RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780438|ref|YP_003064851.1| pyridoxine 5'-phosphate synthase [Candidatus Liberibacter asiaticus str. psy62] (261 letters) >gnl|CDD|179983 PRK05265, PRK05265, pyridoxine 5'-phosphate synthase; Provisional. Length = 239 Score = 306 bits (787), Expect = 3e-84 Identities = 96/248 (38%), Positives = 137/248 (55%), Gaps = 10/248 (4%) Query: 1 MSTSVSVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEI 60 M + VN++ +A LRN R +P+ V IA Q+GA G+TVH R D+RHIR D+ + Sbjct: 1 MMIRLGVNIDHIATLRNARGTNYPDPVRAALIAEQAGADGITVHLREDRRHIRDRDVRLL 60 Query: 61 RRLIDEQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALL 120 R + K ELN+E E L++ KP Q+TLVP+ +LT++ G D L Sbjct: 61 RETL-----KTELNLEMAATEEMLDIALEVKPHQVTLVPEKREELTTEGGLDVAGQFDKL 115 Query: 121 TKTVARLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIFLN 180 +ARL + G R+SLF D + ++AA GAD IEL+TGPY + L Sbjct: 116 KPAIARLKDAGIRVSLFID--PDPEQIEAAAEVGADRIELHTGPYADAKTEAEAAE--LE 171 Query: 181 KLAITAQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAATALECGVKEAVF 240 ++A A+LA + L +NAGH L N+ I AIP I E+++GHA A AL G++EAV Sbjct: 172 RIAKAAKLAASLGLGVNAGHGLNYHNVK-PIAAIPGIEELNIGHAIIARALFVGLEEAVR 230 Query: 241 CFRRACGQ 248 +R + Sbjct: 231 EMKRLMDE 238 >gnl|CDD|129650 TIGR00559, pdxJ, pyridoxine 5'-phosphate synthase. PdxJ is required in the biosynthesis of pyridoxine (vitamin B6), a precursor to the enzyme cofactor pyridoxal phosphate. ECOCYC describes the predicted reaction equation as 1-amino-propan-2-one-3-phosphate + deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The product of that reaction is oxidized by PdxH to pyridoxal 5'-phosphate. Length = 237 Score = 186 bits (475), Expect = 3e-48 Identities = 83/239 (34%), Positives = 131/239 (54%), Gaps = 8/239 (3%) Query: 6 SVNLNAVAVLRNRRNLPWPNLVHIGKIALQSGASGLTVHPRPDQRHIRYTDLPEIRRLID 65 VN++ +A LRN R P+ + IA Q+GA G+TVH R D+RHI+ D+ +++ + Sbjct: 3 GVNVDHIATLRNARGTNEPDPLRAALIAEQAGADGITVHLREDRRHIQDRDVYDLKEALT 62 Query: 66 EQFPKAELNIEGYPNETFLNLCERYKPEQITLVPDDPHQLTSDHGWDFLQNQALLTKTVA 125 NIE P E + + E KPEQ+TLVP+ ++T++ G D + + L + V Sbjct: 63 -----TPFNIEMAPTEEMIRIAEEIKPEQVTLVPEARDEVTTEGGLDVARLKDKLCELVK 117 Query: 126 RLHNLGSRISLFADGNGNEHSLQAAKLTGADCIELYTGPYGACYNNPQQERIFLNKLAIT 185 R H G +SLF D ++ + AA GAD IE++TGPY YN + L ++ Sbjct: 118 RFHAAGIEVSLFID--ADKDQISAAAEVGADRIEIHTGPYANAYNKKEMAEE-LQRIVKA 174 Query: 186 AQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAATALECGVKEAVFCFRR 244 + A + L++NAGH L N+ +PY+ E+++GHA A A+ G++EA+ R Sbjct: 175 SVHAHSLGLKVNAGHGLNYHNVKYFAEILPYLDELNIGHAIIADAVYLGLEEAIREMRD 233 >gnl|CDD|129820 TIGR00737, nifR3_yhdG, putative TIM-barrel protein, nifR3 family. Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. Length = 319 Score = 31.2 bits (71), Expect = 0.30 Identities = 9/22 (40%), Positives = 13/22 (59%) Query: 25 NLVHIGKIALQSGASGLTVHPR 46 N V +IA +GA +T+H R Sbjct: 148 NAVEAARIAEDAGAQAVTLHGR 169 >gnl|CDD|162318 TIGR01361, DAHP_synth_Bsub, phospho-2-dehydro-3-deoxyheptonate aldolase. