFLLSNELISHAFGV  468 (471)
Q Consensus       434 ~~~~~~~~~~~~~~~lt~~~G~~~~n~i~~~~~~~  468 (471)
                                  +++|| ++|++++|.|+..|-..
T Consensus       420 ------------~~~lT-~~G~~~~~~i~~~f~~~  441 (455)
T TIGR00538       420 ------------GIEVT-PKGRLLIRNIAMVFDTY  441 (455)
T ss_pred             ------------EEEEC-cCChHHHHHHHHHHHHH
Confidence                        58997 99999999999988654

This model represents HemN, the oxygen-independent coproporphyrinogen III oxidase that replaces HemF function under anaerobic conditions. Several species, including E. coli, Helicobacter pylori, and Aquifex aeolicus, have both a member of this family and a member of another, closely related family for which there is no evidence of coproporphyrinogen III oxidase activity. Members of this family have a perfectly conserved motif PYRT[SC]YP in a region N-terminal to the region of homology with the related uncharacterized protein.

>PRK08629 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=7.7e-74  Score=596.00  Aligned_cols=366  Identities=22%  Similarity=0.387  Sum_probs=323.7

Q ss_pred             CCCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC
Q 012112           49 PQLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV  128 (471)
Q Consensus        49 ~~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l  128 (471)
                      ....+++||||||||+++|.||+|++...         ......+|+++|++||+.....   +..+++|||||||||++
T Consensus        48 ~~~~~~~LYvHIPFC~~~C~yC~f~~~~~---------~~~~~~~Y~~~L~~Ei~~~~~~---~~~~~siy~GGGTPs~l  115 (433)
T PRK08629         48 VEGKKYMLYAHVPFCHTLCPYCSFHRFYF---------KEDKARAYFISLRKEMEMVKEL---GYDFESMYVGGGTTTIL  115 (433)
T ss_pred             CCCCcEEEEEEeCCccCcCCCCCCcCcCC---------CcchHHHHHHHHHHHHHHHHhc---CCceEEEEECCCccccC
Confidence            34677899999999999999999987532         1234678999999999976543   35699999999999997


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHH
Q 012112          129 PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIV  208 (471)
Q Consensus       129 ~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~  208 (471)
                       ++++.++++.+++.|++   .|||+|+||++++++.++.|+++ |||||||||||||++|+.|||.|+..+..++++.+
T Consensus       116 -~~~L~~ll~~i~~~f~i---~eis~E~~P~~lt~e~L~~l~~~-vnrlsiGVQS~~d~vLk~~gR~h~~~~~~~~~~~l  190 (433)
T PRK08629        116 -EDELAKTLELAKKLFSI---KEVSCESDPNHLDPPKLKQLKGL-IDRLSIGVQSFNDDILKMVDRYEKFGSGQETFEKI  190 (433)
T ss_pred             -HHHHHHHHHHHHHhCCC---ceEEEEeCcccCCHHHHHHHHHh-CCeEEEecCcCCHHHHHHcCCCCChhHHHHHHHHH
Confidence             78999999999999865   49999999999999999999999 99999999999999999999999876665555555


Q ss_pred             HHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHH
Q 012112          209 KLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASS  286 (471)
Q Consensus       209 ~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~  286 (471)
                      +++  .+.++++|||+|+||||.++|.++++.+.+++|+||++|+|+++|+|+..   .+++..+|+++..++||..+.+
T Consensus       191 ~~~~~~~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~~is~y~L~~~~~t~~~---~~~~~~~p~~d~~~~~~~~~~~  267 (433)
T PRK08629        191 MKAKGLFPIINVDLIFNFPGQTDEVLQHDLDIAKRLDPRQITTYPLMKSHQTRKS---VKGSLGASQKDNERQYYQIINE  267 (433)
T ss_pred             HHHhccCCeEEEEEEccCCCCCHHHHHHHHHHHHhCCCCEEEEccceeccCchhh---hcCCCCCcCHHHHHHHHHHHHH
Confidence            544  26789999999999999999999999999999999999999999999743   3466778899999999999999


Q ss_pred             HHHHCCCceeccccccCCCcchhhhhhh-hcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCCcccccccC
Q 012112          287 MLSSAGYRHYEISSYGEDGYECKHNLTY-WKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLVDCWGNNHI  365 (471)
Q Consensus       287 ~L~~~Gy~~yeis~fa~~g~~~~hn~~y-w~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~~~~~~~~l  365 (471)
                      .|.  ||.||++++|++++.  .||..| |++.||+|||+||+|++++.+|.|+.++++|.+   .+++|..|+...+.+
T Consensus       268 ~l~--Gy~~~s~~~f~~~~~--~~~~~y~~~~~~ylGlG~gA~s~~~~~~~~N~~~l~~Y~~---~i~~g~~pv~~~~~l  340 (433)
T PRK08629        268 LFG--QYNQLSAWAFSKKND--EGFDEYVIDYDEYLGVGSGSFSFLDGTLYVNTFSLRDYQE---RIAAGQMGVIAQKNF  340 (433)
T ss_pred             HHC--CCeEecccccCCCCc--hhhceeeccCCeEEEEcCCeeEecCCeEEEcCCCHHHHHH---HHHcCCCCeeeeeeC
Confidence            888  999999999999875  578888 778999999999999999999999999998864   566788888777789


Q ss_pred             CHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccc
Q 012112          366 DAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLA  445 (471)
Q Consensus       366 ~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  445 (471)
                      +.++++.+.+|++|| ..|||++.|+++||.++.+.+...++.|++.|++..++ +                        
T Consensus       341 s~~e~~~~~~~~~L~-~~gld~~~f~~~~g~~~~~~~~~~l~~l~~~Gll~~~~-~------------------------  394 (433)
T PRK08629        341 SKKEVMQYRFLLGMF-SGRLSIKYFRETFGVNLDKALFKEMLLLKLIGAIKNDP-G------------------------  394 (433)
T ss_pred             CHHHHHHHHHHHHHH-hCCcCHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEEEC-C------------------------
Confidence            999999999999998 67999999999999999999999999999999998643 2                        


Q ss_pred             eeeecCchhhchHHHHHHHHHhc
Q 012112          446 YFRLSDPEGFLLSNELISHAFGV  468 (471)
Q Consensus       446 ~~~lt~~~G~~~~n~i~~~~~~~  468 (471)
                      +|+|| ++|++++|.|+.+|+..
T Consensus       395 ~l~lT-~~G~~~~d~i~~~f~~g  416 (433)
T PRK08629        395 DLIVT-DFGKYLGVVMMKEFYTG  416 (433)
T ss_pred             EEEEC-cchhHHHHHHHHHHHhC
Confidence            47997 99999999999999853

>PRK08207 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=3.7e-64  Score=528.70  Aligned_cols=292  Identities=26%  Similarity=0.485  Sum_probs=265.5

Q ss_pred             CCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCC-CCCCeeEEEEcCCCCCCCC
Q 012112           51 LSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHK-TSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        51 ~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~-~~~~v~~i~fGGGTps~l~  129 (471)
                      ..+++||||||||+.+|.||+|++....       .......+|+++|++||+....... .+..+.+|||||||||+++
T Consensus       161 ~~~~sLYihIPFC~~~C~YCsf~s~~~~-------~~~~~~~~Y~~aL~~EI~~~~~~~~~~~~~v~tIyfGGGTPt~L~  233 (488)
T PRK08207        161 KNEVSIYIGIPFCPTRCLYCSFPSYPIK-------GYKGLVEPYLEALHYEIEEIGKYLKEKGLKITTIYFGGGTPTSLT  233 (488)
T ss_pred             CCceEEEEecCCCCCcCCCCCCccccCC-------CCcchHHHHHHHHHHHHHHHHhhhcccCCceeEEEEeCCCccCCC
Confidence            5678999999999999999999876321       1234567899999999997654321 1346999999999999999


Q ss_pred             HHHHHHHHHHHHHHc-CCCCCcEEEEEe-cCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKF-GLSLDAEISMEM-DPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEI  207 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~-~l~~~~eitiE~-~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~  207 (471)
                      ++++.+|++.+++.| ++....|+|+|+ +|+++|+++++.|+++|++|||||+||+++++|+.+||.|+.+++.++++.
T Consensus       234 ~~~L~~Ll~~i~~~f~~~~~~~EiTvE~grPd~it~e~L~~Lk~~Gv~RISIGvQS~~d~vLk~igR~ht~e~v~~ai~~  313 (488)
T PRK08207        234 AEELERLLEEIYENFPDVKNVKEFTVEAGRPDTITEEKLEVLKKYGVDRISINPQTMNDETLKAIGRHHTVEDIIEKFHL  313 (488)
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCHHHHHHHHhcCCCeEEEcCCcCCHHHHHHhCCCCCHHHHHHHHHH
Confidence            999999999999988 666667999998 999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHH
Q 012112          208 VKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSM  287 (471)
Q Consensus       208 ~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~  287 (471)
                      ++++||.+|++|||+|+||||.++|.++++.+.+++|+||++|.|+++|||++++..  ++..+|++++..+||..+.+.
T Consensus       314 ar~~Gf~~In~DLI~GLPgEt~ed~~~tl~~l~~L~pd~isv~~L~i~~gT~l~~~~--~~~~~~~~~~~~~m~~~a~~~  391 (488)
T PRK08207        314 AREMGFDNINMDLIIGLPGEGLEEVKHTLEEIEKLNPESLTVHTLAIKRASRLTENK--EKYKVADREEIEKMMEEAEEW  391 (488)
T ss_pred             HHhCCCCeEEEEEEeCCCCCCHHHHHHHHHHHHhcCcCEEEEEeceEcCCChHHHhc--CcCCCcCHHHHHHHHHHHHHH
Confidence            999999889999999999999999999999999999999999999999999999876  556689999999999999999


Q ss_pred             HHHCCCcee------------ccccccCCCcchhhhhhhhc-CCCEEEEccCcccccC------CeEEEcCCChHHHHHH
Q 012112          288 LSSAGYRHY------------EISSYGEDGYECKHNLTYWK-NKPFYGFGLGSASYLG------GLRFSRPRRMKEFVDY  348 (471)
Q Consensus       288 L~~~Gy~~y------------eis~fa~~g~~~~hn~~yw~-~~~ylG~G~gA~s~~~------~~r~~n~~~~~~y~~~  348 (471)
                      |.++||.+|            |+++||+||++|+||..||. ..+|+|+|+||+|++.      ..|+.|++++.+|++.
T Consensus       392 l~~~Gy~~Yylyrqk~~~~n~E~~~ya~~g~~~~~N~~~w~~~~~~iglG~gA~s~~~~~~~~~~~r~~N~k~~~~Y~~~  471 (488)
T PRK08207        392 AKELGYVPYYLYRQKNMLGNLENVGYAKPGKESIYNIQIMEEKQTIIGLGAGAVSKFVFPDENRIERFANPKDPKEYIER  471 (488)
T ss_pred             HHHcCCHhhhhhhccccccccceecccCCCcchhhHHHHHccCCeEEEEcCCcccCCCCCCCCcceEEecCCCHHHHHHH
Confidence            999999999            99999999999999999997 6799999999999983      4689999999999876


Q ss_pred             HHH
Q 012112          349 VQN  351 (471)
Q Consensus       349 ~~~  351 (471)
                      ++.
T Consensus       472 i~~  474 (488)
T PRK08207        472 IDE  474 (488)
T ss_pred             HHH
Confidence            654

>TIGR01211 ELP3 histone acetyltransferase, ELP3 family

Probab=100.00  E-value=3.6e-33  Score=294.30  Aligned_cols=226  Identities=19%  Similarity=0.338  Sum_probs=179.8

Q ss_pred             cC-CCc-CCcCCCCCc-------ccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHH
Q 012112           61 PF-CRK-RCHYCDFPI-------VALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPR  131 (471)
Q Consensus        61 PF-C~~-~C~yC~f~~-------~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~  131 (471)
                      || ||+ +|.||.-..       ...|.....++........|.+.. .+++.+...+.....++.+ |+||||+.++.+
T Consensus        75 p~~cph~~c~~cp~~~~~~~~~~sy~~~ep~~~ra~~~~~dpy~q~~-~rl~~l~~~g~~~~kvE~i-~~GGTft~l~~~  152 (522)
T TIGR01211        75 PHRCPHGKCLYCPGGPDSENSPQSYTGYEPAAMRGRQNDYDPYEQVT-ARLEQLEQIGHPVDKVELI-IMGGTFPARDLD  152 (522)
T ss_pred             CccCCCCceEeCCCCCCcCCCCcccCCCCcHhHHHHHcCCCcHHHHH-HHHHHHHHhCCCCceEEEE-EECCCcccCCHH
Confidence            56 995 899996411       111111111111112224455544 3333333222212245555 778999999999


Q ss_pred             HHHHHHHHHHHHcCC----------------------CCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHH
Q 012112          132 FVSSILDTLTDKFGL----------------------SLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELL  189 (471)
Q Consensus       132 ~l~~ll~~l~~~~~l----------------------~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L  189 (471)
                      +.+.+++.+.+.++-                      .....+|+|++|+.++++.|+.|+++|++||++||||+||++|
T Consensus       153 y~~~fl~~~~~a~~~~~~~~~~~~~~~~~~~~ne~a~~~~vgitiEtRPD~i~~e~L~~L~~~G~~rVslGVQS~~d~VL  232 (522)
T TIGR01211       153 YQEWFIKRCLNAMNGFDQELKGNSTLEEAIRINETSKHRCVGLTIETRPDYCREEHIDRMLKLGATRVELGVQTIYNDIL  232 (522)
T ss_pred             HHHHHHHHHHHHhccccccccccchHHHHHHhhhcccCCeEEEEEEEcCCcCCHHHHHHHHHcCCCEEEEECccCCHHHH
Confidence            999999998887632                      1247999999999999999999999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHh---CCCCcEEEEeccccCCChhhhcccC
Q 012112          190 KSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVG---AQPKHVSVYDLQVEQGTKFGILYTP  266 (471)
Q Consensus       190 ~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~---l~p~his~y~l~~~pgT~l~~~~~~  266 (471)
                      +.+||+|+.+++.++++.++++||. |++|||+||||||.+++.++++.+.+   ++|++|++|++.+.+||++++++++
T Consensus       233 ~~inRght~~~v~~Ai~~lr~~G~~-v~~~LM~GLPgqt~e~~~~t~~~l~~~~~l~pD~Ikiypl~V~~gT~L~~~~~~  311 (522)
T TIGR01211       233 ERTKRGHTVRDVVEATRLLRDAGLK-VVYHIMPGLPGSSFERDLEMFREIFEDPRFKPDMLKIYPTLVTRGTELYELWKR  311 (522)
T ss_pred             HHhCCCCCHHHHHHHHHHHHHcCCe-EEEEeecCCCCCCHHHHHHHHHHHHhccCCCcCEEEEecceeeCCCHHHHHHHc
Confidence            9999999999999999999999996 99999999999999999999999985   9999999999999999999999999


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHH
Q 012112          267 GEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       267 g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      |.+.++++++..+++..+...+.
T Consensus       312 G~y~p~t~ee~v~l~~~~~~~lp  334 (522)
T TIGR01211       312 GEYKPYTTEEAVELIVEIKRMMP  334 (522)
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCC
Confidence            99999998888887777766664

The Saccharomyces cerevisiae member YPL086C has been characterized in vitro as an N-terminal acetyltransferase for all four core histones. It is a component of the RNA polymerase II holoenzyme, designated Elp3p for Elongator Protein 3. Members of this family are found in eukaryotes and archaea. These proteins are part of the larger set of GNAT acetyltransferases.

>TIGR01212 radical SAM protein, TIGR01212 family

Probab=100.00  E-value=7.8e-33  Score=276.23  Aligned_cols=166  Identities=18%  Similarity=0.249  Sum_probs=151.0

Q ss_pred             CeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHH---CCC-CEEEEccCCCCHHHH
Q 012112          114 PLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMD---LGV-NRVSLGVQAFQDELL  189 (471)
Q Consensus       114 ~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~---~Gv-nrvsiGvQS~~d~~L  189 (471)
                      ...++|||||||++++.+.+.++++.+.+ +  ....+|+++++|+.++++.++.|++   +|+ ++|++|+||+++++|
T Consensus        77 ~~~~iyf~ggt~t~l~~~~L~~l~~~i~~-~--~~~~~isi~trpd~l~~e~l~~L~~l~~~G~~~~i~lGlQS~~d~~L  153 (302)
T TIGR01212        77 KKFIAYFQAYTNTYAPVEVLKEMYEQALS-Y--DDVVGLSVGTRPDCVPDEVLDLLAEYVERGYEVWVELGLQTAHDKTL  153 (302)
T ss_pred             CEEEEEEECCCcCCCCHHHHHHHHHHHhC-C--CCEEEEEEEecCCcCCHHHHHHHHHhhhCCceEEEEEccCcCCHHHH
Confidence            35679999999999999999999999986 2  4567999999999999987777664   599 689999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCC
Q 012112          190 KSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEF  269 (471)
Q Consensus       190 ~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~  269 (471)
                      +.|+|+|+.+++.++++.++++|+. +++|+|+|+||||.+++.++++++.+++|++|++|+|++.|||++++.+.+|.+
T Consensus       154 ~~i~Rg~t~~~~~~ai~~l~~~gi~-v~~~lI~GlPget~e~~~~t~~~l~~l~~d~i~i~~l~~~pgT~L~~~~~~g~~  232 (302)
T TIGR01212       154 KKINRGHDFACYVDAVKRARKRGIK-VCSHVILGLPGEDREEMMETAKIVSLLDVDGIKIHPLHVVKGTKMAKMYEKGEL  232 (302)
T ss_pred             HHHcCcChHHHHHHHHHHHHHcCCE-EEEeEEECCCCCCHHHHHHHHHHHHhcCCCEEEEEEEEecCCCHHHHHHHcCCC
Confidence            9999999999999999999999997 999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHH
Q 012112          270 PLPTETQSANFYRM  283 (471)
Q Consensus       270 ~~p~~~~~~~~~~~  283 (471)
                      .+++.++..+.-..
T Consensus       233 ~~~~~~e~~~~~~~  246 (302)
T TIGR01212       233 KTLSLEEYISLACD  246 (302)
T ss_pred             CCCCHHHHHHHHHH
Confidence            98887764444333

This uncharacterized protein family shows significant similarity to TIGR01211, a longer protein that is a histone acetyltransferase at its C-terminus and is a subunit of RNA polymerase II (in yeast). This family lacks the GNAT acetyltransferase domain.

>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase

Probab=99.97  E-value=5.2e-30  Score=272.71  Aligned_cols=221  Identities=14%  Similarity=0.144  Sum_probs=189.3

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTD  142 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~  142 (471)
                      ||++|+||..+...           ...+.+.++.+++||+.+.+..    .+..++|.+++|+. +.+.+.++++.|.+
T Consensus       203 Cp~~C~FC~~~~~~-----------~~~R~rs~e~Vv~Ei~~l~~~~----gv~~~~~~Dd~f~~-~~~~~~~l~~~l~~  266 (497)
T TIGR02026       203 CPFTCNFCSQWKFW-----------RRYRHRDPKKFVDEIEWLVRTH----GVGFFILADEEPTI-NRKKFQEFCEEIIA  266 (497)
T ss_pred             CCCCCCCCCCCCCC-----------ceeecCCHHHHHHHHHHHHHHc----CCCEEEEEeccccc-CHHHHHHHHHHHHh
Confidence            99999999876532           2355667889999999775433    37889999999975 88889999998876


Q ss_pred             HcCCCCCcEEEEEecCCCC--CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeee
Q 012112          143 KFGLSLDAEISMEMDPGTF--DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDL  220 (471)
Q Consensus       143 ~~~l~~~~eitiE~~P~~l--~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~Dl  220 (471)
                      .-+  ....|.++++++.+  +++.++.|+++|+++|++|+||+++++|+.|+|+++.+++.++++.++++|+. +++++
T Consensus       267 ~~~--l~i~w~~~~r~~~i~~d~ell~~l~~aG~~~v~iGiES~~~~~L~~~~K~~t~~~~~~ai~~l~~~Gi~-~~~~~  343 (497)
T TIGR02026       267 RNP--ISVTWGINTRVTDIVRDADILHLYRRAGLVHISLGTEAAAQATLDHFRKGTTTSTNKEAIRLLRQHNIL-SEAQF  343 (497)
T ss_pred             cCC--CCeEEEEecccccccCCHHHHHHHHHhCCcEEEEccccCCHHHHHHhcCCCCHHHHHHHHHHHHHCCCc-EEEEE
Confidence            521  23578888888877  89999999999999999999999999999999999999999999999999998 89999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q 012112          221 ISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISS  300 (471)
Q Consensus       221 I~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~yeis~  300 (471)
                      |+|+||||.++++++++++.+++|++++++.++|.|||++++...+....     ..++.|......++..|+.+||+++
T Consensus       344 I~G~P~et~e~~~~t~~~~~~l~~~~~~~~~~tP~PGT~l~~~~~~~~~~-----~d~~~y~~~~~~~~~~~m~~~El~~  418 (497)
T TIGR02026       344 ITGFENETDETFEETYRQLLDWDPDQANWLMYTPWPFTSLFGELSDRVEV-----QDYTKYNFVTPIMKPTHMPRWEILL  418 (497)
T ss_pred             EEECCCCCHHHHHHHHHHHHHcCCCceEEEEecCCCCcHHHHHHHhhccc-----CchhhccccceEeeCCCCCHHHHHH
Confidence            99999999999999999999999999999999999999999876553321     1355788888888899999999999


Q ss_pred             ccCCCcc
Q 012112          301 YGEDGYE  307 (471)
Q Consensus       301 fa~~g~~  307 (471)
                      +.+.-+.
T Consensus       419 ~~~~~~~  425 (497)
T TIGR02026       419 GVKLNYI  425 (497)
T ss_pred             HHHHHHH
Confidence            8875443

This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.

>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.96  E-value=2.5e-28  Score=256.05  Aligned_cols=193  Identities=21%  Similarity=0.319  Sum_probs=158.5

Q ss_pred             CCCCCeEEEEec-cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEE--------
Q 012112           49 PQLSPTSAYIHL-PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVF--------  119 (471)
Q Consensus        49 ~~~~~~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~--------  119 (471)
                      ++.++..+|+|| ++|+++|+||.++... |          ..+.++++.+++||+......     ++.|+        
T Consensus       133 ~~~~~~~~~l~isrGC~~~CsfC~~p~~~-g----------~~~sr~~e~Iv~Ei~~l~~~G-----~keI~l~g~~~~~  196 (440)
T PRK14334        133 PPQGKLSAHLTIMRGCNHHCTYCIVPTTR-G----------PEVSRHPDLILRELELLKAAG-----VQEVTLLGQNVNS  196 (440)
T ss_pred             ccCCCeEEEEEeccCCCCCCcCCCcchhc-C----------CCccCCHHHHHHHHHHHHHCC-----CeEEEEEeccccc
Confidence            345678999999 9999999999998652 1          124678999999999875432     34444        


Q ss_pred             EcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCC
Q 012112          120 FGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM-DPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAH  196 (471)
Q Consensus       120 fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~  196 (471)
                      +||++|+..   .+.+|++.+.+. ++   ..+.+.. +|..++++.++.|++.  |+++++||+||+|+++|+.|+|+|
T Consensus       197 yG~d~~~~~---~~~~Ll~~l~~~-~i---~~ir~~~~~p~~i~~ell~~l~~~~~g~~~l~igvQSgs~~vLk~m~R~~  269 (440)
T PRK14334        197 YGVDQPGFP---SFAELLRLVGAS-GI---PRVKFTTSHPMNFTDDVIAAMAETPAVCEYIHLPVQSGSDRVLRRMAREY  269 (440)
T ss_pred             cccCCCCcC---CHHHHHHHHHhc-CC---cEEEEccCCcccCCHHHHHHHHhcCcCCCeEEeccccCCHHHHHHhCCCC
Confidence            455666543   355666666543 32   1345543 8999999999999995  599999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcc
Q 012112          197 GLKEVYEAIEIVKLCGVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILY  264 (471)
Q Consensus       197 t~~~~~~ai~~~~~~G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~  264 (471)
                      +.+++.++++.++++|+. .+++|||+|+||||.++++++++++.+++++++.+|.+++.|||+++++.
T Consensus       270 ~~~~~~~~v~~lr~~~~~i~i~~d~IvG~PgEt~ed~~~tl~~i~~l~~~~i~~f~ysp~pGT~~~~~~  338 (440)
T PRK14334        270 RREKYLERIAEIREALPDVVLSTDIIVGFPGETEEDFQETLSLYDEVGYDSAYMFIYSPRPGTPSYKHF  338 (440)
T ss_pred             CHHHHHHHHHHHHHhCCCcEEEEeEEEECCCCCHHHHHHHHHHHHhcCCCEeeeeEeeCCCCChhHhcc
Confidence            999999999999999765 47899999999999999999999999999999999999999999998764

>TIGR01210 conserved hypothetical protein TIGR01210

Probab=99.95  E-value=2e-26  Score=231.06  Aligned_cols=204  Identities=21%  Similarity=0.284  Sum_probs=163.3

Q ss_pred             CCc----CCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCC--CeeEEEEcCC--CCCCCCHHHHH
Q 012112           63 CRK----RCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSP--PLETVFFGGG--TPSLVPPRFVS  134 (471)
Q Consensus        63 C~~----~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~--~v~~i~fGGG--Tps~l~~~~l~  134 (471)
                      |++    .|.||+++.....             .+..+.+.++|+.....+....  -+..+|.+|.  .|+.++++.+.
T Consensus        25 C~~~~~g~C~FC~~~~~~~r-------------~~s~e~i~~~i~~~~~~~~~~~~~~~ikif~sgsf~D~~~~~~~~~~   91 (313)
T TIGR01210        25 CYWAREGGCYMCGYLADSSP-------------EVTEENLINQFDEAIEKYKEKIKDFVIKIFTSGSFLDDREVPKETRN   91 (313)
T ss_pred             CCCCCCCcCccCCCCCCCCC-------------CCChhHHHHHHHHHHHHhhcccccEEEEEecCCCcCCcCcCCHHHHH
Confidence            999    5999986543210             1233444445543332221000  0235566655  67888999999


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCC-EEEEccCCCCHHHHH-HcCCCCCHHHHHHHHHHHHHcC
Q 012112          135 SILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN-RVSLGVQAFQDELLK-SCGRAHGLKEVYEAIEIVKLCG  212 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvn-rvsiGvQS~~d~~L~-~l~R~~t~~~~~~ai~~~~~~G  212 (471)
                      +|++.+++..   ...+|++|++|+.++++.|+.|+++|++ +|++|+||+++++|+ .+||+|+.+++.++++.++++|
T Consensus        92 ~i~~~l~~~~---~~~~i~~esrpd~i~~e~L~~l~~aG~~~~v~iG~ES~~d~~L~~~inKg~t~~~~~~ai~~~~~~G  168 (313)
T TIGR01210        92 YIFEKIAQRD---NLKEVVVESRPEFIDEEKLEELRKIGVNVEVAVGLETANDRIREKSINKGSTFEDFIRAAELARKYG  168 (313)
T ss_pred             HHHHHHHhcC---CcceEEEEeCCCcCCHHHHHHHHHcCCCEEEEEecCcCCHHHHHHhhCCCCCHHHHHHHHHHHHHcC
Confidence            9999998742   2358999999999999999999999999 899999999999995 8999999999999999999999


Q ss_pred             CCeeEeeeecCCCC----CCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHH
Q 012112          213 VENWSLDLISSLPH----QTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMA  284 (471)
Q Consensus       213 ~~~v~~DlI~GlPg----qT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~  284 (471)
                      +. +++++|+|+|+    ||.+++.++++.+.+++ +||++|++++.|||++++++++|.+.+|......+....+
T Consensus       169 i~-v~~~~i~G~P~~se~ea~ed~~~ti~~~~~l~-~~vs~~~l~v~~gT~l~~~~~~G~~~pp~lws~~e~l~e~  242 (313)
T TIGR01210       169 AG-VKAYLLFKPPFLSEKEAIADMISSIRKCIPVT-DTVSINPTNVQKGTLVEFLWNRGLYRPPWLWSVAEVLKEA  242 (313)
T ss_pred             Cc-EEEEEEecCCCCChhhhHHHHHHHHHHHHhcC-CcEEEECCEEeCCCHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            98 99999999995    77789999999999999 9999999999999999999999999998765555555443

This family of exclusively archaeal proteins has no characterized close homologs. Several rounds of PSI-BLAST with a stringent cutoff of 1e-8 shows apparent similarity of the central region of this family to the central regions of the oxygen-independent coproporphyrinogen III dehydrogenase HemN and to other enzymes.

>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ

Probab=99.95  E-value=2.7e-27  Score=250.83  Aligned_cols=184  Identities=15%  Similarity=0.195  Sum_probs=160.3

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTD  142 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~  142 (471)
                      ||++|+||+++....+         ...+.++++.+++||+...+.+   ..++.++|+|++++. +.+.+.++++.+++
T Consensus       206 Cp~~C~FC~~~~~~~g---------~~~r~rs~e~V~~Ei~~~~~~~---~~~~~i~f~Dd~f~~-~~~~~~~l~~~l~~  272 (472)
T TIGR03471       206 CPSKCTFCLWPQTVGG---------HRYRTRSAESVIEEVKYALENF---PEVREFFFDDDTFTD-DKPRAEEIARKLGP  272 (472)
T ss_pred             CCCCCCCCCCCccCCC---------CceEeCCHHHHHHHHHHHHHhc---CCCcEEEEeCCCCCC-CHHHHHHHHHHHhh
Confidence            9999999987643222         2456678999999999776532   247899999999875 77889999998875


Q ss_pred             HcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeec
Q 012112          143 KFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLIS  222 (471)
Q Consensus       143 ~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~  222 (471)
                      .     +..|.++++. +++++.++.|+++|+++|++|+||+++++|+.++|+++.+++.++++.++++|+. +++++|+
T Consensus       273 ~-----~i~~~~~~~~-~~~~e~l~~l~~aG~~~v~iGiES~s~~~L~~~~K~~~~~~~~~~i~~~~~~Gi~-v~~~~Ii  345 (472)
T TIGR03471       273 L-----GVTWSCNARA-NVDYETLKVMKENGLRLLLVGYESGDQQILKNIKKGLTVEIARRFTRDCHKLGIK-VHGTFIL  345 (472)
T ss_pred             c-----CceEEEEecC-CCCHHHHHHHHHcCCCEEEEcCCCCCHHHHHHhcCCCCHHHHHHHHHHHHHCCCe-EEEEEEE
Confidence            3     2467777765 4899999999999999999999999999999999999999999999999999997 9999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccC
Q 012112          223 SLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTP  266 (471)
Q Consensus       223 GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~  266 (471)
                      |+||||.+++.++++++.++++++++++.+++.|||++++...+
T Consensus       346 GlPget~e~~~~ti~~~~~l~~~~~~~~~l~P~PGT~l~~~~~~  389 (472)
T TIGR03471       346 GLPGETRETIRKTIDFAKELNPHTIQVSLAAPYPGTELYDQAKQ  389 (472)
T ss_pred             eCCCCCHHHHHHHHHHHHhcCCCceeeeecccCCCcHHHHHHHH
Confidence            99999999999999999999999999999999999999876543

One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.

>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=6.9e-27  Score=245.75  Aligned_cols=190  Identities=19%  Similarity=0.300  Sum_probs=157.7

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEE------------
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFF------------  120 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~f------------  120 (471)
                      ...||+|++ |+++|+||.++...+           ..+.++++.+++||+.+....     +..+.|            
T Consensus       148 ~~a~i~i~~GC~~~CsFC~ip~~rG-----------~~rsr~~e~V~~Ei~~l~~~g-----~kei~l~~~~~~~yg~d~  211 (448)
T PRK14333        148 ITAWVNVIYGCNERCTYCVVPSVRG-----------KEQSRTPEAIRAEIEELAAQG-----YKEITLLGQNIDAYGRDL  211 (448)
T ss_pred             eeEEEEhhcCCCCCCCCCceecccC-----------CCcccCHHHHHHHHHHHHHCC-----CcEEEEEecccchhcCCC
Confidence            468999999 999999999886532           124567899999999765432     344433            


Q ss_pred             cCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEE-EecCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCCC
Q 012112          121 GGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISM-EMDPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAHG  197 (471)
Q Consensus       121 GGGTps~l~~~~l~~ll~~l~~~~~l~~~~eiti-E~~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~t  197 (471)
                      +|++|+......+.++++.+.+..++   ..+++ ..+|+.++++.++.|+++  |+++++||+||+++++|+.|+|+++
T Consensus       212 ~~~~p~~~~~~~l~~Ll~~i~~~~~~---~rir~~~~~p~~~~~eli~~~~~~~~~~~~l~igiQSgsd~vLk~m~R~~t  288 (448)
T PRK14333        212 PGTTPEGRHQHTLTDLLYYIHDVEGI---ERIRFATSHPRYFTERLIKACAELPKVCEHFHIPFQSGDNEILKAMARGYT  288 (448)
T ss_pred             CCccccccccccHHHHHHHHHhcCCC---eEEEECCCChhhhhHHHHHHHhcCCcccccccCCCccCCHHHHHhcCCCCC
Confidence            24455443345788888888764332   35666 458999999999999996  5999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          198 LKEVYEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       198 ~~~~~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      .+++.++++.++++  |+. ++.|+|+|+||||.++++++++++.++++++++++.|++.|||+++++
T Consensus       289 ~e~~~~~i~~lr~~~p~i~-i~~d~IvGfPgET~edf~~tl~~l~~~~~~~~~~~~~sp~pGT~~~~~  355 (448)
T PRK14333        289 HEKYRRIIDKIREYMPDAS-ISADAIVGFPGETEAQFENTLKLVEEIGFDQLNTAAYSPRPGTPAALW  355 (448)
T ss_pred             HHHHHHHHHHHHHhCCCcE-EEeeEEEECCCCCHHHHHHHHHHHHHcCCCEEeeeeeecCCCCchhhC
Confidence            99999999999999  664 899999999999999999999999999999999999999999999876

>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=6.7e-26  Score=239.67  Aligned_cols=193  Identities=20%  Similarity=0.284  Sum_probs=159.1

Q ss_pred             CCCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           51 LSPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        51 ~~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      ......||.|.. |+++|+||..+...+           ..+.+.++.+++||+.+...     .++.|.|-|.+.+...
T Consensus       209 ~~~~~a~v~I~~GC~~~CsFC~vp~~rG-----------~~Rsr~~e~Ii~Ei~~l~~~-----G~keI~L~g~n~~~yg  272 (509)
T PRK14327        209 EGNIKAWVNIMYGCDKFCTYCIVPYTRG-----------KERSRRPEDIIQEVRHLARQ-----GYKEITLLGQNVNAYG  272 (509)
T ss_pred             CCCeEEEEEecCCCCCCCcCCcccccCC-----------CCeeCCHHHHHHHHHHHHHC-----CCcEEEEEeeccccCc
Confidence            345789999999 999999999875432           23456688999999987643     2556666665543321


Q ss_pred             ------HHHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHH
Q 012112          130 ------PRFVSSILDTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKE  200 (471)
Q Consensus       130 ------~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~  200 (471)
                            ...+.+|++.|.+. ++   ..+.+. .+|..++++.++.|+++|  +++++||+||+|+++|+.|+|+++.++
T Consensus       273 ~d~~~~~~~l~~Ll~~I~~~-~i---~~ir~~s~~P~~i~deli~~m~~~g~~~~~l~lgvQSgsd~vLk~M~R~~t~e~  348 (509)
T PRK14327        273 KDFEDIEYGLGDLMDEIRKI-DI---PRVRFTTSHPRDFDDHLIEVLAKGGNLVEHIHLPVQSGSTEVLKIMARKYTRES  348 (509)
T ss_pred             ccccccchHHHHHHHHHHhC-CC---ceEEEeecCcccCCHHHHHHHHhcCCccceEEeccCCCCHHHHHhcCCCCCHHH
Confidence                  23577888888764 33   134443 589999999999999999  789999999999999999999999999


Q ss_pred             HHHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcc
Q 012112          201 VYEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILY  264 (471)
Q Consensus       201 ~~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~  264 (471)
                      +.++++.++++  |+. +++|+|+|+||||.+++++|++++.+++++++.+|.+++.|||+++++.
T Consensus       349 ~~~~v~~lr~~~p~i~-i~tdiIvGfPgET~edf~~Tl~~v~~l~~d~~~~f~ysprpGT~a~~~~  413 (509)
T PRK14327        349 YLELVRKIKEAIPNVA-LTTDIIVGFPNETDEQFEETLSLYREVGFDHAYTFIYSPREGTPAAKMK  413 (509)
T ss_pred             HHHHHHHHHHhCCCcE-EeeeEEEeCCCCCHHHHHHHHHHHHHcCCCeEEEeeeeCCCCCchHhCc
Confidence            99999999998  554 7889999999999999999999999999999999999999999998753

>COG1243 ELP3 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]

Probab=99.94  E-value=6.1e-26  Score=227.54  Aligned_cols=172  Identities=23%  Similarity=0.363  Sum_probs=154.3

Q ss_pred             CCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcC----------------CCCCcEEEEEecCCCCCHHHHHHHHHCCCC
Q 012112          112 SPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFG----------------LSLDAEISMEMDPGTFDARKMEELMDLGVN  175 (471)
Q Consensus       112 ~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~----------------l~~~~eitiE~~P~~l~~e~l~~l~~~Gvn  175 (471)
                      ...++-+++| ||++-++.+.-+.++..+.+...                .....-+|+|++|+.++++.+..|.+.|++
T Consensus       132 ~~KvEliimG-GTFta~~~~yqe~Fi~~~~~amn~f~~~le~a~~~ne~~~~r~vgitiETRPD~~~ee~ld~mlkyG~T  210 (515)
T COG1243         132 SDKVELIIMG-GTFTALSLEYQEWFLKVALKAMNDFGYDLEEAQRKNETAELRCVGITIETRPDYIDEEHLDQMLKYGVT  210 (515)
T ss_pred             cceEEEEEec-ccccCCCHHHHHHHHHHHHHhhhccchhHHHHHHhhcccccceeEEEEecCccccCHHHHHHHHhcCCc
Confidence            3457888885 69999999888888877766544                333456999999999999999999999999


Q ss_pred             EEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCC---CCcEEEEec
Q 012112          176 RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQ---PKHVSVYDL  252 (471)
Q Consensus       176 rvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~---p~his~y~l  252 (471)
                      +|.+||||+.|++|+..+|+||.+++.+|.+.++++||+ |+..+|.||||-+.+.-.++...+.+.+   ||.+-+|+.
T Consensus       211 rVELGVQSiyd~Vl~~~~RGHtvedv~~a~rLlKd~GfK-v~~HiMpGLPgs~~erDl~~f~~~f~~p~f~PDmlKIYPt  289 (515)
T COG1243         211 RVELGVQSIYDDVLERTKRGHTVEDVVEATRLLKDAGFK-VGYHIMPGLPGSDFERDLESFREIFEDPRFRPDMLKIYPT  289 (515)
T ss_pred             EEEEeeeeHHHHHHHHhcCCccHHHHHHHHHHHHhcCcE-EEEEecCCCCCCChHHHHHHHHHHHhCCCCCCCeEEEeee
Confidence            999999999999999999999999999999999999998 9999999999999998888888888876   999999999


Q ss_pred             cccCCChhhhcccCCCCCCCCHHHHHHHHHHHH
Q 012112          253 QVEQGTKFGILYTPGEFPLPTETQSANFYRMAS  285 (471)
Q Consensus       253 ~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~  285 (471)
                      .+.+||++++++++|.+.+-+.++..++-..+.
T Consensus       290 LVi~gT~Ly~mwk~G~Ykpy~~EEaVeli~~i~  322 (515)
T COG1243         290 LVIEGTELYEMWKRGLYKPYTTEEAVELIVEIY  322 (515)
T ss_pred             EEECCchHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999988888776665

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=9.5e-26  Score=237.93  Aligned_cols=192  Identities=17%  Similarity=0.225  Sum_probs=154.3

Q ss_pred             CeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC-------
Q 012112           53 PTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT-------  124 (471)
Q Consensus        53 ~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT-------  124 (471)
                      ....||.|-- ||++|+||..+... |          ..+.+.++.+++||+.+....     +..|.|-|.+       
T Consensus       167 ~~~a~i~isrGCp~~CsFC~ip~~~-G----------~~rsrs~e~Vv~Ei~~l~~~g-----~~eI~l~~~~~~~y~~d  230 (467)
T PRK14329        167 GVSAFVSIMRGCDNMCTFCVVPFTR-G----------RERSRDPESILNEVRDLFAKG-----YKEVTLLGQNVDSYLWY  230 (467)
T ss_pred             CcEEEEEeccCcccCCCCCcccccc-C----------CcccCCHHHHHHHHHHHHHCC-----CeEEEEEeecccccccc
Confidence            3456777644 99999999987542 2          245677899999999775432     4444443322       


Q ss_pred             ---CCCCCHHHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCCCH
Q 012112          125 ---PSLVPPRFVSSILDTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAHGL  198 (471)
Q Consensus       125 ---ps~l~~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~t~  198 (471)
                         ++......+.+|++.+.+..+   ...+.+. .+|..++++.++.|+++  ||++|+||+||+|+++|+.|+|+++.
T Consensus       231 ~~~~~~~~~~~l~~Ll~~l~~~~~---~~~ir~~~~~p~~l~~ell~~m~~~~~g~~~i~iglQSgsd~vLk~m~R~~t~  307 (467)
T PRK14329        231 GGGLKKDEAVNFAQLLEMVAEAVP---DMRIRFSTSHPKDMTDDVLEVMAKYDNICKHIHLPVQSGSDRILKLMNRKYTR  307 (467)
T ss_pred             cCCccccccccHHHHHHHHHhcCC---CcEEEEecCCcccCCHHHHHHHHhCCCCCCeEEeCCCcCCHHHHHhcCCCCCH
Confidence               211123467888888776432   3356666 48999999999999997  89999999999999999999999999


Q ss_pred             HHHHHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcc
Q 012112          199 KEVYEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILY  264 (471)
Q Consensus       199 ~~~~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~  264 (471)
                      +++.++++.++++  ++. +++|+|+|+||||.++++++++++.+++++++.+|.|++.|||++++.+
T Consensus       308 ~~~~~~i~~ir~~~~~~~-i~~d~IvGfPgET~edf~~tl~~i~~l~~~~~~v~~~sp~pGT~~~~~~  374 (467)
T PRK14329        308 EWYLDRIDAIRRIIPDCG-ISTDMIAGFPTETEEDHQDTLSLMEEVGYDFAFMFKYSERPGTYAARKL  374 (467)
T ss_pred             HHHHHHHHHHHHhCCCCE-EEEeEEEeCCCCCHHHHHHHHHHHHhhCCCeEeeeEecCCCCChhhhhC
Confidence            9999999999998  454 8999999999999999999999999999999999999999999999754

>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=5e-26  Score=238.66  Aligned_cols=191  Identities=22%  Similarity=0.323  Sum_probs=159.3

Q ss_pred             CeEEEEec-cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCH-
Q 012112           53 PTSAYIHL-PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPP-  130 (471)
Q Consensus        53 ~~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~-  130 (471)
                      ....|++| .-|+++|+||..+... |          ..+.+.++.+++|++.+...     .++.|+|.|.+++.... 
T Consensus       145 ~~~a~v~i~rGC~~~CsFC~~p~~~-g----------~~rsr~~e~V~~Ei~~l~~~-----g~~eI~l~d~~~~~y~~~  208 (437)
T PRK14331        145 KYCAYVTVMRGCDKKCTYCVVPKTR-G----------KERSRRLGSILDEVQWLVDD-----GVKEIHLIGQNVTAYGKD  208 (437)
T ss_pred             CcEEEEEeccCcCCCCccCCcccCC-C----------CcccCCHHHHHHHHHHHHHC-----CCeEEEEeeeccccccCC
Confidence            34678874 4599999999987542 1          23566789999999987642     37889998888765322 


Q ss_pred             ---HHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCCCHHHHHHH
Q 012112          131 ---RFVSSILDTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEA  204 (471)
Q Consensus       131 ---~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~a  204 (471)
                         ..+.++++.+.+..++   ..+.+. .+|..++++.++.|+++  |+++|++|+||+++++|+.|+|+++.+++.++
T Consensus       209 ~~~~~~~~Ll~~l~~~~g~---~~i~~~~~~p~~l~~ell~~~~~~~~~~~~l~igiqSgsd~vLk~m~R~~t~~~~~~~  285 (437)
T PRK14331        209 IGDVPFSELLYAVAEIDGV---ERIRFTTGHPRDLDEDIIKAMADIPQVCEHLHLPFQAGSDRILKLMDRGYTKEEYLEK  285 (437)
T ss_pred             CCCCCHHHHHHHHhcCCCc---cEEEEeccCcccCCHHHHHHHHcCCccCCceecccccCChHHHHHcCCCCCHHHHHHH
Confidence               2467777777654332   134444 38999999999999998  59999999999999999999999999999999


Q ss_pred             HHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          205 IEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       205 i~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      ++.++++  |+. ++.|+|+|+||||.++++++++++.+++++++++|.|++.|||+++++
T Consensus       286 v~~lr~~~~gi~-i~~d~IvG~PgET~ed~~~tl~~l~~l~~~~i~~f~~sp~pGT~~~~~  345 (437)
T PRK14331        286 IELLKEYIPDIT-FSTDIIVGFPTETEEDFEETLDVLKKVEFEQVFSFKYSPRPGTPAAYM  345 (437)
T ss_pred             HHHHHHhCCCCE-EecCEEEECCCCCHHHHHHHHHHHHhcCcceeeeeEecCCCCcchhhC
Confidence            9999999  886 999999999999999999999999999999999999999999999986

>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=8.2e-26  Score=236.90  Aligned_cols=194  Identities=20%  Similarity=0.246  Sum_probs=155.8

Q ss_pred             CeEEEEec-cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCC----
Q 012112           53 PTSAYIHL-PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSL----  127 (471)
Q Consensus        53 ~~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~----  127 (471)
                      ....||+| ..|+++|+||..+... |          ..+.+.++.+++||+.+.+.     .++.|.|.|.+...    
T Consensus       139 ~~~~~v~i~rGC~~~CsFC~ip~~~-G----------~~rsr~~e~Iv~Ei~~l~~~-----g~kei~l~~~n~~~yg~~  202 (434)
T PRK14330        139 KHHAWVTIIYGCNRFCTYCIVPYTR-G----------REKSRPMEDILEEVEKLAKQ-----GYREVTFLGQNVDAYGKD  202 (434)
T ss_pred             CcEEEEEcccCCCCCCCCCceECcC-C----------CCccCCHHHHHHHHHHHHHC-----CCcEEEEEEecccccccC
Confidence            35567776 6799999999987543 2          13466788999999977543     25566665543321    


Q ss_pred             C-CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHHHH
Q 012112          128 V-PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVYEA  204 (471)
Q Consensus       128 l-~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~~a  204 (471)
                      + ++..+.++++.+.+.-++.  .-+....+|..++++.++.|+++|  +++++||+||+++++|+.|+|+++.+++.++
T Consensus       203 ~~~~~~l~~Ll~~~~~~~~~~--~~~~~~~~p~~~~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~~~~~~~~~  280 (434)
T PRK14330        203 LKDGSSLAKLLEEASKIEGIE--RIWFLTSYPTDFSDELIEVIANSPKVAKSIHLPVQSGSNRILKLMNRRYTREEYLEL  280 (434)
T ss_pred             CCCCccHHHHHHHHHhcCCce--EEEEecCChhhcCHHHHHHHhcCCcccCceecCcCCCCHHHHHhcCCCCCHHHHHHH
Confidence            1 2345777777665543321  224446789999999999999998  7999999999999999999999999999999


Q ss_pred             HHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhccc
Q 012112          205 IEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYT  265 (471)
Q Consensus       205 i~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~  265 (471)
                      ++.++++  |+. +++|+|+|+||||.++++++++++.+++++++.+|.|++.|||++++++.
T Consensus       281 i~~lr~~~~~i~-i~~d~IvGfPgET~edf~~tl~fi~~~~~~~~~~~~~sp~pGT~~~~~~~  342 (434)
T PRK14330        281 IEKIRSKVPDAS-ISSDIIVGFPTETEEDFMETVDLVEKAQFERLNLAIYSPREGTVAWKYYK  342 (434)
T ss_pred             HHHHHHhCCCCE-EEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeeeccCCCCChhhhhCc
Confidence            9999997  665 99999999999999999999999999999999999999999999998543

>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=2.5e-25  Score=233.32  Aligned_cols=190  Identities=17%  Similarity=0.261  Sum_probs=156.0

Q ss_pred             CeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCH-
Q 012112           53 PTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPP-  130 (471)
Q Consensus        53 ~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~-  130 (471)
                      ....|+.|-- |+++|+||..+... |          ..+.+.++.+++|++.+...     .++.|+|-|.+.+.... 
T Consensus       153 ~~~a~l~isrGC~~~CsFC~ip~~r-G----------~~rsr~~e~Iv~Ei~~l~~~-----G~kei~l~~~~~~~y~~~  216 (449)
T PRK14332        153 GIQAFVTIMRGCNNFCTFCVVPYTR-G----------RERSRDPKSIVREIQDLQEK-----GIRQVTLLGQNVNSYKEQ  216 (449)
T ss_pred             CceEEEEecCCcCCCCCCCCccccc-C----------CcccCCHHHHHHHHHHHHHC-----CCeEEEEecccCCcccCC
Confidence            3456777666 99999999887542 1          23567789999999987543     37888888777765433 


Q ss_pred             -HHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHH
Q 012112          131 -RFVSSILDTLTDKFGLSLDAEISMEM-DPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIE  206 (471)
Q Consensus       131 -~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~  206 (471)
                       ..+.++++.+.+.   .....+.+.. +|..++++.++.|+++|  ++++++|+||++|++|+.|+|+++.+++.++++
T Consensus       217 ~~~l~~Ll~~l~~~---~~~~~ir~~~~~p~~~~~ell~~m~~~~~~~~~l~lgvQSgsd~vLk~m~R~~t~~~~~~~i~  293 (449)
T PRK14332        217 STDFAGLIQMLLDE---TTIERIRFTSPHPKDFPDHLLSLMAKNPRFCPNIHLPLQAGNTRVLEEMKRSYSKEEFLDVVK  293 (449)
T ss_pred             cccHHHHHHHHhcC---CCcceEEEECCCcccCCHHHHHHHHhCCCccceEEECCCcCCHHHHHhhCCCCCHHHHHHHHH
Confidence             2355565555432   2223455543 89999999999999998  999999999999999999999999999999999


Q ss_pred             HHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhh
Q 012112          207 IVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGI  262 (471)
Q Consensus       207 ~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~  262 (471)
                      .++++  |+. ++.|+|+|+||||.++++++++++.+++++++++|.|+++|||+.++
T Consensus       294 ~lr~~~p~i~-i~td~IvGfPgET~edf~~tl~~v~~l~~~~~~~f~ys~~~GT~a~~  350 (449)
T PRK14332        294 EIRNIVPDVG-ITTDIIVGFPNETEEEFEDTLAVVREVQFDMAFMFKYSEREGTMAKR  350 (449)
T ss_pred             HHHHhCCCCE-EEEEEEeeCCCCCHHHHHHHHHHHHhCCCCEEEEEEecCCCCChhHH
Confidence            99998  554 78999999999999999999999999999999999999999999984

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

Probab=99.94  E-value=1e-25  Score=235.12  Aligned_cols=189  Identities=16%  Similarity=0.289  Sum_probs=155.1

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC----
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP----  129 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~----  129 (471)
                      ..||.+-= ||++|+||..+...+           ..+.+.++.+++||+.+.+.     .++.|.|.|.+.+...    
T Consensus       139 ~~~i~isrGCp~~CsfC~~~~~~g-----------~~r~r~~e~I~~Ei~~l~~~-----g~~ei~l~~~~~~~y~~d~~  202 (414)
T TIGR01579       139 RAFIKVQDGCNFFCSYCIIPFARG-----------RSRSVPMEAILKQVKILVAK-----GYKEIVLTGVNLGSYGDDLK  202 (414)
T ss_pred             EEEEEeccCcCCCCCCCceeeecC-----------CCccCCHHHHHHHHHHHHHC-----CCceEEEeeEccchhccCCC
Confidence            34555544 999999998765421           34566789999999977543     3667777665544332    


Q ss_pred             -HHHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHHHHH
Q 012112          130 -PRFVSSILDTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVYEAI  205 (471)
Q Consensus       130 -~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai  205 (471)
                       ...+.+|++.+.+.-+   ...+.+. ++|+.++++.++.|+++|  ++++++|+||+|+++|+.|+|+++.+++.+++
T Consensus       203 ~~~~l~~Ll~~l~~~~~---~~~ir~~~~~p~~~~~ell~~m~~~~~~~~~l~lglESgs~~vLk~m~R~~~~~~~~~~v  279 (414)
T TIGR01579       203 NGTSLAKLLEQILQIPG---IKRIRLSSIDPEDIDEELLEAIASEKRLCPHLHLSLQSGSDRVLKRMRRKYTRDDFLKLV  279 (414)
T ss_pred             CCCcHHHHHHHHhcCCC---CcEEEEeCCChhhCCHHHHHHHHhcCccCCCeEECCCcCChHHHHhcCCCCCHHHHHHHH
Confidence             2457788887775322   2234443 589999999999999987  89999999999999999999999999999999


Q ss_pred             HHHHH--cCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          206 EIVKL--CGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       206 ~~~~~--~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      +.+++  .|+. ++.|+|+|+||||.++++++++++.+++++++++|.|++.|||+++++
T Consensus       280 ~~l~~~~~gi~-i~~~~IvG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~~  338 (414)
T TIGR01579       280 NKLRSVRPDYA-FGTDIIVGFPGESEEDFQETLRMVKEIEFSHLHIFPYSARPGTPASTM  338 (414)
T ss_pred             HHHHHhCCCCe-eeeeEEEECCCCCHHHHHHHHHHHHhCCCCEEEeeecCCCCCCchhhC
Confidence            99999  7886 999999999999999999999999999999999999999999999886

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

>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=2.6e-25  Score=234.03  Aligned_cols=192  Identities=18%  Similarity=0.236  Sum_probs=154.3

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCH---
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPP---  130 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~---  130 (471)
                      ..||.|-- |+++|+||..+... |          ..+.++++.+++||+.+.+.     +++.|+|.|.+.+....   
T Consensus       153 ~~~i~I~rGC~~~CsfC~~p~~r-G----------~~rsr~~e~Vv~Ei~~l~~~-----G~~ei~l~g~~~~~y~~~~~  216 (455)
T PRK14335        153 QSFIPIMNGCNNFCSYCIVPYVR-G----------REISRDLDAILQEIDVLSEK-----GVREITLLGQNVNSYRGRDR  216 (455)
T ss_pred             eEEEEhhcCCCCCCCCCCcccCC-C----------CCccCCHHHHHHHHHHHHHC-----CCeEEEEEeecccccccccc
Confidence            34555433 99999999987553 1          12456789999999987543     36777777766644311   


Q ss_pred             ----HHHHHHHHHHHHHcCCCCCc-EEE-EEecCCCCCHHHHHHHHH--CCCCEEEEccCCCCHHHHHHcCCCCCHHHHH
Q 012112          131 ----RFVSSILDTLTDKFGLSLDA-EIS-MEMDPGTFDARKMEELMD--LGVNRVSLGVQAFQDELLKSCGRAHGLKEVY  202 (471)
Q Consensus       131 ----~~l~~ll~~l~~~~~l~~~~-eit-iE~~P~~l~~e~l~~l~~--~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~  202 (471)
                          ..+.++++.|.+......+. .+. ..++|..++++.++.|++  .|++++++|+||+++++|+.|+|+++.+++.
T Consensus       217 ~~~~~~~~~Ll~~l~~~~~~~~~i~~ir~~s~~p~~i~~ell~~m~~~~~gc~~l~iglQSgsd~vLk~m~R~~t~e~~~  296 (455)
T PRK14335        217 EGNIVTFPQLLRHIVRRAEVTDQIRWIRFMSSHPKDLSDDLIATIAQESRLCRLVHLPVQHGSNGVLKRMNRSYTREHYL  296 (455)
T ss_pred             cCCccCHHHHHHHHHHhhcccCCceEEEEeecCcccCCHHHHHHHHhCCCCCCeEEEccCcCCHHHHHHcCCCCCHHHHH
Confidence                14667777764322211122 344 346999999999999998  4899999999999999999999999999999


Q ss_pred             HHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          203 EAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       203 ~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      ++++.++++  |+. ++.|+|+|+||||.++++++++++.+++++++.+|.+++.|||+++++
T Consensus       297 ~~v~~ir~~~pgi~-i~~d~IvGfPgET~edf~~Tl~~i~~l~~~~~~~~~~sp~pGT~~~~~  358 (455)
T PRK14335        297 SLVGKLKASIPNVA-LSTDILIGFPGETEEDFEQTLDLMREVEFDSAFMYHYNPREGTPAYDF  358 (455)
T ss_pred             HHHHHHHHhCCCCE-EEEEEEEeCCCCCHHHHHHHHHHHHhcCCCeEEEEEecCCCCCchhhC
Confidence            999999999  885 999999999999999999999999999999999999999999999875

>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.93  E-value=4.6e-25  Score=232.40  Aligned_cols=204  Identities=18%  Similarity=0.248  Sum_probs=166.9

Q ss_pred             CCeEEEEec-cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC--
Q 012112           52 SPTSAYIHL-PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV--  128 (471)
Q Consensus        52 ~~~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l--  128 (471)
                      +....|+.| .-|+++|+||..+...+           ..+.+.++.+++|++.+.+.     .++.|.|.|.+.+..  
T Consensus       153 ~~~~~~i~I~rGC~~~CsfC~~p~~~G-----------~~rsr~~e~Il~ei~~l~~~-----G~keI~l~g~~~~~yG~  216 (459)
T PRK14338        153 PPVTVHVPIIYGCNMSCSYCVIPLRRG-----------RERSRPLAEIVEEVRRIAAR-----GAKEITLLGQIVDSYGH  216 (459)
T ss_pred             CceEEEEEcccCCCCCCCcCCeeccCC-----------CCccCCHHHHHHHHHHHHHC-----CCeEEEEeeecCCCccc
Confidence            456789998 66999999998875431           23456788999999877543     367788877554332  


Q ss_pred             ---CHHHHHHHHHHHHHHcCCCCCcEEEE-EecCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCCCHHHHH
Q 012112          129 ---PPRFVSSILDTLTDKFGLSLDAEISM-EMDPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAHGLKEVY  202 (471)
Q Consensus       129 ---~~~~l~~ll~~l~~~~~l~~~~eiti-E~~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~  202 (471)
                         +...+.+|++.+.+..++   ..+.+ ..+|..++++.++.|+++  |++++++|+||+++++|+.|+|+++.+++.
T Consensus       217 d~~~~~~l~~Ll~~l~~~~gi---~~ir~~~~~p~~i~~ell~~l~~~~~~~~~v~lglQSgsd~vLk~m~R~~t~e~~~  293 (459)
T PRK14338        217 DLPGRPDLADLLEAVHEIPGL---ERLRFLTSHPAWMTDRLIHAVARLPKCCPHINLPVQAGDDEVLKRMRRGYTVARYR  293 (459)
T ss_pred             ccCChHHHHHHHHHHHhcCCc---ceEEEEecChhhcCHHHHHHHhcccccccceecCcccCCHHHHHhccCCCCHHHHH
Confidence               235688888888765332   23444 359999999999999995  599999999999999999999999999999


Q ss_pred             HHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHH
Q 012112          203 EAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTET  275 (471)
Q Consensus       203 ~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~  275 (471)
                      ++++.++++  |+. ++.|+|+|+||||.+++.++++++.+++++++.++.+++.|||+++++..++.+..|.+.
T Consensus       294 ~~i~~lr~~~pgi~-i~~d~IvG~PgET~ed~~~ti~~l~~l~~~~v~i~~ysp~pGT~~~~~~~~~~~~v~~~~  367 (459)
T PRK14338        294 ELIARIREAIPDVS-LTTDIIVGHPGETEEQFQRTYDLLEEIRFDKVHIAAYSPRPGTLAAEMEDDPALAVPPEE  367 (459)
T ss_pred             HHHHHHHHhCCCCE-EEEEEEEECCCCCHHHHHHHHHHHHHcCCCEeEEEecCCCCCChhhhCcCCccCCCCHHH
Confidence            999999998  775 899999999999999999999999999999999999999999999988666666555544

>PRK07094 biotin synthase; Provisional

Probab=99.93  E-value=3.8e-25  Score=223.54  Aligned_cols=206  Identities=13%  Similarity=0.148  Sum_probs=169.0

Q ss_pred             ccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHH
Q 012112           60 LPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDT  139 (471)
Q Consensus        60 IPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~  139 (471)
                      -.+|+.+|.||.++......         .......+.+++|++...+     .+++.++|+||++..++.+.+.++++.
T Consensus        46 s~gC~~~C~fC~~~~~~~~~---------~r~~ls~eei~~~~~~~~~-----~g~~~i~l~gG~~~~~~~~~l~~l~~~  111 (323)
T PRK07094         46 SNYCRNNCLYCGLRRDNKNI---------ERYRLSPEEILECAKKAYE-----LGYRTIVLQSGEDPYYTDEKIADIIKE  111 (323)
T ss_pred             CCCCCCCCEeCCcccCCCCC---------cCcCCCHHHHHHHHHHHHH-----CCCCEEEEecCCCCCCCHHHHHHHHHH
Confidence            35599999999987542110         0011135677777776543     237889999887555688899999999


Q ss_pred             HHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEee
Q 012112          140 LTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLD  219 (471)
Q Consensus       140 l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~D  219 (471)
                      |++..+    ..+  ..+++.++++.++.|+++|++++++|+||+++++++.+++.++.+++.++++.++++|+. ++.+
T Consensus       112 i~~~~~----l~i--~~~~g~~~~e~l~~Lk~aG~~~v~~glEs~~~~~~~~i~~~~s~~~~~~~i~~l~~~Gi~-v~~~  184 (323)
T PRK07094        112 IKKELD----VAI--TLSLGERSYEEYKAWKEAGADRYLLRHETADKELYAKLHPGMSFENRIACLKDLKELGYE-VGSG  184 (323)
T ss_pred             HHccCC----ceE--EEecCCCCHHHHHHHHHcCCCEEEeccccCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCe-ecce
Confidence            987532    233  356677899999999999999999999999999999999999999999999999999997 9999


Q ss_pred             eecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCC
Q 012112          220 LISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG  292 (471)
Q Consensus       220 lI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~G  292 (471)
                      +|+|+||||.+++.++++++.+++++.++++.+++.||||+++.      ..++.++..++...++..+....
T Consensus       185 ~iiGlpget~ed~~~~l~~l~~l~~~~v~~~~~~P~pgTpl~~~------~~~~~~~~~~~~a~~R~~lp~~~  251 (323)
T PRK07094        185 FMVGLPGQTLEDLADDILFLKELDLDMIGIGPFIPHPDTPLKDE------KGGSLELTLKVLALLRLLLPDAN  251 (323)
T ss_pred             EEEECCCCCHHHHHHHHHHHHhCCCCeeeeeccccCCCCCcccC------CCCCHHHHHHHHHHHHHhCcCCC
Confidence            99999999999999999999999999999999999999999874      24567777888888888876543

>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.93  E-value=1.8e-25  Score=234.40  Aligned_cols=190  Identities=18%  Similarity=0.262  Sum_probs=157.5

Q ss_pred             CeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC--
Q 012112           53 PTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP--  129 (471)
Q Consensus        53 ~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~--  129 (471)
                      ....||.|-- |+++|+||..+...+           ..+.+.++.+++|++.+.+.     .++.|+|.|.+.+...  
T Consensus       148 ~~~a~l~isrGC~~~CsFC~ip~~rG-----------~~rsr~~e~Vv~Ei~~l~~~-----G~~ei~l~~~~~~~y~d~  211 (445)
T PRK14340        148 SISAFVPVMRGCNNMCAFCVVPFTRG-----------RERSHPFASVLDEVRALAEA-----GYREITLLGQNVNSYSDP  211 (445)
T ss_pred             CcEEEEEeccCCCCCCCCCCcccccC-----------CCcCCCHHHHHHHHHHHHHC-----CCeEEEEeecccchhhcc
Confidence            3456776655 999999999875421           23556688999999987643     3677777666654332  


Q ss_pred             --HHHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCCCHHHHHHH
Q 012112          130 --PRFVSSILDTLTDKFGLSLDAEISMEM-DPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEA  204 (471)
Q Consensus       130 --~~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~a  204 (471)
                        ...+.+|++.+.+.   .....+.+.+ +|..++++.++.|+++  ||++|.||+||++|++|+.|+|+++.+++.++
T Consensus       212 ~~~~~l~~Ll~~l~~~---~~~~rir~~~~~p~~l~~ell~~~~~~~~g~~~l~iglQSgsd~vLk~m~R~~t~~~~~~~  288 (445)
T PRK14340        212 EAGADFAGLLDAVSRA---APEMRIRFTTSHPKDISESLVRTIAARPNICNHIHLPVQSGSSRMLRRMNRGHTIEEYLEK  288 (445)
T ss_pred             CCCchHHHHHHHHhhc---CCCcEEEEccCChhhcCHHHHHHHHhCCCCCCeEEECCCcCCHHHHHhcCCCCCHHHHHHH
Confidence              12467777777543   2334666664 8999999999999996  79999999999999999999999999999999


Q ss_pred             HHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhh
Q 012112          205 IEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGI  262 (471)
Q Consensus       205 i~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~  262 (471)
                      ++.++++  |+. ++.|+|+|+||||.++++++++++.+++++++.+|.++++|||++++
T Consensus       289 v~~lr~~~pgi~-i~td~IvGfPgET~edf~~tl~~~~~~~~~~~~~f~~sp~pGT~~~~  347 (445)
T PRK14340        289 IALIRSAIPGVT-LSTDLIAGFCGETEEDHRATLSLMEEVRFDSAFMFYYSVRPGTLAAR  347 (445)
T ss_pred             HHHHHHhCCCCE-EeccEEEECCCCCHHHHHHHHHHHHhcCCCEEeeEEecCCCCChhhh
Confidence            9999999  996 99999999999999999999999999999999999999999999985

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

Probab=99.93  E-value=4.7e-25  Score=231.40  Aligned_cols=192  Identities=20%  Similarity=0.247  Sum_probs=157.4

Q ss_pred             CCeEEEEecc-CCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC-C
Q 012112           52 SPTSAYIHLP-FCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV-P  129 (471)
Q Consensus        52 ~~~~lYiHIP-FC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l-~  129 (471)
                      +....||.|- -|+++|+||..+... |          ..+.+.++.+++|++.+.+.     .+..|+|.|.+.+.. .
T Consensus       143 ~~~~~~v~i~rGC~~~CsfC~~~~~~-G----------~~rsr~~e~I~~Ei~~l~~~-----g~~ei~l~~~~~~~y~g  206 (438)
T TIGR01574       143 GIYKSFINIMIGCNKFCTYCIVPYTR-G----------DEISRPFDDILQEVQKLAEK-----GVREITLLGQNVNAYRG  206 (438)
T ss_pred             CceeEEeehhcCCCCCCCCCCeeeec-C----------CCcccCHHHHHHHHHHHHHc-----CCeEEEEEecccCCccC
Confidence            3467899985 599999999987543 1          23467789999999987653     256677766555443 1


Q ss_pred             ------HHHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHH
Q 012112          130 ------PRFVSSILDTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKE  200 (471)
Q Consensus       130 ------~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~  200 (471)
                            ...+.+|++.|.+..++   ..+.+. ++|..++++.++.|+++|  ++++++|+||+|+++|+.|+|+++.++
T Consensus       207 ~d~~~~~~~l~~Ll~~l~~~~~~---~~ir~~~~~p~~l~~ell~~l~~~g~~~~~l~iglQSgsd~vLk~m~R~~t~~~  283 (438)
T TIGR01574       207 KDFEGKTMDFSDLLRELSTIDGI---ERIRFTSSHPLDFDDDLIEVFANNPKLCKSMHLPVQSGSSEILKLMKRGYTREW  283 (438)
T ss_pred             CCCCCCcccHHHHHHHHHhcCCc---eEEEEecCCcccCCHHHHHHHHhCCCccCceeeCCCcCCHHHHHhcCCCCCHHH
Confidence                  12467777777653222   234443 589999999999999999  999999999999999999999999999


Q ss_pred             HHHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          201 VYEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       201 ~~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      +.++++.++++  |+. ++.|+|+|+||||.++++++++++.+++++++.++.|++.|||+++++
T Consensus       284 ~~~~v~~ir~~~~~i~-i~~d~IvG~PgEt~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~~  347 (438)
T TIGR01574       284 YLNLVRKLRAACPNVS-ISTDIIVGFPGETEEDFEETLDLLREVEFDSAFSFIYSPRPGTPAADM  347 (438)
T ss_pred             HHHHHHHHHHhCCCCe-EeeCEEEeCCCCCHHHHHHHHHHHHhcCCCeeeeEEecCCCCCchhhC
Confidence            99999999998  564 889999999999999999999999999999999999999999999976

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

>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.93  E-value=5.5e-25  Score=231.41  Aligned_cols=191  Identities=21%  Similarity=0.280  Sum_probs=156.5

Q ss_pred             CeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC--
Q 012112           53 PTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP--  129 (471)
Q Consensus        53 ~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~--  129 (471)
                      +...|+.|-= |+++|+||..+... |          ..+.+.++.+++|++.+.+.     .++.|+|.|.+.+...  
T Consensus       146 ~~~~~i~isrGCp~~CsFC~~p~~~-G----------~~~sr~~e~Iv~Ei~~l~~~-----g~~ei~l~d~~~~~y~~~  209 (444)
T PRK14325        146 GPSAFVSIMEGCDKYCTFCVVPYTR-G----------EEVSRPVDDVLAEVAQLAEQ-----GVREITLLGQNVNAYRGE  209 (444)
T ss_pred             CceEEEEhhhCCCCCCCccccCccc-C----------CcccCCHHHHHHHHHHHHHC-----CCcEEEEEeeccccccCC
Confidence            3456666544 99999999987542 2          12356789999999977643     2566777766654431  


Q ss_pred             -----HHHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHH
Q 012112          130 -----PRFVSSILDTLTDKFGLSLDAEISMEM-DPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEV  201 (471)
Q Consensus       130 -----~~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~  201 (471)
                           ...+.+|++.|.+.-++   ..+.+.+ +|..++++.++.|+++|  ++++++|+||+++++|+.|+|+++.+++
T Consensus       210 ~~~~~~~~l~~Ll~~l~~~~~~---~~ir~~~~~p~~~~~ell~~l~~~~~~~~~l~igiqSgs~~vLk~m~R~~~~~~~  286 (444)
T PRK14325        210 GPDGEIADFAELLRLVAAIDGI---ERIRYTTSHPRDFTDDLIEAYADLPKLVPFLHLPVQSGSDRILKAMNRGHTALEY  286 (444)
T ss_pred             CCCCCcchHHHHHHHHHhcCCc---cEEEEccCCcccCCHHHHHHHHcCCcccCceeccCCcCCHHHHHhCCCCCCHHHH
Confidence                 23678888887653222   2355554 89999999999999985  9999999999999999999999999999


Q ss_pred             HHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          202 YEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       202 ~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      .++++.++++  |+. +++|+|+|+||||.++++++++++.+++++++.+|.|++.|||+++++
T Consensus       287 ~~~i~~lr~~~~gi~-v~~~~IvG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~~  349 (444)
T PRK14325        287 KSIIRKLRAARPDIA-ISSDFIVGFPGETDEDFEATMKLIEDVGFDQSFSFIYSPRPGTPAADL  349 (444)
T ss_pred             HHHHHHHHHHCCCCE-EEeeEEEECCCCCHHHHHHHHHHHHhcCCCeeeeeeccCCCCCchhhC
Confidence            9999999998  665 999999999999999999999999999999999999999999999976

>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.93  E-value=5.4e-25  Score=231.17  Aligned_cols=193  Identities=19%  Similarity=0.277  Sum_probs=157.1

Q ss_pred             CCeEEEEec-cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC-
Q 012112           52 SPTSAYIHL-PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP-  129 (471)
Q Consensus        52 ~~~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~-  129 (471)
                      .+...||+| .-|+++|+||..+... |          ..+.+.++.+++|++.+.+.     .++.|+|.|.+.+... 
T Consensus       146 ~~~~a~v~i~rGC~~~CsFC~ip~~r-G----------~~rsr~~e~Iv~Ei~~l~~~-----G~~eI~l~~~~~~~yg~  209 (446)
T PRK14337        146 VPASAFVNIMQGCDNFCAYCIVPYTR-G----------RQKSRSSAAVLDECRALVDR-----GAREITLLGQNVNSYGQ  209 (446)
T ss_pred             CCcEEEEEeccCCCCCCcCCCcccCC-C----------CCeeCCHHHHHHHHHHHHHC-----CCeEEEEEecCcccccc
Confidence            345689998 5599999999887542 1          23566789999999987653     3677888776543321 


Q ss_pred             -----HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCCCHHHHH
Q 012112          130 -----PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAHGLKEVY  202 (471)
Q Consensus       130 -----~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~  202 (471)
                           ...+.+|++.|.+.-++. ...|+. .+|..++++.++.|++.  |+++|++|+||+++++|+.|+|+|+.+++.
T Consensus       210 d~~~~~~~l~~Ll~~l~~~~g~~-~ir~~~-~~p~~i~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~t~e~~~  287 (446)
T PRK14337        210 DKHGDGTSFAQLLHKVAALPGLE-RLRFTT-PHPKDIAPEVIEAFGELPNLCPRLHLPLQSGSDRILKAMGRKYDMARYL  287 (446)
T ss_pred             CCCCCCccHHHHHHHHHhcCCCc-EEEEcc-CCcccCCHHHHHHHHhCCcccCeEEECCCCCCHHHHHhCCCCCCHHHHH
Confidence                 135677777776542321 233433 69999999999999984  699999999999999999999999999999


Q ss_pred             HHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          203 EAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       203 ~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      ++++.++++  |+. +++|+|+|+||||.++++++++++.+++++++.+|.|+++|||+.+++
T Consensus       288 ~~v~~lr~~~~~i~-i~~d~IvG~PgET~ed~~~tl~~l~~~~~~~~~~f~ysp~pgT~a~~~  349 (446)
T PRK14337        288 DIVTDLRAARPDIA-LTTDLIVGFPGETEEDFEQTLEAMRTVGFASSFSFCYSDRPGTRAEML  349 (446)
T ss_pred             HHHHHHHHhCCCCe-EEEeEEEECCCCCHHHHHHHHHHHHhcCCCeeEEEecCCCCCCccccC
Confidence            999999998  564 899999999999999999999999999999999999999999999875

>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.93  E-value=7.3e-25  Score=230.01  Aligned_cols=214  Identities=18%  Similarity=0.227  Sum_probs=166.8

Q ss_pred             CCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC-
Q 012112           52 SPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP-  129 (471)
Q Consensus        52 ~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~-  129 (471)
                      +....||.|.- |+++|+||..+...+           ..+.+.++.+++|++.+.+.     .++.|+|.|.+.+... 
T Consensus       145 ~~~~~~i~i~rGC~~~CsfC~~p~~~g-----------~~Rsr~~e~Iv~Ei~~l~~~-----G~~ei~l~~~~~~~yg~  208 (439)
T PRK14328        145 SKVKAFVTIMYGCNNFCTYCIVPYVRG-----------RERSRKPEDIIAEIKELVSE-----GYKEVTLLGQNVNSYGK  208 (439)
T ss_pred             CCcEEEEEHHhCcCCCCCCCCcccccC-----------CcccCCHHHHHHHHHHHHHC-----CCcEEEEeccccCcCCc
Confidence            34667999998 999999999876532           12455678899999876543     3667777776654321 


Q ss_pred             ----HHHHHHHHHHHHHHcCCCCCcEEEE-EecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHH
Q 012112          130 ----PRFVSSILDTLTDKFGLSLDAEISM-EMDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVY  202 (471)
Q Consensus       130 ----~~~l~~ll~~l~~~~~l~~~~eiti-E~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~  202 (471)
                          ...+.+|++.+.+..+   ...+.+ ..+|+.++++.++.|+++|  ++++++|+||+++++|+.|+|+++.+++.
T Consensus       209 d~~~~~~l~~Ll~~l~~~~~---~~~ir~~~~~P~~i~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~~~~~~~  285 (439)
T PRK14328        209 DLEEKIDFADLLRRVNEIDG---LERIRFMTSHPKDLSDDLIEAIADCDKVCEHIHLPVQSGSNRILKKMNRHYTREYYL  285 (439)
T ss_pred             CCCCCcCHHHHHHHHHhcCC---CcEEEEecCChhhcCHHHHHHHHhCCCcCceeeeCCCcCCHHHHHhCCCCCCHHHHH
Confidence                1347778877765322   223444 3589999999999999986  99999999999999999999999999999


Q ss_pred             HHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHH
Q 012112          203 EAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANF  280 (471)
Q Consensus       203 ~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~  280 (471)
                      ++++.++++  |+. +++|+|+|+||||.++++++++++.+++++++.++.+++.|||+++++..  .   .+.+...+.
T Consensus       286 ~~i~~lr~~~~~i~-i~~d~IvG~PgET~ed~~~tl~~i~~l~~~~~~~~~~sp~pGT~~~~~~~--~---v~~~~~~~r  359 (439)
T PRK14328        286 ELVEKIKSNIPDVA-ITTDIIVGFPGETEEDFEETLDLVKEVRYDSAFTFIYSKRKGTPAAKMED--Q---VPEDVKHER  359 (439)
T ss_pred             HHHHHHHHhCCCCE-EEEEEEEECCCCCHHHHHHHHHHHHhcCCCcccceEecCCCCChhhhCCC--C---CCHHHHHHH
Confidence            999999998  554 78999999999999999999999999999999999999999999987532  2   234444555


Q ss_pred             HHHHHHHHHH
Q 012112          281 YRMASSMLSS  290 (471)
Q Consensus       281 ~~~~~~~L~~  290 (471)
                      +....+...+
T Consensus       360 ~~~l~~~~~~  369 (439)
T PRK14328        360 FNRLVELQNK  369 (439)
T ss_pred             HHHHHHHHHH
Confidence            5555544443

>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.93  E-value=7.6e-25  Score=228.16  Aligned_cols=193  Identities=20%  Similarity=0.218  Sum_probs=159.0

Q ss_pred             CCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC-
Q 012112           52 SPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP-  129 (471)
Q Consensus        52 ~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~-  129 (471)
                      ++...||.|-= |+++|+||..+...+           ..+.+.++.+++|++.+.+.     .+..|+|.|.+.+... 
T Consensus       122 ~~~~a~i~i~rGC~~~CsFC~ip~~rG-----------~~rsrs~e~Iv~Ei~~l~~~-----G~~ei~l~~~~~~~yg~  185 (418)
T PRK14336        122 PPVSANVTIMQGCDNFCTYCVVPYRRG-----------REKSRSIAEIGCEVAELVRR-----GSREVVLLGQNVDSYGH  185 (418)
T ss_pred             CCeEEEEEeccCCCCCCccCCccccCC-----------CCccCCHHHHHHHHHHHHHC-----CCeEEEEEecCcccccc
Confidence            34556766655 999999998875421           23566789999999987643     3678888888765432 


Q ss_pred             ----HHHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCCCHHHHH
Q 012112          130 ----PRFVSSILDTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAHGLKEVY  202 (471)
Q Consensus       130 ----~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~  202 (471)
                          ...+.+|++.+.+.   .....+.+. .+|..++++.++.|++.  |++++++|+||+++++|+.|+|+++.+++.
T Consensus       186 d~~~~~~l~~Ll~~l~~~---~~~~~ir~~~~~p~~i~~ell~~l~~~~~~~~~l~lglQSgsd~vLk~M~R~~~~~~~~  262 (418)
T PRK14336        186 DLPEKPCLADLLSALHDI---PGLLRIRFLTSHPKDISQKLIDAMAHLPKVCRSLSLPVQAGDDTILAAMRRGYTNQQYR  262 (418)
T ss_pred             CCCCcccHHHHHHHHHhc---CCccEEEEeccChhhcCHHHHHHHHhcCccCCceecCCCcCCHHHHHHhCCCCCHHHHH
Confidence                23577788777653   222345554 48999999999999995  499999999999999999999999999999


Q ss_pred             HHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcc
Q 012112          203 EAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILY  264 (471)
Q Consensus       203 ~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~  264 (471)
                      ++++.++++  |+. ++.|+|+|+||||.++++++++++.+++++++.++.|++.|||++++.+
T Consensus       263 ~~i~~lr~~~pgi~-i~~d~IvGfPGET~edf~~tl~fi~~~~~~~~~v~~ysp~pGT~a~~~~  325 (418)
T PRK14336        263 ELVERLKTAMPDIS-LQTDLIVGFPSETEEQFNQSYKLMADIGYDAIHVAAYSPRPQTVAARDM  325 (418)
T ss_pred             HHHHHHHhhCCCCE-EEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEeeecCCCCCChhHhhC
Confidence            999999999  885 9999999999999999999999999999999999999999999998643

>TIGR00089 RNA modification enzyme, MiaB family

Probab=99.93  E-value=6.4e-25  Score=230.09  Aligned_cols=182  Identities=18%  Similarity=0.223  Sum_probs=150.2

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC-----CHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV-----PPRFVSSIL  137 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l-----~~~~l~~ll  137 (471)
                      |+++|+||..+...+           ..+.+.++.+++||+.+.+.     .++.|+|.|.+.+..     ....+.+|+
T Consensus       149 C~~~CsfC~~~~~~g-----------~~r~r~~e~Vv~Ei~~l~~~-----g~~ei~l~~~~~~~yg~d~~~~~~l~~Ll  212 (429)
T TIGR00089       149 CDKFCTYCIVPYARG-----------RERSRPPEDILEEVKELVSK-----GVKEIVLLGQNVGAYGKDLKGETNLADLL  212 (429)
T ss_pred             cCCCCCcCceecccC-----------CCCCCCHHHHHHHHHHHHHC-----CCceEEEEeeccccccCCCCCCcCHHHHH
Confidence            999999999876431           24456688999999987643     256677766554332     113577788


Q ss_pred             HHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcC--
Q 012112          138 DTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG--  212 (471)
Q Consensus       138 ~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G--  212 (471)
                      +.+.+.-+   ...+.+. .+|..++++.++.|+++|  ++++++|+||+|+++|+.|+|+++.+++.++++.++++|  
T Consensus       213 ~~l~~~~g---~~~i~~~~~~p~~i~~ell~~m~~~~~~~~~l~igiES~s~~vLk~m~R~~~~~~~~~~i~~lr~~~~~  289 (429)
T TIGR00089       213 RELSKIDG---IERIRFGSSHPDDVTDDLIELIAENPKVCKHLHLPVQSGSDRILKRMNRKYTREEYLDIVEKIRAKIPD  289 (429)
T ss_pred             HHHhcCCC---CCEEEECCCChhhcCHHHHHHHHhCCCccCceeeccccCChHHHHhCCCCCCHHHHHHHHHHHHHHCCC
Confidence            87765322   2245554 489899999999999995  999999999999999999999999999999999999998  


Q ss_pred             CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcc
Q 012112          213 VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILY  264 (471)
Q Consensus       213 ~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~  264 (471)
                      +. ++.|+|+|+||||.+++.++++++.+++++++++|.|++.|||+++++.
T Consensus       290 i~-i~~~~IvG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pgT~~~~~~  340 (429)
T TIGR00089       290 AA-ITTDIIVGFPGETEEDFEETLDLVEEVKFDKLHSFIYSPRPGTPAADMK  340 (429)
T ss_pred             CE-EEeeEEEECCCCCHHHHHHHHHHHHhcCCCEeeccccCCCCCCchhhCC
Confidence            64 9999999999999999999999999999999999999999999999763

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

>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.92  E-value=2e-24  Score=229.29  Aligned_cols=192  Identities=16%  Similarity=0.220  Sum_probs=157.4

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCC-----
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSL-----  127 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~-----  127 (471)
                      ...||.|-= |+++|+||..+...+           ..+.+.++.+++||+.+.+.     .+..|.|.|.+.+.     
T Consensus       157 ~~a~v~isrGCp~~CsFC~ip~~rG-----------~~rsr~~e~Vv~Ei~~l~~~-----g~~ei~l~d~n~~~yG~d~  220 (502)
T PRK14326        157 YAAWVSISVGCNNTCTFCIVPSLRG-----------KEKDRRPGDILAEVQALVDE-----GVLEVTLLGQNVNAYGVSF  220 (502)
T ss_pred             ceEEEEEccCCCCCCccCceeccCC-----------CcccCCHHHHHHHHHHHHHC-----CCceEEEEeecccccccCC
Confidence            346777766 999999999876532           23456679999999987653     26777776665543     


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHHHHH
Q 012112          128 VPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVYEAI  205 (471)
Q Consensus       128 l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai  205 (471)
                      .+...+.+|++.+...-++ ....|+. .+|..+++|.++.|+++|  ++.|++|+||++|++|+.|+|+|+.+++.+++
T Consensus       221 ~~~~~l~~Ll~~l~~i~~l-~~ir~~~-~~p~~~~~ell~~m~~~g~~~~~l~lglQSgsd~iLk~m~R~~t~~~~~~~v  298 (502)
T PRK14326        221 GDRGAFSKLLRACGEIDGL-ERVRFTS-PHPAEFTDDVIEAMAETPNVCPQLHMPLQSGSDRVLRAMRRSYRSERFLGIL  298 (502)
T ss_pred             CCHHHHHHHHHHHHhcCCc-cEEEEec-cChhhCCHHHHHHHHhcCCcCCcEEeccCCCCHHHHHhcCCCCCHHHHHHHH
Confidence            2445677777777654222 1234432 489999999999999998  89999999999999999999999999999999


Q ss_pred             HHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcc
Q 012112          206 EIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILY  264 (471)
Q Consensus       206 ~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~  264 (471)
                      +.++++  |+. ++.|+|+|+||||.++++++++++.+++++++.+|.|++.|||+++++.
T Consensus       299 ~~lr~~~~~i~-i~~~~IvGfPgET~edf~~Tl~~i~~~~~~~~~~f~~sp~pGT~~~~~~  358 (502)
T PRK14326        299 EKVRAAMPDAA-ITTDIIVGFPGETEEDFQATLDVVREARFSSAFTFQYSKRPGTPAAEME  358 (502)
T ss_pred             HHHHHhCCCCe-EEEEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeecCCCCChHHhCc
Confidence            999997  665 9999999999999999999999999999999999999999999999764

>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.92  E-value=2.9e-24  Score=223.92  Aligned_cols=192  Identities=19%  Similarity=0.264  Sum_probs=155.5

Q ss_pred             CCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC-
Q 012112           52 SPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP-  129 (471)
Q Consensus        52 ~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~-  129 (471)
                      +....||.|-= |+++|+||..+...++           .+.+.++.+++|++.....     +++.|+|.|.+.+... 
T Consensus       125 ~~~~a~i~isrGC~~~CsFC~ip~~rG~-----------~~sr~~e~I~~Ei~~l~~~-----G~keI~l~~~~~~~yg~  188 (420)
T PRK14339        125 SPYKSLVNISIGCDKKCTYCIVPHTRGK-----------EISIPMDLILKEAEKAVNN-----GAKEIFLLGQNVNNYGK  188 (420)
T ss_pred             CCeEEEEEecCCCCCCCCcCCcccccCC-----------CCCCCHHHHHHHHHHHHHC-----CCcEEEEeeeccccccC
Confidence            34567888777 9999999998865321           2235688999999876542     3677777765543211 


Q ss_pred             -------HHHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHC--CCCEEEEccCCCCHHHHHHcCCCCCHH
Q 012112          130 -------PRFVSSILDTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDL--GVNRVSLGVQAFQDELLKSCGRAHGLK  199 (471)
Q Consensus       130 -------~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~--GvnrvsiGvQS~~d~~L~~l~R~~t~~  199 (471)
                             ...+.+|++.+.+.-+   ...+.+. .+|..++++.++.|+++  |+..++||+||++|++|+.|+|+++.+
T Consensus       189 d~~~~~~~~~l~~Ll~~l~~~~g---~~~ir~~s~~p~~~~~ell~~~~~~~~~~~~l~iglQSgsd~vLk~M~R~~t~~  265 (420)
T PRK14339        189 RFSSEHEKVDFSDLLDKLSEIEG---LERIRFTSPHPLHMDDKFLEEFAKNPKICKSIHMPLQSGSSEILKAMKRGYTKE  265 (420)
T ss_pred             CCcCCcccccHHHHHHHHhcCCC---ccEEEECCCChhhcCHHHHHHHHcCCCccCceEeCCccCCHHHHHhccCCCCHH
Confidence                   1247777777764212   1235543 58989999999999998  699999999999999999999999999


Q ss_pred             HHHHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          200 EVYEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       200 ~~~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      ++.++++.++++  |+. +..|+|+|+||||.++++++++++.+++++++.+|.|++.|||+++++
T Consensus       266 ~~~~~v~~lr~~~p~i~-i~~d~IvGfPgETeedf~~Tl~fl~~l~~~~~~~f~~sp~pGT~a~~~  330 (420)
T PRK14339        266 WFLNRAEKLRALVPEVS-ISTDIIVGFPGESDKDFEDTMDVLEKVRFEQIFSFKYSPRPLTEAAAW  330 (420)
T ss_pred             HHHHHHHHHHHHCCCCE-EEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeEecCCCCCCchhhC
Confidence            999999999998  665 899999999999999999999999999999999999999999999876

>smart00729 Elp3 Elongator protein 3, MiaB family, Radical SAM

Probab=99.92  E-value=8e-23  Score=191.69  Aligned_cols=207  Identities=36%  Similarity=0.623  Sum_probs=174.3

Q ss_pred             EEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           56 AYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        56 lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      +++++.- |+.+|.||......          .. .....++.+.++++...........++.++|+||+|.+.+.+.+.
T Consensus         3 ~~i~~t~~C~~~C~yC~~~~~~----------~~-~~~~~~e~i~~~~~~~~~~~~~~~~~~~i~~~gg~~~~~~~~~~~   71 (216)
T smart00729        3 ALYIITRGCPRRCTFCSFPSAR----------GK-LRSRYLEALVREIELLAEKGEKEILVGTVFIGGGTPTLLSPEQLE   71 (216)
T ss_pred             cEEEecCchhccCCcCCcCccc----------cc-hhHHHHHHHHHHHHHHHhcccCCcceeEEEECCCCCCCCCHHHHH
Confidence            4555555 99999999986542          12 456678888888887643321111478999999999987777799


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcC-C
Q 012112          135 SILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG-V  213 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G-~  213 (471)
                      ++++.+++.........+++.+|+..++++.++.|+++|+++++++++|+++++.+.++++.+.+++.++++.++++| +
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~tn~~~~~~~~~~~l~~~~~~~i~isl~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~g~~  151 (216)
T smart00729       72 ELLEAIREILGLADDVEITIETRPGTLTEELLEALKEAGVNRVSLGVQSGSDEVLKAINRGHTVEDVLEAVEKLREAGPI  151 (216)
T ss_pred             HHHHHHHHhCCCCCCeEEEEEeCcccCCHHHHHHHHHcCCCeEEEecccCCHHHHHHhcCCCCHHHHHHHHHHHHHhCCc
Confidence            999999987654335789999999889999999999999999999999999999999999999999999999999999 6


Q ss_pred             CeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHH
Q 012112          214 ENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQ  276 (471)
Q Consensus       214 ~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~  276 (471)
                      . +++.+|+|+|+++.+++.+.++++.++++++|.++.+.+.|||++++....  ...++..+
T Consensus       152 ~-v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~p~~~t~~~~~~~~--~~~~~~~~  211 (216)
T smart00729      152 K-VSTDLIVGLPGETEEDFEETLKLLKELGPDRVSIFPLSPRPGTPLAKLYKR--LKPPDKEE  211 (216)
T ss_pred             c-eEEeEEecCCCCCHHHHHHHHHHHHHcCCCeEEeeeeeeCCCChHHHhccc--CCCCChhh
Confidence            5 999999999999999999999999999999999999999999999988654  44454443

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

>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125

Probab=99.91  E-value=3.8e-23  Score=216.66  Aligned_cols=190  Identities=18%  Similarity=0.255  Sum_probs=152.2

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcC-CCCCC----
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG-GTPSL----  127 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGG-GTps~----  127 (471)
                      ...||++-- |+++|+||..+... |          ..+.+.++.+++||+.+.+..     ++.|+|.| .+...    
T Consensus       135 ~~~~i~~srGC~~~CsfC~~~~~~-G----------~~r~r~~e~Vv~Ei~~l~~~g-----~k~i~~~~~d~~~~g~d~  198 (430)
T TIGR01125       135 HYAYLKVAEGCNRRCAFCIIPSIR-G----------KLRSRPIEEILKEAERLVDQG-----VKEIILIAQDTTAYGKDL  198 (430)
T ss_pred             eEEEEEEccCCCCCCCcCCeeccc-C----------CceecCHHHHHHHHHHHHHCC-----CcEEEEEeECCCccccCC
Confidence            345666665 99999999887543 1          245567889999999775432     44455433 22221    


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCcEEEE-EecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHHHH
Q 012112          128 VPPRFVSSILDTLTDKFGLSLDAEISM-EMDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVYEA  204 (471)
Q Consensus       128 l~~~~l~~ll~~l~~~~~l~~~~eiti-E~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~~a  204 (471)
                      .+.+.+.+|++.|.+.-++   ..+++ .++|..++++.++.|+++|  +..+.+|+||+++++|+.|+|+++.+++.++
T Consensus       199 ~~~~~l~~Ll~~i~~~~~i---~~~r~~~~~p~~~~~ell~~~~~~~~~~~~l~iglES~s~~vLk~m~k~~~~~~~~~~  275 (430)
T TIGR01125       199 YRESKLVDLLEELGKVGGI---YWIRMHYLYPDELTDDVIDLMAEGPKVLPYLDIPLQHASDRILKLMRRPGSGEQQLDF  275 (430)
T ss_pred             CCcccHHHHHHHHHhcCCc---cEEEEccCCcccCCHHHHHHHhhCCcccCceEeCCCCCCHHHHhhCCCCCCHHHHHHH
Confidence            2346788999988764111   12333 3689999999999999996  8999999999999999999999999999999


Q ss_pred             HHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          205 IEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       205 i~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      ++.++++  |+. ++.|+|+|+||||.++++++++++.+++++++.+|.+++.|||+++++
T Consensus       276 i~~l~~~~~~i~-i~~~~I~G~PgET~e~~~~t~~fl~~~~~~~~~~~~~sp~pGT~~~~~  335 (430)
T TIGR01125       276 IERLREKCPDAV-LRTTFIVGFPGETEEDFQELLDFVEEGQFDRLGAFTYSPEEGTDAFAL  335 (430)
T ss_pred             HHHHHHhCCCCe-EeEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeeeccCCCCCccccC
Confidence            9999998  454 889999999999999999999999999999999999999999999875

This clade spans alpha and gamma proteobacteria, cyano bacteria, deinococcus, porphyromonas, aquifex, helicobacter, campylobacter, thermotoga, chlamydia, streptococcus coelicolor and clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes.

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

Probab=99.90  E-value=6.9e-23  Score=210.53  Aligned_cols=198  Identities=19%  Similarity=0.246  Sum_probs=158.5

Q ss_pred             CCCCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCC---CCeeEEEEcCCCC
Q 012112           50 QLSPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS---PPLETVFFGGGTP  125 (471)
Q Consensus        50 ~~~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~---~~v~~i~fGGGTp  125 (471)
                      .......||.|-- |.++|+||-.+...+           ..+.+.++.+++|++.+.+.+.+.   ...++--+|++++
T Consensus       140 ~~~~~~A~v~I~eGCn~~CtfCiiP~~RG-----------~~rSr~~e~Il~ev~~Lv~~G~kEI~L~gqdv~aYG~D~~  208 (437)
T COG0621         140 REGGVRAFVKIQEGCNKFCTFCIIPYARG-----------KERSRPPEDILKEVKRLVAQGVKEIVLTGQDVNAYGKDLG  208 (437)
T ss_pred             cCCCeEEEEEhhcCcCCCCCeeeeeccCC-----------CccCCCHHHHHHHHHHHHHCCCeEEEEEEEehhhccccCC
Confidence            3556778888888 999999999987643           345667788999998776543210   0123344566555


Q ss_pred             CCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHH
Q 012112          126 SLVPPRFVSSILDTLTDKFGLSLDAEISMEM-DPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVY  202 (471)
Q Consensus       126 s~l~~~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~  202 (471)
                      .  ....|.+|++.|.+.   .....+.+-. +|..++++.++++++..  ++.+.|.|||+||++|++|+|+|+.++..
T Consensus       209 ~--~~~~l~~Ll~~l~~I---~G~~riR~~~~~P~~~~d~lI~~~~~~~kv~~~lHlPvQsGsd~ILk~M~R~yt~e~~~  283 (437)
T COG0621         209 G--GKPNLADLLRELSKI---PGIERIRFGSSHPLEFTDDLIEAIAETPKVCPHLHLPVQSGSDRILKRMKRGYTVEEYL  283 (437)
T ss_pred             C--CccCHHHHHHHHhcC---CCceEEEEecCCchhcCHHHHHHHhcCCcccccccCccccCCHHHHHHhCCCcCHHHHH
Confidence            3  023577888887763   2344666665 99999999999999963  78999999999999999999999999999


Q ss_pred             HHHHHHHHc-CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          203 EAIEIVKLC-GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       203 ~ai~~~~~~-G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      +.++.+|++ .--.++.|+|+|+||||.++|++|++++.+.+++++.+|.|.+.||||.+.+
T Consensus       284 ~~i~k~R~~~Pd~~i~tDiIVGFPgETeedFe~tl~lv~e~~fd~~~~F~YSpRpGTpAa~~  345 (437)
T COG0621         284 EIIEKLRAARPDIAISTDIIVGFPGETEEDFEETLDLVEEVRFDRLHVFKYSPRPGTPAALM  345 (437)
T ss_pred             HHHHHHHHhCCCceEeccEEEECCCCCHHHHHHHHHHHHHhCCCEEeeeecCCCCCCccccC
Confidence            999999987 2234899999999999999999999999999999999999999999998843

>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.90  E-value=1.5e-22  Score=191.62  Aligned_cols=215  Identities=16%  Similarity=0.241  Sum_probs=171.4

Q ss_pred             EEEEeccC-CCcC--------CcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCC
Q 012112           55 SAYIHLPF-CRKR--------CHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTP  125 (471)
Q Consensus        55 ~lYiHIPF-C~~~--------C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTp  125 (471)
                      =+=+|.+| ||+|        |+||.-....  .      ........-.+.+.++++...+... ... -.+||...|-
T Consensus        25 Kv~ld~GF~CPNRDGti~rGGCtFC~~~g~~--d------~~~~~~~~i~~Q~~~q~~~~~kK~~-~~k-yiaYFQ~~TN   94 (312)
T COG1242          25 KVTLDGGFSCPNRDGTIGRGGCTFCSVAGSG--D------FAGQPKISIAEQFKEQAERMHKKWK-RGK-YIAYFQAYTN   94 (312)
T ss_pred             EEeccCCCCCCCCCCcccCCceeeecCCCCC--c------cccCcccCHHHHHHHHHHHHHHhhc-CCc-EEEEEecccc
Confidence            35578889 9976        9999754331  0      0001111223344445553333332 122 6799999999


Q ss_pred             CCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCC---EEEEccCCCCHHHHHHcCCCCCHHHHH
Q 012112          126 SLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN---RVSLGVQAFQDELLKSCGRAHGLKEVY  202 (471)
Q Consensus       126 s~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvn---rvsiGvQS~~d~~L~~l~R~~t~~~~~  202 (471)
                      |.-+.+.|++..+..-+   .....-++|-++|+.+.++.++.|.+..-+   .|.+|+||.++++++.+||+|+.+.+.
T Consensus        95 TyApvevLre~ye~aL~---~~~VVGLsIgTRPDClpd~VldlL~e~~~r~~vWvELGLQT~h~~Tlk~iNRgHd~~~y~  171 (312)
T COG1242          95 TYAPVEVLREMYEQALS---EAGVVGLSIGTRPDCLPDDVLDLLAEYNKRYEVWVELGLQTAHDKTLKRINRGHDFACYV  171 (312)
T ss_pred             ccCcHHHHHHHHHHHhC---cCCeeEEeecCCCCCCcHHHHHHHHHHhhheEEEEEeccchhhHHHHHHHhcccchHHHH
Confidence            99998888888765433   245568899999999999999999887532   479999999999999999999999999


Q ss_pred             HHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHH
Q 012112          203 EAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYR  282 (471)
Q Consensus       203 ~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~  282 (471)
                      +|+..+++.|++ |...+|+||||||.+++.+|++.+..++++-|-+++|.+.+||++.+++.+|++...+.++..+.--
T Consensus       172 dav~r~rkrgIk-vc~HiI~GLPgE~~~~mleTak~v~~~~v~GIKlH~LhvvkgT~m~k~Y~~G~l~~ls~eeYv~~~~  250 (312)
T COG1242         172 DAVKRLRKRGIK-VCTHLINGLPGETRDEMLETAKIVAELGVDGIKLHPLHVVKGTPMEKMYEKGRLKFLSLEEYVELVC  250 (312)
T ss_pred             HHHHHHHHcCCe-EEEEEeeCCCCCCHHHHHHHHHHHHhcCCceEEEEEEEEecCChHHHHHHcCCceeccHHHHHHHHH
Confidence            999999999997 9999999999999999999999999999999999999999999999999999999999888666443


Q ss_pred             H
Q 012112          283 M  283 (471)
Q Consensus       283 ~  283 (471)
                      .
T Consensus       251 d  251 (312)
T COG1242         251 D  251 (312)
T ss_pred             H
Confidence            3

>TIGR01578 MiaB-like-B MiaB-like tRNA modifying enzyme, archaeal-type

Probab=99.89  E-value=3.4e-22  Score=208.66  Aligned_cols=191  Identities=15%  Similarity=0.210  Sum_probs=150.1

Q ss_pred             CeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC--
Q 012112           53 PTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP--  129 (471)
Q Consensus        53 ~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~--  129 (471)
                      +...||.|-= |+++|+||..+... |          ..+.+.++.+++|++.+.+.     +++.|.|.|.+-+...  
T Consensus       132 ~~~~~i~isrGC~~~CsfC~ip~~~-G----------~~rsr~~e~Vl~Ei~~l~~~-----G~~ei~l~g~d~~~yg~d  195 (420)
T TIGR01578       132 PLIEIIPINQGCLGNCSYCITKHAR-G----------KLASYPPEKIVEKARQLVAE-----GCKEIWITSQDTGAYGRD  195 (420)
T ss_pred             CcEEEEEEccCCCCCCCCCccccCC-C----------CcccCCHHHHHHHHHHHHHC-----CCeEEEEEeeccccccCC
Confidence            4556777666 99999999887542 1          24456788999999987653     2566666543322221  


Q ss_pred             -HHHHHHHHHHHHHHcCCCCCcEEEEE-ecCC---CCCHHHHHHHHHCC-CCEEEEccCCCCHHHHHHcCCCCCHHHHHH
Q 012112          130 -PRFVSSILDTLTDKFGLSLDAEISME-MDPG---TFDARKMEELMDLG-VNRVSLGVQAFQDELLKSCGRAHGLKEVYE  203 (471)
Q Consensus       130 -~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~---~l~~e~l~~l~~~G-vnrvsiGvQS~~d~~L~~l~R~~t~~~~~~  203 (471)
                       ...+.++++.+.+.   .....+.+. ++|.   .++++.++.++..| ++.+++|+||+++++|+.|+|+++.+++.+
T Consensus       196 ~~~~l~~Ll~~l~~i---~~~~~ir~~~~~p~~~~~~~~~l~~~~~~~~~~~~l~iglQSgsd~iL~~m~R~~~~~~~~~  272 (420)
T TIGR01578       196 IGSRLPELLRLITEI---PGEFRLRVGMMNPKNVLEILDELANVYQHEKVYKFLHLPVQSGSDSVLKEMKREYTVSDFED  272 (420)
T ss_pred             CCcCHHHHHHHHHhC---CCCcEEEEcCCCCCcccccCHHHHHHHhcccccCceEeCCccCCHHHHHhcCCCCCHHHHHH
Confidence             12467777776653   222334444 3775   35789999888655 789999999999999999999999999999


Q ss_pred             HHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          204 AIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       204 ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      +++.++++  |+. ++.|+|+|+||||.++++++++++.++++++++++.|++.|||+++++
T Consensus       273 ~i~~i~~~~~~i~-i~~~~IvG~PgET~ed~~~t~~~~~~~~~~~i~~~~~~p~pGT~~~~~  333 (420)
T TIGR01578       273 IVDKFRERFPDLT-LSTDIIVGFPTETDDDFEETMELLRKYRPEKINITKFSPRPGTPAAKM  333 (420)
T ss_pred             HHHHHHHhCCCCE-EEeeEEEeCCCCCHHHHHHHHHHHHHhCCCEEEEEEeeCCCCCcccCC
Confidence            99999998  785 899999999999999999999999999999999999999999999875

This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by this model as well as ones falling within the scope of the MiaB equivalog model.

>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional

Probab=99.88  E-value=1.4e-21  Score=205.02  Aligned_cols=187  Identities=18%  Similarity=0.243  Sum_probs=147.7

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEc-CCCCC-----
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFG-GGTPS-----  126 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fG-GGTps-----  126 (471)
                      ...||.+-- |+++|+||..+... |          ..+.+.++.+++||+.+.+..     ++.|.|- ..+..     
T Consensus       139 ~~a~v~isrGCp~~CsFC~ip~~~-G----------~~rsr~~e~Vv~Ei~~l~~~g-----~kei~l~~~d~~~yg~d~  202 (440)
T PRK14862        139 HYAYLKISEGCNHRCTFCIIPSMR-G----------DLVSRPIGDVLREAERLVKAG-----VKELLVISQDTSAYGVDV  202 (440)
T ss_pred             cEEEEEeccCCCCCCccCCccccc-C----------CccccCHHHHHHHHHHHHHCC-----CceEEEEecChhhhcccc
Confidence            446666666 99999999887653 1          245677899999999875432     3334432 21110     


Q ss_pred             -----CC-C---HHHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCCCHHHHHHHHHCCCC--EEEEccCCCCHHHHHHcCC
Q 012112          127 -----LV-P---PRFVSSILDTLTDKFGLSLDAEISME-MDPGTFDARKMEELMDLGVN--RVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       127 -----~l-~---~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l~~e~l~~l~~~Gvn--rvsiGvQS~~d~~L~~l~R  194 (471)
                           ++ .   ...+.+|++.|.+. ++    .+.+. +.|..++++.++.|++ |+-  .+.||+||+++++|+.|+|
T Consensus       203 ~~~~~~~~~~~~~~~~~~Ll~~l~~~-~~----~~r~~~~~p~~~~dell~~m~~-g~~~~~l~IglESgs~~vLk~m~r  276 (440)
T PRK14862        203 KYRTGFWNGRPVKTRMTDLCEALGEL-GA----WVRLHYVYPYPHVDEVIPLMAE-GKILPYLDIPFQHASPRVLKRMKR  276 (440)
T ss_pred             ccccccccccchhhHHHHHHHHHHhc-CC----EEEEecCCCCcCCHHHHHHHhc-CCCccccccccccCCHHHHHhcCC
Confidence                 01 1   35788888888765 32    34444 4777788999999999 543  7999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhc
Q 012112          195 AHGLKEVYEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       195 ~~t~~~~~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~  263 (471)
                      .++.+++.++++.++++  |+. ++.|+|+|+||||.++++++++++.+++++++.++.|++.|||+.+++
T Consensus       277 ~~~~~~~~~~i~~lr~~~~~i~-i~t~~IvGfPgET~edf~~tl~fi~e~~~d~~~~f~ysP~pGT~a~~~  346 (440)
T PRK14862        277 PASVEKTLERIKKWREICPDLT-IRSTFIVGFPGETEEDFQMLLDFLKEAQLDRVGCFKYSPVEGATANDL  346 (440)
T ss_pred             CCCHHHHHHHHHHHHHHCCCce-ecccEEEECCCCCHHHHHHHHHHHHHcCCCeeeeEeecCCCCCchhhC
Confidence            99999999999999997  676 899999999999999999999999999999999999999999998643

>PRK06256 biotin synthase; Validated

Probab=99.86  E-value=1e-20  Score=192.28  Aligned_cols=210  Identities=14%  Similarity=0.113  Sum_probs=159.6

Q ss_pred             EEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHH
Q 012112           56 AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSS  135 (471)
Q Consensus        56 lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~  135 (471)
                      +++....|+.+|.||.++......       .........+.++++++...+...   .--.+..||+.|.....+.+.+
T Consensus        61 ~~~~s~~C~~~C~fC~~~~~~~~~-------~~~~~~~s~eeI~~~~~~~~~~g~---~~~~l~~~g~~p~~~~~~~~~e  130 (336)
T PRK06256         61 INAKSGLCPEDCGYCSQSAGSSAP-------VYRYAWLDIEELIEAAKEAIEEGA---GTFCIVASGRGPSGKEVDQVVE  130 (336)
T ss_pred             eeccCCCCCCCCccCCCcCCCCCC-------CceecCCCHHHHHHHHHHHHHCCC---CEEEEEecCCCCCchHHHHHHH
Confidence            344466799999999997643110       011222456778888876544321   1112334555565433356777


Q ss_pred             HHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCe
Q 012112          136 ILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVEN  215 (471)
Q Consensus       136 ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~  215 (471)
                      +++.+++..+      +.+.++.+.++++.++.|+++|++++.+|+|| ++++++.+++.|+.++..++++.++++|+. 
T Consensus       131 ~i~~i~~~~~------i~~~~~~g~l~~e~l~~LkeaG~~~v~~~lEt-s~~~~~~i~~~~t~~~~i~~i~~a~~~Gi~-  202 (336)
T PRK06256        131 AVKAIKEETD------LEICACLGLLTEEQAERLKEAGVDRYNHNLET-SRSYFPNVVTTHTYEDRIDTCEMVKAAGIE-  202 (336)
T ss_pred             HHHHHHhcCC------CcEEecCCcCCHHHHHHHHHhCCCEEecCCcc-CHHHHhhcCCCCCHHHHHHHHHHHHHcCCe-
Confidence            7777776532      33445677799999999999999999999999 999999999999999999999999999997 


Q ss_pred             eEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          216 WSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       216 v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      +++++|+|+ |||.+++.++++++.+++++.+.+..+.|.||||++..      +.++.++..++...++-.+..
T Consensus       203 v~~~~I~Gl-gEt~ed~~~~~~~l~~l~~~~v~i~~l~P~pGT~l~~~------~~~~~~e~l~~ia~~Rl~~p~  270 (336)
T PRK06256        203 PCSGGIIGM-GESLEDRVEHAFFLKELDADSIPINFLNPIPGTPLENH------PELTPLECLKTIAIFRLINPD  270 (336)
T ss_pred             eccCeEEeC-CCCHHHHHHHHHHHHhCCCCEEeecccccCCCCCCCCC------CCCCHHHHHHHHHHHHHHCCC
Confidence            999999998 99999999999999999999999999999999998753      345677777777766666543

>TIGR00433 bioB biotin synthetase

Probab=99.84  E-value=1.4e-19  Score=180.59  Aligned_cols=204  Identities=15%  Similarity=0.166  Sum_probs=154.7

Q ss_pred             cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEE--EEcCCCCCCCC-HHHHHHHH
Q 012112           61 PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETV--FFGGGTPSLVP-PRFVSSIL  137 (471)
Q Consensus        61 PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i--~fGGGTps~l~-~~~l~~ll  137 (471)
                      -.|+.+|.||.++......       ......+.++.+++|++...+.     ++..+  ..+|+.|..-. .+.+.++.
T Consensus        37 ~~C~~~C~fC~~~~~~~~~-------~~~~~~~~~eei~~~~~~~~~~-----g~~~~~l~~~g~~~~~~~~~~~~~~i~  104 (296)
T TIGR00433        37 GGCPEDCKYCSQSSRSKTG-------LPIERLKKVDEVLEEARKAKAA-----GATRFCLVASGRGPKDREFMEYVEAMV  104 (296)
T ss_pred             CCCCCCCcCCCCcccCCCC-------CccccCCCHHHHHHHHHHHHHC-----CCCEEEEEEecCCCChHHHHHHHHHHH
Confidence            4499999999987642100       0112223457788888765432     24443  45566664211 12344444


Q ss_pred             HHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeE
Q 012112          138 DTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWS  217 (471)
Q Consensus       138 ~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~  217 (471)
                      +.+++ .+      +.+.++++.+++|.++.|+++|++++++|+| +++++++.+++.|+.++..++++.++++|+. +.
T Consensus       105 ~~~~~-~~------i~~~~~~g~~~~e~l~~Lk~aG~~~v~i~~E-~~~~~~~~i~~~~s~~~~~~ai~~l~~~Gi~-v~  175 (296)
T TIGR00433       105 QIVEE-MG------LKTCATLGLLDPEQAKRLKDAGLDYYNHNLD-TSQEFYSNIISTHTYDDRVDTLENAKKAGLK-VC  175 (296)
T ss_pred             HHHHh-CC------CeEEecCCCCCHHHHHHHHHcCCCEEEEccc-CCHHHHhhccCCCCHHHHHHHHHHHHHcCCE-EE
Confidence            43332 22      2334567788999999999999999999999 8999999999999999999999999999997 99


Q ss_pred             eeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCC
Q 012112          218 LDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG  292 (471)
Q Consensus       218 ~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~G  292 (471)
                      +.+|+|+ ++|.+++.++++++.+++++.++++.+.|.|||++++      ...++.++..+....++..+...+
T Consensus       176 ~~~i~Gl-~et~~d~~~~~~~l~~l~~~~i~l~~l~p~~gT~l~~------~~~~s~~~~~~~ia~~r~~lp~~~  243 (296)
T TIGR00433       176 SGGIFGL-GETVEDRIGLALALANLPPESVPINFLVKIKGTPLAD------NKELSADDALKTIALARIIMPKAE  243 (296)
T ss_pred             EeEEEeC-CCCHHHHHHHHHHHHhCCCCEEEeeeeEEcCCCccCC------CCCCCHHHHHHHHHHHHHHCCcce
Confidence            9999998 9999999999999999999999999999999999875      346788888888888877765443

Catalyzes the last step of the biotin biosynthesis pathway.

