RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780762|ref|YP_003065175.1| recombination protein RecR [Candidatus Liberibacter asiaticus str. psy62] (201 letters) >1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} (A:67-175) Length = 109 Score = 156 bits (396), Expect = 2e-39 Identities = 47/111 (42%), Positives = 68/111 (61%), Gaps = 2/111 (1%) Query: 70 DPCAICIDQQRDASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQS 129 + C +C D RD I VVE+ D+ ALERS LYHVL G LSP++ +GP+ + I+ Sbjct: 1 EKCDVCADPSRDQRTICVVEEPGDVIALERSGEYRGLYHVLHGVLSPMNGVGPDKLHIKP 60 Query: 130 LIERIEVKKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMG 180 L+ R V + E+I A T+EG TA Y+ L+ + I+R+AYG+P+G Sbjct: 61 LLPR--VGQGMEVILATGTTVEGDATALYLQRLLEPLGAAISRIAYGVPVG 109 >1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} (A:1-66) Length = 66 Score = 74.0 bits (182), Expect = 1e-14 Identities = 20/59 (33%), Positives = 35/59 (59%) Query: 8 KEIENLIKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNKVCLCSICGNV 66 + +LI+ L+R+PG GP+SA+R HL ++ + + LA A+ + +C IC N+ Sbjct: 5 PSLVSLIRELSRLPGIGPKSAQRLAFHLFEQPREDIERLASALLEAKRDLHVCPICFNI 63 >1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET: DNA; 1.67A {Escherichia coli} (X:1-32,X:89-156) Length = 100 Score = 32.0 bits (73), Expect = 0.061 Identities = 8/39 (20%), Positives = 18/39 (46%) Query: 135 EVKKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRL 173 +K + A EG+ A ++ + + G D + +R+ Sbjct: 43 LAEKADHIYLATDLDREGEAIAWHLREVIGGDDARYSRV 81 >3e8x_A Putative NAD-dependent epimerase/dehydratase; structural genomics, APC7755, NADP, PSI-2, protein structure initiative; HET: MSE NAP; 2.10A {Bacillus halodurans} (A:) Length = 236 Score = 30.9 bits (68), Expect = 0.12 Identities = 9/79 (11%), Positives = 19/79 (24%), Gaps = 10/79 (12%) Query: 47 AEAMANIYNKVCLCSICGNVDTTDPCAICI-----DQQRDASVIIVVEDVAD--LWALER 99 A+ + G + + + I DVA +++ Sbjct: 154 ADDELKRSSLDYTIVRPGPLSNEESTGKVTVSPHFSEITR---SITRHDVAKVIAELVDQ 210 Query: 100 SKAVNALYHVLGGSLSPLD 118 + + VL G Sbjct: 211 QHTIGKTFEVLNGDTPIAK 229 >2hy7_A Glucuronosyltransferase GUMK; glycosyltransferases, xanthan, membrane-associated proteins; 1.90A {Xanthomonas campestris} PDB: 2q6v_A* 3cv3_A* 3cuy_A* (A:1-212,A:358-406) Length = 261 Score = 27.6 bits (61), Expect = 1.1 Identities = 26/117 (22%), Positives = 41/117 (35%), Gaps = 27/117 (23%) Query: 30 RATLHLVKKKEQLLGPLAEAMANIYNKVCLCSICGNVDTTDPCAICIDQQRDASVIIVVE 89 R T+H + L P+ +AM Y P +D R++ VI+ Sbjct: 86 RTTVHPFNTRRSWLRPVEDAMFRWYAAH-------------PPKQLLDWMRESDVIVFES 132 Query: 90 DVADLWALERSKAVNA----LYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIREL 142 +A + E +K VN +Y D + I + S IER + L Sbjct: 133 GIAVAFI-ELAKRVNPAAKLVYRA-------SDGL--STINVASYIEREFDRVAPTL 179 >1am7_A Lysozyme; glycosidase, transglycosylase, evolution; HET: TRN; 2.30A {Bacteriophage lambda} (A:1-26,A:85-158) Length = 100 Score = 27.5 bits (61), Expect = 1.5 Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 4/38 (10%) Query: 22 GFGPRSARRATLHLVKKKEQL----LGPLAEAMANIYN 55 F P+S L +K++ L G + +A+ N Sbjct: 27 DFSPKSQDAVALQQIKERGALPMIDRGDIRQAIDRCSN 64 >3dhn_A NAD-dependent epimerase/dehydratase; reductase, PF01370, Q89Z24_bactn, NESG, BTR310, structural genomics, PSI-2; 2.00A {Bacteroides thetaiotaomicron} (A:) Length = 227 Score = 27.2 bits (58), Expect = 1.6 Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 2/30 (6%) Query: 86 IVVEDVAD--LWALERSKAVNALYHVLGGS 