RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780569|ref|YP_003064982.1| phosphoribosylaminoimidazole
synthetase [Candidatus Liberibacter asiaticus str. psy62]
         (357 letters)



>gnl|CDD|100032 cd02196, PurM, PurM (Aminoimidazole Ribonucleotide [AIR]
           synthetase), one of eleven enzymes required for purine
           biosynthesis, catalyzes the conversion of
           formylglycinamide ribonucleotide (FGAM) and ATP to AIR,
           ADP, and Pi, the fifth step in de novo purine
           biosynthesis. The N-terminal domain of PurM is related
           to the ATP-binding domains of hydrogen
           expression/formation protein HypE, the AIR synthases,
           selenophosphate synthetase (SelD), and FGAM synthase and
           is thought to bind ATP..
          Length = 297

 Score =  470 bits (1212), Expect = e-133
 Identities = 174/299 (58%), Positives = 222/299 (74%), Gaps = 2/299 (0%)

Query: 42  GEIGGFGGLFDLKKAGFVDPILVSSSDGVGTKLKIAIETGKNDTIGIDLVAMCVNDILTH 101
           G IGGF GLFDL   G+ DP+LVS +DGVGTKLK+A E GK+DTIGIDLVAMCVNDIL  
Sbjct: 1   GGIGGFAGLFDLGLGGYKDPVLVSGTDGVGTKLKLAQEMGKHDTIGIDLVAMCVNDILCQ 60

Query: 102 GAEPLFFLDYLATSQLNPDQATSIIKGIAAGCCQAGCALIGGETAEMPGLYHDRDYDLAG 161
           GAEPLFFLDY+AT +L+P+ A  I+KGIA GC QAGCAL+GGETAEMPG+Y + +YDLAG
Sbjct: 61  GAEPLFFLDYIATGKLDPEVAAEIVKGIAEGCRQAGCALLGGETAEMPGVYAEGEYDLAG 120

Query: 162 FAVGAVERKELLSPENVCAGDLILGLPSSGLHSNGFALVRKIISLSQLSWKDPSPISSEH 221
           FAVG VE+ +++    +  GD+++GLPSSGLHSNG++LVRKI+    L + DP P   + 
Sbjct: 121 FAVGVVEKDKIIDGSKIKPGDVLIGLPSSGLHSNGYSLVRKILFEEGLDYDDPEPGLGK- 179

Query: 222 SLGETLLTPTRIYVSPLLKILRKTGKIKALAHITGGGLTENIPRAIPAHLTASINLNSVE 281
           +LGE LLTPTRIYV P+L +L K   +K +AHITGGGL EN+PR +P  L A I+L S E
Sbjct: 180 TLGEELLTPTRIYVKPILPLLEK-VLVKGMAHITGGGLPENLPRVLPEGLGAVIDLGSWE 238

Query: 282 VPQIISWLSKKAHVKPAEVLRTFNCGIGMVIIVHPDNKDCIIKKFQENNENIILIGEVT 340
           +P I  W+ K  +V   E+ RTFN GIGMV+IV  ++ D +++  ++  E   +IGEV 
Sbjct: 239 IPPIFKWIQKAGNVSEEEMYRTFNMGIGMVLIVSEEDADEVLEILEKLGEKAYVIGEVV 297


>gnl|CDD|30499 COG0150, PurM, Phosphoribosylaminoimidazole (AIR) synthetase
           [Nucleotide transport and metabolism].
          Length = 345

 Score =  447 bits (1151), Expect = e-126
 Identities = 185/342 (54%), Positives = 237/342 (69%), Gaps = 2/342 (0%)

Query: 6   KRGLTYGQAGVNIEAGNRTVTQIKSAVKSTKRAGTIGEIGGFGGLFDLKKAGFVDPILVS 65
              LTY  AGV+I+AGN  V +IK AVK T+R   +G +GGF GLFDL +A +  P+LVS
Sbjct: 1   MTSLTYADAGVDIDAGNEAVERIKPAVKRTRRPEVMGGLGGFAGLFDLGQAYY-KPVLVS 59

Query: 66  SSDGVGTKLKIAIETGKNDTIGIDLVAMCVNDILTHGAEPLFFLDYLATSQLNPDQATSI 125
            +DGVGTKL +A + GK+DTIGIDLVAMCVND++  GAEPLFFLDYLAT +L+P+ A  I
Sbjct: 60  GTDGVGTKLLLAEDAGKHDTIGIDLVAMCVNDLVVQGAEPLFFLDYLATGKLDPEVAAQI 119

Query: 126 IKGIAAGCCQAGCALIGGETAEMPGLYHDRDYDLAGFAVGAVERKELLSPENVCAGDLIL 185
           +KGIA GC QAGCAL+GGETAEMPG+Y   DYDLAGFAVG VE+ E++    V  GD+I+
Sbjct: 120 VKGIAEGCKQAGCALVGGETAEMPGMYRGGDYDLAGFAVGVVEKDEIIDGSKVKEGDVII 179

