RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780359|ref|YP_003064772.1| GTP cyclohydrolase II protein (riboflavin biosynthesis) [Candidatus Liberibacter asiaticus str. psy62] (210 letters) >1g57_A DHBP synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase; riboflavine biosynthesis, skeletal rearrangement, antimicrobial target; 1.40A {Escherichia coli} SCOP: d.115.1.2 PDB: 1g58_A 1iez_A 3h07_A Length = 217 Score = 242 bits (619), Expect = 4e-65 Identities = 81/198 (40%), Positives = 127/198 (64%) Query: 12 IEDVIQSFQKGEMVIVTDADDRENEADLVLAAIHCTSEKMAFIIRHTCGIVCTPMPFHTA 71 +E+ + + ++G V+V D +DRENE D++ A T E+MA IRH GIVC + Sbjct: 16 VENALAALREGRGVMVLDDEDRENEGDMIFPAETMTVEQMALTIRHGSGIVCLCITEDRR 75 Query: 72 HKLKLNPMVLENESVHKTAFTVSVDSKHGITTGISADDRAYTIKNLANPHSIADNFVRPG 131 +L L MV N S + T FTV++++ G+TTG+SA DR T++ + + RPG Sbjct: 76 KQLDLPMMVENNTSAYGTGFTVTIEAAEGVTTGVSAADRITTVRAAIADGAKPSDLNRPG 135 Query: 132 HIFPLISRDGGVLVRPGHTEASVDLCKITGLPPIAVICELVNDDGTIKKGKQVIEFSKKY 191 H+FPL ++ GGVL R GHTEA++DL + G P V+CEL NDDGT+ + + IEF+ K+ Sbjct: 136 HVFPLRAQAGGVLTRGGHTEATIDLMTLAGFKPAGVLCELTNDDGTMARAPECIEFANKH 195 Query: 192 DLKIISVQDLIAWRKKKE 209 ++ +++++DL+A+R+ E Sbjct: 196 NMALVTIEDLVAYRQAHE 213 >1k4i_A 3,4-dihydroxy-2-butanone 4-phosphate synthase; riboflavin biosynthesis, antimicrobial target, structure-based design, isomerase; 0.98A {Magnaporthe grisea} SCOP: d.115.1.2 PDB: 1k49_A 1k4l_A 1k4o_A 1k4p_A Length = 233 Score = 239 bits (611), Expect = 4e-64 Identities = 92/210 (43%), Positives = 134/210 (63%), Gaps = 12/210 (5%) Query: 12 IEDVIQSFQKGEMVIVTDADDRENEADLVLAAIHCTSEKMAFIIRHTCGIVCTPMPFHTA 71 I DVIQ+F+ GE V+V D RENEADL++AA T+E+MAF++RH+ G++C P+ Sbjct: 15 IPDVIQAFKNGEFVVVLDDPSRENEADLIIAAESVTTEQMAFMVRHSSGLICAPLTPERT 74 Query: 72 HKLKLNPMVLENESVHKTAFTVSVDSKH-GITTGISADDRAYTIKNLANPHSIADNFVRP 130 L L MV N TA+TVSVD++H TTGISA DRA + LA P + +F RP Sbjct: 75 TALDLPQMVTHNADPRGTAYTVSVDAEHPSTTTGISAHDRALACRMLAAPDAQPSHFRRP 134 Query: 131 GHIFPLISRDGGVLVRPGHTEASVDLCKITGLPPIAVICELVNDDGTIK----------- 179 GH+FPL + GGV R GHTEA V+LC++ G P+AVI E+V+D ++ Sbjct: 135 GHVFPLRAVAGGVRARRGHTEAGVELCRLAGKRPVAVISEIVDDGQEVEGRAVRAAPGML 194 Query: 180 KGKQVIEFSKKYDLKIISVQDLIAWRKKKE 209 +G + + F++++ LK+ +++D+IA +K E Sbjct: 195 RGDECVAFARRWGLKVCTIEDMIAHVEKTE 224 >1snn_A DHBP synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase; riboflavin biosynthesis, isomerase; HET: 5RP; 1.55A {Methanocaldococcus jannaschii} SCOP: d.115.1.2 PDB: 1pvy_A* 1pvw_A Length = 227 Score = 214 bits (546), Expect = 1e-56 Identities = 64/223 (28%), Positives = 116/223 (52%), Gaps = 25/223 (11%) Query: 12 IEDVIQSFQKGEMVIVTDADDRENEADLVLAAIHCTSEKMAFIIRHTCGIVCTPMPFHTA 71 +E I++ +KGE+++V D+D+RE E D+V+A+ T E + + + G++CT + Sbjct: 4 VEKAIEALKKGEIILVYDSDEREGETDMVVASQFITPEHIRIMRKDAGGLICTALHPDIC 63 Query: 72 HKLKLNPMVLENESV------------------HKTAFTVSVDSKHGITTGISADDRAYT 113 +KL + MV E K++F+++++ + TGI+ +DRA+T Sbjct: 64 NKLGIPFMVDILEFASQKFKVLRELYPNDIPYDEKSSFSITINHRKT-FTGITDNDRAFT 122 Query: 114 IKNLAN------PHSIADNFVRPGHIFPLISRDGGVLVRPGHTEASVDLCKITGLPPIAV 167 IK LA + F PG + L + +G V R GHTE +V L ++ L PI Sbjct: 123 IKKLAELVKEGRFNDFGKEFRSPGSVTLLRAAEGLVKNRQGHTEMTVALAELANLVPITT 182 Query: 168 ICELVNDDGTIKKGKQVIEFSKKYDLKIISVQDLIAWRKKKEI 210 ICE++ DDG + +++K++L +S +++I + K + Sbjct: 183 ICEMMGDDGNAMSKNETKRYAEKHNLIYLSGEEIINYYLDKYL 225 >1tks_A 3,4-dihydroxy-2-butanone 4-phosphate synthase; riboflavin biosynthesis, synthetic gene, isomerase; 1.60A {Candida albicans SC5314} SCOP: d.115.1.2 PDB: 1tku_A* 2ris_A 2riu_A* Length = 204 Score = 196 bits (499), Expect = 3e-51 Identities = 90/197 (45%), Positives = 131/197 (66%), Gaps = 1/197 (0%) Query: 12 IEDVIQSFQKGEMVIVTDADDRENEADLVLAAIHCTSEKMAFIIRHTCGIVCTPMPFHTA 71 IE+ +++++ GE +IV D +DRENE DL++AA T EKMAF++R++ G VC P+ A Sbjct: 8 IEEALEAYKNGEFLIVMDDEDRENEGDLIMAAELITQEKMAFLVRYSSGYVCVPLSEERA 67 Query: 72 HKLKLNPMVLENESVHKTAFTVSVDSKHGITTGISADDRAYTIKNLANPHSIADNFVRPG 131 ++L+L PM+ H TA+T++ D G TTGISA DRA T ++LANP+S +F++PG Sbjct: 68 NQLELPPMLANRSDRHGTAYTITCDFAEGTTTGISAHDRALTTRSLANPNSKPQDFIKPG 127 Query: 132 HIFPLISRDGGVLVRPGHTEASVDLCKITGLPPIAVICELVND-DGTIKKGKQVIEFSKK 190 HI PL + G + R GHTEA+V L + GL P VICELV D DG + + I+F KK Sbjct: 128 HILPLRAVPGLLKKRRGHTEAAVQLSTLAGLQPAGVICELVRDEDGLMMRLDDCIQFGKK 187 Query: 191 YDLKIISVQDLIAWRKK 207 + +KII++ L+ + K Sbjct: 188 HGIKIININQLVEYISK 204 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 40.7 bits (95), Expect = 2e-04 Identities = 33/174 (18%), Positives = 57/174 (32%), Gaps = 60/174 (34%) Query: 33 RENEADLVL--AAIHCTSEKMAFIIRHTCGIVCTPM--PFHTAHKLKLNPMVLENESVHK 88 R+ +A L + I + K+ F R P+ PFH+ + + ++ + Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFL------PVASPFHSHLLVPASDLINK------ 441 Query: 89 TAFTVSVD-SKHGITTGISADDRA------YTIKNLANPHSIADNFVRPGHIFPLISRDG 141 D K+ ++ +A D + +L ++ + I I R Sbjct: 442 -------DLVKNNVS--FNAKDIQIPVYDTFDGSDLR---VLSGSISE--RIVDCIIRL- 486 Query: 142 GVLVRPGHTEASVDLCKIT--------GLPPIAVICELV--NDDGTIKKGKQVI 185 P E + K T G + V L N DGT G +VI Sbjct: 487 -----PVKWETTTQ-FKATHILDFGPGGASGLGV---LTHRNKDGT---GVRVI 528 Score = 37.2 bits (86), Expect = 0.003 Identities = 30/225 (13%), Positives = 58/225 (25%), Gaps = 70/225 (31%) Query: 18 SFQKGEMVIVTD--ADDRENEADLVLAAIHCTSEKMAFIIRHTCGIVCTPMPFHTAHKLK 75 F K + T+ A D E L + + ++ V L Sbjct: 36 QFNK-ILPEPTEGFAADDEPTTPAELVG-----KFLGYVSSL----VEPSKVGQFDQVLN 85 Query: 76 L-----NPMVLENESVHKTAFTVSVDSKHGITTGISADD---RAY------TIKNLANPH 121 L LE +H A + + T + + Y + Sbjct: 86 LCLTEFENCYLEGNDIH--ALAAKLLQE--NDTTLVKTKELIKNYITARIMAKRPFDKKS 141 Query: 122 ------SIADNFVRPGHIFPLISRDGGVLVRPGHTEASVD-LCKI----TGL--PPIAVI 168 ++ + + IF GG G+T+ + L + L I Sbjct: 142 NSALFRAVGEGNAQLVAIF------GG----QGNTDDYFEELRDLYQTYHVLVGDLIKFS 191 Query: 169 CE----LVNDDGTIKKGKQVIEFSKKYDLKIISVQDLIAWRKKKE 209 E L+ +K F++ ++ + W + Sbjct: 192 AETLSELIRTTLDAEK-----VFTQGLNI--------LEWLENPS 223 Score = 31.8 bits (72), Expect = 0.10 Identities = 15/59 (25%), Positives = 19/59 (32%), Gaps = 28/59 (47%) Query: 117 LANPHSIADNFVRPGHI------FPLISRDGGV--LVRPGH---TEASVDLCKITGLPP 164 L NP + D ++ PLI GV L H T K+ G P Sbjct: 219 LENPSNTPDK----DYLLSIPISCPLI----GVIQLA---HYVVT------AKLLGFTP 260 Score = 26.1 bits (57), Expect = 6.1 Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 15/59 (25%) Query: 9 ERYIEDVI---QSFQKGEMVI-V---TDADD-RENEADLVLAAIHCTSEKMAFIIRHTC 59 + +D++ SF ++ I V D D R + + C IIR Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC-------IIRLPV 488 >3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} Length = 197 Score = 29.9 bits (67), Expect = 0.49 Identities = 14/70 (20%), Positives = 22/70 (31%), Gaps = 27/70 (38%) Query: 1 MKQKKSLD---ERYIEDV-IQSF----QKGEMVIVTDADDRENEADLVLAAIHCTSEKMA 52 M ++S+D R ++ I + IV E D+V C Sbjct: 1 MMTRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFS----EGDVV-----CAL---- 47 Query: 53 FIIRHTCGIV 62 CG+V Sbjct: 48 ------CGLV 51 >2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A* Length = 469 Score = 27.4 bits (60), Expect = 2.4 Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 3/35 (8%) Query: 156 LCKITGLPPIAV--ICELVNDDGTIKKGKQVIEFS 188 L + P+ I + DGT+++G QV++ S Sbjct: 24 LIFVEKTEPVGYNEIVNIKMGDGTVRRG-QVLDSS 57 >2c1o_A IGK-C protein; FAB fragment, enantioselective, finrozole, immune system, antibody, ENA11His antibody, immunoglobulin domain; 2.75A {Mus musculus} Length = 254 Score = 27.5 bits (60), Expect = 2.6 Identities = 12/22 (54%), Positives = 13/22 (59%), Gaps = 4/22 (18%) Query: 141 GGVLVRPGHTEASVDL-CKITG 161 G LVRPG SV L CK +G Sbjct: 7 GAELVRPG---TSVKLSCKASG 25 >2d3i_A Ovotransferrin; aluminum, metal-binding, transport, metal transport; 2.15A {Gallus gallus} SCOP: c.94.1.2 c.94.1.2 PDB: 1ovt_A 1aiv_A* 1n04_A 1ryx_A 1dot_A* 1aov_A* 1iq7_A* Length = 686 Score = 27.3 bits (60), Expect = 2.9 Identities = 23/127 (18%), Positives = 34/127 (26%), Gaps = 1/127 (0%) Query: 65 PMPFHTAHKLKLNPMVLENESVHKTAFTVSVDSKHGITTGISADDRAYTIKNLANPHSIA 124 +TA L P++ E ++ D NL S Sbjct: 396 GGLVYTAGVCGLVPVMAERYDDESQCSKTDERPASYFAVAVARKDSNVNWNNLKGKKSCH 455 Query: 125 DNFVRPGHIFPLISRDGGVLVRPGHTEASVDLCKITGLPPIAVICELVNDDGTIKKGKQV 184 R + E + C G PP + +C+L G I K V Sbjct: 456 TAVGRTAGWVIPMGLIHNRTGTCNFDEYFSEGCAP-GSPPNSRLCQLCQGSGGIPPEKCV 514 Query: 185 IEFSKKY 191 +KY Sbjct: 515 ASSHEKY 521 >2grv_A LPQW; substrate-binding protein scaffold, biosynthetic protein; 2.40A {Mycobacterium smegmatis str} Length = 621 Score = 26.8 bits (58), Expect = 3.9 Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 5/63 (7%) Query: 70 TAHKLKLNPMVLEN-ESVHKTAFTVSVDSKHGIT----TGISADDRAYTIKNLANPHSIA 124 T + +L+ +LE+ E + FTV+ + I+ADD Y + + + + Sbjct: 95 TGSRWELDTTLLESAEVTQENPFTVTYKIRPEAQWTDNAPIAADDYWYLWRQMVSQPGVV 154 Query: 125 DNF 127 D Sbjct: 155 DPA 157 >2j5v_A Glutamate 5-kinase; proline biosynthesis, gamma glutamyl kinase, amino-acid biosynthesis, transferase, feedback regulation, PUA domain; HET: RGP; 2.5A {Escherichia coli} PDB: 2j5t_A* Length = 367 Score = 26.2 bits (57), Expect = 5.9 Identities = 11/57 (19%), Positives = 27/57 (47%), Gaps = 4/57 (7%) Query: 1 MKQKKSLDERYIEDVIQSFQKGEMVIVTDADDRENEADLVLAAIHCTSEKMAFIIRH 57 +++ SL + I+ V +F +GE++ + + + R+ + S+ + I H Sbjct: 289 LERGSSLLPKGIKSVTGNFSRGEVIRICNLEGRD----IAHGVSRYNSDALRRIAGH 341 >3la7_A Global nitrogen regulator; activator, DNA-binding, transcription, transcription regulation; HET: BOG; 1.90A {Anabaena} PDB: 3la2_A* 3la3_A* 2xko_A* 2xgx_A* 2xhk_A* 2xkp_A* Length = 243 Score = 25.9 bits (56), Expect = 7.8 Identities = 2/22 (9%), Positives = 11/22 (50%) Query: 5 KSLDERYIEDVIQSFQKGEMVI 26 + + V+++F++ + + Sbjct: 34 RQMATGAFPPVVETFERNKTIF 55 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 0.398 Gapped Lambda K H 0.267 0.0509 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,813,366 Number of extensions: 81826 Number of successful extensions: 452 Number of sequences better than 10.0: 1 Number of HSP's gapped: 445 Number of HSP's successfully gapped: 17 Length of query: 210 Length of database: 5,693,230 Length adjustment: 88 Effective length of query: 122 Effective length of database: 3,559,758 Effective search space: 434290476 Effective search space used: 434290476 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: 54 (25.1 bits)