RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780812|ref|YP_003065225.1| uroporphyrinogen decarboxylase
[Candidatus Liberibacter asiaticus str. psy62]
         (346 letters)



>gnl|CDD|48141 cd00717, URO-D, Uroporphyrinogen decarboxylase (URO-D) is a dimeric
           cytosolic enzyme that decarboxylates the four acetate
           side chains of uroporphyrinogen III (uro-III) to create
           coproporphyrinogen III, without requiring any prosthetic
           groups or cofactors. This reaction is located at the
           branching point of the tetrapyrrole biosynthetic
           pathway, leading to the biosynthesis of heme,
           chlorophyll or bacteriochlorophyll. URO-D deficiency is
           responsible for the human genetic diseases familial
           porphyria cutanea tarda (fPCT) and hepatoerythropoietic
           porphyria (HEP)..
          Length = 335

 Score =  384 bits (988), Expect = e-107
 Identities = 156/340 (45%), Positives = 214/340 (62%), Gaps = 10/340 (2%)

Query: 9   LEVLQGNVINPPPIWLMRQAGRYLPEYRQIRKKFKNFLDMCYTPEYTVELTLQPIRRYNF 68
           L  L+G  ++ PP+W MRQAGRYLPEYR++R K  +FL++C  PE   E+TLQP+RR+  
Sbjct: 1   LRALRGEPVDRPPVWFMRQAGRYLPEYRELRAK-YSFLELCKNPELAAEVTLQPVRRFGV 59

Query: 69  DAAILFSDILVIADALGRNVRFVENEGPRMD-PITTQEI--YLLNPNIDLFLNYLLPIFQ 125
           DAAI+FSDILV  +A+G +V FVE +GP +  PI T+     LL P+ +  L+Y   +++
Sbjct: 60  DAAIIFSDILVPLEAMGMDVEFVEGKGPVIPNPIRTEADVDRLLVPDPEEELSY---VYE 116

Query: 126 SISILRKKLPNHITLIGFCGAPWTVASYMISGGFIKDHGQNRVFAYQNSRAFNWLLDFLS 185
           +I + RK+LP  + LIGF GAPWT+ASYMI GG  KD  + +   Y +  AF+ LLD L+
Sbjct: 117 AIKLTRKELPGEVPLIGFAGAPWTLASYMIEGGGSKDFAKAKKMMYTDPEAFHALLDKLT 176

Query: 186 DVSAEYLIAQIHAGVDVIQIFDTHAGCLGEHEFENYAARSVGRIISAVRRKYPNAKFISF 245
           D + EYL AQI AG   +QIFD+ AG L   +FE +    + RII  V+++ P    I F
Sbjct: 177 DATIEYLKAQIEAGAQAVQIFDSWAGALSPEDFEEFVLPYLKRIIEEVKKRLPGVPVILF 236

Query: 246 AKGAGYMLKNYRRLTDSNAIGLDWSVPLSFALE-LQKEGPVQGNLDPMRLVVGNQVMIDG 304
           AKGAG +L++  +L  ++ +GLDW V L  A + L  +  +QGNLDP  L    + +   
Sbjct: 237 AKGAGGLLEDLAQLG-ADVVGLDWRVDLDEARKRLGPKVALQGNLDPALLYAPKEAIEKE 295

Query: 305 VNAILDVLGSGP-FIFNLGHGITPQVDPKNVLDLVKTVRS 343
           V  IL   G  P  IFNLGHGI P   P+NV  LV+ V S
Sbjct: 296 VKRILKAFGGAPGHIFNLGHGILPDTPPENVKALVEAVHS 335


>gnl|CDD|30756 COG0407, HemE, Uroporphyrinogen-III decarboxylase [Coenzyme
           metabolism].
          Length = 352

 Score =  341 bits (877), Expect = 1e-94
 Identities = 144/340 (42%), Positives = 201/340 (59%), Gaps = 4/340 (1%)

Query: 7   KILEVLQGNVINPPPIWLMRQAGRYLPEYRQIRKKFKNFLDMCYTPEYTVELTLQPIRRY 66
           + L  L+G  ++  P+W+MRQAGRYLPEYR +R+K  +FL+ C  PE   E+TLQP+RRY
Sbjct: 9   RFLRALKGKPVDRTPVWMMRQAGRYLPEYRALREKGGSFLEACKNPELAAEVTLQPVRRY 68