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis. Length = 260 Score = 28.5 bits (64), Expect = 1.8 Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 13/60 (21%) Query: 2 STSVSVNLNAVAVLRNRRNLP-----------WPNLVHIGKIALQSGASGLT--VHPRPD 48 +T +++L+AV VL+ +LP ++ + K A+ +GA GL VHP P+ Sbjct: 176 ATRNTLDLSAVPVLKKETHLPIIVDPSHAAGRRDLVIPLAKAAIAAGADGLMIEVHPDPE 235 >gnl|CDD|181535 PRK08673, PRK08673, 3-deoxy-7-phosphoheptulonate synthase; Reviewed. Length = 335 Score = 28.3 bits (64), Expect = 2.3 Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 15/63 (23%) Query: 1 MSTSVSVNLNAVAVLRNRRNLP-----------WPNLVH-IGKIALQSGASGLT--VHPR 46 +T +++L+AV V++ +LP +LV + A+ +GA GL VHP Sbjct: 243 TATRNTLDLSAVPVIKKLTHLPVIVDPSHATGKR-DLVEPLALAAVAAGADGLIVEVHPD 301 Query: 47 PDQ 49 P++ Sbjct: 302 PEK 304 >gnl|CDD|184028 PRK13398, PRK13398, 3-deoxy-7-phosphoheptulonate synthase; Provisional. Length = 266 Score = 28.1 bits (63), Expect = 2.3 Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 16/81 (19%) Query: 2 STSVSVNLNAVAVLRNRRNLP----------WPNLVH-IGKIALQSGASGLTV--HPRPD 48 T +++L AVAV++ +LP LV + K A+ +GA GL + HP P+ Sbjct: 178 YTRNTLDLAAVAVIKELSHLPIIVDPSHATGRRELVIPMAKAAIAAGADGLMIEVHPEPE 237 Query: 49 QR---HIRYTDLPEIRRLIDE 66 + + + E++ L+DE Sbjct: 238 KALSDARQTLNFEEMKELVDE 258 >gnl|CDD|151986 pfam11550, IglC, Intracellular growth locus C protein. IglC protein is involved in the escape of F.tularensis live vaccine strain. It has been shown that the expression of IglC is essential for F.tularensis to induce macrophage apoptosis. IglC adopts a beta-sandwich conformation that has no similarity to any known protein structure. Length = 210 Score = 27.8 bits (61), Expect = 2.8 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 151 KLTGADCIELYTGPYGACYNNPQQERIFLNKLAITAQLAQKMDLQINAGHDLT 203 ++T + I + T P AC + R+F++ L I + K + I G D+T Sbjct: 10 QVTSGETIHVRTDP-TACIGSHPNCRLFIDSLTIAGEKLDKNIVAIEGGEDVT 61 >gnl|CDD|172065 PRK13463, PRK13463, phosphatase PhoE; Provisional. Length = 203 Score = 27.7 bits (61), Expect = 2.8 Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 7/75 (9%) Query: 43 VHPRPDQRHIRYTDLPEIRRLI----DEQFPKAELNIEGYPNETFLNLCERYKPEQITLV 98 ++ P +R + +L + R I DE F E+N+ + +T ++ ER P+ I L Sbjct: 52 IYSSPSERTLHTAELIKGERDIPIIADEHF--YEINMGIWEGQTIDDI-ERQYPDDIQLF 108 Query: 99 PDDPHQLTSDHGWDF 113 ++PH S G +F Sbjct: 109 WNEPHLFQSTSGENF 123 >gnl|CDD|178463 PLN02875, PLN02875, 4-hydroxyphenylpyruvate dioxygenase. Length = 398 Score = 27.3 bits (61), Expect = 3.7 Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%) Query: 201 DLTIQNIPNLINAIPYISEISVGHAFAA-TALECGVKE 237 D + N+PNL+ A+ YI+ + H FA TA + G + Sbjct: 182 DHAVGNVPNLLPAVNYIAGFTGFHEFAEFTAEDVGTVD 219 >gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain. Length = 499 Score = 27.1 bits (60), Expect = 5.0 Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 2/36 (5%) Query: 161 YTGPYGACYNNPQQERIFLNKLAITAQLAQKMDLQI 196 Y G C +PQQ + NKL+ ++DL + Sbjct: 353 YGGKNTHCRCSPQQISRYWNKLS--GPFLDRIDLSV 386 >gnl|CDD|162163 TIGR01027, proB, glutamate 5-kinase. Bacterial ProB proteins hit the full length of this model, but the ProB-like domain of delta 1-pyrroline-5-carboxylate synthetase does not hit the C-terminal 100 residues of this model. The noise cutoff is set low enough to hit delta 1-pyrroline-5-carboxylate synthetase and other partial matches to this family. Length = 363 Score = 26.9 bits (60), Expect = 5.6 Identities = 11/36 (30%), Positives = 16/36 (44%) Query: 105 LTSDHGWDFLQNQALLTKTVARLHNLGSRISLFADG 140 LT G + A L + VA LH G + + + G Sbjct: 12 LTGSSGSLDRSHIAELVEQVAALHAAGHEVVIVSSG 47 >gnl|CDD|181255 