RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780152|ref|YP_003064565.1| D-3-phosphoglycerate dehydrogenase [Candidatus Liberibacter asiaticus str. psy62] (82 letters) >1dxy_A D-2-hydroxyisocaproate dehydrogenase; D-2-hydroxycarboxylate dehydrogenase, D-lactate dehydrogenase, oxidoreductase; HET: NAD; 1.86A {Lactobacillus casei} SCOP: c.2.1.4 c.23.12.1 Length = 333 Score = 83.2 bits (205), Expect = 1e-17 Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 1/80 (1%) Query: 4 HAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPVAN 63 HA +K + +GTDN+D+ + GI + N P + AE A++ L + R + Sbjct: 65 HAYGIKFLTIRNVGTDNIDMTAMKQYGIRLSNVPAYSPAAIAEFALTDTLYLLRNMGKVQ 124 Query: 64 ESTHKGKWEKFN-FMGVEAG 82 G +EK F+G E G Sbjct: 125 AQLQAGDYEKAGTFIGKELG 144 >1mx3_A CTBP1, C-terminal binding protein 1; nuclear protein, phosphorylation, transcriptional corepressor, transcription repressor; HET: NAD; 1.95A {Homo sapiens} SCOP: c.2.1.4 c.23.12.1 PDB: 1hku_A* 1hl3_A* 2hu2_A* 3ga0_A 2ome_A* Length = 347 Score = 79.0 bits (194), Expect = 2e-16 Identities = 19/77 (24%), Positives = 36/77 (46%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 L K ++++ R G G DN+D+ A GI V N P + TA+ + +L + R+ Sbjct: 79 DLEKFKALRIIVRIGSGFDNIDIKSAGDLGIAVCNVPAASVEETADSTLCHILNLYRRAT 138 Query: 61 VANESTHKGKWEKFNFM 77 +++ +G + Sbjct: 139 WLHQALREGTRVQSVEQ 155 >3jtm_A Formate dehydrogenase, mitochondrial; mitochondrion, NAD, oxidoreductase, T peptide; 1.30A {Arabidopsis thaliana} PDB: 3n7u_A* 3naq_A Length = 351 Score = 73.1 bits (179), Expect = 1e-14 Identities = 20/77 (25%), Positives = 34/77 (44%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 + AK +K++ AGIG+D++DL G+ V N ++ AE + +L + R Sbjct: 80 RIKKAKNLKLLLTAGIGSDHIDLQXXXXXGLTVAEVTGSNVVSVAEDELMRILILMRNFV 139 Query: 61 VANESTHKGKWEKFNFM 77 KG+W Sbjct: 140 PGYNQVVKGEWNVAGIA 156 >1j4a_A D-LDH, D-lactate dehydrogenase; NAD-dependent dehydrogenase, reversible interconversion of pyruvate INTO D-lactate; 1.90A {Lactobacillus delbrueckii subsp} SCOP: c.2.1.4 c.23.12.1 PDB: 1j49_A* 2dld_A* Length = 333 Score = 71.4 bits (174), Expect = 5e-14 Identities = 18/77 (23%), Positives = 28/77 (36%) Query: 4 HAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPVAN 63 + + +G DN+D+ A G + N P + AEHA I RQ + Sbjct: 67 ADNGITKMSLRNVGVDNIDMAKAKELGFQITNVPVYSPNAIAEHAAIQAARILRQDKAMD 126 Query: 64 ESTHKGKWEKFNFMGVE 80 E + +G E Sbjct: 127 EKVARHDLRWAPTIGRE 143 >1qp8_A Formate dehydrogenase; oxidoreductase; HET: NDP; 2.80A {Pyrobaculum aerophilum} SCOP: c.2.1.4 c.23.12.1 Length = 303 Score = 69.8 bits (170), Expect = 2e-13 Identities = 16/82 (19%), Positives = 35/82 (42%), Gaps = 1/82 (1%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 L+ ++K + G D++ + + V N+ AE A++L+LA ++I Sbjct: 44 ELAKMPRLKFIQVVTAGLDHLPWE-SIPPHVTVAGNAGSNADAVAEFALALLLAPYKRII 102 Query: 61 VANESTHKGKWEKFNFMGVEAG 82 E +G + + + + G Sbjct: 103 