Query: 67  NFDAAILFSDILVIADALGRNVRFVENEGPR-MDPITTQEIYLLNPNIDLFLNYLLPIFQ 125
             DAAILFSDILV  +ALG  VRF E +GP  + PI  +E   L   +      L  +  
Sbjct: 69  GLDAAILFSDILVPPEALGCEVRFGEGKGPSVLKPIRDKEDVELLVPLLDPEGRLPYVLD 128

Query: 126 SISILRKKLPNHITLIGFCGAPWTVASYMISGGFIKDHGQNRVFAYQNSRAFNWLLDFLS 185
           +I +LR+KL   + LIGF G+PWT+ASY+I GG  KD  + +   Y    A + LLD L+
Sbjct: 129 AIKLLREKLGGEVPLIGFAGSPWTLASYLIEGGGSKDFSKTKAMMYTEPDAVHALLDKLT 188

Query: 186 DVSAEYLIAQIHAGVDVIQIFDTHAGCLGEHEFENYAARSVGRIISAVRRKYPNAKFISF 245
           D   EYL AQI AG D +QIFD+ AG L   +++ +    + RI+  V+        I F
Sbjct: 189 DAVIEYLKAQIEAGADAVQIFDSWAGVLSMIDYDEFVLPYMKRIVREVKEVKGGVPVIHF 248

Query: 246 AKGAGYMLKNYRRLTDSNAIGLDWSVPLSFALELQKEGP-VQGNLDPMRLVVGNQVMIDG 304
            KGAG++L++  +    + +G+DW V L  A +   +   +QGNLDP  L    + + + 
Sbjct: 249 CKGAGHLLEDMAKTG-FDVLGVDWRVDLKEAKKRLGDKVALQGNLDPALLYAPPEAIKEE 307

Query: 305 VNAILDVLGSGP-FIFNLGHGITPQVDPKNVLDLVKTVRS 343
           V  IL+  G G  +IFNLGHGI P+  P+NV  LV+ V  
Sbjct: 308 VKRILEDGGDGSGYIFNLGHGILPETPPENVKALVEAVHE 347


>gnl|CDD|144708 pfam01208, URO-D, Uroporphyrinogen decarboxylase (URO-D). 
          Length = 337

 Score =  327 bits (840), Expect = 3e-90
 Identities = 141/347 (40%), Positives = 195/347 (56%), Gaps = 18/347 (5%)

Query: 2   NERKQKILEVLQGNVINPPPIWLMRQAGRYLPEYRQIRKKFKNFLDMCYTPEYTVELTLQ 61
           NER   +L  L+G  ++  P+WLMRQAGRYLPEYR +R    +FL+ C  PE   E+TLQ
Sbjct: 3   NER---LLRALRGEPVDRVPVWLMRQAGRYLPEYRALRAG-ASFLEACKDPELAAEVTLQ 58

Query: 62  PIRRYNFDAAILFSDILVIADALGRNVRFVENEGPRMD--PITTQEIYLLNPNIDLFLNY 119
           P RR+  DAAILFSDILV A+A+G  V F E EGP ++    T +++  L    D   + 
Sbjct: 59  PYRRFGLDAAILFSDILVEAEAMGCEVDFGEGEGPVVENPIRTPEDVDKLEV-PDDEEDR 117

Query: 120 LLPIFQSISILRKKLPNHITLIGFCGAPWTVASYMISG--GFIKDHGQNRVFAYQNSRAF 177
           L  + ++I +LRK+L + + LIGF G P+T+ASY++ G   F K         Y++    
Sbjct: 118 LPYVLEAIRLLRKELGDEVPLIGFVGGPFTLASYLVEGFEKFKKL-------MYKDPELV 170

Query: 178 NWLLDFLSDVSAEYLIAQIHAGVDVIQIFDTHAGCLGEHEFENYAARSVGRIISAVRRKY 237
           + LLD L+D   EYL AQI AG D IQIFD+ AG L   +F  +    + RI+  V+ + 
Sbjct: 171 HALLDKLTDAVIEYLKAQIEAGADAIQIFDSWAGLLSPEDFREFVLPYLKRIVDEVKARG 230

Query: 238 PNAKFISFAKGAGYMLKNYRRLTDSNAIGLDWSVPLSFALELQKEGPVQGNLDPMRLVVG 297
           P    I    G G  +      T ++ I LDW+V L+ A  +  +  +QGNLDP  L+  
Sbjct: 231 PGPV-ILHICGNGTPILEDMAETGADVISLDWTVDLAEAKRIVGDVALQGNLDPALLLGT 289