>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.84  E-value=7e-20  Score=188.01  Aligned_cols=204  Identities=18%  Similarity=0.248  Sum_probs=161.2

Q ss_pred             ccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEE-cCCCCCCCCHHHHHHHHH
Q 012112           60 LPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFF-GGGTPSLVPPRFVSSILD  138 (471)
Q Consensus        60 IPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~f-GGGTps~l~~~~l~~ll~  138 (471)
                      --+|+.+|.||.|.... +         ........+.++++++.....     +++.+.+ ||++|+..+.+++.++++
T Consensus        81 Tn~C~~~C~YC~f~~~~-~---------~~~~~ls~eEI~~~a~~~~~~-----Gv~~i~lvgGe~p~~~~~e~l~~~i~  145 (371)
T PRK09240         81 SNYCANDCTYCGFSMSN-K---------IKRKTLDEEEIEREMAAIKKL-----GFEHILLLTGEHEAKVGVDYIRRALP  145 (371)
T ss_pred             cccccCcCCcCCCCCCC-C---------CccccCCHHHHHHHHHHHHhC-----CCCEEEEeeCCCCCCCCHHHHHHHHH
Confidence            35799999999996542 1         111233567788887765432     3777755 556677778899999999


Q ss_pred             HHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc---CCCCCHHHHHHHHHHHHHcCCCe
Q 012112          139 TLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC---GRAHGLKEVYEAIEIVKLCGVEN  215 (471)
Q Consensus       139 ~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai~~~~~~G~~~  215 (471)
                      .|++.++     +++++++|  ++.+.++.|+++|++|+++++||++++.++.+   +|.|+.++..++++.++++|+.+
T Consensus       146 ~Ik~~~p-----~i~i~~g~--lt~e~l~~Lk~aGv~r~~i~lET~~~~~~~~i~~~g~~h~~~~rl~~i~~a~~aG~~~  218 (371)
T PRK09240        146 IAREYFS-----SVSIEVQP--LSEEEYAELVELGLDGVTVYQETYNPATYAKHHLRGPKRDFEYRLETPERAGRAGIRK  218 (371)
T ss_pred             HHHHhCC-----CceeccCC--CCHHHHHHHHHcCCCEEEEEEecCCHHHHHHhCcCCCCCCHHHHHHHHHHHHHcCCCe
Confidence            9988753     56777655  89999999999999999999999999999998   57899999999999999999988


Q ss_pred             eEeeeecCCCCCCHHHHHHHHHHHHhCCCC------cEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          216 WSLDLISSLPHQTPQMWEESLRRTVGAQPK------HVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       216 v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~------his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      |++++|+|+ |++.++....+..+.++++.      .|++-.|+|.+| ++...      ...++++..++...++-.|.
T Consensus       219 v~~g~i~Gl-ge~~~d~~~~a~~l~~L~~~~~~~~~sv~~~~l~P~~g-~~~~~------~~~~~~e~l~~ia~~Rl~lP  290 (371)
T PRK09240        219 IGLGALLGL-SDWRTDALMTALHLRYLQRKYWQAEYSISFPRLRPCTG-GIEPA------SIVSDKQLVQLICAFRLFLP  290 (371)
T ss_pred             eceEEEecC-CccHHHHHHHHHHHHHHHHhCCCCceeeecCccccCCC-CCCCC------CCCCHHHHHHHHHHHHHHCc
Confidence            999999999 56888888888877777653      688889999999 86432      34677777887777777776


Q ss_pred             HCCC
Q 012112          290 SAGY  293 (471)
Q Consensus       290 ~~Gy  293 (471)
                      ..+.
T Consensus       291 ~~~i  294 (371)
T PRK09240        291 DVEI  294 (371)
T ss_pred             cccc
Confidence            6554

>TIGR02351 thiH thiazole biosynthesis protein ThiH

Probab=99.82  E-value=4e-19  Score=182.24  Aligned_cols=213  Identities=14%  Similarity=0.204  Sum_probs=157.2

Q ss_pred             CCCeEEEEec---cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEE-cCCCCC
Q 012112           51 LSPTSAYIHL---PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFF-GGGTPS  126 (471)
Q Consensus        51 ~~~~~lYiHI---PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~f-GGGTps  126 (471)
                      +..+.+|+.|   ..|+.+|.||.|.... +         .....-..+.+.++++.....     ++..+++ ||++|+
T Consensus        68 G~~v~l~~~i~~Tn~C~~~C~yC~~s~~~-~---------~~~~~Ls~eEI~~~a~~~~~~-----Gv~~i~lvgGe~p~  132 (366)
T TIGR02351        68 GNTISLFTPLYLSNYCSNKCVYCGFSMSN-K---------IKRKKLNEEEIEREIEAIKKS-----GFKEILLVTGESEK  132 (366)
T ss_pred             CCEEEEEeeeeECccccCCCCcCCCCCCC-C---------CccCcCCHHHHHHHHHHHHhC-----CCCEEEEeeCCCCC
Confidence            3445666666   6699999999996431 0         000111246666666655432     2566654 566898


Q ss_pred             CCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC---CCCCHHHHHH
Q 012112          127 LVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG---RAHGLKEVYE  203 (471)
Q Consensus       127 ~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~---R~~t~~~~~~  203 (471)
                      ..+.+++.++++.+++.++     ++++|++|  ++.+.++.|+++|++|+++|+||+|++.++.+.   +.|+.++..+
T Consensus       133 ~~~~e~l~eii~~Ik~~~p-----~i~Iei~~--lt~e~~~~Lk~aGv~r~~i~lET~~~~~y~~i~~~g~~h~~~~rl~  205 (366)
T TIGR02351       133 AAGVEYIAEAIKLAREYFS-----SLAIEVQP--LNEEEYKKLVEAGLDGVTVYQETYNEKKYKKHHLAGKKKDFRYRLN  205 (366)
T ss_pred             CCCHHHHHHHHHHHHHhCC-----cccccccc--CCHHHHHHHHHcCCCEEEEEeecCCHHHHHhcCcCCCCCCHHHHHH
Confidence            8899999999999998763     45677765  899999999999999999999999999999975   8999999999


Q ss_pred             HHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCC------CcEEEEeccccCCChhhhcccCCCCCCCCHHHH
Q 012112          204 AIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQP------KHVSVYDLQVEQGTKFGILYTPGEFPLPTETQS  277 (471)
Q Consensus       204 ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p------~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~  277 (471)
                      +++.++++|+.+|++++|+|+|+ +.++...+...+..++.      ..|++-.|.|.+| ++...      ...++.+.
T Consensus       206 ~i~~a~~aG~~~v~~g~i~Gl~e-~~~d~~~~a~~l~~L~~~~~~~~~sv~~~~l~P~~g-~~~~~------~~l~~~~~  277 (366)
T TIGR02351       206 TPERAAKAGMRKIGIGALLGLDD-WRTDAFFTAYHLRYLQKKYWKTEISISVPRLRPCTN-GLKPK------VIVTDREL  277 (366)
T ss_pred             HHHHHHHcCCCeeceeEEEeCch-hHHHHHHHHHHHHHHHHHcCCCCccccccccccCCC-CCCCC------CcCCHHHH
Confidence            99999999998899999999975 55555555555444543      5788888999988 76432      23456666


Q ss_pred             HHHHHHHHHHHHHCCC
Q 012112          278 ANFYRMASSMLSSAGY  293 (471)
Q Consensus       278 ~~~~~~~~~~L~~~Gy  293 (471)
                      .++....+-.+...+.
T Consensus       278 ~~~i~~~R~~~P~~~i  293 (366)
T TIGR02351       278 VQIICAYRLFDPFVEI  293 (366)
T ss_pred             HHHHHHHHHhCccccc
Confidence            6666666666655554

Members this protein family are the ThiH protein of thiamine biosynthesis, a homolog of the BioB protein of biotin biosynthesis. Genes for the this protein generally are found in operons with other thiamin biosynthesis genes.

>TIGR03551 F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit

Probab=99.81  E-value=6.5e-19  Score=179.41  Aligned_cols=211  Identities=15%  Similarity=0.191  Sum_probs=163.7

Q ss_pred             EEeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           57 YIHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        57 YiHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      .++|.+   |+.+|.||.+......         ........+.++++++.....     ++..|+|.||+...++.+.+
T Consensus        40 ~~~i~~T~~C~~~C~FC~~~~~~~~---------~~~y~ls~eeI~e~~~~~~~~-----G~~~i~l~gG~~p~~~~~~~  105 (343)
T TIGR03551        40 NRNINFTNVCYGGCGFCAFRKRKGD---------ADAYLLSLEEIAERAAEAWKA-----GATEVCIQGGIHPDLDGDFY  105 (343)
T ss_pred             eeccccccccccCCccCCCccCCCC---------CCcccCCHHHHHHHHHHHHHC-----CCCEEEEEeCCCCCCCHHHH
Confidence            345665   9999999999754210         111124677888888766542     37889998887666788999


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEe---------cCCCCCHHHHHHHHHCCCCEEE-EccCCCCHHHHHHcCCCC-CHHHHH
Q 012112          134 SSILDTLTDKFGLSLDAEISMEM---------DPGTFDARKMEELMDLGVNRVS-LGVQAFQDELLKSCGRAH-GLKEVY  202 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~---------~P~~l~~e~l~~l~~~Gvnrvs-iGvQS~~d~~L~~l~R~~-t~~~~~  202 (471)
                      .++++.|++.+   ++.+|.+.+         +.+.+++|.++.|+++|++++. .|.+++++++++.+.+.+ +.++..
T Consensus       106 ~~i~~~Ik~~~---~~i~~~~~t~~ei~~~~~~~g~~~~e~l~~LkeAGl~~i~~~~~E~~~~~v~~~i~~~~~~~~~~~  182 (343)
T TIGR03551       106 LDILRAVKEEV---PGMHIHAFSPMEVYYGARNSGLSVEEALKRLKEAGLDSMPGTAAEILDDEVRKVICPDKLSTAEWI  182 (343)
T ss_pred             HHHHHHHHHHC---CCceEEecCHHHHHHHHHHcCCCHHHHHHHHHHhCcccccCcchhhcCHHHHHhcCCCCCCHHHHH
Confidence            99999999875   234555431         4567789999999999999997 578999999999999875 999999


Q ss_pred             HHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccC----CChhhhcccCCCCCCCCHHHHH
Q 012112          203 EAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQ----GTKFGILYTPGEFPLPTETQSA  278 (471)
Q Consensus       203 ~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~p----gT~l~~~~~~g~~~~p~~~~~~  278 (471)
                      ++++.++++|+. ++..+|+|+| ||.++..+++.++.+++++...+..+.|.|    ||++++..  ...+..+.++..
T Consensus       183 ~~i~~a~~~Gi~-v~s~~i~G~~-Et~ed~~~~l~~lr~l~~~~~~~~~~iP~~f~~~gT~l~~~~--~~~~~~~~~~~l  258 (343)
T TIGR03551       183 EIIKTAHKLGIP-TTATIMYGHV-ETPEHWVDHLLILREIQEETGGFTEFVPLPFVHYNAPLYLKG--MARPGPTGREDL  258 (343)
T ss_pred             HHHHHHHHcCCc-ccceEEEecC-CCHHHHHHHHHHHHHhhHHhCCeeEEEeccccCCCCcccccc--CCCCCCCHHHHH
Confidence            999999999998 8999999986 999999999999999999887777777755    99997531  111234677777


Q ss_pred             HHHHHHHHHH
Q 012112          279 NFYRMASSML  288 (471)
Q Consensus       279 ~~~~~~~~~L  288 (471)
                      ++...++-.|
T Consensus       259 r~iAv~Rl~l  268 (343)
T TIGR03551       259 KVHAIARILL  268 (343)
T ss_pred             HHHHHHHHhC
Confidence            7777666555

This enzyme, together with CofG, complete the biosynthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, the chromophore of coenzyme F420. The chromophore is also used in cyanobacteria DNA photolyases.

>cd01335 Radical_SAM Radical SAM superfamily

Probab=99.80  E-value=2.4e-18  Score=159.11  Aligned_cols=179  Identities=23%  Similarity=0.384  Sum_probs=147.1

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTD  142 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~  142 (471)
                      |+.+|.||..........         ......+.+.+.+....     ...+..++++||+|...+  .+.++++.+++
T Consensus         7 C~~~C~fC~~~~~~~~~~---------~~~~~~~~~~~~~~~~~-----~~~~~~i~~~ggep~~~~--~~~~~i~~~~~   70 (204)
T cd01335           7 CNLNCGFCSNPASKGRGP---------ESPPEIEEILDIVLEAK-----ERGVEVVILTGGEPLLYP--ELAELLRRLKK   70 (204)
T ss_pred             cCCcCCCCCCCCCCCCCc---------cccccHHHHHHHHHHHH-----hcCceEEEEeCCcCCccH--hHHHHHHHHHh
Confidence            999999999876532211         01111122222222222     123688999999998744  77788888877


Q ss_pred             HcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC-CCCCHHHHHHHHHHHHHcCCCeeEeeee
Q 012112          143 KFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG-RAHGLKEVYEAIEIVKLCGVENWSLDLI  221 (471)
Q Consensus       143 ~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~-R~~t~~~~~~ai~~~~~~G~~~v~~DlI  221 (471)
                      ..   .+..+++.+++..++++.++.|+++|+.++.+|++|.+++.++.++ +..+.+++.++++.+++.|+. +.+.+|
T Consensus        71 ~~---~~~~~~i~T~~~~~~~~~~~~l~~~g~~~i~i~le~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-~~~~~i  146 (204)
T cd01335          71 EL---PGFEISIETNGTLLTEELLKELKELGLDGVGVSLDSGDEEVADKIRGSGESFKERLEALKELREAGLG-LSTTLL  146 (204)
T ss_pred             hC---CCceEEEEcCcccCCHHHHHHHHhCCCceEEEEcccCCHHHHHHHhcCCcCHHHHHHHHHHHHHcCCC-ceEEEE
Confidence            64   4568999999988899999999999999999999999999999998 788999999999999999997 999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhCC-CCcEEEEeccccCCChhh
Q 012112          222 SSLPHQTPQMWEESLRRTVGAQ-PKHVSVYDLQVEQGTKFG  261 (471)
Q Consensus       222 ~GlPgqT~e~~~~~l~~~~~l~-p~his~y~l~~~pgT~l~  261 (471)
                      +|.|+++.+++.++++.+.++. ++.++++.+.+.|||+++
T Consensus       147 ~g~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~~~t~~~  187 (204)
T cd01335         147 VGLGDEDEEDDLEELELLAEFRSPDRVSLFRLLPEEGTPLE  187 (204)
T ss_pred             EecCCChhHHHHHHHHHHHhhcCcchhhhhhhcccCCCeee
Confidence            9999999999999999999998 999999999999999998

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

>TIGR00423 radical SAM domain protein, CofH subfamily

Probab=99.78  E-value=5.2e-18  Score=170.38  Aligned_cols=209  Identities=13%  Similarity=0.196  Sum_probs=156.7

Q ss_pred             EeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           58 IHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        58 iHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      .||+|   |+.+|.||.|......         ........+.++++++.....     ++..|.|.||....++.+.+.
T Consensus         7 ~~i~~T~~C~~~C~FC~~~~~~~~---------~~~~~ls~eeI~~~~~~~~~~-----G~~~i~l~gg~~~~~~~~~~~   72 (309)
T TIGR00423         7 RNINFTNICVGKCKFCAFRAREKD---------KDAYVLSLEEILEKVKEAVAK-----GATEVCIQGGLNPQLDIEYYE   72 (309)
T ss_pred             eeecCccccccCCccCCCccCCCC---------CCcccCCHHHHHHHHHHHHHC-----CCCEEEEecCCCCCCCHHHHH
Confidence            45555   9999999999754210         111234567788888765432     367888888765456888999


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEe---------cCCCCCHHHHHHHHHCCCCEEE-EccCCCCHHHHHHc-CCCCCHHHHHH
Q 012112          135 SILDTLTDKFGLSLDAEISMEM---------DPGTFDARKMEELMDLGVNRVS-LGVQAFQDELLKSC-GRAHGLKEVYE  203 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~---------~P~~l~~e~l~~l~~~Gvnrvs-iGvQS~~d~~L~~l-~R~~t~~~~~~  203 (471)
                      ++++.|++.+.   ...+..-+         ..+..+++.++.|+++|++++. .|+|++++++++.+ .+..+.++..+
T Consensus        73 ~i~~~Ik~~~~---~i~~~~~s~~e~~~~~~~~g~~~~e~l~~LkeAGl~~i~~~g~E~l~~~~~~~i~~~~~t~~~~l~  149 (309)
T TIGR00423        73 ELFRAIKQEFP---DVHIHAFSPMEVYFLAKNEGLSIEEVLKRLKKAGLDSMPGTGAEILDDSVRRKICPNKLSSDEWLE  149 (309)
T ss_pred             HHHHHHHHHCC---CceEEecCHHHHHHHHHHcCCCHHHHHHHHHHcCCCcCCCCcchhcCHHHHHhhCCCCCCHHHHHH
Confidence            99999998752   23343221         2333468999999999999995 79999999999988 55679999999


Q ss_pred             HHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecccc----CCCh-hhhcccCCCCCCCCHHHHH
Q 012112          204 AIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVE----QGTK-FGILYTPGEFPLPTETQSA  278 (471)
Q Consensus       204 ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~----pgT~-l~~~~~~g~~~~p~~~~~~  278 (471)
                      +++.++++|++ ++..+|+|+| ||.++..+++..+.+++++...+..+.|.    +||| +...    ..+.++..+..
T Consensus       150 ~i~~a~~~Gi~-~~s~~iiG~~-Et~ed~~~~l~~lr~l~~~~~~f~~fiP~~f~~~~t~~l~~~----~~~~~~~~e~l  223 (309)
T TIGR00423       150 VIKTAHRLGIP-TTATMMFGHV-ENPEHRVEHLLRIRKIQEKTGGFTEFIPLPFQPENNPYLEGE----VRKGASGIDDL  223 (309)
T ss_pred             HHHHHHHcCCC-ceeeEEecCC-CCHHHHHHHHHHHHhhchhhCCeeeEEeeeecCCCChhhccC----CCCCCCHHHHH
Confidence            99999999998 8999999986 89999999999999999887666555553    5788 5321    12446777777


Q ss_pred             HHHHHHHHHHH
Q 012112          279 NFYRMASSMLS  289 (471)
Q Consensus       279 ~~~~~~~~~L~  289 (471)
                      ++...++-.|.
T Consensus       224 r~iA~~Rl~lp  234 (309)
T TIGR00423       224 KVIAISRILLN  234 (309)
T ss_pred             HHHHHHHHhcC
Confidence            77777766664

This protein family includes the CofH protein of coenzyme F(420) biosynthesis from Methanocaldococcus jannaschii, but appears to hit genomes more broadly than just the subset that make coenzyme F(420), so that narrower group is being built as a separate family.

>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family

Probab=99.78  E-value=2.1e-18  Score=175.57  Aligned_cols=212  Identities=15%  Similarity=0.191  Sum_probs=155.1

Q ss_pred             EEEeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           56 AYIHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        56 lYiHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      ++.+|.+   |+.+|.||.|+.....         ........+.++++++...+     .++..++|.||.+..++.+.
T Consensus        41 ~~~~i~~s~~C~~~C~fC~~~~~~~~---------~~~~~ls~eei~~~~~~~~~-----~G~~~i~l~gG~~p~~~~~~  106 (340)
T TIGR03699        41 VDRNINYTNICVVGCKFCAFYRAPGH---------PEGYVLSVEEILQKIEELVA-----YGGTQILLQGGVNPDLGLDY  106 (340)
T ss_pred             eecccccchhhccCCccCCcccCCCC---------ccccCCCHHHHHHHHHHHHH-----cCCcEEEEecCCCCCCCHHH
Confidence            4455544   9999999997643210         01112345667777765543     23788899888665678899


Q ss_pred             HHHHHHHHHHHc-CCCCC----cEEEEEecC-CCCCHHHHHHHHHCCCCEEE-EccCCCCHHHHHHcCC-CCCHHHHHHH
Q 012112          133 VSSILDTLTDKF-GLSLD----AEISMEMDP-GTFDARKMEELMDLGVNRVS-LGVQAFQDELLKSCGR-AHGLKEVYEA  204 (471)
Q Consensus       133 l~~ll~~l~~~~-~l~~~----~eitiE~~P-~~l~~e~l~~l~~~Gvnrvs-iGvQS~~d~~L~~l~R-~~t~~~~~~a  204 (471)
                      +.++++.|++.+ .+...    .|+...+.. +..+++.++.|+++|++++. .|+|++++++++.+.+ ..+.++..++
T Consensus       107 ~~~li~~Ik~~~~~i~~~~~s~~ei~~~~~~~g~~~~e~l~~Lk~aG~~~~~~~g~E~~~~~~~~~~~~~~~s~~~~l~~  186 (340)
T TIGR03699       107 YEDLFRAIKARFPHIHIHSFSPVEIVYIAKKEGLSLREVLERLKEAGLDSIPGGGAEILSDRVRKIISPKKISSEEWLEV  186 (340)
T ss_pred             HHHHHHHHHHHCCCcCCCCCCHHHHHHHhccCCCCHHHHHHHHHHcCCCcCCCCcccccCHHHHHhhCCCCCCHHHHHHH
Confidence            999999998865 22210    111111111 22359999999999999998 5899999999999865 5799999999


Q ss_pred             HHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccc----cCCChhhhcccCCCCCCCCHHHHHHH
Q 012112          205 IEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQV----EQGTKFGILYTPGEFPLPTETQSANF  280 (471)
Q Consensus       205 i~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~----~pgT~l~~~~~~g~~~~p~~~~~~~~  280 (471)
                      ++.++++|+. ++..+|+|+ |||.+++.+.+..+.+++++.+.+..+.|    .+|||+...      +.++.++..++
T Consensus       187 i~~a~~~Gi~-v~~~~iiGl-gEt~ed~~~~l~~l~~l~~~~~~~~~fIP~~f~p~~tpl~~~------~~~~~~e~l~~  258 (340)
T TIGR03699       187 METAHKLGLP-TTATMMFGH-VETLEDRIEHLERIRELQDKTGGFTAFIPWTFQPGNTELGKK------RPATSTEYLKV  258 (340)
T ss_pred             HHHHHHcCCC-ccceeEeeC-CCCHHHHHHHHHHHHHhchhhCCeeEEEeecccCCCCcccCC------CCCCHHHHHHH
Confidence            9999999998 999999996 99999999999999999998766655554    269998653      34566777777


Q ss_pred             HHHHHHHHH
Q 012112          281 YRMASSMLS  289 (471)
Q Consensus       281 ~~~~~~~L~  289 (471)
                      ...++-.|.
T Consensus       259 iA~~Rl~lp  267 (340)
T TIGR03699       259 LAISRIFLD  267 (340)
T ss_pred             HHHHHHcCC
Confidence            776666653

members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.

>PRK06245 cofG FO synthase subunit 1; Reviewed

Probab=99.76  E-value=7.6e-18  Score=171.22  Aligned_cols=210  Identities=19%  Similarity=0.250  Sum_probs=150.3

Q ss_pred             EEEeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           56 AYIHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        56 lYiHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      ...+|++   |+.+|.||.|+.....          . .....+.++++++...+.     ++..+.|.||.+..+..+.
T Consensus        12 ~~~~i~~Tn~C~~~C~fC~~~~~~~~----------~-~~ls~eei~~~~~~~~~~-----G~~ei~l~gG~~p~~~~~~   75 (336)
T PRK06245         12 RNVFIPLTYECRNRCGYCTFRRDPGQ----------P-SLLSPEEVKEILRRGADA-----GCTEALFTFGEVPDESYER   75 (336)
T ss_pred             cceeeeccccccCCCccCCCcCCCCc----------c-CcCCHHHHHHHHHHHHHC-----CCCEEEEecCCCCccchhh
Confidence            3455555   9999999998764311          1 144567788888766543     2566777766653334111


Q ss_pred             ---------HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC---CCCHHH
Q 012112          133 ---------VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR---AHGLKE  200 (471)
Q Consensus       133 ---------l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R---~~t~~~  200 (471)
                               ...+++.+++.........+...++|+.++++.++.|+++|+. +.+.+||+++.+++.++|   .++.++
T Consensus        76 ~~~~~~~~g~~~~~~~i~~i~~~~~~~g~~~~~~~~~lt~e~i~~Lk~ag~~-l~~~~et~~e~l~~~v~~~~~~~~~~~  154 (336)
T PRK06245         76 IKEQLAEMGYSSILEYLYDLCELALEEGLLPHTNAGILTREEMEKLKEVNAS-MGLMLEQTSPRLLNTVHRGSPGKDPEL  154 (336)
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHHHhhcCCCccccCCCCCHHHHHHHHHhCCC-CCCCccccchhhHHhhccCCCCCCHHH
Confidence                     1222222222110000001223478999999999999999864 577789999999988855   556888


Q ss_pred             HHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCC-----CCcEEEEeccccCCChhhhcccCCCCCCCCHH
Q 012112          201 VYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQ-----PKHVSVYDLQVEQGTKFGILYTPGEFPLPTET  275 (471)
Q Consensus       201 ~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~-----p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~  275 (471)
                      ..++++.+++.|+. ++.++|+|+ |||.+++.+++..+.+++     ++.++++.|.+.+||++...      ..++.+
T Consensus       155 ~l~~i~~a~~~Gi~-~~~~~i~G~-gEt~ed~~~~l~~l~~l~~~~gg~~~~~~~~f~P~~~T~~~~~------~~~s~~  226 (336)
T PRK06245        155 RLETIENAGKLKIP-FTTGILIGI-GETWEDRAESLEAIAELHERYGHIQEVIIQNFSPKPGIPMENH------PEPSLE  226 (336)
T ss_pred             HHHHHHHHHHcCCc-eeeeeeeEC-CCCHHHHHHHHHHHHHHHHhhCCCcEEecCCCcCCCCCCcccC------CCcCHH
Confidence            99999999999998 999999999 999999999999998885     57899999999999998532      357788


Q ss_pred             HHHHHHHHHHHHHHH
Q 012112          276 QSANFYRMASSMLSS  290 (471)
Q Consensus       276 ~~~~~~~~~~~~L~~  290 (471)
                      +..+++..++..|..
T Consensus       227 e~l~~ia~~Rl~l~~  241 (336)
T PRK06245        227 EMLRVVALARLILPP  241 (336)
T ss_pred             HHHHHHHHHHHHCCC
Confidence            888888888877643

>PRK08445 hypothetical protein; Provisional

Probab=99.76  E-value=2.4e-17  Score=167.68  Aligned_cols=224  Identities=13%  Similarity=0.179  Sum_probs=159.1

Q ss_pred             eEEEEe---ccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCC
Q 012112           54 TSAYIH---LPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSL  127 (471)
Q Consensus        54 ~~lYiH---IPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~  127 (471)
                      ..+|+.   |.+   |+.+|.||+|+.....        .... ....+.+++.++......     ...|++.||.+..
T Consensus        37 v~~~~~~~~in~Tn~C~~~C~FCa~~~~~~~--------~~~y-~l~~eeI~~~~~~a~~~g-----~~~i~~~gg~~~~  102 (348)
T PRK08445         37 ITTFIVDRNINYTNICWVDCKFCAFYRHLKE--------DDAY-ILSFEEIDKKIEELLAIG-----GTQILFQGGVHPK  102 (348)
T ss_pred             EEEEecccccccccccccCCccCCCccCCCC--------CCCe-eCCHHHHHHHHHHHHHcC-----CCEEEEecCCCCC
Confidence            444444   665   9999999999764210        0111 113455555555443322     4577888777777


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCcEEEEEe--------cCCCCC-HHHHHHHHHCCCCEEE-EccCCCCHHHHHHc-CCCC
Q 012112          128 VPPRFVSSILDTLTDKFGLSLDAEISMEM--------DPGTFD-ARKMEELMDLGVNRVS-LGVQAFQDELLKSC-GRAH  196 (471)
Q Consensus       128 l~~~~l~~ll~~l~~~~~l~~~~eitiE~--------~P~~l~-~e~l~~l~~~Gvnrvs-iGvQS~~d~~L~~l-~R~~  196 (471)
                      ++.+.+.++++.|++.++   +..+..-.        .-..++ +|.++.|+++|++++. +|+||+++++++.+ .+..
T Consensus       103 ~~~e~~~~l~~~Ik~~~p---~i~~~a~s~~ei~~~a~~~~~~~~e~L~~LkeAGl~~~~g~glE~~~d~v~~~~~pk~~  179 (348)
T PRK08445        103 LKIEWYENLVSHIAQKYP---TITIHGFSAVEIDYIAKISKISIKEVLERLQAKGLSSIPGAGAEILSDRVRDIIAPKKL  179 (348)
T ss_pred             CCHHHHHHHHHHHHHHCC---CcEEEEccHHHHHHHHHHhCCCHHHHHHHHHHcCCCCCCCCceeeCCHHHHHhhCCCCC
Confidence            899999999999999874   22332211        112233 8999999999999995 89999999999999 6788


Q ss_pred             CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecc----ccCCChhhhcccCCCCCCC
Q 012112          197 GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQ----VEQGTKFGILYTPGEFPLP  272 (471)
Q Consensus       197 t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~----~~pgT~l~~~~~~g~~~~p  272 (471)
                      +.++..++++.++++|++ ++..+|+|+ |||.++..+.+..+.+++++...+..+.    +.+|||++...  .....+
T Consensus       180 t~~~~i~~i~~a~~~Gi~-~~sg~i~G~-~Et~edr~~~l~~lreLq~~~~g~~~fi~~~~~p~~tpl~~~~--~~~~~~  255 (348)
T PRK08445        180 DSDRWLEVHRQAHLIGMK-STATMMFGT-VENDEEIIEHWERIRDLQDETGGFRAFILWSFQPDNTPLKEEI--PEIKKQ  255 (348)
T ss_pred             CHHHHHHHHHHHHHcCCe-eeeEEEecC-CCCHHHHHHHHHHHHHHHHHhCCeeEEeccccCCCCCcccccC--CCCCCC
Confidence            999999999999999998 999999997 6999999999999999998764444422    45899997532  122335


Q ss_pred             CHHHHHHHHHHHHHHHHHCCCceecccc
Q 012112          273 TETQSANFYRMASSMLSSAGYRHYEISS  300 (471)
Q Consensus       273 ~~~~~~~~~~~~~~~L~~~Gy~~yeis~  300 (471)
                      +.++..++...++-.|.  ++.+...++
T Consensus       256 ~~~e~Lr~iAv~Rl~l~--~~~~i~a~~  281 (348)
T PRK08445        256 SSNRYLRLLAVSRLFLD--NFKNIQSSW  281 (348)
T ss_pred             CHHHHHHHHHHHHHhCC--CCCCccCCC
Confidence            66666666665555553  255554443

>PRK06267 hypothetical protein; Provisional

Probab=99.76  E-value=4.5e-17  Score=166.05  Aligned_cols=199  Identities=18%  Similarity=0.217  Sum_probs=158.8

Q ss_pred             CCC--cCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHH
Q 012112           62 FCR--KRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDT  139 (471)
Q Consensus        62 FC~--~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~  139 (471)
                      +|+  .+|.||.++......      .......+.++.+++|++.....     .++.+++.||.+  ++.+.+.++++.
T Consensus        36 ~C~l~~~C~FC~~s~~~~~i------~~~~~~~~s~eeI~eea~~~~~~-----Gv~~~~lsgG~~--~~~~el~~i~e~  102 (350)
T PRK06267         36 YCNLKGPCKFCYMSTQKDKI------KDPLKARRRVESILAEAILMKRI-----GWKLEFISGGYG--YTTEEINDIAEM  102 (350)
T ss_pred             CCcCCCCCcCCCCcccCCcc------CccccccCCHHHHHHHHHHHHHc-----CCCEEEEecCCC--CCHHHHHHHHHH
Confidence            499  899999997642100      01122345688899999876543     256677888887  578889999999


Q ss_pred             HHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEee
Q 012112          140 LTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLD  219 (471)
Q Consensus       140 l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~D  219 (471)
                      +++.-+      ..+.++.+.++.+.+..++.+|+   ..|+||+++++++.+.+.++.++..++++.++++|+. +++.
T Consensus       103 I~~~~~------~~~~~s~G~~d~~~~~~~~l~Gv---~g~~ET~~~~~~~~i~~~~s~ed~~~~l~~ak~aGi~-v~~g  172 (350)
T PRK06267        103 IAYIQG------CKQYLNVGIIDFLNINLNEIEGV---VGAVETVNPKLHREICPGKPLDKIKEMLLKAKDLGLK-TGIT  172 (350)
T ss_pred             HHHhhC------CceEeecccCCHHHHhhccccCc---eeeeecCCHHHHHhhCCCCCHHHHHHHHHHHHHcCCe-eeee
Confidence            987532      12334566678877777777775   5799999999999999999999999999999999998 8999


Q ss_pred             eecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          220 LISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       220 lI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      +|+|+ |||.+++.++++++.+++++.++++.|+|.|||++...      +.++.++..++...++-.|-.
T Consensus       173 ~IiGl-gEt~ed~~~~l~~l~~l~~d~v~~~~L~P~pGTp~~~~------~~~s~~e~lr~ia~~Rl~lP~  236 (350)
T PRK06267        173 IILGL-GETEDDIEKLLNLIEELDLDRITFYSLNPQKGTIFENK------PSVTTLEYMNWVSSVRLNFPK  236 (350)
T ss_pred             EEEeC-CCCHHHHHHHHHHHHHcCCCEEEEEeeeECCCCcCCCC------CCCCHHHHHHHHHHHHHHCCC
Confidence            99996 99999999999999999999999999999999998653      457888888888877776653

>TIGR03700 mena_SCO4494 putative menaquinone biosynthesis protein, SCO4494 family

Probab=99.75  E-value=2.4e-17  Score=168.25  Aligned_cols=216  Identities=14%  Similarity=0.215  Sum_probs=161.8

Q ss_pred             EeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           58 IHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        58 iHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      .+|++   |+.+|.||+|......        .... ....+.++++++....     .++..+++.||..--++.+.+.
T Consensus        50 ~~in~Tn~C~~~C~FCa~~~~~~~--------~~~y-~l~~eeI~~~a~~~~~-----~G~~~v~l~~G~~p~~~~~~~~  115 (351)
T TIGR03700        50 RHLNYTNICVNGCAFCAFQRERGE--------PGAY-AMSLEEIVARVKEAYA-----PGATEVHIVGGLHPNLPFEWYL  115 (351)
T ss_pred             CCcccccccccCCccCceeCCCCC--------cccC-CCCHHHHHHHHHHHHH-----CCCcEEEEecCCCCCCCHHHHH
Confidence            34555   9999999999754210        0011 1235777777775543     2367778877764346788999


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEe-----------cCCCCCHHHHHHHHHCCCCEEE-EccCCCCHHHHHHcCCCC-CHHHH
Q 012112          135 SILDTLTDKFGLSLDAEISMEM-----------DPGTFDARKMEELMDLGVNRVS-LGVQAFQDELLKSCGRAH-GLKEV  201 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~-----------~P~~l~~e~l~~l~~~Gvnrvs-iGvQS~~d~~L~~l~R~~-t~~~~  201 (471)
                      ++++.|++.++     ++.+.+           ..+..+++.++.|+++|++++. .|+||+++++++.+.+++ +.++.
T Consensus       116 e~i~~Ik~~~p-----~i~i~~~~~~ei~~~~~~~g~~~~e~l~~LkeAGld~~~~~g~E~~~~~v~~~i~~~~~~~~~~  190 (351)
T TIGR03700       116 DMIRTLKEAYP-----DLHVKAFTAVEIHHFSKISGLPTEEVLDELKEAGLDSMPGGGAEIFAEEVRQQICPEKISAERW  190 (351)
T ss_pred             HHHHHHHHHCC-----CceEEeCCHHHHHHHHHHcCCCHHHHHHHHHHcCCCcCCCCcccccCHHHHhhcCCCCCCHHHH
Confidence            99999998763     233332           1344578899999999999997 699999999999999875 67888


Q ss_pred             HHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecccc----CCChhhhcccCCCCCCCCHHHH
Q 012112          202 YEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVE----QGTKFGILYTPGEFPLPTETQS  277 (471)
Q Consensus       202 ~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~----pgT~l~~~~~~g~~~~p~~~~~  277 (471)
                      .++++.++++|++ ++..+|+|+ |||.++..+++..+.+++++...+..+.|.    +|||+...    ..+.++..+.
T Consensus       191 l~~i~~a~~~Gi~-~~sg~i~Gl-gEt~edrv~~l~~Lr~l~~~~~~f~~fiP~~f~~~~tpl~~~----~~~~~~~~e~  264 (351)
T TIGR03700       191 LEIHRTAHELGLK-TNATMLYGH-IETPAHRVDHMLRLRELQDETGGFQAFIPLAFQPDNNRLNRL----LAKGPTGLDD  264 (351)
T ss_pred             HHHHHHHHHcCCC-cceEEEeeC-CCCHHHHHHHHHHHHHhhHhhCCceEEEeecccCCCCcccCC----CCCCCCHHHH
Confidence            9999999999998 899999998 999999999999999999988777777776    59998542    1234677788


Q ss_pred             HHHHHHHHHHHHHCCCceecccc
Q 012112          278 ANFYRMASSMLSSAGYRHYEISS  300 (471)
Q Consensus       278 ~~~~~~~~~~L~~~Gy~~yeis~  300 (471)
                      .++...++-.|.  .+.+...++
T Consensus       265 lr~iA~~Rl~l~--~i~~i~a~w  285 (351)
T TIGR03700       265 LKTLAVSRLYLD--NIPHIKAYW  285 (351)
T ss_pred             HHHHHHHHHhcC--CCCcccccc
Confidence            888877777763  256555443

Members of this protein family appear to be involved in menaquinone biosynthesis by an alternate pathway via futalosine, based on close phylogenetic correlation with known markers of the futalosine pathway, gene clustering in many organisms, and paralogy with the SCO4550 protein.

>COG1032 Fe-S oxidoreductase [Energy production and conversion]

Probab=99.75  E-value=5.5e-17  Score=172.13  Aligned_cols=198  Identities=20%  Similarity=0.240  Sum_probs=145.6

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      ..+|-+-- |+++|.||..+... +       .......+-++.+..+++......  ...++.+++.|+.. +.....+
T Consensus       199 ~~~ve~~RGCp~~C~FC~~~~~~-~-------~r~~~~~~v~~ei~~~~~~~~~~~--~~~~~~~f~~~~~~-~~~~~~~  267 (490)
T COG1032         199 AFSVETSRGCPRGCRFCSITKHF-K-------YRRRRPERVVEEIKELIEEGGKRV--VFFVDDIFLYGSPA-LNDEKRF  267 (490)
T ss_pred             EEEEEeccCCCCCCCCCCCcccc-c-------ccCCCHHHHHHHHHHHHHHhhhcC--cccccceeecCCcc-ccchhhc
Confidence            45566555 99999999987642 0       011222334444444444333221  11246677766543 2233445


Q ss_pred             HHHHHHH-HHHcCCCCCcEEEEE-ecCCCCC-HHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHH-HHHHHH
Q 012112          134 SSILDTL-TDKFGLSLDAEISME-MDPGTFD-ARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYE-AIEIVK  209 (471)
Q Consensus       134 ~~ll~~l-~~~~~l~~~~eitiE-~~P~~l~-~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~-ai~~~~  209 (471)
                      +.+...+ .....-.....+++. .+++.++ ++.++.++.+|+.++.+|+||.|+++|+.++|+++.+++.+ +++.++
T Consensus       268 ~~l~~~~~~~~~~~~~~~~~~~~~~r~d~~~~~~~~~~~~~~g~~~~~iG~Esgs~~~l~~~~k~~~~~~~~~~a~~~~~  347 (490)
T COG1032         268 ELLSLELIERGLRKGCRVHISAPSLRADTVTDEELLKLLREAGLRRVYIGIESGSEELLKKINKGITTEEVLEEAVKIAK  347 (490)
T ss_pred             ccchHHHHHHhcccCceeeeeccccCchhcCHHHHHHHHhhCCCcceEEeccCCCHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            5444333 333321223456666 7899998 99999999999999999999999999999999999999995 999999


Q ss_pred             HcCCCeeEeeeecCCCCCCHHHHHHH---HHHHHhCCCC-cEEEEeccccCCChhhhcc
Q 012112          210 LCGVENWSLDLISSLPHQTPQMWEES---LRRTVGAQPK-HVSVYDLQVEQGTKFGILY  264 (471)
Q Consensus       210 ~~G~~~v~~DlI~GlPgqT~e~~~~~---l~~~~~l~p~-his~y~l~~~pgT~l~~~~  264 (471)
                      ++|+. +.+++|+|+||||.+++.++   ++.+.++++. +++++.+++.|||+++...
T Consensus       348 ~~~~~-~~~~~i~G~pget~ed~~~t~~~~~~~~~~~~~~~~~~~~~~p~p~t~~~~~~  405 (490)
T COG1032         348 EHGLR-VKLYFIVGLPGETEEDVKETIELAKFIKKLGPKLYVSPSPFVPLPGTPLQEMP  405 (490)
T ss_pred             hCCce-eeEEEEEcCCCCCHHHHHHHHHHHHHHHHhCccceEEEeeeeCCCCCchhhcc
Confidence            99997 99999999999999999999   7888889996 9999999999999998753

>PRK05481 lipoyl synthase; Provisional

Probab=99.74  E-value=1.1e-16  Score=158.90  Aligned_cols=219  Identities=13%  Similarity=0.128  Sum_probs=160.0

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCC---CCC
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPS---LVP  129 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps---~l~  129 (471)
                      ...||.+-- |+.+|+||.++... +            .....+.+++|++.....     +++.|.+-||.-.   -..
T Consensus        53 ~~~fi~is~GC~~~C~FC~i~~~r-~------------~s~~~eeI~~ea~~l~~~-----G~kEI~L~gg~~~d~~~~~  114 (289)
T PRK05481         53 TATFMILGDICTRRCPFCDVATGR-P------------LPLDPDEPERVAEAVARM-----GLKYVVITSVDRDDLPDGG  114 (289)
T ss_pred             eEEEEEecccccCCCCCceeCCCC-C------------CCCCHHHHHHHHHHHHHC-----CCCEEEEEEeeCCCccccc
Confidence            445665554 99999999998642 1            113456677777765442     2566776666421   124


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCC-CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEM-DPGTF-DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEI  207 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l-~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~  207 (471)
                      .+.+.++++.|++.++   ..  .+++ .|..+ ..+.+..++++|.+.+..+.++. +++++.|+|+++.++..++++.
T Consensus       115 ~~~l~~Ll~~I~~~~p---~i--rI~~l~~~~~~~~e~L~~l~~ag~~i~~~~~ets-~~vlk~m~r~~t~e~~le~i~~  188 (289)
T PRK05481        115 AQHFAETIRAIRELNP---GT--TIEVLIPDFRGRMDALLTVLDARPDVFNHNLETV-PRLYKRVRPGADYERSLELLKR  188 (289)
T ss_pred             HHHHHHHHHHHHhhCC---Cc--EEEEEccCCCCCHHHHHHHHhcCcceeeccccCh-HHHHHHhCCCCCHHHHHHHHHH
Confidence            4688899998887653   22  2343 34333 35788888899999999999995 8999999999999999999999


Q ss_pred             HHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHH
Q 012112          208 VKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMAS  285 (471)
Q Consensus       208 ~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~  285 (471)
                      +++.  |+. ++.|+|+|+ |||.+++.++++.+.+++++++.+++|.+    |-++..     +.| +....+.+....
T Consensus       189 ar~~~pgi~-~~t~~IvGf-GET~ed~~~tl~~lrel~~d~v~if~Ys~----pa~k~~-----~v~-~~~k~~r~~~l~  256 (289)
T PRK05481        189 AKELHPGIP-TKSGLMVGL-GETDEEVLEVMDDLRAAGVDILTIGQYLQ----PSRKHL-----PVE-RYVTPEEFDEYK  256 (289)
T ss_pred             HHHhCCCCe-EeeeeEEEC-CCCHHHHHHHHHHHHhcCCCEEEEEccCC----CccccC-----CCC-CcCCHHHHHHHH
Confidence            9999  997 999999999 99999999999999999999999999988    222111     222 233344566777


Q ss_pred             HHHHHCCCceeccccccCCCcch
Q 012112          286 SMLSSAGYRHYEISSYGEDGYEC  308 (471)
Q Consensus       286 ~~L~~~Gy~~yeis~fa~~g~~~  308 (471)
                      +...+-||..-.-.-++|..|..
T Consensus       257 ~~~~~i~~~~~~~~~~~~~~~~~  279 (289)
T PRK05481        257 EIALELGFLHVASGPLVRSSYHA  279 (289)
T ss_pred             HHHHHcCchheEecCccccchhh
Confidence            78889999766555566665543

>PRK12928 lipoyl synthase; Provisional

Probab=99.74  E-value=1.1e-16  Score=158.47  Aligned_cols=217  Identities=12%  Similarity=0.167  Sum_probs=157.0

Q ss_pred             CCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC-CCC--
Q 012112           52 SPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT-PSL--  127 (471)
Q Consensus        52 ~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT-ps~--  127 (471)
                      ....-|+.+-- |+.+|.||.++..   . .         .....+.+.++++.....     +++.|.+.||. ..+  
T Consensus        58 ~~~~tfv~is~gC~~~C~FCa~~~g---~-~---------~~~~~eei~~~a~~~~~~-----G~keivitg~~~dDl~d  119 (290)
T PRK12928         58 QGTATFLIMGSICTRRCAFCQVDKG---R-P---------MPLDPDEPERVAEAVAAL-----GLRYVVLTSVARDDLPD  119 (290)
T ss_pred             CCEEEEEEecccccCcCCCCCccCC---C-C---------CCCCHHHHHHHHHHHHHC-----CCCEEEEEEEeCCcccc
Confidence            45667777766 9999999999752   1 0         011234444555443322     24555555443 121  


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCC--CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHH
Q 012112          128 VPPRFVSSILDTLTDKFGLSLDAEISMEM-DPGTF--DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEA  204 (471)
Q Consensus       128 l~~~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l--~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~a  204 (471)
                      .+.+.+.++++.|++..+     .+.+++ .|+.+  ..+.|+.|+++|...+..++|| ++++++.|+|+++.++..+.
T Consensus       120 ~g~~~~~ell~~Ik~~~p-----~~~I~~ltp~~~~~~~e~L~~l~~Ag~~i~~hnlEt-~~~vl~~m~r~~t~e~~le~  193 (290)
T PRK12928        120 GGAAHFVATIAAIRARNP-----GTGIEVLTPDFWGGQRERLATVLAAKPDVFNHNLET-VPRLQKAVRRGADYQRSLDL  193 (290)
T ss_pred             cCHHHHHHHHHHHHhcCC-----CCEEEEeccccccCCHHHHHHHHHcCchhhcccCcC-cHHHHHHhCCCCCHHHHHHH
Confidence            345788999999987643     345555 67655  5789999999999999999998 59999999999999999999


Q ss_pred             HHHHHHcC--CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccc--cCCChhhhcccCCCCCCCCHHHHHHH
Q 012112          205 IEIVKLCG--VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQV--EQGTKFGILYTPGEFPLPTETQSANF  280 (471)
Q Consensus       205 i~~~~~~G--~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~--~pgT~l~~~~~~g~~~~p~~~~~~~~  280 (471)
                      ++.+++.|  +. ++.++|+|+ |||.+++.++++.+.+++++.+.+++|..  ....|..+.+      .|+   ..++
T Consensus       194 l~~ak~~gp~i~-~~s~iIvG~-GET~ed~~etl~~Lrel~~d~v~i~~Yl~p~~~~~~v~~~~------~~~---~f~~  262 (290)
T PRK12928        194 LARAKELAPDIP-TKSGLMLGL-GETEDEVIETLRDLRAVGCDRLTIGQYLRPSLAHLPVQRYW------TPE---EFEA  262 (290)
T ss_pred             HHHHHHhCCCce-ecccEEEeC-CCCHHHHHHHHHHHHhcCCCEEEEEcCCCCCccCCceeecc------CHH---HHHH
Confidence            99999998  87 899999999 99999999999999999999999999865  3345544432      222   2333


Q ss_pred             HHHHHHHHHHCCCceeccccccCCCc
Q 012112          281 YRMASSMLSSAGYRHYEISSYGEDGY  306 (471)
Q Consensus       281 ~~~~~~~L~~~Gy~~yeis~fa~~g~  306 (471)
                      |.   +.-.+.||.+-+-.-+.|..|
T Consensus       263 ~~---~~~~~~g~~~~~~~p~~rssy  285 (290)
T PRK12928        263 LG---QIARELGFSHVRSGPLVRSSY  285 (290)
T ss_pred             HH---HHHHHcCCceeEecCcccccc
Confidence            33   344468998877666666544

>PRK08508 biotin synthase; Provisional

Probab=99.74  E-value=9.9e-17  Score=158.71  Aligned_cols=200  Identities=14%  Similarity=0.185  Sum_probs=151.4

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEc-CCC-CCCCCHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFG-GGT-PSLVPPRFVSSILDTL  140 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fG-GGT-ps~l~~~~l~~ll~~l  140 (471)
                      |+.+|.||.++....+.       .........+.++++++...+.     .+..+.+. +|. ++-...+.+.++++.|
T Consensus        17 C~~~C~FCa~~~~~~~~-------~~~y~~~s~eeI~~~a~~a~~~-----g~~~~~lv~sg~~~~~~~~e~~~ei~~~i   84 (279)
T PRK08508         17 CKEDCKYCTQSAHYKAD-------IKRYKRKDIEQIVQEAKMAKAN-----GALGFCLVTSGRGLDDKKLEYVAEAAKAV   84 (279)
T ss_pred             CCCCCcCCCCcccCCCC-------CccccCCCHHHHHHHHHHHHHC-----CCCEEEEEeccCCCCcccHHHHHHHHHHH
Confidence            99999999997643111       0111123457777777654332     24556553 332 3322446677777788


Q ss_pred             HHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeee
Q 012112          141 TDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDL  220 (471)
Q Consensus       141 ~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~Dl  220 (471)
                      ++.+.     .+.+.+..+.+++|.++.|+++|++++.++++| .++..+.+...|+.++..++++.++++|++ +...+
T Consensus        85 k~~~p-----~l~i~~s~G~~~~e~l~~Lk~aGld~~~~~lEt-~~~~~~~i~~~~~~~~~l~~i~~a~~~Gi~-v~sg~  157 (279)
T PRK08508         85 KKEVP-----GLHLIACNGTASVEQLKELKKAGIFSYNHNLET-SKEFFPKICTTHTWEERFQTCENAKEAGLG-LCSGG  157 (279)
T ss_pred             HhhCC-----CcEEEecCCCCCHHHHHHHHHcCCCEEcccccc-hHHHhcCCCCCCCHHHHHHHHHHHHHcCCe-eccee
Confidence            76542     344555667889999999999999999999999 478888888899999999999999999997 99999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          221 ISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       221 I~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      |+|+ |||.++..+.+.++.+++++.|.+..+.+.+|||+..       +.++.++..++...++-+|.
T Consensus       158 I~Gl-GEt~ed~~~~l~~lr~L~~~svpl~~~~p~~~t~~~~-------~~~~~~~~lr~iAv~Rl~lp  218 (279)
T PRK08508        158 IFGL-GESWEDRISFLKSLASLSPHSTPINFFIPNPALPLKA-------PTLSADEALEIVRLAKEALP  218 (279)
T ss_pred             EEec-CCCHHHHHHHHHHHHcCCCCEEeeCCcCCCCCCCCCC-------CCCCHHHHHHHHHHHHHHCC
Confidence            9998 9999999999999999999999999999999999842       13566677777776666654

>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.73  E-value=2.3e-16  Score=165.02  Aligned_cols=211  Identities=13%  Similarity=0.188  Sum_probs=156.3

Q ss_pred             cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEE-cCCCCCCCCHHHHHHHHHH
Q 012112           61 PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFF-GGGTPSLVPPRFVSSILDT  139 (471)
Q Consensus        61 PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~f-GGGTps~l~~~~l~~ll~~  139 (471)
                      .+|+.+|.||+|..... .        .....-..+.+++|++...+.+     ++.+.+ +|..|.-.+.+++.++++.
T Consensus        92 N~C~n~C~YCgfs~~n~-~--------i~r~~Ls~EEI~~ea~~~~~~G-----~~~i~LvsGe~p~~~~~eyi~e~i~~  157 (469)
T PRK09613         92 NYCVNNCVYCGFRRSNK-E--------IKRKKLTQEEIREEVKALEDMG-----HKRLALVAGEDPPNCDIEYILESIKT  157 (469)
T ss_pred             CCCCCCCccCCCccCCC-C--------CCceECCHHHHHHHHHHHHHCC-----CCEEEEEeCCCCCCCCHHHHHHHHHH
Confidence            56999999999975421 0        1111235788888888765432     444444 7777777789999999999


Q ss_pred             HHHHcCC-CCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc---CCCCCHHHHHHHHHHHHHcCCCe
Q 012112          140 LTDKFGL-SLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC---GRAHGLKEVYEAIEIVKLCGVEN  215 (471)
Q Consensus       140 l~~~~~l-~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai~~~~~~G~~~  215 (471)
                      |++.+.- ..-.++++++-|  +|.+.++.|+++|++++.+..||+|.+..+.+   ++.|+.++-.++++.++++|++.
T Consensus       158 I~~~~~~~g~i~~v~inig~--lt~eey~~LkeaGv~~~~l~qETY~~ety~~~hp~g~k~~y~~Rl~t~~rA~~aGi~~  235 (469)
T PRK09613        158 IYSTKHGNGEIRRVNVNIAP--TTVENYKKLKEAGIGTYQLFQETYHKPTYEKMHPSGPKSDYDWRLTAMDRAMEAGIDD  235 (469)
T ss_pred             HHHhccccCcceeeEEEeec--CCHHHHHHHHHcCCCEEEeccccCCHHHHHhcCCCCCCCCHHHHHHHHHHHHHcCCCe
Confidence            9875421 112367777655  89999999999999999999999999999998   55799999999999999999988


Q ss_pred             eEeeeecCCCCCCHHHHHHHHHHHHhC------CCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          216 WSLDLISSLPHQTPQMWEESLRRTVGA------QPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       216 v~~DlI~GlPgqT~e~~~~~l~~~~~l------~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      |++..|+||+++..|. ...+..+..|      +|+.||+-.|.|.+|||+...     ....++++..++....+-.+-
T Consensus       236 Vg~G~L~GLge~~~E~-~~l~~hl~~L~~~~gvgp~tIsvprl~P~~Gtpl~~~-----~~~vsd~e~lriiA~~RL~~P  309 (469)
T PRK09613        236 VGIGVLFGLYDYKFEV-LGLLMHAEHLEERFGVGPHTISVPRLRPADGSDLENF-----PYLVSDEDFKKIVAILRLAVP  309 (469)
T ss_pred             eCeEEEEcCCCCHHHH-HHHHHHHHHHHHhhCCCCccccccceecCCCCCcccC-----CCCCCHHHHHHHHHHHHHHCC
Confidence            9999999997755543 3335444444      788899999999999998432     112466666666666555555


Q ss_pred             HCCC
Q 012112          290 SAGY  293 (471)
Q Consensus       290 ~~Gy  293 (471)
                      ..|.
T Consensus       310 ~~~I  313 (469)
T PRK09613        310 YTGM  313 (469)
T ss_pred             CCCc
Confidence            4444

>PRK00955 hypothetical protein; Provisional

Probab=99.73  E-value=1.7e-16  Score=169.29  Aligned_cols=205  Identities=19%  Similarity=0.149  Sum_probs=142.1

Q ss_pred             CCCCCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEE-EcCCCCC
Q 012112           49 PQLSPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVF-FGGGTPS  126 (471)
Q Consensus        49 ~~~~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~-fGGGTps  126 (471)
                      |....+-.+|.|-- |+..|+||..+...+          ...+.+.++.+++|++.+....+ ...+  |. +||-|-+
T Consensus       287 pa~~~i~~sI~i~RGC~g~CSFCaIp~~rG----------r~~rSRs~esIv~Evk~L~~~~g-fkg~--I~DlgGptan  353 (620)
T PRK00955        287 PAIEEVKFSITSHRGCFGGCSFCAITFHQG----------RFIQSRSQESILREAKELTEMPD-FKGY--IHDVGGPTAN  353 (620)
T ss_pred             CceeeEEEEEEeeCCCCCCCCCCCeecccC----------CcceecCHHHHHHHHHHHHhccC-CeEE--EEeCCCCCcc
Confidence            33445556777766 999999998876532          23457788999999997754311 0111  11 3332211


Q ss_pred             C-----------------------------CCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCC----CCHHHHHHHHHCC
Q 012112          127 L-----------------------------VPPRFVSSILDTLTDKFGLSLDAEISMEMDPGT----FDARKMEELMDLG  173 (471)
Q Consensus       127 ~-----------------------------l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~----l~~e~l~~l~~~G  173 (471)
                      .                             .+...+.+|++.|++.-++. ...|+.-++++.    .+++.++.|.+.+
T Consensus       354 ~Yg~~c~~~~~~~~c~~~~clfp~~c~nl~~d~~~l~~LLr~l~~l~gvk-rv~isSGIR~D~l~~~~~~~~l~eL~~~~  432 (620)
T PRK00955        354 FRKMACKKQLKCGACKNKQCLFPKPCKNLDVDHKEYLELLRKVRKLPGVK-KVFIRSGIRYDYLLHDKNDEFFEELCEHH  432 (620)
T ss_pred             ccccccccccccccccccccccCccccccCcChHHHHHHHHHHhccCCce-EEEeecceeccccccCCcHHHHHHHHHHh
Confidence            1                             13456778888887642221 122332234444    2456888888764


Q ss_pred             CC-EEEEccCCCCHHHHHHcCCCCCHHHHHHH----HHHHHHcCCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcE
Q 012112          174 VN-RVSLGVQAFQDELLKSCGRAHGLKEVYEA----IEIVKLCGVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHV  247 (471)
Q Consensus       174 vn-rvsiGvQS~~d~~L~~l~R~~t~~~~~~a----i~~~~~~G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~hi  247 (471)
                      +. .+.||+||+++++|+.|+|. +.++..+.    .+.++++|+. .+..|||+|+||||.++++++++++.+++++.+
T Consensus       433 vsg~L~IapESgSd~VLk~M~K~-~~~~~~~f~~~~~~i~~~~G~~~~I~~yfIvGfPGETeEDf~et~eflkel~~~~~  511 (620)
T PRK00955        433 VSGQLKVAPEHISDRVLKLMGKP-SREVYDKFVKKFDRINKKLGKKQYLVPYLMSSHPGSTLEDAIELAEYTKDLGYQPE  511 (620)
T ss_pred             cCCCceeCcCCCChHHHHHhCCC-CHHHHHHHHHHHHHhhhhcCCCccEEEEEEEECCCCCHHHHHHHHHHHHHcCCCcc
Confidence            43 79999999999999999998 54544443    3556667763 488999999999999999999999999999999


Q ss_pred             EEEeccccCCChhhhcccCCC
Q 012112          248 SVYDLQVEQGTKFGILYTPGE  268 (471)
Q Consensus       248 s~y~l~~~pgT~l~~~~~~g~  268 (471)
                      .++.+++.|||+...++-.|.
T Consensus       512 qV~~fTP~PGT~At~Myytg~  532 (620)
T PRK00955        512 QVQDFYPTPGTLSTTMYYTGL  532 (620)
T ss_pred             eeeeeecCCCcchhhccccCC
Confidence            999999999999888765554

>PLN02389 biotin synthase

Probab=99.72  E-value=2.3e-16  Score=161.65  Aligned_cols=201  Identities=12%  Similarity=0.121  Sum_probs=147.2

Q ss_pred             CCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEc-CCCCCCC---CHHHHHHHH
Q 012112           62 FCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFG-GGTPSLV---PPRFVSSIL  137 (471)
Q Consensus        62 FC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fG-GGTps~l---~~~~l~~ll  137 (471)
                      .|+.+|.||.|.......       ......-..+.++++++...+.     ++..+.++ +|....-   .-+++.+++
T Consensus        92 ~C~~~C~fCaqs~~~~~~-------~~~~~~Ls~EeIl~~a~~~~~~-----G~~~~~ivts~rg~~~e~~~~e~i~eii  159 (379)
T PLN02389         92 GCSEDCSYCPQSSRYDTG-------VKAQKLMSKDDVLEAAKRAKEA-----GSTRFCMGAAWRDTVGRKTNFNQILEYV  159 (379)
T ss_pred             CcCcCCCCCCCcccCCCC-------CcccccCCHHHHHHHHHHHHHc-----CCCEEEEEecccCCCCChhHHHHHHHHH
Confidence            499999999996542110       0111122356666666654432     24556554 1111111   224555555


Q ss_pred             HHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeE
Q 012112          138 DTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWS  217 (471)
Q Consensus       138 ~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~  217 (471)
                      +.+++     ...++  -++.+.++++.++.|+++|++++.+.++| +++..+.+...++.++..++++.++++|+. +.
T Consensus       160 r~ik~-----~~l~i--~~s~G~l~~E~l~~LkeAGld~~~~~LeT-s~~~y~~i~~~~s~e~rl~ti~~a~~~Gi~-v~  230 (379)
T PLN02389        160 KEIRG-----MGMEV--CCTLGMLEKEQAAQLKEAGLTAYNHNLDT-SREYYPNVITTRSYDDRLETLEAVREAGIS-VC  230 (379)
T ss_pred             HHHhc-----CCcEE--EECCCCCCHHHHHHHHHcCCCEEEeeecC-ChHHhCCcCCCCCHHHHHHHHHHHHHcCCe-Ee
Confidence            55542     12344  36677899999999999999999999999 688888888899999999999999999997 99


Q ss_pred             eeeecCCCCCCHHHHHHHHHHHHhC--CCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          218 LDLISSLPHQTPQMWEESLRRTVGA--QPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       218 ~DlI~GlPgqT~e~~~~~l~~~~~l--~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      ..+|+|+ |||.++..+++..+.++  .|+.|.+..|+|.||||++..      +.++..+..++...++-.|.+
T Consensus       231 sg~IiGl-gEt~edrv~~l~~Lr~L~~~~~~v~l~~l~P~~GTpL~~~------~~~s~~e~lr~iAi~Rl~lP~  298 (379)
T PLN02389        231 SGGIIGL-GEAEEDRVGLLHTLATLPEHPESVPINALVAVKGTPLEDQ------KPVEIWEMVRMIATARIVMPK  298 (379)
T ss_pred             EEEEECC-CCCHHHHHHHHHHHHhcccCCcEEecccceecCCCcCCCC------CCCCHHHHHHHHHHHHHHCCC
Confidence            9999999 99999999999999999  689999999999999998754      346777777777766665533

>TIGR03550 F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit

Probab=99.72  E-value=1.1e-16  Score=161.49  Aligned_cols=211  Identities=17%  Similarity=0.252  Sum_probs=154.9

Q ss_pred             EeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC-CCCC-----
Q 012112           58 IHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT-PSLV-----  128 (471)
Q Consensus        58 iHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT-ps~l-----  128 (471)
                      .||+|   |+..|.||.|+... +        .........+.++++++...+.     ++..+.+.||. |..-     
T Consensus         6 ~~i~~tn~C~~~C~fCaf~~~~-g--------~~~~~~l~~eeI~~~a~~~~~~-----G~~ei~l~~G~~p~~~~~~~~   71 (322)
T TIGR03550         6 VFIPLTRLCRNRCGYCTFRRPP-G--------ELEAALLSPEEVLEILRKGAAA-----GCTEALFTFGEKPEERYPEAR   71 (322)
T ss_pred             EEeccccCcCCCCccCCccccC-C--------CcccccCCHHHHHHHHHHHHHC-----CCCEEEEecCCCccccHHHHH
Confidence            45566   99999999997643 1        1112234567788887766543     24556665554 5431     


Q ss_pred             ----------CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC--
Q 012112          129 ----------PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH--  196 (471)
Q Consensus       129 ----------~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~--  196 (471)
                                ..+.+.++++.+++..++      ...++++.++++.++.|+++|+. +.+.+||+++.+++.+++.+  
T Consensus        72 ~~l~~~~~~~~~~~~~~~~~~i~~e~~~------~~~~~~g~lt~e~l~~Lk~aG~~-~~~~~Et~~~~l~~~~~~~~~p  144 (322)
T TIGR03550        72 EWLAEMGYDSTLEYLRELCELALEETGL------LPHTNPGVMSRDELARLKPVNAS-MGLMLETTSERLCKGEAHYGSP  144 (322)
T ss_pred             HHHHhcCCccHHHHHHHHHHHHHHhcCC------ccccCCCCCCHHHHHHHHhhCCC-CCcchhhhccccccccccCCCC
Confidence                      135677777777655332      23478899999999999999987 48889999999887666555  


Q ss_pred             --CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCC-----CCcEEEEeccccCCChhhhcccCCCC
Q 012112          197 --GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQ-----PKHVSVYDLQVEQGTKFGILYTPGEF  269 (471)
Q Consensus       197 --t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~-----p~his~y~l~~~pgT~l~~~~~~g~~  269 (471)
                        +.++..++++.++++|+. ++.++|+|+ |||.+++.+++..+.+++     ++.+.+.++.+.||||+...      
T Consensus       145 ~k~~~~~l~~i~~a~~~Gi~-~~s~~i~G~-gEt~ed~~~~l~~lr~Lq~~~~g~~~~i~~~f~P~~gTpl~~~------  216 (322)
T TIGR03550       145 GKDPAVRLETIEDAGRLKIP-FTTGILIGI-GETREERAESLLAIRELHERYGHIQEVIVQNFRAKPGTPMENH------  216 (322)
T ss_pred             CCCHHHHHHHHHHHHHcCCC-ccceeeEeC-CCCHHHHHHHHHHHHHHHHHcCCCeEEecCccccCCCCCccCC------
Confidence              467899999999999998 999999997 999999999999999987     67788889999999998642      


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCceeccc
Q 012112          270 PLPTETQSANFYRMASSMLSSAGYRHYEIS  299 (471)
Q Consensus       270 ~~p~~~~~~~~~~~~~~~L~~~Gy~~yeis  299 (471)
                      +.++..+..++...++-.|..  +.+..++
T Consensus       217 ~~~s~~e~lr~iAv~Rl~l~~--~~~I~~~  244 (322)
T TIGR03550       217 PEPSLEEMLRTVAVARLILPP--DISIQVP  244 (322)
T ss_pred             CCCCHHHHHHHHHHHHHHcCC--CCeeecC
Confidence            346677777777666665522  4444444

This model represents either a subunit or a domain, depending on whether or not the genes are fused, of a bifunctional protein that completes the synthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin, or FO. FO is the chromophore of coenzyme F(420), involved in methanogenesis in methanogenic archaea but found in certain other lineages as well. The chromophore also occurs as a cofactor in DNA photolyases in Cyanobacteria.

>PRK15108 biotin synthase; Provisional

Probab=99.71  E-value=7.2e-16  Score=156.74  Aligned_cols=204  Identities=15%  Similarity=0.177  Sum_probs=153.7

Q ss_pred             EEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCC--CCCCCCHHHHH
Q 012112           57 YIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGG--TPSLVPPRFVS  134 (471)
Q Consensus        57 YiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGG--Tps~l~~~~l~  134 (471)
                      ++.--.|..+|.||.|.......       ......-..+.+++.++....     .+++.+.+|+|  .|+..+.+.+.
T Consensus        47 ~~~Tn~C~~~C~yC~~~~~~~~~-------~~~~~~ls~eEI~~~a~~~~~-----~G~~~i~i~~~g~~p~~~~~e~i~  114 (345)
T PRK15108         47 SIKTGACPEDCKYCPQSSRYKTG-------LEAERLMEVEQVLESARKAKA-----AGSTRFCMGAAWKNPHERDMPYLE  114 (345)
T ss_pred             EEECCCcCCCCcCCCCcccCCCC-------CCcccCCCHHHHHHHHHHHHH-----cCCCEEEEEecCCCCCcchHHHHH
Confidence            34445599999999997532100       000001123555555554432     23667777655  46555667888


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          135 SILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                      ++++.+++. +    .++.  ++.+.++.+.++.|+++|++++.+.++| +++..+.+...|+.++..+.++.++++|+.
T Consensus       115 ~~i~~ik~~-~----i~v~--~s~G~ls~e~l~~LkeAGld~~n~~leT-~p~~f~~I~~~~~~~~rl~~i~~a~~~G~~  186 (345)
T PRK15108        115 QMVQGVKAM-G----LETC--MTLGTLSESQAQRLANAGLDYYNHNLDT-SPEFYGNIITTRTYQERLDTLEKVRDAGIK  186 (345)
T ss_pred             HHHHHHHhC-C----CEEE--EeCCcCCHHHHHHHHHcCCCEEeecccc-ChHhcCCCCCCCCHHHHHHHHHHHHHcCCc
Confidence            888888753 2    3443  4466789999999999999999999999 899999998899999999999999999997


Q ss_pred             eeEeeeecCCCCCCHHHHHHHHHHHHhC--CCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          215 NWSLDLISSLPHQTPQMWEESLRRTVGA--QPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       215 ~v~~DlI~GlPgqT~e~~~~~l~~~~~l--~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                       ++..+|+|+ |||.++..+.+..+.++  .++.|.+..+.|.+|||+...      +..+..+..++...++-.|
T Consensus       187 -v~sg~i~Gl-gEt~ed~v~~~~~l~~l~~~~~~ip~~~~~P~~gTpl~~~------~~~~~~e~lr~iAi~Rl~l  254 (345)
T PRK15108        187 -VCSGGIVGL-GETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADN------DDVDAFDFIRTIAVARIMM  254 (345)
T ss_pred             -eeeEEEEeC-CCCHHHHHHHHHHHHhccCCCCEEEeCCccCCCCCCCCCC------CCCCHHHHHHHHHHHHHHC
Confidence             999999999 99999999999999999  678999999999999998643      2245666777776665555

>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation

Probab=99.70  E-value=9.5e-17  Score=144.23  Aligned_cols=161  Identities=26%  Similarity=0.486  Sum_probs=123.8

Q ss_pred             cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHH
Q 012112           61 PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTL  140 (471)
Q Consensus        61 PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l  140 (471)
                      .-|+.+|.||.......         .........+.+.++++.....    ..+..++++||.|+..+ +. .+++..+
T Consensus         5 ~~C~~~C~fC~~~~~~~---------~~~~~~~~~e~i~~~~~~~~~~----~~~~~i~~~~gep~~~~-~~-~~~~~~~   69 (166)
T PF04055_consen    5 RGCNLNCSFCYYPRSRR---------KNKPREMSPEEILEEIKELKQD----KGVKEIFFGGGEPTLHP-DF-IELLELL   69 (166)
T ss_dssp             SEESS--TTTSTTTTCC---------TCGCEECHHHHHHHHHHHHHHH----TTHEEEEEESSTGGGSC-HH-HHHHHHH
T ss_pred             cCcCccCCCCCCCccCC---------CcccccCCHHHHHHHHHHHhHh----cCCcEEEEeecCCCcch-hH-HHHHHHH
Confidence            34999999999875311         1122233455566666655211    12889999999998754 33 3444444


Q ss_pred             HHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHH-HHHHcCCCCCHHHHHHHHHHHHHcCCCeeEee
Q 012112          141 TDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDE-LLKSCGRAHGLKEVYEAIEIVKLCGVENWSLD  219 (471)
Q Consensus       141 ~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~-~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~D  219 (471)
                      .+..  .....+++.+++...+++.++.++++|++++.+|+||.+++ +++.+++.++.+++.++++.++++|+.. ...
T Consensus        70 ~~~~--~~~~~i~~~t~~~~~~~~~l~~l~~~~~~~i~~~l~s~~~~~~~~~~~~~~~~~~~~~~l~~l~~~g~~~-~~~  146 (166)
T PF04055_consen   70 RKIK--KRGIRISINTNGTLLDEELLDELKKLGVDRIRISLESLDEESVLRIINRGKSFERVLEALERLKEAGIPR-VII  146 (166)
T ss_dssp             HHCT--CTTEEEEEEEESTTHCHHHHHHHHHTTCSEEEEEEBSSSHHHHHHHHSSTSHHHHHHHHHHHHHHTTSET-EEE
T ss_pred             HHhh--ccccceeeeccccchhHHHHHHHHhcCccEEecccccCCHHHhhhhhcCCCCHHHHHHHHHHHHHcCCCc-EEE
Confidence            4432  34678999999988889999999999999999999999999 9999999999999999999999999973 789


Q ss_pred             eecCCCCCCHHHHHHHHHHH
Q 012112          220 LISSLPHQTPQMWEESLRRT  239 (471)
Q Consensus       220 lI~GlPgqT~e~~~~~l~~~  239 (471)
                      +|+|+||+|.+++.++++++
T Consensus       147 ~i~~~~~~~~~e~~~~~~~i  166 (166)
T PF04055_consen  147 FIVGLPGENDEEIEETIRFI  166 (166)
T ss_dssp             EEEEBTTTSHHHHHHHHHHH
T ss_pred             EEEEeCCCCHHHHHHHhCcC
Confidence            99999999999999999875

Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].; GO: 0003824 catalytic activity, 0051536 iron-sulfur cluster binding; PDB: 2A5H_D 3T7V_A 3C8F_A 3CB8_A 2FB2_A 2FB3_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A ....

>TIGR00510 lipA lipoate synthase

Probab=99.70  E-value=8.3e-16  Score=152.71  Aligned_cols=219  Identities=15%  Similarity=0.201  Sum_probs=158.2

Q ss_pred             CCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC-CCCC-
Q 012112           52 SPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT-PSLV-  128 (471)
Q Consensus        52 ~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT-ps~l-  128 (471)
                      .....|+-|.- |..+|+||.++......        ..    ..+.+.++++.....     +++.|.+.|++ +.+- 
T Consensus        61 ~~tatfm~i~~gC~~~C~FC~v~~~rg~~--------~~----~~eei~~~a~~~~~~-----GlkevvLTsv~~ddl~d  123 (302)
T TIGR00510        61 HGTATFMILGDICTRRCPFCDVAHGRNPL--------PP----DPEEPAKLAETIKDM-----GLKYVVITSVDRDDLED  123 (302)
T ss_pred             CCEEEEEecCcCcCCCCCcCCccCCCCCC--------CC----CHHHHHHHHHHHHHC-----CCCEEEEEeecCCCccc
Confidence            44567777775 99999999997542111        01    124455666655432     25556665543 3331 


Q ss_pred             -CHHHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCC-CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHH
Q 012112          129 -PPRFVSSILDTLTDKFGLSLDAEISMEM-DPGTF-DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAI  205 (471)
Q Consensus       129 -~~~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l-~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai  205 (471)
                       ..+.+.++++.|++..+   +  +.+++ .|+.. +.+.++.|+++|++.+..++||. +++++.|+|.++.++.++.+
T Consensus       124 ~g~~~l~~li~~I~~~~p---~--i~Ievl~~d~~g~~e~l~~l~~aG~dv~~hnlEt~-~~l~~~vrr~~t~e~~Le~l  197 (302)
T TIGR00510       124 GGASHLAECIEAIREKLP---N--IKIETLVPDFRGNIAALDILLDAPPDVYNHNLETV-ERLTPFVRPGATYRWSLKLL  197 (302)
T ss_pred             ccHHHHHHHHHHHHhcCC---C--CEEEEeCCcccCCHHHHHHHHHcCchhhcccccch-HHHHHHhCCCCCHHHHHHHH
Confidence             24678888888877542   2  34454 34322 78899999999999999999998 88999999999999999999


Q ss_pred             HHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecc-c-cCCChhhhcccCCCCCCCCHHHHHHHH
Q 012112          206 EIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQ-V-EQGTKFGILYTPGEFPLPTETQSANFY  281 (471)
Q Consensus       206 ~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~-~-~pgT~l~~~~~~g~~~~p~~~~~~~~~  281 (471)
                      +.+++.  |+. +..|+|+|+ |||.+++.++++.+.+++++.+.+.+|. | .+++|+.+.+      .|+   ..++|
T Consensus       198 ~~ak~~~pgi~-~~TgiIVGl-GETeee~~etl~~Lrelg~d~v~igqYl~p~~~~~~v~~~~------~p~---~f~~~  266 (302)
T TIGR00510       198 ERAKEYLPNLP-TKSGIMVGL-GETNEEIKQTLKDLRDHGVTMVTLGQYLRPSRRHLPVKRYV------SPE---EFDYY  266 (302)
T ss_pred             HHHHHhCCCCe-ecceEEEEC-CCCHHHHHHHHHHHHhcCCCEEEeecccCCCCCCCccccCC------CHH---HHHHH
Confidence            999999  786 999999999 9999999999999999999999999975 4 4567766543      232   23334


Q ss_pred             HHHHHHHHHCCCceeccccccCCCcc
Q 012112          282 RMASSMLSSAGYRHYEISSYGEDGYE  307 (471)
Q Consensus       282 ~~~~~~L~~~Gy~~yeis~fa~~g~~  307 (471)
                      .   +.-.+.||.+-+-.-+.|..|.
T Consensus       267 ~---~~a~~~gf~~v~~~p~vrssy~  289 (302)
T TIGR00510       267 R---SVALEMGFLHAACGPFVRSSYH  289 (302)
T ss_pred             H---HHHHHcCChheEecccchhhhh
Confidence            3   3445789998776666666543

The family shows strong sequence conservation.

>PRK01254 hypothetical protein; Provisional

Probab=99.66  E-value=4.9e-15  Score=157.26  Aligned_cols=199  Identities=16%  Similarity=0.129  Sum_probs=148.4

Q ss_pred             CCCCCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEE--EcCCCC
Q 012112           49 PQLSPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVF--FGGGTP  125 (471)
Q Consensus        49 ~~~~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~--fGGGTp  125 (471)
                      |.-..+-.||-|-- |...|+||..+...+          ...+.+..+.+++|++.+....   ..+.-+.  +||-|.
T Consensus       367 pA~e~i~~sV~i~RGC~g~CSFCaI~~hqG----------r~irSRS~esIL~Ea~~L~~~~---pGfKgii~DLgGpta  433 (707)
T PRK01254        367 PAYDMIRFSVNIMRGCFGGCSFCSITEHEG----------RIIQSRSEESIINEIEAIRDKV---PGFTGVISDLGGPTA  433 (707)
T ss_pred             CchhheEEEEEEccCCCCCCCccccccccC----------CeeeeCCHHHHHHHHHHHHHhC---CCcEEEEeccCCCcc
Confidence            45556667887777 999999999886642          2235667899999999875321   1244444  444433


Q ss_pred             CCC-----------------------------CHHHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCC---CHHHHHHHHHC
Q 012112          126 SLV-----------------------------PPRFVSSILDTLTDKFGLSLDAEISMEM-DPGTF---DARKMEELMDL  172 (471)
Q Consensus       126 s~l-----------------------------~~~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l---~~e~l~~l~~~  172 (471)
                      +..                             +...+.+|++.|++.=++   ..+.+-. .|.++   +++.++.|++.
T Consensus       434 N~YG~~c~d~~~~~~C~~~~Cl~P~~C~nL~~dh~~l~eLLrkLr~IpGV---KkVrI~SgiR~Dl~l~d~elIeel~~~  510 (707)
T PRK01254        434 NMYRLRCKSPRAEQTCRRLSCVYPDICPHLDTDHEPTINLYRRARDLKGI---KKILIASGVRYDLAVEDPRYVKELVTH  510 (707)
T ss_pred             ccccccccccccccccccccccCcccccccCCCHHHHHHHHHHHHhCCCc---eEEEEEcCCCccccccCHHHHHHHHHh
Confidence            322                             234677777777753222   2344443 46666   48999999998


Q ss_pred             CCC-EEEEccCCCCHHHHHHcCCC--CCHHHHHHHHHHHHHc-CCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcE
Q 012112          173 GVN-RVSLGVQAFQDELLKSCGRA--HGLKEVYEAIEIVKLC-GVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHV  247 (471)
Q Consensus       173 Gvn-rvsiGvQS~~d~~L~~l~R~--~t~~~~~~ai~~~~~~-G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~hi  247 (471)
                      +|- .+.|++||.++++|+.|+|+  ++.+++.+.++.+++. |.+ .+..+||+|+||+|.++++++++++.+++.+.-
T Consensus       511 hV~g~LkVppEH~Sd~VLk~M~Kp~~~~~e~F~e~f~rirk~~gk~q~LipyfIvGhPGeTeeDf~eLaefLkel~f~~e  590 (707)
T PRK01254        511 HVGGYLKIAPEHTEEGPLSKMMKPGMGSYDRFKELFDKYSKEAGKEQYLIPYFISAHPGTTDEDMVNLALWLKKNRFRLD  590 (707)
T ss_pred             CCccccccccccCCHHHHHHhCCCCcccHHHHHHHHHHHHHHCCCCeEEEEeEEEECCCCCHHHHHHHHHHHHHhCCCcc
Confidence            876 89999999999999999998  6889999999988666 642 355699999999999999999999999998888


Q ss_pred             EEEeccccC---CChhhhc
Q 012112          248 SVYDLQVEQ---GTKFGIL  263 (471)
Q Consensus       248 s~y~l~~~p---gT~l~~~  263 (471)
                      .+..|+|.|   +|.||..
T Consensus       591 QVQ~FTPtP~t~~T~MYyt  609 (707)
T PRK01254        591 QVQNFYPSPMANATTMYYT  609 (707)
T ss_pred             eeeeeecCCCcCchHHHhc
Confidence            888899999   7877754

>PRK08444 hypothetical protein; Provisional

Probab=99.65  E-value=5.2e-15  Score=150.44  Aligned_cols=203  Identities=12%  Similarity=0.204  Sum_probs=153.8

Q ss_pred             EeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEc-CCCCCCCCHHHH
Q 012112           58 IHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFG-GGTPSLVPPRFV  133 (471)
Q Consensus        58 iHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fG-GGTps~l~~~~l  133 (471)
                      .+|++   |...|.||.|.... +.       .... .-..+.+++.++...+.     ++..+.+. |+.|.. +.+++
T Consensus        51 ~~In~TN~C~~~C~FCaf~~~~-~~-------~~~y-~ls~eeI~~~a~~a~~~-----G~~ei~iv~G~~p~~-~~e~y  115 (353)
T PRK08444         51 RHINPTNICADVCKFCAFSAHR-KN-------PNPY-TMSHEEILEIVKNSVKR-----GIKEVHIVSAHNPNY-GYEWY  115 (353)
T ss_pred             CCcccccccccCCccCCCccCC-CC-------Cccc-cCCHHHHHHHHHHHHHC-----CCCEEEEeccCCCCC-CHHHH
Confidence            35666   99999999997542 11       1111 12345566666554332     25556654 455654 78899


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEe-----------cCCCCCHHHHHHHHHCCCCEEEE-ccCCCCHHHHHHcCCCC-CHHH
Q 012112          134 SSILDTLTDKFGLSLDAEISMEM-----------DPGTFDARKMEELMDLGVNRVSL-GVQAFQDELLKSCGRAH-GLKE  200 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~-----------~P~~l~~e~l~~l~~~Gvnrvsi-GvQS~~d~~L~~l~R~~-t~~~  200 (471)
                      .++++.|++.++     .+.+-+           .-+...+|.++.|+++|++++-- |.|.|+|++.+.+...| +.++
T Consensus       116 ~e~ir~Ik~~~p-----~i~i~a~s~~Ei~~~a~~~g~~~~e~l~~LkeAGl~~~~g~~aEi~~~~vr~~I~p~k~~~~~  190 (353)
T PRK08444        116 LEIFKKIKEAYP-----NLHVKAMTAAEVDFLSRKFGKSYEEVLEDMLEYGVDSMPGGGAEIFDEEVRKKICKGKVSSER  190 (353)
T ss_pred             HHHHHHHHHHCC-----CceEeeCCHHHHHHHHHHcCCCHHHHHHHHHHhCcccCCCCCchhcCHHHHhhhCCCCCCHHH
Confidence            999999998763     233333           33345779999999999999988 69999999999999877 5578


Q ss_pred             HHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecccc----CCChhhhcccCCCCCCCCHHH
Q 012112          201 VYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVE----QGTKFGILYTPGEFPLPTETQ  276 (471)
Q Consensus       201 ~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~----pgT~l~~~~~~g~~~~p~~~~  276 (471)
                      ..+.++.++++|+. ++..+|||++ ||.++..+.+..+.+++.+.+.+..|.|.    +|||+...      +.++..+
T Consensus       191 ~~~i~~~a~~~Gi~-~~sg~l~G~g-Et~edrv~hl~~Lr~Lq~~t~gf~~fIp~~f~~~~t~l~~~------~~~~~~e  262 (353)
T PRK08444        191 WLEIHKYWHKKGKM-SNATMLFGHI-ENREHRIDHMLRLRDLQDKTGGFNAFIPLVYQRENNYLKVE------KFPSSQE  262 (353)
T ss_pred             HHHHHHHHHHcCCC-ccceeEEecC-CCHHHHHHHHHHHHHhccccCCceEEEecccCCCCCcCCCC------CCCCHHH
Confidence            88888999999999 8999999995 99999999999999999999999998888    89998632      3467777


Q ss_pred             HHHHHHHHHHHH
Q 012112          277 SANFYRMASSML  288 (471)
Q Consensus       277 ~~~~~~~~~~~L  288 (471)
                      ..++...++-+|
T Consensus       263 ~Lr~iAi~Rl~L  274 (353)
T PRK08444        263 ILKTIAISRILL  274 (353)
T ss_pred             HHHHHHHHHHhc
Confidence            777777766666

>PLN02428 lipoic acid synthase

Probab=99.64  E-value=1e-14  Score=146.76  Aligned_cols=213  Identities=14%  Similarity=0.130  Sum_probs=146.9

Q ss_pred             ccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC-CC--CCCHHHHHHH
Q 012112           60 LPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT-PS--LVPPRFVSSI  136 (471)
Q Consensus        60 IPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT-ps--~l~~~~l~~l  136 (471)
                      =--|+.+|.||.+......         .   ..+.+.+.+.++.....     +++.+.|-+|+ ..  -...+++.++
T Consensus       109 g~gCtr~CrFCav~~~~~p---------~---~~d~~Ep~~vA~~v~~~-----Glk~vvltSg~rddl~D~ga~~~~el  171 (349)
T PLN02428        109 GDTCTRGCRFCAVKTSRTP---------P---PPDPDEPENVAEAIASW-----GVDYVVLTSVDRDDLPDGGSGHFAET  171 (349)
T ss_pred             cCCCCCCCCCCcCCCCCCC---------C---CCChhhHHHHHHHHHHc-----CCCEEEEEEcCCCCCCcccHHHHHHH
Confidence            3449999999999753211         0   01122222222222221     13344554443 21  2356788899


Q ss_pred             HHHHHHHcCCCCCcEEEEEe-cCCCC-CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC-CCCCHHHHHHHHHHHHHc--
Q 012112          137 LDTLTDKFGLSLDAEISMEM-DPGTF-DARKMEELMDLGVNRVSLGVQAFQDELLKSCG-RAHGLKEVYEAIEIVKLC--  211 (471)
Q Consensus       137 l~~l~~~~~l~~~~eitiE~-~P~~l-~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~-R~~t~~~~~~ai~~~~~~--  211 (471)
                      ++.|++..+     .+.+++ .|+.+ +++.|+.|+++|++++..++|+ .+++++.++ +.++.++..++++.+++.  
T Consensus       172 ir~Ir~~~P-----~i~Ie~L~pdf~~d~elL~~L~eAG~d~i~hnlET-v~rL~~~Ir~~~~sye~~Le~L~~ak~~~p  245 (349)
T PLN02428        172 VRRLKQLKP-----EILVEALVPDFRGDLGAVETVATSGLDVFAHNIET-VERLQRIVRDPRAGYKQSLDVLKHAKESKP  245 (349)
T ss_pred             HHHHHHhCC-----CcEEEEeCccccCCHHHHHHHHHcCCCEEccCccC-cHHHHHHhcCCCCCHHHHHHHHHHHHHhCC
Confidence            999987643     467777 67655 8999999999999999999997 789999999 789999999999999999  


Q ss_pred             CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHC
Q 012112          212 GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA  291 (471)
Q Consensus       212 G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~  291 (471)
                      |+. +...+|+|+ |||.+++.++++.+.+++++.+.+-.+. .| |+.+--+  ..+..|.      .|..-.+.-.+.
T Consensus       246 Gi~-tkSg~MvGL-GET~Edv~e~l~~Lrelgvd~vtigqyL-~P-s~~h~~v--~~~v~p~------~f~~~~~~~~~~  313 (349)
T PLN02428        246 GLL-TKTSIMLGL-GETDEEVVQTMEDLRAAGVDVVTFGQYL-RP-TKRHLPV--KEYVTPE------KFEFWREYGEEM  313 (349)
T ss_pred             CCe-EEEeEEEec-CCCHHHHHHHHHHHHHcCCCEEeecccc-CC-Ccceeee--ecccCHH------HHHHHHHHHHHc
Confidence            997 899999999 9999999999999999999999876653 23 2221111  1122222      233344455568


Q ss_pred             CCceeccccccCCCcc
Q 012112          292 GYRHYEISSYGEDGYE  307 (471)
Q Consensus       292 Gy~~yeis~fa~~g~~  307 (471)
                      ||.+-+-.-+.|..|.
T Consensus       314 gf~~v~sgp~vrssy~  329 (349)
T PLN02428        314 GFRYVASGPLVRSSYK  329 (349)
T ss_pred             CCceEEecCcccchhh
Confidence            9988776666665543

>COG0502 BioB Biotin synthase and related enzymes [Coenzyme metabolism]

Probab=99.63  E-value=1.2e-14  Score=144.32  Aligned_cols=208  Identities=18%  Similarity=0.213  Sum_probs=154.5

Q ss_pred             EEEEeccC--CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           55 SAYIHLPF--CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        55 ~lYiHIPF--C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      .--|||-.  |+..|.||.+.+.. ..      ........-++.++++.+...+.+.  .++..+-=|=|++  -..++
T Consensus        51 ~~ii~iktg~c~edC~yC~qS~~~-~~------~~~~~~l~~~eeIle~Ak~ak~~Ga--~r~c~~aagr~~~--~~~~~  119 (335)
T COG0502          51 STLISIKTGCCPEDCAYCSQSARY-KT------GVKARKLMEVEEILEAAKKAKAAGA--TRFCMGAAGRGPG--RDMEE  119 (335)
T ss_pred             EEEEEeecCCCCCCCCCccccccC-cC------CCchhhcCCHHHHHHHHHHHHHcCC--ceEEEEEeccCCC--ccHHH
Confidence            33344444  89999999997653 11      1122333345667777766654331  2222222222222  35566


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG  212 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G  212 (471)
                      +.++++.+++..++    ++.  ++.+.++++.++.|+++|++++...++| +++..+.+--.|+.++..+.++.++++|
T Consensus       120 i~~~v~~Vk~~~~l----e~c--~slG~l~~eq~~~L~~aGvd~ynhNLeT-s~~~y~~I~tt~t~edR~~tl~~vk~~G  192 (335)
T COG0502         120 VVEAIKAVKEELGL----EVC--ASLGMLTEEQAEKLADAGVDRYNHNLET-SPEFYENIITTRTYEDRLNTLENVREAG  192 (335)
T ss_pred             HHHHHHHHHHhcCc----HHh--hccCCCCHHHHHHHHHcChhheeccccc-CHHHHcccCCCCCHHHHHHHHHHHHHcC
Confidence            77777777765443    232  5788999999999999999999999999 9999999999999999999999999999


Q ss_pred             CCeeEeeeecCCCCCCHHHHHHHHHHHHhCC-CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          213 VENWSLDLISSLPHQTPQMWEESLRRTVGAQ-PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       213 ~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~-p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      ++ +....|+|+ |||.+|-.+.+..+.++. |+.|-++.|.+.|||||...      +..+..+..++...++-.+
T Consensus       193 i~-vcsGgI~Gl-GEs~eDri~~l~~L~~l~~pdsVPIn~l~P~~GTPle~~------~~~~~~e~lk~IA~~Ri~~  261 (335)
T COG0502         193 IE-VCSGGIVGL-GETVEDRAELLLELANLPTPDSVPINFLNPIPGTPLENA------KPLDPFEFLKTIAVARIIM  261 (335)
T ss_pred             Cc-cccceEecC-CCCHHHHHHHHHHHHhCCCCCeeeeeeecCCCCCccccC------CCCCHHHHHHHHHHHHHHC
Confidence            98 999999999 999999999999999999 99999999999999999862      3345556666666555543

>PRK07360 FO synthase subunit 2; Reviewed

Probab=99.63  E-value=9e-15  Score=150.39  Aligned_cols=208  Identities=14%  Similarity=0.180  Sum_probs=150.2

Q ss_pred             EeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCC-CCCCCCHHHH
Q 012112           58 IHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGG-TPSLVPPRFV  133 (471)
Q Consensus        58 iHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGG-Tps~l~~~~l  133 (471)
                      .+|.+   |+.+|.||.|..... .       .... .-..+.+++.++...+.     ++..+.+.|| .|..-..+++
T Consensus        62 ~~i~~Tn~C~~~C~fC~~~~~~~-~-------~~~y-~ls~eeI~~~a~~a~~~-----G~~~i~l~~G~~p~~~~~e~~  127 (371)
T PRK07360         62 RNINFTNICEGHCGFCAFRRDEG-D-------HGAF-WLTIAEILEKAAEAVKR-----GATEVCIQGGLHPAADSLEFY  127 (371)
T ss_pred             cCcccchhhhcCCccCCcccCCC-C-------CCCe-eCCHHHHHHHHHHHHhC-----CCCEEEEccCCCCCCCcHHHH
Confidence            35555   999999999976421 0       0111 12345566555554332     3677777777 5665337889


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEe-----------cCCCCCHHHHHHHHHCCCCEEE-EccCCCCHHHHHHcCCC-CCHHH
Q 012112          134 SSILDTLTDKFGLSLDAEISMEM-----------DPGTFDARKMEELMDLGVNRVS-LGVQAFQDELLKSCGRA-HGLKE  200 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~-----------~P~~l~~e~l~~l~~~Gvnrvs-iGvQS~~d~~L~~l~R~-~t~~~  200 (471)
                      .++++.+++.++     .+.+.+           +.+..+++.++.|+++|++++. -|.+.+++++++.+... .+.++
T Consensus       128 ~~~i~~ik~~~~-----~i~i~a~s~~ei~~~~~~~G~~~~e~l~~LkeAGld~~~~t~~e~l~~~vr~~i~p~~~s~~~  202 (371)
T PRK07360        128 LEILEAIKEEFP-----DIHLHAFSPMEVYFAAREDGLSYEEVLKALKDAGLDSMPGTAAEILVDEVRRIICPEKIKTAE  202 (371)
T ss_pred             HHHHHHHHHhCC-----CcceeeCCHHHHHHHHhhcCCCHHHHHHHHHHcCCCcCCCcchhhccHHHHHhhCCCCCCHHH
Confidence            999999988653     233332           4566788999999999999995 56788899999888775 58999


Q ss_pred             HHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecccc----CCChhhhcccCCCCCCCCHHH
Q 012112          201 VYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVE----QGTKFGILYTPGEFPLPTETQ  276 (471)
Q Consensus       201 ~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~----pgT~l~~~~~~g~~~~p~~~~  276 (471)
                      ..++++.++++|++ ++..+|+|+ |||.++..+.+..+.+++++.+.+-.+.+.    +|||+......  ...++..+
T Consensus       203 ~l~~i~~a~~~Gl~-~~sg~i~G~-gEt~edrv~~l~~lr~l~~~~~g~~~fIp~~f~~~~Tpl~~~~~~--~~~~~~~~  278 (371)
T PRK07360        203 WIEIVKTAHKLGLP-TTSTMMYGH-VETPEHRIDHLLILREIQQETGGITEFVPLPFVHENAPLYERGRV--KGGAPGLE  278 (371)
T ss_pred             HHHHHHHHHHcCCC-ceeeEEeeC-CCCHHHHHHHHHHHHHhchhhCCeeEEEeccccCCCCcccccccc--CCCCCHHH
Confidence            99999999999998 899999998 999999999999999999998777666663    59999754211  11234444


Q ss_pred             HHHHHHHHHHHH
Q 012112          277 SANFYRMASSML  288 (471)
Q Consensus       277 ~~~~~~~~~~~L  288 (471)
                      ..++...++-.|
T Consensus       279 ~lr~iAi~Rl~l  290 (371)
T PRK07360        279 DLLLYAVSRIFL  290 (371)
T ss_pred             HHHHHHHHHHhc
Confidence            466666655554

>PRK05926 hypothetical protein; Provisional

Probab=99.63  E-value=1.1e-14  Score=148.94  Aligned_cols=214  Identities=13%  Similarity=0.219  Sum_probs=152.5

Q ss_pred             eccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHH
Q 012112           59 HLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSS  135 (471)
Q Consensus        59 HIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~  135 (471)
                      |++|   |+..|.||.|.... +        ......-..+.++++++.. ..     ++..+++.||...-++.+.+.+
T Consensus        71 nin~Tn~C~~dC~FCaf~~~~-~--------~~~~~~ls~eeI~~~a~~a-~~-----G~~ei~iv~G~~p~~~~e~~~e  135 (370)
T PRK05926         71 YLYPTNFCQFNCTFCSFYAKP-G--------DPKGWFYTPDQLVQSIKEN-PS-----PITETHIVAGCFPSCNLAYYEE  135 (370)
T ss_pred             eeecCCCCCCCCCccccccCC-C--------CcccccCCHHHHHHHHHHH-hc-----CCCEEEEEeCcCCCCCHHHHHH
Confidence            5555   99999999986532 1        0111111245666666654 21     2666777666543468899999


Q ss_pred             HHHHHHHHcCCCCCcEEEEEe-cC----------CCCCHHHHHHHHHCCCCEEEE-ccCCCCHHHHHHcCC-CCCHHHHH
Q 012112          136 ILDTLTDKFGLSLDAEISMEM-DP----------GTFDARKMEELMDLGVNRVSL-GVQAFQDELLKSCGR-AHGLKEVY  202 (471)
Q Consensus       136 ll~~l~~~~~l~~~~eitiE~-~P----------~~l~~e~l~~l~~~Gvnrvsi-GvQS~~d~~L~~l~R-~~t~~~~~  202 (471)
                      +++.|++.++     .+.+.+ .|          +-.+++.++.|+++|++++.. |.|++++++++.+.. ..+.++..
T Consensus       136 ~i~~Ik~~~p-----~i~i~a~s~~Ei~~~~~~~~~~~~e~l~~LkeAGl~~~~g~GaEi~~e~~r~~~~p~~~t~~e~l  210 (370)
T PRK05926        136 LFSKIKQNFP-----DLHIKALTAIEYAYLSKLDNLPVKEVLQTLKIAGLDSIPGGGAEILVDEIRETLAPGRLSSQGFL  210 (370)
T ss_pred             HHHHHHHhCC-----CeeEEECCHHHHHHHHhhcCCCHHHHHHHHHHcCcCccCCCCchhcCHHHHHhhCCCCCCHHHHH
Confidence            9999998764     122221 11          224688999999999999996 699999999998864 56889999


Q ss_pred             HHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccc----cCCChhhhcccCCCCCCCCHHHHH
Q 012112          203 EAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQV----EQGTKFGILYTPGEFPLPTETQSA  278 (471)
Q Consensus       203 ~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~----~pgT~l~~~~~~g~~~~p~~~~~~  278 (471)
                      ++++.++++|++ ++..+|+|+ |||.++..+.+..+.+++++.+.+-.+.|    .++|+++....  .....+..+..
T Consensus       211 ~~i~~a~~~Gi~-~~sgmi~G~-gEt~edrv~~l~~Lr~Lq~~t~gf~~fIp~~f~~~~t~l~~~~~--~~~~~~~~~~l  286 (370)
T PRK05926        211 EIHKTAHSLGIP-SNATMLCYH-RETPEDIVTHMSKLRALQDKTSGFKNFILLKFASENNALGKRLR--KMGSRHSIPPA  286 (370)
T ss_pred             HHHHHHHHcCCc-ccCceEEeC-CCCHHHHHHHHHHHHhcCCccCCeeeeEecccCCCCCccccccc--ccCCCChHHHH
Confidence            999999999998 777788885 99999999999999999999999999887    66898764210  11123444556


Q ss_pred             HHHHHHHHHHHHCCCceecc
Q 012112          279 NFYRMASSMLSSAGYRHYEI  298 (471)
Q Consensus       279 ~~~~~~~~~L~~~Gy~~yei  298 (471)
                      ++...++-+|.  .+.+...
T Consensus       287 r~~AvaRl~l~--n~~~iqa  304 (370)
T PRK05926        287 SIIAVARLFLD--NFPNIKA  304 (370)
T ss_pred             HHHHHHHHhcC--CCccccc
Confidence            67766666653  3544433

>COG1244 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.58  E-value=3.8e-13  Score=130.57  Aligned_cols=219  Identities=19%  Similarity=0.298  Sum_probs=166.6

Q ss_pred             CCCCeEEEEeccC--CC----cCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCC
Q 012112           50 QLSPTSAYIHLPF--CR----KRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGG  123 (471)
Q Consensus        50 ~~~~~~lYiHIPF--C~----~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGG  123 (471)
                      ..+.-++++-+|-  |.    ..|.+|+++....+.        ....+.++.++...+........  ..+-.||-.| 
T Consensus        42 g~~~k~l~vILrT~GC~w~~~~gC~MCgY~~d~~~~--------~vs~E~l~~qfd~~~~k~~~~~~--~~~vkIFTSG-  110 (358)
T COG1244          42 GYPGKSLTVILRTRGCRWYREGGCYMCGYPADSAGE--------PVSEENLINQFDEAYSKYEGKFD--EFVVKIFTSG-  110 (358)
T ss_pred             CCcCceEEEEEecCCcceeccCCcceeccccccCCC--------CCCHHHHHHHHHHHHHHhcccCC--CceEEEEccc-
Confidence            3456678888887  55    459999988653221        23456677777777776653322  2245566555 


Q ss_pred             CCCCCCHH-----HHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHC--CCC-EEEEccCCCCHHHH-HHcCC
Q 012112          124 TPSLVPPR-----FVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL--GVN-RVSLGVQAFQDELL-KSCGR  194 (471)
Q Consensus       124 Tps~l~~~-----~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~--Gvn-rvsiGvQS~~d~~L-~~l~R  194 (471)
                        |+|++.     ....+++.|.+.   ....++.+|.+|+.+++|.|+.+++.  |.. .|.||+||+||++. ..+|+
T Consensus       111 --SFLD~~EVP~e~R~~Il~~is~~---~~v~~vvvESRpE~I~eE~l~e~~~il~gk~~EvaIGLETanD~ire~sINK  185 (358)
T COG1244         111 --SFLDPEEVPREARRYILERISEN---DNVKEVVVESRPEFIREERLEEITEILEGKIVEVAIGLETANDKIREDSINK  185 (358)
T ss_pred             --ccCChhhCCHHHHHHHHHHHhhc---cceeEEEeecCchhcCHHHHHHHHHhhCCceEEEEEecccCcHHHHHHhhhc
Confidence              456654     445566666543   33469999999999999999999998  754 89999999999998 67999


Q ss_pred             CCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHH----HHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCC
Q 012112          195 AHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQ----MWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFP  270 (471)
Q Consensus       195 ~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e----~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~  270 (471)
                      +.|.+++.+|++.++++|+. +.+.|++-.|--|+.    |+..+++ +.+-+.+.||+.+-++..||-+...+++|.+.
T Consensus       186 GftF~df~~A~~~ir~~g~~-vktYlllKP~FlSE~eAI~D~i~Si~-~~~~~~d~iSinptnVqKgTlvE~lw~~g~YR  263 (358)
T COG1244         186 GFTFEDFVRAAEIIRNYGAK-VKTYLLLKPPFLSEKEAIEDVISSIV-AAKPGTDTISINPTNVQKGTLVEKLWRRGLYR  263 (358)
T ss_pred             CCcHHHHHHHHHHHHHcCCc-eeEEEEecccccChHHHHHHHHHHHH-HhccCCCeEEecccccchhhHHHHHHHcCCCC
Confidence            99999999999999999998 999999999987764    4455555 55667899999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 012112          271 LPTETQSANFYRMASS  286 (471)
Q Consensus       271 ~p~~~~~~~~~~~~~~  286 (471)
                      +|.-....+....+.+
T Consensus       264 PPwLWSivEVL~~~~~  279 (358)
T COG1244         264 PPWLWSIVEVLREAKK  279 (358)
T ss_pred             CchHHHHHHHHHHHHh
Confidence            9987666665554433

>PRK05927 hypothetical protein; Provisional

Probab=99.56  E-value=3.9e-14  Score=144.06  Aligned_cols=210  Identities=15%  Similarity=0.190  Sum_probs=148.9

Q ss_pred             eccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHH
Q 012112           59 HLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSS  135 (471)
Q Consensus        59 HIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~  135 (471)
                      ||.|   |..+|.||.|.... +.        .....-..+.+++.++.....     ++..+.|.||...-.+.+++.+
T Consensus        48 ~i~~Tn~C~~~C~fCaf~~~~-~~--------~~~y~ls~eei~~~a~~~~~~-----G~~~i~i~gG~~p~~~~e~~~~  113 (350)
T PRK05927         48 NPNYTNICKIDCTFCAFYRKP-HS--------SDAYLLSFDEFRSLMQRYVSA-----GVKTVLLQGGVHPQLGIDYLEE  113 (350)
T ss_pred             CCccchhhhcCCccCCccCCC-CC--------ccccccCHHHHHHHHHHHHHC-----CCCEEEEeCCCCCCCCHHHHHH
Confidence            5555   99999999997632 10        010111235555555544332     2556667677643368899999


Q ss_pred             HHHHHHHHcC-CCC----CcEEE-EEecCCCCCHHHHHHHHHCCCCEEEE-ccCCCCHHHHHHcCCCC-CHHHHHHHHHH
Q 012112          136 ILDTLTDKFG-LSL----DAEIS-MEMDPGTFDARKMEELMDLGVNRVSL-GVQAFQDELLKSCGRAH-GLKEVYEAIEI  207 (471)
Q Consensus       136 ll~~l~~~~~-l~~----~~eit-iE~~P~~l~~e~l~~l~~~Gvnrvsi-GvQS~~d~~L~~l~R~~-t~~~~~~ai~~  207 (471)
                      +++.|++.++ +..    .+|++ +..+.+..++|.++.|+++|+.++-= |.|++++.+.+.+.... +.++..+.++.
T Consensus       114 ~i~~ik~~~p~l~~~~~s~~ei~~~~~~~G~~~~e~l~~Lk~aGl~~l~g~~~Et~~~~~~~~~~p~k~~~~~rl~~i~~  193 (350)
T PRK05927        114 LVRITVKEFPSLHPHFFSAVEIAHAAQVSGISTEQALERLWDAGQRTIPGGGAEILSERVRKIISPKKMGPDGWIQFHKL  193 (350)
T ss_pred             HHHHHHHHCCCCcccCCCHHHHHHHHHhcCCCHHHHHHHHHHcCcccCCCCCchhCCHHHhhccCCCCCCHHHHHHHHHH
Confidence            9999998763 321    12222 12346788999999999999988875 89999999999988754 67999999999


Q ss_pred             HHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecccc----CCChhhhcccCCCCCCCCHHHHHHHHHH
Q 012112          208 VKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVE----QGTKFGILYTPGEFPLPTETQSANFYRM  283 (471)
Q Consensus       208 ~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~----pgT~l~~~~~~g~~~~p~~~~~~~~~~~  283 (471)
                      |++.|++ ++..+|||+ |||.++..+.+..+.+++-+...+-.+.+.    +|||+....    ...++.++..++...
T Consensus       194 A~~lGi~-~~sg~l~G~-gEt~e~ri~~l~~Lr~lqd~~~gf~~fIp~~~~~~~tpl~~~~----~~~~s~~e~Lr~iAv  267 (350)
T PRK05927        194 AHRLGFR-STATMMFGH-VESPEDILLHLQTLRDAQDENPGFYSFIPWSYKPGNTALGRRV----PHQASPELYYRILAV  267 (350)
T ss_pred             HHHcCCC-cCceeEEee-CCCHHHHHHHHHHHHHhhHhhCCeeeeeecCcCCCCCccccCC----CCCCCHHHHHHHHHH
Confidence            9999998 899999999 999999999999999998443334434432    479986421    113566677777666


Q ss_pred             HHHHH
Q 012112          284 ASSML  288 (471)
Q Consensus       284 ~~~~L  288 (471)
                      ++-+|
T Consensus       268 ~Rl~l  272 (350)
T PRK05927        268 ARIFL  272 (350)
T ss_pred             HHHhC
Confidence            65554

>KOG2535 consensus RNA polymerase II elongator complex, subunit ELP3/histone acetyltransferase [Chromatin structure and dynamics; Transcription]

Probab=99.54  E-value=1.6e-13  Score=133.33  Aligned_cols=181  Identities=19%  Similarity=0.324  Sum_probs=141.9

Q ss_pred             HHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcC-----------------CCCCcEEEEEecCCCCCHH
Q 012112          102 IIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFG-----------------LSLDAEISMEMDPGTFDAR  164 (471)
Q Consensus       102 i~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~-----------------l~~~~eitiE~~P~~l~~e  164 (471)
                      ++++.+....-..++.|..| ||+-.|+.++-..++..|...+.                 .....-||||++|+.....
T Consensus       159 v~QLk~LGHsvDKVE~i~MG-GTFMsLPe~YRd~FI~nLHdALSGhts~~v~EAv~yse~s~tKCiGiTIETRPDyC~~~  237 (554)
T KOG2535|consen  159 VEQLKQLGHSVDKVEFIVMG-GTFMSLPEEYRDYFIRNLHDALSGHTSANVEEAVKYSERSLTKCIGITIETRPDYCLKR  237 (554)
T ss_pred             HHHHHHhCCccceeEEEEec-ceeecChHHHHHHHHHHHHHHhcCCCccCHHHHHHhhhhccceeeeEEeecCcccchhh
Confidence            34443333223457777775 68888888877777766655321                 2234689999999999999


Q ss_pred             HHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHH-HHHHHHHHH--h
Q 012112          165 KMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQM-WEESLRRTV--G  241 (471)
Q Consensus       165 ~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~-~~~~l~~~~--~  241 (471)
                      .|..|-..||+|+.|||||.-+++-+.-||+||.+.+-+....++++||+ |-..+|-.||+-..|- +++-.++..  +
T Consensus       238 Hl~~ML~YGCTRlEiGVQS~YEDVARDTNRGHTV~aVce~F~laKDaG~K-vV~HMMPdLPNVg~eRDieqF~E~FenP~  316 (554)
T KOG2535|consen  238 HLSDMLTYGCTRLEIGVQSVYEDVARDTNRGHTVKAVCESFHLAKDAGFK-VVAHMMPDLPNVGMERDIEQFKEYFENPA  316 (554)
T ss_pred             hHHHHHhcCCceEEeccchhHHHhhhcccCCccHHHHHHHhhhhhccCce-eehhhCCCCCCCchhhhHHHHHHHhcCcC
Confidence            99999999999999999999999999999999999999999999999998 8999999999976543 333333332  2


Q ss_pred             CCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHH
Q 012112          242 AQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMA  284 (471)
Q Consensus       242 l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~  284 (471)
                      +.+|.+-+|+-.+..||-++.+++.|++.--+.+...++...+
T Consensus       317 FR~DGLKiYPTLVIrGTGLyELWKtgrYk~Y~p~~LvdlvArI  359 (554)
T KOG2535|consen  317 FRPDGLKIYPTLVIRGTGLYELWKTGRYKSYSPSALVDLVARI  359 (554)
T ss_pred             cCCCcceecceEEEecccHHHHHhcCCcccCCHHHHHHHHHHH
Confidence            5789999999999999999999999998876666666655443

>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein

Probab=99.53  E-value=7.1e-13  Score=133.73  Aligned_cols=195  Identities=17%  Similarity=0.211  Sum_probs=142.5

Q ss_pred             ccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHH
Q 012112           60 LPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDT  139 (471)
Q Consensus        60 IPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~  139 (471)
                      -.-|+.+|.||.-.... +..     .......+-+++++++|+..       ..+..|.|+||.|.+++.+.+.++++.
T Consensus        95 T~~C~~~Cr~C~r~~~~-~~~-----~~~~l~~~e~~~~i~~i~~~-------~~I~~VilSGGDPl~~~~~~L~~ll~~  161 (321)
T TIGR03822        95 VHVCPVYCRFCFRREMV-GPE-----GLGVLSPAELDAAFAYIADH-------PEIWEVILTGGDPLVLSPRRLGDIMAR  161 (321)
T ss_pred             cCCCCCcCcCCCchhhc-CCc-----ccCcCCHHHHHHHHHHHHhC-------CCccEEEEeCCCcccCCHHHHHHHHHH
Confidence            34499999999754321 110     00111123344455555421       237789999999999999999999999


Q ss_pred             HHHHcCCCCCcEEEEEe-----cCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          140 LTDKFGLSLDAEISMEM-----DPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       140 l~~~~~l~~~~eitiE~-----~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                      +++. +  ....+++.+     +|..++++.++.|+++|+ .+.|++++.+++.+        .+++.+|++.++++|+.
T Consensus       162 l~~i-~--~v~~iri~Tr~~v~~p~rit~ell~~L~~~g~-~v~i~l~~~h~~el--------~~~~~~ai~~L~~~Gi~  229 (321)
T TIGR03822       162 LAAI-D--HVKIVRFHTRVPVADPARVTPALIAALKTSGK-TVYVALHANHAREL--------TAEARAACARLIDAGIP  229 (321)
T ss_pred             HHhC-C--CccEEEEeCCCcccChhhcCHHHHHHHHHcCC-cEEEEecCCChhhc--------CHHHHHHHHHHHHcCCE
Confidence            9873 2  122345543     788899999999999995 48999999987654        37899999999999998


Q ss_pred             eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          215 NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       215 ~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      ..+-..++.-.+++.+++.+.++++.++++....+|.+.+.+||..++         .+.++..+++..+...+
T Consensus       230 v~~q~vLl~gvNd~~~~l~~l~~~l~~~gv~pyyl~~~~p~~g~~~f~---------~~~~~~~~i~~~l~~~~  294 (321)
T TIGR03822       230 MVSQSVLLRGVNDDPETLAALMRAFVECRIKPYYLHHLDLAPGTAHFR---------VTIEEGQALVRALRGRI  294 (321)
T ss_pred             EEEEeeEeCCCCCCHHHHHHHHHHHHhcCCeeEEEEecCCCCCccccc---------CcHHHHHHHHHHHHHhC
Confidence            445455665569999999999999999999999999999999986543         34556666676665543

Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.