Query: 186 GLPSSGLHSNGFALVRKIISLSQLSWKDPSPISSEHSLGETLLTPTRIYVSPLLKILRKT 245
           GL SSGLHSNG++LVRKII  S L + D  P     +LGE LL PTRIYV P+L ++++ 
Sbjct: 180 GLASSGLHSNGYSLVRKIIEESGLDYDDELPEELGKTLGEELLEPTRIYVKPVLALIKE- 238

Query: 246 GKIKALAHITGGGLTENIPRAIPAHLTASINLNSVEVPQIISWLSKKAHVKPAEVLRTFN 305
           G +K +AHITGGG  EN+PR +P  L A I+  S   P I  WL K  +V+  E+ RTFN
Sbjct: 239 GDVKGMAHITGGGFVENLPRVLPEGLGAVIDKPSWPPPPIFKWLQKAGNVEREEMYRTFN 298

Query: 306 CGIGMVIIVHPDNKDCIIKKFQENNENIILIGEVTQRSEKSP 347
            G+GMV+IV  ++ +  +   +E  E   +IG V     +  
Sbjct: 299 MGVGMVLIVPEEDAEKALALLKEQGETAYVIGRVEAGEGEVV 340


>gnl|CDD|35458 KOG0237, KOG0237, KOG0237, Glycinamide ribonucleotide synthetase
           (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS)
           [Nucleotide transport and metabolism].
          Length = 788

 Score =  443 bits (1142), Expect = e-125
 Identities = 202/348 (58%), Positives = 256/348 (73%), Gaps = 2/348 (0%)

Query: 6   KRGLTYGQAGVNIEAGNRTVTQIKSAVKSTKRAGTIGEIGGFGGLFDLKKAGFVDPILVS 65
              LTY  +GV+I+AGN  V +IK  VK T+R G   +IGGFGGLFDLK+AGF DP+LVS
Sbjct: 434 TPSLTYKDSGVDIDAGNELVQRIKPLVKGTRRPGADADIGGFGGLFDLKQAGFKDPLLVS 493

Query: 66  SSDGVGTKLKIAIETGKNDTIGIDLVAMCVNDILTHGAEPLFFLDYLATSQLNPDQATSI 125
            +DGVGTKLKIA ET  +DT+GIDLVAM VNDI+  GAEPLFFLDY AT +L+   A  +
Sbjct: 494 GTDGVGTKLKIAQETNIHDTVGIDLVAMNVNDIIVQGAEPLFFLDYFATGKLDVSVAEQV 553

Query: 126 IKGIAAGCCQAGCALIGGETAEMPGLYHDRDYDLAGFAVGAVERKELLS-PENVCAGDLI 184
           +KGIA GC QAGCAL+GGETAEMPG+Y   +YDLAGFAVGAVER ++L     + AGD++
Sbjct: 554 VKGIAEGCRQAGCALVGGETAEMPGMYAPGEYDLAGFAVGAVERTDILPKLNEIVAGDVL 613

Query: 185 LGLPSSGLHSNGFALVRKIISLSQLSWKDPSPISSEHSLGETLLTPTRIYVSPLLKILRK 244
           LGLPSSG+HSNGF+LVRKI++ S LS+KDP P  S  +LG+ LL PT+IYV  LL ++RK
Sbjct: 614 LGLPSSGVHSNGFSLVRKILARSGLSYKDPLPWDSSKTLGDELLAPTKIYVKQLLPLIRK 673

Query: 245 TGKIKALAHITGGGLTENIPRAIPAHLTASINLNSVEVPQIISWLSKKAHVKPAEVLRTF 304
            G +K LAHITGGGLTENIPR +P HL A I+ ++ E+P +  WL +  +V  +E+ RTF
Sbjct: 674 -GGVKGLAHITGGGLTENIPRVLPDHLGAVIDADTWELPPVFKWLQQAGNVPDSEMARTF 732

Query: 305 NCGIGMVIIVHPDNKDCIIKKFQENNENIILIGEVTQRSEKSPPILYQ 352
           NCGIGMV++V P+N + ++K+   + E    IGEV  R   SP  +  
Sbjct: 733 NCGIGMVLVVSPENVERVLKELTNHGEEAYRIGEVVNREGVSPQCVVV 780


>gnl|CDD|145754 pfam02769, AIRS_C, AIR synthase related protein, C-terminal domain.
            This family includes Hydrogen expression/formation
           protein HypE, AIR synthases EC:6.3.3.1, FGAM synthase
           EC:6.3.5.3 and selenide, water dikinase EC:2.7.9.3. The
           function of the C-terminal domain of AIR synthase is
           unclear, but the cleft formed between N and C domains is
           postulated as a sulphate binding site.
          Length = 150

 Score =  104 bits (261), Expect = 4e-23
 Identities = 56/166 (33%), Positives = 83/166 (50%), Gaps = 24/166 (14%)