QYGEKMKRGDYGRDVEIPLIQG 124 >1gdh_A D-glycerate dehydrogenase; oxidoreductase(CHOH (D)-NAD(P)+ (A)); 2.40A {Hyphomicrobium methylovorum} SCOP: c.2.1.4 c.23.12.1 Length = 320 Score = 65.2 bits (158), Expect = 3e-12 Identities = 21/73 (28%), Positives = 34/73 (46%) Query: 5 AKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPVANE 64 + +K + IG D++DL GI V N P G ++ TAE A+ L+L AR+ + Sbjct: 65 PENIKCISTYSIGFDHIDLDACKARGIKVGNAPHGVTVATAEIAMLLLLGSARRAGEGEK 124 Query: 65 STHKGKWEKFNFM 77 W + + Sbjct: 125 MIRTRSWPGWEPL 137 >1ygy_A PGDH, D-3-phosphoglycerate dehydrogenase; oxidoreductase, serine biosynthesis, structural genomics, PSI, protein structure initiative; HET: TAR; 2.30A {Mycobacterium tuberculosis} SCOP: c.2.1.4 c.23.12.1 d.58.18.1 d.81.2.2 PDB: 3dc2_A* 3ddn_A* Length = 529 Score = 63.3 bits (153), Expect = 1e-11 Identities = 34/77 (44%), Positives = 54/77 (70%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 +L+ A K+K+V RAG+G DNVD+ A+ G++V+N P N + AEHA++L+LA +RQIP Sbjct: 60 VLAAAPKLKIVARAGVGLDNVDVDAATARGVLVVNAPTSNIHSAAEHALALLLAASRQIP 119 Query: 61 VANESTHKGKWEKFNFM 77 A+ S + W++ +F Sbjct: 120 AADASLREHTWKRSSFS 136 >2nac_A NAD-dependent formate dehydrogenase; oxidoreductase(aldehyde(D),NAD+(A)); 1.80A {Pseudomonas SP} SCOP: c.2.1.4 c.23.12.1 PDB: 2nad_A* 2go1_A 2gug_A* 2gsd_A* Length = 393 Score = 62.9 bits (152), Expect = 2e-11 Identities = 25/77 (32%), Positives = 43/77 (55%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 ++ AK +K+ AGIG+D+VDL A + V + NSI+ AEH + ++L++ R Sbjct: 107 RIAKAKNLKLALTAGIGSDHVDLQSAIDRNVTVAEVTYCNSISVAEHVVMMILSLVRNYL 166 Query: 61 VANESTHKGKWEKFNFM 77 ++E KG W + + Sbjct: 167 PSHEWARKGGWNIADCV 183 >3oet_A Erythronate-4-phosphate dehydrogenase; structural genomics, center for structural genomics of infec diseases, csgid; HET: NAD; 2.36A {Salmonella enterica subsp} Length = 381 Score = 56.5 bits (136), Expect = 1e-09 Identities = 20/77 (25%), Positives = 32/77 (41%), Gaps = 4/77 (5%) Query: 2 LSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPV 61 L + VG A GTD+VD +AGI P N+I E+ S +L +A + Sbjct: 56 LLSGTPINFVGTATAGTDHVDEAWLKQAGIGFSAAPGCNAIAVVEYVFSALLMLAERDGF 115 Query: 62 ANESTHKGKWEKFNFMG 78 + + + +G Sbjct: 116 ----SLRDRTIGIVGVG 128 >3gvx_A Glycerate dehydrogenase related protein; NYSGXRC, PSI-II, 11143J, structural genomics, protein structure initiative; 2.20A {Thermoplasma acidophilum} Length = 290 Score = 56.3 bits (134), Expect = 1e-09 Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 1/76 (1%) Query: 2 LSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPV 61 K+ K++ G D++D+ +V+ + SI+ AEHA +L+LA A+ I Sbjct: 44 YVLGKRTKMIQAISAGVDHIDVNGIPE-NVVLCSNAGAYSISVAEHAFALLLAHAKNILE 102 Query: 62 ANESTHKGKWEKFNFM 77 NE G + + Sbjct: 103 NNELMKAGIFRQSPTT 118 >2j6i_A Formate dehydrogenase; oxidoreductase, D-specific-2- hydroxy acid dehydrogenase, cofactor regenerator, yeast, CBFDH; HET: PG4; 1.55A {Candida boidinii} PDB: 2fss_A Length = 364 Score = 52.2 bits (124), Expect = 3e-08 Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 2/79 (2%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGI--VVMNTPFGNSITTAEHAISLMLAIARQ 58 + AKK+K+V AG+G+D++DL ++ G V+ N ++ AEH + ML + R Sbjct: 78 RIDKAKKLKLVVVAGVGSDHIDLDYINQTGKKISVLEVTGSNVVSVAEHVVMTMLVLVRN 137 Query: 59 IPVANESTHKGKWEKFNFM 77 A+E WE Sbjct: 138 FVPAHEQIINHDWEVAAIA 156 >2w2k_A D-mandelate dehydrogenase; 2-hydroxyacid dehydrogenase, oxidoreductase; 1.85A {Rhodotorula graminis} PDB: 2w2l_A* 2w2l_D* 2w2k_B Length = 348 Score = 49.3 bits (116), Expect = 2e-07 Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 1/78 (1%) Query: 1 MLSHA-KKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQI 59 ++SH +KV AG G D +DL + G+ N+ T++ A+ L+L++ R Sbjct: 73 LISHLPSSLKVFAAAGAGFDWLDLDALNERGVAFANSRGAGDTATSDLALYLILSVFRLA 132 Query: 60 PVANESTHKGKWEKFNFM 77 + + G E FN + Sbjct: 133 SYSERAARTGDPETFNRV 150 >3hg7_A D-isomer specific 2-hydroxyacid dehydrogenase family protein; structural genomics, protein structure initiative; 1.80A {Aeromonas salmonicida subsp} Length = 324 Score = 46.6 bits (109), Expect = 1e-06 Identities = 16/80 (20%), Positives = 32/80 (40%), Gaps = 1/80 (1%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 +L+ A K+ G D L R + N +E+ +L++ RQ+P Sbjct: 61 LLAKANKLSWFQSTYAGVDV-LLDARCRRDYQLTNVRGIFGPLMSEYVFGHLLSLMRQLP 119 Query: 61 VANESTHKGKWEKFNFMGVE 80 + E + W+ + G++ Sbjct: 120 LYREQQKQRLWQSHPYQGLK 139 >3kbo_A Glyoxylate/hydroxypyruvate reductase A; NADP, cytoplasm, NAD, structural genomics; HET: NDP NDB EPE; 2.14A {Salmonella enterica subsp} Length = 315 Score = 45.9 bits (107), Expect = 2e-06 Identities = 14/85 (16%), Positives = 32/85 (37%), Gaps = 6/85 (7%) Query: 2 LSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPF------GNSITTAEHAISLMLAI 55 + +++K V G G D + + + ++ + P G + E+A+S +L Sbjct: 54 MLAGRRLKAVFVLGAGVDAILSKLNAHPEMLDASIPLFRLEDTGMGLQMQEYAVSQVLHW 113 Query: 56 ARQIPVANESTHKGKWEKFNFMGVE 80 R+ ++ W+ E Sbjct: 114 FRRFDDYQALKNQALWKPLPEYTRE 138 >2pi1_A D-lactate dehydrogenase; oxidoreductase, D-LDH, NAD, 3D-structure, structural genomics, NPPSFA; HET: MSE NAD; 2.12A {Aquifex aeolicus VF5} Length = 334 Score = 44.2 bits (103), Expect = 6e-06 Identities = 16/77 (20%), Positives = 41/77 (53%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 +LS ++K++ +G D++DL + GI+V + P + + AEH +++L + +++ Sbjct: 58 LLSKMPRLKLIHTRSVGFDHIDLDYCKKKGILVTHIPAYSPESVAEHTFAMILTLVKRLK 117 Query: 61 VANESTHKGKWEKFNFM 77 + K + + + + Sbjct: 118 RIEDRVKKLNFSQDSEI 134 >2g76_A 3-PGDH, D-3-phosphoglycerate dehydrogenase; oxidoreductase, phosphoglycerate dehydrogenase deficiency, serine metabolism; HET: NAD; 1.70A {Homo sapiens} Length = 335 Score = 43.7 bits (102), Expect = 9e-06 Identities = 43/80 (53%), Positives = 58/80 (72%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 +++ A+K++VVGRAG G DNVDL A+R GI+VMNTP GNS++ AE +++ +ARQIP Sbjct: 83 VINAAEKLQVVGRAGTGVDNVDLEAATRKGILVMNTPNGNSLSAAELTCGMIMCLARQIP 142 Query: 61 VANESTHKGKWEKFNFMGVE 80 A S GKWE+ FMG E Sbjct: 143 QATASMKDGKWERKKFMGTE 162 >3evt_A Phosphoglycerate dehydrogenase; structural genomics, PSI-2, protein structure initiative; 2.20A {Lactobacillus plantarum} Length = 324 Score = 43.3 bits (100), Expect = 2e-05 Identities = 16/73 (21%), Positives = 29/73 (39%) Query: 5 AKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPVANE 64 ++K V G D + L AG+VV NT ++ +E ++ ML++ R A Sbjct: 59 TNQLKFVQVISAGVDYLPLKALQAAGVVVANTSGIHADAISESVLAAMLSVVRGYHAAWL 118 Query: 65 STHKGKWEKFNFM 77 + + Sbjct: 119 NQRGARQWALPMT 131 >2o4c_A Erythronate-4-phosphate dehydrogenase; erythronate-4-phsphate, NAD, tartrate, phosphate ION, oxidoreductase; HET: NAD TLA; 2.30A {Pseudomonas aeruginosa} Length = 380 Score = 43.0 bits (100), Expect = 2e-05 Identities = 17/67 (25%), Positives = 29/67 (43%) Query: 5 AKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPVANE 64 ++ VG IGTD++DL + AGI + P N+ ++ + +LA+A Sbjct: 56 GSPVRFVGTCTIGTDHLDLDYFAEAGIAWSSAPGCNARGVVDYVLGCLLAMAEVRGADLA 115 Query: 65 STHKGKW 71 G Sbjct: 116 ERTYGVV 122 >3ba1_A HPPR, hydroxyphenylpyruvate reductase; two domain protein, substrate binding domain, cofactor binding domain, oxidoreductase; 1.47A {Solenostemon scutellarioides} PDB: 3baz_A* Length = 333 Score = 39.6 bits (91), Expect = 2e-04 Identities = 23/77 (29%), Positives = 41/77 (53%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 ++ K+++V +G D VDL+ G+ V NTP + A+ AI L+LA+ R+I Sbjct: 81 LIDALPKLEIVSSFSVGLDKVDLIKCEEKGVRVTNTPDVLTDDVADLAIGLILAVLRRIC 140 Query: 61 VANESTHKGKWEKFNFM 77 ++ +G W+ +F Sbjct: 141 ECDKYVRRGAWKFGDFK 157 >3k5p_A D-3-phosphoglycerate dehydrogenase; niaid, ssgcid, seattle structural genomics center for infectious disease, brucellosis; 2.15A {Brucella melitensis biovar abortus} Length = 416 Score = 35.7 bits (81), Expect = 0.002 Identities = 26/77 (33%), Positives = 41/77 (53%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 + + A ++ VG +GT+ V+L A + GI V N PF N+ + AE I ++ + R+I Sbjct: 74 IFAAANRLIAVGCFSVGTNQVELKAARKRGIPVFNAPFSNTRSVAELVIGEIIMLMRRIF 133 Query: 61 VANESTHKGKWEKFNFM 77 + S H G WEK Sbjct: 134 PRSVSAHAGGWEKTAIG 150 >1sc6_A PGDH, D-3-phosphoglycerate dehydrogenase; allosteric regulation phosphoglycerate dehydrogenase PGDH, oxidoreductase; HET: NAD; 2.09A {Escherichia coli} SCOP: c.2.1.4 c.23.12.1 d.58.18.1 PDB: 1psd_A* 1yba_A* 2p9c_A* 2p9e_A* 2pa3_A* 2p9g_A* Length = 404 Score = 35.7 bits (81), Expect = 0.003 Identities = 28/80 (35%), Positives = 41/80 (51%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 +++ A+K+ +G IGT+ VDL A++ GI V N PF N+ + AE I R +P Sbjct: 63 VINAAEKLVAIGAFAIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGEXXXXXRGVP 122 Query: 61 VANESTHKGKWEKFNFMGVE 