Query: 298 NQVMIDGVNAILD-VLGSGPFIFNLGHGITPQVDPKNVLDLVKTVRS 343
            + +   V  IL+   G    IFNLGHGI P   P+NV  LV+ V  
Sbjct: 290 PEEIEAEVKEILEAAGGGRGHIFNLGHGIPPDTPPENVKALVEAVHE 336


>gnl|CDD|38083 KOG2872, KOG2872, KOG2872, Uroporphyrinogen decarboxylase [Coenzyme
           transport and metabolism].
          Length = 359

 Score =  267 bits (685), Expect = 2e-72
 Identities = 131/343 (38%), Positives = 195/343 (56%), Gaps = 11/343 (3%)

Query: 8   ILEVLQGNVINPPPIWLMRQAGRYLPEYRQIRKKFKNFLDMCYTPEYTVELTLQPIRRYN 67
           +L   +G  ++ PP+W+MRQAGRYLPEY+++R K ++F + C  PE   E+TLQP+RR+ 
Sbjct: 15  LLRAAKGEEVDRPPVWIMRQAGRYLPEYQELRAK-QDFFETCRNPELACEITLQPLRRFR 73

Query: 68  FDAAILFSDILVIADALGRNVRFVENEGPRM-DPITTQE-IYLLNPNIDLFLNYLLPIFQ 125
            DAAI+FSDILVI  ALG  V  VE +GP   +P+   E +  L        + L  +  
Sbjct: 74  LDAAIIFSDILVIPQALGMPVDMVEGKGPVFPEPLRVPEDLKRLRDPEV-VESELGYVGD 132

Query: 126 SISILRKKLPNHITLIGFCGAPWTVASYMISGGFIKDHGQNRVFAYQNSRAFNWLLDFLS 185
           +I++ R+KL   + LIGF GAPWT+ +YMI GG  K   Q + + +Q     + LL  L+
Sbjct: 133 AITLTRQKLDGRVPLIGFVGAPWTLMTYMIEGGGSKTFTQAKRWLFQYPEVSHALLQILT 192

Query: 186 DVSAEYLIAQIHAGVDVIQIFDTHAGCLGEHEFENYAARSVGRIISAVRRKYPNAK---- 241
           D   EYL+ Q+ AG   +QIF++ AG L   +FE ++   + +I  AV+++ P       
Sbjct: 193 DAIVEYLVYQVVAGAQALQIFESWAGELSPEDFEEFSLPYLRQIAEAVKKRLPELGLAPV 252

Query: 242 -FISFAKGAGYMLKNYRRLTDSNAIGLDWSVPLSFALE-LQKEGPVQGNLDPMRLVVGNQ 299
             I FAKG+G  L+   + T  + +GLDW+V  + A   +     +QGNLDP  L    +
Sbjct: 253 PMILFAKGSGGALEELAQ-TGYDVVGLDWTVDPAEARRRVGNRVTLQGNLDPGVLYGSKE 311

Query: 300 VMIDGVNAILDVLGSGPFIFNLGHGITPQVDPKNVLDLVKTVR 342
            +   V  ++   G   +I NLGHGITP   P++V   V+ V 
Sbjct: 312 EITQLVKQMVKDFGKSRYIANLGHGITPGTPPEHVAHFVEAVH 354


>gnl|CDD|48148 cd03465, URO-D_like, The URO-D _like protein superfamily includes
           bacterial and eukaryotic uroporphyrinogen decarboxylases
           (URO-D), coenzyme M methyltransferases and other
           putative bacterial methyltransferases. Uroporphyrinogen
           decarboxylase (URO-D) decarboxylates the four acetate
           side chains of uroporphyrinogen III (uro-III) to create
           coproporphyrinogen III, an important branching point of
           the tetrapyrrole biosynthetic pathway. The
           methyltransferases represented here are important for
           ability of methanogenic organisms to use other compounds
           than carbon dioxide for reduction to methane..
          Length = 330

 Score =  111 bits (279), Expect = 3e-25
 Identities = 75/346 (21%), Positives = 145/346 (41%), Gaps = 27/346 (7%)

Query: 9   LEVLQGNVINPPPIWLMRQAGRYLPEYRQIRKKFKNFLDMCYTPEYTVELTLQPIRRYNF 68
              L G   +  P+  +        E+  I  K     +    PE   E  +   +++  
Sbjct: 1   AAALNGEKPDRVPVGPLLHG--GAAEFIGISLK-----EYYTDPELGAEAQIALYKKFGP 53