Query: 180 AGDLILGLPSSGLHSNGFALVRKIISLSQLSWKDPSPISSEHSLGETLLTPTRIYVSPLL 239
            GD+++ L SSGL  +G +LVRK +       +D +       LG+ LL PT IYV  LL
Sbjct: 2   PGDVLILLGSSGLGGSGLSLVRKGL------EEDGAVP-----LGDPLLEPTLIYVVLLL 50

Query: 240 KILRKTGKIKALAHITGGGLTENIPR-AIPAHLTASINLNSVEVPQIISWLSKKAHVKPA 298
             L   G +KA   ITGGGL   +   A  + + A I+L+ V    I   L     + P 
Sbjct: 51  AAL---GLVKAAHDITGGGLAGALAEMAPASGVGAEIDLDKVP---IFDEL-----LLPL 99

Query: 299 EVLRTFNCGIGMVIIVHPDNKDCIIKKFQENNENIILIGEVTQRSE 344
           E+L + N G G+V++V P+  + ++   +E      +IGEVT    
Sbjct: 100 EMLFSENQGRGLVVVV-PEEAEAVLAILEEEGLPAAVIGEVTAGGG 144


>gnl|CDD|100027 cd00396, PurM-like, AIR (aminoimidazole ribonucleotide) synthase
           related protein. This family includes Hydrogen
           expression/formation protein HypE, AIR synthases, FGAM
           (formylglycinamidine ribonucleotide) synthase and
           Selenophosphate synthetase (SelD). The N-terminal domain
           of AIR synthase forms the dimer interface of the
           protein, and is suggested as a putative ATP binding
           domain..
          Length = 222

 Score = 99.4 bits (248), Expect = 1e-21
 Identities = 69/278 (24%), Positives = 101/278 (36%), Gaps = 59/278 (21%)

Query: 63  LVSSSDGVGTKLKIAIETGKNDTIGIDLVAMCVNDILTHGAEPLFFLDYLATSQ-LNPDQ 121
           L  S+DG+   L I          G   V   VNDI   GA P+  L  L+ S  L  D 
Sbjct: 2   LAMSTDGINPPLAI-----NPWAGGRLAVGGAVNDIAAMGARPIALLASLSLSNGLEVDI 56

Query: 122 ATSIIKGIAAGCCQAGCALIGGETAEMPGLYHDRDYDLAGFAVGAVERKELLSPENVCAG 181
              ++ G+A  C Q G  ++GG T+  PG        LA FA+G VE             
Sbjct: 57  LEDVVDGVAEACNQLGVPIVGGHTSVSPG-TMGHKLSLAVFAIGVVE------------- 102

Query: 182 DLILGLPSSGLHSNGFALVRKIISLSQLSWKDPSPISSEHSLGETLLTPTRIYVSPLLKI 241
                                         KD    SS    G+ L+      V      
Sbjct: 103 ------------------------------KDRVIDSSGARPGDVLILTGVDAV----LE 128

Query: 242 LRKTGKIKALAHITGGGLTENIPRAIPA-HLTASINLNSVEVPQIISWLSKKAHVKPAEV 300
           L   G + A+  IT GGL   +P    A  + A I+L ++ + +++ WL  +      E 
Sbjct: 129 LVAAGDVHAMHDITDGGLLGTLPELAQASGVGAEIDLEAIPLDEVVRWLCVEHI----EE 184

Query: 301 LRTFNCGIGMVIIVHPDNKDCIIKKFQENNENIILIGE 338
              FN   G++I V  +  D ++     N  +  +IG 
Sbjct: 185 ALLFNSSGGLLIAVPAEEADAVLLLLNGNGIDAAVIGR 222


>gnl|CDD|144251 pfam00586, AIRS, AIR synthase related protein, N-terminal domain.
           This family includes Hydrogen expression/formation
           protein HypE, AIR synthases EC:6.3.3.1, FGAM synthase
           EC:6.3.5.3 and selenide, water dikinase EC:2.7.9.3. The
           N-terminal domain of AIR synthase forms the dimer
           interface of the protein, and is suggested as a putative
           ATP binding domain.
          Length = 95

 Score = 98.0 bits (245), Expect = 4e-21
 Identities = 34/102 (33%), Positives = 52/102 (50%), Gaps = 8/102 (7%)

Query: 45  GGFGGLFDLKKAGFVDPILVSSSDGVGTKLKIAIETGKNDTIGIDLVAMCVNDILTHGAE 104
           G    +  L +     P LV ++DGV T +  A +       G   VA  ++D+   GA+
Sbjct: 1   GDDAAVIRLGE----GPALVVTTDGVVTHVHFAADP---YDGGATAVAGNLSDLAAMGAK 53

Query: 105 PLFFLDYLATSQ-LNPDQATSIIKGIAAGCCQAGCALIGGET 145
           PL FLD LA  + L+P+    I++GIA    + G  L+GG+T
Sbjct: 54  PLAFLDGLALGEGLDPEWLEEIVRGIAEAANEFGVPLVGGDT 95


