RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

Searching..................................................done

Query= gi|254780360|ref|YP_003064773.1| protoheme IX
farnesyltransferase [Candidatus Liberibacter asiaticus str. psy62]
         (305 letters)



>gnl|CDD|179840 PRK04375, PRK04375, protoheme IX farnesyltransferase; Provisional.
          Length = 296

 Score =  345 bits (889), Expect = 6e-96
 Identities = 145/282 (51%), Positives = 194/282 (68%), Gaps = 4/282 (1%)

Query: 11  FIVLLKPRVMSLAIYTAFVGIVLAP-GHISVLKSVISIFAIAMGAGASGALNMYYDADID 69
           ++ L KPRV+SL ++TA  G++LAP G   +L  ++++  IA+ AGA+GALN Y D DID
Sbjct: 13  YLALTKPRVISLNLFTALGGMLLAPPGVPPLLLLLLTLLGIALVAGAAGALNNYIDRDID 72

Query: 70  KMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVVIYT 129
             M RT +RP+  G+ISP EA + G+ L V   +++GL +N ++A L    IF YVV+YT
Sbjct: 73  AKMERTKNRPLVTGRISPREALIFGLVLGVLGFLLLGLFVNPLAAWLTLAGIFFYVVVYT 132

Query: 130 IWLKRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWTPPHFWSLALLCK 189
           +WLKR TPQNIVIGG AGA+PP+IGWA+VTG +S  +L++FLIIFLWTPPHFW+LA+  K
Sbjct: 133 LWLKRRTPQNIVIGGAAGAMPPLIGWAAVTGSLSWEALILFLIIFLWTPPHFWALAIFRK 192

Query: 190 DDYQKASIPMLPNVVTDRTTKMHILIYTVLTSIVGVLPTMLGFASVTYGIIVFFLGYHFT 249
           DDY  A IPMLP V   R TK  IL+YTVL   V +LP +LG A + Y ++   LG  F 
Sbjct: 193 DDYAAAGIPMLPVVKGIRVTKRQILLYTVLLVAVSLLPVLLGMAGLLYLVVALLLGAWFL 252

Query: 250 LWAWRTFLCKEDKDIRVTKKLFLESITYLFVLFTILMVDHLI 291
            +AWR +      D +  +KLF  SI YL +LF  L+VDHL+
Sbjct: 253 YYAWRLYR---KDDRKWARKLFRYSINYLTLLFVALLVDHLL 291


>gnl|CDD|162379 TIGR01473, cyoE_ctaB, protoheme IX farnesyltransferase.  This model
           describes protoheme IX farnesyltransferase, also called
           heme O synthase, an enzyme that creates an intermediate
           in the biosynthesis of heme A. Prior to the description
           of its enzymatic function, this protein was often called
           a cytochrome o ubiquinol oxidase assembly factor.
          Length = 280

 Score =  268 bits (688), Expect = 1e-72
 Identities = 126/280 (45%), Positives = 177/280 (63%), Gaps = 4/280 (1%)

Query: 11  FIVLLKPRVMSLAIYTAFVGIVLAPGH--ISVLKSVISIFAIAMGAGASGALNMYYDADI 68
           ++ L KPR++SL + TAF G+ LAPG   ++    ++++    + A ++ A NMY D DI
Sbjct: 3   YLQLTKPRIISLLLITAFAGMWLAPGGALVNPPLLLLTLLGTTLAAASANAFNMYIDRDI 62

Query: 69  DKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVVIY 128
           DK M RT +RP+  G+ISP EA   G+ L V  + I+   +N ++A L    IF YV++Y
Sbjct: 63  DKKMKRTRNRPLVTGRISPREALAFGLLLGVLGVAILAAFVNPLAALLGLFGIFFYVIVY 122

Query: 129 TIWLKRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWTPPHFWSLALLC 188
           TIWLKR TPQN VIGG AGA+PP+IGWA+VTG +S+ + ++F IIFLW PPHFW+LAL  
Sbjct: 123 TIWLKRRTPQNTVIGGFAGAVPPLIGWAAVTGSISLGAWLLFAIIFLWQPPHFWALALKY 182

Query: 189 KDDYQKASIPMLPNVVTDRTTKMHILIYTVLTSIVGVLPTMLGFASVTYGIIVFFLGYHF 248
           KDDY+ A IPMLP V  +R TK  I +YT     V +L   LG     Y I+   LG  F
Sbjct: 183 KDDYRAAGIPMLPVVKGERITKRQIALYTAALLPVSLLLAFLGGTGWLYLIVATLLGALF 242

Query: 249 TLWAWRTFLCKEDKDIRVTKKLFLESITYLFVLFTILMVD 288
              A++ +  ++  D +  +KLF  S+ YL +LF  L++D
Sbjct: 243 LYLAFKFY--RDPTDRKKARKLFKFSLIYLALLFVALLID 280


>gnl|CDD|184001 PRK13362, PRK13362, protoheme IX farnesyltransferase; Provisional.
          Length = 306

 Score =  244 bits (624), Expect = 3e-65
 Identities = 77/290 (26%), Positives = 148/290 (51%), Gaps = 2/290 (0%)

Query: 6   FRLNFFIVLLKPRVMSLAIYTAFVGIVLAP-GHISVLKSVISIFAIAMGAGASGALNMYY 64
             L  +I + KP ++   + +   G  LA  GH+  +  + ++  +++   +  ALN   
Sbjct: 11  ASLKDYIQVTKPGIIFGNVISVAGGFFLASKGHVDPVLMLAAVIGLSLVVASGCALNNCI 70