PRK08153, PRK08153, histidinol-phosphate aminotransferase; Provisional. Length = 369 Score = 26.9 bits (60), Expect = 5.9 Identities = 10/29 (34%), Positives = 16/29 (55%) Query: 114 LQNQALLTKTVARLHNLGSRISLFADGNG 142 L++QA L + V ++ RI+ A NG Sbjct: 266 LKDQAYLAEVVGKIAAARDRIAAIARANG 294 >gnl|CDD|184624 PRK14327, PRK14327, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional. Length = 509 Score = 26.6 bits (59), Expect = 6.7 Identities = 24/63 (38%), Positives = 33/63 (52%), Gaps = 10/63 (15%) Query: 25 NLV-HIGKIALQSGASG-LTVHPRPDQRHIRYTDLPEIRRLIDEQFPKAELN---IEGYP 79 NLV HI + +QSG++ L + R R Y +L +R+ I E P L I G+P Sbjct: 320 NLVEHI-HLPVQSGSTEVLKIMARKYTRE-SYLEL--VRK-IKEAIPNVALTTDIIVGFP 374 Query: 80 NET 82 NET Sbjct: 375 NET 377 >gnl|CDD|180156 PRK05593, rplR, 50S ribosomal protein L18; Reviewed. Length = 117 Score = 26.7 bits (60), Expect = 7.2 Identities = 8/19 (42%), Positives = 10/19 (52%) Query: 222 VGHAFAATALECGVKEAVF 240 VG A A G+K+ VF Sbjct: 74 VGKLIAERAKAKGIKQVVF 92 >gnl|CDD|149480 pfam08433, KTI12, Chromatin associated protein KTI12. This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II. The Elongator complex has histone acetyltransferase activity. Length = 266 Score = 26.5 bits (59), Expect = 7.7 Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 15/69 (21%) Query: 72 ELNIEG----YPNETFLNLCERYKPEQ---------ITLVPDDPHQLTSDHGWDFLQNQA 118 + N E +P+E L +R++ T++ D L D L ++ Sbjct: 112 KWNEERGEPSWPDELLDQLYQRFEEPNSKNRWDSPLFTVLDD--EDLPLDEILKALIEKS 169 Query: 119 LLTKTVARL 127 L A Sbjct: 170 KLPPNQATQ 178 >gnl|CDD|132656 TIGR03617, F420_MSMEG_2256, probable F420-dependent oxidoreductase, MSMEG_2256 family. Coenzyme F420 has a limited phylogenetic distribution, including methanogenic archaea, Mycobacterium tuberculosis and related species, Colwellia psychrerythraea 34H, Rhodopseudomonas palustris HaA2, and others. Partial phylogenetic profiling identifies protein subfamilies, within the larger family called luciferase-like monooxygenanases (pfam00296), that appear only in F420-positive genomes and are likely to be F420-dependent. This model describes one such subfamily, exemplified by MSMEG_2256 from Mycobacterium smegmatis. Length = 318 Score = 26.2 bits (58), Expect = 8.2 Identities = 11/25 (44%), Positives = 14/25 (56%) Query: 38 ASGLTVHPRPDQRHIRYTDLPEIRR 62 A GL VHP R++R LP + R Sbjct: 159 ADGLLVHPFTSARYLREVTLPALAR 183 >gnl|CDD|183465 PRK12353, PRK12353, putative amino acid kinase; Reviewed. Length = 314 Score = 26.3 bits (59), Expect = 8.8 Identities = 7/26 (26%), Positives = 14/26 (53%), Gaps = 1/26 (3%) Query: 46 RPDQRHIRYTDLPEIRRLIDE-QFPK 70 +P+Q+ + + E + I+E QF Sbjct: 245 KPNQKKLDEVTVSEAEKYIEEGQFAP 270 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 0.320 0.136 0.412 Gapped Lambda K H 0.267 0.0692 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,255,581 Number of extensions: 266521 Number of successful extensions: 580 Number of sequences better than 10.0: 1 Number of HSP's gapped: 573 Number of HSP's successfully gapped: 26 Length of query: 261 Length of database: 5,994,473 Length adjustment: 91 Effective length of query: 170 Effective length of database: 4,028,145 Effective search space: 684784650 Effective search space used: 684784650 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 (25.4 bits)