>gnl|CDD|30657 COG0309, HypE, Hydrogenase maturation factor [Posttranslational
           modification, protein turnover, chaperones].
          Length = 339

 Score = 51.4 bits (123), Expect = 4e-07
 Identities = 55/272 (20%), Positives = 108/272 (39%), Gaps = 27/272 (9%)

Query: 81  GKNDTIGIDLVAMCVNDILTHGAEPLFF-LDYLATSQLNPDQATSIIKGIAAGCCQAGCA 139
                IG   V    ND+   GA+P +  +  +    L  +    I+K I     +AG +
Sbjct: 65  FPGGDIGKLAVHGTANDVAVSGAKPRYLSVGLILPEGLPIEDLERILKSIDEEAEEAGVS 124

Query: 140 LIGGETAEMPGLYHDRDYDLAGF-AVGAVERKELLSPENVCAGDLILGLPSSGLHSNGFA 198
           ++ G+T  +PG    +D  +     +G ++++ L+SP     GD ++   + G+H     
Sbjct: 125 IVTGDTKVVPGG---KDPIVINTTGIGIIDKEILVSPSGARPGDAVIVTGTIGIHGASIL 181

Query: 199 LVRKIISLSQLSWKDPSPISSEHSLGETLLTPTRIYVSPLLKILRKT--GKIKALAHITG 256
             R    L          + S+         P    V  LL ++ +     + A+   T 
Sbjct: 182 AHRFGEELET-------ELGSD-------CAPLAKLVKALLSVVGEALAAAVTAMHDATR 227

Query: 257 GGLTENIPR-AIPAHLTASINLNSVEVPQIISWLSKKAHVKPAEVLRTFNCGIGMVIIVH 315
           GGL   +   A  + +  SI    + V + +  + +   + P   L   N G  +VI V 
Sbjct: 228 GGLAGALNEMAEASGVGISIEEEKIPVREEVRGVCELLGLDP---LELANEGK-LVIAVP 283

Query: 316 PDNKDCIIKKFQENNE-NIILIGEVTQRSEKS 346
           P++ + +++  + +   +  +IGEV +     
Sbjct: 284 PEHAEEVLEALRSHGLKDAAIIGEVVEEKGGV 315


>gnl|CDD|30956 COG0611, ThiL, Thiamine monophosphate kinase [Coenzyme metabolism].
          Length = 317

 Score = 51.1 bits (122), Expect = 5e-07
 Identities = 52/262 (19%), Positives = 94/262 (35%), Gaps = 36/262 (13%)

Query: 86  IGIDLVAMCVNDILTHGAEPLFFLDYLA-TSQLNPDQATSIIKGIAAGCCQAGCALIGGE 144
           +G   +A+ ++D+   GA P  FL  L     L+ +   ++  GI     + G  LIGG+
Sbjct: 62  LGWKALAVNLSDLAAMGARPKAFLLSLGLPPDLDEEWLEALADGIFEAAKKYGVKLIGGD 121

Query: 145 TAEMPGLYHDRDYDLAGFAVGAVERKELLSPENVCAGDLILGLPSSGLHSNGFALVRKII 204
           T   P         ++  A+G + +   L       GDL+    + G  + G  L     
Sbjct: 122 TNRGP-------LSISVTAIGVLPKGRALLRSGAKPGDLVAVTGTLGRSAAGLEL----- 169

Query: 205 SLSQLSWKDPSPISSEHSLGETLLTPT-RIYVSPLLKILRKTGKIKALAHITGGGLTENI 263
                   +      E  L E  L PT R+ +   L  L       A   I+ G   +  
Sbjct: 170 ------LLNVLGPEDEEELIERHLRPTPRVELGLALAKL-----ASAAMDISDGLAAD-- 216

Query: 264 PRAIPAHLTASINLNSVEVPQIISWLSKKAHVKPAEVLRTFNCGIG----MVIIVHPDNK 319
              I       I ++   +P   + L     +        +    G    +V  V  +N+
Sbjct: 217 LGHIARASGVGIVIDEDLLPLSDAVLE---ALDELGDPLEWALSGGEDYELVFTVPEENR 273

Query: 320 DCIIKKFQENNENIILIGEVTQ 341
           + ++   +  +  + +IG VT+
Sbjct: 274 EALLDALR--SLGVTIIGRVTE 293


>gnl|CDD|100030 cd02194, ThiL, ThiL (Thiamine-monophosphate kinase) plays a dual
           role in de novo biosynthesis and in salvage of exogenous
           thiamine. Thiamine salvage occurs in two steps, with
           thiamine kinase catalyzing the formation of thiamine
           phosphate, and ThiL catalyzing the conversion of this
           intermediate to thiamine pyrophosphate. The N-terminal
           domain of ThiL binds ATP and is related to the
           ATP-binding domains of hydrogen expression/formation
           protein HypE, the AIR synthases, FGAM synthase and
           selenophosphate synthetase (SelD)..
          Length = 291