Query: 69  DAAILFSDILVIADALGRNVRFVENEGPRM---DPITTQEIYLLNPNIDLFLNYLLPIFQ 125
           DA  +FSD+ V A+A G  +R+ E++ P +        +E   L P        L  + +
Sbjct: 54  DAIKVFSDLFVEAEAFGAEIRYPEDDTPSVEGPLIEDEEEDDDLLPPDPGDSPRLPELLE 113

Query: 126 SISILRKKLPNHITLIGFCGAPWTVASYMISG-GFIKDHGQNRVFAYQNSRAFNWLLDFL 184
           +I +L+++L + + +IG  G P+T+AS ++    F+          Y +    + LL+  
Sbjct: 114 AIRLLKEELGDRVPVIGAVGGPFTLASLLMGASKFLML-------LYTDPELVHKLLEKC 166

Query: 185 SDVSAEYLIAQIHAGVDVIQIFDTHAGC--LGEHEFENYAARSVGRIISAVRRKYPNAKF 242
           ++    Y  A I AG D I I D  A    L   +F+ ++   + ++  A+  K      
Sbjct: 167 TEFIIRYADALIEAGADGIYISDPWASSSILSPEDFKEFSLPYLKKVFDAI--KALGGPV 224

Query: 243 ISFAKGAGYMLKNYRRLTDSNAIGLDWSVPLSFALELQKEGP-VQGNLDPMRLVVGN--Q 299
           I    G    +        ++   +D +V L+ A +   +   + GNLDP+ +++    +
Sbjct: 225 IHHNCGDTAPILELMADLGADVFSIDVTVDLAEAKKKVGDKACLMGNLDPIDVLLNGSPE 284

Query: 300 VMIDGVNAILDVLGSGP--FIFNLGHGITPQVDPKNVLDLVKTVRS 343
            + + V  +L+ L  G   +I + G  I P    +N+  ++  VR 
Sbjct: 285 EIKEEVKELLEKLLKGGGGYILSSGCEIPPDTPIENIKAMIDAVRE 330


>gnl|CDD|73209 cd00465, URO-D_CIMS_like, The URO-D_CIMS_like protein superfamily
           includes bacterial and eukaryotic uroporphyrinogen
           decarboxylases (URO-D), coenzyme M methyltransferases
           and other putative bacterial methyltransferases, as well
           as cobalamine (B12) independent methionine synthases.
           Despite their sequence similarities, members of this
           family have clearly different functions.
           Uroporphyrinogen decarboxylase (URO-D) decarboxylates
           the four acetate side chains of uroporphyrinogen III
           (uro-III) to create coproporphyrinogen III, an important
           branching point of the tetrapyrrole biosynthetic
           pathway. The methyltransferases represented here are
           important for ability of methanogenic organisms to use
           other compounds than carbon dioxide for reduction to
           methane, and methionine synthases transfer a methyl
           group from a folate cofactor to L-homocysteine in a
           reaction requiring zinc..
          Length = 306

 Score = 99.7 bits (248), Expect = 1e-21
 Identities = 59/319 (18%), Positives = 109/319 (34%), Gaps = 33/319 (10%)

Query: 21  PIWLMRQAGRYLPEYRQIRKKFKNFLDMCYTPEYTVELTLQPIRRYNFDAAIL-FSDILV 79
           P+    Q G    E  +     +   +     E+ + L          D   +   D+L 
Sbjct: 1   PVQCEGQTGIM--EASETMAISEEPGE-TSKAEWGITLVEPE--EIPLDVIPVHEDDVLK 55

Query: 80  IADALGRNVRFVENEGPRMDPITTQEIYLLNPNIDLFLNYLLPIFQSISILRKKLPNHIT 139
           +A ALG       ++ P +  I  +E                P  + I+ +R        
Sbjct: 56  VAQALGEWAFRYYSQAPSVPEIDEEEDPFREA----------PALEHITAVRSLE--EFP 103

Query: 140 LIGFCGAPWTVASYMISGGFIKDHGQNRVFAYQNSRAFNWLLDFLSDVSAEYLIAQIHAG 199
             G  G P+T   + +S G            Y+   A + L+++L++   EY    I AG
Sbjct: 104 TAGAAGGPFTFTHHSMSMGDALM------ALYERPEAMHELIEYLTEFILEYAKTLIEAG 157