>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional

Probab=99.53  E-value=3e-12  Score=132.28  Aligned_cols=180  Identities=16%  Similarity=0.238  Sum_probs=137.5

Q ss_pred             CCCCCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCC
Q 012112           49 PQLSPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSL  127 (471)
Q Consensus        49 ~~~~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~  127 (471)
                      ....|+.++++|.. |+.+|.||.......+.       ....-..-+..+++++...        .+..|.|.||.|.+
T Consensus        11 ~~~~P~~l~i~iT~~CNl~C~~C~~~~~~~~~-------~~~~~~e~~~~ii~~~~~~--------g~~~v~~~GGEPll   75 (378)
T PRK05301         11 AVGPPLWLLAELTYRCPLQCPYCSNPLDLARH-------GAELSTEEWIRVLREARAL--------GALQLHFSGGEPLL   75 (378)
T ss_pred             CCCCCeEEEEEecCccCcCCCCCCCccccccc-------cCCCCHHHHHHHHHHHHHc--------CCcEEEEECCccCC
Confidence            34567999999999 99999999754321110       0111112234455555322        25678899999976


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCC-CCHHHHHHHHH
Q 012112          128 VPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRA-HGLKEVYEAIE  206 (471)
Q Consensus       128 l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~-~t~~~~~~ai~  206 (471)
                       .++ +.++++.+++. +    ..+++.+|...++++.++.|+++|++.|+|++++.++++.+.+.+. .+.+.+.++++
T Consensus        76 -~~~-~~~il~~~~~~-g----~~~~i~TNG~ll~~~~~~~L~~~g~~~v~iSldg~~~e~~d~irg~~g~f~~~~~~i~  148 (378)
T PRK05301         76 -RKD-LEELVAHAREL-G----LYTNLITSGVGLTEARLAALKDAGLDHIQLSFQDSDPELNDRLAGTKGAFAKKLAVAR  148 (378)
T ss_pred             -chh-HHHHHHHHHHc-C----CcEEEECCCccCCHHHHHHHHHcCCCEEEEEecCCCHHHHHHHcCCCchHHHHHHHHH
Confidence             544 77888888753 2    3567888988899999999999999999999999999999887665 48999999999


Q ss_pred             HHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecc
Q 012112          207 IVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQ  253 (471)
Q Consensus       207 ~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~  253 (471)
                      .+++.|+. |.+..  .++.++.+++.+.++++.+++++++.+..+.
T Consensus       149 ~l~~~g~~-v~i~~--vv~~~N~~~i~~~~~~~~~lgv~~i~~~~~~  192 (378)
T PRK05301        149 LVKAHGYP-LTLNA--VIHRHNIDQIPRIIELAVELGADRLELANTQ  192 (378)
T ss_pred             HHHHCCCc-eEEEE--EeecCCHHHHHHHHHHHHHcCCCEEEEeccc
Confidence            99999987 55544  4688999999999999999999999876543

>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional

Probab=99.52  E-value=5.4e-13  Score=135.27  Aligned_cols=179  Identities=19%  Similarity=0.262  Sum_probs=131.6

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      .|.|+|-. |+.+|.||.-.......      ........-+..+++++..        ..+..|.|.||.|.+ . .++
T Consensus        15 ~l~i~iT~~CNl~C~yC~~~~~~~~~------~~~~ls~eei~~li~~~~~--------~Gv~~I~~tGGEPll-r-~dl   78 (329)
T PRK13361         15 YLRLSVTDRCDFRCVYCMSEDPCFLP------RDQVLSLEELAWLAQAFTE--------LGVRKIRLTGGEPLV-R-RGC   78 (329)
T ss_pred             eEEEEecCCccccCCCCCCCCCCcCC------ccCCCCHHHHHHHHHHHHH--------CCCCEEEEECcCCCc-c-ccH
Confidence            45555555 99999999643211000      0111112223344444432        237889999999975 3 357


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGV  213 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~  213 (471)
                      .++++.+++..++   ..+++.+|...++ +.++.|+++|+++|+++++|.+++..+.+.|..+.+++.++++.++++|+
T Consensus        79 ~~li~~i~~~~~l---~~i~itTNG~ll~-~~~~~L~~aGl~~v~ISlDs~~~e~~~~i~~~g~~~~vl~~i~~~~~~Gi  154 (329)
T PRK13361         79 DQLVARLGKLPGL---EELSLTTNGSRLA-RFAAELADAGLKRLNISLDTLRPELFAALTRNGRLERVIAGIDAAKAAGF  154 (329)
T ss_pred             HHHHHHHHhCCCC---ceEEEEeChhHHH-HHHHHHHHcCCCeEEEEeccCCHHHhhhhcCCCCHHHHHHHHHHHHHcCC
Confidence            7888888764322   2688889975554 68999999999999999999999999999999999999999999999999


Q ss_pred             CeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecccc
Q 012112          214 ENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVE  255 (471)
Q Consensus       214 ~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~  255 (471)
                      ..|.+..++ +||++.+++.+.++++.+++++ +.+..+++.
T Consensus       155 ~~v~in~v~-~~g~N~~ei~~~~~~~~~~gi~-~~~ie~mP~  194 (329)
T PRK13361        155 ERIKLNAVI-LRGQNDDEVLDLVEFCRERGLD-IAFIEEMPL  194 (329)
T ss_pred             CceEEEEEE-ECCCCHHHHHHHHHHHHhcCCe-EEEEecccC
Confidence            547777654 6899999999999999999986 556666654

>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed

Probab=99.46  E-value=1.9e-12  Score=131.37  Aligned_cols=182  Identities=18%  Similarity=0.233  Sum_probs=130.7

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      .+.|.+-- |+.+|.||......... .    .....   ..+.+.+.++...+.     ++..|.|.||.|.+ . ..+
T Consensus        18 ~l~i~vT~~Cnl~C~yC~~~~~~~~~-~----~~~~l---s~eei~~~i~~~~~~-----gi~~I~~tGGEPll-~-~~l   82 (331)
T PRK00164         18 YLRISVTDRCNFRCTYCMPEGYLPFL-P----KEELL---SLEEIERLVRAFVAL-----GVRKVRLTGGEPLL-R-KDL   82 (331)
T ss_pred             eEEEEEcCCcCcCCCCCCCccCCCCC-C----ccccC---CHHHHHHHHHHHHHC-----CCCEEEEECCCCcC-c-cCH
Confidence            44555444 99999999764310000 0    00111   122233333322221     36788899999976 3 357


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGV  213 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~  213 (471)
                      .++++.+++..+   ...+++.+|...+ .+.++.|+++|+++|.++++|++++..+.+.+..+.+++.++++.++++|+
T Consensus        83 ~~li~~i~~~~~---~~~i~itTNG~ll-~~~~~~L~~agl~~i~ISlds~~~e~~~~i~~~~~~~~vl~~i~~~~~~g~  158 (331)
T PRK00164         83 EDIIAALAALPG---IRDLALTTNGYLL-ARRAAALKDAGLDRVNVSLDSLDPERFKAITGRDRLDQVLAGIDAALAAGL  158 (331)
T ss_pred             HHHHHHHHhcCC---CceEEEEcCchhH-HHHHHHHHHcCCCEEEEEeccCCHHHhccCCCCCCHHHHHHHHHHHHHCCC
Confidence            788888876432   2478888886434 578999999999999999999999999999999999999999999999999


Q ss_pred             CeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCC
Q 012112          214 ENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQG  257 (471)
Q Consensus       214 ~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pg  257 (471)
                      ..|.+..++ +||.+.+++.+.++++.++++ ++.+..+++...
T Consensus       159 ~~v~i~~vv-~~g~n~~ei~~l~~~~~~~gv-~v~~ie~~p~~~  200 (331)
T PRK00164        159 TPVKVNAVL-MKGVNDDEIPDLLEWAKDRGI-QLRFIELMPTGE  200 (331)
T ss_pred             CcEEEEEEE-ECCCCHHHHHHHHHHHHhCCC-eEEEEEeeECCC
Confidence            447777644 789999999999999999987 477777776543

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.45  E-value=2.7e-12  Score=143.20  Aligned_cols=206  Identities=17%  Similarity=0.268  Sum_probs=151.0

Q ss_pred             eccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC-CCCCCHHHHH
Q 012112           59 HLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT-PSLVPPRFVS  134 (471)
Q Consensus        59 HIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT-ps~l~~~~l~  134 (471)
                      +|.|   |+.+|.||.|......         ........+.++++++...+.     ++..+.+.||. |. ++.+.+.
T Consensus       529 ~In~TN~C~~~C~FCafs~~~~~---------~~~y~Ls~eeI~~~a~ea~~~-----G~tev~i~gG~~p~-~~~~~y~  593 (843)
T PRK09234        529 NINFTNICYTGCRFCAFAQRKTD---------ADAYTLSLDEVADRAWEAWVA-----GATEVCMQGGIHPE-LPGTGYA  593 (843)
T ss_pred             ceecCCCCCCCCcccccccCCCC---------CCcccCCHHHHHHHHHHHHHC-----CCCEEEEecCCCCC-cCHHHHH
Confidence            5666   9999999999764211         111122456666666655432     35666665555 55 5888899


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEe-cC----------CCCCHHHHHHHHHCCCCEEEE-ccCCCCHHHHHHcCC-CCCHHHH
Q 012112          135 SILDTLTDKFGLSLDAEISMEM-DP----------GTFDARKMEELMDLGVNRVSL-GVQAFQDELLKSCGR-AHGLKEV  201 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~-~P----------~~l~~e~l~~l~~~Gvnrvsi-GvQS~~d~~L~~l~R-~~t~~~~  201 (471)
                      ++++.|++.++     .+.+.+ .|          +..++|.++.|+++|++++-- |-+-+++++.+.+.. ..+.++.
T Consensus       594 ~lir~IK~~~p-----~i~i~afsp~Ei~~~a~~~Gl~~~e~l~~LkeAGLds~pgt~aeil~d~vr~~i~p~k~~~~~w  668 (843)
T PRK09234        594 DLVRAVKARVP-----SMHVHAFSPMEIVNGAARLGLSIREWLTALREAGLDTIPGTAAEILDDEVRWVLTKGKLPTAEW  668 (843)
T ss_pred             HHHHHHHHhCC-----CeeEEecChHHHHHHHHHcCCCHHHHHHHHHHhCcCccCCCchhhCCHHHHhhcCCCCCCHHHH
Confidence            99999998763     233332 12          345789999999999999966 677788888888876 4588899


Q ss_pred             HHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccc----cCCChhhhcccCC-CCCCCCHHH
Q 012112          202 YEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQV----EQGTKFGILYTPG-EFPLPTETQ  276 (471)
Q Consensus       202 ~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~----~pgT~l~~~~~~g-~~~~p~~~~  276 (471)
                      .++++.++++|++ ++..+|||+ +||.+++.+.+..+.+++.+...+-.+.|    .++||++.   .| ..+.++..+
T Consensus       669 le~i~~Ah~lGi~-~~stmm~G~-~Et~edrv~hl~~LreLq~~tgGf~~fIPl~F~~~~tpl~l---~~~~~~~~t~~e  743 (843)
T PRK09234        669 IEVVTTAHEVGLR-SSSTMMYGH-VDTPRHWVAHLRVLRDIQDRTGGFTEFVPLPFVHQNAPLYL---AGAARPGPTHRE  743 (843)
T ss_pred             HHHHHHHHHcCCC-cccceEEcC-CCCHHHHHHHHHHHHhcCcccCCeeeeeeccccCCCCCccc---ccCCCCCCCHHH
Confidence            9999999999998 999999997 79999999999999999998777666666    56888752   12 224467777


Q ss_pred             HHHHHHHHHHHHH
Q 012112          277 SANFYRMASSMLS  289 (471)
Q Consensus       277 ~~~~~~~~~~~L~  289 (471)
                      ...+...++-+|.
T Consensus       744 ~Lr~iAvaRl~Lp  756 (843)
T PRK09234        744 NRAVHALARIMLH  756 (843)
T ss_pred             HHHHHHHHHHhCC
Confidence            7777766665553

>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E

Probab=99.45  E-value=2e-11  Score=125.29  Aligned_cols=178  Identities=15%  Similarity=0.233  Sum_probs=135.3

Q ss_pred             CCCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           51 LSPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        51 ~~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      ..|..++++|-. |+.+|.||........       .....-..-+..+++|+...        .+..|.|+||.|.+ .
T Consensus         4 ~~P~~l~ieiT~~CNl~C~~C~~~~~~~~-------~~~~l~~e~~~~ii~~~~~~--------g~~~v~~~GGEPll-~   67 (358)
T TIGR02109         4 GPPLWLLAELTHRCPLQCPYCSNPLELAR-------RKAELTTEEWTDVLTQAAEL--------GVLQLHFSGGEPLA-R   67 (358)
T ss_pred             CCCcEEEEeeccccCcCCCCCCCChhccc-------ccCCCCHHHHHHHHHHHHhc--------CCcEEEEeCccccc-c
Confidence            456889999998 9999999975421100       00111122344566665432        25678999999985 5


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCC-CCHHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRA-HGLKEVYEAIEIV  208 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~-~t~~~~~~ai~~~  208 (471)
                      + ++.++++.+++. +    ..+++.+|.-.++++.++.|+++|+++|+|++++.+++..+.+++. .+.+.+.++++.+
T Consensus        68 ~-~~~~ii~~~~~~-g----~~~~l~TNG~ll~~e~~~~L~~~g~~~v~iSldg~~~e~~d~~rg~~g~f~~v~~~i~~l  141 (358)
T TIGR02109        68 P-DLVELVAHARRL-G----LYTNLITSGVGLTEARLDALADAGLDHVQLSFQGVDEALADRIAGYKNAFEQKLAMARAV  141 (358)
T ss_pred             c-cHHHHHHHHHHc-C----CeEEEEeCCccCCHHHHHHHHhCCCCEEEEeCcCCCHHHHHHhcCCccHHHHHHHHHHHH
Confidence            4 477888888763 2    3577888887789999999999999999999999999998888654 4789999999999


Q ss_pred             HHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecc
Q 012112          209 KLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQ  253 (471)
Q Consensus       209 ~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~  253 (471)
                      +++|+. +.+  .+.++.++.+++.+.++++.+++++++.+..+.
T Consensus       142 ~~~g~~-v~v--~~vv~~~N~~~l~~~~~~~~~lg~~~i~~~~~~  183 (358)
T TIGR02109       142 KAAGLP-LTL--NFVIHRHNIDQIPEIIELAIELGADRVELATTQ  183 (358)
T ss_pred             HhCCCc-eEE--EEEeccCCHHHHHHHHHHHHHcCCCEEEEEeee
Confidence            999986 554  445678999999999999999999999876543

This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.

>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal

Probab=99.43  E-value=4e-12  Score=127.39  Aligned_cols=177  Identities=19%  Similarity=0.273  Sum_probs=131.3

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      .++|++-- |+.+|.||........       ........-+..+++++.   .     ..++.|.|.||.|.+ .+ .+
T Consensus        11 ~l~i~vT~~CNl~C~yC~~~~~~~~-------~~~~ls~eei~~~i~~~~---~-----~gi~~I~~tGGEPll-~~-~l   73 (302)
T TIGR02668        11 SLRISVTDRCNLSCFYCHMEGEDRS-------GGNELSPEEIERIVRVAS---E-----FGVRKVKITGGEPLL-RK-DL   73 (302)
T ss_pred             eEEEEEcccccCCCCCCCccccCCC-------ccCcCCHHHHHHHHHHHH---H-----cCCCEEEEECccccc-cc-CH
Confidence            57777776 9999999976532110       000111112233333332   1     136778899999976 44 46


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGV  213 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~  213 (471)
                      .++++.+++. ++   ..+++.+|. .+..+.++.|+++|+++|++++.|.+++..+.+.+..+.+++.++++.++++|+
T Consensus        74 ~~iv~~l~~~-g~---~~v~i~TNG-~ll~~~~~~l~~~g~~~v~iSld~~~~~~~~~i~~~~~~~~vl~~i~~~~~~G~  148 (302)
T TIGR02668        74 IEIIRRIKDY-GI---KDVSMTTNG-ILLEKLAKKLKEAGLDRVNVSLDTLDPEKYKKITGRGALDRVIEGIESAVDAGL  148 (302)
T ss_pred             HHHHHHHHhC-CC---ceEEEEcCc-hHHHHHHHHHHHCCCCEEEEEecCCCHHHhhhccCCCcHHHHHHHHHHHHHcCC
Confidence            6788888764 32   268888886 444688999999999999999999999999999998899999999999999998


Q ss_pred             CeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecccc
Q 012112          214 ENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVE  255 (471)
Q Consensus       214 ~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~  255 (471)
                      ..+.+.+++ +||++.+++.+.++++.+++++ +.+..+++.
T Consensus       149 ~~v~i~~v~-~~g~n~~ei~~~~~~~~~~g~~-~~~ie~~p~  188 (302)
T TIGR02668       149 TPVKLNMVV-LKGINDNEIPDMVEFAAEGGAI-LQLIELMPP  188 (302)
T ss_pred             CcEEEEEEE-eCCCCHHHHHHHHHHHHhcCCE-EEEEEEeEC
Confidence            657776554 7899999999999999999875 666666654

This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).

>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]

Probab=99.41  E-value=3.6e-12  Score=128.46  Aligned_cols=186  Identities=17%  Similarity=0.277  Sum_probs=138.8

Q ss_pred             CCcC----CcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCC----CCCCeeEEEEcC----C-CCCCCC
Q 012112           63 CRKR----CHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHK----TSPPLETVFFGG----G-TPSLVP  129 (471)
Q Consensus        63 C~~~----C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~----~~~~v~~i~fGG----G-Tps~l~  129 (471)
                      |+..    |+||.-+..  |          ....|..+++++|++.+.....    -++..+..-+++    | -| --+
T Consensus       193 C~r~~~ggCSFCtEp~~--g----------~~~~R~~e~Vv~EVkaLY~~GvrhFRlGRQ~difsy~~~~~g~e~P-~Pn  259 (560)
T COG1031         193 CPRRVSGGCSFCTEPVR--G----------RPEFRPPEDVVEEVKALYRAGVRHFRLGRQADIFSYGADDNGGEVP-RPN  259 (560)
T ss_pred             CcccccCCCccccCcCc--C----------CcccCCHHHHHHHHHHHHHhccceeeeccccceeeecccccCCCCC-CCC
Confidence            9987    999987643  2          2335667899999986543221    133344444432    3 23 246


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEE-ecCCCC------CHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISME-MDPGTF------DARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKE  200 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~~l------~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~  200 (471)
                      |+.+++|...+++..+-  -.-+.+. +||.++      +.+.++.+.+.|  =|-..+|+||+|+++.+.-+=..|.++
T Consensus       260 PealekL~~Gir~~AP~--l~tLHiDNaNP~tIa~yp~eSr~i~K~ivky~TpGnVaAfGlEsaDp~V~r~NnL~~spEE  337 (560)
T COG1031         260 PEALEKLFRGIRNVAPN--LKTLHIDNANPATIARYPEESREIAKVIVKYGTPGNVAAFGLESADPRVARKNNLNASPEE  337 (560)
T ss_pred             HHHHHHHHHHHHhhCCC--CeeeeecCCCchhhhcChHHHHHHHHHHHhhCCCCceeeeeccccCHHHHhhccccCCHHH
Confidence            89999999999986421  1122222 578776      568888888887  377999999999999999999999999


Q ss_pred             HHHHHHHHHHcCCC-------e--eEeeeecCCCCCCHHHHHHHHHHHHhC-----CCCcEEEEeccccCCChhhhc
Q 012112          201 VYEAIEIVKLCGVE-------N--WSLDLISSLPHQTPQMWEESLRRTVGA-----QPKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       201 ~~~ai~~~~~~G~~-------~--v~~DlI~GlPgqT~e~~~~~l~~~~~l-----~p~his~y~l~~~pgT~l~~~  263 (471)
                      +.+|++.+.+.|-.       .  -.++||+||||||.|.++.+.+++.++     -+.+|.+-+..+.|||+++..
T Consensus       338 vl~AV~ivn~vG~~rg~nGlP~lLPGINfv~GL~GEtkeT~~ln~efL~~ild~gllvRRINIRqV~~fpgT~~~~~  414 (560)
T COG1031         338 VLEAVEIVNEVGGGRGYNGLPYLLPGINFVFGLPGETKETYELNYEFLKEILDEGLLVRRINIRQVVVFPGTPMWER  414 (560)
T ss_pred             HHHHHHHHHHhcCccCcCCCccccccceeEecCCCccHHHHHhhHHHHHHHHhcCceEEEeeeeeEeecCCCchhhh
Confidence            99999999998541       1  248899999999999999988887763     478999999999999999864

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.40  E-value=5.3e-12  Score=140.82  Aligned_cols=202  Identities=17%  Similarity=0.241  Sum_probs=147.0

Q ss_pred             EeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEE-cCCCCCCC-----
Q 012112           58 IHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFF-GGGTPSLV-----  128 (471)
Q Consensus        58 iHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~f-GGGTps~l-----  128 (471)
                      ++||+   |..+|.||.|......         .....-..+.+++.++...+..     +..+.| +|-.|..-     
T Consensus        73 ~~In~Tn~C~~~C~YCaF~~~~~~---------~~~~~ls~eEIl~~a~~~~~~G-----~~e~l~t~G~~P~~~~~~~~  138 (843)
T PRK09234         73 VFIPLTRLCRDRCHYCTFATVPGK---------LEAAYLSPDEVLDIARAGAAAG-----CKEALFTLGDRPEDRWPEAR  138 (843)
T ss_pred             EEecCCCCCCCCCCcCCCccCCCC---------CccccCCHHHHHHHHHHHHHCC-----CCEEEEecCCCCcccccccc
Confidence            58888   9999999999754210         0111112355666555544322     333444 55557631     


Q ss_pred             ----------CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC--
Q 012112          129 ----------PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH--  196 (471)
Q Consensus       129 ----------~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~--  196 (471)
                                ..+++.++++.+++..++.      ..+|++.+|.+.++.|+++|++ ..+-+++.+++..+..+-.|  
T Consensus       139 ~~l~~~gy~~~~ey~~~~~~~ik~~~gl~------p~i~~G~ls~~E~~~Lk~~g~s-~gl~lEt~~~~l~~~~g~~h~~  211 (843)
T PRK09234        139 EWLDERGYDSTLDYVRAMAIRVLEETGLL------PHLNPGVMSWSELARLKPVAPS-MGMMLETTSRRLFEEKGGPHYG  211 (843)
T ss_pred             ccccccccccHHHHHHHHHHHHHHhcCCC------ceeeeCCCCHHHHHHHHHhcCc-CCCCHHHHHHHHHHhhcccccC
Confidence                      2467778888887765543      2367788999999999999996 56778888777765433333  


Q ss_pred             ----CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhC-----CCCcEEEEeccccCCChhhhcccCC
Q 012112          197 ----GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGA-----QPKHVSVYDLQVEQGTKFGILYTPG  267 (471)
Q Consensus       197 ----t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l-----~p~his~y~l~~~pgT~l~~~~~~g  267 (471)
                          ..++-+++++.++++|+. ++..+|+|+ |||.++..+.+..+.++     +++.+-+.+|.+.+||+|...    
T Consensus       212 ~P~K~~~~RL~ti~~A~~lGi~-~tsG~L~Gi-GEt~edRve~L~~LR~Lq~~~g~~~evi~~~F~p~~gT~l~~~----  285 (843)
T PRK09234        212 SPDKDPAVRLRVLEDAGRLSVP-FTTGILIGI-GETLAERAESLFAIRKLHREYGHIQEVIVQNFRAKPDTAMAGV----  285 (843)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCC-ccceEEEEC-CCCHHHHHHHHHHHHHhhHhhCCCcEEeecccccCCCCCCCCC----
Confidence                577889999999999999 999999999 99999999999999998     466788889999999998532    


Q ss_pred             CCCCCCHHHHHHHHHHHHHHH
Q 012112          268 EFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       268 ~~~~p~~~~~~~~~~~~~~~L  288 (471)
                        +.++.++..++...++-.|
T Consensus       286 --~~~s~~e~Lr~iAvaRliL  304 (843)
T PRK09234        286 --PDAGLEELLATIAVARLVL  304 (843)
T ss_pred             --CCCCHHHHHHHHHHHHHhC
Confidence              4577777777777766665

>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial

Probab=99.38  E-value=3.5e-11  Score=122.35  Aligned_cols=184  Identities=18%  Similarity=0.251  Sum_probs=130.8

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      .|.|.|-- |+.+|.||...........    ........-+..+++++..        ..+..|.|.||.|.+ .+ .+
T Consensus        11 ~l~i~vT~~CNl~C~yC~~~~~~~~~~~----~~~~ls~eei~~~i~~~~~--------~gv~~V~ltGGEPll-~~-~l   76 (334)
T TIGR02666        11 YLRISVTDRCNLRCVYCMPEGGGLDFLP----KEELLTFEEIERLVRAFVG--------LGVRKVRLTGGEPLL-RK-DL   76 (334)
T ss_pred             eEEEEecCccCcCCCCCCCCcCCCCcCC----ccCCCCHHHHHHHHHHHHH--------CCCCEEEEECccccc-cC-CH
Confidence            34555444 9999999976531000000    0011111223333333322        127788999999975 43 57


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC-CCCHHHHHHHHHHHHHcC
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR-AHGLKEVYEAIEIVKLCG  212 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R-~~t~~~~~~ai~~~~~~G  212 (471)
                      .++++.+++..++   ..+++.+|.- +..+.++.|+++|+++|.|+++|++++..+.+.| ..+.+++.++++.++++|
T Consensus        77 ~~li~~i~~~~gi---~~v~itTNG~-ll~~~~~~L~~~gl~~v~ISld~~~~~~~~~i~~~~~~~~~vl~~i~~l~~~G  152 (334)
T TIGR02666        77 VELVARLAALPGI---EDIALTTNGL-LLARHAKDLKEAGLKRVNVSLDSLDPERFAKITRRGGRLEQVLAGIDAALAAG  152 (334)
T ss_pred             HHHHHHHHhcCCC---CeEEEEeCch-hHHHHHHHHHHcCCCeEEEecccCCHHHhheeCCCCCCHHHHHHHHHHHHHcC
Confidence            7888887764332   1688888874 4467899999999999999999999999999985 679999999999999999


Q ss_pred             CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCC
Q 012112          213 VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGT  258 (471)
Q Consensus       213 ~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT  258 (471)
                      +..+.+..+ -++|.+.+++.+.++++.+++++ +.+..+++..++
T Consensus       153 ~~~v~in~v-v~~g~n~~ei~~l~~~~~~~gv~-~~~ie~mp~~~~  196 (334)
T TIGR02666       153 LEPVKLNTV-VMRGVNDDEIVDLAEFAKERGVT-LRFIELMPLGEG  196 (334)
T ss_pred             CCcEEEEEE-EeCCCCHHHHHHHHHHHHhcCCe-EEEEeccCCCCC
Confidence            964666654 35889999999999999999985 777777776554

The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.

>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme

Probab=99.36  E-value=9.1e-11  Score=113.18  Aligned_cols=206  Identities=17%  Similarity=0.164  Sum_probs=135.2

Q ss_pred             EeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHH
Q 012112           58 IHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSIL  137 (471)
Q Consensus        58 iHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll  137 (471)
                      |...-|+.+|.||........         .......++.++++++.....+.  .....|.|.||.|.+ .++.+.+++
T Consensus        20 v~~~gCnl~C~~C~~~~~~~~---------~~~~~~s~e~i~~~i~~~~~~~~--~~~~~I~~~GGEPll-~~~~~~~li   87 (235)
T TIGR02493        20 VFMQGCPLRCQYCHNPDTWDL---------KGGTEVTPEELIKEVGSYKDFFK--ASGGGVTFSGGEPLL-QPEFLSELF   87 (235)
T ss_pred             EEECCCCCcCCCCCChhhccC---------CCCEECCHHHHHHHHHHhHHHHh--cCCCeEEEeCccccc-CHHHHHHHH
Confidence            666779999999975432110         00011234555556654432111  112468888999975 788888999


Q ss_pred             HHHHHHcCCCCCcEEEEEecCCCC-CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCee
Q 012112          138 DTLTDKFGLSLDAEISMEMDPGTF-DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENW  216 (471)
Q Consensus       138 ~~l~~~~~l~~~~eitiE~~P~~l-~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v  216 (471)
                      +.+++. +    ..+++.+|.-.. ..+.++.+.+ .++.+++++++.+++..+.+.+. +.+.+.++++.+++.|+. +
T Consensus        88 ~~~~~~-g----~~~~i~TNG~~~~~~~~~~~ll~-~~d~v~isl~~~~~~~~~~~~g~-~~~~v~~~i~~l~~~g~~-~  159 (235)
T TIGR02493        88 KACKEL-G----IHTCLDTSGFLGGCTEAADELLE-YTDLVLLDIKHFNPEKYKKLTGV-SLQPTLDFAKYLAKRNKP-I  159 (235)
T ss_pred             HHHHHC-C----CCEEEEcCCCCCccHHHHHHHHH-hCCEEEEeCCCCCHHHHHHHHCC-CcHHHHHHHHHHHhCCCc-E
Confidence            998873 3    357788876322 1445555555 46789999999999998887655 788999999999999987 6


Q ss_pred             EeeeecCCCC--CCHHHHHHHHHHHHhCC-CCcEEEEeccccCCChhhhcccCC----CCCCCCHHHHHHHHHHHH
Q 012112          217 SLDLISSLPH--QTPQMWEESLRRTVGAQ-PKHVSVYDLQVEQGTKFGILYTPG----EFPLPTETQSANFYRMAS  285 (471)
Q Consensus       217 ~~DlI~GlPg--qT~e~~~~~l~~~~~l~-p~his~y~l~~~pgT~l~~~~~~g----~~~~p~~~~~~~~~~~~~  285 (471)
                      .+-.++ .||  ++.+++.+.++++.+++ +..+.+-++.+. |+..+......    ....|+.++..+....+.
T Consensus       160 ~v~~vv-~~~~~~n~~ei~~l~~~~~~l~~~~~~~~~p~~~~-g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (235)
T TIGR02493       160 WIRYVL-VPGYTDSEEDIEALAEFVKTLPNVERVEVLPYHQL-GVYKWEALGIEYPLEGVKPPNKEQLERAAEIFK  233 (235)
T ss_pred             EEEEee-eCCcCCCHHHHHHHHHHHHhCCCCceEEecCCCcc-cHHHHHHcCCcCccCCCCCCCHHHHHHHHHHHh
Confidence            666555 476  47899999999999998 456655555442 55544332221    235567666666555443

An iron-sulfur protein with a radical-SAM domain (pfam04055). A single glycine residue in EC 2.3.1.54, formate C-acetyltransferase (formate-pyruvate lyase), is oxidized to the corresponding radical by transfer of H from its CH2 to AdoMet with concomitant cleavage of the latter. The reaction requires Fe2+. The first stage is reduction of the AdoMet to give methionine and the 5'-deoxyadenosin-5-yl radical, which then abstracts a hydrogen radical from the glycine residue.

>PLN02951 Molybderin biosynthesis protein CNX2

Probab=99.36  E-value=3.8e-11  Score=123.50  Aligned_cols=185  Identities=17%  Similarity=0.203  Sum_probs=131.9

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      .|-|+|-- |+.+|.||........   .   ....  .-..+.+.+.++....     ..+..|.|.||.|++ .+ .+
T Consensus        59 ~lrisvT~~CNlrC~yC~~~~~~~~---~---~~~~--~ls~eei~~~i~~~~~-----~Gv~~I~~tGGEPll-r~-dl  123 (373)
T PLN02951         59 YLRISLTERCNLRCQYCMPEEGVEL---T---PKSH--LLSQDEIVRLAGLFVA-----AGVDKIRLTGGEPTL-RK-DI  123 (373)
T ss_pred             EEEEEEcCCcCcCCCCCCCCcCCCC---C---Cccc--cCCHHHHHHHHHHHHH-----CCCCEEEEECCCCcc-hh-hH
Confidence            34555545 9999999965421100   0   0000  0112333333332222     236788999999975 44 47


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGV  213 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~  213 (471)
                      .++++.+++..++   ..+++.+|.-.+ .+.++.|+++|+++|.+.++|.+++..+.+.|....+++.++++.++++|+
T Consensus       124 ~eli~~l~~~~gi---~~i~itTNG~lL-~~~~~~L~~aGld~VnISLDsl~~e~~~~itr~~~~~~vl~~I~~a~~~G~  199 (373)
T PLN02951        124 EDICLQLSSLKGL---KTLAMTTNGITL-SRKLPRLKEAGLTSLNISLDTLVPAKFEFLTRRKGHDRVLESIDTAIELGY  199 (373)
T ss_pred             HHHHHHHHhcCCC---ceEEEeeCcchH-HHHHHHHHhCCCCeEEEeeccCCHHHHHHHhcCCCHHHHHHHHHHHHHcCC
Confidence            8888888765332   247777776444 467899999999999999999999999999988888999999999999998


Q ss_pred             CeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChh
Q 012112          214 ENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKF  260 (471)
Q Consensus       214 ~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l  260 (471)
                      ..|.+... -++|.+.+++.+.++++.+.++ .+.+..+++..+++.
T Consensus       200 ~~vkin~v-v~~g~N~~Ei~~li~~a~~~gi-~vr~ie~mP~~~~~~  244 (373)
T PLN02951        200 NPVKVNCV-VMRGFNDDEICDFVELTRDKPI-NVRFIEFMPFDGNVW  244 (373)
T ss_pred             CcEEEEEE-ecCCCCHHHHHHHHHHHHhCCC-eEEEEEcccCCCCcc
Confidence            55665543 4678999999999999999886 488888888887753

>PTZ00413 lipoate synthase; Provisional

Probab=99.33  E-value=1.8e-10  Score=115.85  Aligned_cols=215  Identities=13%  Similarity=0.215  Sum_probs=140.4

Q ss_pred             EEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC-CCCCCH---H
Q 012112           56 AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT-PSLVPP---R  131 (471)
Q Consensus        56 lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT-ps~l~~---~  131 (471)
                      .-|-=--|...|.||+......   ..+  .+...    +..+.+.++..        +++.+.+..|+ +. |+.   +
T Consensus       152 fmilG~~CTr~C~FCaqstg~~---p~~--lD~eE----p~~vA~av~~~--------Gl~~~VVTSv~RDD-L~D~ga~  213 (398)
T PTZ00413        152 IMVMGDHCTRGCRFCSVKTSRK---PPP--LDPNE----PEKVAKAVAEM--------GVDYIVMTMVDRDD-LPDGGAS  213 (398)
T ss_pred             eeecCCCCCCCCCCCCCCCCCC---CCC--CCHHH----HHHHHHHHHHc--------CCCEEEEEEEcCCC-CChhhHH
Confidence            3333344999999999864210   000  11222    22222222221        12334444443 33 244   4


Q ss_pred             HHHHHHHHHHHHcCCCCCcEEEEEecCCCC--CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC-CCCHHHHHHHHHHH
Q 012112          132 FVSSILDTLTDKFGLSLDAEISMEMDPGTF--DARKMEELMDLGVNRVSLGVQAFQDELLKSCGR-AHGLKEVYEAIEIV  208 (471)
Q Consensus       132 ~l~~ll~~l~~~~~l~~~~eitiE~~P~~l--~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R-~~t~~~~~~ai~~~  208 (471)
                      ++.+.++.|++.     ...+.+|+-.+.+  +.+.++.|+++|++++.-.+|| .++....+.. .|+.++..+.++.+
T Consensus       214 ~~a~~I~~Ir~~-----~p~~~IevligDf~g~~e~l~~L~eAG~dvynHNLET-v~rLyp~VRt~~atYe~sLe~Lr~A  287 (398)
T PTZ00413        214 HVARCVELIKES-----NPELLLEALVGDFHGDLKSVEKLANSPLSVYAHNIEC-VERITPYVRDRRASYRQSLKVLEHV  287 (398)
T ss_pred             HHHHHHHHHHcc-----CCCCeEEEcCCccccCHHHHHHHHhcCCCEEeccccc-CHhHHHHHccCcCCHHHHHHHHHHH
Confidence            455555555542     2357889876656  8999999999999999999999 8999999995 69999999999999


Q ss_pred             HHc---CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHH
Q 012112          209 KLC---GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMAS  285 (471)
Q Consensus       209 ~~~---G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~  285 (471)
                      +++   |+. +...+|+| +|||.+++.++++.+.+++++.+.+-+|...  |+-+--+  .++..|   +   .|..-.
T Consensus       288 Ke~f~~gi~-tcSGiIVG-LGET~eEvie~m~dLrelGVDivtIGQYL~P--s~~h~~V--~~yv~P---~---~F~~~~  355 (398)
T PTZ00413        288 KEFTNGAML-TKSSIMLG-LGETEEEVRQTLRDLRTAGVSAVTLGQYLQP--TKTRLKV--SRYAHP---K---EFEMWE  355 (398)
T ss_pred             HHHhcCCce-EeeeeEec-CCCCHHHHHHHHHHHHHcCCcEEeeccccCC--CcccCCc--eeccCH---H---HHHHHH
Confidence            987   886 77899999 5999999999999999999999988665432  1111111  111222   2   233334


Q ss_pred             HHHHHCCCceeccccccCCCc
Q 012112          286 SMLSSAGYRHYEISSYGEDGY  306 (471)
Q Consensus       286 ~~L~~~Gy~~yeis~fa~~g~  306 (471)
                      +.-.+.||.+-+-.-+.|..|
T Consensus       356 ~~a~~~Gf~~v~sgPlVRSSY  376 (398)
T PTZ00413        356 EEAMKMGFLYCASGPLVRSSY  376 (398)
T ss_pred             HHHHHcCCceEEecCccccch
Confidence            455678998876555666544

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

Probab=99.32  E-value=1.5e-11  Score=122.12  Aligned_cols=189  Identities=17%  Similarity=0.223  Sum_probs=143.5

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCC-----CCC------eeEEEEcCCCCCCCCH-
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKT-----SPP------LETVFFGGGTPSLVPP-  130 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~-----~~~------v~~i~fGGGTps~l~~-  130 (471)
                      |.+-|+||-.+...+           ..+.+.++.+++|+..+.+.+.+     +..      -..+-|.+..|+.+.+ 
T Consensus       230 CdNMCtyCiVpftrG-----------reRsrpi~siv~ev~~L~~qG~KeVTLLGQNVNSyrD~s~~~~~~a~~~~~~~G  298 (552)
T KOG2492|consen  230 CDNMCTYCIVPFTRG-----------RERSRPIESIVEEVKRLAEQGVKEVTLLGQNVNSYRDNSAVQFSSAVPTNLSPG  298 (552)
T ss_pred             cccccceEEEeccCC-----------cccCCchHHHHHHHHHHhhcCceeeeeecccccccccchhhhhccCCccccCCC
Confidence            999999998765432           23456677777777755432110     000      1111222222222211 


Q ss_pred             -----------HHHHHHHHHHHHHcCCCCCcEEEEEe-cCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCC
Q 012112          131 -----------RFVSSILDTLTDKFGLSLDAEISMEM-DPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAH  196 (471)
Q Consensus       131 -----------~~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~  196 (471)
                                 -.+..|++.+...+   ++..|.+.. +|.++.+|.|+.+++.-  ++-+.+.+||.|.++|+.|.|++
T Consensus       299 Fst~yK~K~gGl~Fa~LLd~vs~~~---PemR~RFTSPHPKDfpdevl~li~~rdnickqihlPAqSgds~vLE~mrRgy  375 (552)
T KOG2492|consen  299 FSTVYKPKQGGLRFAHLLDQVSRAD---PEMRIRFTSPHPKDFPDEVLELIRDRDNICKQIHLPAQSGDSRVLEIMRRGY  375 (552)
T ss_pred             ceeeecccCCCccHHHHHHHHhhhC---cceEEEecCCCCCCChHHHHHHHHhCcchhheeeccccCCchHHHHHHHccC
Confidence                       13567777776653   455566555 89999999999999875  67899999999999999999999


Q ss_pred             CHHHHHHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccC
Q 012112          197 GLKEVYEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTP  266 (471)
Q Consensus       197 t~~~~~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~  266 (471)
                      +.+...+-++.+++.  |.. ++.|+|.|+=|+|.++.++++-.+.+.+-+-+-.|.+...++|..|..+..
T Consensus       376 sreayl~lv~~Irs~iPgVg-lssdfitgfCgeTeedhq~t~sLlrqVgYdv~~lFaysmR~kT~ay~r~~d  446 (552)
T KOG2492|consen  376 SREAYLELVAHIRSMIPGVG-LSSDFITGFCGETEEDHQYTVSLLRQVGYDVVFLFAYSMREKTRAYHRLKD  446 (552)
T ss_pred             ChHhhhhHHHHHHhhCCCCc-ceeeeEecccCCChHHHHHHHHHHHHhccCeeeeEEeeecccchhhhhhcc
Confidence            999999999999998  665 789999999999999999999999999999999999999999999987654

>KOG4355 consensus Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.30  E-value=2e-11  Score=120.49  Aligned_cols=87  Identities=16%  Similarity=0.192  Sum_probs=82.9

Q ss_pred             EEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHc--CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecc
Q 012112          176 RVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLC--GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQ  253 (471)
Q Consensus       176 rvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~--G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~  253 (471)
                      -+.+.|||.+|.+|-.|+|.+...+....++.+++.  |+. |..|+|.|+||||.+||+++++.+.+.+...+.+..+.
T Consensus       300 flhvpvqsgsdsvl~emkreyc~~dfk~Vvd~LterVPgi~-IATDiIcgFPtETdeDFeeTmeLv~kYKFPslfInQfy  378 (547)
T KOG4355|consen  300 FLHVPVQSGSDSVLTEMKREYCNFDFKIVVDFLTERVPGIT-IATDIICGFPTETDEDFEETMELVRKYKFPSLFINQFY  378 (547)
T ss_pred             EEecccccCchhHHHHHHHHHhhhhHHHHHHHHHhhCCCcE-EeeeeeecCCCCchHHHHHHHHHHHHccCchhhhhhcC
Confidence            368899999999999999999999999999999987  886 99999999999999999999999999999999999999


Q ss_pred             ccCCChhhhc
Q 012112          254 VEQGTKFGIL  263 (471)
Q Consensus       254 ~~pgT~l~~~  263 (471)
                      +.||||.+++
T Consensus       379 PRpGTPAAkm  388 (547)
T KOG4355|consen  379 PRPGTPAAKM  388 (547)
T ss_pred             CCCCChHHhh
Confidence            9999999887

>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]

Probab=99.28  E-value=2.6e-10  Score=116.38  Aligned_cols=217  Identities=15%  Similarity=0.204  Sum_probs=149.3

Q ss_pred             CCeEEEEeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC
Q 012112           52 SPTSAYIHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV  128 (471)
Q Consensus        52 ~~~~lYiHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l  128 (471)
                      -.++++++|++   |..+|+||.|+... +.        .+...-..+.+.++++...+.     +++.|.|-||.---+
T Consensus        55 vtyv~n~~in~TN~C~~~C~fCaF~~~~-~~--------~~~y~Ls~eeI~~~~~~~~~~-----G~~Evli~gG~~p~~  120 (370)
T COG1060          55 VTYVVNRNINYTNICVNDCTFCAFYRKP-GD--------PKAYTLSPEEILEEVREAVKR-----GITEVLIVGGEHPEL  120 (370)
T ss_pred             EEEEEeecCCcchhhcCCCCccccccCC-CC--------ccccccCHHHHHHHHHHHHHc-----CCeEEEEecCcCCCc
Confidence            34689999999   99999999998653 11        111111246677777766543     367777777764445


Q ss_pred             CHHHHHHHHHHHHHHcCCC-----CCcEEEEEecCCCCC-HHHHHHHHHCCCCEEEEccCC-CCHHHHHHcC-CCCCHHH
Q 012112          129 PPRFVSSILDTLTDKFGLS-----LDAEISMEMDPGTFD-ARKMEELMDLGVNRVSLGVQA-FQDELLKSCG-RAHGLKE  200 (471)
Q Consensus       129 ~~~~l~~ll~~l~~~~~l~-----~~~eitiE~~P~~l~-~e~l~~l~~~GvnrvsiGvQS-~~d~~L~~l~-R~~t~~~  200 (471)
                      +.++.+++++.+++.|+--     ...||..-+++..++ +|.++.|+++|++.+-.|-.. +++++.+.+. ...+.+.
T Consensus       121 ~~~y~~~~~~~ik~~~p~~~i~a~s~~ei~~~~~~~~~s~~E~l~~Lk~aGldsmpg~~aeil~e~vr~~~~p~K~~~~~  200 (370)
T COG1060         121 SLEYYEELFRTIKEEFPDLHIHALSAGEILFLAREGGLSYEEVLKRLKEAGLDSMPGGGAEILSEEVRKIHCPPKKSPEE  200 (370)
T ss_pred             chHHHHHHHHHHHHhCcchhhcccCHHHhHHHHhccCCCHHHHHHHHHHcCCCcCcCcceeechHHHHHhhCCCCCCHHH
Confidence            8789999999999866410     011233334455554 466999999999987655544 4566666554 4569999


Q ss_pred             HHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCC-----CCcEEEEeccccCCChhhhcccCCCCCCCCHH
Q 012112          201 VYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQ-----PKHVSVYDLQVEQGTKFGILYTPGEFPLPTET  275 (471)
Q Consensus       201 ~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~-----p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~  275 (471)
                      .+++++.|.+.|++ .+..+++|. ++|.++....+..+.+++     +..+++-++.+..++   +  .......++..
T Consensus       201 wle~~~~Ah~lGI~-~tatml~Gh-~E~~ed~~~hl~~ir~lQ~~~gg~~~fI~~~f~p~~~~---~--~~~~~~~~~~~  273 (370)
T COG1060         201 WLEIHERAHRLGIP-TTATMLLGH-VETREDRIDHLEHIRDLQDETGGFQEFIPLRFRPENGP---L--PAEVVPEASLE  273 (370)
T ss_pred             HHHHHHHHHHcCCC-ccceeEEEe-cCCHHHHHHHHHHHHHHHHHhCCcEEEEcccccCCCCC---c--cccCCCCCCHH
Confidence            99999999999999 678899998 999999999999998874     344455555565555   1  12233446667


Q ss_pred             HHHHHHHHHHHHHH
Q 012112          276 QSANFYRMASSMLS  289 (471)
Q Consensus       276 ~~~~~~~~~~~~L~  289 (471)
                      +...++..++-.|.
T Consensus       274 ~~l~~iAiaRi~l~  287 (370)
T COG1060         274 QDLKAIALARIFLD  287 (370)
T ss_pred             HHHHHHHHHHHHcc
Confidence            77777777766654

>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN)

Probab=99.23  E-value=1.6e-11  Score=94.64  Aligned_cols=66  Identities=26%  Similarity=0.444  Sum_probs=55.2

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ||++|++.|++|++||+.+|||++.|+++||.++.+.+.+.+++++++||++.+++                        
T Consensus         1 Ls~~d~~~e~i~~~LR~~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~~~~------------------------   56 (66)
T PF06969_consen    1 LSPEDRLREYIMLGLRCNEGIDLSEFEQRFGIDFAEEFQKELEELQEDGLLEIDGG------------------------   56 (66)
T ss_dssp             --HHHHHHHHHHHHHHHHSEEEHHHHHHHTT--THHH-HHHHHHHHHTTSEEE-SS------------------------
T ss_pred             CCHHHHHHHHHHHHHHhHCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEeCC------------------------
Confidence            58899999999999999999999999999999999999999999999999987552                        


Q ss_pred             ceeeecCchhhc
Q 012112          445 AYFRLSDPEGFL  456 (471)
Q Consensus       445 ~~~~lt~~~G~~  456 (471)
                       ++++| ++|++
T Consensus        57 -~l~lT-~~G~l   66 (66)
T PF06969_consen   57 -RLRLT-EKGRL   66 (66)
T ss_dssp             -EEEE--TTTGG
T ss_pred             -EEEEC-cccCc
Confidence             58997 99985

This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.

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

Probab=99.23  E-value=6.7e-10  Score=108.02  Aligned_cols=217  Identities=13%  Similarity=0.122  Sum_probs=141.9

Q ss_pred             CeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           53 PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        53 ~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      +...-++...|+.+|.||..+.....         .......++.+++++........  .....|.|+||.|++ .++.
T Consensus        20 g~~~~~f~~gCnl~C~~C~~~~~~~~---------~~~~~lt~eei~~~i~~~~~~~~--~~~~~V~~sGGEPll-~~~~   87 (246)
T PRK11145         20 GIRFITFFQGCLMRCLYCHNRDTWDT---------HGGKEVTVEELMKEVVTYRHFMN--ASGGGVTASGGEAIL-QAEF   87 (246)
T ss_pred             CeEEEEEECCCCCcCCCCCCHHHCCC---------CCCeEcCHHHHHHHHHHhHHHHh--cCCCeEEEeCccHhc-CHHH
Confidence            35555788889999999986432100         00011234556666654322110  112458899999974 8888


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCC-CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTF-DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLC  211 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l-~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~  211 (471)
                      +.++++.+++. +    ..+++++|--.. ..+.++.+.+ .++.|.+++.+.+++..+.+... +.+.+.+.++.+.+.
T Consensus        88 ~~~l~~~~k~~-g----~~i~l~TNG~~~~~~~~~~~ll~-~~d~v~islk~~~~e~~~~~~g~-~~~~~l~~i~~l~~~  160 (246)
T PRK11145         88 VRDWFRACKKE-G----IHTCLDTNGFVRRYDPVIDELLD-VTDLVMLDLKQMNDEIHQNLVGV-SNHRTLEFARYLAKR  160 (246)
T ss_pred             HHHHHHHHHHc-C----CCEEEECCCCCCcchHHHHHHHH-hCCEEEECCCcCChhhcccccCC-ChHHHHHHHHHHHhC
Confidence            88999999863 3    357888876432 3577777766 47899999999999988887553 557888889999999


Q ss_pred             CCCeeEeeeecCCCCCC--HHHHHHHHHHHHhCC-CCcEEEEeccccCCChhhh---cccCCCCCCCCHHHHHHHHHHHH
Q 012112          212 GVENWSLDLISSLPHQT--PQMWEESLRRTVGAQ-PKHVSVYDLQVEQGTKFGI---LYTPGEFPLPTETQSANFYRMAS  285 (471)
Q Consensus       212 G~~~v~~DlI~GlPgqT--~e~~~~~l~~~~~l~-p~his~y~l~~~pgT~l~~---~~~~g~~~~p~~~~~~~~~~~~~  285 (471)
                      |+. +.+..++. ||.+  .+++++..+++.+++ +.++.+.++...++.+...   .+.-...+.|+.++..+    +.
T Consensus       161 g~~-v~i~~~li-~g~nd~~~ei~~l~~~l~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~----~~  234 (246)
T PRK11145        161 NQK-TWIRYVVV-PGWTDDDDSAHRLGEFIKDMGNIEKIELLPYHELGKHKWEAMGEEYKLDGVKPPSKETMER----VK  234 (246)
T ss_pred             CCc-EEEEEEEE-CCCCCCHHHHHHHHHHHHhcCCcceEEEecCCccchhHHHHcCCcccccCCCCCCHHHHHH----HH
Confidence            986 66665553 6654  568999999998885 5677777777666554322   11112334566555333    45


Q ss_pred             HHHHHCCCc
Q 012112          286 SMLSSAGYR  294 (471)
Q Consensus       286 ~~L~~~Gy~  294 (471)
                      +.+.+.|..
T Consensus       235 ~~~~~~g~~  243 (246)
T PRK11145        235 GILEQYGHK  243 (246)
T ss_pred             HHHHHcCCc
Confidence            566777754

>COG2896 MoaA Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]

Probab=99.21  E-value=3.1e-10  Score=112.60  Aligned_cols=134  Identities=19%  Similarity=0.311  Sum_probs=112.7

Q ss_pred             CeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC
Q 012112          114 PLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG  193 (471)
Q Consensus       114 ~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~  193 (471)
                      +++.|-+.||.|.+  .+.+.+|++.+.+. ++   .++++-+|- .+-+...+.|+++|++||.+.+.|.|++..+++.
T Consensus        59 Gv~kvRlTGGEPll--R~dl~eIi~~l~~~-~~---~~islTTNG-~~L~~~a~~Lk~AGl~rVNVSLDsld~e~f~~IT  131 (322)
T COG2896          59 GVEKVRLTGGEPLL--RKDLDEIIARLARL-GI---RDLSLTTNG-VLLARRAADLKEAGLDRVNVSLDSLDPEKFRKIT  131 (322)
T ss_pred             CcceEEEeCCCchh--hcCHHHHHHHHhhc-cc---ceEEEecch-hhHHHHHHHHHHcCCcEEEeecccCCHHHHHHHh
Confidence            38889999999965  45788999888876 33   478888774 6788999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccC
Q 012112          194 RAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQ  256 (471)
Q Consensus       194 R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~p  256 (471)
                      +....+++.+.++.|.++|+.-|.++..+ ++|-+.+++...++++...++ .+.+-.+++..
T Consensus       132 ~~~~~~~Vl~GI~~A~~~Gl~pVKlN~Vv-~kgvNd~ei~~l~e~~~~~~~-~lrfIE~m~~g  192 (322)
T COG2896         132 GRDRLDRVLEGIDAAVEAGLTPVKLNTVL-MKGVNDDEIEDLLEFAKERGA-QLRFIELMPLG  192 (322)
T ss_pred             CCCcHHHHHHHHHHHHHcCCCceEEEEEE-ecCCCHHHHHHHHHHHhhcCC-ceEEEEEeecC
Confidence            88889999999999999999645555443 577899999999999999998 47777766553

>TIGR01290 nifB nitrogenase cofactor biosynthesis protein NifB

Probab=99.17  E-value=8.5e-09  Score=108.27  Aligned_cols=163  Identities=17%  Similarity=0.218  Sum_probs=121.8

Q ss_pred             eeEEEEcC-CCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc-
Q 012112          115 LETVFFGG-GTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC-  192 (471)
Q Consensus       115 v~~i~fGG-GTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l-  192 (471)
                      +..|.|.| |.|.+ .++...+++..+++.+   ++..+++++|- .+.++.++.|.++|++.|.+.+-++|+++-+.+ 
T Consensus        79 ~~~V~iaG~GEPLl-~~e~~~~~l~~~~~~~---~~i~i~lsTNG-~~l~e~i~~L~~~gvd~V~islka~d~e~~~~Iy  153 (442)
T TIGR01290        79 LSVVGIAGPGDPLA-NIGKTFQTLELVARQL---PDVKLCLSTNG-LMLPEHVDRLVDLGVGHVTITINAIDPAVGEKIY  153 (442)
T ss_pred             CCEEEEecCCCccc-CccccHHHHHHHHHhc---CCCeEEEECCC-CCCHHHHHHHHHCCCCeEEEeccCCCHHHHhhcc
Confidence            45577878 99975 6666666677777653   24578999887 455899999999999999999999999999876 


Q ss_pred             ------CCCCC--------HHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccC--
Q 012112          193 ------GRAHG--------LKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQ--  256 (471)
Q Consensus       193 ------~R~~t--------~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~p--  256 (471)
                            ||..+        .+.+.++++.+.+.|+. +.+..++ +||.+.+++.+..+++.++++..+.+.++.+.|  
T Consensus       154 ~~v~~~g~~~tG~~~~~il~e~~l~~l~~l~~~G~~-v~v~~vl-IpGiND~~i~~l~~~~~~lg~~~~nl~p~~~~p~~  231 (442)
T TIGR01290       154 PWVWYEGERYTGREAADLLIERQLEGLEKLTERGIL-VKVNSVL-IPGINDEHLVEVSKQVKELGAFLHNVMPLISAPEH  231 (442)
T ss_pred             hhhccccccccCcchHHHHHHHHHHHHHHHHhCCCe-EEEEEEe-eCCcCHHHHHHHHHHHHhCCCcEEEeecCCCcccc
Confidence                  33232        34556888899999986 5555433 578888999999999999999888888888777  


Q ss_pred             CChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          257 GTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       257 gT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      |+++.-    ...+.|+.++..++...+...+
T Consensus       232 G~~~~~----~~~~~ps~e~l~~~~~~~~~~~  259 (442)
T TIGR01290       232 GTVYGL----NGQREPDPDELAALRDRLEMGT  259 (442)
T ss_pred             CCccCc----CCCCCcCHHHHHHHHHHHHhhh
Confidence            877531    2345678777766665554443

This model describes NifB, a protein required for the biosynthesis of the iron-molybdenum (or iron-vanadium) cofactor used by the nitrogen-fixing enzyme nitrogenase. Archaeal homologs lack the most C-terminal region and score between the trusted and noise cutoffs of this model.

>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH

Probab=99.16  E-value=2.5e-09  Score=108.00  Aligned_cols=202  Identities=14%  Similarity=0.133  Sum_probs=134.6

Q ss_pred             CCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCH
Q 012112           52 SPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPP  130 (471)
Q Consensus        52 ~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~  130 (471)
                      -|+.+.+.+-+ |..+|.||..........     ...-    ..+.+.+.++..        ++..|.|.||.|.+ .+
T Consensus        26 ~Pl~l~le~T~~CNL~C~~C~~~~~~~~~~-----~~~l----s~ee~~~~i~e~--------g~~~V~i~GGEPLL-~p   87 (318)
T TIGR03470        26 FPLVLMLEPLFRCNLACAGCGKIQYPAEIL-----KQRL----SVEECLRAVDEC--------GAPVVSIPGGEPLL-HP   87 (318)
T ss_pred             CCCEEEEecccccCcCCcCCCCCcCCCccc-----ccCC----CHHHHHHHHHHc--------CCCEEEEeCccccc-cc
Confidence            34677788877 999999998643211000     0011    122223333321        24568888999976 44


Q ss_pred             HHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHH
Q 012112          131 RFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKL  210 (471)
Q Consensus       131 ~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~  210 (471)
                       ++.++++.+++.     ...+++.+|.-.++ +.+..++.+|...|++.+.+..+.--+..++..+.+.+.++++.+++
T Consensus        88 -dl~eiv~~~~~~-----g~~v~l~TNG~ll~-~~~~~l~~~~~~~i~VSLDG~~e~hd~~~~~~g~f~~~l~~I~~l~~  160 (318)
T TIGR03470        88 -EIDEIVRGLVAR-----KKFVYLCTNALLLE-KKLDKFEPSPYLTFSVHLDGLREHHDASVCREGVFDRAVEAIREAKA  160 (318)
T ss_pred             -cHHHHHHHHHHc-----CCeEEEecCceehH-HHHHHHHhCCCcEEEEEEecCchhhchhhcCCCcHHHHHHHHHHHHH
Confidence             478888888754     23588888975554 56888999999999999998754444444677899999999999999


Q ss_pred             cCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHH
Q 012112          211 CGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSM  287 (471)
Q Consensus       211 ~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~  287 (471)
                      +|+. |.+...+ +++++.+++.+.++++.+++++.+.+.+..     ++.+...  .-...+.++..+.|....+.
T Consensus       161 ~G~~-v~v~~tv-~~~~n~~ei~~~~~~~~~lGv~~i~i~p~~-----~~~~a~~--~~~~l~~~e~~~~~~~~~~~  228 (318)
T TIGR03470       161 RGFR-VTTNTTL-FNDTDPEEVAEFFDYLTDLGVDGMTISPGY-----AYEKAPD--QDHFLGRRQTKKLFREVLSN  228 (318)
T ss_pred             CCCc-EEEEEEE-eCCCCHHHHHHHHHHHHHcCCCEEEEecCc-----ccccccc--cccccCHHHHHHHHHHHHhh
Confidence            9986 6665533 368999999999999999999988775433     3222111  11233455556666665443

The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH

>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.16  E-value=1.3e-09  Score=106.00  Aligned_cols=210  Identities=19%  Similarity=0.264  Sum_probs=147.0

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTD  142 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~  142 (471)
                      |..+|.||+...-..   |+   .+....---.+.|+...+..++.-  +..++.-.=|-|.|++.+  .+.++++++++
T Consensus       117 CnlnCIfCSVdeGp~---Sr---tR~~dy~Vd~eyLl~w~~kVa~~K--gkglEaHlDGqGEP~lYP--~l~~lVqalk~  186 (414)
T COG2100         117 CNLNCIFCSVDEGPY---SR---TRKLDYVVDPEYLLEWFEKVARFK--GKGLEAHLDGQGEPLLYP--HLVDLVQALKE  186 (414)
T ss_pred             ccceeEEEeccCCcc---cc---eeccceEecHHHHHHHHHHHHhhh--CCCeEEEecCCCCCccch--hHHHHHHHHhc
Confidence            999999998764322   11   111111112356666666554432  455777667889998755  68899999988


Q ss_pred             HcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc-CC-CCCHHHHHHHHHHHHHcCCCeeEeee
Q 012112          143 KFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC-GR-AHGLKEVYEAIEIVKLCGVENWSLDL  220 (471)
Q Consensus       143 ~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l-~R-~~t~~~~~~ai~~~~~~G~~~v~~Dl  220 (471)
                      +-+   ..-+++++|-..++++.++.|.++|++|+.+.|.|.|++.-|.| |+ .++.+.+.+.++.+.++|++-+-.-+
T Consensus       187 ~~~---v~vVSmQTng~~L~~~lv~eLeeAGLdRiNlSv~aLDpk~Ak~L~G~~dYdv~kvle~aE~i~~a~idvlIaPv  263 (414)
T COG2100         187 HKG---VEVVSMQTNGVLLSKKLVDELEEAGLDRINLSVDALDPKLAKMLAGRKDYDVKKVLEVAEYIANAGIDVLIAPV  263 (414)
T ss_pred             CCC---ceEEEEeeCceeccHHHHHHHHHhCCceEEeecccCCHHHHHHhcCccccCHHHHHHHHHHHHhCCCCEEEeee
Confidence            743   34789999999999999999999999999999999999999876 54 57999999999999999987322222


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhCCCC----cEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q 012112          221 ISSLPHQTPQMWEESLRRTVGAQPK----HVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH  295 (471)
Q Consensus       221 I~GlPgqT~e~~~~~l~~~~~l~p~----his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  295 (471)
                        =+||-+.+++.+-++++.+.+.-    .+.+-.+.++.   +.+..   .  ....-.-.+.|....++=++.|+..
T Consensus       264 --~lPG~ND~E~~~iIe~A~~iGaGkk~p~lgiQkyipyk---~GRkp---~--~~k~~~fkeFYrwLrelEketg~kp  332 (414)
T COG2100         264 --WLPGVNDDEMPKIIEWAREIGAGKKWPPLGIQKYIPYK---FGRKP---V--IAKVWPFKEFYRWLRELEKETGVKP  332 (414)
T ss_pred             --ecCCcChHHHHHHHHHHHHhCCCCCCCCcceEEeeeec---ccCCc---c--ccccCcHHHHHHHHHHHHHHhCCCc
Confidence              27999999999999999998642    23333333321   22211   0  1111223467888888888888874

>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]

Probab=99.15  E-value=1.7e-09  Score=100.04  Aligned_cols=203  Identities=17%  Similarity=0.248  Sum_probs=153.4

Q ss_pred             EEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC--CHHH
Q 012112           55 SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV--PPRF  132 (471)
Q Consensus        55 ~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l--~~~~  132 (471)
                      ++-|-=-||...|..|.-....            ..+...-..|+++......     .+.+.+.+.||.-+-.  +-+.
T Consensus        13 sISVTG~yC~lnC~HCg~~~L~------------~Mi~vt~~~l~k~~~el~k-----kGy~g~llSGGm~srg~VPl~k   75 (275)
T COG1856          13 SISVTGAYCSLNCPHCGRHYLE------------HMIKVTTKSLLKRCMELEK-----KGYEGCLLSGGMDSRGKVPLWK   75 (275)
T ss_pred             eEEEeccceEecChHHHHHHHH------------HhcccchHHHHHHHHHHHh-----cCceeEEEeCCcCCCCCccHHH
Confidence            3444445799999999754321            1111111344444433322     2356777877765443  4466


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc-CCCCCHHHHHHHHHHHHHc
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC-GRAHGLKEVYEAIEIVKLC  211 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l-~R~~t~~~~~~ai~~~~~~  211 (471)
                      +...+.++++..+      +.+.++.+-++++.++.+++.+++-+|+-+=+ |+++++.+ +-..+.++..+.+..++++
T Consensus        76 f~d~lK~lke~~~------l~inaHvGfvdE~~~eklk~~~vdvvsLDfvg-Dn~vIk~vy~l~ksv~dyl~~l~~L~e~  148 (275)
T COG1856          76 FKDELKALKERTG------LLINAHVGFVDESDLEKLKEELVDVVSLDFVG-DNDVIKRVYKLPKSVEDYLRSLLLLKEN  148 (275)
T ss_pred             HHHHHHHHHHhhC------eEEEEEeeeccHHHHHHHHHhcCcEEEEeecC-ChHHHHHHHcCCccHHHHHHHHHHHHHc
Confidence            6677777777644      67778888899999999999999999999877 45555554 5556999999999999999


Q ss_pred             CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          212 GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       212 G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      |+. |--.+++||-+-...-=.+.++.+.+..||.+-+--++|.|||.|..      .++|+.++....+..|++..
T Consensus       149 ~ir-vvpHitiGL~~gki~~e~kaIdiL~~~~~DalVl~vliPtpGtkm~~------~~pp~~eE~i~v~~~AR~~f  218 (275)
T COG1856         149 GIR-VVPHITIGLDFGKIHGEFKAIDILVNYEPDALVLVVLIPTPGTKMGN------SPPPPVEEAIKVVKYARKKF  218 (275)
T ss_pred             Cce-eceeEEEEeccCcccchHHHHHHHhcCCCCeEEEEEEecCCchhccC------CCCcCHHHHHHHHHHHHHhC
Confidence            997 89999999988888888889999999999999999999999999865      36788899999999988873

>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=99.09  E-value=8.3e-09  Score=96.31  Aligned_cols=159  Identities=19%  Similarity=0.354  Sum_probs=109.9

Q ss_pred             EeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHH
Q 012112           58 IHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSIL  137 (471)
Q Consensus        58 iHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll  137 (471)
                      +..--|+.+|.||..+.....         ........+.+.++|+....      .+..|.|.||.|.+ .++ +.+++
T Consensus        21 ~~t~~Cnl~C~~C~~~~~~~~---------~~~~~~~~~~i~~~i~~~~~------~~~~i~~sGGEPll-~~~-l~~li   83 (191)
T TIGR02495        21 IFFQGCNLKCPYCHNPELIDR---------EGSGEIEVEFLLEFLRSRQG------LIDGVVITGGEPTL-QAG-LPDFL   83 (191)
T ss_pred             EEcCCCCCCCCCCCCccccCC---------CCCCcCCHHHHHHHHHHhcC------CCCeEEEECCcccC-cHh-HHHHH
Confidence            345569999999987532110         00011234566666654321      15667888999975 555 88888


Q ss_pred             HHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCC-CCEEEEccCCCCHHHHHHcCCCCCHH-HHHHHHHHHHHcCCCe
Q 012112          138 DTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLG-VNRVSLGVQAFQDELLKSCGRAHGLK-EVYEAIEIVKLCGVEN  215 (471)
Q Consensus       138 ~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~G-vnrvsiGvQS~~d~~L~~l~R~~t~~-~~~~ai~~~~~~G~~~  215 (471)
                      +.+++. +    ..+.+.+|.  .+++.++.+.++| ++.|++.+++.++...+..++..+.+ ++.++++.+++.|+. 
T Consensus        84 ~~~~~~-g----~~v~i~TNg--~~~~~l~~l~~~g~~~~v~isl~~~~~~~~~~~g~~~~~~~~~~~~i~~l~~~gi~-  155 (191)
T TIGR02495        84 RKVREL-G----FEVKLDTNG--SNPRVLEELLEEGLVDYVAMDVKAPPEKYPELYGLEKNGSNNILKSLEILLRSGIP-  155 (191)
T ss_pred             HHHHHC-C----CeEEEEeCC--CCHHHHHHHHhcCCCcEEEEeccCChHHHHHHHCCCCchHHHHHHHHHHHHHcCCC-
Confidence            888763 2    357777765  3688899999998 69999999997666667777766665 899999999999986 


Q ss_pred             eEee--eecCCCCCCHHHHHHHHHHHHhCC
Q 012112          216 WSLD--LISSLPHQTPQMWEESLRRTVGAQ  243 (471)
Q Consensus       216 v~~D--lI~GlPgqT~e~~~~~l~~~~~l~  243 (471)
                      +.+-  ++-|..+  .+++.+..+++.+.+
T Consensus       156 ~~i~~~v~~~~~~--~~ei~~~~~~l~~~~  183 (191)
T TIGR02495       156 FELRTTVHRGFLD--EEDLAEIATRIKENG  183 (191)
T ss_pred             EEEEEEEeCCCCC--HHHHHHHHHHhccCC
Confidence            4444  4444433  567888888877665

This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD.

>PRK14456 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.07  E-value=4.1e-08  Score=100.51  Aligned_cols=203  Identities=16%  Similarity=0.250  Sum_probs=138.1

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHH---HHHHhccCCCCCCCCeeEEEEcC-CCCCCCCHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLC---REIIATKPGHKTSPPLETVFFGG-GTPSLVPPRFVSSILD  138 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~---~Ei~~~~~~~~~~~~v~~i~fGG-GTps~l~~~~l~~ll~  138 (471)
                      |+.+|.||+-...  |.      ...-.....++.+.   +++.....    ...+..|.|-| |.|.+ +.+.+.++++
T Consensus       131 Cnl~C~FC~tg~~--g~------~rnLt~~EI~~qv~~~~~~~~~~~~----~~~v~nIvfmGmGEPLl-n~d~v~~~i~  197 (368)
T PRK14456        131 CALRCSFCATGQM--GF------RRNLTAGEITGQVFALSDMLAERNR----ERGITNIVFMGMGEPLL-NTDNVFEAVL  197 (368)
T ss_pred             CCCCCCCCCCCCC--CC------CCCCCHHHHHHHHHHHHHHHHhhhc----cCCccEEEEeCcCcccc-CHHHHHHHHH
Confidence            9999999986532  21      11112233444332   22221101    23477777877 99964 7777888888


Q ss_pred             HHHHH-cCCC-CCcEEEEEecCCCCCHHHHHHHHHCCCC-EEEEccCCCCHHHHHHc----CCCCCHHHHHHHHH-HHHH
Q 012112          139 TLTDK-FGLS-LDAEISMEMDPGTFDARKMEELMDLGVN-RVSLGVQAFQDELLKSC----GRAHGLKEVYEAIE-IVKL  210 (471)
Q Consensus       139 ~l~~~-~~l~-~~~eitiE~~P~~l~~e~l~~l~~~Gvn-rvsiGvQS~~d~~L~~l----~R~~t~~~~~~ai~-~~~~  210 (471)
                      .+.+. .++. ....+|+.++-  +.+ .++.|.+.|.. +|.+.+.|.+++..+.+    +|.++.+++.++++ .+++
T Consensus       198 ~l~~~~~~~~is~r~ItisT~G--l~~-~i~~L~~~gl~~~LaiSL~a~~~e~r~~i~P~~~~~~~l~~l~~~i~~~~~~  274 (368)
T PRK14456        198 TLSTRKYRFSISQRKITISTVG--ITP-EIDRLATSGLKTKLAVSLHSADQEKRERLMPQAARDYPLDELREALIGYASK  274 (368)
T ss_pred             HHhccccccCcCcCeeEEECCC--ChH-HHHHHHHcCCCceEEEEecCCCHHHHHHhccccCCCCCHHHHHHHHHHHHHh
Confidence            88764 3222 12478888774  554 57999999996 99999999999999988    35789999999997 4666


Q ss_pred             cCCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          211 CGVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       211 ~G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      .|.. .++.=+|-|+ ..+.+++.+.++++..+. -+|.+-+|.+.++.++         ..|+.+...    ...+.|.
T Consensus       275 ~g~~V~ieyvLI~Gv-NDs~eda~~L~~~l~~~~-~~VnlIpyn~~~~~~~---------~~ps~e~i~----~F~~~L~  339 (368)
T PRK14456        275 TGEPVTLVYMLLEGI-NDSPEDARKLIRFASRFF-CKINLIDYNSIVNIKF---------EPVCSSTRE----RFRDRLL  339 (368)
T ss_pred             cCCeEEEEEEEEcCC-CCCHHHHHHHHHHHhcCC-CeeEEeeeccCCCCCC---------CCCCHHHHH----HHHHHHH
Confidence            7754 2455666665 588899999999998874 4788888887766653         245554433    3366788


Q ss_pred             HCCCcee
Q 012112          290 SAGYRHY  296 (471)
Q Consensus       290 ~~Gy~~y  296 (471)
                      ++|+...
T Consensus       340 ~~Gi~vt  346 (368)
T PRK14456        340 DAGLQVT  346 (368)
T ss_pred             HCCCcEE
Confidence            9998764

>PRK14460 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.06  E-value=7.6e-08  Score=98.27  Aligned_cols=205  Identities=17%  Similarity=0.213  Sum_probs=133.0

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCC-eeEEE-EcCCCCCCCCHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPP-LETVF-FGGGTPSLVPPRFVSSILDTL  140 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~-v~~i~-fGGGTps~l~~~~l~~ll~~l  140 (471)
                      |+.+|.||.-.....+        ..-.....++.+......+..... +.. ++.|. .|+|.|.+ +.+.+.+.++.+
T Consensus       112 C~~~C~FC~tg~~g~~--------rnlt~~EI~~qv~~~~~~~~~~g~-g~~~i~nIvfmGmGEPLl-n~~~v~~~l~~l  181 (354)
T PRK14460        112 CAMGCTFCSTGTMGFE--------RNMTMGEILGQVLVAREHLGDNGP-DHPILRNLVFMGMGEPLL-NLDEVMRSLRTL  181 (354)
T ss_pred             cCCCCccCCCCCCCCC--------cCCCHHHHHHHHHHHHHHHhhccC-CCcceeEEEEecCCcccC-CHHHHHHHHHHH
Confidence            9999999975432111        111233333333322222211111 222 55554 56699976 777777777777


Q ss_pred             HHHcCCC-CCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCC---CCHHHHHHHHHHHH-HcCCC-
Q 012112          141 TDKFGLS-LDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRA---HGLKEVYEAIEIVK-LCGVE-  214 (471)
Q Consensus       141 ~~~~~l~-~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~---~t~~~~~~ai~~~~-~~G~~-  214 (471)
                      ++..++. ....+++.++--   .+.++.|.+.|..++.+.+.|.+++..+.+.+.   .+.+++.++++... +.|-. 
T Consensus       182 ~~~~Gl~~~~r~itvsT~G~---~~~i~~L~~~~l~~L~iSLha~~~e~r~~i~p~~~~~~l~~ll~al~~~~~~~~~~v  258 (354)
T PRK14460        182 NNEKGLNFSPRRITVSTCGI---EKGLRELGESGLAFLAVSLHAPNQELRERIMPKAARWPLDDLIAALKSYPLKTRERV  258 (354)
T ss_pred             hhhhccCCCCCeEEEECCCC---hHHHHHHHhCCCcEEEEeCCCCCHHHHHHhcCccccCCHHHHHHHHHHHHHhcCCeE
Confidence            6543332 124788887652   678899999999999999999999999988554   57888888777543 33332 


Q ss_pred             eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCc
Q 012112          215 NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR  294 (471)
Q Consensus       215 ~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~  294 (471)
                      .+++-+|=| .+++.+++.+..+++..++. +|.+-+|.+.+|.++         ..|+.+...+    ..+.|.++|+.
T Consensus       259 ~iey~LI~G-vNDs~ed~~~l~~~l~~~~~-~VnLIpyn~~~g~~y---------~~p~~e~v~~----f~~~l~~~Gi~  323 (354)
T PRK14460        259 TFEYLLLGG-VNDSLEHARELVRLLSRTKC-KLNLIVYNPAEGLPY---------SAPTEERILA----FEKYLWSKGIT  323 (354)
T ss_pred             EEEEEEECC-CCCCHHHHHHHHHHHhcCCC-cEEEEcCCCCCCCCC---------CCCCHHHHHH----HHHHHHHCCCe
Confidence            134445545 58899999999999998865 788888888777654         2456554433    34568888876


Q ss_pred             e
Q 012112          295 H  295 (471)
Q Consensus       295 ~  295 (471)
                      .
T Consensus       324 v  324 (354)
T PRK14460        324 A  324 (354)
T ss_pred             E
Confidence            5

>PRK13745 anaerobic sulfatase-maturase; Provisional

Probab=99.04  E-value=8.9e-08  Score=100.17  Aligned_cols=191  Identities=12%  Similarity=0.162  Sum_probs=131.5

Q ss_pred             CCCCeEEEEecc--CCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCC
Q 012112           50 QLSPTSAYIHLP--FCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSL  127 (471)
Q Consensus        50 ~~~~~~lYiHIP--FC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~  127 (471)
                      ...++++.+..-  -|..+|.||............   .....-..-++.+++++....     +...-.+.|.||.|.+
T Consensus         9 ~~~p~~~~~kp~~~~CNl~C~yC~~~~~~~~~~~~---~~~~ms~e~~~~~i~~~~~~~-----~~~~v~i~f~GGEPlL   80 (412)
T PRK13745          9 FAKPLYIMLKPVGAVCNLACDYCYYLEKSKLYQEN---PKHVMSDELLEKFIKEYINSQ-----TMPQVLFTWHGGETLM   80 (412)
T ss_pred             cCcceEEEEeecCCCcCCCCcccCCcCCCcccccC---ccCCCCHHHHHHHHHHHHHcC-----CCCeEEEEEEccccCC
Confidence            344577777744  599999999874321000000   001122344455666654321     1224456677899998


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC----CCCHHHHHH
Q 012112          128 VPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR----AHGLKEVYE  203 (471)
Q Consensus       128 l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R----~~t~~~~~~  203 (471)
                      .+...+.++++.+++.. -.....+++.+|.-.++++.++.+++.|+ .|+|.+.+. +++-....+    ..+.+.+.+
T Consensus        81 ~~~~~~~~~~~~~~~~~-~~~~i~~~i~TNG~ll~~e~~~~l~~~~~-~v~ISlDG~-~~~hD~~R~~~~g~gsf~~v~~  157 (412)
T PRK13745         81 RPLSFYKKALELQKKYA-RGRQIDNCIQTNGTLLTDEWCEFFRENNF-LVGVSIDGP-QEFHDEYRKNKMGKPSFVKVMK  157 (412)
T ss_pred             CcHHHHHHHHHHHHHHc-CCCceEEEEeecCEeCCHHHHHHHHHcCe-EEEEEecCC-HHHhhhhcCCCCCCccHHHHHH
Confidence            76667777777665443 23456788999998899999999999998 899999986 344333322    248999999


Q ss_pred             HHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccc
Q 012112          204 AIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQV  254 (471)
Q Consensus       204 ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~  254 (471)
                      +++.++++|+. +++-..+.  .++.+...+.++++.+++++++.+.++.+
T Consensus       158 ~i~~l~~~gi~-~~i~~vv~--~~n~~~~~e~~~~~~~lg~~~~~~~p~~~  205 (412)
T PRK13745        158 GINLLKKHGVE-WNAMAVVN--DFNADYPLDFYHFFKELDCHYIQFAPIVE  205 (412)
T ss_pred             HHHHHHHcCCC-EEEEEEEc--CCccccHHHHHHHHHHcCCCeEEEEeccC
Confidence            99999999986 66654443  67788889999999999999999888665

>TIGR03820 lys_2_3_AblA lysine-2,3-aminomutase

Probab=99.02  E-value=1.2e-08  Score=105.16  Aligned_cols=198  Identities=14%  Similarity=0.159  Sum_probs=139.0

Q ss_pred             EEEecc-CCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           56 AYIHLP-FCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        56 lYiHIP-FC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      +.+++- -|...|.||.-.......       .......-++++++.|+.   .    ..+..|.|.||.|.+++.+.++
T Consensus       110 vLl~vT~~C~~~CryC~R~~~~g~~-------~~~ls~eei~~~i~yI~~---~----p~I~~VlLSGGDPLll~d~~L~  175 (417)
T TIGR03820       110 VLFLVSNTCAMYCRHCTRKRKVGDR-------DSIPSKEQILEGIEYIRN---T----PQIRDVLLSGGDPLLLSDDYLD  175 (417)
T ss_pred             EEEEEcCCcCCCCcCCCCcccCCcc-------cccCCHHHHHHHHHHHHh---c----CCCCEEEEeCCccccCChHHHH
Confidence            344444 399999999765322110       011112223334444432   1    2478899999999999998999


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEec-----CCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          135 SILDTLTDKFGLSLDAEISMEMD-----PGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~-----P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      .+++.|++.-.   ...+++-++     |..+|++.++.|++.+.  +.++++.-+++.+        .+++.+|++.++
T Consensus       176 ~iL~~L~~Iph---V~~IRI~TR~pvv~P~RIT~ell~~Lk~~~~--~~v~~h~nhp~Ei--------t~~a~~Al~~L~  242 (417)
T TIGR03820       176 WILTELRAIPH---VEVIRIGTRVPVVLPQRITDELVAILKKHHP--VWLNTHFNHPREI--------TASSKKALAKLA  242 (417)
T ss_pred             HHHHHHhhcCC---CceEEEeeccccccccccCHHHHHHHHhcCC--eEEEEeCCChHhC--------hHHHHHHHHHHH
Confidence            99999887422   224788888     88899999999999985  5555555555432        588999999999


Q ss_pred             HcCCCeeE-eeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          210 LCGVENWS-LDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       210 ~~G~~~v~-~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      ++|+.-.+ .-++=|+ +.+.+.+.+..+.+.++++.---+|.+.+.+|+.-++         .+.+...++++.++..+
T Consensus       243 ~aGI~l~nQsVLLkGV-ND~~~~l~~L~~~L~~~gV~PYYl~~~d~v~G~~hFr---------v~~~~g~~I~~~lr~~~  312 (417)
T TIGR03820       243 DAGIPLGNQSVLLAGV-NDCPRIMKKLVHKLVANRVRPYYLYQCDLSEGLSHFR---------TPVGKGIEIIESLIGHT  312 (417)
T ss_pred             HcCCEEEeeceEECCc-CCCHHHHHHHHHHHHHCCCeeceeeeccCCCCccccc---------CcHHHHHHHHHHHHHhC
Confidence            99997333 5566675 8889999999999999998777777777888876544         24566777888777765


Q ss_pred             HH
Q 012112          289 SS  290 (471)
Q Consensus       289 ~~  290 (471)
                      ..
T Consensus       313 sG  314 (417)
T TIGR03820       313 SG  314 (417)
T ss_pred             CC
Confidence            43

This model describes lysine-2,3-aminomutase as found along with beta-lysine acetyltransferase in a two-enzyme pathway for making the compatible solute N-epsilon-acetyl-beta-lysine. This compatible solute, or osmolyte, is known to protect a number of methanogenic archaea against salt stress. The trusted cutoff distinguishes a tight clade with essentially full-length homology from additional homologs that are shorter or highly diverged in the C-terminal region. All members of this family have the radical SAM motif CXXXCXXC, while some but not all have a second copy of the motif in the C-terminal region.

>TIGR00238 KamA family protein

Probab=99.00  E-value=3.5e-08  Score=100.04  Aligned_cols=197  Identities=15%  Similarity=0.161  Sum_probs=131.9

Q ss_pred             EEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           56 AYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        56 lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      +++++-- |+.+|.||.-.....+.       .... ..-++.+++.++.   .    ..+..|.|.||.|.+++...+.
T Consensus       115 vll~~T~gCn~~C~yC~~~~~~~~~-------~~~~-~~~~~~~i~~i~~---~----~~i~eV~lsGGDPLl~~d~~L~  179 (331)
T TIGR00238       115 ALFLVKGGCAVNCRYCFRRHFPYKE-------NPGN-KKKWQKALDYIAE---H----PEIIEILISGGDPLMAKDHELE  179 (331)
T ss_pred             EEEEeCCCCCCCCcCCCCCCcCCCC-------CCcc-HHHHHHHHHHHHh---C----CCcCEEEEECCccccCCHHHHH
Confidence            3344433 99999999854322110       1111 2334444455432   1    2367899999999888877899


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEe-----cCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          135 SILDTLTDKFGLSLDAEISMEM-----DPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~-----~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      ++++.+++.-.+   ..+.+.+     +|..+|++.++.|+++|+..+.++.-...+++         .+++.+|++.++
T Consensus       180 ~ll~~L~~i~~~---~~IRi~tr~~~~~P~rit~el~~~L~~~~~~~~~vsh~nh~~Ei---------~~~~~~ai~~L~  247 (331)
T TIGR00238       180 WLLKRLEEIPHL---VRLRIGTRLPVVIPQRITDELCELLASFELQLMLVTHINHCNEI---------TEEFAEAMKKLR  247 (331)
T ss_pred             HHHHHHHhcCCc---cEEEeecCCCccCchhcCHHHHHHHHhcCCcEEEEccCCChHhC---------CHHHHHHHHHHH
Confidence            999998864222   2344443     36668999999999999988877755443321         267899999999


Q ss_pred             HcCCCee-EeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          210 LCGVENW-SLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       210 ~~G~~~v-~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      ++|+.-. ..-++-|. ..+.+.+.+..+.+.++++....++.+.+..|+.-+        . .+.++..+++..+...+
T Consensus       248 ~aGi~v~~qtvLl~gv-nD~~~~l~~L~~~l~~~gV~pyyl~~~~~~~g~~~f--------~-~~~~~~~~i~~~l~~~~  317 (331)
T TIGR00238       248 TVNVTLLNQSVLLRGV-NDRAQILAKLSIALFKVGIIPYYLHYLDKVQGAKHF--------L-VPDAEAAQIVKELARLT  317 (331)
T ss_pred             HcCCEEEeecceECCc-CCCHHHHHHHHHHHhhcCeecCeecCcCCCCCcccc--------c-CCHHHHHHHHHHHHhcC
Confidence            9999732 23344444 677888999999999999888888888887776322        2 34566677777766654


Q ss_pred             H
Q 012112          289 S  289 (471)
Q Consensus       289 ~  289 (471)
                      .
T Consensus       318 s  318 (331)
T TIGR00238       318 S  318 (331)
T ss_pred             C
Confidence            4

Note that the E. coli homolog was expressed in E. coli and purified and found not to display display lysine 2,3-aminomutase activity. Active site residues are found in 100 residue extension in B. subtilis. Name changed to KamA family protein.

>PRK13758 anaerobic sulfatase-maturase; Provisional

Probab=98.98  E-value=1.6e-07  Score=96.79  Aligned_cols=186  Identities=15%  Similarity=0.193  Sum_probs=127.5

Q ss_pred             CCeEEEEecc--CCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           52 SPTSAYIHLP--FCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        52 ~~~~lYiHIP--FC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      +++++++-..  -|+.+|.||............   .........++.+++++....      ....+|.|.||.|.+.+
T Consensus         2 ~~~~~~~~~~t~~CNl~C~yC~~~~~~~~~~~~---~~~~m~~~~~~~~i~~~~~~~------~~~~~i~~~GGEPll~~   72 (370)
T PRK13758          2 PPLSLLIKPASSGCNLKCTYCFYHSLSDNRNVK---SYGIMRDEVLESMVKRVLNEA------EGHCSFAFQGGEPTLAG   72 (370)
T ss_pred             CceEEEEecCCCCcCCCCcccCCcCcccccccc---ccCCCCHHHHHHHHHHHHhcc------CCceEEEEECCccccCC
Confidence            3677777776  399999999875422110000   001122344555555443221      12456888899999876


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC----CCCCHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG----RAHGLKEVYEAI  205 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~----R~~t~~~~~~ai  205 (471)
                      .+.+.++++.+++.-.......+++.+|--.++++.++.|++.|+ .|+|.+.+. +++-...+    ...+.+.+.+++
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~i~TNG~ll~~~~~~~l~~~~~-~v~iSlDg~-~~~hd~~R~~~~g~~~f~~v~~~i  150 (370)
T PRK13758         73 LEFFEELMELQRKHNYKNLKIYNSLQTNGTLIDESWAKFLSENKF-LVGLSMDGP-KEIHNLNRKDCCGLDTFSKVERAA  150 (370)
T ss_pred             hHHHHHHHHHHHHhccCCCeEEEEEEecCEecCHHHHHHHHHcCc-eEEEeecCC-HHHhccccCCCCCCccHHHHHHHH
Confidence            677888888887652111223568889988889999999999997 899999997 45544443    345889999999


Q ss_pred             HHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          206 EIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       206 ~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      +.+++.|+. +.+-.++.  ..+.+++.+.++++.+++++.+.+.+
T Consensus       151 ~~l~~~~~~-~~i~~~v~--~~n~~~l~~i~~~~~~~g~~~~~~~~  193 (370)
T PRK13758        151 ELFKKYKVE-FNILCVVT--SNTARHVNKIYKYFKEKDFKFLQFIN  193 (370)
T ss_pred             HHHHHhCCC-ceEEEEec--cccccCHHHHHHHHHHcCCCeEeeee
Confidence            999999886 66655554  45778889999999999998776544

>PRK14455 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.95  E-value=2.6e-07  Score=94.54  Aligned_cols=204  Identities=18%  Similarity=0.199  Sum_probs=133.3

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCee-EEEEcCCCCCCCCHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLE-TVFFGGGTPSLVPPRFVSSILDTLT  141 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~-~i~fGGGTps~l~~~~l~~ll~~l~  141 (471)
                      |+.+|.||.-.....+        ..-..+..++.+..-.......   +.++. -++.|+|.|.+ +.+.+.++++.+.
T Consensus       119 C~~~C~FC~t~~~~~~--------r~lt~~EIv~qv~~~~~~~~~~---g~~v~~Vv~~GmGEPLl-n~~~v~~~l~~l~  186 (356)
T PRK14455        119 CRIGCTFCASTLGGLK--------RDLEAGEIVAQVMLVQKYLDET---EERVSHIVVMGIGEPFD-NYDNVMDFLRIIN  186 (356)
T ss_pred             CCCCCCcCCCCCCCCC--------ccCCHHHHHHHHHHHHHHHhhc---CCCcceEEEeccccccC-CHHHHHHHHHHHh
Confidence            9999999987643211        1122333333333211122111   12354 45677799964 7788889999887


Q ss_pred             HHcCCC-CCcEEEEEecCCCCCHHHHHHHHHCCC-CEEEEccCCCCHHHHHH---cCCCCCHHHHHHHHHHHHHcCCCee
Q 012112          142 DKFGLS-LDAEISMEMDPGTFDARKMEELMDLGV-NRVSLGVQAFQDELLKS---CGRAHGLKEVYEAIEIVKLCGVENW  216 (471)
Q Consensus       142 ~~~~l~-~~~eitiE~~P~~l~~e~l~~l~~~Gv-nrvsiGvQS~~d~~L~~---l~R~~t~~~~~~ai~~~~~~G~~~v  216 (471)
                      +..++. ....++++++-  +.+ .+..+.+.+. ..+.+.+-+.|++..+.   ++|.++.+++.++++.+.+.+...|
T Consensus       187 ~~~g~~~s~r~itvsT~G--~~~-~i~~l~d~~l~~~LaiSL~a~~~e~r~~l~pi~~~~~l~~Il~~l~~~~~~~~~~v  263 (356)
T PRK14455        187 DDKGLAIGARHITVSTSG--IAP-KIYDFADEGLQINLAISLHAPNNELRSSLMPINRAYPLEKLMEAIEYYIEKTNRRV  263 (356)
T ss_pred             cccCcccCCCceEEEecC--chH-hHHHHHhcccCeeEEeccCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHhcCCeE
Confidence            643331 12378888764  223 4555556553 34779999999999996   6788899999999998866544446


Q ss_pred             Ee-eeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q 012112          217 SL-DLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH  295 (471)
Q Consensus       217 ~~-DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  295 (471)
                      .+ ..+++-.+.+.+++.+..+++..++ .+|.+-++.+.++.++         ..|+.+...+    ..+.|.++|+..
T Consensus       264 ~iey~lI~gvNDs~ed~~~La~ll~~l~-~~VnLIPynp~~~~ky---------~~ps~e~l~~----f~~~L~~~gi~v  329 (356)
T PRK14455        264 TFEYILLGGVNDQVEHAEELADLLKGIK-CHVNLIPVNPVPERDY---------VRTPKEDIFA----FEDTLKKNGVNC  329 (356)
T ss_pred             EEEEEEeCCCCCCHHHHHHHHHHHhcCC-CcEEEEecCcCCCCCC---------cCCCHHHHHH----HHHHHHHCCCcE
Confidence            66 5666666888999999999998886 5788888877665532         2366554443    346778889865

>COG2516 Biotin synthase-related enzyme [General function prediction only]

Probab=98.93  E-value=2.1e-08  Score=97.83  Aligned_cols=231  Identities=15%  Similarity=0.205  Sum_probs=153.8

Q ss_pred             CCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           50 QLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        50 ~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      +.....+-.|.+=|...|.||.......-..+.....+..+...-++.+++-+-.....+ ++..+.+|..+.    .+ 
T Consensus        28 ~~ta~l~t~~~~~c~~~ca~c~~ar~s~a~p~~~~lsRv~w~~v~l~~~~~~~~~~~g~~-~rici~~i~~p~----~~-  101 (339)
T COG2516          28 PTTAYLMTTYPGGCIADCAYCPQARSSTANPPKKVLSRVEWPAVALEEVLKRLFYDLGNF-KRICIQQIAYPR----AL-  101 (339)
T ss_pred             cceeeeeeecCCceeechhhChhhhhcccCCCcceeeecccccchHHHHHhHhhhhhccc-ccccceeecccc----cc-
Confidence            334444555667799999999875421100000000112222333333333332211111 123355555432    11 


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEE--ecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC----CCCHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISME--MDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR----AHGLKEVYE  203 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE--~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R----~~t~~~~~~  203 (471)
                       ..+..+++.++..    ...++|+-  +++-.. .+.+..++++|...+++++...+.++++.+.|    .|+.+...+
T Consensus       102 -~d~~~i~~~~~~~----~~~~itiseci~~~~~-~~~l~e~~klg~d~l~V~~daa~~~~~e~v~~~s~s~~S~e~~~~  175 (339)
T COG2516         102 -NDLKLILERLHIR----LGDPITISECITAVSL-KEELEEYRKLGADYLGVAEDAANEELFEKVRKTSGSPHSWERYWE  175 (339)
T ss_pred             -chhhhhhhhhhhc----cCCceehhhhhhcccc-hHHHHHHHhcchhhhhHHHHhcCHHHHHHHHhccCCCCcHHHHHH
Confidence             2344555555432    23467776  677655 89999999999999999999999999998833    578999999


Q ss_pred             HHHHHHHc-CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHH
Q 012112          204 AIEIVKLC-GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYR  282 (471)
Q Consensus       204 ai~~~~~~-G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~  282 (471)
                      .++.+.++ |-.+|++.+|+|+ |+|.++|.+++..+...+.. ++++.+.++.||.+.+.      ..++.+...+++.
T Consensus       176 ~l~~~~~~~~k~rv~ihliVgl-GesD~~~ve~~~~v~~~g~~-v~Lfaf~P~~gt~me~r------~~~pve~Yrk~q~  247 (339)
T COG2516         176 FLEKVAEAFGKGRVGIHLIVGL-GESDKDIVETIKRVRKRGGI-VSLFAFTPLKGTQMENR------KPPPVERYRKIQV  247 (339)
T ss_pred             HHHHHHHHhccCCcceeEEecc-CCchHHHHHHHHHHHhcCce-EEEEEecccccccccCC------CCCcHHHHHHHHH
Confidence            98887776 6557999999996 99999999999999998864 99999999999998764      3456667777665


Q ss_pred             HHHHHHHHCCCceecccccc
Q 012112          283 MASSMLSSAGYRHYEISSYG  302 (471)
Q Consensus       283 ~~~~~L~~~Gy~~yeis~fa  302 (471)
                      +.  +|-+.|-..++.--|-
T Consensus       248 a~--yli~~G~v~~~~~~fd  265 (339)
T COG2516         248 AR--YLIGNGEVDLEDFEFD  265 (339)
T ss_pred             HH--HHHhcCccchhhcccc
Confidence            54  8999998776654443

>PRK13762 tRNA-modifying enzyme; Provisional

Probab=98.91  E-value=6.9e-08  Score=97.47  Aligned_cols=161  Identities=15%  Similarity=0.213  Sum_probs=114.8

Q ss_pred             eeEEEEc-CCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC
Q 012112          115 LETVFFG-GGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG  193 (471)
Q Consensus       115 v~~i~fG-GGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~  193 (471)
                      .+.+.|. +|.|++ .+ .+.++++.+++. +    ..+.+++|- ++ ++.++.| ..+++.|.+.+.+.+++..+.+.
T Consensus       130 ~~~v~iSl~GEPlL-~p-~l~eli~~~k~~-G----i~~~L~TNG-~~-~e~l~~L-~~~~d~i~VSLda~~~e~~~~i~  199 (322)
T PRK13762        130 PKHVAISLSGEPTL-YP-YLPELIEEFHKR-G----FTTFLVTNG-TR-PDVLEKL-EEEPTQLYVSLDAPDEETYKKIN  199 (322)
T ss_pred             CCEEEEeCCccccc-hh-hHHHHHHHHHHc-C----CCEEEECCC-CC-HHHHHHH-HhcCCEEEEEccCCCHHHHHHHh
Confidence            3445554 789986 44 788999988864 2    357888887 33 6888888 77999999999999999999997


Q ss_pred             CC---CCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCC
Q 012112          194 RA---HGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFP  270 (471)
Q Consensus       194 R~---~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~  270 (471)
                      |.   .+.+.+.++++.+++.|.. +.+-+.+ +||.+..+..+..+++.+++++.|.+-++++..... ++   .....
T Consensus       200 ~~~~~~~~~~vl~~L~~l~~~~~~-~~ir~tl-v~g~Nd~e~~~~a~l~~~~~~~~Iel~~y~~~G~~k-~~---l~~~~  273 (322)
T PRK13762        200 RPVIPDAWERILETLELLPSKKTR-TVIRITL-VKGYNMHDPEGFAKLIERANPDFVEVKAYMHVGYSR-NR---LTRDN  273 (322)
T ss_pred             CCCCCCcHHHHHHHHHHHHhCCCC-EEEEEEE-ECCcCccHHHHHHHHHHHcCCCEEEEECCeECCCcc-cc---ccccC
Confidence            74   5899999999999999875 4443322 466666666677888888999999887777654332 11   11224


Q ss_pred             CCCHHHHHHHHHHHHHHHHHCCCc
Q 012112          271 LPTETQSANFYRMASSMLSSAGYR  294 (471)
Q Consensus       271 ~p~~~~~~~~~~~~~~~L~~~Gy~  294 (471)
                      .|+.++..+....+.+..   ||.
T Consensus       274 ~p~~eev~~~~~~l~~~~---~~~  294 (322)
T PRK13762        274 MPSHEEVREFAKELAEYT---GYE  294 (322)
T ss_pred             CcCHHHHHHHHHHHHHhc---CCe
Confidence            577777666665554442   664

>COG0535 Predicted Fe-S oxidoreductases [General function prediction only]

Probab=98.91  E-value=9e-08  Score=97.11  Aligned_cols=182  Identities=18%  Similarity=0.185  Sum_probs=134.6

Q ss_pred             CCCeEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           51 LSPTSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        51 ~~~~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      ..+..+.+-++. |+.+|.||....... .       ...........+..++...      +. +..+.|+||.|.+. 
T Consensus        16 ~~p~~~~~~~t~~Cnl~C~~C~~~~~~~-~-------~~el~~~~~~~~~~~~~~~------g~-~~~v~~~gGEPll~-   79 (347)
T COG0535          16 KPPLVVGIELTNRCNLACKHCYAEAGKK-L-------PGELSTEEDLRVIDELAEL------GE-IPVVIFTGGEPLLR-   79 (347)
T ss_pred             cCCcEEEEeeccccCCcCcccccccCCC-C-------ccccCHHHHHHHHHHHHHc------CC-eeEEEEeCCCcccc-
Confidence            355677777777 999999997765421 0       0111112222344444332      22 67889999999875 


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHH-HHHcCCCCCHHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDEL-LKSCGRAHGLKEVYEAIEIV  208 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~-L~~l~R~~t~~~~~~ai~~~  208 (471)
                       ..+.++++.+++..    ...+++-+|...++++.++.++++|++.|++.+++.+++. ...-|+....+.+.++++.+
T Consensus        80 -~d~~ei~~~~~~~~----~~~~~~~TnG~~~~~~~~~~l~~~g~~~v~iSid~~~~e~hd~~rg~~g~~~~~~~~i~~~  154 (347)
T COG0535          80 -PDLLEIVEYARKKG----GIRVSLSTNGTLLTEEVLEKLKEAGLDYVSISLDGLDPETHDPIRGVKGVFKRAVEAIKNL  154 (347)
T ss_pred             -ccHHHHHHHHhhcC----CeEEEEeCCCccCCHHHHHHHHhcCCcEEEEEecCCChhhhhhhcCCCcHHHHHHHHHHHH
Confidence             56777777776542    3467777776557899999999999999999999999999 66777788899999999999


Q ss_pred             HHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccC
Q 012112          209 KLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQ  256 (471)
Q Consensus       209 ~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~p  256 (471)
                      ++.|+. +.+  .+.+++.+.+++.+.++.+.+++++.+.++.+.+..
T Consensus       155 ~~~g~~-~~~--~~~v~~~n~~~l~~~~~~~~~~g~~~~~~~~~~~~g  199 (347)
T COG0535         155 KEAGIL-VVI--NTTVTKINYDELPEIADLAAELGVDELNVFPLIPVG  199 (347)
T ss_pred             HHcCCe-eeE--EEEEecCcHHHHHHHHHHHHHcCCCEEEEEEEeecc
Confidence            999986 333  334568899999999999999999888888887643

>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.88  E-value=3.4e-07  Score=93.31  Aligned_cols=207  Identities=18%  Similarity=0.219  Sum_probs=130.1

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeE-EEEcCCCCCCCCHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLET-VFFGGGTPSLVPPRF  132 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~-i~fGGGTps~l~~~~  132 (471)
                      .++|-+-= |+.+|.||.-...  +.          .+.-.++.+++++......    ..++. ++.|.|.|.+ +.+.
T Consensus       104 t~cvSsq~GC~~~C~FC~tg~~--~~----------~r~lt~~EI~~qv~~~~~~----~~i~~IvfmG~GEPl~-n~~~  166 (349)
T PRK14463        104 TLCISSQVGCAMGCAFCLTGTF--RL----------TRNLTTAEIVNQVCAVKRD----VPVRNIVFMGMGEPLA-NLDN  166 (349)
T ss_pred             EEEEEecCCcCCCCccCCCCCC--CC----------CCCCCHHHHHHHHHHHHhc----CCccEEEEecCCcchh-cHHH
Confidence            34443322 9999999974422  11          0112234455555443221    12444 5556699975 6556


Q ss_pred             HHHHHHHHHH--HcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc---CCCCCHHHHHHHHHH
Q 012112          133 VSSILDTLTD--KFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC---GRAHGLKEVYEAIEI  207 (471)
Q Consensus       133 l~~ll~~l~~--~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai~~  207 (471)
                      +.+.++.+.+  .++++ ...++++++-  +.++ +..+....--.+.+.+.|.+++..+.+   +|.++.+++.+++..
T Consensus       167 vi~~l~~l~~~~gl~~s-~r~itVsTnG--l~~~-i~~l~~~~~~~LaiSL~a~~~e~r~~I~pink~~~l~~l~~a~~~  242 (349)
T PRK14463        167 VIPALQILTDPDGLQFS-TRKVTVSTSG--LVPE-MEELGREVTVNLAVSLNATTDEVRDRIMPVNRRYPLAELLAACKA  242 (349)
T ss_pred             HHHHHHHhhcccccCcC-CceEEEECCC--chHH-HHHHhhccCeEEEEeCCCCCHHHHHHhcCcccCCCHHHHHHHHHH
Confidence            6666666643  22232 2478888765  3343 344444333357789999999999997   788999999998877


Q ss_pred             HHHcCCCeeEe-eeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHH
Q 012112          208 VKLCGVENWSL-DLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASS  286 (471)
Q Consensus       208 ~~~~G~~~v~~-DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~  286 (471)
                      ....+-..|.+ .++++-.+++.+++.+..+++..++. +|.+-++.+.+|.         .+..|+.+...+    ..+
T Consensus       243 ~~~~~~~~v~ieyvLI~GvNDs~e~~~~L~~ll~~l~~-~vnlIPyn~~~~~---------~~~~ps~e~i~~----f~~  308 (349)
T PRK14463        243 FPLPGRRKITIEYVMIRGLNDSLEDAKRLVRLLSDIPS-KVNLIPFNEHEGC---------DFRSPTQEAIDR----FHK  308 (349)
T ss_pred             HHHhcCCeEEEEEEEeCCCCCCHHHHHHHHHHHhccCc-eEEEEecCCCCCC---------CCCCCCHHHHHH----HHH
Confidence            66654344665 45555568999999999999998864 7777777665442         345577655443    345


Q ss_pred             HHHHCCCcee
Q 012112          287 MLSSAGYRHY  296 (471)
Q Consensus       287 ~L~~~Gy~~y  296 (471)
                      .|.++|+...
T Consensus       309 ~L~~~gi~v~  318 (349)
T PRK14463        309 YLLDKHVTVI  318 (349)
T ss_pred             HHHHCCceEE
Confidence            6888898653

>TIGR03278 methan_mark_10 putative methanogenesis marker protein 10

Probab=98.84  E-value=2.1e-07  Score=96.37  Aligned_cols=188  Identities=15%  Similarity=0.072  Sum_probs=122.0

Q ss_pred             HHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEE-ecCC-CCCHHHHHHHHHC
Q 012112           95 IQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISME-MDPG-TFDARKMEELMDL  172 (471)
Q Consensus        95 v~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE-~~P~-~l~~e~l~~l~~~  172 (471)
                      ++.+++|+......+. ...-.-.+.|||.|+. . +.+.++++.+++. +    ..+.++ +|-. ..+++.++.++++
T Consensus        56 ~~evl~ev~~d~~~~~-~~~ggVtisGGGepl~-~-~~l~eLl~~lk~~-g----i~taI~~TnG~~l~~~e~~~~L~~~  127 (404)
T TIGR03278        56 PQVVLGEVQTSLGFRT-GRDTKVTISGGGDVSC-Y-PELEELTKGLSDL-G----LPIHLGYTSGKGFDDPEIAEFLIDN  127 (404)
T ss_pred             HHHHHHHHHHHHHHhc-CCCCEEEEECCccccc-C-HHHHHHHHHHHhC-C----CCEEEeCCCCcccCCHHHHHHHHHc
Confidence            5666666664332221 1112234566667754 4 4788999999874 2    346776 5543 3489999999999


Q ss_pred             CCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCH-HHHHHHHHHHHhCCCCcEEEEe
Q 012112          173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTP-QMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       173 GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~-e~~~~~l~~~~~l~p~his~y~  251 (471)
                      |++.|.+.+.+.|+++.+.+-.....+.+.+.++.+.+. +. +.+-. +=+||-+. ++..++++++.++++..+.+.+
T Consensus       128 gld~v~iSvka~dpe~h~kl~G~~~a~~ILe~L~~L~e~-~~-v~~~i-vlIPGiND~eel~~ti~~L~~lg~~~V~L~~  204 (404)
T TIGR03278       128 GVREVSFTVFATDPELRREWMKDPTPEASLQCLRRFCES-CE-VHAAS-VIIPGVNDGDVLWKTCADLESWGAKALILMR  204 (404)
T ss_pred             CCCEEEEecccCCHHHHHHHhCCCCHHHHHHHHHHHHhc-CC-EEEEE-EEeCCccCcHHHHHHHHHHHHCCCCEEEEEe
Confidence            999999999999999999855444558899999999884 44 44332 22567665 5667999999999999888888


Q ss_pred             ccccCCChh--hhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCcee
Q 012112          252 LQVEQGTKF--GILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHY  296 (471)
Q Consensus       252 l~~~pgT~l--~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~y  296 (471)
                      +.......+  ...+....+..+   ...++...+.++.++.|+..+
T Consensus       205 y~~~g~~ky~lg~~~~~~~~~~~---~~~e~~~~v~~~~~~~~i~~~  248 (404)
T TIGR03278       205 FANTEEQGLILGNAPIIPGIKPH---TVSEFKNIVRETHKEFPIRVT  248 (404)
T ss_pred             cccccccccccCCcCcccCCCCC---CHHHHHHHHHHHHHHhCCccc
Confidence            764322211  111111112223   344456666777777776654

Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The presence of motifs with seven invariant Cys residues in the N-terminal 50 residues, including three instances of CXXC, would be consistent with function as an oxidoreductase with FeS clusters. The exact function is unknown, but likely is linked to methanogenesis. In most genomes, the member of this family is encoded by a gene next to, and divergently transcribed from, the methyl coenzyme M reductase operon.