 Score = 49.1 bits (118), Expect = 2e-06
 Identities = 31/111 (27%), Positives = 46/111 (41%), Gaps = 20/111 (18%)

Query: 89  DLVAMCVNDILTHGAEPLFFLDYLATSQ-LNPDQATSIIKGIAAGCCQAGCALIGGETAE 147
           DL AM        GA PL FL  L      + +      +G+A    + G  L+GG+T  
Sbjct: 70  DLAAM--------GARPLGFLLSLGLPPDTDEEWLEEFYRGLAEAADRYGVPLVGGDTTS 121

Query: 148 MPGLYHDRDYDLAGFAVGAVERKELLSPENVCAGDLI-----LGLPSSGLH 193
              L       ++  A+G VE+ + L       GDL+     LG  ++GL 
Sbjct: 122 GSELV------ISVTALGEVEKGKPLRRSGAKPGDLLYVTGTLGDAAAGLA 166


>gnl|CDD|32327 COG2144, COG2144, Selenophosphate synthetase-related proteins
           [General function prediction only].
          Length = 324

 Score = 46.4 bits (110), Expect = 1e-05
 Identities = 62/285 (21%), Positives = 116/285 (40%), Gaps = 47/285 (16%)

Query: 60  DPILVSSSDGVGTKLKIAIETGKNDTIGIDLVAMCVNDILTHGAEPLFFLDYLATSQLNP 119
           D  L+ ++DG+  KL  A         G   V + VND+   G EP+  +D ++    + 
Sbjct: 53  DGKLLIAADGIWGKLIDADPW----WAGYCSVLVNVNDVAAMGGEPVGAVDAISAK--SE 106

Query: 120 DQATSIIKGIAAGCCQAGCALIGGETAEMPGLYHDRDYDLAGFAVGAVERKE-LLSPENV 178
           DQA  I++G+  G  + G  ++GG T        D  Y +    +G +  +E +++    
Sbjct: 107 DQAREILEGLRKGARKFGVPIVGGHTHP------DTPYCVLDVVIGGLIAEEPIITSGTA 160

Query: 179 CAGDLILGLPSSGLHSNGFALVRKIISLSQLSWKDPSPISSEHSLGETLLTPTRIYVSPL 238
             GDL++ +           L  K      L+W             +T     +      
Sbjct: 161 KPGDLLIFV---------GDLDGKPYPNFPLNW-------------DTTTMKAKEKFRAQ 198

Query: 239 LKILRKTGK-IKALAHITGGGLTENIPRA-IPAHLTASINLNSVEVPQIISWLSKKAHVK 296
           L++LR+  K +KA   ++ GGL   +      + + A ++L+S+  P  + +        
Sbjct: 199 LELLREGAKLVKAGKDVSNGGLLGTLLMLLEKSRVGAGVDLDSIPYPADVDFRQ------ 252

Query: 297 PAEVLRTFNCGIGMVIIVHPDNKDCIIKKFQENNENIILIGEVTQ 341
                     G G V+ V P++ + ++  F+E      +IGEV +
Sbjct: 253 ----WLKRYPGSGFVLTVDPEDVEEVVDVFEEEGCPATVIGEVIE 293


>gnl|CDD|30395 COG0046, PurL, Phosphoribosylformylglycinamidine (FGAM) synthase,
           synthetase domain [Nucleotide transport and metabolism].
          Length = 743

 Score = 44.4 bits (105), Expect = 5e-05
 Identities = 60/280 (21%), Positives = 112/280 (40%), Gaps = 50/280 (17%)

Query: 95  VNDILTHGAEPLFFLDYLATSQLNPDQATSIIKGIAAGCC----QAGCALIGGETAEMPG 150
           + D+L+ GA P+  LD L     + ++   I+KG+ AG      + G   +GGE      
Sbjct: 124 IRDVLSMGARPIALLDSLRFGIPDIEKTRYIMKGVVAGIAAYGNEIGVPTVGGEFRFDES 183

Query: 151 LYHDRDYDLAGFAVGAVERKELLSPENVCAGDLI--LGLPS--SGLHSNGFA---LVRKI 203
              +    +    VG + ++ ++  E +  GD +  LG  +   G+    FA   L  + 
Sbjct: 184 YVGNP--LVNAGCVGLIRKEHIVKGEAIGPGDKLILLGGKTGRDGIGGATFASMELGEES 241

Query: 204 ISLSQLSWKDPSPISSEHSLGETLLTPTRIYVSPLLKILRKTGKIKALAHITGGGLTENI 263
               + S +   P   E  L E +L               +TG IK +  +  GGL+  I
Sbjct: 242 EEEDRPSVQVGDPF-MEKRLQEAILE------------CVQTGLIKGIQDLGAGGLSCAI 288