Query: 200 VDVIQIFDTHAGC----LGEHEFENYAARSVGRIISAVRRKYPNAKFISFAKGAGYMLKN 255
              +QI +         LG   F+ +A  +  ++             +  +      L  
Sbjct: 158 AKALQIHEPAFSQINSFLGPKMFKKFALPAYKKVAEYKAA--GEVPIVHHSCYDAADLLE 215

Query: 256 YRRLTDSNAIGLDWSV--PLSFALELQKEGPVQGNLDPMRLVVGNQVMIDGVNAILDVLG 313
                  + I  D +V  P     ++ ++  + G +DP  L   ++  I  V  +++ LG
Sbjct: 216 EMIQLGVDVISFDMTVNEPKEAIEKVGEKKTLVGGVDPGYLPATDEECIAKVEELVERLG 275

Query: 314 SGPFIFNLGHGITPQVDPK 332
              +I N   G+ P  D K
Sbjct: 276 PH-YIINPDCGLGPDSDYK 293


>gnl|CDD|48142 cd03307, Mta_CmuA_like, MtaA_CmuA_like family. MtaA/CmuA, also
           MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M
           isozymes, are methylcobamide:Coenzyme M
           methyltransferases, which play a role in metabolic
           pathways of methane formation from various substrates,
           such as methylated amines and methanol. Coenzyme M,
           2-mercaptoethylsulfonate or CoM, is methylated during
           methanogenesis in a reaction catalyzed by three
           proteins. A methyltransferase methylates the corrinoid
           cofactor, which is bound to a second polypeptide, a
           corrinoid protein. The methylated corrinoid protein then
           serves as a substrate for MT2-A and related enzymes,
           which methylate CoM..
          Length = 326

 Score = 75.2 bits (185), Expect = 2e-14
 Identities = 69/331 (20%), Positives = 116/331 (35%), Gaps = 40/331 (12%)

Query: 24  LMRQAGRYLPEYRQIRKKFKNFLDMCYTPEYTVELTLQPIRRYNFDAAILFSDILVIADA 83
           LM   G Y PE                  E   +L         F+A  +   + V A+A
Sbjct: 25  LMEATGAYWPEAH-------------SDAEKMADLAAAGHEVAGFEAVRVPFCMTVEAEA 71

Query: 84  LGRNVRF--VENE-GPRMDPITTQEIYLLNPNIDLFLNYLLPIFQSISILRKKLPNHITL 140
           LG  V +   + +      P    E     P+  L    +  + ++I IL++K    + +
Sbjct: 72  LGCEVDWGTKDIQPSVTSHPFKKLEDVEKLPDDFLERGRIPTVLEAIKILKEKYGEEVPV 131

Query: 141 IGFCGAPWTVASYMIS-----GGFIKDHGQNRVFAYQNSRAFNWLLDFLSDVSAEYLIAQ 195
           IG    P ++AS++          IK                   L+FL++   EY  AQ
Sbjct: 132 IGGMTGPASLASHLAGVENFLKWLIKK-----------PEKVREFLEFLTEACIEYAKAQ 180

Query: 196 IHAGVDVIQIFDTHAG--CLGEHEFENYAARSVGRIISAVRRKYPNAKFISFAKGAGYML 253
           + AG D+I I D  A    +    +E +A     +I+  +         I    G    +
Sbjct: 181 LEAGADIITIADPTASPELISPEFYEEFALPYHKKIVKELH----GCPTILHICGNTTPI 236

Query: 254 KNYRRLTDSNAIGLDWSVPLSFALELQKEG-PVQGNLDPMRLVVGNQVMIDGVNAILDVL 312
             Y      + I +D  V +  A E+      + GN+ P + ++      D        L
Sbjct: 237 LEYIAQCGFDGISVDEKVDVKTAKEIVGGRAALIGNVSPSQTLLNGTPE-DVKAEARKCL 295

Query: 313 GSGPFIFNLGHGITPQVDPKNVLDLVKTVRS 343
             G  I   G GI P+    N+  +V+  + 
Sbjct: 296 EDGVDILAPGCGIAPRTPLANLKAMVEARKE 326


>gnl|CDD|34580 COG4974, XerD, Site-specific recombinase XerD [DNA replication,
           recombination, and repair].
          Length = 300

 Score = 29.8 bits (67), Expect = 1.0
 Identities = 23/102 (22%), Positives = 37/102 (36%), Gaps = 17/102 (16%)