Query: 65  DADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCY 124
           D DID  M RT +R    G+IS  EA   G++L V+   ++    N ++A         Y
Sbjct: 71  DRDIDAKMQRTRNRVTVTGEISLGEALGFGLALGVAGFGLLAAFTNPLAALFAAFGYVVY 130

Query: 125 VVIYTIWLKRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWTPPHFWSL 184
           V +Y+++LKR +    ++G ++GA+PP++G+ +VTG     +L++ L+  LW  PH +++
Sbjct: 131 VGVYSLYLKRNSVYGTLVGSLSGAMPPVVGYCAVTGQFDAGALILLLMFSLWQMPHSYAI 190

Query: 185 ALLCKDDYQKASIPMLPNVVTDRTTKMHILIYTVLTSIVGVLPTMLGFASVTYGIIVFFL 244
           A+   +DY  A IP+LP       TK+HI++Y ++ ++V  L  + G+  + Y  +    
Sbjct: 191 AIFRFNDYAAAGIPVLPVARGIAKTKLHIVLYILVFALVTALLPLAGYTGIGYLAVAAAT 250

Query: 245 GYHFTLWAWRTFLCKEDKDIRVTKKLFLESITYLFVLFTILMVDHLIDMK 294
              +   A + +    D D    ++LF  SI  +  L  ++++D ++   
Sbjct: 251 SLWWLAMALKGYRHAVD-DTVWARQLFGFSILTITALSVMMLLDFVVAAT 299


>gnl|CDD|183803 PRK12869, ubiA, protoheme IX farnesyltransferase; Reviewed.
          Length = 279

 Score =  172 bits (437), Expect = 1e-43
 Identities = 86/237 (36%), Positives = 134/237 (56%), Gaps = 2/237 (0%)

Query: 7   RLNFFIVLLKPRVMSLAIYTAFVGIVLAPGHISVLKSVISIFAIA-MGAGASGALNMYYD 65
           ++  ++ LLKPRV+ L    A  G  LA  H      +I +     + +G S A N   +
Sbjct: 1   KIKAYLKLLKPRVIWLLDLAAVAGYFLAAKHGVSWLPLIPLLIGGTLASGGSAAFNHGIE 60

Query: 66  ADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYV 125
            DIDK+M+RT+ RP P+G ++  EA  +G +L+     +  L +  ++A  + +  F Y 
Sbjct: 61  RDIDKVMSRTSKRPTPVGLVNRKEALAVGSALSALGTALGFLLLGPLTALFIALGWFFYA 120

Query: 126 VIYTIWLKRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWTPPHFWSLA 185
           V+YTIWLK  T  NIVIGG AG    + G+AS TG + + ++++  +I+LWTP H WSLA
Sbjct: 121 VVYTIWLKPRTWLNIVIGGFAGNAAALAGYASGTGSLDLEAVLLSFLIYLWTPGHIWSLA 180

Query: 186 LLCKDDYQKASIPMLPNVVTDRTTKMHILIYTVLTSIVGVLPTMLGFASVTYGIIVF 242
           L  ++DY++A +PMLP VV ++T+   I I   L  I  +L   L +  +   I+V 
Sbjct: 181 LKYREDYRRAGVPMLPAVVGEKTSVRAISISNAL-MIPYILLLYLYYIGLIGLILVA 236


>gnl|CDD|178375 PLN02776, PLN02776, prenyltransferase.
          Length = 341

 Score =  122 bits (308), Expect = 1e-28
 Identities = 75/276 (27%), Positives = 127/276 (46%), Gaps = 6/276 (2%)

Query: 14  LLKPRVMSLAIYTAFVGIVLAPG-HISVLKSVISIFAIAMGAGASGALNMYYDADIDKMM 72
           L K R+ +L + T+  G VL  G  I +     +     + A ++  LN  ++   D  M
Sbjct: 1   LSKARLSALVVATSGAGFVLGSGEAIDLPGLGWTCAGTMLCAASANTLNQVFEVKNDSKM 60

Query: 73  ARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVVIYTIWL 132
            RT  RP+P G+IS   A    V +  + + ++    N ++A L   +I  Y  +YT  L
Sbjct: 61  KRTMRRPLPSGRISVPHAVAWAVVVGAAGVALLAYKTNMLTAGLGAGNILLYAFVYT-PL 119

Query: 133 KRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWTPPHFWSLALLCKDDY 192
           K+  P N  +G + GAIPP++GWA+ +G +   ++V+   ++ W  PHF +LA +C+DDY
Sbjct: 120 KQIHPANTWVGAVVGAIPPLMGWAAASGQLDAGAMVLAAALYFWQMPHFMALAYMCRDDY 179

Query: 193 QKASIPMLPNV-VTDRTTKMHILIYTVLTSIVGVLPTMLGFASVTYGIIVFFLGYHFTLW 251
                 ML     T R T +  L   +  + +G L    G  S  + +    L  +    
Sbjct: 180 AAGGYRMLSLADATGRRTALVALRNCLYLAPLGFLAYDWGVTSSPFALEAALLTAYLAAS 239

Query: 252 AWRTFLCKEDKDIRVTKKLFLESITYLFVLFTILMV 287
           A        +      +K+F  S+ YL     +L++
Sbjct: 240 A---ASFYREPTNANARKMFHGSLLYLPAFMALLLL 272


>gnl|CDD|130539 TIGR01474, ubiA_proteo, 4-hydroxybenzoate polyprenyl transferase,
           proteobacterial.  A fairly deep split by both clustering
           (UPGMA) and phylogenetics (NJ tree) separates this group
           (mostly Proteobacterial and mitochondrial), with several
           characterized members, from another group (mostly
           archaeal and Gram-positive bacterial) lacking
           characterized members.
          Length = 281