113 I VED A + LE K + + Sbjct: 192 ISVEDYAAAXIDELEHPKHHQERFTIGYLE 221 >2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Length = 81 Score = 27.4 bits (60), Expect = 1.6 Identities = 7/29 (24%), Positives = 12/29 (41%), Gaps = 1/29 (3%) Query: 60 CSICGNVDTTDPCAICIDQQRDASVIIVV 88 C+IC D C C + + ++V Sbjct: 18 CAICRV-QVMDACLRCQAENKQEDCVVVW 45 >1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} (A:66-144) Length = 79 Score = 26.9 bits (60), Expect = 1.9 Identities = 6/25 (24%), Positives = 14/25 (56%) Query: 14 IKILARIPGFGPRSARRATLHLVKK 38 + L ++PG G ++A R + + + Sbjct: 42 VGALVKLPGIGKKTAERLIVEMKDR 66 >3h2s_A Putative NADH-flavin reductase; Q03B84, NESG, LCR19, structural genomics, PSI-2, protein structure initiative; HET: NDP; 1.78A {Lactobacillus casei atcc 334} (A:) Length = 224 Score = 26.4 bits (56), Expect = 2.7 Identities = 7/38 (18%), Positives = 11/38 (28%), Gaps = 5/38 (13%) Query: 77 DQQRDASVIIVVEDVAD--LWALERSKAVNALYHVLGG 112 + + I + A L LE A+ V Sbjct: 181 EDGQS---HITTGNXALAILDQLEHPTAIRDRIVVRDA 215 >2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA binding, oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A (A:80-154) Length = 75 Score = 26.5 bits (59), Expect = 2.7 Identities = 11/25 (44%), Positives = 13/25 (52%) Query: 14 IKILARIPGFGPRSARRATLHLVKK 38 + L R+PG G R A R L L K Sbjct: 43 VAALTRVPGIGKRGAERMVLELRDK 67 >2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} (A:1-119) Length = 119 Score = 25.9 bits (57), Expect = 3.9 Identities = 10/27 (37%), Positives = 15/27 (55%) Query: 4 KITGKEIENLIKILARIPGFGPRSARR 30 KI + + I L R+ G GP +AR+ Sbjct: 87 KIRQDDTSSSINFLTRVSGIGPSAARK 113 >1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} (A:) Length = 191 Score = 25.3 bits (55), Expect = 6.5 Identities = 10/44 (22%), Positives = 15/44 (34%) Query: 14 IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNKV 57 ++L G G R A R L L K L + + + Sbjct: 106 ARLLTSASGVGRRLAERIALELKGKVPPHLLAGEKVESEAAEEA 149 >1vk1_A Conserved hypothetical protein; reductive methylation, dimethyl lysine, structural genomics, PSI, protein structure initiative; HET: MLY; 1.20A {Pyrococcus furiosus} (A:94-227) Length = 134 Score = 25.2 bits (55), Expect = 6.8 Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 8/61 (13%) Query: 133 RIEVKKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMGS-------ELDY 185 I I E FAI +E Q ++D++ +I + YG+ + E+DY Sbjct: 45 EIAFALIGEKSFAIPGGLEEQXKVSKVLDEMD-QAXEIELVYYGLKEDAKADMEKGEIDY 103 Query: 186 L 186 + Sbjct: 104 V 104 >2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus} (A:1-129) Length = 129 Score = 24.4 bits (53), Expect = 9.9 Identities = 7/28 (25%), Positives = 15/28 (53%) Query: 3 KKITGKEIENLIKILARIPGFGPRSARR 30 K++ E +K+ ++ G G ++A R Sbjct: 90 KQVRCSERYQTMKLFTQVFGVGVKTANR 117 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 0.322 0.139 0.398 Gapped Lambda K H 0.267 0.0355 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,534,440 Number of extensions: 68152 Number of successful extensions: 243 Number of sequences better than 10.0: 1 Number of HSP's gapped: 242 Number of HSP's successfully gapped: 24 Length of query: 201 Length of database: 4,956,049 Length adjustment: 84 Effective length of query: 117 Effective length of database: 2,116,429 Effective search space: 247622193 Effective search space used: 247622193 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 (21.9 bits) S2: 52 (24.8 bits)