Query: 264 PR-AIPAHLTASINLNSVEVPQIISWLSKKAHVKPAEVL------RTFNCGIGMVIIVHP 316
              A    L A I+L+ V          ++  + P E+       R       M+++V P
Sbjct: 289 SELAAKGGLGAEIDLDKV--------PLREPGMSPYEIWLSESQER-------MLLVVAP 333

Query: 317 DNKDCIIKKFQENNENIILIGEVTQRSEKSPPILYQGSLI 356
           ++ +  ++  ++      ++GEVT   E    + ++G  +
Sbjct: 334 EDVEEFLEICEKERLPAAVVGEVTD--EPRLVVDWKGEPV 371


>gnl|CDD|100037 cd06061, PurM-like1, AIR synthase (PurM) related protein, subgroup
           1 of unknown function. The family of PurM related
           proteins includes Hydrogen expression/formation protein
           HypE, AIR synthases, FGAM synthase and Selenophosphate
           synthetase (SelD). They all contain two conserved
           domains and seem to dimerize. The N-terminal domain
           forms the dimer interface and is a putative ATP binding
           domain..
          Length = 298

 Score = 43.0 bits (102), Expect = 1e-04
 Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 14/101 (13%)

Query: 91  VAMCVNDILTHGAEPLFFLDYLATSQLNPDQAT-----SIIKGIAAGCCQAGCALIGGET 145
           V +  NDI T GA P + L  L    L P         +I++ I     + G +++GG T
Sbjct: 64  VHIAANDIATSGARPRWLLVTL----LLPPGTDEEELKAIMREINEAAKELGVSIVGGHT 119

Query: 146 AEMPGLYHDRDYDLAG-FAVGAVERKELLSPENVCAGDLIL 185
              PG+       +    A+G  E+ +L++P     GD I+
Sbjct: 120 EVTPGV----TRPIISVTAIGKGEKDKLVTPSGAKPGDDIV 156


>gnl|CDD|100031 cd02195, SelD, Selenophosphate synthetase  (SelD) catalyzes the
           conversion of selenium to selenophosphate which is
           required by a number of bacterial, archaeal and
           eukaryotic organisms for synthesis of Secys-tRNA, the
           precursor of selenocysteine in selenoenzymes. The
           N-terminal domain of SelD is related to the ATP-binding
           domains of hydrogen expression/formation protein HypE,
           the AIR synthases, and FGAM synthase and is thought to
           bind ATP..
          Length = 287

 Score = 40.2 bits (95), Expect = 0.001
 Identities = 29/103 (28%), Positives = 39/103 (37%), Gaps = 21/103 (20%)

Query: 89  DLVAMCVNDILTHGAEPLFFLDYLA----TSQLNPDQATSIIKGIAAGCCQAGCALIGGE 144
           D+ AM        GA+PL  L  +        L  +    I+ G      +AG  L+GG 
Sbjct: 83  DIYAM--------GAKPLSALAIVTLPRKLPALQEEVLREILAGGKDKLREAGAVLVGGH 134

Query: 145 TAEMPGLYHDRDYDLAGFAV-GAVERKELLSPENVCAGD-LIL 185
           T E P           G +V G V   ++L       GD LIL
Sbjct: 135 TIEGPEP-------KYGLSVTGLVHPNKILRNSGAKPGDVLIL 170


>gnl|CDD|100028 cd02192, PurM-like3, AIR synthase (PurM) related protein, subgroup
           3 of unknown function. The family of PurM related
           proteins includes Hydrogen expression/formation protein
           HypE, AIR synthases, FGAM synthase and Selenophosphate
           synthetase (SelD). They all contain two conserved
           domains and seem to dimerize. The N-terminal domain
           forms the dimer interface and is a putative ATP binding
           domain..
          Length = 283

 Score = 36.4 bits (85), Expect = 0.012
 Identities = 23/91 (25%), Positives = 41/91 (45%), Gaps = 8/91 (8%)

Query: 95  VNDILTHGAEPLFFLDYLATSQLNPDQATSIIKGIAAGCCQAGCALIGGETAEMPGLYHD 154
           V+DI   G  PL  +D L +   + + A  +++G+     + G  ++GG T      + D
Sbjct: 76  VSDIAAMGGRPLAMVDALWSP--SAEAAAQVLEGMRDAAEKFGVPIVGGHT------HPD 127

Query: 155 RDYDLAGFAVGAVERKELLSPENVCAGDLIL 185
             Y+    A+    RK+LL       GD ++
Sbjct: 128 SPYNALSVAILGRARKDLLISFGAKPGDRLI 158


>gnl|CDD|100033 cd02197, HypE, HypE (Hydrogenase expression/formation protein).
           HypE is involved in Ni-Fe hydrogenase biosynthesis.
           HypE dehydrates its own carbamoyl moiety in an
           ATP-dependent process to yield the enzyme thiocyanate.
           The N-terminal domain of HypE is related to the
           ATP-binding domains of the AIR synthases,
           selenophosphate synthetase (SelD), and FGAM synthase and
           is thought to bind ATP..
          Length = 293