>PRK14468 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.82  E-value=7.7e-07  Score=90.60  Aligned_cols=210  Identities=14%  Similarity=0.209  Sum_probs=131.3

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCC-CCCCeeEEEEcC-CCCCCCCH
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHK-TSPPLETVFFGG-GTPSLVPP  130 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~-~~~~v~~i~fGG-GTps~l~~  130 (471)
                      ..++|-.-- |+.+|.||.......+        ..-.    .+.+++++.......+ ....++.|.|.| |.|.+ +.
T Consensus        93 ~t~cvSsq~GC~l~C~fC~tg~~g~~--------r~Lt----~~EI~~qv~~~~~~~g~~~~~i~~Vvf~GmGEPll-n~  159 (343)
T PRK14468         93 KTICVSTMVGCPAGCAFCATGAMGFG--------RNLT----AAEILDQVLAVAGHEGISPREIRNVVLMGMGEPLL-NY  159 (343)
T ss_pred             CEEEEEecCCCCCcCCCCCCCCCCCC--------CCCC----HHHHHHHHHHHHhhcCcCcCCccEEEEeccCcccc-CH
Confidence            444443333 9999999975432111        1111    2333444332211111 013477787876 99975 66


Q ss_pred             HHHHHHHHHHHHH--cCCCCCcEEEEEecCCCCCHHHHHHHHHCCCC-EEEEccCCCCHHHHHHcC---CCCCHHHHHHH
Q 012112          131 RFVSSILDTLTDK--FGLSLDAEISMEMDPGTFDARKMEELMDLGVN-RVSLGVQAFQDELLKSCG---RAHGLKEVYEA  204 (471)
Q Consensus       131 ~~l~~ll~~l~~~--~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvn-rvsiGvQS~~d~~L~~l~---R~~t~~~~~~a  204 (471)
                      +.+.+.++.+...  ++++. ..+|+.++-   ....++.|.+.|.. +|.+.+-+.+++..+++.   +..+.+++.++
T Consensus       160 ~~v~~~i~~l~~~~g~~l~~-r~itvST~G---~~~~i~~L~~~~l~~~LaiSL~a~d~e~r~~i~p~~~~~~l~~ll~~  235 (343)
T PRK14468        160 ENVLKAARIMLHPQALAMSP-RRVTLSTVG---IPKGIRRLAEEDLGVRLALSLHAPDEETRQRIIPTAHRYSIAEIMAA  235 (343)
T ss_pred             HHHHHHHHHhcccccccccC-ceEEEECCC---ChHHHHHHHHhCcCcEEEEEcCCCCHHHHHHhccccccCCHHHHHHH
Confidence            6666666555322  23332 368888765   24677788887765 799999999999999884   66788999999


Q ss_pred             HHHHHHc-CCCeeE--eeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHH
Q 012112          205 IEIVKLC-GVENWS--LDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFY  281 (471)
Q Consensus       205 i~~~~~~-G~~~v~--~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~  281 (471)
                      ++...+. +. .|.  .-+|=|+ ..+.++..+..+++..+. .+|.+-++.+.++.         .+..|+++...+  
T Consensus       236 l~~~~~~~~~-~V~ieyvLI~Gv-NDs~e~~~~L~~ll~~~~-~~VnLIPynp~~~~---------~~~~ps~e~i~~--  301 (343)
T PRK14468        236 VRHYQAVTGR-RVTLEYTMLKGV-NDHLWQAELLADLLRGLV-SHVNLIPFNPWEGS---------PFQSSPRAQILA--  301 (343)
T ss_pred             HHHHHHhcCC-eEEEEEEEeCCC-cCCHHHHHHHHHHHhcCC-cEEEEEcCCCCCCC---------CCCCCCHHHHHH--
Confidence            8754444 43 344  4444454 578888999999988875 47877777765432         234566654333  


Q ss_pred             HHHHHHHHHCCCcee
Q 012112          282 RMASSMLSSAGYRHY  296 (471)
Q Consensus       282 ~~~~~~L~~~Gy~~y  296 (471)
                        ..+.|.++|+..+
T Consensus       302 --f~~~L~~~Gi~vt  314 (343)
T PRK14468        302 --FADVLERRGVPVS  314 (343)
T ss_pred             --HHHHHHHCCCeEE
Confidence              4567888998764

>PRK14469 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.80  E-value=1.1e-06  Score=89.79  Aligned_cols=208  Identities=16%  Similarity=0.202  Sum_probs=133.2

Q ss_pred             CeEEEEec-cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcC-CCCCCCCH
Q 012112           53 PTSAYIHL-PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG-GTPSLVPP  130 (471)
Q Consensus        53 ~~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGG-GTps~l~~  130 (471)
                      ..++.|.. --|+.+|.||.-...  |.      ...-    ..+.+++++.......  ...+..|.|-| |.|.+ ++
T Consensus       100 ~~t~cissq~GC~l~C~fC~tg~~--g~------~r~l----t~~EI~~qv~~~~~~~--~~~v~~Vvf~GmGEPLl-n~  164 (343)
T PRK14469        100 RITACISTQVGCPVKCIFCATGQS--GF------VRNL----TTGEIVSQILAMEKEE--KKKVGNVVYMGMGEPLL-NY  164 (343)
T ss_pred             CeEEEEEecCCCCCcCcCCCCCCC--Cc------cccC----CHHHHHHHHHHHHHhc--cCCcCeEEEEccChhhh-hH
Confidence            45666666 559999999975321  11      0111    1233444443221111  12366677766 99964 77


Q ss_pred             HHHHHHHHHHHHHcCCCC-CcEEEEEecCCCCCHHHHHHHHHCCCC-EEEEccCCCCHHHHHHc---CCCCCHHHHHHHH
Q 012112          131 RFVSSILDTLTDKFGLSL-DAEISMEMDPGTFDARKMEELMDLGVN-RVSLGVQAFQDELLKSC---GRAHGLKEVYEAI  205 (471)
Q Consensus       131 ~~l~~ll~~l~~~~~l~~-~~eitiE~~P~~l~~e~l~~l~~~Gvn-rvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai  205 (471)
                      +.+.++++.+.+..+... ...+|+.++-   ..+.++.|.+.|++ +|.+.+.+.+++..+.+   +|.++.+++.+++
T Consensus       165 d~v~~~i~~l~~~~~~~~g~~~itisTnG---~~~~i~~L~~~~l~~~LaiSL~a~~~e~r~~i~p~~~~~~l~~Il~~l  241 (343)
T PRK14469        165 ENVIKSIKILNHKKMKNIGIRRITISTVG---IPEKIIQLAEEGLDVKLALSLHAPTNFKRDQIVPLNKKYSIEEIINAV  241 (343)
T ss_pred             HHHHHHHHHHhchhcccCCCCeEEEECCC---ChHHHHHHHhhCCCcEEEEEeCCCCHHHHHhhcCcCCCCCHHHHHHHH
Confidence            777777777765322211 2378887765   26788899999998 89999999999998874   6788999999998


Q ss_pred             HHHHHc-CCCeeEe--eeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHH
Q 012112          206 EIVKLC-GVENWSL--DLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYR  282 (471)
Q Consensus       206 ~~~~~~-G~~~v~~--DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~  282 (471)
                      +...+. +.. +.+  =+|-|+ ..+.+++++..+++..++. +|.+-++.+.++          .+..|+++...+   
T Consensus       242 ~~~~~~~~~~-v~i~yvlI~g~-NDs~ed~~~La~llk~~~~-~VnLIpynp~~~----------~~~~ps~e~l~~---  305 (343)
T PRK14469        242 KIYQKKTGNR-VTIEYILIKGF-NDEIEDAKKLAELLKGLKV-FVNLIPVNPTVP----------GLEKPSRERIER---  305 (343)
T ss_pred             HHHHHHhCCe-EEEEEEEECCC-CCCHHHHHHHHHHHhccCc-EEEEEecCCCCc----------cCCCCCHHHHHH---
Confidence            866554 443 443  344443 5678899988888887753 577766655432          234566544333   


Q ss_pred             HHHHHHHHCCCce
Q 012112          283 MASSMLSSAGYRH  295 (471)
Q Consensus       283 ~~~~~L~~~Gy~~  295 (471)
                       ..+.|.+.|...
T Consensus       306 -f~~~l~~~gi~v  317 (343)
T PRK14469        306 -FKEILLKNGIEA  317 (343)
T ss_pred             -HHHHHHHCCCeE
Confidence             345678888754

>PRK14470 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.79  E-value=1.9e-06  Score=87.30  Aligned_cols=207  Identities=17%  Similarity=0.177  Sum_probs=132.1

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcC-CCCCCCCHH
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG-GTPSLVPPR  131 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGG-GTps~l~~~  131 (471)
                      ..+.|--.= |+.+|.||.-......        ......    .+++++.......  ...++.|.|-| |.|.+ +.+
T Consensus        97 ~t~cvSsq~GC~l~C~fC~tg~~g~~--------r~l~~~----EI~~qi~~~~~~~--~~~i~nIvfmGmGEPll-N~d  161 (336)
T PRK14470         97 HVVCLSSQAGCALGCAFCATGKLGLD--------RSLRSW----EIVAQLLAVRADS--ERPITGVVFMGQGEPFL-NYD  161 (336)
T ss_pred             CEEEEeCCCCcCCCCccccCCCCCCC--------CCCCHH----HHHHHHHHHHHhc--CCCCCEEEEEecCcccc-CHH
Confidence            344443332 9999999987543211        111223    3333333222111  13467777777 99974 777


Q ss_pred             HHHHHHHHHHHH--cCCCCCcEEEEEecCCCCCHHHHHHHHHCCC-CEEEEccCCCCHHHHHHcCC---CCCHHHHHHHH
Q 012112          132 FVSSILDTLTDK--FGLSLDAEISMEMDPGTFDARKMEELMDLGV-NRVSLGVQAFQDELLKSCGR---AHGLKEVYEAI  205 (471)
Q Consensus       132 ~l~~ll~~l~~~--~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gv-nrvsiGvQS~~d~~L~~l~R---~~t~~~~~~ai  205 (471)
                      .+.++++.+.+.  ++++ ...+++.++--  .+ .++.+.+.|. .+|.+.+.+.+++..+.+.+   .++.+++.+++
T Consensus       162 ~v~~~i~~l~~~~~~~~~-~~~ItVsTnG~--~p-~i~~l~~~~~~~~LaiSLhA~~~e~r~~I~p~~~~~~le~il~ai  237 (336)
T PRK14470        162 EVLRAAYALCDPAGARID-GRRISISTAGV--VP-MIRRYTAEGHKFRLCISLNAAIPWKRRALMPIEQGFPLDELVEAI  237 (336)
T ss_pred             HHHHHHHHHhCccccccC-CCceEEEecCC--hH-HHHHHHhcCCCceEEEecCCCCHHHHHHhcCccccCCHHHHHHHH
Confidence            888888888754  2332 46899988752  33 4445555554 78999999999999999854   56899999999


Q ss_pred             HHHHHcCCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHH
Q 012112          206 EIVKLCGVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMA  284 (471)
Q Consensus       206 ~~~~~~G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~  284 (471)
                      +...+.|-. .+..-+|-|+ ..+.++.++..+++..+. -+|.+-++.+.++          .+..|+++...+..   
T Consensus       238 ~~~~~~~rri~ieyvLI~Gv-NDseeda~~La~llk~l~-~~vnlI~~N~~~~----------~~~~p~~~~i~~f~---  302 (336)
T PRK14470        238 REHAALRGRVTLEYVMISGV-NVGEEDAAALGRLLAGIP-VRLNPIAVNDATG----------RYRPPDEDEWNAFR---  302 (336)
T ss_pred             HHHHHhCCCeEEEEEEEecc-cCCHHHHHHHHHHHhcCC-CeEEEeccCCCCC----------CccCCCHHHHHHHH---
Confidence            988777554 2345556666 467888888888887764 3787777776443          34557766554443   


Q ss_pred             HHHH--HHCCCce
Q 012112          285 SSML--SSAGYRH  295 (471)
Q Consensus       285 ~~~L--~~~Gy~~  295 (471)
                       +.|  .++|...
T Consensus       303 -~~l~~~~~g~~~  314 (336)
T PRK14470        303 -DALARELPGTPV  314 (336)
T ss_pred             -HHHHHccCCeEE
Confidence             456  3567654

>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein

Probab=98.74  E-value=4.9e-07  Score=91.34  Aligned_cols=197  Identities=14%  Similarity=0.162  Sum_probs=129.6

Q ss_pred             EEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           55 SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        55 ~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      .+-+=-.-|+.+|.||.-......        .......-++++++.|+..       ..+..|.|.||.|.+.+...+.
T Consensus        98 ~l~~~t~~Cn~~Cr~C~~~~~~~~--------~~~~~~~~~~~~i~~i~~~-------~~i~~VvltGGEPL~~~d~~L~  162 (321)
T TIGR03821        98 VLLIVTGGCAINCRYCFRRHFPYQ--------ENQPNKAQWKEALEYIAQH-------PEINEVILSGGDPLMAKDHRLD  162 (321)
T ss_pred             EEEEeCCCcCCcCcCCCCCCcCCC--------CCCCCHHHHHHHHHHHHhc-------CCCCEEEEeCcccccCCchHHH
Confidence            344444459999999974332111        1111223345555555432       2367788999999887777788


Q ss_pred             HHHHHHHHHcCCCCCcEEEEE-----ecCCCCCHHHHHHHHHCCCCEEE-EccCCCCHHHHHHcCCCCCHHHHHHHHHHH
Q 012112          135 SILDTLTDKFGLSLDAEISME-----MDPGTFDARKMEELMDLGVNRVS-LGVQAFQDELLKSCGRAHGLKEVYEAIEIV  208 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE-----~~P~~l~~e~l~~l~~~Gvnrvs-iGvQS~~d~~L~~l~R~~t~~~~~~ai~~~  208 (471)
                      ++++.+...-   ...++.+-     ..|..++++.++.|+++|+..+. +.+.+-. ++         .+++.+|++.+
T Consensus       163 ~ll~~l~~i~---~~~~iri~tr~~~~~p~rit~el~~~L~~~~~~~~~~~h~dh~~-Ei---------~d~~~~ai~~L  229 (321)
T TIGR03821       163 WLLNLLEQIP---HLKRLRIHTRLPVVIPDRITSGLCDLLANSRLQTVLVVHINHAN-EI---------DAEVADALAKL  229 (321)
T ss_pred             HHHHHHHhCC---CCcEEEEecCcceeeHHHhhHHHHHHHHhcCCcEEEEeeCCChH-hC---------cHHHHHHHHHH
Confidence            9988887532   12234433     45667899999999999987663 4555432 21         14588899999


Q ss_pred             HHcCCCeeEeeeec--CCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHH
Q 012112          209 KLCGVENWSLDLIS--SLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASS  286 (471)
Q Consensus       209 ~~~G~~~v~~DlI~--GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~  286 (471)
                      +++|+. +.....+  |+ ..+.+++.+..+.+.++++....+|.+.+..|+.-        + ..+.++..+++..+.+
T Consensus       230 ~~~Gi~-v~~qtvllkgi-NDn~~~l~~L~~~l~~~gv~pyyl~~~~p~gg~~~--------f-~v~~~~~~~i~~~l~~  298 (321)
T TIGR03821       230 RNAGIT-LLNQSVLLRGV-NDNADTLAALSERLFDAGVLPYYLHLLDKVQGAAH--------F-DVDDERARALMAELLA  298 (321)
T ss_pred             HHcCCE-EEecceeeCCC-CCCHHHHHHHHHHHHHcCCeeCcccccCCCCCccc--------c-cCCHHHHHHHHHHHHH
Confidence            999987 4433332  33 47899999999999999998888888877776542        1 2355677777877777


Q ss_pred             HHHH
Q 012112          287 MLSS  290 (471)
Q Consensus       287 ~L~~  290 (471)
                      .+..
T Consensus       299 ~~sG  302 (321)
T TIGR03821       299 RLPG  302 (321)
T ss_pred             hCCC
Confidence            6544

Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in E. coli, Buchnera, Yersinia, etc.

>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.72  E-value=1.7e-06  Score=87.54  Aligned_cols=198  Identities=15%  Similarity=0.202  Sum_probs=129.0

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcC-CCCCCCCHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG-GTPSLVPPRFVSSILDTLT  141 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGG-GTps~l~~~~l~~ll~~l~  141 (471)
                      |+.+|.||+-...  |.      ..    .-..+.++.++......    .+++.|-|-| |.|. ++.+.+.+.++.+.
T Consensus       113 C~~~C~FC~Tg~~--g~------~r----nLt~~EIl~Qv~~~~~~----~~i~nIvfmGmGEPL-~N~d~vi~al~~l~  175 (345)
T PRK14466        113 CKMNCLFCMTGKQ--GF------TG----NLTAAQILNQIYSLPER----DKLTNLVFMGMGEPL-DNLDEVLKALEILT  175 (345)
T ss_pred             CCCCCCCCCCCCC--CC------CC----CCCHHHHHHHHHhhhhc----CCCCeEEEeeeCcCc-ccHHHHHHHHHHHh
Confidence            9999999985432  11      01    12345566666544221    2477788878 9997 46555555555554


Q ss_pred             HHcCCC-CCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC---CCCHHHHHHHHHHHHHc-CCC-e
Q 012112          142 DKFGLS-LDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR---AHGLKEVYEAIEIVKLC-GVE-N  215 (471)
Q Consensus       142 ~~~~l~-~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R---~~t~~~~~~ai~~~~~~-G~~-~  215 (471)
                      +..++. ....+|++++-  +.+..-+.+.+.. .++.+.+-|.+++..+.+-+   .++.+++.++++...+. |-. .
T Consensus       176 ~~~g~~~s~r~ItVsT~G--~~~~i~~l~~~~~-~~LavSLha~~~e~R~~i~P~~~~~~l~~l~~al~~y~~~~~rri~  252 (345)
T PRK14466        176 APYGYGWSPKRITVSTVG--LKKGLKRFLEESE-CHLAISLHSPFPEQRRELMPAEKAFSIKEIIDLLKNYDFSKQRRVS  252 (345)
T ss_pred             hccccCcCCceEEEEcCC--CchHHHHHhhccC-cEEEEEcCCCCHHHHHHhcCCccCCCHHHHHHHHHHHHHhhCCEEE
Confidence            433321 23589998875  3333333333344 47889999999999998865   46789999988875433 221 2


Q ss_pred             eEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q 012112          216 WSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH  295 (471)
Q Consensus       216 v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  295 (471)
                      +..-||=|+ ..+.++..+..+++..++ .||.+-++.+.||.++         ..|+++...+.    .+.|.++|+..
T Consensus       253 ~Ey~Li~gv-ND~~e~a~~L~~ll~~~~-~~VNLIp~Np~~~~~~---------~~~s~~~~~~F----~~~L~~~gi~~  317 (345)
T PRK14466        253 FEYIVFKGL-NDSLKHAKELVKLLRGID-CRVNLIRFHAIPGVDL---------EGSDMARMEAF----RDYLTSHGVFT  317 (345)
T ss_pred             EEEEEeCCC-CCCHHHHHHHHHHHcCCC-ceEEEEecCCCCCCCC---------cCCCHHHHHHH----HHHHHHCCCcE
Confidence            556666676 789999999999998876 7899999998887532         23665544433    45688889754

>TIGR00048 radical SAM enzyme, Cfr family

Probab=98.72  E-value=4.8e-06  Score=85.18  Aligned_cols=203  Identities=19%  Similarity=0.285  Sum_probs=130.4

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCee-EEEEcCCCCCCCCHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLE-TVFFGGGTPSLVPPRFVSSILDTLT  141 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~-~i~fGGGTps~l~~~~l~~ll~~l~  141 (471)
                      |+.+|.||.-...  |.      .+.-.....++.+..-.......   +.++. -+|.|+|.|.+ +.+.+.++++.+.
T Consensus       115 C~l~C~fC~t~~~--g~------~r~lt~~Eiv~qv~~~~~~~~~~---~~~v~nVvfmGmGEPLl-n~d~v~~~l~~l~  182 (355)
T TIGR00048       115 CALGCTFCATAKG--GF------NRNLEASEIIGQVLRVQKINNET---GERVSNVVFMGMGEPLL-NLNEVVKAMEIMN  182 (355)
T ss_pred             CCCcCCCCCCCCC--CC------CCCCCHHHHHHHHHHHHHHhhhc---CCCeeEEEEecCCchhh-CHHHHHHHHHHhh
Confidence            9999999986432  11      01122333344332211111111   12355 45556699965 7778888888886


Q ss_pred             HHc--CCCCCcEEEEEecCCCCCHHHHHHHHHCCCC-EEEEccCCCCHHHHHHc---CCCCCHHHHHHHHHH-HHHcCCC
Q 012112          142 DKF--GLSLDAEISMEMDPGTFDARKMEELMDLGVN-RVSLGVQAFQDELLKSC---GRAHGLKEVYEAIEI-VKLCGVE  214 (471)
Q Consensus       142 ~~~--~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvn-rvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai~~-~~~~G~~  214 (471)
                      +..  +++. ..++++++--   ...++.|.+.+.+ .+.+.+-+.+++..+.+   +|.++.+++.++++. +++.|..
T Consensus       183 ~~~g~~i~~-~~itisT~G~---~~~i~~l~~~~l~~~LaiSL~a~~~e~r~~l~p~~~~~~l~~ll~~l~~~~~~~g~~  258 (355)
T TIGR00048       183 DDFGLGISK-RRITISTSGV---VPKIDILADKMLQVALAISLHAPNDELRSSLMPINKKYNIETLLAAVRRYLNKTGRR  258 (355)
T ss_pred             cccccCcCC-CeEEEECCCc---hHHHHHHHHhCCCcEEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHHhCCE
Confidence            543  3422 3788887652   2567888786765 68999999999999886   567789999988874 4556643


Q ss_pred             -eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q 012112          215 -NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGY  293 (471)
Q Consensus       215 -~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy  293 (471)
                       .+..-+|-|+ ..+.+++.+..+++..++ -+|.+-++.+.++..         +..|+.+.    .....+.|.+.|+
T Consensus       259 VtieyvLI~Gv-NDs~e~a~~La~llk~l~-~~VnLIPynp~~~~~---------~~~ps~e~----i~~f~~~L~~~gi  323 (355)
T TIGR00048       259 VTFEYVLLDGV-NDQVEHAEELAELLKGTK-CKVNLIPWNPFPEAD---------YERPSNEQ----IDRFAKTLMSYGF  323 (355)
T ss_pred             EEEEEEEECCC-CCCHHHHHHHHHHHhcCC-CceEEEecccCCCCC---------CCCCCHHH----HHHHHHHHHHCCC
Confidence             2456666665 567899999999988886 478777777665443         23455544    3334567888888


Q ss_pred             cee
Q 012112          294 RHY  296 (471)
Q Consensus       294 ~~y  296 (471)
                      ...
T Consensus       324 ~v~  326 (355)
T TIGR00048       324 TVT  326 (355)
T ss_pred             eEE
Confidence            764

A Staphylococcus sciuri plasmid-borne member of this family, Cfr, has been identified as essential to transferrable resistance to chloramphenicol and florfenicol by an unknown mechanism. A 14-15 residue cluster with four perfectly conserved Cys residues suggests this protein may be an enzyme with an iron-sulfur cluster. The Cys cluster is part of the radical SAM domain, suggested to provide a general mechanism by which the Fe-S center cleaves S-adenosylmethionine to initiate radical-based catalysis. Members of this family lack apparent transmembrane domains.

>COG0641 AslB Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]

Probab=98.68  E-value=2.1e-06  Score=88.26  Aligned_cols=176  Identities=14%  Similarity=0.222  Sum_probs=122.7

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTD  142 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~  142 (471)
                      |+.+|.||..+....... .   -..+..+++++.+++    ...    ...|. +-|-||.|++......+.+... .+
T Consensus        18 CNL~C~YC~~~~~~~~~~-~---Ms~etle~~i~~~~~----~~~----~~~v~-~~w~GGEPlL~~~~f~~~~~~l-~~   83 (378)
T COG0641          18 CNLDCKYCFYLEKESLQR-I---MSDETLEEYVRQYIA----ASN----GDKVT-FTWQGGEPLLAGLDFYRKAVAL-QQ   83 (378)
T ss_pred             cCCCCCeeCcccCCCCCC-C---CCHHHHHHHHHHHHh----hCC----CCeeE-EEEECCccccchHHHHHHHHHH-HH
Confidence            999999998765432110 0   123344455554432    111    12244 5555789998766665555544 44


Q ss_pred             HcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEcc---CCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEee
Q 012112          143 KFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGV---QAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLD  219 (471)
Q Consensus       143 ~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGv---QS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~D  219 (471)
                      .+.-......++-+|.-.+|++..+.+++.|+ .|-|.+   +..+|..+...+-.-|.+.+.++++.+++.+++ +++-
T Consensus        84 k~~~~~~i~~siqTNg~LL~~e~~e~l~~~~~-~IgISiDGp~eihD~~R~~~~GkgTfd~i~~~i~~L~~~~v~-~~~~  161 (378)
T COG0641          84 KYANGKTISNALQTNGTLLNDEWAEFLAEHDF-LIGISIDGPEEIHDKYRVTKSGKGTFDRVMKGLELLQAHGVD-FNTL  161 (378)
T ss_pred             HHhcCCeeEEEEEEcccccCHHHHHHHHhcCc-eEEEeccCchHhccccccCCCCCccHHHHHHHHHHHHHcCCc-EEEE
Confidence            44334556667889999999999999999999 676644   556666666665566899999999999998876 5554


Q ss_pred             eecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccC
Q 012112          220 LISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQ  256 (471)
Q Consensus       220 lI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~p  256 (471)
                      ..  +..|+.+...+.++++.+.+..++++.++....
T Consensus       162 ~v--v~~~n~~~~~ei~~~l~~~g~~~i~fip~~~~~  196 (378)
T COG0641         162 TV--VNRQNVLHPEEIYHFLKSEGSKFIQFIPLVESD  196 (378)
T ss_pred             EE--EchhHhhCHHHHHHHHHHcccceEEEEecccCC
Confidence            44  789999999999999999999999997765443

>PRK14459 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.67  E-value=2e-06  Score=88.05  Aligned_cols=207  Identities=19%  Similarity=0.265  Sum_probs=135.2

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCC--CCCCCCeeEEEEcC-CCCCCCCHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPG--HKTSPPLETVFFGG-GTPSLVPPRFVSSILDT  139 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~--~~~~~~v~~i~fGG-GTps~l~~~~l~~ll~~  139 (471)
                      |+.+|.||.-...  |.      .+.-.....++.+..-.+.+...  ...+..+..|.|-| |.|. ++.+.+.++++.
T Consensus       131 C~m~C~FCatg~~--g~------~RnLt~~EIv~Qv~~~~~~~~~~~~~~~~~~i~nVvfmGmGEPL-lN~d~V~~~i~~  201 (373)
T PRK14459        131 CGMACPFCATGQG--GL------TRNLSTAEIVEQVRAAARALRDGEVPGGPGRLSNVVFMGMGEPL-ANYKRVVAAVRR  201 (373)
T ss_pred             CCCcCCCCCCCCC--CC------CCccCHHHHHHHHHHHHHHhhhcccccCCCceeEEEEecCCcch-hhHHHHHHHHHH
Confidence            9999999985432  11      11122344444433222221111  00123477888878 9995 477888888888


Q ss_pred             HHHH----cCCCCCcEEEEEecCCCCCHHHHHHHHHCCCC-EEEEccCCCCHHHHHHcC---CCCCHHHHHHHHHHH-HH
Q 012112          140 LTDK----FGLSLDAEISMEMDPGTFDARKMEELMDLGVN-RVSLGVQAFQDELLKSCG---RAHGLKEVYEAIEIV-KL  210 (471)
Q Consensus       140 l~~~----~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvn-rvsiGvQS~~d~~L~~l~---R~~t~~~~~~ai~~~-~~  210 (471)
                      +.+.    ++++ ...+|+++.-  + ...++.|.+.|.. +|.+.+-|.|++..+.+-   |.++.+++.++++.. ++
T Consensus       202 l~~~~~~g~gis-~r~ITvST~G--l-~~~i~~la~~~l~~~LavSLha~d~e~R~~l~p~n~~~~l~~ll~a~~~~~~~  277 (373)
T PRK14459        202 ITAPAPEGLGIS-ARNVTVSTVG--L-VPAIRKLADEGLPVTLAVSLHAPDDELRDELVPVNTRWKVDEVLDAARYYADA  277 (373)
T ss_pred             HhCcccccCCcc-CCEEEEECcC--c-hhHHHHHHHhcCCeEEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHH
Confidence            8762    4443 2378887642  2 2467777787776 799999999999998864   568999999996655 45


Q ss_pred             cCCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCC--CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHH
Q 012112          211 CGVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQ--PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSM  287 (471)
Q Consensus       211 ~G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~--p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~  287 (471)
                      .|.. .++.-+|=|+ ..+.++.++..+.+..++  +-||.+-+|.+.++.++         ..|+.+...+    ..+.
T Consensus       278 ~grrv~ieyvLi~Gv-NDs~e~a~~L~~llk~~~~~~~~VNLIpyNp~~~~~y---------~~~~~~~~~~----F~~~  343 (373)
T PRK14459        278 TGRRVSIEYALIRDI-NDQPWRADLLGKKLHGRGGGWVHVNLIPLNPTPGSKW---------TASPPEVERE----FVRR  343 (373)
T ss_pred             hCCEEEEEEEEeCCC-CCCHHHHHHHHHHHhhccCCCeEEEEEccCCCCCCCC---------cCCCHHHHHH----HHHH
Confidence            5764 1445555565 678899999999988885  56899999988776643         2355544333    3567


Q ss_pred             HHHCCCcee
Q 012112          288 LSSAGYRHY  296 (471)
Q Consensus       288 L~~~Gy~~y  296 (471)
                      |.++|+...
T Consensus       344 L~~~gi~~t  352 (373)
T PRK14459        344 LRAAGVPCT  352 (373)
T ss_pred             HHHCCCeEE
Confidence            889998654

>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.66  E-value=2.4e-06  Score=86.93  Aligned_cols=201  Identities=17%  Similarity=0.264  Sum_probs=130.7

Q ss_pred             CCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcC-CCCCCCCHHHHHHHHHHH
Q 012112           62 FCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG-GTPSLVPPRFVSSILDTL  140 (471)
Q Consensus        62 FC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGG-GTps~l~~~~l~~ll~~l  140 (471)
                      -|+.+|.||+-...  |.          .+.-..+.++.|+.......  +..+..|-|-| |.|.+ +.+.+.+.++.+
T Consensus       110 GC~~~C~FC~tg~~--g~----------~rnlt~~EIv~qv~~~~~~~--~~~~~~IvfmGmGEPll-n~~~v~~~i~~l  174 (345)
T PRK14457        110 GCPMACDFCATGKG--GL----------KRSLKAHEIVDQVLTVQEDM--QRRVSHVVFMGMGEPLL-NIDEVLAAIRCL  174 (345)
T ss_pred             CCCCcCCcCCCCCC--CC----------ccccCHHHHHHHHHHHHHHh--cCCCCEEEEEecCcccc-CHHHHHHHHHHH
Confidence            39999999976432  11          01113455555555443222  12366666666 99975 777677777777


Q ss_pred             HHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCC-------CEEEEccCCCCHHHHHHcC---CCCCHHHHHHHHHH-HH
Q 012112          141 TDKFGLSLDAEISMEMDPGTFDARKMEELMDLGV-------NRVSLGVQAFQDELLKSCG---RAHGLKEVYEAIEI-VK  209 (471)
Q Consensus       141 ~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gv-------nrvsiGvQS~~d~~L~~l~---R~~t~~~~~~ai~~-~~  209 (471)
                      .+.++++. ..+|+.+.-   ..+.++.|.+.++       ..+.+.+-+.+++..+.+.   +.++.+++.+++.. +.
T Consensus       175 ~~~~~i~~-r~itvST~G---~~~~i~~L~~~~~~~~~~~~~~laiSLha~~~e~r~~i~p~~~~~~l~~l~~~~~~y~~  250 (345)
T PRK14457        175 NQDLGIGQ-RRITVSTVG---VPKTIPQLAELAFQRLGRLQFTLAVSLHAPNQKLRETLIPSAKNYPIENLLEDCRHYVA  250 (345)
T ss_pred             hcccCCcc-CceEEECCC---chhhHHHHHhhhhhhcccCceEEEEEeCCCCHHHHHHhcCCccCCCHHHHHHHHHHHHH
Confidence            65455532 367776532   3345777776662       3589999999999999884   45678888777654 55


Q ss_pred             HcCCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHH
Q 012112          210 LCGVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSML  288 (471)
Q Consensus       210 ~~G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L  288 (471)
                      +.|-. .+.+=+|=|+ ..+.++..+..+++..++. ||.+-++.+.++.+         +..|+.+...+    ..+.|
T Consensus       251 ~~gr~I~iey~LIpGv-NDs~e~a~~La~~l~~l~~-~VnLIPynp~~~~~---------~~~ps~e~i~~----f~~~L  315 (345)
T PRK14457        251 ITGRRVSFEYILLGGV-NDLPEHAEELANLLRGFQS-HVNLIPYNPIDEVE---------FQRPSPKRIQA----FQRVL  315 (345)
T ss_pred             HhCCEEEEEEEEECCc-CCCHHHHHHHHHHHhcCCC-eEEEecCCCCCCCC---------CCCCCHHHHHH----HHHHH
Confidence            66632 2566677776 6889999999999998864 78888877665543         34566655443    34568


Q ss_pred             HHCCCcee
Q 012112          289 SSAGYRHY  296 (471)
Q Consensus       289 ~~~Gy~~y  296 (471)
                      .++|+...
T Consensus       316 ~~~Gi~vt  323 (345)
T PRK14457        316 EQRGVAVS  323 (345)
T ss_pred             HHCCCeEE
Confidence            88888653

>COG0320 LipA Lipoate synthase [Coenzyme metabolism]

Probab=98.60  E-value=3.2e-06  Score=81.16  Aligned_cols=219  Identities=13%  Similarity=0.177  Sum_probs=143.3

Q ss_pred             EEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHH
Q 012112           56 AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSS  135 (471)
Q Consensus        56 lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~  135 (471)
                      .-|-=+-|..+|.||+......    .+  -+.....+-.+++ +++....      .-+.+|-= ++-+- -...++.+
T Consensus        73 FmImG~~CTR~C~FC~V~~g~P----~~--lD~~EP~rvAeaV-~~mgLky------VViTsVdR-DDL~D-GGA~hfa~  137 (306)
T COG0320          73 FMILGDICTRRCRFCDVKTGRP----NP--LDPDEPERVAEAV-KDMGLKY------VVITSVDR-DDLPD-GGAQHFAE  137 (306)
T ss_pred             EeeccchhccCCCccccCCCCC----CC--CCCchHHHHHHHH-HHhCCCe------EEEEeecc-ccccc-cchHHHHH
Confidence            3333444999999999764321    11  2334444444443 3443211      01122110 11110 13467889


Q ss_pred             HHHHHHHHcCCCCCcEEEEEe-cCCCC-CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcC-
Q 012112          136 ILDTLTDKFGLSLDAEISMEM-DPGTF-DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG-  212 (471)
Q Consensus       136 ll~~l~~~~~l~~~~eitiE~-~P~~l-~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G-  212 (471)
                      .+++|++.-     ...+||+ -|+-- ..+.++.+.++|.+-+.-.+||. +++...+.++.+.+.-++.++.+++.+ 
T Consensus       138 ~i~~Ire~~-----P~t~iEvL~PDF~G~~~al~~v~~~~pdV~nHNvETV-prL~~~VRp~A~Y~~SL~~L~~~k~~~P  211 (306)
T COG0320         138 CIRAIRELN-----PQTTIEVLTPDFRGNDDALEIVADAGPDVFNHNVETV-PRLYPRVRPGATYERSLSLLERAKELGP  211 (306)
T ss_pred             HHHHHHhhC-----CCceEEEeCccccCCHHHHHHHHhcCcchhhcccccc-hhcccccCCCCcHHHHHHHHHHHHHhCC
Confidence            999998863     3578888 45433 78999999999999899999986 667777888999999999999999997 


Q ss_pred             -CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHC
Q 012112          213 -VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA  291 (471)
Q Consensus       213 -~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~  291 (471)
                       +. ....+|+|| |||.+++.++++.+.+.++|-+++-+|.- | |.-+--+  .++-.|      +-|....+.-.+.
T Consensus       212 ~i~-TKSgiMlGL-GEt~~Ev~e~m~DLr~~gvdilTiGQYlq-P-S~~HlpV--~ryv~P------eeF~~~~~~a~~~  279 (306)
T COG0320         212 DIP-TKSGLMVGL-GETDEEVIEVMDDLRSAGVDILTIGQYLQ-P-SRKHLPV--QRYVTP------EEFDELEEVAEEM  279 (306)
T ss_pred             Ccc-cccceeeec-CCcHHHHHHHHHHHHHcCCCEEEeccccC-C-ccccCCc--eeccCH------HHHHHHHHHHHHc
Confidence             54 578899999 99999999999999999999998877642 2 2111111  111122      2344455566688


Q ss_pred             CCceeccccccCCCcc
Q 012112          292 GYRHYEISSYGEDGYE  307 (471)
Q Consensus       292 Gy~~yeis~fa~~g~~  307 (471)
                      ||.+-..+-+.|..|.
T Consensus       280 GF~~v~sgPlvRSSYh  295 (306)
T COG0320         280 GFLHVASGPLVRSSYH  295 (306)
T ss_pred             cchhhccCcccccccc
Confidence            9987655556665443

>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]

Probab=98.59  E-value=3.9e-06  Score=83.56  Aligned_cols=185  Identities=18%  Similarity=0.202  Sum_probs=130.5

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTD  142 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~  142 (471)
                      |.+.|.||.-..........+  ..-......++.+.+|+...      +.....|.+|.-|-.+.+.+.-..+.+.+.+
T Consensus        39 C~h~C~YCYa~~~~~~~~~~~--~~v~vk~n~~e~l~~el~~~------~~k~~~i~is~~TDpyqp~E~~~~ltR~ile  110 (297)
T COG1533          39 CSHGCIYCYARPMHGYLPKSP--TKVNVKENLLELLERELRKP------GPKRTVIAISSVTDPYQPIEKEYRLTRKILE  110 (297)
T ss_pred             CCCCCceeecccccccccCCC--ceeeechhHHHHHHHHHhhc------cCCceEEEEecCCCCCCcchHHHHHHHHHHH
Confidence            999999997654422110000  00122344778888887643      2346778898888777675555555554443


Q ss_pred             HcCCCCCcEEEEEecCCCC--CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCC-CCHHHHHHHHHHHHHcCCCeeEee
Q 012112          143 KFGLSLDAEISMEMDPGTF--DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRA-HGLKEVYEAIEIVKLCGVENWSLD  219 (471)
Q Consensus       143 ~~~l~~~~eitiE~~P~~l--~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~-~t~~~~~~ai~~~~~~G~~~v~~D  219 (471)
                      ... ..+..++|.+.-..+  +-+.|..++.-+--+|.+.|-+.++++.+.+--. -+.++-.+|++.+.++|++ +.+-
T Consensus       111 i~~-~~~~~v~I~TKS~lv~RDld~l~~~~~~~~v~V~~Sitt~d~~l~k~~EP~apsp~~Ri~al~~l~eaGi~-~~v~  188 (297)
T COG1533         111 ILL-KYGFPVSIVTKSALVLRDLDLLLELAERGKVRVAVSITTLDEELAKILEPRAPSPEERLEALKELSEAGIP-VGLF  188 (297)
T ss_pred             HHH-HcCCcEEEEECCcchhhhHHHHHhhhhccceEEEEEeecCcHHHHHhcCCCCcCHHHHHHHHHHHHHCCCe-EEEE
Confidence            321 123467777643222  5678888888887889999999988899988655 5899999999999999998 5555


Q ss_pred             eecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCC
Q 012112          220 LISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQG  257 (471)
Q Consensus       220 lI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pg  257 (471)
                      +--=+|+.|.+++.+.++.+.+.++.++....+.+..+
T Consensus       189 v~PIiP~~~d~e~e~~l~~~~~ag~~~v~~~~l~~~~~  226 (297)
T COG1533         189 VAPIIPGLNDEELERILEAAAEAGARVVVYGTLRLRLD  226 (297)
T ss_pred             EecccCCCChHHHHHHHHHHHHcCCCeeEeeeeeccHH
Confidence            55558999999999999999999999988877766544

>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.59  E-value=8.5e-06  Score=83.07  Aligned_cols=202  Identities=16%  Similarity=0.254  Sum_probs=133.7

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCC--CCCeeEEEEcCCCCCCCCHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKT--SPPLETVFFGGGTPSLVPPRFVSSILDTL  140 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~--~~~v~~i~fGGGTps~l~~~~l~~ll~~l  140 (471)
                      |+-+|.||.-...  |.          .+.-.++.+++|+......+..  ...-.-+|.|||.|. ++.+.+.++++.+
T Consensus       120 C~~~C~FCatg~~--g~----------~RnLt~~EIv~QV~~~~~~~~~~~~~~~~vVfmGmGEPL-~N~d~v~~~l~~l  186 (356)
T PRK14462        120 CKVGCAFCLTAKG--GF----------VRNLSAGEIVGQILWIKKDNNIPYEKRVNIVYMGMGEPL-DNLDNVSKAIKIF  186 (356)
T ss_pred             CCCCCccCCCCCC--CC----------cccCCHHHHHHHHHHHHHhhhccccccCCeEEeCCcccc-cCHHHHHHHHHHh
Confidence            9999999965432  11          1122344555555433221110  011267889999995 5888899999999


Q ss_pred             HHHcCCC-CCcEEEEEecCCCCCHHHHHHHHHCCC-CEEEEccCCCCHHHHHHc---CCCCCHHHHHHHHH-HHHHcCCC
Q 012112          141 TDKFGLS-LDAEISMEMDPGTFDARKMEELMDLGV-NRVSLGVQAFQDELLKSC---GRAHGLKEVYEAIE-IVKLCGVE  214 (471)
Q Consensus       141 ~~~~~l~-~~~eitiE~~P~~l~~e~l~~l~~~Gv-nrvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai~-~~~~~G~~  214 (471)
                      ++.-++. ....+|+++.-  +. +.++.|...+. -.+.+.+=+.|++..+.+   ++.+..+++.++++ .+++.|-.
T Consensus       187 ~~~~Gl~~~~r~itVsTsG--~~-~~i~~L~~~dl~v~LaiSLha~d~e~r~~l~pv~~~~~l~~ll~~l~~y~~~~~~~  263 (356)
T PRK14462        187 SENDGLAISPRRQTISTSG--LA-SKIKKLGEMNLGVQLAISLHAVDDELRSELMPINKAYNIESIIDAVRKFPIDQRKR  263 (356)
T ss_pred             cCccCCCcCCCceEEECCC--Ch-HHHHHHHhcCCCeEEEEECCCCCHHHHHHhCCCCccCCHHHHHHHHHHHHHHhCCe
Confidence            8743331 12367888743  22 46666777655 568888999999999876   45677889998887 44455543


Q ss_pred             -eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q 012112          215 -NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGY  293 (471)
Q Consensus       215 -~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy  293 (471)
                       .+..=+|-|+ ..+.++.++..+++..++ .+|.+-+|.+.++.++         +.|+.+...+    ..+.|.++|.
T Consensus       264 i~ieyvLI~Gv-NDs~e~a~~La~llk~l~-~~VnLIPyn~~~~~~~---------~~ps~e~i~~----f~~~l~~~gi  328 (356)
T PRK14462        264 VMFEYLVIKDV-NDDLKSAKKLVKLLNGIK-AKVNLILFNPHEGSKF---------ERPSLEDMIK----FQDYLNSKGL  328 (356)
T ss_pred             EEEEEEEECCC-CCCHHHHHHHHHHHhhcC-cEEEEEeCCCCCCCCC---------CCCCHHHHHH----HHHHHHHCCC
Confidence             2456667676 778999999999998885 5899999887766543         4466655443    3456888887


Q ss_pred             ce
Q 012112          294 RH  295 (471)
Q Consensus       294 ~~  295 (471)
                      ..
T Consensus       329 ~v  330 (356)
T PRK14462        329 LC  330 (356)
T ss_pred             cE
Confidence            65

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

Probab=98.52  E-value=8e-06  Score=80.44  Aligned_cols=177  Identities=15%  Similarity=0.227  Sum_probs=122.4

Q ss_pred             cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHH-HHHHHHHHHHhccCCCC-CCCCeeEEEE-cCCCCCCCCHHHHHHHH
Q 012112           61 PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSN-YIQLLCREIIATKPGHK-TSPPLETVFF-GGGTPSLVPPRFVSSIL  137 (471)
Q Consensus        61 PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~-yv~~l~~Ei~~~~~~~~-~~~~v~~i~f-GGGTps~l~~~~l~~ll  137 (471)
                      .+|.++|-||-........        ....+. ..+.+.++++......+ .+..++.+-| |.|.||+-+  .|.+++
T Consensus        32 ~~Cs~~CvyC~~G~~~~~~--------~~~~efi~~~~I~~~~~~~~~~~g~ea~~pd~vtis~~GEPTLy~--~L~elI  101 (296)
T COG0731          32 KWCSYNCVYCWRGRTKKGT--------PERPEFIVEESILEELKLLLGYKGDEATEPDHVTISLSGEPTLYP--NLGELI  101 (296)
T ss_pred             hhhcCCCeEEecccCCCCC--------CCCCceecHHHHHHHHHHHhcccccccCCCCEEEEeCCCCccccc--CHHHHH
Confidence            3599999999763221110        111122 23557777776544321 1235676666 678999744  689999


Q ss_pred             HHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC---CHHHHHHHHHHHHHc--C
Q 012112          138 DTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH---GLKEVYEAIEIVKLC--G  212 (471)
Q Consensus       138 ~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~---t~~~~~~ai~~~~~~--G  212 (471)
                      +.+++.-.    ...-+-+|- ++ ++.++.|.  -++-|++.+.+.|++..+.++|+|   +.+.+.+.++.+++.  |
T Consensus       102 ~~~k~~g~----~~tflvTNg-sl-pdv~~~L~--~~dql~~sLdA~~~~~~~~InRP~~~~~~e~ile~L~~~~~~~~~  173 (296)
T COG0731         102 EEIKKRGK----KTTFLVTNG-SL-PDVLEELK--LPDQLYVSLDAPDEKTFRRINRPHKKDSWEKILEGLEIFRSEYKG  173 (296)
T ss_pred             HHHHhcCC----ceEEEEeCC-Ch-HHHHHHhc--cCCEEEEEeccCCHHHHHHhcCCCCcchHHHHHHHHHHhhhcCCC
Confidence            99987632    133344454 33 78888777  468999999999999999999997   578899999999884  5


Q ss_pred             CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccC
Q 012112          213 VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQ  256 (471)
Q Consensus       213 ~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~p  256 (471)
                      -.-+.+-++=|+ ..+.+++.+-.+.+....|+.|-+-.++-.+
T Consensus       174 ~~vir~tlvkg~-N~~~e~~~~~a~ll~~~~Pd~velk~~~rpg  216 (296)
T COG0731         174 RTVIRTTLVKGI-NDDEEELEEYAELLERINPDFVELKTYMRPG  216 (296)
T ss_pred             cEEEEEEEeccc-cCChHHHHHHHHHHHhcCCCeEEEecCccCC
Confidence            555667777777 4455667778888888999999888776543

>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.44  E-value=1.5e-05  Score=81.09  Aligned_cols=208  Identities=14%  Similarity=0.203  Sum_probs=126.8

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcC-CCCCCCCHH
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG-GTPSLVPPR  131 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGG-GTps~l~~~  131 (471)
                      ..++|---= |+.+|.||.-+..  |.      .+.-.....+    +++......+. ...+..|-|-| |.|.+ +.+
T Consensus        99 ~t~cvSsq~GC~l~C~FC~t~~~--G~------~rnlt~~EIv----~Qv~~~~~~~~-~~~v~~VvfmGmGEPL~-N~d  164 (348)
T PRK14467         99 LTLCVSSQVGCAVGCKFCATAKD--GL------IRNLRTAEII----DQYIQVQKFLG-ENRIRNVVFMGMGEPLA-NYE  164 (348)
T ss_pred             cEEEEEcCCCCCCcCcCCCCCCC--CC------cCCCCHHHHH----HHHHHHHHHhc-cCCCCeEEEEccChhhc-CHH
Confidence            344444444 9999999976532  21      0112233344    44332222111 12355566656 99964 888


Q ss_pred             HHHHHHHHHHHH--cCCCCCcEEEEEecCCCCCHHHHHHHHHC----CCCEEEEccCCCCHHHHHHcCC---CCCHHHHH
Q 012112          132 FVSSILDTLTDK--FGLSLDAEISMEMDPGTFDARKMEELMDL----GVNRVSLGVQAFQDELLKSCGR---AHGLKEVY  202 (471)
Q Consensus       132 ~l~~ll~~l~~~--~~l~~~~eitiE~~P~~l~~e~l~~l~~~----GvnrvsiGvQS~~d~~L~~l~R---~~t~~~~~  202 (471)
                      .+.++++.+.+.  ++++. ..+|++++- .+  ..+..+...    .+ .+.+.+-+.|++..+.+-+   .++.+++.
T Consensus       165 ~v~~~l~~l~~~~gl~~~~-r~itvsT~G-~~--~~i~~l~~~~~l~~v-~LalSLha~~~e~r~~i~p~~~~~~l~~l~  239 (348)
T PRK14467        165 NVRKAVQIMTSPWGLDLSK-RRITISTSG-II--HQIKRMAEDPVMPEV-NLAVSLNASSQKLRERIMPISKTNTLEELM  239 (348)
T ss_pred             HHHHHHHHHcChhccCcCC-CcEEEECCC-Ch--hHHHHHHhhccccCe-eEEEECCCCCHHHHHHhcCCccccCHHHHH
Confidence            888888888653  33332 378888763 22  223333332    34 5779999999999998755   45777777


Q ss_pred             HHHHHHH-HcCCCeeEeeeecCCCC--CCHHHHHHHHHHHHhCC-CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHH
Q 012112          203 EAIEIVK-LCGVENWSLDLISSLPH--QTPQMWEESLRRTVGAQ-PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSA  278 (471)
Q Consensus       203 ~ai~~~~-~~G~~~v~~DlI~GlPg--qT~e~~~~~l~~~~~l~-p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~  278 (471)
                      ++++... +.|-. |.+-.++ +||  .+.++.++..+++..++ ..||.+-++.+.++..+         +.|+.+...
T Consensus       240 ~~~~~~~~~~g~~-V~ieyvL-IpGvNDs~e~a~~La~~l~~l~~~~~VnLIPynp~~~~~~---------~~ps~e~i~  308 (348)
T PRK14467        240 EVLKQYPLPPGRR-IMLEYVL-IKGVNDSPEDALRLAQLIGKNKKKFKVNLIPFNPDPELPY---------ERPELERVY  308 (348)
T ss_pred             HHHHHHHHhcCCe-EEEEEEE-ECCccCCHHHHHHHHHHHhcCCCceEEEEecCCCCCCCCC---------CCCCHHHHH
Confidence            7776433 45554 5544444 455  66999999999998874 56788888877665543         456665433


Q ss_pred             HHHHHHHHHHHHCCCce
Q 012112          279 NFYRMASSMLSSAGYRH  295 (471)
Q Consensus       279 ~~~~~~~~~L~~~Gy~~  295 (471)
                      +    ..+.|.++|+..
T Consensus       309 ~----f~~~L~~~gi~v  321 (348)
T PRK14467        309 K----FQKILWDNGIST  321 (348)
T ss_pred             H----HHHHHHHCCCcE
Confidence            3    456788888865

>PRK11194 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.43  E-value=8.7e-05  Score=76.22  Aligned_cols=201  Identities=14%  Similarity=0.244  Sum_probs=126.4

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCC-----CCCCe-eEEEEcCCCCCCCCHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHK-----TSPPL-ETVFFGGGTPSLVPPRFVSSI  136 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~-----~~~~v-~~i~fGGGTps~l~~~~l~~l  136 (471)
                      |+.+|.||.-+....+        ..-..    +.+++++......+.     .+.++ .-|++|+|.|.+ +.+.+.+.
T Consensus       113 C~~~C~FC~t~~~g~~--------rnLt~----~EIv~Qv~~~~~~~~~~~~~gg~~~~nvV~mGmGEPL~-N~d~v~~a  179 (372)
T PRK11194        113 CALECKFCSTAQQGFN--------RNLRV----SEIIGQVWRAAKIIGAAKVTGQRPITNVVMMGMGEPLL-NLNNVVPA  179 (372)
T ss_pred             CCCcCCCCCCCCCCCC--------CcCCH----HHHHHHHHHHHHHhhhccccCCcccceEEEecCCcccc-CHHHHHHH
Confidence            9999999986543111        11122    334444432221110     01223 458899999964 77788787


Q ss_pred             HHHHHHHc--CCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC---CCCCHHHHHHHHHH-HHH
Q 012112          137 LDTLTDKF--GLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG---RAHGLKEVYEAIEI-VKL  210 (471)
Q Consensus       137 l~~l~~~~--~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~---R~~t~~~~~~ai~~-~~~  210 (471)
                      ++.+.+..  +++. ..+|+++.-  +.+ .++.|.+..--.+.+.+-+.|++..+.+-   +.+..+++.+++.. +.+
T Consensus       180 l~~l~~~~g~~i~~-r~itVsTsG--~~~-~i~~l~~~~d~~LaiSLha~d~e~R~~lmPin~~~~l~~ll~a~~~y~~~  255 (372)
T PRK11194        180 MEIMLDDFGFGLSK-RRVTLSTSG--VVP-ALDKLGDMIDVALAISLHAPNDELRDEIVPINKKYNIETFLAAVRRYLEK  255 (372)
T ss_pred             HHHHhhhhccCcCC-CeEEEECCC--Cch-HHHHHHhccCeEEEeeccCCCHHHHHHhcCCcccccHHHHHHHHHHHHHh
Confidence            88777543  3432 378888754  233 44555554423677788999999988764   45677888777654 444


Q ss_pred             cC-----CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHH
Q 012112          211 CG-----VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMAS  285 (471)
Q Consensus       211 ~G-----~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~  285 (471)
                      .|     + .+..=+|-|+ ..+.++.++..+++..++ .+|.+-+|.+.+|.++         ..|+.+...+    ..
T Consensus       256 ~~~~~rrI-~irypLIpGv-NDs~e~a~~La~ll~~l~-~~VnLIPYN~~~~~~~---------~~ps~e~v~~----f~  319 (372)
T PRK11194        256 SNANQGRV-TVEYVMLDHV-NDGTEHAHQLAELLKDTP-CKINLIPWNPFPGAPY---------GRSSNSRIDR----FS  319 (372)
T ss_pred             cccCCCeE-EEEEEeECCC-CCCHHHHHHHHHHHhcCC-ceEEEecCCCCCCCCC---------CCCCHHHHHH----HH
Confidence            43     3 2566677776 688999999999998886 4888888887665432         3466554333    35


Q ss_pred             HHHHHCCCcee
Q 012112          286 SMLSSAGYRHY  296 (471)
Q Consensus       286 ~~L~~~Gy~~y  296 (471)
                      +.|.++|+...
T Consensus       320 ~~L~~~Gi~vt  330 (372)
T PRK11194        320 KVLMEYGFTVI  330 (372)
T ss_pred             HHHHHCCCeEE
Confidence            66888888653

>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.42  E-value=9.2e-05  Score=75.44  Aligned_cols=201  Identities=18%  Similarity=0.264  Sum_probs=126.5

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCe-eEEEEcCCCCCCCCHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPL-ETVFFGGGTPSLVPPRFVSSILDTLT  141 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v-~~i~fGGGTps~l~~~~l~~ll~~l~  141 (471)
                      |+.+|.||.-...  |.          .+.--++.+++++......+.  ..+ .-|++|||.|.+ +.+.+.++++.++
T Consensus       111 C~~~C~FC~tg~~--G~----------~rnlt~~EI~~qv~~~~~~~~--~~~~gvV~mggGEPLl-n~d~v~~~l~~l~  175 (342)
T PRK14454        111 CRMGCKFCASTIG--GM----------VRNLTAGEMLDQILAAQNDIG--ERISNIVLMGSGEPLD-NYENVMKFLKIVN  175 (342)
T ss_pred             CCCcCCcCCCCCC--CC----------cccCCHHHHHHHHHHHHHHhc--CCCCCEEEECCchhhc-CHHHHHHHHHHHh
Confidence            9999999975432  21          111223445555543322111  123 348899999964 8888999999998


Q ss_pred             HHcCCC-CCcEEEEEecCCCCCHHHHHHHHHCCC-CEEEEccCCCCHHHHHHcC---CCCCHHHHHHHHHH-HHHcCCC-
Q 012112          142 DKFGLS-LDAEISMEMDPGTFDARKMEELMDLGV-NRVSLGVQAFQDELLKSCG---RAHGLKEVYEAIEI-VKLCGVE-  214 (471)
Q Consensus       142 ~~~~l~-~~~eitiE~~P~~l~~e~l~~l~~~Gv-nrvsiGvQS~~d~~L~~l~---R~~t~~~~~~ai~~-~~~~G~~-  214 (471)
                      +..++. ....++++++-  +.+. +..+.+.+. ..+.+.+=+.|++..+.+-   +....+++.++++. +.+.|.. 
T Consensus       176 ~~~gi~~~~r~itvsTsG--~~p~-i~~l~~~~~~~~laisLka~d~e~r~~l~pv~~~~~L~~l~~~~~~~~~~~~~rv  252 (342)
T PRK14454        176 SPYGLNIGQRHITLSTCG--IVPK-IYELADENLQITLAISLHAPNDELRKKMMPIANKYSIEELIEACKYYINKTNRRI  252 (342)
T ss_pred             cccccCcCCCceEEECcC--ChhH-HHHHHhhcccceEEEecCCCCHHHHHHhcCCcccCCHHHHHHHHHHHHHHhCCEE
Confidence            643321 12367888743  2333 455555431 2489999999999998765   34567777766654 4555654 


Q ss_pred             eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCc
Q 012112          215 NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR  294 (471)
Q Consensus       215 ~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~  294 (471)
                      .+..=+|=|+ ..+.++.++..+++..+ +.+|.+-++.+..+.         ++..|+++...+    ..+.|.+.|+.
T Consensus       253 ~iey~LI~gv-NDs~eda~~La~llk~l-~~~VnLiPyn~~~~~---------~~~~ps~e~l~~----f~~~l~~~gi~  317 (342)
T PRK14454        253 TFEYALVKGV-NDSKEDAKELGKLLKGM-LCHVNLIPVNEVKEN---------GFKKSSKEKIKK----FKNILKKNGIE  317 (342)
T ss_pred             EEEEEeECCC-CCCHHHHHHHHHHHhcC-CceEEEEecCCCCCC---------CCCCCCHHHHHH----HHHHHHHCCCc
Confidence            1445566666 67899999999988877 457888777765544         234566654333    35678888986


Q ss_pred             ee
Q 012112          295 HY  296 (471)
Q Consensus       295 ~y  296 (471)
                      ..
T Consensus       318 v~  319 (342)
T PRK14454        318 TT  319 (342)
T ss_pred             EE
Confidence            54

>KOG2900 consensus Biotin synthase [Coenzyme transport and metabolism]

Probab=98.41  E-value=1.5e-06  Score=81.97  Aligned_cols=189  Identities=15%  Similarity=0.178  Sum_probs=130.7

Q ss_pred             EEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC-CHHHHH
Q 012112           56 AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV-PPRFVS  134 (471)
Q Consensus        56 lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l-~~~~l~  134 (471)
                      +-|.--=|.-.|.||...+...-       ......---+|++++|.+..+..+.     ..+..|..---+. ....+.
T Consensus        87 lsIKtGGCsEDCkYCaQSSRy~T-------GvKA~klmk~DeVi~~Ak~AK~~GS-----TRFCmGaAWRD~~GRk~~fk  154 (380)
T KOG2900|consen   87 LSIKTGGCSEDCKYCAQSSRYDT-------GVKAEKLMKVDEVIKEAKEAKRNGS-----TRFCMGAAWRDMKGRKSAFK  154 (380)
T ss_pred             EEeecCCcccccchhhhhccccc-------chhHHHHhhHHHHHHHHHHHHhcCC-----ceeecchhhhhhccchhHHH
Confidence            44444459999999987654210       1122334457889888886654432     2233332111111 124577


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          135 SILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                      +|++.|++.-++.  .|+.+  .-+.++.+....|+++|.+-..-.+.+--+-.-+ +--..+.++-++.+..++++|++
T Consensus       155 ~IlE~ikevr~Mg--mEvCv--TLGMv~~qQAkeLKdAGLTAYNHNlDTSREyYsk-vItTRtYDdRL~Ti~nvr~aGik  229 (380)
T KOG2900|consen  155 RILEMIKEVRDMG--MEVCV--TLGMVDQQQAKELKDAGLTAYNHNLDTSREYYSK-VITTRTYDDRLQTIKNVREAGIK  229 (380)
T ss_pred             HHHHHHHHHHcCC--ceeee--eeccccHHHHHHHHhccceecccCccchhhhhcc-cceecchHHHHHHHHHHHHhcce
Confidence            7888887765443  34443  4567899999999999999888888875444333 33345789999999999999997


Q ss_pred             eeEeeeecCCCCCCHHHHHHHHHHHHhCC--CCcEEEEeccccCCChhhhc
Q 012112          215 NWSLDLISSLPHQTPQMWEESLRRTVGAQ--PKHVSVYDLQVEQGTKFGIL  263 (471)
Q Consensus       215 ~v~~DlI~GlPgqT~e~~~~~l~~~~~l~--p~his~y~l~~~pgT~l~~~  263 (471)
                       |...-|+|| ||..+|-.-.+..+..+.  |+.+-+..|...+|||+...
T Consensus       230 -vCsGGIlGL-GE~e~DriGlihtLatmp~HPESvPiN~LvaikGTP~~d~  278 (380)
T KOG2900|consen  230 -VCSGGILGL-GESEDDRIGLIHTLATMPPHPESVPINRLVAIKGTPMADE  278 (380)
T ss_pred             -ecccccccc-cccccceeeeeeeeccCCCCCcccccceEEecCCcccchh
Confidence             888999999 999988777776666664  67888999999999999875

>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]

Probab=98.39  E-value=6.1e-05  Score=73.89  Aligned_cols=167  Identities=20%  Similarity=0.336  Sum_probs=118.1

Q ss_pred             CeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           53 PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        53 ~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      ...+.|+.-=|+.+|.||..+......       .....+.....++.++....      ...+.|.|.||.|++ ..+.
T Consensus        35 ~~~~~vf~~GCnlrC~~C~N~~~~~~~-------~~~~~~~~~~e~l~~~~~~~------~~~~gvt~SGGEP~~-q~e~  100 (260)
T COG1180          35 SIRLSVFLQGCNLRCPYCQNPEISQRG-------REVSGEEVSPEVLVDKAFYS------ESGGGVTFSGGEPTL-QAEF  100 (260)
T ss_pred             cEEEEEEeCCCCCCCCCCCChhHhccc-------ccCchhhcCHHHHHHHhhhc------CCCCEEEEECCcchh-hHHH
Confidence            477888888899999999887653210       01112222334444444332      246789999999986 7778


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG  212 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G  212 (471)
                      +.+++..+++. +    ..+.+++|- .++++.++.+.+. ++.+.+-+=.++++.-+.+-- .+.+.+.+.++.+.+.|
T Consensus       101 ~~~~~~~ake~-G----l~~~l~TnG-~~~~~~~~~l~~~-~D~v~~DlK~~~~~~y~~~tg-~~~~~vl~~~~~l~~~g  172 (260)
T COG1180         101 ALDLLRAAKER-G----LHVALDTNG-FLPPEALEELLPL-LDAVLLDLKAFDDELYRKLTG-ADNEPVLENLELLADLG  172 (260)
T ss_pred             HHHHHHHHHHC-C----CcEEEEcCC-CCCHHHHHHHHhh-cCeEEEeeccCChHHHHHHhC-CCcHHHHHHHHHHHcCC
Confidence            88888888875 3    467888874 6788888888887 799999999999996555542 23389999999999998


Q ss_pred             CCeeEeeeecCCCCC--CHHHHHHHHHHHHhCC
Q 012112          213 VENWSLDLISSLPHQ--TPQMWEESLRRTVGAQ  243 (471)
Q Consensus       213 ~~~v~~DlI~GlPgq--T~e~~~~~l~~~~~l~  243 (471)
                      .. |.+-..+ .||+  ..+++++-.+++.++.
T Consensus       173 ~~-ve~r~lv-iPg~~d~~e~i~~i~~~i~~~~  203 (260)
T COG1180         173 VH-VEIRTLV-IPGYNDDEEEIRELAEFIADLG  203 (260)
T ss_pred             Ce-EEEEEEE-ECCCCCCHHHHHHHHHHHHhcC
Confidence            86 3332221 4664  7899999999998754

>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family

Probab=98.34  E-value=5.5e-05  Score=75.54  Aligned_cols=156  Identities=17%  Similarity=0.250  Sum_probs=111.0

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ...|.|.||.|.+ .++.+.++++.+++. +    ..+++++|- .+..+.++.+.. .++.+.+.+.+.+++..+.+..
T Consensus       126 ~~~V~~sGGEPll-~~~~l~~l~~~~k~~-g----~~~~i~TnG-~~~~~~~~~ll~-~~d~~~isl~~~~~~~~~~~~g  197 (295)
T TIGR02494       126 GGGVTLSGGEPLL-QPEFALALLQACHER-G----IHTAVETSG-FTPWETIEKVLP-YVDLFLFDIKHLDDERHKEVTG  197 (295)
T ss_pred             CCcEEeeCcchhc-hHHHHHHHHHHHHHc-C----CcEeeeCCC-CCCHHHHHHHHh-hCCEEEEeeccCChHHHHHHhC
Confidence            3468888999985 777788999988764 2    357888885 455566776665 4688899999999998887744


Q ss_pred             CCCHHHHHHHHHHHHHcCCCeeEeee--ecCCCCCCHHHHHHHHHHHHhCC--CCcEEEEeccccCCChhhh---cccCC
Q 012112          195 AHGLKEVYEAIEIVKLCGVENWSLDL--ISSLPHQTPQMWEESLRRTVGAQ--PKHVSVYDLQVEQGTKFGI---LYTPG  267 (471)
Q Consensus       195 ~~t~~~~~~ai~~~~~~G~~~v~~Dl--I~GlPgqT~e~~~~~l~~~~~l~--p~his~y~l~~~pgT~l~~---~~~~g  267 (471)
                       .+.+.+.+.++.+.+.|.. +.+-.  |-|+ ..+.+++.+.++++.+++  +.++.+.++.+....++..   .+.-.
T Consensus       198 -~~~~~vl~~i~~l~~~~~~-~~i~~~~v~~~-n~~~~ei~~l~~~~~~~~~~v~~v~l~~~~~~g~~~~~~~~~~~~~~  274 (295)
T TIGR02494       198 -VDNEPILENLEALAAAGKN-VVIRIPVIPGF-NDSEENIEAIAAFLRKLEPGVDEIDLLPYHRLGENKYRQLGREYPDS  274 (295)
T ss_pred             -CChHHHHHHHHHHHhCCCc-EEEEeceeCCc-CCCHHHHHHHHHHHHHhccCCceEEecCCCchhHHHHHHhCCCCccC
Confidence             4678899999999999875 54443  4343 356789999999999998  6788877777665555432   22222


Q ss_pred             CCCCCCHHHHHHHH
Q 012112          268 EFPLPTETQSANFY  281 (471)
Q Consensus       268 ~~~~p~~~~~~~~~  281 (471)
                      ..+.|++++..+..
T Consensus       275 ~~~~p~~~~~~~~~  288 (295)
T TIGR02494       275 EIPDPAEEQLLELK  288 (295)
T ss_pred             CCCCCCHHHHHHHH
Confidence            34457766655533

This subset of the radical-SAM family (pfam04055) includes a number of probable activating proteins acting on different enzymes all requiring an amino-acid-centered radical. The closest relatives to this family are the pyruvate-formate lyase activating enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic ribonucleotide reductase activating enzyme (TIGR02491). Included within this subfamily are activators of hydroxyphenyl acetate decarboxylase (HdpA, ), benzylsuccinate synthase (BssD, ), gycerol dehydratase (DhaB2, ) as well as enzymes annotated in E. coli as activators of different isozymes of pyruvate-formate lyase (PFLC and PFLE) however, these appear to lack characterization and may activate enzymes with distinctive functions. Most of the sequence-level variability between these forms is concentrated within an N-terminal domain which follows a conserved group of three cysteines and contains a variable pattern of 0

>PRK14453 chloramphenicol/florfenicol resistance protein; Provisional

Probab=98.24  E-value=0.00015  Score=73.98  Aligned_cols=200  Identities=17%  Similarity=0.227  Sum_probs=125.6

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcC-CCCCCCCHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG-GTPSLVPPRFVSSILDTLT  141 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGG-GTps~l~~~~l~~ll~~l~  141 (471)
                      |+.+|.||.-.....+        +.-    -++.+++++......   +.+++.|-|-| |.|.+ +. .+.+.++.+.
T Consensus       110 C~~~C~FC~tg~~g~~--------rnL----t~~EIv~qv~~~~~~---~~~i~~IvfmGmGEPLl-n~-~v~~~i~~l~  172 (347)
T PRK14453        110 CGFGCRFCATGSIGLK--------RNL----TADEITDQLLYFYLN---GHRLDSISFMGMGEALA-NP-ELFDALKILT  172 (347)
T ss_pred             cCCCCCCCCCCCCCCc--------ccC----CHHHHHHHHHHHHhc---CCCcceEEEeecCCccC-CH-HHHHHHHHHh
Confidence            9999999986543111        111    234445555433221   23477777877 99975 54 4667777776


Q ss_pred             HH--cCCCCCcEEEEEecCCCCC-HHHHHHHHHCCCCEEEEccCCCCHHHHHHc---CCCCCHHHHHHHHHHH-HHcCCC
Q 012112          142 DK--FGLSLDAEISMEMDPGTFD-ARKMEELMDLGVNRVSLGVQAFQDELLKSC---GRAHGLKEVYEAIEIV-KLCGVE  214 (471)
Q Consensus       142 ~~--~~l~~~~eitiE~~P~~l~-~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai~~~-~~~G~~  214 (471)
                      +.  ++++ ...++++++- .+. -+.+...  ..-..+.+.+-+.+++..+.+   ++.+..+++.++++.. .+.|..
T Consensus       173 ~~~~~~~~-~r~itVsT~G-~~~~i~~l~~~--~~~v~LalSLha~dd~~r~~l~pi~~~~~L~~ll~~~~~~l~~~~~~  248 (347)
T PRK14453        173 DPNLFGLS-QRRITISTIG-IIPGIQRLTQE--FPQVNLTFSLHSPFESQRSELMPINKRFPLNEVMKTLDEHIRHTGRK  248 (347)
T ss_pred             cccccCCC-CCcEEEECCC-CchhHHHHHhh--ccCcCEEEEecCCCHHHHHHhcCccccccHHHHHHHHHHHHHhcCCc
Confidence            63  3332 3468998764 222 3333322  223567789999999988765   4566778887776654 335543


Q ss_pred             -eeEeeeecCCCCCCHHHHHHHHHHHHhCC----CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          215 -NWSLDLISSLPHQTPQMWEESLRRTVGAQ----PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       215 -~v~~DlI~GlPgqT~e~~~~~l~~~~~l~----p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                       .+..=+|-|+ ..+.+++.+..+++..++    +.+|.+-+|.+.++.+       ..+..|+.+...+    ..+.|.
T Consensus       249 V~iry~LI~Gv-NDs~e~a~~L~~~lk~l~~~~~~~~VnLIPyn~~~~~~-------~~~~~ps~e~v~~----f~~~L~  316 (347)
T PRK14453        249 VYIAYIMLEGV-NDSKEHAEAVVGLLRNRGSWEHLYHVNLIPYNSTDKTP-------FKFQSSSAGQIKQ----FCSTLK  316 (347)
T ss_pred             EEEEEEeECCC-CCCHHHHHHHHHHHhhccccCCcceEEEecCCCCCCCC-------ccCCCCCHHHHHH----HHHHHH
Confidence             2566777776 678889999999999874    5788888887765531       1244566654333    345788


Q ss_pred             HCCCce
Q 012112          290 SAGYRH  295 (471)
Q Consensus       290 ~~Gy~~  295 (471)
                      ++|+..
T Consensus       317 ~~Gi~v  322 (347)
T PRK14453        317 SAGISV  322 (347)
T ss_pred             HCCCcE
Confidence            889864

>COG2108 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]

Probab=98.22  E-value=3.1e-05  Score=76.12  Aligned_cols=169  Identities=16%  Similarity=0.262  Sum_probs=115.8

Q ss_pred             CCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHH
Q 012112           62 FCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLT  141 (471)
Q Consensus        62 FC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~  141 (471)
                      -|+..|.||....-..|...-   ......-+.++.++.|+......+        +-+.||.|.+ ..+...++++.++
T Consensus        37 ~C~~~CfYCPvs~~r~gkdvi---yaNErpV~~~eDii~ea~~~~a~G--------asiTGGdPl~-~ieR~~~~ir~LK  104 (353)
T COG2108          37 LCNRSCFYCPVSDERKGKDVI---YANERPVKSVEDIIEEAKLMDALG--------ASITGGDPLL-EIERTVEYIRLLK  104 (353)
T ss_pred             ccCCCcccCcCCHHhcCCcce---eecccccCcHHHHHHHHHHhcccc--------ccccCCChHH-HHHHHHHHHHHHH
Confidence            399999999876543322100   011122334567777877654422        2356889964 5566667778888


Q ss_pred             HHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeee
Q 012112          142 DKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLI  221 (471)
Q Consensus       142 ~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI  221 (471)
                      +.|+  .+.-+.+.+++...+++.++.|.++|++-|-+-.-..+.         ...+...+++..|++.|.+ |.+- |
T Consensus       105 ~efG--~~fHiHLYT~g~~~~~e~l~~L~eAGLDEIRfHp~~~~~---------~~~e~~i~~l~~A~~~g~d-vG~E-i  171 (353)
T COG2108         105 DEFG--EDFHIHLYTTGILATEEALKALAEAGLDEIRFHPPRPGS---------KSSEKYIENLKIAKKYGMD-VGVE-I  171 (353)
T ss_pred             Hhhc--cceeEEEeeccccCCHHHHHHHHhCCCCeEEecCCCccc---------cccHHHHHHHHHHHHhCcc-ceee-c
Confidence            8876  456778888888999999999999999976665421111         2346678889999999886 6664 5


Q ss_pred             cCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccC
Q 012112          222 SSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQ  256 (471)
Q Consensus       222 ~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~p  256 (471)
                      -++||. .+.+.+-++++.+.+.+-+.+..|.+-+
T Consensus       172 Paipg~-e~~i~e~~~~~~~~~~~FlNiNELE~sE  205 (353)
T COG2108         172 PAIPGE-EEAILEFAKALDENGLDFLNINELEFSE  205 (353)
T ss_pred             CCCcch-HHHHHHHHHHHHhcccceeeeeeeeecc
Confidence            677876 3456667788888888999998887654

>PRK14465 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.19  E-value=0.0002  Score=72.69  Aligned_cols=200  Identities=14%  Similarity=0.137  Sum_probs=124.8

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTD  142 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~  142 (471)
                      |+-+|.||.-...  |..      +.....+-++++.. ++.   ..+ ....+-+|+|=|.|. ++-+.+.+.++.+++
T Consensus       115 C~m~C~FC~tg~~--g~~------rnlta~EI~~qv~~-~~~---~~~-~~~~niVFmGmGEPL-~N~d~V~~~~~~l~~  180 (342)
T PRK14465        115 CTLNCKFCATAKL--EFQ------GNLKAHEIVDQVLQ-VEK---IVG-DRATNVVFMGMGEPM-HNYFNVIRAASILHD  180 (342)
T ss_pred             CCCCCCCCcCCCC--Ccc------CCCCHHHHHHHHHH-HHH---hcC-CCceEEEEEcCCcch-hhHHHHHHHHHHHhC
Confidence            9999999976432  211      11122333333322 111   111 122455666658995 466777777777765


Q ss_pred             H--cCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc---CCCCCHHHHHHHHHHH-HHcCCCee
Q 012112          143 K--FGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC---GRAHGLKEVYEAIEIV-KLCGVENW  216 (471)
Q Consensus       143 ~--~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai~~~-~~~G~~~v  216 (471)
                      .  ++++. ..||+.++-  +.+...+...+..--.++|.+-+-+++....+   ++.+..+++.++++.. ++.|-. |
T Consensus       181 ~~~~~~~~-r~itvST~G--~~~~i~~l~~~~~~~~LaiSLhA~~~e~R~~l~Pi~~~~~le~ll~al~~~~~~~~r~-v  256 (342)
T PRK14465        181 PDAFNLGA-KRITISTSG--VVNGIRRFIENKEPYNFAISLNHPDPNGRLQIMDIEEKFPLEELLQAAKDFTRELKRR-I  256 (342)
T ss_pred             hhhhcCCC-CeEEEeCCC--chHHHHHHHhhccCceEEEEecCCChhhcceEeeccccCCHHHHHHHHHHHHHHcCCE-E
Confidence            4  34433 478887764  33444444433333479999999999999987   7788999999999854 455554 4


Q ss_pred             E--eeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCc
Q 012112          217 S--LDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR  294 (471)
Q Consensus       217 ~--~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~  294 (471)
                      .  .-+|=|+ ..+.++..+..+++..++ .+|.+-+|.+. +         ..++.|+++...+    ..+.|.++|+.
T Consensus       257 ~ieyvLI~Gv-NDs~eda~~L~~ll~~l~-~kVnLIPyN~~-~---------~~~~~ps~e~i~~----F~~~L~~~Gi~  320 (342)
T PRK14465        257 TFEYVMIPGV-NMGRENANKLVKIARSLD-CKINVIPLNTE-F---------FGWRRPTDDEVAE----FIMLLEPAGVP  320 (342)
T ss_pred             EEEEEEECCc-cCCHHHHHHHHHHHhhCC-CcEEEEccCCC-C---------CCCCCCCHHHHHH----HHHHHHHCCCe
Confidence            4  4444454 467889999999988886 56777777662 2         2345677765554    33468888886


Q ss_pred             ee
Q 012112          295 HY  296 (471)
Q Consensus       295 ~y  296 (471)
                      ..
T Consensus       321 v~  322 (342)
T PRK14465        321 IL  322 (342)
T ss_pred             EE
Confidence            54

>COG1625 Fe-S oxidoreductase, related to NifB/MoaA family [Energy production and conversion]

Probab=98.19  E-value=7.7e-05  Score=75.94  Aligned_cols=168  Identities=15%  Similarity=0.137  Sum_probs=126.0

Q ss_pred             EEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCH
Q 012112          119 FFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGL  198 (471)
Q Consensus       119 ~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~  198 (471)
                      --+||.++..+  +++.....++..+.. ++..++.-.--.-...+..+.+.++|++-|++.|+|.++++++.+-|.+.+
T Consensus        84 ~~~~~d~~c~p--~le~~~~r~~~~~~d-~~~rL~~tsG~~~~lt~~~~~i~~~gvdev~~SVhtT~p~lR~klm~n~~A  160 (414)
T COG1625          84 QCGNGDTFCYP--DLEPRGRRARLYYKD-DDIRLSFTSGSGFTLTNRAERIIDAGVDEVYFSVHTTNPELRAKLMKNPNA  160 (414)
T ss_pred             ecCCCCcccCc--chhhhhhHHHhhcCC-ccceeeeeeccceeccchHHHHHHcCCCeeEEEEeeCCHHHHHHHhcCCcH
Confidence            34566655422  567777777776632 223344333112234556666899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCeeEeeeecCCCCCC-HHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHH
Q 012112          199 KEVYEAIEIVKLCGVENWSLDLISSLPHQT-PQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQS  277 (471)
Q Consensus       199 ~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT-~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~  277 (471)
                      ++..+.++...+.+++ +.+++++ .||-+ -+++.+|++.+.++++.-+.+....+.--|.+.+    .....+..++.
T Consensus       161 ~~~le~L~~f~~~~~~-v~a~iVl-~PGvNdge~L~kT~~dL~~~g~~~~~~~~~~pvGlt~~n~----~~i~~~t~~~l  234 (414)
T COG1625         161 EQLLELLRRFAERCIE-VHAQIVL-CPGVNDGEELEKTLEDLEEWGAHEVILMRVVPVGLTRYNR----PGIRPPTPHEL  234 (414)
T ss_pred             HHHHHHHHHHHHhhhh-eeeEEEE-cCCcCcHHHHHHHHHHHHHhCcCceeEEEeecceeeecCC----CCCCCCCHHHH
Confidence            9999999999999887 8888776 79988 9999999999999999988888733332344332    24456777888


Q ss_pred             HHHHHHHHHHHHHCC-Cce
Q 012112          278 ANFYRMASSMLSSAG-YRH  295 (471)
Q Consensus       278 ~~~~~~~~~~L~~~G-y~~  295 (471)
                      .++.....+..++.| |..
T Consensus       235 ~~~k~i~re~~~E~~~~~V  253 (414)
T COG1625         235 EEFKEIVREFDRELGSIRV  253 (414)
T ss_pred             HHHHHHHHHHHHhcCceEE
Confidence            899999999999988 654

>TIGR03365 Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE

Probab=98.18  E-value=0.00015  Score=70.33  Aligned_cols=138  Identities=19%  Similarity=0.287  Sum_probs=87.3

Q ss_pred             eEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           54 TSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        54 ~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      .++.|...=|+.+|.||+........      .......-..+.+.++++....     ..+..|.|.||.|.+ . ..+
T Consensus        23 ~~~FvR~~gCNlrC~~Cdt~~~~~~~------~~~~~~~~s~~ei~~~i~~~~~-----~~~~~V~lTGGEPll-~-~~l   89 (238)
T TIGR03365        23 KTMFVRTGGCDYRCSWCDSLFTWDGS------AKDTWRPMTAEEVWQELKALGG-----GTPLHVSLSGGNPAL-Q-KPL   89 (238)
T ss_pred             eEEEEEeCCcCCcCcCCCCccccCcc------cCCccccCCHHHHHHHHHHHhC-----CCCCeEEEeCCchhh-h-HhH
Confidence            35677777799999999965421110      0001111234556666655432     136789999999976 3 378


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGV  213 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~  213 (471)
                      .+|++.+++.     +..+++|+|....+ +.   ++.  ++.+++.+-..+.      +.....+...++++.+++ |.
T Consensus        90 ~~li~~l~~~-----g~~v~leTNGtl~~-~~---l~~--~d~v~vs~K~~~s------g~~~~~~~~~~~ik~l~~-~~  151 (238)
T TIGR03365        90 GELIDLGKAK-----GYRFALETQGSVWQ-DW---FRD--LDDLTLSPKPPSS------GMETDWQALDDCIERLDD-GP  151 (238)
T ss_pred             HHHHHHHHHC-----CCCEEEECCCCCcH-HH---Hhh--CCEEEEeCCCCCC------CCCCcHHHHHHHHHHhhh-cC
Confidence            8999988764     34699999975433 32   333  4578887776544      333457777788888887 54


Q ss_pred             CeeEeeeecC
Q 012112          214 ENWSLDLISS  223 (471)
Q Consensus       214 ~~v~~DlI~G  223 (471)
                      . +.+-++++
T Consensus       152 ~-~~vK~Vv~  160 (238)
T TIGR03365       152 Q-TSLKVVVF  160 (238)
T ss_pred             c-eEEEEEEC
Confidence            3 77777777

This uncharacterized enzyme, designated QueE, participates in the biosynthesis, from GTP, of 7-cyano-7-deazaguanosine, also called preQ0 because in many species it is a precursor of queuosine. In most Archaea, it is instead the precursor of a different tRNA modified base, archaeosine.

>PF13394 Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B 1TV7_A 2FB2_A 2FB3_A

Probab=98.03  E-value=3.6e-06  Score=72.20  Aligned_cols=94  Identities=21%  Similarity=0.267  Sum_probs=42.9

Q ss_pred             EEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCC-CCHHHHH
Q 012112           56 AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSL-VPPRFVS  134 (471)
Q Consensus        56 lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~-l~~~~l~  134 (471)
                      +|++...|+.+|.||........         ........+.+.+.|+.....   ......|.|.||.|.+ ++.+.+.
T Consensus         1 ~F~~t~~Cnl~C~~C~~~~~~~~---------~~~~~~~~~~~~~~i~~~~~~---~~~~~~v~~~GGEPll~~~~~~l~   68 (119)
T PF13394_consen    1 VFVRTSGCNLRCSYCYNKSSWSP---------KKGEEMSIEELEEIIDELKEK---GFRPSTVVFTGGEPLLYLNPEDLI   68 (119)
T ss_dssp             -----S--S---TTTS-TTTSST----------GGGS--HHHHHHHHHHHHHT---T----EEEEESSSGGGSTTHHHHH
T ss_pred             CCCccCCcCCCCccCCcCccCCC---------ccCCcccHhHHHHHHHHHHhc---CCceEEEEEECCCCccccCHHHHH
Confidence            47788889999999996432110         111122233333444322221   1224679999999985 5778888


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEecCCCCCHH
Q 012112          135 SILDTLTDKFGLSLDAEISMEMDPGTFDAR  164 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~P~~l~~e  164 (471)
                      ++++.+++..   +...+++++|.....+.
T Consensus        69 ~~i~~~~~~~---~~~~i~i~TNg~~~~~~   95 (119)
T PF13394_consen   69 ELIEYLKERG---PEIKIRIETNGTLPTEE   95 (119)
T ss_dssp             HHHCTSTT--------EEEEEE-STTHHHH
T ss_pred             HHHHHHHhhC---CCceEEEEeCCeecccc
Confidence            8888887764   34689999985433333

>PRK14464 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=97.97  E-value=0.00029  Score=71.57  Aligned_cols=206  Identities=16%  Similarity=0.220  Sum_probs=124.1

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcC-CCCCCCCHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGG-GTPSLVPPRF  132 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGG-GTps~l~~~~  132 (471)
                      +++|-.-= |+..|.||.-...  |.      ...-    ..+.+++++......    ..++.|.|-| |.|.. +.+.
T Consensus        97 t~CvSsQvGC~~~C~FC~tg~~--g~------~RnL----s~~EI~~Qv~~~~~~----~~i~nIVfmGmGEPl~-N~d~  159 (344)
T PRK14464         97 GLCVSTQVGCAVGCVFCMTGRS--GL------LRQL----GSAEIVAQVVLARRR----RAVKKVVFMGMGEPAH-NLDN  159 (344)
T ss_pred             cEEEEccCCcCCCCCcCcCCCC--CC------CCCC----CHHHHHHHHHHHHhc----CCCCEEEEeccCcccC-CHHH
Confidence            44444433 9999999965422  11      1111    223444444433321    3477777777 99984 5555


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCC-CEEEEccCCCCHHHHHHcCC---CCCHHHHHHHHHHH
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGV-NRVSLGVQAFQDELLKSCGR---AHGLKEVYEAIEIV  208 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gv-nrvsiGvQS~~d~~L~~l~R---~~t~~~~~~ai~~~  208 (471)
                      +-+.++.+.+.++++ ...+|+.+ -+  ..+.++.|.+.++ ..+.+.+-+.+++..+.+.+   .++.+++.++++..
T Consensus       160 vl~ai~~l~~~~~i~-~r~itiST-~G--~~~~i~rL~~~~v~~~LaiSLhA~~~e~R~~imP~~~~~~l~el~~a~~~~  235 (344)
T PRK14464        160 VLEAIDLLGTEGGIG-HKNLVFST-VG--DPRVFERLPQQRVKPALALSLHTTRAELRARLLPRAPRIAPEELVELGEAY  235 (344)
T ss_pred             HHHHHHHhhchhcCC-CceEEEec-cc--CchHHHHHHHhcCChHHHHHhcCCChhHhheeCCccCCCCHHHHHHHHHHH
Confidence            555555554444443 24666632 11  2344555555443 35778899999999998755   55888888888765


Q ss_pred             H-HcCCCe-eEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHH
Q 012112          209 K-LCGVEN-WSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASS  286 (471)
Q Consensus       209 ~-~~G~~~-v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~  286 (471)
                      . ..|..- +..-||=|+ +.+.++..+..+.+..+. -||.+-++.+.+|+.+.         .|+++...+    ..+
T Consensus       236 ~~~~grri~~EyvLl~GV-NDs~e~a~~L~~~l~~~~-~~vNLIPyN~v~g~~~~---------rp~~~~i~~----f~~  300 (344)
T PRK14464        236 ARATGYPIQYQWTLLEGV-NDSDEEMDGIVRLLKGKY-AVMNLIPYNSVDGDAYR---------RPSGERIVA----MAR  300 (344)
T ss_pred             HHHHCCEEEEEEEEeCCC-CCCHHHHHHHHHHHhccc-cccceecCCccCCCCcc---------CCCHHHHHH----HHH
Confidence            3 346431 234444455 789999998888887663 47888888888777543         355544433    345


Q ss_pred             HHHHCCCcee
Q 012112          287 MLSSAGYRHY  296 (471)
Q Consensus       287 ~L~~~Gy~~y  296 (471)
                      .|.++|+...
T Consensus       301 ~L~~~gi~~t  310 (344)
T PRK14464        301 YLHRRGVLTK  310 (344)
T ss_pred             HHHHCCceEE
Confidence            6788887654

>COG4277 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]

Probab=97.97  E-value=5e-05  Score=73.68  Aligned_cols=174  Identities=16%  Similarity=0.170  Sum_probs=117.1

Q ss_pred             eeEEEEcCCCCCCCCH-HHHHHHHHHHHHHcCCCC--CcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHH
Q 012112          115 LETVFFGGGTPSLVPP-RFVSSILDTLTDKFGLSL--DAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKS  191 (471)
Q Consensus       115 v~~i~fGGGTps~l~~-~~l~~ll~~l~~~~~l~~--~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~  191 (471)
                      ++-+|+..|.--  ++ .-.+++++.++. ..+..  .--|.+-+-|+ .+++.++..-.. ++|+||.+|.-.++-|+.
T Consensus       102 IeGLFLSSGvi~--~~DyTmE~mi~var~-LRle~~f~GYIHlK~IPg-as~~li~eagly-adRvSiNIElp~~~~lk~  176 (404)
T COG4277         102 IEGLFLSSGVIK--NPDYTMEEMIEVARI-LRLEHKFRGYIHLKIIPG-ASPDLIKEAGLY-ADRVSINIELPTDDGLKL  176 (404)
T ss_pred             hhhheecccccc--CcchHHHHHHHHHHH-HhhccccCcEEEEEecCC-CCHHHHHHHhhh-hheeEEeEecCCcchhhh
Confidence            566777766531  22 234444443332 12211  22456666675 466655543222 799999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHc---------CCC--------eeEeeeecCCCCCCHHHHHHHHHHHH-hCCCCcEEEEecc
Q 012112          192 CGRAHGLKEVYEAIEIVKLC---------GVE--------NWSLDLISSLPHQTPQMWEESLRRTV-GAQPKHVSVYDLQ  253 (471)
Q Consensus       192 l~R~~t~~~~~~ai~~~~~~---------G~~--------~v~~DlI~GlPgqT~e~~~~~l~~~~-~l~p~his~y~l~  253 (471)
                      +.-..+..++.+.+.+++..         -..        .-+..+|+|--|+|.+++....+.+- ..+..+|-+..+.
T Consensus       177 lap~K~p~dI~r~Mg~ir~~i~e~~e~~~r~r~tp~fapaGQSTQmivGA~~~tD~~Ilsrs~~ly~~y~lkRVyySaf~  256 (404)
T COG4277         177 LAPEKDPTDILRSMGWIRLKILENAEDKRRKRHTPEFAPAGQSTQMIVGADGETDEDILSRSENLYGRYSLKRVYYSAFS  256 (404)
T ss_pred             hCCCCChHHHHHHHHHHHHHHhhcccchhhhccCccccCCCCceEEEEecCCCchHHHHHHHHHHhhccceeEEEeeccc
Confidence            99888888999988887761         111        13689999999999999998888876 4688899888899


Q ss_pred             ccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q 012112          254 VEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHYEISS  300 (471)
Q Consensus       254 ~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~yeis~  300 (471)
                      |.|+|++--.      ..|+.-...++| +|.-.|.-.||..-||-+
T Consensus       257 Pv~~s~~lp~------~~pplmRehRLY-QADwLlrfYgF~~~Ei~~  296 (404)
T COG4277         257 PVPSSPLLPD------DKPPLMREHRLY-QADWLLRFYGFSADEILA  296 (404)
T ss_pred             ccCCCCCCcc------cCCchhHHHHHH-HHHHHHHHhCCCHHHHHh
Confidence            9999986542      123333344455 456677788888877653

>COG1509 KamA Lysine 2,3-aminomutase [Amino acid transport and metabolism]

Probab=97.87  E-value=0.00085  Score=67.32  Aligned_cols=201  Identities=16%  Similarity=0.136  Sum_probs=132.2

Q ss_pred             CeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           53 PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        53 ~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      ...|-+=--.|+..|.||--..+.+.       .+...   --+.+..-++.+++    ...+..|.|.||.|-+++++.
T Consensus       111 drvLll~t~~C~vyCRyCfRr~~~~~-------~~~~~---~~~~~~~al~YIa~----hPeI~eVllSGGDPL~ls~~~  176 (369)
T COG1509         111 DRVLLLVTGVCAVYCRYCFRRRFVGQ-------DNQGF---NKEEWDKALDYIAA----HPEIREVLLSGGDPLSLSDKK  176 (369)
T ss_pred             CeEEEEecCcccceeeeccccccccc-------ccccC---CHHHHHHHHHHHHc----CchhheEEecCCCccccCHHH
Confidence            33444444559999999964433221       11111   11223333444443    245889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEE-----ecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHH
Q 012112          133 VSSILDTLTDKFGLSLDAEISME-----MDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEI  207 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE-----~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~  207 (471)
                      |+.|++.|++.-.   ..-+.|-     +.|..+|++.++.|.+.+ ..+.+-..-=++..+        -.++.+|++.
T Consensus       177 L~~ll~~L~~IpH---v~iiRi~TR~pvv~P~RIt~~L~~~l~~~~-~~v~~~tH~NHp~Ei--------t~e~~~A~~~  244 (369)
T COG1509         177 LEWLLKRLRAIPH---VKIIRIGTRLPVVLPQRITDELCEILGKSR-KPVWLVTHFNHPNEI--------TPEAREACAK  244 (369)
T ss_pred             HHHHHHHHhcCCc---eeEEEeecccceechhhccHHHHHHHhccC-ceEEEEcccCChhhc--------CHHHHHHHHH
Confidence            9999999987532   2234443     378889999999998865 334443322222111        2468899999


Q ss_pred             HHHcCCCeeEee-eecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHH
Q 012112          208 VKLCGVENWSLD-LISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASS  286 (471)
Q Consensus       208 ~~~~G~~~v~~D-lI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~  286 (471)
                      ++++|+.-.|=. |+=|. +.+.+-+.+.++.+...++.---+|.+-..+|+.=++         .+.++..++++..+.
T Consensus       245 L~~aGv~l~NQsVLLrGV-ND~~evl~~L~~~L~~~gV~PYYl~~~D~~~G~~hfr---------~~i~~~~~i~~~lr~  314 (369)
T COG1509         245 LRDAGVPLLNQSVLLRGV-NDDPEVLKELSRALFDAGVKPYYLHQLDLVQGAAHFR---------VPIAEGLQIVEELRG  314 (369)
T ss_pred             HHHcCceeecchheeccc-CCCHHHHHHHHHHHHHcCCcceEEeccCccCCcccee---------ccHHHHHHHHHHHHH
Confidence            999999755533 44555 7889999999999999998777777777778875443         245566666766665


Q ss_pred             HHH
Q 012112          287 MLS  289 (471)
Q Consensus       287 ~L~  289 (471)
                      .++
T Consensus       315 ~~S  317 (369)
T COG1509         315 RTS  317 (369)
T ss_pred             hCC
Confidence            543

>PRK14461 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=97.85  E-value=0.0039  Score=63.68  Aligned_cols=163  Identities=16%  Similarity=0.193  Sum_probs=111.1

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHH--cCCCCCcEEEEEecCCCCCHHHHHHHHHCCC-CEEEEccCCCCHHHHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDK--FGLSLDAEISMEMDPGTFDARKMEELMDLGV-NRVSLGVQAFQDELLKS  191 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~--~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gv-nrvsiGvQS~~d~~L~~  191 (471)
                      -.-||.|=|.|- ++-+.+.+.++.|.+.  |+++. ..||+.+--  + ...++.|.+-+. -++.+.+-+.++++++.
T Consensus       170 ~NIVfMGMGEPL-~NydnV~~ai~il~d~~g~~is~-R~ITVST~G--i-vp~I~~la~~~~~v~LAiSLHA~~~e~R~~  244 (371)
T PRK14461        170 TNLVFMGMGEPF-ANYDRWWQAVERLHDPQGFNLGA-RSMTVSTVG--L-VKGIRRLANERLPINLAISLHAPDDALRSE  244 (371)
T ss_pred             eeEEEEccCCch-hhHHHHHHHHHHhcCccccCcCC-CceEEEeec--c-hhHHHHHHhcccCceEEEEeCCCCHHHHHH
Confidence            356788999994 3656666666666443  44432 367776532  3 344455555442 47999999999999987


Q ss_pred             c---CCCCCHHHHHHHHHHHHHc-CCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCC-----CCcEEEEeccccCCChhh
Q 012112          192 C---GRAHGLKEVYEAIEIVKLC-GVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQ-----PKHVSVYDLQVEQGTKFG  261 (471)
Q Consensus       192 l---~R~~t~~~~~~ai~~~~~~-G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~-----p~his~y~l~~~pgT~l~  261 (471)
                      +   +|.+..+++.++++.-.+. |-. .+..-||=|+ ..+.++.++..+.+..++     +-||.+-++.+.+|+++.
T Consensus       245 lmPin~~ypl~eLl~a~~~y~~~t~rrit~EYvLi~gv-NDs~e~A~~L~~llk~~~~~~~l~~~VNLIp~Np~~~~~~~  323 (371)
T PRK14461        245 LMPVNRRYPIADLMAATRDYIAKTRRRVSFEYVLLQGK-NDHPEQAAALARLLRGEAPPGPLLVHVNLIPWNPVPGTPLG  323 (371)
T ss_pred             hcCcccCCCHHHHHHHHHHHHHhhCCEEEEEEEEECCC-CCCHHHHHHHHHHHcCCccccCCceEEEEecCCCCCCCCCC
Confidence            5   7889999999998865443 432 1345555565 789999999999888773     468999999998888653


Q ss_pred             hcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCcee
Q 012112          262 ILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHY  296 (471)
Q Consensus       262 ~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~y  296 (471)
                               .|+.+...+    -.+.|.++|....
T Consensus       324 ---------~ps~~~i~~----F~~~L~~~gi~vt  345 (371)
T PRK14461        324 ---------RSERERVTT----FQRILTDYGIPCT  345 (371)
T ss_pred             ---------CCCHHHHHH----HHHHHHHCCceEE
Confidence                     255544333    3356888998743

>PRK10076 pyruvate formate lyase II activase; Provisional

Probab=97.79  E-value=0.0035  Score=59.67  Aligned_cols=186  Identities=19%  Similarity=0.264  Sum_probs=127.1

Q ss_pred             HHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCC
Q 012112           94 YIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLG  173 (471)
Q Consensus        94 yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~G  173 (471)
                      .++.|++++......+.  ..=.-|-|.||.|++ .++.+.++++.+++. +    ....+++|- .++.+.++.+... 
T Consensus        20 t~eel~~~~~~~~~f~~--~sggGVt~SGGEPll-q~~fl~~l~~~~k~~-g----i~~~leTnG-~~~~~~~~~l~~~-   89 (213)
T PRK10076         20 TLDALEREVMKDDIFFR--TSGGGVTLSGGEVLM-QAEFATRFLQRLRLW-G----VSCAIETAG-DAPASKLLPLAKL-   89 (213)
T ss_pred             CHHHHHHHHHhhhHhhc--CCCCEEEEeCchHHc-CHHHHHHHHHHHHHc-C----CCEEEECCC-CCCHHHHHHHHHh-
Confidence            46777777765433221  011358899999986 678888999988763 3    467888875 5678888887764 


Q ss_pred             CCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEec
Q 012112          174 VNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDL  252 (471)
Q Consensus       174 vnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l  252 (471)
                      ++.+.+-+=++|++.-+.+-. .+.+.+.+.++.+.+.|.. .|.+-+|-|+ ..+.+++++..+++.+++++++.+-++
T Consensus        90 ~D~~l~DiK~~d~~~~~~~tG-~~~~~il~nl~~l~~~g~~v~iR~~vIPg~-nd~~e~i~~ia~~l~~l~~~~~~llpy  167 (213)
T PRK10076         90 CDEVLFDLKIMDATQARDVVK-MNLPRVLENLRLLVSEGVNVIPRLPLIPGF-TLSRENMQQALDVLIPLGIKQIHLLPF  167 (213)
T ss_pred             cCEEEEeeccCCHHHHHHHHC-CCHHHHHHHHHHHHhCCCcEEEEEEEECCC-CCCHHHHHHHHHHHHHcCCceEEEecC
Confidence            899999999999998877753 5678999999999999875 1456666555 467899999999999998877766666


Q ss_pred             cccCCChh---hhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q 012112          253 QVEQGTKF---GILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH  295 (471)
Q Consensus       253 ~~~pgT~l---~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  295 (471)
                      .+.-..++   ...+.-...+.|+.+...+    +.+.+++.|...
T Consensus       168 h~~g~~Ky~~lg~~y~~~~~~~~~~~~l~~----~~~~~~~~gl~~  209 (213)
T PRK10076        168 HQYGEPKYRLLGKTWSMKEVPAPSSADVAT----MREMAERAGFQV  209 (213)
T ss_pred             CccchhHHHHcCCcCccCCCCCcCHHHHHH----HHHHHHHcCCeE
Confidence            54322222   1122222334455544333    455677778764

>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase

Probab=97.74  E-value=0.0013  Score=68.25  Aligned_cols=116  Identities=15%  Similarity=0.165  Sum_probs=88.9

Q ss_pred             CCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCH-HHHHHHHHH
Q 012112          160 TFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTP-QMWEESLRR  238 (471)
Q Consensus       160 ~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~-e~~~~~l~~  238 (471)
                      +++++.++...+.++..+.+.|+|.|+++++.|=+.-.+.++.+.++.+.++|++ ++..+++ .||-+. +++.+|++.
T Consensus       125 Nl~~~d~~RI~~~~lspl~iSVhat~p~lR~~ll~n~~a~~il~~l~~l~~~~I~-~h~qiVl-cPGiNDg~~L~~Ti~d  202 (433)
T TIGR03279       125 NLPPAEWQRIEQLRLSPLYVSVHATEPSLRARLLKNPRAGLILEQLKWFQERRLQ-LHAQVVV-CPGINDGKHLERTLRD  202 (433)
T ss_pred             CCCHHHHHHHHHcCCCCEEEEEecCCHHHHHHHhCCCCHHHHHHHHHHHHHcCCe-EEEEEEE-cCCcCCHHHHHHHHHH
Confidence            6789999999999999999999999999999887777899999999999999998 8887655 788876 799999999


Q ss_pred             HHhC----CCCcEEEEeccccC--CChhhhcccCC--CCCCCCHHHHHHHHHHH
Q 012112          239 TVGA----QPKHVSVYDLQVEQ--GTKFGILYTPG--EFPLPTETQSANFYRMA  284 (471)
Q Consensus       239 ~~~l----~p~his~y~l~~~p--gT~l~~~~~~g--~~~~p~~~~~~~~~~~~  284 (471)
                      +.++    -|.   +-++.+.|  =|.+    +.|  .+.+-+.+.+.+....+
T Consensus       203 L~~~~~~~~P~---v~S~avVPVGlTk~----R~~l~~l~~~~~e~A~~vi~~i  249 (433)
T TIGR03279       203 LAQFHDGDWPT---VLSVAVVPVGLTRF----RPEEDELTPVTPECARRVIAQV  249 (433)
T ss_pred             HHhhcccCCCc---eeEEEEEccccccC----CCCCCCCccCCHHHHHHHHHHH
Confidence            9998    332   22233333  2443    233  23455666666666555

Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.

>COG0820 Predicted Fe-S-cluster redox enzyme [General function prediction only]

Probab=97.68  E-value=0.0047  Score=62.33  Aligned_cols=201  Identities=19%  Similarity=0.269  Sum_probs=120.6

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCC--CCCe-eEEEEcCCCCCCCCHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKT--SPPL-ETVFFGGGTPSLVPPRFVSSILDT  139 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~--~~~v-~~i~fGGGTps~l~~~~l~~ll~~  139 (471)
                      |+-.|+||+-...  |.          .+.-....++.++.......+.  ++.+ +-||.|=|.|. ++-+.+...++.
T Consensus       111 C~~~C~FCaTg~~--G~----------~RNLs~~EIv~Qv~~~~~~~~~~~~~~i~NVV~MGMGEPl-~N~dnV~~a~~i  177 (349)
T COG0820         111 CPVGCTFCATGQG--GL----------NRNLSAGEIVEQVLLAAKALGEDFGRRISNVVFMGMGEPL-LNLDNVVKALEI  177 (349)
T ss_pred             cCCCCCeeccccc--cc----------eeccCHHHHHHHHHHHHHhcCccccceeeeEEEecCCchh-hhHHHHHHHHHh
Confidence            9999999986533  21          1111223344444433222221  2334 56677889996 476667777776


Q ss_pred             HHHHcCCCCC-cEEEEEecCCCCCHHHHHHHH-HCCCCEEEEccCCCCHHHHHHc---CCCCCHHHHHHHHHHHHHc-CC
Q 012112          140 LTDKFGLSLD-AEISMEMDPGTFDARKMEELM-DLGVNRVSLGVQAFQDELLKSC---GRAHGLKEVYEAIEIVKLC-GV  213 (471)
Q Consensus       140 l~~~~~l~~~-~eitiE~~P~~l~~e~l~~l~-~~GvnrvsiGvQS~~d~~L~~l---~R~~t~~~~~~ai~~~~~~-G~  213 (471)
                      +....++.-. ..+|+.+  ..+.+...+... ..++ .+.|.+.+-+++.++.|   ++..+.++..++++.-.+. |.
T Consensus       178 ~~~~~G~~ls~R~iTvST--sGi~~~I~~l~~~~~~v-~LAiSLHa~nd~lR~~L~Pink~~~~e~l~~a~r~Y~~~t~~  254 (349)
T COG0820         178 INDDEGLGLSKRRITVST--SGIVPRIRKLADEQLGV-ALAISLHAPNDELRDQLMPINKKYPIEELLEAIRYYPEKSGR  254 (349)
T ss_pred             hcCcccccccceEEEEec--CCCchhHHHHHhhcCCe-EEEEecCCCCHHHHhhhhccccCCCHHHHHHHHHhhhhccCc
Confidence            6654443221 4566554  335565555542 3444 69999999999998875   7778899988888875544 43


Q ss_pred             CeeEe--eeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHC
Q 012112          214 ENWSL--DLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA  291 (471)
Q Consensus       214 ~~v~~--DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~  291 (471)
                       .|..  -|+=|.-.+ .+..++.++.+.... -||.+-++.+.||+.+ ..        |+.+...+.+    +.|.++
T Consensus       255 -rVt~EY~Ll~~VND~-~e~A~~L~~ll~~~~-~~VNLIP~Np~~~~~y-~r--------~~~~~i~~F~----~~L~~~  318 (349)
T COG0820         255 -RVTFEYVLLDGVNDS-LEHAKELAKLLKGIP-CKVNLIPYNPVPGSDY-ER--------SSKERIRKFL----KILKKA  318 (349)
T ss_pred             -eEEEEeeecccccCC-HHHHHHHHHHhcCCC-ceEEEeecCCCCCCCc-cC--------CcHHHHHHHH----HHHHhC
Confidence             2443  355555333 666666666555543 4999999999999873 22        3444433333    356677


Q ss_pred             CCce
Q 012112          292 GYRH  295 (471)
Q Consensus       292 Gy~~  295 (471)
                      |+..
T Consensus       319 gv~~  322 (349)
T COG0820         319 GVLV  322 (349)
T ss_pred             CeeE
Confidence            8754

>KOG2672 consensus Lipoate synthase [Coenzyme transport and metabolism]

Probab=97.55  E-value=0.0011  Score=63.78  Aligned_cols=174  Identities=13%  Similarity=0.176  Sum_probs=114.4

Q ss_pred             EEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEc----CCCCCCCCHH
Q 012112           56 AYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFG----GGTPSLVPPR  131 (471)
Q Consensus        56 lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fG----GGTps~l~~~  131 (471)
                      +-+-=--|...|.||+........   |  .+....+.-.+++    ...        .++.|.+.    ++-|- ....
T Consensus       114 IMlmGDTCTRGCRFCsVKTsR~Pp---P--lDp~EPeNTAeAI----asW--------gl~YiVlTSVDRDDlpD-gGa~  175 (360)
T KOG2672|consen  114 IMLMGDTCTRGCRFCSVKTSRNPP---P--LDPNEPENTAEAI----ASW--------GLDYIVLTSVDRDDLPD-GGAN  175 (360)
T ss_pred             EEeecCccccCcceeeeecCCCCc---C--CCCCCcccHHHHH----HHc--------CCCeEEEEecccccCcC-cchH
Confidence            444444599999999876543211   1  1222333333333    222        12333321    22232 2457


Q ss_pred             HHHHHHHHHHHHcCCCCCcEEEEEe-cCCCC-CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          132 FVSSILDTLTDKFGLSLDAEISMEM-DPGTF-DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       132 ~l~~ll~~l~~~~~l~~~~eitiE~-~P~~l-~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      ++.+-+..|+..     ..++-+|+ .|+-- +-+.++.++..|.+-+.-.||+...=.--.=.|..+..|-..+++.++
T Consensus       176 HiAkTVq~iK~k-----~p~ilvE~L~pDF~Gd~~~Ve~va~SGLDV~AHNvETVe~Ltp~VRD~RA~yrQSL~VLk~aK  250 (360)
T KOG2672|consen  176 HIAKTVQKIKEK-----APEILVECLTPDFRGDLKAVEKVAKSGLDVYAHNVETVEELTPFVRDPRANYRQSLSVLKHAK  250 (360)
T ss_pred             HHHHHHHHHHhh-----CcccchhhcCccccCchHHHHHHHhcCccceecchhhHHhcchhhcCcccchHHhHHHHHHHH
Confidence            888888888764     34788898 56532 678999999999998888888853322222245668899999999999


Q ss_pred             HcCCCe-eEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEecc
Q 012112          210 LCGVEN-WSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQ  253 (471)
Q Consensus       210 ~~G~~~-v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~  253 (471)
                      +.--.- ....+|.|+ |+|.|++.++++.+.+.++|-+.+-.++
T Consensus       251 ~~~P~litktsiMlgl-getdeei~~tl~dLr~~~vdv~t~gqym  294 (360)
T KOG2672|consen  251 EVKPGLITKTSIMLGL-GETDEEIKQTLKDLRAADVDVVTFGQYM  294 (360)
T ss_pred             hhCCCceehhhhhhcc-CCCHHHHHHHHHHHHHcCCcEEeccccc
Confidence            883221 346678887 9999999999999999999977766655

>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A

Probab=97.34  E-value=0.00071  Score=59.35  Aligned_cols=95  Identities=19%  Similarity=0.239  Sum_probs=50.9

Q ss_pred             CCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCC-CCH
Q 012112           52 SPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSL-VPP  130 (471)
Q Consensus        52 ~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~-l~~  130 (471)
                      ++..+-+...-|+.+|.||.........      .........++.+++++..        ..+..|.|.||.|.+ -..
T Consensus         4 ~g~~~~~~t~~Cnl~C~yC~~~~~~~~~------~~~~~~~~~~~~ii~~~~~--------~~~~~i~l~GGEPll~~~~   69 (139)
T PF13353_consen    4 EGIRVVLFTNGCNLRCKYCFNSEIWKFK------RGKELSEEIIEEIIEELKN--------YGIKGIVLTGGEPLLHENY   69 (139)
T ss_dssp             SSCEEEEEEC--SB--TT-TTCCCS-TT-------SEEC-HHHHHHHCHHHCC--------CCCCEEEEECSTGGGHHSH
T ss_pred             CCEEEEEEcCcccccCcCcCCcccCccc------ccccccchhhhhhhhHHhc--------CCceEEEEcCCCeeeeccH
Confidence            4444444466799999999654332110      1112223344444444431        236788888999974 156


Q ss_pred             HHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHH
Q 012112          131 RFVSSILDTLTDKFGLSLDAEISMEMDPGTFDAR  164 (471)
Q Consensus       131 ~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e  164 (471)
                      +.+.++++.+++.+.    ..+.+..|...++..
T Consensus        70 ~~l~~i~~~~k~~~~----~~~~~~tng~~~~~~   99 (139)
T PF13353_consen   70 DELLEILKYIKEKFP----KKIIILTNGYTLDEL   99 (139)
T ss_dssp             HHHHHHHHHHHHTT-----SEEEEEETT--HHHH
T ss_pred             hHHHHHHHHHHHhCC----CCeEEEECCCchhHH
Confidence            889999999998754    356777777655443

>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily

Probab=97.02  E-value=0.016  Score=56.54  Aligned_cols=130  Identities=18%  Similarity=0.233  Sum_probs=96.2

Q ss_pred             eeEEEEcCCCCCCCCH--HHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc
Q 012112          115 LETVFFGGGTPSLVPP--RFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC  192 (471)
Q Consensus       115 v~~i~fGGGTps~l~~--~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l  192 (471)
                      ++.|-+|++.+.-..|  +...++++.+++..   ++..+.+-++..   .+.++.++++|+.+|.+.+-+-+-.....+
T Consensus        33 V~~IEvg~~~~~~~~p~~~~~~~~i~~l~~~~---~~~~~~~l~~~~---~~~i~~a~~~g~~~i~i~~~~s~~~~~~~~  106 (265)
T cd03174          33 VDSIEVGSGASPKAVPQMEDDWEVLRAIRKLV---PNVKLQALVRNR---EKGIERALEAGVDEVRIFDSASETHSRKNL  106 (265)
T ss_pred             CCEEEeccCcCccccccCCCHHHHHHHHHhcc---CCcEEEEEccCc---hhhHHHHHhCCcCEEEEEEecCHHHHHHHh
Confidence            7888999988751100  23455666666543   245666555443   888999999999999998866554455556


Q ss_pred             CCCC--CHHHHHHHHHHHHHcCCCeeEeeeecCC-CCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          193 GRAH--GLKEVYEAIEIVKLCGVENWSLDLISSL-PHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       193 ~R~~--t~~~~~~ai~~~~~~G~~~v~~DlI~Gl-PgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      +|..  ..+.+.++++.+++.|+. +.+.++.-. |..+.+.+.+.++.+.+++++.|.+-.
T Consensus       107 ~~~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~~i~l~D  167 (265)
T cd03174         107 NKSREEDLENAEEAIEAAKEAGLE-VEGSLEDAFGCKTDPEYVLEVAKALEEAGADEISLKD  167 (265)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEeecCCCCCHHHHHHHHHHHHHcCCCEEEech
Confidence            6654  788899999999999997 899886555 248999999999999999999887543

The DRE-TIM metallolyase superfamily includes 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".

>TIGR02491 NrdG anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=96.99  E-value=0.0049  Score=55.57  Aligned_cols=81  Identities=11%  Similarity=0.155  Sum_probs=52.6

Q ss_pred             CCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCC-C
Q 012112           51 LSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLV-P  129 (471)
Q Consensus        51 ~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l-~  129 (471)
                      +....+|  +.-|+.+|.||..+......      .........++.+++++....       .+..|.|.||.|.+- +
T Consensus        15 G~r~~if--~~gCnl~C~~C~n~~~~~~~------~g~~~~~~~~~~i~~~l~~~~-------~~~gVt~sGGEPllq~~   79 (154)
T TIGR02491        15 GIRVSLF--VAGCKHHCEGCFNKETWNFN------GGKEFTEALEKEIIRDLNDNP-------LIDGLTLSGGDPLYPRN   79 (154)
T ss_pred             CcEEEEE--ECCCCCCCcCCCcccccCCC------CCCcCCHHHHHHHHHHHHhcC-------CcCeEEEeChhhCCCCC
Confidence            3344444  56799999999876542110      112233455777777775432       146788999999753 3


Q ss_pred             HHHHHHHHHHHHHHcCC
Q 012112          130 PRFVSSILDTLTDKFGL  146 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l  146 (471)
                      .+.+.++++.+++.++.
T Consensus        80 ~~~l~~ll~~~k~~~~~   96 (154)
T TIGR02491        80 VEELIELVKKIKAEFPE   96 (154)
T ss_pred             HHHHHHHHHHHHHhCCC
Confidence            48899999999887553

This enzyme is a member of the radical-SAM family (pfam04055) and utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin ) to produce a glycine-centered radical in the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487). The two components form an alpha-2/beta-2 heterodimer.

>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=96.86  E-value=0.0096  Score=53.27  Aligned_cols=102  Identities=18%  Similarity=0.186  Sum_probs=64.3

Q ss_pred             eEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           54 TSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        54 ~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      +++=|.+.-|+.+|.||+.+......      ...   .--.+.+.++|+....      .+..|.|.||.   +..+.+
T Consensus        16 ~~~~vfl~GCnlrC~~C~n~~~~~~~------~g~---~lt~eel~~~I~~~~~------~~~gVt~SGGE---l~~~~l   77 (147)
T TIGR02826        16 YSLAFYITGCPLGCKGCHSPESWHLS------EGT---KLTPEYLTKTLDKYRS------LISCVLFLGGE---WNREAL   77 (147)
T ss_pred             EEEEEEeCCCCCCCCCCCChHHcCCC------CCc---CCCHHHHHHHHHHhCC------CCCEEEEechh---cCHHHH
Confidence            45556666799999999987542110      001   1234566666665432      14578899999   577789


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEcc
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGV  181 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGv  181 (471)
                      .++++.+++. +    ..+.++++  ..-++..+.+.+. ++-+.+|.
T Consensus        78 ~~ll~~lk~~-G----l~i~l~Tg--~~~~~~~~~il~~-iD~l~~g~  117 (147)
T TIGR02826        78 LSLLKIFKEK-G----LKTCLYTG--LEPKDIPLELVQH-LDYLKTGR  117 (147)
T ss_pred             HHHHHHHHHC-C----CCEEEECC--CCCHHHHHHHHHh-CCEEEECh
Confidence            9999999875 3    35788876  2333344444332 67788876

Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.

