RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780438|ref|YP_003064851.1| pyridoxine 5'-phosphate synthase [Candidatus Liberibacter asiaticus str. psy62] (261 letters) >1m5w_A Pyridoxal phosphate biosynthetic protein PDXJ; TIM barrel, protein-substrate complex, multi-binding states; HET: DXP; 1.96A {Escherichia coli} SCOP: c.1.24.1 PDB: 1ho1_A 1ho4_A* 1ixn_A* 1ixo_A* 1ixp_A 1ixq_A 3f4n_A* Length = 243 Score = 212 bits (542), Expect = 4e-56 Identities = 82/240 (34%), Positives = 129/240 (53%), Gaps = 9/240 (3%) Query: 6 SVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEIRRLID 65 VN++ +A LRN R +P+ V IA Q+GA G+TVH R D+RHI D+ +R+ +D Sbjct: 7 GVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHLREDRRHITDRDVRILRQTLD 66 Query: 66 EQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVA 125 + N+E E L + KP LVP+ ++T++ G D + + Sbjct: 67 TRM-----NLEMAVTEEMLAIAVETKPHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACK 121 Query: 126 RLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIFLNKLAIT 185 RL + G ++SLF D +E ++AA GA IE++TG Y + +Q + L ++A Sbjct: 122 RLADAGIQVSLFID--ADEEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQE-LARIAKA 178 Query: 186 AQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAATALECGVKEAVFCFRRA 245 A A + L++NAGH LT N+ I AIP + E+++GHA A+ G+K+AV +R Sbjct: 179 ATFAASLGLKVNAGHGLTYHNVK-AIAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRL 237 >3o6c_A PNP synthase, pyridoxine 5'-phosphate synthase; structural genomics, IDP90671, center for structural genomic infectious diseases; HET: MSE; 1.87A {Campylobacter jejuni subsp} PDB: 3o6d_A* Length = 260 Score = 207 bits (527), Expect = 3e-54 Identities = 70/263 (26%), Positives = 126/263 (47%), Gaps = 33/263 (12%) Query: 6 SVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEIRRLID 65 VN++ +AVLR R + P+L+ I + G +T+H R D+RH + DL I Sbjct: 7 GVNIDHIAVLRQARMVNDPDLLEAAFIVARHGD-QITLHVREDRRHAQDFDLENII---- 61 Query: 66 EQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVA 125 +F K+ +N+E N+ LNL + KP ++TLVP+ +LT++ G N A L +++ Sbjct: 62 -KFCKSPVNLECALNDEILNLALKLKPHRVTLVPEKREELTTEGGLC--LNHAKLKQSIE 118 Query: 126 RLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIF------- 178 +L N +SLF + + + ++ +K+ A IEL+TG Y +N Sbjct: 119 KLQNANIEVSLFINPSLED--IEKSKILKAQFIELHTGHYANLHNALFSNISHTAFALKE 176 Query: 179 ---------------LNKLAITAQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVG 223 L L + A+ ++ L++ AGH L +N+ + I I E+++G Sbjct: 177 LDQDKKTLQAQFEKELQNLELCAKKGLELGLKVAAGHGLNYKNVK-PVVKIKEICELNIG 235 Query: 224 HAFAATALECGVKEAVFCFRRAC 246 + A ++ G++ A+ + Sbjct: 236 QSIVARSVFTGLQNAILEMKELI 258 >3gk0_A PNP synthase, pyridoxine 5'-phosphate synthase; decode, ssgcid, niaid, SBRI, cytoplasm, pyridoxine biosynthesis, transferase; HET: DXP; 2.28A {Burkholderia pseudomallei} Length = 278 Score = 187 bits (476), Expect = 2e-48 Identities = 75/240 (31%), Positives = 122/240 (50%), Gaps = 9/240 (3%) Query: 6 SVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEIRRLID 65 VN++ VA LRN R +P+ V A +GA +T+H R D+RHI D+ +R Sbjct: 35 GVNIDHVATLRNARGTAYPDPVRAALAAEDAGADAITLHLREDRRHIVDADVRTLR---- 90 Query: 66 EQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVA 125 K +N+E L++ +P LVP+ +LT++ G D + + + Sbjct: 91 -PRVKTRMNLECAVTPEMLDIACEIRPHDACLVPEKRSELTTEGGLDVVGHFDAVRAACK 149 Query: 126 RLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIFLNKLAIT 185 +L + G R+SLF + +E ++AA TGA IEL+TG Y ++ +Q+R ++A Sbjct: 150 QLADAGVRVSLFI--DPDEAQIRAAHETGAPVIELHTGRYADAHDAAEQQRE-FERIATG 206 Query: 186 AQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAATALECGVKEAVFCFRRA 245 + L++NAGH L N+ I A+P I+E+++GHA A A+ G AV + Sbjct: 207 VDAGIALGLKVNAGHGLHYTNVQ-AIAALPGIAELNIGHAIVAHAVFVGWDNAVREMKAI 265 >3mgd_A Predicted acetyltransferase; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG; HET: ACO; 1.90A {Clostridium acetobutylicum} Length = 157 Score = 35.0 bits (80), Expect = 0.019 Identities = 12/123 (9%), Positives = 33/123 (26%), Gaps = 8/123 (6%) Query: 50 RHIRYTDLPEIRRLIDEQFPKAELNIEGYPNETFLNLCERY--KPEQITLVPDDPHQLTS 107 R D+ + + Q + ++ + + ++ +Q+ + Sbjct: 5 RKADMKDISLLVSIRKRQLIDEGIEPNIDIDKELTRYFNNKLANNLLVEWIAEENNQIIA 64 Query: 108 DHGWDFLQNQALL---TKTVARLHNLGSRISLFADGNGN---EHSLQAAKLTGADCIELY 161 F+ T + N+ + + +G + + AK I L Sbjct: 65 TAAIAFIDFPPTYTNKTGRKGYITNMYTEPTSRGNGIATGMLDRLVNEAKERNIHKICLV 124 Query: 162 TGP 164 Sbjct: 125 ASK 127 >3i3g_A N-acetyltransferase; malaria, structural genomics, structural genomics consortium, SGC,; 1.86A {Trypanosoma brucei} PDB: 3fb3_A Length = 161 Score = 31.7 bits (71), Expect = 0.17 Identities = 12/118 (10%), Positives = 29/118 (24%), Gaps = 5/118 (4%) Query: 50 RHIRYTDLPEIRRLIDEQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDH 109 R + +DL L+ L+ ++ R ++ Sbjct: 24 RVLEESDLSSHLELLGHLTEAPPLSGVEL--ANIADMRRRAGIVTKVFCHQPTGRIVGSA 81 Query: 110 GWDFLQNQALLTKTVARLHNLGSRISLFADGNGN---EHSLQAAKLTGADCIELYTGP 164 + V + ++ S G G + ++ G + L + Sbjct: 82 SLMIQPKFTRGGRAVGHIEDVVVDPSYRGAGLGKALIMDLCEISRSKGCYKVILDSSE 139 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 30.4 bits (67), Expect = 0.43 Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 11/39 (28%) Query: 115 QNQALLTKTVARLHNLGSRISLFADGNGNEHSLQAAKLT 153 + QAL K L + + L+AD + +L A K T Sbjct: 18 EKQAL--K------KLQASLKLYADDSAP--AL-AIKAT 45 >1sxd_A GA repeat binding protein, alpha; alpha helical, transcription, signaling protein; NMR {Mus musculus} SCOP: a.60.1.1 Length = 91 Score = 29.4 bits (66), Expect = 0.88 Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 1/30 (3%) Query: 87 CERYKPEQITL-VPDDPHQLTSDHGWDFLQ 115 E Y+ EQ L +P DP ++D ++ Sbjct: 7 LEGYRKEQERLGIPYDPIHWSTDQVLHWVV 36 >3hj4_A Minor editosome-associated tutase; nucleotidyltransferase, RNA UTP-binding, transferase; 1.56A {Trypanosoma brucei} PDB: 3hiy_A 3hj1_A* Length = 384 Score = 28.3 bits (62), Expect = 1.9 Identities = 4/33 (12%), Positives = 11/33 (33%) Query: 43 VHPRPDQRHIRYTDLPEIRRLIDEQFPKAELNI 75 P P+ + + + + KA + + Sbjct: 18 SLPPPEHSVVIHELQKRVLDIGMLAVNKAHVEL 50 >1xp3_A Endonuclease IV; NFO, DNA replication, DNA recombination, DNA repair, spine, structural