 Score = 31.7 bits (73), Expect = 0.30
 Identities = 25/102 (24%), Positives = 44/102 (43%), Gaps = 22/102 (21%)

Query: 95  VNDILTHGAEPLFFLDY------LATSQLNPDQATSIIKGIAAGCCQAGCALIGGETAEM 148
           VND+   GA+PL+               L       I+K +A    +AG  ++ G+T  +
Sbjct: 67  VNDLAMMGAKPLYLSLGFILEEGFPLEDL-----ERIVKSMAEAAREAGVKIVTGDTKVV 121

Query: 149 P-----GLYHDRDYDLAGFAVGAVERKELLSPENVCAGDLIL 185
           P     G++      +    +G + R  ++SP N+  GD I+
Sbjct: 122 PKGKADGIF------INTTGIGVIPRGVIISPSNIRPGDKII 157


>gnl|CDD|176245 cd08285, NADP_ADH, NADP(H)-dependent alcohol dehydrogenases.  This
           group is predominated by atypical alcohol
           dehydrogenases; they exist as tetramers and exhibit
           specificity for NADP(H) as a cofactor in the
           interconversion of alcohols and aldehydes, or ketones.
           Like other zinc-dependent alcohol dehydrogenases (ADH)
           of the medium chain alcohol dehydrogenase/reductase
           family (MDR), tetrameric ADHs have a catalytic zinc that
           resides between the catalytic and NAD(H)binding domains;
           however, they do not have and a structural zinc in a
           lobe of the catalytic domain.  The medium chain alcohol
           dehydrogenase family (MDR) has a NAD(P)(H)-binding
           domain in a Rossmann fold of a beta-alpha form. The
           N-terminal region typically has an all-beta catalytic
           domain. These proteins typically form dimers (typically
           higher plants, mammals) or tetramers (yeast, bacteria),
           and have 2 tightly bound zinc atoms per subunit.
          Length = 351

 Score = 30.3 bits (69), Expect = 0.89
 Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)

Query: 9   LTYGQAGVN--IEAGNRTVTQIKSAVKSTKRAGTIGEIGGFGG 49
           LT G+ GV+  I AG    T  + A+K  K  GTI  +  +G 
Sbjct: 230 LTGGK-GVDAVIIAGGGQDT-FEQALKVLKPGGTISNVNYYGE 270


>gnl|CDD|100034 cd02203, PurL_repeat1, PurL subunit of the formylglycinamide
           ribonucleotide amidotransferase (FGAR-AT), first repeat.
           FGAR-AT catalyzes the ATP-dependent conversion of
           formylglycinamide ribonucleotide (FGAR) and glutamine to
           formylglycinamidine ribonucleotide (FGAM), ADP,
           phosphate, and glutamate in the fourth step of the
           purine biosynthetic pathway. In eukaryotes and
           Gram-negative bacteria, FGAR-AT is encoded by the purL
           gene as a multidomain protein with a molecular mass of
           about 140 kDa. In Gram-positive bacteria and archaea
           FGAR-AT is a complex of three proteins: PurS, PurL, and
           PurQ. PurL itself contains two tandem N- and C-terminal
           domains (four domains altogether). The N-terminal
           domains bind ATP and are related to the ATP-binding
           domains of HypE, ThiL, SelD and PurM..
          Length = 313

 Score = 30.1 bits (69), Expect = 0.97
 Identities = 24/105 (22%), Positives = 37/105 (35%), Gaps = 22/105 (20%)

Query: 97  DILTHGAEPLFFLDYLATSQLNPDQATS------------IIKGIAAGCCQAGCALIGGE 144
           DIL+ GA P+  LD L    L+                  ++ GI+      G   +GGE
Sbjct: 57  DILSMGARPIALLDGLRFGDLDIPGYEPKGKLSPRRILDGVVAGISDYGNCIGIPTVGGE 116

Query: 145 TAEMPGLYHDRDYDL----AGFAVGAVERKELLSPENVCAGDLIL 185
                    D  Y          VG V +  ++  +    GDL++
Sbjct: 117 V------RFDPSYYGNPLVNVGCVGIVPKDHIVKSKAPGPGDLVV 155


>gnl|CDD|143893 pfam00118, Cpn60_TCP1, TCP-1/cpn60 chaperonin family.  This family
           includes members from the HSP60 chaperone family and the
           TCP-1 (T-complex protein) family.
          Length = 481

 Score = 29.9 bits (68), Expect = 1.2
 Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 11/67 (16%)

Query: 14  AGVNIEAGNRTVTQIKSAVKSTKRAGTIGEIGGFGGLFDLKKAGFVDPILVSSSDGVGTK 73
           AG++       + ++K+A K     G   + G  G   D+K+AG +DP+ V  S      
Sbjct: 411 AGLD---PIEVLAKLKAAHKKGNNLGIDADTGEIG---DMKEAGIIDPLKVKRSA----- 459