>COG0602 NrdG Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]

Probab=96.71  E-value=0.004  Score=59.24  Aligned_cols=88  Identities=18%  Similarity=0.240  Sum_probs=58.6

Q ss_pred             CCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHH
Q 012112           52 SPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPR  131 (471)
Q Consensus        52 ~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~  131 (471)
                      ...+++|..--|+.+|.||+-.......      .........++.|+++++....      ....|-|.||.|  +-..
T Consensus        21 Gr~~vFVR~~GC~l~C~~Cdt~~t~~~~------~~~~~~~~~~~~I~~~i~~~~~------~~~~V~lTGGEP--~~~~   86 (212)
T COG0602          21 GRPSVFVRFAGCNLRCPGCDTKYTWDFN------YGKPGTPMSADEILADIKSLGY------KARGVSLTGGEP--LLQP   86 (212)
T ss_pred             cceeEEEEcCCCCCCCCCCCChhhhccc------ccCCCCccCHHHHHHHHHhcCC------CcceEEEeCCcC--CCcc
Confidence            4457888888899999999965322110      0112334457788888876522      234788999999  3445


Q ss_pred             HHHHHHHHHHHHcCCCCCcEEEEEecC
Q 012112          132 FVSSILDTLTDKFGLSLDAEISMEMDP  158 (471)
Q Consensus       132 ~l~~ll~~l~~~~~l~~~~eitiE~~P  158 (471)
                      .+..|++.+++.     +.++.+|+|-
T Consensus        87 ~l~~Ll~~l~~~-----g~~~~lETng  108 (212)
T COG0602          87 NLLELLELLKRL-----GFRIALETNG  108 (212)
T ss_pred             cHHHHHHHHHhC-----CceEEecCCC
Confidence            688899988864     3467788753

>PRK11121 nrdG anaerobic ribonucleotide reductase-activating protein; Provisional

Probab=96.67  E-value=0.0094  Score=53.75  Aligned_cols=78  Identities=13%  Similarity=0.206  Sum_probs=45.5

Q ss_pred             eEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCH--H
Q 012112           54 TSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPP--R  131 (471)
Q Consensus        54 ~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~--~  131 (471)
                      ...-|++--|+.+|.||.-+......      .+.......++.+++++....      .....|.|.||.|. +..  +
T Consensus        17 ~r~~if~~GCnl~C~~C~n~~~~~~~------~g~~~~~~~~~~il~~~~~~~------~~~~gvt~sGGEPl-~~~~~~   83 (154)
T PRK11121         17 TRCTLFVSGCVHQCPGCYNKSTWRLN------SGHPFTKEMEDQIIADLNDTR------IKRQGLSLSGGDPL-HPQNVP   83 (154)
T ss_pred             cEEEEEcCCCCCcCcCCCChhhccCC------CCcccCHHHHHHHHHHHHHhC------CCCCcEEEECCCcc-chhhHH
Confidence            34455557899999999876532110      011112334666666665331      11355778899994 333  6


Q ss_pred             HHHHHHHHHHHHc
Q 012112          132 FVSSILDTLTDKF  144 (471)
Q Consensus       132 ~l~~ll~~l~~~~  144 (471)
                      .+.+++..+++.+
T Consensus        84 ~l~~l~~~~k~~~   96 (154)
T PRK11121         84 DILKLVQRVKAEC   96 (154)
T ss_pred             HHHHHHHHHHHHC
Confidence            6667777777654

>COG5014 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=96.51  E-value=0.055  Score=48.99  Aligned_cols=115  Identities=15%  Similarity=0.172  Sum_probs=80.5

Q ss_pred             CeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCC--CHHHHHHHHHCCCCEEEEccCCCCHHHHHH
Q 012112          114 PLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTF--DARKMEELMDLGVNRVSLGVQAFQDELLKS  191 (471)
Q Consensus       114 ~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l--~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~  191 (471)
                      ..+.+-+.|+.|.+ .++++.++++.+-       +..+-+|+|--.+  ++...+.|...----|-+.+--.|++...+
T Consensus        91 g~d~vRiSG~EP~l-~~EHvlevIeLl~-------~~tFvlETNG~~~g~drslv~el~nr~nv~vRVsvKG~dpesF~k  162 (228)
T COG5014          91 GCDLVRISGAEPIL-GREHVLEVIELLV-------NNTFVLETNGLMFGFDRSLVDELVNRLNVLVRVSVKGWDPESFEK  162 (228)
T ss_pred             CCcEEEeeCCCccc-cHHHHHHHHHhcc-------CceEEEEeCCeEEecCHHHHHHHhcCCceEEEEEecCCCHHHHHH
Confidence            36778899999975 7788888887763       3478899987655  889888887633224566678889998887


Q ss_pred             cCC-CC-CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHH
Q 012112          192 CGR-AH-GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTV  240 (471)
Q Consensus       192 l~R-~~-t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~  240 (471)
                      +.- .. -..--.+|++.+.+.|+. +..-.++++-   .|+..+.|...+
T Consensus       163 IT~asp~~F~~QL~aLr~L~~~g~r-f~pA~~~~f~---~Ed~~k~Lak~L  209 (228)
T COG5014         163 ITGASPEYFRYQLKALRHLHGKGHR-FWPAVVYDFF---REDGLKELAKRL  209 (228)
T ss_pred             HhcCChHHHHHHHHHHHHHHhcCce-eeehhhhccc---hhhhHHHHHHHh
Confidence            752 22 245567788888888986 7777888773   344444444433

>KOG2876 consensus Molybdenum cofactor biosynthesis pathway protein [Coenzyme transport and metabolism]

Probab=96.18  E-value=0.0044  Score=59.55  Aligned_cols=137  Identities=16%  Similarity=0.263  Sum_probs=97.7

Q ss_pred             CeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC
Q 012112          114 PLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG  193 (471)
Q Consensus       114 ~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~  193 (471)
                      .++.+-+-||.|++.  .++..+...+.+.-++   .++.|+.|- .+....+-.+.++|...+.+.+.+...+-...+-
T Consensus        59 gv~knrLtggeptIr--~di~~i~~g~~~l~gL---ks~~ITtng-~vl~R~lp~lhkaglssiNiSldtl~~aKfa~~~  132 (323)
T KOG2876|consen   59 GVDKNRLTGGEPLIR--QDIVPIVAGLSSLPGL---KSIGITTNG-LVLARLLPQLHKAGLSSINISLDTLVRAKFAKLT  132 (323)
T ss_pred             hhhhhhhcCCCCccc--ccccchhhhhhcccch---hhhceeccc-hhhhhhhhHHHhhcccchhhhhhhhhHHHHHHHh
Confidence            367777889999885  4566666555543333   355666653 4677899999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHcCCCe--eEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChh
Q 012112          194 RAHGLKEVYEAIEIVKLCGVEN--WSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKF  260 (471)
Q Consensus       194 R~~t~~~~~~ai~~~~~~G~~~--v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l  260 (471)
                      |..+...+...++.+.+.|..+  +|+-.|=|+-|.-.=    ++-.+-+.+|-.|-+-.+++.-|-.+
T Consensus       133 rr~g~v~V~~~iq~a~~lgy~pvkvn~v~~k~~n~~ev~----Dfv~~tr~~p~DVrfIe~mpf~gn~~  197 (323)
T KOG2876|consen  133 RRKGFVKVWASIQLAIELGYNPVKVNCVVMKGLNEDEVF----DFVLLTRMRPLDVRFIEFMPFDGNKW  197 (323)
T ss_pred             hhccHHHHHHHHhHHhhhCCCCcceeeEEEeccCCCccc----ceeeecCCCCcceEEEEecccCCCcc
Confidence            9999999999999999988765  566666666443221    12222344555577777777666543

>TIGR03849 arch_ComA phosphosulfolactate synthase

Probab=95.93  E-value=0.25  Score=47.47  Aligned_cols=114  Identities=23%  Similarity=0.280  Sum_probs=83.3

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCC----------CCHHHHHHHHHCCCCEEEEccCCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGT----------FDARKMEELMDLGVNRVSLGVQAF  184 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~----------l~~e~l~~l~~~GvnrvsiGvQS~  184 (471)
                      ++.+-||+||.++.+.+.+++.++..+++ +        +.+.|+.          .=++.++..++.|++.|.|.-=|.
T Consensus        25 ID~lKfg~Gt~~l~~~~~l~eki~la~~~-~--------V~v~~GGtl~E~~~~q~~~~~Yl~~~k~lGf~~IEiS~G~~   95 (237)
T TIGR03849        25 ITFVKFGWGTSALIDRDIVKEKIEMYKDY-G--------IKVYPGGTLFEIAHSKGKFDEYLNECDELGFEAVEISDGSM   95 (237)
T ss_pred             eeeEEecCceEeeccHHHHHHHHHHHHHc-C--------CeEeCCccHHHHHHHhhhHHHHHHHHHHcCCCEEEEcCCcc
Confidence            78899999999999989999999888753 2        2233332          224677799999999987765554


Q ss_pred             CHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCC--C----CCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          185 QDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSL--P----HQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       185 ~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~Gl--P----gqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      +          .+.++..+.|+.+++.||. +-..  +|.  |    -.+.++|.+.++..++.|.++|-+=
T Consensus        96 ~----------i~~~~~~rlI~~~~~~g~~-v~~E--vG~K~~~~~~~~~~~~~i~~~~~~LeAGA~~ViiE  154 (237)
T TIGR03849        96 E----------ISLEERCNLIERAKDNGFM-VLSE--VGKKSPEKDSELTPDDRIKLINKDLEAGADYVIIE  154 (237)
T ss_pred             C----------CCHHHHHHHHHHHHhCCCe-Eecc--ccccCCcccccCCHHHHHHHHHHHHHCCCcEEEEe
Confidence            2          4567778899999999886 3322  232  2    1467888888888899999877543

This model finds the ComA (Coenzyme M biosynthesis A) protein, phosphosulfolactate synthase, in methanogenic archaea. The ComABC pathway is one of at least two pathways to the intermediate sulfopyruvate. Coenzyme M occurs rarely and sporadically outside of the archaea, as for expoxide metabolism in Xanthobacter autotrophicus Py2, but candidate phosphosulfolactate synthases from that and other species occur fall below the cutoff and outside the scope of this model. This model deliberately is narrower in scope than pfam02679.

>COG1313 PflX Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]

Probab=95.77  E-value=0.82  Score=45.00  Aligned_cols=209  Identities=17%  Similarity=0.089  Sum_probs=118.8

Q ss_pred             EEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           55 SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        55 ~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      |-=|....|..+|-||...-+..-.      .+.....+++..+..+.+...        .+.|-|-||.|+- ....+.
T Consensus       120 SgTVFFsgCnfrCVfCQNwdISq~~------~g~~v~~e~La~i~~~~~~~G--------akNvN~Vgg~Ptp-~lp~Il  184 (335)
T COG1313         120 SGTVFFSGCNFRCVFCQNWDISQFG------IGKEVTPEDLAEIILELRRHG--------AKNVNFVGGDPTP-HLPFIL  184 (335)
T ss_pred             CceEEecCcceEEEEecCccccccC------CCeEecHHHHHHHHHHHHHhc--------CcceeecCCCCCC-chHHHH
Confidence            4456667799999999765443111      123344566777777765432        4556677888875 223344


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEc-cCCCCHHHHHHcCCCC-CHHHHHHHHHHHHHc-
Q 012112          135 SILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLG-VQAFQDELLKSCGRAH-GLKEVYEAIEIVKLC-  211 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiG-vQS~~d~~L~~l~R~~-t~~~~~~ai~~~~~~-  211 (471)
                      +.+..+...      ..+--.+| ...|.|.++.|.  |+--|-+| +-=+||+--.+..+.- =.+-+.+++..+.+. 
T Consensus       185 e~l~~~~~~------iPvvwNSn-mY~s~E~l~lL~--gvVDiyL~DfKYgNdeca~kySkvp~Y~eVv~rn~~~~~~~~  255 (335)
T COG1313         185 EALRYASEN------IPVVWNSN-MYMSEETLKLLD--GVVDIYLPDFKYGNDECAEKYSKVPNYWEVVTRNILEAKEQV  255 (335)
T ss_pred             HHHHHHhcC------CCEEEecC-CccCHHHHHHhh--ccceeeecccccCCHHHHHHhhcCCchHHHHHHHHHHHHHhc
Confidence            444433332      22332333 357999999884  55556665 4445777666665544 456677788777666 


Q ss_pred             C-CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccC-CCCCCCCHHHHHHHHHHHHHHHH
Q 012112          212 G-VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTP-GEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       212 G-~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~-g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      | +- |. .|  -+||.-..=...-++++.+.-++++-+.-.-  .-.|-++..+- +--..++.    +-|+.|.+..+
T Consensus       256 g~~i-iR-HL--VlPghlecCTkpI~~wiae~~g~~~~vNiM~--QY~P~ykA~eypeI~R~lt~----eE~e~a~~~a~  325 (335)
T COG1313         256 GGLI-IR-HL--VLPGHLECCTKPILRWIAENLGNDVRVNIMF--QYRPEYKAEEYPEINRRLTR----EEYEKALEYAE  325 (335)
T ss_pred             CceE-EE-EE--ecCCchhhccHHHHHHHHHhCCCCeeEEehh--hccchhhhhhchhhcccCCH----HHHHHHHHHHH
Confidence            3 32 22 22  3688755547788999998877776655422  11232322111 11112333    44666777777


Q ss_pred             HCCCceec
Q 012112          290 SAGYRHYE  297 (471)
Q Consensus       290 ~~Gy~~ye  297 (471)
                      +.|+....
T Consensus       326 ~~gl~~~~  333 (335)
T COG1313         326 KLGLTNIL  333 (335)
T ss_pred             HcCCceee
Confidence            88887543

>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain

Probab=95.76  E-value=0.27  Score=48.38  Aligned_cols=102  Identities=18%  Similarity=0.196  Sum_probs=80.5

Q ss_pred             CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHH
Q 012112          129 PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIV  208 (471)
Q Consensus       129 ~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~  208 (471)
                      +.+.++++....+      .+..+.+-+++...+.+.++...+.|+..|.+.+            +....+.+.++++.+
T Consensus        57 ~~~~~~~i~~~~~------~~~~~~~~~~~~~~~~~~l~~a~~~gv~~iri~~------------~~~~~~~~~~~i~~a  118 (266)
T cd07944          57 DDEFLRRLLGDSK------GNTKIAVMVDYGNDDIDLLEPASGSVVDMIRVAF------------HKHEFDEALPLIKAI  118 (266)
T ss_pred             CHHHHHHHHhhhc------cCCEEEEEECCCCCCHHHHHHHhcCCcCEEEEec------------ccccHHHHHHHHHHH
Confidence            3455555544331      2468888899988888999999999999877765            224688999999999


Q ss_pred             HHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          209 KLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       209 ~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      ++.|+. |.+.++... +-+.+.+.+.++.+.+.+++.|++-
T Consensus       119 k~~G~~-v~~~~~~a~-~~~~~~~~~~~~~~~~~g~~~i~l~  158 (266)
T cd07944         119 KEKGYE-VFFNLMAIS-GYSDEELLELLELVNEIKPDVFYIV  158 (266)
T ss_pred             HHCCCe-EEEEEEeec-CCCHHHHHHHHHHHHhCCCCEEEEe
Confidence            999997 888888765 5789999999999999999987654

This family of bacterial enzymes is sequence-similar to 4-hydroxy-2-oxovalerate aldolase (HOA) but its exact function is unknown. This family includes the Bacteroides vulgatus Bvu_2661 protein and belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues t

>COG1964 Predicted Fe-S oxidoreductases [General function prediction only]

Probab=95.31  E-value=0.3  Score=50.72  Aligned_cols=115  Identities=19%  Similarity=0.270  Sum_probs=83.8

Q ss_pred             CeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCC--CHHHHHHHHHCCCCEEEEccCCCCHHHHHH
Q 012112          114 PLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTF--DARKMEELMDLGVNRVSLGVQAFQDELLKS  191 (471)
Q Consensus       114 ~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l--~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~  191 (471)
                      +...|-|.||.||+  .++|-+|+...++. +   -..+.+.+|--.+  +.+..+.|+++|+|.|-+.....+++....
T Consensus       110 ~~~aIq~tGGEPTv--r~DL~eiv~~a~e~-g---~~hVqinTnGirlA~~~~~~~~l~~ag~~tvYlsFDG~~e~~~~~  183 (475)
T COG1964         110 GANAVQFTGGEPTL--RDDLIEIIKIAREE-G---YDHVQLNTNGIRLAFDPEYVKKLREAGVNTVYLSFDGVTPKTNWK  183 (475)
T ss_pred             CCceeEecCCCccc--hhhHHHHHHHHhhc-C---ccEEEEccCceeeccCHHHHHHHHhcCCcEEEEecCCCCCCchhh
Confidence            35678899999997  56788888888764 2   2356666665544  689999999999999999999888888665


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCC-CCCHHHHHHHHHHHHh
Q 012112          192 CGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLP-HQTPQMWEESLRRTVG  241 (471)
Q Consensus       192 l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlP-gqT~e~~~~~l~~~~~  241 (471)
                      .     .-++..+++.++++|..+  +-|+-++- |-+..++-.-++++..
T Consensus       184 ~-----~~eIk~alen~r~~g~~s--vVLVptl~rgvNd~~lG~iirfa~~  227 (475)
T COG1964         184 N-----HWEIKQALENCRKAGLPS--VVLVPTLIRGVNDHELGAIIRFALN  227 (475)
T ss_pred             H-----hhhhHHHHHHHHhcCCCc--EEEEeehhcccChHHHHHHHHHHHh
Confidence            5     455666999999999874  34444442 3455566666677664

>COG1809 (2R)-phospho-3-sulfolactate synthase (PSL synthase, CoM biosynthesis) [Coenzyme transport and metabolism]

Probab=94.85  E-value=0.47  Score=44.76  Aligned_cols=121  Identities=17%  Similarity=0.110  Sum_probs=83.5

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKF-GLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG  193 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~-~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~  193 (471)
                      |+.|-||+||.++++.+++++-++..++.- ...++--.+.-+....--++.++..++.|++.|.|.==+.         
T Consensus        44 VDfvKfgwGT~~Li~kd~V~ekid~y~e~~i~v~pGGtlfe~a~~~~kvdeyl~e~~~lGfe~iEIS~G~i---------  114 (258)
T COG1809          44 VDFVKFGWGTSSLIDKDQVKEKIDMYKENDIYVFPGGTLFEIAYSQDKVDEYLNEAKELGFEAIEISNGTI---------  114 (258)
T ss_pred             eeeeeecccccccccHHHHHHHHHHHHHcCceecCCceEEEeehhcccHHHHHHHHHHcCccEEEecCCee---------
Confidence            788999999999999999999999887631 1111111111122233347999999999999988754332         


Q ss_pred             CCCCHHHHHHHHHHHHHcCCCeeEeeeecCCC----CCCHHHHHHHHHHHHhCCCCc
Q 012112          194 RAHGLKEVYEAIEIVKLCGVENWSLDLISSLP----HQTPQMWEESLRRTVGAQPKH  246 (471)
Q Consensus       194 R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlP----gqT~e~~~~~l~~~~~l~p~h  246 (471)
                       ..+.++-.+.|+.+.+.||. |-..+=--.|    -++.+++.+.+...++.+.+.
T Consensus       115 -~m~~eek~~lIe~a~d~Gf~-vlsEvGkk~~e~~~~l~~~d~~k~i~~dvdaGa~~  169 (258)
T COG1809         115 -PMSTEEKCRLIERAVDEGFM-VLSEVGKKDPESDSALSPDDRVKLINDDVDAGAEY  169 (258)
T ss_pred             -ecchHHHHHHHHHHHhcccE-EehhhcccCcchhhhcChHHHHHHHHHHHHcchHH
Confidence             34677788899999999997 3332211122    257888999998888887663

>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated

Probab=94.64  E-value=2.5  Score=43.08  Aligned_cols=87  Identities=18%  Similarity=0.166  Sum_probs=70.7

Q ss_pred             CcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCC
Q 012112          149 DAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQT  228 (471)
Q Consensus       149 ~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT  228 (471)
                      +..++.-+.|+.-+.+.++...+.|++.|-+..- .+           ..+.+.+.++.+|+.|+. +.+.++.. +.-+
T Consensus        77 ~~~~~~ll~pg~~~~~dl~~a~~~gvd~iri~~~-~~-----------e~~~~~~~i~~ak~~G~~-v~~~l~~a-~~~~  142 (337)
T PRK08195         77 QAKIAALLLPGIGTVDDLKMAYDAGVRVVRVATH-CT-----------EADVSEQHIGLARELGMD-TVGFLMMS-HMAP  142 (337)
T ss_pred             CCEEEEEeccCcccHHHHHHHHHcCCCEEEEEEe-cc-----------hHHHHHHHHHHHHHCCCe-EEEEEEec-cCCC
Confidence            4677877788877888999999999998877651 11           234678999999999997 88888877 5778


Q ss_pred             HHHHHHHHHHHHhCCCCcEEE
Q 012112          229 PQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       229 ~e~~~~~l~~~~~l~p~his~  249 (471)
                      ++.+.+.++.+.+.+++.|.+
T Consensus       143 ~e~l~~~a~~~~~~Ga~~i~i  163 (337)
T PRK08195        143 PEKLAEQAKLMESYGAQCVYV  163 (337)
T ss_pred             HHHHHHHHHHHHhCCCCEEEe
Confidence            999999999999999987644

>TIGR03217 4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase

Probab=94.58  E-value=0.9  Score=46.28  Aligned_cols=87  Identities=15%  Similarity=0.168  Sum_probs=71.1

Q ss_pred             CcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCC
Q 012112          149 DAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQT  228 (471)
Q Consensus       149 ~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT  228 (471)
                      ...+++-+.|+.-+.+.++...++|++.|-+..-            ....+.+.+.++.+|+.|+. +.+.+|... .-|
T Consensus        76 ~~~~~~ll~pg~~~~~dl~~a~~~gvd~iri~~~------------~~e~d~~~~~i~~ak~~G~~-v~~~l~~s~-~~~  141 (333)
T TIGR03217        76 RAKVAVLLLPGIGTVHDLKAAYDAGARTVRVATH------------CTEADVSEQHIGMARELGMD-TVGFLMMSH-MTP  141 (333)
T ss_pred             CCEEEEEeccCccCHHHHHHHHHCCCCEEEEEec------------cchHHHHHHHHHHHHHcCCe-EEEEEEccc-CCC
Confidence            4678888889877889999999999998887762            12234678999999999997 888888774 678


Q ss_pred             HHHHHHHHHHHHhCCCCcEEE
Q 012112          229 PQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       229 ~e~~~~~l~~~~~l~p~his~  249 (471)
                      ++.+.+.++.+.+.+++.|.+
T Consensus       142 ~e~l~~~a~~~~~~Ga~~i~i  162 (333)
T TIGR03217       142 PEKLAEQAKLMESYGADCVYI  162 (333)
T ss_pred             HHHHHHHHHHHHhcCCCEEEE
Confidence            999999999999999987644

Members of this protein family are 4-hydroxy-2-oxovalerate aldolase, also called 4-hydroxy-2-ketovalerate aldolase and 2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of the pathway for the meta-cleavage of catechol, produces pyruvate and acetaldehyde. Acetaldehyde is then converted by acetaldehyde dehydrogenase (acylating) (DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are tightly associated.

>PLN02746 hydroxymethylglutaryl-CoA lyase

Probab=93.80  E-value=0.94  Score=46.34  Aligned_cols=88  Identities=13%  Similarity=0.086  Sum_probs=67.8

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCHHHHH-HcCCCC--CHHHHHHHHHHHHHcCCCeeEeee--ecCCCCC---CHHHHH
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQDELLK-SCGRAH--GLKEVYEAIEIVKLCGVENWSLDL--ISSLPHQ---TPQMWE  233 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d~~L~-~l~R~~--t~~~~~~ai~~~~~~G~~~v~~Dl--I~GlPgq---T~e~~~  233 (471)
                      +.+-++...++|+..|.+.+ |.+|..++ .+++..  ..+.+.++++.+++.|+. |.+.+  .+|.|..   +++.+.
T Consensus       123 n~~die~A~~~g~~~v~i~~-s~Sd~h~~~n~~~t~~e~l~~~~~~v~~Ak~~Gl~-v~~~is~~fg~p~~~r~~~~~l~  200 (347)
T PLN02746        123 NLKGFEAAIAAGAKEVAVFA-SASESFSKSNINCSIEESLVRYREVALAAKKHSIP-VRGYVSCVVGCPIEGPVPPSKVA  200 (347)
T ss_pred             CHHHHHHHHHcCcCEEEEEE-ecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCe-EEEEEEeeecCCccCCCCHHHHH
Confidence            77888888999999999999 66666554 456543  455666899999999987 76555  6888877   467788


Q ss_pred             HHHHHHHhCCCCcEEEEe
Q 012112          234 ESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       234 ~~l~~~~~l~p~his~y~  251 (471)
                      +.++.+.+.+++.|++-.
T Consensus       201 ~~~~~~~~~Gad~I~l~D  218 (347)
T PLN02746        201 YVAKELYDMGCYEISLGD  218 (347)
T ss_pred             HHHHHHHHcCCCEEEecC
Confidence            888888999999876543

>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members

Probab=93.30  E-value=0.74  Score=44.18  Aligned_cols=128  Identities=13%  Similarity=0.147  Sum_probs=87.1

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHH-HHHHHHCCCCEEEEccCCCCHHHHHHcC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARK-MEELMDLGVNRVSLGVQAFQDELLKSCG  193 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~-l~~l~~~GvnrvsiGvQS~~d~~L~~l~  193 (471)
                      ++.|=+|  .| ..+++..+.+-...+....    .++..-+++...+-+. ++.+++.|++.+.+-+-.-+......++
T Consensus        28 v~~iEvg--~~-~~~~~~~~~v~~~~~~~~~----~~~~~~~~~~~~~i~~~~~~~~~~g~~~i~i~~~~s~~~~~~~~~  100 (237)
T PF00682_consen   28 VDYIEVG--FP-FASEDDFEQVRRLREALPN----ARLQALCRANEEDIERAVEAAKEAGIDIIRIFISVSDLHIRKNLN  100 (237)
T ss_dssp             TSEEEEE--HC-TSSHHHHHHHHHHHHHHHS----SEEEEEEESCHHHHHHHHHHHHHTTSSEEEEEEETSHHHHHHHTC
T ss_pred             CCEEEEc--cc-ccCHHHHHHhhhhhhhhcc----cccceeeeehHHHHHHHHHhhHhccCCEEEecCcccHHHHHHhhc
Confidence            5666676  33 2466555554333332211    4677667765444444 6667789999999977665556666777


Q ss_pred             CCC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          194 RAH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       194 R~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      +..  ..+.+.++++.+++.|+. +.+.++... .-+++.+.+..+.+.+++++.|.+-.
T Consensus       101 ~~~~~~~~~~~~~v~~ak~~g~~-v~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~i~l~D  158 (237)
T PF00682_consen  101 KSREEALERIEEAVKYAKELGYE-VAFGCEDAS-RTDPEELLELAEALAEAGADIIYLAD  158 (237)
T ss_dssp             SHHHHHHHHHHHHHHHHHHTTSE-EEEEETTTG-GSSHHHHHHHHHHHHHHT-SEEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCc-eEeCccccc-cccHHHHHHHHHHHHHcCCeEEEeeC
Confidence            643  467788889999999997 777766553 56789999999999999999886553

are a sub-families of this Pfam.; InterPro: IPR000891 Pyruvate carboxylase (6.4.1.1 from EC) (PC), a member of the biotin-dependent enzyme family, is involved in the gluconeogenesis by mediating the carboxylation of pyruvate to oxaloacetate. Biotin-dependent carboxylase enzymes perform a two step reaction. Enzyme-bound biotin is first carboxylated by bicarbonate and ATP and the carboxyl group temporarily bound to biotin is subsequently transferred to an acceptor substrate such as pyruvate []. PC has three functional domains: a biotin carboxylase (BC) domain, a carboxyltransferase (CT) domain which perform the second part of the reaction and a biotinyl domain [, ]. The mechanism by which the carboxyl group is transferred from the carboxybiotin to the pyruvate is not well understood. The pyruvate carboxyltransferase domain is also found in other pyruvate binding enzymes and acetyl-CoA dependent enzymes suggesting that this domain can be associated with different enzymatic activities. This domain is found towards the N-terminal region of various aldolase enzymes. This N-terminal TIM barrel domain [] interacts with the C-terminal domain. The C-terminal DmpG_comm domain (IPR012425 from INTERPRO) is thought to promote heterodimerisation with members of IPR003361 from INTERPRO to form a bifunctional aldolase-dehydrogenase []. ; GO: 0003824 catalytic activity; PDB: 3MP5_E 3MP3_E 2CW6_E 3MP4_D 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1YDN_B 3RMJ_A ....

>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain

Probab=93.20  E-value=1.5  Score=42.89  Aligned_cols=124  Identities=14%  Similarity=0.152  Sum_probs=83.1

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ++.|=+|  -|.. .+... +.++.+.+.   .....+..-+++   +.+.++...++|++.|.+.+=.-+....+.+++
T Consensus        34 v~~iE~g--~p~~-~~~~~-e~~~~l~~~---~~~~~~~~~~r~---~~~~v~~a~~~g~~~i~i~~~~s~~~~~~~~~~  103 (259)
T cd07939          34 VDEIEVG--IPAM-GEEER-EAIRAIVAL---GLPARLIVWCRA---VKEDIEAALRCGVTAVHISIPVSDIHLAHKLGK  103 (259)
T ss_pred             CCEEEEe--cCCC-CHHHH-HHHHHHHhc---CCCCEEEEeccC---CHHHHHHHHhCCcCEEEEEEecCHHHHHHHhCC
Confidence            5666665  5654 44332 344555442   123455544443   577788888999999998884434445567776


Q ss_pred             CC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          195 AH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       195 ~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      ..  ..+.+.++++.+++.|+. |.+.++..- .-+++.+.+.++.+.+.+++.|++-
T Consensus       104 ~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~~-~~~~~~~~~~~~~~~~~G~~~i~l~  159 (259)
T cd07939         104 DRAWVLDQLRRLVGRAKDRGLF-VSVGAEDAS-RADPDFLIEFAEVAQEAGADRLRFA  159 (259)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCe-EEEeeccCC-CCCHHHHHHHHHHHHHCCCCEEEeC
Confidence            43  446677899999999996 777766553 3568999999999999999876543

FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox

>TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases

Probab=93.09  E-value=2  Score=44.23  Aligned_cols=125  Identities=15%  Similarity=0.208  Sum_probs=87.9

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ++.|=+|  .|.. +++..+ .++.+.+.   ....++..-+++   ..+.++...++|+..|.+-+=+-+-...+.+++
T Consensus        36 v~~IEvG--~p~~-~~~~~e-~i~~i~~~---~~~~~v~~~~r~---~~~di~~a~~~g~~~i~i~~~~Sd~~~~~~~~~  105 (363)
T TIGR02090        36 VDVIEAG--FPIA-SEGEFE-AIKKISQE---GLNAEICSLARA---LKKDIDKAIDCGVDSIHTFIATSPIHLKYKLKK  105 (363)
T ss_pred             CCEEEEe--CCCC-ChHHHH-HHHHHHhc---CCCcEEEEEccc---CHHHHHHHHHcCcCEEEEEEcCCHHHHHHHhCC
Confidence            5555553  6654 555543 34444332   334677766654   577789999999999888775555555566776


Q ss_pred             CC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          195 AH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       195 ~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      ..  ..+.+.++++.+++.|+. |.+.+.-+ ..-+.+.+.+.++.+.+.+++.|.+-.
T Consensus       106 ~~~~~~~~~~~~i~~ak~~G~~-v~~~~eda-~r~~~~~l~~~~~~~~~~g~~~i~l~D  162 (363)
T TIGR02090       106 SRDEVLEKAVEAVEYAKEHGLI-VEFSAEDA-TRTDIDFLIKVFKRAEEAGADRINIAD  162 (363)
T ss_pred             CHHHHHHHHHHHHHHHHHcCCE-EEEEEeec-CCCCHHHHHHHHHHHHhCCCCEEEEeC
Confidence            53  567788899999999997 88877655 356789999999999999999876654

Methanogens, then should and aparrently do contain all three of these enzymes. Unfortunately, phylogenetic trees do not resolve into three unambiguous clades, making assignment of function to particular genes problematic. Other archaea which lack a threonine dehydratase (mainly Euryarchaeota) should contain both a CimA and a LeuA gene. This is true of, for example, archaeoglobus fulgidis, but not for the Pyrococci which have none in this clade, but one in TIGR00973 and one in TIGRT00977 which may fulfill these roles. Other species which have only one hit to this model and lack threonine dehydratase are very likely LeuA enzymes.

>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain

Probab=92.95  E-value=3  Score=41.41  Aligned_cols=87  Identities=13%  Similarity=0.111  Sum_probs=67.5

Q ss_pred             HHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC--CHHHHHHHHHHHHHcCCCeeEeeeec-CCC-CCCHHHHHHHHHH
Q 012112          163 ARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH--GLKEVYEAIEIVKLCGVENWSLDLIS-SLP-HQTPQMWEESLRR  238 (471)
Q Consensus       163 ~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~--t~~~~~~ai~~~~~~G~~~v~~DlI~-GlP-gqT~e~~~~~l~~  238 (471)
                      ..-++...++|++.|.+.+=+-+....+.+++..  ..+++.++++.+++.|+. |.+.+.- |-| .-+++.+.+.++.
T Consensus        77 ~~~~~~A~~~g~~~i~i~~~~S~~h~~~~~~~t~~e~l~~~~~~i~~a~~~G~~-v~~~~~d~~~~~r~~~~~~~~~~~~  155 (280)
T cd07945          77 DKSVDWIKSAGAKVLNLLTKGSLKHCTEQLRKTPEEHFADIREVIEYAIKNGIE-VNIYLEDWSNGMRDSPDYVFQLVDF  155 (280)
T ss_pred             HHHHHHHHHCCCCEEEEEEeCCHHHHHHHHCcCHHHHHHHHHHHHHHHHhCCCE-EEEEEEeCCCCCcCCHHHHHHHHHH
Confidence            4568888899999999999665566667777653  566788889999999986 8877773 333 4468889999999


Q ss_pred             HHhCCCCcEEEE
Q 012112          239 TVGAQPKHVSVY  250 (471)
Q Consensus       239 ~~~l~p~his~y  250 (471)
                      +.+++++.|++-
T Consensus       156 ~~~~G~~~i~l~  167 (280)
T cd07945         156 LSDLPIKRIMLP  167 (280)
T ss_pred             HHHcCCCEEEec
Confidence            999999987654

Citramalate synthase (CMS) catalyzes the conversion of pyruvate and acetyl-CoA to (R)-citramalate in the first dedicated step of the citramalate pathway. Citramalate is only found in Leptospira interrogans and a few other microorganisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center con

>cd07948 DRE_TIM_HCS Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain

Probab=92.91  E-value=2.1  Score=42.10  Aligned_cols=123  Identities=18%  Similarity=0.174  Sum_probs=80.0

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ++.|=+|.  |.. .+.. .+.++.+.+. ..  ...+..-+++   +.+-++...++|++.|.+-+=.-+....+.+++
T Consensus        36 v~~IEvG~--P~~-~~~~-~~~~~~l~~~-~~--~~~v~~~~r~---~~~di~~a~~~g~~~i~i~~~~S~~~~~~~~~~  105 (262)
T cd07948          36 VDYIELTS--PAA-SPQS-RADCEAIAKL-GL--KAKILTHIRC---HMDDARIAVETGVDGVDLVFGTSPFLREASHGK  105 (262)
T ss_pred             CCEEEEEC--CCC-CHHH-HHHHHHHHhC-CC--CCcEEEEecC---CHHHHHHHHHcCcCEEEEEEecCHHHHHHHhCC
Confidence            67777763  654 4433 3334444332 22  2445444444   577788889999999888774433334445555


Q ss_pred             C--CCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEE
Q 012112          195 A--HGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       195 ~--~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~  249 (471)
                      .  ...+.+.++++.+++.|+. |.+.++-.+ +-+++.+.+.++.+.+++++.|++
T Consensus       106 ~~~e~~~~~~~~i~~a~~~G~~-v~~~~eda~-r~~~~~l~~~~~~~~~~g~~~i~l  160 (262)
T cd07948         106 SITEIIESAVEVIEFVKSKGIE-VRFSSEDSF-RSDLVDLLRVYRAVDKLGVNRVGI  160 (262)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCe-EEEEEEeeC-CCCHHHHHHHHHHHHHcCCCEEEE
Confidence            4  3456678888999999987 888875433 234788888889999999987654

Homocitrate synthase (HCS) catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, the first step in the lysine biosynthesis pathway. This family includes the Yarrowia lipolytica LYS1 protein as well as the Saccharomyces cerevisiae LYS20 and LYS21 proteins. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. Th

>cd07940 DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain

Probab=92.74  E-value=2.5  Score=41.50  Aligned_cols=123  Identities=16%  Similarity=0.209  Sum_probs=83.8

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCC----CCEEEEccCCCCHH-HH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLG----VNRVSLGVQAFQDE-LL  189 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~G----vnrvsiGvQS~~d~-~L  189 (471)
                      ++.|=+|  .|. .+++.. +.++.+.+..   ++.++..-+++.   .+.++...++|    ++.|.+-+ |.+|. ..
T Consensus        34 v~~iEvg--~~~-~~~~~~-~~~~~l~~~~---~~~~~~~l~r~~---~~~v~~a~~~~~~~~~~~i~i~~-~~s~~~~~  102 (268)
T cd07940          34 VDVIEAG--FPA-ASPGDF-EAVKRIAREV---LNAEICGLARAV---KKDIDAAAEALKPAKVDRIHTFI-ATSDIHLK  102 (268)
T ss_pred             CCEEEEe--CCC-CCHHHH-HHHHHHHHhC---CCCEEEEEccCC---HhhHHHHHHhCCCCCCCEEEEEe-cCCHHHHH
Confidence            5666665  344 255554 4456665542   356777776653   55566667777    99888877 45554 45


Q ss_pred             HHcCCCC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          190 KSCGRAH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       190 ~~l~R~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      +.+++..  ..+.+.++++.+++.|+. |.+..+.+- .-+++.+.+.++.+.+++++.|++-
T Consensus       103 ~~~~~~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~~-~~~~~~~~~~~~~~~~~G~~~i~l~  163 (268)
T cd07940         103 YKLKKTREEVLERAVEAVEYAKSHGLD-VEFSAEDAT-RTDLDFLIEVVEAAIEAGATTINIP  163 (268)
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHcCCe-EEEeeecCC-CCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            5677653  457788899999999986 776665543 3578889999999999999877543

2-isopropylmalate synthase (IPMS) catalyzes an aldol-type condensation of acetyl-CoA and 2-oxoisovalerate yielding 2-isopropylmalate and CoA, the first committed step in leucine biosynthesis. This family includes the Arabidopsis thaliana IPMS1 and IPMS2 proteins, the Glycine max GmN56 protein, and the Brassica insularis BatIMS protein. This family also includes a group of archeal IPMS-like proteins represented by the Methanocaldococcus jannaschii AksA protein. AksA catalyzes the condensation of alpha-ketoglutarate and acetyl-CoA to form trans-homoaconitate, one of 13 steps in the conversion of alpha-ketoglutarate and acetylCoA to alpha-ketosuberate, a precursor to coenzyme B and biotin. AksA also catalyzes the condensation of alpha-ketoadipate or alpha-ketopimelate with acetylCoA to form, respectively, the (R)-homocitrate homologs (R)-2-hydroxy-1,2,5-pentanetricarboxylic acid and (R)-2-h

>cd07938 DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain

Probab=92.70  E-value=2.1  Score=42.31  Aligned_cols=97  Identities=20%  Similarity=0.186  Sum_probs=74.1

Q ss_pred             CcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCC--CCHHHHHHHHHHHHHcCCCeeEeeee--cCC
Q 012112          149 DAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRA--HGLKEVYEAIEIVKLCGVENWSLDLI--SSL  224 (471)
Q Consensus       149 ~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~--~t~~~~~~ai~~~~~~G~~~v~~DlI--~Gl  224 (471)
                      +.+++.-+ +   +.+-++...++|+..|.+.+-+-+-...+.+++.  ...+.+.++++.+++.|.. +.+.++  +|.
T Consensus        66 ~~~~~~~~-~---~~~dv~~A~~~g~~~i~i~~~~Sd~~~~~~~~~s~~~~~~~~~~~v~~ak~~G~~-v~~~i~~~f~~  140 (274)
T cd07938          66 GVRYSALV-P---NLRGAERALAAGVDEVAVFVSASETFSQKNINCSIAESLERFEPVAELAKAAGLR-VRGYVSTAFGC  140 (274)
T ss_pred             CCEEEEEC-C---CHHHHHHHHHcCcCEEEEEEecCHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEeEecC
Confidence            45665554 3   5667888889999999998888777777788876  3567788899999999987 666655  555


Q ss_pred             CCC---CHHHHHHHHHHHHhCCCCcEEEE
Q 012112          225 PHQ---TPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       225 Pgq---T~e~~~~~l~~~~~l~p~his~y  250 (471)
                      |.+   +.+.+.+.++.+.+++++.|.+-
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~Ga~~i~l~  169 (274)
T cd07938         141 PYEGEVPPERVAEVAERLLDLGCDEISLG  169 (274)
T ss_pred             CCCCCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            655   67778888888999999876543

3-hydroxy-3-methylglutaryl-CoA lyase (HMGL) catalyzes the cleavage of HMG-CoA to acetyl-CoA and acetoacetate, one of the terminal steps in ketone body generation and leucine degradation, and is a key enzyme in the pathway that supplies metabolic fuel to extrahepatic tissues. Mutations in HMGL cause a human autosomal recessive disorder called primary metabolic aciduria that affects ketogenesis and leucine catabolism and can be fatal due to an inability to tolerate hypoglycemia. HMGL has a TIM barrel domain with a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. The cleavage of HMG-CoA requires the presence of a divalent cation like Mg2+ or Mn2+, and the reaction is thought to involve general acid/base catalysis. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropy

>cd07937 DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain

Probab=92.25  E-value=1.6  Score=43.14  Aligned_cols=84  Identities=13%  Similarity=0.098  Sum_probs=65.6

Q ss_pred             EEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeec-CCCCCCHHHH
Q 012112          154 MEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLIS-SLPHQTPQMW  232 (471)
Q Consensus       154 iE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~-GlPgqT~e~~  232 (471)
                      ++..|.++.++.++...++|+..|.+.+-.- +           .+.+.++++.+++.|+. +...+++ .-+.-+++.+
T Consensus        85 ~~~~p~~~~~~di~~~~~~g~~~iri~~~~~-~-----------~~~~~~~i~~ak~~G~~-v~~~i~~~~~~~~~~~~~  151 (275)
T cd07937          85 YRHYPDDVVELFVEKAAKNGIDIFRIFDALN-D-----------VRNLEVAIKAVKKAGKH-VEGAICYTGSPVHTLEYY  151 (275)
T ss_pred             ccCCCcHHHHHHHHHHHHcCCCEEEEeecCC-h-----------HHHHHHHHHHHHHCCCe-EEEEEEecCCCCCCHHHH
Confidence            3345667789999999999999888866432 2           57899999999999986 6655543 2267789999


Q ss_pred             HHHHHHHHhCCCCcEEEE
Q 012112          233 EESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       233 ~~~l~~~~~l~p~his~y  250 (471)
                      .+.++.+.+.+++.|++-
T Consensus       152 ~~~~~~~~~~Ga~~i~l~  169 (275)
T cd07937         152 VKLAKELEDMGADSICIK  169 (275)
T ss_pred             HHHHHHHHHcCCCEEEEc
Confidence            999999999999987654

This family includes the carboxyltransferase domains of pyruvate carboxylase (PC) and the transcarboxylase (TC) 5S subunit. Transcarboxylase 5S is a cobalt-dependent metalloenzyme subunit of the biotin-dependent transcarboxylase multienzyme complex. Transcarboxylase 5S transfers carbon dioxide from the 1.3S biotin to pyruvate in the second of two carboxylation reactions catalyzed by TC. The first reaction involves the transfer of carbon dioxide from methylmalonyl-CoA to the 1.3S biotin, and is catalyzed by the 12S subunit. These two steps allow a carboxylate group to be transferred from oxaloacetate to propionyl-CoA to yield pyruvate and methylmalonyl-CoA. The catalytic domain of transcarboxylase 5S has a canonical TIM-barrel fold with a large C-terminal extension that forms a funnel leading to the active site. Transcarboxylase 5S forms a homodimer and there are six dimers per complex

>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR

Probab=92.07  E-value=0.79  Score=38.98  Aligned_cols=71  Identities=15%  Similarity=0.177  Sum_probs=54.4

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++.+..|.+-. .+...+++|+++|||+...+.                  .+.|.-.+.|| ++
T Consensus        32 ~iL~~l~~~~~~t~~ela~~~~~~~~-tvs~~l~~Le~~GlI~r~~~~------------------~D~R~~~v~LT-~~   91 (118)
T TIGR02337        32 RILRILAEQGSMEFTQLANQACILRP-SLTGILARLERDGLVTRLKAS------------------NDQRRVYISLT-PK   91 (118)
T ss_pred             HHHHHHHHcCCcCHHHHHHHhCCCch-hHHHHHHHHHHCCCEEeccCC------------------CCCCeeEEEEC-Hh
Confidence            45566666788999999999998865 567899999999999875321                  12344579997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus        92 G~~~~~~~~~~  102 (118)
T TIGR02337        92 GQALYASLSPQ  102 (118)
T ss_pred             HHHHHHHhhHH
Confidence            99998877543

This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.

>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A

Probab=92.06  E-value=0.59  Score=35.30  Aligned_cols=61  Identities=21%  Similarity=0.275  Sum_probs=40.7

Q ss_pred             HHHHhcc-ccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          374 VLMLSFR-TARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       374 ~~~~~Lr-~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      .++..+. ...++...++.+.++.+.. .+...++.|++.|||+...+.                  ...|.-+++|| +
T Consensus         7 ~vL~~l~~~~~~~t~~~l~~~~~~~~~-~vs~~i~~L~~~glv~~~~~~------------------~d~R~~~~~LT-~   66 (68)
T PF13463_consen    7 QVLRALAHSDGPMTQSDLAERLGISKS-TVSRIIKKLEEKGLVEKERDP------------------HDKRSKRYRLT-P   66 (68)
T ss_dssp             HHHHHHT--TS-BEHHHHHHHTT--HH-HHHHHHHHHHHTTSEEEEEES------------------SCTTSEEEEE--H
T ss_pred             HHHHHHHccCCCcCHHHHHHHHCcCHH-HHHHHHHHHHHCCCEEecCCC------------------CcCCeeEEEeC-C
Confidence            3444555 5667889999999998865 456899999999999765321                  13455579997 8


Q ss_pred             hh
Q 012112          453 EG  454 (471)
Q Consensus       453 ~G  454 (471)
                      +|
T Consensus        67 ~G   68 (68)
T PF13463_consen   67 AG   68 (68)
T ss_dssp             HH
T ss_pred             CC
Confidence            87

>TIGR02660 nifV_homocitr homocitrate synthase NifV

Probab=91.67  E-value=5.1  Score=41.30  Aligned_cols=123  Identities=11%  Similarity=0.130  Sum_probs=84.0

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ++.|=+|  .|+. ++... +.++.+.+..   ...+++.-+++   +.+.++...++|+..|.+-+=+-+-...+.+++
T Consensus        37 v~~IEvG--~p~~-~~~~~-e~i~~i~~~~---~~~~i~~~~r~---~~~di~~a~~~g~~~i~i~~~~Sd~~~~~~~~~  106 (365)
T TIGR02660        37 VDELEVG--IPAM-GEEER-AVIRAIVALG---LPARLMAWCRA---RDADIEAAARCGVDAVHISIPVSDLQIEAKLRK  106 (365)
T ss_pred             CCEEEEe--CCCC-CHHHH-HHHHHHHHcC---CCcEEEEEcCC---CHHHHHHHHcCCcCEEEEEEccCHHHHHHHhCc
Confidence            5666664  6764 55443 3345554431   23566655554   578889999999999999884444445556776


Q ss_pred             CC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEE
Q 012112          195 AH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       195 ~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~  249 (471)
                      ..  ..+.+.++++.+++.|+. |.+.+..+ +.-+.+.+.+.++.+.+.+++.|.+
T Consensus       107 s~~e~l~~~~~~i~~ak~~g~~-v~~~~ed~-~r~~~~~l~~~~~~~~~~Ga~~i~l  161 (365)
T TIGR02660       107 DRAWVLERLARLVSFARDRGLF-VSVGGEDA-SRADPDFLVELAEVAAEAGADRFRF  161 (365)
T ss_pred             CHHHHHHHHHHHHHHHHhCCCE-EEEeecCC-CCCCHHHHHHHHHHHHHcCcCEEEE
Confidence            53  345566899999999987 78776654 3456888888889999999987653

This family consists of the NifV clade of homocitrate synthases, most of which are found in operons for nitrogen fixation. Members are closely homologous to enzymes that include 2-isopropylmalate synthase, (R)-citramalate synthase, and homocitrate synthases associated with other processes. The homocitrate made by this enzyme becomes a part of the iron-molybdenum cofactor of nitrogenase.

>PRK11512 DNA-binding transcriptional repressor MarR; Provisional

Probab=91.61  E-value=1  Score=39.83  Aligned_cols=69  Identities=16%  Similarity=0.171  Sum_probs=52.3

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....|+...++.+..|.+.. .+...++.|++.|||....+.                  -+.|.-.|.|| ++
T Consensus        44 ~vL~~l~~~~~~t~~eLa~~l~i~~~-tvsr~l~~Le~~GlI~R~~~~------------------~DrR~~~l~LT-~~  103 (144)
T PRK11512         44 KVLCSIRCAACITPVELKKVLSVDLG-ALTRMLDRLVCKGWVERLPNP------------------NDKRGVLVKLT-TS  103 (144)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeccCc------------------ccCCeeEeEEC-hh
Confidence            44555555678999999999999864 467889999999999875321                  13455579997 99


Q ss_pred             hhchHHHHH
Q 012112          454 GFLLSNELI  462 (471)
Q Consensus       454 G~~~~n~i~  462 (471)
                      |..+.+.+.
T Consensus       104 G~~~~~~~~  112 (144)
T PRK11512        104 GAAICEQCH  112 (144)
T ss_pred             HHHHHHHHH
Confidence            999877653

>PRK11858 aksA trans-homoaconitate synthase; Reviewed

Probab=91.48  E-value=5.5  Score=41.32  Aligned_cols=124  Identities=16%  Similarity=0.169  Sum_probs=86.5

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      |+.|=+|  .|.. ++...+ .++.+.+. +  ....+..-++   ...+.++...++|+++|.+.+-+-+-...+.+++
T Consensus        40 V~~IE~G--~p~~-~~~~~e-~i~~i~~~-~--~~~~i~~~~r---~~~~di~~a~~~g~~~i~i~~~~Sd~h~~~~~~~  109 (378)
T PRK11858         40 VDQIEAG--FPAV-SEDEKE-AIKAIAKL-G--LNASILALNR---AVKSDIDASIDCGVDAVHIFIATSDIHIKHKLKK  109 (378)
T ss_pred             CCEEEEe--CCCc-ChHHHH-HHHHHHhc-C--CCeEEEEEcc---cCHHHHHHHHhCCcCEEEEEEcCCHHHHHHHhCC
Confidence            5666554  7765 554433 34555442 2  2344444433   3577788889999999999997766667777876


Q ss_pred             CC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          195 AH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       195 ~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      ..  ..+.+.++++.+++.|+. |.+....+. .-+.+.+.+.++.+.+.+++.|.+-
T Consensus       110 s~~~~l~~~~~~v~~a~~~G~~-v~~~~ed~~-r~~~~~l~~~~~~~~~~Ga~~I~l~  165 (378)
T PRK11858        110 TREEVLERMVEAVEYAKDHGLY-VSFSAEDAS-RTDLDFLIEFAKAAEEAGADRVRFC  165 (378)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCe-EEEEeccCC-CCCHHHHHHHHHHHHhCCCCEEEEe
Confidence            53  456677789999999997 888766553 4578889999999999999987654

>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional

Probab=91.39  E-value=1.4  Score=43.84  Aligned_cols=108  Identities=14%  Similarity=0.140  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC--CHHHHHHHHHHHHHc
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH--GLKEVYEAIEIVKLC  211 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~--t~~~~~~ai~~~~~~  211 (471)
                      ++.+..|.+.    .+..+..-+ |   +.+-++.-.++|++.|.+.+-.-+-...+.+++..  ..+.+.++++.+++.
T Consensus        61 ~e~~~~l~~~----~~~~~~~l~-~---~~~~ie~A~~~g~~~v~i~~~~s~~~~~~n~~~~~~e~l~~~~~~v~~ak~~  132 (287)
T PRK05692         61 AEVMAGIQRR----PGVTYAALT-P---NLKGLEAALAAGADEVAVFASASEAFSQKNINCSIAESLERFEPVAEAAKQA  132 (287)
T ss_pred             HHHHHhhhcc----CCCeEEEEe-c---CHHHHHHHHHcCCCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc
Confidence            4555555431    234454332 3   56777888899999999987555555566677653  456788999999999


Q ss_pred             CCCeeEeeee--cCCCCC---CHHHHHHHHHHHHhCCCCcEEEE
Q 012112          212 GVENWSLDLI--SSLPHQ---TPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       212 G~~~v~~DlI--~GlPgq---T~e~~~~~l~~~~~l~p~his~y  250 (471)
                      |+. +...+.  +|.|..   +++.+.+..+.+.+++++.|.+-
T Consensus       133 g~~-v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~G~d~i~l~  175 (287)
T PRK05692        133 GVR-VRGYVSCVLGCPYEGEVPPEAVADVAERLFALGCYEISLG  175 (287)
T ss_pred             CCE-EEEEEEEEecCCCCCCCCHHHHHHHHHHHHHcCCcEEEec
Confidence            986 665555  576776   78889999999999999977543

>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein

Probab=90.66  E-value=1.4  Score=35.60  Aligned_cols=70  Identities=17%  Similarity=0.185  Sum_probs=51.0

Q ss_pred             hccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhch
Q 012112          378 SFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLL  457 (471)
Q Consensus       378 ~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~  457 (471)
                      -|....++...++.+.++.+.. .+...+..|++.|++....+.                  -+.|.-++.|| ++|..+
T Consensus        18 ~l~~~~~~~~~~la~~~~~s~~-~i~~~l~~L~~~g~v~~~~~~------------------~~~r~~~~~lT-~~g~~~   77 (101)
T smart00347       18 ILYEEGPLSVSELAKRLGVSPS-TVTRVLDRLEKKGLIRRLPSP------------------EDRRSVLVSLT-EEGREL   77 (101)
T ss_pred             HHHHcCCcCHHHHHHHHCCCch-hHHHHHHHHHHCCCeEecCCC------------------CCCCeEEEEEC-HhHHHH
Confidence            3333456889999999988743 467899999999999865321                  13455578997 999999


Q ss_pred             HHHHHHHHHh
Q 012112          458 SNELISHAFG  467 (471)
Q Consensus       458 ~n~i~~~~~~  467 (471)
                      .+.+...+..
T Consensus        78 ~~~~~~~~~~   87 (101)
T smart00347       78 IEELLEARHE   87 (101)
T ss_pred             HHHHHHHHHH
Confidence            9887666543

>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated

Probab=90.64  E-value=5.3  Score=39.21  Aligned_cols=117  Identities=15%  Similarity=0.187  Sum_probs=66.6

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHC--C---CCEEEEccCCCCHHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL--G---VNRVSLGVQAFQDELL  189 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~--G---vnrvsiGvQS~~d~~L  189 (471)
                      .+-|-+|++++.--..+.+..+++.+++..+    ..+++.    +.+.+.++.--++  |   +|.||..-+. +++++
T Consensus        39 AdiIDVg~~~~~~eE~~r~~~~v~~l~~~~~----~plsID----T~~~~v~eaaL~~~~G~~iINsIs~~~~~-~~~~~  109 (261)
T PRK07535         39 ADYLDVNAGTAVEEEPETMEWLVETVQEVVD----VPLCID----SPNPAAIEAGLKVAKGPPLINSVSAEGEK-LEVVL  109 (261)
T ss_pred             CCEEEECCCCCchhHHHHHHHHHHHHHHhCC----CCEEEe----CCCHHHHHHHHHhCCCCCEEEeCCCCCcc-CHHHH
Confidence            6778899997643334566677777766543    335544    4455666555554  6   3444432222 33443


Q ss_pred             HHcC-------------C--CCC----HHHHHHHHHHHHHcCC--CeeEeeeecCCCCCCHHHHHHHHHHHH
Q 012112          190 KSCG-------------R--AHG----LKEVYEAIEIVKLCGV--ENWSLDLISSLPHQTPQMWEESLRRTV  240 (471)
Q Consensus       190 ~~l~-------------R--~~t----~~~~~~ai~~~~~~G~--~~v~~DlI~GlPgqT~e~~~~~l~~~~  240 (471)
                      ..+.             +  +.+    .+...+.++.+.++|+  +++-+|-.+|..|-+.+...++|+.+.
T Consensus       110 ~l~~~~g~~vv~m~~~~~g~P~t~~~~~~~l~~~v~~a~~~GI~~~~IilDPgi~~~~~~~~~~~~~l~~i~  181 (261)
T PRK07535        110 PLVKKYNAPVVALTMDDTGIPKDAEDRLAVAKELVEKADEYGIPPEDIYIDPLVLPLSAAQDAGPEVLETIR  181 (261)
T ss_pred             HHHHHhCCCEEEEecCCCCCCCCHHHHHHHHHHHHHHHHHcCCCHhHEEEeCCCCcccCChHHHHHHHHHHH
Confidence            3211             1  112    2445666777888888  468888888866776666655555444

>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family

Probab=90.58  E-value=1.4  Score=37.00  Aligned_cols=64  Identities=17%  Similarity=0.023  Sum_probs=51.3

Q ss_pred             CCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHHH
Q 012112          383 RGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELI  462 (471)
Q Consensus       383 ~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i~  462 (471)
                      .++...++.+..+.+-. .+...++.|++.|||....+.                  .+.|.-+|.|| ++|..+.+.++
T Consensus        42 ~~~t~~eL~~~l~~~~s-tvs~~i~~Le~kg~I~r~~~~------------------~D~R~~~i~lT-~~G~~~~~~~~  101 (109)
T TIGR01889        42 GKLTLKEIIKEILIKQS-ALVKIIKKLSKKGYLSKERSE------------------DDERKVIISIN-KEQRSKIESLI  101 (109)
T ss_pred             CcCcHHHHHHHHCCCHH-HHHHHHHHHHHCCCEeccCCc------------------ccCCeEEEEEC-HHHHHHHHHHH
Confidence            56999999999999853 577899999999999864321                  24566689997 99999999988


Q ss_pred             HHHH
Q 012112          463 SHAF  466 (471)
Q Consensus       463 ~~~~  466 (471)
                      .++=
T Consensus       102 ~~~~  105 (109)
T TIGR01889       102 SEIE  105 (109)
T ss_pred             HHHH
Confidence            7763

This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.

>cd07941 DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain

Probab=90.44  E-value=8.2  Score=38.07  Aligned_cols=127  Identities=13%  Similarity=0.178  Sum_probs=82.7

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecC--CCC---CHHHHHHHHHCCCCEEEEccCCCCHHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDP--GTF---DARKMEELMDLGVNRVSLGVQAFQDELL  189 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P--~~l---~~e~l~~l~~~GvnrvsiGvQS~~d~~L  189 (471)
                      ++.|=+|  .|.. ++..+.. ++.+.+.. + .+.++...+.+  ..+   +...++...++|++.|.+.+=+-+-...
T Consensus        34 v~~IE~G--~~~~-~~~~~~~-~~~~~~~~-~-~~~~~~~~~~~~~~~i~~~~~~~~~~a~~~g~~~i~i~~~~sd~~~~  107 (273)
T cd07941          34 VDYIEGG--WPGS-NPKDTEF-FARAKKLK-L-KHAKLAAFGSTRRAGVKAEEDPNLQALLEAGTPVVTIFGKSWDLHVT  107 (273)
T ss_pred             CCEEEec--CCcC-CHHHHHH-HHHHHHcC-C-CCcEEEEEecccccCCCccchHHHHHHHhCCCCEEEEEEcCCHHHHH
Confidence            6666664  3432 5555443 34444321 1 23456655522  222   3457888899999998886655555566


Q ss_pred             HHcCCC--CCHHHHHHHHHHHHHcCCCeeEeeeecCC---CCCCHHHHHHHHHHHHhCCCCcEEE
Q 012112          190 KSCGRA--HGLKEVYEAIEIVKLCGVENWSLDLISSL---PHQTPQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       190 ~~l~R~--~t~~~~~~ai~~~~~~G~~~v~~DlI~Gl---PgqT~e~~~~~l~~~~~l~p~his~  249 (471)
                      +.+|+.  ...+.+.++++.+++.|+. |.+..+ .+   +.-+++.+.+.++.+.+.+++.|++
T Consensus       108 ~~~~~~~~~~~~~~~~~i~~ak~~G~~-v~~~~~-~~~d~~~~~~~~~~~~~~~~~~~g~~~i~l  170 (273)
T cd07941         108 EALGTTLEENLAMIRDSVAYLKSHGRE-VIFDAE-HFFDGYKANPEYALATLKAAAEAGADWLVL  170 (273)
T ss_pred             HHcCCCHHHHHHHHHHHHHHHHHcCCe-EEEeEE-eccccCCCCHHHHHHHHHHHHhCCCCEEEE
Confidence            777776  4677888999999999996 777533 22   2346777888889999999987654

Desulfobacterium autotrophicum LeuA3 is sequence-similar to alpha-isopropylmalate synthase (LeuA) but its exact function is unknown. Members of this family have an N-terminal TIM barrel domain that belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of in

>PF02679 ComA: (2R)-phospho-3-sulfolactate synthase (ComA); InterPro: IPR003830 Methanogenic archaea produce methane via the anaerobic reduction of acetate or single carbon compounds []

Probab=90.30  E-value=0.58  Score=45.31  Aligned_cols=131  Identities=18%  Similarity=0.182  Sum_probs=82.0

Q ss_pred             HHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe-------cCCCCCH
Q 012112           91 VSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM-------DPGTFDA  163 (471)
Q Consensus        91 ~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~-------~P~~l~~  163 (471)
                      -.++++.+++-.-.+         ++.+-||+||..+.+.+.+++.++..+++     ++.+..-.       .+ .--+
T Consensus        23 g~~~~~dlLe~ag~y---------ID~~K~g~Gt~~l~~~~~l~eki~l~~~~-----gV~v~~GGtl~E~a~~q-~~~~   87 (244)
T PF02679_consen   23 GLRYLEDLLESAGDY---------IDFLKFGWGTSALYPEEILKEKIDLAHSH-----GVYVYPGGTLFEVAYQQ-GKFD   87 (244)
T ss_dssp             -HHHHHHHHHHHGGG----------SEEEE-TTGGGGSTCHHHHHHHHHHHCT-----T-EEEE-HHHHHHHHHT-T-HH
T ss_pred             CHHHHHHHHHHhhhh---------ccEEEecCceeeecCHHHHHHHHHHHHHc-----CCeEeCCcHHHHHHHhc-ChHH
Confidence            345666665443222         78899999999999999999999988864     22222211       12 2246


Q ss_pred             HHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCC--C----CCCHHHHHHHHH
Q 012112          164 RKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSL--P----HQTPQMWEESLR  237 (471)
Q Consensus       164 e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~Gl--P----gqT~e~~~~~l~  237 (471)
                      +.++.+++.|++.|.|.-=|.          ..+.++..+.|+.+++.||. |-.-  +|-  |    -.|.+.|.+.++
T Consensus        88 ~yl~~~k~lGf~~IEiSdGti----------~l~~~~r~~~I~~~~~~Gf~-v~~E--vG~K~~~~~~~~~~~~~i~~~~  154 (244)
T PF02679_consen   88 EYLEECKELGFDAIEISDGTI----------DLPEEERLRLIRKAKEEGFK-VLSE--VGKKDPESDFSLDPEELIEQAK  154 (244)
T ss_dssp             HHHHHHHHCT-SEEEE--SSS-------------HHHHHHHHHHHCCTTSE-EEEE--ES-SSHHHHTT--CCHHHHHHH
T ss_pred             HHHHHHHHcCCCEEEecCCce----------eCCHHHHHHHHHHHHHCCCE-Eeec--ccCCCchhcccCCHHHHHHHHH
Confidence            999999999999876654443          13456666789999999997 3332  232  1    124668888888


Q ss_pred             HHHhCCCCcEEE
Q 012112          238 RTVGAQPKHVSV  249 (471)
Q Consensus       238 ~~~~l~p~his~  249 (471)
                      ..++.+.+.|-+
T Consensus       155 ~dLeAGA~~Vii  166 (244)
T PF02679_consen  155 RDLEAGADKVII  166 (244)
T ss_dssp             HHHHHTECEEEE
T ss_pred             HHHHCCCCEEEE
Confidence            889999887644

Coenzyme M (CoM; 2-mercaptoethanesulphonic acid) serves as the terminal methyl carrier for this process. Previously thought to be unique to methanogenic archaea, CoM has also been found in methylotrophic bacteria. Biosynthesis of CoM begins with the Michael addition of sulphite to phosphoenolpyruvate, forming 2-phospho-3-sulpholactate (PSL). This reaction is catalyzed by members of this family, PSL synthase (ComA) []. Subsequently, PSL is dephosphorylated by phosphosulpholactate phosphatase (ComB) to form 3-sulpholactate [], which is then converted to 3-sulphopyruvate by L-sulpholactate dehydrogenase (ComC; 1.1.1.272 from EC) []. Sulphopyruvate decarboxylase (ComDE; 4.1.1.79 from EC) converts 3-sulphopyruvate to sulphoacetaldehyde []. Reductive thiolation of sulphoacetaldehyde is the final step.; GO: 0019295 coenzyme M biosynthetic process; PDB: 1U83_A 1QWG_A.

>PRK15452 putative protease; Provisional

Probab=89.21  E-value=2.2  Score=45.11  Aligned_cols=86  Identities=13%  Similarity=0.223  Sum_probs=67.5

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCC-CHHHHHHHHHHHH
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQ-TPQMWEESLRRTV  240 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgq-T~e~~~~~l~~~~  240 (471)
                      +.+.++...++|.+.|-+|.++|+-+..   ....+.+++.++++.+++.|.+ |.+- +--+|.+ ..+.+.+.++.+.
T Consensus        12 ~~e~l~aAi~~GADaVY~G~~~~~~R~~---~~~f~~edl~eav~~ah~~g~k-vyvt-~n~i~~e~el~~~~~~l~~l~   86 (443)
T PRK15452         12 TLKNMRYAFAYGADAVYAGQPRYSLRVR---NNEFNHENLALGINEAHALGKK-FYVV-VNIAPHNAKLKTFIRDLEPVI   86 (443)
T ss_pred             CHHHHHHHHHCCCCEEEECCCccchhhh---ccCCCHHHHHHHHHHHHHcCCE-EEEE-ecCcCCHHHHHHHHHHHHHHH
Confidence            7889999999999999999999987653   3566889999999999999976 4332 2234444 4567788888888


Q ss_pred             hCCCCcEEEEec
Q 012112          241 GAQPKHVSVYDL  252 (471)
Q Consensus       241 ~l~p~his~y~l  252 (471)
                      ++++|-|-+-.+
T Consensus        87 ~~gvDgvIV~d~   98 (443)
T PRK15452         87 AMKPDALIMSDP   98 (443)
T ss_pred             hCCCCEEEEcCH
Confidence            999998777654

>TIGR00695 uxuA mannonate dehydratase

Probab=89.14  E-value=1.5  Score=45.37  Aligned_cols=87  Identities=15%  Similarity=0.299  Sum_probs=64.2

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEe--------eeecCCCCC--CHHH
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSL--------DLISSLPHQ--TPQM  231 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~--------DlI~GlPgq--T~e~  231 (471)
                      ++-.|+.++++|++.|...+-...+      |..=+.+++.+..+.+.++|+. +++        |+..|.|+-  -.+.
T Consensus        12 d~v~l~~irQ~G~~giV~al~~~p~------gevW~~~~i~~~k~~ie~~GL~-~~vvEs~pv~e~Ik~g~~~rd~~Ien   84 (394)
T TIGR00695        12 DPVSLEDVRQAGATGIVTALHHIPN------GEVWEKEEIRKRKEYIESAGLH-WSVVESVPVHEAIKTGTGNYGRWIEN   84 (394)
T ss_pred             CcchHHHHhhcCCcceeecCCCCCC------CCCCCHHHHHHHHHHHHHcCCe-EEEEeCCCccHHHHcCCCcHHHHHHH
Confidence            3445666777898888766644432      4455788888888888888886 666        888888874  4677


Q ss_pred             HHHHHHHHHhCCCCcEEEEeccccC
Q 012112          232 WEESLRRTVGAQPKHVSVYDLQVEQ  256 (471)
Q Consensus       232 ~~~~l~~~~~l~p~his~y~l~~~p  256 (471)
                      ++++|+-+-+.+++ +-+|.+++.-
T Consensus        85 yk~~irNla~~GI~-vicYNFMPv~  108 (394)
T TIGR00695        85 YKQTLRNLAQCGIK-TVCYNFMPVL  108 (394)
T ss_pred             HHHHHHHHHHcCCC-EEEEEecccc
Confidence            88899999999987 5578888643

This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.

>PRK09389 (R)-citramalate synthase; Provisional

Probab=89.08  E-value=8.5  Score=41.37  Aligned_cols=124  Identities=16%  Similarity=0.166  Sum_probs=85.9

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ++.|=+|  .|.. ++...+. ++.+.+.   ....++..-+++   ..+.++...++|+++|.+.+=+-+-.....+++
T Consensus        38 v~~IE~G--~p~~-~~~d~e~-v~~i~~~---~~~~~i~a~~r~---~~~di~~a~~~g~~~v~i~~~~Sd~h~~~~l~~  107 (488)
T PRK09389         38 VDVIEAG--SAIT-SEGEREA-IKAVTDE---GLNAEICSFARA---VKVDIDAALECDVDSVHLVVPTSDLHIEYKLKK  107 (488)
T ss_pred             CCEEEEe--CCcC-CHHHHHH-HHHHHhc---CCCcEEEeeccc---CHHHHHHHHhCCcCEEEEEEccCHHHHHHHhCC
Confidence            5655554  5653 5555444 3444432   234677766654   356688888999999999886655555666666


Q ss_pred             CC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          195 AH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       195 ~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      ..  ..+.+.++++.+++.|+. |.+++.-+ ..-+++-+.+.++.+.+.+++.|.+-
T Consensus       108 s~~e~l~~~~~~v~~ak~~g~~-v~~~~ed~-~r~~~~~l~~~~~~~~~~Ga~~i~l~  163 (488)
T PRK09389        108 TREEVLETAVEAVEYAKDHGLI-VELSGEDA-SRADLDFLKELYKAGIEAGADRICFC  163 (488)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCE-EEEEEeeC-CCCCHHHHHHHHHHHHhCCCCEEEEe
Confidence            43  456777888899999986 88888754 45568888899999999999987553

>PRK09282 pyruvate carboxylase subunit B; Validated

Probab=88.97  E-value=8.7  Score=42.29  Aligned_cols=119  Identities=15%  Similarity=0.161  Sum_probs=81.8

Q ss_pred             eeEEEEcCC-CCC----CCCHHHHHHHHHHHHHHcCCCCCcEEEEEec----------CCCCCHHHHHHHHHCCCCEEEE
Q 012112          115 LETVFFGGG-TPS----LVPPRFVSSILDTLTDKFGLSLDAEISMEMD----------PGTFDARKMEELMDLGVNRVSL  179 (471)
Q Consensus       115 v~~i~fGGG-Tps----~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~----------P~~l~~e~l~~l~~~Gvnrvsi  179 (471)
                      +.+|=++|| |+-    +++++-.++ ++.+++..   ++..+.+-++          |+++-++.++...++|++.|.+
T Consensus        40 ~~~iE~~ggatfd~~~rfl~edp~e~-l~~l~~~~---~~~~l~~l~Rg~N~~gy~~ypd~vv~~~v~~A~~~Gvd~iri  115 (592)
T PRK09282         40 FWSLEVWGGATFDVCIRYLNEDPWER-LRKLKKAL---PNTPLQMLLRGQNLVGYRHYPDDVVEKFVEKAAENGIDIFRI  115 (592)
T ss_pred             CCEEEecCCccchhhcccCCccHHHH-HHHHHHhC---CCCEEEEEeccccccccccccchhhHHHHHHHHHCCCCEEEE
Confidence            555556665 532    356555544 46666553   3345555544          6667778899999999998777


Q ss_pred             ccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeec-CCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          180 GVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLIS-SLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       180 GvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~-GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      .. +.|+           ...+..+++.++++|.. +...+-| +-|--|++.+.+.++.+.+.+++.|.+-
T Consensus       116 f~-~lnd-----------~~n~~~~i~~ak~~G~~-v~~~i~~t~~p~~t~~~~~~~a~~l~~~Gad~I~i~  174 (592)
T PRK09282        116 FD-ALND-----------VRNMEVAIKAAKKAGAH-VQGTISYTTSPVHTIEKYVELAKELEEMGCDSICIK  174 (592)
T ss_pred             EE-ecCh-----------HHHHHHHHHHHHHcCCE-EEEEEEeccCCCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            43 3344           25678889999999986 6655533 2388899999999999999999877554

>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain

Probab=88.72  E-value=7  Score=38.26  Aligned_cols=87  Identities=18%  Similarity=0.187  Sum_probs=67.4

Q ss_pred             CcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCC
Q 012112          149 DAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQT  228 (471)
Q Consensus       149 ~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT  228 (471)
                      +.++.+-++|.....+.++...+.|++.+.+.+ +.++           ...+.++++.+++.|+. +.+.++-.. .-+
T Consensus        74 ~~~~~~~~~~~~~~~~~i~~a~~~g~~~iri~~-~~s~-----------~~~~~~~i~~ak~~G~~-v~~~~~~~~-~~~  139 (263)
T cd07943          74 QAKLGVLLLPGIGTVDDLKMAADLGVDVVRVAT-HCTE-----------ADVSEQHIGAARKLGMD-VVGFLMMSH-MAS  139 (263)
T ss_pred             CCEEEEEecCCccCHHHHHHHHHcCCCEEEEEe-chhh-----------HHHHHHHHHHHHHCCCe-EEEEEEecc-CCC
Confidence            457776666766677889999999999887754 3332           23678899999999997 888876553 468


Q ss_pred             HHHHHHHHHHHHhCCCCcEEE
Q 012112          229 PQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       229 ~e~~~~~l~~~~~l~p~his~  249 (471)
                      ++.+.+.++.+.+.+++.|++
T Consensus       140 ~~~~~~~~~~~~~~G~d~i~l  160 (263)
T cd07943         140 PEELAEQAKLMESYGADCVYV  160 (263)
T ss_pred             HHHHHHHHHHHHHcCCCEEEE
Confidence            899999999999999997754

4-hydroxy 2-ketovalerate aldolase (Also known as 4-hydroxy-2-ketovalerate aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA)) converts 4-hydroxy-2-oxopentanoate to acetaldehyde and pyruvate, the penultimate step in the meta-cleavage pathway for the degradation of phenols, cresols and catechol. This family includes the Escherichia coli MhpE aldolase, the Pseudomonas DmpG aldolase, and the Burkholderia xenovorans BphI pyruvate aldolase. In Pseudomonas, the DmpG aldolase tightly associates with a dehydrogenase (DmpF ) and is inactive without it. HOA has a canonical TIM-barrel fold with a C-terminal extension that forms a funnel leading to the active site. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate

>PRK03573 transcriptional regulator SlyA; Provisional

Probab=88.38  E-value=2.4  Score=37.30  Aligned_cols=69  Identities=12%  Similarity=0.094  Sum_probs=51.1

Q ss_pred             HHHhcccc-CCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          375 LMLSFRTA-RGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       375 ~~~~Lr~~-~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      ++..|... .|+...++.+.+|.+-. .+...+++|++.|||+...+.                  .+.|.-.|.|| ++
T Consensus        36 vL~~l~~~~~~~t~~eLa~~l~~~~~-tvt~~v~~Le~~GlV~r~~~~------------------~DrR~~~l~LT-~~   95 (144)
T PRK03573         36 TLHNIHQLPPEQSQIQLAKAIGIEQP-SLVRTLDQLEEKGLISRQTCA------------------SDRRAKRIKLT-EK   95 (144)
T ss_pred             HHHHHHHcCCCCCHHHHHHHhCCChh-hHHHHHHHHHHCCCEeeecCC------------------CCcCeeeeEEC-hH
Confidence            44444433 46889999999999864 567899999999999876321                  13455679997 99


Q ss_pred             hhchHHHHHH
Q 012112          454 GFLLSNELIS  463 (471)
Q Consensus       454 G~~~~n~i~~  463 (471)
                      |..+.+.+..
T Consensus        96 G~~~~~~~~~  105 (144)
T PRK03573         96 AEPLISEVEA  105 (144)
T ss_pred             HHHHHHHHHH
Confidence            9999887643

>cd07937 DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain

Probab=88.29  E-value=4.9  Score=39.75  Aligned_cols=101  Identities=14%  Similarity=0.231  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe--cCCCCCHHHHHHH
Q 012112           92 SNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM--DPGTFDARKMEEL  169 (471)
Q Consensus        92 ~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~--~P~~l~~e~l~~l  169 (471)
                      ..++..+.+++...        +++.|++. +|-..+.|.++.+++..+++.++    ..+.+-+  +.+.-....+..+
T Consensus       148 ~~~~~~~~~~~~~~--------Ga~~i~l~-DT~G~~~P~~v~~lv~~l~~~~~----~~l~~H~Hnd~GlA~aN~laA~  214 (275)
T cd07937         148 LEYYVKLAKELEDM--------GADSICIK-DMAGLLTPYAAYELVKALKKEVG----LPIHLHTHDTSGLAVATYLAAA  214 (275)
T ss_pred             HHHHHHHHHHHHHc--------CCCEEEEc-CCCCCCCHHHHHHHHHHHHHhCC----CeEEEEecCCCChHHHHHHHHH
Confidence            44555566666543        26778887 47788899999999999999875    2344444  3443355666666


Q ss_pred             HHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       170 ~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                       ++|++.|...+..        ||+.......++.+..++..|++
T Consensus       215 -~aGa~~vd~sv~G--------lG~~aGN~~~E~l~~~L~~~g~~  250 (275)
T cd07937         215 -EAGVDIVDTAISP--------LSGGTSQPSTESMVAALRGTGRD  250 (275)
T ss_pred             -HhCCCEEEEeccc--------ccCCcCChhHHHHHHHHHccCCC
Confidence             5799999887766        56666666666667777766765

This family includes the carboxyltransferase domains of pyruvate carboxylase (PC) and the transcarboxylase (TC) 5S subunit. Transcarboxylase 5S is a cobalt-dependent metalloenzyme subunit of the biotin-dependent transcarboxylase multienzyme complex. Transcarboxylase 5S transfers carbon dioxide from the 1.3S biotin to pyruvate in the second of two carboxylation reactions catalyzed by TC. The first reaction involves the transfer of carbon dioxide from methylmalonyl-CoA to the 1.3S biotin, and is catalyzed by the 12S subunit. These two steps allow a carboxylate group to be transferred from oxaloacetate to propionyl-CoA to yield pyruvate and methylmalonyl-CoA. The catalytic domain of transcarboxylase 5S has a canonical TIM-barrel fold with a large C-terminal extension that forms a funnel leading to the active site. Transcarboxylase 5S forms a homodimer and there are six dimers per complex

>PRK14041 oxaloacetate decarboxylase; Provisional

Probab=88.14  E-value=9.3  Score=40.77  Aligned_cols=118  Identities=16%  Similarity=0.227  Sum_probs=79.0

Q ss_pred             eeEEEEcCC-CC----CCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe----------cCCCCCHHHHHHHHHCCCCEEEE
Q 012112          115 LETVFFGGG-TP----SLVPPRFVSSILDTLTDKFGLSLDAEISMEM----------DPGTFDARKMEELMDLGVNRVSL  179 (471)
Q Consensus       115 v~~i~fGGG-Tp----s~l~~~~l~~ll~~l~~~~~l~~~~eitiE~----------~P~~l~~e~l~~l~~~Gvnrvsi  179 (471)
                      +.+|=+||| |+    ++++++. .+.++.+++..   ++..+.+-+          .|+++-+..++...++|++.|.+
T Consensus        39 v~~IE~~ggatfd~~~~Fl~e~p-~e~l~~l~~~~---~~~~l~~l~r~~N~~G~~~~~dDvv~~fv~~A~~~Gvd~iri  114 (467)
T PRK14041         39 FYSMEVWGGATFDVCVRFLNENP-WERLKEIRKRL---KNTKIQMLLRGQNLVGYRHYADDVVELFVKKVAEYGLDIIRI  114 (467)
T ss_pred             CCEEEecCCccchhhhcccCCCH-HHHHHHHHHhC---CCCEEEEEeccccccCcccccchhhHHHHHHHHHCCcCEEEE
Confidence            555555555 32    3455443 34455665543   234555432          34555566688888999998888


Q ss_pred             ccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeE--eeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          180 GVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWS--LDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       180 GvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~--~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      .. +.|+           .+.+..+++.+++.|.. +.  ++..++ |--|.+-+.+..+.+.+.+++.|.+-
T Consensus       115 f~-~lnd-----------~~n~~~~i~~ak~~G~~-v~~~i~~t~~-p~~t~e~~~~~a~~l~~~Gad~I~i~  173 (467)
T PRK14041        115 FD-ALND-----------IRNLEKSIEVAKKHGAH-VQGAISYTVS-PVHTLEYYLEFARELVDMGVDSICIK  173 (467)
T ss_pred             EE-eCCH-----------HHHHHHHHHHHHHCCCE-EEEEEEeccC-CCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            55 4555           34578889999999985 55  444455 88899999999999999999877553

>PRK13777 transcriptional regulator Hpr; Provisional

Probab=87.92  E-value=2.7  Score=39.05  Aligned_cols=72  Identities=15%  Similarity=0.083  Sum_probs=53.8

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....|+...++++..+.+.. .....+++|+++|||....+.                  .+.|.-+|.|| ++
T Consensus        49 ~iL~~L~~~~~itq~eLa~~l~l~~s-Tvtr~l~rLE~kGlI~R~~~~------------------~DrR~~~I~LT-ek  108 (185)
T PRK13777         49 HILWIAYHLKGASISEIAKFGVMHVS-TAFNFSKKLEERGYLTFSKKE------------------DDKRNTYIELT-EK  108 (185)
T ss_pred             HHHHHHHhCCCcCHHHHHHHHCCCHh-hHHHHHHHHHHCCCEEecCCC------------------CCCCeeEEEEC-HH
Confidence            45566666789999999998877643 366789999999999865211                  13455579997 99


Q ss_pred             hhchHHHHHHHH
Q 012112          454 GFLLSNELISHA  465 (471)
Q Consensus       454 G~~~~n~i~~~~  465 (471)
                      |..+.+.+....
T Consensus       109 G~~l~~~l~~~~  120 (185)
T PRK13777        109 GEELLLETMEEY  120 (185)
T ss_pred             HHHHHHHHHHHH
Confidence            999998875543

>PRK00915 2-isopropylmalate synthase; Validated

Probab=87.83  E-value=12  Score=40.38  Aligned_cols=127  Identities=9%  Similarity=0.066  Sum_probs=85.1

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCC-HHHHHHHHHCCCCEEEEccCCCCHHHHHHcC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFD-ARKMEELMDLGVNRVSLGVQAFQDELLKSCG  193 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~-~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~  193 (471)
                      ++.|=+|  .|.. ++...+.+ +.+.+..   .+.+++.-+++..-+ +..++.++++|+.+|.+-+=+.+-.+...++
T Consensus        40 v~~IE~G--~p~~-s~~d~~~v-~~i~~~~---~~~~i~a~~r~~~~did~a~~a~~~~~~~~v~i~~~~Sd~h~~~~l~  112 (513)
T PRK00915         40 VDVIEAG--FPAS-SPGDFEAV-KRIARTV---KNSTVCGLARAVKKDIDAAAEALKPAEAPRIHTFIATSPIHMEYKLK  112 (513)
T ss_pred             CCEEEEc--CCCC-ChHHHHHH-HHHHhhC---CCCEEEEEccCCHHHHHHHHHHhhcCCCCEEEEEECCcHHHHHHHhC
Confidence            6666554  6654 66665554 4454332   346777776543211 2234445588999999988777777777777


Q ss_pred             CCC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          194 RAH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       194 R~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      +..  ..+.+.++++.+++.|.. |.++...+. .-+++-+.+.++.+.+.+++.|.+-
T Consensus       113 ~s~~e~l~~~~~~v~~ak~~g~~-v~f~~ed~~-r~d~~~l~~~~~~~~~~Ga~~i~l~  169 (513)
T PRK00915        113 MSREEVLEMAVEAVKYARSYTDD-VEFSAEDAT-RTDLDFLCRVVEAAIDAGATTINIP  169 (513)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCe-EEEEeCCCC-CCCHHHHHHHHHHHHHcCCCEEEEc
Confidence            653  455567899999999987 777776654 3357778889999999999876543

>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein

Probab=87.11  E-value=16  Score=39.71  Aligned_cols=128  Identities=15%  Similarity=0.171  Sum_probs=87.9

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecC--CCC---CHHHHHHHHHCCCCEEEEccCCCCHHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDP--GTF---DARKMEELMDLGVNRVSLGVQAFQDELL  189 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P--~~l---~~e~l~~l~~~GvnrvsiGvQS~~d~~L  189 (471)
                      |+.|=.  |.|.. ++.+.+.+- .+.+. ++ .+.++..-+++  ..+   .+..++.+.++|..+|.+-+=+-+-...
T Consensus        37 Vd~IE~--G~p~~-s~~d~~~v~-~i~~~-~~-~~~~i~~~~r~~r~~~~~~~d~~~ea~~~~~~~~v~i~~~~Sd~h~~  110 (526)
T TIGR00977        37 IHYIEG--GWPGA-NPKDVQFFW-QLKEM-NF-KNAKIVAFCSTRRPHKKVEEDKMLQALIKAETPVVTIFGKSWDLHVL  110 (526)
T ss_pred             CCEEEE--eCCCC-ChHHHHHHH-HHHHh-CC-CCcEEEEEeeecCCCCCCchHHHHHHHhcCCCCEEEEEeCCCHHHHH
Confidence            555554  46654 666655443 33321 22 24677776543  222   2567899999999999998888777788


Q ss_pred             HHcCCCC--CHHHHHHHHHHHHHcCCCeeEeeee---cCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          190 KSCGRAH--GLKEVYEAIEIVKLCGVENWSLDLI---SSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       190 ~~l~R~~--t~~~~~~ai~~~~~~G~~~v~~DlI---~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      +.+++..  ..+.+.++++.+++.|.. |..+.+   -|.- -+++-+.+.++.+.+.+++.|.+-
T Consensus       111 ~~l~~s~ee~l~~~~~~v~~ak~~g~~-V~~~~e~f~D~~r-~~~~~l~~~~~~a~~aGad~i~i~  174 (526)
T TIGR00977       111 EALQTTLEENLAMIYDTVAYLKRQGDE-VIYDAEHFFDGYK-ANPEYALATLATAQQAGADWLVLC  174 (526)
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHcCCe-EEEEeeeeeeccc-CCHHHHHHHHHHHHhCCCCeEEEe
Confidence            8887653  566677889999999987 665444   3432 467888899999999999988665

This model represents uncharacterized proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distint. Each species represented in the seed alignment also has a member of a known family of 2-isopropylmalate synthases.

>PRK03902 manganese transport transcriptional regulator; Provisional

Probab=87.07  E-value=4.2  Score=35.79  Aligned_cols=64  Identities=13%  Similarity=0.161  Sum_probs=45.4

Q ss_pred             HHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecC
Q 012112          372 MDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSD  451 (471)
Q Consensus       372 ~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~  451 (471)
                      .+.|..-+.....+..+++++.+|.+.. .+...++.|.+.|+|.....                        ..|+|| 
T Consensus        10 L~~I~~l~~~~~~~~~~ela~~l~vs~~-svs~~l~~L~~~Gli~~~~~------------------------~~i~LT-   63 (142)
T PRK03902         10 IEQIYLLIEEKGYARVSDIAEALSVHPS-SVTKMVQKLDKDEYLIYEKY------------------------RGLVLT-   63 (142)
T ss_pred             HHHHHHHHhcCCCcCHHHHHHHhCCChh-HHHHHHHHHHHCCCEEEecC------------------------ceEEEC-
Confidence            3333333344455777888888888743 56778999999999985431                        258996 


Q ss_pred             chhhchHHHH
Q 012112          452 PEGFLLSNEL  461 (471)
Q Consensus       452 ~~G~~~~n~i  461 (471)
                      ++|..++..+
T Consensus        64 ~~G~~~a~~~   73 (142)
T PRK03902         64 PKGKKIGKRL   73 (142)
T ss_pred             HHHHHHHHHH
Confidence            9999888765

>COG2238 RPS19A Ribosomal protein S19E (S16A) [Translation, ribosomal structure and biogenesis]

Probab=86.79  E-value=1.4  Score=38.62  Aligned_cols=61  Identities=21%  Similarity=0.278  Sum_probs=43.2

Q ss_pred             cccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHH
Q 012112          380 RTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSN  459 (471)
Q Consensus       380 r~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n  459 (471)
                      |.+.|---..|.+-.|    ......+++|++.||++...++|                         .|| ++|+-+.|
T Consensus        80 ~k~rG~rP~~~~~gsg----sI~RkilqqLE~~G~V~k~~~GR-------------------------~lt-p~GrsllD  129 (147)
T COG2238          80 RKNRGSRPEKFRKGSG----SIIRKVLQQLEKAGLVEKTPKGR-------------------------VLT-PKGRSLLD  129 (147)
T ss_pred             cccCCCCchhhhcCCc----hHHHHHHHHHHHCCceeecCCCc-------------------------eeC-ccchhHHH
Confidence            4555655555544333    23567899999999999766332                         675 99999999


Q ss_pred             HHHHHHHhccc
Q 012112          460 ELISHAFGVID  470 (471)
Q Consensus       460 ~i~~~~~~~~~  470 (471)
                      .++.++...++
T Consensus       130 ~~a~ei~eel~  140 (147)
T COG2238         130 RIATEIKEELE  140 (147)
T ss_pred             HHHHHHHHHhc
Confidence            99999877654

>PRK11613 folP dihydropteroate synthase; Provisional

Probab=86.73  E-value=25  Score=34.98  Aligned_cols=115  Identities=16%  Similarity=0.236  Sum_probs=68.2

Q ss_pred             eeEEEEcCCC--C---CCCCHHHHHHHH---HHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEE---EEccCC
Q 012112          115 LETVFFGGGT--P---SLVPPRFVSSIL---DTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRV---SLGVQA  183 (471)
Q Consensus       115 v~~i~fGGGT--p---s~l~~~~l~~ll---~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvnrv---siGvQS  183 (471)
                      .+-|-+||..  |   -+-..+++++++   +.|++.+    +..+++.    +...+.++..-++|++-|   + |+. 
T Consensus        52 AdIIDIGgeSTrPg~~~v~~eeE~~Rv~pvI~~l~~~~----~~~ISID----T~~~~va~~AL~~GadiINDI~-g~~-  121 (282)
T PRK11613         52 ATIIDVGGESTRPGAAEVSVEEELDRVIPVVEAIAQRF----EVWISVD----TSKPEVIRESAKAGAHIINDIR-SLS-  121 (282)
T ss_pred             CcEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHhcC----CCeEEEE----CCCHHHHHHHHHcCCCEEEECC-CCC-
Confidence            5667788532  2   222235666655   4444332    2345554    677888888888896654   3 443 


Q ss_pred             CCHHHHHHcCCC-------C------C--------------HHHHHHHHHHHHHcCCC--eeEeeeecCCCCCCHHHHHH
Q 012112          184 FQDELLKSCGRA-------H------G--------------LKEVYEAIEIVKLCGVE--NWSLDLISSLPHQTPQMWEE  234 (471)
Q Consensus       184 ~~d~~L~~l~R~-------~------t--------------~~~~~~ai~~~~~~G~~--~v~~DlI~GlPgqT~e~~~~  234 (471)
                       +++.++.+.+.       |      +              .+...+.++.+.++|+.  +|-+|--+|+ +.|.++=.+
T Consensus       122 -d~~~~~~~a~~~~~vVlmh~~g~p~~~~~~~~y~dv~~~v~~~l~~~i~~a~~~GI~~~~IilDPGiGF-~k~~~~n~~  199 (282)
T PRK11613        122 -EPGALEAAAETGLPVCLMHMQGNPKTMQEAPKYDDVFAEVNRYFIEQIARCEAAGIAKEKLLLDPGFGF-GKNLSHNYQ  199 (282)
T ss_pred             -CHHHHHHHHHcCCCEEEEcCCCCCCccccCCCcccHHHHHHHHHHHHHHHHHHcCCChhhEEEeCCCCc-CCCHHHHHH
Confidence             56655533221       1      1              13446677888899996  7889998898 666655444


Q ss_pred             HHHHHHh
Q 012112          235 SLRRTVG  241 (471)
Q Consensus       235 ~l~~~~~  241 (471)
                      .++.+..
T Consensus       200 ll~~l~~  206 (282)
T PRK11613        200 LLARLAE  206 (282)
T ss_pred             HHHHHHH
Confidence            4444433

>PRK10870 transcriptional repressor MprA; Provisional

Probab=86.50  E-value=3.3  Score=38.08  Aligned_cols=70  Identities=10%  Similarity=0.186  Sum_probs=51.7

Q ss_pred             HHHHhccc--cCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecC
Q 012112          374 VLMLSFRT--ARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSD  451 (471)
Q Consensus       374 ~~~~~Lr~--~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~  451 (471)
                      .++..|..  ..++...++++.+|.+-. .+...+++|+++|||+...+.                  .+.|+-.|+|| 
T Consensus        59 ~iL~~L~~~~~~~it~~eLa~~l~l~~~-tvsr~v~rLe~kGlV~R~~~~------------------~DrR~~~v~LT-  118 (176)
T PRK10870         59 MALITLESQENHSIQPSELSCALGSSRT-NATRIADELEKRGWIERRESD------------------NDRRCLHLQLT-  118 (176)
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEecCCC------------------CCCCeeEEEEC-
Confidence            34455543  345888999999998864 467789999999999875321                  23566689997 


Q ss_pred             chhhchHHHHHH
Q 012112          452 PEGFLLSNELIS  463 (471)
Q Consensus       452 ~~G~~~~n~i~~  463 (471)
                      ++|..+.+.+..
T Consensus       119 ~~G~~~~~~i~~  130 (176)
T PRK10870        119 EKGHEFLREVLP  130 (176)
T ss_pred             HHHHHHHHHHHH
Confidence            999999988744

>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional

Probab=86.32  E-value=3.4  Score=39.37  Aligned_cols=70  Identities=11%  Similarity=0.071  Sum_probs=52.4

Q ss_pred             HHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhh
Q 012112          376 MLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGF  455 (471)
Q Consensus       376 ~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~  455 (471)
                      +.++....++...++++..|.+-. .....+++|++.||+......                     |...++|| ++|.
T Consensus        13 lg~l~~~~~IS~~eLA~~L~iS~~-Tvsr~Lk~LEe~GlI~R~~~~---------------------r~~~v~LT-ekG~   69 (217)
T PRK14165         13 LGAVNNTVKISSSEFANHTGTSSK-TAARILKQLEDEGYITRTIVP---------------------RGQLITIT-EKGL   69 (217)
T ss_pred             HhccCCCCCcCHHHHHHHHCcCHH-HHHHHHHHHHHCCCEEEEEcC---------------------CceEEEEC-HHHH
Confidence            445555567888899999988854 567889999999999875321                     22368997 9999


Q ss_pred             chHHHHHHHHHhc
Q 012112          456 LLSNELISHAFGV  468 (471)
Q Consensus       456 ~~~n~i~~~~~~~  468 (471)
                      .+....+.++-..
T Consensus        70 ~ll~~~~~d~~~i   82 (217)
T PRK14165         70 DVLYNEYADYSRI   82 (217)
T ss_pred             HHHHHHHHHHHHH
Confidence            9988887776443

>PRK09333 30S ribosomal protein S19e; Provisional

Probab=86.13  E-value=4.9  Score=35.89  Aligned_cols=69  Identities=14%  Similarity=0.201  Sum_probs=50.3

Q ss_pred             HHHhccccCCCCHhhHHHHhCCC------hH-------HHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcc
Q 012112          375 LMLSFRTARGVDLKSFGETFGCS------LV-------HTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIG  441 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~------~~-------~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~  441 (471)
                      |+-.+-...++-...+.+.||..      ..       ......|+.|++.||++...+                     
T Consensus        58 IlR~vY~~gpvGV~~L~~~yGg~k~~G~~P~h~~~~sg~iiR~~LqqLE~~glVek~~~---------------------  116 (150)
T PRK09333         58 ILRKVYIDGPVGVERLRTAYGGRKNRGVRPEHFVKGSGSIIRKILQQLEKAGLVEKTKK---------------------  116 (150)
T ss_pred             HHHHHHHcCCccHHHHHHHHCCCcCCCCCCCccccCccHHHHHHHHHHHHCCCeeeCCC---------------------
Confidence            34444455788889999988862      11       125678999999999986442                     


Q ss_pred             cccceeeecCchhhchHHHHHHHHHhcc
Q 012112          442 NRLAYFRLSDPEGFLLSNELISHAFGVI  469 (471)
Q Consensus       442 ~~~~~~~lt~~~G~~~~n~i~~~~~~~~  469 (471)
                      .|    +|| ++|.-+.|.|..+++..+
T Consensus       117 GR----~lT-~~G~~~LD~iA~~i~~~~  139 (150)
T PRK09333        117 GR----VIT-PKGRSLLDNLAAEVKKEL  139 (150)
T ss_pred             CC----EeC-HHHHHHHHHHHHHHHHHH
Confidence            23    675 999999999998877654

>PRK12344 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional

Probab=86.11  E-value=13  Score=40.39  Aligned_cols=128  Identities=14%  Similarity=0.167  Sum_probs=83.5

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEec--CCCC---CHHHHHHHHHCCCCEEEEccCCCCHHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMD--PGTF---DARKMEELMDLGVNRVSLGVQAFQDELL  189 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~--P~~l---~~e~l~~l~~~GvnrvsiGvQS~~d~~L  189 (471)
                      ++.|=+|  .|.. ++...+ .++.|.+. ++ .+.+++..+.  ...+   ++..++.+.++|+++|.+.+-+-+-...
T Consensus        41 vd~IEvG--~p~a-s~~d~~-~~~~i~~~-~l-~~~~i~~~~~~~~~~i~~~~d~~~e~~~~~g~~~i~i~~~~Sd~h~~  114 (524)
T PRK12344         41 VDYIEGG--WPGS-NPKDTE-FFKRAKEL-KL-KHAKLAAFGSTRRAGVSAEEDPNLQALLDAGTPVVTIFGKSWDLHVT  114 (524)
T ss_pred             CCEEEEc--CCcC-ChhHHH-HHHHHHHh-CC-CCcEEEEEeeccccCCCcccHHHHHHHHhCCCCEEEEEECCCHHHHH
Confidence            5666553  5543 455433 34444431 22 2345555542  2233   4567888999999999999887776677


Q ss_pred             HHcCCC--CCHHHHHHHHHHHHHcCCCeeEeeee--cCCCCCCHHHHHHHHHHHHhCCCCcEEE
Q 012112          190 KSCGRA--HGLKEVYEAIEIVKLCGVENWSLDLI--SSLPHQTPQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       190 ~~l~R~--~t~~~~~~ai~~~~~~G~~~v~~DlI--~GlPgqT~e~~~~~l~~~~~l~p~his~  249 (471)
                      +.+++.  ...+.+.++++.+++.|.. |.++.+  +.-+-.+++-+.+-++.+.+.++++|.+
T Consensus       115 ~~l~~s~~e~l~~~~~~v~~ak~~G~~-v~~~~e~~~Da~r~d~~~l~~~~~~~~~~Gad~i~l  177 (524)
T PRK12344        115 EALRTTLEENLAMIRDSVAYLKAHGRE-VIFDAEHFFDGYKANPEYALATLKAAAEAGADWVVL  177 (524)
T ss_pred             HHcCCCHHHHHHHHHHHHHHHHHcCCe-EEEccccccccccCCHHHHHHHHHHHHhCCCCeEEE
Confidence            777764  3567788899999999986 665444  1112345677788888889999998763

>COG0826 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]

Probab=86.10  E-value=4.5  Score=41.46  Aligned_cols=87  Identities=18%  Similarity=0.220  Sum_probs=65.8

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHh
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVG  241 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~  241 (471)
                      +-+.+...-++|++.|-+|.+-++-+...   ...+.+++.++++.++++|.+ +-+-+=.-+.....+.|.+.|+.+.+
T Consensus        15 ~l~~l~~ai~~GADaVY~G~~~~~~R~~a---~nfs~~~l~e~i~~ah~~gkk-~~V~~N~~~~~~~~~~~~~~l~~l~e   90 (347)
T COG0826          15 NLEDLKAAIAAGADAVYIGEKEFGLRRRA---LNFSVEDLAEAVELAHSAGKK-VYVAVNTLLHNDELETLERYLDRLVE   90 (347)
T ss_pred             CHHHHHHHHHcCCCEEEeCCccccccccc---ccCCHHHHHHHHHHHHHcCCe-EEEEeccccccchhhHHHHHHHHHHH
Confidence            67888888889999999999966543332   457899999999999999986 33322222334567779999999999


Q ss_pred             CCCCcEEEEec
Q 012112          242 AQPKHVSVYDL  252 (471)
Q Consensus       242 l~p~his~y~l  252 (471)
                      +++|.|-+-.+
T Consensus        91 ~GvDaviv~Dp  101 (347)
T COG0826          91 LGVDAVIVADP  101 (347)
T ss_pred             cCCCEEEEcCH
Confidence            99998766553

>PRK14040 oxaloacetate decarboxylase; Provisional

Probab=85.93  E-value=8.6  Score=42.31  Aligned_cols=119  Identities=16%  Similarity=0.132  Sum_probs=78.2

Q ss_pred             eeEEEEcCC-CCCC----CCHHHHHHHHHHHHHHcCCCCCcEEEEEec----------CCCCCHHHHHHHHHCCCCEEEE
Q 012112          115 LETVFFGGG-TPSL----VPPRFVSSILDTLTDKFGLSLDAEISMEMD----------PGTFDARKMEELMDLGVNRVSL  179 (471)
Q Consensus       115 v~~i~fGGG-Tps~----l~~~~l~~ll~~l~~~~~l~~~~eitiE~~----------P~~l~~e~l~~l~~~Gvnrvsi  179 (471)
                      +.++=++|| |+-.    +..+.. +-++.+++..   +++.+.+-++          |+++-++.++...++|++.+.+
T Consensus        41 ~~siE~~GGatf~~~~~~~~e~p~-e~lr~l~~~~---~~~~lqml~Rg~n~vg~~~ypddvv~~~v~~a~~~Gid~~ri  116 (593)
T PRK14040         41 YWSLESWGGATFDACIRFLGEDPW-ERLRELKKAM---PNTPQQMLLRGQNLLGYRHYADDVVERFVERAVKNGMDVFRV  116 (593)
T ss_pred             CCEEEecCCcchhhhccccCCCHH-HHHHHHHHhC---CCCeEEEEecCcceeccccCcHHHHHHHHHHHHhcCCCEEEE
Confidence            556656555 4321    344443 3355566543   3445544443          5555667789999999998888


Q ss_pred             ccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeec-CCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          180 GVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLIS-SLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       180 GvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~-GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      .. ++++           .+.+..+++.+++.|.. +...+-| +-|-.|.+-+.+.++.+.+.+++.|.+-
T Consensus       117 fd-~lnd-----------~~~~~~ai~~ak~~G~~-~~~~i~yt~~p~~~~~~~~~~a~~l~~~Gad~i~i~  175 (593)
T PRK14040        117 FD-AMND-----------PRNLETALKAVRKVGAH-AQGTLSYTTSPVHTLQTWVDLAKQLEDMGVDSLCIK  175 (593)
T ss_pred             ee-eCCc-----------HHHHHHHHHHHHHcCCe-EEEEEEEeeCCccCHHHHHHHHHHHHHcCCCEEEEC
Confidence            73 4444           35788899999999985 3332222 3577889999999999999999877554

>PRK12331 oxaloacetate decarboxylase; Provisional

Probab=85.45  E-value=7.3  Score=41.36  Aligned_cols=101  Identities=7%  Similarity=0.231  Sum_probs=68.8

Q ss_pred             HHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe--cCCCCCHHHHHHH
Q 012112           92 SNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM--DPGTFDARKMEEL  169 (471)
Q Consensus        92 ~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~--~P~~l~~e~l~~l  169 (471)
                      ..|+..+.+++...        +++.|++. +|-.++.|.++.+++.++++.++    ..+.+-+  +.+.-....++++
T Consensus       153 ~~~~~~~a~~l~~~--------Gad~I~i~-Dt~G~l~P~~v~~lv~alk~~~~----~pi~~H~Hnt~GlA~AN~laAi  219 (448)
T PRK12331        153 IDYFVKLAKEMQEM--------GADSICIK-DMAGILTPYVAYELVKRIKEAVT----VPLEVHTHATSGIAEMTYLKAI  219 (448)
T ss_pred             HHHHHHHHHHHHHc--------CCCEEEEc-CCCCCCCHHHHHHHHHHHHHhcC----CeEEEEecCCCCcHHHHHHHHH
Confidence            34555566666543        26789997 48888999999999999999875    2455444  3333345556555


Q ss_pred             HHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       170 ~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                       ++|++.|...+-.        ++.+.........+..++..|++
T Consensus       220 -eaGad~vD~sv~g--------lg~gaGN~~tE~lv~~L~~~g~~  255 (448)
T PRK12331        220 -EAGADIIDTAISP--------FAGGTSQPATESMVAALQDLGYD  255 (448)
T ss_pred             -HcCCCEEEeeccc--------cCCCcCCHhHHHHHHHHHhcCCC
Confidence             7899999888875        45555455566666666777776

>PRK03906 mannonate dehydratase; Provisional

Probab=85.26  E-value=3.4  Score=42.93  Aligned_cols=85  Identities=20%  Similarity=0.422  Sum_probs=52.4

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEe--------eeecCCCCC--CHHH
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSL--------DLISSLPHQ--TPQM  231 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~--------DlI~GlPgq--T~e~  231 (471)
                      ++..|+.++++|++.|.-.+-...      .|..=+.+++.+.-+.+.++|+. +++        |+..|.|+-  -.+.
T Consensus        12 d~~~l~~~rQ~G~~~iv~~l~~~~------~g~~W~~~~i~~~~~~ie~~Gl~-~~vvEs~pv~~~Ik~g~~~rd~~ie~   84 (385)
T PRK03906         12 DPVTLEDIRQPGATGIVTALHDIP------VGEVWPVEEILARKAEIEAAGLE-WSVVESVPVHEDIKTGTPNRDRYIEN   84 (385)
T ss_pred             CcchHHHHhcCCCCceeecCCCCC------CCCCCCHHHHHHHHHHHHHcCCe-EEEEeCCCccHHHHcCCCCHHHHHHH
Confidence            455666667777776665543332      23444667777777777777775 555        677777663  3456


Q ss_pred             HHHHHHHHHhCCCCcEEEEeccc
Q 012112          232 WEESLRRTVGAQPKHVSVYDLQV  254 (471)
Q Consensus       232 ~~~~l~~~~~l~p~his~y~l~~  254 (471)
                      +.++|+.+-+.+++ +-+|.+++
T Consensus        85 y~~sirnlg~~GI~-~icYnfmp  106 (385)
T PRK03906         85 YKQTLRNLAAAGIK-VVCYNFMP  106 (385)
T ss_pred             HHHHHHHHHhcCCc-EEEecCcc
Confidence            66777777777766 33555544

>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3

Probab=85.01  E-value=8.9  Score=35.14  Aligned_cols=111  Identities=15%  Similarity=0.038  Sum_probs=73.8

Q ss_pred             HHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEe--eeecCCCC-----CC------HHHH
Q 012112          166 MEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSL--DLISSLPH-----QT------PQMW  232 (471)
Q Consensus       166 l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~--DlI~GlPg-----qT------~e~~  232 (471)
                      ++.++++|++.|.+......+....       ..++.+..+.++++|+.-+++  ......+.     ..      .+.+
T Consensus         1 l~~~~~~G~~~vE~~~~~~~~~~~~-------~~~~~~~~~~~~~~gl~i~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~   73 (213)
T PF01261_consen    1 LEAAAEAGFDGVELRFDDGQPWDEK-------DDEAEELRRLLEDYGLKIASLHPPTNFWSPDEENGSANDEREEALEYL   73 (213)
T ss_dssp             HHHHHHTTHSEEEEEHHHHSHHTHH-------HHHHHHHHHHHHHTTCEEEEEEEEESSSCTGTTSTTSSSHHHHHHHHH
T ss_pred             ChHHHHcCCCEEEEecCCCcccccc-------hHHHHHHHHHHHHcCCeEEEEecccccccccccccCcchhhHHHHHHH
Confidence            5678999999999988777665554       667888888999999973333  33333321     23      7889


Q ss_pred             HHHHHHHHhCCCCcEEEEecc--ccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q 012112          233 EESLRRTVGAQPKHVSVYDLQ--VEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGY  293 (471)
Q Consensus       233 ~~~l~~~~~l~p~his~y~l~--~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy  293 (471)
                      .+.++.+..++++.+.+..-.  ..+.....          ...+...+.+..+.+.+++.|.
T Consensus        74 ~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~----------~~~~~~~~~l~~l~~~a~~~gv  126 (213)
T PF01261_consen   74 KKAIDLAKRLGAKYIVVHSGRYPSGPEDDTE----------ENWERLAENLRELAEIAEEYGV  126 (213)
T ss_dssp             HHHHHHHHHHTBSEEEEECTTESSSTTSSHH----------HHHHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHhCCCceeecCcccccccCCCHH----------HHHHHHHHHHHHHHhhhhhhcc
Confidence            999999999999988877531  11111000          1224456667777777777674

1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....

>PRK12330 oxaloacetate decarboxylase; Provisional

Probab=84.71  E-value=8.6  Score=41.33  Aligned_cols=107  Identities=15%  Similarity=0.262  Sum_probs=70.2

Q ss_pred             HHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEec--CCCCCHHHHHHH
Q 012112           92 SNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMD--PGTFDARKMEEL  169 (471)
Q Consensus        92 ~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~--P~~l~~e~l~~l  169 (471)
                      ..|+..+.+++...        +++.|+|.+ |-.++.|..+.+++..|++.++  ++..|.+-++  .+.-....+++ 
T Consensus       154 ~e~~~~~a~~l~~~--------Gad~I~IkD-taGll~P~~~~~LV~~Lk~~~~--~~ipI~~H~Hnt~GlA~An~laA-  221 (499)
T PRK12330        154 VEGFVEQAKRLLDM--------GADSICIKD-MAALLKPQPAYDIVKGIKEACG--EDTRINLHCHSTTGVTLVSLMKA-  221 (499)
T ss_pred             HHHHHHHHHHHHHc--------CCCEEEeCC-CccCCCHHHHHHHHHHHHHhCC--CCCeEEEEeCCCCCcHHHHHHHH-
Confidence            34555566666543        267899964 8888999999999999999864  2456666664  33224444444 


Q ss_pred             HHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEee
Q 012112          170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLD  219 (471)
Q Consensus       170 ~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~D  219 (471)
                      .++|++.|...+-++        +.+.+....+..+..++..|++ .++|
T Consensus       222 ieAGad~vDtai~Gl--------g~~aGn~atE~vv~~L~~~g~~-tgiD  262 (499)
T PRK12330        222 IEAGVDVVDTAISSM--------SLGPGHNPTESLVEMLEGTGYT-TKLD  262 (499)
T ss_pred             HHcCCCEEEeecccc--------cccccchhHHHHHHHHHhcCCC-CCCC
Confidence            478999999888886        3333334455566666667776 3443

>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain

Probab=84.68  E-value=8.3  Score=37.74  Aligned_cols=87  Identities=14%  Similarity=0.263  Sum_probs=59.0

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe--cCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM--DPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC  192 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~--~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l  192 (471)
                      ++.|++. +|-..+.|.++.++++.+++.++.   .++.+-+  +.+.-....+..+ ++|++.|.-.+-.        |
T Consensus       155 ~d~i~l~-DT~G~~~P~~v~~lv~~l~~~~~~---~~l~~H~Hn~~GlA~AN~laAi-~aGa~~vd~s~~G--------l  221 (263)
T cd07943         155 ADCVYVT-DSAGAMLPDDVRERVRALREALDP---TPVGFHGHNNLGLAVANSLAAV-EAGATRIDGSLAG--------L  221 (263)
T ss_pred             CCEEEEc-CCCCCcCHHHHHHHHHHHHHhCCC---ceEEEEecCCcchHHHHHHHHH-HhCCCEEEeeccc--------c
Confidence            6778886 578888999999999999998753   2444444  3433355666666 5799988776655        5


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCC
Q 012112          193 GRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       193 ~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                      |+....-..+..+..++..|+.
T Consensus       222 G~~aGN~~~E~lv~~L~~~g~~  243 (263)
T cd07943         222 GAGAGNTPLEVLVAVLERMGIE  243 (263)
T ss_pred             cCCcCCccHHHHHHHHHhcCCC
Confidence            6665545555555556666665

4-hydroxy 2-ketovalerate aldolase (Also known as 4-hydroxy-2-ketovalerate aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA)) converts 4-hydroxy-2-oxopentanoate to acetaldehyde and pyruvate, the penultimate step in the meta-cleavage pathway for the degradation of phenols, cresols and catechol. This family includes the Escherichia coli MhpE aldolase, the Pseudomonas DmpG aldolase, and the Burkholderia xenovorans BphI pyruvate aldolase. In Pseudomonas, the DmpG aldolase tightly associates with a dehydrogenase (DmpF ) and is inactive without it. HOA has a canonical TIM-barrel fold with a C-terminal extension that forms a funnel leading to the active site. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate

>PRK14041 oxaloacetate decarboxylase; Provisional

Probab=84.52  E-value=23  Score=37.86  Aligned_cols=101  Identities=13%  Similarity=0.264  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe--cCCCCCHHHHHHH
Q 012112           92 SNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM--DPGTFDARKMEEL  169 (471)
Q Consensus        92 ~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~--~P~~l~~e~l~~l  169 (471)
                      ..|+..+.+++...        +++.|+|.+ |-.++.|.++.+++..+++.+++    .+.+-+  +.+.-....++++
T Consensus       152 ~e~~~~~a~~l~~~--------Gad~I~i~D-t~G~l~P~~v~~Lv~~lk~~~~v----pI~~H~Hnt~GlA~AN~laAi  218 (467)
T PRK14041        152 LEYYLEFARELVDM--------GVDSICIKD-MAGLLTPKRAYELVKALKKKFGV----PVEVHSHCTTGLASLAYLAAV  218 (467)
T ss_pred             HHHHHHHHHHHHHc--------CCCEEEECC-ccCCcCHHHHHHHHHHHHHhcCC----ceEEEecCCCCcHHHHHHHHH
Confidence            34555566666543        267899964 88889999999999999998753    344444  3333345556555


Q ss_pred             HHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       170 ~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                       ++|++.|...+-.        ++++.+.-.....+..++..|++
T Consensus       219 -eaGad~vD~sv~~--------~g~gagN~atE~lv~~L~~~g~~  254 (467)
T PRK14041        219 -EAGADMFDTAISP--------FSMGTSQPPFESMYYAFRENGKE  254 (467)
T ss_pred             -HhCCCEEEeeccc--------cCCCCCChhHHHHHHHHHhcCCC
Confidence             7799999887775        44555555566666666777775

>TIGR00542 hxl6Piso_put hexulose-6-phosphate isomerase, putative

Probab=84.30  E-value=18  Score=35.46  Aligned_cols=123  Identities=13%  Similarity=0.076  Sum_probs=74.2

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeee------ecCCCCC-----CHH
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDL------ISSLPHQ-----TPQ  230 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~Dl------I~GlPgq-----T~e  230 (471)
                      =.+.++.++++|++.|.+++-..+.. +..+  ..+.++..+..+.++++|+.-.++.+      -++-|..     ..+
T Consensus        18 ~~e~l~~~~~~G~~~VEl~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~gl~i~~~~~~~~~~~~l~~~~~~~r~~~~~   94 (279)
T TIGR00542        18 WLERLQLAKTCGFDFVEMSVDETDDR-LSRL--DWSREQRLALVNAIIETGVRIPSMCLSAHRRFPLGSKDKAVRQQGLE   94 (279)
T ss_pred             HHHHHHHHHHcCCCEEEEecCCccch-hhcc--CCCHHHHHHHHHHHHHcCCCceeeecCCCccCcCCCcCHHHHHHHHH
Confidence            46889999999999999987664322 1111  23567777888889999997323321      1122221     234


Q ss_pred             HHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCc-eec
Q 012112          231 MWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR-HYE  297 (471)
Q Consensus       231 ~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~-~ye  297 (471)
                      .+++.++.+.+++.+.|.+.......          +.......+...+.+..+.+..++.|-. .+|
T Consensus        95 ~~~~~i~~a~~lG~~~v~~~~~~~~~----------~~~~~~~~~~~~~~l~~l~~~A~~~Gv~l~lE  152 (279)
T TIGR00542        95 IMEKAIQLARDLGIRTIQLAGYDVYY----------EEHDEETRRRFREGLKEAVELAARAQVTLAVE  152 (279)
T ss_pred             HHHHHHHHHHHhCCCEEEecCccccc----------CcCCHHHHHHHHHHHHHHHHHHHHcCCEEEEe
Confidence            57788888889999888653211100          1000111234456667778888888864 455

This family is conserved at better than 40 % identity among the four known examples from three species: Escherichia coli (SgbU and SgaU), Haemophilus influenzae, and Mycoplasma pneumoniae. The rarity of the family, high level of conservation, and proposed catabolic role suggests lateral transfer may be a part of the evolutionary history of this protein.