 Score = 63.9 bits (156), Expect = 4e-11
 Identities = 42/135 (31%), Positives = 73/135 (54%), Gaps = 4/135 (2%)

Query: 43  SVISIFAIAMGAGASGALNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSI 102
            + ++ AI M  GA   +N  +D D D  + RT SRP+  G +S  +A +  +   + ++
Sbjct: 43  GLFTVGAILM-RGAGCVINDIWDRDFDPQVERTKSRPLASGAVSVRQAILFLLVQLLVAL 101

Query: 103 VIMGLAINWVSATLLFMSIFCYVVIYTIWLKRFTPQNIVIGGIAGAIPPMIGWASVTGDV 162
            ++ L +N ++  L   S+   V  Y   +KR T    ++ G+A     ++GWA+VTGD+
Sbjct: 102 GVL-LQLNPLTILLGVASLA-LVATYPF-MKRITYWPQLVLGLAFGWGALMGWAAVTGDL 158

Query: 163 SIASLVMFLIIFLWT 177
           S A+ V++L   LWT
Sbjct: 159 STAAWVLYLANILWT 173


>gnl|CDD|183808 PRK12878, ubiA, 4-hydroxybenzoate polyprenyltransferase; Reviewed.
          Length = 314

 Score = 60.3 bits (147), Expect = 5e-10
 Identities = 48/132 (36%), Positives = 73/132 (55%), Gaps = 10/132 (7%)

Query: 49  AIAM-GAGASGALNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGL 107
           AIAM GAG +   N   D DID  +ART SRP+P GQ+S  +A V  V  A+  + ++ L
Sbjct: 81  AIAMRGAGCT--YNDIVDRDIDAKVARTRSRPLPSGQVSRKQAKVFMVLQALVGLAVL-L 137

Query: 108 AINWVSATLLFMSIFCYVVIYTIWLKRFT--PQNIVIGGIAGAIPPMIGWASVTGDVSIA 165
             NW +  L   S+   V  Y  ++KR T  PQ     G+A +   ++GWA+  G +S+A
Sbjct: 138 QFNWFAIALGIASLA-IVAAYP-FMKRITWWPQ--FFLGLAFSWGALMGWAAHFGSLSLA 193

Query: 166 SLVMFLIIFLWT 177
           +++++     WT
Sbjct: 194 AVLLYAGSIAWT 205


>gnl|CDD|183790 PRK12848, ubiA, 4-hydroxybenzoate octaprenyltransferase; Reviewed.
          Length = 282

 Score = 58.7 bits (143), Expect = 2e-09
 Identities = 40/123 (32%), Positives = 66/123 (53%), Gaps = 11/123 (8%)

Query: 59  ALNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLF 118
            +N Y D D D  + RT +RP+  G +S  EA  L V L + + +++ L +N ++  L  
Sbjct: 60  VINDYADRDFDGHVKRTKNRPLASGAVSEKEALALFVVLVLVAFLLV-LTLNTLTIWLSV 118

Query: 119 MSIFCYVVIYTIWLKRFT--PQNIVIGGIA--GAIPPMIGWASVTGDVSIASLVMFLIIF 174
            ++     IY  ++KR+T  PQ  V+ G A    IP  + +A+V G V + + ++FL   
Sbjct: 119 AALA-LAWIYP-FMKRYTHLPQ--VVLGAAFGWGIP--MAFAAVQGSVPLEAWLLFLANI 172

Query: 175 LWT 177
           LWT
Sbjct: 173 LWT 175


>gnl|CDD|183789 PRK12847, ubiA, 4-hydroxybenzoate polyprenyltransferase; Reviewed.
          Length = 285

 Score = 55.3 bits (134), Expect = 2e-08
 Identities = 45/183 (24%), Positives = 96/183 (52%), Gaps = 21/183 (11%)

Query: 2   YFQVFRLNFFIVLLKPRVMSLAIYTAFVGIVLAPGHISVLKSVISIFAI-AMGAGASGA- 59
           YF++ RL+      KP  + L  +    G++LA   +    S++ +F I ++   ++G  
Sbjct: 10  YFKLMRLH------KPIGILLVFFPTLFGLLLASHSLLPDISLLVLFIIGSVLMRSAGCI 63

Query: 60  LNMYYDADIDKMMARTASRPIPLGQISPWEA-WVLGVSLAVSSIVIMGLAINWVSATLLF 118
           +N  +D  IDK +ART +RP+  G +S  +A  +L + L ++ ++++ L     + T ++
Sbjct: 64  INDIFDRKIDKHVARTKNRPLASGALSVKQALILLFILLLIALVILLLL-----NKTTIY 118

Query: 119 MSIF--CYVVIYTIWLKRFT--PQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIF 174
           +S      +V+Y + +KRF   PQ  +  G    +  ++ +A+V   + I ++++++   
Sbjct: 119 LSFIAVILIVLYPL-MKRFFYWPQ--LFLGFTFNMGILMAFAAVQNQLDIEAILLYIGCI 175

Query: 175 LWT 177
            WT
Sbjct: 176 FWT 178


>gnl|CDD|171798 PRK12886, ubiA, prenyltransferase; Reviewed.
          Length = 291

 Score = 53.5 bits (129), Expect = 6e-08
 Identities = 42/151 (27%), Positives = 75/151 (49%), Gaps = 4/151 (2%)

Query: 27  AFVGIVLAPGHISVLKSVISIFAIAMGA-GASGALNMYYDADIDKMMARTASRPIPLGQI 85
           A +G VLA   +     +  I    +GA  A+   N   DA+ID    RTA R IP G I
Sbjct: 27  AGIGAVLAALGLPGASQLDWILMAMVGARTAAMGFNRLIDAEIDARNPRTAGRAIPAGLI 86

