RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780976|ref|YP_003065389.1| Holliday junction resolvase YqgF [Candidatus Liberibacter asiaticus str. psy62] (160 letters) >1nu0_A Hypothetical protein YQGF; structural genomics, structure 2 function project, S2F, unknown function; 1.60A {Escherichia coli} (A:) Length = 138 Score = 126 bits (319), Expect = 1e-30 Identities = 41/136 (30%), Positives = 62/136 (45%), Gaps = 1/136 (0%) Query: 16 NQPIASIDLGTKRIGLAISDPGRRFAHPRPFLVRKKVTQTALELLSFITTENIAAFIIGL 75 + + + D GTK IG+A+ A P P + + T + + I+GL Sbjct: 2 SGTLXAFDFGTKSIGVAVGQRITGTARPLPAIKAQDGTPDWNIIERLLKEWQPDEIIVGL 61 Query: 76 PLNMNGSEGPRVHSTRAFVHNMIDRKVYVPFVFWDERLTTVSAQQILIDMNVSRKKRIQK 135 PLN +G+E P R F N I + V DERL+TV A+ L + R K Sbjct: 62 PLNXDGTEQPLTARARKFA-NRIHGRFGVEVKLHDERLSTVEARSGLFEQGGYRALNKGK 120 Query: 136 VDSIAAALILQEVLDR 151 VDS +A +IL+ ++ Sbjct: 121 VDSASAVIILESYXEQ 136 >1vhx_A Putative holliday junction resolvase; structural genomics, hydrolase; 1.96A {Bacillus subtilis} (A:) Length = 150 Score = 103 bits (259), Expect = 1e-23 Identities = 50/144 (34%), Positives = 74/144 (51%), Gaps = 3/144 (2%) Query: 19 IASIDLGTKRIGLAISDPGRRFAHPRPFLVRKKVTQTAL--ELLSFITTENIAAFIIGLP 76 I +DLGTK +G+A+SD A + + L I I ++G P Sbjct: 5 ILGLDLGTKTLGVALSDEXGWTAQGIETIKINEAEGDYGLSRLSELIKDYTIDKIVLGFP 64 Query: 77 LNMNGSEGPRVHSTRAFVHNMIDRKVYVPFVFWDERLTTVSAQQILIDMNVSRKKRIQKV 136 N NG+ GPR +++ F +++ VP V WDERLTT +A++ LI +VSR+KR + + Sbjct: 65 KNXNGTVGPRGEASQTFA-KVLETTYNVPVVLWDERLTTXAAEKXLIAADVSRQKRKKVI 123 Query: 137 DSIAAALILQEVLDRISFLESSKG 160 D AA ILQ LD ++ S Sbjct: 124 DKXAAVXILQGYLDSLNEGGSHHH 147 >1iv0_A Hypothetical protein; rnaseh-like, YQGF, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Thermus thermophilus} (A:) Length = 98 Score = 94.8 bits (236), Expect = 4e-21 Identities = 32/97 (32%), Positives = 48/97 (49%), Gaps = 2/97 (2%) Query: 19 IASIDLGTKRIGLAISDPGRRFAHPRPFLVRKKVTQTALELLSFITTENIAAFIIGLPLN 78 + ++D+G RIGLA+ + G A R +LVRK + + LL F+ E + ++GLPL Sbjct: 3 VGALDVGEARIGLAVGEEGVPLASGRGYLVRKTLEEDVEALLDFVRREGLGKLVVGLPLR 62 Query: 79 MNGSEGPRVHSTRAFVHNMIDRKVYVPFVFWDERLTT 115 + E + V + R V WDER TT Sbjct: 63 TDLKESAQAGKVLPLVEAL--RARGVEVELWDERFTT 97 >3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} (A:326-467) Length = 142 Score = 73.5 bits (180), Expect = 1e-14 Identities = 20/144 (13%), Positives = 45/144 (31%), Gaps = 11/144 (7%) Query: 17 QPIASIDLGTK-RIGLAISDPGRRFAH---PRPFLVRKKVTQTALELLSFITTENIAAFI 72 + +D G + + +A+ D + P + + QT L + + Sbjct: 4 RATLGLDPGLRTGVKVAVVDATGKLLDTATVYPHAPKNQWDQTLAVLAALCAKHQVELIA 63 Query: 73 IGLPLNMNGSEGPRVHSTRAFVHNMIDRKVYVPFVFWDERLTTVSAQQILIDMNVSRKKR 132 IG NG+ + + + E +V + L + Sbjct: 64 IG-----NGTASRETDKLAGELIKKYPGMK-LTKIMVSEAGASVYSASELAAKE-FPELD 116 Query: 133 IQKVDSIAAALILQEVLDRISFLE 156 + +++ A LQ+ L + +E Sbjct: 117 VSLRGAVSIARRLQDPLAELVKIE 140 >3gg9_A D-3-phosphoglycerate dehydrogenase oxidoreductase protein; structural genomics, PSI-2, protein structure initiative; 1.90A {Ralstonia solanacearum} (A:1-107,A:303-352) Length = 157 Score = 28.7 bits (64), Expect = 0.38 Identities = 9/45 (20%), Positives = 17/45 (37%) Query: 52 VTQTALELLSFITTENIAAFIIGLPLNMNGSEGPRVHSTRAFVHN 96 V + + E+ I +NI + G ++ RA H+ Sbjct: 109 VERESYEMYFGIAFQNILDILQGNVDSVANPTALAPALIRAEGHH 153 >3c7b_B Sulfite