>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain

Probab=84.26  E-value=8.9  Score=37.43  Aligned_cols=101  Identities=16%  Similarity=0.246  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe--cCCCCCHHHHHHH
Q 012112           92 SNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM--DPGTFDARKMEEL  169 (471)
Q Consensus        92 ~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~--~P~~l~~e~l~~l  169 (471)
                      ..++..+.+++...        +++.|++.+ |-..+.|+++.+++..+++.++    .++.+-+  +.+.-....+..+
T Consensus       138 ~~~~~~~~~~~~~~--------G~~~i~l~D-T~G~~~P~~v~~lv~~l~~~~~----~~l~~H~Hn~~Gla~An~laAi  204 (259)
T cd07939         138 PDFLIEFAEVAQEA--------GADRLRFAD-TVGILDPFTTYELIRRLRAATD----LPLEFHAHNDLGLATANTLAAV  204 (259)
T ss_pred             HHHHHHHHHHHHHC--------CCCEEEeCC-CCCCCCHHHHHHHHHHHHHhcC----CeEEEEecCCCChHHHHHHHHH
Confidence            44555555555432        267788864 7778899999999999998875    2344444  4443455666666


Q ss_pred             HHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHc-CCC
Q 012112          170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLC-GVE  214 (471)
Q Consensus       170 ~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~-G~~  214 (471)
                       ++|+++|.-.+-.        ||++......+..+..++.. |+.
T Consensus       205 -~aG~~~vd~s~~G--------~G~~aGN~~tE~lv~~l~~~~g~~  241 (259)
T cd07939         205 -RAGATHVSVTVNG--------LGERAGNAALEEVVMALKHLYGRD  241 (259)
T ss_pred             -HhCCCEEEEeccc--------ccccccCcCHHHHHHHHHHhcCCC
Confidence             6899998766655        44554444455555555655 665

FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox

>TIGR00284 dihydropteroate synthase-related protein

Probab=83.58  E-value=28  Score=37.49  Aligned_cols=128  Identities=17%  Similarity=0.109  Sum_probs=80.7

Q ss_pred             HHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCC
Q 012112           96 QLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVN  175 (471)
Q Consensus        96 ~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvn  175 (471)
                      +.+.+..+.+.+.     +.+-|-+|++... -.++.+..+++.+++.++    ..+++.    +.+.+.++.--++|..
T Consensus       165 ~~i~~~A~~~~~~-----GADIIDIG~~st~-p~~~~v~~~V~~l~~~~~----~pISID----T~~~~v~eaAL~aGAd  230 (499)
T TIGR00284       165 DGIEGLAARMERD-----GADMVALGTGSFD-DDPDVVKEKVKTALDALD----SPVIAD----TPTLDELYEALKAGAS  230 (499)
T ss_pred             HHHHHHHHHHHHC-----CCCEEEECCCcCC-CcHHHHHHHHHHHHhhCC----CcEEEe----CCCHHHHHHHHHcCCC
Confidence            5555555544332     3677889887542 255668888888876542    345544    6778888877788866


Q ss_pred             EEEEccCCCC-HHHHHHcCC------------CCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHh
Q 012112          176 RVSLGVQAFQ-DELLKSCGR------------AHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVG  241 (471)
Q Consensus       176 rvsiGvQS~~-d~~L~~l~R------------~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~  241 (471)
                      -|. .+..++ ++++..+.+            ....+...+.++.++++|++.+-+|-++|.++   ..+.++|+.+..
T Consensus       231 iIN-sVs~~~~d~~~~l~a~~g~~vVlm~~~~~~~~~~l~~~ie~a~~~Gi~~IIlDPglg~~~---~~l~~sL~~l~~  305 (499)
T TIGR00284       231 GVI-MPDVENAVELASEKKLPEDAFVVVPGNQPTNYEELAKAVKKLRTSGYSKVAADPSLSPPL---LGLLESIIRFRR  305 (499)
T ss_pred             EEE-ECCccchhHHHHHHHHcCCeEEEEcCCCCchHHHHHHHHHHHHHCCCCcEEEeCCCCcch---HHHHHHHHHHHH
Confidence            442 222222 344332221            22347788999999999998899999999642   236666666653

This protein has been found so far only in the Archaea, and in particular in those archaea that lack a bacterial-type dihydropteroate synthase. The central region of this protein shows considerable homology to the amino-terminal half of dihydropteroate synthases, while the carboxyl-terminal region shows homology to the small, uncharacterized protein slr0651 of Synechocystis PCC6803.

>PRK12581 oxaloacetate decarboxylase; Provisional

Probab=83.48  E-value=8.8  Score=40.86  Aligned_cols=106  Identities=12%  Similarity=0.269  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe--cCCCCCHHHHHHH
Q 012112           92 SNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM--DPGTFDARKMEEL  169 (471)
Q Consensus        92 ~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~--~P~~l~~e~l~~l  169 (471)
                      ..|+..+.+++...        +++.|++.+ |-.++.|..+.+++.++++..    +.++.+-+  +.+.-....++++
T Consensus       162 ~~y~~~~a~~l~~~--------Gad~I~IkD-taG~l~P~~v~~Lv~alk~~~----~~pi~~H~Hnt~GlA~An~laAi  228 (468)
T PRK12581        162 LNYYLSLVKELVEM--------GADSICIKD-MAGILTPKAAKELVSGIKAMT----NLPLIVHTHATSGISQMTYLAAV  228 (468)
T ss_pred             HHHHHHHHHHHHHc--------CCCEEEECC-CCCCcCHHHHHHHHHHHHhcc----CCeEEEEeCCCCccHHHHHHHHH
Confidence            44555566666532        268899974 788899999999999998743    34555555  3333345555555


Q ss_pred             HHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeee
Q 012112          170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDL  220 (471)
Q Consensus       170 ~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~Dl  220 (471)
                       ++|++.|...+-++        +.+.+....+..+..++..|++ ..+|+
T Consensus       229 -eAGad~vD~ai~g~--------g~gagN~~tE~lv~~L~~~g~~-tgiDl  269 (468)
T PRK12581        229 -EAGADRIDTALSPF--------SEGTSQPATESMYLALKEAGYD-ITLDE  269 (468)
T ss_pred             -HcCCCEEEeecccc--------CCCcCChhHHHHHHHHHhcCCC-CCcCH
Confidence             78999998888754        4444444555666667777876 45553

>PRK12331 oxaloacetate decarboxylase; Provisional

Probab=81.91  E-value=30  Score=36.75  Aligned_cols=119  Identities=12%  Similarity=0.160  Sum_probs=79.3

Q ss_pred             eeEEEEcCC-CC----CCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe----------cCCCCCHHHHHHHHHCCCCEEEE
Q 012112          115 LETVFFGGG-TP----SLVPPRFVSSILDTLTDKFGLSLDAEISMEM----------DPGTFDARKMEELMDLGVNRVSL  179 (471)
Q Consensus       115 v~~i~fGGG-Tp----s~l~~~~l~~ll~~l~~~~~l~~~~eitiE~----------~P~~l~~e~l~~l~~~Gvnrvsi  179 (471)
                      +.+|=++|| |+    ++++++.. +.++.+++..   ++..+.+-+          .|+++-.+.++...++|++.|.+
T Consensus        40 v~~IE~~ggatf~~~~~f~~e~p~-e~l~~l~~~~---~~~~l~~l~r~~N~~G~~~~pddvv~~~v~~A~~~Gvd~iri  115 (448)
T PRK12331         40 YHSLEMWGGATFDACLRFLNEDPW-ERLRKIRKAV---KKTKLQMLLRGQNLLGYRNYADDVVESFVQKSVENGIDIIRI  115 (448)
T ss_pred             CCEEEecCCccchhhhccCCCCHH-HHHHHHHHhC---CCCEEEEEeccccccccccCchhhHHHHHHHHHHCCCCEEEE
Confidence            555656655 33    23555443 3456666543   234555333          45667778889999999998888


Q ss_pred             ccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          180 GVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       180 GvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      .. +.++-           ..+.++++.+++.|.. .+++....+ |--|.+-+.+..+.+.+++++.|.+-
T Consensus       116 f~-~lnd~-----------~n~~~~v~~ak~~G~~v~~~i~~t~~-p~~~~~~~~~~a~~l~~~Gad~I~i~  174 (448)
T PRK12331        116 FD-ALNDV-----------RNLETAVKATKKAGGHAQVAISYTTS-PVHTIDYFVKLAKEMQEMGADSICIK  174 (448)
T ss_pred             EE-ecCcH-----------HHHHHHHHHHHHcCCeEEEEEEeecC-CCCCHHHHHHHHHHHHHcCCCEEEEc
Confidence            65 33442           2367789999999975 133444555 78899999999999999999877654

>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=81.77  E-value=30  Score=33.98  Aligned_cols=102  Identities=22%  Similarity=0.227  Sum_probs=70.4

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCH---------HHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeec-CCCCCCHHH
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQD---------ELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLIS-SLPHQTPQM  231 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d---------~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~-GlPgqT~e~  231 (471)
                      +.+.++.|.++|++-|.+|+=.-|+         .-+++++.+.+.+++.+.++.+++.+.+ +-+-||. --| .=.-.
T Consensus        33 s~e~i~~L~~~GaD~iELGvPfSDPvADGP~Iq~A~~rAL~~g~t~~~~lel~~~~r~~~~~-~Pivlm~Y~Np-i~~~G  110 (265)
T COG0159          33 SLEIIKTLVEAGADILELGVPFSDPVADGPTIQAAHLRALAAGVTLEDTLELVEEIRAKGVK-VPIVLMTYYNP-IFNYG  110 (265)
T ss_pred             HHHHHHHHHhCCCCEEEecCCCCCcCccCHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCC-CCEEEEEeccH-HHHhh
Confidence            5677788888999999999987765         3567888999999999999999988665 3333331 111 01123


Q ss_pred             HHHHHHHHHhCCCCcEEEEeccccCCChhhhccc
Q 012112          232 WEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYT  265 (471)
Q Consensus       232 ~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~  265 (471)
                      +++-++.+.+.+++-+-+=.|-+++...+.+..+
T Consensus       111 ie~F~~~~~~~GvdGlivpDLP~ee~~~~~~~~~  144 (265)
T COG0159         111 IEKFLRRAKEAGVDGLLVPDLPPEESDELLKAAE  144 (265)
T ss_pred             HHHHHHHHHHcCCCEEEeCCCChHHHHHHHHHHH
Confidence            4445677888888888777776666555544433

>TIGR01108 oadA oxaloacetate decarboxylase alpha subunit

Probab=81.74  E-value=31  Score=37.99  Aligned_cols=119  Identities=13%  Similarity=0.128  Sum_probs=80.8

Q ss_pred             eeEEEEcCC-CC----CCCCHHHHHHHHHHHHHHcCCCCCcEEEEEec----------CCCCCHHHHHHHHHCCCCEEEE
Q 012112          115 LETVFFGGG-TP----SLVPPRFVSSILDTLTDKFGLSLDAEISMEMD----------PGTFDARKMEELMDLGVNRVSL  179 (471)
Q Consensus       115 v~~i~fGGG-Tp----s~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~----------P~~l~~e~l~~l~~~Gvnrvsi  179 (471)
                      +.+|=+||| |+    ++++++. .+.++.+++..   ++..+..-++          |+++-++.++...++|++.+.+
T Consensus        35 v~~IE~~GGatfd~~~~f~~e~~-~e~l~~l~~~~---~~~~l~~L~Rg~N~~G~~~ypddvv~~~v~~a~~~Gvd~iri  110 (582)
T TIGR01108        35 YWSLEVWGGATFDACIRFLNEDP-WERLRELKKAL---PNTPLQMLLRGQNLLGYRHYADDVVERFVKKAVENGMDVFRI  110 (582)
T ss_pred             CCEEEecCCcccccccccCCCCH-HHHHHHHHHhC---CCCEEEEEEccccccccccCchhhHHHHHHHHHHCCCCEEEE
Confidence            566666655 33    3355554 34456666543   3345655543          5666778889999999998877


Q ss_pred             ccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeec-CCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          180 GVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLIS-SLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       180 GvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~-GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      .. +.++           .+.+..+++.++++|.. +.+.+-+ +-|-.|.+-+.+.++.+.+.+++.|.+-
T Consensus       111 f~-~lnd-----------~~n~~~~i~~ak~~G~~-v~~~i~~t~~p~~~~~~~~~~~~~~~~~Gad~I~i~  169 (582)
T TIGR01108       111 FD-ALND-----------PRNLQAAIQAAKKHGAH-AQGTISYTTSPVHTLETYLDLAEELLEMGVDSICIK  169 (582)
T ss_pred             EE-ecCc-----------HHHHHHHHHHHHHcCCE-EEEEEEeccCCCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            53 3343           24688899999999986 6654322 3577789999999999999999876543

This model describes the bacterial oxaloacetate decarboxylase alpha subunit and its equivalents in archaea. The oxaloacetate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases that present in bacteria and archaea. It a multi subunit enzyme consisting of a peripheral alpha-subunit and integral membrane subunits beta and gamma. The energy released by the decarboxylation reaction of oxaloacetate is coupled to Na+ ion pumping across the membrane.

>PRK08091 ribulose-phosphate 3-epimerase; Validated

Probab=81.58  E-value=38  Score=32.57  Aligned_cols=133  Identities=14%  Similarity=0.141  Sum_probs=82.0

Q ss_pred             cEEEEEe-cCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCC
Q 012112          150 AEISMEM-DPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQT  228 (471)
Q Consensus       150 ~eitiE~-~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT  228 (471)
                      .++.+.+ ||    ++.++.+.++|++.|++=+|+.              .+..++++.+|+.|.. +..-+.+. |+..
T Consensus        71 ~DvHLMv~~P----~~~i~~~~~aGad~It~H~Ea~--------------~~~~~~l~~Ik~~g~~-~kaGlaln-P~Tp  130 (228)
T PRK08091         71 KDVHLMVRDQ----FEVAKACVAAGADIVTLQVEQT--------------HDLALTIEWLAKQKTT-VLIGLCLC-PETP  130 (228)
T ss_pred             EEEEeccCCH----HHHHHHHHHhCCCEEEEcccCc--------------ccHHHHHHHHHHCCCC-ceEEEEEC-CCCC
Confidence            3555555 55    6789999999999999999974              2356788899999983 34555554 6766


Q ss_pred             HHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCce-eccccccCCCcc
Q 012112          229 PQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH-YEISSYGEDGYE  307 (471)
Q Consensus       229 ~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~-yeis~fa~~g~~  307 (471)
                      .+.+..-+..     +|.|-+.  +++||..       |+.-.   +...+-...+++++.++||.- .|+     +|.-
T Consensus       131 ~~~i~~~l~~-----vD~VLiM--tV~PGfg-------GQ~f~---~~~l~KI~~lr~~~~~~~~~~~IeV-----DGGI  188 (228)
T PRK08091        131 ISLLEPYLDQ-----IDLIQIL--TLDPRTG-------TKAPS---DLILDRVIQVENRLGNRRVEKLISI-----DGSM  188 (228)
T ss_pred             HHHHHHHHhh-----cCEEEEE--EECCCCC-------Ccccc---HHHHHHHHHHHHHHHhcCCCceEEE-----ECCC
Confidence            7766655543     5666554  4677743       22111   223444556667778888752 232     3444


Q ss_pred             hhhhhhh-h-cCCCEEEEc
Q 012112          308 CKHNLTY-W-KNKPFYGFG  324 (471)
Q Consensus       308 ~~hn~~y-w-~~~~ylG~G  324 (471)
                      ...|... . .+.|.+=.|
T Consensus       189 ~~~ti~~l~~aGaD~~V~G  207 (228)
T PRK08091        189 TLELASYLKQHQIDWVVSG  207 (228)
T ss_pred             CHHHHHHHHHCCCCEEEEC
Confidence            4445432 2 356776666

>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed

Probab=80.41  E-value=31  Score=33.62  Aligned_cols=124  Identities=12%  Similarity=0.073  Sum_probs=74.3

Q ss_pred             CCCCC-HHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeee------ecCCCCC---
Q 012112          158 PGTFD-ARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDL------ISSLPHQ---  227 (471)
Q Consensus       158 P~~l~-~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~Dl------I~GlPgq---  227 (471)
                      |..++ ++.++..+++|++.|.+.+-..++...   .-..+.+++.+..+.++++|+.-.++.+      -++-|..   
T Consensus        13 ~~~~~~~e~~~~~~~~G~~~iEl~~~~~~~~~~---~~~~~~~~~~~l~~~l~~~Gl~i~~~~~~~~~~~~~~~~d~~~r   89 (284)
T PRK13210         13 PKHLSWEERLVFAKELGFDFVEMSVDESDERLA---RLDWSKEERLSLVKAIYETGVRIPSMCLSGHRRFPFGSRDPATR   89 (284)
T ss_pred             CCCCCHHHHHHHHHHcCCCeEEEecCCcccccc---cccCCHHHHHHHHHHHHHcCCCceEEecccccCcCCCCCCHHHH
Confidence            34444 689999999999999997654322110   1123556777778889999998322211      1222332   


Q ss_pred             --CHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCc
Q 012112          228 --TPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR  294 (471)
Q Consensus       228 --T~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~  294 (471)
                        +.+.+++.++.+..++.++|.+...     +.....   .  .....+...+.+..+.+..++.|..
T Consensus        90 ~~~~~~~~~~i~~a~~lG~~~v~~~~~-----~~~~~~---~--~~~~~~~~~~~l~~l~~~a~~~gv~  148 (284)
T PRK13210         90 ERALEIMKKAIRLAQDLGIRTIQLAGY-----DVYYEE---K--SEETRQRFIEGLAWAVEQAAAAQVM  148 (284)
T ss_pred             HHHHHHHHHHHHHHHHhCCCEEEECCc-----cccccc---c--cHHHHHHHHHHHHHHHHHHHHhCCE
Confidence              4566788899999999999875321     111100   0  0011234455677778888888864

>PRK14042 pyruvate carboxylase subunit B; Provisional

Probab=80.19  E-value=36  Score=37.54  Aligned_cols=101  Identities=10%  Similarity=0.167  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEec--CCCCCHHHHHHH
Q 012112           92 SNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMD--PGTFDARKMEEL  169 (471)
Q Consensus        92 ~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~--P~~l~~e~l~~l  169 (471)
                      ..|+..+.+++...        +++.|+|.+ |-.++.|..+.+++.+|++.++    .+|.+-+|  .+.-....++++
T Consensus       153 ~e~~~~~ak~l~~~--------Gad~I~IkD-taG~l~P~~v~~lv~alk~~~~----ipi~~H~Hnt~Gla~an~laAi  219 (596)
T PRK14042        153 LDNFLELGKKLAEM--------GCDSIAIKD-MAGLLTPTVTVELYAGLKQATG----LPVHLHSHSTSGLASICHYEAV  219 (596)
T ss_pred             HHHHHHHHHHHHHc--------CCCEEEeCC-cccCCCHHHHHHHHHHHHhhcC----CEEEEEeCCCCCcHHHHHHHHH
Confidence            34555566666543        267899964 7788999999999999998864    35555553  333344555554


Q ss_pred             HHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       170 ~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                       ++|++.|...+-++        +...+.-.....+..++..|++
T Consensus       220 -eaGad~iD~ai~gl--------Gg~tGn~~tE~lv~~L~~~g~~  255 (596)
T PRK14042        220 -LAGCNHIDTAISSF--------SGGASHPPTEALVAALTDTPYD  255 (596)
T ss_pred             -HhCCCEEEeccccc--------cCCCCcHhHHHHHHHHHhcCCC
Confidence             78999998888775        4444455556666667777776

>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm)

Probab=80.09  E-value=10  Score=33.07  Aligned_cols=87  Identities=22%  Similarity=0.216  Sum_probs=59.0

Q ss_pred             HHHHCCCCEEEEccCCCCHHHHHHcCC------------CCCHHHHHHHHHHHHHcCCCeeEeeeecCC-CCCCHHHHHH
Q 012112          168 ELMDLGVNRVSLGVQAFQDELLKSCGR------------AHGLKEVYEAIEIVKLCGVENWSLDLISSL-PHQTPQMWEE  234 (471)
Q Consensus       168 ~l~~~GvnrvsiGvQS~~d~~L~~l~R------------~~t~~~~~~ai~~~~~~G~~~v~~DlI~Gl-PgqT~e~~~~  234 (471)
                      .|+.+|+.=+.+|++--.+++.+...+            .++...+.+.++.++++|+..  +=+|+|= +.--.+++.+
T Consensus        22 ~L~~~GfeVidLG~~v~~e~~v~aa~~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~--v~vivGG~~~i~~~d~~~   99 (128)
T cd02072          22 AFTEAGFNVVNLGVLSPQEEFIDAAIETDADAILVSSLYGHGEIDCKGLREKCDEAGLKD--ILLYVGGNLVVGKQDFED   99 (128)
T ss_pred             HHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEeccccCCHHHHHHHHHHHHHCCCCC--CeEEEECCCCCChhhhHH
Confidence            445566666666666666665554322            356788899999999999864  4456653 3345678888


Q ss_pred             HHHHHHhCCCCcEEEEeccccCCChhhh
Q 012112          235 SLRRTVGAQPKHVSVYDLQVEQGTKFGI  262 (471)
Q Consensus       235 ~l~~~~~l~p~his~y~l~~~pgT~l~~  262 (471)
                      +.+.+.+++++.+  |.    |||++..
T Consensus       100 ~~~~L~~~Gv~~v--f~----pgt~~~~  121 (128)
T cd02072         100 VEKRFKEMGFDRV--FA----PGTPPEE  121 (128)
T ss_pred             HHHHHHHcCCCEE--EC----cCCCHHH
Confidence            8888999998755  43    7776543

Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	471
1olt_A	457	Coproporphyrinogen Iii Oxidase (Hemn) From Escheric		3e-24

>pdb|1OLT|A Chain A, Coproporphyrinogen Iii Oxidase (Hemn) From Escherichia Coli Is A Radical Sam Enzyme Length = 457

Iteration: 1
 Score =  109 bits (273), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 78/312 (25%), Positives = 141/312 (45%), Gaps = 28/312 (8%)
Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKP---GH 109
           P S Y+H+PFC K C++C       G +   T     +   Y+  L +EI+   P   G 
Sbjct: 52  PLSLYVHIPFCHKLCYFC-------GCNKIVTRQQH-KADQYLDALEQEIVHRAPLFAGR 103
Query: 110 KTSPPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEEL 169
             S     + +GGGTP+ +    +S ++  L + F  + DAEIS+E+DP   +   ++ L
Sbjct: 104 HVS----QLHWGGGTPTYLNKAQISRLMKLLRENFQFNADAEISIEVDPREIELDVLDHL 159
Query: 170 MDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTP 229
              G NR+S+GVQ F  E+ +   R    + ++  +   +  G  + ++DLI  LP QTP
Sbjct: 160 RAEGFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAREIGFTSTNIDLIYGLPKQTP 219
Query: 230 QMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS 289
           + +  +L+R     P  +SV++      T F       +  LP+  Q  +  +   + L+
Sbjct: 220 ESFAFTLKRVAELNPDRLSVFNY-AHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLT 278
Query: 290 SAGYR-----HY-----EISSYGEDG--YECKHNLTYWKNKPFYGFGLGSASYLGGLRFS 337
            +GY+     H+     E++    +G  +      T   +    G G+ + S +G     
Sbjct: 279 QSGYQFIGMDHFARPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISMIGDCYAQ 338
Query: 338 RPRRMKEFVDYV 349
             + +K++   V
Sbjct: 339 NQKELKQYYQQV 350

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	471
1olt_A	457	Oxygen-independent coproporphyrinogen III oxidase;	2e-96
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04

>1olt_A Oxygen-independent coproporphyrinogen III oxidase; heme biosynthesis, decarboxylase, radical SAM enzyme, 4Fe- 4 cluster; HET: SAM; 2.07A {Escherichia coli} SCOP: c.1.28.2 Length = 457

 Score =  297 bits (762), Expect = 2e-96
 Identities = 80/384 (20%), Positives = 151/384 (39%), Gaps = 28/384 (7%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
           P S Y+H+PFC K C++C                   +   Y+  L +EI+   P     
Sbjct: 52  PLSLYVHIPFCHKLCYFCGCN--------KIVTRQQHKADQYLDALEQEIVHRAP-LFAG 102

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
             +  + +GGGTP+ +    +S ++  L + F  + DAEIS+E+DP   +   ++ L   
Sbjct: 103 RHVSQLHWGGGTPTYLNKAQISRLMKLLRENFQFNADAEISIEVDPREIELDVLDHLRAE 162

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           G NR+S+GVQ F  E+ +   R    + ++  +   +  G  + ++DLI  LP QTP+ +
Sbjct: 163 GFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAREIGFTSTNIDLIYGLPKQTPESF 222

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
             +L+R     P  +SV++      T F       +  LP+  Q  +  +   + L+ +G
Sbjct: 223 AFTLKRVAELNPDRLSVFNYAHL-PTIFAAQRKIKDADLPSPQQKLDILQETIAFLTQSG 281

Query: 293 YRHYEISSYGEDGYECK------------HNLTYWKNKPFYGFGLGSASYLGGLRFSRPR 340
           Y+   +  +     E                 T   +    G G+ + S +G       +
Sbjct: 282 YQFIGMDHFARPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISMIGDCYAQNQK 341

Query: 341 RMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVH 400
            +K+   Y Q ++      W    +   D     ++ S      +D     + +      
Sbjct: 342 ELKQ---YYQQVDEQGNALWRGIALTRDDCIRRDVIKSLICNFRLDYSPIEQQWDLLFAD 398

Query: 401 TLCKAY---KPYIESGHVICLDEW 421
              +      P  + G V   ++ 
Sbjct: 399 YFAEDLKLLAPLAKDGLVDVDEKG 422

>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 = 56.0 bits (134), Expect = 2e-08
 Identities = 64/416 (15%), Positives = 129/416 (31%), Gaps = 130/416 (31%)

Query: 86  DD--DPRVSNYIQLLCREIIATK---------PGHKTSPPLETVFFGGGTPSLVPP---- 130
            +  + +  N   L C+ ++ T+             T   L+          L P     
Sbjct: 251 LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT-----LTPDEVKS 305

Query: 131 ---RFVSSILDTL------TDKFGLSLDAEISMEMDPGTFDARKMEELMDLG-VNRVSLG 180
              +++      L      T+   LS+ AE S+     T+D  K      L  +   SL 
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAE-SIRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 181 VQAFQDELLKSCGRAHGLKEVYEAIEI----VKLCGVENWSLDLISSLPHQTPQMWEESL 236
           V    +            +++++ + +      +         L+S +       W + +
Sbjct: 365 VLEPAE-----------YRKMFDRLSVFPPSAHI------PTILLSLI-------WFDVI 400

Query: 237 RRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS----AG 292
           +  V      +  Y L VE+  K   +  P  + L  + +  N Y +  S++        
Sbjct: 401 KSDVMVVVNKLHKYSL-VEKQPKESTISIPSIY-LELKVKLENEYALHRSIVDHYNIPKT 458

Query: 293 YRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNL 352
           +   ++     D Y       Y       G  L +  +    R +  R +  F+D+    
Sbjct: 459 FDSDDLIPPYLDQY------FYS----HIGHHLKNIEH--PERMTLFRMV--FLDF---- 500

Query: 353 EAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGC--SLVHTL--CKAYKP 408
                       ++ K                  ++     +    S+++TL   K YKP
Sbjct: 501 ----------RFLEQK------------------IRHDSTAWNASGSILNTLQQLKFYKP 532

Query: 409 YIESGHVICLDEWRRAMN-IEEF------NSLLLDETKIGNRLAYFRLSDPEGFLL 457
           YI         ++ R +N I +F      N +    T +  R+A   L   +  + 
Sbjct: 533 YICDND----PKYERLVNAILDFLPKIEENLICSKYTDL-LRIA---LMAEDEAIF 580

>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 = 42.1 bits (98), Expect = 4e-04
 Identities = 56/416 (13%), Positives = 116/416 (27%), Gaps = 131/416 (31%)

Query: 136 ILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLG--VNRVSL-----------GVQ 182
           IL    D F  + D +   +M        +++ ++     V+                VQ
Sbjct: 21  ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80

Query: 183 AFQDELLKS------------CGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQ 230
            F +E+L+               +   +  +Y   +  +L         + +       Q
Sbjct: 81  KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE-QRDRLYN----DNQVFAKYNVSRLQ 135

Query: 231 MWEESLRRTV-GAQP-KHVSVY----------------DLQVEQGTKFGILY-TPGEFPL 271
            + + LR+ +   +P K+V +                   +V+    F I +        
Sbjct: 136 PYLK-LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS 194

Query: 272 PTET--QSANFYRMASSMLSSAGYRHYEISSYGEDGYECKHNLTYWKNKPFYGFGLGSAS 329
           P                  +S       I          K  +   +             
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNI----------KLRIHSIQA------------ 232

Query: 330 YLGGLRFSRPRRMKEFVDYVQNLEAGLV--DCWGNNHIDAKDLAMDVLMLSFRTARGVDL 387
                     RR+ +   Y   L   LV  +       +A +L+  +L+ + R  +  D 
Sbjct: 233 --------ELRRLLKSKPYENCL---LVLLNVQNAKAWNAFNLSCKILLTT-RFKQVTDF 280

Query: 388 KSFGETFGCSLVH-----------TLCKAY--------KPYIESGH--VICL-------- 418
            S   T   SL H           +L   Y           + + +   + +        
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG 340

Query: 419 ----DEWRRAMNIEEFNSLL------LDETKIGNRLAYFRLSD-PEGFLLSNELIS 463
               D W+  +N ++  +++      L+  +   R  + RLS  P    +   L+S
Sbjct: 341 LATWDNWKH-VNCDKLTTIIESSLNVLEPAEY--RKMFDRLSVFPPSAHIPTILLS 393

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	471
1olt_A	457	Oxygen-independent coproporphyrinogen III oxidase;	100.0
1r30_A	369	Biotin synthase; SAM radical protein, TIM barrel,	99.97
2qgq_A	304	Protein TM_1862; alpha-beta protein, structural ge	99.96
3t7v_A	350	Methylornithine synthase PYLB; TIM-barrel fold, mu	99.91
3iix_A	348	Biotin synthetase, putative; adoMet radical, SAM r	99.9
3c8f_A	245	Pyruvate formate-lyase 1-activating enzyme; adoMet	99.76
2yx0_A	342	Radical SAM enzyme; predicted tRNA modification en	99.67
1tv8_A	340	MOAA, molybdenum cofactor biosynthesis protein A;	99.61
2z2u_A	311	UPF0026 protein MJ0257; metal binding protein; 2.4	99.27
2a5h_A	416	L-lysine 2,3-aminomutase; radical SAM, four-iron-f	99.21
3rfa_A	404	Ribosomal RNA large subunit methyltransferase N; r	98.84
3can_A	182	Pyruvate-formate lyase-activating enzyme; structur	98.63
4fhd_A	368	Spore photoproduct lyase; partial TIM-barrel, DNA	97.43
1qwg_A	251	PSL synthase;, (2R)-phospho-3-sulfolactate synthas	95.65
2cw6_A	298	Hydroxymethylglutaryl-COA lyase, mitochondrial; HM	94.09
2pg4_A	95	Uncharacterized protein; structural genomics, join	92.97
3n9k_A	399	Glucan 1,3-beta-glucosidase; aromatic entranceway/	92.08
1ydn_A	295	Hydroxymethylglutaryl-COA lyase; TIM-barrel protei	92.03
3oop_A	143	LIN2960 protein; protein structure initiative, PSI	91.94
3g3z_A	145	NMB1585, transcriptional regulator, MARR family; t	91.78
2qvo_A	95	Uncharacterized protein AF_1382; PSI, structural g	91.56
3k0l_A	162	Repressor protein; helix-turn-helix, structural ge	91.53
3e6m_A	161	MARR family transcriptional regulator; APC88769, s	91.23
3s2w_A	159	Transcriptional regulator, MARR family; structural	91.13
3hsr_A	140	HTH-type transcriptional regulator SARZ; helix-tur	91.05
3eco_A	139	MEPR; mutlidrug efflux pump regulator winged helix	90.91
2ftp_A	302	Hydroxymethylglutaryl-COA lyase; structural genomi	90.84
3deu_A	166	Transcriptional regulator SLYA; MARR, WING-helix,	90.7
3ech_A	142	MEXR, multidrug resistance operon repressor; winge	90.54
4hbl_A	149	Transcriptional regulator, MARR family; HTH, trans	90.32
3bro_A	141	Transcriptional regulator; helix_TURN_helix, multi	90.24
1jgs_A	138	Multiple antibiotic resistance protein MARR; trans	90.2
2frh_A	127	SARA, staphylococcal accessory regulator A; winged	90.19
2fbh_A	146	Transcriptional regulator PA3341; MARR, transcript	89.8
3nrv_A	148	Putative transcriptional regulator (MARR/EMRR FAM;	89.77
2hr3_A	147	Probable transcriptional regulator; MCSG, structur	89.76
4aik_A	151	Transcriptional regulator SLYA; transcription, tra	89.73
2gxg_A	146	146AA long hypothetical transcriptional regulator;	89.66
2xvc_A	59	ESCRT-III, SSO0910; cell cycle, cell division, cyt	89.62
1tbx_A	99	ORF F-93, hypothetical 11.0 kDa protein; sulfolobu	89.53
1u83_A	276	Phosphosulfolactate synthase; structural genomics,	89.52
1lj9_A	144	Transcriptional regulator SLYA; HTH DNA binding pr	89.22
2rdp_A	150	Putative transcriptional regulator MARR; PFAM PF01	89.16
3cdh_A	155	Transcriptional regulator, MARR family; helix-turn	89.13
2yci_X	271	5-methyltetrahydrofolate corrinoid/iron sulfur PR	89.13
1ydo_A	307	HMG-COA lyase; TIM-barrel protein, structural geno	88.9
3ble_A	337	Citramalate synthase from leptospira interrogans;	88.89
3kp7_A	151	Transcriptional regulator TCAR; multiple drug resi	88.74
3bj6_A	152	Transcriptional regulator, MARR family; helix-turn	88.59
3nqo_A	189	MARR-family transcriptional regulator; structural	88.51
1hjs_A	332	Beta-1,4-galactanase; 4-galactanases, family 53 gl	88.42
1fob_A	334	Beta-1,4-galactanase; B/A barrel, glycosyl hydrola	88.36
1aj0_A	282	DHPS, dihydropteroate synthase; antibiotic, resist	88.22
3hrs_A	214	Metalloregulator SCAR; DTXR/MNTR family member, tr	88.15
2eth_A	154	Transcriptional regulator, putative, MAR family; M	88.03
3bpv_A	138	Transcriptional regulator; MARR, DNA binding, tran	88.02
2nnn_A	140	Probable transcriptional regulator; structural gen	87.92
3cjn_A	162	Transcriptional regulator, MARR family; silicibact	87.56
2nyx_A	168	Probable transcriptional regulatory protein, RV14;	87.37
2a61_A	145	Transcriptional regulator TM0710; APC4350, MCSG, m	87.11
3ivs_A	423	Homocitrate synthase, mitochondrial; TIM barrel, m	86.93
3ewb_X	293	2-isopropylmalate synthase; LEUA, structural genom	86.91
2fbi_A	142	Probable transcriptional regulator; MARR, APC5816,	86.78
1ub9_A	100	Hypothetical protein PH1061; helix-turn-helix moti	86.7
2fa5_A	162	Transcriptional regulator MARR/EMRR family; multip	86.61
1on2_A	142	Transcriptional regulator MNTR; helix-turn-helix,	86.55
3fm5_A	150	Transcriptional regulator; MCSG, PF04017, PSI, MAR	86.5
3bdd_A	142	Regulatory protein MARR; putative multiple antibio	86.13
1nvm_A	345	HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered	86.08
3bja_A	139	Transcriptional regulator, MARR family, putative;	85.73
3f3x_A	144	Transcriptional regulator, MARR family, putative;	85.44
3jw4_A	148	Transcriptional regulator, MARR/EMRR family; DNA-b	85.43
4b8x_A	147	SCO5413, possible MARR-transcriptional regulator;	85.39
3tgn_A	146	ADC operon repressor ADCR; helix-turn-helix, trans	85.22
1sfx_A	109	Conserved hypothetical protein AF2008; structural	85.15
1s3j_A	155	YUSO protein; structural genomics, MARR transcript	84.97
1xmk_A	79	Double-stranded RNA-specific adenosine deaminase;	84.8
2qww_A	154	Transcriptional regulator, MARR family; YP_013417.	84.68
2hzt_A	107	Putative HTH-type transcriptional regulator YTCD;	84.53
2dqw_A	294	Dihydropteroate synthase; dimer, structural genomi	84.06
2fxa_A	207	Protease production regulatory protein HPR; protea	83.94
2nx9_A	464	Oxaloacetate decarboxylase 2, subunit alpha; carbo	83.83
3eeg_A	325	2-isopropylmalate synthase; 11106D, beta barrel, P	83.73
2x4h_A	139	Hypothetical protein SSO2273; transcription; 2.30A	83.53
1hsj_A	487	Fusion protein consisting of staphylococcus access	83.37
1rqb_A	539	Transcarboxylase 5S subunit; TIM-barrel, carbamyla	83.21
3u2r_A	168	Regulatory protein MARR; structural genomics, PSI-	82.97
3lmz_A	257	Putative sugar isomerase; structural genomics, joi	82.95
4fx0_A	148	Probable transcriptional repressor protein; helix-	82.65
3rmj_A	370	2-isopropylmalate synthase; LEUA, truncation, neis	82.53
2h09_A	155	Transcriptional regulator MNTR; transcription regu	82.38
1eye_A	280	DHPS 1, dihydropteroate synthase I; alpha-beta bar	82.36
1h4p_A	408	Glucan 1,3-beta-glucosidase I/II; hydrolase, gluca	82.26
3boq_A	160	Transcriptional regulator, MARR family; MARR famil	81.96
2bv6_A	142	MGRA, HTH-type transcriptional regulator MGRA; mul	81.72
2whl_A	294	Beta-mannanase, baman5; glycoside hydrolase, hydro	81.55
4a5n_A	131	Uncharacterized HTH-type transcriptional regulato;	81.43
3qr3_A	340	Endoglucanase EG-II; TIM barrel, hydrolase; 2.05A	81.38
2fsw_A	107	PG_0823 protein; alpha-beta structure, helix-turn-	81.24
1tx2_A	297	DHPS, dihydropteroate synthase; folate biosynthesi	80.95
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	80.71
2pex_A	153	Transcriptional regulator OHRR; transcription regu	80.12

>1olt_A Oxygen-independent coproporphyrinogen III oxidase; heme biosynthesis, decarboxylase, radical SAM enzyme, 4Fe- 4 cluster; HET: SAM; 2.07A {Escherichia coli} SCOP: c.1.28.2

Probab=100.00  E-value=8e-74  Score=602.45  Aligned_cols=381  Identities=21%  Similarity=0.390  Sum_probs=340.4

Q ss_pred             CCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           50 QLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        50 ~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      |..++++|||||||+.+|.||++++....        ....+.+|+++|++||+.....+. ...+.+||||||||++++
T Consensus        49 p~~~~~lYihIpfC~~~C~yC~~~~~~~~--------~~~~~~~~~~~l~~Ei~~~~~~~~-~~~i~~i~fgGGtpt~l~  119 (457)
T 1olt_A           49 PERPLSLYVHIPFCHKLCYFCGCNKIVTR--------QQHKADQYLDALEQEIVHRAPLFA-GRHVSQLHWGGGTPTYLN  119 (457)
T ss_dssp             TTSCEEEEEEECEESSCCTTCCSSCEECS--------CTHHHHHHHHHHHHHHHHHGGGGT-TCCEEEEEEEESCGGGSC
T ss_pred             CCCceEEEEEcCCCCCCCCCCCCceeccC--------CcchHHHHHHHHHHHHHHHHHhcC-CCceEEEEEeCCCcccCC
Confidence            36679999999999999999999875321        234568899999999997665443 246899999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      ++.+.++++.+++.|++..+.+|++|+||+.++++.++.|+++|++|||+||||+++++|+.|+|.|+.+++.++++.++
T Consensus       120 ~~~l~~ll~~i~~~~~~~~~~eitie~~p~~l~~e~l~~L~~~G~~rislGvQS~~~~~l~~i~R~~~~~~~~~ai~~~r  199 (457)
T 1olt_A          120 KAQISRLMKLLRENFQFNADAEISIEVDPREIELDVLDHLRAEGFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAR  199 (457)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEEEEEECSSSCCTHHHHHHHHTTCCEEEEEEECCCHHHHHHHTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCCcEEEEEEccCcCCHHHHHHHHHcCCCEEEEeeccCCHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            99999999999999887777899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          210 LCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       210 ~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      ++||.+|++|+|+|+||||.++|.++++.+.+++|+||++|.|++.|||+..+.. .+...+|++++..+||..+.+.|.
T Consensus       200 ~~G~~~v~~dlI~GlPget~e~~~~tl~~~~~l~~~~i~~y~l~~~p~t~~~~~~-~~~~~lp~~~~~~~~~~~~~~~L~  278 (457)
T 1olt_A          200 EIGFTSTNIDLIYGLPKQTPESFAFTLKRVAELNPDRLSVFNYAHLPTIFAAQRK-IKDADLPSPQQKLDILQETIAFLT  278 (457)
T ss_dssp             HTTCCSCEEEEEESCTTCCHHHHHHHHHHHHHHCCSEEEEEECCCCTTTSGGGGG-SCGGGSCCHHHHHHHHHHHHHHHH
T ss_pred             HcCCCcEEEEEEcCCCCCCHHHHHHHHHHHHhcCcCEEEeecCcCCcCchhHhhc-cccCCCcCHHHHHHHHHHHHHHHH
Confidence            9999889999999999999999999999999999999999999999999887643 244567899999999999999999


Q ss_pred             HCCCceeccccccCCCcc---hhhh-------hhhhc--CCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCC
Q 012112          290 SAGYRHYEISSYGEDGYE---CKHN-------LTYWK--NKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLV  357 (471)
Q Consensus       290 ~~Gy~~yeis~fa~~g~~---~~hn-------~~yw~--~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~  357 (471)
                      ++||.+||+||||+||++   |+||       ..||.  ..+|+|||+||+|++++.+++|++++++|++.   +++|..
T Consensus       279 ~~Gy~~yeis~fa~~~~~~~~~~~~~~~~r~~~~Y~~~~~~~~lG~G~gA~s~~~~~~~~n~~~~~~Y~~~---i~~~~~  355 (457)
T 1olt_A          279 QSGYQFIGMDHFARPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISMIGDCYAQNQKELKQYYQQ---VDEQGN  355 (457)
T ss_dssp             HTTCEEEETTEEECTTSHHHHHHHHTCCEECSSCEESCCSCEEEEESTTCEEEETTEEEEECSSHHHHHHH---HHHHSC
T ss_pred             HCCCeEEEechhcCCCchhhhHHhhcchhhcccccccCCCCeEEEEccceeecCCCCEEEecCCHHHHHHH---HhcCCC
Confidence            999999999999999987   4554       67775  57999999999999999999999999988765   456888


Q ss_pred             cccccccCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHH---HHHHHHHHCCCEEEecCcccchhhhhhhhhh
Q 012112          358 DCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLC---KAYKPYIESGHVICLDEWRRAMNIEEFNSLL  434 (471)
Q Consensus       358 ~~~~~~~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~---~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~  434 (471)
                      |+...+.++.++++.|.+|++||+..|||++.|+++||.++.+.+.   +.++.++++||++.++ +             
T Consensus       356 ~~~~~~~l~~~~~~~~~~~~~Lr~~~g~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~gll~~~~-~-------------  421 (457)
T 1olt_A          356 ALWRGIALTRDDCIRRDVIKSLICNFRLDYSPIEQQWDLLFADYFAEDLKLLAPLAKDGLVDVDE-K-------------  421 (457)
T ss_dssp             CEEEEEECCHHHHHHHHHHHHHHHHSEEEHHHHHHHTTCCHHHHTHHHHHHHHHHHHTTSEEECS-S-------------
T ss_pred             ceeeeeeCCHHHHHHHHHHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCEEEEC-C-------------
Confidence            8866678999999999999999999999999999999999877776   4478899999998643 2             


Q ss_pred             hhhhhcccccceeeecCchhhchHHHHHHHHHhcc
Q 012112          435 LDETKIGNRLAYFRLSDPEGFLLSNELISHAFGVI  469 (471)
Q Consensus       435 ~~~~~~~~~~~~~~lt~~~G~~~~n~i~~~~~~~~  469 (471)
                                 +|+|| ++|++++|.|++.|...+
T Consensus       422 -----------~~~lT-~~G~~~~~~i~~~f~~~~  444 (457)
T 1olt_A          422 -----------GIQVT-AKGRLLIRNICMCFDTYL  444 (457)
T ss_dssp             -----------EEEEC-TTTGGGHHHHHHTTCSCC
T ss_pred             -----------EEEEC-HhhHHHHHHHHHHHHHHH
Confidence                       47997 999999999999987654

>1r30_A Biotin synthase; SAM radical protein, TIM barrel, FES cluster, transferase; HET: SAM DTB; 3.40A {Escherichia coli} SCOP: c.1.28.1

Probab=99.97  E-value=3.7e-31  Score=270.62  Aligned_cols=259  Identities=14%  Similarity=0.132  Sum_probs=205.3

Q ss_pred             EEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC--CCCCCHHH
Q 012112           55 SAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT--PSLVPPRF  132 (471)
Q Consensus        55 ~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT--ps~l~~~~  132 (471)
                      .+||+.++|+.+|.||+|+.......       ........+.++++++....     ..++.|+||||+  |+.++.+.
T Consensus        68 ~i~i~t~~C~~~C~yC~~~~~~~~~~-------~~~~~~s~eei~~~~~~~~~-----~g~~~i~~~gg~~~p~~~~~~~  135 (369)
T 1r30_A           68 LLSIKTGACPEDCKYCPQSSRYKTGL-------EAERLMEVEQVLESARKAKA-----AGSTRFCMGAAWKNPHERDMPY  135 (369)
T ss_dssp             EEEEECSCBSSCCSSCSCBTTSCTTC-------CCCCCCCHHHHHHHHHHHHH-----TTCSEEEEEECCSSCCTTTHHH
T ss_pred             EEEEECCCCcccCccCCCCCcCCCCC-------cccccCCHHHHHHHHHHHHH-----cCCcEEEEEeCCCCCCcCCHHH
Confidence            47778899999999999976421100       00111124556666654432     136789998876  88788899


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCG  212 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G  212 (471)
                      +.++++.+++.     +.+++  ++++.++++.++.|+++|++++++|+|| ++++++.++|.++.+++.++++.++++|
T Consensus       136 l~~ll~~ik~~-----g~~i~--~t~G~l~~e~l~~L~~aGvd~v~i~les-~~e~~~~i~~~~~~~~~l~~i~~a~~~G  207 (369)
T 1r30_A          136 LEQMVQGVKAM-----GLEAC--MTLGTLSESQAQRLANAGLDYYNHNLDT-SPEFYGNIITTRTYQERLDTLEKVRDAG  207 (369)
T ss_dssp             HHHHHHHHHHT-----TSEEE--EECSSCCHHHHHHHHHHCCCEEECCCBS-CHHHHHHHCCSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-----CCeEE--EecCCCCHHHHHHHHHCCCCEEeecCcC-CHHHHHHhCCCCCHHHHHHHHHHHHHcC
Confidence            99999999874     24666  5889999999999999999999999999 9999999999999999999999999999


Q ss_pred             CCeeEeeeecCCCCCCHHHHHHHHHHHHhCC--CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          213 VENWSLDLISSLPHQTPQMWEESLRRTVGAQ--PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       213 ~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~--p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      + +|++++|+|+ |||.+++.++++++.+++  |++|+++.|.+.|||++++.      +.++.++..+++..++..|..
T Consensus       208 i-~v~~~~I~Gl-~et~ed~~~~l~~l~~l~~~~~~i~~~~l~p~~gT~l~~~------~~~~~~~~~~~~~~~r~~l~~  279 (369)
T 1r30_A          208 I-KVCSGGIVGL-GETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADN------DDVDAFDFIRTIAVARIMMPT  279 (369)
T ss_dssp             C-EEECCEEECS-SCCHHHHHHHHHHHHSSSSCCSEEEEEECCCCTTSTTSSC------CCCCHHHHHHHHHHHHHHCTT
T ss_pred             C-eeeeeeEeeC-CCCHHHHHHHHHHHHhhcCCCCEEEeeeeeecCCCcCCCC------CCCCHHHHHHHHHHHHHhCCC
Confidence            9 5999999999 999999999999999998  89999999999999998753      568889999999999988866


Q ss_pred             CCCceeccccccCCCcchhhhhhhhcC----CCEEEEccCcccccCCeEEEcCC--ChHHHHHHHHHHhcCCCcc
Q 012112          291 AGYRHYEISSYGEDGYECKHNLTYWKN----KPFYGFGLGSASYLGGLRFSRPR--RMKEFVDYVQNLEAGLVDC  359 (471)
Q Consensus       291 ~Gy~~yeis~fa~~g~~~~hn~~yw~~----~~ylG~G~gA~s~~~~~r~~n~~--~~~~y~~~~~~~~~g~~~~  359 (471)
                      .+.                |+..||.+    .+++|||+||.|.+.|.++.+..  +.++|.+.++.  .|..|.
T Consensus       280 ~~i----------------~i~~~~~~l~~~~~~~~l~~Gan~~~~g~~~~t~~~~~~~~~~~~i~~--~g~~~~  336 (369)
T 1r30_A          280 SYV----------------RLSAGREQMNEQTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRK--LGLNPQ  336 (369)
T ss_dssp             SEE----------------EEESSGGGSCHHHHHHHHHHTCCEEECSSBSSSSBCCCHHHHHHHHHH--TTCCSC
T ss_pred             Cce----------------EeecchhhcChHHHHHHhhCCCceEEeCCeeeCCCCCCHHHHHHHHHH--cCCCee
Confidence            532                23345543    46789999999998888776654  34666665543  455544

>2qgq_A Protein TM_1862; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; HET: CXS; 2.00A {Thermotoga maritima MSB8}

Probab=99.96  E-value=2.2e-28  Score=243.70  Aligned_cols=212  Identities=17%  Similarity=0.213  Sum_probs=150.2

Q ss_pred             CCeEEEEec-cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC-
Q 012112           52 SPTSAYIHL-PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP-  129 (471)
Q Consensus        52 ~~~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~-  129 (471)
                      ++..+||+| +.|+++|+||.++... |          ..+.++++.+++|++.+.+.     +++.|.|.|++++... 
T Consensus         2 ~~~~~~v~is~GC~~~C~fC~~~~~~-g----------~~r~r~~e~i~~ei~~l~~~-----G~~ei~l~g~~~~~yG~   65 (304)
T 2qgq_A            2 ERPYAYVKISDGCDRGCTFCSIPSFK-G----------SLRSRSIEDITREVEDLLKE-----GKKEIILVAQDTTSYGI   65 (304)
T ss_dssp             CCSEEEEESBCCC--------------C----------CCCBCCHHHHHHHHHHHHHT-----TCCEEEEECTTGGGTTH
T ss_pred             CCEEEEEEECCCCCCcCccCCccccC-C----------CceeeCHHHHHHHHHHHHHC-----CCcEEEEEeEcccccCC
Confidence            457899999 6899999999987653 1          12345678899999876542     2566777665554432 


Q ss_pred             ----HHHHHHHHHHHHHHcCCCCCcEEEE-EecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCCCCCHHHHH
Q 012112          130 ----PRFVSSILDTLTDKFGLSLDAEISM-EMDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGRAHGLKEVY  202 (471)
Q Consensus       130 ----~~~l~~ll~~l~~~~~l~~~~eiti-E~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R~~t~~~~~  202 (471)
                          ...+.+|++.+++..++.   .+.+ ++||..++++.++.|+++|  +++|++|+||+++++|+.|+|+++.+++.
T Consensus        66 ~~~~~~~l~~Ll~~l~~~~gi~---~ir~~~~~p~~l~~e~l~~l~~~g~~~~~l~i~lqs~s~~vl~~m~r~~t~e~~~  142 (304)
T 2qgq_A           66 DLYRKQALPDLLRRLNSLNGEF---WIRVMYLHPDHLTEEIISAMLELDKVVKYFDVPVQHGSDKILKLMGRTKSSEELK  142 (304)
T ss_dssp             HHHSSCCHHHHHHHHHTSSSSC---EEEECCCCGGGCCHHHHHHHHHCTTBCCEEECCCBCSCHHHHHHTTCCSCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhcCCCc---EEEEeeeecccCCHHHHHHHHhCCCCccEEEEecccCCHHHHHHhCCCCCHHHHH
Confidence                246888899887753331   3444 5799999999999999999  99999999999999999999999999999


Q ss_pred             HHHHHHHH--cCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHH
Q 012112          203 EAIEIVKL--CGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANF  280 (471)
Q Consensus       203 ~ai~~~~~--~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~  280 (471)
                      ++++.+++  .|+. +++|+|+|+||||.+++.++++++.+++++++++|.+++.|||+++++.  +   .++++...+.
T Consensus       143 ~~i~~l~~~~~gi~-i~~~~IvG~PgEt~ed~~~t~~~l~~l~~~~v~~~~~~p~pgT~~~~~~--~---~v~~~~~~~r  216 (304)
T 2qgq_A          143 KMLSSIRERFPDAV-LRTSIIVGFPGETEEDFEELKQFVEEIQFDKLGAFVYSDEEGTVAFNLK--E---KVDPEMAKRR  216 (304)
T ss_dssp             HHHHHHHHHCTTCE-EEEEEEECCTTCCHHHHHHHHHHHHHHCCSEEEEEECCC----------------CCCHHHHHHH
T ss_pred             HHHHHHHhhCCCCE-EEEEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEEEeeCCCCChhHhCc--C---CCCHHHHHHH
Confidence            99999999  5885 8999999999999999999999999999999999999999999998752  1   2455555555


Q ss_pred             HHHHHHHH
Q 012112          281 YRMASSML  288 (471)
Q Consensus       281 ~~~~~~~L  288 (471)
                      +....+..
T Consensus       217 ~~~l~~~~  224 (304)
T 2qgq_A          217 QEELLLLQ  224 (304)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55544433

>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase, [4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM MD0; 1.50A {Methanosarcina barkeri}

Probab=99.91  E-value=2.7e-24  Score=218.07  Aligned_cols=211  Identities=15%  Similarity=0.221  Sum_probs=170.5

Q ss_pred             CCeEEEEeccC---CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCC-CCC
Q 012112           52 SPTSAYIHLPF---CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGT-PSL  127 (471)
Q Consensus        52 ~~~~lYiHIPF---C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGT-ps~  127 (471)
                      ....++.+|++   |+.+|.||.|+... +.       .. . ....+.++++++....     .++..|+|.||. |.+
T Consensus        57 ~~v~~~~~i~~t~~C~~~C~fC~~~~~~-~~-------~~-~-~ls~eei~~~~~~~~~-----~G~~~i~l~gGe~p~~  121 (350)
T 3t7v_A           57 NRVFLNCFIYFSTYCKNQCSFCYYNCRN-EI-------NR-Y-RLTMEEIKETCKTLKG-----AGFHMVDLTMGEDPYY  121 (350)
T ss_dssp             TEEEEEEEEEEECCCCCCCTTCTTCTTS-CC-------CC-C-BCCHHHHHHHHHHHTT-----SCCSEEEEEECCCHHH
T ss_pred             CEEEEEEeeecCCCcCCCCCcCCCcCcC-CC-------Cc-e-eCCHHHHHHHHHHHHH-----CCCCEEEEeeCCCCcc
Confidence            34566777777   99999999997543 11       00 0 1245677777776543     236778776665 754


Q ss_pred             C-CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHH
Q 012112          128 V-PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIE  206 (471)
Q Consensus       128 l-~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~  206 (471)
                      . +.+.+.++++.+++.+++      .++++|+.++++.++.|+++|++++++|+||+++++++.+++.++.+++.++++
T Consensus       122 ~~~~~~~~~l~~~ik~~~~i------~i~~s~g~~~~e~l~~L~~aG~~~i~i~lEt~~~~~~~~i~~~~~~~~~l~~i~  195 (350)
T 3t7v_A          122 YEDPNRFVELVQIVKEELGL------PIMISPGLMDNATLLKAREKGANFLALYQETYDTELYRKLRVGQSFDGRVNARR  195 (350)
T ss_dssp             HHSTHHHHHHHHHHHHHHCS------CEEEECSSCCHHHHHHHHHTTEEEEECCCBCSCHHHHHHHSTTCCHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHhhcCc------eEEEeCCCCCHHHHHHHHHcCCCEEEEeeecCCHHHHHHhCCCCCHHHHHHHHH
Confidence            3 467889999999887653      345689999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHH
Q 012112          207 IVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASS  286 (471)
Q Consensus       207 ~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~  286 (471)
                      .++++|+. +++++|+|+ |||.+++.++++++.++++++++++++.+.|||++++.      +.++.++..++...++.
T Consensus       196 ~a~~~Gi~-v~~~~i~Gl-get~e~~~~~l~~l~~l~~~~v~~~~f~p~~gT~l~~~------~~~~~~e~l~~ia~~Rl  267 (350)
T 3t7v_A          196 FAKQQGYC-VEDGILTGV-GNDIESTILSLRGMSTNDPDMVRVMTFLPQEGTPLEGF------RDKSNLSELKIISVLRL  267 (350)
T ss_dssp             HHHHHTCE-EEEEEEESS-SCCHHHHHHHHHHHHHTCCSEEEEEECCCCTTSTTTTC------CCCCCCCHHHHHHHHHH
T ss_pred             HHHHcCCe-EccceEeec-CCCHHHHHHHHHHHHhCCCCEEEecceeeCCCCcCccC------CCCChHHHHHHHHHHHH
Confidence            99999997 999999999 99999999999999999999999999999999999764      23444556677777777


Q ss_pred             HHHHC
Q 012112          287 MLSSA  291 (471)
Q Consensus       287 ~L~~~  291 (471)
                      .|...
T Consensus       268 ~lp~~  272 (350)
T 3t7v_A          268 MFPKR  272 (350)
T ss_dssp             HSTTS
T ss_pred             hCCCc
Confidence            76553

>3iix_A Biotin synthetase, putative; adoMet radical, SAM radical, adoMet cleavage, Fe4S4 cluster, HYDE, hydrogenase, maturation, beta barrel; HET: OTY CSO 5AD CPS; 1.25A {Thermotoga maritima} PDB: 3ciw_A* 3iiz_A* 3cix_A*

Probab=99.90  E-value=5.4e-23  Score=207.95  Aligned_cols=202  Identities=14%  Similarity=0.155  Sum_probs=164.8

Q ss_pred             cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHHHHHHHH
Q 012112           61 PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVSSILDTL  140 (471)
Q Consensus        61 PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~~ll~~l  140 (471)
                      ..|+.+|.||.+.......      ....   ...+.++++++.....     ++..|+|+||.+..++.+.+.++++.+
T Consensus        61 ~~C~~~C~fC~~~~~~~~~------~~~~---ls~eei~~~i~~~~~~-----g~~~i~~~gGe~p~~~~~~~~~li~~i  126 (348)
T 3iix_A           61 NVCRKNCLYCGLRRDNKNL------KRYR---MTPEEIVERARLAVQF-----GAKTIVLQSGEDPYXMPDVISDIVKEI  126 (348)
T ss_dssp             CCCSCCCTTCTTCTTCCSS------CCCB---CCHHHHHHHHHHHHHT-----TCSEEEEEESCCGGGTTHHHHHHHHHH
T ss_pred             CCcCCcCccCCCCCCCCCc------Ccee---CCHHHHHHHHHHHHHC-----CCCEEEEEeCCCCCccHHHHHHHHHHH
Confidence            4499999999987642111      0000   1245666666654332     367889999995556778899999999


Q ss_pred             HHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeee
Q 012112          141 TDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDL  220 (471)
Q Consensus       141 ~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~Dl  220 (471)
                      ++.     +  +.+.++++.++++.++.|+++|++++++|+||+++++++.+++.++.+++.++++.++++|+. +++.+
T Consensus       127 ~~~-----~--~~i~~s~g~l~~e~l~~L~~ag~~~v~i~let~~~~~~~~i~~~~~~~~~~~~i~~~~~~Gi~-v~~~~  198 (348)
T 3iix_A          127 KKM-----G--VAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNCLLTLKELGYE-TGAGS  198 (348)
T ss_dssp             HTT-----S--CEEEEECCCCCHHHHHHHHHHTCCEEECCCBCSCHHHHHHHSTTSCHHHHHHHHHHHHHTTCE-EEECB
T ss_pred             Hhc-----C--ceEEEecCCCCHHHHHHHHHhCCCEEeeeeeeCCHHHHHHhCCCcCHHHHHHHHHHHHHhCCe-eccce
Confidence            875     2  344478889999999999999999999999999999999999999999999999999999996 99999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          221 ISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       221 I~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      |+|+||||.+++.++++++.+++++++.++++.+.|||++++.      +.++.++..++...++..+..
T Consensus       199 i~G~p~et~e~~~~~~~~l~~l~~~~i~i~~~~p~~gt~l~~~------~~~~~~e~~~~~a~~R~~lp~  262 (348)
T 3iix_A          199 MVGLPGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANE------KKGDFTLTLKMVALTRILLPD  262 (348)
T ss_dssp             EESCTTCCHHHHHHHHHHHHHHTCSEECCEECCCCTTSTTTTS------CCCCHHHHHHHHHHHHHHSTT
T ss_pred             EEeCCCCCHHHHHHHHHHHHhcCCCEEeeeeeecCCCCCcccC------CCCCHHHHHHHHHHHHHHCCC
Confidence            9999999999999999999999999999999999999998763      345677777777777666544

>3c8f_A Pyruvate formate-lyase 1-activating enzyme; adoMet radical, SAM radical, activase, glycyl radical, 4Fe- 4S, carbohydrate metabolism, cytoplasm; HET: MT2 PGE; 2.25A {Escherichia coli} PDB: 3cb8_A*

Probab=99.76  E-value=1.3e-17  Score=158.97  Aligned_cols=216  Identities=14%  Similarity=0.161  Sum_probs=156.6

Q ss_pred             eEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           54 TSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        54 ~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      ..+.+...-|+.+|.||.........       ..  ....++.++++++.....+  +..+..|.|+||.|++ .++.+
T Consensus        20 ~~~~i~t~~Cn~~C~~C~~~~~~~~~-------~~--~~~~~~~i~~~i~~~~~~~--~~~~~~i~~~GGEP~l-~~~~l   87 (245)
T 3c8f_A           20 IRFITFFQGCLMRCLYCHNRDTWDTH-------GG--KEVTVEDLMKEVVTYRHFM--NASGGGVTASGGEAIL-QAEFV   87 (245)
T ss_dssp             EEEEEEESCCSCCCTTCSCGGGCCTT-------CS--EEECHHHHHHHHGGGHHHH--TSTTCEEEEEESCGGG-GHHHH
T ss_pred             cEEEEEeCCCCCCCCCCCCchhcccc-------cC--ccCCHHHHHHHHHHhhhhh--cCCCCeEEEECCCcCC-CHHHH
Confidence            44555566699999999876432110       00  0112456667776543221  1235788999999986 77778


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCC--CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTF--DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLC  211 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l--~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~  211 (471)
                      .++++.+++. +    ..+++.+|. .+  +.+.++.|.+. +++|++++||+++++++.+++.+ .+++.++++.++++
T Consensus        88 ~~l~~~~~~~-~----~~i~i~Tng-~~~~~~~~~~~l~~~-~~~v~isld~~~~~~~~~~~~~~-~~~~~~~i~~l~~~  159 (245)
T 3c8f_A           88 RDWFRACKKE-G----IHTCLDTNG-FVRRYDPVIDELLEV-TDLVMLDLKQMNDEIHQNLVGVS-NHRTLEFAKYLANK  159 (245)
T ss_dssp             HHHHHHHHTT-T----CCEEEEECC-CCCCCCHHHHHHHHT-CSEEEEECCCSSHHHHHHHHSSC-SHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHc-C----CcEEEEeCC-CcCcCHHHHHHHHHh-CCEEEEeCCCCCHHHhhhccCCC-HHHHHHHHHHHHhc
Confidence            9999999864 3    468999996 55  78889999988 89999999999999999996644 59999999999999


Q ss_pred             CCCeeEeeeecCCCC--CCHHHHHHHHHHHHhCCC-CcEEEEeccccCCCh---hhhcccCCCCCCCCHHHHHHHHHHHH
Q 012112          212 GVENWSLDLISSLPH--QTPQMWEESLRRTVGAQP-KHVSVYDLQVEQGTK---FGILYTPGEFPLPTETQSANFYRMAS  285 (471)
Q Consensus       212 G~~~v~~DlI~GlPg--qT~e~~~~~l~~~~~l~p-~his~y~l~~~pgT~---l~~~~~~g~~~~p~~~~~~~~~~~~~  285 (471)
                      |+. +.+.+++ +||  ++.+++.+.++++.++++ ..+.+.++.+.+++.   +.+.+..+..+.|+.++..+    +.
T Consensus       160 g~~-v~i~~~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~----~~  233 (245)
T 3c8f_A          160 NVK-VWIRYVV-VPGWSDDDDSAHRLGEFTRDMGNVEKIELLPYHELGKHKWVAMGEEYKLDGVKPPKKETMER----VK  233 (245)
T ss_dssp             TCC-EEEEEEE-CTTTTCCHHHHHHHHHHHHHHCCEEEEEEEECCCCSHHHHHHTTCCCTTTTCCCCCHHHHHH----HH
T ss_pred             CCE-EEEEEee-cCCCCCCHHHHHHHHHHHHhcCCCceeEEEeccccChhHHHhhCcccccccCCCCCHHHHHH----HH
Confidence            996 7776555 565  678999999999999996 888888887766543   23333445556777766444    45


Q ss_pred             HHHHHCCCce
Q 012112          286 SMLSSAGYRH  295 (471)
Q Consensus       286 ~~L~~~Gy~~  295 (471)
                      +.+.++||..
T Consensus       234 ~~~~~~G~~v  243 (245)
T 3c8f_A          234 GILEQYGHKV  243 (245)
T ss_dssp             HHHHTTTCCB
T ss_pred             HHHHhcCCee
Confidence            5677889864

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

Probab=99.67  E-value=8.9e-16  Score=154.84  Aligned_cols=214  Identities=14%  Similarity=0.192  Sum_probs=150.1

Q ss_pred             CCCcCCcCCCCCccc-CCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCC-----------CCCeeEEEE-cCCCCCCC
Q 012112           62 FCRKRCHYCDFPIVA-LGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKT-----------SPPLETVFF-GGGTPSLV  128 (471)
Q Consensus        62 FC~~~C~yC~f~~~~-~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~-----------~~~v~~i~f-GGGTps~l  128 (471)
                      .|+.+|.||..+... .+....   ......+..++.+.+..+.....+..           ...+..|.| |||.|.+.
T Consensus        80 gCnl~C~fC~~~~~~~~~~~~~---~~~~~~eei~~~i~~~~~~~~~~~~g~~~v~~~~~~e~~~~~~v~~sggGEPll~  156 (342)
T 2yx0_A           80 WCTHNCIFCWRPMENFLGTELP---QPWDDPAFIVEESIKAQRKLLIGYKGNPKVDKKKFEEAWNPTHAAISLSGEPMLY  156 (342)
T ss_dssp             CCSBCCTTCCCSSSSCSCSSCC---SSCCCHHHHHHHHHHHHHHHHTTCC--CCSCHHHHHHHTSCCEEEECSSSCGGGS
T ss_pred             hhhCcCcccCCCCCCCcccccc---cCcCCHHHHHHHHHHHHHHHhhccCCCcccchhhhhhccCCCEEEEcCCCcccch
Confidence            599999999875331 000000   11122345555555544332211100           023678999 69999875


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCC--CCEEEEccCCCCHHHHHHcCC---CCCHHHHHH
Q 012112          129 PPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLG--VNRVSLGVQAFQDELLKSCGR---AHGLKEVYE  203 (471)
Q Consensus       129 ~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~G--vnrvsiGvQS~~d~~L~~l~R---~~t~~~~~~  203 (471)
                       + .+.++++.+++.     +..+++.+|...  ++.++.|+++|  ++++++++++.+++.++.+.+   ..+.+++.+
T Consensus       157 -~-~l~~ll~~~~~~-----g~~i~l~TNG~~--~e~l~~L~~~g~~~~~l~isld~~~~e~~~~i~~~~~~~~~~~~~~  227 (342)
T 2yx0_A          157 -P-YMGDLVEEFHKR-----GFTTFIVTNGTI--PERLEEMIKEDKLPTQLYVSITAPDIETYNSVNIPMIPDGWERILR  227 (342)
T ss_dssp             -T-THHHHHHHHHHT-----TCEEEEEECSCC--HHHHHHHHHTTCCCSEEEEEECCSSHHHHHHHHCBSSSCHHHHHHH
T ss_pred             -h-hHHHHHHHHHHC-----CCcEEEEcCCCc--HHHHHHHHhcCCCCCEEEEEccCCCHHHHHHHhCCCcccHHHHHHH
Confidence             4 788999988874     348999999754  88999999988  999999999999999999987   457999999


Q ss_pred             HHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHH
Q 012112          204 AIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRM  283 (471)
Q Consensus       204 ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~  283 (471)
                      +++.++++|+. +.+.+++ +||++.+++.+.++++.++++++|++.++.+.++++ ...   +....|+.++..+++..
T Consensus       228 ~i~~l~~~g~~-v~i~~~l-~~g~n~~~~~~l~~~l~~~~~~~i~l~~~~~~~~~~-~~l---~~~~~~~~e~~~~~~~~  301 (342)
T 2yx0_A          228 FLELMRDLPTR-TVVRLTL-VKGENMHSPEKYAKLILKARPMFVEAKAYMFVGYSR-NRL---TINNMPSHQDIREFAEA  301 (342)
T ss_dssp             HHHHHTTCSSE-EEEEEEE-CTTTTCCCHHHHHHHHHHHCCSEEEEEECC-------CCC---CGGGSCCHHHHHHHHHH
T ss_pred             HHHHHHhCCCC-EEEEEEE-ECCccHHHHHHHHHHHHHcCCCEEEEEeeeecCCCc-ccc---cccCCCCHHHHHHHHHH
Confidence            99999999986 8888888 799998889999999999999999987777655443 111   12345777777777766


Q ss_pred             HHHHHHHCCCceecc
Q 012112          284 ASSMLSSAGYRHYEI  298 (471)
Q Consensus       284 ~~~~L~~~Gy~~yei  298 (471)
                      +.+.|     ..|+|
T Consensus       302 l~~~l-----~~~~I  311 (342)
T 2yx0_A          302 LVKHL-----PGYHI  311 (342)
T ss_dssp             HHTTC-----TTEEE
T ss_pred             HHHhc-----cCCce
Confidence            65543     34666

>1tv8_A MOAA, molybdenum cofactor biosynthesis protein A; TIM barrel, ligand binding protein; HET: SAM; 2.20A {Staphylococcus aureus} SCOP: c.1.28.3 PDB: 1tv7_A* 2fb3_A* 2fb2_A*

Probab=99.61  E-value=1.6e-14  Score=145.36  Aligned_cols=189  Identities=13%  Similarity=0.182  Sum_probs=138.8

Q ss_pred             EEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHH
Q 012112           55 SAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFV  133 (471)
Q Consensus        55 ~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l  133 (471)
                      .+.|++.. |+.+|.||.............. ........-+..+++++..        ..+..|.|.||.|.+.+  .+
T Consensus        15 ~l~i~~T~~CNl~C~yC~~~~~~~~~~~~~~-~~~~ls~e~i~~~i~~~~~--------~g~~~i~~tGGEPll~~--~l   83 (340)
T 1tv8_A           15 DLRLSVTDRCNFRCDYCMPKEVFGDDFVFLP-KNELLTFDEMARIAKVYAE--------LGVKKIRITGGEPLMRR--DL   83 (340)
T ss_dssp             EEEEECCSCCSCCCTTTSCTTTSSTTCCCCC-GGGSCCHHHHHHHHHHHHH--------TTCCEEEEESSCGGGST--TH
T ss_pred             eEEEEeCCCcCCcCCCCCcCcccCCCcccCC-ccCCCCHHHHHHHHHHHHH--------CCCCEEEEeCCCccchh--hH
Confidence            45555554 9999999976541100000000 0011112223334444432        12677899999998643  46


Q ss_pred             HHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC-CHHHHHHHHHHHHHcC
Q 012112          134 SSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH-GLKEVYEAIEIVKLCG  212 (471)
Q Consensus       134 ~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~-t~~~~~~ai~~~~~~G  212 (471)
                      .++++.+++...   ...+++.+|...++ +.++.|+++|+++|+++++|.+++.++.+++.. +.+++.++++.++++|
T Consensus        84 ~~li~~~~~~~~---~~~i~i~TNG~ll~-~~~~~L~~~g~~~v~iSld~~~~~~~~~i~~~~~~~~~v~~~i~~l~~~g  159 (340)
T 1tv8_A           84 DVLIAKLNQIDG---IEDIGLTTNGLLLK-KHGQKLYDAGLRRINVSLDAIDDTLFQSINNRNIKATTILEQIDYATSIG  159 (340)
T ss_dssp             HHHHHHHTTCTT---CCEEEEEECSTTHH-HHHHHHHHHTCCEEEEECCCSSHHHHHHHHSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCC---CCeEEEEeCccchH-HHHHHHHHCCCCEEEEecCCCCHHHHHHhhCCCCCHHHHHHHHHHHHHCC
Confidence            788888776422   22899999986654 589999999999999999999999999998888 9999999999999999


Q ss_pred             CCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhh
Q 012112          213 VENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFG  261 (471)
Q Consensus       213 ~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~  261 (471)
                      + .|.+.+++ +||++.+++.+.++++.+++++ +.+..+++.++++.+
T Consensus       160 ~-~v~i~~vv-~~g~n~~ei~~~~~~~~~~g~~-~~~i~~~p~~~~~~~  205 (340)
T 1tv8_A          160 L-NVKVNVVI-QKGINDDQIIPMLEYFKDKHIE-IRFIEFMDVGNDNGW  205 (340)
T ss_dssp             C-EEEEEEEE-CTTTTGGGHHHHHHHHHHTTCC-EEEEECCCBCSSSSB
T ss_pred             C-CEEEEEEE-eCCCCHHHHHHHHHHHHhcCCe-EEEEEeeEcCCCccc
Confidence            9 58888877 8999999999999999999996 888888888877643

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

Probab=99.27  E-value=1.7e-11  Score=121.57  Aligned_cols=221  Identities=9%  Similarity=0.102  Sum_probs=126.6

Q ss_pred             CCeEEEEecc--CCCcCCcCCCCCcccC-CCC-CCCCCCCchhHHHHHHHHHHHHHhccCCCC------------CCCCe
Q 012112           52 SPTSAYIHLP--FCRKRCHYCDFPIVAL-GSS-PTQTNDDDPRVSNYIQLLCREIIATKPGHK------------TSPPL  115 (471)
Q Consensus        52 ~~~~lYiHIP--FC~~~C~yC~f~~~~~-~~~-~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~------------~~~~v  115 (471)
                      .+..+-+.+.  -|+.+|.||..+.... +.. ...........+..++.+.++++.....+.            ....+
T Consensus        49 ~~~~l~i~~t~~~Cn~~C~fC~~~~~~~~~~~~~~~~~~~~~~~eei~~~~~~~~~~~~~~~~g~~~v~~~~r~~~~~~~  128 (311)
T 2z2u_A           49 THRCIQCTPSVIWCQQNCIFCWRVLPRDIGIDISQIKEPKWEEPEVVYEKILAMHKRIIMGYAGVLDRVGEKKFKEALEP  128 (311)
T ss_dssp             GGGEEEEESCSSCCSCC----------------CCSCCCCCCCHHHHHHHHHHHHHHHHHGGGGGHHHHCHHHHHHHTSC
T ss_pred             CCCeEEeccChhHHhCcCcccCCCCCCcccccccccCccccCCHHHHHHHHHHHHHHHhhccCCCcCcchhhhhhhccCC
Confidence            3445667776  4999999998553111 000 000000112234555555554432110000            01235


Q ss_pred             eEEEEc-CCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          116 ETVFFG-GGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       116 ~~i~fG-GGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ..|.|. ||.|.+ .+ .+.++++.+++. +    ..+++.+|.. + ++.++   +.|+++|.+++++.+++..+.+.+
T Consensus       129 ~~i~~s~gGEPll-~~-~l~~li~~~~~~-g----~~~~l~TNG~-~-~~~l~---~L~~~~v~isld~~~~~~~~~i~~  196 (311)
T 2z2u_A          129 KHVAISLSGEPTL-YP-YLDELIKIFHKN-G----FTTFVVSNGI-L-TDVIE---KIEPTQLYISLDAYDLDSYRRICG  196 (311)
T ss_dssp             CEEEECSSSCGGG-ST-THHHHHHHHHHT-T----CEEEEEECSC-C-HHHHH---HCCCSEEEEECCCSSTTTC----C
T ss_pred             CEEEEeCCcCccc-hh-hHHHHHHHHHHC-C----CcEEEECCCC-C-HHHHH---hCCCCEEEEEeecCCHHHHHHHhC
Confidence            677785 899987 43 588999988874 3    4788888853 3 55555   448999999999999999999988


Q ss_pred             C--CCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCC
Q 012112          195 A--HGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLP  272 (471)
Q Consensus       195 ~--~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p  272 (471)
                      .  ++.+++.++++.++++| . +.+..+ .+||.+. ++.+.++++.++++++|.+.++++.++++.. .   +....|
T Consensus       197 ~~~~~~~~v~~~i~~l~~~g-~-v~i~~~-~~~g~n~-~~~~~~~~~~~~~~~~i~l~~~~p~g~~~~~-~---~~~~~~  268 (311)
T 2z2u_A          197 GKKEYWESILNTLDILKEKK-R-TCIRTT-LIRGYND-DILKFVELYERADVHFIELKSYMHVGYSQKR-L---KKEDML  268 (311)
T ss_dssp             CCHHHHHHHHHHHHHHTTSS-S-EEEEEE-ECTTTTC-CGGGTHHHHHHHTCSEEEEEECC----------------CCC
T ss_pred             CccchHHHHHHHHHHHHhcC-C-EEEEEE-EECCcch-hHHHHHHHHHHcCCCEEEEEeeEEccccccc-c---ccccCC
Confidence            7  68999999999999998 4 666554 3577666 7888888999999999999999998877631 1   112456


Q ss_pred             CHHHHHHHHHHHHHHHHHCCCce
Q 012112          273 TETQSANFYRMASSMLSSAGYRH  295 (471)
Q Consensus       273 ~~~~~~~~~~~~~~~L~~~Gy~~  295 (471)
                      +.++..+....+.+   ..||..
T Consensus       269 ~~~e~~~~~~~l~~---~~g~~~  288 (311)
T 2z2u_A          269 QHDEILKLAKMLDE---NSSYKL  288 (311)
T ss_dssp             CHHHHHHHHHHHHT---SSSEEE
T ss_pred             CHHHHHHHHHHHHH---hcCceE
Confidence            76665554443322   256543

>2a5h_A L-lysine 2,3-aminomutase; radical SAM, four-iron-four-sulfur cluster, 4Fe4S, FS4, SAM, adenosylmethionine, alpha-beta channel; HET: SAM LYS PLP; 2.10A {Clostridium subterminale}

Probab=99.21  E-value=1.6e-10  Score=119.38  Aligned_cols=177  Identities=17%  Similarity=0.229  Sum_probs=124.8

Q ss_pred             EEEec-cCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHHHH
Q 012112           56 AYIHL-PFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRFVS  134 (471)
Q Consensus        56 lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~l~  134 (471)
                      +.+++ ..|+.+|.||.........       .......-+..+++++..   .    ..+..|.|.||.|.+.+.+.+.
T Consensus       117 v~l~vT~~Cnl~C~yC~~~~~~~~~-------~~~ls~eei~~~i~~i~~---~----~gi~~V~ltGGEPll~~d~~L~  182 (416)
T 2a5h_A          117 VLLLITDMCSMYCRHCTRRRFAGQS-------DDSMPMERIDKAIDYIRN---T----PQVRDVLLSGGDALLVSDETLE  182 (416)
T ss_dssp             EEEEEESCCSSCCTTCTTTTTTTSS-------SSBCCHHHHHHHHHHHHT---C----TTCCEEEEEESCTTSSCHHHHH
T ss_pred             EEEecCCCccccCcCCCCcccCCCc-------cCCCCHHHHHHHHHHHHh---c----CCCcEEEEECCCCCCCCHHHHH
Confidence            44444 4499999999654322100       001112223334444432   1    2367799999999988877899


Q ss_pred             HHHHHHHHHcCCCCCcEEEEEec-----CCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          135 SILDTLTDKFGLSLDAEISMEMD-----PGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~-----P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      ++++.+++.-++   ..+++.+|     |..+|++.++.|+++  .++.+++++.+++   .+    + +++.++++.++
T Consensus       183 ~il~~l~~~~~v---~~i~i~Tng~~~~p~~it~e~l~~L~~~--~~v~Isl~~~~~~---ei----~-~~v~~ai~~L~  249 (416)
T 2a5h_A          183 YIIAKLREIPHV---EIVRIGSRTPVVLPQRITPELVNMLKKY--HPVWLNTHFNHPN---EI----T-EESTRACQLLA  249 (416)
T ss_dssp             HHHHHHHTSTTC---CEEEEECSHHHHCGGGCCHHHHHHHGGG--CSEEEEECCCSGG---GC----C-HHHHHHHHHHH
T ss_pred             HHHHHHHhcCCc---cEEEEEecccccccccCCHHHHHHHHhc--CcEEEEEecCCHH---HH----h-HHHHHHHHHHH
Confidence            999999874222   25777764     467899999999998  7899999998883   22    2 89999999999


Q ss_pred             HcCCCeeEee--eecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhh
Q 012112          210 LCGVENWSLD--LISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFG  261 (471)
Q Consensus       210 ~~G~~~v~~D--lI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~  261 (471)
                      ++|+. +.+.  ++-|+. ++.+++.+.++++.+++++...++.+.+.+||+.+
T Consensus       250 ~aGi~-v~i~~vll~GvN-d~~e~l~~l~~~l~~lgv~~~~i~~~~~~~g~~~~  301 (416)
T 2a5h_A          250 DAGVP-LGNQSVLLRGVN-DCVHVMKELVNKLVKIRVRPYYIYQCDLSLGLEHF  301 (416)
T ss_dssp             HTTCC-EEEEEECCTTTT-CSHHHHHHHHHHHHHTTEEEEEEECCCCBTTCGGG
T ss_pred             HcCCE-EEEEEEEECCCC-CCHHHHHHHHHHHHHcCCceEEEeecCCCCCcccc
Confidence            99996 5544  444664 78889999999999999887767766667788754

>3rfa_A Ribosomal RNA large subunit methyltransferase N; radical SAM, S-adenosylmethionine, iron sulfur cluster, oxidoreductase; HET: SAM; 2.05A {Escherichia coli} PDB: 3rf9_A*

Probab=98.84  E-value=4.3e-08  Score=100.25  Aligned_cols=206  Identities=14%  Similarity=0.258  Sum_probs=132.4

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCC-CCCCCeeEEEE-cCCCCCCCCHHHHHHHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGH-KTSPPLETVFF-GGGTPSLVPPRFVSSILDTL  140 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~-~~~~~v~~i~f-GGGTps~l~~~~l~~ll~~l  140 (471)
                      |+.+|.||.-.....+        ..-..+.-++.+..-...+.... ..+..+..|.| |||.|.+ ..+.+.++++.+
T Consensus       125 Cnl~C~fC~tg~~g~~--------r~Lt~eEIv~qv~~~~~~~~~~g~~gg~~i~~Ivf~GgGEPLl-n~d~v~~~i~~l  195 (404)
T 3rfa_A          125 CALECKFCSTAQQGFN--------RNLRVSEIIGQVWRAAKIVGAAKVTGQRPITNVVMMGMGEPLL-NLNNVVPAMEIM  195 (404)
T ss_dssp             CSSCCTTCGGGTTCEE--------EECCHHHHHHHHHHHHHHHCCHHHHSSCSCSEEEECSSSCGGG-CHHHHHHHHHHH
T ss_pred             CCCcCCCCCCCCCCCC--------CcCCHHHHHHHHHHHHHHhhhcccccCCCccEEEEeCCCCccc-CHHHHHHHHHHH
Confidence            9999999976432111        01112333333322222221100 00234666666 5899975 778888999998


Q ss_pred             HHHcCCC-CCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcC---CCCCHHHHHHHHH-HHHHcCC--
Q 012112          141 TDKFGLS-LDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCG---RAHGLKEVYEAIE-IVKLCGV--  213 (471)
Q Consensus       141 ~~~~~l~-~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~---R~~t~~~~~~ai~-~~~~~G~--  213 (471)
                      ++..++. ....+++.+|- .+  +.++.|.+.+...+.+.+.+.+++..+.+.   +..+.+++.++++ .+++.|.  
T Consensus       196 k~~~Gl~~s~r~itlsTnG-~~--p~i~~L~~~~d~~LaiSLka~d~e~~~~i~pv~~~~~le~vl~ai~~~~~~~g~~~  272 (404)
T 3rfa_A          196 LDDFGFGLSKRRVTLSTSG-VV--PALDKLGDMIDVALAISLHAPNDEIRDEIVPINKKYNIETFLAAVRRYLEKSNANQ  272 (404)
T ss_dssp             HSTTTTCCCGGGEEEEESC-CH--HHHHHHHHHCCCEEEEECCCSSHHHHHHHSGGGGTSCHHHHHHHHHHHHHHCTTTT
T ss_pred             HhhcCcCcCCCceEEECCC-cH--HHHHHHHHhhcceEEecccCCCHHHHHHhcCCccCCCHHHHHHHHHHHHHHhCCCc
Confidence            8743331 12368888875 33  456777766767899999999999988865   5778999999994 5566676  


Q ss_pred             -C-eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHC
Q 012112          214 -E-NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSA  291 (471)
Q Consensus       214 -~-~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~  291 (471)
                       . .++.-+|-|+ +.+.+++.+..+++..++. +|.+-+|.+.+++.         +..|+.+...+    ..+.|.++
T Consensus       273 ~~V~ie~vLI~Gv-NDs~e~~~~La~ll~~l~~-~VnLIpynP~~~~~---------~~~ps~e~i~~----f~~iL~~~  337 (404)
T 3rfa_A          273 GRVTIEYVMLDHV-NDGTEHAHQLAELLKDTPC-KINLIPWNPFPGAP---------YGRSSNSRIDR----FSKVLMSY  337 (404)
T ss_dssp             TCEEEEEEEBTTT-TCSHHHHHHHHHHTTTSCE-EEEEEECCCCTTCC---------CCBCCHHHHHH----HHHHHHHT
T ss_pred             ccEEEEEEEecCC-CCCHHHHHHHHHHHHcCCC-cEEEEeccCCCCCC---------CCCCCHHHHHH----HHHHHHHc
Confidence             3 2344455454 6789999999999988764 78888888766543         23466555443    44577888


Q ss_pred             CCce
Q 012112          292 GYRH  295 (471)
Q Consensus       292 Gy~~  295 (471)
                      |+..
T Consensus       338 Gi~v  341 (404)
T 3rfa_A          338 GFTT  341 (404)
T ss_dssp             TCEE
T ss_pred             CCcE
Confidence            9865

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

Probab=98.63  E-value=1.2e-06  Score=79.42  Aligned_cols=167  Identities=13%  Similarity=0.212  Sum_probs=115.3

Q ss_pred             eEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCC
Q 012112          116 ETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRA  195 (471)
Q Consensus       116 ~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~  195 (471)
                      ..|.|.||.|.+ .++.+.++++.+++. +    ..+++.+|. +++++.++.+.+. ++.|.+.+.+++++.-+.+.. 
T Consensus         5 ~~v~~tGGEPll-~~~~~~~l~~~~~~~-g----~~~~l~TNG-~l~~~~~~~l~~~-~d~v~isld~~~~~~~~~~~g-   75 (182)
T 3can_A            5 GGVTFCGGEPLL-HPEFLIDILKRCGQQ-G----IHRAVDTTL-LARKETVDEVMRN-CELLLIDLKSMDSTVHQTFCD-   75 (182)
T ss_dssp             CCEEECSSTGGG-SHHHHHHHHHHHHHT-T----CCEEEECTT-CCCHHHHHHHHHT-CSEEEEECCCSCHHHHHHHHS-
T ss_pred             CEEEEEcccccC-CHHHHHHHHHHHHHC-C----CcEEEECCC-CCCHHHHHHHHhh-CCEEEEECCCCCHHHHHHHhC-
Confidence            347788999975 777778999988874 2    468999997 4789999999988 899999999999998877643 


Q ss_pred             CCHHHHHHHHHHHHHcCCCeeEeeeecCCCC--CCHHHHHHHHHHHHhC-CC-CcEEEEeccccCCChhhh---cccCCC
Q 012112          196 HGLKEVYEAIEIVKLCGVENWSLDLISSLPH--QTPQMWEESLRRTVGA-QP-KHVSVYDLQVEQGTKFGI---LYTPGE  268 (471)
Q Consensus       196 ~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPg--qT~e~~~~~l~~~~~l-~p-~his~y~l~~~pgT~l~~---~~~~g~  268 (471)
                      .+.+.+.++++.+++.|+. +.+-..+ .||  ++.+++.+.++++.++ ++ ..+.+.++.+........   .+.-..
T Consensus        76 ~~~~~i~~~i~~l~~~g~~-v~i~~~v-~~~~n~n~~~~~~~~~~~~~~~g~~~~~~l~~~~p~g~~~~~~l~~~y~~~~  153 (182)
T 3can_A           76 VPNELILKNIRRVAEADFP-YYIRIPL-IEGVNADEKNIKLSAEFLASLPRHPEIINLLPYHDIGKGKHAKLGSIYNPKG  153 (182)
T ss_dssp             SCSHHHHHHHHHHHHTTCC-EEEEEEE-CBTTTCSHHHHHHHHHHHHHSSSCCSEEEEEECCC-----------------
T ss_pred             CCHHHHHHHHHHHHhCCCe-EEEEEEE-ECCCCCCHHHHHHHHHHHHhCcCccceEEEecCcccCHHHHHHhCCcCcccC
Confidence            3468999999999999886 6555433 354  6889999999999999 88 889998887765444211   111122


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCce
Q 012112          269 FPLPTETQSANFYRMASSMLSSAGYRH  295 (471)
Q Consensus       269 ~~~p~~~~~~~~~~~~~~~L~~~Gy~~  295 (471)
                      .+.|+.++  +....+.+.+.+.|...
T Consensus       154 ~~~~~~e~--~~l~~~~~~~~~~g~~~  178 (182)
T 3can_A          154 YKMQTPSE--EVQQQCIQILTDYGLKA  178 (182)
T ss_dssp             -CCBCCCH--HHHHHHHHHHHHTTCCE
T ss_pred             CCCCCHHH--HHHHHHHHHHHHcCCce
Confidence            33444433  00233445666777653

>4fhd_A Spore photoproduct lyase; partial TIM-barrel, DNA repair, damaged DNA; HET: EEM 0TT; 2.00A {Geobacillus thermodenitrificans} PDB: 4fhc_A* 4fhg_A* 4fhe_A* 4fhf_A*

Probab=97.43  E-value=0.00019  Score=72.24  Aligned_cols=160  Identities=10%  Similarity=0.121  Sum_probs=94.8

Q ss_pred             CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH----HHHHHH
Q 012112           63 CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF----VSSILD  138 (471)
Q Consensus        63 C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~----l~~ll~  138 (471)
                      |++.|.||......... ...  .-....+..++.+.++++...      .....|.+|.-|-.+ +.+.    ..++++
T Consensus       117 C~~~C~YCYl~~~~~~~-~~I--~v~vN~~eiL~~l~~~l~~~~------~~~~~i~~g~~TDpy-p~E~~~~ltr~~le  186 (368)
T 4fhd_A          117 CMGHCHYCYLQTTLGSK-PYI--RVYVNLDDIFAQAQKYINERA------PEITRFEAACTSDIV-GIDHLTHSLKKAIE  186 (368)
T ss_dssp             CSCCCTTCTHHHHTTTC-CSE--EEECCHHHHHHHHHHHHHHHT------TSCEEEESCSSBCHH-HHHTTTCHHHHHHH
T ss_pred             CCCCCceEeccccCCCC-CeE--EEecCHHHHHHHHHHHHhhcC------CCceEEEEEcCCCcc-hhhHHHhHHHHHHH
Confidence            99999999754332110 000  001224566666655555332      123455555544332 3332    334445


Q ss_pred             HHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCC-CCHHHHHHHHHHHHHcCCCeeE
Q 012112          139 TLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRA-HGLKEVYEAIEIVKLCGVENWS  217 (471)
Q Consensus       139 ~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~-~t~~~~~~ai~~~~~~G~~~v~  217 (471)
                      .+.+.    ....+++-+--..++  .|..++..|-.+|++.+-+  +++.+.+-.+ -+.++-++|++.+.++|+. |.
T Consensus       187 ~l~~~----~~~~v~i~TKs~lid--~L~~l~~~~~v~V~~Sitt--~~l~r~~EP~aps~~~RL~Ai~~l~~aGip-v~  257 (368)
T 4fhd_A          187 FIGAT----DYGRLRFVTKYEHVD--HLLDARHNGKTRFRFSINS--RYVINHFEPGTSSFDGRLAAARKVAGAGYK-LG  257 (368)
T ss_dssp             HHHHC----SSEEEEEEESCCCCG--GGTTCCCTTCEEEEEEECC--HHHHHHHCTTSCCHHHHHHHHHHHHHTTCE-EE
T ss_pred             HHHhC----CCceEEEEeCCcCHH--HHHhcCcCCceEEEEEEcC--HHHHHHcCCCCCCHHHHHHHHHHHHHCCCe-EE
Confidence            44442    234567766433443  3444544555567666644  7777777654 5899999999999999997 77


Q ss_pred             eeeecCCCCCCH-HHHHHHHHHHHh
Q 012112          218 LDLISSLPHQTP-QMWEESLRRTVG  241 (471)
Q Consensus       218 ~DlI~GlPgqT~-e~~~~~l~~~~~  241 (471)
                      +-+.-=+|+.+. +++.+.++.+.+
T Consensus       258 v~iaPIiP~~~~~e~y~~lle~l~~  282 (368)
T 4fhd_A          258 FVVAPIYRHEGWERGYFELFQELAR  282 (368)
T ss_dssp             EEEEEECCCTTHHHHHHHHHHHHHH
T ss_pred             EEEeCcCCCCCCHHHHHHHHHHHHH
Confidence            666666888765 577888887665

>1qwg_A PSL synthase;, (2R)-phospho-3-sulfolactate synthase; beta-alpha-barrel, lyase; 1.60A {Methanocaldococcus jannaschii} SCOP: c.1.27.1

Probab=95.65  E-value=0.11  Score=48.90  Aligned_cols=117  Identities=18%  Similarity=0.137  Sum_probs=87.9

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEec------CCCCCHHHHHHHHHCCCCEEEEccCCCCHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMD------PGTFDARKMEELMDLGVNRVSLGVQAFQDEL  188 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~------P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~  188 (471)
                      ++.+-||+||.++.+.+.+++.++..+++     ++.+..-..      -...=++.++..++.|++.|.|.-=|.+   
T Consensus        39 ID~lKfg~Gt~~l~~~~~l~eki~l~~~~-----gV~v~~GGTl~E~~~~qg~~~~yl~~~k~lGf~~iEiS~G~i~---  110 (251)
T 1qwg_A           39 IDFVKFGWGTSAVIDRDVVKEKINYYKDW-----GIKVYPGGTLFEYAYSKGKFDEFLNECEKLGFEAVEISDGSSD---  110 (251)
T ss_dssp             CSEEEECTTGGGGSCHHHHHHHHHHHHTT-----TCEEEECHHHHHHHHHTTCHHHHHHHHHHHTCCEEEECCSSSC---
T ss_pred             cceEEecCceeeecCHHHHHHHHHHHHHc-----CCeEECCcHHHHHHHHcCcHHHHHHHHHHcCCCEEEECCCccc---
Confidence            78899999999999999999999988864     223332210      0113468999999999999877665543   


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCC--C----CCCHHHHHHHHHHHHhCCCCcEEE
Q 012112          189 LKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSL--P----HQTPQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       189 L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~Gl--P----gqT~e~~~~~l~~~~~l~p~his~  249 (471)
                             .+.++..+.|+.+++.||. |-..+  |-  |    -.+++.|.+.++..++.+.++|-+
T Consensus       111 -------l~~~~~~~~I~~~~~~G~~-v~~Ev--G~k~~~~~~~~~~~~~I~~~~~~LeAGA~~Vii  167 (251)
T 1qwg_A          111 -------ISLEERNNAIKRAKDNGFM-VLTEV--GKKMPDKDKQLTIDDRIKLINFDLDAGADYVII  167 (251)
T ss_dssp             -------CCHHHHHHHHHHHHHTTCE-EEEEE--CCSSHHHHTTCCHHHHHHHHHHHHHHTCSEEEE
T ss_pred             -------CCHHHHHHHHHHHHHCCCE-Eeeec--cccCCcccCCCCHHHHHHHHHHHHHCCCcEEEE
Confidence                   4677888899999999997 43333  33  2    247899999999999999987744

>2cw6_A Hydroxymethylglutaryl-COA lyase, mitochondrial; HMG-COA lyase, ketogenic enzyme; HET: 3HG; 2.10A {Homo sapiens} PDB: 3mp3_A* 3mp4_A 3mp5_A*

Probab=94.09  E-value=0.21  Score=48.56  Aligned_cols=89  Identities=11%  Similarity=0.037  Sum_probs=71.6

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC--CHHHHHHHHHHHHHcCCCeeEeeee--cCCCC---CCHHHHHH
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH--GLKEVYEAIEIVKLCGVENWSLDLI--SSLPH---QTPQMWEE  234 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~--t~~~~~~ai~~~~~~G~~~v~~DlI--~GlPg---qT~e~~~~  234 (471)
                      +.+.++...++|++.|.+-+-+-+....+.+++..  ..+.+.++++.+++.|+. |.++++  +|-|.   -+++.+.+
T Consensus        82 ~~~~i~~a~~ag~~~v~i~~~~sd~~~~~~~~~~~~e~l~~~~~~i~~a~~~G~~-v~~~l~~~~~~~~~~~~~~~~~~~  160 (298)
T 2cw6_A           82 NLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQRFDAILKAAQSANIS-VRGYVSCALGCPYEGKISPAKVAE  160 (298)
T ss_dssp             SHHHHHHHHHTTCSEEEEEEESCHHHHHHHHSCCHHHHHHHHHHHHHHHHHTTCE-EEEEEETTTCBTTTBSCCHHHHHH
T ss_pred             CHHhHHHHHHCCCCEEEEEecCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEEEeeCCcCCCCCHHHHHH
Confidence            57889999999999999977544445667787754  567888899999999997 888887  55564   36888999


Q ss_pred             HHHHHHhCCCCcEEEEe
Q 012112          235 SLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       235 ~l~~~~~l~p~his~y~  251 (471)
                      .++.+.+++++.|++-.
T Consensus       161 ~~~~~~~~Ga~~i~l~D  177 (298)
T 2cw6_A          161 VTKKFYSMGCYEISLGD  177 (298)
T ss_dssp             HHHHHHHTTCSEEEEEE
T ss_pred             HHHHHHHcCCCEEEecC
Confidence            99999999999887763

>2pg4_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, DNA binding protein; HET: MSE CIT; 2.21A {Aeropyrum pernix} SCOP: a.4.5.48

Probab=92.97  E-value=0.24  Score=39.14  Aligned_cols=69  Identities=19%  Similarity=0.131  Sum_probs=51.2

Q ss_pred             HHhccccC-CCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          376 MLSFRTAR-GVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       376 ~~~Lr~~~-gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      +.-+.... ++...++++.+|.+....+...++.|++.|||.....+                    .|.-.++|| ++|
T Consensus        21 L~~l~~~~~~~t~~eLa~~l~is~~t~vs~~l~~Le~~Glv~~~~~d--------------------rR~~~~~LT-~~G   79 (95)
T 2pg4_A           21 LLEFEKKGYEPSLAEIVKASGVSEKTFFMGLKDRLIRAGLVKEETLS--------------------YRVKTLKLT-EKG   79 (95)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHCCCHHHHHTTHHHHHHHTTSEEEEEEE--------------------TTEEEEEEC-HHH
T ss_pred             HHHHHhcCCCCCHHHHHHHHCCCchHHHHHHHHHHHHCCCeecCCCC--------------------CCeEEEEEC-HhH
Confidence            33444444 79999999999998653267789999999999843222                    233468997 999


Q ss_pred             hchHHHHHHHH
Q 012112          455 FLLSNELISHA  465 (471)
Q Consensus       455 ~~~~n~i~~~~  465 (471)
                      ..+.+.+...+
T Consensus        80 ~~~~~~~~~~~   90 (95)
T 2pg4_A           80 RRLAECLEKCR   90 (95)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998876654

>3n9k_A Glucan 1,3-beta-glucosidase; aromatic entranceway/clamp, exoglucanase, glycoside hydrolas protein-carbohydrate interaction; HET: BGC; 1.70A {Candida albicans} SCOP: c.1.8.3 PDB: 2pc8_A* 2pb1_A* 2pbo_A 3o6a_A 2pf0_A 1cz1_A 1eqc_A* 1eqp_A

Probab=92.08  E-value=0.6  Score=47.29  Aligned_cols=120  Identities=17%  Similarity=0.151  Sum_probs=80.9

Q ss_pred             CCCHHHHHHHHHCCCC--EEEEccCCCCHHHHHHcCCC---CCHHHHHHHHHHHHHcCCCeeEeeeecCCCC--------
Q 012112          160 TFDARKMEELMDLGVN--RVSLGVQAFQDELLKSCGRA---HGLKEVYEAIEIVKLCGVENWSLDLISSLPH--------  226 (471)
Q Consensus       160 ~l~~e~l~~l~~~Gvn--rvsiGvQS~~d~~L~~l~R~---~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPg--------  226 (471)
                      .++++.++.|+++|+|  ||.|+-..+.+.    -+.+   ...+.+.++|+.|+++|+. |-+|+- +.||        
T Consensus        73 ~ite~D~~~ik~~G~N~VRipi~~~~~~~~----~~~py~~~~~~~ld~vV~~a~~~Gl~-VILDlH-~~pG~qng~~~s  146 (399)
T 3n9k_A           73 WITEQDFKQISNLGLNFVRIPIGYWAFQLL----DNDPYVQGQVQYLEKALGWARKNNIR-VWIDLH-GAPGSQNGFDNS  146 (399)
T ss_dssp             HSCHHHHHHHHHTTCCEEEEEEEGGGTCCC----TTCCCCCCHHHHHHHHHHHHHHTTCE-EEEEEE-ECTTCSSCCGGG
T ss_pred             cCcHHHHHHHHHcCCCEEEEcccHHHccCC----CCCccchhHHHHHHHHHHHHHHCCCE-EEEEec-CCCcccccccCC
Confidence            4689999999999999  555554444211    0111   1467899999999999997 889985 4553        


Q ss_pred             -----------CCHHHHHHHHHHHHh-C-CC---CcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          227 -----------QTPQMWEESLRRTVG-A-QP---KHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       227 -----------qT~e~~~~~l~~~~~-l-~p---~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                                 .+.+.+.+.++.+.+ + +.   +.|..|.+.-||..+           ..+.+...+.|..+.+.+++
T Consensus       147 G~~~~~~w~~~~~~~~~~~~w~~iA~ry~~~~y~~~V~~~el~NEP~~~-----------~~~~~~~~~~~~~a~~~IR~  215 (399)
T 3n9k_A          147 GLRDSYNFQNGDNTQVTLNVLNTIFKKYGGNEYSDVVIGIELLNEPLGP-----------VLNMDKLKQFFLDGYNSLRQ  215 (399)
T ss_dssp             SSTTCCCTTSTTHHHHHHHHHHHHHHHHSSGGGTTTEEEEESCSCCCGG-----------GSCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHhhcccCCCceEEEEeccCCCCC-----------CCCHHHHHHHHHHHHHHHHh
Confidence                       134444555554443 2 22   568889998888643           02356677888999999998


Q ss_pred             CCCcee
Q 012112          291 AGYRHY  296 (471)
Q Consensus       291 ~Gy~~y  296 (471)
                      .+-.+.
T Consensus       216 ~~p~~~  221 (399)
T 3n9k_A          216 TGSVTP  221 (399)
T ss_dssp             TTCCCC
T ss_pred             cCCCCe
Confidence            876654

>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative; 2.30A {Brucella melitensis}

Probab=92.03  E-value=0.74  Score=44.46  Aligned_cols=98  Identities=12%  Similarity=0.080  Sum_probs=71.8

Q ss_pred             CCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHH-HHcCCCC--CHHHHHHHHHHHHHcCCCeeEeeee--c
Q 012112          148 LDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELL-KSCGRAH--GLKEVYEAIEIVKLCGVENWSLDLI--S  222 (471)
Q Consensus       148 ~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L-~~l~R~~--t~~~~~~ai~~~~~~G~~~v~~DlI--~  222 (471)
                      ++..+.+-+ |   +.+.++...++|++.|.+-+ +.++... ..+++..  +.+.+.++++.+++.|+. |...+.  +
T Consensus        71 ~~~~v~~l~-~---n~~~i~~a~~~G~~~V~i~~-~~S~~h~~~~~~~~~~e~~~~~~~~v~~a~~~G~~-V~~~l~~~~  144 (295)
T 1ydn_A           71 DGVRYSVLV-P---NMKGYEAAAAAHADEIAVFI-SASEGFSKANINCTIAESIERLSPVIGAAINDGLA-IRGYVSCVV  144 (295)
T ss_dssp             SSSEEEEEC-S---SHHHHHHHHHTTCSEEEEEE-ESCHHHHHHHTSSCHHHHHHHHHHHHHHHHHTTCE-EEEEEECSS
T ss_pred             CCCEEEEEe-C---CHHHHHHHHHCCCCEEEEEE-ecCHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCe-EEEEEEEEe
Confidence            355666554 3   57889999999999988865 3455544 4455543  456677789999999997 775555  5


Q ss_pred             CCCC---CCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          223 SLPH---QTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       223 GlPg---qT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      |-|.   -+++.+.+.++.+.+.+++.|++..
T Consensus       145 ~~e~~~~~~~~~~~~~~~~~~~~G~d~i~l~D  176 (295)
T 1ydn_A          145 ECPYDGPVTPQAVASVTEQLFSLGCHEVSLGD  176 (295)
T ss_dssp             EETTTEECCHHHHHHHHHHHHHHTCSEEEEEE
T ss_pred             cCCcCCCCCHHHHHHHHHHHHhcCCCEEEecC
Confidence            5554   3688888899999999999888874

>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua}

Probab=91.94  E-value=0.34  Score=40.80  Aligned_cols=78  Identities=9%  Similarity=0.040  Sum_probs=55.8

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   ..++..|....++...++.+..|.+.. .+...++.|++.|||....+.                  .+.|.
T Consensus        35 lt~~~---~~iL~~l~~~~~~t~~eLa~~l~~~~~-~vs~~l~~L~~~Glv~r~~~~------------------~D~R~   92 (143)
T 3oop_A           35 VTPEQ---WSVLEGIEANEPISQKEIALWTKKDTP-TVNRIVDVLLRKELIVREIST------------------EDRRI   92 (143)
T ss_dssp             SCHHH---HHHHHHHHHHSSEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEC----------------------CCS
T ss_pred             CCHHH---HHHHHHHHHcCCcCHHHHHHHHCCCHh-hHHHHHHHHHHCCCeeccCCC------------------ccCce
Confidence            55543   334445555578999999999999864 467899999999999865321                  13455


Q ss_pred             ceeeecCchhhchHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      -++.|| ++|..+.+.+...+
T Consensus        93 ~~~~LT-~~G~~~~~~~~~~~  112 (143)
T 3oop_A           93 SLLSLT-DKGRKETTELRDIV  112 (143)
T ss_dssp             CEEEEC-HHHHHHHHHHHHHH
T ss_pred             eeeeEC-HHHHHHHHHHHHHH
Confidence            579997 99999998875443

>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B}

Probab=91.78  E-value=0.45  Score=40.14  Aligned_cols=78  Identities=15%  Similarity=0.151  Sum_probs=56.4

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   ..++..|....|+...++++..|.+.. .+...++.|++.|||....+.                  .+.|.
T Consensus        29 lt~~q---~~iL~~l~~~~~~t~~eLa~~l~~~~~-tvs~~l~~Le~~Glv~r~~~~------------------~D~R~   86 (145)
T 3g3z_A           29 LNYNL---FAVLYTLATEGSRTQKHIGEKWSLPKQ-TVSGVCKTLAGQGLIEWQEGE------------------QDRRK   86 (145)
T ss_dssp             CCHHH---HHHHHHHHHHCSBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEECCCS------------------SCGGG
T ss_pred             CCHHH---HHHHHHHHHCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEeeccCC------------------CCCce
Confidence            45543   345555556678999999999999864 467889999999999864321                  12344


Q ss_pred             ceeeecCchhhchHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      -++.|| ++|..+.+.+...+
T Consensus        87 ~~~~LT-~~G~~~~~~~~~~~  106 (145)
T 3g3z_A           87 RLLSLT-ETGKAYAAPLTESA  106 (145)
T ss_dssp             SCEEEC-HHHHHHHHHHHHHH
T ss_pred             eeeeEC-hhHHHHHHHHHHHH
Confidence            579997 99999987765443

>2qvo_A Uncharacterized protein AF_1382; PSI, structural genomics, southeast collaboratory for structural genomics; 1.85A {Archaeoglobus fulgidus dsm 4304} PDB: 3o3k_A 3ov8_A

Probab=91.56  E-value=0.4  Score=37.85  Aligned_cols=60  Identities=17%  Similarity=0.114  Sum_probs=46.7

Q ss_pred             CCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHHHHH
Q 012112          385 VDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELISH  464 (471)
Q Consensus       385 i~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i~~~  464 (471)
                      +...++.+++|.+-. .+...++.|++.|||.... +                    .|.-.++|| ++|..+.+.+...
T Consensus        31 ~t~~eLa~~l~i~~~-tvs~~l~~Le~~Glv~~~~-d--------------------~R~~~v~LT-~~G~~~~~~~~~~   87 (95)
T 2qvo_A           31 VYIQYIASKVNSPHS-YVWLIIKKFEEAKMVECEL-E--------------------GRTKIIRLT-DKGQKIAQQIKSI   87 (95)
T ss_dssp             EEHHHHHHHSSSCHH-HHHHHHHHHHHTTSEEEEE-E--------------------TTEEEEEEC-HHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHCcCHH-HHHHHHHHHHHCcCccCCC-C--------------------CCeEEEEEC-hhHHHHHHHHHHH
Confidence            889999999999864 5678899999999994322 2                    233468997 9999999988776


Q ss_pred             HHh
Q 012112          465 AFG  467 (471)
Q Consensus       465 ~~~  467 (471)
                      .-.
T Consensus        88 ~~~   90 (95)
T 2qvo_A           88 IDI   90 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Acinetobacter SP}

Probab=91.53  E-value=0.44  Score=41.20  Aligned_cols=78  Identities=10%  Similarity=0.030  Sum_probs=57.0

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   ..++..|....|+...++++.+|.+-. .+...++.|++.|||....+.                  .+.|.
T Consensus        44 lt~~q---~~iL~~l~~~~~~t~~eLa~~l~~~~~-tvs~~l~~Le~~Glv~r~~~~------------------~DrR~  101 (162)
T 3k0l_A           44 ISLPQ---FTALSVLAAKPNLSNAKLAERSFIKPQ-SANKILQDLLANGWIEKAPDP------------------THGRR  101 (162)
T ss_dssp             CCHHH---HHHHHHHHHCTTCCHHHHHHHHTSCGG-GHHHHHHHHHHTTSEEEEECC------------------SSSCC
T ss_pred             CCHHH---HHHHHHHHHCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCcCeEecCCC------------------CcCCe
Confidence            55443   345555666679999999999999864 467889999999999875321                  13445


Q ss_pred             ceeeecCchhhchHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      -.++|| ++|..+...+...+
T Consensus       102 ~~l~LT-~~G~~~~~~~~~~~  121 (162)
T 3k0l_A          102 ILVTVT-PSGLDKLNQCNQVV  121 (162)
T ss_dssp             EEEEEC-HHHHHHHHHHHHHH
T ss_pred             eEeEEC-HhHHHHHHHHHHHH
Confidence            579997 99999998875543

>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi}

Probab=91.23  E-value=0.35  Score=41.85  Aligned_cols=72  Identities=11%  Similarity=-0.002  Sum_probs=53.7

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....|+...++.+..|.+-. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        57 ~vL~~l~~~~~~t~~eLa~~l~~~~~-~vs~~l~~Le~~Glv~r~~~~------------------~DrR~~~~~LT-~~  116 (161)
T 3e6m_A           57 RLLSSLSAYGELTVGQLATLGVMEQS-TTSRTVDQLVDEGLAARSISD------------------ADQRKRTVVLT-RK  116 (161)
T ss_dssp             HHHHHHHHHSEEEHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEECC---------------------CCCSCEEEEC-HH
T ss_pred             HHHHHHHhCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeeCCc------------------ccCCeeEeeEC-HH
Confidence            44455555678999999999999864 567899999999999875321                  13455679997 99


Q ss_pred             hhchHHHHHHHH
Q 012112          454 GFLLSNELISHA  465 (471)
Q Consensus       454 G~~~~n~i~~~~  465 (471)
                      |..+.+.+...+
T Consensus       117 G~~~~~~~~~~~  128 (161)
T 3e6m_A          117 GKKKLAEISPLI  128 (161)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998875543

>3s2w_A Transcriptional regulator, MARR family; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 2.45A {Methanosarcina mazei}

Probab=91.13  E-value=0.46  Score=40.93  Aligned_cols=71  Identities=15%  Similarity=0.205  Sum_probs=52.1

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....|+...++++..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++|
T Consensus        55 vL~~l~~~~~~t~~eLa~~l~~~~~-tvs~~l~~Le~~Glv~r~~~~------------------~DrR~~~l~LT-~~G  114 (159)
T 3s2w_A           55 FLMRLYREDGINQESLSDYLKIDKG-TTARAIQKLVDEGYVFRQRDE------------------KDRRSYRVFLT-EKG  114 (159)
T ss_dssp             HHHHHHHSCSEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECC---------------------CCEEEEEC-HHH
T ss_pred             HHHHHHHCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEEecCC------------------CCCCeeEEEEC-HHH
Confidence            3444445678999999999999864 567899999999999865321                  12355578997 999