Query: 86  SPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVVIYTIWLKRFTPQNIVIGGI 145
           S   A +L + L+   ++     +N +   L   ++F ++++Y+ + KRFT    V+ G 
Sbjct: 87  SKGSA-ILFIVLSSLLMLFAAWFLNPLCLYLSPPALF-FLLLYS-YCKRFTALAHVVLGF 143

Query: 146 AGAIPPMIGWASVTGDVSIASLVMFLIIFLW 176
             A+ P+  W ++ G + + ++++ L +  W
Sbjct: 144 CLALAPLGAWIAIRGTIELPAILLGLAVLFW 174


>gnl|CDD|183814 PRK12888, ubiA, prenyltransferase; Reviewed.
          Length = 284

 Score = 53.2 bits (128), Expect = 9e-08
 Identities = 39/129 (30%), Positives = 63/129 (48%), Gaps = 5/129 (3%)

Query: 50  IAMGAGASGA--LNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGL 107
           +AM    + A   N   D +ID    RTA R +  G +S   AW  G  +A++  +    
Sbjct: 46  VAMVGARTFAMAANRIIDREIDARNPRTAGRELVTGAVSVRTAWT-GALVALAVFLGAAA 104

Query: 108 AINWVSATLLFMSIFCYVVIYTIWLKRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASL 167
            +N +   L  +++   VV Y  + KRFT     I G+A A+ P+  W +VTG  S  ++
Sbjct: 105 LLNPLCLALAPLAVAPLVV-YP-YAKRFTNFPHAILGLAQAVGPVGAWIAVTGTWSWPAV 162

Query: 168 VMFLIIFLW 176
           ++ L + LW
Sbjct: 163 LLGLAVGLW 171


>gnl|CDD|183812 PRK12884, ubiA, prenyltransferase; Reviewed.
          Length = 279

 Score = 51.1 bits (123), Expect = 4e-07
 Identities = 53/279 (18%), Positives = 119/279 (42%), Gaps = 7/279 (2%)

Query: 7   RLNFFIVLLKPRVMSLAIYTAFVGIVLAPGHISVLKSVISIFAIAMGAGASGALNMYYDA 66
           ++  ++ LL+P    +A     +G ++A G + + ++++        +G++ ALN Y+D 
Sbjct: 3   KMKAYLELLRPEHGLMAGIAVVLGAIIALGGLPLDEALLGFLTAFFASGSANALNDYFDY 62

Query: 67  DIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVV 126
           ++D++      RPIP G+IS  EA +L + L +  ++   L        ++ +S+     
Sbjct: 63  EVDRINRPD--RPIPSGRISRREALLLAILLFILGLIAAYLISPLAFLVVILVSVLGI-- 118

Query: 127 IYTIWLKRF-TPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWTPPHFWSLA 185
           +Y   LK +    N+ +  + G     I      G+++ A +++  + FL T        
Sbjct: 119 LYNWKLKEYGLIGNLYVAFLTGM--TFIFGGIAVGELNEAVILLAAMAFLMTLGREIMKD 176

Query: 186 LLCKDDYQKASIPMLPNVVTDRTTKMHILIYTVLTSIVGVLPTMLGFASVTYGIIVFFLG 245
           +   +  +      L  +  ++          +L  ++  LP + G  ++ Y   V    
Sbjct: 177 IEDVEGDRLRGARTLAILYGEKIAGRIAAALFILAVLLSPLPYLFGIFNILYLAPVLVAD 236

Query: 246 YHFTLWAWRTFLCKEDKDIRVTKKLFLESITYLFVLFTI 284
             F   A+     ++ + IR  +K+ L ++    V F +
Sbjct: 237 LIFLYSAYSLLRSQDRETIRKVRKITLTAMLLALVAFAL 275


>gnl|CDD|183811 PRK12882, ubiA, prenyltransferase; Reviewed.
          Length = 276

 Score = 50.0 bits (120), Expect = 8e-07
 Identities = 49/171 (28%), Positives = 81/171 (47%), Gaps = 11/171 (6%)

Query: 11  FIVLLKPRVMSLAIYTAFVGIVLAPGHISVLKSVISIFAIAMGA-GASGALNMYYDADID 69
           ++ L +P    +A   AF+G  +A G +S        FA    A GA  A+N Y+D +ID
Sbjct: 7   YLELTRPVNAVVAGVAAFIGAFIAGGILSSPSLTGLAFAAVFLATGAGNAINDYFDREID 66

Query: 70  KMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATL-LFMSIFCYVVIY 128
           ++      RPIP G +SP  A    + L  + + +    +  +   + LF S+   +V+Y
Sbjct: 67  RI--NRPDRPIPSGAVSPRGALAFSILLFAAGVAL-AFLLPPLCLAIALFNSLL--LVLY 121

Query: 129 TIWLKRFTP--QNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWT 177
              LK  TP   N  +  + G+   + G A+V  +  +A LV+F +  L T
Sbjct: 122 AETLKG-TPGLGNASVAYLTGST-FLFGGAAVGTEGLLALLVLFALAALAT 170


>gnl|CDD|162380 TIGR01475, ubiA_other, putative 4-hydroxybenzoate
           polyprenyltransferase.  A fairly deep split separates
           this polyprenyltransferase subfamily from the set of
           mitochondrial and proteobacterial 4-hydroxybenzoate
           polyprenyltransferases, described in TIGR01474.
           Protoheme IX farnesyltransferase (heme O synthase)
           (TIGR01473) is more distantly related. Because no
           species appears to have both this protein and a member
           of TIGR01474, it is likely that This model represents
           4-hydroxybenzoate polyprenyltransferase, a critical
           enzyme of ubiquinone biosynthesis, in the Archaea,
           Gram-positive bacteria, Aquifex aeolicus, the
           Chlamydias, etc.
          Length = 282