genomics, structural proteomics in europe, hydrolase; 2.57A {Bacillus anthracis} SCOP: c.1.15.1 Length = 307 Score = 27.8 bits (61), Expect = 2.8 Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 8/46 (17%) Query: 129 NLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQ 174 +GS +S + + + A GA +YTG PQ Sbjct: 12 KIGSHVS-MSGKKMLLAASEEAVSYGATTFMIYTG-------APQN 49 >3nyb_A Poly(A) RNA polymerase protein 2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} Length = 323 Score = 27.7 bits (61), Expect = 2.9 Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 1/43 (2%) Query: 43 VHPRPDQRHIRYTDLPEIRRLIDEQFPKAELNIEG-YPNETFL 84 + P ++ IR + IR + + +P A+L++ G Y + +L Sbjct: 32 ISPSREEIEIRNQTISTIREAVKQLWPDADLHVFGSYSTDLYL 74 >2jbm_A Nicotinate-nucleotide pyrophosphorylase; NAD, enzyme, metabolism, transferase, polymorphism, glycosyltransferase, pyridine nucleotide biosynthesis; HET: SRT; 2.0A {Homo sapiens} Length = 299 Score = 27.4 bits (60), Expect = 3.7 Identities = 9/48 (18%), Positives = 13/48 (27%), Gaps = 1/48 (2%) Query: 111 WDFLQNQALLTKTVARLHNLGSRISLFADGNGNEHSLQAAKLTGADCI 158 D L T L +++ A G +L D I Sbjct: 223 LDN-FKPEELHPTATVLKAQFPSVAVEASGGITLDNLPQFCGPHIDVI 269 >1qsm_A HPA2 histone acetyltransferase; protein-acetyl coenzyme A complex; HET: ACO; 2.40A {Saccharomyces cerevisiae} SCOP: d.108.1.1 PDB: 1qso_A Length = 152 Score = 27.1 bits (59), Expect = 4.2 Identities = 14/118 (11%), Positives = 29/118 (24%), Gaps = 6/118 (5%) Query: 50 RHIRYTDLPEIRRLIDE--QFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTS 107 R + D +RL F + + + F + + + + Sbjct: 8 RFVTENDKEGWQRLWKSYQDFYEVSFPDDLD-DFNFGRFLDPNIKMWAAVAVESSSEKII 66 Query: 108 DHGWDFLQNQALLTKTVARLHNLGSRIS---LFADGNGNEHSLQAAKLTGADCIELYT 162 F K +++L + A G + A G + T Sbjct: 67 GMINFFNHMTTWDFKDKIYINDLYVDENSRVKGAGGKLIQFVYDEADKLGTPSVYWCT 124 >1qpo_A Quinolinate acid phosphoribosyl transferase; type II prtase, de novo NAD biosynthesis, PRPP, quinolinic acid; 2.40A {Mycobacterium tuberculosis H37RV} SCOP: c.1.17.1 d.41.2.1 PDB: 1qpn_A 1qpq_A* 1qpr_A* Length = 284 Score = 26.9 bits (59), Expect = 4.2 Identities = 7/39 (17%), Positives = 13/39 (33%) Query: 120 LTKTVARLHNLGSRISLFADGNGNEHSLQAAKLTGADCI 158 V R + + L + G + + TG D + Sbjct: 228 TQTAVQRRDSRAPTVMLESSGGLSLQTAATYAETGVDYL 266 >2eui_A Probable acetyltransferase; dimer, structural genomics, PSI, protein structure initiative; 2.80A {Pseudomonas aeruginosa PAO1} SCOP: d.108.1.1 Length = 153 Score = 27.1 bits (59), Expect = 4.3 Identities = 17/124 (13%), Positives = 32/124 (25%), Gaps = 15/124 (12%) Query: 50 RHIRYTDLPEIRRLIDE--QFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPH---- 103 L + L + +F E L + + L ++ Sbjct: 4 VQATLEHLDLLAPLFVKYREFYGMLSYPESSRKFLEKRLRRKESVIYLALADEEDRLLGF 63 Query: 104 -QLTSDHGWDFLQNQALLTKTVARLHNLGSRI--SLFADGNGNEHSLQAAKLTGADCIEL 160 QL L+ +L + L +H+ Q A+ T A + + Sbjct: 64 CQLYPSFSSLSLKRVWILNDIYVAEEARRQLVADHLL------QHAKQMARETHAVRMRV 117 Query: 161 YTGP 164 T Sbjct: 118 STSV 121 >2i8d_A Uncharacterized conserved protein of COG5646; ZP_00384875.1, structural