Q ss_pred             hchHHHHHHHH
Q 012112          455 FLLSNELISHA  465 (471)
Q Consensus       455 ~~~~n~i~~~~  465 (471)
                      ..+.+.+...+
T Consensus       115 ~~~~~~~~~~~  125 (159)
T 3s2w_A          115 KKLEPDMKKIA  125 (159)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998865443

>3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine disulfide, MARR-family transcript regulator, DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB: 3hse_A 3hrm_A 4gxo_A

Probab=91.05  E-value=0.5  Score=39.75  Aligned_cols=78  Identities=15%  Similarity=0.170  Sum_probs=56.0

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   ..++..|....++...++++..|.+.. .+...++.|++.|||....+.                  .+.|.
T Consensus        34 lt~~q---~~vL~~l~~~~~~t~~eLa~~l~~~~~-tvs~~l~~L~~~Glv~r~~~~------------------~D~R~   91 (140)
T 3hsr_A           34 LTYTG---YIVLMAIENDEKLNIKKLGERVFLDSG-TLTPLLKKLEKKDYVVRTREE------------------KDERN   91 (140)
T ss_dssp             CCHHH---HHHHHHSCTTCEEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEC-------------------------
T ss_pred             CCHHH---HHHHHHHHHcCCcCHHHHHHHHCCChh-hHHHHHHHHHHCCCeEecCCC------------------CCcce
Confidence            55533   455666766778999999999999864 567899999999999875321                  12445


Q ss_pred             ceeeecCchhhchHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      -.+.|| ++|..+.+.+....
T Consensus        92 ~~~~LT-~~G~~~~~~~~~~~  111 (140)
T 3hsr_A           92 LQISLT-EQGKAIKSPLAEIS  111 (140)
T ss_dssp             CEEEEC-HHHHHTHHHHHHHH
T ss_pred             eeeeEC-hHHHHHHHHHHHHH
Confidence            578997 99999998876544

>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix motif, DNA-binding, transcription, transcription regulation; 2.40A {Staphylococcus aureus} SCOP: a.4.5.0

Probab=90.91  E-value=0.54  Score=39.27  Aligned_cols=72  Identities=10%  Similarity=0.053  Sum_probs=52.2

Q ss_pred             HHHHhccccC--CCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecC
Q 012112          374 VLMLSFRTAR--GVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSD  451 (471)
Q Consensus       374 ~~~~~Lr~~~--gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~  451 (471)
                      .++..|....  |+...++++..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| 
T Consensus        35 ~vL~~l~~~~~~~~t~~ela~~l~~~~~-tvs~~l~~Le~~Gli~r~~~~------------------~D~R~~~~~LT-   94 (139)
T 3eco_A           35 HTLGYLYAHQQDGLTQNDIAKALQRTGP-TVSNLLRNLERKKLIYRYVDA------------------QDTRRKNIGLT-   94 (139)
T ss_dssp             HHHHHHHHSTTTCEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECC------------------C--CCEEEEEC-
T ss_pred             HHHHHHHhcCCCCcCHHHHHHHhCCCcc-cHHHHHHHHHHCCCEeecCCC------------------CCCCeeeeEEC-
Confidence            3444455443  8999999999999864 467899999999999865321                  13455578997 


Q ss_pred             chhhchHHHHHHHH
Q 012112          452 PEGFLLSNELISHA  465 (471)
Q Consensus       452 ~~G~~~~n~i~~~~  465 (471)
                      ++|..+.+.+...+
T Consensus        95 ~~G~~~~~~~~~~~  108 (139)
T 3eco_A           95 TSGIKLVEAFTSIF  108 (139)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999988765443

>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein structure initiativ midwest center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=90.84  E-value=1  Score=43.71  Aligned_cols=99  Identities=15%  Similarity=0.081  Sum_probs=74.1

Q ss_pred             CCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC--CHHHHHHHHHHHHHcCCCeeEeeee--cC
Q 012112          148 LDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH--GLKEVYEAIEIVKLCGVENWSLDLI--SS  223 (471)
Q Consensus       148 ~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~--t~~~~~~ai~~~~~~G~~~v~~DlI--~G  223 (471)
                      .+..+.+-+ |   +.+.++...++|++.|.+-.-+-+-...+.+++..  ..+.+.++++.+++.|.. |...+.  +|
T Consensus        75 ~~~~~~~l~-~---~~~~i~~a~~aG~~~v~i~~~~s~~~~~~~~~~s~ee~l~~~~~~v~~a~~~G~~-V~~~l~~~~~  149 (302)
T 2ftp_A           75 PGVTYAALA-P---NLKGFEAALESGVKEVAVFAAASEAFSQRNINCSIKDSLERFVPVLEAARQHQVR-VRGYISCVLG  149 (302)
T ss_dssp             TTSEEEEEC-C---SHHHHHHHHHTTCCEEEEEEESCHHHHHHHHSSCHHHHHHHHHHHHHHHHHTTCE-EEEEEECTTC
T ss_pred             CCCEEEEEe-C---CHHHHHHHHhCCcCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEEEee
Confidence            445666544 3   68889999999999998876554555667777754  567788889999999997 766554  55


Q ss_pred             CCC---CCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          224 LPH---QTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       224 lPg---qT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      -|.   -+++.+.+.++.+.+.+++.|++-.
T Consensus       150 ~e~~~~~~~~~~~~~~~~~~~~G~d~i~l~D  180 (302)
T 2ftp_A          150 CPYDGDVDPRQVAWVARELQQMGCYEVSLGD  180 (302)
T ss_dssp             BTTTBCCCHHHHHHHHHHHHHTTCSEEEEEE
T ss_pred             CCcCCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence            554   3678888888888999999887763

>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28

Probab=90.70  E-value=0.53  Score=41.10  Aligned_cols=78  Identities=10%  Similarity=0.079  Sum_probs=53.2

Q ss_pred             CCHhhHHHHHHHHhccc-cCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccc
Q 012112          365 IDAKDLAMDVLMLSFRT-ARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNR  443 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~-~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~  443 (471)
                      ++..+   ..++..|.. ..|+...++++..|.+-. .+...++.|++.|||....+.                  .+.|
T Consensus        51 lt~~q---~~vL~~L~~~~~~~t~~eLa~~l~i~~~-tvs~~l~~Le~~GlV~r~~~~------------------~DrR  108 (166)
T 3deu_A           51 LTQTH---WVTLHNIHQLPPDQSQIQLAKAIGIEQP-SLVRTLDQLEDKGLISRQTCA------------------SDRR  108 (166)
T ss_dssp             CCHHH---HHHHHHHHHSCSSEEHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEC-------------------------
T ss_pred             CCHHH---HHHHHHHHHcCCCCCHHHHHHHHCCCHh-hHHHHHHHHHHCCCEEeeCCC------------------CCCC
Confidence            55543   334444554 567999999999999854 467889999999999875321                  1345


Q ss_pred             cceeeecCchhhchHHHHHHHH
Q 012112          444 LAYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       444 ~~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      .-++.|| ++|..+.+.+...+
T Consensus       109 ~~~l~LT-~~G~~~~~~~~~~~  129 (166)
T 3deu_A          109 AKRIKLT-EKAEPLIAEMEEVI  129 (166)
T ss_dssp             -CEEEEC-GGGHHHHHHHHHHH
T ss_pred             eeEEEEC-HHHHHHHHHHHHHH
Confidence            5579997 99999988765443

>3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 PDB: 1lnw_A 3mex_A

Probab=90.54  E-value=0.35  Score=40.72  Aligned_cols=78  Identities=13%  Similarity=0.104  Sum_probs=50.3

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   -.++..|....|+...++++..|.+.. .+...++.|++.|||....+.                  .+.|.
T Consensus        35 lt~~~---~~vL~~l~~~~~~t~~eLa~~l~~~~~-tvs~~l~~L~~~Glv~r~~~~------------------~DrR~   92 (142)
T 3ech_A           35 LTPPD---VHVLKLIDEQRGLNLQDLGRQMCRDKA-LITRKIRELEGRNLVRRERNP------------------SDQRS   92 (142)
T ss_dssp             CCHHH---HHHHHHHHHTTTCCHHHHHHHHC---C-HHHHHHHHHHHTTSEEC---------------------------
T ss_pred             CCHHH---HHHHHHHHhCCCcCHHHHHHHhCCCHH-HHHHHHHHHHHCCCEeeccCC------------------CCCCe
Confidence            55543   345555566679999999999998754 466789999999999864321                  12344


Q ss_pred             ceeeecCchhhchHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      -++.|| ++|..+.+.+...+
T Consensus        93 ~~~~LT-~~G~~~~~~~~~~~  112 (142)
T 3ech_A           93 FQLFLT-DEGLAIHLHAELIM  112 (142)
T ss_dssp             -CCEEC-HHHHHHHHHHHHHH
T ss_pred             eeeEEC-HHHHHHHHHHHHHH
Confidence            578997 99999998765443

>4hbl_A Transcriptional regulator, MARR family; HTH, transcription factor, DNA binding; 2.50A {Staphylococcus epidermidis}

Probab=90.32  E-value=0.48  Score=40.36  Aligned_cols=73  Identities=21%  Similarity=0.186  Sum_probs=52.0

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....|+...++++..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        45 ~iL~~l~~~~~~~~~eLa~~l~~~~~-~vs~~l~~L~~~Glv~r~~~~------------------~D~R~~~~~LT-~~  104 (149)
T 4hbl_A           45 LVMLTLWEENPQTLNSIGRHLDLSSN-TLTPMLKRLEQSGWVKRERQQ------------------SDKRQLIITLT-DN  104 (149)
T ss_dssp             HHHHHHHHSSSEEHHHHHHHHTCCHH-HHHHHHHHHHHHTSEEC---------------------------CEEEEC-SH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEeeCCCC------------------CCcceeeeeEC-HH
Confidence            44555555688999999999999864 567899999999999864311                  13455579997 99


Q ss_pred             hhchHHHHHHHHH
Q 012112          454 GFLLSNELISHAF  466 (471)
Q Consensus       454 G~~~~n~i~~~~~  466 (471)
                      |..+.+.+...+-
T Consensus       105 G~~~~~~~~~~~~  117 (149)
T 4hbl_A          105 GQQQQEAVFEAIS  117 (149)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999988766554

>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic resistance protein (MA structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.04A {Oenococcus oeni} SCOP: a.4.5.28

Probab=90.24  E-value=0.98  Score=37.60  Aligned_cols=70  Identities=10%  Similarity=0.017  Sum_probs=51.6

Q ss_pred             HHHhccccC--CCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          375 LMLSFRTAR--GVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       375 ~~~~Lr~~~--gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      ++.-|....  ++...++.+.+|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| +
T Consensus        39 iL~~l~~~~~~~~~~~ela~~l~~~~~-tvs~~l~~Le~~Gli~r~~~~------------------~d~R~~~i~lT-~   98 (141)
T 3bro_A           39 IIDYLSRNKNKEVLQRDLESEFSIKSS-TATVLLQRMEIKKLLYRKVSG------------------KDSRQKCLKLT-K   98 (141)
T ss_dssp             HHHHHHHTTTSCCBHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECS------------------SCTTSEEEEEC-H
T ss_pred             HHHHHHHCCCCCcCHHHHHHHHCCCcc-hHHHHHHHHHHCCCEEeeCCC------------------cCCCeeeeEEC-H
Confidence            444455455  7999999999999854 567899999999999865321                  12344578997 9


Q ss_pred             hhhchHHHHHHH
Q 012112          453 EGFLLSNELISH  464 (471)
Q Consensus       453 ~G~~~~n~i~~~  464 (471)
                      +|..+.+.+...
T Consensus        99 ~G~~~~~~~~~~  110 (141)
T 3bro_A           99 KANKLETIILSY  110 (141)
T ss_dssp             HHHTTHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998876443

>1jgs_A Multiple antibiotic resistance protein MARR; transcription regulation, DNA-binding, repressor, transcription; HET: SAL; 2.30A {Escherichia coli} SCOP: a.4.5.28

Probab=90.20  E-value=0.86  Score=37.87  Aligned_cols=78  Identities=17%  Similarity=0.178  Sum_probs=55.7

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+.   .++..|....++...++.+..|.+.. .+...++.|++.||+....+.                  .+.|.
T Consensus        32 lt~~~~---~iL~~l~~~~~~~~~~la~~l~~~~~-tvs~~l~~L~~~gli~r~~~~------------------~d~R~   89 (138)
T 1jgs_A           32 ITAAQF---KVLCSIRCAACITPVELKKVLSVDLG-ALTRMLDRLVCKGWVERLPNP------------------NDKRG   89 (138)
T ss_dssp             SCHHHH---HHHHHHHHHSSBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECT------------------TCSSC
T ss_pred             CCHHHH---HHHHHHHhcCCCCHHHHHHHHCCChH-HHHHHHHHHHHCCCEEecCCc------------------ccCce
Confidence            555432   34445555678999999999999865 467789999999999875311                  12444


Q ss_pred             ceeeecCchhhchHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      -++.|| ++|..+.+.+...+
T Consensus        90 ~~~~lT-~~G~~~~~~~~~~~  109 (138)
T 1jgs_A           90 VLVKLT-TGGAAICEQCHQLV  109 (138)
T ss_dssp             EEEEEC-HHHHHHHHHHHHHH
T ss_pred             eEeEEC-hhHHHHHHHHHHHH
Confidence            578997 99999988765544

>2frh_A SARA, staphylococcal accessory regulator A; winged-helix protein, divalent metal binding, transcription; 2.50A {Staphylococcus aureus} SCOP: a.4.5.28 PDB: 2fnp_A 1fzp_D

Probab=90.19  E-value=0.32  Score=40.57  Aligned_cols=80  Identities=11%  Similarity=0.031  Sum_probs=56.8

Q ss_pred             CCHhhHHHHHHHHhcccc--CCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccc
Q 012112          365 IDAKDLAMDVLMLSFRTA--RGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGN  442 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~--~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~  442 (471)
                      ++..+.   .++..|...  .++...++++.+|.+. ..+...++.|++.|||....+.                  .+.
T Consensus        35 lt~~q~---~vL~~l~~~~~~~~t~~eLa~~l~~~~-~tvs~~l~~Le~~Glv~r~~~~------------------~D~   92 (127)
T 2frh_A           35 ISFEEF---AVLTYISENKEKEYYLKDIINHLNYKQ-PQVVKAVKILSQEDYFDKKRNE------------------HDE   92 (127)
T ss_dssp             CCHHHH---HHHHHHHHTCCSEEEHHHHHHHSSSHH-HHHHHHHHHHHHTTSSCCBCCS------------------SSS
T ss_pred             CCHHHH---HHHHHHHhccCCCcCHHHHHHHHCCCH-HHHHHHHHHHHHCCCEEecCCC------------------CCC
Confidence            555432   334444445  6799999999999875 3567889999999999763211                  134


Q ss_pred             ccceeeecCchhhchHHHHHHHHHh
Q 012112          443 RLAYFRLSDPEGFLLSNELISHAFG  467 (471)
Q Consensus       443 ~~~~~~lt~~~G~~~~n~i~~~~~~  467 (471)
                      |.-.+.|| ++|..+.+.+...+-.
T Consensus        93 R~~~i~LT-~~G~~~~~~~~~~~~~  116 (127)
T 2frh_A           93 RTVLILVN-AQQRKKIESLLSRVNK  116 (127)
T ss_dssp             CCCEEECC-SHHHHHHHHHHHHHHH
T ss_pred             CeeEEEEC-HHHHHHHHHHHHHHHH
Confidence            55579997 9999999887666544

>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=89.80  E-value=1.3  Score=36.94  Aligned_cols=69  Identities=17%  Similarity=0.207  Sum_probs=51.5

Q ss_pred             HHHhc-cccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          375 LMLSF-RTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       375 ~~~~L-r~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      ++..| ....++...++.+.+|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        42 iL~~l~~~~~~~t~~~la~~l~~s~~-~vs~~l~~L~~~glv~r~~~~------------------~d~R~~~~~lT-~~  101 (146)
T 2fbh_A           42 VLLHLARHRDSPTQRELAQSVGVEGP-TLARLLDGLESQGLVRRLAVA------------------EDRRAKHIVLT-PK  101 (146)
T ss_dssp             HHHHHHHCSSCCBHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEECCB------------------TTBCSCEEEEC-TT
T ss_pred             HHHHHHHcCCCCCHHHHHHHhCCChh-hHHHHHHHHHHCCCeeecCCC------------------cccCeeeeEEC-Hh
Confidence            44445 45678999999999999864 467789999999999875321                  12445578997 99


Q ss_pred             hhchHHHHHH
Q 012112          454 GFLLSNELIS  463 (471)
Q Consensus       454 G~~~~n~i~~  463 (471)
                      |..+.+.+..
T Consensus       102 G~~~~~~~~~  111 (146)
T 2fbh_A          102 ADVLIADIEA  111 (146)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999877643

>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP}

Probab=89.77  E-value=0.58  Score=39.56  Aligned_cols=78  Identities=12%  Similarity=0.084  Sum_probs=53.6

Q ss_pred             cCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccc
Q 012112          364 HIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNR  443 (471)
Q Consensus       364 ~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~  443 (471)
                      .++..+   ..++..|....++...++++..|.+.. .+...++.|++.|||....+.                  .+.|
T Consensus        37 ~l~~~~---~~iL~~l~~~~~~t~~ela~~l~~~~~-tvs~~l~~Le~~Glv~r~~~~------------------~D~R   94 (148)
T 3nrv_A           37 GIGMTE---WRIISVLSSASDCSVQKISDILGLDKA-AVSRTVKKLEEKKYIEVNGHS------------------EDKR   94 (148)
T ss_dssp             TCCHHH---HHHHHHHHHSSSBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEC--------------------------
T ss_pred             CCCHHH---HHHHHHHHcCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeecCC------------------CCcc
Confidence            355543   345555666678999999999999864 467899999999999864211                  1234


Q ss_pred             cceeeecCchhhchHHHHHHH
Q 012112          444 LAYFRLSDPEGFLLSNELISH  464 (471)
Q Consensus       444 ~~~~~lt~~~G~~~~n~i~~~  464 (471)
                      .-++.|| ++|..+.+.+...
T Consensus        95 ~~~~~lT-~~G~~~~~~~~~~  114 (148)
T 3nrv_A           95 TYAINLT-EMGQELYEVASDF  114 (148)
T ss_dssp             -CCBEEC-HHHHHHHHHHHHH
T ss_pred             eeEeEEC-HhHHHHHHHHHHH
Confidence            4478997 9999998876544

>2hr3_A Probable transcriptional regulator; MCSG, structural genomics, PSI-2, protein structure initiati midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=89.76  E-value=0.99  Score=37.95  Aligned_cols=71  Identities=13%  Similarity=0.041  Sum_probs=51.2

Q ss_pred             HHHHhccc-cCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          374 VLMLSFRT-ARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       374 ~~~~~Lr~-~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      .++..|.. ..++...++.+..|.+-. .+...++.|++.|||....+.                  .+.|.-++.|| +
T Consensus        39 ~iL~~l~~~~~~~~~~~la~~l~i~~~-~vs~~l~~Le~~glv~r~~~~------------------~d~R~~~~~lT-~   98 (147)
T 2hr3_A           39 VVLGAIDRLGGDVTPSELAAAERMRSS-NLAALLRELERGGLIVRHADP------------------QDGRRTRVSLS-S   98 (147)
T ss_dssp             HHHHHHHHTTSCBCHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEEEC------------------------CCEEEEC-H
T ss_pred             HHHHHHHHcCCCCCHHHHHHHhCCChh-hHHHHHHHHHHCCCEeeCCCC------------------CCCCceeeEEC-H
Confidence            44555555 678999999999999864 467789999999999875321                  12344578997 9


Q ss_pred             hhhchHHHHHHH
Q 012112          453 EGFLLSNELISH  464 (471)
Q Consensus       453 ~G~~~~n~i~~~  464 (471)
                      +|..+.+.+...
T Consensus        99 ~G~~~~~~~~~~  110 (147)
T 2hr3_A           99 EGRRNLYGNRAK  110 (147)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998876543

>4aik_A Transcriptional regulator SLYA; transcription, transcription factor; 1.85A {Yersinia pseudotuberculosis} PDB: 4aih_A 4aij_A 3qpt_A* 3q5f_A*

Probab=89.73  E-value=1.3  Score=38.02  Aligned_cols=78  Identities=10%  Similarity=0.121  Sum_probs=54.5

Q ss_pred             CCHhhHHHHHHHHhc-cccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccc
Q 012112          365 IDAKDLAMDVLMLSF-RTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNR  443 (471)
Q Consensus       365 l~~~~~~~e~~~~~L-r~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~  443 (471)
                      ++..+.   .++..| +...++...++++..|.+-. .+...++.|++.|||....+.                  .+.|
T Consensus        29 Lt~~q~---~vL~~L~~~~~~~~~~eLa~~l~~~~~-tvs~~v~~Le~~GlV~R~~~~------------------~DrR   86 (151)
T 4aik_A           29 LTQTHW---VTLYNINRLPPEQSQIQLAKAIGIEQP-SLVRTLDQLEEKGLITRHTSA------------------NDRR   86 (151)
T ss_dssp             CCHHHH---HHHHHHHHSCTTSCHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEEECS------------------SCTT
T ss_pred             CCHHHH---HHHHHHHHcCCCCcHHHHHHHHCcCHH-HHHHHHHHHHhCCCeEeecCC------------------CCCc
Confidence            555432   334444 33456777899999999864 567889999999999865321                  1345


Q ss_pred             cceeeecCchhhchHHHHHHHH
Q 012112          444 LAYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       444 ~~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      .-.|.|| ++|..+.+.+...+
T Consensus        87 ~~~l~LT-~~G~~~~~~~~~~~  107 (151)
T 4aik_A           87 AKRIKLT-EQSSPIIEQVDGVI  107 (151)
T ss_dssp             CEEEEEC-GGGHHHHHHHHHHH
T ss_pred             chhhhcC-HHHHHHHHHHHHHH
Confidence            5579997 99999988765443

>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A

Probab=89.66  E-value=1.2  Score=37.35  Aligned_cols=70  Identities=10%  Similarity=0.119  Sum_probs=52.0

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++.-|. ..++...++.+..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        41 ~iL~~l~-~~~~~~~ela~~l~~s~~-tvs~~l~~Le~~glv~r~~~~------------------~d~r~~~~~lT-~~   99 (146)
T 2gxg_A           41 LVLRATS-DGPKTMAYLANRYFVTQS-AITASVDKLEEMGLVVRVRDR------------------EDRRKILIEIT-EK   99 (146)
T ss_dssp             HHHHHHT-TSCBCHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEEEECS------------------SCTTCEEEEEC-HH
T ss_pred             HHHHHHh-cCCcCHHHHHHHhCCCch-hHHHHHHHHHHCCCEEeecCC------------------CCCceEEEEEC-HH
Confidence            3444555 778999999999999854 567889999999999865321                  12344478997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus       100 G~~~~~~~~~~  110 (146)
T 2gxg_A          100 GLETFNKGIEI  110 (146)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998876543

>2xvc_A ESCRT-III, SSO0910; cell cycle, cell division, cytokinesis, winged-helix; 2.15A {Sulfolobus solfataricus}

Probab=89.62  E-value=0.72  Score=32.93  Aligned_cols=46  Identities=15%  Similarity=0.334  Sum_probs=35.9

Q ss_pred             hhHHHHHHHHhccccCC-CCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEe
Q 012112          368 KDLAMDVLMLSFRTARG-VDLKSFGETFGCSLVHTLCKAYKPYIESGHVICL  418 (471)
Q Consensus       368 ~~~~~e~~~~~Lr~~~g-i~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~  418 (471)
                      ++.+.+++    |.+.| +|++.|.++||++-.+ ....|.+|.+.|++..+
T Consensus        12 e~~lL~yI----r~sGGildI~~~a~kygV~kde-V~~~LrrLe~KGLI~le   58 (59)
T 2xvc_A           12 ERELLDYI----VNNGGFLDIEHFSKVYGVEKQE-VVKLLEALKNKGLIAVE   58 (59)
T ss_dssp             HHHHHHHH----HHTTSEEEHHHHHHHHCCCHHH-HHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHH----HHcCCEEeHHHHHHHhCCCHHH-HHHHHHHHHHCCCeecc
Confidence            34445554    66777 8999999999999654 56789999999999753

>1tbx_A ORF F-93, hypothetical 11.0 kDa protein; sulfolobus spindle virus, winged helix, fusellovirus; 2.70A {Sulfolobus virus 1} SCOP: a.4.5.48

Probab=89.53  E-value=0.84  Score=36.00  Aligned_cols=68  Identities=21%  Similarity=0.206  Sum_probs=49.6

Q ss_pred             HHHhccccCCCCHhhH----HHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeec
Q 012112          375 LMLSFRTARGVDLKSF----GETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLS  450 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~----~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt  450 (471)
                      ++..|....++...++    ++.+|.+-. .+...++.|++.||+....+.                     |.-++.||
T Consensus        13 iL~~l~~~~~~~~~el~~~la~~l~is~~-tvs~~l~~Le~~gli~r~~~~---------------------r~~~~~LT   70 (99)
T 1tbx_A           13 VLAYLYDNEGIATYDLYKKVNAEFPMSTA-TFYDAKKFLIQEGFVKERQER---------------------GEKRLYLT   70 (99)
T ss_dssp             HHHHHTTCTTCBHHHHHHHHHTTSCCCHH-HHHHHHHHHHHTTSEEEEEET---------------------TEEEEEEC
T ss_pred             HHHHHHHcCCcCHHHHHHHHHHHcCCCHH-HHHHHHHHHHHCCCEEEEecC---------------------CceEEEEC
Confidence            4444555567888888    777888754 467789999999999864321                     33368997


Q ss_pred             CchhhchHHHHHHHH
Q 012112          451 DPEGFLLSNELISHA  465 (471)
Q Consensus       451 ~~~G~~~~n~i~~~~  465 (471)
                       ++|..+...+...+
T Consensus        71 -~~G~~~~~~~~~~~   84 (99)
T 1tbx_A           71 -EKGKLFAISLKTAI   84 (99)
T ss_dssp             -HHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHH
Confidence             99999988765443

>1u83_A Phosphosulfolactate synthase; structural genomics, phosphosulfolactate PSI, protein structure initiative, midwest center for struc genomics; 2.20A {Bacillus subtilis} SCOP: c.1.27.1

Probab=89.52  E-value=1.5  Score=41.73  Aligned_cols=113  Identities=15%  Similarity=0.092  Sum_probs=78.1

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe------cCCCCCHHHHHHHHHCCCCEEEEccCCCCHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM------DPGTFDARKMEELMDLGVNRVSLGVQAFQDEL  188 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~------~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~  188 (471)
                      |+.+-||+||.++.+.  +++.++..+++ +    +.+..-.      --...=++.++..++.|++.|.|.-=|.+   
T Consensus        66 ID~lKfg~GTs~l~~~--l~ekI~l~~~~-g----V~v~~GGTlfE~~l~qg~~~~yl~~~k~lGF~~IEISdGti~---  135 (276)
T 1u83_A           66 IDFVKFGWGTSLLTKD--LEEKISTLKEH-D----ITFFFGGTLFEKYVSQKKVNEFHRYCTYFGCEYIEISNGTLP---  135 (276)
T ss_dssp             CCEEEECTTGGGGCTT--HHHHHHHHHHT-T----CEEEECHHHHHHHHHTTCHHHHHHHHHHTTCSEEEECCSSSC---
T ss_pred             cceEEecCcchhhhHH--HHHHHHHHHHc-C----CeEeCCcHHHHHHHHcCcHHHHHHHHHHcCCCEEEECCCccc---
Confidence            7889999999988776  89988888764 2    2222211      00013479999999999999877655542   


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCC--C----CCCHHHHHHHHHHHHhCCCCcEE
Q 012112          189 LKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSL--P----HQTPQMWEESLRRTVGAQPKHVS  248 (471)
Q Consensus       189 L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~Gl--P----gqT~e~~~~~l~~~~~l~p~his  248 (471)
                             .+.++..+.|+.+++. |. |-..+  |-  |    -.+++.|.+.++..++.+.+.|-
T Consensus       136 -------l~~~~~~~lI~~a~~~-f~-Vl~Ev--G~K~~~~~~~~~~~~~I~~~~~dLeAGA~~Vi  190 (276)
T 1u83_A          136 -------MTNKEKAAYIADFSDE-FL-VLSEV--GSKDAELASRQSSEEWLEYIVEDMEAGAEKVI  190 (276)
T ss_dssp             -------CCHHHHHHHHHHHTTT-SE-EEEEC--SCCC------CCSTHHHHHHHHHHHHTEEEEE
T ss_pred             -------CCHHHHHHHHHHHHhh-cE-Eeeec--cccCccccCCCCHHHHHHHHHHHHHCCCcEEE
Confidence                   4566777788888777 65 33332  33  2    24678999999999999987663

>1lj9_A Transcriptional regulator SLYA; HTH DNA binding protein, structural genomics, PSI, protein structure initiative; 1.60A {Enterococcus faecalis} SCOP: a.4.5.28

Probab=89.22  E-value=0.93  Score=37.96  Aligned_cols=70  Identities=11%  Similarity=0.148  Sum_probs=51.8

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....|+...++.+.+|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++|
T Consensus        34 iL~~l~~~~~~t~~~la~~l~~s~~-~vs~~l~~Le~~gli~r~~~~------------------~d~R~~~~~lT-~~G   93 (144)
T 1lj9_A           34 YLVRVCENPGIIQEKIAELIKVDRT-TAARAIKRLEEQGFIYRQEDA------------------SNKKIKRIYAT-EKG   93 (144)
T ss_dssp             HHHHHHHSTTEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECS------------------SCTTCEEEEEC-HHH
T ss_pred             HHHHHHHCcCcCHHHHHHHHCCCHh-HHHHHHHHHHHCCCEEeecCC------------------CCCceeeeEEC-hhH
Confidence            4444555678999999999999854 567899999999999875321                  12344578997 999


Q ss_pred             hchHHHHHHH
Q 012112          455 FLLSNELISH  464 (471)
Q Consensus       455 ~~~~n~i~~~  464 (471)
                      ..+.+.+...
T Consensus        94 ~~~~~~~~~~  103 (144)
T 1lj9_A           94 KNVYPIIVRE  103 (144)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998776443

>2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix binding motif, structural genomics, PSI-2; 2.30A {Geobacillus stearothermophilus}

Probab=89.16  E-value=1  Score=38.06  Aligned_cols=71  Identities=14%  Similarity=0.122  Sum_probs=50.9

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++.-|....++...++.+.+|.+-. .+...++.|++.|||....+.                  .+.|.-+++|| ++
T Consensus        46 ~iL~~l~~~~~~t~~ela~~l~~~~~-tvs~~l~~Le~~Glv~r~~~~------------------~d~R~~~~~lT-~~  105 (150)
T 2rdp_A           46 VALQWLLEEGDLTVGELSNKMYLACS-TTTDLVDRMERNGLVARVRDE------------------HDRRVVRIRLL-EK  105 (150)
T ss_dssp             HHHHHHHHHCSBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECC------------------C---CEEEEEC-HH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHCCCch-hHHHHHHHHHHCCCeeecCCC------------------CCcceeEeEEC-Hh
Confidence            34444555678999999999999854 467789999999999865311                  12344478997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus       106 G~~~~~~~~~~  116 (150)
T 2rdp_A          106 GERIIEEVIEK  116 (150)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998876544

>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structura genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3}

Probab=89.13  E-value=1.1  Score=38.12  Aligned_cols=71  Identities=11%  Similarity=0.133  Sum_probs=51.1

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++.-|....++...++.+..|.+-. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        47 ~iL~~l~~~~~~t~~ela~~l~i~~~-tvs~~l~~Le~~Glv~r~~~~------------------~d~R~~~~~lT-~~  106 (155)
T 3cdh_A           47 RVLACLVDNDAMMITRLAKLSLMEQS-RMTRIVDQMDARGLVTRVADA------------------KDKRRVRVRLT-DD  106 (155)
T ss_dssp             HHHHHHSSCSCBCHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEECC------------------------CCCEEEC-HH
T ss_pred             HHHHHHHHCCCcCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeccCC------------------CcCCeeEeEEC-HH
Confidence            45555666678999999999999854 467789999999999864311                  12344468997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus       107 G~~~~~~~~~~  117 (155)
T 3cdh_A          107 GRALAESLVAS  117 (155)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998776443

>2yci_X 5-methyltetrahydrofolate corrinoid/iron sulfur PR methyltransferase; 1.78A {Carboxydothermus hydrogenoformans} PDB: 2ycj_A* 2yck_X*

Probab=89.13  E-value=3.1  Score=39.66  Aligned_cols=119  Identities=11%  Similarity=0.116  Sum_probs=79.8

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHC--CCCEE-EEccCCCC--HHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL--GVNRV-SLGVQAFQ--DELL  189 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~--Gvnrv-siGvQS~~--d~~L  189 (471)
                      .+-|-+||+.+.--..+.+..+++.+++.++    ..++|.    +.+.+.++.-.++  |.+-| |+.... +  ++++
T Consensus        48 AdiIDIg~~s~~~eE~~rv~~vi~~l~~~~~----~pisID----T~~~~v~~aal~a~~Ga~iINdvs~~~-d~~~~~~  118 (271)
T 2yci_X           48 AHYLDVNTGPTADDPVRVMEWLVKTIQEVVD----LPCCLD----STNPDAIEAGLKVHRGHAMINSTSADQ-WKMDIFF  118 (271)
T ss_dssp             CSEEEEECCSCSSCHHHHHHHHHHHHHHHCC----CCEEEE----CSCHHHHHHHHHHCCSCCEEEEECSCH-HHHHHHH
T ss_pred             CCEEEEcCCcCchhHHHHHHHHHHHHHHhCC----CeEEEe----CCCHHHHHHHHHhCCCCCEEEECCCCc-cccHHHH
Confidence            6778899988644345677788888887643    346665    5578888877777  86655 244433 4  5555


Q ss_pred             HHc----------C---C--CCC----HHHHHHHHHHHHHcCCC--eeEeeeecCCCCCCHHHHHHHHHHHHhC
Q 012112          190 KSC----------G---R--AHG----LKEVYEAIEIVKLCGVE--NWSLDLISSLPHQTPQMWEESLRRTVGA  242 (471)
Q Consensus       190 ~~l----------~---R--~~t----~~~~~~ai~~~~~~G~~--~v~~DlI~GlPgqT~e~~~~~l~~~~~l  242 (471)
                      ..+          .   +  ..+    .+...+.++.+.++|++  +|-+|-.+|+.|.|.+.-.++|+.+..+
T Consensus       119 ~~~a~~~~~vv~m~~d~~G~p~t~~~~~~~l~~~~~~a~~~Gi~~~~IilDPg~gfigk~~~~~~~~l~~l~~~  192 (271)
T 2yci_X          119 PMAKKYEAAIIGLTMNEKGVPKDANDRSQLAMELVANADAHGIPMTELYIDPLILPVNVAQEHAVEVLETIRQI  192 (271)
T ss_dssp             HHHHHHTCEEEEESCBTTBCCCSHHHHHHHHHHHHHHHHHTTCCGGGEEEECCCCCTTTSTHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCEEEEecCCCCCCCCHHHHHHHHHHHHHHHHHCCCCcccEEEecCCCccccCHHHHHHHHHHHHHH
Confidence            431          1   2  234    44566777888999997  4999999998888887665566655544

>1ydo_A HMG-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG,; 2.71A {Bacillus subtilis subsp}

Probab=88.90  E-value=1  Score=43.97  Aligned_cols=98  Identities=11%  Similarity=0.069  Sum_probs=72.1

Q ss_pred             CCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHH-HHHHcCCCC--CHHHHHHHHHHHHHcCCCeeEeeeec--
Q 012112          148 LDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDE-LLKSCGRAH--GLKEVYEAIEIVKLCGVENWSLDLIS--  222 (471)
Q Consensus       148 ~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~-~L~~l~R~~--t~~~~~~ai~~~~~~G~~~v~~DlI~--  222 (471)
                      ++..+..-+ |   +.+-++...++|++.|.+-+ +.+|. ..+.+++..  ..+.+.++++.+++.|.. |...+++  
T Consensus        73 ~~~~~~~l~-~---~~~~i~~a~~~g~~~v~i~~-~~sd~~~~~~l~~s~~e~l~~~~~~v~~ak~~G~~-v~~~i~~~~  146 (307)
T 1ydo_A           73 KGVTYAALV-P---NQRGLENALEGGINEACVFM-SASETHNRKNINKSTSESLHILKQVNNDAQKANLT-TRAYLSTVF  146 (307)
T ss_dssp             TTCEEEEEC-C---SHHHHHHHHHHTCSEEEEEE-ESSHHHHHTTTCSCHHHHHHHHHHHHHHHHHTTCE-EEEEEECTT
T ss_pred             CCCeEEEEe-C---CHHhHHHHHhCCcCEEEEEe-ecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCE-EEEEEEEEe
Confidence            455666544 4   46778888899999999987 44554 555676643  356678889999999997 7766655  


Q ss_pred             CCCC---CCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          223 SLPH---QTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       223 GlPg---qT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      |.|.   -+++.+.+.++.+.+++++.|++-.
T Consensus       147 ~~~~~~~~~~~~~~~~~~~~~~~Ga~~i~l~D  178 (307)
T 1ydo_A          147 GCPYEKDVPIEQVIRLSEALFEFGISELSLGD  178 (307)
T ss_dssp             CBTTTBCCCHHHHHHHHHHHHHHTCSCEEEEC
T ss_pred             cCCcCCCCCHHHHHHHHHHHHhcCCCEEEEcC
Confidence            4454   3678888999999999999887663

>3ble_A Citramalate synthase from leptospira interrogans; TIM barrel, licmsn, substrate specificity, acyltransferase, amino-acid biosynthesis; 2.00A {Leptospira interrogans} PDB: 3blf_A 3bli_A*

Probab=88.89  E-value=2  Score=42.40  Aligned_cols=130  Identities=16%  Similarity=0.123  Sum_probs=82.8

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ++.|=+|.+.-+--+.+.+.++.+... ....-++..+..-++-    ..-++...++|++.|.+-+-+-+-...+.+++
T Consensus        56 v~~IE~g~~~~~~~~~~~v~~~~~~~~-~~~~~~~~~i~~l~~~----~~~i~~a~~~g~~~v~i~~~~s~~~~~~~~~~  130 (337)
T 3ble_A           56 VDRVEIASARVSKGELETVQKIMEWAA-TEQLTERIEILGFVDG----NKTVDWIKDSGAKVLNLLTKGSLHHLEKQLGK  130 (337)
T ss_dssp             CSEEEEEETTSCTTHHHHHHHHHHHHH-HTTCGGGEEEEEESST----THHHHHHHHHTCCEEEEEEECSHHHHHHHTCC
T ss_pred             CCEEEEeCCCCChhHHHHHHHHHhhhh-hhccCCCCeEEEEccc----hhhHHHHHHCCCCEEEEEEecCHHHHHHHhCC
Confidence            566666643221111144444444322 1111133455544332    12688888899999999777666667778887


Q ss_pred             CC--CHHHHHHHHHHHHHcCCCeeEeeeec---CCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          195 AH--GLKEVYEAIEIVKLCGVENWSLDLIS---SLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       195 ~~--t~~~~~~ai~~~~~~G~~~v~~DlI~---GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      ..  ..+.+.++++.+++.|.. |.++++.   + +.-+++.+.+.++.+.+++++.|++-.
T Consensus       131 s~~e~l~~~~~~v~~ak~~G~~-v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Ga~~i~l~D  190 (337)
T 3ble_A          131 TPKEFFTDVSFVIEYAIKSGLK-INVYLEDWSNG-FRNSPDYVKSLVEHLSKEHIERIFLPD  190 (337)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCE-EEEEEETHHHH-HHHCHHHHHHHHHHHHTSCCSEEEEEC
T ss_pred             CHHHHHHHHHHHHHHHHHCCCE-EEEEEEECCCC-CcCCHHHHHHHHHHHHHcCCCEEEEec
Confidence            53  456777888999999997 8888775   2 123577788888999999999877654

>3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm, transcription regulation, binding, transcription regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB: 3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A* 3kp6_A

Probab=88.74  E-value=0.55  Score=39.97  Aligned_cols=73  Identities=14%  Similarity=0.170  Sum_probs=49.8

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++.-| ...++...++++..|.+-. .+...++.|++.|||.....                .+..+.|.-++.|| ++
T Consensus        42 ~iL~~l-~~~~~t~~eLa~~l~~~~~-~vs~~l~~Le~~Glv~r~~~----------------~~~~D~R~~~~~lT-~~  102 (151)
T 3kp7_A           42 HVLNML-SIEALTVGQITEKQGVNKA-AVSRRVKKLLNAELVKLEKP----------------DSNTDQRLKIIKLS-NK  102 (151)
T ss_dssp             HHHHHH-HHSCBCHHHHHHHHCSCSS-HHHHHHHHHHHTTSEEC---------------------------CCBEEC-HH
T ss_pred             HHHHHH-HcCCcCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeeCC----------------CCCCCCCeeEEEEC-Hh
Confidence            344555 6789999999999998854 46788999999999985210                00012344578997 99


Q ss_pred             hhchHHHHHHHH
Q 012112          454 GFLLSNELISHA  465 (471)
Q Consensus       454 G~~~~n~i~~~~  465 (471)
                      |..+.+.+...+
T Consensus       103 G~~~~~~~~~~~  114 (151)
T 3kp7_A          103 GKKYIKERKAIM  114 (151)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999988765443

>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix, trasnscription regulator, STR genomics, PSI-2, protein structure initiative; 2.01A {Silicibacter pomeroyi dss-3}

Probab=88.59  E-value=1.2  Score=37.65  Aligned_cols=71  Identities=10%  Similarity=0.147  Sum_probs=52.0

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++.+.+|.+-. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        44 ~iL~~l~~~~~~t~~ela~~l~~~~~-~vs~~l~~Le~~Glv~r~~~~------------------~d~R~~~~~lT-~~  103 (152)
T 3bj6_A           44 AILEGLSLTPGATAPQLGAALQMKRQ-YISRILQEVQRAGLIERRTNP------------------EHARSHRYWLT-PR  103 (152)
T ss_dssp             HHHHHHHHSTTEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEECCS------------------SSTTSCEEEEC-HH
T ss_pred             HHHHHHHhCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCeeecCCc------------------ccccceeeEEC-hh
Confidence            34444555568999999999999854 567889999999999875321                  12344578997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus       104 G~~~~~~~~~~  114 (152)
T 3bj6_A          104 GEAIITAIRAD  114 (152)
T ss_dssp             HHHHHHHHHHH
T ss_pred             hHHHHHHHHHH
Confidence            99988776443

>3nqo_A MARR-family transcriptional regulator; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE PG4; 2.20A {Clostridium difficile}

Probab=88.51  E-value=1.2  Score=39.76  Aligned_cols=78  Identities=12%  Similarity=0.112  Sum_probs=55.5

Q ss_pred             CCHhhHHHHHHHHhccc--cCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccc
Q 012112          365 IDAKDLAMDVLMLSFRT--ARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGN  442 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~--~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~  442 (471)
                      ++..+   ..++..|..  ..|+...++++..|.+-. .+...++.|++.|||....+.                  ...
T Consensus        39 lt~~q---~~vL~~L~~~~~~~~t~~eLa~~l~is~~-tvs~~l~~Le~~GlV~r~~~~------------------~Dr   96 (189)
T 3nqo_A           39 LTSRQ---YMTILSILHLPEEETTLNNIARKMGTSKQ-NINRLVANLEKNGYVDVIPSP------------------HDK   96 (189)
T ss_dssp             SCHHH---HHHHHHHHHSCGGGCCHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEEECS------------------SCS
T ss_pred             CCHHH---HHHHHHHHhccCCCcCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeccCC------------------CCC
Confidence            55543   233444443  468999999999999864 567889999999999875321                  134


Q ss_pred             ccceeeecCchhhchHHHHHHHH
Q 012112          443 RLAYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       443 ~~~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      |.-++.|| ++|..+.+.+...+
T Consensus        97 R~~~l~LT-~~G~~~~~~~~~~~  118 (189)
T 3nqo_A           97 RAINVKVT-DLGKKVMVTCSRTG  118 (189)
T ss_dssp             SCEEEEEC-HHHHHHHHHHHHHH
T ss_pred             CeeEEEEC-HHHHHHHHHHHHHH
Confidence            55579997 99999998765443

>1hjs_A Beta-1,4-galactanase; 4-galactanases, family 53 glycoside hydrolase, thermostability, PH optimum, CLAN GH-A, thermophIle, alkalophIle; HET: NAG EPE; 1.87A {Thielavia heterothallica} SCOP: c.1.8.3 PDB: 1hju_A* 1hjq_A*

Probab=88.42  E-value=3.5  Score=40.41  Aligned_cols=131  Identities=15%  Similarity=0.084  Sum_probs=78.5

Q ss_pred             HHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecC----CCCC---------CH
Q 012112          163 ARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISS----LPHQ---------TP  229 (471)
Q Consensus       163 ~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~G----lPgq---------T~  229 (471)
                      .+.++.|+++|+|.|-+.+ -.++.     +-..+.+.+.++++.++++|++ |-+||-++    -||.         +.
T Consensus        30 ~d~~~ilk~~G~N~VRi~~-w~~P~-----~g~~~~~~~~~~~~~A~~~Glk-V~ld~Hysd~WadPg~Q~~p~~W~~~~  102 (332)
T 1hjs_A           30 QPLENILAANGVNTVRQRV-WVNPA-----DGNYNLDYNIAIAKRAKAAGLG-VYIDFHYSDTWADPAHQTMPAGWPSDI  102 (332)
T ss_dssp             CCHHHHHHHTTCCEEEEEE-CSSCT-----TCTTSHHHHHHHHHHHHHTTCE-EEEEECCSSSCCBTTBCBCCTTCCCSH
T ss_pred             ccHHHHHHHCCCCEEEEee-eeCCC-----CCcCCHHHHHHHHHHHHHCCCE-EEEEeccCCCcCCccccCCccccccch
Confidence            4679999999999888876 23333     3344789999999999999998 99998653    2532         22


Q ss_pred             HHH--------HHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCC--Cceeccc
Q 012112          230 QMW--------EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG--YRHYEIS  299 (471)
Q Consensus       230 e~~--------~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~G--y~~yeis  299 (471)
                      +.+        .+.++.+.+.+.. +..+..-.|...  .-....|.  ....+...+++..+.+..++..  -...-+.
T Consensus       103 ~~~~~~~~~yt~~vl~~l~~~g~~-~~~v~vGNEi~~--g~~w~~g~--~~~~~~~~~l~~~~~~avR~~~~~p~~~v~i  177 (332)
T 1hjs_A          103 DNLSWKLYNYTLDAANKLQNAGIQ-PTIVSIGNEIRA--GLLWPTGR--TENWANIARLLHSAAWGIKDSSLSPKPKIMI  177 (332)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCC-CSEEEESSSGGG--EETBTTEE--TTCHHHHHHHHHHHHHHHHTSCCSSCCEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCC-CCEEEEeecccc--cccCcCCC--ccCHHHHHHHHHHHHHHHHHhccCCCCeEEE
Confidence            222        2344454444422 222222222110  00000121  1356778888998888888776  5545566


Q ss_pred             cccCCC
Q 012112          300 SYGEDG  305 (471)
Q Consensus       300 ~fa~~g  305 (471)
                      +++.++
T Consensus       178 h~~~~~  183 (332)
T 1hjs_A          178 HLDNGW  183 (332)
T ss_dssp             EESCTT
T ss_pred             EeCCcc
Confidence            666653

>1fob_A Beta-1,4-galactanase; B/A barrel, glycosyl hydrolase, family 53, CLAN GH-A; 1.80A {Aspergillus aculeatus} SCOP: c.1.8.3 PDB: 1fhl_A

Probab=88.36  E-value=4.7  Score=39.53  Aligned_cols=130  Identities=17%  Similarity=0.135  Sum_probs=77.4

Q ss_pred             CHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecC----CCC----------C
Q 012112          162 DARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISS----LPH----------Q  227 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~G----lPg----------q  227 (471)
                      ..+.++.|+++|+|.|-+.|. .++.     +-..+.+.+.+.++.++++|++ |-+||-++    -|+          .
T Consensus        29 ~~~~~~ilk~~G~n~vRlri~-v~P~-----~g~~d~~~~~~~~~~ak~~Gl~-v~ld~hysd~wadP~~q~~p~~W~~~  101 (334)
T 1fob_A           29 TQALETILADAGINSIRQRVW-VNPS-----DGSYDLDYNLELAKRVKAAGMS-LYLDLHLSDTWADPSDQTTPSGWSTT  101 (334)
T ss_dssp             BCCHHHHHHHHTCCEEEEEEC-SCCT-----TCTTCHHHHHHHHHHHHHTTCE-EEEEECCSSSCCBTTBCBCCTTSCSS
T ss_pred             CchHHHHHHHcCCCEEEEEEE-ECCC-----CCccCHHHHHHHHHHHHHCCCE-EEEEeccCCCCCCcccccCccccccC
Confidence            356799999999998888763 2222     2235789999999999999998 99998762    243          2


Q ss_pred             CHHHHH--------HHHHHHHhCC--CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCC--Cce
Q 012112          228 TPQMWE--------ESLRRTVGAQ--PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG--YRH  295 (471)
Q Consensus       228 T~e~~~--------~~l~~~~~l~--p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~G--y~~  295 (471)
                      +.+++.        ..++.+.+.+  |+.+++-.   |+..  .-....|..  ...+..++++..+.+..++..  -..
T Consensus       102 ~~~~~~~~~~~yt~~v~~~l~~~g~~v~~v~vGN---E~~~--G~lwp~g~~--~~~~~l~~~~~~a~~avr~~~~~p~~  174 (334)
T 1fob_A          102 DLGTLKWQLYNYTLEVCNTFAENDIDIEIISIGN---EIRA--GLLWPLGET--SSYSNIGALLHSGAWGVKDSNLATTP  174 (334)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHTTCCCSEEEESS---SGGG--CSSBTTTST--TCHHHHHHHHHHHHHHHHTSCCSSCC
T ss_pred             ChHHHHHHHHHHHHHHHHHHHhCCCCCCEEEEee---cCcc--cccCCCCcc--hhHHHHHHHHHHHHHHHHHhccCCCC
Confidence            443433        2333334433  44443322   2211  001112222  245678888888888888865  443


Q ss_pred             eccccccCCC
Q 012112          296 YEISSYGEDG  305 (471)
Q Consensus       296 yeis~fa~~g  305 (471)
                      .-+.+++.++
T Consensus       175 ~v~~h~~~~~  184 (334)
T 1fob_A          175 KIMIHLDDGW  184 (334)
T ss_dssp             EEEEEESCTT
T ss_pred             eEEEEcCCcC
Confidence            3345666543

>1aj0_A DHPS, dihydropteroate synthase; antibiotic, resistance, transferase, folate, biosynthesis; HET: PH2 SAN; 2.00A {Escherichia coli} SCOP: c.1.21.1 PDB: 1aj2_A* 1ajz_A 3tyz_A* 3tyu_A* 3tzf_A* 3tzn_A

Probab=88.22  E-value=3.1  Score=39.96  Aligned_cols=118  Identities=16%  Similarity=0.203  Sum_probs=74.4

Q ss_pred             eeEEEEcC-CC-CCC--CC-HHHHHHHH---HHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEE-EEccCCCC
Q 012112          115 LETVFFGG-GT-PSL--VP-PRFVSSIL---DTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRV-SLGVQAFQ  185 (471)
Q Consensus       115 v~~i~fGG-GT-ps~--l~-~~~l~~ll---~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvnrv-siGvQS~~  185 (471)
                      .+-|-+|| +| |..  .+ .++++++.   +.+++.+    +..+++.    +...+.++.--++|..-| ++.-. .+
T Consensus        52 AdiIDIGgestrPga~~v~~~eE~~rv~pvi~~l~~~~----~~piSID----T~~~~va~aAl~aGa~iINdvsg~-~d  122 (282)
T 1aj0_A           52 ATIIDVGGESTRPGAAEVSVEEELQRVIPVVEAIAQRF----EVWISVD----TSKPEVIRESAKVGAHIINDIRSL-SE  122 (282)
T ss_dssp             CSEEEEESSCCSTTCCCCCHHHHHHHHHHHHHHHHHHC----CCEEEEE----CCCHHHHHHHHHTTCCEEEETTTT-CS
T ss_pred             CCEEEECCCcCCCCCCcCCHHHHHHHHHHHHHHHHhhc----CCeEEEe----CCCHHHHHHHHHcCCCEEEECCCC-CC
Confidence            46677888 66 541  12 45665555   4444443    3456654    567777877777786554 33333 56


Q ss_pred             HHHHHHc-----------CC--CCC--------------HHHHHHHHHHHHHcCCC--eeEeeeecCCCCCCHHHHHHHH
Q 012112          186 DELLKSC-----------GR--AHG--------------LKEVYEAIEIVKLCGVE--NWSLDLISSLPHQTPQMWEESL  236 (471)
Q Consensus       186 d~~L~~l-----------~R--~~t--------------~~~~~~ai~~~~~~G~~--~v~~DlI~GlPgqT~e~~~~~l  236 (471)
                      +++++.+           .+  +.+              .+...+.++.+.++|++  +|-+|--+|+ +.|.++-.+.|
T Consensus       123 ~~~~~~~a~~~~~vVlmh~~G~p~tm~~~~~y~d~~~ev~~~l~~~i~~a~~~Gi~~~~IilDPg~gf-~k~~~~n~~ll  201 (282)
T 1aj0_A          123 PGALEAAAETGLPVCLMHMQGNPKTMQEAPKYDDVFAEVNRYFIEQIARCEQAGIAKEKLLLDPGFGF-GKNLSHNYSLL  201 (282)
T ss_dssp             TTHHHHHHHHTCCEEEECCSSCTTCCSCCCCCSCHHHHHHHHHHHHHHHHHHTTCCGGGEEEECCTTS-SCCHHHHHHHH
T ss_pred             HHHHHHHHHhCCeEEEEccCCCCccccccCccchHHHHHHHHHHHHHHHHHHcCCChhhEEEeCCCCc-ccCHHHHHHHH
Confidence            6666541           12  122              56677888889999998  7999999998 77887666666


Q ss_pred             HHHHhC
Q 012112          237 RRTVGA  242 (471)
Q Consensus       237 ~~~~~l  242 (471)
                      +.+.++
T Consensus       202 ~~l~~~  207 (282)
T 1aj0_A          202 ARLAEF  207 (282)
T ss_dssp             HTGGGG
T ss_pred             HHHHHH
Confidence            655544

>3hrs_A Metalloregulator SCAR; DTXR/MNTR family member, transcription; 2.70A {Streptococcus gordonii} PDB: 3hrt_A 3hru_A

Probab=88.15  E-value=2.3  Score=38.96  Aligned_cols=57  Identities=16%  Similarity=0.163  Sum_probs=46.1

Q ss_pred             ccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHH
Q 012112          381 TARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNE  460 (471)
Q Consensus       381 ~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~  460 (471)
                      ...++...++++++|.+.. .....+++|.++||+.....                        ..+.|| ++|+.++..
T Consensus        17 ~~~~~~~~~lA~~l~vs~~-tvs~~l~~Le~~GlV~r~~~------------------------~~i~LT-~~G~~~~~~   70 (214)
T 3hrs_A           17 RHNKITNKEIAQLMQVSPP-AVTEMMKKLLAEELLIKDKK------------------------AGYLLT-DLGLKLVSD   70 (214)
T ss_dssp             SCSCCCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEETT------------------------TEEEEC-HHHHHHHHH
T ss_pred             cCCCcCHHHHHHHHCCChh-HHHHHHHHHHHCCCEEEecC------------------------CCeEEC-HHHHHHHHH
Confidence            3567899999999999864 57789999999999987542                        158997 999999988


Q ss_pred             HHH
Q 012112          461 LIS  463 (471)
Q Consensus       461 i~~  463 (471)
                      +..
T Consensus        71 ~~~   73 (214)
T 3hrs_A           71 LYR   73 (214)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>2eth_A Transcriptional regulator, putative, MAR family; MARR family, structural genomics, joint center for structura genomics, JCSG; 2.30A {Thermotoga maritima} SCOP: a.4.5.28

Probab=88.03  E-value=1.4  Score=37.53  Aligned_cols=71  Identities=14%  Similarity=0.121  Sum_probs=52.1

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++.+.+|.+-. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        48 ~iL~~l~~~~~~t~~ela~~l~is~~-tvs~~l~~Le~~Gli~r~~~~------------------~d~R~~~~~lT-~~  107 (154)
T 2eth_A           48 YAFLYVALFGPKKMKEIAEFLSTTKS-NVTNVVDSLEKRGLVVREMDP------------------VDRRTYRVVLT-EK  107 (154)
T ss_dssp             HHHHHHHHHCCBCHHHHHHHTTSCHH-HHHHHHHHHHHTTSEEEEECT------------------TTSSCEEEEEC-HH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeeCCC------------------CCcceeEEEEC-HH
Confidence            34445555568999999999999854 567889999999999875311                  12344478997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus       108 G~~~~~~~~~~  118 (154)
T 2eth_A          108 GKEIFGEILSN  118 (154)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998876443

>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A*

Probab=88.02  E-value=1.2  Score=36.91  Aligned_cols=71  Identities=13%  Similarity=0.162  Sum_probs=51.7

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++.+..|.+.. .+...++.|++.|++....+.                  .+.|.-++.|| ++
T Consensus        33 ~iL~~l~~~~~~~~~ela~~l~~s~~-tvs~~l~~L~~~glv~~~~~~------------------~d~R~~~~~lT-~~   92 (138)
T 3bpv_A           33 ACLLRIHREPGIKQDELATFFHVDKG-TIARTLRRLEESGFIEREQDP------------------ENRRRYILEVT-RR   92 (138)
T ss_dssp             HHHHHHHHSTTCBHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEEET------------------TEEEEEEEEEC-HH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeecCC------------------CCceeEEeeEC-Hh
Confidence            34445555678999999999999854 467789999999999864211                  12334468997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus        93 G~~~~~~~~~~  103 (138)
T 3bpv_A           93 GEEIIPLILKV  103 (138)
T ss_dssp             HHHTHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99988776443

>2nnn_A Probable transcriptional regulator; structural genomics, PSI-2, protein structure initiative, M center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=87.92  E-value=1  Score=37.32  Aligned_cols=78  Identities=10%  Similarity=0.038  Sum_probs=54.6

Q ss_pred             cCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccc
Q 012112          364 HIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNR  443 (471)
Q Consensus       364 ~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~  443 (471)
                      .++..+   ..++..|....++...++.+.+|.+.. .+...++.|++.||+....+.                  .+.|
T Consensus        35 ~l~~~~---~~iL~~l~~~~~~t~~ela~~l~~~~~-tvs~~l~~L~~~glv~r~~~~------------------~d~R   92 (140)
T 2nnn_A           35 GLTPTQ---WAALVRLGETGPCPQNQLGRLTAMDAA-TIKGVVERLDKRGLIQRSADP------------------DDGR   92 (140)
T ss_dssp             CCCHHH---HHHHHHHHHHSSBCHHHHHHHTTCCHH-HHHHHHHHHHHTTCEEEEEET------------------TEEE
T ss_pred             CCCHHH---HHHHHHHHHcCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEeeCCC------------------CCCC
Confidence            355543   234445555568999999999999864 467789999999999864211                  1233


Q ss_pred             cceeeecCchhhchHHHHHHH
Q 012112          444 LAYFRLSDPEGFLLSNELISH  464 (471)
Q Consensus       444 ~~~~~lt~~~G~~~~n~i~~~  464 (471)
                      .-++.|| ++|..+.+.+...
T Consensus        93 ~~~~~lT-~~G~~~~~~~~~~  112 (140)
T 2nnn_A           93 RLLVSLS-PAGRAELEAGLAA  112 (140)
T ss_dssp             EEEEEEC-HHHHHHHHHHHHH
T ss_pred             eeeeEEC-HhHHHHHHHHHHH
Confidence            3468997 9999988776443

>3cjn_A Transcriptional regulator, MARR family; silicibacter pomeroy structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3}

Probab=87.56  E-value=1.3  Score=38.08  Aligned_cols=71  Identities=18%  Similarity=0.166  Sum_probs=51.8

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++.+.+|.+-. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        56 ~iL~~l~~~~~~t~~ela~~l~is~~-tvs~~l~~Le~~Gli~r~~~~------------------~d~R~~~~~lT-~~  115 (162)
T 3cjn_A           56 RALAILSAKDGLPIGTLGIFAVVEQS-TLSRALDGLQADGLVRREVDS------------------DDQRSSRVYLT-PA  115 (162)
T ss_dssp             HHHHHHHHSCSEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEEC--------------------CCSSEEEEEC-HH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHCCChh-HHHHHHHHHHHCCCEEecCCC------------------CCCCeeEEEEC-HH
Confidence            34445555678999999999999854 467889999999999865311                  12344578997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus       116 G~~~~~~~~~~  126 (162)
T 3cjn_A          116 GRAVYDRLWPH  126 (162)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99988876444

>2nyx_A Probable transcriptional regulatory protein, RV14; alpha/beta, structural genomics, PSI-2; 2.30A {Mycobacterium tuberculosis}

Probab=87.37  E-value=1.2  Score=38.71  Aligned_cols=70  Identities=10%  Similarity=0.119  Sum_probs=51.1

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....++...++.+..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++|
T Consensus        50 iL~~L~~~~~~t~~eLa~~l~is~~-tvs~~l~~Le~~GlV~r~~~~------------------~DrR~~~~~LT-~~G  109 (168)
T 2nyx_A           50 TLVILSNHGPINLATLATLLGVQPS-ATGRMVDRLVGAELIDRLPHP------------------TSRRELLAALT-KRG  109 (168)
T ss_dssp             HHHHHHHHCSEEHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEEECS------------------SCSSCEEEEEC-HHH
T ss_pred             HHHHHHHcCCCCHHHHHHHhCCCHH-HHHHHHHHHHHCCCEEeccCC------------------CCCCeeEEEEC-HHH
Confidence            4444445568999999999999864 467789999999999864321                  12344578997 999


Q ss_pred             hchHHHHHHH
Q 012112          455 FLLSNELISH  464 (471)
Q Consensus       455 ~~~~n~i~~~  464 (471)
                      ..+.+.+...
T Consensus       110 ~~~~~~~~~~  119 (168)
T 2nyx_A          110 RDVVRQVTEH  119 (168)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9988765433

>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28

Probab=87.11  E-value=1.3  Score=37.07  Aligned_cols=71  Identities=10%  Similarity=0.073  Sum_probs=51.4

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++.+.+|.+.. .+...++.|++.|+|....+.                  .+.|.-++.|| ++
T Consensus        37 ~iL~~l~~~~~~~~~~la~~l~~s~~-tvs~~l~~L~~~glv~r~~~~------------------~d~r~~~~~lT-~~   96 (145)
T 2a61_A           37 DILQKIYFEGPKRPGELSVLLGVAKS-TVTGLVKRLEADGYLTRTPDP------------------ADRRAYFLVIT-RK   96 (145)
T ss_dssp             HHHHHHHHHCCBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEEET------------------TEEEEEEEEEC-HH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHCCCch-hHHHHHHHHHHCCCeeecCCC------------------CCCceEEEEEC-HH
Confidence            34444545678999999999999864 567889999999999875211                  12334468997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus        97 G~~~~~~~~~~  107 (145)
T 2a61_A           97 GEEVIEKVIER  107 (145)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99988766443

>3ivs_A Homocitrate synthase, mitochondrial; TIM barrel, metalloprotein, transferase, claisen condensatio acid biosynthesis; 2.24A {Schizosaccharomyces pombe} PDB: 3ivt_A* 3ivu_A* 3mi3_A*

Probab=86.93  E-value=5  Score=40.78  Aligned_cols=125  Identities=15%  Similarity=0.126  Sum_probs=77.8

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGR  194 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R  194 (471)
                      ++.|=.|  .|.. ++...+ .++.+.+. +  ....+..-++|   +.+-++...++|+++|.+-+=+-+-.....+++
T Consensus        75 v~~IEvG--~P~a-sp~d~~-~~~~i~~~-~--~~~~v~~~~r~---~~~di~~A~~aG~~~V~i~~s~Sd~~~~~~l~~  144 (423)
T 3ivs_A           75 VDYIELT--SPVA-SEQSRQ-DCEAICKL-G--LKCKILTHIRC---HMDDARVAVETGVDGVDVVIGTSQYLRKYSHGK  144 (423)
T ss_dssp             CSEEEEC--CTTS-CHHHHH-HHHHHHTS-C--CSSEEEEEEES---CHHHHHHHHHTTCSEEEEEEEC-----------
T ss_pred             CCEEEEe--eccc-CHHHHH-HHHHHHhc-C--CCCEEEEeecc---ChhhHHHHHHcCCCEEEEEeeccHHHHHHHcCC
Confidence            5555553  5754 554433 33444332 2  23456555555   466678888999999888765544333344554


Q ss_pred             CC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          195 AH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       195 ~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      ..  ..+.+.++++.+++.|.. |.+++.-++ .-+++.+.+.++.+.+.+++.|++-.
T Consensus       145 s~~e~l~~~~~~v~~ak~~G~~-V~~~~eda~-r~d~~~~~~v~~~~~~~Ga~~i~l~D  201 (423)
T 3ivs_A          145 DMTYIIDSATEVINFVKSKGIE-VRFSSEDSF-RSDLVDLLSLYKAVDKIGVNRVGIAD  201 (423)
T ss_dssp             --CHHHHHHHHHHHHHHTTTCE-EEEEEESGG-GSCHHHHHHHHHHHHHHCCSEEEEEE
T ss_pred             CHHHHHHHHHHHHHHHHHCCCE-EEEEEccCc-CCCHHHHHHHHHHHHHhCCCccccCC
Confidence            33  467788899999999997 888877665 45788888999999999998776544

>3ewb_X 2-isopropylmalate synthase; LEUA, structural genomics, unknown function, amino-acid biosynthesis; 2.10A {Listeria monocytogenes str}

Probab=86.91  E-value=8.4  Score=37.05  Aligned_cols=128  Identities=10%  Similarity=0.049  Sum_probs=81.5

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCC-HHHHHHHHHCCCCEEEEccCCCCHHHHHHcC
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFD-ARKMEELMDLGVNRVSLGVQAFQDELLKSCG  193 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~-~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~  193 (471)
                      ++.|=.|.  |.. ++...+.+ ..+.+..   ++..++.-++...-+ +..++.++.+|+.+|.+-+=+-+-...+.++
T Consensus        41 v~~IE~g~--p~~-~~~d~e~v-~~i~~~~---~~~~i~~l~~~~~~di~~a~~~~~~ag~~~v~i~~~~Sd~~~~~nl~  113 (293)
T 3ewb_X           41 IDVIEAGF--PIS-SPGDFECV-KAIAKAI---KHCSVTGLARCVEGDIDRAEEALKDAVSPQIHIFLATSDVHMEYKLK  113 (293)
T ss_dssp             CSEEEEEC--GGG-CHHHHHHH-HHHHHHC---CSSEEEEEEESSHHHHHHHHHHHTTCSSEEEEEEEECSHHHHHHTTC
T ss_pred             CCEEEEeC--CCC-CccHHHHH-HHHHHhc---CCCEEEEEecCCHHHHHHHHHHHhhcCCCEEEEEecCcHHHHHHHhC
Confidence            55555553  543 55555553 4444432   456777666431000 2233444558999999877554445556677


Q ss_pred             CCC--CHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          194 RAH--GLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       194 R~~--t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      +..  ..+.+.++++.+++.|.. |.+++..+ +.-+++.+.+.++.+.+++++.|++-.
T Consensus       114 ~s~~e~l~~~~~~v~~a~~~g~~-v~~~~~d~-~~~~~~~~~~~~~~~~~~G~~~i~l~D  171 (293)
T 3ewb_X          114 MSRAEVLASIKHHISYARQKFDV-VQFSPEDA-TRSDRAFLIEAVQTAIDAGATVINIPD  171 (293)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCSC-EEEEEETG-GGSCHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CCHHHHHHHHHHHHHHHHhCCCE-EEEEeccC-CCCCHHHHHHHHHHHHHcCCCEEEecC
Confidence            653  456678888889999987 77776654 235778889999999999999776553

>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomic protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=86.78  E-value=1  Score=37.54  Aligned_cols=71  Identities=10%  Similarity=0.033  Sum_probs=51.7

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++++.+|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        40 ~iL~~l~~~~~~t~~ela~~l~~s~~-~vs~~l~~Le~~glv~r~~~~------------------~d~R~~~~~lT-~~   99 (142)
T 2fbi_A           40 RVIRILRQQGEMESYQLANQACILRP-SMTGVLARLERDGIVRRWKAP------------------KDQRRVYVNLT-EK   99 (142)
T ss_dssp             HHHHHHHHHCSEEHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEEEEET------------------TEEEEEEEEEC-HH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHCCCHh-HHHHHHHHHHHCCCEEeecCC------------------CCCCeeEEEEC-HH
Confidence            34455555678999999999999854 567889999999999865211                  12344468997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus       100 G~~~~~~~~~~  110 (142)
T 2fbi_A          100 GQQCFVSMSGD  110 (142)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998776443

>1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix motif, structural genom transcription; 2.05A {Pyrococcus horikoshii} SCOP: a.4.5.28

Probab=86.70  E-value=1.4  Score=34.31  Aligned_cols=73  Identities=10%  Similarity=0.071  Sum_probs=51.2

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....++...++++.+|.+.. .+...++.|++.|++......                  .+.|.-+++|| ++|
T Consensus        21 iL~~L~~~~~~~~~ela~~l~is~~-tvs~~l~~L~~~gli~~~~~~------------------~~~r~~~~~lt-~~g   80 (100)
T 1ub9_A           21 IMIFLLPRRKAPFSQIQKVLDLTPG-NLDSHIRVLERNGLVKTYKVI------------------ADRPRTVVEIT-DFG   80 (100)
T ss_dssp             HHHHHHHHSEEEHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEEEEEC------------------SSSCEEEEEEC-HHH
T ss_pred             HHHHHHhcCCcCHHHHHHHHCcCHH-HHHHHHHHHHHCCCEEEEecC------------------CCcceEEEEEC-HHH
Confidence            3444444567899999999999865 467789999999999853210                  01233468997 999


Q ss_pred             hchHHHHHHHHHh
Q 012112          455 FLLSNELISHAFG  467 (471)
Q Consensus       455 ~~~~n~i~~~~~~  467 (471)
                      ......++..+-.
T Consensus        81 ~~~~~~~~~~~~~   93 (100)
T 1ub9_A           81 MEEAKRFLSSLKA   93 (100)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8877777665544

>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris}

Probab=86.61  E-value=1.4  Score=37.71  Aligned_cols=70  Identities=14%  Similarity=0.158  Sum_probs=48.4

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....++...++.+..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++|
T Consensus        54 iL~~l~~~~~~t~~ela~~l~is~~-tvs~~l~~Le~~glv~r~~~~------------------~d~R~~~~~lT-~~G  113 (162)
T 2fa5_A           54 VITILALYPGSSASEVSDRTAMDKV-AVSRAVARLLERGFIRRETHG------------------DDRRRSMLALS-PAG  113 (162)
T ss_dssp             HHHHHHHSTTCCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEC---------------------------CCCEEC-HHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEeeecCC------------------CCCCeeEEEEC-HHH
Confidence            4444555678999999999999864 467889999999999864210                  12344578997 999


Q ss_pred             hchHHHHHHH
Q 012112          455 FLLSNELISH  464 (471)
Q Consensus       455 ~~~~n~i~~~  464 (471)
                      ..+.+.+...
T Consensus       114 ~~~~~~~~~~  123 (162)
T 2fa5_A          114 RQVYETVAPL  123 (162)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9988765443

>1on2_A Transcriptional regulator MNTR; helix-turn-helix, DNA-binding protein, metalloregulatory protein; 1.61A {Bacillus subtilis} SCOP: a.4.5.24 a.76.1.1 PDB: 2ev0_A 1on1_A 2ev5_A 2ev6_A* 2f5c_A 2f5d_A 2f5e_A 2f5f_A 2hyf_A* 2hyg_D 3r60_A* 3r61_A*

Probab=86.55  E-value=2.9  Score=35.03  Aligned_cols=67  Identities=9%  Similarity=0.108  Sum_probs=48.8

Q ss_pred             HHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeec
Q 012112          371 AMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLS  450 (471)
Q Consensus       371 ~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt  450 (471)
                      ..+.+..-+....++...++++.+|.+.. .+...++.|++.|+|....+                        ..++||
T Consensus         9 ~L~~i~~l~~~~~~~~~~ela~~l~vs~~-tvs~~l~~Le~~Glv~r~~~------------------------~~~~LT   63 (142)
T 1on2_A            9 YIEQIYMLIEEKGYARVSDIAEALAVHPS-SVTKMVQKLDKDEYLIYEKY------------------------RGLVLT   63 (142)
T ss_dssp             HHHHHHHHHHHHSSCCHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEETT------------------------TEEEEC
T ss_pred             HHHHHHHHHhhcCCCCHHHHHHHhCCCHH-HHHHHHHHHHHCCCEEEeeC------------------------ceEEEc
Confidence            33444433344568999999999999854 46778999999999986432                        257896


Q ss_pred             CchhhchHHHHHH
Q 012112          451 DPEGFLLSNELIS  463 (471)
Q Consensus       451 ~~~G~~~~n~i~~  463 (471)
                       ++|..++..+..
T Consensus        64 -~~g~~~~~~~~~   75 (142)
T 1on2_A           64 -SKGKKIGKRLVY   75 (142)
T ss_dssp             -HHHHHHHHHHHH
T ss_pred             -hhHHHHHHHHHH
Confidence             999988876543

>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structu genomics, protein structure initiative, midwest center for structural genomics; HET: GOL; 2.00A {Rhodococcus jostii}

Probab=86.50  E-value=1.1  Score=37.87  Aligned_cols=71  Identities=17%  Similarity=0.175  Sum_probs=47.2

Q ss_pred             HHHhcc-ccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          375 LMLSFR-TARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       375 ~~~~Lr-~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      ++..|. ...++...++++..|.+-. .+...++.|++.|||....+.                  .+.|.-.+.|| ++
T Consensus        44 vL~~l~~~~~~~t~~eLa~~l~i~~~-tvs~~l~~Le~~Glv~r~~~~------------------~D~R~~~~~LT-~~  103 (150)
T 3fm5_A           44 VLVLACEQAEGVNQRGVAATMGLDPS-QIVGLVDELEERGLVVRTLDP------------------SDRRNKLIAAT-EE  103 (150)
T ss_dssp             HHHHHHHSTTCCCSHHHHHHHTCCHH-HHHHHHHHHHTTTSEEC-----------------------------CEEC-HH
T ss_pred             HHHHHHhCCCCcCHHHHHHHHCCCHh-HHHHHHHHHHHCCCEEeeCCc------------------cccchheeeEC-HH
Confidence            344443 3347899999999999864 567889999999999864211                  12344468997 99


Q ss_pred             hhchHHHHHHHH
Q 012112          454 GFLLSNELISHA  465 (471)
Q Consensus       454 G~~~~n~i~~~~  465 (471)
                      |..+.+.+...+
T Consensus       104 G~~~~~~~~~~~  115 (150)
T 3fm5_A          104 GRRLRDDAKARV  115 (150)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998875443

>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis}

Probab=86.13  E-value=2.2  Score=35.38  Aligned_cols=65  Identities=11%  Similarity=0.024  Sum_probs=48.5

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++.+..|.+.. .+...++.|++.||+....+.                  .+.|.-++.|| ++
T Consensus        35 ~iL~~l~~~~~~~~~ela~~l~is~~-~vs~~l~~L~~~gli~~~~~~------------------~d~r~~~~~lT-~~   94 (142)
T 3bdd_A           35 SILQTLLKDAPLHQLALQERLQIDRA-AVTRHLKLLEESGYIIRKRNP------------------DNQREVLVWPT-EQ   94 (142)
T ss_dssp             HHHHHHHHHCSBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECS------------------SSTTCEEEEEC-HH
T ss_pred             HHHHHHHhCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEecCCC------------------CCCCeeEEEEC-HH
Confidence            34555555678999999999999864 467789999999999865321                  12344478997 99


Q ss_pred             hhchH
Q 012112          454 GFLLS  458 (471)
Q Consensus       454 G~~~~  458 (471)
                      |..+.
T Consensus        95 G~~~~   99 (142)
T 3bdd_A           95 AREAL   99 (142)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99887

>1nvm_A HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered tunnel, substrate channeling; HET: NAD; 1.70A {Pseudomonas SP} SCOP: a.5.7.1 c.1.10.5

Probab=86.08  E-value=3.7  Score=40.53  Aligned_cols=100  Identities=13%  Similarity=0.129  Sum_probs=74.8

Q ss_pred             HHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCC
Q 012112          135 SILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       135 ~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                      +.++.+++..   ++..+.+-++|+.-..+.++...++|++.+.+.. +.++           .+.+.+.++.+++.|+.
T Consensus        71 e~l~~i~~~~---~~~~i~~l~~p~~~~~~~i~~a~~aGvd~v~I~~-~~s~-----------~~~~~~~i~~ak~~G~~  135 (345)
T 1nvm_A           71 EYIEAVAGEI---SHAQIATLLLPGIGSVHDLKNAYQAGARVVRVAT-HCTE-----------ADVSKQHIEYARNLGMD  135 (345)
T ss_dssp             HHHHHHHTTC---SSSEEEEEECBTTBCHHHHHHHHHHTCCEEEEEE-ETTC-----------GGGGHHHHHHHHHHTCE
T ss_pred             HHHHHHHhhC---CCCEEEEEecCCcccHHHHHHHHhCCcCEEEEEE-eccH-----------HHHHHHHHHHHHHCCCE
Confidence            3455555432   4567877767876678999999999999888864 3332           25678889999999997


Q ss_pred             eeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          215 NWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       215 ~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                       +...++-. |.-+++.+.+.++.+.+++++.|++-.
T Consensus       136 -v~~~~~~a-~~~~~e~~~~ia~~~~~~Ga~~i~l~D  170 (345)
T 1nvm_A          136 -TVGFLMMS-HMIPAEKLAEQGKLMESYGATCIYMAD  170 (345)
T ss_dssp             -EEEEEEST-TSSCHHHHHHHHHHHHHHTCSEEEEEC
T ss_pred             -EEEEEEeC-CCCCHHHHHHHHHHHHHCCCCEEEECC
Confidence             77776544 677889999999999999998777654

>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1, putative MARR-like transcription regulator, MAR structural genomics; 2.38A {Bacillus cereus}

Probab=85.73  E-value=1.1  Score=37.13  Aligned_cols=70  Identities=13%  Similarity=0.166  Sum_probs=50.6

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....++...++++..|.+.. .+...++.|++.||+....+.                  .+.|.-++.|| ++|
T Consensus        38 iL~~l~~~~~~~~~ela~~l~~~~~-tvs~~l~~L~~~gli~r~~~~------------------~d~r~~~~~lT-~~G   97 (139)
T 3bja_A           38 VIQVLAKSGKVSMSKLIENMGCVPS-NMTTMIQRMKRDGYVMTEKNP------------------NDQRETLVYLT-KKG   97 (139)
T ss_dssp             HHHHHHHSCSEEHHHHHHHCSSCCT-THHHHHHHHHHTTSEEEEECS------------------SCTTCEEEEEC-HHH
T ss_pred             HHHHHHHcCCcCHHHHHHHHCCChh-HHHHHHHHHHHCCCeeeccCC------------------CCCceeEEEEC-HHH
Confidence            4444555678999999999998754 456789999999999864211                  12344478997 999


Q ss_pred             hchHHHHHHH
Q 012112          455 FLLSNELISH  464 (471)
Q Consensus       455 ~~~~n~i~~~  464 (471)
                      ..+...+...
T Consensus        98 ~~~~~~~~~~  107 (139)
T 3bja_A           98 EETKKQVDVQ  107 (139)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998776544

>3f3x_A Transcriptional regulator, MARR family, putative; DNA binding protein, DNA-binding, transcription regulation; 1.90A {Sulfolobus solfataricus}

Probab=85.44  E-value=1.4  Score=36.95  Aligned_cols=71  Identities=10%  Similarity=0.102  Sum_probs=51.5

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....+ ...++++..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        41 ~iL~~l~~~~~-~~~~la~~l~~~~~-tvs~~l~~Le~~Glv~r~~~~------------------~D~R~~~~~LT-~~   99 (144)
T 3f3x_A           41 SILKATSEEPR-SMVYLANRYFVTQS-AITAAVDKLEAKGLVRRIRDS------------------KDRRIVIVEIT-PK   99 (144)
T ss_dssp             HHHHHHHHSCE-EHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEEET------------------TEEEEEEEEEC-HH
T ss_pred             HHHHHHHHCCC-CHHHHHHHHCCChh-HHHHHHHHHHHCCCEEeccCC------------------CCCceEEEEEC-HH
Confidence            34445555566 89999999999865 467899999999999865311                  12344478997 99


Q ss_pred             hhchHHHHHHHH
Q 012112          454 GFLLSNELISHA  465 (471)
Q Consensus       454 G~~~~n~i~~~~  465 (471)
                      |..+...+...+
T Consensus       100 G~~~~~~~~~~~  111 (144)
T 3f3x_A          100 GRQVLLEANEVL  111 (144)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999988765544

>3jw4_A Transcriptional regulator, MARR/EMRR family; DNA-binding protein, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Clostridium acetobutylicum} SCOP: a.4.5.0

Probab=85.43  E-value=0.48  Score=40.20  Aligned_cols=72  Identities=14%  Similarity=0.088  Sum_probs=45.0

Q ss_pred             HHHHhcccc--CCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecC
Q 012112          374 VLMLSFRTA--RGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSD  451 (471)
Q Consensus       374 ~~~~~Lr~~--~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~  451 (471)
                      .++..|...  .|+...++++..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| 
T Consensus        45 ~vL~~l~~~~~~~~t~~eLa~~l~~~~~-~vs~~l~~L~~~Glv~r~~~~------------------~DrR~~~~~LT-  104 (148)
T 3jw4_A           45 RMIGYIYENQESGIIQKDLAQFFGRRGA-SITSMLQGLEKKGYIERRIPE------------------NNARQKNIYVL-  104 (148)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHC-------CHHHHHHHHHHTTSBCCC--------------------------CCCCBC-
T ss_pred             HHHHHHHhCCCCCCCHHHHHHHHCCChh-HHHHHHHHHHHCCCEEeeCCC------------------CCchhheeeEC-
Confidence            344444444  78999999999988753 456789999999999754211                  12445578997 


Q ss_pred             chhhchHHHHHHHH
Q 012112          452 PEGFLLSNELISHA  465 (471)
Q Consensus       452 ~~G~~~~n~i~~~~  465 (471)
                      ++|..+.+.+...+
T Consensus       105 ~~G~~~~~~~~~~~  118 (148)
T 3jw4_A          105 PKGAALVEEFNNIF  118 (148)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999988765543

>4b8x_A SCO5413, possible MARR-transcriptional regulator; winged helix motif; HET: CME; 1.25A {Streptomyces coelicolor}

Probab=85.39  E-value=1.9  Score=36.69  Aligned_cols=63  Identities=11%  Similarity=0.097  Sum_probs=47.0

Q ss_pred             cCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHH
Q 012112          382 ARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNEL  461 (471)
Q Consensus       382 ~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i  461 (471)
                      ..++...++.+..|.+-. .+...++.|++.|||....+.                  .+.|.-.|.|| ++|..+.+.+
T Consensus        49 ~~~~t~~eLa~~l~~~~~-tvs~~v~~Le~~Glv~r~~~~------------------~DrR~~~l~LT-~~G~~~~~~~  108 (147)
T 4b8x_A           49 SGELPMSKIGERLMVHPT-SVTNTVDRLVRSGLVAKRPNP------------------NDGRGTLATIT-DKGREVVEAA  108 (147)
T ss_dssp             GGEEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECC----------------------CEEEEEC-HHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHCCCHH-HHHHHHHHHHhCCCEEEeecC------------------CcCceeEEEEC-HHHHHHHHHH
Confidence            445899999999999854 567889999999999865321                  13455579997 9999998876


Q ss_pred             HHH
Q 012112          462 ISH  464 (471)
Q Consensus       462 ~~~  464 (471)
                      ...
T Consensus       109 ~~~  111 (147)
T 4b8x_A          109 TRD  111 (147)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional regulator, transcription; 2.00A {Streptococcus pneumoniae}

Probab=85.22  E-value=2.3  Score=35.54  Aligned_cols=68  Identities=12%  Similarity=0.216  Sum_probs=47.6

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|.... +...++++.+|.+-. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        42 ~iL~~l~~~~-~t~~eLa~~l~~s~~-tvs~~l~~L~~~Glv~r~~~~------------------~d~R~~~~~lT-~~  100 (146)
T 3tgn_A           42 HILMLLSEES-LTNSELARRLNVSQA-AVTKAIKSLVKEGMLETSKDS------------------KDARVIFYQLT-DL  100 (146)
T ss_dssp             HHHHHHTTCC-CCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEC----------------------------CCEEC-GG
T ss_pred             HHHHHHHhCC-CCHHHHHHHHCCCHH-HHHHHHHHHHHCCCeEeccCC------------------CCCceeEEEEC-Hh
Confidence            4555555554 999999999999864 467899999999999864310                  12344578997 99


Q ss_pred             hhchHHHHH
Q 012112          454 GFLLSNELI  462 (471)
Q Consensus       454 G~~~~n~i~  462 (471)
                      |..+...+.
T Consensus       101 g~~~~~~~~  109 (146)
T 3tgn_A          101 ARPIAEEHH  109 (146)
T ss_dssp             GHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988776

>1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH MOT protein structure initiative, midwest center for structural genomics; 1.55A {Archaeoglobus fulgidus} SCOP: a.4.5.50

Probab=85.15  E-value=2.9  Score=32.76  Aligned_cols=70  Identities=11%  Similarity=0.063  Sum_probs=51.7

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....++...++.+.+|.+.. .+...++.|++.|+|....+                  . +.|..++.+| ++|
T Consensus        25 il~~l~~~~~~s~~ela~~l~is~~-tv~~~l~~L~~~glv~~~~~------------------~-~~r~~~~~~t-~~g   83 (109)
T 1sfx_A           25 IYSLLLERGGMRVSEIARELDLSAR-FVRDRLKVLLKRGFVRREIV------------------E-KGWVGYIYSA-EKP   83 (109)
T ss_dssp             HHHHHHHHCCBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEEE------------------E-SSSEEEEEEE-CCH
T ss_pred             HHHHHHHcCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEEEee------------------c-CCceEEEEec-CcH
Confidence            3334444578999999999999864 46788999999999986431                  1 3455678897 999


Q ss_pred             hchHHHHHHHH
Q 012112          455 FLLSNELISHA  465 (471)
Q Consensus       455 ~~~~n~i~~~~  465 (471)
                      ..+.+.+...+
T Consensus        84 ~~~~~~~~~~~   94 (109)
T 1sfx_A           84 EKVLKEFKSSI   94 (109)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99888765544

>1s3j_A YUSO protein; structural genomics, MARR transcriptional regulator family, PSI, protein structure initiative; HET: MSE; 2.25A {Bacillus subtilis} SCOP: a.4.5.28

Probab=84.97  E-value=1.7  Score=36.87  Aligned_cols=70  Identities=10%  Similarity=0.130  Sum_probs=51.0

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....++...++.+.+|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++|
T Consensus        42 iL~~l~~~~~~t~~ela~~l~~s~~-tvs~~l~~Le~~glv~r~~~~------------------~d~R~~~~~lT-~~G  101 (155)
T 1s3j_A           42 VLASLKKHGSLKVSEIAERMEVKPS-AVTLMADRLEQKNLIARTHNT------------------KDRRVIDLSLT-DEG  101 (155)
T ss_dssp             HHHHHHHHSEEEHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEEECS------------------SCTTSEEEEEC-HHH
T ss_pred             HHHHHHHcCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEeecCCC------------------CCCceEEEEEC-HHH
Confidence            3444444568999999999999854 567789999999999865321                  12344478997 999


Q ss_pred             hchHHHHHHH
Q 012112          455 FLLSNELISH  464 (471)
Q Consensus       455 ~~~~n~i~~~  464 (471)
                      ..+.+.+...
T Consensus       102 ~~~~~~~~~~  111 (155)
T 1s3j_A          102 DIKFEEVLAG  111 (155)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9988776443

>1xmk_A Double-stranded RNA-specific adenosine deaminase; winged helix-turn-helix, RNA editing, interferon, ADAR1, hydrolase; 0.97A {Homo sapiens} SCOP: a.4.5.19

Probab=84.80  E-value=2.7  Score=32.24  Aligned_cols=63  Identities=6%  Similarity=0.017  Sum_probs=49.9

Q ss_pred             HHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeec
Q 012112          371 AMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLS  450 (471)
Q Consensus       371 ~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt  450 (471)
                      ..+.|..-|....+....++++..|.+-.......|..|.++|+|...+.                     .|. .+.||
T Consensus        12 ~~~~IL~~Lk~~g~~ta~eiA~~Lgit~~~aVr~hL~~Le~eGlV~~~~~---------------------gRP-~w~LT   69 (79)
T 1xmk_A           12 IKEKICDYLFNVSDSSALNLAKNIGLTKARDINAVLIDMERQGDVYRQGT---------------------TPP-IWHLT   69 (79)
T ss_dssp             HHHHHHHHHHHTCCEEHHHHHHHHCGGGHHHHHHHHHHHHHTTSEEEECS---------------------SSC-EEEEC
T ss_pred             HHHHHHHHHHHcCCcCHHHHHHHcCCCcHHHHHHHHHHHHHCCCEEecCC---------------------CCC-CeEeC
Confidence            45566666788889999999999999986568899999999999986542                     233 68996


Q ss_pred             Cchhhc
Q 012112          451 DPEGFL  456 (471)
Q Consensus       451 ~~~G~~  456 (471)
                       ++|..
T Consensus        70 -~~g~~   74 (79)
T 1xmk_A           70 -DKKRE   74 (79)
T ss_dssp             -HHHHT
T ss_pred             -HhHHh
Confidence             88864

>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR) structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str}

Probab=84.68  E-value=1.3  Score=37.47  Aligned_cols=70  Identities=13%  Similarity=0.066  Sum_probs=50.5

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEE--ecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVIC--LDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~--~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      ++..|....++...++.+..|.+.. .+...++.|++.|||..  ..+.                  .+.|.-+++|| +
T Consensus        46 iL~~l~~~~~~t~~eLa~~l~~~~~-tvs~~l~~Le~~Glv~r~~~~~~------------------~d~R~~~~~LT-~  105 (154)
T 2qww_A           46 MINVIYSTPGISVADLTKRLIITGS-SAAANVDGLISLGLVVKLNKTIP------------------NDSMDLTLKLS-K  105 (154)
T ss_dssp             HHHHHHHSTTEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEESCC--C------------------TTCTTCEEEEC-H
T ss_pred             HHHHHHHCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEecCcCCC------------------CCCceeEeEEC-H
Confidence            4444455578999999999999854 56788999999999987  3211                  12344478997 9


Q ss_pred             hhhchHHHHHHH
Q 012112          453 EGFLLSNELISH  464 (471)
Q Consensus       453 ~G~~~~n~i~~~  464 (471)
                      +|..+.+.+...
T Consensus       106 ~G~~~~~~~~~~  117 (154)
T 2qww_A          106 KGEDLSKRSTAN  117 (154)
T ss_dssp             HHHHHHHHHHSC
T ss_pred             HHHHHHHHHHhh
Confidence            999887766543

>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding protein, HTH-type transcription regulators, structural genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus subtilis} SCOP: a.4.5.69

Probab=84.53  E-value=4  Score=32.70  Aligned_cols=65  Identities=11%  Similarity=0.011  Sum_probs=46.7

Q ss_pred             HHhccccCCCCHhhHHHHh-CCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          376 MLSFRTARGVDLKSFGETF-GCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       376 ~~~Lr~~~gi~~~~~~~~f-g~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      +..|. ..++...++.+.. |.+-. .+...++.|++.|+|......                  .+.|.-+++|| ++|
T Consensus        20 L~~L~-~~~~~~~eLa~~l~~is~~-tls~~L~~Le~~GlI~r~~~~------------------~d~r~~~y~LT-~~G   78 (107)
T 2hzt_A           20 LXHLT-HGKKRTSELKRLMPNITQK-MLTQQLRELEADGVINRIVYN------------------QVPPKVEYELS-EYG   78 (107)
T ss_dssp             HHHHT-TCCBCHHHHHHHCTTSCHH-HHHHHHHHHHHTTSEEEEEEC------------------SSSCEEEEEEC-TTG
T ss_pred             HHHHH-hCCCCHHHHHHHhcCCCHH-HHHHHHHHHHHCCCEEEeecC------------------CCCCeEEEEEC-ccH
Confidence            33444 4568999999998 88854 577899999999999864311                  12333468997 999


Q ss_pred             hchHHHH
Q 012112          455 FLLSNEL  461 (471)
Q Consensus       455 ~~~~n~i  461 (471)
                      ..+...+
T Consensus        79 ~~l~~~~   85 (107)
T 2hzt_A           79 RSLEGIL   85 (107)
T ss_dssp             GGGHHHH
T ss_pred             HHHHHHH
Confidence            9887654

>2dqw_A Dihydropteroate synthase; dimer, structural genomics; 1.65A {Thermus thermophilus} PDB: 2dza_A* 2dzb_A*

Probab=84.06  E-value=4.8  Score=38.86  Aligned_cols=120  Identities=15%  Similarity=0.102  Sum_probs=69.6

Q ss_pred             eeEEEEcC-----CCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEE-EEccCCCCHHH
Q 012112          115 LETVFFGG-----GTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRV-SLGVQAFQDEL  188 (471)
Q Consensus       115 v~~i~fGG-----GTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvnrv-siGvQS~~d~~  188 (471)
                      .+-|-+||     |.+-+-..+++++++..|+..-..  +..+++.    +.+.+.++.--++|..-| ++.-. .++++
T Consensus        66 AdIIDIGgeSTrPga~~v~~~eE~~Rv~pvI~~l~~~--~vpiSID----T~~~~Va~aAl~aGa~iINdVsg~-~d~~m  138 (294)
T 2dqw_A           66 ADILDLGAESTRPGAAPVPVEEEKRRLLPVLEAVLSL--GVPVSVD----TRKPEVAEEALKLGAHLLNDVTGL-RDERM  138 (294)
T ss_dssp             CSEEEEECC-----------CCHHHHHHHHHHHHHTT--CSCEEEE----CSCHHHHHHHHHHTCSEEECSSCS-CCHHH
T ss_pred             CCEEEECCCcCCCCCCCCCHHHHHHHHHHHHHHHHhC--CCeEEEE----CCCHHHHHHHHHhCCCEEEECCCC-CChHH
Confidence            46677887     222222235666666666554321  4456654    556666666666675433 22222 56666


Q ss_pred             HHHc----------C-C---CCC--------------HHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHH
Q 012112          189 LKSC----------G-R---AHG--------------LKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTV  240 (471)
Q Consensus       189 L~~l----------~-R---~~t--------------~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~  240 (471)
                      +..+          . +   ..+              .+...+.++.+.++|+++|-+|--+|+ |.|.++-.+.|+.+.
T Consensus       139 ~~v~a~~~~~vVlmh~~eG~p~tm~~~~~y~dv~~ev~~~l~~~i~~a~~~Gi~~IilDPG~Gf-~kt~~~n~~ll~~l~  217 (294)
T 2dqw_A          139 VALAARHGVAAVVMHMPVPDPATMMAHARYRDVVAEVKAFLEAQARRALSAGVPQVVLDPGFGF-GKLLEHNLALLRRLD  217 (294)
T ss_dssp             HHHHHHHTCEEEEECCSSSCTTTGGGGCCCSSHHHHHHHHHHHHHHHHHHTTCSCEEEECCTTS-SCCHHHHHHHHHTHH
T ss_pred             HHHHHHhCCCEEEEcCCCCCCccccccCccccHHHHHHHHHHHHHHHHHHCCCCcEEEcCCCCc-ccCHHHHHHHHHHHH
Confidence            5431          1 1   122              345667788888999988999988887 888876666666654


Q ss_pred             hC
Q 012112          241 GA  242 (471)
Q Consensus       241 ~l  242 (471)
                      ++
T Consensus       218 ~~  219 (294)
T 2dqw_A          218 EI  219 (294)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2fxa_A Protease production regulatory protein HPR; protease porduction, regulation, STR genomics, PSI, protein structure initiative; HET: PGE P6G 1PE; 2.40A {Bacillus subtilis} SCOP: a.4.5.28

Probab=83.94  E-value=1.5  Score=39.80  Aligned_cols=77  Identities=14%  Similarity=0.135  Sum_probs=53.9

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   ..++..|....|+...++++..|.+.. .+...++.|++.|||....+.                  .+.|.
T Consensus        46 Lt~~q---~~iL~~L~~~~~~t~~eLa~~l~i~~s-tvs~~l~~Le~~GlV~r~~~~------------------~DrR~  103 (207)
T 2fxa_A           46 LNINE---HHILWIAYQLNGASISEIAKFGVMHVS-TAFNFSKKLEERGYLRFSKRL------------------NDKRN  103 (207)
T ss_dssp             CCHHH---HHHHHHHHHHTSEEHHHHHHHTTCCHH-HHHHHHHHHHHHTSEEEECC------------------------
T ss_pred             CCHHH---HHHHHHHHHCCCcCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEEecCC------------------CCCce
Confidence            55543   234445555578999999999999854 567789999999999875321                  12445


Q ss_pred             ceeeecCchhhchHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISH  464 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~  464 (471)
                      -++.|| ++|..+.+.+...
T Consensus       104 ~~l~LT-~~G~~~~~~~~~~  122 (207)
T 2fxa_A          104 TYVQLT-EEGTEVFWSLLEE  122 (207)
T ss_dssp             CEEEEC-HHHHHHHHHHHHH
T ss_pred             EEEEEC-HHHHHHHHHHHHH
Confidence            579997 9999998877644

>2nx9_A Oxaloacetate decarboxylase 2, subunit alpha; carboxyltransferase structure, B enzymes, Zn2+ binding site, TIM-barrel fold, lyase; 1.70A {Vibrio cholerae}

Probab=83.83  E-value=5.1  Score=41.26  Aligned_cols=119  Identities=15%  Similarity=0.149  Sum_probs=79.0

Q ss_pred             eeEEEEcCCC-C----CCCCHHHHHHHHHHHHHHcCCCCCcEEEEEec----------CCCCCHHHHHHHHHCCCCEEEE
Q 012112          115 LETVFFGGGT-P----SLVPPRFVSSILDTLTDKFGLSLDAEISMEMD----------PGTFDARKMEELMDLGVNRVSL  179 (471)
Q Consensus       115 v~~i~fGGGT-p----s~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~----------P~~l~~e~l~~l~~~Gvnrvsi  179 (471)
                      ++.|=.|+|. +    -+++++.. +.++.+++..   ++..+++-++          |+.+.+..++...++|++.|.+
T Consensus        44 v~~IE~g~~atF~~~~r~~~~d~~-e~l~~i~~~~---~~~~l~~l~R~~N~~G~~~~~ddv~~~~v~~a~~~Gvd~i~i  119 (464)
T 2nx9_A           44 YWSLECWGGATFDSCIRFLGEDPW-QRLRLLKQAM---PNTPLQMLLRGQNLLGYRHYADDVVDTFVERAVKNGMDVFRV  119 (464)
T ss_dssp             CSEEEEEETTHHHHHHHTTCCCHH-HHHHHHHHHC---SSSCEEEEECGGGTTSSSCCCHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEeCcCccccchhhccCCCHH-HHHHHHHHhC---CCCeEEEEeccccccCcccccchhhHHHHHHHHhCCcCEEEE
Confidence            6666666542 1    01233333 3355555543   3456666664          2223467788899999998887


Q ss_pred             ccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeee--ecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          180 GVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDL--ISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       180 GvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~Dl--I~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      -. +.++-           +.+..+++.+++.|.. +.+++  ..|- .-+++.+.+.++.+.+++++.|++-.
T Consensus       120 f~-~~sd~-----------~ni~~~i~~ak~~G~~-v~~~i~~~~~~-~~~~e~~~~~a~~l~~~Gad~I~l~D  179 (464)
T 2nx9_A          120 FD-AMNDV-----------RNMQQALQAVKKMGAH-AQGTLCYTTSP-VHNLQTWVDVAQQLAELGVDSIALKD  179 (464)
T ss_dssp             CC-TTCCT-----------HHHHHHHHHHHHTTCE-EEEEEECCCCT-TCCHHHHHHHHHHHHHTTCSEEEEEE
T ss_pred             EE-ecCHH-----------HHHHHHHHHHHHCCCE-EEEEEEeeeCC-CCCHHHHHHHHHHHHHCCCCEEEEcC
Confidence            54 33332           5678899999999986 76555  4564 45899999999999999999777654

>3eeg_A 2-isopropylmalate synthase; 11106D, beta barrel, PSI-II, structural genomics, protein structure initiative; 2.78A {Cytophaga hutchinsonii atcc 33406}

Probab=83.73  E-value=3.6  Score=40.31  Aligned_cols=124  Identities=13%  Similarity=0.082  Sum_probs=78.9

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHH----HHHHHCCCCEEEEccCCCCHHHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKM----EELMDLGVNRVSLGVQAFQDELLK  190 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l----~~l~~~GvnrvsiGvQS~~d~~L~  190 (471)
                      ++.|=.|  .|. .++...+.+ +.+.+..   ++..++.-+++.   .+-+    +.++.+|+.+|.+-+=+-+-...+
T Consensus        42 v~~IE~g--~p~-~~~~d~e~v-~~i~~~~---~~~~i~~l~r~~---~~~i~~a~~al~~ag~~~v~i~~s~Sd~~~~~  111 (325)
T 3eeg_A           42 VDVIEAG--FPV-SSPGDFNSV-VEITKAV---TRPTICALTRAK---EADINIAGEALRFAKRSRIHTGIGSSDIHIEH  111 (325)
T ss_dssp             CSEEEEE--CTT-SCHHHHHHH-HHHHHHC---CSSEEEEECCSC---HHHHHHHHHHHTTCSSEEEEEEEECSHHHHC-
T ss_pred             CCEEEEe--CCC-CCHhHHHHH-HHHHHhC---CCCEEEEeecCC---HHHHHHHHHhhcccCCCEEEEEecccHHHHHH
Confidence            4555554  565 367666654 4555443   355676665432   3333    444555999998866555555556


Q ss_pred             HcCCC--CCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEE
Q 012112          191 SCGRA--HGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVY  250 (471)
Q Consensus       191 ~l~R~--~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y  250 (471)
                      .+++.  ...+.+.++++.+++.|.. |.++..++- --+++.+.+.++.+.+.+++.|++-
T Consensus       112 ~l~~s~~e~l~~~~~~v~~a~~~g~~-v~f~~~d~~-~~~~~~~~~~~~~~~~~G~~~i~l~  171 (325)
T 3eeg_A          112 KLRSTRENILEMAVAAVKQAKKVVHE-VEFFCEDAG-RADQAFLARMVEAVIEAGADVVNIP  171 (325)
T ss_dssp             ---CCCTTGGGTTHHHHHHHHTTSSE-EEEEEETGG-GSCHHHHHHHHHHHHHHTCSEEECC
T ss_pred             HhCCCHHHHHHHHHHHHHHHHHCCCE-EEEEccccc-cchHHHHHHHHHHHHhcCCCEEEec
Confidence            66654  4678899999999999986 666655543 3467788888899999999866543

>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus solfataricus}

Probab=83.53  E-value=6.3  Score=32.70  Aligned_cols=65  Identities=12%  Similarity=0.072  Sum_probs=47.4

Q ss_pred             HHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecC
Q 012112          372 MDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSD  451 (471)
Q Consensus       372 ~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~  451 (471)
                      ...+..-.....++...++++++|.+.. .+...++.|++.||+.... .                        .++|| 
T Consensus        19 L~~l~~l~~~~~~~s~~ela~~l~is~~-tv~~~l~~Le~~Gli~r~~-~------------------------~~~Lt-   71 (139)
T 2x4h_A           19 LLTIKRYNDSGEGAKINRIAKDLKIAPS-SVFEEVSHLEEKGLVKKKE-D------------------------GVWIT-   71 (139)
T ss_dssp             HHHHHHHHTTTSCBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEET-T------------------------EEEEC-
T ss_pred             HHHHHHHHhcCCCcCHHHHHHHhCCChH-HHHHHHHHHHHCCCEEecC-C------------------------eEEEC-
Confidence            3444333344567999999999999854 4678899999999998643 1                        47886 


Q ss_pred             chhhchHHHHHH
Q 012112          452 PEGFLLSNELIS  463 (471)
Q Consensus       452 ~~G~~~~n~i~~  463 (471)
                      ++|..++..+..
T Consensus        72 ~~g~~~~~~~~~   83 (139)
T 2x4h_A           72 NNGTRSINYLIK   83 (139)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHH
Confidence            899888776543

>1hsj_A Fusion protein consisting of staphylococcus accessary regulator protein R and maltose...; novel fold for DNA binding; HET: GLC; 2.30A {Escherichia coli} SCOP: a.4.5.28 c.94.1.1

Probab=83.37  E-value=1  Score=46.33  Aligned_cols=77  Identities=12%  Similarity=0.003  Sum_probs=58.2

Q ss_pred             HHHHhcccc--CCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecC
Q 012112          374 VLMLSFRTA--RGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSD  451 (471)
Q Consensus       374 ~~~~~Lr~~--~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~  451 (471)
                      .++..|...  .|+...++.++.+.+-. .+...+++|+++|||.+..+.                  ...|.-.|.|| 
T Consensus       408 ~vl~~l~~~~~~~~~~~~l~~~~~~~~~-~~t~~~~~le~~g~v~r~~~~------------------~D~R~~~i~lT-  467 (487)
T 1hsj_A          408 YILNHILRSESNEISSKEIAKCSEFKPY-YLTKALQKLKDLKLLSKKRSL------------------QDERTVIVYVT-  467 (487)
T ss_dssp             HHHHHHHTCSCSEEEHHHHHHSSCCCHH-HHHHHHHHHHTTTTSCCEECC------------------SSSSCCEEECC-
T ss_pred             HHHHHHHhCCCCCcCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEeecCCC------------------CCCCeEEEEEC-
Confidence            455566666  77899999999888854 567899999999999764211                  13455689997 


Q ss_pred             chhhchHHHHHHHHHhccc
Q 012112          452 PEGFLLSNELISHAFGVID  470 (471)
Q Consensus       452 ~~G~~~~n~i~~~~~~~~~  470 (471)
                      ++|+.+...+...+-..++
T Consensus       468 ~~g~~~~~~~~~~~~~~~~  486 (487)
T 1hsj_A          468 DTQKANIQKLISELEEYIK  486 (487)
T ss_dssp             SSHHHHHHHHHHHHGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            9999999999888776554

>1rqb_A Transcarboxylase 5S subunit; TIM-barrel, carbamylated lysine, transfera; HET: KCX; 1.90A {Propionibacterium freudenreichii subspshermanii} SCOP: a.5.7.2 c.1.10.5 PDB: 1rqe_A 1rqh_A* 1rr2_A* 1u5j_A* 1s3h_A*

Probab=83.21  E-value=5.2  Score=41.97  Aligned_cols=119  Identities=14%  Similarity=0.130  Sum_probs=79.7

Q ss_pred             eeEEEEcCCCC-----CCCCHHHHHHHHHHHHHHcCCCCCcEEEEEec----------CCCCCHHHHHHHHHCCCCEEEE
Q 012112          115 LETVFFGGGTP-----SLVPPRFVSSILDTLTDKFGLSLDAEISMEMD----------PGTFDARKMEELMDLGVNRVSL  179 (471)
Q Consensus       115 v~~i~fGGGTp-----s~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~----------P~~l~~e~l~~l~~~Gvnrvsi  179 (471)
                      ++.|=.|+|.-     -+++++.. +.++.+++..   ++..+.+-++          |+.+.+..++...++|++.|.+
T Consensus        61 v~~IE~G~patF~~~~rfl~~d~~-e~lr~l~~~~---~~~~l~~L~R~~N~~G~~~ypddv~~~~ve~a~~aGvd~vrI  136 (539)
T 1rqb_A           61 YWSVECWGGATYDSCIRFLNEDPW-ERLRTFRKLM---PNSRLQMLLRGQNLLGYRHYNDEVVDRFVDKSAENGMDVFRV  136 (539)
T ss_dssp             CSEEEEEETTHHHHHHHTSCCCHH-HHHHHHHHHC---TTSCEEEEECGGGTTSSSCCCHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEeCcccccccchhccCCCHH-HHHHHHHHhC---CCCEEEEEeccccccCcccCcccccHHHHHHHHhCCCCEEEE
Confidence            66777765421     01233332 3355555543   3456666653          2334577889999999998888


Q ss_pred             ccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCee--EeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          180 GVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENW--SLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       180 GvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v--~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      -. +.++-           +.+.++++.+++.|.. +  .++...|- .-+++.+.+.++.+.+++++.|++-.
T Consensus       137 f~-s~sd~-----------~ni~~~i~~ak~~G~~-v~~~i~~~~~~-~~~~e~~~~~a~~l~~~Gad~I~L~D  196 (539)
T 1rqb_A          137 FD-AMNDP-----------RNMAHAMAAVKKAGKH-AQGTICYTISP-VHTVEGYVKLAGQLLDMGADSIALKD  196 (539)
T ss_dssp             CC-TTCCT-----------HHHHHHHHHHHHTTCE-EEEEEECCCST-TCCHHHHHHHHHHHHHTTCSEEEEEE
T ss_pred             EE-ehhHH-----------HHHHHHHHHHHHCCCe-EEEEEEeeeCC-CCCHHHHHHHHHHHHHcCCCEEEeCC
Confidence            53 33332           5678999999999986 6  45556675 44899999999999999998776654

>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, helix-turn-helix; 2.20A {Planctomyces limnophilus}

Probab=82.97  E-value=1.2  Score=38.55  Aligned_cols=71  Identities=13%  Similarity=0.155  Sum_probs=48.6

Q ss_pred             HHHhccc--cCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          375 LMLSFRT--ARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       375 ~~~~Lr~--~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      ++.-|..  ..++...++.+..|.+-. .+...++.|++.|||....+.                  .+.|.-+|.|| +
T Consensus        51 vL~~l~~~~~~~~t~~eLa~~l~~~~~-tvs~~l~~Le~~Glv~r~~~~------------------~DrR~~~l~LT-~  110 (168)
T 3u2r_A           51 TLRLLRSVHPEGMATLQIADRLISRAP-DITRLIDRLDDRGLVLRTRKP------------------ENRRVVEVALT-D  110 (168)
T ss_dssp             HHHHHHHHTTSCEEHHHHHHHC---CT-HHHHHHHHHHHTTSEEEEEET------------------TEEEEEEEEEC-H
T ss_pred             HHHHHHhcCCCCcCHHHHHHHHCCChh-hHHHHHHHHHHCCCEeecCCC------------------CCCCeeEeEEC-H
Confidence            3444444  358999999999988754 467889999999999865321                  12344478997 9


Q ss_pred             hhhchHHHHHHHH
Q 012112          453 EGFLLSNELISHA  465 (471)
Q Consensus       453 ~G~~~~n~i~~~~  465 (471)
                      +|..+.+.+...+
T Consensus       111 ~G~~~~~~~~~~~  123 (168)
T 3u2r_A          111 AGLKLLKDLEEPV  123 (168)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998775543

>3lmz_A Putative sugar isomerase; structural genomics, joint center structural genomics, JCSG, protein structure initiative, PS isomerase; HET: MSE CIT PGE; 1.44A {Parabacteroides distasonis}

Probab=82.95  E-value=6.8  Score=36.17  Aligned_cols=77  Identities=6%  Similarity=0.028  Sum_probs=57.8

Q ss_pred             HHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhC
Q 012112          163 ARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGA  242 (471)
Q Consensus       163 ~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l  242 (471)
                      ++.++.++++|++.|.+....+        .-..+.+++.+..+.++++|+.-+++..-+   .++.+.+++.++.+.++
T Consensus        33 ~~~l~~~~~~G~~~vEl~~~~~--------~~~~~~~~~~~~~~~l~~~gl~i~~~~~~~---~~~~~~~~~~i~~A~~l  101 (257)
T 3lmz_A           33 DTTLKTLERLDIHYLCIKDFHL--------PLNSTDEQIRAFHDKCAAHKVTGYAVGPIY---MKSEEEIDRAFDYAKRV  101 (257)
T ss_dssp             HHHHHHHHHTTCCEEEECTTTS--------CTTCCHHHHHHHHHHHHHTTCEEEEEEEEE---ECSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCEEEEecccC--------CCCCCHHHHHHHHHHHHHcCCeEEEEeccc---cCCHHHHHHHHHHHHHh
Confidence            6889999999999998886532        123467777888888899998733333222   17899999999999999


Q ss_pred             CCCcEEEE
Q 012112          243 QPKHVSVY  250 (471)
Q Consensus       243 ~p~his~y  250 (471)
                      +.+.|.+.
T Consensus       102 Ga~~v~~~  109 (257)
T 3lmz_A          102 GVKLIVGV  109 (257)
T ss_dssp             TCSEEEEE
T ss_pred             CCCEEEec
Confidence            99988763

>4fx0_A Probable transcriptional repressor protein; helix-turn-helix, DNA binding, transcription regulator; 2.70A {Mycobacterium tuberculosis} PDB: 4fx4_A*

Probab=82.65  E-value=2.1  Score=36.54  Aligned_cols=59  Identities=14%  Similarity=0.216  Sum_probs=39.4

Q ss_pred             CCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHHHH
Q 012112          384 GVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELIS  463 (471)
Q Consensus       384 gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i~~  463 (471)
                      ++...++.+..|.+-. .+...++.|++.|||...+.                   .+.|.-.|.|| ++|..+...+..
T Consensus        52 ~~t~~eLa~~l~~~~~-tvsr~v~~Le~~glVr~~~~-------------------~DrR~~~v~LT-~~G~~~~~~~~~  110 (148)
T 4fx0_A           52 DLTMSELAARIGVERT-TLTRNLEVMRRDGLVRVMAG-------------------ADARCKRIELT-AKGRAALQKAVP  110 (148)
T ss_dssp             --CHHHHHHHHTCCHH-HHHHHHHHHHHTTSBC------------------------------CCBC-HHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHCCChh-hHHHHHHHHHHCCCEEeeCC-------------------CCCCeeEEEEC-HHHHHHHHHHHH
Confidence            4889999999999864 46788999999999854321                   13455679997 999998877643

>3rmj_A 2-isopropylmalate synthase; LEUA, truncation, neisseria MENI TIM barrel, catalytic domain, dimer, leucine biosynthesis, ketoisovalerate; 1.95A {Neisseria meningitidis}