 Score = 46.2 bits (110), Expect = 1e-05
 Identities = 42/148 (28%), Positives = 70/148 (47%), Gaps = 4/148 (2%)

Query: 27  AFVGIVLAPGHISVLKSVISIFAIAMGAGASG-ALNMYYDADIDKMMARTASRPIPLGQI 85
           A+ G +LA   +  LK++I I   A+ A  +  A N   D  ID    RT +RP+  G I
Sbjct: 21  AYAGALLAAKGLPGLKTLILILIAAVSARTAAMAFNRIIDRAIDARNPRTKNRPLVSGLI 80

Query: 86  SPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVVIYTIWLKRFTPQNIVIGGI 145
           S  EA  + + L+++  +     +N ++  L  + +   V+I   + KRFT     + G 
Sbjct: 81  SKKEARTM-IILSLALFLSASYFLNPLAFILSPLVLL--VLIIYPYTKRFTFLCHYVLGS 137

Query: 146 AGAIPPMIGWASVTGDVSIASLVMFLII 173
              + P+ GW +V G +S   +   L I
Sbjct: 138 TYGLAPLAGWVAVIGTISFFLVAWLLGI 165


>gnl|CDD|183804 PRK12870, ubiA, 4-hydroxybenzoate polyprenyltransferase; Reviewed.
          Length = 290

 Score = 45.0 bits (107), Expect = 3e-05
 Identities = 55/254 (21%), Positives = 106/254 (41%), Gaps = 27/254 (10%)

Query: 44  VISIFAIAMGAGASGALNMYYDADIDKMMARTASRPIPLGQISPWEAWVLG-VSLAVSSI 102
           +I + A+A  A A   +N  +D DID  + RT  RP+   ++S     V+  V+L  ++ 
Sbjct: 50  IIILGALATSA-AGCVVNDLWDRDIDPQVERTRFRPLASRRLSVKVGIVIAIVALLCAAG 108

Query: 103 VIMGLAIN--W--VSATLLFMSIFCYVVIYTIWLKRFTPQNIVIGGIAGAIPPMIGWASV 158
           +   L     W  V+A  +   IF Y +      KR  P   ++  IA     +I W++V
Sbjct: 109 LAFFLNPLSFWLCVAAVPV---IFLYPL-----AKRVFPVPQLVLAIAWGFAVLISWSAV 160

Query: 159 TGDVSIASLVMFLIIFLWTPPHFWSLALLCKDDYQKASIPMLPNVVTDRTTKMHILIYTV 218
           TG + + + +++     WT       A+  ++D  +  +     +   R     I ++  
Sbjct: 161 TGHLDLGTWLLWAATVFWTLGFDTVYAMSDREDDLRIGVNS-SAIFFGRYAPEAIGLFFA 219

Query: 219 LT----SIVGVLPTMLGFASVTYGIIVFFLGYHFTLWAWRTFLCKEDKDIR-VTKKLFLE 273
           LT    +I+GVL  +     +   I           WA +    ++         +LFL+
Sbjct: 220 LTVGFLAILGVLLELHLPFWIGLAIAAVL-------WARQYRRLRQANLPPLAYGQLFLQ 272

Query: 274 SITYLFVLFTILMV 287
           ++   F+L   +++
Sbjct: 273 NVWIGFLLLAGMIL 286


>gnl|CDD|171796 PRK12883, ubiA, prenyltransferase UbiA-like protein; Reviewed.
          Length = 277

 Score = 44.3 bits (105), Expect = 4e-05
 Identities = 37/145 (25%), Positives = 69/145 (47%), Gaps = 12/145 (8%)

Query: 11  FIVLLKPRVMSLAIYTAFVGIVLAPGHISVLKSVISIF-AIAMGAGASGALNMYYDADID 69
           FI + +P    LA     +G ++A G I  +K++I IF  + +G      +N Y+D +ID
Sbjct: 6   FIEITRPHNCILAGIVGILGSLVALGGIPPIKTLILIFLVVYLGCSGGNTINDYFDYEID 65

Query: 70  KMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVVIYT 129
           K+     +RP+P G +S   A    + L    + +    IN  +      ++  YV+++ 
Sbjct: 66  KI--NRPNRPLPRGAMSRKAALYYSLLLFAVGLAL-AYLINIEA---FLFALGAYVLMF- 118

Query: 130 IWLKRFTPQ----NIVIGGIAGAIP 150
           ++  +  P     N+V+  + GA P
Sbjct: 119 LYAWKLKPLPFIGNVVVALLTGATP 143


>gnl|CDD|178405 PLN02809, PLN02809, 4-hydroxybenzoate nonaprenyltransferase.
          Length = 289

 Score = 44.3 bits (105), Expect = 4e-05
 Identities = 46/161 (28%), Positives = 76/161 (47%), Gaps = 17/161 (10%)

Query: 29  VGIVLAPGHISVLKSVISIFAIAMGA----GASGALNMYYDADIDKMMARTASRPIPLGQ 84
           + +   PG +  LK ++++F    GA    GA   +N   D DIDK + RT  RPI  G 
Sbjct: 32  IALAAPPGSLPDLK-MLALFGC--GALLLRGAGCTINDLLDRDIDKKVERTKLRPIASGA 88

Query: 85  ISPWEAWV-LGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVVIYTIWLKRFTPQNIVIG 143
           ++P++    LG  L +   ++  L +N  S  L   S+   V  Y + +KRFT       
Sbjct: 89  LTPFQGVGFLGAQLLLGLGIL--LQLNNYSRILGASSLL-LVFTYPL-MKRFTFWPQAFL 144