80 AN H+G K E Sbjct: 123 EANAKAHRGVGNKLAAGSFE 142 >2dbq_A Glyoxylate reductase; D-3-phosphoglycerate dehydrogenase, structural genomics, NPPSFA; HET: NAP; 1.70A {Pyrococcus horikoshii} PDB: 2dbr_A* 2dbz_A* Length = 334 Score = 31.8 bits (71), Expect = 0.037 Identities = 25/77 (32%), Positives = 43/77 (55%) Query: 1 MLSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIP 60 + +A K+++V +G DN+D+ A++ GI V NTP + TA+ A +L+LA AR + Sbjct: 61 VFENAPKLRIVANYAVGYDNIDIEEATKRGIYVTNTPDVLTDATADLAFALLLATARHVV 120 Query: 61 VANESTHKGKWEKFNFM 77 + G+W+K Sbjct: 121 KGDRFVRSGEWKKRGVA 137 >1zr6_A Glucooligosaccharide oxidase; alpha + beta, flavoenzyme, oxidoreductase; HET: NAG FAD; 1.55A {Acremonium strictum} PDB: 2axr_A* 3e0t_A* 3hsu_A* Length = 503 Score = 25.3 bits (54), Expect = 3.2 Identities = 8/70 (11%), Positives = 23/70 (32%), Gaps = 1/70 (1%) Query: 2 LSHAKKMKVVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPV 61 +++ + G G G +++ ++ ++ ++ + AR Sbjct: 61 CGLDAGVQISAKGG-GHSYGSYGFGGEDGHLMLELDRMYRVSVDDNNVATIQGGARLGYT 119 Query: 62 ANESTHKGKW 71 A E +G Sbjct: 120 ALELLDQGNR 129 >2wlt_A L-asparaginase; hydrolase; 1.40A {Helicobacter pylori} PDB: 2wt4_A Length = 332 Score = 24.7 bits (53), Expect = 4.8 Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 1/56 (1%) Query: 10 VVGRAGIGTDNVDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQIPVANES 65 + AG+ D + S A VV+ GN +A ++ A + + S Sbjct: 224 IYTHAGMTPDLFQASLNSHAKGVVIAG-VGNGNVSAGFLKAMQEASQMGVVIVRSS 278 >3abq_A Ethanolamine ammonia-lyase heavy chain; (beta/alpha)8 fold, cobalt, cobalamin; HET: B12; 2.05A {Escherichia coli} PDB: 3abo_A* 3abr_A* 3abs_A* Length = 453 Score = 24.8 bits (54), Expect = 5.1 Identities = 7/39 (17%), Positives = 12/39 (30%) Query: 21 VDLVVASRAGIVVMNTPFGNSITTAEHAISLMLAIARQI 59 L+ S G FG + + A ++ R Sbjct: 241 GGLIFQSICGSEKGLKEFGVELAMLDEARAVGAEFNRIA 279 >2him_A L-asparaginase 1; hydrolase; 1.82A {Escherichia coli} PDB: 2p2d_A 2p2n_A 2ocd_A Length = 358 Score = 24.0 bits (51), Expect = 8.0 Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 1/53 (1%) Query: 14 AGIGTDNVDLVVASRA-GIVVMNTPFGNSITTAEHAISLMLAIARQIPVANES 65 GI D V + +++ + GN+ L A R I V N + Sbjct: 239 PGISADVVRNFLRQPVKALILRSYGVGNAPQNKAFLQELQEASDRGIVVVNLT 291 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.318 0.131 0.371 Gapped Lambda K H 0.267 0.0567 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 649,832 Number of extensions: 23107 Number of successful extensions: 96 Number of sequences better than 10.0: 1 Number of HSP's gapped: 94 Number of HSP's successfully gapped: 35 Length of query: 82 Length of database: 5,693,230 Length adjustment: 50 Effective length of query: 32 Effective length of database: 4,481,030 Effective search space: 143392960 Effective search space used: 143392960 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 (21.8 bits) S2: 50 (23.4 bits)