Probab=82.53  E-value=5  Score=40.03  Aligned_cols=121  Identities=8%  Similarity=0.030  Sum_probs=77.7

Q ss_pred             CCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCC-HHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCC--CHHH
Q 012112          124 TPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFD-ARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAH--GLKE  200 (471)
Q Consensus       124 Tps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~-~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~--t~~~  200 (471)
                      .|. .++...+.+.. +.+.   ..+..++.-+++..-+ +..++.++.+|+.+|.+-+=+-+-...+.+++..  ..+.
T Consensus        55 ~p~-~~~~d~e~v~~-i~~~---~~~~~i~~l~r~~~~di~~a~~al~~ag~~~v~if~~~Sd~h~~~~l~~s~~e~l~~  129 (370)
T 3rmj_A           55 FAA-ASPGDFEAVNA-IAKT---ITKSTVCSLSRAIERDIRQAGEAVAPAPKKRIHTFIATSPIHMEYKLKMKPKQVIEA  129 (370)
T ss_dssp             EGG-GCHHHHHHHHH-HHTT---CSSSEEEEEEESSHHHHHHHHHHHTTSSSEEEEEEEECSHHHHHHTTCCCHHHHHHH
T ss_pred             CCC-CCHHHHHHHHH-HHHh---CCCCeEEEEecCCHHHHHHHHHHHhhCCCCEEEEEecCcHHHHHHHhCCCHHHHHHH
Confidence            354 36666666544 3332   2456777666542111 1223444559999999977666666667777653  4556


Q ss_pred             HHHHHHHHHHcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEe
Q 012112          201 VYEAIEIVKLCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYD  251 (471)
Q Consensus       201 ~~~ai~~~~~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~  251 (471)
                      +.++++.+++.|.. |.++...+. --+++-+.+.++.+.+.+++.|++-.
T Consensus       130 ~~~~v~~a~~~g~~-v~~~~ed~~-r~~~~~~~~~~~~~~~~Ga~~i~l~D  178 (370)
T 3rmj_A          130 AVKAVKIAREYTDD-VEFSCEDAL-RSEIDFLAEICGAVIEAGATTINIPD  178 (370)
T ss_dssp             HHHHHHHHTTTCSC-EEEEEETGG-GSCHHHHHHHHHHHHHHTCCEEEEEC
T ss_pred             HHHHHHHHHHcCCE-EEEecCCCC-ccCHHHHHHHHHHHHHcCCCEEEecC
Confidence            66778888999886 666665543 45678888899999999998776543

>2h09_A Transcriptional regulator MNTR; transcription regulator, diphtheria toxin, manganese transport, structural genomics, NPPSFA; 2.10A {Escherichia coli}

Probab=82.38  E-value=5.2  Score=34.02  Aligned_cols=68  Identities=19%  Similarity=0.128  Sum_probs=50.2

Q ss_pred             hHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceee
Q 012112          369 DLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFR  448 (471)
Q Consensus       369 ~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  448 (471)
                      +...+.+...+....++...++.+.+|.+-. .+...++.|++.||+....+.                        .++
T Consensus        39 ~~~~~~i~~~l~~~~~~~~~~la~~l~vs~~-tvs~~l~~Le~~Glv~r~~~~------------------------~~~   93 (155)
T 2h09_A           39 DDYVELISDLIREVGEARQVDMAARLGVSQP-TVAKMLKRLATMGLIEMIPWR------------------------GVF   93 (155)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHTSCHH-HHHHHHHHHHHTTCEEEETTT------------------------EEE
T ss_pred             HHHHHHHHHHHHhCCCcCHHHHHHHhCcCHH-HHHHHHHHHHHCCCEEEecCC------------------------ceE
Confidence            3444555555555577999999999999854 477899999999999865422                        478


Q ss_pred             ecCchhhchHHHHH
Q 012112          449 LSDPEGFLLSNELI  462 (471)
Q Consensus       449 lt~~~G~~~~n~i~  462 (471)
                      || ++|..+...+.
T Consensus        94 lT-~~g~~~~~~~~  106 (155)
T 2h09_A           94 LT-AEGEKLAQESR  106 (155)
T ss_dssp             EC-HHHHHHHHHHH
T ss_pred             EC-hhHHHHHHHHH
Confidence            86 89988776654

>1eye_A DHPS 1, dihydropteroate synthase I; alpha-beta barrel, transferase; HET: PMM; 1.70A {Mycobacterium tuberculosis H37RV} SCOP: c.1.21.1

Probab=82.36  E-value=23  Score=33.75  Aligned_cols=121  Identities=17%  Similarity=0.136  Sum_probs=69.0

Q ss_pred             eeEEEEcC-----CCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEE-EEccCCCCHHH
Q 012112          115 LETVFFGG-----GTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRV-SLGVQAFQDEL  188 (471)
Q Consensus       115 v~~i~fGG-----GTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvnrv-siGvQS~~d~~  188 (471)
                      .+-|-+||     |.+.+-..+++.+++..++..-..  +..+++.    +...+.++.--++|..-| ++.-...++++
T Consensus        43 AdiIDIGgestrpga~~v~~~eE~~Rv~pvi~~l~~~--~~piSID----T~~~~va~aAl~aGa~iINdvsg~~~d~~m  116 (280)
T 1eye_A           43 AGIVDVGGESSRPGATRVDPAVETSRVIPVVKELAAQ--GITVSID----TMRADVARAALQNGAQMVNDVSGGRADPAM  116 (280)
T ss_dssp             CSEEEEECC--------------HHHHHHHHHHHHHT--TCCEEEE----CSCHHHHHHHHHTTCCEEEETTTTSSCTTH
T ss_pred             CCEEEECCccCCCCCCCCCHHHHHHHHHHHHHHhhcC--CCEEEEe----CCCHHHHHHHHHcCCCEEEECCCCCCCHHH
Confidence            46677887     322333456777776666554211  3456654    567777777777786555 33333346666


Q ss_pred             HHHc----------C-CC--CC---------------HHHHHHHHHHHHHcCCC--eeEeeeecCCCCCCHHHHHHHHHH
Q 012112          189 LKSC----------G-RA--HG---------------LKEVYEAIEIVKLCGVE--NWSLDLISSLPHQTPQMWEESLRR  238 (471)
Q Consensus       189 L~~l----------~-R~--~t---------------~~~~~~ai~~~~~~G~~--~v~~DlI~GlPgqT~e~~~~~l~~  238 (471)
                      ++.+          . ++  .+               .+...+.++.+.++|++  +|-+|--+|+ +.|.++=.+.|+.
T Consensus       117 ~~~~a~~~~~vVlmh~~G~p~tm~~~~~~y~dv~~~v~~~l~~~i~~a~~~Gi~~~~IilDPg~Gf-~k~~~~n~~ll~~  195 (280)
T 1eye_A          117 GPLLAEADVPWVLMHWRAVSADTPHVPVRYGNVVAEVRADLLASVADAVAAGVDPARLVLDPGLGF-AKTAQHNWAILHA  195 (280)
T ss_dssp             HHHHHHHTCCEEEECCCCSCTTCTTSCCCCSSHHHHHHHHHHHHHHHHHHTTCCGGGEEEECCTTS-SCCHHHHHHHHHT
T ss_pred             HHHHHHhCCeEEEEcCCCCCcchhhcCcchhHHHHHHHHHHHHHHHHHHHcCCChhhEEEECCCCc-ccCHHHHHHHHHH
Confidence            6541          1 11  11               45566788888999997  7899999997 5576665555555


Q ss_pred             HHhC
Q 012112          239 TVGA  242 (471)
Q Consensus       239 ~~~l  242 (471)
                      +.++
T Consensus       196 l~~~  199 (280)
T 1eye_A          196 LPEL  199 (280)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5443

>1h4p_A Glucan 1,3-beta-glucosidase I/II; hydrolase, glucan degradation, hydrolyase, glycosidase; HET: NAG BMA MAN NDG; 1.75A {Saccharomyces cerevisiae} SCOP: c.1.8.3

Probab=82.26  E-value=7.5  Score=39.18  Aligned_cols=122  Identities=13%  Similarity=0.019  Sum_probs=76.5

Q ss_pred             CCCHHHHHHHHHCCCCEEEEcc--CCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCC----------
Q 012112          160 TFDARKMEELMDLGVNRVSLGV--QAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQ----------  227 (471)
Q Consensus       160 ~l~~e~l~~l~~~GvnrvsiGv--QS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgq----------  227 (471)
                      .++++.++.|+++|+|-|-|.|  ..+.+.--.-.......+.+.++|+.++++|+. |-+|+-- .||-          
T Consensus        73 ~~te~d~~~i~~~G~N~VRipi~~~~~~~~~~~py~~~~~l~~ld~vv~~a~~~Gi~-VilDlH~-~pG~qng~~~sG~~  150 (408)
T 1h4p_A           73 FYQEQDFANIASQGFNLVRIPIGYWAFQILDDDPYVSGLQESYLDQAIGWARNNSLK-VWVDLHG-AAGSQNGFDNSGLR  150 (408)
T ss_dssp             HSCHHHHHHHHHTTCCEEEEEEEGGGTCCCTTCCCCCSSHHHHHHHHHHHHHHTTCE-EEEEEEE-CTTCSSCCGGGSST
T ss_pred             cCCHHHHHHHHHCCCCEEEccCCHHHcccCCCCCCccccHHHHHHHHHHHHHHCCCE-EEEECCC-CCCccCCccCCCCC
Confidence            3689999999999999555544  444321000000012467788999999999997 8888774 3321          


Q ss_pred             ---------CHHHHHHHHHHHHh-CC-C---CcEEEEeccccCCChhhhcccCCCCCCCCHHHHH-HHHHHHHHHHHHC-
Q 012112          228 ---------TPQMWEESLRRTVG-AQ-P---KHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSA-NFYRMASSMLSSA-  291 (471)
Q Consensus       228 ---------T~e~~~~~l~~~~~-l~-p---~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~-~~~~~~~~~L~~~-  291 (471)
                               +.+.+.+.++.+.+ ++ -   +.|-.|.+.=||..+-           .+.+... +.+..+.+.+++. 
T Consensus       151 ~~~~w~~~~~~~~~~~~w~~ia~ry~~~~y~~~Vi~~el~NEP~~~~-----------~~~~~~~~~~~~~~~~~IR~~~  219 (408)
T 1h4p_A          151 DSYKFLEDSNLAVTINVLNYILKKYSAEEYLDIVIGIELINEPLGPV-----------LDMDKMKNDYLAPAYEYLRNNI  219 (408)
T ss_dssp             TCCCTTSHHHHHHHHHHHHHHHHHTTSHHHHTTEEEEESCSCCCGGG-----------SCHHHHHHHTHHHHHHHHHHTT
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHcccCCCCeEEEEEeccCCCCCC-----------CCHHHHHHHHHHHHHHHHHhhc
Confidence                     23444444554443 33 2   5788899988886431           2345555 7788888888887 


Q ss_pred             CCc
Q 012112          292 GYR  294 (471)
Q Consensus       292 Gy~  294 (471)
                      |=.
T Consensus       220 ~~~  222 (408)
T 1h4p_A          220 KSD  222 (408)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>3boq_A Transcriptional regulator, MARR family; MARR famil structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3}

Probab=81.96  E-value=1.1  Score=38.20  Aligned_cols=71  Identities=13%  Similarity=0.123  Sum_probs=48.3

Q ss_pred             HHHhc-cccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          375 LMLSF-RTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       375 ~~~~L-r~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      ++.-| ....++...++.+..|.+.. .+...++.|++.|||....+.                  .+.|.-++.|| ++
T Consensus        52 iL~~L~~~~~~~~~~ela~~l~i~~~-tvs~~l~~Le~~Gli~r~~~~------------------~d~R~~~~~lT-~~  111 (160)
T 3boq_A           52 AMAQLARNPDGLSMGKLSGALKVTNG-NVSGLVNRLIKDGMVVKAMSA------------------DDRRSFSAKLT-DA  111 (160)
T ss_dssp             HHHHHHHCTTCEEHHHHHHHCSSCCS-CHHHHHHHHHHHTSEEEC--------------------------CEEEEC-HH
T ss_pred             HHHHHHHcCCCCCHHHHHHHHCCChh-hHHHHHHHHHHCCCEEeecCC------------------CCCCeEEEEEC-hh
Confidence            44445 34568999999999988743 356789999999999864211                  12344578997 99


Q ss_pred             hhchHHHHHHHH
Q 012112          454 GFLLSNELISHA  465 (471)
Q Consensus       454 G~~~~n~i~~~~  465 (471)
                      |..+.+.+...+
T Consensus       112 G~~~~~~~~~~~  123 (160)
T 3boq_A          112 GLTTFKQASEAH  123 (160)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999988764443

>2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance regulator, virulence determinant, transcriptional factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28

Probab=81.72  E-value=1.4  Score=36.84  Aligned_cols=70  Identities=11%  Similarity=0.101  Sum_probs=51.1

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....++...++.+.+|.+.. .+...++.|++.||+....+.                  .+.|.-++.|| ++
T Consensus        41 ~iL~~l~~~~~~~~~ela~~l~~~~~-tvs~~l~~L~~~gli~r~~~~------------------~d~R~~~~~lT-~~  100 (142)
T 2bv6_A           41 LVLTILWDESPVNVKKVVTELALDTG-TVSPLLKRMEQVDLIKRERSE------------------VDQREVFIHLT-DK  100 (142)
T ss_dssp             HHHHHHHHSSEEEHHHHHHHTTCCTT-THHHHHHHHHHTTSEEEEECS------------------SSTTCEEEEEC-HH
T ss_pred             HHHHHHHHcCCcCHHHHHHHHCCChh-hHHHHHHHHHHCCCEEeecCC------------------CCcceEEEEEC-hH
Confidence            34455555667999999999998754 466789999999999865321                  12344478997 99


Q ss_pred             hhchHHHHHH
Q 012112          454 GFLLSNELIS  463 (471)
Q Consensus       454 G~~~~n~i~~  463 (471)
                      |..+.+.+..
T Consensus       101 G~~~~~~~~~  110 (142)
T 2bv6_A          101 SETIRPELSN  110 (142)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHH
Confidence            9998887643

>2whl_A Beta-mannanase, baman5; glycoside hydrolase, hydrolase; HET: MAN BMA; 1.40A {Bacillus agaradhaerens} PDB: 2whj_A

Probab=81.55  E-value=25  Score=33.16  Aligned_cols=110  Identities=12%  Similarity=0.157  Sum_probs=72.3

Q ss_pred             CHHHHHHHHHCCCCEEEEccCC---CCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCC-CC---HHHHHH
Q 012112          162 DARKMEELMDLGVNRVSLGVQA---FQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPH-QT---PQMWEE  234 (471)
Q Consensus       162 ~~e~l~~l~~~GvnrvsiGvQS---~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPg-qT---~e~~~~  234 (471)
                      +++.++.+++.|+|-|-+.+..   ++         ....+.+.++++.+++.|+. |-+|+- +.|| +.   .+.+.+
T Consensus        33 ~~~~~~~i~~~G~N~VRi~~~~~~~~~---------~~~~~~ld~~v~~a~~~Gi~-Vild~H-~~~~~~~~~~~~~~~~  101 (294)
T 2whl_A           33 ASTAIPAIAEQGANTIRIVLSDGGQWE---------KDDIDTIREVIELAEQNKMV-AVVEVH-DATGRDSRSDLNRAVD  101 (294)
T ss_dssp             HHHHHHHHHHTTCSEEEEEECCSSSSC---------CCCHHHHHHHHHHHHTTTCE-EEEEEC-TTTTCCCHHHHHHHHH
T ss_pred             hHHHHHHHHHcCCCEEEEEecCCCccC---------ccHHHHHHHHHHHHHHCCCE-EEEEec-cCCCCCcchhHHHHHH
Confidence            5778999999999977776641   22         13577889999999999997 778864 4444 22   233333


Q ss_pred             HHHHHH-hC--CCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q 012112          235 SLRRTV-GA--QPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH  295 (471)
Q Consensus       235 ~l~~~~-~l--~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  295 (471)
                      -.+.+. ++  .+++| +|.+.-||....            +.....+.|..+.+.+++.|-.+
T Consensus       102 ~w~~ia~~y~~~~~~v-~~el~NEP~~~~------------~~~~~~~~~~~~~~~IR~~d~~~  152 (294)
T 2whl_A          102 YWIEMKDALIGKEDTV-IINIANEWYGSW------------DGSAWADGYIDVIPKLRDAGLTH  152 (294)
T ss_dssp             HHHHTHHHHTTCTTTE-EEECCTTCCCSS------------CHHHHHHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHcCCCCeE-EEEecCCCCCCC------------ChHHHHHHHHHHHHHHHhcCCCc
Confidence            333332 23  24677 689888885421            22344566788888888888765

>4a5n_A Uncharacterized HTH-type transcriptional regulato; activator, DNA binding, MARR-like; 1.81A {Bacillus subtilis} PDB: 4a5m_A

Probab=81.43  E-value=5.6  Score=33.51  Aligned_cols=65  Identities=11%  Similarity=-0.006  Sum_probs=46.6

Q ss_pred             HHhccccCCCCHhhHHHHh-CCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          376 MLSFRTARGVDLKSFGETF-GCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       376 ~~~Lr~~~gi~~~~~~~~f-g~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      +..|. ..+....++++.. |++-. .+...|+.|++.|||.......                  .-|.-.++|| ++|
T Consensus        32 L~~L~-~g~~rf~eL~~~l~gIs~~-~Ls~~L~~Le~~GLV~R~~~~~------------------d~r~v~y~LT-~~G   90 (131)
T 4a5n_A           32 FYHMI-DGKKRFNEFRRICPSITQR-MLTLQLRELEADGIVHREVYHQ------------------VPPKVEYSLT-EFG   90 (131)
T ss_dssp             HHHHT-TSCBCHHHHHHHCTTSCHH-HHHHHHHHHHHTTSEEEEEECS------------------SSCEEEEEEC-TTG
T ss_pred             HHHHh-cCCcCHHHHHHHhcccCHH-HHHHHHHHHHHCCCEEEEecCC------------------CCCeEEEEEC-HhH
Confidence            34444 4568899999999 88753 5778999999999998653110                  1223368997 999


Q ss_pred             hchHHHH
Q 012112          455 FLLSNEL  461 (471)
Q Consensus       455 ~~~~n~i  461 (471)
                      ..+...+
T Consensus        91 ~~l~~~l   97 (131)
T 4a5n_A           91 RTLEPIV   97 (131)
T ss_dssp             GGGHHHH
T ss_pred             HHHHHHH
Confidence            9997654

>3qr3_A Endoglucanase EG-II; TIM barrel, hydrolase; 2.05A {Hypocrea jecorina}

Probab=81.38  E-value=3.5  Score=40.59  Aligned_cols=115  Identities=11%  Similarity=0.085  Sum_probs=75.3

Q ss_pred             CCHHHHHHHHHCCCC--EEEEccCCCCHHHHHHcCCCC---CHHHHHHHHHHHHHcCCCeeEeeeecCCC----------
Q 012112          161 FDARKMEELMDLGVN--RVSLGVQAFQDELLKSCGRAH---GLKEVYEAIEIVKLCGVENWSLDLISSLP----------  225 (471)
Q Consensus       161 l~~e~l~~l~~~Gvn--rvsiGvQS~~d~~L~~l~R~~---t~~~~~~ai~~~~~~G~~~v~~DlI~GlP----------  225 (471)
                      .+.++++.+++.|+|  ||.|+.+.+.+.   ..+...   ..+.+.++|+.+++.|+. |-+|+- ..|          
T Consensus        44 ~t~~m~~~i~~~G~N~vRipi~w~~~~~~---~~~g~~~~~~l~~ld~vV~~a~~~Gi~-vIlDlH-~~~~~~g~~~~~~  118 (340)
T 3qr3_A           44 GIGQMQHFVNEDGMTIFRLPVGWQYLVNN---NLGGNLDSTSISKYDQLVQGCLSLGAY-CIVDIH-NYARWNGGIIGQG  118 (340)
T ss_dssp             HHHHHHHHHHHHCCCEEEEEECHHHHTTT---CTTCCCCHHHHHHHHHHHHHHHHTTCE-EEEEEC-STTEETTEETTTT
T ss_pred             cHHHHHHHHHHCCCCEEEEEeeHHHhCCC---CCCCccCHHHHHHHHHHHHHHHHCCCE-EEEEec-CCcccCCcccCCC
Confidence            367888899999999  555554322110   011111   256688899999999997 778864 233          


Q ss_pred             CCCHHHHHHHHHHHHhC--CCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCc
Q 012112          226 HQTPQMWEESLRRTVGA--QPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR  294 (471)
Q Consensus       226 gqT~e~~~~~l~~~~~l--~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~  294 (471)
                      ..+.+.+.+-.+.+.+.  +-++| +|.+.=||...             +.+...++++.+.+.+++.|-.
T Consensus       119 ~~~~~~~~~~w~~iA~ryk~~~~V-i~el~NEP~~~-------------~~~~w~~~~~~~i~aIR~~~~~  175 (340)
T 3qr3_A          119 GPTNAQFTSLWSQLASKYASQSRV-WFGIMNEPHDV-------------NINTWAATVQEVVTAIRNAGAT  175 (340)
T ss_dssp             SSCHHHHHHHHHHHHHHHTTCTTE-EEECCSCCCSS-------------CHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCcE-EEEecCCCCCC-------------CHHHHHHHHHHHHHHHHhhCCC
Confidence            24677777666665542  23477 58888887421             3455667888999999998876

>2fsw_A PG_0823 protein; alpha-beta structure, helix-turn-helix, winged-helix-turn-HE structural genomics, PSI, protein structure initiative; HET: MSE; 2.16A {Porphyromonas gingivalis} SCOP: a.4.5.69

Probab=81.24  E-value=4.1  Score=32.61  Aligned_cols=67  Identities=13%  Similarity=0.048  Sum_probs=47.3

Q ss_pred             HHHhccccCCCCHhhHHHHh-CCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          375 LMLSFRTARGVDLKSFGETF-GCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~f-g~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      ++..|. ..++...++.+.. |.+-. .+...++.|++.|+|....+.                  .+.|.-++.|| ++
T Consensus        30 IL~~L~-~~~~~~~eL~~~l~gis~~-~ls~~L~~Le~~GlV~r~~~~------------------~d~r~~~y~LT-~~   88 (107)
T 2fsw_A           30 IIFQIN-RRIIRYGELKRAIPGISEK-MLIDELKFLCGKGLIKKKQYP------------------EVPPRVEYSLT-PL   88 (107)
T ss_dssp             HHHHHT-TSCEEHHHHHHHSTTCCHH-HHHHHHHHHHHTTSEEEEEEC------------------SSSCEEEEEEC-HH
T ss_pred             HHHHHH-hCCcCHHHHHHHcccCCHH-HHHHHHHHHHHCCCEEEeecC------------------CCCCeeEEEEC-cc
Confidence            344444 4568899999999 48753 577899999999999864321                  12344468997 99


Q ss_pred             hhchHHHHH
Q 012112          454 GFLLSNELI  462 (471)
Q Consensus       454 G~~~~n~i~  462 (471)
                      |..+...+.
T Consensus        89 G~~l~~~l~   97 (107)
T 2fsw_A           89 GEKVLPIID   97 (107)
T ss_dssp             HHTTHHHHH
T ss_pred             HHHHHHHHH
Confidence            998876543

>1tx2_A DHPS, dihydropteroate synthase; folate biosynthesis, pterine, MA transferase; HET: 680; 1.83A {Bacillus anthracis} SCOP: c.1.21.1 PDB: 1tww_A* 1twz_A* 1tx0_A* 1tws_A* 3h21_A* 3h22_A* 3h23_A* 3h24_A* 3h26_A* 3h2a_A* 3h2c_A* 3h2e_A* 3h2f_A* 3h2m_A* 3h2n_A* 3h2o_A* 3tya_A* 3tyb_A* 3tyc_A* 3tyd_A* ...

Probab=80.95  E-value=24  Score=33.97  Aligned_cols=119  Identities=18%  Similarity=0.331  Sum_probs=75.0

Q ss_pred             eeEEEEcCCC--C---CCCCHHHHHHHH---HHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEE-EEccCCCC
Q 012112          115 LETVFFGGGT--P---SLVPPRFVSSIL---DTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRV-SLGVQAFQ  185 (471)
Q Consensus       115 v~~i~fGGGT--p---s~l~~~~l~~ll---~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~Gvnrv-siGvQS~~  185 (471)
                      .+-|-+||-.  |   .+-..+.+++++   +.+++.++    ..+++.    +.+.+.++.-.++|.+-| ++.-...+
T Consensus        77 AdiIDIGgeStrPga~~v~~~eE~~RvvpvI~~l~~~~~----vpiSID----T~~~~V~~aAl~aGa~iINdvsg~~~d  148 (297)
T 1tx2_A           77 AHIIDIGGESTRPGFAKVSVEEEIKRVVPMIQAVSKEVK----LPISID----TYKAEVAKQAIEAGAHIINDIWGAKAE  148 (297)
T ss_dssp             CSEEEEESCC----CCCCCHHHHHHHHHHHHHHHHHHSC----SCEEEE----CSCHHHHHHHHHHTCCEEEETTTTSSC
T ss_pred             CCEEEECCCcCCCCCCCCCHHHHHHHHHHHHHHHHhcCC----ceEEEe----CCCHHHHHHHHHcCCCEEEECCCCCCC
Confidence            5677788732  3   232356777777   55555443    346655    557777777777787655 44334456


Q ss_pred             HHHHHHc-----------CCCC-C--------HHHHHHHHHHHHHcCCC--eeEeeeecCCCCCCHHHHHHHHHHHHhC
Q 012112          186 DELLKSC-----------GRAH-G--------LKEVYEAIEIVKLCGVE--NWSLDLISSLPHQTPQMWEESLRRTVGA  242 (471)
Q Consensus       186 d~~L~~l-----------~R~~-t--------~~~~~~ai~~~~~~G~~--~v~~DlI~GlPgqT~e~~~~~l~~~~~l  242 (471)
                      +++++.+           .++. .        .+...+.++.+.++|++  +|-+|--+|+ +.|.+.-.+.|+.+.++
T Consensus       149 ~~m~~~aa~~g~~vVlmh~~G~p~y~d~v~ev~~~l~~~i~~a~~~GI~~~~IilDPg~Gf-gk~~~~n~~ll~~l~~l  226 (297)
T 1tx2_A          149 PKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGF-AKTPEQNLEAMRNLEQL  226 (297)
T ss_dssp             THHHHHHHHHTCCEEEECCCSCCCCSSHHHHHHHHHHHHHHHHHHTTCCGGGEEEECCTTS-SCCHHHHHHHHHTGGGG
T ss_pred             HHHHHHHHHhCCcEEEEeCCCCCCcchHHHHHHHHHHHHHHHHHHcCCChhcEEEeCCCCc-CCCHHHHHHHHHHHHHH
Confidence            7766542           1211 1        35566778888999998  7999998888 88887655666655443

>1p4x_A Staphylococcal accessory regulator A homologue; winged-helix protein, transcription; 2.20A {Staphylococcus aureus} SCOP: a.4.5.28 a.4.5.28

Probab=80.71  E-value=2.6  Score=39.69  Aligned_cols=81  Identities=12%  Similarity=0.063  Sum_probs=58.3

Q ss_pred             CCHhhHHHHHHHHhccccC--CCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccc
Q 012112          365 IDAKDLAMDVLMLSFRTAR--GVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGN  442 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~--gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~  442 (471)
                      ++..+   ..++..|....  ++...+++++.+.+-. .+...+++|++.|||....+.                  .+.
T Consensus       156 Lt~~q---~~vL~~L~~~~~~~~t~~eLa~~l~i~~~-tvt~~v~rLe~~GlV~R~~~~------------------~Dr  213 (250)
T 1p4x_A          156 LSFVE---FTILAIITSQNKNIVLLKDLIETIHHKYP-QTVRALNNLKKQGYLIKERST------------------EDE  213 (250)
T ss_dssp             SCHHH---HHHHHHHHTTTTCCEEHHHHHHHSSSCHH-HHHHHHHHHHHHTSSEEEECS------------------SST
T ss_pred             CCHHH---HHHHHHHHhCCCCCcCHHHHHHHHCCChh-hHHHHHHHHHHCCCEEeeCCC------------------CCC
Confidence            55533   33445555444  4899999999999864 467889999999999875321                  234


Q ss_pred             ccceeeecCchhhchHHHHHHHHHhc
Q 012112          443 RLAYFRLSDPEGFLLSNELISHAFGV  468 (471)
Q Consensus       443 ~~~~~~lt~~~G~~~~n~i~~~~~~~  468 (471)
                      |.-.|.|| ++|..+.+.+...+-..
T Consensus       214 R~~~i~LT-~~G~~~~~~~~~~~~~~  238 (250)
T 1p4x_A          214 RKILIHMD-DAQQDHAEQLLAQVNQL  238 (250)
T ss_dssp             TCEEEECC-HHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEEC-HHHHHHHHHHHHHHHHH
Confidence            55679997 99999999887765543

>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A

Probab=80.12  E-value=1.4  Score=37.32  Aligned_cols=67  Identities=19%  Similarity=0.177  Sum_probs=47.2

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....++...++.+.+|.+-. .+...++.|++.|||....+.                  .+.|.-++.|| ++|
T Consensus        52 iL~~l~~~~~~t~~ela~~l~~s~~-tvs~~l~~Le~~glv~r~~~~------------------~d~R~~~~~lT-~~G  111 (153)
T 2pex_A           52 VMLVLWETDERSVSEIGERLYLDSA-TLTPLLKRLQAAGLVTRTRAA------------------SDERQVIIALT-ETG  111 (153)
T ss_dssp             HHHHHHHSCSEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEC-------------------------CEEEEC-HHH
T ss_pred             HHHHHHhCCCcCHHHHHHHhCCCcc-cHHHHHHHHHHCCCEeecCCc------------------ccCCeeEeeEC-HHH
Confidence            4445555678999999999998854 467789999999999875321                  12344468997 999


Q ss_pred             hchHHHH
Q 012112          455 FLLSNEL  461 (471)
Q Consensus       455 ~~~~n~i  461 (471)
                      ..+.+.+
T Consensus       112 ~~~~~~~  118 (153)
T 2pex_A          112 RALRSKA  118 (153)
T ss_dssp             HHGGGGS
T ss_pred             HHHHHHH
Confidence            9877654

---

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	471
d1olta_	441	c.1.28.2 (A:) Oxygen-independent coproporphyrinoge	9e-48

>d1olta_ c.1.28.2 (A:) Oxygen-independent coproporphyrinogen III oxidase HemN {Escherichia coli [TaxId: 562]} Length = 441

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Oxygen-independent coproporphyrinogen III oxidase HemN
domain: Oxygen-independent coproporphyrinogen III oxidase HemN
species: Escherichia coli [TaxId: 562]

 Score =  168 bits (425), Expect = 9e-48
 Identities = 78/383 (20%), Positives = 147/383 (38%), Gaps = 28/383 (7%)

Query: 53  PTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTS 112
           P S Y+H+PFC K C++C                   +   Y+  L +EI+   P     
Sbjct: 49  PLSLYVHIPFCHKLCYFCGCN--------KIVTRQQHKADQYLDALEQEIVHRAPLFA-G 99

Query: 113 PPLETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDL 172
             +  + +GGGTP+ +    +S ++  L + F  + DAEIS+E+DP   +   ++ L   
Sbjct: 100 RHVSQLHWGGGTPTYLNKAQISRLMKLLRENFQFNADAEISIEVDPREIELDVLDHLRAE 159

Query: 173 GVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTPQMW 232
           G NR+S+GVQ F  E+ +   R    + ++  +   +  G  + ++DLI  LP QTP+ +
Sbjct: 160 GFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAREIGFTSTNIDLIYGLPKQTPESF 219

Query: 233 EESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG 292
             +L+R     P  +SV++                +  LP+  Q  +  +   + L+ +G
Sbjct: 220 AFTLKRVAELNPDRLSVFNYAHLPTIFAA-QRKIKDADLPSPQQKLDILQETIAFLTQSG 278

Query: 293 YRHYEISSYGEDGYECK------------HNLTYWKNKPFYGFGLGSASYLGGLRFSRPR 340
           Y+   +  +     E                 T   +    G G+ + S +G       +
Sbjct: 279 YQFIGMDHFARPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISMIGDCYAQNQK 338

Query: 341 RMKEFVDYVQNLEAGLVDCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVH 400
            +K++   V      L        +   D     ++ S      +D     + +      
Sbjct: 339 ELKQYYQQVDEQGNALWRGI---ALTRDDCIRRDVIKSLICNFRLDYSPIEQQWDLLFAD 395

Query: 401 TLC---KAYKPYIESGHVICLDE 420
                 K   P  + G V   ++
Sbjct: 396 YFAEDLKLLAPLAKDGLVDVDEK 418

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	471
d1olta_	441	Oxygen-independent coproporphyrinogen III oxidase	100.0
d1r30a_	312	Biotin synthase {Escherichia coli [TaxId: 562]}	99.79
d1tv8a_	327	Molybdenum cofactor biosynthesis protein A MoaA {S	98.76
d3ctaa1	85	Ta1064 (RFK), N-terminal domain {Thermoplasma acid	94.18
d2etha1	140	Putative transcriptional regulator TM0816 {Thermot	92.55
d2hr3a1	145	Probable transcriptional regulator PA3067 {Pseudom	91.88
d1lj9a_	144	Transcriptional regulator SlyA {Enterococcus faeca	91.73
d1hsja1	115	Staphylococcal accessory regulator A homolog, SarR	91.2
d2fbia1	136	Probable transcriptional regulator PA4135 {Pseudom	91.04
d1jgsa_	138	Multiple antibiotic resistance repressor, MarR {Es	90.89
d1qwga_	251	(2r)-phospho-3-sulfolactate synthase ComA {Archaeo	90.79
d2a61a1	139	Transcriptional regulator TM0710 {Thermotoga marit	90.68
d1lnwa_	141	MexR repressor {Pseudomonas aeruginosa [TaxId: 287	90.59
d2frha1	115	Pleiotropic regulator of virulence genes, SarA {St	89.49
d1h4pa_	408	Exo-beta-(1,3)-glucanase {Baker's yeast (Saccharom	88.89
d2fbha1	137	Transcriptional regulator PA3341 {Pseudomonas aeru	88.86
d3broa1	135	Transcriptional regulator OEOE1854 {Oenococcus oen	88.19
d1i60a_	278	Hypothetical protein IolI {Bacillus subtilis [TaxI	88.16
d3deua1	140	Transcriptional regulator SlyA {Salmonella typhimu	88.11
d1p4xa2	125	Staphylococcal accessory regulator A homolog, SarS	87.99
d1s3ja_	143	Putative transcriptional regulator YusO {Bacillus	87.58
d1vjza_	325	Endoglucanase homologue TM1752 {Thermotoga maritim	87.11
d2bv6a1	136	Transcriptional regulator MgrA {Staphylococcus aur	86.98
d2fxaa1	162	Protease production regulatory protein Hpr {Bacill	86.68
d2pb1a1	394	Exo-beta-(1,3)-glucanase {Yeast (Candida albicans)	86.37
d1x5wa2	29	Zinc finger protein 64, ZFP68 {Human (Homo sapiens	86.13
d2v7fa1	149	Ribosomal protein S19e {Pyrococcus abyssi [TaxId:	86.03
d1ub9a_	100	Hypothetical protein PH1061 {Archaeon Pyrococcus h	85.81
d2p8ta1	69	Hypothetical protein PH0730 {Pyrococcus horikoshii	83.85
d1ur4a_	387	Beta-1,4-galactanase {Bacillus licheniformis [TaxI	83.69
d1nvma2	289	4-hydroxy-2-oxovalerate aldolase DmpG, catalytic d	83.69
d2q02a1	271	Putative cytoplasmic protein STM4435 {Salmonella t	83.65
d1z91a1	137	Organic hydroperoxide resistance transcriptional r	82.25
d1p4xa1	125	Staphylococcal accessory regulator A homolog, SarS	80.47
d1ceoa_	340	Endoglucanase CelC {Clostridium thermocellum [TaxI	80.44

>d1olta_ c.1.28.2 (A:) Oxygen-independent coproporphyrinogen III oxidase HemN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Oxygen-independent coproporphyrinogen III oxidase HemN
domain: Oxygen-independent coproporphyrinogen III oxidase HemN
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=2.8e-79  Score=637.55  Aligned_cols=377  Identities=21%  Similarity=0.388  Sum_probs=343.9

Q ss_pred             CCCCeEEEEeccCCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCC
Q 012112           50 QLSPTSAYIHLPFCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVP  129 (471)
Q Consensus        50 ~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~  129 (471)
                      +..|+|||||||||+++|.||+|++...        .......+|+++|++||+..+.... +..+.+|||||||||+|+
T Consensus        46 ~~~plsLYiHiPFC~~~C~yC~~~~~~~--------~~~~~~~~Y~~~L~~Ei~~~~~~~~-~~~v~~i~~GGGTPt~L~  116 (441)
T d1olta_          46 PERPLSLYVHIPFCHKLCYFCGCNKIVT--------RQQHKADQYLDALEQEIVHRAPLFA-GRHVSQLHWGGGTPTYLN  116 (441)
T ss_dssp             TTSCEEEEEEECEESSCCTTCCSSCEEC--------SCTHHHHHHHHHHHHHHHHHGGGGT-TCCEEEEEEEESCGGGSC
T ss_pred             CCCceEEEEEeCCCCCCCCCCcCeeecC--------CCcchHHHHHHHHHHHHHHhhHhcC-CCccceeEecCCCcCCCC
Confidence            5678999999999999999999987653        2356788999999999998766543 577999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHH
Q 012112          130 PRFVSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVK  209 (471)
Q Consensus       130 ~~~l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~  209 (471)
                      ++++.+|++.+++.|.+.+++|+|+|++|.+++.++++.|+++||||||+||||||+++|+.|||.|+.+++.++++.++
T Consensus       117 ~~~l~~ll~~l~~~~~~~~~~e~t~E~~P~~~~~~~l~~l~~~G~nRiSlGvQs~~~~vl~~i~R~~~~~~~~~~~~~~r  196 (441)
T d1olta_         117 KAQISRLMKLLRENFQFNADAEISIEVDPREIELDVLDHLRAEGFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAR  196 (441)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEEEEEECSSSCCTHHHHHHHHTTCCEEEEEEECCCHHHHHHHTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccchhcccccccccccchHHHHHHHHhCCceEEecchhcchhhhhhhhcCCCHHHHHHHHHHHH
Confidence            99999999999999999899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHH
Q 012112          210 LCGVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLS  289 (471)
Q Consensus       210 ~~G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~  289 (471)
                      ++||.+||+|||||+||||.++|.+||+.+++++|+||++|+|.++|+|...+ ...++..+|++++..+||..+.+.|.
T Consensus       197 ~~g~~~vn~DLI~GlPgqT~~~~~~tl~~~~~l~pd~is~y~~~~~p~~~~~q-~~~~~~~lp~~~~~~~~~~~~~~~L~  275 (441)
T d1olta_         197 EIGFTSTNIDLIYGLPKQTPESFAFTLKRVAELNPDRLSVFNYAHLPTIFAAQ-RKIKDADLPSPQQKLDILQETIAFLT  275 (441)
T ss_dssp             HTTCCSCEEEEEESCTTCCHHHHHHHHHHHHHHCCSEEEEEECCCCTTTSGGG-GGSCGGGSCCHHHHHHHHHHHHHHHH
T ss_pred             hcccceeecccccccCCcchHHHHHHHHHHHhhCCCccccccceeccchhHhh-hhccccchhhhHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999877665 44567788999999999999999999


Q ss_pred             HCCCceeccccccCCCcc------------hhhhhhhhcCCCEEEEccCcccccCCeEEEcCCChHHHHHHHHHHhcCCC
Q 012112          290 SAGYRHYEISSYGEDGYE------------CKHNLTYWKNKPFYGFGLGSASYLGGLRFSRPRRMKEFVDYVQNLEAGLV  357 (471)
Q Consensus       290 ~~Gy~~yeis~fa~~g~~------------~~hn~~yw~~~~ylG~G~gA~s~~~~~r~~n~~~~~~y~~~~~~~~~g~~  357 (471)
                      ++||.+|+++||+||+.+            +.||..+|...+++|||+||+|++++.+++|..++++|.+.   +++|.+
T Consensus       276 ~~GY~~~~~~~far~~~~~~~a~~~g~~~r~~~gy~~~~~~~~iGlG~sA~S~~~~~~~~N~~~l~~Y~~~---i~~g~l  352 (441)
T d1olta_         276 QSGYQFIGMDHFARPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISMIGDCYAQNQKELKQYYQQ---VDEQGN  352 (441)
T ss_dssp             HTTCEEEETTEEECTTSHHHHHHHHTCCEECSSCEESCCSCEEEEESTTCEEEETTEEEEECSSHHHHHHH---HHHHSC
T ss_pred             HcCchhhhHHHhhhcchhhhhhhhhhhhcccccccccCCCcceeecccCceeeeecceeeeehhhhhhhhh---hhhcCC
Confidence            999999999999999854            34667778889999999999999999999999999988754   567889


Q ss_pred             cccccccCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHH---HHHHHHHCCCEEEecCcccchhhhhhhhhh
Q 012112          358 DCWGNNHIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCK---AYKPYIESGHVICLDEWRRAMNIEEFNSLL  434 (471)
Q Consensus       358 ~~~~~~~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~---~~~~~~~~gll~~~~~~~~~l~~~~~~~~~  434 (471)
                      |+.....++.+|++.+.+|++||+..|||.+.|+++||.++.+.|.+   .++.|+++||++.++ +             
T Consensus       353 p~~~g~~Ls~~d~~~~~vi~~L~~~~~ld~~~~~~~fg~~~~~~f~~~~~~L~~l~~~GLv~~~~-~-------------  418 (441)
T d1olta_         353 ALWRGIALTRDDCIRRDVIKSLICNFRLDYSPIEQQWDLLFADYFAEDLKLLAPLAKDGLVDVDE-K-------------  418 (441)
T ss_dssp             CEEEEEECCHHHHHHHHHHHHHHHHSEEEHHHHHHHTTCCHHHHTHHHHHHHHHHHHTTSEEECS-S-------------
T ss_pred             cceeeeeCCHHHHHHHHHHHHHHHhCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCEEEEC-C-------------
Confidence            98777789999999999999999999999999999999999887764   567788899998654 3             


Q ss_pred             hhhhhcccccceeeecCchhhchHHHHHHHH
Q 012112          435 LDETKIGNRLAYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       435 ~~~~~~~~~~~~~~lt~~~G~~~~n~i~~~~  465 (471)
                                 +++|| ++|+++.|.|+..|
T Consensus       419 -----------~l~lT-~~Gr~l~~~I~~~F  437 (441)
T d1olta_         419 -----------GIQVT-AKGRLLIRNICMCF  437 (441)
T ss_dssp             -----------EEEEC-TTTGGGHHHHHHTT
T ss_pred             -----------EEEEC-HhHHHHHHHHHHHH
Confidence                       47997 99999999998866

>d1r30a_ c.1.28.1 (A:) Biotin synthase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Biotin synthase
domain: Biotin synthase
species: Escherichia coli [TaxId: 562]

Probab=99.79  E-value=9.9e-19  Score=171.60  Aligned_cols=201  Identities=13%  Similarity=0.142  Sum_probs=150.0

Q ss_pred             CCCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCC--CCHHHHHHHHHH
Q 012112           62 FCRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSL--VPPRFVSSILDT  139 (471)
Q Consensus        62 FC~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~--l~~~~l~~ll~~  139 (471)
                      .|+.+|.||+|.......       ........++.+++|++.....     ++..+++.||....  ...+.+.++++.
T Consensus        49 gC~~~C~fC~~~~~~~~~-------~~~~~~~~~e~i~~~~~~~~~~-----G~~~~~~~~g~~~~~~~~~~~~~~~i~~  116 (312)
T d1r30a_          49 ACPEDCKYCPQSSRYKTG-------LEAERLMEVEQVLESARKAKAA-----GSTRFCMGAAWKNPHERDMPYLEQMVQG  116 (312)
T ss_dssp             CBSSCCSSCSCBTTSCTT-------CCCCCCCCHHHHHHHHHHHHHT-----TCSEEEEEECCSSCCTTTHHHHHHHHHH
T ss_pred             CCCCcCCcCCCCccCCCC-------CccccccchHHHHHHHHHHHHc-----CCEEEEEccCCCCCchhhHHHHHHHHHh
Confidence            399999999987542111       0111112356667777655432     25556666664332  334555555555


Q ss_pred             HHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEee
Q 012112          140 LTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLD  219 (471)
Q Consensus       140 l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~D  219 (471)
                      +++.+       +.+.+++..++++.++.|+++|++++.+|++| +++.++.+.++++.++..++++.++++|+. ++..
T Consensus       117 ~~~~~-------~~~~~~~~~l~~e~l~~lk~aG~~~i~~~iEs-~~~~~~~~~~~~~~~~~~~~~~~a~~~Gi~-~~~~  187 (312)
T d1r30a_         117 VKAMG-------LEACMTLGTLSESQAQRLANAGLDYYNHNLDT-SPEFYGNIITTRTYQERLDTLEKVRDAGIK-VCSG  187 (312)
T ss_dssp             HHHTT-------SEEEEECSSCCHHHHHHHHHHCCCEEECCCBS-CHHHHHHHCCSSCHHHHHHHHHHHHHHHCE-EECC
T ss_pred             ccccc-------ceeeeccccchHHHHHHhhcccceeEecccch-hhhhhccCCCCCCHHHHHHHHHHHHHhccc-eecc
Confidence            55432       34445677899999999999999999999999 566788899999999999999999999997 9999


Q ss_pred             eecCCCCCCHHHHHHHHHHHHhCC--CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          220 LISSLPHQTPQMWEESLRRTVGAQ--PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       220 lI~GlPgqT~e~~~~~l~~~~~l~--p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                      +|+|+ |||.+++.+.+..+.+++  ++.++++.+.+.|||++...      +.++.++...+...++-+|..
T Consensus       188 ~i~G~-~et~~d~~~~l~~l~~l~~~~~~i~~~~~~p~~gT~l~~~------~~~~~~e~l~~iA~~Rl~lp~  253 (312)
T d1r30a_         188 GIVGL-GETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADN------DDVDAFDFIRTIAVARIMMPT  253 (312)
T ss_dssp             EEECS-SCCHHHHHHHHHHHHSSSSCCSEEEEEECCCCTTSTTSSC------CCCCHHHHHHHHHHHHHHCTT
T ss_pred             eEecC-cCcHHHHHHHHHHHHhcCCCCCeeeeccccCCCCcccccc------cCCCHHHHHHHHHHHHHhCCC
Confidence            99999 799999999999998775  57899999999999998754      456788888888777666544

>d1tv8a_ c.1.28.3 (A:) Molybdenum cofactor biosynthesis protein A MoaA {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: MoCo biosynthesis proteins
domain: Molybdenum cofactor biosynthesis protein A MoaA
species: Staphylococcus aureus [TaxId: 1280]

Probab=98.76  E-value=1.4e-07  Score=90.85  Aligned_cols=181  Identities=14%  Similarity=0.181  Sum_probs=122.3

Q ss_pred             eEEEEeccC-CCcCCcCCCCCcccCCCCCCCCCCCchhHHHHHHHHHHHHHhccCCCCCCCCeeEEEEcCCCCCCCCHHH
Q 012112           54 TSAYIHLPF-CRKRCHYCDFPIVALGSSPTQTNDDDPRVSNYIQLLCREIIATKPGHKTSPPLETVFFGGGTPSLVPPRF  132 (471)
Q Consensus        54 ~~lYiHIPF-C~~~C~yC~f~~~~~~~~~~~~~~~~~~~~~yv~~l~~Ei~~~~~~~~~~~~v~~i~fGGGTps~l~~~~  132 (471)
                      ..|.|+|-- |..+|.||.............. .....-..-+..+++|+...        ++..+.|.||-|.+ .++.
T Consensus        12 ~~l~ieiT~~CNlrC~~C~~~~~~~~~~~~~~-~~~~ls~e~~~~li~~~~~~--------g~~~v~~~GGEp~l-~~~~   81 (327)
T d1tv8a_          12 RDLRLSVTDRCNFRCDYCMPKEVFGDDFVFLP-KNELLTFDEMARIAKVYAEL--------GVKKIRITGGEPLM-RRDL   81 (327)
T ss_dssp             CEEEEECCSCCSCCCTTTSCTTTSSTTCCCCC-GGGSCCHHHHHHHHHHHHHT--------TCCEEEEESSCGGG-STTH
T ss_pred             CcEEEEeccccCCcCcCCCCccccCCCCccCC-ccccCCHHHHHHHHHHHHHc--------CCeEEEeCCCcccc-cccH
Confidence            468899988 9999999964322111000000 00001123445566776543        25667788888875 4444


Q ss_pred             HHHHHHHHHHHcCCCCCcEEEEEecCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc-CCCCCHHHHHHHHHHHHHc
Q 012112          133 VSSILDTLTDKFGLSLDAEISMEMDPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC-GRAHGLKEVYEAIEIVKLC  211 (471)
Q Consensus       133 l~~ll~~l~~~~~l~~~~eitiE~~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l-~R~~t~~~~~~ai~~~~~~  211 (471)
                      ++.+.. +.+..    .....+-+|-..++++.++.|+++|+.+|++.+++.+++.-+.+ ++..+.+.+.++++.++++
T Consensus        82 ~e~i~~-~~~~~----~~~~~~~Tng~ll~~~~~~~l~~~g~~~i~iSldg~~~e~~~~~rg~~g~~~~~~~~~~~~~~~  156 (327)
T d1tv8a_          82 DVLIAK-LNQID----GIEDIGLTTNGLLLKKHGQKLYDAGLRRINVSLDAIDDTLFQSINNRNIKATTILEQIDYATSI  156 (327)
T ss_dssp             HHHHHH-HTTCT----TCCEEEEEECSTTHHHHHHHHHHHTCCEEEEECCCSSHHHHHHHHSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHH-Hhhhc----cccccccccccccchhHHHHHHHcCCCEEeeecccCCHHHhhhheeeccccchhhhHHHHHHHc
Confidence            443333 32221    12333446667889999999999999999999999998877654 6677899999999999999


Q ss_pred             CCCeeEeeeecCCCCCCHHHHHHHHHHHHhCCCCcEEEEec
Q 012112          212 GVENWSLDLISSLPHQTPQMWEESLRRTVGAQPKHVSVYDL  252 (471)
Q Consensus       212 G~~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~p~his~y~l  252 (471)
                      |+. +.+..++ .++.+.+.+.+.++.+...+.+ +.+...
T Consensus       157 g~~-~~~~~~v-~~~~n~~~~~~~~~~~~~~~~~-~~~~~~  194 (327)
T d1tv8a_         157 GLN-VKVNVVI-QKGINDDQIIPMLEYFKDKHIE-IRFIEF  194 (327)
T ss_dssp             TCE-EEEEEEE-CTTTTGGGHHHHHHHHHHTTCC-EEEEEC
T ss_pred             CCC-cceeEEE-ecCccccccHHHHHHHHhhccc-cceeee
Confidence            986 7776654 5788889999999999999876 333333

>d3ctaa1 a.4.5.28 (A:5-89) Ta1064 (RFK), N-terminal domain {Thermoplasma acidophilum [TaxId: 2303]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Ta1064 (RFK), N-terminal domain
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=94.18  E-value=0.055  Score=40.55  Aligned_cols=65  Identities=8%  Similarity=0.061  Sum_probs=50.7

Q ss_pred             CCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHHH
Q 012112          383 RGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELI  462 (471)
Q Consensus       383 ~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i~  462 (471)
                      .++...++.++.|.+.. .+...++.|++.||+....+.                     |.-+++|| ++|..+...++
T Consensus        20 ~~lt~~eLa~~l~i~~~-~vs~~l~~Le~~GlV~r~~D~---------------------R~~~i~LT-~~G~~~l~~~~   76 (85)
T d3ctaa1          20 AYLTSSKLADMLGISQQ-SASRIIIDLEKNGYITRTVTK---------------------RGQILNIT-EKGLDVLYTEF   76 (85)
T ss_dssp             EECCHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEEEET---------------------TEEEEEEC-HHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCeeeeccc---------------------ccccceEC-HHHHHHHHHHH
Confidence            35778888888888754 467889999999999875432                     33468997 99999999999


Q ss_pred             HHHHhccc
Q 012112          463 SHAFGVID  470 (471)
Q Consensus       463 ~~~~~~~~  470 (471)
                      .++-..++
T Consensus        77 ~~~~rlle   84 (85)
T d3ctaa1          77 ADLSRILA   84 (85)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHhc
Confidence            88866554

>d2etha1 a.4.5.28 (A:1-140) Putative transcriptional regulator TM0816 {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Putative transcriptional regulator TM0816
species: Thermotoga maritima [TaxId: 2336]

Probab=92.55  E-value=0.16  Score=41.17  Aligned_cols=73  Identities=14%  Similarity=0.089  Sum_probs=56.9

Q ss_pred             HHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          373 DVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       373 e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      ..++..|....++...++++.+|.+-. .....++.|++.|||+...+.                  .+.|.-.|+|| +
T Consensus        35 ~~iL~~l~~~~~~t~~~La~~l~i~~~-~vs~~v~~L~~~gli~r~~~~------------------~D~R~~~l~lT-~   94 (140)
T d2etha1          35 LYAFLYVALFGPKKMKEIAEFLSTTKS-NVTNVVDSLEKRGLVVREMDP------------------VDRRTYRVVLT-E   94 (140)
T ss_dssp             HHHHHHHHHHCCBCHHHHHHHTTSCHH-HHHHHHHHHHHTTSEEEEECT------------------TTSSCEEEEEC-H
T ss_pred             HHHHHHHHHcCCcCHHHHHHHHCcCHH-HHHHHHHHHHHCCCeeeeecc------------------cccchhhhhcC-H
Confidence            455666677788999999999999864 567889999999999865421                  24566689997 9


Q ss_pred             hhhchHHHHHHHH
Q 012112          453 EGFLLSNELISHA  465 (471)
Q Consensus       453 ~G~~~~n~i~~~~  465 (471)
                      +|..+.+.+...+
T Consensus        95 ~G~~~~~~~~~~~  107 (140)
T d2etha1          95 KGKEIFGEILSNF  107 (140)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998875544

>d2hr3a1 a.4.5.28 (A:2-146) Probable transcriptional regulator PA3067 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Probable transcriptional regulator PA3067
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=91.88  E-value=0.25  Score=40.16  Aligned_cols=73  Identities=12%  Similarity=0.015  Sum_probs=51.1

Q ss_pred             HHHHhcc-ccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          374 VLMLSFR-TARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       374 ~~~~~Lr-~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      .++..|- ...++...++.++.|.+-. .+...++.|++.|||+...+.                  .+.|.-+|+|| +
T Consensus        38 ~vL~~L~~~~g~~t~~~La~~~~~~~~-~vs~~i~~L~~~glv~r~~~~------------------~DrR~~~i~LT-~   97 (145)
T d2hr3a1          38 VVLGAIDRLGGDVTPSELAAAERMRSS-NLAALLRELERGGLIVRHADP------------------QDGRRTRVSLS-S   97 (145)
T ss_dssp             HHHHHHHHTTSCBCHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEEEC------------------------CCEEEEC-H
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHCCCHH-HHHHHHHHHHHcCCeEeeeCc------------------cchhHHHhccC-H
Confidence            3444453 3345999999999999864 467889999999999865421                  13455589997 9


Q ss_pred             hhhchHHHHHHHHH
Q 012112          453 EGFLLSNELISHAF  466 (471)
Q Consensus       453 ~G~~~~n~i~~~~~  466 (471)
                      +|+.+.+.+.....
T Consensus        98 ~G~~~~~~~~~~~~  111 (145)
T d2hr3a1          98 EGRRNLYGNRAKRE  111 (145)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999877654443

>d1lj9a_ a.4.5.28 (A:) Transcriptional regulator SlyA {Enterococcus faecalis [TaxId: 1351]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator SlyA
species: Enterococcus faecalis [TaxId: 1351]

Probab=91.73  E-value=0.19  Score=40.97  Aligned_cols=72  Identities=11%  Similarity=0.131  Sum_probs=54.9

Q ss_pred             HHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchh
Q 012112          375 LMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEG  454 (471)
Q Consensus       375 ~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G  454 (471)
                      ++..|....|+...++.++++.+-. .+...++.|++.|||....+.                  ...|.-+|.|| ++|
T Consensus        34 iL~~i~~~~~~t~~~la~~l~i~~~-tvs~~l~~L~~~glI~r~~~~------------------~D~R~~~l~LT-~~G   93 (144)
T d1lj9a_          34 YLVRVCENPGIIQEKIAELIKVDRT-TAARAIKRLEEQGFIYRQEDA------------------SNKKIKRIYAT-EKG   93 (144)
T ss_dssp             HHHHHHHSTTEEHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECS------------------SCTTCEEEEEC-HHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHCccHh-hHHHHHHHHHhhhcccccCCC------------------CCCCccccccC-HHH
Confidence            3444555789999999999999854 577899999999999865421                  13456689997 999


Q ss_pred             hchHHHHHHHHH
Q 012112          455 FLLSNELISHAF  466 (471)
Q Consensus       455 ~~~~n~i~~~~~  466 (471)
                      .-+.+.+...+-
T Consensus        94 ~~~~~~~~~~~~  105 (144)
T d1lj9a_          94 KNVYPIIVRENQ  105 (144)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999988765543

>d1hsja1 a.4.5.28 (A:373-487) Staphylococcal accessory regulator A homolog, SarR {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarR
species: Staphylococcus aureus [TaxId: 1280]

Probab=91.20  E-value=0.27  Score=38.55  Aligned_cols=86  Identities=10%  Similarity=-0.002  Sum_probs=61.4

Q ss_pred             cCCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccc
Q 012112          364 HIDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNR  443 (471)
Q Consensus       364 ~l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~  443 (471)
                      .++..+...=..+ ......|+...+++++.|.+-. .....++.|++.||+....+                  ..+.|
T Consensus        29 ~Lt~~q~~vL~~l-~~~~~~~~t~~ela~~l~~~~~-~vs~~i~~Le~~gli~r~~~------------------~~D~R   88 (115)
T d1hsja1          29 NLNYEEIYILNHI-LRSESNEISSKEIAKCSEFKPY-YLTKALQKLKDLKLLSKKRS------------------LQDER   88 (115)
T ss_dssp             CCCHHHHHHHHHH-HTCSCSEEEHHHHHHSSCCCHH-HHHHHHHHHHTTTTSCCEEC------------------CSSSS
T ss_pred             CCCHHHHHHHHHH-HccCCCCcCHHHHHHHHCCChh-hHHHHHHHHHHcCCeEEEee------------------cCCCc
Confidence            4666543222111 2223457999999999999854 46788999999999975421                  12456


Q ss_pred             cceeeecCchhhchHHHHHHHHHhccc
Q 012112          444 LAYFRLSDPEGFLLSNELISHAFGVID  470 (471)
Q Consensus       444 ~~~~~lt~~~G~~~~n~i~~~~~~~~~  470 (471)
                      .-+|.|| ++|..+.+.++.++-.+|.
T Consensus        89 ~~~i~LT-~~G~~~~~~~~~~~~~~i~  114 (115)
T d1hsja1          89 TVIVYVT-DTQKANIQKLISELEEYIK  114 (115)
T ss_dssp             CCEEECC-SSHHHHHHHHHHHHGGGSC
T ss_pred             eEEEEEC-HHHHHHHHHHHHHHHHHhc
Confidence            6689997 9999999999999887775

>d2fbia1 a.4.5.28 (A:5-140) Probable transcriptional regulator PA4135 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Probable transcriptional regulator PA4135
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=91.04  E-value=0.18  Score=40.68  Aligned_cols=72  Identities=10%  Similarity=0.029  Sum_probs=54.0

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++.-|....++...++.+.++.+-. .+...++.|++.|||+...+.                  .+.|.-.|+|| ++
T Consensus        34 ~vL~~l~~~~~~t~~~la~~~~i~~~-~vs~~i~~L~~~gli~r~~~~------------------~D~R~~~l~lT-~~   93 (136)
T d2fbia1          34 RVIRILRQQGEMESYQLANQACILRP-SMTGVLARLERDGIVRRWKAP------------------KDQRRVYVNLT-EK   93 (136)
T ss_dssp             HHHHHHHHHCSEEHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEEEEET------------------TEEEEEEEEEC-HH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHCCCHH-HHHHHHHHHHHCCCEEEeecC------------------ccCchhhhccC-HH
Confidence            33444556778999999999999864 567889999999999865321                  13455579997 99


Q ss_pred             hhchHHHHHHHH
Q 012112          454 GFLLSNELISHA  465 (471)
Q Consensus       454 G~~~~n~i~~~~  465 (471)
                      |..+.+.+....
T Consensus        94 G~~~~~~~~~~~  105 (136)
T d2fbia1          94 GQQCFVSMSGDM  105 (136)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999876543

>d1jgsa_ a.4.5.28 (A:) Multiple antibiotic resistance repressor, MarR {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Multiple antibiotic resistance repressor, MarR
species: Escherichia coli [TaxId: 562]

Probab=90.89  E-value=0.4  Score=38.61  Aligned_cols=76  Identities=17%  Similarity=0.163  Sum_probs=56.6

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   ..++.-|....|+...++.+..+.+-. .....+++|+++|||+...+.                  ...|.
T Consensus        32 Lt~~q---~~vL~~l~~~~~~t~~ela~~~~i~~~-~vs~~v~~L~~~glv~r~~~~------------------~D~R~   89 (138)
T d1jgsa_          32 ITAAQ---FKVLCSIRCAACITPVELKKVLSVDLG-ALTRMLDRLVCKGWVERLPNP------------------NDKRG   89 (138)
T ss_dssp             SCHHH---HHHHHHHHHHSSBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECT------------------TCSSC
T ss_pred             CCHHH---HHHHHhHHhCcCCCHHHHHHHHCCCHh-HHHHHHHHHhhCCCEEEeecc------------------CCCCe
Confidence            55543   445555566679999999999999864 467889999999999865321                  13455


Q ss_pred             ceeeecCchhhchHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELIS  463 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~  463 (471)
                      -.|+|| ++|..+.+.+..
T Consensus        90 ~~i~lT-~~G~~~~~~~~~  107 (138)
T d1jgsa_          90 VLVKLT-TGGAAICEQCHQ  107 (138)
T ss_dssp             EEEEEC-HHHHHHHHHHHH
T ss_pred             eEEEEC-HHHHHHHHHHHH
Confidence            679997 999999877654

>d1qwga_ c.1.27.1 (A:) (2r)-phospho-3-sulfolactate synthase ComA {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (2r)-phospho-3-sulfolactate synthase ComA
family: (2r)-phospho-3-sulfolactate synthase ComA
domain: (2r)-phospho-3-sulfolactate synthase ComA
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=90.79  E-value=1.2  Score=39.79  Aligned_cols=117  Identities=18%  Similarity=0.113  Sum_probs=85.1

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEe------cCCCCCHHHHHHHHHCCCCEEEEccCCCCHHH
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEM------DPGTFDARKMEELMDLGVNRVSLGVQAFQDEL  188 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~------~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~  188 (471)
                      ++.+-||+||-.+.+.+.+.+.++..+++ +    +.+..-.      .-...-++.++..++.|++.|.+.==|.    
T Consensus        39 ID~~K~g~Gt~~l~p~~~l~eKI~l~~~~-~----V~v~~GGtlfE~a~~qg~~~~y~~~~~~lGf~~iEiSdg~~----  109 (251)
T d1qwga_          39 IDFVKFGWGTSAVIDRDVVKEKINYYKDW-G----IKVYPGGTLFEYAYSKGKFDEFLNECEKLGFEAVEISDGSS----  109 (251)
T ss_dssp             CSEEEECTTGGGGSCHHHHHHHHHHHHTT-T----CEEEECHHHHHHHHHTTCHHHHHHHHHHHTCCEEEECCSSS----
T ss_pred             eeEEEecCceeeecCHHHHHHHHHHHHHc-C----CeEeCCcHHHHHHHHcCCHHHHHHHHHHcCCCEEEEcCCcc----
Confidence            78899999999999999999999988864 2    2222210      0112357999999999999987764443    


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCC------CCCHHHHHHHHHHHHhCCCCcEEE
Q 012112          189 LKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLP------HQTPQMWEESLRRTVGAQPKHVSV  249 (471)
Q Consensus       189 L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlP------gqT~e~~~~~l~~~~~l~p~his~  249 (471)
                            ..+.++..+.++.+++.|+. |-.-  +|--      --+.+.|.+.++..++.|.++|-+
T Consensus       110 ------~i~~~~~~~~I~~~~~~G~~-V~~E--vG~K~~~~~~~~~~~~~i~~~~~~LeaGA~~Vii  167 (251)
T d1qwga_         110 ------DISLEERNNAIKRAKDNGFM-VLTE--VGKKMPDKDKQLTIDDRIKLINFDLDAGADYVII  167 (251)
T ss_dssp             ------CCCHHHHHHHHHHHHHTTCE-EEEE--ECCSSHHHHTTCCHHHHHHHHHHHHHHTCSEEEE
T ss_pred             ------CCCHHHHHHHHHHHHhCCCE-Eeec--ccCCCCCCccccCHHHHHHHHHHHHHCCCceeEe
Confidence                  24566778899999999996 3322  2322      136899999999999999987744

>d2a61a1 a.4.5.28 (A:5-143) Transcriptional regulator TM0710 {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator TM0710
species: Thermotoga maritima [TaxId: 2336]

Probab=90.68  E-value=0.24  Score=39.98  Aligned_cols=73  Identities=10%  Similarity=0.048  Sum_probs=54.3

Q ss_pred             HHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          373 DVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       373 e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      -.++..|....|+...+++++.|.+-. .+...++.|++.||+....+.                  .+.|.-.|+|| +
T Consensus        33 ~~iL~~i~~~~~~t~~~la~~l~i~~~-tvs~~l~~L~~~gli~r~~~~------------------~D~R~~~i~LT-~   92 (139)
T d2a61a1          33 FDILQKIYFEGPKRPGELSVLLGVAKS-TVTGLVKRLEADGYLTRTPDP------------------ADRRAYFLVIT-R   92 (139)
T ss_dssp             HHHHHHHHHHCCBCHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEEET------------------TEEEEEEEEEC-H
T ss_pred             HHHHHHHHHcCCCCHHHHHHHhCCCcc-cchHHHHHHHhcCeeeeeecc------------------CCCCeEEEEEC-H
Confidence            344555556678999999999999865 467889999999999865321                  13455579997 9


Q ss_pred             hhhchHHHHHHHH
Q 012112          453 EGFLLSNELISHA  465 (471)
Q Consensus       453 ~G~~~~n~i~~~~  465 (471)
                      +|..+...+...+
T Consensus        93 ~G~~~~~~~~~~~  105 (139)
T d2a61a1          93 KGEEVIEKVIERR  105 (139)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999888774443

>d1lnwa_ a.4.5.28 (A:) MexR repressor {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: MexR repressor
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=90.59  E-value=0.4  Score=38.79  Aligned_cols=78  Identities=13%  Similarity=0.133  Sum_probs=57.1

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   ..++.-|....|+...++.+..+.+-. .+...++.|++.|||....+.                  -..|.
T Consensus        34 lt~~q---~~vL~~l~~~~~~t~~~la~~l~~~~~-~vsr~l~~L~~~G~v~r~~~~------------------~D~R~   91 (141)
T d1lnwa_          34 LTPPD---VHVLKLIDEQRGLNLQDLGRQMCRDKA-LITRKIRELEGRNLVRRERNP------------------SDQRS   91 (141)
T ss_dssp             CCHHH---HHHHHHHHSSTTCBHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEEEECS------------------SSSSS
T ss_pred             CCHHH---HHHHHHHHHCCCCCHHHHHHHHCccHh-HHHHHHHHHHHhhceeeeccC------------------CCCcc
Confidence            55543   345555566788999999999999864 577889999999999865421                  12455


Q ss_pred             ceeeecCchhhchHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      -.+.|| ++|..+.+.+...+
T Consensus        92 ~~l~lT-~~G~~~~~~~~~~~  111 (141)
T d1lnwa_          92 FQLFLT-DEGLAIHQHAEAIM  111 (141)
T ss_dssp             EEEEEC-HHHHHHHHHHHHHH
T ss_pred             hhhccC-HHHHHHHHHHHHHH
Confidence            579997 99999888765443

>d2frha1 a.4.5.28 (A:102-216) Pleiotropic regulator of virulence genes, SarA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Pleiotropic regulator of virulence genes, SarA
species: Staphylococcus aureus [TaxId: 1280]

Probab=89.49  E-value=0.23  Score=38.97  Aligned_cols=66  Identities=14%  Similarity=-0.020  Sum_probs=51.4

Q ss_pred             CCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHHHH
Q 012112          384 GVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELIS  463 (471)
Q Consensus       384 gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i~~  463 (471)
                      ++...++.+..+.+-. .....++.|++.||+....+.                  .+.|.-+|.|| ++|..+.++++.
T Consensus        49 ~~t~~~la~~l~~~~~-tvs~~i~~Le~~gli~r~~~~------------------~D~R~~~i~LT-~~G~~~~~~~~~  108 (115)
T d2frha1          49 EYYLKDIINHLNYKQP-QVVKAVKILSQEDYFDKKRNE------------------HDERTVLILVN-AQQRKKIESLLS  108 (115)
T ss_dssp             EEEHHHHHHHSSSHHH-HHHHHHHHHHHTTSSCCBCCS------------------SSSCCCEEECC-SHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHCCCHh-HHHHHHHHHHhhhhheeeecc------------------cCCceEEEEEC-HHHHHHHHHHHH
Confidence            4889999999988753 467789999999999765321                  24556689997 999999999988


Q ss_pred             HHHhcc
Q 012112          464 HAFGVI  469 (471)
Q Consensus       464 ~~~~~~  469 (471)
                      ++-..|
T Consensus       109 ~~~~~i  114 (115)
T d2frha1         109 RVNKRI  114 (115)
T ss_dssp             HHHHHH
T ss_pred             HHHhhc
Confidence            776544

>d1h4pa_ c.1.8.3 (A:) Exo-beta-(1,3)-glucanase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: beta-glycanases
domain: Exo-beta-(1,3)-glucanase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.89  E-value=0.58  Score=45.01  Aligned_cols=119  Identities=13%  Similarity=0.022  Sum_probs=69.4

Q ss_pred             CCCHHHHHHHHHCCCCEEEEc--cCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCC----------
Q 012112          160 TFDARKMEELMDLGVNRVSLG--VQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQ----------  227 (471)
Q Consensus       160 ~l~~e~l~~l~~~GvnrvsiG--vQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgq----------  227 (471)
                      -+|++.++.|+++|+|.|-|.  -..+.+..-...-.....+.+.++|+.++++|+. |-+|+- |+||-          
T Consensus        73 ~ite~D~~~i~~~G~N~VRiPi~~~~~~~~~~~~~~~~~~~~~ld~~v~~a~~~gl~-VilDlH-~~pG~~~~~~~~~~~  150 (408)
T d1h4pa_          73 FYQEQDFANIASQGFNLVRIPIGYWAFQILDDDPYVSGLQESYLDQAIGWARNNSLK-VWVDLH-GAAGSQNGFDNSGLR  150 (408)
T ss_dssp             HSCHHHHHHHHHTTCCEEEEEEEGGGTCCCTTCCCCCSSHHHHHHHHHHHHHHTTCE-EEEEEE-ECTTCSSCCGGGSST
T ss_pred             cCCHHHHHHHHHCCCCEEEEeccHHHhcCCCCCCCcChhHHHHHHHHHHHHHHCCCE-EEEEeC-CCCCCCcCCCCCCcc
Confidence            479999999999999965554  3444321111111122356688999999999997 889964 55651          


Q ss_pred             ------CHHHHH---HHHHHHHh-CCC----CcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012112          228 ------TPQMWE---ESLRRTVG-AQP----KHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSS  290 (471)
Q Consensus       228 ------T~e~~~---~~l~~~~~-l~p----~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  290 (471)
                            +.+..+   +.++.+.+ +.-    +.|..|.+.-||..+...          ..+.....|..+.+...+
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~ia~r~~~~~~~~~v~g~el~NEP~~~~~~----------~~~~~~~~~~~~~~~iR~  217 (408)
T d1h4pa_         151 DSYKFLEDSNLAVTINVLNYILKKYSAEEYLDIVIGIELINEPLGPVLD----------MDKMKNDYLAPAYEYLRN  217 (408)
T ss_dssp             TCCCTTSHHHHHHHHHHHHHHHHHTTSHHHHTTEEEEESCSCCCGGGSC----------HHHHHHHTHHHHHHHHHH
T ss_pred             cccccCCchHHHHHHHHHHHHHHHhcccccccceeeeecccCccccccc----------hHHHHHHHHHHHHHHHHh
Confidence                  123333   33343332 331    347778888888543211          123344455666666654

>d2fbha1 a.4.5.28 (A:8-144) Transcriptional regulator PA3341 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator PA3341
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=88.86  E-value=0.81  Score=36.45  Aligned_cols=65  Identities=17%  Similarity=0.133  Sum_probs=50.4

Q ss_pred             cCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHH
Q 012112          382 ARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNEL  461 (471)
Q Consensus       382 ~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i  461 (471)
                      ..|+...++.+.++.+-. .+...+++|++.|||....+.                  ...|.-.|+|| ++|..+.+.+
T Consensus        41 ~~~~t~~~la~~~~~~~~-~vs~~v~~L~~~gli~r~~~~------------------~D~R~~~i~lT-~~G~~~~~~~  100 (137)
T d2fbha1          41 RDSPTQRELAQSVGVEGP-TLARLLDGLESQGLVRRLAVA------------------EDRRAKHIVLT-PKADVLIADI  100 (137)
T ss_dssp             SSCCBHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEECCB------------------TTBCSCEEEEC-TTHHHHHHHH
T ss_pred             CCCCcHHHHHHHHCCCHH-HHHHHHHHHHHcCCccccCCC------------------CCCCchhhhcC-HHHHHHHHHH
Confidence            357999999999999854 477899999999999876421                  13455679997 9999998887


Q ss_pred             HHHHH
Q 012112          462 ISHAF  466 (471)
Q Consensus       462 ~~~~~  466 (471)
                      ...+.
T Consensus       101 ~~~~~  105 (137)
T d2fbha1         101 EAIAA  105 (137)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55443

>d3broa1 a.4.5.28 (A:3-137) Transcriptional regulator OEOE1854 {Oenococcus oeni [TaxId: 1247]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator OEOE1854
species: Oenococcus oeni [TaxId: 1247]

Probab=88.19  E-value=0.81  Score=36.33  Aligned_cols=65  Identities=11%  Similarity=-0.010  Sum_probs=49.8

Q ss_pred             CCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHHH
Q 012112          383 RGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELI  462 (471)
Q Consensus       383 ~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i~  462 (471)
                      .++...++.+..|.+-. .....++.|++.||+....+.                  ...|.-.|+|| ++|..+...+.
T Consensus        44 ~~it~~ela~~~~~~~~-~vs~~l~~L~~~g~v~r~~~~------------------~D~R~~~i~lT-~~G~~~~~~~~  103 (135)
T d3broa1          44 KEVLQRDLESEFSIKSS-TATVLLQRMEIKKLLYRKVSG------------------KDSRQKCLKLT-KKANKLETIIL  103 (135)
T ss_dssp             SCCBHHHHHHHHTCCHH-HHHHHHHHHHHTTSEEEEECS------------------SCTTSEEEEEC-HHHHTTHHHHH
T ss_pred             CCCCHHHHHHHHCcCHh-HHHHHHHHHHHHHHHHHHhhh------------------hhhhhhhhccc-HHHHHHHHHHH
Confidence            44999999999999864 456889999999999765321                  13445579997 99999998886


Q ss_pred             HHHHh
Q 012112          463 SHAFG  467 (471)
Q Consensus       463 ~~~~~  467 (471)
                      ..+-.
T Consensus       104 ~~~~~  108 (135)
T d3broa1         104 SYMDS  108 (135)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65543

>d1i60a_ c.1.15.4 (A:) Hypothetical protein IolI {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Xylose isomerase-like
family: IolI-like
domain: Hypothetical protein IolI
species: Bacillus subtilis [TaxId: 1423]

Probab=88.16  E-value=0.94  Score=40.40  Aligned_cols=119  Identities=13%  Similarity=0.109  Sum_probs=76.3

Q ss_pred             HHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCCCH-------HHHHHH
Q 012112          163 ARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQTP-------QMWEES  235 (471)
Q Consensus       163 ~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgqT~-------e~~~~~  235 (471)
                      ++.++..+++|+..|.+-.....+.    .....+.+   +..+.+.+.|+..+++..+.++.....       +.+++.
T Consensus        17 ~~~l~~a~~~Gf~~IEl~~~~~~~~----~~~~~~~~---~l~~~l~~~gl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (278)
T d1i60a_          17 KLDLELCEKHGYDYIEIRTMDKLPE----YLKDHSLD---DLAEYFQTHHIKPLALNALVFFNNRDEKGHNEIITEFKGM   89 (278)
T ss_dssp             HHHHHHHHHTTCSEEEEETTTHHHH----HTTSSCHH---HHHHHHHTSSCEEEEEEEEECCSSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCEEEeCCcccccc----ccCcccHH---HHHHHHHHcCCcEEEEecCCCCCCCCHHHHHHHHHHHHHH
Confidence            6889999999999999854432222    22233344   455677888998888988888877543       455667


Q ss_pred             HHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCc-eecc
Q 012112          236 LRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYR-HYEI  298 (471)
Q Consensus       236 l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~-~yei  298 (471)
                      ++.+..++.+.|.+.+.....+....+          ..+...+.+..+.+.+++.|.. -+|.
T Consensus        90 i~~a~~lG~~~i~~~~~~~~~~~~~~~----------~~~~~~~~l~~l~~~a~~~Gv~l~lE~  143 (278)
T d1i60a_          90 METCKTLGVKYVVAVPLVTEQKIVKEE----------IKKSSVDVLTELSDIAEPYGVKIALEF  143 (278)
T ss_dssp             HHHHHHHTCCEEEEECCBCSSCCCHHH----------HHHHHHHHHHHHHHHHGGGTCEEEEEC
T ss_pred             HHHHHHcCCCccccccccCCCCCCHHH----------HHHHHHHHHHHHHHHHHHhCCeeeeee
Confidence            777888999988666432211110000          0134456677888888899974 3443

>d3deua1 a.4.5.28 (A:2-141) Transcriptional regulator SlyA {Salmonella typhimurium [TaxId: 90371]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator SlyA
species: Salmonella typhimurium [TaxId: 90371]

Probab=88.11  E-value=0.71  Score=36.96  Aligned_cols=71  Identities=10%  Similarity=0.074  Sum_probs=49.4

Q ss_pred             HHHhcc-ccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          375 LMLSFR-TARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       375 ~~~~Lr-~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      ++..|. ...|+...++.+.++.+-. .+...++.|++.|||....+.                  ...|.-.|+|| ++
T Consensus        36 ~L~~l~~~~~~~t~~~la~~l~i~~~-~vs~~l~~L~~~glI~~~~~~------------------~D~R~~~l~lT-~~   95 (140)
T d3deua1          36 TLHNIHQLPPDQSQIQLAKAIGIEQP-SLVRTLDQLEDKGLISRQTCA------------------SDRRAKRIKLT-EK   95 (140)
T ss_dssp             HHHHHHHSCSSEEHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEC--------------------------CEEEEC-GG
T ss_pred             HHHHHHHcCCCccHHHHHHHHCCCHh-HHHHHHHHHHhCCCEEecccC------------------CCCCceeeEEC-HH
Confidence            334443 3457999999999999864 467899999999999864321                  23556689997 99


Q ss_pred             hhchHHHHHHHH
Q 012112          454 GFLLSNELISHA  465 (471)
Q Consensus       454 G~~~~n~i~~~~  465 (471)
                      |+.+.+.+...+
T Consensus        96 G~~~~~~~~~~~  107 (140)
T d3deua1          96 AEPLIAEMEEVI  107 (140)
T ss_dssp             GHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998875543

>d1p4xa2 a.4.5.28 (A:126-250) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarS
species: Staphylococcus aureus [TaxId: 1280]

Probab=87.99  E-value=0.5  Score=37.60  Aligned_cols=70  Identities=14%  Similarity=0.100  Sum_probs=53.7

Q ss_pred             cccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHH
Q 012112          380 RTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSN  459 (471)
Q Consensus       380 r~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n  459 (471)
                      ....|+...++.+..|.+-. .....+++|++.||+....+                  ..+.|.-+|.|| ++|..+.+
T Consensus        45 ~~~~~~~~~~ia~~l~~~~~-~vs~~v~~L~~~glV~r~~~------------------~~D~R~v~i~LT-~~G~~~~~  104 (125)
T d1p4xa2          45 QNKNIVLLKDLIETIHHKYP-QTVRALNNLKKQGYLIKERS------------------TEDERKILIHMD-DAQQDHAE  104 (125)
T ss_dssp             TTTCCEEHHHHHHHSSSCHH-HHHHHHHHHHHHTSSEEEEC------------------SSSTTCEEEECC-HHHHHHHH
T ss_pred             ccCCCccHHHHHHHHCCCcc-hHHHHHHHHHhccCEeeeec------------------CCCCCeEEEEEC-HHHHHHHH
Confidence            33457899999999998864 46778999999999976532                  124566689997 99999999


Q ss_pred             HHHHHHHhcc
Q 012112          460 ELISHAFGVI  469 (471)
Q Consensus       460 ~i~~~~~~~~  469 (471)
                      +++..+=..+
T Consensus       105 ~l~~~~~~~i  114 (125)
T d1p4xa2         105 QLLAQVNQLL  114 (125)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            9887765443

>d1s3ja_ a.4.5.28 (A:) Putative transcriptional regulator YusO {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Putative transcriptional regulator YusO
species: Bacillus subtilis [TaxId: 1423]

Probab=87.58  E-value=0.48  Score=38.23  Aligned_cols=71  Identities=10%  Similarity=0.128  Sum_probs=53.4

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCch
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPE  453 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~  453 (471)
                      .++..|....|+...++++..+.+-. .....++.|++.|||....+.                  ...|.-+|+|| ++
T Consensus        39 ~iL~~l~~~~~~t~~~la~~~~i~~~-~vs~~l~~L~~~glv~r~~~~------------------~D~R~~~v~lT-~~   98 (143)
T d1s3ja_          39 FVLASLKKHGSLKVSEIAERMEVKPS-AVTLMADRLEQKNLIARTHNT------------------KDRRVIDLSLT-DE   98 (143)
T ss_dssp             HHHHHHHHHSEEEHHHHHHHHTSCHH-HHHHHHHHHHHTTSEEEEECS------------------SCTTSEEEEEC-HH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHCcCHH-HHHHHHHHHHHhhhheeeeec------------------CCCCceEEEEC-HH
Confidence            44455555678999999999999854 467889999999999865321                  13455689997 99


Q ss_pred             hhchHHHHHHH
Q 012112          454 GFLLSNELISH  464 (471)
Q Consensus       454 G~~~~n~i~~~  464 (471)
                      |..+.+.+...
T Consensus        99 G~~~~~~~~~~  109 (143)
T d1s3ja_          99 GDIKFEEVLAG  109 (143)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998876443

>d1vjza_ c.1.8.3 (A:) Endoglucanase homologue TM1752 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: beta-glycanases
domain: Endoglucanase homologue TM1752
species: Thermotoga maritima [TaxId: 2336]

Probab=87.11  E-value=1.2  Score=40.36  Aligned_cols=128  Identities=9%  Similarity=0.027  Sum_probs=75.0

Q ss_pred             CCCCHHHHHHHHHCCCCEEEE--ccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCC---------
Q 012112          159 GTFDARKMEELMDLGVNRVSL--GVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQ---------  227 (471)
Q Consensus       159 ~~l~~e~l~~l~~~Gvnrvsi--GvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgq---------  227 (471)
                      ..++++.++.|+++|+|-|-|  +-+-+.++.--..-.....+.+.++|+.++++|+. |-+|+- +.||.         
T Consensus        19 ~~~~e~d~~~l~~~G~n~vRlpv~~~~~~~~~~~~~~~~~~l~~ld~~v~~~~~~gi~-vildlH-~~pg~~~~~~~~~~   96 (325)
T d1vjza_          19 GNFKEEDFLWMAQWDFNFVRIPMCHLLWSDRGNPFIIREDFFEKIDRVIFWGEKYGIH-ICISLH-RAPGYSVNKEVEEK   96 (325)
T ss_dssp             CCCCHHHHHHHHHTTCCEEEEEEEGGGTSCSSCTTCCCGGGHHHHHHHHHHHHHHTCE-EEEEEE-EETTEESCTTSCCS
T ss_pred             CCCCHHHHHHHHHcCCCEEEecccHHHccCCCCCCccCHHHHHHHHHHHHHHHHcCCc-EEEeec-cccccccCcccccc
Confidence            346899999999999995555  44444332100000112367788999999999997 778774 23321         


Q ss_pred             --------CHHHHHHHHHHHHh-C--CCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCcee
Q 012112          228 --------TPQMWEESLRRTVG-A--QPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHY  296 (471)
Q Consensus       228 --------T~e~~~~~l~~~~~-l--~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~y  296 (471)
                              +.+.+......+.+ +  ....|-.|.+.-||.....        ..+..+....++..+.+.+.+.+-.+.
T Consensus        97 ~~~~~~~~~~~~~~~~w~~~a~~~~~~~~~i~~~el~NEP~~~~~--------~~~~~~~~~~~~~~~~~~ir~~~p~~~  168 (325)
T d1vjza_          97 TNLWKDETAQEAFIHHWSFIARRYKGISSTHLSFNLINEPPFPDP--------QIMSVEDHNSLIKRTITEIRKIDPERL  168 (325)
T ss_dssp             SCTTTCHHHHHHHHHHHHHHHHHHTTSCTTTEEEECSSCCCCCBT--------TTBCHHHHHHHHHHHHHHHHHHCTTCC
T ss_pred             cccccchhhHHHHHHHHHHHHHHhcccceeEEeeeccccCCCCcc--------ccchhhhhhhHHHHHHHHHhccCCCcE
Confidence                    01122222222221 2  2344667888888854321        123456666778888888887666543

>d2bv6a1 a.4.5.28 (A:5-140) Transcriptional regulator MgrA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator MgrA
species: Staphylococcus aureus [TaxId: 1280]

Probab=86.98  E-value=0.27  Score=39.51  Aligned_cols=70  Identities=11%  Similarity=0.076  Sum_probs=53.1

Q ss_pred             HHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          373 DVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       373 e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      ..++.-|....|+...++.+..|.+-. .....++.|++.||++...+.                  .+.|.-++.|| +
T Consensus        37 ~~vL~~i~~~~~~t~~~la~~l~~~~~-~~s~~l~~L~~~Gli~r~~~~------------------~D~R~~~l~lT-~   96 (136)
T d2bv6a1          37 FLVLTILWDESPVNVKKVVTELALDTG-TVSPLLKRMEQVDLIKRERSE------------------VDQREVFIHLT-D   96 (136)
T ss_dssp             HHHHHHHHHSSEEEHHHHHHHTTCCTT-THHHHHHHHHHTTSEEEEECS------------------SSTTCEEEEEC-H
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHCCCHh-HHHHHHHHHHHCCCEEEeecC------------------CcccchhhccC-H
Confidence            345556666789999999999998853 467889999999999865321                  23455689997 9


Q ss_pred             hhhchHHHHH
Q 012112          453 EGFLLSNELI  462 (471)
Q Consensus       453 ~G~~~~n~i~  462 (471)
                      +|..+.+.+.
T Consensus        97 ~G~~~~~~~~  106 (136)
T d2bv6a1          97 KSETIRPELS  106 (136)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            9998877653

>d2fxaa1 a.4.5.28 (A:6-167) Protease production regulatory protein Hpr {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Protease production regulatory protein Hpr
species: Bacillus subtilis [TaxId: 1423]

Probab=86.68  E-value=0.49  Score=39.46  Aligned_cols=78  Identities=14%  Similarity=0.114  Sum_probs=54.8

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+.   .++.-|....|+...++.+..+.+-. .....+++|++.|||....+.                  .+.|.
T Consensus        39 Lt~~q~---~vL~~l~~~~~~t~~~la~~~~l~~~-tvs~~i~rL~~~gli~r~~~~------------------~D~R~   96 (162)
T d2fxaa1          39 LNINEH---HILWIAYQLNGASISEIAKFGVMHVS-TAFNFSKKLEERGYLRFSKRL------------------NDKRN   96 (162)
T ss_dssp             CCHHHH---HHHHHHHHHTSEEHHHHHHHTTCCHH-HHHHHHHHHHHHTSEEEECC------------------------
T ss_pred             CCHHHH---HHHhhhccCCCcCHHHHHHHHcCCch-hhHHHHHHHHHCCCceeeccc------------------ccCee
Confidence            555443   34455556678999999999998854 567889999999999865421                  24566


Q ss_pred             ceeeecCchhhchHHHHHHHH
Q 012112          445 AYFRLSDPEGFLLSNELISHA  465 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i~~~~  465 (471)
                      -+++|| ++|..+.+++...+
T Consensus        97 ~~l~lT-~~G~~~~~~~~~~~  116 (162)
T d2fxaa1          97 TYVQLT-EEGTEVFWSLLEEF  116 (162)
T ss_dssp             CEEEEC-HHHHHHHHHHHHHC
T ss_pred             eeeccC-HhHHHHHHHHHHHH
Confidence            689997 99999988775543

>d2pb1a1 c.1.8.3 (A:7-400) Exo-beta-(1,3)-glucanase {Yeast (Candida albicans) [TaxId: 5476]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: beta-glycanases
domain: Exo-beta-(1,3)-glucanase
species: Yeast (Candida albicans) [TaxId: 5476]

Probab=86.37  E-value=1.3  Score=41.97  Aligned_cols=122  Identities=16%  Similarity=0.104  Sum_probs=75.7

Q ss_pred             CCCHHHHHHHHHCCCCEEEEcc--CCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCC----------
Q 012112          160 TFDARKMEELMDLGVNRVSLGV--QAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQ----------  227 (471)
Q Consensus       160 ~l~~e~l~~l~~~GvnrvsiGv--QS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgq----------  227 (471)
                      -+|++.++.|+++|+|.|-|.|  ..+.+.--... .....+.+.++|+.++++|+. |-+|+-. .||.          
T Consensus        68 ~it~~D~~~i~~~G~N~VRiPv~~~~~~~~~~~~~-~~~~~~~ld~~i~~a~~~gl~-VilDlH~-~pg~~~~~~~~g~~  144 (394)
T d2pb1a1          68 WITEQDFKQISNLGLNFVRIPIGYWAFQLLDNDPY-VQGQVQYLEKALGWARKNNIR-VWIDLHG-APGSQNGFDNSGLR  144 (394)
T ss_dssp             SSCHHHHHHHHHTTCCEEEEEEEGGGTCCCTTCCC-CCCHHHHHHHHHHHHHHTTCE-EEEEEEE-CTTCSSCCGGGSST
T ss_pred             cCCHHHHHHHHHCCCCEEEEEecHHHhcCCCCCcc-chhHHHHHHHHHHHHHHCCcE-EEEEeec-cCCcccCcCCcCcc
Confidence            5799999999999999655544  44422100000 011367788999999999997 8899753 3331          


Q ss_pred             ------C---HHHHHHHHHHHHh-CC----CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q 012112          228 ------T---PQMWEESLRRTVG-AQ----PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGY  293 (471)
Q Consensus       228 ------T---~e~~~~~l~~~~~-l~----p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy  293 (471)
                            +   .+.+.+.++.+.+ +.    .+.|..|.+.-||..+.           ...+...+.|..+.+..++.+=
T Consensus       145 ~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~v~g~el~NEP~~~~-----------~~~~~~~~~~~~~~~~IR~~~~  213 (394)
T d2pb1a1         145 DSYNFQNGDNTQVTLNVLNTIFKKYGGNEYSDVVIGIELLNEPLGPV-----------LNMDKLKQFFLDGYNSLRQTGS  213 (394)
T ss_dssp             TCCCTTSTTHHHHHHHHHHHHHHHHSSGGGTTTEEEEESCSCCCGGG-----------SCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CccccccHHHHHHHHHHHHHHHHHHccCCCCCceEEEeecccCCccc-----------ccHHHHHHHHHHHHHHHHHhCC
Confidence                  1   2233334444333 22    13577888888875331           2345667788888888888764


Q ss_pred             ce
Q 012112          294 RH  295 (471)
Q Consensus       294 ~~  295 (471)
                      .+
T Consensus       214 ~~  215 (394)
T d2pb1a1         214 VT  215 (394)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>d1x5wa2 g.37.1.1 (A:36-64) Zinc finger protein 64, ZFP68 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 64, ZFP68
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.13  E-value=0.089  Score=30.07  Aligned_cols=11  Identities=36%  Similarity=1.111  Sum_probs=9.2

Q ss_pred             CcCCcCCCCCc
Q 012112           64 RKRCHYCDFPI   74 (471)
Q Consensus        64 ~~~C~yC~f~~   74 (471)
                      |++|.||+|..
T Consensus         2 PFkC~~CsFDt   12 (29)
T d1x5wa2           2 PFKCNYCSFDT   12 (29)
T ss_dssp             SEECSSSSCEE
T ss_pred             Ccccceecccc
Confidence            67999999964

>d2v7fa1 a.4.5.84 (A:2-150) Ribosomal protein S19e {Pyrococcus abyssi [TaxId: 29292]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Rps19E-like
domain: Ribosomal protein S19e
species: Pyrococcus abyssi [TaxId: 29292]

Probab=86.03  E-value=2  Score=34.93  Aligned_cols=71  Identities=13%  Similarity=0.157  Sum_probs=50.8

Q ss_pred             HHHHhccccCCCCHhhHHHHhCCCh-------------HHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhc
Q 012112          374 VLMLSFRTARGVDLKSFGETFGCSL-------------VHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKI  440 (471)
Q Consensus       374 ~~~~~Lr~~~gi~~~~~~~~fg~~~-------------~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~  440 (471)
                      .|+..+-+..++-...+...||..-             ...+...|++|++.||++...++                   
T Consensus        56 SilRkiY~~gpvGv~~Lr~~YGg~k~rG~~P~h~~~~Sg~iiR~~LQqLE~~glVek~~~~-------------------  116 (149)
T d2v7fa1          56 SILRRVYLDGPVGIERLRTYYGGRKNRGHAPERFYKAGGSIIRKALQQLEAAGFVEKVPGK-------------------  116 (149)
T ss_dssp             HHHHHHHHHCSBCHHHHHHHHCC----CCCTTSCCCHHHHHHHHHHHHHHHTTSEEEETTT-------------------
T ss_pred             HHHHHHHHcCCccHHHHHHHHCCCCCCCCCCCCcCCCccHHHHHHHHHHHhCCCeeEcCCC-------------------
Confidence            3444444567888899999887531             23456789999999999865322                   


Q ss_pred             ccccceeeecCchhhchHHHHHHHHHhcc
Q 012112          441 GNRLAYFRLSDPEGFLLSNELISHAFGVI  469 (471)
Q Consensus       441 ~~~~~~~~lt~~~G~~~~n~i~~~~~~~~  469 (471)
                       .|    +|| ++|+-+.|.|..+.+..+
T Consensus       117 -GR----~lT-~~G~~~LD~iA~~v~~~~  139 (149)
T d2v7fa1         117 -GR----VIT-PKGRSFLDKIATELKKEL  139 (149)
T ss_dssp             -EE----EEC-HHHHHHHHHHHHHHHHHH
T ss_pred             -Cc----EEC-HHHHHHHHHHHHHHHHHH
Confidence             23    786 999999999988876543

>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Hypothetical protein PH1061
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=85.81  E-value=0.92  Score=34.13  Aligned_cols=71  Identities=10%  Similarity=0.058  Sum_probs=50.6

Q ss_pred             HHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCc
Q 012112          373 DVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDP  452 (471)
Q Consensus       373 e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~  452 (471)
                      -.++.-|....+++..++++.+|.+-. .+...+..|++.||+....+.                  .+.|.-+++|| +
T Consensus        19 ~~IL~~L~~~~~~~~~eLa~~l~is~~-~vs~~l~~L~~~glV~~~~~~------------------~d~r~~~~~LT-~   78 (100)
T d1ub9a_          19 LGIMIFLLPRRKAPFSQIQKVLDLTPG-NLDSHIRVLERNGLVKTYKVI------------------ADRPRTVVEIT-D   78 (100)
T ss_dssp             HHHHHHHHHHSEEEHHHHHHHTTCCHH-HHHHHHHHHHHTTSEEEEEEC------------------SSSCEEEEEEC-H
T ss_pred             HHHHHHhccCCCeeHHHHHHHHhhccc-cccHHHHHHhhhceeEEEEcC------------------cCCccccccCC-H
Confidence            345555545567999999999999864 467889999999999864211                  12334468997 9


Q ss_pred             hhhchHHHHHH
Q 012112          453 EGFLLSNELIS  463 (471)
Q Consensus       453 ~G~~~~n~i~~  463 (471)
                      +|......++.
T Consensus        79 ~G~~~~~~~~~   89 (100)
T d1ub9a_          79 FGMEEAKRFLS   89 (100)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99877666543

>d2p8ta1 a.4.5.72 (A:14-82) Hypothetical protein PH0730 {Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PH0730 N-terminal domain-like
domain: Hypothetical protein PH0730
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=83.85  E-value=2  Score=30.32  Aligned_cols=54  Identities=9%  Similarity=0.058  Sum_probs=43.2

Q ss_pred             cCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHH
Q 012112          382 ARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNEL  461 (471)
Q Consensus       382 ~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i  461 (471)
                      .+.|-...+++..|..- ..+...++.|.++||+.....                         ...|| ++|..+.+.+
T Consensus        15 ~qPiGRr~La~~L~l~E-r~vRte~~~Lk~~gLI~~~~~-------------------------Gm~lT-e~G~~~l~~L   67 (69)
T d2p8ta1          15 KEPLGRKQISERLELGE-GSVRTLLRKLSHLDIIRSKQR-------------------------GHFLT-LKGKEIRDKL   67 (69)
T ss_dssp             TSCBCHHHHHHHHTCCH-HHHHHHHHHHHHTTSEEEC---------------------------CEEEC-HHHHHHHHHH
T ss_pred             cCCccHHHHHHHcCCcH-HHHHHHHHHHHHCCCeeeeCC-------------------------CCEEC-HhHHHHHHHH
Confidence            47899999999988874 357889999999999987431                         36886 9999998877


Q ss_pred             H
Q 012112          462 I  462 (471)
Q Consensus       462 ~  462 (471)
                      +
T Consensus        68 ~   68 (69)
T d2p8ta1          68 L   68 (69)
T ss_dssp             H
T ss_pred             h
Confidence            5

>d1ur4a_ c.1.8.3 (A:) Beta-1,4-galactanase {Bacillus licheniformis [TaxId: 1402]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: beta-glycanases
domain: Beta-1,4-galactanase
species: Bacillus licheniformis [TaxId: 1402]

Probab=83.69  E-value=2.9  Score=39.28  Aligned_cols=132  Identities=11%  Similarity=0.073  Sum_probs=78.7

Q ss_pred             CCHHHHHHHHHCCCCEEEEcc--CCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCC--------------
Q 012112          161 FDARKMEELMDLGVNRVSLGV--QAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSL--------------  224 (471)
Q Consensus       161 l~~e~l~~l~~~GvnrvsiGv--QS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~Gl--------------  224 (471)
                      ...+.++.|+++|+|.|-|.|  .-.+.+.-....-..+.+.+.++++.++++|+. |-+||-+.=              
T Consensus        39 ~~~d~~~~lk~~G~n~VRl~vw~~~~~~~~~~~~~g~~~l~~~~~~~~~a~~~Gl~-v~ldlH~sd~wadp~~q~~p~~w  117 (387)
T d1ur4a_          39 KKQDIFKTLKEAGVNYVRVRIWNDPYDANGNGYGGGNNDLEKAIQIGKRATANGMK-LLADFHYSDFWADPAKQKAPKAW  117 (387)
T ss_dssp             CBCCHHHHHHHTTCCEEEEEECSCCBCTTCCBCSTTCCCHHHHHHHHHHHHHTTCE-EEEEECSSSSCCSSSCCCCCGGG
T ss_pred             CcccHHHHHHHcCCCEEEeecccCCcccccCcCCCccccHHHHHHHHHHHHHCCCE-EEEEeCCCCCCcCCCCCCCchhh
Confidence            456789999999999888877  111111111122345689999999999999997 899987521              


Q ss_pred             CCCCHHHHHHHHH--------HHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCcee
Q 012112          225 PHQTPQMWEESLR--------RTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRHY  296 (471)
Q Consensus       225 PgqT~e~~~~~l~--------~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~y  296 (471)
                      ++.+.+++.+.+.        ..... ...+..+.+.=|+...+.        -..+.+...+++..+.+..++..=...
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~eigNE~~~~~~--------~~~~~~~~~~ll~~~~~avr~~dp~~~  188 (387)
T d1ur4a_         118 ANLNFEDKKTALYQYTKQSLKAMKAA-GIDIGMVQVGNETNGGLA--------GETDWAKMSQLFNAGSQAVRETDSNIL  188 (387)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHHHHT-TCCEEEEEESSSCSSCBT--------TBCCHHHHHHHHHHHHHHHHHHCTTSE
T ss_pred             hccchhHHHHHHHHHHHHHHHHHhhc-CCCccEEEEecCCCcCcc--------CcCCHHHHHHHHHHHHHHHHhcCCCce
Confidence            1223333222222        22222 345666776666643321        224567777788887777777654433


Q ss_pred             cccccc
Q 012112          297 EISSYG  302 (471)
Q Consensus       297 eis~fa  302 (471)
                      -+.+.+
T Consensus       189 vi~~~~  194 (387)
T d1ur4a_         189 VALHFT  194 (387)
T ss_dssp             EEEEEC
T ss_pred             EEEecc
Confidence            334433

>d1nvma2 c.1.10.5 (A:2-290) 4-hydroxy-2-oxovalerate aldolase DmpG, catalytic domain {Pseudomonas sp. [TaxId: 306]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: HMGL-like
domain: 4-hydroxy-2-oxovalerate aldolase DmpG, catalytic domain
species: Pseudomonas sp. [TaxId: 306]

Probab=83.69  E-value=1.6  Score=39.13  Aligned_cols=88  Identities=10%  Similarity=0.175  Sum_probs=61.0

Q ss_pred             eeEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCCcEEEEEec--CCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHc
Q 012112          115 LETVFFGGGTPSLVPPRFVSSILDTLTDKFGLSLDAEISMEMD--PGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSC  192 (471)
Q Consensus       115 v~~i~fGGGTps~l~~~~l~~ll~~l~~~~~l~~~~eitiE~~--P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l  192 (471)
                      ++.|++.+ |-..+.|.++.++++.+++.++  ++..+.+-+|  .+.-....+..+ ++|+++|.-.+-.+        
T Consensus       162 ~~~I~l~D-T~G~~~P~~v~~~v~~l~~~~~--~~~~i~~H~Hn~~g~a~an~l~A~-~~G~~~id~si~Gl--------  229 (289)
T d1nvma2         162 ATCIYMAD-SGGAMSMNDIRDRMRAFKAVLK--PETQVGMHAHHNLSLGVANSIVAV-EEGCDRVDASLAGM--------  229 (289)
T ss_dssp             CSEEEEEC-TTCCCCHHHHHHHHHHHHHHSC--TTSEEEEECBCTTSCHHHHHHHHH-HTTCCEEEEBGGGC--------
T ss_pred             ceeeeecc-hhhcccchhHHHHHHHHHHHhc--ccccceeeechHHHHHHHHHHHHH-HhCCcEeecccccc--------
Confidence            67899964 7777899999999999999874  3445666553  333344555555 78999997766654        


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCC
Q 012112          193 GRAHGLKEVYEAIEIVKLCGVE  214 (471)
Q Consensus       193 ~R~~t~~~~~~ai~~~~~~G~~  214 (471)
                      |+.......+..+..+++.|+.
T Consensus       230 G~~~GN~~tE~lv~~l~~~g~~  251 (289)
T d1nvma2         230 GAGAGNAPLEVFIAVAERLGWN  251 (289)
T ss_dssp             SSTTCBCBHHHHHHHHHHHTCB
T ss_pred             CCCCCCccHHHHHHHHHhcCCC
Confidence            5554444455667777788886

>d2q02a1 c.1.15.4 (A:1-271) Putative cytoplasmic protein STM4435 {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Xylose isomerase-like
family: IolI-like
domain: Putative cytoplasmic protein STM4435
species: Salmonella typhimurium [TaxId: 90371]

Probab=83.65  E-value=4  Score=35.86  Aligned_cols=127  Identities=13%  Similarity=0.127  Sum_probs=78.5

Q ss_pred             EEEEEe--cCCCCCHHHHHHHHHCCCCEEEEccCCCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeeEeeeecCCCCC-
Q 012112          151 EISMEM--DPGTFDARKMEELMDLGVNRVSLGVQAFQDELLKSCGRAHGLKEVYEAIEIVKLCGVENWSLDLISSLPHQ-  227 (471)
Q Consensus       151 eitiE~--~P~~l~~e~l~~l~~~GvnrvsiGvQS~~d~~L~~l~R~~t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgq-  227 (471)
                      .+++..  -|+.=-++.++..+++|++-|.+.......    .+....+.+++   -+.+++.|+.-+++.....+..- 
T Consensus         7 r~~~n~~~~p~l~lee~l~~a~~~G~dgiEl~~~~~~~----~~~~~~~~~~~---k~~l~~~gl~i~~l~~~~~~~~~~   79 (271)
T d2q02a1           7 RFCINRKIAPGLSIEAFFRLVKRLEFNKVELRNDMPSG----SVTDDLNYNQV---RNLAEKYGLEIVTINAVYPFNQLT   79 (271)
T ss_dssp             GEEEEGGGCTTSCHHHHHHHHHHTTCCEEEEETTSTTS----STTTTCCHHHH---HHHHHHTTCEEEEEEEETTTTSCC
T ss_pred             hHhhhhhhcCCCCHHHHHHHHHHhCCCEEEEecCcccc----cccccCCHHHH---HHHHHHcCCcEEEeecccccCCCC
Confidence            345443  354334688999999999999985332211    11122334443   45567889875566655555432 


Q ss_pred             --CHHHHHHHHHHHHhCCCCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCCCce-ecc
Q 012112          228 --TPQMWEESLRRTVGAQPKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAGYRH-YEI  298 (471)
Q Consensus       228 --T~e~~~~~l~~~~~l~p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~-yei  298 (471)
                        ..+.+++.++.+.+++.++|.+.+...              -.....+...+.+..+.+..++.|..- +|.
T Consensus        80 ~~~~~~~~~~i~~a~~lG~~~v~~~~~~~--------------~~~~~~~~~~~~l~~l~~~a~~~gv~l~lE~  139 (271)
T d2q02a1          80 EEVVKKTEGLLRDAQGVGARALVLCPLND--------------GTIVPPEVTVEAIKRLSDLFARYDIQGLVEP  139 (271)
T ss_dssp             HHHHHHHHHHHHHHHHHTCSEEEECCCCS--------------SBCCCHHHHHHHHHHHHHHHHTTTCEEEECC
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEecCCC--------------CccchHHHHHHHHHHHHHHhccCCeEEEEee
Confidence              456677788888899999887643210              012345667788888899999988753 443

>d1z91a1 a.4.5.28 (A:8-144) Organic hydroperoxide resistance transcriptional regulator OhrR {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Organic hydroperoxide resistance transcriptional regulator OhrR
species: Bacillus subtilis [TaxId: 1423]

Probab=82.25  E-value=0.37  Score=38.76  Aligned_cols=74  Identities=19%  Similarity=0.187  Sum_probs=54.6

Q ss_pred             CCHhhHHHHHHHHhccccCCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhccccc
Q 012112          365 IDAKDLAMDVLMLSFRTARGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRL  444 (471)
Q Consensus       365 l~~~~~~~e~~~~~Lr~~~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  444 (471)
                      ++..+   ..++..+....|+...++.+..|.+-. .....++.|++.||+....+.                  .+.|.
T Consensus        31 Lt~~q---~~vL~~l~~~~~~t~~~La~~~~i~~~-~vsr~i~~L~~~glv~r~~~~------------------~D~R~   88 (137)
T d1z91a1          31 ITYPQ---YLALLLLWEHETLTVKKMGEQLYLDSG-TLTPMLKRMEQQGLITRKRSE------------------EDERS   88 (137)
T ss_dssp             CCHHH---HHHHHHHHHHSEEEHHHHHHTTTCCHH-HHHHHHHHHHHHTSEECCBCS------------------SCTTS
T ss_pred             cCHHH---HHHHHHHHcCCCCCHHHHHHHHCcCHH-HHHHHHHHHhhccceEEeecC------------------CCCCe
Confidence            55543   445556666789999999999999864 467799999999999865321                  13455


Q ss_pred             ceeeecCchhhchHHHH
Q 012112          445 AYFRLSDPEGFLLSNEL  461 (471)
Q Consensus       445 ~~~~lt~~~G~~~~n~i  461 (471)
                      -.|+|| ++|..+...+
T Consensus        89 ~~i~lT-~~G~~~~~~~  104 (137)
T d1z91a1          89 VLISLT-EDGALLKEKA  104 (137)
T ss_dssp             BEEEEC-HHHHSGGGGT
T ss_pred             EEEEEC-HHHHHHHHHH
Confidence            679997 9999887653

>d1p4xa1 a.4.5.28 (A:1-125) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarS
species: Staphylococcus aureus [TaxId: 1280]

Probab=80.47  E-value=1.3  Score=34.92  Aligned_cols=63  Identities=14%  Similarity=0.105  Sum_probs=48.3

Q ss_pred             CCCCHhhHHHHhCCChHHHHHHHHHHHHHCCCEEEecCcccchhhhhhhhhhhhhhhcccccceeeecCchhhchHHHHH
Q 012112          383 RGVDLKSFGETFGCSLVHTLCKAYKPYIESGHVICLDEWRRAMNIEEFNSLLLDETKIGNRLAYFRLSDPEGFLLSNELI  462 (471)
Q Consensus       383 ~gi~~~~~~~~fg~~~~~~~~~~~~~~~~~gll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~lt~~~G~~~~n~i~  462 (471)
                      .++...++.++.+.+-. .....++.|++.|||....+.                  .+.|.=+|.|| ++|.-..+.+.
T Consensus        49 ~~~t~~eia~~~~~~~~-~vs~~l~~L~~~g~v~r~~~~------------------~D~R~~~i~lT-~~G~~~~~~~~  108 (125)
T d1p4xa1          49 NTLPFKKIVSDLCYKQS-DLVQHIKVLVKHSYISKVRSK------------------IDERNTYISIS-EEQREKIAERV  108 (125)
T ss_dssp             SEEEHHHHHHHSSSCGG-GTHHHHHHHHHTTSCEEEECS------------------SSTTSEEEECC-HHHHHHHHHHH
T ss_pred             CCcCHHHHHHHhCCCcc-hHHHHHHHHHHCCCceeeccc------------------CCCCeEEEEEC-HHHHHHHHHHH
Confidence            35889999999988753 356789999999999875321                  24566689997 99999888876


Q ss_pred             HHH
Q 012112          463 SHA  465 (471)
Q Consensus       463 ~~~  465 (471)
                      ..+
T Consensus       109 ~~~  111 (125)
T d1p4xa1         109 TLF  111 (125)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>d1ceoa_ c.1.8.3 (A:) Endoglucanase CelC {Clostridium thermocellum [TaxId: 1515]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: beta-glycanases
domain: Endoglucanase CelC
species: Clostridium thermocellum [TaxId: 1515]

Probab=80.44  E-value=8  Score=35.05  Aligned_cols=113  Identities=14%  Similarity=0.205  Sum_probs=67.7

Q ss_pred             CCHHHHHHHHHCCCCEEEEcc--CCCCHHHHHHcCCC-C---CHHHHHHHHHHHHHcCCCeeEeeeecCCCCC-------
Q 012112          161 FDARKMEELMDLGVNRVSLGV--QAFQDELLKSCGRA-H---GLKEVYEAIEIVKLCGVENWSLDLISSLPHQ-------  227 (471)
Q Consensus       161 l~~e~l~~l~~~GvnrvsiGv--QS~~d~~L~~l~R~-~---t~~~~~~ai~~~~~~G~~~v~~DlI~GlPgq-------  227 (471)
                      ++++.++.|+++|+|.|-|.+  +.+.+.    -+.. .   ..+.+.++|+.+++.|+. |-+|+- +.||.       
T Consensus        29 ~te~d~~~i~~~G~n~vRlpi~~~~~~~~----~~~~~~~~~~~~~ld~~v~~a~~~gi~-vild~H-~~p~~~~~~~~~  102 (340)
T d1ceoa_          29 ITEKDIETIAEAGFDHVRLPFDYPIIESD----DNVGEYKEDGLSYIDRCLEWCKKYNLG-LVLDMH-HAPGYRFQDFKT  102 (340)
T ss_dssp             SCHHHHHHHHHHTCCEEEEEEEGGGTBCS----SSTTCBCHHHHHHHHHHHHHHHHTTCE-EEEEEE-ECCC--------
T ss_pred             ccHHHHHHHHHcCCCEEEeecCHHHhccC----CCCCccCHHHHHHHHHHHHHHHHcCCE-EEEEec-CCCccccccccc
Confidence            578999999999999766644  322110    0000 0   135578899999999997 888874 34552       


Q ss_pred             -----CH---HHHHHHHHHHHh-CC-CCcEEEEeccccCCChhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHCC
Q 012112          228 -----TP---QMWEESLRRTVG-AQ-PKHVSVYDLQVEQGTKFGILYTPGEFPLPTETQSANFYRMASSMLSSAG  292 (471)
Q Consensus       228 -----T~---e~~~~~l~~~~~-l~-p~his~y~l~~~pgT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~G  292 (471)
                           +.   +.+.+..+.+.+ ++ -..|-.|.+.-||..             ++.+...+++..+.+.+++..
T Consensus       103 ~~~~~~~~~~~~~~~~~~~la~ry~~~p~v~~~el~NEP~~-------------~~~~~~~~~~~~~~~aIR~~d  164 (340)
T d1ceoa_         103 STLFEDPNQQKRFVDIWRFLAKRYINEREHIAFELLNQVVE-------------PDSTRWNKLMLECIKAIREID  164 (340)
T ss_dssp             CCTTTCHHHHHHHHHHHHHHHHHTTTCCSSEEEECCSCCCC-------------SSSHHHHHHHHHHHHHHHHHC
T ss_pred             ccccccHHHHHHHHHHHHHHHHhcCCCCcEEEEeeeeecCC-------------CCHHHHHHHHHHHHHHHHhcC
Confidence                 22   233444444332 22 234556788777743             233455667777777777654