Query: 144 GIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWTPPHFWSL 184
           G+      ++GWA+V G +  A     +++ L+     W+L
Sbjct: 145 GLTFNWGALLGWAAVKGSLDPA-----VVLPLYASGVCWTL 180


>gnl|CDD|183439 PRK12324, PRK12324, phosphoribose diphosphate:decaprenyl-phosphate
           phosphoribosyltransferase; Provisional.
          Length = 295

 Score = 41.8 bits (99), Expect = 2e-04
 Identities = 25/98 (25%), Positives = 50/98 (51%), Gaps = 8/98 (8%)

Query: 39  SVLKSVISIFAIAMGAGASGALNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLA 98
           ++LK +++     + + A   +N   D + D++     +RPI  G +S   A++L V L 
Sbjct: 44  ALLKVLLAFVLFCLASSAVYLVNDIRDVEADRLHPTKRNRPIASGVVSVSLAYILAVVLL 103

Query: 99  VSSIVIMGLAINWVSATLLFMSIFCYVVI---YTIWLK 133
           V+S     LA+ ++ +  L + +  Y+V+   Y+  LK
Sbjct: 104 VAS-----LALAYLLSPKLALVLLVYLVLNLAYSFKLK 136


>gnl|CDD|183862 PRK13106, ubiA, prenyltransferase; Reviewed.
          Length = 300

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 33/129 (25%), Positives = 53/129 (41%), Gaps = 17/129 (13%)

Query: 27  AFVGIVLAPGHISVLKSVISIFAIAMGAGASG-ALNMYYDADIDKMMARTASRPIPLGQI 85
           A++G  +A   I  + ++I IF        +G   +   D +ID    RT +RP+  G I
Sbjct: 34  AYLGAFVAIKGIPPISTLILIFLALFFLRTAGMTNDNLADLEIDAKNPRTKNRPLVTGAI 93

Query: 86  SPWEAWVLGVSLAVSSIVIMGLAINWVSA------TLLFMSIFCYVVIYTIWLKRFTP-Q 138
              EA  L         +  GL + + SA       LL   I   + +   ++KR+T   
Sbjct: 94  KISEAKAL---------ITAGLILFFASAYLVNRWALLLSPIVALIAMSYPYMKRYTAFA 144

Query: 139 NIVIGGIAG 147
           N  +  I G
Sbjct: 145 NYHLASIQG 153


>gnl|CDD|171463 PRK12392, PRK12392, bacteriochlorophyll c synthase; Provisional.
          Length = 331

 Score = 39.7 bits (93), Expect = 0.001
 Identities = 25/83 (30%), Positives = 45/83 (54%), Gaps = 5/83 (6%)

Query: 52  MGAGASGALNMYYDADIDKMMARTASRPIPLGQISPWEA---WVLGVSLAVSSIVIMGLA 108
           +G G S ++N Y+D ++D++   T  RPIP G++S  EA    ++ + LA+   V +GL 
Sbjct: 61  LGTGFSQSVNDYFDLELDRVNEPT--RPIPSGRLSEKEALWNSIIVLLLAIGLGVWLGLH 118

Query: 109 INWVSATLLFMSIFCYVVIYTIW 131
           I      ++  SI   + +  I+
Sbjct: 119 IGGERGMVIISSILAGLFVAYIY 141


>gnl|CDD|183806 PRK12874, ubiA, prenyltransferase; Reviewed.
          Length = 291

 Score = 37.7 bits (88), Expect = 0.004
 Identities = 34/119 (28%), Positives = 56/119 (47%), Gaps = 3/119 (2%)

Query: 59  ALNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSATLLF 118
           A N   D DIDK   RTA+RP   G+IS     +  V  A+  I +    IN + A  L 
Sbjct: 65  AFNRLVDRDIDKDNPRTANRPSVDGRISVKSMVLFIVLNALIFIGVSYF-INPL-AFKLS 122

Query: 119 MSIFCYVVIYTIWLKRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWT 177
                 +  Y+   KRF+    ++ G++  + P+ G  +V G++ + S+ + L +  W 
Sbjct: 123 FPFLIVLGGYSY-FKRFSSLAHLVLGLSLGLAPIAGVVAVLGEIPLWSVFLALGVMFWV 180


>gnl|CDD|181963 PRK09573, PRK09573, (S)-2,3-di-O-geranylgeranylglyceryl phosphate
           synthase; Reviewed.
          Length = 279

 Score = 37.2 bits (87), Expect = 0.005
 Identities = 25/101 (24%), Positives = 51/101 (50%), Gaps = 14/101 (13%)

Query: 27  AFVGIVLAPGH-ISVLKSVISIFAIAMGAGASGALNMYYDADIDKMMARTASRPIPLGQI 85
           A +G ++A    I +   +++   + +       +N  YD +IDK+      RPIP G+I
Sbjct: 22  AIIGYLIASNFKIDLKGIILAALVVFLVCAGGNVINDIYDIEIDKI--NKPERPIPSGRI 79

Query: 86  SPWEAWVLGVSLAVSSIVIMGLAINWVSATLLFMSIFCYVV 126
           S  EA +  ++L      I+GL ++      +F++I+ +++
Sbjct: 80  SLKEAKIFSITL-----FIVGLILS------IFINIYAFLI 109


>gnl|CDD|181313 PRK08238, PRK08238, hypothetical protein; Validated.
          Length = 479

 Score = 33.3 bits (77), Expect = 0.080
 Identities = 25/120 (20%), Positives = 42/120 (35%), Gaps = 25/120 (20%)