genomics, PSI-2, protein structure initiative; HET: MSE UNL; 1.69A {Lactobacillus casei} SCOP: d.198.4.1 Length = 123 Score = 26.8 bits (59), Expect = 5.3 Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 4/31 (12%) Query: 45 PRPDQRHIRYTDLPEIRRLIDEQFPKAELNI 75 P PD + + + QFP+ +L Sbjct: 13 PTPDDLTR----VESLFANMQAQFPQLKLEF 39 >2qwu_A Intracellular growth locus, subunit C; structure, IGLC, cell invasion; 1.65A {Francisella tularensis subsp} Length = 211 Score = 26.6 bits (58), Expect = 5.7 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%) Query: 151 KLTGADCIELYTGPYGACYNNPQQERIFLNKLAITAQLAQKMDLQINAGHDLT 203 ++T + I + T P AC + R+F++ L I + K + I+ G D+T Sbjct: 11 QVTSGETIHVRTDP-TACIGSHPNCRMFIDSLTIAGEKLDKNIVAIDGGEDVT 62 >2jv3_A ETS1 proto-oncogene; ETS-1 pointed (PNT) domain, MAP kinase phosphorylation site, alpha-helical bundle, transcription factor, DNA-binding, nucleus; NMR {Mus musculus} Length = 110 Score = 26.3 bits (58), Expect = 6.9 Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 1/29 (3%) Query: 88 ERYKPEQITL-VPDDPHQLTSDHGWDFLQ 115 + EQ L +P DP Q T H D++ Sbjct: 26 SGFTKEQQRLGIPKDPRQWTETHVRDWVM 54 >3oix_A Putative dihydroorotate dehydrogenase; dihydrooro oxidase; TIM barrel, oxidoreductase; HET: MLY FMN; 2.40A {Streptococcus mutans} Length = 345 Score = 26.2 bits (57), Expect = 8.0 Identities = 10/55 (18%), Positives = 13/55 (23%), Gaps = 11/55 (20%) Query: 40 GLTVHPRPDQRHIRYTDLPEIRRLIDEQFPKAELNIEGYPNETFLNLCERYKPEQ 94 T+ R RY D +N G PN + Q Sbjct: 80 TGTLEERAGNPQPRYADTKL-----------GSINSMGLPNLGINYYLDYVTELQ 123 >3i1m_P 30S ribosomal protein S16; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1p6g_P 1p87_P* 1vs7_P* 2avy_P 2aw7_P 1vs5_P 2i2u_P 2i2p_P* 2qan_P* 2qb9_P* 2qbb_P* 2qbd_P 2qbf_P 2qbh_P* 2qbj_P* 2qou_P* 2qow_P* 2qoy_P* 2qp0_P* 2vho_P ... Length = 82 Score = 25.8 bits (57), Expect = 9.1 Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 2/45 (4%) Query: 83 FLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVARL 127 F+ + P I ++ +L D ++ A ++ VA L Sbjct: 32 FIERVGFFNP--IASEKEEGTRLDLDRIAHWVGQGATISDRVAAL 74 >3bbn_P Ribosomal protein S16; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 88 Score = 25.8 bits (57), Expect = 9.4 Identities = 11/45 (24%), Positives = 15/45 (33%), Gaps = 6/45 (13%) Query: 83 FLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVARL 127 L Y P + L DFL+ A T+TV + Sbjct: 32 DLQKVGFYDPIK------SQTYLNVPAILDFLEKGAQPTETVYDI 70 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 0.320 0.136 0.412 Gapped Lambda K H 0.267 0.0530 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,216,706 Number of extensions: 98380 Number of successful extensions: 357 Number of sequences better than 10.0: 1 Number of HSP's gapped: 344 Number of HSP's successfully gapped: 23 Length of query: 261 Length of database: 5,693,230 Length adjustment: 91 Effective length of query: 170 Effective length of database: 3,487,026 Effective search space: 592794420 Effective search space used: 592794420 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 56 (25.8 bits)