Query: 161 KDHGQNRVFAYQNSRAFNWLLDFLSDVSAEYLIAQIHAGVDVIQIFDTHAGCLGEHEFEN 220
           +    N + +Y+       L DF   +    +     A    I+ + T    L E   + 
Sbjct: 20  RGLSANTLSSYRRD-----LEDFREWLEERGITDLADATEADIREYLTE---LAE---QG 68

Query: 221 YAARSVGRIISAVRRKYPNAKFISFAKGAGYMLKNYRRLTDS 262
            +A S+ R +SA+R       F  F    G    +  RL DS
Sbjct: 69  LSATSIARALSALRS------FYQFLIREGLREDDPTRLLDS 104


>gnl|CDD|34714 COG5111, RPC34, DNA-directed RNA polymerase III, subunit C34
           [Transcription].
          Length = 301

 Score = 27.3 bits (60), Expect = 5.5
 Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 5/60 (8%)

Query: 30  RYLPEYRQIRKKFKNFLDMCYTPEYTVELTLQPIRRYNFDAAIL-----FSDILVIADAL 84
           R+L +    RK F+   ++ Y P+Y    TL+ I  Y  +  IL       ++  +AD L
Sbjct: 181 RFLEKNLFPRKNFEEGPNVFYAPKYEDYPTLEDIMNYVRNVNILSVPLRLDNLESLADVL 240


>gnl|CDD|163678 cd07940, DRE_TIM_IPMS, 2-isopropylmalate synthase (IPMS),
           N-terminal catalytic TIM barrel domain.
           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-hydroxy-1,2,6- hexanetricarboxylic acid.  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 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".
          Length = 268

 Score = 27.0 bits (61), Expect = 6.8
 Identities = 22/63 (34%), Positives = 27/63 (42%), Gaps = 13/63 (20%)

Query: 181 LDFLSDVSAEYLIAQIHAGVDVIQIFDTHAGCLGEHEFENYAARSVGRIISAVRRKYPNA 240
           LDFL +V    + A I AG   I I DT  G L   EF        G +I  ++   PN 
Sbjct: 142 LDFLIEV----VEAAIEAGATTINIPDT-VGYLTPEEF--------GELIKKLKENVPNI 188

Query: 241 KFI 243
           K  
Sbjct: 189 KVP 191


>gnl|CDD|114419 pfam05693, Glycogen_syn, Glycogen synthase.  This family consists
           of the eukaryotic glycogen synthase proteins GYS1, GYS2
           and GYS3. Glycogen synthase (GS) is the enzyme
           responsible for the synthesis of -1,4-linked glucose
           chains in glycogen. It is the rate limiting enzyme in
           the synthesis of the polysaccharide, and its activity is
           highly regulated through phosphorylation at multiple
           sites and also by allosteric effectors, mainly glucose
           6-phosphate (G6P).
          Length = 633

 Score = 27.0 bits (60), Expect = 7.1
 Identities = 16/45 (35%), Positives = 20/45 (44%), Gaps = 13/45 (28%)

Query: 185 SDVSAEYLIAQIH---AGV----------DVIQIFDTHAGCLGEH 216
           S  S+  +IA  H   AGV          DV  +F THA  LG +
Sbjct: 138 SVESSPAVIAHFHEWQAGVGLILCRKRKLDVATVFTTHATLLGRY 182


>gnl|CDD|31521 COG1330, RecC, Exonuclease V gamma subunit [DNA replication,
           recombination, and repair].
          Length = 1078

 Score = 26.8 bits (59), Expect = 8.3
 Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 4/47 (8%)

Query: 93  NEGPRMDPITTQEIYLLNPNIDLFLNYLLPIFQSISILRKKLPNHIT 139
            E P + P   ++I +L P+ID +  Y+  +F    I R  LP  ++
Sbjct: 365 EEDPTLQP---RDIVVLVPDIDSYTPYIEAVFGQAPIER-HLPYSLS 407


  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
   0.324    0.142    0.428 

Gapped
Lambda     K      H
   0.267   0.0670    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,459,032
Number of extensions: 248582
Number of successful extensions: 600
Number of sequences better than 10.0: 1
Number of HSP's gapped: 579
Number of HSP's successfully gapped: 25
Length of query: 346
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 251
Effective length of database: 4,210,882
Effective search space: 1056931382
Effective search space used: 1056931382
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.2 bits)