Query: 50  IAMGAGASGA--LNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGL 107
           +A    AS    LN   D + D+   R   RP   G +           L ++ + +  L
Sbjct: 233 LAFSLCASAVYILNDLLDLEADRAHPRKRRRPFASGALPIPFGLAAAPLLLLAGLAL-AL 291

Query: 108 AINW-VSATLLFMSIFCYVVI---YTIWLKR------------FTPQNIVIGGIAGAIPP 151
           A+       LL      Y+ +   Y++ LKR            +T + I+ G  A  +  
Sbjct: 292 ALGPAFLLVLL-----AYLALTLAYSLRLKRKVLVDVLTLAALYTLR-IIAGAAAIGVAL 345


>gnl|CDD|130541 TIGR01476, chlor_syn_BchG, bacteriochlorophyll/chlorophyll
           synthetase.  This model describes a subfamily of a large
           family of polyprenyltransferases (pfam01040) that also
           includes 4-hydroxybenzoate octaprenyltransferase and
           protoheme IX farnesyltransferase (heme O synthase).
           Members of this family are found exclusively in
           photosynthetic organisms, including a single copy in
           Arabidopsis thaliana.
          Length = 283

 Score = 33.2 bits (76), Expect = 0.089
 Identities = 29/87 (33%), Positives = 40/87 (45%), Gaps = 8/87 (9%)

Query: 52  MGAGASGALNMYYDADIDKMMARTASRPIPLGQIS-PWEAWVLGVSLAVSSIVIMGLAIN 110
           +G G S ++N Y+D D+D +      RPIP G IS     W   V      +V + L  N
Sbjct: 49  LGTGFSQSINDYFDRDVDAI--NEPQRPIPSGIISLREVRWNWLVLTVAGLLVALVLG-N 105

Query: 111 WVSATLLFMSIFCYVVIYT---IWLKR 134
           W+      + I    VIY+   I LKR
Sbjct: 106 WLIVLFTVVGIV-LAVIYSMPPIKLKR 131


>gnl|CDD|181034 PRK07566, PRK07566, bacteriochlorophyll/chlorophyll a synthase;
           Reviewed.
          Length = 314

 Score = 32.6 bits (75), Expect = 0.11
 Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 11/74 (14%)

Query: 54  AGASGALNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVS 113
            G S  LN Y+D ++D +      RPIP G IS      L   L V  + +         
Sbjct: 78  CGTSQTLNDYFDREVDAI--NEPYRPIPSGAISLRWVLYLIAVLTVLGLAV--------- 126

Query: 114 ATLLFMSIFCYVVI 127
           A LL   +F   ++
Sbjct: 127 AYLLGPWVFLAALL 140


>gnl|CDD|171787 PRK12873, ubiA, prenyltransferase; Reviewed.
          Length = 294

 Score = 29.6 bits (67), Expect = 0.91
 Identities = 34/132 (25%), Positives = 61/132 (46%), Gaps = 9/132 (6%)

Query: 55  GASGALNMYYDADIDKMMARTASRPIPLGQISPWEAWV-LGVSLAVSSIVIMGL--AINW 111
           GA    N  +D  ID+ + RT +RP+  G+IS   A+  L V L +S  V++ L      
Sbjct: 58  GAGCIANDLWDRRIDRKVERTKNRPLARGKISLKTAYSLLIVLLLLSLFVVLSLPQPSRN 117

Query: 112 VSATLLFMSIFCYVVIYTIWLKRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFL 171
           +  +L F+++   ++IY    KR+      I  +      +I WA+  G ++      + 
Sbjct: 118 LCLSLAFLAL-PPILIYPS-AKRWFAYPQAILALCWGFAVLIPWAAAEGSLNGG----WP 171

Query: 172 IIFLWTPPHFWS 183
           ++F W     W+
Sbjct: 172 LLFCWLATLLWT 183


>gnl|CDD|148828 pfam07446, GumN, GumN protein.  This family contains the bacterial
           protein GumN (approximately 330 residues long). Note
           that many members of this family are hypothetical
           proteins.
          Length = 259

 Score = 28.8 bits (65), Expect = 1.8
 Identities = 10/44 (22%), Positives = 25/44 (56%)

Query: 65  DADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLA 108
                ++ A  A+R +PL  ++ ++ W   ++LA+ ++  +GL+
Sbjct: 76  PELYARLAAALAARGLPLAALAKFKPWFAALTLALLALQKLGLS 119


>gnl|CDD|163384 TIGR03664, fut_nucase, futalosine nucleosidase.  This enzyme
           catalyzes the conversion of futalosine to
           de-hypoxanthine futalosine in a pathway for the
           biosynthesis of menaquinone distinct from the pathway
           observed in E. coli.
          Length = 222

 Score = 28.4 bits (64), Expect = 2.1
 Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 4/56 (7%)

Query: 132 LKRFTPQNIVIGGIAGAIPPMIGWASVTGDVSIASLVMFLIIFLWTPPHFWSLALL 187
           L R   + ++  GIAG  P   G A+V GD+ +A   +   +   TP  F  L  L
Sbjct: 51  LARAPYELVINAGIAGGFP---GSAAV-GDLVVADSEIAADLGAETPEGFLPLEAL 102


>gnl|CDD|183665 PRK12665, PRK12665, putative monovalent cation/H+ antiporter
           subunit D; Reviewed.
          Length = 521

 Score = 28.4 bits (64), Expect = 2.3
 Identities = 9/25 (36%), Positives = 17/25 (68%)