Query: 74  LKIAIET 80
           LK A+E 
Sbjct: 460 LKSAVEV 466


>gnl|CDD|176243 cd08283, FDH_like_1, Glutathione-dependent formaldehyde
           dehydrogenase related proteins, child 1.  Members
           identified as glutathione-dependent formaldehyde
           dehydrogenase(FDH), a member of the
           zinc-dependent/medium chain alcohol dehydrogenase
           family.  FDH converts formaldehyde and NAD(P) to formate
           and NAD(P)H. The initial step in this process the
           spontaneous formation of a S-(hydroxymethyl)glutathione
           adduct from formaldehyde and glutathione, followed by
           FDH-mediated oxidation (and detoxification) of the
           adduct to S-formylglutathione.  MDH family uses NAD(H)
           as a cofactor in the interconversion of alcohols and
           aldehydes, or ketones. Like many zinc-dependent alcohol
           dehydrogenases (ADH) of the medium chain alcohol
           dehydrogenase/reductase family (MDR), these FDHs form
           dimers, with 4 zinc ions per dimer. The medium chain
           alcohol dehydrogenase family (MDR) has a
           NAD(P)(H)-binding domain in a Rossmann fold of a
           beta-alpha form. The N-terminal region typically has an
           all-beta catalytic domain. These proteins typically form
           dimers (typically higher plants, mammals) or tetramers
           (yeast, bacteria), and have 2 tightly bound zinc atoms
           per subunit.
          Length = 386

 Score = 27.9 bits (63), Expect = 4.8
 Identities = 7/25 (28%), Positives = 17/25 (68%)

Query: 28  IKSAVKSTKRAGTIGEIGGFGGLFD 52
           ++ A+++ ++ GT+  IG +GG  +
Sbjct: 289 LREAIQAVRKGGTVSIIGVYGGTVN 313


>gnl|CDD|144458 pfam00871, Acetate_kinase, Acetokinase family.  This family
           includes acetate kinase, butyrate kinase and
           2-methylpropanoate kinase.
          Length = 387

 Score = 27.7 bits (62), Expect = 5.2
 Identities = 12/51 (23%), Positives = 26/51 (50%), Gaps = 3/51 (5%)

Query: 283 PQIISWLSKKAHVKPAEVLRTFNCGIGMVII--VHPDNKDCIIKKFQENNE 331
           P I+ +L++   +   EV+ T N   G++ +  +  D +D +    +E +E
Sbjct: 244 PAIVFYLAETEGMSADEVVNTLNKKSGLLGLSGLSSDLRD-VEDAMEEGDE 293


>gnl|CDD|38891 KOG3687, KOG3687, KOG3687, Tuberin - Rap/ran-GTPase-activating
            protein [Cell cycle control, cell division, chromosome
            partitioning, Signal transduction mechanisms].
          Length = 1697

 Score = 27.4 bits (60), Expect = 6.6
 Identities = 29/135 (21%), Positives = 43/135 (31%), Gaps = 23/135 (17%)

Query: 109  LDYLATSQLNPDQATSIIKGIAAGCCQAGCALIGG------ETAEMPGLYHDRDYDLAGF 162
             + L T   +    T  + G+ +G  Q+G            +T E P     +    AG 
Sbjct: 965  GNKLVTITTSVGTGTRSLLGLDSGELQSGPESSASPGVPVRQTKEAPAKLESQ----AGQ 1020

Query: 163  AVGAVERKELLSPENVCAGDLILGLPSSGLHSNGFALVRKIISLSQLSWKDPSPISSEHS 222
             V       + S      G    GL    L            S   LS   P P ++  +
Sbjct: 1021 QVSRGAEDRVRSMSF--GG---HGLRVGALDVP--------ASQFLLSATSPGPRTAPAA 1067

Query: 223  LGETLLTPTRIYVSP 237
            L E   T +R+ V P
Sbjct: 1068 LPEKASTGSRVPVQP 1082


>gnl|CDD|31541 COG1350, COG1350, Predicted alternative tryptophan synthase
           beta-subunit (paralog of TrpB) [General function
           prediction only].
          Length = 432

 Score = 26.8 bits (59), Expect = 9.2
 Identities = 11/26 (42%), Positives = 14/26 (53%)

Query: 209 LSWKDPSPISSEHSLGETLLTPTRIY 234
           L    P+P+    +L E L TP RIY
Sbjct: 73  LQIGRPTPLIRAKNLEEALGTPARIY 98


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.318    0.137    0.398 

Gapped
Lambda     K      H
   0.267   0.0710    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,228,630
Number of extensions: 224021
Number of successful extensions: 504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 480
Number of HSP's successfully gapped: 31
Length of query: 357
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 262
Effective length of database: 4,210,882
Effective search space: 1103251084
Effective search space used: 1103251084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.2 bits)