reductase, dissimilatory-type subunit beta; alpha/beta fold, 4Fe-4S, heme, iron, iron-sulfur, membrane, metal-binding; HET: SRM; 2.00A {Archaeoglobus fulgidus} (B:130-366) Length = 237 Score = 27.8 bits (61), Expect = 0.79 Identities = 6/23 (26%), Positives = 12/23 (52%) Query: 93 FVHNMIDRKVYVPFVFWDERLTT 115 F ++ID P+ + + R +T Sbjct: 211 FTQHLIDDYRITPYFYSEFRAST 233 >3cp8_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme GIDA; rossmann fold, FAD-binding domain, dinucleotide-binding motif; HET: FAD; 3.20A {Chlorobium tepidum} (A:59-130,A:450-474) Length = 97 Score = 26.3 bits (58), Expect = 2.1 Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 4/25 (16%) Query: 79 MNGSEGPRVHSTRAFVHNMIDRKVY 103 +N S+GP +HS RA D+ Y Sbjct: 41 LNRSKGPAMHSPRA----QADKTQY 61 >1kcf_A Hypothetical 30.2 KD protein C25G10.02 in chromosome I; beta-alpha-beta motif, RUVC resolvase family, hydrolase; 2.30A {Schizosaccharomyces pombe} (A:) Length = 258 Score = 25.3 bits (55), Expect = 4.3 Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 1/37 (2%) Query: 5 LIEDLVKS-LKPNQPIASIDLGTKRIGLAISDPGRRF 40 L+ +V S + P + IDLG K + Sbjct: 27 LLRRIVDSPIYPTSRVLGIDLGIKNFSYCFASQNEDS 63 >3ces_A MNMG, tRNA uridine 5-carboxymethylaminomethyl modification enzyme GIDA, GIDA; tRNA modification, FAD binding domain, structural genomics; 2.41A {Escherichia coli} PDB: 3cp2_A (A:66-137,A:425-480) Length = 128 Score = 25.1 bits (55), Expect = 5.0 Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 4/25 (16%) Query: 79 MNGSEGPRVHSTRAFVHNMIDRKVY 103 +N S+GP V +TRA DR +Y Sbjct: 41 LNASKGPAVRATRA----QADRVLY 61 >2zxi_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme MNMG; 5-carboxymethylaminomethyl uridine, wobble uridine, FAD, FAD-binding protein; HET: FAD; 2.30A {Aquifex aeolicus} PDB: 2zxh_A* 2e57_A* (A:65-136,A:430-485) Length = 128 Score = 25.1 bits (55), Expect = 5.0 Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 4/25 (16%) Query: 79 MNGSEGPRVHSTRAFVHNMIDRKVY 103 +N +G V S RA D+K Y Sbjct: 41 LNTRKGKAVQSPRA----QADKKRY 61 >1eex_A Propanediol dehydratase; coenzyme B12, potassium ION, TIM barrel, lyase; HET: COY; 1.70A {Klebsiella oxytoca} (A:17-136,A:217-337) Length = 241 Score = 24.8 bits (54), Expect = 5.6 Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%) Query: 122 LIDMNVSRKKRIQKVDSIAAALILQEVLDRISFLE 156 L D NV R + + ++ A I+ EV+ ++ +E Sbjct: 75 LCDPNVKRSEIVPLTTAMTPAKIV-EVVSHMNVVE 108 >1ec7_A Glucarate dehydratase; lyase; 1.90A {Escherichia coli} (A:1-135,A:399-446) Length = 183 Score = 24.2 bits (52), Expect = 9.5 Identities = 7/15 (46%), Positives = 9/15 (60%) Query: 35 DPGRRFAHPRPFLVR 49 PG F + RP +VR Sbjct: 169 IPGWTFDNKRPCMVR 183 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.323 0.138 0.385 Gapped Lambda K H 0.267 0.0654 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,119,319 Number of extensions: 45805 Number of successful extensions: 141 Number of sequences better than 10.0: 1 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 16 Length of query: 160 Length of database: 4,956,049 Length adjustment: 82 Effective length of query: 78 Effective length of database: 2,184,039 Effective search space: 170355042 Effective search space used: 170355042 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 51 (23.6 bits)