Query: 38  ISVLKSVISIFAIAMGAGASGALNM 62
           +S++ S++ +  IA+   A+G LNM
Sbjct: 169 VSMVSSLLFLIGIALVYAATGTLNM 193


>gnl|CDD|178704 PLN03159, PLN03159, cation/H(+) antiporter 15; Provisional.
          Length = 832

 Score = 28.3 bits (63), Expect = 2.6
 Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 14/85 (16%)

Query: 90  AWVL-GVSLAVSSIVIMGLAINWVSATLLFMSIFCYVVIYTI--WLKRFTPQNIVIGG-- 144
           AW+L  +++A++      LA  WV  + +   +FC+ V+     W+ R TP+        
Sbjct: 214 AWILLALAIALAENDSTSLASLWVLLSSVAFVLFCFYVVRPGIWWIIRRTPEGETFSEFY 273

Query: 145 ---------IAGAIPPMIGWASVTG 160
                    I+G I   IG  SV G
Sbjct: 274 ICLILTGVMISGFITDAIGTHSVFG 298


>gnl|CDD|177652 PLN00012, PLN00012, chlorophyll synthetase; Provisional.
          Length = 375

 Score = 27.9 bits (62), Expect = 3.8
 Identities = 26/78 (33%), Positives = 35/78 (44%), Gaps = 9/78 (11%)

Query: 55  GASGALNMYYDADIDKMMARTASRPIPLGQISPWEA----WVL---GVSLAVSSIVIMGL 107
           G +  +N +YD +ID +      RPIP G IS  E     WVL   G+ LA +  V  G 
Sbjct: 137 GYTQTINDWYDREIDAI--NEPYRPIPSGAISENEVITQIWVLLLGGLGLAYTLDVWAGH 194

Query: 108 AINWVSATLLFMSIFCYV 125
               V    L  S+  Y+
Sbjct: 195 DFPIVFYLALGGSLLSYI 212


>gnl|CDD|106000 PRK12871, ubiA, prenyltransferase; Reviewed.
          Length = 297

 Score = 27.1 bits (60), Expect = 6.4
 Identities = 45/207 (21%), Positives = 83/207 (40%), Gaps = 33/207 (15%)

Query: 52  MGAGASGALNMYYDA-----DIDKMMART----ASRPIPLGQISPWEA-WVLGVSLAVSS 101
            G  A   LN Y D      D++  + R       RPIP G++S   A  +  +  AV+S
Sbjct: 52  FGFEAGFVLNDYVDRKRDRLDVENTLTRYWRPFKERPIPSGKLSSKNAFALFILLAAVTS 111

Query: 102 IVIMGLAINWVSATLLFMSIFCYVVIYTIWLKRFTPQNIVIGGIAG----AIPPMIGWAS 157
            +I+ L         + M ++ Y +     +K+   Q   +  + G     + P  G+  
Sbjct: 112 ALILTLPYPNSLYVFVIM-LYSYGIEAFYQVKK-RNQKYPVAQLLGRTDFTLFPAAGYL- 168

Query: 158 VTGDVSIASLVMFLIIFLWTPPHFWSLALLCKDDYQKASIPMLPNVVTDRTTKMHILIYT 217
             G   + +L+  +  + WT      +A L  +D+         ++  DR   M  +   
Sbjct: 169 CYGQPDMTALLYMVFFYPWT------MAHLGLNDF--------IDLENDRARGMKSI--A 212

Query: 218 VLTSIVGVLPTMLGFASVTYGIIVFFL 244
           VL  + G +  + GF ++ +   +FFL
Sbjct: 213 VLYGMKGTMYWVTGFTALHFLAAIFFL 239


>gnl|CDD|131111 TIGR02056, ChlG, chlorophyll synthase, ChlG.  This model represents
           the strictly cyanobacterial and plant-specific
           chlorophyll synthase ChlG. ChlG is the enzyme (esterase)
           which attaches the side chain moiety onto chlorophyllide
           a. Both geranylgeranyl and phytyl pyrophosphates are
           substrates to varying degrees in enzymes from different
           sources. Thus, ChlG may act as the final or penultimate
           step in chlorophyll biosynthesis (along with the
           geranylgeranyl reductase, ChlP).
          Length = 306

 Score = 26.9 bits (59), Expect = 7.0
 Identities = 20/61 (32%), Positives = 27/61 (44%), Gaps = 2/61 (3%)

Query: 55  GASGALNMYYDADIDKMMARTASRPIPLGQISPWEAWVLGVSLAVSSIVIMGLAINWVSA 114
           G +  +N +YD DID +      RPIP G IS  E     V L ++ I I  +   W   
Sbjct: 68  GYTQTINDFYDRDIDAI--NEPYRPIPSGAISEPEVITQIVLLFIAGIAIAFILDLWAGH 125

Query: 115 T 115
            
Sbjct: 126 E 126


>gnl|CDD|177437 PHA02614, PHA02614, Major capsid protein VP1; Provisional.
          Length = 363

 Score = 26.9 bits (60), Expect = 7.7
 Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 10/49 (20%)

Query: 182 WSLALLCKDDYQKASIPMLPNVVTDRTTKMHILIYTVLTSIVGVLPTML 230
           +SLA        + ++PML   +T  T  M     +V T +VGV P++L
Sbjct: 84  YSLA--------RINLPMLNEDLTCDTLLMWEA-VSVKTEVVGV-PSLL 122


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.332    0.143    0.453 

Gapped
Lambda     K      H
   0.267   0.0734    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,129,155
Number of extensions: 335468
Number of successful extensions: 1154
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1110
Number of HSP's successfully gapped: 111
Length of query: 305
Length of database: 5,994,473
Length adjustment: 93
Effective length of query: 212
Effective length of database: 3,984,929
Effective search space: 844804948
Effective search space used: 844804948
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 57 (25.7 bits)